Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168159.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_4, 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: 33012953
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 65000 characters in sequence are not A, C, G, or T
File 104 of 160
Found at i:19738760 original size:10 final size:10
Alignment explanation
Indices: 19738745--19738798 Score: 51
Period size: 10 Copynumber: 5.5 Consensus size: 10
19738735 TTGTTACTCA
19738745 TTATTTATTT
1 TTATTTATTT
19738755 TTATTTA--T
1 TTATTTATTT
19738763 TTATTTATTT
1 TTATTTATTT
19738773 TGT-TTTCATTT
1 T-TATTT-ATTT
* *
19738784 TTATTAATTA
1 TTATTTATTT
19738794 TTATT
1 TTATT
19738799 ATAAAACAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
8 8 0.22
10 21 0.57
11 8 0.22
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.74
Consensus pattern (10 bp):
TTATTTATTT
Found at i:19738891 original size:4 final size:4
Alignment explanation
Indices: 19738882--19738908 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
19738872 ACAATGACAA
19738882 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
19738909 ACCTGATCCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:19739391 original size:16 final size:16
Alignment explanation
Indices: 19739361--19739390 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19739351 CAAATGACCT
19739361 TCTTTTTTCTTTTTTA
1 TCTTTTTTCTTTTTTA
19739377 TCTTTTTT-TTTTTT
1 TCTTTTTTCTTTTTT
19739391 TTGTGTTCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.03, C:0.10, G:0.00, T:0.87
Consensus pattern (16 bp):
TCTTTTTTCTTTTTTA
Found at i:19740183 original size:3 final size:3
Alignment explanation
Indices: 19740177--19740201 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
19740167 TTTCAAGAAG
19740177 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
19740202 CTTACACAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:19744931 original size:9 final size:9
Alignment explanation
Indices: 19744917--19744946 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
19744907 GGTAAATTAC
19744917 TAATTAAAA
1 TAATTAAAA
19744926 TAATTAAAA
1 TAATTAAAA
19744935 TATATTAAAA
1 TA-ATTAAAA
19744945 TA
1 TA
19744947 TAAAAGTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (9 bp):
TAATTAAAA
Found at i:19744943 original size:10 final size:10
Alignment explanation
Indices: 19744919--19744948 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
19744909 TAAATTACTA
19744919 ATTAAAATA-
1 ATTAAAATAT
19744928 ATTAAAATAT
1 ATTAAAATAT
19744938 ATTAAAATAT
1 ATTAAAATAT
19744948 A
1 A
19744949 AAAGTTTGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
ATTAAAATAT
Found at i:19747316 original size:9 final size:9
Alignment explanation
Indices: 19747302--19747331 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
19747292 TTAATAAATT
19747302 AATAATTAA
1 AATAATTAA
19747311 AATAATTAA
1 AATAATTAA
19747320 AATATATTAA
1 AATA-ATTAA
19747330 AA
1 AA
19747332 ATATAAAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 13 0.65
10 7 0.35
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (9 bp):
AATAATTAA
Found at i:19750690 original size:20 final size:19
Alignment explanation
Indices: 19750650--19750692 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
19750640 ATTTATGGAC
*
19750650 AAATAAAAAATTTAATGAA
1 AAATAAAAAATTAAATGAA
19750669 AAATAAGAAAATATAAAT-AA
1 AAATAA-AAAAT-TAAATGAA
19750689 AAAT
1 AAAT
19750693 TTCTCCGGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 6 0.29
20 11 0.52
21 4 0.19
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (19 bp):
AAATAAAAAATTAAATGAA
Found at i:19758733 original size:10 final size:10
Alignment explanation
Indices: 19758718--19758760 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
19758708 TCATTAATCT
19758718 TATATATATG
1 TATATATATG
19758728 TATATATATGTG
1 TATATATA--TG
* *
19758740 TATGTGTATG
1 TATATATATG
19758750 TATATATATG
1 TATATATATG
19758760 T
1 T
19758761 GTGCATAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
10 19 0.70
12 8 0.30
ACGTcount: A:0.33, C:0.00, G:0.16, T:0.51
Consensus pattern (10 bp):
TATATATATG
Found at i:19776511 original size:44 final size:43
Alignment explanation
Indices: 19776415--19776920 Score: 293
Period size: 44 Copynumber: 11.7 Consensus size: 43
19776405 ATTTCATAAC
* * *
19776415 CTCTGATGAGAAGAGTCTTTTATAATTTTTCAAA-TTGTTGAAT
1 CTCTGATGAGATGAGCCTTTTATAATTTTTCAAAGTTGTTG-AG
* *
19776458 CTCTGATAAAATGAGCCTTTTATAATTTTTCAAAGTTGTTGAG
1 CTCTGATGAGATGAGCCTTTTATAATTTTTCAAAGTTGTTGAG
* * * * * *
19776501 TCTCTGATAAAATGAGACTTTTATAATTTCTCAAAATTGTGGAG
1 -CTCTGATGAGATGAGCCTTTTATAATTTTTCAAAGTTGTTGAG
* * *** *
19776545 CATCTAATGAGAGGAATTTTTTATAATGTTTT-GAAGTTGTTGAG
1 C-TCTGATGAGATGAGCCTTTTATAAT-TTTTCAAAGTTGTTGAG
* * * * *
19776589 TCTCTGATGAGATAAGTCTTTTGT-ATTTTTCAAAAGCTGATGAG
1 -CTCTGATGAGATGAGCCTTTTATAATTTTTC-AAAGTTGTTGAG
* * * * * *
19776633 CTTATGATAAGAGGAG-CTTTT-TAAATTTCCAAAGTTGTTAAG
1 C-TCTGATGAGATGAGCCTTTTATAATTTTTCAAAGTTGTTGAG
* * *
19776675 CATCTTATGAGAGGTGCCTTTTATAACTTTTT-AAAGTTGTTGAG
1 C-TCTGATGAGATGAGCCTTTTATAA-TTTTTCAAAGTTGTTGAG
* * * *
19776719 CCTCTGATGAGATGAGTCTTTTAT-ATTTTTCAAAAATTATTAAG
1 -CTCTGATGAGATGAGCCTTTTATAATTTTTC-AAAGTTGTTGAG
* * * * *
19776763 CCTCTAATAAAATGAACC--TTATAATTTTTCAAAAGTT-TGTGAAC
1 -CTCTGATGAGATGAGCCTTTTATAATTTTTC-AAAGTTGT-TG-AG
* ** * * *
19776807 CTCTGATAAGAAAAGCCTTTTA-AAATTTTCAAAGTTATTAAG
1 CTCTGATGAGATGAGCCTTTTATAATTTTTCAAAGTTGTTGAG
* * * *
19776849 CCTTTGATGAGAGGAGCCATTTATAATTTTT-AAAGTTGTTAAG
1 -CTCTGATGAGATGAGCCTTTTATAATTTTTCAAAGTTGTTGAG
*
19776892 CATCTGATGA-AAGTAGCCTTTTA-AATTTT
1 C-TCTGATGAGATG-AGCCTTTTATAATTTT
19776921 CTTAAAAGTT
Statistics
Matches: 359, Mismatches: 79, Indels: 51
0.73 0.16 0.10
Matches are distributed among these distances:
42 45 0.13
43 127 0.35
44 176 0.49
45 11 0.03
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.41
Consensus pattern (43 bp):
CTCTGATGAGATGAGCCTTTTATAATTTTTCAAAGTTGTTGAG
Found at i:19776715 original size:130 final size:131
Alignment explanation
Indices: 19776431--19776753 Score: 361
Period size: 130 Copynumber: 2.5 Consensus size: 131
19776421 TGAGAAGAGT
* * * * *
19776431 CTTTTATAATTTTTCAAA-TTGTTGAATCTCTGATAAAATGAGCCTTTTATAATTTTTC-AAAGT
1 CTTTTATAATTTTT-AAAGTTGTTGAGTCTCTGATGAGATGAGTCTTTTAT-ATTTTTCAAAAGC
* * * *
19776494 TGTTGAGTCTCTGATAAAATGAGACTTTTATAATTTCTCAAAATTGTGGAGCATCTAATGAGAGG
64 TGATGAGTCTATGATAAAAGGAGACTTTTATAATTTCTCAAAATTGTGAAGCATCTAATGAGAGG
*
19776559 AAT
129 AAC
* * * *
19776562 TTTTTATAATGTTTTGAAGTTGTTGAGTCTCTGATGAGATAAGTCTTTTGTATTTTTCAAAAGCT
1 CTTTTATAAT-TTTTAAAGTTGTTGAGTCTCTGATGAGATGAGTCTTTTATATTTTTCAAAAGCT
* * * *
19776627 GATGAG-CTTATGATAAGAGGAG-CTTTT-TAAATTTC-CAAAGTTGTTAAGCATCTTATGAGAG
65 GATGAGTC-TATGATAAAAGGAGACTTTTAT-AATTTCTCAAAATTGTGAAGCATCTAATGAGAG
**
19776688 GTGC
128 GAAC
*
19776692 CTTTTATAACTTTTTAAAGTTGTTGAGCCTCTGATGAGATGAGTCTTTTATATTTTTCAAAA
1 CTTTTATAA-TTTTTAAAGTTGTTGAGTCTCTGATGAGATGAGTCTTTTATATTTTTCAAAA
19776754 ATTATTAAGC
Statistics
Matches: 161, Mismatches: 25, Indels: 13
0.81 0.13 0.07
Matches are distributed among these distances:
130 79 0.49
131 31 0.19
132 51 0.32
ACGTcount: A:0.30, C:0.10, G:0.18, T:0.42
Consensus pattern (131 bp):
CTTTTATAATTTTTAAAGTTGTTGAGTCTCTGATGAGATGAGTCTTTTATATTTTTCAAAAGCTG
ATGAGTCTATGATAAAAGGAGACTTTTATAATTTCTCAAAATTGTGAAGCATCTAATGAGAGGAA
C
Found at i:19776741 original size:86 final size:84
Alignment explanation
Indices: 19776637--19776919 Score: 241
Period size: 86 Copynumber: 3.3 Consensus size: 84
19776627 GATGAGCTTA
* * * * * *
19776637 TGATAAGAGGAGCTTTTTAAATTTCCAAAGTTGTTAAGCATCTTATGAGAGGTGCCTTTTATAAC
1 TGATGAGAAGAGCCTTTTAAATTTCCAAAGTTATTAAGCCTCTTATGAGAGGAGCC-TTTATAA-
19776702 TTTTTAAAGTTGTTGAGCCTC
64 TTTTTAAAGTTGTTGAGCCTC
* * * * * * * * * *
19776723 TGATGAGATGAGTCTTTTATATTTTTCAAAAATTATTAAGCCTCTAATAAAATGAACC-TTATAA
1 TGATGAGAAGAGCCTTTTA-A-ATTTCCAAAGTTATTAAGCCTCTTATGAGAGGAGCCTTTATAA
*
19776787 TTTTTCAAAAGTT-TGTGAACCTC
64 TTTTT--AAAGTTGT-TGAGCCTC
* * *
19776810 TGATAAGAAAAGCCTTTTAAAATTTTCAAAGTTATTAAGCCT-TTGATGAGAGGAGCCATTTATA
1 TGATGAGAAGAGCCTTTT-AAATTTCCAAAGTTATTAAGCCTCTT-ATGAGAGGAGCC-TTTATA
* *
19776874 ATTTTTAAAGTTGTTAAGCATC
63 ATTTTTAAAGTTGTTGAGCCTC
19776896 TGATGA-AAGTAGCCTTTTAAATTT
1 TGATGAGAAG-AGCCTTTTAAATTT
19776920 TCTTAAAAGT
Statistics
Matches: 152, Mismatches: 34, Indels: 23
0.73 0.16 0.11
Matches are distributed among these distances:
85 14 0.09
86 71 0.47
87 30 0.20
88 37 0.24
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.39
Consensus pattern (84 bp):
TGATGAGAAGAGCCTTTTAAATTTCCAAAGTTATTAAGCCTCTTATGAGAGGAGCCTTTATAATT
TTTAAAGTTGTTGAGCCTC
Found at i:19777702 original size:13 final size:13
Alignment explanation
Indices: 19777648--19777711 Score: 60
Period size: 13 Copynumber: 4.8 Consensus size: 13
19777638 TTTTCTTTCA
19777648 TGATTAATTAT-TT
1 TGATT-ATTATATT
19777661 GTGATTATATATATT
1 -TGATTAT-TATATT
** *
19777676 AAATT-TTGTATT
1 TGATTATTATATT
19777688 TGATTATTATATT
1 TGATTATTATATT
19777701 TGATTATTATA
1 TGATTATTATA
19777712 AATTTGACTG
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
12 8 0.20
13 20 0.49
14 11 0.27
15 2 0.05
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.58
Consensus pattern (13 bp):
TGATTATTATATT
Found at i:19787207 original size:87 final size:87
Alignment explanation
Indices: 19787058--19787221 Score: 222
Period size: 87 Copynumber: 1.9 Consensus size: 87
19787048 TCCAGCTTAG
* * * * *
19787058 CCAATTACCATGATGGTGTAAGGTATTTTGGAGGCTCCATATTACAATATCTATTTTTTTTTTTA
1 CCAATTACAATGATGGGGTAAGGTATTTTGGAGGCTCCATATTACAATATCTATTATATTTTTGA
19787123 TACAAAAGAAGTCAAGGCATAA
66 TACAAAAGAAGTCAAGGCATAA
* * **
19787145 CCAATTACAATTATGGGGTAAGGTGTTTTGGAGTTTCCATATTACAATATCT-TATATATTTTTG
1 CCAATTACAATGATGGGGTAAGGTATTTTGGAGGCTCCATATTACAATATCTAT-TATATTTTTG
*
19787209 GTACAAAAGAAGT
65 ATACAAAAGAAGT
19787222 TAAGACTTAA
Statistics
Matches: 66, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
86 1 0.02
87 65 0.98
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (87 bp):
CCAATTACAATGATGGGGTAAGGTATTTTGGAGGCTCCATATTACAATATCTATTATATTTTTGA
TACAAAAGAAGTCAAGGCATAA
Found at i:19787610 original size:28 final size:27
Alignment explanation
Indices: 19787554--19787609 Score: 85
Period size: 30 Copynumber: 2.0 Consensus size: 27
19787544 ATATTCAATT
19787554 TTTAAATAATTTTTTGTTTAAATACAAA
1 TTTAAATAATTTTTTGTTTAAATA-AAA
19787582 TTTAAATTATATTTTTTGTTTAAATAAA
1 TTTAAA-TA-ATTTTTTGTTTAAATAAA
19787610 TGGATTAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
28 6 0.23
29 4 0.15
30 16 0.62
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.54
Consensus pattern (27 bp):
TTTAAATAATTTTTTGTTTAAATAAAA
Found at i:19788433 original size:16 final size:15
Alignment explanation
Indices: 19788412--19788445 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
19788402 TTTTTCTTTG
19788412 TTTTTTAATTTTGGTT
1 TTTTTTAATTTT-GTT
*
19788428 TTTTTTTATTTTGTT
1 TTTTTTAATTTTGTT
19788443 TTT
1 TTT
19788446 CTCTTTAGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.09, C:0.00, G:0.09, T:0.82
Consensus pattern (15 bp):
TTTTTTAATTTTGTT
Found at i:19788825 original size:3 final size:3
Alignment explanation
Indices: 19788819--19788856 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
19788809 TAATGGCTAA
19788819 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
19788857 AAAGCTCTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:19788948 original size:30 final size:31
Alignment explanation
Indices: 19788914--19788982 Score: 95
Period size: 31 Copynumber: 2.3 Consensus size: 31
19788904 TATTACATTT
*
19788914 AAATAAACTCTT-AATTTTTAATTTATATTC
1 AAATAAACTCTTAAACTTTTAATTTATATTC
* *
19788944 AAATAAGCTCTTAAACTTTTAATTTATATTT
1 AAATAAACTCTTAAACTTTTAATTTATATTC
*
19788975 AACTAAAC
1 AAATAAAC
19788983 CCTAAATGTA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
30 11 0.33
31 22 0.67
ACGTcount: A:0.42, C:0.12, G:0.01, T:0.45
Consensus pattern (31 bp):
AAATAAACTCTTAAACTTTTAATTTATATTC
Found at i:19789513 original size:20 final size:21
Alignment explanation
Indices: 19789451--19789502 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
19789441 TCTTTAAAAA
* *
19789451 TGTTGACGTGGGCTTTAAC-T
1 TGTTGACATGGGCATTAACTT
*
19789471 TGATGACATGGGCATTAACTT
1 TGTTGACATGGGCATTAACTT
19789492 TGTTGACATGG
1 TGTTGACATGG
19789503 TATTGACTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 16 0.59
21 11 0.41
ACGTcount: A:0.21, C:0.13, G:0.29, T:0.37
Consensus pattern (21 bp):
TGTTGACATGGGCATTAACTT
Found at i:19793416 original size:11 final size:11
Alignment explanation
Indices: 19793400--19793427 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
19793390 AATGTTAGAG
19793400 AATTTTAAAAT
1 AATTTTAAAAT
19793411 AATTTTAAAAT
1 AATTTTAAAAT
19793422 AATTTT
1 AATTTT
19793428 TTAACTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (11 bp):
AATTTTAAAAT
Found at i:19794547 original size:12 final size:12
Alignment explanation
Indices: 19794530--19794577 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 12
19794520 AAGTTAGGAT
*
19794530 AAAAAAATGAAA
1 AAAAAAAAGAAA
19794542 AAAAAAAAGAAA
1 AAAAAAAAGAAA
19794554 AAGGAAAAAAGAGCAA
1 AA--AAAAAAGA--AA
19794570 AAAAAAAA
1 AAAAAAAA
19794578 AAATTTAGGA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
12 13 0.42
14 14 0.45
16 4 0.13
ACGTcount: A:0.83, C:0.02, G:0.12, T:0.02
Consensus pattern (12 bp):
AAAAAAAAGAAA
Found at i:19798554 original size:145 final size:141
Alignment explanation
Indices: 19798292--19798685 Score: 445
Period size: 145 Copynumber: 2.7 Consensus size: 141
19798282 GAGAAGTGTG
* * * *
19798292 AAATTATCAAAATACCCTTATAAAGGTATTTTCATAATTTGGCTTTTTCGAGCTTG-AAATTTCA
1 AAATTACCAAAATACCCTTA-AAAGGTATTTTCGTAATTTGG--TTTTCTAGCTTGAAAATTT-T
* *
19798356 TG-AACATTAT-AGATCTTAGTTTCATAATATTTCATGATTTTTTGTGCACTTGAAATCACAGCA
62 TGAAAC-TTTTCAGATCTTAGTTTCATAATATTTCATGA-TTTATGTGCACTTGAAATCACAGCA
* *
19798419 GTACCCCGGGAGGTGCA
125 GTACCCCGGAAAGTGCA
* *
19798436 AAATTACCAAAATACCCTTAAAAGCGTATTTTTGTAATTTGGTGTTCCCTAGCTTGAAAATTTTT
1 AAATTACCAAAATACCCTTAAAAG-GTATTTTCGTAATTTGGT-TT-TCTAGCTTGAAAATTTTT
*
19798501 GAAACTTTTCAGATCTTAGTTTCATAATATTTCATGATTTATGATTCACTTGAAATCACAGCAGT
63 GAAACTTTTCAGATCTTAGTTTCATAATATTTCATGATTTATG-TGCACTTGAAATCACAGCAGT
**
19798566 ACCCTTGAAAGTGCA
127 ACCCCGGAAAGTGCA
* * * * * *
19798581 AAATTACCAAAATACCCTTATAAGGGTATTTTGGTAATTTGGCCTTTCTAAG-ATCATAATTTTA
1 AAATTACCAAAATACCCTTA-AAAGGTATTTTCGTAATTTGG-TTTTCT-AGCTTGAAAATTTT-
* *
19798645 TGAAACCTTTCAGATCTTAGTTTTATAATATTTCATGATTT
62 TGAAACTTTTCAGATCTTAGTTTCATAATATTTCATGATTT
19798686 TTGGTGTTTT
Statistics
Matches: 217, Mismatches: 22, Indels: 21
0.83 0.08 0.08
Matches are distributed among these distances:
142 1 0.00
143 6 0.03
144 61 0.28
145 146 0.67
146 3 0.01
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.39
Consensus pattern (141 bp):
AAATTACCAAAATACCCTTAAAAGGTATTTTCGTAATTTGGTTTTCTAGCTTGAAAATTTTTGAA
ACTTTTCAGATCTTAGTTTCATAATATTTCATGATTTATGTGCACTTGAAATCACAGCAGTACCC
CGGAAAGTGCA
Found at i:19798950 original size:17 final size:17
Alignment explanation
Indices: 19798930--19798968 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
19798920 AGATTTCATC
*
19798930 CAAGGGTACATTTTGAT
1 CAAGAGTACATTTTGAT
* *
19798947 CAAGATTGCATTTTGAT
1 CAAGAGTACATTTTGAT
19798964 CAAGA
1 CAAGA
19798969 TTGAGATCTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.33, C:0.13, G:0.21, T:0.33
Consensus pattern (17 bp):
CAAGAGTACATTTTGAT
Found at i:19798969 original size:17 final size:17
Alignment explanation
Indices: 19798938--19798971 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
19798928 TCCAAGGGTA
19798938 CATTTTGATCAAGATTG
1 CATTTTGATCAAGATTG
19798955 CATTTTGATCAAGATTG
1 CATTTTGATCAAGATTG
19798972 AGATCTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.41
Consensus pattern (17 bp):
CATTTTGATCAAGATTG
Found at i:19799987 original size:183 final size:183
Alignment explanation
Indices: 19799679--19800045 Score: 707
Period size: 183 Copynumber: 2.0 Consensus size: 183
19799669 TTTCTTTCCA
19799679 TCCTTCATATGAATGTGCAGTTTTGGGGGGGCTGTTTCCATGTCATTTTATTCAATTTTTTTGTA
1 TCCTTCATATGAATGTGCAGTTTTGGGGGGGCTGTTTCCATGTCATTTTATTCAATTTTTTTGTA
19799744 GCAAGTTACCTTGCATTTTAGGTTTATTCTTGAGGGTCCATAGTTGTTCATTAAAATGTACTTAT
66 GCAAGTTACCTTGCATTTTAGGTTTATTCTTGAGGGTCCATAGTTGTTCATTAAAATGTACTTAT
*
19799809 GGGTGAAGAAATATGCAAAGTTTTTATGCTTATTACTTAATGGTTGTTCATGG
131 GGGTGAAGAAATAAGCAAAGTTTTTATGCTTATTACTTAATGGTTGTTCATGG
*
19799862 TCCTTCATATGAATGTGCTGTTTTGGGGGGGCTGTTTCCATGTCATTTTATTCAATTTTTTTGTA
1 TCCTTCATATGAATGTGCAGTTTTGGGGGGGCTGTTTCCATGTCATTTTATTCAATTTTTTTGTA
*
19799927 GCAAGTTACCTTGCATTTTATGTTTATTCTTGAGGGTCCATAGTTGTTCATTAAAATGTACTTAT
66 GCAAGTTACCTTGCATTTTAGGTTTATTCTTGAGGGTCCATAGTTGTTCATTAAAATGTACTTAT
19799992 GGGTGAAGAAATAAGCAAAGTTTTTATGCTTATTACTTAATGGTTGTTCATGG
131 GGGTGAAGAAATAAGCAAAGTTTTTATGCTTATTACTTAATGGTTGTTCATGG
19800045 T
1 T
19800046 ATACAAAAAT
Statistics
Matches: 181, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
183 181 1.00
ACGTcount: A:0.23, C:0.12, G:0.21, T:0.44
Consensus pattern (183 bp):
TCCTTCATATGAATGTGCAGTTTTGGGGGGGCTGTTTCCATGTCATTTTATTCAATTTTTTTGTA
GCAAGTTACCTTGCATTTTAGGTTTATTCTTGAGGGTCCATAGTTGTTCATTAAAATGTACTTAT
GGGTGAAGAAATAAGCAAAGTTTTTATGCTTATTACTTAATGGTTGTTCATGG
Found at i:19801465 original size:20 final size:21
Alignment explanation
Indices: 19801427--19801466 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
19801417 AGAAACGAGT
*
19801427 TTAAGAAAATACTATATGTTC
1 TTAAGAAAATACTACATGTTC
*
19801448 TTAA-AAAATATTACATGTT
1 TTAAGAAAATACTACATGTT
19801467 ATGTTTTCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.40
Consensus pattern (21 bp):
TTAAGAAAATACTACATGTTC
Found at i:19802475 original size:11 final size:11
Alignment explanation
Indices: 19802459--19802486 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
19802449 AAGACATGTT
19802459 AAAAAAAAGAA
1 AAAAAAAAGAA
19802470 AAAAAAAAGAA
1 AAAAAAAAGAA
19802481 AAAAAA
1 AAAAAA
19802487 TTGTTATGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (11 bp):
AAAAAAAAGAA
Found at i:19803913 original size:31 final size:30
Alignment explanation
Indices: 19803861--19803943 Score: 96
Period size: 31 Copynumber: 2.7 Consensus size: 30
19803851 GCACCTAGGT
* *
19803861 TTTAAGCTTAGATTATCTGGCATCAATGA-A
1 TTTAAGCTTAG-TTAGCTGGCATCAACGAGA
*
19803891 GTCTTAAGCCTAGTTAGCTGGCATCAACGAGA
1 -T-TTAAGCTTAGTTAGCTGGCATCAACGAGA
19803923 TTTAAGCTTAGTATAGCTGGC
1 TTTAAGCTTAGT-TAGCTGGC
19803944 TTACAAGCCC
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
30 10 0.22
31 25 0.56
32 10 0.22
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.33
Consensus pattern (30 bp):
TTTAAGCTTAGTTAGCTGGCATCAACGAGA
Found at i:19804144 original size:3 final size:3
Alignment explanation
Indices: 19804136--19804246 Score: 147
Period size: 3 Copynumber: 37.7 Consensus size: 3
19804126 GTTTAGTATG
* *
19804136 TTA TTA TTA TTA TTA TTA TTA -TA GTA TCA -TA TT- TATA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
* * *
19804179 TTA TTA TTG TTA TTA TTA GTG TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
19804227 TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TT
19804247 TTCTTTCTTT
Statistics
Matches: 95, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
2 4 0.04
3 90 0.95
4 1 0.01
ACGTcount: A:0.32, C:0.01, G:0.04, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:19805091 original size:22 final size:22
Alignment explanation
Indices: 19805063--19805112 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
19805053 CATGTTTTTT
19805063 TTTTTTTTA-TTTTATATTTAAA
1 TTTTTTTTACTTTTAT-TTTAAA
*
19805085 TTTTTTTTACTTTTATTTTCAA
1 TTTTTTTTACTTTTATTTTAAA
19805107 TTTTTT
1 TTTTTT
19805113 ATTTTACTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 20 0.77
23 6 0.23
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (22 bp):
TTTTTTTTACTTTTATTTTAAA
Found at i:19805207 original size:20 final size:20
Alignment explanation
Indices: 19805184--19805233 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
19805174 TGTTTTTACT
*
19805184 AAAAAAAAAGAGACAA-AAAC
1 AAAAAAAAAGA-AAAAGAAAC
*
19805204 AAAAGAAAAGAAAAAGAAAC
1 AAAAAAAAAGAAAAAGAAAC
19805224 AAAACAAAAA
1 AAAA-AAAAA
19805234 ATAAATCTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 3 0.12
20 18 0.72
21 4 0.16
ACGTcount: A:0.82, C:0.08, G:0.10, T:0.00
Consensus pattern (20 bp):
AAAAAAAAAGAAAAAGAAAC
Found at i:19805233 original size:26 final size:25
Alignment explanation
Indices: 19805184--19805232 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
19805174 TGTTTTTACT
*
19805184 AAAAAAAAAGAGACAAAAACAAAAG
1 AAAAAAAAAGAAACAAAAACAAAAG
19805209 AAAAGAAAAAGAAAC-AAAACAAAA
1 AAAA-AAAAAGAAACAAAAACAAAA
19805233 AATAAATCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 13 0.59
26 9 0.41
ACGTcount: A:0.82, C:0.08, G:0.10, T:0.00
Consensus pattern (25 bp):
AAAAAAAAAGAAACAAAAACAAAAG
Found at i:19809543 original size:10 final size:10
Alignment explanation
Indices: 19809530--19809573 Score: 63
Period size: 10 Copynumber: 4.5 Consensus size: 10
19809520 AAAAACTATT
*
19809530 AAAAAGGAAA
1 AAAAAAGAAA
19809540 AAAAAAGAAA
1 AAAAAAGAAA
19809550 AAAAAAG-AA
1 AAAAAAGAAA
*
19809559 AGAAAAGAAA
1 AAAAAAGAAA
19809569 AAAAA
1 AAAAA
19809574 TGAGAAATTG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
9 8 0.27
10 22 0.73
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (10 bp):
AAAAAAGAAA
Found at i:19809560 original size:14 final size:13
Alignment explanation
Indices: 19809537--19809573 Score: 56
Period size: 14 Copynumber: 2.7 Consensus size: 13
19809527 ATTAAAAAGG
19809537 AAAAAAAAAGAAA
1 AAAAAAAAAGAAA
19809550 AAAAAAGAAAGAAA
1 AAAAAA-AAAGAAA
19809564 AGAAAAAAAA
1 A-AAAAAAAA
19809574 TGAGAAATTG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 6 0.27
14 11 0.50
15 5 0.23
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAGAAA
Found at i:19809573 original size:9 final size:9
Alignment explanation
Indices: 19809538--19809573 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
19809528 TTAAAAAGGA
19809538 AAAAAAAAG
1 AAAAAAAAG
19809547 AAAAAAAAAG
1 -AAAAAAAAG
*
19809557 AAAGAAAAG
1 AAAAAAAAG
19809566 AAAAAAAA
1 AAAAAAAA
19809574 TGAGAAATTG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
9 15 0.62
10 9 0.38
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:19809855 original size:15 final size:16
Alignment explanation
Indices: 19809830--19809860 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
19809820 TAGATCAAAG
19809830 GAAAAAGAAATGAGAA
1 GAAAAAGAAATGAGAA
19809846 GAAAAA-AAATGAGAA
1 GAAAAAGAAATGAGAA
19809861 AAAGTGTGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.71, C:0.00, G:0.23, T:0.06
Consensus pattern (16 bp):
GAAAAAGAAATGAGAA
Found at i:19811230 original size:55 final size:55
Alignment explanation
Indices: 19811159--19811361 Score: 196
Period size: 55 Copynumber: 3.7 Consensus size: 55
19811149 CCCAGTTATC
* * * *
19811159 TGATATTGGCTTAGTCTAGATCATTTTTCAGACTTGTAATTTCATCTCGGTCATC
1 TGATCTTGGCTTAGTCCAGATCATTTTTCAGACTTGTGATTTCATCTCGGTCATT
* * * * * * * * * *
19811214 CGATCTTAGCTCAGTCTAGATGATTTTTTAAACTTATGGTTTCATCTCAGTCATT
1 TGATCTTGGCTTAGTCCAGATCATTTTTCAGACTTGTGATTTCATCTCGGTCATT
* * * *
19811269 TAATCTTGGCTTAGCCCAAATCA-TTTTCTTGACTTGTGA-TTCAATCTCGGTCATT
1 TGATCTTGGCTTAGTCCAGATCATTTTTC-AGACTTGTGATTTC-ATCTCGGTCATT
19811324 TGATCTTGGCTTAGTCCAGATCATTTTT-ATGACTTGTG
1 TGATCTTGGCTTAGTCCAGATCATTTTTCA-GACTTGTG
19811362 GCTCAATCTT
Statistics
Matches: 114, Mismatches: 30, Indels: 8
0.75 0.20 0.05
Matches are distributed among these distances:
54 7 0.06
55 103 0.90
56 4 0.04
ACGTcount: A:0.22, C:0.19, G:0.16, T:0.43
Consensus pattern (55 bp):
TGATCTTGGCTTAGTCCAGATCATTTTTCAGACTTGTGATTTCATCTCGGTCATT
Found at i:19811368 original size:55 final size:53
Alignment explanation
Indices: 19811159--19811421 Score: 186
Period size: 55 Copynumber: 4.8 Consensus size: 53
19811149 CCCAGTTATC
* * * ** *
19811159 TGATATTGGCTTAGTCTAGATCATTTTTCAGACTTGTAATTTCATCTCGGTCATC
1 TGATCTTGGCTTAGTCCAGATCATTTTT-TGACTTGT-GGTTCATCTCGGTCATT
* * * * * * * *
19811214 CGATCTTAGCTCAGTCTAGATGATTTTTTAAACTTATGGTTTCATCTCAGTCATT
1 TGATCTTGGCTTAGTCCAGATCATTTTTT-GACTTGTGG-TTCATCTCGGTCATT
* * * *
19811269 TAATCTTGGCTTAGCCCAAATCATTTTCTTGACTTGTGATTCAATCTCGGTCATT
1 TGATCTTGGCTTAGTCCAGATCATTTT-TTGACTTGTGGTTC-ATCTCGGTCATT
* * * *
19811324 TGATCTTGGCTTAGTCCAGATCATTTTTATGACTTGTGGCTCAATCTTGTTCATC
1 TGATCTTGGCTTAGTCCAGATCATTTTT-TGACTTGTGGTTC-ATCTCGGTCATT
* * * * *
19811379 CGATCTTGG-TTCAATCCATATCATTGTCTTGATTTGTGGTTCA
1 TGATCTTGGCTT-AGTCCAGATCATT-TTTTGACTTGTGGTTCA
19811422 ATCCTGGTCA
Statistics
Matches: 163, Mismatches: 38, Indels: 15
0.75 0.18 0.07
Matches are distributed among these distances:
54 7 0.04
55 152 0.93
56 4 0.02
ACGTcount: A:0.21, C:0.19, G:0.16, T:0.43
Consensus pattern (53 bp):
TGATCTTGGCTTAGTCCAGATCATTTTTTGACTTGTGGTTCATCTCGGTCATT
Found at i:19811803 original size:3 final size:3
Alignment explanation
Indices: 19811797--19811966 Score: 147
Period size: 3 Copynumber: 57.7 Consensus size: 3
19811787 GTTGTTGTTG
*
19811797 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * ** *
19811845 TTA TTT TTA TTA TTA TTA TTA -TA GTA TGG TGTA GTA TTA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
* * * *
19811889 TAA TATA TTG TATA TTA TTA TTA TTA -TA GTA TCA -TA TT- TATA TTA
1 TTA T-TA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
* *
19811934 TTA TTA GTG TTA TTA TTA TTA TT- TT- TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
19811967 TTTTTTGTTT
Statistics
Matches: 135, Mismatches: 22, Indels: 20
0.76 0.12 0.11
Matches are distributed among these distances:
2 12 0.09
3 118 0.87
4 5 0.04
ACGTcount: A:0.31, C:0.01, G:0.05, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:19811890 original size:23 final size:23
Alignment explanation
Indices: 19811855--19811955 Score: 88
Period size: 23 Copynumber: 4.5 Consensus size: 23
19811845 TTATTTTTAT
* *
19811855 TATTATTATTATAGTATGGTGTA
1 TATTATTATTATAATATAGTGTA
*
19811878 GTATTA-TATTATAATATATTGTA
1 -TATTATTATTATAATATAGTGTA
*
19811901 TATTATTATTAT--TATAGTATCA
1 TATTATTATTATAATATAGTGT-A
*
19811923 TATT-TATATTATTAT-TAGTGT-
1 TATTAT-TATTATAATATAGTGTA
19811944 TATTATTATTAT
1 TATTATTATTAT
19811956 TTTTTATTAT
Statistics
Matches: 65, Mismatches: 6, Indels: 15
0.76 0.07 0.17
Matches are distributed among these distances:
21 17 0.26
22 17 0.26
23 25 0.38
24 6 0.09
ACGTcount: A:0.34, C:0.01, G:0.09, T:0.56
Consensus pattern (23 bp):
TATTATTATTATAATATAGTGTA
Found at i:19812804 original size:19 final size:19
Alignment explanation
Indices: 19812776--19812822 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
19812766 TTGATCGTAG
*
19812776 GTTTTTTTTTTCAATTTTA
1 GTTTTATTTTTCAATTTTA
**
19812795 GTTTTATTTTTTGATTTTA
1 GTTTTATTTTTCAATTTTA
*
19812814 TTTTTATTT
1 GTTTTATTT
19812823 ATTTTATATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.15, C:0.02, G:0.06, T:0.77
Consensus pattern (19 bp):
GTTTTATTTTTCAATTTTA
Found at i:19812806 original size:13 final size:13
Alignment explanation
Indices: 19812796--19812847 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
19812786 TCAATTTTAG
19812796 TTTTATTTTTTGA
1 TTTTATTTTTTGA
*
19812809 TTTTATTTTTATTTA
1 TTTTA-TTTT-TTGA
*
19812824 TTTTATATTTTGA
1 TTTTATTTTTTGA
* *
19812837 ATTTCTTTTTT
1 TTTTATTTTTT
19812848 ACTTTTTTTA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
13 16 0.52
14 7 0.23
15 8 0.26
ACGTcount: A:0.17, C:0.02, G:0.04, T:0.77
Consensus pattern (13 bp):
TTTTATTTTTTGA
Found at i:19812828 original size:28 final size:29
Alignment explanation
Indices: 19812791--19812880 Score: 96
Period size: 29 Copynumber: 3.0 Consensus size: 29
19812781 TTTTTTCAAT
19812791 TTTAGTTTTATTTTTTGATTTTATTTTTA-
1 TTTA-TTTTATTTTTTGATTTTATTTTTAC
*
19812820 TTTATTTTATATTTTGAATTTCT-TTTTTAC
1 TTTATTTTATTTTTTG-ATTT-TATTTTTAC
*
19812850 TTT-TTTTATTTTATTGACTATTATTTTTAC
1 TTTATTTTATTTT-TTGA-TTTTATTTTTAC
19812880 T
1 T
19812881 GGGTAATTTA
Statistics
Matches: 52, Mismatches: 3, Indels: 11
0.79 0.05 0.17
Matches are distributed among these distances:
28 11 0.21
29 24 0.46
30 17 0.33
ACGTcount: A:0.19, C:0.04, G:0.04, T:0.72
Consensus pattern (29 bp):
TTTATTTTATTTTTTGATTTTATTTTTAC
Found at i:19814150 original size:33 final size:33
Alignment explanation
Indices: 19814113--19814186 Score: 94
Period size: 33 Copynumber: 2.2 Consensus size: 33
19814103 TGACACCCAA
* * *
19814113 ATTTAAGTCCAATTTATATGGCCCCAAAAAGAG
1 ATTTAAGCCCAATTTATATAGCACCAAAAAGAG
* * *
19814146 ATTTAAGCCCAGTTTATTTAGCACCAAAGAGAG
1 ATTTAAGCCCAATTTATATAGCACCAAAAAGAG
19814179 ATTTAAGC
1 ATTTAAGC
19814187 TTAACTTAAC
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (33 bp):
ATTTAAGCCCAATTTATATAGCACCAAAAAGAG
Found at i:19814353 original size:36 final size:33
Alignment explanation
Indices: 19814277--19814368 Score: 103
Period size: 33 Copynumber: 2.7 Consensus size: 33
19814267 CATGTCAAAC
* *
19814277 TTAAGCCCAATTTATTTGGGACCAAAAAAAGAT
1 TTAAGCCCAAATTATTTGGCACCAAAAAAAGAT
**
19814310 TTAAGCCCAAATTATTTAGCGCACCATGAAAAGATT
1 TTAAGCCCAAATTATTT-G-GCACCAAAAAAAGA-T
* *
19814346 TTAAGCCCAATTTAGTTGGCACC
1 TTAAGCCCAAATTATTTGGCACC
19814369 TAATTTTAAG
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
33 16 0.32
34 6 0.12
35 12 0.24
36 16 0.32
ACGTcount: A:0.37, C:0.20, G:0.15, T:0.28
Consensus pattern (33 bp):
TTAAGCCCAAATTATTTGGCACCAAAAAAAGAT
Found at i:19814388 original size:28 final size:28
Alignment explanation
Indices: 19814343--19814402 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
19814333 CCATGAAAAG
* *
19814343 ATTTTAAGCCCAATTTAGTTGGCACCTA
1 ATTTTAAGCCCAATTTAGCTGGCACCAA
*
19814371 ATTTTAAGCCTAGA-TTAGCTGGCACCAA
1 ATTTTAAGCCCA-ATTTAGCTGGCACCAA
19814399 ATTT
1 ATTT
19814403 AAATCCAGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 27 0.96
29 1 0.04
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (28 bp):
ATTTTAAGCCCAATTTAGCTGGCACCAA
Found at i:19814617 original size:33 final size:32
Alignment explanation
Indices: 19814524--19814620 Score: 87
Period size: 33 Copynumber: 3.1 Consensus size: 32
19814514 TACACCAGCA
* *
19814524 GAAGATTTAAGCCCAGCTTAGTTGACACC--T
1 GAAGTTTTAAGCCCAGATTAGTTGACACCAAT
* * *
19814554 -AA-TTTTAAGCCTAGTTTAGCTAGTAC-CCAAT
1 GAAGTTTTAAGCCCAGATTAG-TTG-ACACCAAT
19814585 GAAGTTTTAAGCCCAGATTAGTTGACATCCAAT
1 GAAGTTTTAAGCCCAGATTAGTTGACA-CCAAT
19814618 GAA
1 GAA
19814621 AATTTAAACC
Statistics
Matches: 52, Mismatches: 7, Indels: 13
0.72 0.10 0.18
Matches are distributed among these distances:
28 14 0.27
29 6 0.12
30 2 0.04
31 3 0.06
32 4 0.08
33 23 0.44
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.30
Consensus pattern (32 bp):
GAAGTTTTAAGCCCAGATTAGTTGACACCAAT
Found at i:19814644 original size:33 final size:33
Alignment explanation
Indices: 19814580--19814645 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 33
19814570 TAGCTAGTAC
** * **
19814580 CCAATGAAGTTTTAAGCCCAGATTAGTTGACAT
1 CCAATGAAAATTTAAACCCAGATTAACTGACAT
*
19814613 CCAATGAAAATTTAAACCCAGTTTAACTGACAT
1 CCAATGAAAATTTAAACCCAGATTAACTGACAT
19814646 ATAAGCCTAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.38, C:0.20, G:0.14, T:0.29
Consensus pattern (33 bp):
CCAATGAAAATTTAAACCCAGATTAACTGACAT
Found at i:19817137 original size:15 final size:15
Alignment explanation
Indices: 19817086--19817156 Score: 63
Period size: 16 Copynumber: 4.7 Consensus size: 15
19817076 CCTTCCAAAC
*
19817086 CCTAAAACCTCTAAAT
1 CCTAAAA-CTCAAAAT
* *
19817102 CTTAAAACTTCGAAAT
1 CCTAAAAC-TCAAAAT
*
19817118 GCTAAAACTCAAAAT
1 CCTAAAACTCAAAAT
* *
19817133 CCTAAAA-TCCAAAC
1 CCTAAAACTCAAAAT
19817147 CCTAAAACTC
1 CCTAAAACTC
19817157 TTCAAACCTT
Statistics
Matches: 45, Mismatches: 8, Indels: 5
0.78 0.14 0.09
Matches are distributed among these distances:
14 12 0.27
15 15 0.33
16 18 0.40
ACGTcount: A:0.46, C:0.28, G:0.03, T:0.23
Consensus pattern (15 bp):
CCTAAAACTCAAAAT
Found at i:19818396 original size:13 final size:13
Alignment explanation
Indices: 19818378--19818409 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
19818368 AAATTACCAC
19818378 AATATTCAATTAT
1 AATATTCAATTAT
*
19818391 AATATTCTATTAT
1 AATATTCAATTAT
19818404 AATATT
1 AATATT
19818410 GAAAAATCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (13 bp):
AATATTCAATTAT
Found at i:19819197 original size:16 final size:15
Alignment explanation
Indices: 19819170--19819218 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
19819160 GGATATATTA
19819170 ATTAAA-TTATTAAT
1 ATTAAATTTATTAAT
19819184 ATTACAATTTATTAAT
1 ATTA-AATTTATTAAT
*
19819200 A-TAAATTATAATAAT
1 ATTAAATT-TATTAAT
19819215 ATTA
1 ATTA
19819219 TTTTTAATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
14 8 0.27
15 11 0.37
16 11 0.37
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (15 bp):
ATTAAATTTATTAAT
Found at i:19819221 original size:28 final size:29
Alignment explanation
Indices: 19819165--19819243 Score: 83
Period size: 28 Copynumber: 2.8 Consensus size: 29
19819155 AATTTGGATA
*
19819165 TATTAAT-TAAATTATTAATATTACAATT
1 TATTAATATAAATTATTAATAATACAATT
**
19819193 TATTAATATAAATTA-TAATAATATTATT
1 TATTAATATAAATTATTAATAATACAATT
* *
19819221 T-TTAATATGATAGTATTAATAAT
1 TATTAATAT-AAATTATTAATAAT
19819244 TAATAATGTA
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
27 7 0.16
28 22 0.51
29 14 0.33
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (29 bp):
TATTAATATAAATTATTAATAATACAATT
Found at i:19819617 original size:17 final size:17
Alignment explanation
Indices: 19819595--19819629 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
19819585 TAAAATTATT
19819595 AAATTAAAATAATATAA
1 AAATTAAAATAATATAA
* *
19819612 AAATTAAATTTATATAA
1 AAATTAAAATAATATAA
19819629 A
1 A
19819630 TTACAGTATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAATTAAAATAATATAA
Found at i:19819625 original size:15 final size:15
Alignment explanation
Indices: 19819607--19819650 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 15
19819597 ATTAAAATAA
19819607 TATAAAAATTAAATT
1 TATAAAAATTAAATT
* * *
19819622 TATATAAATTACA-G
1 TATAAAAATTAAATT
19819636 TATAAAAATTAAATT
1 TATAAAAATTAAATT
19819651 CTAAAGAATA
Statistics
Matches: 22, Mismatches: 6, Indels: 2
0.73 0.20 0.07
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (15 bp):
TATAAAAATTAAATT
Found at i:19821519 original size:45 final size:48
Alignment explanation
Indices: 19821468--19821558 Score: 134
Period size: 50 Copynumber: 1.9 Consensus size: 48
19821458 TTATGAGATA
19821468 TGGTCTAAATTTACCA-CT-C-TGGGTGATAAATCATATTTATAGCCT
1 TGGTCTAAATTTACCACCTACTTGGGTGATAAATCATATTTATAGCCT
*
19821513 TGGTCTATATTTACCACTCTACTTTGGGTGATAAATCATATTTATA
1 TGGTCTAAATTTACCAC-CTAC-TTGGGTGATAAATCATATTTATA
19821559 ACCTATCTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
45 15 0.38
47 2 0.05
48 1 0.03
50 22 0.55
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (48 bp):
TGGTCTAAATTTACCACCTACTTGGGTGATAAATCATATTTATAGCCT
Found at i:19821809 original size:2 final size:2
Alignment explanation
Indices: 19821802--19821845 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
19821792 AGGTCTTTAC
19821802 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
19821844 CA
1 CA
19821846 TATATATATA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:19824919 original size:24 final size:24
Alignment explanation
Indices: 19824887--19824932 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
19824877 GTTCCTAGCA
19824887 ACAACTTGTTACCAATTAGAAAAG
1 ACAACTTGTTACCAATTAGAAAAG
19824911 ACAACTTGTTACCAATTAGAAA
1 ACAACTTGTTACCAATTAGAAA
19824933 TGCTAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.46, C:0.17, G:0.11, T:0.26
Consensus pattern (24 bp):
ACAACTTGTTACCAATTAGAAAAG
Found at i:19826356 original size:211 final size:209
Alignment explanation
Indices: 19825987--19826411 Score: 652
Period size: 211 Copynumber: 2.0 Consensus size: 209
19825977 TGTTATACCA
*
19825987 TTCAAAGTAGATTAAATGAATTTTTTCTATCAAAGAAAGTTTAGGTGGTATCCTTGAAAGTTTGA
1 TTCAAAGTAGATTAAATGAATTTTTTCTATCAAAGAAAGTTTAGGTGATATCCTTGAAAGTTTGA
* * * * * *
19826052 GTAATTTTCCTTCCTGCCTTTAGGAAAAATTAGATATGTAAAGTTACTAAAAACCAAAATCATAA
66 GCAATTTTCCTTCCTACATTTACGAAAAAGTAGATATGTAAAGTTACTAAAAACCAAAATCACAA
*
19826117 AAATTTTTATTTTTGAAAATAATATAAAATATAGGTGATTATCAAAAAAAAATTGTTGGTATGAA
131 AAATTTTTATTTTTGAAAATAATATAAAATATAGGTGATTATC-AAAAAAAATTGTTGGTATAAA
19826182 ATTTGAGTTGAAAACC
195 ATTTGAG-TGAAAACC
* *
19826198 TTCAAAGTAGATTAAATGAATTTTTTCTTTCAAAGAAAGTTTAGGTGATATCTTTGAAAGTTTGA
1 TTCAAAGTAGATTAAATGAATTTTTTCTATCAAAGAAAGTTTAGGTGATATCCTTGAAAGTTTGA
* * * *
19826263 GCAATTTTCCTTCTTATATTTACGAAAAAGTAGATATGTAAAGTTATTAAAAACCAAAATCACGA
66 GCAATTTTCCTTCCTACATTTACGAAAAAGTAGATATGTAAAGTTACTAAAAACCAAAATCACAA
* * * ***
19826328 AAATTTTTATTTTTGAAAATACTATAAAATATTGGTGATTATCCAAAATTTTTGTTGGTATAAAA
131 AAATTTTTATTTTTGAAAATAATATAAAATATAGGTGATTATCAAAAAAAATTGTTGGTATAAAA
19826393 TTTGAGTGAAAACC
196 TTTGAGTGAAAACC
19826407 TTCAA
1 TTCAA
19826412 TGGAACATAT
Statistics
Matches: 194, Mismatches: 20, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
209 13 0.07
210 23 0.12
211 158 0.81
ACGTcount: A:0.40, C:0.09, G:0.14, T:0.37
Consensus pattern (209 bp):
TTCAAAGTAGATTAAATGAATTTTTTCTATCAAAGAAAGTTTAGGTGATATCCTTGAAAGTTTGA
GCAATTTTCCTTCCTACATTTACGAAAAAGTAGATATGTAAAGTTACTAAAAACCAAAATCACAA
AAATTTTTATTTTTGAAAATAATATAAAATATAGGTGATTATCAAAAAAAATTGTTGGTATAAAA
TTTGAGTGAAAACC
Found at i:19827924 original size:2 final size:2
Alignment explanation
Indices: 19827919--19827949 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
19827909 CACACACATA
*
19827919 AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
19827950 AGGTAAGTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 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):
AT
Found at i:19829348 original size:57 final size:58
Alignment explanation
Indices: 19829227--19829437 Score: 311
Period size: 58 Copynumber: 3.7 Consensus size: 58
19829217 TTAAAAATAT
* * *
19829227 ATATTTTTAAGGAAAAGTT-AGAAGTATCAATTTTTCTTGCAAATAAAATTTTTAAAAA
1 ATATTTTTAAGGAAAAGTTGA-AAGTATCAATTTTCCTTGAAAATAAAATTTCTAAAAA
*
19829285 ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAA-TTCTAAAAA
1 ATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTCTAAAAA
* *
19829342 ATATTTTTGAGGAAAAGTTAAAAGTATCAATTTTCCTTGAAAATAAAAATTTCTAAAAA
1 ATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT-AAAATTTCTAAAAA
**
19829401 AT-GCTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTT
1 ATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTT
19829438 ATATAAAAGC
Statistics
Matches: 141, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
57 51 0.36
58 78 0.55
59 12 0.09
ACGTcount: A:0.44, C:0.07, G:0.12, T:0.37
Consensus pattern (58 bp):
ATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTCTAAAAA
Found at i:19829355 original size:115 final size:115
Alignment explanation
Indices: 19829227--19829437 Score: 334
Period size: 115 Copynumber: 1.8 Consensus size: 115
19829217 TTAAAAATAT
* * * * **
19829227 ATATTTTTAAGGAAAAGTTAGAAGTATCAATTTTTCTTGCAAAT-AAAATTTTTAAAAAATATTT
1 ATATTTTTAAGGAAAAGTTAAAAGTATCAATTTTCCTTGAAAATAAAAATTTCTAAAAAAT-GCT
*
19829291 TTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTCTAAAAA
65 TTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTCTAAAAA
*
19829342 ATATTTTTGAGGAAAAGTTAAAAGTATCAATTTTCCTTGAAAATAAAAATTTCTAAAAAATGCTT
1 ATATTTTTAAGGAAAAGTTAAAAGTATCAATTTTCCTTGAAAATAAAAATTTCTAAAAAATGCTT
19829407 TAAGGAAAAGTTGAAAGTATCAATTTTCCTT
66 TAAGGAAAAGTTGAAAGTATCAATTTTCCTT
19829438 ATATAAAAGC
Statistics
Matches: 87, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
115 72 0.83
116 15 0.17
ACGTcount: A:0.44, C:0.07, G:0.12, T:0.37
Consensus pattern (115 bp):
ATATTTTTAAGGAAAAGTTAAAAGTATCAATTTTCCTTGAAAATAAAAATTTCTAAAAAATGCTT
TAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTCTAAAAA
Found at i:19831024 original size:299 final size:293
Alignment explanation
Indices: 19830434--19831027 Score: 845
Period size: 299 Copynumber: 2.0 Consensus size: 293
19830424 TTTATTAGGC
* * *
19830434 ATAAATTACTCTCAATTTAAGATACTATTACTCTTAATTTGGTTTTTAATTTATTTTAGTCAATT
1 ATAAATTACTCTCAATTCAAGATACTATAACTCTTAATTTGGTTCTTAATTTATTTTAGTCAATT
*
19830499 AATCACTTAAAAATAAATGTTAATAAGAATCACTGAATATGTGTTATAAGAATGGAAAGAAGATA
66 AATCACTTAAAAATAAATGTTAATAAGAATCACTAAATATGTGTTATAAGAATGGAAAGAAGATA
*
19830564 TTTTAAATTAAATTTATTTTATCATTAAATTCTAAATTTTAAATTTTAAATGTATAATTAATTTT
131 TTTTAAATTAAATTTATTTTATC-----AGTCTAAATTTTAAATTTTAAATGTATAATTAATTTT
* * * * * **
19830629 TAACATATGTCAATTTTTTAGATTGTCCACATGTTGAAAATGTAAATTATCCATGTCAAATTATT
191 GAACACATATCAATTTTTTAGATTGTCCACATGTCGAAAATATAAATTATCCACATCAAATTATT
19830694 TCCTTTTTTGTTAGAGACTTTGATTTTTATATATTTAT
256 TCCTTTTTTGTTAGAGACTTTGATTTTTATATATTTAT
19830732 ATAAGATTACTCTCAATTCAA-ATTACTATAACTCTTAATTTGGTTCTTAATTTATTTTAGTCAA
1 ATAA-ATTACTCTCAATTCAAGA-TACTATAACTCTTAATTTGGTTCTTAATTTATTTTAGTCAA
* * * * * * *
19830796 TTAATCATTTAAAAATAAATGTTAATAAGAATTATTAAATGTGTTTTATAATAATGGAAATAAGA
64 TTAATCACTTAAAAATAAATGTTAATAAGAATCACTAAATATGTGTTATAAGAATGGAAAGAAGA
19830861 TATTTTAAATTAAATTTATTTTATC-GT-TAAATTTTAAATTTTAAATGTATAATTAATTTTGAA
129 TATTTTAAATTAAATTTATTTTATCAGTCTAAATTTTAAATTTTAAATGTATAATTAATTTTGAA
* * * * * * *
19830924 CACATATCAATTTTTTATATTGTCTATATGTCGAAAATATAGATTGTCCACATCATATTATTT-T
194 CACATATCAATTTTTTAGATTGTCCACATGTCGAAAATATAAATTATCCACATCAAATTATTTCC
* *
19830988 TTTTTTGTTAGAGGCTTTGACTTTTATATATTTAT
259 TTTTTTGTTAGAGACTTTGATTTTTATATATTTAT
19831023 ATAAA
1 ATAAA
19831028 ATTATTATTA
Statistics
Matches: 266, Mismatches: 28, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
290 1 0.00
291 37 0.14
292 86 0.32
293 1 0.00
298 5 0.02
299 136 0.51
ACGTcount: A:0.37, C:0.08, G:0.08, T:0.46
Consensus pattern (293 bp):
ATAAATTACTCTCAATTCAAGATACTATAACTCTTAATTTGGTTCTTAATTTATTTTAGTCAATT
AATCACTTAAAAATAAATGTTAATAAGAATCACTAAATATGTGTTATAAGAATGGAAAGAAGATA
TTTTAAATTAAATTTATTTTATCAGTCTAAATTTTAAATTTTAAATGTATAATTAATTTTGAACA
CATATCAATTTTTTAGATTGTCCACATGTCGAAAATATAAATTATCCACATCAAATTATTTCCTT
TTTTGTTAGAGACTTTGATTTTTATATATTTAT
Found at i:19831640 original size:408 final size:396
Alignment explanation
Indices: 19830762--19831830 Score: 1521
Period size: 408 Copynumber: 2.7 Consensus size: 396
19830752 AATTACTATA
19830762 ACTCTTAATTTGGTTCTTAATTTATTTTAGTCAATTAATCATTTAAAAATAAATGTTAATAAGAA
1 ACTCTTAATTTGGTTCTTAATTTATTTTAGTCAATTAATCATTTAAAAATAAATGTTAATAAGAA
* * * *
19830827 TTATTAAATGTGTTTTATAATAATGGAAATAAGATATTTTAAATTAAATTTATTTTATCGTT--A
66 TTATTAAATGTATTTTATAAGAATGGAAATAAGATATTTTAAATTAAATTTATTTTACCATTAAA
* * * *
19830890 ---AATTTTAAATTTTAAATGTATAATTAATTTTGAACACATATCAATTTTTTATATTGTCTATA
131 TTTAATTTTAAATTTTAAATGCATAATTAATTTTGAACACATGTCAATTTTTTAGATTGTCCATA
* * *
19830952 TGTCGAAAATATAGATTGTCCACATCATATTATTTTTTTTTTGTTAGAGGCTTTGACTTTTATAT
196 TAT-GAAAATATAGATTATCCACATCAGATTATTTTTTTTTTGTTAGAGGCTTTGACTTTTATAT
*
19831017 A-TT-TAT---ATAAAATTATTATTATTACATTAATTTCAAAATTTTTTTCTCATTTTTCTCAAG
260 ATTTATATAAGATAAAATTATTATTATTACATTAATTTAAAAATTTTTTTCTCATTTTTCTCAAG
* * *
19831077 CGTATTGAATAGACATTATACTTAACTATTCTAATTATCAAGTATAAATTGCTCTTAATTTAAGA
325 CGTATTGAATACACATTATACTTAACTATTCTAATTATCAAGCATAAATTACTCTTAATTTAAGA
*
19831142 CATTGTT
390 CATTATT
* *
19831149 ACTCTTGATTTGGTTTTTAATTTATTTTAGTCAATTAATCATTTAAAAATAAATGTTAATAAGAA
1 ACTCTTAATTTGGTTCTTAATTTATTTTAGTCAATTAATCATTTAAAAATAAATGTTAATAAGAA
* * **
19831214 TCATTGAATGCCTTTTATAAGAATGGAAATAAGATATTTTAAATTAAATTTATTTTACCATTAAA
66 TTATTAAATGTATTTTATAAGAATGGAAATAAGATATTTTAAATTAAATTTATTTTACCATTAAA
*
19831279 TTCTAACTTTTAAATTTTAAATGCATAATTAATTTTGAACACATGTTAATTTTTTAGATTGTCCA
131 TT-TAA-TTTTAAATTTTAAATGCATAATTAATTTTGAACACATGTCAATTTTTTAGATTGTCCA
* * *
19831344 TATATAAAACATATAGATTATCCACATTAGATTATTTCTTTTTTTGTTAGAAGCTTTGACTTTTA
194 TATATGAAA-ATATAGATTATCCACATCAGATTATTT-TTTTTTTGTTAGAGGCTTTGACTTTTA
*
19831409 TATATTTATATAAGATATAAGATAATATTGTCATTATTGCATTAATTTAAAAATCTTTTTTCTCA
257 TATATTTATATAAGATA-AA-AT--TA-T-T-ATTATTACATTAATTTAAAAAT-TTTTTTCTCA
* *
19831474 TTTTTCTCAAGTGTATTGAATACACATTATACTTGACTATTCTAATTATCAAGCATAAATTACTC
314 TTTTTCTCAAGCGTATTGAATACACATTATACTTAACTATTCTAATTATCAAGCATAAATTACTC
*
19831539 TTAATTTAAGATATTATT
379 TTAATTTAAGACATTATT
19831557 ACTCTTAATTTGGTTCTTAATTTATTTTAGTCAATTAATCATTTAAAAATAAATGTTAATAAGAA
1 ACTCTTAATTTGGTTCTTAATTTATTTTAGTCAATTAATCATTTAAAAATAAATGTTAATAAGAA
* *
19831622 TTATTAAATGTATTTTATAGGAATGGAAATAAGATATTTTAAATTAAATTTATTTTACTATTAAA
66 TTATTAAATGTATTTTATAAGAATGGAAATAAGATATTTTAAATTAAATTTATTTTACCATT-AA
* * * * *
19831687 ATTTAAAATTTATATTTGAAATGCATAATTAATTTTGAACACATGTCAATTTCTTAGATTATCCA
130 ATTT-AATTTTAAATTTTAAATGCATAATTAATTTTGAACACATGTCAATTTTTTAGATTGTCCA
* * * * **
19831752 CATGTTGAAAATATA-ACTATCCACATCAGATTATTTTCTTTTTTGTTAGAGGTTTTGGTTTTTA
194 TAT-ATGAAAATATAGATTATCCACATCAGATTATTTT-TTTTTTGTTAGAGGCTTTGACTTTTA
19831816 TATATTTATATAAGA
257 TATATTTATATAAGA
19831831 GTTACGTTTG
Statistics
Matches: 604, Mismatches: 52, Indels: 32
0.88 0.08 0.05
Matches are distributed among these distances:
387 118 0.20
389 1 0.00
393 5 0.01
394 81 0.13
395 30 0.05
396 2 0.00
397 3 0.00
400 3 0.00
401 2 0.00
402 2 0.00
404 2 0.00
405 1 0.00
406 2 0.00
407 76 0.13
408 265 0.44
409 11 0.02
ACGTcount: A:0.37, C:0.09, G:0.08, T:0.46
Consensus pattern (396 bp):
ACTCTTAATTTGGTTCTTAATTTATTTTAGTCAATTAATCATTTAAAAATAAATGTTAATAAGAA
TTATTAAATGTATTTTATAAGAATGGAAATAAGATATTTTAAATTAAATTTATTTTACCATTAAA
TTTAATTTTAAATTTTAAATGCATAATTAATTTTGAACACATGTCAATTTTTTAGATTGTCCATA
TATGAAAATATAGATTATCCACATCAGATTATTTTTTTTTTGTTAGAGGCTTTGACTTTTATATA
TTTATATAAGATAAAATTATTATTATTACATTAATTTAAAAATTTTTTTCTCATTTTTCTCAAGC
GTATTGAATACACATTATACTTAACTATTCTAATTATCAAGCATAAATTACTCTTAATTTAAGAC
ATTATT
Found at i:19838127 original size:13 final size:13
Alignment explanation
Indices: 19838104--19838142 Score: 53
Period size: 14 Copynumber: 3.0 Consensus size: 13
19838094 TATGATTTTG
19838104 GTAAA-AAAAAAT
1 GTAAATAAAAAAT
*
19838116 GTAAATAAAAAAG
1 GTAAATAAAAAAT
19838129 GTAAAATAAAAAAT
1 GT-AAATAAAAAAT
19838143 AAGTTAACTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
12 5 0.22
13 8 0.35
14 10 0.43
ACGTcount: A:0.72, C:0.00, G:0.10, T:0.18
Consensus pattern (13 bp):
GTAAATAAAAAAT
Found at i:19838780 original size:3 final size:3
Alignment explanation
Indices: 19838772--19838807 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
19838762 AGTTTGACAC
19838772 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
19838808 CAGTAATTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:19839194 original size:3 final size:3
Alignment explanation
Indices: 19839188--19839218 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
19839178 AGTAATAATA
*
19839188 ATG ATG ATA ATG ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
19839219 AAATCATGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.39, C:0.00, G:0.29, T:0.32
Consensus pattern (3 bp):
ATG
Found at i:19839203 original size:12 final size:12
Alignment explanation
Indices: 19839182--19839231 Score: 57
Period size: 12 Copynumber: 4.2 Consensus size: 12
19839172 CAATGTAGTA
*
19839182 ATAATAATGATG
1 ATAATGATGATG
19839194 ATAATGATGATG
1 ATAATGATGATG
*
19839206 ATGATGATGATG
1 ATAATGATGATG
* *
19839218 AAAATCATGA-G
1 ATAATGATGATG
19839229 ATA
1 ATA
19839232 TTTGCAAAGG
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
11 3 0.09
12 29 0.91
ACGTcount: A:0.46, C:0.02, G:0.22, T:0.30
Consensus pattern (12 bp):
ATAATGATGATG
Found at i:19850601 original size:40 final size:40
Alignment explanation
Indices: 19850546--19850626 Score: 126
Period size: 40 Copynumber: 2.0 Consensus size: 40
19850536 ATTTACATTG
*
19850546 GCCATTTTATGATAATATAAGATTAATTAATATTATTTTT
1 GCCATTTTAAGATAATATAAGATTAATTAATATTATTTTT
* **
19850586 GCCATTTTAAGATAATATAAGATTCATTGTTATTATTTTT
1 GCCATTTTAAGATAATATAAGATTAATTAATATTATTTTT
19850626 G
1 G
19850627 AATGGATGTT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.35, C:0.06, G:0.10, T:0.49
Consensus pattern (40 bp):
GCCATTTTAAGATAATATAAGATTAATTAATATTATTTTT
Found at i:19852489 original size:1 final size:1
Alignment explanation
Indices: 19852483--19852510 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
19852473 TGCAAAGAAG
19852483 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
19852511 CTCCATTGCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:19853735 original size:13 final size:13
Alignment explanation
Indices: 19853717--19853741 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19853707 CAAATCTTAC
19853717 TTTTTATTTTTAT
1 TTTTTATTTTTAT
19853730 TTTTTATTTTTA
1 TTTTTATTTTTA
19853742 GCAATAGCCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTTATTTTTAT
Found at i:19857335 original size:19 final size:20
Alignment explanation
Indices: 19857311--19857350 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
19857301 GTGAGGGTTT
19857311 GAGAA-GTGACTTTTTGCTG
1 GAGAAGGTGACTTTTTGCTG
19857330 GAGAAGGTGTGACTTTTTGCT
1 GAGAA-G-GTGACTTTTTGCT
19857351 ATAAAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.28
22 13 0.72
ACGTcount: A:0.20, C:0.10, G:0.33, T:0.38
Consensus pattern (20 bp):
GAGAAGGTGACTTTTTGCTG
Found at i:19864464 original size:21 final size:23
Alignment explanation
Indices: 19864425--19864467 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
19864415 TAAATGAATT
19864425 AATTATATATATTTCTTTTAATC
1 AATTATATATATTTCTTTTAATC
*
19864448 AATTAT-T-TATTTTTTTTAAT
1 AATTATATATATTTCTTTTAAT
19864468 TTTTTTCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 12 0.63
22 1 0.05
23 6 0.32
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.63
Consensus pattern (23 bp):
AATTATATATATTTCTTTTAATC
Found at i:19864951 original size:16 final size:17
Alignment explanation
Indices: 19864930--19864964 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
19864920 TTAATATTAA
19864930 TTTAAACT-ATTTTTAT
1 TTTAAACTAATTTTTAT
*
19864946 TTTAAATTAATTTTTAT
1 TTTAAACTAATTTTTAT
19864963 TT
1 TT
19864965 ATTTTTATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTAAACTAATTTTTAT
Found at i:19864989 original size:27 final size:27
Alignment explanation
Indices: 19864937--19864990 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
19864927 TAATTTAAAC
**
19864937 TATTTTTATTTTAAATTAATTTTTATT
1 TATTTTTATTTTAAATTAATAATTATT
*
19864964 TATTTTTATATTTAATTTAA-AATTATT
1 TATTTTTAT-TTTAAATTAATAATTATT
19864991 AAATTTCAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 14 0.61
28 9 0.39
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (27 bp):
TATTTTTATTTTAAATTAATAATTATT
Found at i:19867056 original size:18 final size:19
Alignment explanation
Indices: 19867015--19867057 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
19867005 AAGTTGATGT
*
19867015 TTAAAAAATTAGTAAATTA
1 TTAAAAAATTAGTAAACTA
* *
19867034 ATAAAAAA-TATTAAACTA
1 TTAAAAAATTAGTAAACTA
19867052 TTAAAA
1 TTAAAA
19867058 TGATAATAAG
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (19 bp):
TTAAAAAATTAGTAAACTA
Found at i:19867255 original size:26 final size:26
Alignment explanation
Indices: 19867203--19867255 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
19867193 AAATGTTTTC
*
19867203 ATAAAATAAATTAAAAAATATATTAA
1 ATAAAATAAATTAAAAAATAAATTAA
19867229 ATAAAAT-AA-TAAAAAGATAAATATAA
1 ATAAAATAAATTAAAAA-ATAAAT-TAA
19867255 A
1 A
19867256 AGTGATAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 6 0.25
25 7 0.29
26 11 0.46
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (26 bp):
ATAAAATAAATTAAAAAATAAATTAA
Found at i:19871188 original size:32 final size:32
Alignment explanation
Indices: 19871151--19871218 Score: 102
Period size: 32 Copynumber: 2.1 Consensus size: 32
19871141 TGATAAATTT
19871151 AAAATACCCATT-GAGTAATGAATATAATATAA
1 AAAATACCCATTGGA-TAATGAATATAATATAA
* *
19871183 AAAATACTCATTGGATAATGGATATAATATAA
1 AAAATACCCATTGGATAATGAATATAATATAA
19871215 AAAA
1 AAAA
19871219 CCGCATATAG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 31 0.94
33 2 0.06
ACGTcount: A:0.54, C:0.07, G:0.10, T:0.28
Consensus pattern (32 bp):
AAAATACCCATTGGATAATGAATATAATATAA
Found at i:19872021 original size:59 final size:59
Alignment explanation
Indices: 19871798--19872022 Score: 224
Period size: 59 Copynumber: 3.8 Consensus size: 59
19871788 GCTTTTGTAC
* * * *
19871798 AAGGAAAAATTGATACTTTCAACTTTTTCTC-AAAATA-TTTTTTGAAAACTTTAATT-TT
1 AAGG-AAAATTGATACTTTCAACTTTTCCTCAAAAAAATTTTTTTTAAAAATTT-ATTCTT
* * * * **
19871856 GAGGAAAATTTATACTTTTAACTTTTCCTTAAAAAAAACCTTTTTTTTTTAAATTT-TATCTT
1 AAGGAAAATTGATACTTTCAACTTTTCC-TCAAAAAAA--TTTTTTTTAAAAATTTAT-TCTT
* **
19871918 CAAGGAAAATTGATACTTTCAACTTTTTCTCAAAAAAACCTTTTTTAAAAATTTATTCTT
1 -AAGGAAAATTGATACTTTCAACTTTTCCTCAAAAAAATTTTTTTTAAAAATTTATTCTT
* *
19871978 AAGGAAAATTGATATTTTCAACTTTTCCTCAAAAATATTTTTTTT
1 AAGGAAAATTGATACTTTCAACTTTTCCTCAAAAAAATTTTTTTT
19872023 TAATTTTATT
Statistics
Matches: 134, Mismatches: 24, Indels: 17
0.77 0.14 0.10
Matches are distributed among these distances:
57 21 0.16
58 4 0.03
59 45 0.34
60 17 0.13
61 2 0.01
62 21 0.16
63 24 0.18
ACGTcount: A:0.36, C:0.12, G:0.06, T:0.46
Consensus pattern (59 bp):
AAGGAAAATTGATACTTTCAACTTTTCCTCAAAAAAATTTTTTTTAAAAATTTATTCTT
Found at i:19872062 original size:9 final size:9
Alignment explanation
Indices: 19872039--19872089 Score: 54
Period size: 9 Copynumber: 5.9 Consensus size: 9
19872029 TATTTAAAGA
*
19872039 AAATGAAAT
1 AAATAAAAT
*
19872048 AGATAAAAT
1 AAATAAAAT
19872057 AAATAAAAT
1 AAATAAAAT
19872066 AAA-AAAA-
1 AAATAAAAT
19872073 AAATGAAAAT
1 AAAT-AAAAT
19872083 AAA-AAAA
1 AAATAAAA
19872090 AACTTGGAGC
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
7 3 0.08
8 8 0.22
9 22 0.61
10 3 0.08
ACGTcount: A:0.78, C:0.00, G:0.06, T:0.16
Consensus pattern (9 bp):
AAATAAAAT
Found at i:19872081 original size:17 final size:17
Alignment explanation
Indices: 19872038--19872091 Score: 67
Period size: 17 Copynumber: 3.2 Consensus size: 17
19872028 TTATTTAAAG
19872038 AAAATG-AAATAGATAAAA
1 AAAATGAAAATA-A-AAAA
*
19872056 TAAAT-AAAATAAAAAA
1 AAAATGAAAATAAAAAA
19872072 AAAATGAAAATAAAAAA
1 AAAATGAAAATAAAAAA
19872089 AAA
1 AAA
19872092 CTTGGAGCGG
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
16 8 0.25
17 15 0.47
18 9 0.28
ACGTcount: A:0.80, C:0.00, G:0.06, T:0.15
Consensus pattern (17 bp):
AAAATGAAAATAAAAAA
Found at i:19872360 original size:21 final size:22
Alignment explanation
Indices: 19872326--19872369 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
19872316 TTTAGTAGAA
*
19872326 CCCTTATTCTCTTCTCTCTCTT
1 CCCTTATTCTCTTCTCTCCCTT
*
19872348 CCCTTCTT-TCTTCTCTCCCTT
1 CCCTTATTCTCTTCTCTCCCTT
19872369 C
1 C
19872370 TTTCTAGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.02, C:0.45, G:0.00, T:0.52
Consensus pattern (22 bp):
CCCTTATTCTCTTCTCTCCCTT
Found at i:19872368 original size:16 final size:18
Alignment explanation
Indices: 19872332--19872374 Score: 63
Period size: 16 Copynumber: 2.4 Consensus size: 18
19872322 AGAACCCTTA
19872332 TTCTCTTCTCTCTCTTCCC
1 TTCT-TTCTCTCTCTTCCC
19872351 TTCTTTCT-TCTC-TCCC
1 TTCTTTCTCTCTCTTCCC
19872367 TTCTTTCT
1 TTCTTTCT
19872375 AGAATCCGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.50
17 4 0.17
18 4 0.17
19 4 0.17
ACGTcount: A:0.00, C:0.42, G:0.00, T:0.58
Consensus pattern (18 bp):
TTCTTTCTCTCTCTTCCC
Found at i:19874199 original size:537 final size:537
Alignment explanation
Indices: 19872412--19874560 Score: 3670
Period size: 537 Copynumber: 4.0 Consensus size: 537
19872402 TCACGAATTC
* * * *
19872412 TAAAAATTTCGTTAAAATCTGAGTTTTTCGTCGAAAATTCATCGAAAAGTTAGTCGGTTTTTGAA
1 TAAAAATTTCGTCAAAATCTGAGTTTTTCGTCGGAAGTTCATCGAAAAGTTAGTCGATTTTTGAA
*
19872477 AATTCTTACCGAAAACTAGGCAGCTGGCCGAAAACTTCAAACTTGGCCGAAATTATCGTCAAAAA
66 AATTCTTACCGAAAACTGGGCAGCTGGCCGAAAACTTCAAACTTGGCCGAAATTATCGTCAAAAA
* *
19872542 ATTTAACTTTCGTCGGAAAATTCACCAAAATCTGGAAATTTTCCAAAAATTTTCAAAAAAAAAAA
131 ATTTAACTTTCGTCGAAAAATTCACCAAAATCTGGAAATTTTCCAAAAATTTTCAAAAAAAAAAT
19872607 TCGTAGAAAAATCTCCAAAAATTTCCCTCCGATTTCTAAAGCTATTCTAACGCCTCTAAACTCCT
196 TCGTAGAAAAATCTCCAAAAATTTCCCTCCGATTTCTAAAGCTATTCTAACGCCTCTAAACTCCT
* * *
19872672 TTTTGGCTTTCAAATATCTTCTGTCTGTCTTTTATTCTCTCAGCCAGTAACTCATTTCTCTATGT
261 TTTTGGCTTTCAAATCTCTTCTGTCTGCCTTTTATTCTCTCAGCCAATAACTCATTTCTCTATGT
* * * *
19872737 TTTCTGTGTCGGTGTGTTCCTTCTATTCCTAAGGATCCCTTTTATAGAGATTGATTAGAAGAGTT
326 TTTCTGTGTCTGTGTGTTCCTTCTATTCCTGAGGATCCCTTTTATAGGGATTGATCAGAAGAGTT
* *
19872802 TTTGATCAATCCCAATTTCTCTTTGGATCGAGATTGGATCATTGAATCAAACATGGACTTTTCTG
391 TTTGATCAATCCCAATTTCTCTTTGGATCGGGATTGGATCATTGAATCGAACATGGACTTTTCTG
*
19872867 ATTGAATCTCAATCTAATCTCCAGTTGGATAAAT------AAA-AAAAAAATCAAATAAAAATAT
456 ATTGAATCTCAATCTAATCTCCAGTCGGATAAATAAAAAAAAATAAAAAAATCAAATAAAAATAT
19872925 TAATGAAAATAAATCAA
521 TAATGAAAATAAATCAA
*
19872942 TAAAAATTTCGTCAAAATCTGAGTTTTTCGTCGGAAGTTCATCGAAAAGTTAGTCGATTTTTAAA
1 TAAAAATTTCGTCAAAATCTGAGTTTTTCGTCGGAAGTTCATCGAAAAGTTAGTCGATTTTTGAA
* * * *
19873007 AATTCTTATCGAAAATTGGGCAGCTGACCGGAAACTTCAAACTTGGCCGAAATTATCGTCAAAAA
66 AATTCTTACCGAAAACTGGGCAGCTGGCCGAAAACTTCAAACTTGGCCGAAATTATCGTCAAAAA
* *
19873072 ATTTAACTTTCGTCGGAAAATTCACCAAAATCTGGAAATTTTCCAGAAATTTTCAAAAAAAAAAA
131 ATTTAACTTTCGTCGAAAAATTCACCAAAATCTGGAAATTTTCCAAAAATTTTC-AAAAAAAAAA
* *
19873137 TTCGTAAAAAAATCTCCAAAAATTTCCCTTCGATTTCTAAAGCTATTCTAACGCCTCTAAACTCC
195 TTCGTAGAAAAATCTCCAAAAATTTCCCTCCGATTTCTAAAGCTATTCTAACGCCTCTAAACTCC
* *
19873202 TTTTTGGCTTTCAAATCTCTTCTGTCTGTCTTTTATCCTCTCAGCCAATAACTCATTTCTCTATG
260 TTTTTGGCTTTCAAATCTCTTCTGTCTGCCTTTTATTCTCTCAGCCAATAACTCATTTCTCTATG
*
19873267 TTTTCTGTGTCTGTGTGTTTCTTCTATTCCTGAGGATCCCTTTTATAGGGATTGATCAGAAGAGT
325 TTTTCTGTGTCTGTGTGTTCCTTCTATTCCTGAGGATCCCTTTTATAGGGATTGATCAGAAGAGT
*
19873332 TTTTGATCAATCCCAATTTCTCTTTGGATCGGGATTGGATCATTGAATCGAACATGAACTTTTCT
390 TTTTGATCAATCCCAATTTCTCTTTGGATCGGGATTGGATCATTGAATCGAACATGGACTTTTCT
*
19873397 GATTGAATCTCAATCTAATCTCCAGTCGGATAAATTAAAAAAAATAAAAAAATCAAATAAAAATA
455 GATTGAATCTCAATCTAATCTCCAGTCGGATAAATAAAAAAAAATAAAAAAATCAAATAAAAATA
19873462 TTAATGAAAATAAATCAA
520 TTAATGAAAATAAATCAA
* * *
19873480 TAAAAATTTCATCAAAATCTGAGTTTTTTGTCGGAA-TTCATCGAAAAGTTAGTCGGTTTTTGAA
1 TAAAAATTTCGTCAAAATCTGAGTTTTTCGTCGGAAGTTCATCGAAAAGTTAGTCGATTTTTGAA
*
19873544 AATTCTTACCGAAAACTGGGCAGCTGGCCGAAAACTTCAAACTTGGCCGAAATTATCGTCGAAAA
66 AATTCTTACCGAAAACTGGGCAGCTGGCCGAAAACTTCAAACTTGGCCGAAATTATCGTCAAAAA
*
19873609 ATTTAACTTTCGTCGAAAAATTCACCAAAATCTGGAAATTTTCCAGAAATTTTCAAAAAAAAAAT
131 ATTTAACTTTCGTCGAAAAATTCACCAAAATCTGGAAATTTTCCAAAAATTTTCAAAAAAAAAAT
*
19873674 TCGTAGAAAAATCTCCAAAAATTTTCCTCCGATTTCTAAAGCTATTCTAACGCCTCTAAACTCCT
196 TCGTAGAAAAATCTCCAAAAATTTCCCTCCGATTTCTAAAGCTATTCTAACGCCTCTAAACTCCT
* * *
19873739 TTTTGGTTTTCAAATCTCTTCTGTCTGCCTTTTATTCTCTTATCCAATAACTCATTTCTCTATGT
261 TTTTGGCTTTCAAATCTCTTCTGTCTGCCTTTTATTCTCTCAGCCAATAACTCATTTCTCTATGT
*
19873804 TTTCTGTGTCTGTGTGTTCCTTCTGTTCCTGAGGATCCCTTTTATAGGGATTGATCAGAAGAGTT
326 TTTCTGTGTCTGTGTGTTCCTTCTATTCCTGAGGATCCCTTTTATAGGGATTGATCAGAAGAGTT
*
19873869 TTTGATCAATCCCAATTTCTCTTTGGATCGGGATTGGATCATTGAATTGAACATGGACTTTTCTG
391 TTTGATCAATCCCAATTTCTCTTTGGATCGGGATTGGATCATTGAATCGAACATGGACTTTTCTG
*
19873934 ATTGAATCTCAATCTAATCTCCAGTCGGATAAATAAAAAAAAATAAAAAAATCAAATAACAATAT
456 ATTGAATCTCAATCTAATCTCCAGTCGGATAAATAAAAAAAAATAAAAAAATCAAATAAAAATAT
19873999 TAATGAAAATAAATCAA
521 TAATGAAAATAAATCAA
*
19874016 TAAAAATTTCGTCAAAATCTGAGTTTTTCGTCGGAAGTTCATTGAAAAGTTAGTCGATTTTTGAA
1 TAAAAATTTCGTCAAAATCTGAGTTTTTCGTCGGAAGTTCATCGAAAAGTTAGTCGATTTTTGAA
* * *
19874081 AATTCTTACCGAAAACTGGACAGCTGGCCGGAAACTTCAAACTTGGCCGAAATTATCGTCGAAAA
66 AATTCTTACCGAAAACTGGGCAGCTGGCCGAAAACTTCAAACTTGGCCGAAATTATCGTCAAAAA
19874146 ATTTAACTTTCGTCGAAAAATTCACCAAAATCTGGAAATTTTCCAAAAATTTTCAAAAAAAAAAT
131 ATTTAACTTTCGTCGAAAAATTCACCAAAATCTGGAAATTTTCCAAAAATTTTCAAAAAAAAAAT
* *
19874211 TTGTAGAAAAATCTCCAAAAATTTCCC-CTCGATTTCTAAAGCTATTCAAACGCCTCTAAACTCC
196 TCGTAGAAAAATCTCCAAAAATTTCCCTC-CGATTTCTAAAGCTATTCTAACGCCTCTAAACTCC
* * *
19874275 TTTTTAGCTTTCAAATCTCTTCTGTATGCCTTTTATTCTCTCAGCCAGTAACTCATTTCTCTATG
260 TTTTTGGCTTTCAAATCTCTTCTGTCTGCCTTTTATTCTCTCAGCCAATAACTCATTTCTCTATG
* * * *
19874340 TTTTTTGTGTCTGTGTGTTCCTTCTGTTCCTGAGGATCCCTTTTATAAGGATTGATCAAAAGAGT
325 TTTTCTGTGTCTGTGTGTTCCTTCTATTCCTGAGGATCCCTTTTATAGGGATTGATCAGAAGAGT
19874405 TTTTGATCAATCCCAATTTCTCTTTGGATCGGGATTGGATCATTGAATCGAACATGGACTTTTCT
390 TTTTGATCAATCCCAATTTCTCTTTGGATCGGGATTGGATCATTGAATCGAACATGGACTTTTCT
* *
19874470 GATTGAATCTCAATCTAATCTCTAGTCGGATAAATAAAAAAAAATAAAAAAAATAAAATAAAAAT
455 GATTGAATCTCAATCTAATCTCCAGTCGGATAAATAAAAAAAAAT-AAAAAAATCAAATAAAAAT
19874535 ATTAATGAAAATAAAT-AA
519 ATTAATGAAAATAAATCAA
*
19874553 AAAAAATT
1 TAAAAATT
19874561 AACAGATAAA
Statistics
Matches: 1534, Mismatches: 74, Indels: 15
0.95 0.05 0.01
Matches are distributed among these distances:
530 173 0.11
531 290 0.19
536 374 0.24
537 592 0.39
538 105 0.07
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.35
Consensus pattern (537 bp):
TAAAAATTTCGTCAAAATCTGAGTTTTTCGTCGGAAGTTCATCGAAAAGTTAGTCGATTTTTGAA
AATTCTTACCGAAAACTGGGCAGCTGGCCGAAAACTTCAAACTTGGCCGAAATTATCGTCAAAAA
ATTTAACTTTCGTCGAAAAATTCACCAAAATCTGGAAATTTTCCAAAAATTTTCAAAAAAAAAAT
TCGTAGAAAAATCTCCAAAAATTTCCCTCCGATTTCTAAAGCTATTCTAACGCCTCTAAACTCCT
TTTTGGCTTTCAAATCTCTTCTGTCTGCCTTTTATTCTCTCAGCCAATAACTCATTTCTCTATGT
TTTCTGTGTCTGTGTGTTCCTTCTATTCCTGAGGATCCCTTTTATAGGGATTGATCAGAAGAGTT
TTTGATCAATCCCAATTTCTCTTTGGATCGGGATTGGATCATTGAATCGAACATGGACTTTTCTG
ATTGAATCTCAATCTAATCTCCAGTCGGATAAATAAAAAAAAATAAAAAAATCAAATAAAAATAT
TAATGAAAATAAATCAA
Found at i:19874516 original size:10 final size:10
Alignment explanation
Indices: 19874501--19874535 Score: 54
Period size: 9 Copynumber: 3.5 Consensus size: 10
19874491 CTAGTCGGAT
19874501 AAATAAAAAA
1 AAATAAAAAA
19874511 AAAT-AAAAA
1 AAATAAAAAA
19874520 AAATAAAATAA
1 AAATAAAA-AA
19874531 AAATA
1 AAATA
19874536 TTAATGAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 9 0.39
10 7 0.30
11 7 0.30
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (10 bp):
AAATAAAAAA
Found at i:19874522 original size:14 final size:14
Alignment explanation
Indices: 19874499--19874533 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
19874489 CTCTAGTCGG
*
19874499 ATAAATAAAAAAAA
1 ATAAAAAAAAAAAA
*
19874513 ATAAAAAAAATAAA
1 ATAAAAAAAAAAAA
19874527 ATAAAAA
1 ATAAAAA
19874534 TATTAATGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (14 bp):
ATAAAAAAAAAAAA
Found at i:19874561 original size:23 final size:23
Alignment explanation
Indices: 19874499--19874562 Score: 76
Period size: 23 Copynumber: 2.8 Consensus size: 23
19874489 CTCTAGTCGG
*
19874499 ATAAATAAAAAAAAATAAAAAAA
1 ATAAATAAAAAAAATTAAAAAAA
* **
19874522 ATAAA-ATAAAAATATTAATGAAA
1 ATAAATA-AAAAAAATTAAAAAAA
19874545 ATAAATAAAAAAAATTAA
1 ATAAATAAAAAAAATTAA
19874563 CAGATAAATT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
22 1 0.03
23 32 0.94
24 1 0.03
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (23 bp):
ATAAATAAAAAAAATTAAAAAAA
Found at i:19874571 original size:12 final size:12
Alignment explanation
Indices: 19874556--19874595 Score: 50
Period size: 11 Copynumber: 3.5 Consensus size: 12
19874546 TAAATAAAAA
19874556 AAATTAACAGAT
1 AAATTAACAGAT
19874568 AAATTAA-A-ATT
1 AAATTAACAGA-T
19874579 AAA-TAACAGAT
1 AAATTAACAGAT
19874590 AAATTA
1 AAATTA
19874596 TAACATATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
10 4 0.17
11 10 0.42
12 10 0.42
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.28
Consensus pattern (12 bp):
AAATTAACAGAT
Found at i:19874575 original size:22 final size:22
Alignment explanation
Indices: 19874545--19874595 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
19874535 ATTAATGAAA
19874545 ATAAA-TAAAA-AAAATTAACAG
1 ATAAATTAAAATAAAA-TAACAG
*
19874566 ATAAATTAAAATTAAATAACAG
1 ATAAATTAAAATAAAATAACAG
19874588 ATAAATTA
1 ATAAATTA
19874596 TAACATATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 5 0.19
22 19 0.70
23 3 0.11
ACGTcount: A:0.67, C:0.04, G:0.04, T:0.25
Consensus pattern (22 bp):
ATAAATTAAAATAAAATAACAG
Found at i:19874768 original size:6 final size:6
Alignment explanation
Indices: 19874700--19874769 Score: 54
Period size: 6 Copynumber: 11.7 Consensus size: 6
19874690 TACATAAGAA
* * * * * *
19874700 AAAAAT AAAAGAAA AAAAAT ATAAA- AACAAT AATAAT AATAAT AGAAAT
1 AAAAAT -AAA-AAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
19874749 AAAAAT -AAAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAA
19874770 TGAAAATGTA
Statistics
Matches: 51, Mismatches: 9, Indels: 7
0.76 0.13 0.10
Matches are distributed among these distances:
5 8 0.16
6 35 0.69
7 6 0.12
8 2 0.04
ACGTcount: A:0.79, C:0.01, G:0.03, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:19874775 original size:12 final size:11
Alignment explanation
Indices: 19874700--19874776 Score: 66
Period size: 11 Copynumber: 6.5 Consensus size: 11
19874690 TACATAAGAA
*
19874700 AAAAATAAAAG
1 AAAAATAAAAT
19874711 AAAAA-AAATAT
1 AAAAATAAA-AT
19874722 AAAAACAATAATAAT
1 --AAA-AATAA-AAT
*
19874737 AATAATAGAAAT
1 AAAAATA-AAAT
19874749 AAAAATAAAAT
1 AAAAATAAAAT
19874760 AAAAATAAAAT
1 AAAAATAAAAT
*
19874771 GAAAAT
1 AAAAAT
19874777 GTAAAATGTA
Statistics
Matches: 55, Mismatches: 4, Indels: 14
0.75 0.05 0.19
Matches are distributed among these distances:
10 3 0.05
11 26 0.47
12 13 0.24
13 6 0.11
14 2 0.04
15 4 0.07
16 1 0.02
ACGTcount: A:0.77, C:0.01, G:0.04, T:0.18
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:19876789 original size:10 final size:11
Alignment explanation
Indices: 19876773--19876797 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
19876763 TAGAAACATT
19876773 TTTTTTTATAA
1 TTTTTTTATAA
19876784 TTTTTTTATAA
1 TTTTTTTATAA
19876795 TTT
1 TTT
19876798 AAAAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTTTTTATAA
Found at i:19876919 original size:10 final size:9
Alignment explanation
Indices: 19876866--19876951 Score: 70
Period size: 9 Copynumber: 9.1 Consensus size: 9
19876856 GAAAAAAATC
19876866 TAAAT-AAA
1 TAAATAAAA
19876874 -AAATAAAA
1 TAAATAAAA
19876882 TGAAATAGAAAA
1 T-AAAT--AAAA
19876894 TAAATAAAA
1 TAAATAAAA
19876903 TAAATAAATA
1 TAAATAAA-A
*
19876913 AAAATAAAA
1 TAAATAAAA
19876922 TAAATGAAAA
1 TAAAT-AAAA
*
19876932 TGTAAATCAAA
1 --TAAATAAAA
19876943 -AAATAAAA
1 TAAATAAAA
19876951 T
1 T
19876952 GAAAAAAGAA
Statistics
Matches: 64, Mismatches: 4, Indels: 19
0.74 0.05 0.22
Matches are distributed among these distances:
7 4 0.06
8 10 0.16
9 17 0.27
10 16 0.25
11 7 0.11
12 10 0.16
ACGTcount: A:0.73, C:0.01, G:0.05, T:0.21
Consensus pattern (9 bp):
TAAATAAAA
Found at i:19877259 original size:13 final size:13
Alignment explanation
Indices: 19877243--19877279 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
19877233 AAATCTTATT
19877243 GAAAAATTCAACC
1 GAAAAATTCAACC
19877256 GAAAAATTCAACC
1 GAAAAATTCAACC
*
19877269 AAAAAATTCAA
1 GAAAAATTCAA
19877280 ACATTCAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.59, C:0.19, G:0.05, T:0.16
Consensus pattern (13 bp):
GAAAAATTCAACC
Found at i:19881239 original size:36 final size:36
Alignment explanation
Indices: 19881193--19881279 Score: 131
Period size: 36 Copynumber: 2.4 Consensus size: 36
19881183 GTAATTTTTC
*
19881193 ATAATTTAATAGAA-AAATAAATTTTATTATTATATA
1 ATAAATTAATA-AATAAATAAATTTTATTATTATATA
*
19881229 ATAAATTAATAAATAAATCAATTTTATTATTATATA
1 ATAAATTAATAAATAAATAAATTTTATTATTATATA
*
19881265 ATAAAATAATAAATA
1 ATAAATTAATAAATA
19881280 CATTTTAATT
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
35 2 0.04
36 45 0.96
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (36 bp):
ATAAATTAATAAATAAATAAATTTTATTATTATATA
Found at i:19881291 original size:33 final size:32
Alignment explanation
Indices: 19881207--19881292 Score: 109
Period size: 36 Copynumber: 2.5 Consensus size: 32
19881197 TTTAATAGAA
* *
19881207 AAATAAATTTTATTATTATATAATAAATTAAT
1 AAATACATTTTATTATTATATAATAAAATAAT
19881239 AAATAAATCAATTTTATTATTATATAATAAAATAAT
1 AAAT--A-C-ATTTTATTATTATATAATAAAATAAT
19881275 AAATACATTTTAATTATT
1 AAATACATTTT-ATTATT
19881293 TATTAACAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 9
0.81 0.03 0.16
Matches are distributed among these distances:
32 9 0.19
33 7 0.15
34 2 0.04
36 29 0.62
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (32 bp):
AAATACATTTTATTATTATATAATAAAATAAT
Found at i:19881304 original size:33 final size:32
Alignment explanation
Indices: 19881207--19881304 Score: 92
Period size: 36 Copynumber: 2.9 Consensus size: 32
19881197 TTTAATAGAA
* *
19881207 AAATAAATTTTATTATTATATAATAAATTAATAAAT
1 AAATCAATTTTATTATTATATAA-CAA--AAT-AAT
*
19881243 AAATCAATTTTATTATTATATAATAAAATAAT
1 AAATCAATTTTATTATTATATAACAAAATAAT
19881275 AAAT-ACATTTTAATTATT-TATTAACAAAAT
1 AAATCA-ATTTT-ATTATTATA-TAACAAAAT
19881305 TATTGTTTGA
Statistics
Matches: 56, Mismatches: 3, Indels: 9
0.82 0.04 0.13
Matches are distributed among these distances:
31 1 0.02
32 14 0.25
33 17 0.30
35 2 0.04
36 22 0.39
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (32 bp):
AAATCAATTTTATTATTATATAACAAAATAAT
Found at i:19881367 original size:26 final size:24
Alignment explanation
Indices: 19881334--19881384 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 24
19881324 AATTTAATAA
*
19881334 AATTTTAAATAATTTATTAATTTAT
1 AATTTTAAATAATTTA-AAATTTAT
19881359 AATTATTAAATAATTTAAAATTTAT
1 AATT-TTAAATAATTTAAAATTTAT
19881384 A
1 A
19881385 TTACATGTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 12 0.50
26 12 0.50
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (24 bp):
AATTTTAAATAATTTAAAATTTAT
Found at i:19881976 original size:14 final size:14
Alignment explanation
Indices: 19881952--19881991 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
19881942 TTGAAGTATA
*
19881952 TTATATATAATTATT
1 TTAT-TATAATTAAT
19881967 TTATTATAATTAAT
1 TTATTATAATTAAT
*
19881981 TAATTATAATT
1 TTATTATAATT
19881992 TAAATTATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 19 0.83
15 4 0.17
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TTATTATAATTAAT
Found at i:19883795 original size:17 final size:17
Alignment explanation
Indices: 19883762--19883795 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
19883752 AAAGTTAACA
* *
19883762 AATAATAATAAATTTAT
1 AATAATAAAAAAATTAT
19883779 AATAATAAAAAAATTAT
1 AATAATAAAAAAATTAT
19883796 GGATGAAATG
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:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
AATAATAAAAAAATTAT
Found at i:19887659 original size:15 final size:15
Alignment explanation
Indices: 19887647--19887681 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
19887637 TAACAAAATT
19887647 TAAAAATATAAAAAA
1 TAAAAATATAAAAAA
*
19887662 TAATAATATAAAAAA
1 TAAAAATATAAAAAA
19887677 -AAAAA
1 TAAAAA
19887682 AACAAAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
14 4 0.22
15 14 0.78
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (15 bp):
TAAAAATATAAAAAA
Found at i:19889089 original size:37 final size:37
Alignment explanation
Indices: 19889043--19889115 Score: 119
Period size: 37 Copynumber: 2.0 Consensus size: 37
19889033 TCTCATGTGC
* *
19889043 TTTGGTTCTTCTCTTCTCCTGTACAAGTTTTACATGT
1 TTTGATTCTTCTCTTCTCCTATACAAGTTTTACATGT
*
19889080 TTTGATTCTTCTCTTCTCCTATACAAGTTTTGCATG
1 TTTGATTCTTCTCTTCTCCTATACAAGTTTTACATG
19889116 CAAATTTTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.15, C:0.22, G:0.12, T:0.51
Consensus pattern (37 bp):
TTTGATTCTTCTCTTCTCCTATACAAGTTTTACATGT
Found at i:19889616 original size:3 final size:3
Alignment explanation
Indices: 19889608--19889651 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
19889598 AAAAAGACCA
19889608 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
19889652 ATATATTTTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:19889828 original size:24 final size:24
Alignment explanation
Indices: 19889778--19889828 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
19889768 ACGTAAAATG
* *
19889778 ATAAAATATTAATAAATAATAATA
1 ATAAAATATTAATAAATAAGAAAA
*
19889802 ATAAAATTTTAATGAAA-AAGAAAA
1 ATAAAATATTAAT-AAATAAGAAAA
19889826 ATA
1 ATA
19889829 TACAAAAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 20 0.87
25 3 0.13
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (24 bp):
ATAAAATATTAATAAATAAGAAAA
Found at i:19889959 original size:13 final size:13
Alignment explanation
Indices: 19889943--19889986 Score: 61
Period size: 13 Copynumber: 3.4 Consensus size: 13
19889933 TTGTAAATTT
*
19889943 CTAAAATAAAACC
1 CTAAAATGAAACC
19889956 CTAAAATGAAACC
1 CTAAAATGAAACC
* *
19889969 TTGAAATGAAACC
1 CTAAAATGAAACC
19889982 CTAAA
1 CTAAA
19889987 TCCTAAGTGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.55, C:0.20, G:0.07, T:0.18
Consensus pattern (13 bp):
CTAAAATGAAACC
Found at i:19889999 original size:19 final size:19
Alignment explanation
Indices: 19889975--19890025 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
19889965 AACCTTGAAA
19889975 TGAAACCCTAAATCCTAAG-
1 TGAAACCCTAAATCCT-AGT
* * *
19889994 TGAAACTCAAAACCCTAGT
1 TGAAACCCTAAATCCTAGT
19890013 TGAAACCCTAAAT
1 TGAAACCCTAAAT
19890026 AAAACGTTGA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
18 2 0.08
19 23 0.92
ACGTcount: A:0.43, C:0.25, G:0.10, T:0.22
Consensus pattern (19 bp):
TGAAACCCTAAATCCTAGT
Found at i:19898738 original size:18 final size:18
Alignment explanation
Indices: 19898715--19898756 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
19898705 ATCATCAACT
*
19898715 TAAAAACCAAATTAAA-AA
1 TAAAAA-CAAATAAAATAA
*
19898733 TAAAAATAAATAAAATAA
1 TAAAAACAAATAAAATAA
19898751 TAAAAA
1 TAAAAA
19898757 TAAAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.76, C:0.05, G:0.00, T:0.19
Consensus pattern (18 bp):
TAAAAACAAATAAAATAA
Found at i:19899136 original size:13 final size:14
Alignment explanation
Indices: 19899100--19899140 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
19899090 AGCAATAGGC
19899100 AAGAGGAAAAAAAG
1 AAGAGGAAAAAAAG
* *
19899114 AAGAGAAAAAAAAT
1 AAGAGGAAAAAAAG
19899128 AA-AGGAAAAAAAG
1 AAGAGGAAAAAAAG
19899141 GGTAGAAAGA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
13 9 0.39
14 14 0.61
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (14 bp):
AAGAGGAAAAAAAG
Found at i:19899197 original size:14 final size:14
Alignment explanation
Indices: 19899180--19899206 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
19899170 GATGAAGCAC
19899180 AAAAACAAAAAAAA
1 AAAAACAAAAAAAA
19899194 AAAAACAAAAAAA
1 AAAAACAAAAAAA
19899207 GAAGGTGAGA
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:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (14 bp):
AAAAACAAAAAAAA
Found at i:19899792 original size:67 final size:67
Alignment explanation
Indices: 19899684--19899823 Score: 253
Period size: 67 Copynumber: 2.1 Consensus size: 67
19899674 TGGCACTACA
* *
19899684 ATAAACTAAAAAATTAGTGACAATTTTGTAGCAATATTTCACTTATAAAAGTCTTTAGCTTGTTT
1 ATAAAATAAAAAATTAGTGACAATTTTGTAGCAACATTTCACTTATAAAAGTCTTTAGCTTGTTT
19899749 TT
66 TT
*
19899751 ATAAAATAAAAAATTAGTGGCAATTTTGTAGCAACATTTCACTTATAAAAGTCTTTAGCTTGTTT
1 ATAAAATAAAAAATTAGTGACAATTTTGTAGCAACATTTCACTTATAAAAGTCTTTAGCTTGTTT
19899816 TT
66 TT
19899818 ATAAAA
1 ATAAAA
19899824 CTTACAACAT
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
67 70 1.00
ACGTcount: A:0.39, C:0.10, G:0.11, T:0.40
Consensus pattern (67 bp):
ATAAAATAAAAAATTAGTGACAATTTTGTAGCAACATTTCACTTATAAAAGTCTTTAGCTTGTTT
TT
Found at i:19900153 original size:125 final size:122
Alignment explanation
Indices: 19899963--19900325 Score: 325
Period size: 125 Copynumber: 2.9 Consensus size: 122
19899953 CTTTAAGAGG
* * *
19899963 ATTATTAAAGGCATTTTTAGCCTAAAATGCCTTTAATAATCCTTTCATAAAAAA-TGGAATGGAT
1 ATTATTAAAGGCGTTTTT-GCCTAAAATGCCTTCAATAATCCTTT--TAAAAAATTAGAA-GGAT
*
19900027 TATTGAAGTAGTTTTTTGGCAAAAAATACCTTGAATAATCTCCTCATAAAAAAATGAAGAA-A
62 TATTGAAGTAGTTTTTTGACAAAAAATACCTT-AATAATCTCCTCATAAAAAAATGAA-AAGA
* *
19900089 ATTATTGAAGGCGTTTTCTGCC-AAAATACCTTCAATAATTCCTTTTAAAAAATTAGAAGAGATT
1 ATTATTAAAGGCGTTTT-TGCCTAAAATGCCTTCAATAA-TCCTTTTAAAAAATTAGAAG-GATT
* * * * * *
19900153 ATTGAA-T-GTGTTTTTGATAAAAAAATACCTCTAATAATCTCTTCGT-CAAAATTTAAAAGA
63 ATTGAAGTAGT-TTTTTGA-CAAAAAATACCT-TAATAATCTCCTCATAAAAAAATGAAAAGA
* * * *
19900213 ATTATTAAAGGTGTTTTTGACCTGAAATGCCTTCAATAATCCTCTCATAAAAAATGA-AAGGGAT
1 ATTATTAAAGGCGTTTTTG-CCTAAAATGCCTTCAATAATCCT-T-TTAAAAAATTAGAA-GGAT
* *
19900277 TATTGAGAG-AG-TTTTTGAC-AAAAACACCTTTAATAATC-CCTTATAAAAA
62 TATTGA-AGTAGTTTTTTGACAAAAAATACC-TTAATAATCTCCTCATAAAAA
19900326 TTTAGAAGGG
Statistics
Matches: 195, Mismatches: 24, Indels: 39
0.76 0.09 0.15
Matches are distributed among these distances:
122 3 0.02
123 25 0.13
124 45 0.23
125 84 0.43
126 36 0.18
127 2 0.01
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (122 bp):
ATTATTAAAGGCGTTTTTGCCTAAAATGCCTTCAATAATCCTTTTAAAAAATTAGAAGGATTATT
GAAGTAGTTTTTTGACAAAAAATACCTTAATAATCTCCTCATAAAAAAATGAAAAGA
Found at i:19900337 original size:61 final size:61
Alignment explanation
Indices: 19899986--19900659 Score: 271
Period size: 63 Copynumber: 10.8 Consensus size: 61
19899976 TTTTTAGCCT
* * * * * *
19899986 AAAATGCCTTTAATAATCCTTTCATAAAAAA-TGGAATGGATTATTGAAGTAGTTTTTTGGCAA
1 AAAATACCTTTAATAATCCCTT-ATAAAAAATTAGAAGGGATTATTGAAGGAG-TTTTTGAC-A
* * * ** * *
19900049 AAAATACCTTGAATAATCTCCTCATAAAAAAAT-GAAGAAAATTATTGAAGGCGTTTTCTG-CC
1 AAAATACCTTTAATAATC-CCTTATAAAAAATTAGAAG-GGATTATTGAAGGAGTTTT-TGACA
* * * * * * *
19900111 AAAATACCTTCAATAATTCCTTTTAAAAAATTAGAAGAGATTATTGAATGTGTTTTTGATAAA
1 AAAATACCTTTAATAATCCCTTATAAAAAATTAGAAGGGATTATTGAAGGAGTTTTTG--ACA
* * * * * * * * * *
19900174 AAAATACCTCTAATAATCTCTTCGTCAAAATTTA-AAAGAATTATTAAAGGTGTTTTTGACCT
1 AAAATACCTTTAATAATCCCTT-ATAAAAAATTAGAAGGGATTATTGAAGGAGTTTTTGA-CA
* * * * *
19900236 GAAATGCCTTCAATAATCCTCTCATAAAAAATGA-AAGGGATTATTG-AGAGAGTTTTTGACA
1 AAAATACCTTTAATAATCC-CTTATAAAAAATTAGAAGGGATTATTGAAG-GAGTTTTTGACA
* * * *
19900297 AAAACACCTTTAATAATCCCTTATAAAAATTTAGAAGGGATTATTGAA-TACATTTTTGACAA
1 AAAATACCTTTAATAATCCCTTATAAAAAATTAGAAGGGATTATTGAAGGA-GTTTTTGAC-A
* * * * * * * *
19900359 AAAATATCTTGAATAATCTCATCATAAAAAATAACGAGGGGATTATTAAAGGCA-TTTTTGGTAA
1 AAAATACCTTTAATAATC-CCTTATAAAAAATTA-GAAGGGATTATTGAAGG-AGTTTTT-G-AC
19900423 A
61 A
* * * * * * * * *
19900424 AAAAAATCTTGAATAATCCCCTAATAAAAAA-TAAAATGGATCATTAAAGGCA-TTTTCTGTCA
1 AAAATACCTTTAATAAT-CCCTTATAAAAAATTAGAAGGGATTATTGAAGG-AGTTTT-TGACA
** * * *
19900486 AAAAT-GTTTTCAATAATTCCCTT-TAAAAAATTGGAAGGGGATTATTTAAGGCA-TTTTGGTAA
1 AAAATACCTTT-AATAA-TCCCTTATAAAAAATTAGAA-GGGATTATTGAAGG-AGTTTT--TGA
*
19900548 AA
60 CA
* * * * * * * *
19900550 AAAATA-CTTTCAATAAACTCCTTGTCAAAATTTA-AAAGGATTATTAAATGTGTTTTTGACA
1 AAAATACCTTT-AATAATC-CCTTATAAAAAATTAGAAGGGATTATTGAAGGAGTTTTTGACA
* * * * * * *
19900611 GAAAACATCTTCAACAATCCCTTATAAAAAATTAAAAGAGACTATTGAA
1 -AAAATACCTTTAATAATCCCTTATAAAAAATTAGAAGGGATTATTGAA
19900660 TACCTTTTTA
Statistics
Matches: 460, Mismatches: 115, Indels: 73
0.71 0.18 0.11
Matches are distributed among these distances:
60 14 0.03
61 90 0.20
62 113 0.25
63 139 0.30
64 66 0.14
65 35 0.08
66 3 0.01
ACGTcount: A:0.42, C:0.12, G:0.13, T:0.33
Consensus pattern (61 bp):
AAAATACCTTTAATAATCCCTTATAAAAAATTAGAAGGGATTATTGAAGGAGTTTTTGACA
Found at i:19900404 original size:64 final size:65
Alignment explanation
Indices: 19900308--19900457 Score: 164
Period size: 65 Copynumber: 2.4 Consensus size: 65
19900298 AAACACCTTT
* * * * * * *
19900308 AATAATCCC-TTATAAAAATTTA-GAAGGGATTATTGAATACATTTTT-G-ACAAAAAATATCTT
1 AATAATCCCATAATAAAAAATAACGAGGGGATTATTAAAGACATTTTTGGTA-AAAAAAAATCTT
19900369 G
65 G
* * *
19900370 AATAATCTCATCATAAAAAATAACGAGGGGATTATTAAAGGCATTTTTGGTAAAAAAAAATCTTG
1 AATAATCCCATAATAAAAAATAACGAGGGGATTATTAAAGACATTTTTGGTAAAAAAAAATCTTG
*
19900435 AATAATCCCCTAATAAAAAATAA
1 AATAATCCCATAATAAAAAATAA
19900458 AATGGATCAT
Statistics
Matches: 72, Mismatches: 12, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
62 8 0.11
63 10 0.14
64 20 0.28
65 33 0.46
66 1 0.01
ACGTcount: A:0.47, C:0.11, G:0.11, T:0.31
Consensus pattern (65 bp):
AATAATCCCATAATAAAAAATAACGAGGGGATTATTAAAGACATTTTTGGTAAAAAAAAATCTTG
Found at i:19900441 original size:250 final size:251
Alignment explanation
Indices: 19899949--19900429 Score: 528
Period size: 250 Copynumber: 1.9 Consensus size: 251
19899939 ATCCACTCAT
* * * *
19899949 AAAACTTTAAGAGGATTATTAAAGGCATTTTTAGCCTAAAATGCCTTTAATAATCCTTTCATAAA
1 AAAACTTTAAAAGAATTATTAAAGGCATTTTTAGCCTAAAATGCCTTCAATAATCCTCTCATAAA
* * * *
19900014 AAATGGAATGGATTATTGAAGTAGTTTTTTGGCAAAAAATACCTTGAATAATCTCCTCATAAAAA
66 AAATGAAAGGGATTATTGAAGTAGTTTTTTGACAAAAAACACCTTGAATAATCTCCTCATAAAAA
* * * * ** *
19900079 AATGAAGAAAATTATTGAAGGCGTTTTCTGCCAAAATACCTTCAATAATTCCTTTTAAAAAATTA
131 AATGAAGAAAATTATTGAAGACATTTTCTGCAAAAATACCTTCAATAATTCATCATAAAAAATAA
* * ** *
19900144 GAAGAGATTATTGAATGTGTTTTTGATAAAAAAATACCTCTAATAATCTCTTCGTC
196 GAAGAGATTATTAAAGGCATTTTTGATAAAAAAAAACCTCTAATAATCTCTTCGTC
** *
19900200 AAAA-TTTAAAAGAATTATTAAAGGTGTTTTT-GACCTGAAATGCCTTCAATAATCCTCTCATAA
1 AAAACTTTAAAAGAATTATTAAAGGCATTTTTAG-CCTAAAATGCCTTCAATAATCCTCTCATAA
* *
19900263 AAAATGAAAGGGATTATTGAGAG-AG-TTTTTGAC-AAAAACACCTTTAATAATC-CCTTATAAA
65 AAAATGAAAGGGATTATTGA-AGTAGTTTTTTGACAAAAAACACCTTGAATAATCTCCTCATAAA
** ** * * *
19900324 AATTTAGAAG-GGATTATTGAATACATTTT-TGACAAAAAATATCTTGAATAATCTCATCATAAA
129 AAAAT-GAAGAAAATTATTGAAGACATTTTCTG-C-AAAAATACCTTCAATAAT-TCATCATAAA
* * *
19900387 AAATAACGAGGGGATTATTAAAGGCATTTTTGGTAAAAAAAAA
190 AAATAA-GAAGAGATTATTAAAGGCATTTTTGATAAAAAAAAA
19900430 TCTTGAATAA
Statistics
Matches: 188, Mismatches: 35, Indels: 15
0.79 0.15 0.06
Matches are distributed among these distances:
246 2 0.01
247 26 0.14
248 36 0.19
249 20 0.11
250 98 0.52
251 6 0.03
ACGTcount: A:0.42, C:0.12, G:0.13, T:0.33
Consensus pattern (251 bp):
AAAACTTTAAAAGAATTATTAAAGGCATTTTTAGCCTAAAATGCCTTCAATAATCCTCTCATAAA
AAATGAAAGGGATTATTGAAGTAGTTTTTTGACAAAAAACACCTTGAATAATCTCCTCATAAAAA
AATGAAGAAAATTATTGAAGACATTTTCTGCAAAAATACCTTCAATAATTCATCATAAAAAATAA
GAAGAGATTATTAAAGGCATTTTTGATAAAAAAAAACCTCTAATAATCTCTTCGTC
Found at i:19900794 original size:25 final size:25
Alignment explanation
Indices: 19900761--19900812 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 25
19900751 TCATCTCTTC
* *
19900761 AAAATTTAAGGGGATTATTCAAGAA
1 AAAAATTAAGGGCATTATTCAAGAA
* * *
19900786 AAAAATTAATGGCATTTTTTAAGAA
1 AAAAATTAAGGGCATTATTCAAGAA
19900811 AA
1 AA
19900813 TGTCACTAAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.50, C:0.04, G:0.15, T:0.31
Consensus pattern (25 bp):
AAAAATTAAGGGCATTATTCAAGAA
Found at i:19903902 original size:12 final size:12
Alignment explanation
Indices: 19903881--19903939 Score: 57
Period size: 12 Copynumber: 4.8 Consensus size: 12
19903871 ACTCTAAGTG
19903881 AAACCCTAAATA
1 AAACCCTAAATA
*
19903893 AAACCCTAAAATTG
1 AAACCCT-AAA-TA
* *
19903907 AAATCTTAAATA
1 AAACCCTAAATA
*
19903919 AAACCCTAAATG
1 AAACCCTAAATA
19903931 AAA-CCTAAA
1 AAACCCTAAA
19903940 ACCCTAGGCC
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
11 6 0.16
12 20 0.53
13 6 0.16
14 6 0.16
ACGTcount: A:0.56, C:0.20, G:0.03, T:0.20
Consensus pattern (12 bp):
AAACCCTAAATA
Found at i:19909856 original size:68 final size:65
Alignment explanation
Indices: 19909743--19909918 Score: 289
Period size: 65 Copynumber: 2.6 Consensus size: 65
19909733 AGAAATTATC
*
19909743 AAAAACAAGTAAACAGAATTAGATAAGGCTTTTGTTAATTGTTGATCTTAAAAAAAAAAAAAACT
1 AAAAACAAGTAAACAGAATTAGATAAGGCTTTTGTTAATTATTGATCTT---AAAAAAAAAAACT
19909808 ATA
63 ATA
* *
19909811 AAAAACAAGTAAACAGAATTAGATGAGGCTTTTGTTAATTATTGATCTTAAAAAAAAAAACTATC
1 AAAAACAAGTAAACAGAATTAGATAAGGCTTTTGTTAATTATTGATCTTAAAAAAAAAAACTATA
19909876 AAAAACAAGTAAACAGAATTAGATAAGGCTTTTGTTAAATTAT
1 AAAAACAAGTAAACAGAATTAGATAAGGCTTTTGTT-AATTAT
19909919 CAAACACTAA
Statistics
Matches: 103, Mismatches: 4, Indels: 4
0.93 0.04 0.04
Matches are distributed among these distances:
65 50 0.49
66 6 0.06
68 47 0.46
ACGTcount: A:0.51, C:0.08, G:0.12, T:0.29
Consensus pattern (65 bp):
AAAAACAAGTAAACAGAATTAGATAAGGCTTTTGTTAATTATTGATCTTAAAAAAAAAAACTATA
Found at i:19909899 original size:65 final size:66
Alignment explanation
Indices: 19909730--19909918 Score: 299
Period size: 68 Copynumber: 2.8 Consensus size: 66
19909720 TGTTAATCTT
* * *
19909730 AAAAGAAATTATCAAAAACAAGTAAACAGAATTAGATAAGGCTTTTGTTAATTGTTGATCTTAAA
1 AAAAAAAACTATCAAAAACAAGTAAACAGAATTAGATAAGGCTTTTGTTAATTATTGATCTT--A
19909795 AAA
64 AAA
* *
19909798 AAAAAAAACTATAAAAAACAAGTAAACAGAATTAGATGAGGCTTTTGTTAATTATTGATCTT-AA
1 AAAAAAAACTATCAAAAACAAGTAAACAGAATTAGATAAGGCTTTTGTTAATTATTGATCTTAAA
19909862 A
66 A
19909863 AAAAAAAACTATCAAAAACAAGTAAACAGAATTAGATAAGGCTTTTGTTAAATTAT
1 AAAAAAAACTATCAAAAACAAGTAAACAGAATTAGATAAGGCTTTTGTT-AATTAT
19909919 CAAACACTAA
Statistics
Matches: 113, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
65 50 0.44
66 6 0.05
68 57 0.50
ACGTcount: A:0.51, C:0.08, G:0.12, T:0.29
Consensus pattern (66 bp):
AAAAAAAACTATCAAAAACAAGTAAACAGAATTAGATAAGGCTTTTGTTAATTATTGATCTTAAA
A
Found at i:19913250 original size:28 final size:28
Alignment explanation
Indices: 19913208--19913296 Score: 115
Period size: 28 Copynumber: 3.2 Consensus size: 28
19913198 TACTTTTTTT
*
19913208 ATGTTATCATTTTGTTGAACAGTTATTA
1 ATGTTATCATTTTGTTGAACAGTTATTG
* ***
19913236 ATGTTATCATCTTGTTGAACAACAATTG
1 ATGTTATCATTTTGTTGAACAGTTATTG
* *
19913264 ATGTTATCATTTTGTTAAACAGTTGTTG
1 ATGTTATCATTTTGTTGAACAGTTATTG
19913292 ATGTT
1 ATGTT
19913297 CCACTTTTGT
Statistics
Matches: 50, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 50 1.00
ACGTcount: A:0.28, C:0.09, G:0.16, T:0.47
Consensus pattern (28 bp):
ATGTTATCATTTTGTTGAACAGTTATTG
Found at i:19916657 original size:31 final size:31
Alignment explanation
Indices: 19916619--19916677 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
19916609 TATATTGACC
*
19916619 AAATTTACACTAA-AATTAGAAGTATAATGAT
1 AAATTTACAC-AAGAATTAAAAGTATAATGAT
*
19916650 AAATTTACTCAAGAATTAAAAGTATAAT
1 AAATTTACACAAGAATTAAAAGTATAAT
19916678 AGTAAAACTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 2 0.08
31 23 0.92
ACGTcount: A:0.53, C:0.07, G:0.08, T:0.32
Consensus pattern (31 bp):
AAATTTACACAAGAATTAAAAGTATAATGAT
Found at i:19918574 original size:55 final size:54
Alignment explanation
Indices: 19918400--19918733 Score: 254
Period size: 54 Copynumber: 6.2 Consensus size: 54
19918390 TTTTTAAATT
* * * * * **
19918400 TATCAATTTTTCCATAAAAAAAAATAATTTTAAAAATTTG-TGAAAATAGTCAAAA
1 TATCAATTTTTTC-TTAAAAAAAATAA-TTTCAAAATTTGAGGAAAAAAGTTGAAA
* ** *
19918455 TATCAA-TTTTTCGTTAAATAAAAA-ATTTTCAAAATTTGACCAAAAAGGTT-ATAA
1 TATCAATTTTTTC-TTAAA-AAAAATAATTTCAAAATTTGAGGAAAAAAGTTGA-AA
* * *
19918509 TATCGATTTTTCCTTAAACAAAAATAATTTCAAATTTTGAGGAAAAAA-TTGAAA
1 TATCAATTTTTTCTTAAA-AAAAATAATTTCAAAATTTGAGGAAAAAAGTTGAAA
* * *
19918563 TATTAATTTTTTATTAAAATGAAAATAATTTTAAAATTTGA-GAAAAAAGTTGAAA
1 TATCAATTTTTTCTTAAAA--AAAATAATTTCAAAATTTGAGGAAAAAAGTTGAAA
* * * * * **
19918618 TATCAATTTTTT-TGAAATAAAAATAATTTCAAAAGTTAAGGGAAAGAGTCAAAA
1 TATCAATTTTTTCTTAAA-AAAAATAATTTCAAAATTTGAGGAAAAAAGTTGAAA
* * * * * *
19918672 TATCAATCTTTCCTT--AAAAAATAATTTTAAATTTTTAAGAAAAAAGTTGAAA
1 TATCAATTTTTTCTTAAAAAAAATAATTTCAAAATTTGAGGAAAAAAGTTGAAA
19918724 TATCAATTTT
1 TATCAATTTT
19918734 CCTTTTAAAA
Statistics
Matches: 221, Mismatches: 46, Indels: 27
0.75 0.16 0.09
Matches are distributed among these distances:
52 36 0.16
53 31 0.14
54 82 0.37
55 72 0.33
ACGTcount: A:0.49, C:0.07, G:0.08, T:0.37
Consensus pattern (54 bp):
TATCAATTTTTTCTTAAAAAAAATAATTTCAAAATTTGAGGAAAAAAGTTGAAA
Done.