Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr3
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: 42799318
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 891409 characters in sequence are not A, C, G, or T
File 33 of 141
Found at i:9958977 original size:28 final size:30
Alignment explanation
Indices: 9958920--9958980 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 30
9958910 AATTCAAATG
9958920 TAACATAACAAAATCATATAAACAACTAAC
1 TAACATAACAAAATCATATAAACAACTAAC
*
9958950 TAACA-AACAAAA-CATATTAATCAA-TAAC
1 TAACATAACAAAATCATA-TAAACAACTAAC
9958978 TAA
1 TAA
9958981 ATCAATATCA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
28 11 0.38
29 13 0.45
30 5 0.17
ACGTcount: A:0.61, C:0.18, G:0.00, T:0.21
Consensus pattern (30 bp):
TAACATAACAAAATCATATAAACAACTAAC
Found at i:9967923 original size:195 final size:198
Alignment explanation
Indices: 9967591--9967989 Score: 660
Period size: 195 Copynumber: 2.0 Consensus size: 198
9967581 ATTGATTAGT
* *
9967591 TGAATTGAATTGGTATATAAAAGTTTAATTTTTGAGATGGAGAACTAAATTAAATAGGATTGAAA
1 TGAATTGAATTAGTATATAAAAGTTTAATTTTTGAGATGGAGAACTAAATTAAATAGAATTGAAA
9967656 ATAGTGAAATTCGATGAAATTATGGAATTAACTTTGAATTGGGTTGAAATAAAATTTGC-T-ATG
66 ATAGTGAAATTCGATGAAATTATGGAATTAACTTTGAATTGGGTTGAAATAAAATTTGCTTGATG
*
9967719 -TGATGATTTGAACAATGAATTGAATTGATGAGATGTGAATTAAACAAAATGATGATTGGATAAA
131 TTGATGATTTGAACAATGAATTGAATTGACGAGATGTGAATTAAACAAAATGATGATTGGATAAA
9967783 TTG
196 TTG
* * * *
9967786 TGAATTGAATTAGTATCTAAATGTTTAATTTTTGAGATGGAGGAGTAAATTAAATAGAATTGAAA
1 TGAATTGAATTAGTATATAAAAGTTTAATTTTTGAGATGGAGAACTAAATTAAATAGAATTGAAA
*
9967851 ATAGTGAAATTCGATGAAATTATGGAATTGACTTTGAATTGGGTTGAAATAAAATTTGCTATGTG
66 ATAGTGAAATTCGATGAAATTATGGAATTAACTTTGAATTGGGTTGAAATAAAATTTGC--T-TG
9967916 ATGATTTGATGATTTGAACAATGAATTGAATTGACGAGATGTGAATTAAACAAAATGATGATTGG
128 ATG--TTGATGATTTGAACAATGAATTGAATTGACGAGATGTGAATTAAACAAAATGATGATTGG
9967981 ATAAATTG
191 ATAAATTG
9967989 T
1 T
9967990 TACATTATTA
Statistics
Matches: 188, Mismatches: 8, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
195 117 0.62
199 1 0.01
200 3 0.02
203 67 0.36
ACGTcount: A:0.40, C:0.03, G:0.21, T:0.35
Consensus pattern (198 bp):
TGAATTGAATTAGTATATAAAAGTTTAATTTTTGAGATGGAGAACTAAATTAAATAGAATTGAAA
ATAGTGAAATTCGATGAAATTATGGAATTAACTTTGAATTGGGTTGAAATAAAATTTGCTTGATG
TTGATGATTTGAACAATGAATTGAATTGACGAGATGTGAATTAAACAAAATGATGATTGGATAAA
TTG
Found at i:9971700 original size:13 final size:14
Alignment explanation
Indices: 9971666--9971703 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
9971656 TTTTCTTATG
9971666 TATATTAGTTTCGTT
1 TATATTA-TTTCGTT
9971681 TAT-TTATTT-GTT
1 TATATTATTTCGTT
9971693 TATATTATTTC
1 TATATTATTTC
9971704 TATGCCATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 6 0.29
13 9 0.43
14 3 0.14
15 3 0.14
ACGTcount: A:0.21, C:0.05, G:0.08, T:0.66
Consensus pattern (14 bp):
TATATTATTTCGTT
Found at i:9971734 original size:15 final size:15
Alignment explanation
Indices: 9971714--9971743 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
9971704 TATGCCATGT
9971714 TTGTATTTATTATTG
1 TTGTATTTATTATTG
*
9971729 TTGTATTTGTTATTG
1 TTGTATTTATTATTG
9971744 CGACATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.00, G:0.17, T:0.67
Consensus pattern (15 bp):
TTGTATTTATTATTG
Found at i:9973650 original size:39 final size:40
Alignment explanation
Indices: 9973573--9973658 Score: 147
Period size: 39 Copynumber: 2.2 Consensus size: 40
9973563 CAATATTTTA
*
9973573 TTTATAAGCTATTTTTATTTTATTTTTTTATTGCAAATTT
1 TTTATAAGCTATTTTTATTTTATTTTTTTATTCCAAATTT
*
9973613 TTTATAAGCTCTTTTTATTTTA-TTTTTTATTCCAAATTT
1 TTTATAAGCTATTTTTATTTTATTTTTTTATTCCAAATTT
9973652 TTTATAA
1 TTTATAA
9973659 TTATTAAGTG
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
39 23 0.52
40 21 0.48
ACGTcount: A:0.26, C:0.07, G:0.03, T:0.64
Consensus pattern (40 bp):
TTTATAAGCTATTTTTATTTTATTTTTTTATTCCAAATTT
Found at i:9974025 original size:14 final size:14
Alignment explanation
Indices: 9973990--9974016 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9973980 TATCTTTGTT
9973990 ATTTATTTTAATTA
1 ATTTATTTTAATTA
9974004 ATTTATTTTAATT
1 ATTTATTTTAATT
9974017 TTTTTATTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
ATTTATTTTAATTA
Found at i:9979119 original size:19 final size:21
Alignment explanation
Indices: 9979081--9979119 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
9979071 CCTTTTTTAA
*
9979081 AATCGTAAATAAGTAAAAAAT
1 AATCGTAAATAAGAAAAAAAT
9979102 AATCG-AAA-AAGAAAAAAA
1 AATCGTAAATAAGAAAAAAA
9979120 AAAAGAAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.69, C:0.05, G:0.10, T:0.15
Consensus pattern (21 bp):
AATCGTAAATAAGAAAAAAAT
Found at i:9979267 original size:3 final size:3
Alignment explanation
Indices: 9979259--9979315 Score: 57
Period size: 3 Copynumber: 19.3 Consensus size: 3
9979249 ATATGTAGGT
* *
9979259 ATA ATA ATA ATA TATA AT- ATA ATA ATA AAA ATA ATA ATA ACA A-A
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
9979303 ATTA ATA A-A ATA A
1 A-TA ATA ATA ATA A
9979316 ACTAAAAACC
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
2 6 0.13
3 35 0.76
4 5 0.11
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:9979766 original size:44 final size:44
Alignment explanation
Indices: 9979690--9980017 Score: 152
Period size: 44 Copynumber: 7.6 Consensus size: 44
9979680 CTCTAACCCA
* * * ** *
9979690 CTCCACTACAACTT-AGGGAGACAGGATTTGTTTATTTAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGCCTTGTTTACTTAGTCTG
9979733 C-CTCACTGCAACTTCA-GGAGGATAAGCCTTGTTTACTTAGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGCCTTGTTTACTTAGTCTG
* * **
9979777 CTCCACTGCAACTTCAGGGAGATAAGACTAG---AC-GCGATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGCCTTGTTTACTTAG-TCTG
* * * * *
9979818 CT---CTGCAACTTCAGAGAGATAAGATCTAAGGTT--TT-GATCCG
1 CTCCACTGCAACTTCAGGGAGATAAG-CCT-TGTTTACTTAG-TCTG
** * * *
9979859 CTCCACTGCAACTTCAGGGAGAT-AGGATT-ATCAGCTCTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGCCTTGTTTA-CT-TAGTCTG
** ** *
9979903 CTCCACTGCAACTTCAGGGAGATAAGATTTG-CCATCTTCAGTCTA
1 CTCCACTGCAACTTCAGGGAGATAAGCCTTGTTTA-CTT-AGTCTG
* * * * *
9979948 C-CTCACTGCAACTTCA-AGAGGATAAGACTTGCTTGCTGAGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGCCTTGTTTACTTAGTCTG
9979992 CTCCACTGCAACTTCAGGGAGATAAG
1 CTCCACTGCAACTTCAGGGAGATAAG
9980018 ACTGGATGCG
Statistics
Matches: 221, Mismatches: 36, Indels: 55
0.71 0.12 0.18
Matches are distributed among these distances:
38 20 0.09
39 2 0.01
40 4 0.02
41 15 0.07
42 2 0.01
43 17 0.08
44 116 0.52
45 45 0.20
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGGAGATAAGCCTTGTTTACTTAGTCTG
Found at i:9980018 original size:44 final size:43
Alignment explanation
Indices: 9979727--9980151 Score: 231
Period size: 44 Copynumber: 9.9 Consensus size: 43
9979717 TTGTTTATTT
* * *
9979727 AGTCTGC-CTCACTGCAACTTCA-GGAGGATAAGCCTTGTTTACTT
1 AGTCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTGCTT-CTG
* *
9979771 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGAC-GC-G
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG-CTTCTG
* * * *
9979813 A-TCTGCT---CTGCAACTTCAGAGAGATAAGATCTAAGGTTTTG
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGA-CT-TGCTTCTG
* * *
9979854 A-TCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCAGC-TCT-
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACT-T--GCTTCTG
* * * *
9979897 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTC
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG-CTTC-TG
* *
9979942 AGTCTAC-CTCACTGCAACTTCA-AGAGGATAAGACTTGCTTGCTG
1 AGTCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTGCTT-CTG
* * *
9979986 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGC-G
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTTCTG
* * ** * *
9980028 A-TCTGCT-CTCTGCAACTTCAGAGAGATAAGATCCAAGGTT-TT
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGA--CTTGCTTCTG
* * * * * *
9980070 AATCCGCTCCACTGTAACTTCAAGGAGATAGGATTATCGGCTT-T-
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACT-T--GCTTCTG
* *
9980114 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGC
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGC
9980152 CATCTTCAAC
Statistics
Matches: 301, Mismatches: 50, Indels: 63
0.73 0.12 0.15
Matches are distributed among these distances:
38 21 0.07
39 2 0.01
40 24 0.08
41 22 0.07
42 8 0.03
43 14 0.05
44 169 0.56
45 41 0.14
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (43 bp):
AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTTCTG
Found at i:9980119 original size:217 final size:215
Alignment explanation
Indices: 9979727--9980159 Score: 722
Period size: 217 Copynumber: 2.0 Consensus size: 215
9979717 TTGTTTATTT
* * * * *
9979727 AGTCTGCCTCACTGCAACTTCAGGAGGATAAGCCTTGTTTACTTAGTCTGCTCCACTGCAACTTC
1 AGTCTACCTCACTGCAACTTCAAGAGGATAAGACTTGCTTACTGAGTCTGCTCCACTGCAACTTC
* *
9979792 AGGGAGATAAGACTAGACGCGATCTGCTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTGATC
66 AGGGAGATAAGACTAGACGCGATCTGCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATC
*
9979857 CGCTCCACTGCAACTTCAGGGAGATAGGATTATCAGCTCTAATCTGCTCCACTGCAACTTCAGGG
131 CGCTCCACTGCAACTTCAAGGAGATAGGATTATCAGCTCTAATCTGCTCCACTGCAACTTCAGGG
9979922 AGATAAGATTTGCCATCTTC
196 AGATAAGATTTGCCATCTTC
*
9979942 AGTCTACCTCACTGCAACTTCAAGAGGATAAGACTTGCTTGCTGAGTCTGCTCCACTGCAACTTC
1 AGTCTACCTCACTGCAACTTCAAGAGGATAAGACTTGCTTACTGAGTCTGCTCCACTGCAACTTC
* *
9980007 AGGGAGATAAGACTGGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAA
66 AGGGAGATAAGACTAGACGCGATCTG--CTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAA
* * *
9980072 TCCGCTCCACTGTAACTTCAAGGAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCAG
129 TCCGCTCCACTGCAACTTCAAGGAGATAGGATTATCAGCTCTAATCTGCTCCACTGCAACTTCAG
9980137 GGAGATAAGATTTGCCATCTTC
194 GGAGATAAGATTTGCCATCTTC
9980159 A
1 A
9980160 ACCTACTCCG
Statistics
Matches: 202, Mismatches: 14, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
215 83 0.41
217 119 0.59
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.27
Consensus pattern (215 bp):
AGTCTACCTCACTGCAACTTCAAGAGGATAAGACTTGCTTACTGAGTCTGCTCCACTGCAACTTC
AGGGAGATAAGACTAGACGCGATCTGCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATC
CGCTCCACTGCAACTTCAAGGAGATAGGATTATCAGCTCTAATCTGCTCCACTGCAACTTCAGGG
AGATAAGATTTGCCATCTTC
Found at i:9980302 original size:125 final size:125
Alignment explanation
Indices: 9980153--9980535 Score: 685
Period size: 125 Copynumber: 3.1 Consensus size: 125
9980143 AAGATTTGCC
* ** * *
9980153 ATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCATT
1 ATCTACAACCTACTCCATTGCTGCTCAGGGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACT
9980218 ATCTTGGAAAGATAAGATTTACCGTCTTCGATCTGCTCCATTACTGCTTAGGGAGATAGG
66 ATCTTGGAAAGATAAGATTTACCGTCTTCGATCTGCTCCATTACTGCTTAGGGAGATAGG
9980278 ATCTACAACCTACTCCATTGCTGCTCAGGGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACT
1 ATCTACAACCTACTCCATTGCTGCTCAGGGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACT
9980343 ATCTTGGAAAGATAAGATTTACCGTCTTCGATCTGCTCCATTACTGCTTAGGGAGATAGG
66 ATCTTGGAAAGATAAGATTTACCGTCTTCGATCTGCTCCATTACTGCTTAGGGAGATAGG
9980403 ATCTACAACCTACTCCATTGCTGCTCAGGGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACT
1 ATCTACAACCTACTCCATTGCTGCTCAGGGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACT
* * * *
9980468 ATCTTGGAAAGATAAGATTTACCGTCTTCGATTTTCTCCACTACTGCTTAGGGAGATAAG
66 ATCTTGGAAAGATAAGATTTACCGTCTTCGATCTGCTCCATTACTGCTTAGGGAGATAGG
9980528 ATCTACAA
1 ATCTACAA
9980536 TCTTCAACCT
Statistics
Matches: 249, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
125 249 1.00
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (125 bp):
ATCTACAACCTACTCCATTGCTGCTCAGGGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACT
ATCTTGGAAAGATAAGATTTACCGTCTTCGATCTGCTCCATTACTGCTTAGGGAGATAGG
Found at i:9985636 original size:18 final size:18
Alignment explanation
Indices: 9985613--9985647 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
9985603 CTTAGCAAAC
9985613 ATTCTAATTAATTTTAAA
1 ATTCTAATTAATTTTAAA
9985631 ATTCTAATTAATTTTAA
1 ATTCTAATTAATTTTAA
9985648 TGTCGAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (18 bp):
ATTCTAATTAATTTTAAA
Found at i:9986759 original size:3 final size:3
Alignment explanation
Indices: 9986751--9986790 Score: 55
Period size: 3 Copynumber: 13.3 Consensus size: 3
9986741 ATATGTAGGT
*
9986751 ATA ATA ATA ATA GATA AT- ATA ATA ATA AAA ATA ATA ATA A
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA A
9986791 CAAAATTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 28 0.85
4 3 0.09
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:9986774 original size:15 final size:12
Alignment explanation
Indices: 9986753--9986804 Score: 52
Period size: 12 Copynumber: 4.1 Consensus size: 12
9986743 ATGTAGGTAT
9986753 AATAATAATAGATA
1 AATAATAATA-A-A
9986767 ATATAATAATAAA
1 A-ATAATAATAAA
9986780 AATAATAATAACA
1 AATAATAATAA-A
*
9986793 AA-ATTAATAAA
1 AATAATAATAAA
9986804 A
1 A
9986805 TAGACTAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
11 2 0.06
12 17 0.49
13 5 0.14
14 2 0.06
15 9 0.26
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (12 bp):
AATAATAATAAA
Found at i:9987048 original size:19 final size:21
Alignment explanation
Indices: 9987010--9987048 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
9987000 CCTTTTTTAA
*
9987010 AATCGTAAATAAGTAAAAAAT
1 AATCGTAAATAAGAAAAAAAT
9987031 AATCG-AAA-AAGAAAAAAA
1 AATCGTAAATAAGAAAAAAA
9987049 AAGAAAACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.69, C:0.05, G:0.10, T:0.15
Consensus pattern (21 bp):
AATCGTAAATAAGAAAAAAAT
Found at i:9987268 original size:21 final size:21
Alignment explanation
Indices: 9987243--9987318 Score: 111
Period size: 21 Copynumber: 3.7 Consensus size: 21
9987233 AATCGTATCT
*
9987243 TCTAATATTGTATATATCATA
1 TCTAAGATTGTATATATCATA
*
9987264 TCTAAGATTGCATATATCATA
1 TCTAAGATTGTATATATCATA
*
9987285 TCTAAGATTG--CATATCATA
1 TCTAAGATTGTATATATCATA
9987304 TCTAAGATTGTATAT
1 TCTAAGATTGTATAT
9987319 CCTCGAAAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.37
21 31 0.63
ACGTcount: A:0.37, C:0.12, G:0.09, T:0.42
Consensus pattern (21 bp):
TCTAAGATTGTATATATCATA
Found at i:9987278 original size:19 final size:19
Alignment explanation
Indices: 9987256--9987319 Score: 101
Period size: 19 Copynumber: 3.3 Consensus size: 19
9987246 AATATTGTAT
9987256 ATATCATATCTAAGATTGC
1 ATATCATATCTAAGATTGC
9987275 ATATATCATATCTAAGATTGC
1 --ATATCATATCTAAGATTGC
*
9987296 ATATCATATCTAAGATTGT
1 ATATCATATCTAAGATTGC
9987315 ATATC
1 ATATC
9987320 CTCGAAAATT
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
19 23 0.55
21 19 0.45
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.39
Consensus pattern (19 bp):
ATATCATATCTAAGATTGC
Found at i:9993768 original size:20 final size:22
Alignment explanation
Indices: 9993743--9993782 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
9993733 TATGAGAATC
9993743 ATCGATACC-A-ATGATTTAGT
1 ATCGATACCTACATGATTTAGT
9993763 ATCGATACCTACATGATTTA
1 ATCGATACCTACATGATTTA
9993783 TTCATAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.50
21 1 0.06
22 8 0.44
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.35
Consensus pattern (22 bp):
ATCGATACCTACATGATTTAGT
Found at i:9998845 original size:16 final size:18
Alignment explanation
Indices: 9998824--9998864 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
9998814 CATGATAGAT
9998824 AAATAAATA-AT-AAATA
1 AAATAAATAGATAAAATA
9998840 AAATAAA-AGATAAAATA
1 AAATAAATAGATAAAATA
*
9998857 AAAAAAAT
1 AAATAAAT
9998865 GTTACACTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 1 0.05
16 9 0.43
17 11 0.52
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (18 bp):
AAATAAATAGATAAAATA
Found at i:10000793 original size:44 final size:44
Alignment explanation
Indices: 10000738--10001169 Score: 404
Period size: 44 Copynumber: 9.7 Consensus size: 44
10000728 TTATAGGTTT
* * * *
10000738 AATCTGATCCACTACAACTTTAGGGATATAGGAGTTGTAGCTTC
1 AATCTGCTCCACTACAACTTTAGGGAGATAAGATTTGTAGCTTC
* * * *
10000782 -ATCTTACTCCACTACAACTTCAAGGAGATAAGATTTGTTGCTTC
1 AATC-TGCTCCACTACAACTTTAGGGAGATAAGATTTGTAGCTTC
* *
10000826 AATCTGCTCCACTACAACTTTAGGGAGATACGATTTGTAGATTC
1 AATCTGCTCCACTACAACTTTAGGGAGATAAGATTTGTAGCTTC
* * * * * *
10000870 ATTATGCTTCACTGCAACTTCAAGGAGATAAGATTTGTAGCTTC
1 AATCTGCTCCACTACAACTTTAGGGAGATAAGATTTGTAGCTTC
** ** * * *
10000914 AATCTATTCCACTGTAACTTCAGGGACATAAGATTTGTAGTTTC
1 AATCTGCTCCACTACAACTTTAGGGAGATAAGATTTGTAGCTTC
*
10000958 AATCTGCTCCACTACAACTTTAGGGAGATAAGATTCGTAGCTTC
1 AATCTGCTCCACTACAACTTTAGGGAGATAAGATTTGTAGCTTC
* * * *
10001002 GATCTGCTCCACTGCAACTTTAGGGAGATAAAATTCGCTATGGTAGATTC
1 AATCTGCTCCACTACAACTTTAGGGAGATAAGA-T---T-T-GTAGCTTC
* * * * *
10001052 AGTCCG-TCCCACTACAACTTCAGGG-GTGTAGGATTTGTAGCTTC
1 AATCTGCT-CCACTACAACTTTAGGGAG-ATAAGATTTGTAGCTTC
* * *
10001096 AATCTACTCCACTGCAACTTTAGGG-GATAAGATTTATAGCTTC
1 AATCTGCTCCACTACAACTTTAGGGAGATAAGATTTGTAGCTTC
* * *
10001139 GATCTGCTCCACTGCAACTTCAGGGAGATAA
1 AATCTGCTCCACTACAACTTTAGGGAGATAA
10001170 AATTCGTTAT
Statistics
Matches: 312, Mismatches: 64, Indels: 24
0.78 0.16 0.06
Matches are distributed among these distances:
43 39 0.12
44 234 0.75
45 6 0.02
46 1 0.00
48 1 0.00
49 3 0.01
50 28 0.09
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.31
Consensus pattern (44 bp):
AATCTGCTCCACTACAACTTTAGGGAGATAAGATTTGTAGCTTC
Found at i:10000925 original size:132 final size:134
Alignment explanation
Indices: 10000772--10001174 Score: 467
Period size: 132 Copynumber: 3.0 Consensus size: 134
10000762 GATATAGGAG
* *
10000772 TTGTAGCTTC-ATCTTACTCCACTACAACTTCAAGGAGATAAGATTTGTTGCTTCAATCTGCTCC
1 TTGTAGCTTCAATC-TATTCCACTACAACTTCAAGGAGATAAGATTTGTAGCTTCAATCTGCTCC
* * * * *
10000836 ACTACAACTTTAGGGAGATACGATTTGTAGATTC-ATTATGCTTCACTGCAACTTCAAGGAGATA
65 ACTACAACTTTAGGGAGATAAGATTTGTAGCTTCGA-TCTGCTCCACTGCAACTTCAGGGAGATA
*
10000900 AGA-T-
129 AAATTC
** * * *
10000904 TTGTAGCTTCAATCTATTCCACTGTAACTTCAGGGACATAAGATTTGTAGTTTCAATCTGCTCCA
1 TTGTAGCTTCAATCTATTCCACTACAACTTCAAGGAGATAAGATTTGTAGCTTCAATCTGCTCCA
* *
10000969 CTACAACTTTAGGGAGATAAGATTCGTAGCTTCGATCTGCTCCACTGCAACTTTAGGGAGATAAA
66 CTACAACTTTAGGGAGATAAGATTTGTAGCTTCGATCTGCTCCACTGCAACTTCAGGGAGATAAA
10001034 ATTCGC
131 ATT--C
* * ** * * * * *
10001040 TATGGTAGATTCAGTCCGTCCCACTACAACTTC-AGGGGTGTAGGATTTGTAGCTTCAATCTACT
1 T-T-GTAGCTTCAATCTATTCCACTACAACTTCAAGGAG-ATAAGATTTGTAGCTTCAATCTGCT
* *
10001104 CCACTGCAACTTTAGGG-GATAAGATTTATAGCTTCGATCTGCTCCACTGCAACTTCAGGGAGAT
63 CCACTACAACTTTAGGGAGATAAGATTTGTAGCTTCGATCTGCTCCACTGCAACTTCAGGGAGAT
10001168 AAAATTC
128 AAAATTC
10001175 GTTATGGTGA
Statistics
Matches: 229, Mismatches: 33, Indels: 15
0.83 0.12 0.05
Matches are distributed among these distances:
132 110 0.48
133 5 0.02
135 1 0.00
136 1 0.00
137 53 0.23
138 59 0.26
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (134 bp):
TTGTAGCTTCAATCTATTCCACTACAACTTCAAGGAGATAAGATTTGTAGCTTCAATCTGCTCCA
CTACAACTTTAGGGAGATAAGATTTGTAGCTTCGATCTGCTCCACTGCAACTTCAGGGAGATAAA
ATTC
Found at i:10001173 original size:137 final size:137
Alignment explanation
Indices: 10000790--10001233 Score: 512
Period size: 137 Copynumber: 3.3 Consensus size: 137
10000780 TCATCTTACT
* *
10000790 CCACTACAACTTCAAGGAG-ATAAGATTTGTTGCTTCAATCTGCTCCACTACAACTTTAGGGAGA
1 CCACTACAACTTC-AGGGGTATAAGATTTGTAGCTTCAATCTGCTCCACTACAACTTTAGGGAGA
* * * * * * *
10000854 TACGATTTGTAGATTC-ATTATGCTTCACTGCAACTTCAAGGAGATAAGA-T--T-T-GTAGCTT
65 TAAGATTTGTAGCTTCGA-TCTGCTCCACTGCAACTTCAGGGAGATAAAATTCGTATGGTAGATT
** *
10000913 CAATCTATT
129 CAATCCGTC
** ** *
10000922 CCACTGTAACTTCAGGGACATAAGATTTGTAGTTTCAATCTGCTCCACTACAACTTTAGGGAGAT
1 CCACTACAACTTCAGGGGTATAAGATTTGTAGCTTCAATCTGCTCCACTACAACTTTAGGGAGAT
* *
10000987 AAGATTCGTAGCTTCGATCTGCTCCACTGCAACTTTAGGGAGATAAAATTCGCTATGGTAGATTC
66 AAGATTTGTAGCTTCGATCTGCTCCACTGCAACTTCAGGGAGATAAAATTCG-TATGGTAGATTC
*
10001052 AGTCCGTC
130 AATCCGTC
* * * *
10001060 CCACTACAACTTCAGGGGTGTAGGATTTGTAGCTTCAATCTACTCCACTGCAACTTTAGGG-GAT
1 CCACTACAACTTCAGGGGTATAAGATTTGTAGCTTCAATCTGCTCCACTACAACTTTAGGGAGAT
*
10001124 AAGATTTATAGCTTCGATCTGCTCCACTGCAACTTCAGGGAGATAAAATTCGTTATGGT-GACTT
66 AAGATTTGTAGCTTCGATCTGCTCCACTGCAACTTCAGGGAGATAAAATTCG-TATGGTAGA-TT
*
10001188 CAATCCGAC
129 CAATCCGTC
* *
10001197 CCACTACAACTTCAAGGGTAT-AGAATTTGTAGTTTCA
1 CCACTACAACTTCAGGGGTATAAG-ATTTGTAGCTTCA
10001234 CTGATCTATT
Statistics
Matches: 264, Mismatches: 38, Indels: 15
0.83 0.12 0.05
Matches are distributed among these distances:
131 3 0.01
132 93 0.35
133 2 0.01
136 4 0.02
137 99 0.38
138 63 0.24
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (137 bp):
CCACTACAACTTCAGGGGTATAAGATTTGTAGCTTCAATCTGCTCCACTACAACTTTAGGGAGAT
AAGATTTGTAGCTTCGATCTGCTCCACTGCAACTTCAGGGAGATAAAATTCGTATGGTAGATTCA
ATCCGTC
Found at i:10002103 original size:18 final size:17
Alignment explanation
Indices: 10002077--10002110 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
10002067 GGATTGGGCA
*
10002077 AGTTTTCCTCTCGCCTTG
1 AGTTGTCCTCTC-CCTTG
10002095 AGTTGTCCTCTCCCTT
1 AGTTGTCCTCTCCCTT
10002111 TTTAGGTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.06, C:0.35, G:0.15, T:0.44
Consensus pattern (17 bp):
AGTTGTCCTCTCCCTTG
Found at i:10007568 original size:46 final size:44
Alignment explanation
Indices: 10007464--10007571 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
10007454 TGTCTTTAAC
** * * *
10007464 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
10007508 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
10007554 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
10007572 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:10008504 original size:5 final size:5
Alignment explanation
Indices: 10008491--10008563 Score: 64
Period size: 5 Copynumber: 14.6 Consensus size: 5
10008481 TTGTTTTATG
10008491 TATATA TATAA TATAA TATAA TAT-A T-TAA TAATAA TATAA TATAA -A-AA
1 TATA-A TATAA TATAA TATAA TATAA TATAA T-ATAA TATAA TATAA TATAA
* *
10008539 CATAA TCATTAC TATAA TATAA TAT
1 TATAA T-A-TAA TATAA TATAA TAT
10008564 TTTTTTAACA
Statistics
Matches: 57, Mismatches: 3, Indels: 15
0.76 0.04 0.20
Matches are distributed among these distances:
3 3 0.05
4 6 0.11
5 35 0.61
6 10 0.18
7 3 0.05
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (5 bp):
TATAA
Found at i:10008516 original size:19 final size:19
Alignment explanation
Indices: 10008492--10008534 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
10008482 TGTTTTATGT
10008492 ATATATATAAT-ATAATATA
1 ATATAT-TAATAATAATATA
10008511 ATATATTAATAATAATATA
1 ATATATTAATAATAATATA
10008530 ATATA
1 ATATA
10008535 AAAACATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
ATATATTAATAATAATATA
Found at i:10008544 original size:24 final size:25
Alignment explanation
Indices: 10008498--10008562 Score: 71
Period size: 24 Copynumber: 2.6 Consensus size: 25
10008488 ATGTATATAT
* *
10008498 ATAATATAATATAATATATTAAT-A
1 ATAATATAATATAATAAAATAATCA
10008522 ATAATATAATATAA-AAACATAATCA
1 ATAATATAATATAATAAA-ATAATCA
* *
10008547 TTACTATAATATAATA
1 ATAATATAATATAATA
10008563 TTTTTTTAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
23 2 0.06
24 18 0.53
25 13 0.38
26 1 0.03
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (25 bp):
ATAATATAATATAATAAAATAATCA
Found at i:10021292 original size:16 final size:16
Alignment explanation
Indices: 10021255--10021298 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
10021245 TTAGCATGAT
10021255 AGATAAAT-AAATAAA
1 AGATAAATAAAATAAA
*
10021270 TGAATAAATAAAATAAA
1 AG-ATAAATAAAATAAA
10021287 AGATAAA-AAAAT
1 AGATAAATAAAAT
10021299 GTTATACTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
15 6 0.24
16 11 0.44
17 8 0.32
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (16 bp):
AGATAAATAAAATAAA
Found at i:10024106 original size:30 final size:31
Alignment explanation
Indices: 10024051--10024118 Score: 102
Period size: 30 Copynumber: 2.2 Consensus size: 31
10024041 ATAAAACTAT
* *
10024051 ATTTTTACTATAATGAAATATATATAATTTA
1 ATTTTCACTATAATGAAAGATATATAATTTA
*
10024082 ATTTTCACTATAAT-AAAGATATATAATTTG
1 ATTTTCACTATAATGAAAGATATATAATTTA
10024112 ATTTTCA
1 ATTTTCA
10024119 TCCCCTCAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
30 21 0.62
31 13 0.38
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.47
Consensus pattern (31 bp):
ATTTTCACTATAATGAAAGATATATAATTTA
Found at i:10039059 original size:36 final size:36
Alignment explanation
Indices: 10039012--10039136 Score: 200
Period size: 36 Copynumber: 3.5 Consensus size: 36
10039002 AAATCAACCA
*
10039012 AAACACACCAGATGATCACACGAGCCAATCCCTCAG
1 AAACACACCAGATGCTCACACGAGCCAATCCCTCAG
*
10039048 AAACACACCAGATGCTCACACGAGCCAATCCCTCTG
1 AAACACACCAGATGCTCACACGAGCCAATCCCTCAG
*
10039084 AAACACACCAGATGCTCACATGAGCCAATCCCTCCA-
1 AAACACACCAGATGCTCACACGAGCCAATCCCT-CAG
10039120 AAACACACCA-ATGCTCA
1 AAACACACCAGATGCTCA
10039137 TAAGAGCTAG
Statistics
Matches: 84, Mismatches: 4, Indels: 3
0.92 0.04 0.03
Matches are distributed among these distances:
35 7 0.08
36 76 0.90
37 1 0.01
ACGTcount: A:0.38, C:0.38, G:0.12, T:0.13
Consensus pattern (36 bp):
AAACACACCAGATGCTCACACGAGCCAATCCCTCAG
Found at i:10039156 original size:35 final size:35
Alignment explanation
Indices: 10039006--10039165 Score: 144
Period size: 36 Copynumber: 4.5 Consensus size: 35
10038996 ATCGTCAAAT
* *
10039006 CAACCAAAACACACCAGATGATCACACGAGCCAATC
1 CAACCAAAACACACCA-ATGCTCACAAGAGCCAATC
*
10039042 C--CTCAGAAACACACCAGATGCTCACACGAGCCAATC
1 CAAC-CA-AAACACACCA-ATGCTCACAAGAGCCAATC
** ** *
10039078 CCTCTGAAACACACCAGATGCTCACATGAGCCAATC
1 CAACCAAAACACACCA-ATGCTCACAAGAGCCAATC
** * * *
10039114 CCTCCAAAACACACCAATGCTCATAAGAGCTAGTC
1 CAACCAAAACACACCAATGCTCACAAGAGCCAATC
10039149 CAACCAAAACACACCAA
1 CAACCAAAACACACCAA
10039166 ACATAAAGTA
Statistics
Matches: 108, Mismatches: 12, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
34 1 0.01
35 32 0.30
36 74 0.69
38 1 0.01
ACGTcount: A:0.40, C:0.37, G:0.11, T:0.12
Consensus pattern (35 bp):
CAACCAAAACACACCAATGCTCACAAGAGCCAATC
Found at i:10042588 original size:19 final size:18
Alignment explanation
Indices: 10042553--10042595 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
10042543 GGGAAAATGA
*
10042553 GAGAAAAAAGTGAAAGAG
1 GAGAGAAAAGTGAAAGAG
*
10042571 GAGAGAAAAGTTGTAAGAG
1 GAGAGAAAAG-TGAAAGAG
*
10042590 AAGAGA
1 GAGAGA
10042596 TGTGAATGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.56, C:0.00, G:0.35, T:0.09
Consensus pattern (18 bp):
GAGAGAAAAGTGAAAGAG
Found at i:10051255 original size:3 final size:3
Alignment explanation
Indices: 10051247--10051276 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
10051237 GATCAAGAAC
10051247 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
10051277 GAAAAGATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:10052434 original size:225 final size:225
Alignment explanation
Indices: 10052043--10052493 Score: 902
Period size: 225 Copynumber: 2.0 Consensus size: 225
10052033 AAACGCAAGA
10052043 GAGAGAGAAATTTGAGTGAATACTCTTAATAATTATTATTACTCCCAACTCGAGTCCCCTACAAT
1 GAGAGAGAAATTTGAGTGAATACTCTTAATAATTATTATTACTCCCAACTCGAGTCCCCTACAAT
10052108 GAAGGGAGAGGCCTCTATTTATAGTTGAGCCTCCCCAAATCGAACGGTACAGATCAATTACATCA
66 GAAGGGAGAGGCCTCTATTTATAGTTGAGCCTCCCCAAATCGAACGGTACAGATCAATTACATCA
10052173 ACGGCTAAGATTAAATGGTATCTACAAATTAAATCTCTAAGATTACAAAATCATATCTTCTAAGA
131 ACGGCTAAGATTAAATGGTATCTACAAATTAAATCTCTAAGATTACAAAATCATATCTTCTAAGA
10052238 TTGCATATAATATCTAAGATTGCATATATC
196 TTGCATATAATATCTAAGATTGCATATATC
10052268 GAGAGAGAAATTTGAGTGAATACTCTTAATAATTATTATTACTCCCAACTCGAGTCCCCTACAAT
1 GAGAGAGAAATTTGAGTGAATACTCTTAATAATTATTATTACTCCCAACTCGAGTCCCCTACAAT
10052333 GAAGGGAGAGGCCTCTATTTATAGTTGAGCCTCCCCAAATCGAACGGTACAGATCAATTACATCA
66 GAAGGGAGAGGCCTCTATTTATAGTTGAGCCTCCCCAAATCGAACGGTACAGATCAATTACATCA
10052398 ACGGCTAAGATTAAATGGTATCTACAAATTAAATCTCTAAGATTACAAAATCATATCTTCTAAGA
131 ACGGCTAAGATTAAATGGTATCTACAAATTAAATCTCTAAGATTACAAAATCATATCTTCTAAGA
10052463 TTGCATATAATATCTAAGATTGCATATATC
196 TTGCATATAATATCTAAGATTGCATATATC
10052493 G
1 G
10052494 TATCTAAGAT
Statistics
Matches: 226, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
225 226 1.00
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.30
Consensus pattern (225 bp):
GAGAGAGAAATTTGAGTGAATACTCTTAATAATTATTATTACTCCCAACTCGAGTCCCCTACAAT
GAAGGGAGAGGCCTCTATTTATAGTTGAGCCTCCCCAAATCGAACGGTACAGATCAATTACATCA
ACGGCTAAGATTAAATGGTATCTACAAATTAAATCTCTAAGATTACAAAATCATATCTTCTAAGA
TTGCATATAATATCTAAGATTGCATATATC
Found at i:10052530 original size:19 final size:19
Alignment explanation
Indices: 10052456--10052530 Score: 114
Period size: 19 Copynumber: 3.8 Consensus size: 19
10052446 AATCATATCT
*
10052456 TCTAAGATTGCATATAATA
1 TCTAAGATTGCATATCATA
*
10052475 TCTAAGATTGCATATATCGTA
1 TCTAAGATTGC--ATATCATA
10052496 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
10052515 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
10052531 CTTGAAGATT
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
19 34 0.67
21 17 0.33
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:10053166 original size:36 final size:36
Alignment explanation
Indices: 10053119--10053235 Score: 137
Period size: 36 Copynumber: 3.3 Consensus size: 36
10053109 AGATCAACCA
* * *
10053119 AAACACACCAGATGATCACATGAGCTAATCCCTCCG
1 AAACACACCAGATGCTCACAAGAGCTAATCCATCCG
* * *
10053155 AAACACACCAGATGCTCACACGAGCCAATCCATCCA
1 AAACACACCAGATGCTCACAAGAGCTAATCCATCCG
* * * *
10053191 AAACACACTA-ATGCTCATAAGAGCTAGTCCAACCG
1 AAACACACCAGATGCTCACAAGAGCTAATCCATCCG
10053226 AAACACACCA
1 AAACACACCA
10053236 AATAGAGAGT
Statistics
Matches: 68, Mismatches: 13, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
35 28 0.41
36 40 0.59
ACGTcount: A:0.40, C:0.34, G:0.12, T:0.14
Consensus pattern (36 bp):
AAACACACCAGATGCTCACAAGAGCTAATCCATCCG
Found at i:10056606 original size:39 final size:40
Alignment explanation
Indices: 10056490--10056628 Score: 127
Period size: 40 Copynumber: 3.5 Consensus size: 40
10056480 CGCTTGGACA
* * * *
10056490 AAAAATACCGGTAAAAATCGAGCATTAGCGGTGCTTTATG
1 AAAAACACCGCTAAAAATCGAGCATTAGCGGTGTTTTTTG
* * * * * *
10056530 GAAATCGCCACTAAAGATCGAGCATTAGCGGTATTTTTTG
1 AAAAACACCGCTAAAAATCGAGCATTAGCGGTGTTTTTTG
* * *
10056570 AAAAACACCGCTAAAAAT-GAGCATTCGCGGCGTTTTTGAG
1 AAAAACACCGCTAAAAATCGAGCATTAGCGGTGTTTTT-TG
* *
10056610 AAAAACGCCGCAAAAAATC
1 AAAAACACCGCTAAAAATC
10056629 AAAGCCCAAC
Statistics
Matches: 76, Mismatches: 21, Indels: 3
0.76 0.21 0.03
Matches are distributed among these distances:
39 16 0.21
40 60 0.79
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.23
Consensus pattern (40 bp):
AAAAACACCGCTAAAAATCGAGCATTAGCGGTGTTTTTTG
Found at i:10056731 original size:41 final size:41
Alignment explanation
Indices: 10056660--10057023 Score: 419
Period size: 41 Copynumber: 8.9 Consensus size: 41
10056650 CTTACCTTTC
* *
10056660 GGGGCTTTAGCGGCGTTTTTGAAAATGCGCCGCTAATGCTT
1 GGGGTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTT
* *
10056701 GGGGTTTTAGCAGCGTTTTTAAAAAAGCGCCGCTAATG-TT
1 GGGGTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTT
* ** * * *
10056741 CGGTGTTTTAGCGGTATTTTTTAAAAAACGCCGCTAGTGCTT
1 -GGGGTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTT
* *
10056783 GGGGTTTTAGCGGCGTTTTTGAAAAGGTGCCGCTAATG-TT
1 GGGGTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTT
* * *
10056823 GGGGGCTTTAGCGGCGTTTTTGAAAAGGTGCCGCTAATG-TT
1 -GGGGTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTT
* * *
10056864 GGGGGCTTTAGCGGCGTTTTTGAAAAAGTGTCGCTAATGCTT
1 -GGGGTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTT
* * *
10056906 GGTGTTTTAGCGGCGTTTTTTAAAAAGCGCCGCTAATGCTC
1 GGGGTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTT
* ** * *
10056947 GGGATTTTAGCGGTATTTTTTAAAAAGTGCCGCTAATGCTT
1 GGGGTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTT
* * *
10056988 GGGGTTTTAGCAGCGTTTTTGAAAAAGAGCCACTAA
1 GGGGTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAA
10057024 AAACATTTTA
Statistics
Matches: 278, Mismatches: 41, Indels: 8
0.85 0.13 0.02
Matches are distributed among these distances:
40 4 0.01
41 270 0.97
42 4 0.01
ACGTcount: A:0.21, C:0.15, G:0.30, T:0.34
Consensus pattern (41 bp):
GGGGTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTT
Found at i:10057390 original size:15 final size:15
Alignment explanation
Indices: 10057370--10057415 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
10057360 TATTTTAAGG
*
10057370 TTTAGGGAGTATGGA
1 TTTAGGGATTATGGA
*
10057385 TTTAGGAATTATGGA
1 TTTAGGGATTATGGA
*
10057400 -TTATGGATTATGGA
1 TTTAGGGATTATGGA
10057414 TT
1 TT
10057416 ATGGTTTAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
14 12 0.46
15 14 0.54
ACGTcount: A:0.28, C:0.00, G:0.30, T:0.41
Consensus pattern (15 bp):
TTTAGGGATTATGGA
Found at i:10057404 original size:7 final size:7
Alignment explanation
Indices: 10057379--10057419 Score: 57
Period size: 7 Copynumber: 5.7 Consensus size: 7
10057369 GTTTAGGGAG
10057379 TATGGAT
1 TATGGAT
10057386 T-TAGGAAT
1 TAT-GG-AT
10057394 TATGGAT
1 TATGGAT
10057401 TATGGAT
1 TATGGAT
10057408 TATGGAT
1 TATGGAT
10057415 TATGG
1 TATGG
10057420 TTTAAGGGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
6 1 0.03
7 24 0.77
8 5 0.16
9 1 0.03
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.41
Consensus pattern (7 bp):
TATGGAT
Found at i:10057464 original size:8 final size:8
Alignment explanation
Indices: 10057439--10057473 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
10057429 TGGGTTTTAA
*
10057439 GGTTTAAG
1 GGTTTAGG
10057447 GGTTTA-G
1 GGTTTAGG
10057454 GGTTTAGG
1 GGTTTAGG
10057462 GGTTTAGG
1 GGTTTAGG
10057470 GGTT
1 GGTT
10057474 AGACATTAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 7 0.27
8 19 0.73
ACGTcount: A:0.14, C:0.00, G:0.46, T:0.40
Consensus pattern (8 bp):
GGTTTAGG
Found at i:10057475 original size:15 final size:15
Alignment explanation
Indices: 10057418--10057475 Score: 57
Period size: 15 Copynumber: 3.9 Consensus size: 15
10057408 TATGGATTAT
10057418 GGTTTAAGGGTT-GG
1 GGTTTAAGGGTTAGG
* * *
10057432 GTTTTAAGGTTTAAG
1 GGTTTAAGGGTTAGG
10057447 GGTTT-AGGGTTTAGG
1 GGTTTAAGGG-TTAGG
*
10057462 GGTTTAGGGGTTAG
1 GGTTTAAGGGTTAG
10057476 ACATTAGGGG
Statistics
Matches: 34, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
14 13 0.38
15 18 0.53
16 3 0.09
ACGTcount: A:0.17, C:0.00, G:0.43, T:0.40
Consensus pattern (15 bp):
GGTTTAAGGGTTAGG
Found at i:10057504 original size:22 final size:22
Alignment explanation
Indices: 10057456--10057508 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
10057446 GGGTTTAGGG
* *
10057456 TTTAGGGGTTTAGGGGTTAGACA
1 TTTAGGGG-TTAAGAGTTAGACA
*
10057479 -TTAGGGGTTAAGAGTTAGAGA
1 TTTAGGGGTTAAGAGTTAGACA
10057500 TTTAGGGGT
1 TTTAGGGGT
10057509 CAAGTTAAGG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 11 0.42
22 15 0.58
ACGTcount: A:0.25, C:0.02, G:0.40, T:0.34
Consensus pattern (22 bp):
TTTAGGGGTTAAGAGTTAGACA
Found at i:10057693 original size:15 final size:15
Alignment explanation
Indices: 10057673--10057704 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
10057663 TATTTTAAGG
10057673 TTTAGGGAGTATGGA
1 TTTAGGGAGTATGGA
*
10057688 TTTAGGGATTATGGA
1 TTTAGGGAGTATGGA
10057703 TT
1 TT
10057705 AGAGATTATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.00, G:0.34, T:0.41
Consensus pattern (15 bp):
TTTAGGGAGTATGGA
Found at i:10057711 original size:14 final size:15
Alignment explanation
Indices: 10057682--10057719 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
10057672 GTTTAGGGAG
*
10057682 TATGGATTTAGGGAT
1 TATGGATTTAGAGAT
10057697 TATGGA-TTAGAGAT
1 TATGGATTTAGAGAT
10057711 TATGG-TTTA
1 TATGGATTTA
10057720 AGGGTTGAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (15 bp):
TATGGATTTAGAGAT
Found at i:10057740 original size:21 final size:21
Alignment explanation
Indices: 10057666--10057746 Score: 67
Period size: 21 Copynumber: 3.8 Consensus size: 21
10057656 GAGTTCATAT
10057666 TTTAAGGTTTAGGGAGTATG-GA
1 TTTAAGGTTTAGGG-GT-TGAGA
* * * *
10057688 TTTAGGGATTATGGATTAGAGA
1 TTTAAGGTTTAGGGGTT-GAGA
* *
10057710 -TTATGGTTTAAGGGTTGAGA
1 TTTAAGGTTTAGGGGTTGAGA
10057730 TTTAAGGTTTAGGGGTT
1 TTTAAGGTTTAGGGGTT
10057747 AGAGGTTAGA
Statistics
Matches: 46, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
20 5 0.11
21 28 0.61
22 13 0.28
ACGTcount: A:0.26, C:0.00, G:0.35, T:0.40
Consensus pattern (21 bp):
TTTAAGGTTTAGGGGTTGAGA
Found at i:10057893 original size:295 final size:299
Alignment explanation
Indices: 10057297--10057894 Score: 856
Period size: 295 Copynumber: 2.0 Consensus size: 299
10057287 TATCATTATA
* *
10057297 GTTTAGGGTTTTTGGTTTAGGGTGTATGATTTATTTAAGATTTAAGGCCAGTTTAGGAGTTACTA
1 GTTTAGGGTTTTTAGTTTAGGGTATATGATTTATTTAAGATTTAAGGCCAGTTTAGGAGTTACTA
10057362 TTTTAAGGTTTAGGGAGTATGGATTTAGGAATTATGGATTATGGATTATGGATTATGGTTTAAGG
66 TTTTAAGGTTTAGGGAGTATGGATTTAGGAATTATGGATTA-GG--TA-GGATTATGGTTTAAGG
* * * *
10057427 GTTGGGTTTTAAGGTTTAAGGGTTTAGGGTTTAGGGGTTTAGGGGTTAGACATTAGGGGTTAAGA
127 GTTGAGATTTAAGGTTTAAGGGGTTAGGGTTTAGAGGTTTAGGGGTTAGACA-TAGGGGTTAAGA
* *
10057492 GTTAGAGATTTAGGGGTCAAGTTAAGGTTTTGGGTTTAGATTAATTATTTTTTTAATTTATATTT
191 GTTAGAGATTCAAGGGTCAAGTTAAGGTTTTGGGTTTAGATTAATTATTTTTTTAATTTATATTT
*
10057557 TAAATATGTTCTTATATAATCGTAAAAGAGATAATAATAAATTT
256 TAAATATGTTCTTATATAATCATAAAAGAGATAATAATAAATTT
* *
10057601 GTTTAGGGTTTTTAGTTTAGGTTATATGA-TTATTTAAGATTTAAGGCCGGTTTAGGAGTT-CAT
1 GTTTAGGGTTTTTAGTTTAGGGTATATGATTTATTTAAGATTTAAGGCCAGTTTAGGAGTTAC-T
*
10057664 ATTTTAAGGTTTAGGGAGTATGGATTTAGGGATTATGGATTA-G-A-GATTATGGTTTAAGGGTT
65 ATTTTAAGGTTTAGGGAGTATGGATTTAGGAATTATGGATTAGGTAGGATTATGGTTTAAGGGTT
* *
10057726 GAGATTTAAGGTTT-AGGGGTTAGAGG-TTAGATG-TTAGGGGTTAAGAGC-TAGGGATTTAAG-
130 GAGATTTAAGGTTTAAGGGGTTAG-GGTTTAGAGGTTTAGGGGTT-AGA-CATAGGG-GTTAAGA
* ** *
10057786 GTTTAGGGATTCAAGGGTCGGGTTAGGGTTTTGGGTTTAGATTAATTATTTTTTTAATTTATATT
191 G-TTAGAGATTCAAGGGTCAAGTTAAGGTTTTGGGTTTAGATTAATTATTTTTTTAATTTATATT
*
10057851 TTAAATATGTTCTTATATAATTATAAAAGAGATAATAATAAATT
255 TTAAATATGTTCTTATATAATCATAAAAGAGATAATAATAAATT
10057895 AAATATATTG
Statistics
Matches: 269, Mismatches: 19, Indels: 21
0.87 0.06 0.07
Matches are distributed among these distances:
294 15 0.06
295 120 0.45
296 33 0.12
298 1 0.00
301 1 0.00
302 1 0.00
303 72 0.27
304 26 0.10
ACGTcount: A:0.28, C:0.02, G:0.27, T:0.42
Consensus pattern (299 bp):
GTTTAGGGTTTTTAGTTTAGGGTATATGATTTATTTAAGATTTAAGGCCAGTTTAGGAGTTACTA
TTTTAAGGTTTAGGGAGTATGGATTTAGGAATTATGGATTAGGTAGGATTATGGTTTAAGGGTTG
AGATTTAAGGTTTAAGGGGTTAGGGTTTAGAGGTTTAGGGGTTAGACATAGGGGTTAAGAGTTAG
AGATTCAAGGGTCAAGTTAAGGTTTTGGGTTTAGATTAATTATTTTTTTAATTTATATTTTAAAT
ATGTTCTTATATAATCATAAAAGAGATAATAATAAATTT
Found at i:10058756 original size:21 final size:22
Alignment explanation
Indices: 10058716--10058765 Score: 75
Period size: 21 Copynumber: 2.3 Consensus size: 22
10058706 GCCATTTTAT
*
10058716 AATTTTCCTCCCTAATATCCCC
1 AATTTTCCTCCCTAAAATCCCC
*
10058738 AATTTTCCT-CCTAAAATCCCT
1 AATTTTCCTCCCTAAAATCCCC
10058759 AATTTTC
1 AATTTTC
10058766 TGCCTTGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 17 0.65
22 9 0.35
ACGTcount: A:0.26, C:0.34, G:0.00, T:0.40
Consensus pattern (22 bp):
AATTTTCCTCCCTAAAATCCCC
Found at i:10062223 original size:42 final size:41
Alignment explanation
Indices: 10062162--10062279 Score: 114
Period size: 43 Copynumber: 2.8 Consensus size: 41
10062152 AATATTTTTT
* * *
10062162 TAAAGATATG-CCTTTAGCGGCGTTTGTGTGAAAAGTG-CAGC
1 TAAAGATCTGTCCTATAGCGGCGTTTGTG-GAAAAGCGTC-GC
* * *
10062203 TAAAGGTTTGTCCTATAGCGGCGTTTGTACGAAAAAGCGTCGC
1 TAAAGATCTGTCCTATAGCGGCGTTTGT--GGAAAAGCGTCGC
**
10062246 TAAAGATCTGTTTTATAGCGGCGTTTGTGGAAAA
1 TAAAGATCTGTCCTATAGCGGCGTTTGTGGAAAA
10062280 ACGCTACTAA
Statistics
Matches: 63, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
41 13 0.21
42 16 0.25
43 32 0.51
44 2 0.03
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (41 bp):
TAAAGATCTGTCCTATAGCGGCGTTTGTGGAAAAGCGTCGC
Found at i:10062335 original size:43 final size:43
Alignment explanation
Indices: 10062176--10062400 Score: 179
Period size: 43 Copynumber: 5.3 Consensus size: 43
10062166 GATATGCCTT
* * * * * *
10062176 TAGCGGCGTTTGTGTGAAAAGTGCAGCTAAAGGT-TTGTCCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTGATGACCTA
* * * * ***
10062218 TAGCGGCGTTTGTACGAAAAAGCGTCGCT-AAAGAT-CTGTTTTA
1 TAGCGGCGTTTGT-GGGAAAAGCGCCGCTAAAAG-TGATGACCTA
* ** *
10062261 TAGCGGCGTTTGT-GGAAAAACGCTACTAAAAGTGATGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTGATGACCTA
* *
10062303 TAGCAGTGTTTGTGGGAAAAGCGCCGCTAAAAGTGATGACCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTGATGACCTA
* * * * *
10062346 TAGCGGCATTTATGGGAAAAGCGCCGCCTAAAGGTCATGACCTT
1 TAGCGGCGTTTGTGGGAAAAGCGCCG-CTAAAAGTGATGACCTA
10062390 TAGCGGCGTTT
1 TAGCGGCGTTT
10062401 ATTTCTAAAG
Statistics
Matches: 145, Mismatches: 32, Indels: 10
0.78 0.17 0.05
Matches are distributed among these distances:
41 10 0.07
42 36 0.25
43 75 0.52
44 24 0.17
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.27
Consensus pattern (43 bp):
TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTGATGACCTA
Found at i:10063874 original size:18 final size:19
Alignment explanation
Indices: 10063845--10063881 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
10063835 CTTAACATGT
*
10063845 GAATCTAAAATAATTATAA
1 GAATCTAAAATAATAATAA
10063864 GAATC-AAAATAATAATAA
1 GAATCTAAAATAATAATAA
10063882 CTATTTCAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.27
Consensus pattern (19 bp):
GAATCTAAAATAATAATAA
Found at i:10074464 original size:72 final size:72
Alignment explanation
Indices: 10074347--10074530 Score: 359
Period size: 72 Copynumber: 2.6 Consensus size: 72
10074337 ACAACTTGAC
*
10074347 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
10074412 ACTAACA
66 ACTAACA
10074419 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
10074484 ACTAACA
66 ACTAACA
10074491 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
10074531 AATAATAATA
Statistics
Matches: 111, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 111 1.00
ACGTcount: A:0.42, C:0.24, G:0.07, T:0.28
Consensus pattern (72 bp):
AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
ACTAACA
Found at i:10074539 original size:3 final size:3
Alignment explanation
Indices: 10074531--10074556 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
10074521 ATTACATCCA
10074531 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
10074557 AACATGTGAT
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:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:10077722 original size:72 final size:72
Alignment explanation
Indices: 10077605--10077932 Score: 638
Period size: 72 Copynumber: 4.6 Consensus size: 72
10077595 ACAACTTGAC
* *
10077605 AACTTAGTTGGAATACAACTAAGTTTCATCATTACACCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
10077670 ACTAACA
66 ACTAACA
10077677 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
10077742 ACTAACA
66 ACTAACA
10077749 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
10077814 ACTAACA
66 ACTAACA
10077821 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
10077886 ACTAACA
66 ACTAACA
10077893 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
10077933 AATAATAATA
Statistics
Matches: 254, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 254 1.00
ACGTcount: A:0.42, C:0.25, G:0.06, T:0.27
Consensus pattern (72 bp):
AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
ACTAACA
Found at i:10077941 original size:3 final size:3
Alignment explanation
Indices: 10077933--10077964 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
10077923 ATTACATCCA
10077933 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
10077965 AACATGTGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:10083211 original size:21 final size:21
Alignment explanation
Indices: 10083168--10083211 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
10083158 TTATTTTTCC
*
10083168 TTTGTAGAATTAATTTTATTT
1 TTTGTAGAATTAATTTGATTT
* *
10083189 TTTGTGGAA-TAATTTGATGT
1 TTTGTAGAATTAATTTGATTT
10083209 TTT
1 TTT
10083212 ACATGGAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.25, C:0.00, G:0.16, T:0.59
Consensus pattern (21 bp):
TTTGTAGAATTAATTTGATTT
Found at i:10083218 original size:22 final size:22
Alignment explanation
Indices: 10083193--10083234 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
10083183 TTATTTTTTG
10083193 TGGAATAATTT-GATGTTTTACA
1 TGGAATAATTTAGAT-TTTTACA
*
10083215 TGGAATTATTTAGATTTTTA
1 TGGAATAATTTAGATTTTTA
10083235 TAGAACAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.31, C:0.02, G:0.17, T:0.50
Consensus pattern (22 bp):
TGGAATAATTTAGATTTTTACA
Found at i:10083462 original size:21 final size:21
Alignment explanation
Indices: 10083438--10083481 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
10083428 AATTTTTCGT
* * *
10083438 AAATGAAATCAATTTTTAAAA
1 AAATAAAATCAATTCTGAAAA
*
10083459 AAATAAAATTAATTCTGAAAA
1 AAATAAAATCAATTCTGAAAA
10083480 AA
1 AA
10083482 GAAATGAGTG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.61, C:0.05, G:0.05, T:0.30
Consensus pattern (21 bp):
AAATAAAATCAATTCTGAAAA
Found at i:10083997 original size:159 final size:158
Alignment explanation
Indices: 10083708--10084024 Score: 598
Period size: 159 Copynumber: 2.0 Consensus size: 158
10083698 GGTTGGGTAA
*
10083708 GTTAGGCAGATGTAAACAACAGGAACAGAGATTACTGTTTTAACCATGTTATCTAATTTGTCTGT
1 GTTAGGCAGATGTAAACAACAGGAACAGAGACTACTGTTTTAACCATGTTATCTAATTTGTCTGT
10083773 AGAACAAATTTTACTCGGTCCAAGGACTTGAAATATTTTGTTTTCCCTCAGAATTCTTCAGGAGT
66 AGAACAAATTTTACTCGGTCCAAGGACTTGAAATATTTTGTTTTCCCTCAGAATTCTTCAGGAGT
10083838 TGGACTTGTTATCATTTTTATGTTATACT
131 TGGACTTGTTATCA-TTTTATGTTATACT
*
10083867 GTTAGGCAGATGTAAACAACAGGAACAGAGACTACTGTTTTAACCATGTTATCTAGTTTGTCTGT
1 GTTAGGCAGATGTAAACAACAGGAACAGAGACTACTGTTTTAACCATGTTATCTAATTTGTCTGT
*
10083932 AGAACAAATTTTACTCGGTCCAAGGACTTGAAATATTTTGTTTTCCCTCGGAATTCTTCAGGAGT
66 AGAACAAATTTTACTCGGTCCAAGGACTTGAAATATTTTGTTTTCCCTCAGAATTCTTCAGGAGT
10083997 TGGACTTGTTATCATTTTATGTTATACT
131 TGGACTTGTTATCATTTTATGTTATACT
10084025 CATGCAACCA
Statistics
Matches: 155, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
158 14 0.09
159 141 0.91
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.38
Consensus pattern (158 bp):
GTTAGGCAGATGTAAACAACAGGAACAGAGACTACTGTTTTAACCATGTTATCTAATTTGTCTGT
AGAACAAATTTTACTCGGTCCAAGGACTTGAAATATTTTGTTTTCCCTCAGAATTCTTCAGGAGT
TGGACTTGTTATCATTTTATGTTATACT
Found at i:10094005 original size:11 final size:11
Alignment explanation
Indices: 10093989--10094015 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
10093979 GGCCACTTGA
10093989 AGGCTATAAAT
1 AGGCTATAAAT
10094000 AGGCTATAAAT
1 AGGCTATAAAT
10094011 AGGCT
1 AGGCT
10094016 TATTTATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.41, C:0.11, G:0.22, T:0.26
Consensus pattern (11 bp):
AGGCTATAAAT
Found at i:10100682 original size:67 final size:65
Alignment explanation
Indices: 10100606--10100939 Score: 251
Period size: 67 Copynumber: 5.0 Consensus size: 65
10100596 CTACCCTGCG
* * * * *
10100606 TTAATTGTCCCAATGGACTTTATATGTTGCCATCACTAAGTTATGGTTTTACACATCATACCCCA
1 TTAA-TGTCCCAA-GGACTTTCTATGTTGCCAT-ACTGAGCTATGGTCTTACACATTATACCCCA
10100671 TGT
63 TGT
* * * * *
10100674 TTAATGTCCTGGAA-GACTATCTATGTTGTCATAGTCGAGCTATGGTCTTACACTTTATACCCCA
1 TTAATGTCC--CAAGGACTTTCTATGTTGCCATACT-GAGCTATGGTCTTACACATTATACCCCA
*
10100738 TAT
63 TGT
* * * *
10100741 TTAATGTCCTAGCGGACTTTCTATGTTGCCATAGCCGAGCTATGGTCTTACGCATTATACCCCAT
1 TTAATGTCCCA-AGGACTTTCTATGTTGCCATA-CTGAGCTATGGTCTTACACATTATACCCCAT
10100806 GT
64 GT
* * * * ** *
10100808 TTAATGTTCTAGTGGA-TTCGCTATGTTATCGTAGCAT-AGCTATGGTCTTACACATTATACCCC
1 TTAATGTCCCA-AGGACTT-TCTATGTTGCCATA-C-TGAGCTATGGTCTTACACATTATACCCC
10100871 ATGT
62 ATGT
* * ** * * * *
10100875 TTAATGTTCTAACAAACTCTCTCTGCTGCCATAGCTGAGCTATGGTCTTACACAGTATACCCCAT
1 TTAATGTCCCAA-GGACTTTCTATGTTGCCATA-CTGAGCTATGGTCTTACACATTATACCCCAT
10100940 TACACCTTAT
Statistics
Matches: 216, Mismatches: 39, Indels: 23
0.78 0.14 0.08
Matches are distributed among these distances:
65 1 0.00
66 5 0.02
67 203 0.94
68 5 0.02
69 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (65 bp):
TTAATGTCCCAAGGACTTTCTATGTTGCCATACTGAGCTATGGTCTTACACATTATACCCCATGT
Found at i:10104674 original size:34 final size:33
Alignment explanation
Indices: 10104613--10104676 Score: 83
Period size: 34 Copynumber: 1.9 Consensus size: 33
10104603 CTATACAAAC
* * * *
10104613 ACCAACCATTAAGTATCAAAGTGCCAAAAGCAT
1 ACCAACCATCAAGCATCAAAATACCAAAAGCAT
10104646 ACCAACCATCAAGGCATCAAAATACCAAAAG
1 ACCAACCATCAA-GCATCAAAATACCAAAAG
10104677 TACATCAACC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
33 11 0.42
34 15 0.58
ACGTcount: A:0.48, C:0.27, G:0.11, T:0.14
Consensus pattern (33 bp):
ACCAACCATCAAGCATCAAAATACCAAAAGCAT
Found at i:10105586 original size:20 final size:20
Alignment explanation
Indices: 10105561--10105688 Score: 105
Period size: 20 Copynumber: 6.4 Consensus size: 20
10105551 GATGTATAAT
10105561 AGGGGCACCGAAGTGCAATC
1 AGGGGCACCGAAGTGCAATC
* * * *
10105581 AGGGGCATCGAAATGTAATT
1 AGGGGCACCGAAGTGCAATC
** * *
10105601 AGGGGCACATATGTGCATTC
1 AGGGGCACCGAAGTGCAATC
* *
10105621 AGGGGCATCGAAGTGCAAAC
1 AGGGGCACCGAAGTGCAATC
* *
10105641 AGGGGCA-CAAATGTGCATTC
1 AGGGGCACCGAA-GTGCAATC
* * *
10105661 AGGGGTACCGAAGTACAAAC
1 AGGGGCACCGAAGTGCAATC
10105681 AGGGGCAC
1 AGGGGCAC
10105689 TTCTTCATTT
Statistics
Matches: 79, Mismatches: 27, Indels: 4
0.72 0.25 0.04
Matches are distributed among these distances:
19 3 0.04
20 73 0.92
21 3 0.04
ACGTcount: A:0.32, C:0.20, G:0.33, T:0.16
Consensus pattern (20 bp):
AGGGGCACCGAAGTGCAATC
Found at i:10105617 original size:40 final size:40
Alignment explanation
Indices: 10105538--10105665 Score: 143
Period size: 40 Copynumber: 3.1 Consensus size: 40
10105528 TACACCACAC
* *
10105538 CAGGGGCATC-ATAGATGTATAATAGGGGCACCGAA-GTGCAAT
1 CAGGGGCATCGA-A-ATGTA-AATAGGGGCA-CAAATGTGCATT
* *
10105580 CAGGGGCATCGAAATGTAATTAGGGGCACATATGTGCATT
1 CAGGGGCATCGAAATGTAAATAGGGGCACAAATGTGCATT
* * *
10105620 CAGGGGCATCGAAGTGCAAACAGGGGCACAAATGTGCATT
1 CAGGGGCATCGAAATGTAAATAGGGGCACAAATGTGCATT
10105660 CAGGGG
1 CAGGGG
10105666 TACCGAAGTA
Statistics
Matches: 75, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
39 2 0.03
40 56 0.75
41 5 0.07
42 11 0.15
43 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.33, T:0.19
Consensus pattern (40 bp):
CAGGGGCATCGAAATGTAAATAGGGGCACAAATGTGCATT
Found at i:10105673 original size:40 final size:40
Alignment explanation
Indices: 10105601--10105688 Score: 140
Period size: 40 Copynumber: 2.2 Consensus size: 40
10105591 AAATGTAATT
* * *
10105601 AGGGGCACATATGTGCATTCAGGGGCATCGAAGTGCAAAC
1 AGGGGCACAAATGTGCATTCAGGGGCACCGAAGTACAAAC
*
10105641 AGGGGCACAAATGTGCATTCAGGGGTACCGAAGTACAAAC
1 AGGGGCACAAATGTGCATTCAGGGGCACCGAAGTACAAAC
10105681 AGGGGCAC
1 AGGGGCAC
10105689 TTCTTCATTT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.32, C:0.20, G:0.33, T:0.15
Consensus pattern (40 bp):
AGGGGCACAAATGTGCATTCAGGGGCACCGAAGTACAAAC
Found at i:10106033 original size:114 final size:116
Alignment explanation
Indices: 10105831--10106060 Score: 419
Period size: 114 Copynumber: 2.0 Consensus size: 116
10105821 ATAAATAACC
*
10105831 GAAGTAATTTCACATATATATAAATCAATTAATTAGAGAACAAAAATAATAATCACAAGTAAATT
1 GAAGTAATTTCACATATATATAAATCAAATAATTAGAGAACAAAAATAATAATCACAAGTAAATT
*
10105896 ATATTAAATAACAAATCACTATGAACTTACCTGGCTAAATTGTAGAAATGA
66 ATATTAAATAACAAATCACTATGAACTTACCTGACTAAATTGTAGAAATGA
*
10105947 GAAGTAATTTCACATATATATAAATCAAATAATTAGAG-A-AAAAATAATAATCACAAGTGAATT
1 GAAGTAATTTCACATATATATAAATCAAATAATTAGAGAACAAAAATAATAATCACAAGTAAATT
10106010 ATATTAAATAACAAATCACTATGAACTTACCTGACTAAATTGTAGAAATGA
66 ATATTAAATAACAAATCACTATGAACTTACCTGACTAAATTGTAGAAATGA
10106061 CTAATTATAG
Statistics
Matches: 111, Mismatches: 3, Indels: 2
0.96 0.03 0.02
Matches are distributed among these distances:
114 73 0.66
115 1 0.01
116 37 0.33
ACGTcount: A:0.50, C:0.11, G:0.10, T:0.29
Consensus pattern (116 bp):
GAAGTAATTTCACATATATATAAATCAAATAATTAGAGAACAAAAATAATAATCACAAGTAAATT
ATATTAAATAACAAATCACTATGAACTTACCTGACTAAATTGTAGAAATGA
Found at i:10116845 original size:5 final size:6
Alignment explanation
Indices: 10116827--10116871 Score: 56
Period size: 6 Copynumber: 7.3 Consensus size: 6
10116817 AACTATTTGG
*
10116827 AATAAA AATAAA AATAAA AATAAA AATGTAAA AA-AAT AATAAA AA
1 AATAAA AATAAA AATAAA AATAAA AA--TAAA AATAAA AATAAA AA
10116872 ATGATTGTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
5 4 0.12
6 24 0.71
8 6 0.18
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (6 bp):
AATAAA
Found at i:10116874 original size:20 final size:20
Alignment explanation
Indices: 10116827--10116871 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
10116817 AACTATTTGG
10116827 AATAAAAA--TAAAAATAAA
1 AATAAAAATGTAAAAATAAA
*
10116845 AATAAAAATGTAAAAA-AAT
1 AATAAAAATGTAAAAATAAA
10116864 AATAAAAA
1 AATAAAAA
10116872 ATGATTGTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 8 0.33
19 10 0.42
20 6 0.25
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (20 bp):
AATAAAAATGTAAAAATAAA
Found at i:10125344 original size:22 final size:22
Alignment explanation
Indices: 10125316--10125387 Score: 119
Period size: 22 Copynumber: 3.3 Consensus size: 22
10125306 ACAAATCCTA
10125316 TCTCAATTTCCTTCTAAAATCC
1 TCTCAATTTCCTTCTAAAATCC
*
10125338 TCTCAATTTCCTTCCAAAATCC
1 TCTCAATTTCCTTCTAAAATCC
10125360 TCTCAATTTCCTTCTAAAAAT-C
1 TCTCAATTTCCTTCT-AAAATCC
10125382 TCTCAA
1 TCTCAA
10125388 ATCCATATTA
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
22 42 0.89
23 5 0.11
ACGTcount: A:0.29, C:0.32, G:0.00, T:0.39
Consensus pattern (22 bp):
TCTCAATTTCCTTCTAAAATCC
Found at i:10125568 original size:24 final size:22
Alignment explanation
Indices: 10125541--10125601 Score: 61
Period size: 24 Copynumber: 2.7 Consensus size: 22
10125531 TAAATTTAAA
10125541 TTTTAAATATTATTTAAGATATAT
1 TTTTAAATATTATTT-AGATA-AT
*
10125565 TTTTATATATT-TTTAGATAAT
1 TTTTAAATATTATTTAGATAAT
* *
10125586 TATTAATTTATTATTT
1 TTTTAA-ATATTATTT
10125602 GTTATAAAAG
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
21 6 0.19
22 9 0.29
23 6 0.19
24 10 0.32
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (22 bp):
TTTTAAATATTATTTAGATAAT
Found at i:10127167 original size:29 final size:29
Alignment explanation
Indices: 10127121--10127369 Score: 328
Period size: 29 Copynumber: 8.7 Consensus size: 29
10127111 AATCACCGTG
*
10127121 ACCTAATTTAATTAAAAACTCTAACCCTA
1 ACCTAATTTAATTAAAAACCCTAACCCTA
* *
10127150 ACCTAATTTATTTTAAAACCCTAAACCCTA
1 ACCTAATTTAATTAAAAACCCT-AACCCTA
10127180 ACCTAATTTAATTAAAAACCCTAACCCTA
1 ACCTAATTTAATTAAAAACCCTAACCCTA
*
10127209 ACCTAATTTAATTAAAAACTCTAACCCTA
1 ACCTAATTTAATTAAAAACCCTAACCCTA
* *
10127238 ACCTAATTTATTTTAAAA-CCTAAAACCCTA
1 ACCTAATTTAATTAAAAACCCT--AACCCTA
10127268 ACCTAATTTAATTAAAAACCCTAACCCTA
1 ACCTAATTTAATTAAAAACCCTAACCCTA
*
10127297 CCCTAATTTAATTAAAAACCCTAACCCT-
1 ACCTAATTTAATTAAAAACCCTAACCCTA
* *
10127325 A---AATTTAATCAAAAACCCAAACCCTA
1 ACCTAATTTAATTAAAAACCCTAACCCTA
* * *
10127351 CCCTAATTTATTTTAAAAC
1 ACCTAATTTAATTAAAAAC
10127370 TCCTTTTCCG
Statistics
Matches: 193, Mismatches: 19, Indels: 16
0.85 0.08 0.07
Matches are distributed among these distances:
25 22 0.11
28 2 0.01
29 116 0.60
30 50 0.26
31 3 0.02
ACGTcount: A:0.44, C:0.26, G:0.00, T:0.30
Consensus pattern (29 bp):
ACCTAATTTAATTAAAAACCCTAACCCTA
Found at i:10127209 original size:59 final size:58
Alignment explanation
Indices: 10127121--10127369 Score: 328
Period size: 59 Copynumber: 4.3 Consensus size: 58
10127111 AATCACCGTG
* * *
10127121 ACCTAATTTAATTAAAAACTCTAACCCTAACCTAATTTATTTTAAAACCCTAAACCCTA
1 ACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCT-AACCCTA
*
10127180 ACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACTCTAACCCTA
1 ACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTA
* *
10127238 ACCTAATTTATTTTAAAA-CCTAAAACCCTAACCTAATTTAATTAAAAACCCTAACCCTA
1 ACCTAATTTAATTAAAAACCCT--AACCCTAACCTAATTTAATTAAAAACCCTAACCCTA
* * *
10127297 CCCTAATTTAATTAAAAACCCTAACCCT-A---AATTTAATCAAAAACCCAAACCCTA
1 ACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTA
* * *
10127351 CCCTAATTTATTTTAAAAC
1 ACCTAATTTAATTAAAAAC
10127370 TCCTTTTCCG
Statistics
Matches: 173, Mismatches: 14, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
54 40 0.23
57 4 0.02
58 29 0.17
59 97 0.56
60 3 0.02
ACGTcount: A:0.44, C:0.26, G:0.00, T:0.30
Consensus pattern (58 bp):
ACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTA
Found at i:10127266 original size:88 final size:88
Alignment explanation
Indices: 10127121--10127326 Score: 378
Period size: 88 Copynumber: 2.3 Consensus size: 88
10127111 AATCACCGTG
10127121 ACCTAATTTAATTAAAAACTCTAACCCTAACCTAATTTATTTTAAAACCCTAAACCCTAACCTAA
1 ACCTAATTTAATTAAAAACTCTAACCCTAACCTAATTTATTTTAAAACCCTAAACCCTAACCTAA
10127186 TTTAATTAAAAACCCTAACCCTA
66 TTTAATTAAAAACCCTAACCCTA
10127209 ACCTAATTTAATTAAAAACTCTAACCCTAACCTAATTTATTTTAAAA-CCTAAAACCCTAACCTA
1 ACCTAATTTAATTAAAAACTCTAACCCTAACCTAATTTATTTTAAAACCCT-AAACCCTAACCTA
10127273 ATTTAATTAAAAACCCTAACCCTA
65 ATTTAATTAAAAACCCTAACCCTA
* *
10127297 CCCTAATTTAATTAAAAACCCTAACCCTAA
1 ACCTAATTTAATTAAAAACTCTAACCCTAA
10127327 ATTTAATCAA
Statistics
Matches: 115, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
87 3 0.03
88 112 0.97
ACGTcount: A:0.44, C:0.26, G:0.00, T:0.30
Consensus pattern (88 bp):
ACCTAATTTAATTAAAAACTCTAACCCTAACCTAATTTATTTTAAAACCCTAAACCCTAACCTAA
TTTAATTAAAAACCCTAACCCTA
Found at i:10127366 original size:88 final size:85
Alignment explanation
Indices: 10127121--10127369 Score: 349
Period size: 88 Copynumber: 2.9 Consensus size: 85
10127111 AATCACCGTG
10127121 ACCTAATTTAATTAAAAACTCTAACCCTAACCTAATTTATTTTAAAACCCTAAACCCTAACCTAA
1 ACCTAATTTAATTAAAAACTCTAACCCTAA-C-AATTTATTTTAAAACCC-AAACCCTAACCTAA
10127186 TTTAATTAAAAACCCTAACCCTA
63 TTTAATTAAAAACCCTAACCCTA
*
10127209 ACCTAATTTAATTAAAAACTCTAACCCTAACCTAATTTATTTTAAAACCTAAAACCCTAACCTAA
1 ACCTAATTTAATTAAAAACTCTAACCCTAA-C-AATTTATTTTAAAACC-CAAACCCTAACCTAA
10127274 TTTAATTAAAAACCCTAACCCTA
63 TTTAATTAAAAACCCTAACCCTA
* * * ** *
10127297 CCCTAATTTAATTAAAAACCCTAACCCT-A-AATTTAATCAAAAACCCAAACCCTACCCTAATTT
1 ACCTAATTTAATTAAAAACTCTAACCCTAACAATTTATTTTAAAACCCAAACCCTAACCTAATTT
* *
10127360 ATTTTAAAAC
66 AATTAAAAAC
10127370 TCCTTTTCCG
Statistics
Matches: 150, Mismatches: 10, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
83 24 0.16
84 13 0.09
87 1 0.01
88 112 0.75
ACGTcount: A:0.44, C:0.26, G:0.00, T:0.30
Consensus pattern (85 bp):
ACCTAATTTAATTAAAAACTCTAACCCTAACAATTTATTTTAAAACCCAAACCCTAACCTAATTT
AATTAAAAACCCTAACCCTA
Found at i:10127941 original size:29 final size:29
Alignment explanation
Indices: 10127887--10128240 Score: 455
Period size: 29 Copynumber: 11.9 Consensus size: 29
10127877 TAAAAAAAAT
* *
10127887 CCTAATTTATTTTAAAACCCTAAACCCTAA
1 CCTAATTTAATTAAAAACCCT-AACCCTAA
10127917 CCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
10127946 CCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
10127975 CCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
10128004 CCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
10128033 CCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
10128062 CCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
10128091 CCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
* ** *****
10128120 CCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
1 -CCTAA---T---TTAA-TTAA--AAACCCTAACC--CTAA
10128161 CCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
*
10128190 CCTAATTTAATTAAAAATCCTAAACCCT--
1 CCTAATTTAATTAAAAACCCT-AACCCTAA
10128218 --TAATTTAATTAAAAACCCTAACC
1 CCTAATTTAATTAAAAACCCTAACC
10128241 ATTAACAAAA
Statistics
Matches: 291, Mismatches: 20, Indels: 31
0.85 0.06 0.09
Matches are distributed among these distances:
25 4 0.01
26 18 0.06
29 206 0.71
30 30 0.10
31 4 0.01
33 5 0.02
34 3 0.01
36 3 0.01
37 5 0.02
39 4 0.01
40 5 0.02
41 4 0.01
ACGTcount: A:0.44, C:0.28, G:0.00, T:0.28
Consensus pattern (29 bp):
CCTAATTTAATTAAAAACCCTAACCCTAA
Found at i:10127979 original size:58 final size:58
Alignment explanation
Indices: 10127887--10128240 Score: 527
Period size: 58 Copynumber: 5.9 Consensus size: 58
10127877 TAAAAAAAAT
* *
10127887 CCTAATTTATTTTAAAACCCTAAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCT-AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
10127946 CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
10128004 CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
10128062 CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCCTAAC
1 CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATT----A----AA----AACCCTAAC
10128127 CCTAA
54 CCTAA
10128132 CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
*
10128190 CCTAATTTAATTAAAAATCCTAAACCCT----TAATTTAATTAAAAACCCTAACC
1 CCTAATTTAATTAAAAACCCT-AACCCTAACCTAATTTAATTAAAAACCCTAACC
10128241 ATTAACAAAA
Statistics
Matches: 279, Mismatches: 3, Indels: 30
0.89 0.01 0.10
Matches are distributed among these distances:
55 23 0.08
58 170 0.61
59 25 0.09
62 3 0.01
66 3 0.01
70 55 0.20
ACGTcount: A:0.44, C:0.28, G:0.00, T:0.28
Consensus pattern (58 bp):
CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
Found at i:10128034 original size:87 final size:87
Alignment explanation
Indices: 10127887--10128240 Score: 527
Period size: 87 Copynumber: 4.0 Consensus size: 87
10127877 TAAAAAAAAT
* *
10127887 CCTAATTTATTTTAAAACCCTAAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAAT
1 CCTAATTTAATTAAAAACCCT-AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAAT
10127952 TTAATTAAAAACCCTAACCCTAA
65 TTAATTAAAAACCCTAACCCTAA
10127975 CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATT
1 CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATT
10128040 TAATTAAAAACCCTAACCCTAA
66 TAATTAAAAACCCTAACCCTAA
10128062 CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCCTAAC
1 CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATT----A----AA----AACCCTAAC
10128127 CCTAACCTAATTTAATTAAAAACCCTAACCCTAA
54 CCTAACCTAATTTAATTAAAAACCCTAACCCTAA
*
10128161 CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAATCCTAAACCCT----TAAT
1 CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCT-AACCCTAACCTAAT
10128222 TTAATTAAAAACCCTAACC
65 TTAATTAAAAACCCTAACC
10128241 ATTAACAAAA
Statistics
Matches: 250, Mismatches: 3, Indels: 30
0.88 0.01 0.11
Matches are distributed among these distances:
84 23 0.09
87 112 0.45
88 25 0.10
91 3 0.01
95 3 0.01
99 84 0.34
ACGTcount: A:0.44, C:0.28, G:0.00, T:0.28
Consensus pattern (87 bp):
CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATT
TAATTAAAAACCCTAACCCTAA
Found at i:10128117 original size:6 final size:6
Alignment explanation
Indices: 10128106--10128133 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
10128096 TTTAATTAAA
10128106 AACCCT AACCCT AACCCT AACCCT AACC
1 AACCCT AACCCT AACCCT AACCCT AACC
10128134 TAATTTAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.36, C:0.50, G:0.00, T:0.14
Consensus pattern (6 bp):
AACCCT
Found at i:10128122 original size:41 final size:41
Alignment explanation
Indices: 10128077--10128162 Score: 172
Period size: 41 Copynumber: 2.1 Consensus size: 41
10128067 TTTAATTAAA
10128077 AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCT
1 AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCT
10128118 AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCT
1 AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCT
10128159 AACC
1 AACC
10128163 TAATTTAATT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.42, C:0.35, G:0.00, T:0.23
Consensus pattern (41 bp):
AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCT
Found at i:10128143 original size:70 final size:70
Alignment explanation
Indices: 10128048--10128191 Score: 288
Period size: 70 Copynumber: 2.1 Consensus size: 70
10128038 TTTAATTAAA
10128048 AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTA
1 AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTA
10128113 ACCCT
66 ACCCT
10128118 AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTA
1 AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTA
10128183 ACCCT
66 ACCCT
10128188 AACC
1 AACC
10128192 TAATTTAATT
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 74 1.00
ACGTcount: A:0.43, C:0.32, G:0.00, T:0.25
Consensus pattern (70 bp):
AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTA
ACCCT
Found at i:10129084 original size:18 final size:18
Alignment explanation
Indices: 10129050--10129085 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
10129040 AAAACCGAAA
*
10129050 AAATTTGGTTAACCGATC
1 AAATTCGGTTAACCGATC
*
10129068 AAATTCGGTTAATCGATC
1 AAATTCGGTTAACCGATC
10129086 GGGGATCGAT
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:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (18 bp):
AAATTCGGTTAACCGATC
Found at i:10129399 original size:9 final size:9
Alignment explanation
Indices: 10129387--10129472 Score: 118
Period size: 9 Copynumber: 9.6 Consensus size: 9
10129377 TCAATTTGGT
10129387 TAATTCGGG
1 TAATTCGGG
**
10129396 TAATTCGAT
1 TAATTCGGG
10129405 TAATTCGGG
1 TAATTCGGG
10129414 TAATTCGGG
1 TAATTCGGG
* *
10129423 TAATTTGGT
1 TAATTCGGG
10129432 TAATTCGGG
1 TAATTCGGG
*
10129441 TAATTCGGT
1 TAATTCGGG
10129450 TAATTCGGG
1 TAATTCGGG
*
10129459 TAATTCGGT
1 TAATTCGGG
10129468 TAATT
1 TAATT
10129473 TTTAACCAAA
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 66 1.00
ACGTcount: A:0.24, C:0.09, G:0.26, T:0.41
Consensus pattern (9 bp):
TAATTCGGG
Found at i:10129592 original size:29 final size:30
Alignment explanation
Indices: 10129538--10129617 Score: 153
Period size: 30 Copynumber: 2.7 Consensus size: 30
10129528 GAATTAACCG
10129538 AAAAAATTTCGGTTCGGTTAATTTTTTTAA
1 AAAAAATTTCGGTTCGGTTAATTTTTTTAA
10129568 AAAAAATTTCGGTTCGGTTAATTTTTTT-A
1 AAAAAATTTCGGTTCGGTTAATTTTTTTAA
10129597 AAAAAATTTCGGTTCGGTTAA
1 AAAAAATTTCGGTTCGGTTAA
10129618 CGGTTAAAGA
Statistics
Matches: 50, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
29 22 0.44
30 28 0.56
ACGTcount: A:0.34, C:0.07, G:0.15, T:0.44
Consensus pattern (30 bp):
AAAAAATTTCGGTTCGGTTAATTTTTTTAA
Found at i:10132606 original size:28 final size:28
Alignment explanation
Indices: 10132549--10132608 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 28
10132539 GATTTCCCGG
*
10132549 AAAATGGACCATTCCGGTAAATAATCAA
1 AAAATGGACCATTCCGGTAAATAATAAA
* * *
10132577 AAAATCGGCCCATTTCGGTAAAT-TTAAA
1 AAAAT-GGACCATTCCGGTAAATAATAAA
10132605 AAAA
1 AAAA
10132609 AAGAGGACTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 12 0.44
29 15 0.56
ACGTcount: A:0.47, C:0.17, G:0.13, T:0.23
Consensus pattern (28 bp):
AAAATGGACCATTCCGGTAAATAATAAA
Found at i:10134498 original size:6 final size:7
Alignment explanation
Indices: 10134480--10134506 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
10134470 GTCTTTAGGG
10134480 ATTTTTA
1 ATTTTTA
10134487 ATTTTTA
1 ATTTTTA
10134494 ATTTTTA
1 ATTTTTA
10134501 ATTTTT
1 ATTTTT
10134507 TGTCACATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (7 bp):
ATTTTTA
Found at i:10137164 original size:76 final size:76
Alignment explanation
Indices: 10137062--10137230 Score: 168
Period size: 76 Copynumber: 2.2 Consensus size: 76
10137052 AATTTTCATT
10137062 TAAAATATTTAAAAATAATAAAAAATTTAAACTTATAAAATAATTAG-AA-T-TTCAAAAAAATA
1 TAAAA-ATTTAAAAATAATAAAAAATTT-AAC-TA-AAAATAA-TAGAAATTATTCAAAAAAATA
*
10137124 GAATTTT-TAAAATTA
61 GAATTTTAAAAAATTA
** * * *
10137139 TAAAAATTTAAAAAT-ATATGGAAATTTATCTAAAAATAATAGAAAATTATTTAAAAAATTAGAA
1 TAAAAATTTAAAAATAATA-AAAAATTTAACTAAAAATAATAG-AAATTATTCAAAAAAATAGAA
10137203 TTTTCAAAAAATTA
64 TTTT-AAAAAATTA
10137217 TAAAAATTGTAAAA
1 TAAAAATT-TAAAA
10137231 GAATTAGAAT
Statistics
Matches: 78, Mismatches: 6, Indels: 14
0.80 0.06 0.14
Matches are distributed among these distances:
72 3 0.04
73 7 0.09
74 4 0.05
75 6 0.08
76 33 0.42
77 5 0.06
78 15 0.19
79 5 0.06
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.34
Consensus pattern (76 bp):
TAAAAATTTAAAAATAATAAAAAATTTAACTAAAAATAATAGAAATTATTCAAAAAAATAGAATT
TTAAAAAATTA
Found at i:10137196 original size:22 final size:22
Alignment explanation
Indices: 10137144--10137202 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
10137134 AATTATAAAA
* *
10137144 ATTTAAAAATATATGGAAATTT
1 ATTTAAAAATATATAGAAAATT
*
10137166 ATCTAAAAATA-ATAGAAAATT
1 ATTTAAAAATATATAGAAAATT
10137187 ATTTAAAAA-AT-TAGAA
1 ATTTAAAAATATATAGAA
10137203 TTTTCAAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 6 0.19
21 16 0.50
22 10 0.31
ACGTcount: A:0.58, C:0.02, G:0.07, T:0.34
Consensus pattern (22 bp):
ATTTAAAAATATATAGAAAATT
Found at i:10137212 original size:18 final size:18
Alignment explanation
Indices: 10137191--10137254 Score: 67
Period size: 18 Copynumber: 3.5 Consensus size: 18
10137181 AAAATTATTT
10137191 AAAAAATTAGAATTTTCA
1 AAAAAATTAGAATTTTCA
* * *
10137209 AAAAATTATAAAAATTGT-A
1 AAAAA--ATTAGAATTTTCA
*
10137228 AAAGAATTAGAATTTTCA
1 AAAAAATTAGAATTTTCA
10137246 AAAAAATTA
1 AAAAAATTA
10137255 TAAAAAGAAA
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
17 8 0.23
18 14 0.40
19 5 0.14
20 8 0.23
ACGTcount: A:0.59, C:0.03, G:0.06, T:0.31
Consensus pattern (18 bp):
AAAAAATTAGAATTTTCA
Found at i:10137267 original size:17 final size:16
Alignment explanation
Indices: 10137245--10137276 Score: 55
Period size: 16 Copynumber: 1.9 Consensus size: 16
10137235 TAGAATTTTC
10137245 AAAAAAATTATAAAAAG
1 AAAAAAA-TATAAAAAG
10137262 AAAAAAATATAAAAA
1 AAAAAAATATAAAAA
10137277 TATATTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.16
Consensus pattern (16 bp):
AAAAAAATATAAAAAG
Found at i:10137286 original size:19 final size:19
Alignment explanation
Indices: 10137264--10137362 Score: 50
Period size: 19 Copynumber: 5.3 Consensus size: 19
10137254 ATAAAAAGAA
10137264 AAAAATATAAAAATATATT
1 AAAAATATAAAAATATATT
* *
10137283 AAAACTTATTTAAAATA-A-T
1 AAAA-ATA-TAAAAATATATT
*
10137302 ATAAAAT-TGAAAAAAATA-T
1 A-AAAATAT-AAAAATATATT
**
10137321 AAAAAT-TGCAAATAATATT
1 AAAAATATAAAAAT-ATATT
*
10137340 AAAAATA-GAAAAT-TATT
1 AAAAATATAAAAATATATT
10137357 AAAAAT
1 AAAAAT
10137363 TTTATAAAAT
Statistics
Matches: 63, Mismatches: 9, Indels: 18
0.70 0.10 0.20
Matches are distributed among these distances:
17 14 0.22
18 14 0.22
19 22 0.35
20 6 0.10
21 7 0.11
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.30
Consensus pattern (19 bp):
AAAAATATAAAAATATATT
Found at i:10137319 original size:17 final size:17
Alignment explanation
Indices: 10137294--10137343 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 17
10137284 AAACTTATTT
10137294 AAAATAATATAAAATTG
1 AAAATAATATAAAATTG
*
10137311 AAAAAAATATAAAAATTG
1 AAAATAATAT-AAAATTG
*
10137329 CAAATAATATTAAAA
1 AAAATAATA-TAAAA
10137344 ATAGAAAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 9 0.32
18 18 0.64
19 1 0.04
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.26
Consensus pattern (17 bp):
AAAATAATATAAAATTG
Found at i:10137978 original size:22 final size:24
Alignment explanation
Indices: 10137935--10137978 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
10137925 TGATAATATA
10137935 TTTTGATATAACAAATTAAAGTGT
1 TTTTGATATAACAAATTAAAGTGT
*
10137959 TTTTGA-ATAA-AAGTTAAAGT
1 TTTTGATATAACAAATTAAAGT
10137979 TAAACAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 4 0.21
24 6 0.32
ACGTcount: A:0.43, C:0.02, G:0.14, T:0.41
Consensus pattern (24 bp):
TTTTGATATAACAAATTAAAGTGT
Found at i:10138033 original size:20 final size:19
Alignment explanation
Indices: 10138007--10138060 Score: 58
Period size: 19 Copynumber: 2.7 Consensus size: 19
10137997 TGATAAAATC
10138007 AAGTTAAAATAGTTTCAGATG
1 AAGTTAAAAT-GTTTCA-ATG
10138028 -AGTTAAACAT-TTTCAATG
1 AAGTTAAA-ATGTTTCAATG
10138046 AAGTTAAAATTGTTT
1 AAGTTAAAA-TGTTT
10138061 TAAAACAAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
18 4 0.14
19 13 0.45
20 10 0.34
21 2 0.07
ACGTcount: A:0.41, C:0.06, G:0.15, T:0.39
Consensus pattern (19 bp):
AAGTTAAAATGTTTCAATG
Found at i:10138690 original size:37 final size:37
Alignment explanation
Indices: 10138649--10138744 Score: 138
Period size: 37 Copynumber: 2.6 Consensus size: 37
10138639 AGAGGGTTGT
10138649 ATCTTAAGGTTTAGGTAGAAACCATAAGGGAGTTGCA
1 ATCTTAAGGTTTAGGTAGAAACCATAAGGGAGTTGCA
* * *
10138686 ATCTTAAGGTTTGGGTAGAAACCTTAAGGGAGTTGCG
1 ATCTTAAGGTTTAGGTAGAAACCATAAGGGAGTTGCA
**
10138723 ATCTTAAAATTTTAGGTAGAAA
1 ATCTT-AAGGTTTAGGTAGAAA
10138745 TCTTAAAGTA
Statistics
Matches: 52, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
37 39 0.75
38 13 0.25
ACGTcount: A:0.34, C:0.09, G:0.26, T:0.30
Consensus pattern (37 bp):
ATCTTAAGGTTTAGGTAGAAACCATAAGGGAGTTGCA
Found at i:10141973 original size:31 final size:32
Alignment explanation
Indices: 10141938--10142001 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
10141928 TCCCTACCCA
*
10141938 AGCCTATT-TGAATATCATATATGTTTATAGC
1 AGCCTATTCTGAATATCATATATGTTCATAGC
10141969 AGCCTATTCTGAATATCATATATGTTCATAGC
1 AGCCTATTCTGAATATCATATATGTTCATAGC
10142001 A
1 A
10142002 ACCCATACAT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 8 0.26
32 23 0.74
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.39
Consensus pattern (32 bp):
AGCCTATTCTGAATATCATATATGTTCATAGC
Found at i:10153039 original size:12 final size:12
Alignment explanation
Indices: 10153022--10153056 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
10153012 GTAGGTTTTC
10153022 AAAAATGGAAAT
1 AAAAATGGAAAT
*
10153034 AAAAATGAAAAT
1 AAAAATGGAAAT
10153046 AAAAATGGAAA
1 AAAAATGGAAA
10153057 CTTGCAATCC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (12 bp):
AAAAATGGAAAT
Found at i:10153245 original size:26 final size:26
Alignment explanation
Indices: 10153212--10153274 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
10153202 ACTTTATCGA
*
10153212 GGGGTAAAATTATC-AAAATTATATT
1 GGGGTAAAATTATCAAAAATTATACT
** *
10153237 GGGGGTAAAATCGTCAAAAATTTTACT
1 -GGGGTAAAATTATCAAAAATTATACT
10153264 GGGGTAAAATT
1 GGGGTAAAATT
10153275 GGGATGAGAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
26 22 0.71
27 9 0.29
ACGTcount: A:0.40, C:0.06, G:0.22, T:0.32
Consensus pattern (26 bp):
GGGGTAAAATTATCAAAAATTATACT
Found at i:10159509 original size:14 final size:15
Alignment explanation
Indices: 10159485--10159513 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
10159475 TTTTTCTGTG
10159485 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
10159500 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
10159514 AGTTTCATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:10160821 original size:43 final size:43
Alignment explanation
Indices: 10160666--10160822 Score: 153
Period size: 43 Copynumber: 3.7 Consensus size: 43
10160656 TCTGTGTTTT
* * *
10160666 CGTGTAAGACCACGTCTGAGACGTTGGCATCAACT-TATG-TGAA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGA-TATATGAT-TA
* * * *
10160709 CGTGAAAGACCATGTCTGGGACATTGGCATCG-TATTTGATT-
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATATGATTA
**
10160750 CGTGTAAGACCGTGTCTGGGACAG-TGGCATCGATATATGATTA
1 CGTGTAAGACCACGTCTGGGAC-GTTGGCATCGATATATGATTA
* *
10160793 CATGTAAGACCACGTCTTGGACGTTGGCAT
1 CGTGTAAGACCACGTCTGGGACGTTGGCAT
10160823 TGTACGAGTT
Statistics
Matches: 93, Mismatches: 15, Indels: 12
0.77 0.12 0.10
Matches are distributed among these distances:
41 29 0.31
42 12 0.13
43 52 0.56
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.28
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATATGATTA
Found at i:10180788 original size:78 final size:77
Alignment explanation
Indices: 10180663--10180817 Score: 256
Period size: 78 Copynumber: 2.0 Consensus size: 77
10180653 AGGGAAAATC
* *
10180663 AGGATTATTCCCTTATTAATAGAGAAGGCAAATGAAAAGTTAGAAAAAAAAAGAATTATATTTTT
1 AGGATTATTCCCTTATTAATAGAGAAGGCAAATGAAAAGTTAG-AAAAAAAAGAAATATATTCTT
10180728 TCCAAAAGAATAT
65 TCCAAAAGAATAT
* *
10180741 AGGATTATTCCCTTATTAATAGAGAAGGCAAATGGAAAGTTAGAAAAAAATGAAATATATTCTTT
1 AGGATTATTCCCTTATTAATAGAGAAGGCAAATGAAAAGTTAGAAAAAAAAGAAATATATTCTTT
*
10180806 CCAAAATAATAT
66 CCAAAAGAATAT
10180818 TAATTTCTAT
Statistics
Matches: 72, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
77 30 0.42
78 42 0.58
ACGTcount: A:0.48, C:0.08, G:0.14, T:0.30
Consensus pattern (77 bp):
AGGATTATTCCCTTATTAATAGAGAAGGCAAATGAAAAGTTAGAAAAAAAAGAAATATATTCTTT
CCAAAAGAATAT
Found at i:10183598 original size:23 final size:25
Alignment explanation
Indices: 10183571--10183620 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
10183561 ATTCTTATTT
10183571 AATTAAG-AAATATA-TACTTTAAA
1 AATTAAGAAAATATATTACTTTAAA
* *
10183594 AATTATGAAAATATATTATTTTAAA
1 AATTAAGAAAATATATTACTTTAAA
10183619 AA
1 AA
10183621 ATAAATACGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 6 0.26
24 7 0.30
25 10 0.43
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (25 bp):
AATTAAGAAAATATATTACTTTAAA
Found at i:10184630 original size:10 final size:10
Alignment explanation
Indices: 10184572--10184663 Score: 57
Period size: 10 Copynumber: 9.0 Consensus size: 10
10184562 ATATTTTTTG
10184572 TAATTTTTAA
1 TAATTTTTAA
*
10184582 -AACTTTTAA
1 TAATTTTTAA
* *
10184591 TCATTATTT-G
1 TAATT-TTTAA
10184601 TAATTTCTT-A
1 TAATTT-TTAA
* *
10184611 TAACTCTTAA
1 TAATTTTTAA
10184621 TAATTTTTAAA
1 TAATTTTT-AA
10184632 TAA-TTTTATA
1 TAATTTTTA-A
10184642 TAATTATTTAA
1 TAATT-TTTAA
10184653 TAATTATTTAA
1 TAATT-TTTAA
10184664 GAAATTACTC
Statistics
Matches: 64, Mismatches: 10, Indels: 15
0.72 0.11 0.17
Matches are distributed among these distances:
9 12 0.19
10 27 0.42
11 21 0.33
12 4 0.06
ACGTcount: A:0.39, C:0.05, G:0.01, T:0.54
Consensus pattern (10 bp):
TAATTTTTAA
Found at i:10184635 original size:11 final size:12
Alignment explanation
Indices: 10184619--10184663 Score: 53
Period size: 11 Copynumber: 4.1 Consensus size: 12
10184609 TATAACTCTT
10184619 AATAATT-TTTA
1 AATAATTATTTA
10184630 AATAA-T-TTTA
1 AATAATTATTTA
*
10184640 TATAATTATTT-
1 AATAATTATTTA
10184651 AATAATTATTTA
1 AATAATTATTTA
10184663 A
1 A
10184664 GAAATTACTC
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
10 9 0.31
11 16 0.55
12 4 0.14
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (12 bp):
AATAATTATTTA
Found at i:10187162 original size:30 final size:30
Alignment explanation
Indices: 10187075--10187179 Score: 122
Period size: 30 Copynumber: 3.5 Consensus size: 30
10187065 GCAAATCCCA
* *
10187075 TTGCATGCAAACTCCCATATGTGAACCCTC
1 TTGCATGCGAACCCCCATATGTGAACCCTC
* * *
10187105 TTGTA-GCGAACCCCCTTGCAAGTGAACCCTC
1 TTGCATGCGAACCCCCAT--ATGTGAACCCTC
*
10187136 TTGCATGCGGACCCCCATATGTGAACCCTC
1 TTGCATGCGAACCCCCATATGTGAACCCTC
*
10187166 TTACATGCGAACCC
1 TTGCATGCGAACCC
10187180 ATGAATGCGA
Statistics
Matches: 61, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
29 9 0.15
30 27 0.44
31 15 0.25
32 10 0.16
ACGTcount: A:0.24, C:0.35, G:0.17, T:0.24
Consensus pattern (30 bp):
TTGCATGCGAACCCCCATATGTGAACCCTC
Found at i:10187179 original size:16 final size:16
Alignment explanation
Indices: 10187097--10187179 Score: 64
Period size: 16 Copynumber: 5.4 Consensus size: 16
10187087 TCCCATATGT
*
10187097 GAACCCTCTTGTA-GC
1 GAACCCTCTTGCATGC
* * *
10187112 GAACCCCCTTGCAAGT
1 GAACCCTCTTGCATGC
10187128 GAACCCTCTTGCATGC
1 GAACCCTCTTGCATGC
* * * *
10187144 GGACCCCCAT--ATGT
1 GAACCCTCTTGCATGC
*
10187158 GAACCCTCTTACATGC
1 GAACCCTCTTGCATGC
10187174 GAACCC
1 GAACCC
10187180 ATGAATGCGA
Statistics
Matches: 51, Mismatches: 14, Indels: 5
0.73 0.20 0.07
Matches are distributed among these distances:
14 10 0.20
15 11 0.22
16 30 0.59
ACGTcount: A:0.23, C:0.37, G:0.18, T:0.22
Consensus pattern (16 bp):
GAACCCTCTTGCATGC
Found at i:10187234 original size:24 final size:24
Alignment explanation
Indices: 10187207--10187257 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 24
10187197 TGCAAATCCT
* *
10187207 TATGGATTTAGTATGCGAACCCTG
1 TATGGATTTAATATGCGAACCCTA
* *
10187231 TAT-GTTTTAATATTCGAACCCTA
1 TATGGATTTAATATGCGAACCCTA
10187254 TATG
1 TATG
10187258 TGATAACTCT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
23 19 0.86
24 3 0.14
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (24 bp):
TATGGATTTAATATGCGAACCCTA
Found at i:10187239 original size:23 final size:23
Alignment explanation
Indices: 10187213--10187258 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
10187203 TCCTTATGGA
* *
10187213 TTTAGTATGCGAACCCTGTATGT
1 TTTAATATGCGAACCCTATATGT
*
10187236 TTTAATATTCGAACCCTATATGT
1 TTTAATATGCGAACCCTATATGT
10187259 GATAACTCTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.26, C:0.17, G:0.15, T:0.41
Consensus pattern (23 bp):
TTTAATATGCGAACCCTATATGT
Found at i:10188029 original size:12 final size:12
Alignment explanation
Indices: 10188012--10188039 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
10188002 GCCACACGAG
10188012 CGTGTGCTTGGC
1 CGTGTGCTTGGC
10188024 CGTGTGCTTGGC
1 CGTGTGCTTGGC
10188036 CGTG
1 CGTG
10188040 CGCAAGACAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.00, C:0.25, G:0.43, T:0.32
Consensus pattern (12 bp):
CGTGTGCTTGGC
Found at i:10189142 original size:15 final size:15
Alignment explanation
Indices: 10189122--10189157 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
10189112 GTGTTACAGT
10189122 GAACCCTACATGTGA
1 GAACCCTACATGTGA
*
10189137 GAACCC-ATATGTGA
1 GAACCCTACATGTGA
10189151 GAACCCT
1 GAACCCT
10189158 GTATGTGTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 13 0.68
15 6 0.32
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.19
Consensus pattern (15 bp):
GAACCCTACATGTGA
Found at i:10201841 original size:26 final size:24
Alignment explanation
Indices: 10201811--10201879 Score: 70
Period size: 26 Copynumber: 2.8 Consensus size: 24
10201801 GGACTCACCA
10201811 TAGCTCGTATGAGCTTACCGATATAT
1 TAGCTCGTATGAGCTTACCGAT-T-T
* *
10201837 TAGCTCTTATGAGCGTACC-ATTT
1 TAGCTCGTATGAGCTTACCGATTT
*
10201860 CAGCTCG-ATAGAGCTTACCG
1 TAGCTCGTAT-GAGCTTACCG
10201880 TTCTTCAGGT
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
22 2 0.06
23 14 0.39
24 1 0.03
25 2 0.06
26 17 0.47
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (24 bp):
TAGCTCGTATGAGCTTACCGATTT
Found at i:10204591 original size:14 final size:14
Alignment explanation
Indices: 10204574--10204609 Score: 72
Period size: 14 Copynumber: 2.6 Consensus size: 14
10204564 GTGGAGGACC
10204574 GGAGGTGGATCGAT
1 GGAGGTGGATCGAT
10204588 GGAGGTGGATCGAT
1 GGAGGTGGATCGAT
10204602 GGAGGTGG
1 GGAGGTGG
10204610 GTTGGTGCCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.19, C:0.06, G:0.56, T:0.19
Consensus pattern (14 bp):
GGAGGTGGATCGAT
Found at i:10204721 original size:16 final size:16
Alignment explanation
Indices: 10204688--10204733 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
10204678 GGATTTGTGG
* *
10204688 AAGAGGGGAAACGAGA
1 AAGAGGGGAAATGGGA
10204704 AAGAGGGGAAATGGGA
1 AAGAGGGGAAATGGGA
*
10204720 AA-TGGGGAAATGGG
1 AAGAGGGGAAATGGG
10204734 TGTTAAAGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
15 11 0.41
16 16 0.59
ACGTcount: A:0.43, C:0.02, G:0.48, T:0.07
Consensus pattern (16 bp):
AAGAGGGGAAATGGGA
Found at i:10205282 original size:5 final size:5
Alignment explanation
Indices: 10205272--10205296 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
10205262 TGTATATAGT
10205272 ATGTG ATGTG ATGTG ATGTG ATGTG
1 ATGTG ATGTG ATGTG ATGTG ATGTG
10205297 TATGATGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.40, T:0.40
Consensus pattern (5 bp):
ATGTG
Found at i:10205372 original size:19 final size:19
Alignment explanation
Indices: 10205348--10205402 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
10205338 TATGAATATG
10205348 AATGATTGATAATTACTGA
1 AATGATTGATAATTACTGA
* *
10205367 AATGATATGAT-ATTAGTTA
1 AATGAT-TGATAATTACTGA
10205386 AATG-TTGATGAATTACT
1 AATGATTGAT-AATTACT
10205403 ATTCTGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
17 4 0.13
18 1 0.03
19 21 0.70
20 4 0.13
ACGTcount: A:0.40, C:0.04, G:0.16, T:0.40
Consensus pattern (19 bp):
AATGATTGATAATTACTGA
Found at i:10212681 original size:18 final size:18
Alignment explanation
Indices: 10212655--10212696 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
10212645 ATTTTAATTA
10212655 TTTTT-TAAAAAATATTT
1 TTTTTGTAAAAAATATTT
10212672 TTTTTGTAAAAAATATTT
1 TTTTTGTAAAAAATATTT
10212690 TTTTTGT
1 TTTTTGT
10212697 TTTTTTGTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 5 0.21
18 19 0.79
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (18 bp):
TTTTTGTAAAAAATATTT
Found at i:10214177 original size:15 final size:15
Alignment explanation
Indices: 10214159--10214190 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
10214149 AGTTTCAAGA
*
10214159 AAATGTTTATAATTT
1 AAATATTTATAATTT
10214174 AAATATTTATAATTT
1 AAATATTTATAATTT
10214189 AA
1 AA
10214191 TTTAAGATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (15 bp):
AAATATTTATAATTT
Found at i:10224608 original size:39 final size:38
Alignment explanation
Indices: 10224531--10224616 Score: 88
Period size: 39 Copynumber: 2.3 Consensus size: 38
10224521 TCTTTTTCAA
*
10224531 TTATTATATAATTAATATTAAAATTAATAATCTTTTAT
1 TTATTATATAATTAATATTAAAATTAATAATCTATTAT
* * **
10224569 TTATT-TATAATGTAATTATTAATATTTATGTTCTATTA-
1 TTATTATATAAT-TAA-TATTAAAATTAATAATCTATTAT
10224607 TT-TTATATAA
1 TTATTATATAA
10224617 AAAAATGCAT
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
37 8 0.20
38 15 0.38
39 17 0.43
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (38 bp):
TTATTATATAATTAATATTAAAATTAATAATCTATTAT
Found at i:10238021 original size:23 final size:22
Alignment explanation
Indices: 10237995--10238058 Score: 58
Period size: 23 Copynumber: 2.8 Consensus size: 22
10237985 ATTTTTCCTT
*
10237995 TTATTTATTTACTTATTATTATA
1 TTATTTATTTAATTATT-TTATA
*
10238018 TTA-TTATATTAATTAGTTTTGTA
1 TTATTTAT-TTAATTA-TTTTATA
* *
10238041 TTATTTTTTTATTTATTT
1 TTATTTATTTAATTATTT
10238059 ATTTTTCTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
22 7 0.21
23 22 0.65
24 5 0.15
ACGTcount: A:0.27, C:0.02, G:0.03, T:0.69
Consensus pattern (22 bp):
TTATTTATTTAATTATTTTATA
Found at i:10242709 original size:23 final size:21
Alignment explanation
Indices: 10242665--10242715 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
10242655 ATAAAGGTTT
10242665 AAGAATATATGTATATTATATA
1 AAGAA-ATATGTATATTATATA
*
10242687 AAGAAATATGTCTATATACTATA
1 AAGAAATATGTATAT-TA-TATA
*
10242710 TAGAAA
1 AAGAAA
10242716 AATACGCATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 9 0.36
22 7 0.28
23 9 0.36
ACGTcount: A:0.51, C:0.04, G:0.10, T:0.35
Consensus pattern (21 bp):
AAGAAATATGTATATTATATA
Done.