Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 99 of 373
Found at i:32099235 original size:15 final size:15
Alignment explanation
Indices: 32099215--32099271 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
32099205 GCGATGAATT
*
32099215 ATTGAATTTATATTG
1 ATTGAAATTATATTG
*
32099230 ATTGAAATTATTTTG
1 ATTGAAATTATATTG
32099245 ATTGAAATTATATTG
1 ATTGAAATTATATTG
32099260 ATTG-AATTATAT
1 ATTGAAATTATAT
32099272 AATATATATG
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
14 8 0.21
15 31 0.79
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (15 bp):
ATTGAAATTATATTG
Found at i:32105162 original size:42 final size:42
Alignment explanation
Indices: 32105102--32105255 Score: 143
Period size: 42 Copynumber: 3.6 Consensus size: 42
32105092 CGAGGCTATG
* *
32105102 TGTAAGACCATATTTGGGATATGGCATC-ATTATGAGACTTCT
1 TGTAAGACCATATCTGGGATATGGCATCGA-TATGAGACTTCA
*
32105144 TGTAAGACCATATCTGGGATATGGCATCGATATGAGATTTCA
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGACTTCA
*** * * * * * *
32105186 TGTAAGGTTATAGT-TGAGCTATTAGCATCGACACGAGA-TCCCA
1 TGTAAGACCATA-TCTGGGATA-TGGCATCGATATGAGACT-TCA
32105229 TGTAAGACCATATCTGGGATATGGCAT
1 TGTAAGACCATATCTGGGATATGGCAT
32105256 TGCTGTAATA
Statistics
Matches: 89, Mismatches: 18, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
42 58 0.65
43 31 0.35
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATCGATATGAGACTTCA
Found at i:32108784 original size:62 final size:62
Alignment explanation
Indices: 32108686--32108810 Score: 198
Period size: 62 Copynumber: 2.0 Consensus size: 62
32108676 TTACATACAG
* *
32108686 TAGGGTTGCTGCCTCTCATAAATATTATGAAAGGTTTT-GGGTCTCTCTTGTATCAAGTTCAA
1 TAGGGTTGCTGCCTCTCATAAATATTATGAAAGGTTTTAGGG-CTCTCCTGTATCAAGTCCAA
* *
32108748 TAGGGTTGCTGCCTCTCATAAATATTATGAAGGGTTTTAGGGCTCTCCTGTATTAAGTCCAA
1 TAGGGTTGCTGCCTCTCATAAATATTATGAAAGGTTTTAGGGCTCTCCTGTATCAAGTCCAA
32108810 T
1 T
32108811 TATAAGTGCT
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
62 55 0.95
63 3 0.05
ACGTcount: A:0.24, C:0.17, G:0.22, T:0.38
Consensus pattern (62 bp):
TAGGGTTGCTGCCTCTCATAAATATTATGAAAGGTTTTAGGGCTCTCCTGTATCAAGTCCAA
Found at i:32117879 original size:2 final size:2
Alignment explanation
Indices: 32117872--32117897 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
32117862 AACTAGGATT
32117872 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
32117898 ATAATTTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:32120294 original size:22 final size:21
Alignment explanation
Indices: 32120267--32120308 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
32120257 CCTTTCATTT
32120267 TTTTAT-TTTCTTCTCTTGTTTA
1 TTTTATATTTC-TCT-TTGTTTA
32120289 TTTTATATTTCTCTTTGTTT
1 TTTTATATTTCTCTTTGTTT
32120309 TGTTATACGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.32
22 9 0.47
23 4 0.21
ACGTcount: A:0.10, C:0.12, G:0.05, T:0.74
Consensus pattern (21 bp):
TTTTATATTTCTCTTTGTTTA
Found at i:32120314 original size:20 final size:20
Alignment explanation
Indices: 32120277--32120315 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
32120267 TTTTATTTTC
*
32120277 TTCTCTTGTTTATTTTATAT
1 TTCTCTTGTTTATGTTATAT
32120297 TTCTCTTTGTTT-TGTTATA
1 TTCTC-TTGTTTATGTTATA
32120316 CGTTATCAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.13, C:0.10, G:0.08, T:0.69
Consensus pattern (20 bp):
TTCTCTTGTTTATGTTATAT
Found at i:32121821 original size:21 final size:21
Alignment explanation
Indices: 32121792--32121840 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
32121782 TGAATTTATT
*
32121792 TTTTGTTATGTTTAACATATA
1 TTTTATTATGTTTAACATATA
32121813 TTTTATTATGTTTAACATATA
1 TTTTATTATGTTTAACATATA
32121834 TTTTATT
1 TTTTATT
32121841 TATACTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.29, C:0.04, G:0.06, T:0.61
Consensus pattern (21 bp):
TTTTATTATGTTTAACATATA
Found at i:32125840 original size:44 final size:44
Alignment explanation
Indices: 32125776--32125898 Score: 151
Period size: 44 Copynumber: 2.8 Consensus size: 44
32125766 GAAATCTGAA
* * *
32125776 CTCATTGAGTTGGTCTGAGTTCGTGCTAT-TATGAG-GCATCCGAG
1 CTCATTGAGTTGGTCCGAGTTCAT--TATGGATGAGAGCATCCGAG
*
32125820 CTCATTGAGTTGGTCCGAGTTCATTATGGATGCGAGCATCCGAG
1 CTCATTGAGTTGGTCCGAGTTCATTATGGATGAGAGCATCCGAG
* * *
32125864 CTCGTTGAGTTGGTCCTAGTTCACTATGGATGAGA
1 CTCATTGAGTTGGTCCGAGTTCATTATGGATGAGA
32125899 TACATGTAAT
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
42 3 0.04
43 4 0.06
44 62 0.90
ACGTcount: A:0.20, C:0.19, G:0.29, T:0.33
Consensus pattern (44 bp):
CTCATTGAGTTGGTCCGAGTTCATTATGGATGAGAGCATCCGAG
Found at i:32129509 original size:27 final size:27
Alignment explanation
Indices: 32129479--32129534 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
32129469 TTTGAAAAAA
32129479 GTTATATAAAAAATTTAATATGGACAG
1 GTTATATAAAAAATTTAATATGGACAG
* *
32129506 GTTATATAAAAATTTTAATATGGGCAG
1 GTTATATAAAAAATTTAATATGGACAG
32129533 GT
1 GT
32129535 CAAGCCCGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.43, C:0.04, G:0.18, T:0.36
Consensus pattern (27 bp):
GTTATATAAAAAATTTAATATGGACAG
Found at i:32133407 original size:10 final size:10
Alignment explanation
Indices: 32133392--32133416 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
32133382 AGTAGTTATT
32133392 TTTCTGTTAC
1 TTTCTGTTAC
32133402 TTTCTGTTAC
1 TTTCTGTTAC
32133412 TTTCT
1 TTTCT
32133417 TTCCTTGCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.20, G:0.08, T:0.64
Consensus pattern (10 bp):
TTTCTGTTAC
Found at i:32137733 original size:10 final size:10
Alignment explanation
Indices: 32137718--32137742 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
32137708 AGTAGTTATT
32137718 TTTCTGTTAC
1 TTTCTGTTAC
32137728 TTTCTGTTAC
1 TTTCTGTTAC
32137738 TTTCT
1 TTTCT
32137743 TTCCTTGCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.20, G:0.08, T:0.64
Consensus pattern (10 bp):
TTTCTGTTAC
Found at i:32141076 original size:3 final size:3
Alignment explanation
Indices: 32141068--32141122 Score: 101
Period size: 3 Copynumber: 18.3 Consensus size: 3
32141058 TATGTTACTT
*
32141068 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA CTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
32141116 TTA TTA T
1 TTA TTA T
32141123 AGAGGAGAGA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:32142665 original size:26 final size:26
Alignment explanation
Indices: 32142629--32142680 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
32142619 GTGCAATATC
*
32142629 ACATATATATATATATATTCTCTTAT
1 ACATATATATATATATATTATCTTAT
32142655 ACATATATATATATATATTATCTTAT
1 ACATATATATATATATATTATCTTAT
32142681 GTTAGTGAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (26 bp):
ACATATATATATATATATTATCTTAT
Found at i:32148037 original size:14 final size:14
Alignment explanation
Indices: 32147997--32148042 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 14
32147987 GCATTGATTC
32147997 TATGAATATATTTGTA
1 TATG-ATATATTTG-A
32148013 TATGATA-ATTTGA
1 TATGATATATTTGA
32148026 CT-TGATATATTTGA
1 -TATGATATATTTGA
32148040 TAT
1 TAT
32148043 AAAGTATGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
13 7 0.26
14 13 0.48
15 3 0.11
16 4 0.15
ACGTcount: A:0.35, C:0.02, G:0.13, T:0.50
Consensus pattern (14 bp):
TATGATATATTTGA
Found at i:32148155 original size:14 final size:14
Alignment explanation
Indices: 32148138--32148165 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
32148128 AATATTTTTG
32148138 ATTAACTAGTTGAA
1 ATTAACTAGTTGAA
32148152 ATTAACTAGTTGAA
1 ATTAACTAGTTGAA
32148166 CTATGCATGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.14, T:0.36
Consensus pattern (14 bp):
ATTAACTAGTTGAA
Found at i:32150893 original size:37 final size:37
Alignment explanation
Indices: 32150840--32150914 Score: 123
Period size: 37 Copynumber: 2.0 Consensus size: 37
32150830 GAGACTCAAA
32150840 TGATTTAAAATAAAGTTTTGACTTTTCGCCTATTAAT
1 TGATTTAAAATAAAGTTTTGACTTTTCGCCTATTAAT
* * *
32150877 TGATTTATAATTAAGTTTTGACTTTTTGCCTATTAAT
1 TGATTTAAAATAAAGTTTTGACTTTTCGCCTATTAAT
32150914 T
1 T
32150915 ATAAACTTAG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.29, C:0.09, G:0.11, T:0.51
Consensus pattern (37 bp):
TGATTTAAAATAAAGTTTTGACTTTTCGCCTATTAAT
Found at i:32152792 original size:33 final size:33
Alignment explanation
Indices: 32152738--32152817 Score: 90
Period size: 33 Copynumber: 2.4 Consensus size: 33
32152728 GACTTACCTC
* * *
32152738 GTGTTTATTATCCCAGAGGACTGTCTCTGTTTT
1 GTGTTTATTGTCCCAGAGGACTATCTCTATTTT
* * *
32152771 GTGTTTATTGTGCCA-ATGGACTATTTTTATTTT
1 GTGTTTATTGTCCCAGA-GGACTATCTCTATTTT
32152804 GTGTTTATTGTCCC
1 GTGTTTATTGTCCC
32152818 GGTAGACCAT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
32 1 0.03
33 38 0.97
ACGTcount: A:0.15, C:0.15, G:0.20, T:0.50
Consensus pattern (33 bp):
GTGTTTATTGTCCCAGAGGACTATCTCTATTTT
Found at i:32152843 original size:35 final size:35
Alignment explanation
Indices: 32152792--32152858 Score: 98
Period size: 35 Copynumber: 1.9 Consensus size: 35
32152782 GCCAATGGAC
* * *
32152792 TATTTTTATTTTGTGTTTATTGTCCCGGTAGACCA
1 TATTTCTATTTCGTGTTTACTGTCCCGGTAGACCA
*
32152827 TATTTCTATTTCGTGTTTACTGTCTCGGTAGA
1 TATTTCTATTTCGTGTTTACTGTCCCGGTAGA
32152859 TCATCTCTCT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 28 1.00
ACGTcount: A:0.16, C:0.15, G:0.18, T:0.51
Consensus pattern (35 bp):
TATTTCTATTTCGTGTTTACTGTCCCGGTAGACCA
Found at i:32152870 original size:35 final size:35
Alignment explanation
Indices: 32152798--32152870 Score: 92
Period size: 35 Copynumber: 2.1 Consensus size: 35
32152788 GGACTATTTT
* * *
32152798 TATTTTGTGTTTATTGTCCCGGTAGACCATATTTC
1 TATTTCGTGTTTACTGTCCCGGTAGACCATATCTC
* * *
32152833 TATTTCGTGTTTACTGTCTCGGTAGATCATCTCTC
1 TATTTCGTGTTTACTGTCCCGGTAGACCATATCTC
32152868 TAT
1 TAT
32152871 GGATGCCATG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.16, C:0.19, G:0.16, T:0.48
Consensus pattern (35 bp):
TATTTCGTGTTTACTGTCCCGGTAGACCATATCTC
Found at i:32155372 original size:14 final size:13
Alignment explanation
Indices: 32155352--32155383 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
32155342 AATATTTAAC
32155352 TTGTTCTTAATTA
1 TTGTTCTTAATTA
32155365 TGTGTTCTTAATTA
1 T-TGTTCTTAATTA
32155379 TTGTT
1 TTGTT
32155384 TTGATATCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.19, C:0.06, G:0.12, T:0.62
Consensus pattern (13 bp):
TTGTTCTTAATTA
Found at i:32156520 original size:41 final size:42
Alignment explanation
Indices: 32156438--32156547 Score: 159
Period size: 41 Copynumber: 2.6 Consensus size: 42
32156428 CGTCTGTCTC
* ** * *
32156438 AAAACATATACTCATTAACTACAAACCTGTATATACCTGACA
1 AAAACATATACACATTAACTACAAACCAATATACACATGACA
*
32156480 AAAACATATACACATTAACTACATACCAAT-TACACATGACA
1 AAAACATATACACATTAACTACAAACCAATATACACATGACA
32156521 AAAACATATACACATTAACTACAAACC
1 AAAACATATACACATTAACTACAAACC
32156548 TTTCTCATGT
Statistics
Matches: 61, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
41 35 0.57
42 26 0.43
ACGTcount: A:0.50, C:0.25, G:0.03, T:0.23
Consensus pattern (42 bp):
AAAACATATACACATTAACTACAAACCAATATACACATGACA
Found at i:32156564 original size:41 final size:41
Alignment explanation
Indices: 32156432--32156564 Score: 121
Period size: 41 Copynumber: 3.2 Consensus size: 41
32156422 CACGGTCGTC
* * *
32156432 TGTCTC-AAAACATATACTCATTAACTACAAACCTGTAT-A
1 TGTCTCAAAAACATATACACATTAACTACAAACCTTTCTCA
** * * *
32156471 TACCTGACAAAAACATATACACATTAACTACATACCAATTACACA
1 TGTCT--CAAAAACATATACACATTAACTACAAACC--TTTCTCA
*
32156516 TG--ACAAAAACATATACACATTAACTACAAACCTTTCTCA
1 TGTCTCAAAAACATATACACATTAACTACAAACCTTTCTCA
32156555 TGTCTCAAAA
1 TGTCTCAAAA
32156565 CATGATCAAA
Statistics
Matches: 72, Mismatches: 14, Indels: 14
0.72 0.14 0.14
Matches are distributed among these distances:
39 10 0.14
41 34 0.47
42 25 0.35
44 1 0.01
45 2 0.03
ACGTcount: A:0.45, C:0.25, G:0.04, T:0.26
Consensus pattern (41 bp):
TGTCTCAAAAACATATACACATTAACTACAAACCTTTCTCA
Found at i:32160593 original size:40 final size:40
Alignment explanation
Indices: 32160538--32160689 Score: 241
Period size: 40 Copynumber: 3.8 Consensus size: 40
32160528 TATTCGGATG
* *
32160538 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
32160578 ATATCCGGGCTAAGTCCCGAAGGCATTTGTACTAGTGACA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
**
32160618 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
32160658 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC
32160690 GAGTTGCTAA
Statistics
Matches: 101, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 101 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:32160704 original size:40 final size:40
Alignment explanation
Indices: 32160540--32160718 Score: 220
Period size: 40 Copynumber: 4.5 Consensus size: 40
32160530 TTCGGATGAT
* * *
32160540 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAA
*
32160580 ATCCGGGCTAAGTCCCGAAGGCATTTGTACTAGTGAC-AA
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAA
** *
32160619 TATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACTAT
1 -ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAA
* *
32160660 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTAA
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACTAA
* *
32160700 ATCC-GACTAAATCCCGAAG
1 ATCCGGGCTAAGTCCCGAAG
32160719 ATACTTAGGT
Statistics
Matches: 120, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
39 13 0.11
40 104 0.87
41 3 0.03
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAA
Found at i:32188176 original size:10 final size:10
Alignment explanation
Indices: 32188161--32188193 Score: 66
Period size: 10 Copynumber: 3.3 Consensus size: 10
32188151 CTTATCTGCA
32188161 TCATGTAGTG
1 TCATGTAGTG
32188171 TCATGTAGTG
1 TCATGTAGTG
32188181 TCATGTAGTG
1 TCATGTAGTG
32188191 TCA
1 TCA
32188194 ACCAATCCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.21, C:0.12, G:0.27, T:0.39
Consensus pattern (10 bp):
TCATGTAGTG
Found at i:32198552 original size:29 final size:30
Alignment explanation
Indices: 32198519--32198579 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
32198509 CAAATAGCCG
* *
32198519 AAGCTAG-TTAACTTGCACACTTAGTGCCA
1 AAGCTAGTTTAAATCGCACACTTAGTGCCA
32198548 AAGCTAGTTTAAATCGCACACTTAGTGCCA
1 AAGCTAGTTTAAATCGCACACTTAGTGCCA
32198578 AA
1 AA
32198580 ACTTCTGATT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 7 0.24
30 22 0.76
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.26
Consensus pattern (30 bp):
AAGCTAGTTTAAATCGCACACTTAGTGCCA
Found at i:32202566 original size:21 final size:22
Alignment explanation
Indices: 32202526--32202567 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
32202516 GGGCACACAT
*
32202526 GCCCGTGTGGTCCAAAGGACAA
1 GCCCGTGTGGACCAAAGGACAA
*
32202548 GCCCGTGT-GACCTAAGGACA
1 GCCCGTGTGGACCAAAGGACA
32202568 CGCCTATGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.26, C:0.29, G:0.31, T:0.14
Consensus pattern (22 bp):
GCCCGTGTGGACCAAAGGACAA
Found at i:32204362 original size:20 final size:20
Alignment explanation
Indices: 32204321--32204362 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
32204311 AGCACATGTA
* *
32204321 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAACTT
*
32204341 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAACTT
32204361 TT
1 TT
32204363 TATTTTAGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.12, G:0.02, T:0.50
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:32206886 original size:28 final size:27
Alignment explanation
Indices: 32206825--32206886 Score: 63
Period size: 28 Copynumber: 2.2 Consensus size: 27
32206815 TTTGTCAATT
*
32206825 AATTTGTTTTTCCCTGATCTAAATCTA
1 AATTTATTTTTCCCTGATCTAAATCTA
* *
32206852 AACTTTATTTTT-CTTGATCTATAATGTCA
1 AA-TTTATTTTTCCCTGATCTA-AATCT-A
32206881 AATTTA
1 AATTTA
32206887 ACCTATTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
27 10 0.34
28 16 0.55
29 3 0.10
ACGTcount: A:0.29, C:0.15, G:0.06, T:0.50
Consensus pattern (27 bp):
AATTTATTTTTCCCTGATCTAAATCTA
Found at i:32209923 original size:29 final size:29
Alignment explanation
Indices: 32209880--32209954 Score: 78
Period size: 29 Copynumber: 2.6 Consensus size: 29
32209870 TAATATTCAT
* *
32209880 ATGGCCCATTGGGCCCAAATCACCTGTAA
1 ATGGCCCATTAGGCCCAAATCACATGTAA
* * * *
32209909 ATGGCCCCTTAGGCCTAAATCACATTTAT
1 ATGGCCCATTAGGCCCAAATCACATGTAA
**
32209938 ATGGCCGGTTAGGCCCA
1 ATGGCCCATTAGGCCCA
32209955 GCCACATTCA
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.24
Consensus pattern (29 bp):
ATGGCCCATTAGGCCCAAATCACATGTAA
Found at i:32210205 original size:8 final size:8
Alignment explanation
Indices: 32210194--32210224 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
32210184 CTTTTCGACT
32210194 TTTCGGCA
1 TTTCGGCA
32210202 TTTCGGCA
1 TTTCGGCA
32210210 TTTCGGCA
1 TTTCGGCA
32210218 TTTCGGC
1 TTTCGGC
32210225 TTTTGTCGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.10, C:0.26, G:0.26, T:0.39
Consensus pattern (8 bp):
TTTCGGCA
Found at i:32211424 original size:16 final size:16
Alignment explanation
Indices: 32211403--32211434 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
32211393 TAGTTTGATA
32211403 TTTCGGGATTTTTGGG
1 TTTCGGGATTTTTGGG
32211419 TTTCGGGATTTTTGGG
1 TTTCGGGATTTTTGGG
32211435 GCATTACAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.06, C:0.06, G:0.38, T:0.50
Consensus pattern (16 bp):
TTTCGGGATTTTTGGG
Found at i:32232422 original size:28 final size:28
Alignment explanation
Indices: 32232390--32232504 Score: 106
Period size: 29 Copynumber: 4.0 Consensus size: 28
32232380 TACCTGTATC
*
32232390 TGGCCCATTAAGCCCAACCATATTCATA
1 TGGCCCATTAAGCCCAACCACATTCATA
* * *
32232418 TGGCCCATTAAGCCTAAATCACCTGT-ATA
1 TGGCCCATTAAGCC-CAACCACAT-TCATA
* * *
32232447 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAAGCCC-AACCACATTCATA
* * *
32232476 TGGCCCGTTAGGGCCAACCACATTCATA
1 TGGCCCATTAAGCCCAACCACATTCATA
32232504 T
1 T
32232505 TCATGCTCAC
Statistics
Matches: 72, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
28 27 0.38
29 44 0.61
30 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.26
Consensus pattern (28 bp):
TGGCCCATTAAGCCCAACCACATTCATA
Found at i:32232465 original size:29 final size:29
Alignment explanation
Indices: 32232384--32232481 Score: 110
Period size: 29 Copynumber: 3.4 Consensus size: 29
32232374 TTCACATACC
* * *
32232384 TGTATCTGGCCCATTAAGCCC-AACCATA
1 TGTATATGGCCCATTAAGCCCAAATCACA
* *
32232412 T-TCATATGGCCCATTAAGCCTAAATCACC
1 TGT-ATATGGCCCATTAAGCCCAAATCACA
*
32232441 TGTATATGGCCCATTAGGCCCAAATCACA
1 TGTATATGGCCCATTAAGCCCAAATCACA
*
32232470 TTTATATGGCCC
1 TGTATATGGCCC
32232482 GTTAGGGCCA
Statistics
Matches: 58, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
27 1 0.02
28 17 0.29
29 39 0.67
30 1 0.02
ACGTcount: A:0.29, C:0.30, G:0.14, T:0.28
Consensus pattern (29 bp):
TGTATATGGCCCATTAAGCCCAAATCACA
Found at i:32236803 original size:29 final size:27
Alignment explanation
Indices: 32236785--32236854 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
32236775 ATATTAAGTC
32236785 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
32236812 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
32236840 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
32236855 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:32236848 original size:28 final size:28
Alignment explanation
Indices: 32236785--32236882 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
32236775 ATATTAAGTC
*
32236785 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
32236812 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
32236840 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
32236869 CGCACACTTAGTGC
1 CGCACACTTAGTGC
32236883 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:32244961 original size:29 final size:27
Alignment explanation
Indices: 32244943--32245012 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
32244933 ATATTAAGTC
32244943 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
32244970 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
32244998 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
32245013 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:32245006 original size:28 final size:28
Alignment explanation
Indices: 32244943--32245040 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
32244933 ATATTAAGTC
*
32244943 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
32244970 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
32244998 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
32245027 CGCACACTTAGTGC
1 CGCACACTTAGTGC
32245041 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:32249451 original size:13 final size:13
Alignment explanation
Indices: 32249435--32249466 Score: 50
Period size: 11 Copynumber: 2.6 Consensus size: 13
32249425 TGTATATTAA
32249435 TTTTACATATTTT
1 TTTTACATATTTT
32249448 TTTT--ATATTTT
1 TTTTACATATTTT
32249459 TTTTACAT
1 TTTTACAT
32249467 TTTAATGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 4
0.81 0.00 0.19
Matches are distributed among these distances:
11 11 0.65
13 6 0.35
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTTACATATTTT
Found at i:32250973 original size:16 final size:16
Alignment explanation
Indices: 32250954--32250985 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
32250944 ATATTAATGT
*
32250954 TATTTAATTTTAAAAA
1 TATTTAATATTAAAAA
32250970 TATTTAATATTAAAAA
1 TATTTAATATTAAAAA
32250986 ATACAAAAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TATTTAATATTAAAAA
Found at i:32250987 original size:17 final size:16
Alignment explanation
Indices: 32250954--32250988 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
32250944 ATATTAATGT
*
32250954 TATTTAATTTTAAAAA
1 TATTTAATTTAAAAAA
32250970 TATTTAATATTAAAAAA
1 TATTTAAT-TTAAAAAA
32250987 TA
1 TA
32250989 CAAAAGAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
TATTTAATTTAAAAAA
Found at i:32251634 original size:3 final size:3
Alignment explanation
Indices: 32251628--32251662 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
32251618 ATTAACATTG
*
32251628 TTA TTA TTA TTA TTA TTA TTA CTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
32251663 TTGTTAAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:32251703 original size:22 final size:22
Alignment explanation
Indices: 32251676--32251721 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
32251666 TTAAATTTGT
32251676 AAGTATGACATTTTGAAATGAA
1 AAGTATGACATTTTGAAATGAA
32251698 AAGTATGACATTTTGAAATGAA
1 AAGTATGACATTTTGAAATGAA
32251720 AA
1 AA
32251722 AAGTACTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.48, C:0.04, G:0.17, T:0.30
Consensus pattern (22 bp):
AAGTATGACATTTTGAAATGAA
Found at i:32253709 original size:46 final size:45
Alignment explanation
Indices: 32253651--32253748 Score: 101
Period size: 46 Copynumber: 2.2 Consensus size: 45
32253641 TTGAGTTTAT
*
32253651 TTAATATGTCTAAGTATA-TACGA-CAATTAATATGTCTTAAGATAA
1 TTAATTTGTCTAA-T-TACTACGACCAATTAATATGTCTTAAGATAA
* * * * *
32253696 TTAATTTGTTCTAATTACTACGACCATTTAATTTGTCTTGAGTTAT
1 TTAATTTG-TCTAATTACTACGACCAATTAATATGTCTTAAGATAA
32253742 TTAATTT
1 TTAATTT
32253749 ATCTTAGTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
44 2 0.05
45 13 0.30
46 29 0.66
ACGTcount: A:0.34, C:0.10, G:0.10, T:0.46
Consensus pattern (45 bp):
TTAATTTGTCTAATTACTACGACCAATTAATATGTCTTAAGATAA
Found at i:32253760 original size:19 final size:19
Alignment explanation
Indices: 32253721--32253757 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
32253711 TACTACGACC
*
32253721 ATTTAATTTGTCTTGAGTT
1 ATTTAATTTATCTTGAGTT
32253740 ATTTAATTTATCTT-AGTT
1 ATTTAATTTATCTTGAGTT
32253758 TATACAGCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.24, C:0.05, G:0.11, T:0.59
Consensus pattern (19 bp):
ATTTAATTTATCTTGAGTT
Found at i:32265863 original size:20 final size:20
Alignment explanation
Indices: 32265821--32265865 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
32265811 AGCACATGTA
* **
32265821 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAACAT
*
32265841 TTCATCAAATTTTACAACAT
1 TTCATAAAATTTTACAACAT
32265861 TTCAT
1 TTCAT
32265866 TTTAGTCCTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.38, C:0.13, G:0.02, T:0.47
Consensus pattern (20 bp):
TTCATAAAATTTTACAACAT
Found at i:32268031 original size:27 final size:27
Alignment explanation
Indices: 32267992--32268169 Score: 160
Period size: 27 Copynumber: 6.6 Consensus size: 27
32267982 ACATTGAGCC
* * * *
32267992 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* * *
32268019 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
**
32268046 CGCACACTTAGTGCTACATAGTCAGGCT
1 CGCACACTTAGTGCTACATAGTCA-AAT
** * *
32268074 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
32268101 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
* *
32268128 CGCACACTGAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
32268155 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
32268170 GTACAATTTA
Statistics
Matches: 122, Mismatches: 26, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
27 99 0.81
28 23 0.19
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:32268131 original size:82 final size:81
Alignment explanation
Indices: 32268013--32268168 Score: 197
Period size: 82 Copynumber: 1.9 Consensus size: 81
32268003 TGCTATATAA
* * * **
32268013 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGGCTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTGAGTGCAACATAGTCA-AATCGCA
32268078 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
32268095 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTGAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTGAGTGCAACATAGTCAAATCGCA
*
32268159 CCCTTAGTGC
65 CACTTAGTGC
32268169 TGTACAATTT
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
81 16 0.25
82 47 0.75
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTGAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:32275865 original size:27 final size:27
Alignment explanation
Indices: 32275834--32276011 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
32275824 TATATTGAGC
* * * *
32275834 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
32275861 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
32275888 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
32275916 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
32275943 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
32275970 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
32275997 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
32276012 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:32275973 original size:82 final size:81
Alignment explanation
Indices: 32275855--32276010 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
32275845 TGCTATATAA
* *
32275855 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
32275920 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
32275937 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
32276001 CACTTAGTGC
65 CACTTAGTGC
32276011 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:32283845 original size:27 final size:27
Alignment explanation
Indices: 32283815--32283991 Score: 203
Period size: 27 Copynumber: 6.5 Consensus size: 27
32283805 TATTGAGCCT
* * * *
32283815 GCACACTCAGTGCTATATAATCAACTC
1 GCACACTTAGTGCTACATAGTCAAATC
* *
32283842 GCACACTTAGTGCTACGTAATCAAATC
1 GCACACTTAGTGCTACATAGTCAAATC
32283869 GCACACTTAGTGCTACATAGTCAAACTC
1 GCACACTTAGTGCTACATAGTCAAA-TC
** * *
32283897 GCACACTTAGTGCCGCATGGTCAATTC
1 GCACACTTAGTGCTACATAGTCAAATC
* **
32283924 GCACACTTAGTGC-ATCATATTCATTTC
1 GCACACTTAGTGCTA-CATAGTCAAATC
*
32283951 GCACACTTAGTGCAACATAGTCAAATC
1 GCACACTTAGTGCTACATAGTCAAATC
32283978 GCACACTTAGTGCT
1 GCACACTTAGTGCT
32283992 GTACAATTTA
Statistics
Matches: 129, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 105 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
GCACACTTAGTGCTACATAGTCAAATC
Found at i:32283953 original size:82 final size:81
Alignment explanation
Indices: 32283835--32283990 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
32283825 TGCTATATAA
* *
32283835 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
32283900 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
32283917 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
32283981 CACTTAGTGC
65 CACTTAGTGC
32283991 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:32287306 original size:18 final size:19
Alignment explanation
Indices: 32287279--32287336 Score: 57
Period size: 20 Copynumber: 3.1 Consensus size: 19
32287269 ATGAAAATAG
*
32287279 AATGGGAAATGGAAT-TGA
1 AATGGGAAATGAAATGTGA
*
32287297 AATGGTAAATGAAATGTGA
1 AATGGGAAATGAAATGTGA
*
32287316 AATTGTGG-AATGAATTGTGA
1 AA-TG-GGAAATGAAATGTGA
32287336 A
1 A
32287337 CCTTGATATA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
18 13 0.39
19 5 0.15
20 14 0.42
21 1 0.03
ACGTcount: A:0.43, C:0.00, G:0.29, T:0.28
Consensus pattern (19 bp):
AATGGGAAATGAAATGTGA
Found at i:32293347 original size:87 final size:87
Alignment explanation
Indices: 32293238--32293413 Score: 343
Period size: 87 Copynumber: 2.0 Consensus size: 87
32293228 ACTTTGTACA
32293238 TATCATCTTTGCACATGCAACATATTTCTTATGTTTTACTCATTCATTGAATACTCAAAATTCAT
1 TATCATCTTTGCACATGCAACATATTTCTTATGTTTTACTCATTCATTGAATACTCAAAATTCAT
32293303 CACTATTTAAATTACTTACTGG
66 CACTATTTAAATTACTTACTGG
32293325 TATCATCTTTGCACATGCAACATATTTCTTATGTTTTACTCATTCATTGAATACTCAAAATTCAT
1 TATCATCTTTGCACATGCAACATATTTCTTATGTTTTACTCATTCATTGAATACTCAAAATTCAT
*
32293390 CTCTATTTAAATTACTTACTGG
66 CACTATTTAAATTACTTACTGG
32293412 TA
1 TA
32293414 CTGTTCACAT
Statistics
Matches: 88, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
87 88 1.00
ACGTcount: A:0.31, C:0.19, G:0.07, T:0.43
Consensus pattern (87 bp):
TATCATCTTTGCACATGCAACATATTTCTTATGTTTTACTCATTCATTGAATACTCAAAATTCAT
CACTATTTAAATTACTTACTGG
Found at i:32295422 original size:4 final size:4
Alignment explanation
Indices: 32295415--32295441 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
32295405 TAACTAACAA
32295415 AAAG AAAG AAAG AAAG AAAG AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAA
32295442 AAACAAATGA
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:0.22, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:32303305 original size:51 final size:52
Alignment explanation
Indices: 32303234--32303331 Score: 171
Period size: 51 Copynumber: 1.9 Consensus size: 52
32303224 ACATAAAATC
*
32303234 AAATATATAACATCACATATGTACATATCTATATGGCCAAATATACAAGATA
1 AAATATATAACATCACATATGTACATACCTATATGGCCAAATATACAAGATA
*
32303286 AAATATA-AACATCACATATGTACATACCTATATGGCCGAATATACA
1 AAATATATAACATCACATATGTACATACCTATATGGCCAAATATACA
32303332 TGGTCATTTA
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
51 37 0.84
52 7 0.16
ACGTcount: A:0.47, C:0.17, G:0.08, T:0.28
Consensus pattern (52 bp):
AAATATATAACATCACATATGTACATACCTATATGGCCAAATATACAAGATA
Found at i:32317986 original size:27 final size:28
Alignment explanation
Indices: 32317908--32317986 Score: 87
Period size: 27 Copynumber: 2.9 Consensus size: 28
32317898 AATATATGCG
32317908 AAATTATTATA-AAAATAATTA-AAATT
1 AAATTATTATATAAAATAATTATAAATT
* *
32317934 AAATTTTTTTATAAAATAAGTT-TAAATT
1 AAATTATTATATAAAATAA-TTATAAATT
32317962 -AATTATTATATAATAA-AATTATAAA
1 AAATTATTATATAA-AATAATTATAAA
32317987 ATTTGACATA
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
26 11 0.25
27 24 0.55
28 9 0.20
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (28 bp):
AAATTATTATATAAAATAATTATAAATT
Found at i:32318311 original size:29 final size:29
Alignment explanation
Indices: 32318279--32318382 Score: 91
Period size: 29 Copynumber: 3.5 Consensus size: 29
32318269 CTTTGTGGTT
32318279 GAATCTGTTATATGTGAGCCTTAGTGGCA
1 GAATCTGTTATATGTGAGCCTTAGTGGCA
* * **
32318308 GAATCTATTATATGTGGAAGCCTTTGTGGTT
1 GAATCTGTTATATGT-G-AGCCTTAGTGGCA
** * *
32318339 GTCTTTGTTATATGTGAGCCCTAGTGGCA
1 GAATCTGTTATATGTGAGCCTTAGTGGCA
* * *
32318368 AAACCTGTCATATGT
1 GAATCTGTTATATGT
32318383 TAAAGCCTTT
Statistics
Matches: 55, Mismatches: 18, Indels: 4
0.71 0.23 0.05
Matches are distributed among these distances:
29 32 0.58
30 2 0.04
31 21 0.38
ACGTcount: A:0.23, C:0.14, G:0.25, T:0.38
Consensus pattern (29 bp):
GAATCTGTTATATGTGAGCCTTAGTGGCA
Found at i:32318364 original size:60 final size:60
Alignment explanation
Indices: 32318267--32318394 Score: 166
Period size: 60 Copynumber: 2.1 Consensus size: 60
32318257 TTAAAGTGAT
* * * * *
32318267 GCCTTTGTGGTTGAATCTGTTATATGTGAGCCTTAGTGGCAGAATCTATTATATGTGGAA
1 GCCTTTGTGGTTGAATCTGTTATATGTGAGCCCTAGTGGCAAAACCTATCATATGTGAAA
** * * *
32318327 GCCTTTGTGGTTGTCTTTGTTATATGTGAGCCCTAGTGGCAAAACCTGTCATATGTTAAA
1 GCCTTTGTGGTTGAATCTGTTATATGTGAGCCCTAGTGGCAAAACCTATCATATGTGAAA
32318387 GCCTTTGT
1 GCCTTTGT
32318395 AGCAAAATCG
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.21, C:0.15, G:0.25, T:0.39
Consensus pattern (60 bp):
GCCTTTGTGGTTGAATCTGTTATATGTGAGCCCTAGTGGCAAAACCTATCATATGTGAAA
Found at i:32320488 original size:15 final size:16
Alignment explanation
Indices: 32320453--32320485 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
32320443 GAATGCTTAG
32320453 AACAACCACTATGCAA
1 AACAACCACTATGCAA
*
32320469 AACAACTACTATGCAA
1 AACAACCACTATGCAA
32320485 A
1 A
32320486 CAAGTCATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.52, C:0.27, G:0.06, T:0.15
Consensus pattern (16 bp):
AACAACCACTATGCAA
Found at i:32324505 original size:40 final size:40
Alignment explanation
Indices: 32324421--32324645 Score: 269
Period size: 40 Copynumber: 5.7 Consensus size: 40
32324411 TTGAATGATG
* * * *
32324421 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * * *
32324461 TCCGGACTAAGAT-CCGAAGGTATTTGTGTGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
32324501 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
32324540 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
32324580 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
32324621 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
32324646 AACGAGGAGC
Statistics
Matches: 160, Mismatches: 20, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
39 32 0.20
40 119 0.74
41 9 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:32324663 original size:80 final size:80
Alignment explanation
Indices: 32324495--32324678 Score: 214
Period size: 80 Copynumber: 2.3 Consensus size: 80
32324485 TGTGTGAGAT
* * * *
32324495 ACTAATTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAG
1 ACTAAATCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGCTACTAAATCCGGGCTAAGTCCCGAAG
** *
32324559 GCATTTGTGCGAGTT
66 GCATTTGAACGAGTG
* *
32324574 ACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA-CCGGGCTATGTCCCGAA
1 ACTAAATCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGCTACTA-AATCCGGGCTAAGTCCCGAA
32324638 GGCATTTGAACGAG-G
65 GGCATTTGAACGAGTG
* * *
32324653 AGCTATATCC-GGTTAAATTCCGAAGG
1 A-CTAAATCCGGGTTAAGTCCCGAAGG
32324679 TACGTGATTT
Statistics
Matches: 90, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
79 30 0.33
80 58 0.64
81 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
ACTAAATCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGCTACTAAATCCGGGCTAAGTCCCGAAG
GCATTTGAACGAGTG
Found at i:32324667 original size:119 final size:119
Alignment explanation
Indices: 32324421--32324678 Score: 265
Period size: 119 Copynumber: 2.2 Consensus size: 119
32324411 TTGAATGATG
* * *
32324421 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGTATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* * ** *
32324486 GTGTGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAA
* * * **
32324540 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * *
32324603 TTGTGCGAGCTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTGA-CTAAA
* *
32324660 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
32324679 TACGTGATTT
Statistics
Matches: 115, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
118 3 0.03
119 81 0.70
120 31 0.27
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAA
Found at i:32336131 original size:24 final size:24
Alignment explanation
Indices: 32336104--32336157 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
32336094 GTACTCACAC
*
32336104 ATTAATTAATTAA-ATAAAACTTCA
1 ATTAAATAA-TAATATAAAACTTCA
*
32336128 ATTAAATAATAATATTAAACTTCA
1 ATTAAATAATAATATAAAACTTCA
*
32336152 CTTAAA
1 ATTAAA
32336158 ACAAGAGTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 3 0.12
24 23 0.88
ACGTcount: A:0.54, C:0.09, G:0.00, T:0.37
Consensus pattern (24 bp):
ATTAAATAATAATATAAAACTTCA
Found at i:32337095 original size:19 final size:20
Alignment explanation
Indices: 32337055--32337096 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 20
32337045 TTTATTTAAA
*
32337055 TATTAAATTATTTTTATAAT
1 TATTAAATTATTTTAATAAT
32337075 TATT-AATTATTATTAAT-AT
1 TATTAAATTATT-TTAATAAT
32337094 TAT
1 TAT
32337097 ATTATATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
TATTAAATTATTTTAATAAT
Found at i:32337485 original size:20 final size:19
Alignment explanation
Indices: 32337460--32337498 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
32337450 GCAGGGGAAG
*
32337460 GAAAGAAAGAAAGGAGAAAA
1 GAAAGAAAAAAAGG-GAAAA
32337480 GAAAGAAAAAAAGGGAAAA
1 GAAAGAAAAAAAGGGAAAA
32337499 TTAAGGATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (19 bp):
GAAAGAAAAAAAGGGAAAA
Found at i:32338724 original size:16 final size:17
Alignment explanation
Indices: 32338700--32338733 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
32338690 GTATTGATAT
*
32338700 TTGAGTTGAAT-GAGAA
1 TTGAATTGAATGGAGAA
32338716 TTGAATTGAATGGAGAA
1 TTGAATTGAATGGAGAA
32338733 T
1 T
32338734 GTGTATGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.38, C:0.00, G:0.29, T:0.32
Consensus pattern (17 bp):
TTGAATTGAATGGAGAA
Found at i:32339451 original size:31 final size:31
Alignment explanation
Indices: 32339413--32339475 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
32339403 ATATAAAGAA
*
32339413 AGAAAGATGAGGAAAATTCTCATCCATGTCC
1 AGAAAGATGAGGAAAATTCTCATCCATCTCC
*
32339444 AGAAAGATGGGGAAAATTCTCATCCATCTCC
1 AGAAAGATGAGGAAAATTCTCATCCATCTCC
32339475 A
1 A
32339476 TGCATTCACG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.22
Consensus pattern (31 bp):
AGAAAGATGAGGAAAATTCTCATCCATCTCC
Found at i:32341548 original size:23 final size:22
Alignment explanation
Indices: 32341522--32341608 Score: 70
Period size: 21 Copynumber: 4.0 Consensus size: 22
32341512 GCTTTACTGA
*
32341522 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACTTCATGTGTCGTA-T
* * *
32341545 TCAGGCACCTCGTGTGCCGTA-
1 TCAGGCACTTCATGTGTCGTAT
* * *
32341566 TCAAGCACTTCGTGTGTCATAT
1 TCAGGCACTTCATGTGTCGTAT
* *
32341588 T-AGGCACTTTATGTGTTGTAT
1 TCAGGCACTTCATGTGTCGTAT
32341609 ACTGATCAGG
Statistics
Matches: 50, Mismatches: 13, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
21 32 0.64
22 1 0.02
23 17 0.34
ACGTcount: A:0.18, C:0.21, G:0.23, T:0.38
Consensus pattern (22 bp):
TCAGGCACTTCATGTGTCGTAT
Found at i:32343173 original size:20 final size:20
Alignment explanation
Indices: 32343148--32343197 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
32343138 AATAAGGGTC
32343148 ACACGCCCGTGTGGCTTGGG
1 ACACGCCCGTGTGGCTTGGG
32343168 ACACGCCCGTGTGGCTTGGG
1 ACACGCCCGTGTGGCTTGGG
*
32343188 ACATGCCCGT
1 ACACGCCCGT
32343198 ATGGGCAGGC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.12, C:0.32, G:0.36, T:0.20
Consensus pattern (20 bp):
ACACGCCCGTGTGGCTTGGG
Found at i:32344493 original size:42 final size:43
Alignment explanation
Indices: 32344386--32344495 Score: 116
Period size: 43 Copynumber: 2.6 Consensus size: 43
32344376 GCGATATCTC
**** *
32344386 AGATATGGTCTTACATGGGATCTCATATCGATGCCAATAGCCC
1 AGATATGGTCTTACAAAAAATCTCATATCGATGCCAATAGCCA
* *
32344429 AGGTATGGTCTTA-AAAGAAATCTCATATCGATGCC-ATATCCA
1 AGATATGGTCTTACAAA-AAATCTCATATCGATGCCAATAGCCA
* *
32344471 AGATATGGTCTTACACATAATCTCA
1 AGATATGGTCTTACAAAAAATCTCA
32344496 ACTAACCCTA
Statistics
Matches: 55, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
42 25 0.45
43 30 0.55
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (43 bp):
AGATATGGTCTTACAAAAAATCTCATATCGATGCCAATAGCCA
Found at i:32347796 original size:46 final size:45
Alignment explanation
Indices: 32347729--32347899 Score: 195
Period size: 46 Copynumber: 3.7 Consensus size: 45
32347719 AACCCGCCCC
*
32347729 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT-CA
* *
32347775 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCA
* * * * *
32347823 TCA-CGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCA
32347867 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
32347900 ATGCTCAACC
Statistics
Matches: 104, Mismatches: 13, Indels: 17
0.78 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 3 0.03
45 27 0.26
46 32 0.31
47 27 0.26
48 3 0.03
49 1 0.01
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.22
Consensus pattern (45 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCA
Found at i:32347894 original size:92 final size:93
Alignment explanation
Indices: 32347734--32347903 Score: 297
Period size: 92 Copynumber: 1.8 Consensus size: 93
32347724 GCCCCTAAGT
* * *
32347734 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
32347799 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
32347827 GAACTCAGACTCAACTCAACGAGTTCGGACATTCGCAT-CATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
32347891 CGAGTTCGGATGC
66 CGAGTTCGGATGC
32347904 TCAACCATCC
Statistics
Matches: 73, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
92 39 0.53
93 34 0.47
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:32349390 original size:37 final size:37
Alignment explanation
Indices: 32349338--32349414 Score: 138
Period size: 37 Copynumber: 2.1 Consensus size: 37
32349328 AAACCTCGAA
32349338 GTAAACCTCGAATCTCTATCTGAAATAATAGAAATAG
1 GTAAACCTCGAATCTCTATCTGAAATAATAGAAATAG
32349375 GTAAACCTC-AGATCTCTATCTGAAATAATAGAAATAG
1 GTAAACCTCGA-ATCTCTATCTGAAATAATAGAAATAG
32349412 GTA
1 GTA
32349415 CCCCGTGCAA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
36 1 0.03
37 38 0.97
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.27
Consensus pattern (37 bp):
GTAAACCTCGAATCTCTATCTGAAATAATAGAAATAG
Found at i:32353506 original size:22 final size:22
Alignment explanation
Indices: 32353480--32353524 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
32353470 CCAACACTTA
32353480 GAAAATTTTTCACTAAAATAGG
1 GAAAATTTTTCACTAAAATAGG
*
32353502 GAAAATTTTTCATTAAAATAGG
1 GAAAATTTTTCACTAAAATAGG
32353524 G
1 G
32353525 GTCACACGCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.44, C:0.07, G:0.16, T:0.33
Consensus pattern (22 bp):
GAAAATTTTTCACTAAAATAGG
Found at i:32358429 original size:27 final size:27
Alignment explanation
Indices: 32358388--32358468 Score: 108
Period size: 27 Copynumber: 3.0 Consensus size: 27
32358378 ACACACCATA
*
32358388 AAAATGAAGCCTTTGTGGCAATTTATG
1 AAAATGAAGCCTTTGTGGCAATCTATG
** *
32358415 AAAATGAAGTATTTGTGGTAATCTATG
1 AAAATGAAGCCTTTGTGGCAATCTATG
*
32358442 AAAAAGAAAGCCTTTGTGGCAATCTAT
1 AAAATG-AAGCCTTTGTGGCAATCTAT
32358469 CATAAAGAAG
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
27 28 0.62
28 17 0.38
ACGTcount: A:0.37, C:0.10, G:0.21, T:0.32
Consensus pattern (27 bp):
AAAATGAAGCCTTTGTGGCAATCTATG
Found at i:32358458 original size:28 final size:28
Alignment explanation
Indices: 32358394--32358477 Score: 98
Period size: 28 Copynumber: 3.0 Consensus size: 28
32358384 CATAAAAATG
* *
32358394 AAGCCTTTGTGGCAATTTATGAAAATG-
1 AAGCCTTTGTGGCAATCTATGAAAAAGA
** *
32358421 AAGTATTTGTGGTAATCTATGAAAAAGA
1 AAGCCTTTGTGGCAATCTATGAAAAAGA
* *
32358449 AAGCCTTTGTGGCAATCTATCATAAAGA
1 AAGCCTTTGTGGCAATCTATGAAAAAGA
32358477 A
1 A
32358478 GTGTTTGTGA
Statistics
Matches: 46, Mismatches: 10, Indels: 1
0.81 0.18 0.02
Matches are distributed among these distances:
27 22 0.48
28 24 0.52
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (28 bp):
AAGCCTTTGTGGCAATCTATGAAAAAGA
Found at i:32362897 original size:17 final size:17
Alignment explanation
Indices: 32362867--32362923 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 17
32362857 TATTTTATCT
*
32362867 AATAT-TTATTAATTAA
1 AATATATTATAAATTAA
*
32362883 AATATATTATAAATTTA
1 AATATATTATAAATTAA
* * *
32362900 TATGTATGATAAATTTAA
1 AATATATTATAAA-TTAA
32362918 AATATA
1 AATATA
32362924 ACTAATTTTA
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
16 5 0.16
17 19 0.61
18 7 0.23
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.46
Consensus pattern (17 bp):
AATATATTATAAATTAA
Found at i:32364208 original size:20 final size:20
Alignment explanation
Indices: 32364183--32364222 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
32364173 AATTAAGAAA
32364183 AATTGCTAAAGTATCGATAC
1 AATTGCTAAAGTATCGATAC
* *
32364203 AATTGCTTAGGTATCGATAC
1 AATTGCTAAAGTATCGATAC
32364223 CTCAGAGATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (20 bp):
AATTGCTAAAGTATCGATAC
Found at i:32374378 original size:15 final size:15
Alignment explanation
Indices: 32374358--32374389 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
32374348 CATTTCACTA
*
32374358 TTATGTCTTTTATAT
1 TTATGTCTTTCATAT
32374373 TTATGTCTTTCATAT
1 TTATGTCTTTCATAT
32374388 TT
1 TT
32374390 TACATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.09, G:0.06, T:0.66
Consensus pattern (15 bp):
TTATGTCTTTCATAT
Found at i:32387921 original size:39 final size:39
Alignment explanation
Indices: 32387852--32387926 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 39
32387842 TGTACCTTAT
* *
32387852 AAAAAATTAATACATTCAATTATTTCTTTTCTTTTTCCA
1 AAAAAATTAATAAATTCAATTATTTCTTTTCCTTTTCCA
* *
32387891 AAAAAATTATTAAATTTATATTATTT-TTTTCCTTTT
1 AAAAAATTAATAAATTCA-ATTATTTCTTTTCCTTTT
32387927 ACTAATTTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
39 24 0.77
40 7 0.23
ACGTcount: A:0.36, C:0.11, G:0.00, T:0.53
Consensus pattern (39 bp):
AAAAAATTAATAAATTCAATTATTTCTTTTCCTTTTCCA
Found at i:32388368 original size:30 final size:30
Alignment explanation
Indices: 32388333--32388391 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
32388323 TATTTTATTG
32388333 TTAATTTTGTTATTATTTTAAAGACATTTA
1 TTAATTTTGTTATTATTTTAAAGACATTTA
*
32388363 TTAATTTTGTTATTATTTTAGAGACATTT
1 TTAATTTTGTTATTATTTTAAAGACATTT
32388392 TCTTGTTAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.31, C:0.03, G:0.08, T:0.58
Consensus pattern (30 bp):
TTAATTTTGTTATTATTTTAAAGACATTTA
Found at i:32388496 original size:18 final size:18
Alignment explanation
Indices: 32388475--32388514 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
32388465 GAAATATTTA
*
32388475 TTTTGATGT-TTTTAGTAT
1 TTTTGATGTATTATA-TAT
32388493 TTTTGATGTATTATATAT
1 TTTTGATGTATTATATAT
32388511 TTTT
1 TTTT
32388515 AAATTATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.20, C:0.00, G:0.12, T:0.68
Consensus pattern (18 bp):
TTTTGATGTATTATATAT
Found at i:32391418 original size:21 final size:21
Alignment explanation
Indices: 32391394--32391463 Score: 54
Period size: 21 Copynumber: 3.2 Consensus size: 21
32391384 CACATACATC
32391394 ATGAACTCAGACCATAACTCA
1 ATGAACTCAGACCATAACTCA
* *
32391415 ATGAATTCAGGTGCCGCATATA-TC-
1 ATGAACTCA---GAC-CATA-ACTCA
*
32391439 ATGAACTCAGACCACAACTCA
1 ATGAACTCAGACCATAACTCA
32391460 ATGA
1 ATGA
32391464 GTTAAAATGA
Statistics
Matches: 37, Mismatches: 5, Indels: 14
0.66 0.09 0.25
Matches are distributed among these distances:
19 1 0.03
20 5 0.14
21 14 0.38
24 10 0.27
25 6 0.16
26 1 0.03
ACGTcount: A:0.39, C:0.26, G:0.14, T:0.21
Consensus pattern (21 bp):
ATGAACTCAGACCATAACTCA
Found at i:32392600 original size:3 final size:3
Alignment explanation
Indices: 32392587--32392623 Score: 65
Period size: 3 Copynumber: 12.0 Consensus size: 3
32392577 TCATTAAATG
32392587 AGA ATGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA A-GA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
32392624 GAATGTTGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 30 0.91
4 3 0.09
ACGTcount: A:0.65, C:0.00, G:0.32, T:0.03
Consensus pattern (3 bp):
AGA
Found at i:32393873 original size:65 final size:65
Alignment explanation
Indices: 32393769--32393899 Score: 244
Period size: 65 Copynumber: 2.0 Consensus size: 65
32393759 GGGAAAGCCA
*
32393769 AGCAAATCAACTAAATCGACTAGTTGTCACATTTTGTAATCCGAGGTAAGTTGTATGTAAATAGT
1 AGCAAATCAACTAAATCGACTAGTCGTCACATTTTGTAATCCGAGGTAAGTTGTATGTAAATAGT
*
32393834 AGCAAATCGACTAAATCGACTAGTCGTCACATTTTGTAATCCGAGGTAAGTTGTATGTAAATAGT
1 AGCAAATCAACTAAATCGACTAGTCGTCACATTTTGTAATCCGAGGTAAGTTGTATGTAAATAGT
32393899 A
1 A
32393900 CAACTACATT
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 64 1.00
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (65 bp):
AGCAAATCAACTAAATCGACTAGTCGTCACATTTTGTAATCCGAGGTAAGTTGTATGTAAATAGT
Found at i:32394200 original size:46 final size:47
Alignment explanation
Indices: 32394054--32394326 Score: 170
Period size: 46 Copynumber: 5.8 Consensus size: 47
32394044 TCACTTGTGT
* * * *
32394054 GAGCTAGTGTAAGACATGCCTGGGACAT-GCATCAGCCA-C-ATTATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGGCATC-GGCATCGA-GACGA
* *
32394100 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGA
1 GAGCTAGTGTAAGA-CATGTCTGGGACATGGCATCGGCATCGAGACGA
* * ** *
32394148 GTGCTAGTGTAAGACATGTTTGGGACAT-GTTTCGGCCTCGAGACGTA
1 GAGCTAGTGTAAGACATGTCTGGGACATGGCATCGGCATCGAGACG-A
* * * * *
32394195 -AGCTAGTGTAAGACATGTCTGAGACAT-ACATCGGTTAT-GAGATGT
1 GAGCTAGTGTAAGACATGTCTGGGACATGGCATCGG-CATCGAGACGA
* * * * *
32394240 G-TC-AGTGTAAGACCATGTCTGGGACATGGCATCAGTA-CAGATATGCTA
1 GAGCTAGTGTAAGA-CATGTCTGGGACATGGCATCGGCATC-GAGA--CGA
* * *
32394288 GAACTTGTGTAAGACCATGTCTGGGACATGACATCGGCA
1 GAGCTAGTGTAAGA-CATGTCTGGGACATGGCATCGGCA
32394327 CCTGGCGCCA
Statistics
Matches: 176, Mismatches: 36, Indels: 26
0.74 0.15 0.11
Matches are distributed among these distances:
44 9 0.05
45 16 0.09
46 67 0.38
47 31 0.18
48 21 0.12
49 2 0.01
50 30 0.17
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.25
Consensus pattern (47 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGGCATCGGCATCGAGACGA
Found at i:32395568 original size:28 final size:29
Alignment explanation
Indices: 32395510--32395569 Score: 70
Period size: 30 Copynumber: 2.1 Consensus size: 29
32395500 TTAATTAAAG
*
32395510 TTTTAATGTGTCTTTAGTTGAGGACATAAT
1 TTTTAATGTGTC-TTAGTTGAGAACATAAT
*
32395540 TTTTAATGTGTC-TAGTTTTAGAACA-AAT
1 TTTTAATGTGTCTTAG-TTGAGAACATAAT
32395568 TT
1 TT
32395570 ATTAGCTGCT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 8 0.30
29 7 0.26
30 12 0.44
ACGTcount: A:0.28, C:0.07, G:0.17, T:0.48
Consensus pattern (29 bp):
TTTTAATGTGTCTTAGTTGAGAACATAAT
Found at i:32395633 original size:52 final size:53
Alignment explanation
Indices: 32395576--32395685 Score: 132
Period size: 58 Copynumber: 2.0 Consensus size: 53
32395566 ATTTATTAGC
32395576 TGCTGCTAATTAA-TTTGTCTTAGCCGAATTAATGTGCAGGTATTAATGTGTT
1 TGCTGCTAATTAATTTTGTCTTAGCCGAATTAATGTGCAGGTATTAATGTGTT
* * * *
32395628 TGCTGCTATTTAATTTTTCTTTGTTTTAGCCGAATTAATGTGCAGGTGTTAGTGTGTT
1 TGCTGCTAATTAA----T-TTTGTCTTAGCCGAATTAATGTGCAGGTATTAATGTGTT
32395686 CCAGTTTAAG
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
52 12 0.25
58 36 0.75
ACGTcount: A:0.21, C:0.11, G:0.22, T:0.46
Consensus pattern (53 bp):
TGCTGCTAATTAATTTTGTCTTAGCCGAATTAATGTGCAGGTATTAATGTGTT
Found at i:32397200 original size:43 final size:43
Alignment explanation
Indices: 32397152--32397394 Score: 301
Period size: 43 Copynumber: 5.7 Consensus size: 43
32397142 GTTTATGAAA
* ** * *
32397152 AAAAATGCCGCTAAAGGTCATGATCTTTAACGGCGCTTTTCCC
1 AAAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCC
* * *
32397195 AAAAATGCCGCTAAAGAACATGACTTTTAGTGGCGC-TTTCCC
1 AAAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCC
*
32397237 AAAAACGCCGCTAAATAACATGACCTTTAGCGGCGCTTTTCCC
1 AAAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCC
* * **
32397280 AAAAATGCCGCTAGAGGTCATGACCTTTAGCGGCGCTTTTCCC
1 AAAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCC
* * **
32397323 ACAAACACCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCTT
1 AAAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCC
*
32397366 ACAAACGCCGCTAAA-AATCATGACCTTTA
1 AAAAACGCCGCTAAAGAA-CATGACCTTTA
32397395 AAAAATTTAT
Statistics
Matches: 174, Mismatches: 24, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
42 40 0.23
43 134 0.77
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (43 bp):
AAAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCC
Found at i:32399290 original size:27 final size:27
Alignment explanation
Indices: 32399260--32399313 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
32399250 GAAAATATGA
32399260 TTGAAAACTTATTTTGTGCAAGTACAG
1 TTGAAAACTTATTTTGTGCAAGTACAG
32399287 TTGAAAACTTATTTTGTGCAAGTACAG
1 TTGAAAACTTATTTTGTGCAAGTACAG
32399314 CACTAGAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (27 bp):
TTGAAAACTTATTTTGTGCAAGTACAG
Found at i:32400143 original size:89 final size:89
Alignment explanation
Indices: 32399992--32400192 Score: 321
Period size: 89 Copynumber: 2.3 Consensus size: 89
32399982 GTAAAGTCCA
* * * * *
32399992 AAAGATAGACTGGGGACAAATTAAGAAACAAATACTAACATTCAGAAGCATTGAACCAAGTCGTA
1 AAAGACAGATTGGGGGCAAATTTAGAAACAAAGACTAACATTCAGAAGCATTGAACCAAGTCGTA
*
32400057 TCGCAATAAATGAATCAAGGTTCC
66 TCGCAACAAATGAATCAAGGTTCC
32400081 AAAGACAGATTGGGGGCAAATTTAGAAACAAAGACTAACATTCAGAAGCATTGAACCAAGTCGTA
1 AAAGACAGATTGGGGGCAAATTTAGAAACAAAGACTAACATTCAGAAGCATTGAACCAAGTCGTA
* *
32400146 TGGCAACAATTGAATCAAGGTTCC
66 TCGCAACAAATGAATCAAGGTTCC
*
32400170 AAAGACAGATTGAGGGCAAATTT
1 AAAGACAGATTGGGGGCAAATTT
32400193 TATAACAGAC
Statistics
Matches: 103, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
89 103 1.00
ACGTcount: A:0.43, C:0.16, G:0.20, T:0.20
Consensus pattern (89 bp):
AAAGACAGATTGGGGGCAAATTTAGAAACAAAGACTAACATTCAGAAGCATTGAACCAAGTCGTA
TCGCAACAAATGAATCAAGGTTCC
Found at i:32401615 original size:7 final size:7
Alignment explanation
Indices: 32401605--32401658 Score: 54
Period size: 7 Copynumber: 7.6 Consensus size: 7
32401595 CCCCAACCCT
32401605 TAAACCA
1 TAAACCA
32401612 TAAACCA
1 TAAACCA
32401619 TAAACCA
1 TAAACCA
* *
32401626 TAATCCC
1 TAAACCA
32401633 TAAACTCA
1 TAAAC-CA
**
32401641 TAGTCCA
1 TAAACCA
*
32401648 TAAACCT
1 TAAACCA
32401655 TAAA
1 TAAA
32401659 ATAGTAACTC
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
7 33 0.89
8 4 0.11
ACGTcount: A:0.48, C:0.28, G:0.02, T:0.22
Consensus pattern (7 bp):
TAAACCA
Found at i:32401651 original size:15 final size:14
Alignment explanation
Indices: 32401605--32401653 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
32401595 CCCCAACCCT
*
32401605 TAAACCATAAACCA
1 TAAACCATAATCCA
*
32401619 TAAACCATAATCCC
1 TAAACCATAATCCA
*
32401633 TAAACTCATAGTCCA
1 TAAAC-CATAATCCA
32401648 TAAACC
1 TAAACC
32401654 TTAAAATAGT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
14 18 0.60
15 12 0.40
ACGTcount: A:0.47, C:0.31, G:0.02, T:0.20
Consensus pattern (14 bp):
TAAACCATAATCCA
Found at i:32402184 original size:40 final size:39
Alignment explanation
Indices: 32402140--32402279 Score: 164
Period size: 40 Copynumber: 3.6 Consensus size: 39
32402130 TTTTTTTGTG
*
32402140 GCGTTTTTCAAAAAGTGCCGCTAATAGTCGACCTATAGCG
1 GCGTTTTTCAAAAAG-GCCGCTAATAGTCGACCTATAGCA
*
32402180 GCGTTTTTCAAAAAGCACCGCTAATAGTCGACCTATAGCA
1 GCGTTTTTCAAAAAG-GCCGCTAATAGTCGACCTATAGCA
* * *
32402220 GTGTTTTTC-AAAA-G-CACTAAT-GCTCGATCTATAGCA
1 GCGTTTTTCAAAAAGGCCGCTAATAG-TCGACCTATAGCA
32402256 GCGTTTTTCAAAAA-GCACGCTAAT
1 GCGTTTTTCAAAAAGGC-CGCTAAT
32402280 GCCACTAAAG
Statistics
Matches: 87, Mismatches: 9, Indels: 9
0.83 0.09 0.09
Matches are distributed among these distances:
35 1 0.01
36 26 0.30
37 5 0.06
39 10 0.11
40 45 0.52
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.29
Consensus pattern (39 bp):
GCGTTTTTCAAAAAGGCCGCTAATAGTCGACCTATAGCA
Found at i:32402434 original size:40 final size:40
Alignment explanation
Indices: 32402316--32402444 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
32402306 ATTTTTTTGT
*
32402316 GGCATTTTTAAAAAAGCGCCGCTAAATGCTCGATCTATAGC
1 GGCATTTTTAAAAAAGCACCGCT-AATGCTCGATCTATAGC
* * * *
32402357 GGCGCTTTTTGAAAATGTCA---CTAATGCTCGATTTATAGC
1 GGC-ATTTTTAAAAAAG-CACCGCTAATGCTCGATCTATAGC
* * *
32402396 GGCATTTTTCAAAAAGCACCGCTAATTCTTGATCTATAGC
1 GGCATTTTTAAAAAAGCACCGCTAATGCTCGATCTATAGC
32402436 GGCATTTTT
1 GGCATTTTT
32402445 TATCCAAAAG
Statistics
Matches: 72, Mismatches: 11, Indels: 11
0.77 0.12 0.12
Matches are distributed among these distances:
37 2 0.03
38 10 0.14
39 19 0.26
40 27 0.38
41 3 0.04
42 10 0.14
43 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (40 bp):
GGCATTTTTAAAAAAGCACCGCTAATGCTCGATCTATAGC
Found at i:32405027 original size:13 final size:13
Alignment explanation
Indices: 32404979--32405021 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
32404969 TTAAATAATC
* *
32404979 TAAAATTTTATTA
1 TAAAATATTACTA
32404992 CTAAAATA-TACTA
1 -TAAAATATTACTA
32405005 TAAAATATTACTA
1 TAAAATATTACTA
32405018 TAAA
1 TAAA
32405022 GAATTATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 7 0.27
13 13 0.50
14 6 0.23
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (13 bp):
TAAAATATTACTA
Found at i:32406889 original size:3 final size:3
Alignment explanation
Indices: 32406881--32406915 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
32406871 CTTTGCCTTA
32406881 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
32406916 AGCTAGCTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:32415887 original size:22 final size:23
Alignment explanation
Indices: 32415866--32415917 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 23
32415856 TAGACATTAT
*
32415866 TTTTTTGAAT-TATT-TTAATTAT
1 TTTTTTCAATATATTGTT-ATTAT
*
32415888 TATTTTTCAATATATTGTTTTTAT
1 T-TTTTTCAATATATTGTTATTAT
32415912 TTTTTT
1 TTTTTT
32415918 ACTTATATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
22 1 0.04
23 13 0.52
24 9 0.36
25 2 0.08
ACGTcount: A:0.23, C:0.02, G:0.04, T:0.71
Consensus pattern (23 bp):
TTTTTTCAATATATTGTTATTAT
Found at i:32430148 original size:21 final size:21
Alignment explanation
Indices: 32430122--32430163 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
32430112 TATGAAATTA
32430122 GCCACCCAAAACACTTGTCCT
1 GCCACCCAAAACACTTGTCCT
* * *
32430143 GCCACCGAAATCCCTTGTCCT
1 GCCACCCAAAACACTTGTCCT
32430164 ACCTGCTACA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.43, G:0.12, T:0.21
Consensus pattern (21 bp):
GCCACCCAAAACACTTGTCCT
Found at i:32444871 original size:40 final size:40
Alignment explanation
Indices: 32444826--32444902 Score: 129
Period size: 40 Copynumber: 1.9 Consensus size: 40
32444816 TACAGCTCAC
*
32444826 ACAAGAATTCATGCACATAAGTTGT-CCGGGTAAAGTATGT
1 ACAAGAATCCATGCACATAAGTT-TCCCGGGTAAAGTATGT
32444866 ACAAGAATCCATGCACATAAGTTTCCCGGGTAAAGTA
1 ACAAGAATCCATGCACATAAGTTTCCCGGGTAAAGTA
32444903 CATGCAACTG
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
39 1 0.03
40 34 0.97
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (40 bp):
ACAAGAATCCATGCACATAAGTTTCCCGGGTAAAGTATGT
Found at i:32447265 original size:201 final size:201
Alignment explanation
Indices: 32446920--32447328 Score: 809
Period size: 201 Copynumber: 2.0 Consensus size: 201
32446910 AAACTTTGAC
32446920 ACTCAAAGAGGTGCATGATATGCATGGGAACCAATCATCTGCTCAGATAAAAGAATTAGAGGCAC
1 ACTCAAAGAGGTGCATGATATGCATGGGAACCAATCATCTGCTCAGATAAAAGAATTAGAGGCAC
32446985 ATGTAACTAGCTTGAAGCTTGAGTTGAAATCATTGCAAGCAACTAACAGAGATATGGCGGAGCAA
66 ATGTAACTAGCTTGAAGCTTGAGTTGAAATCATTGCAAGCAACTAACAGAGATATGGCGGAGCAA
32447050 TTAGAGAACAAAGCAAGTGAAGCAGAAAAACTGGGAGAACAAAATTTAGGACTCCAATCCCATAT
131 TTAGAGAACAAAGCAAGTGAAGCAGAAAAACTGGGAGAACAAAATTTAGGACTCCAATCCCATAT
32447115 TTCAGA
196 TTCAGA
32447121 ACTCAAAGAGGTGCATGATATGCATGGGAACCAATCATCTGCTCAGATAAAAGAATTAGAGGCAC
1 ACTCAAAGAGGTGCATGATATGCATGGGAACCAATCATCTGCTCAGATAAAAGAATTAGAGGCAC
*
32447186 ATGTAACTAGTTTGAAGCTTGAGTTGAAATCATTGCAAGCAACTAACAGAGATATGGCGGAGCAA
66 ATGTAACTAGCTTGAAGCTTGAGTTGAAATCATTGCAAGCAACTAACAGAGATATGGCGGAGCAA
32447251 TTAGAGAACAAAGCAAGTGAAGCAGAAAAACTGGGAGAACAAAATTTAGGACTCCAATCCCATAT
131 TTAGAGAACAAAGCAAGTGAAGCAGAAAAACTGGGAGAACAAAATTTAGGACTCCAATCCCATAT
32447316 TTCAGA
196 TTCAGA
32447322 ACTCAAA
1 ACTCAAA
32447329 ATAATGCTAG
Statistics
Matches: 207, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
201 207 1.00
ACGTcount: A:0.41, C:0.17, G:0.22, T:0.21
Consensus pattern (201 bp):
ACTCAAAGAGGTGCATGATATGCATGGGAACCAATCATCTGCTCAGATAAAAGAATTAGAGGCAC
ATGTAACTAGCTTGAAGCTTGAGTTGAAATCATTGCAAGCAACTAACAGAGATATGGCGGAGCAA
TTAGAGAACAAAGCAAGTGAAGCAGAAAAACTGGGAGAACAAAATTTAGGACTCCAATCCCATAT
TTCAGA
Found at i:32448007 original size:40 final size:40
Alignment explanation
Indices: 32447962--32448038 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
32447952 TGTAGCTCAC
* *
32447962 ACAAGAATTCATGCACATAAGTTGT-CTGGGTAAAGTATGT
1 ACAAGAATCCATGCACATAAGTT-TCCCGGGTAAAGTATGT
32448002 ACAAGAATCCATGCACATAAGTTTCCCGGGTAAAGTA
1 ACAAGAATCCATGCACATAAGTTTCCCGGGTAAAGTA
32448039 CGTGCAACTA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
39 1 0.03
40 33 0.97
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (40 bp):
ACAAGAATCCATGCACATAAGTTTCCCGGGTAAAGTATGT
Found at i:32453349 original size:40 final size:40
Alignment explanation
Indices: 32453305--32453531 Score: 384
Period size: 40 Copynumber: 5.7 Consensus size: 40
32453295 GCAAACACAT
* * *
32453305 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
32453345 TTGCCTTCGGGTCTTA-CCCGGATATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
32453384 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
32453424 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
32453464 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCGTAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
32453504 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
32453532 TCCATGCTCA
Statistics
Matches: 181, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
39 38 0.21
40 143 0.79
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:32477233 original size:46 final size:45
Alignment explanation
Indices: 32477183--32477358 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 45
32477173 TGGTTGAGCA
32477183 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * * *
32477229 TCCGAACTCATTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAA-T--G
*
32477274 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * *
32477322 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
32477359 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.57
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATG
Found at i:32477339 original size:93 final size:93
Alignment explanation
Indices: 32477180--32477351 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
32477170 GGATGGTTGA
* *
32477180 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
32477245 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
32477273 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
32477338 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
32477352 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:32480878 original size:27 final size:27
Alignment explanation
Indices: 32480827--32481050 Score: 209
Period size: 27 Copynumber: 8.3 Consensus size: 27
32480817 CGTACCTAAA
* * *
32480827 CCCTTATGAGCTAAATTGACTATTTTG
1 CCCTTATGAGATAAAATGACGATTTTG
* *
32480854 CCCTTATGTGATCAAAT-AGCGATTTTG
1 CCCTTATGAGATAAAATGA-CGATTTTG
* *
32480881 CCCTTATGAGGTAAAATGACGATTTTA
1 CCCTTATGAGATAAAATGACGATTTTG
* ** * *
32480908 CCCTTATGTGGCAAAATGACTATTTTT
1 CCCTTATGAGATAAAATGACGATTTTG
* * *
32480935 CCCTTATGTGATAAAATGATGATTTTT
1 CCCTTATGAGATAAAATGACGATTTTG
*
32480962 CCCTTATGAGATAAAATGATGATTTTG
1 CCCTTATGAGATAAAATGACGATTTTG
* *
32480989 CCCTTATGAGGTAAAATGGCGATTTTG
1 CCCTTATGAGATAAAATGACGATTTTG
** * *
32481016 CATTTATAAGGTAAAATGACTG-TTTTG
1 CCCTTATGAGATAAAATGAC-GATTTTG
*
32481043 CCCCTATG
1 CCCTTATG
32481051 TGATGTATGT
Statistics
Matches: 164, Mismatches: 30, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
26 1 0.01
27 161 0.98
28 2 0.01
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.38
Consensus pattern (27 bp):
CCCTTATGAGATAAAATGACGATTTTG
Found at i:32480966 original size:81 final size:80
Alignment explanation
Indices: 32480826--32481016 Score: 231
Period size: 81 Copynumber: 2.4 Consensus size: 80
32480816 GCGTACCTAA
* * *
32480826 ACCCTTATGAGCTAAATTGACTATTTTGCCCTTATGTGATCAAATAGCGATTTTGCCCTTATGAG
1 ACCCTTATGGGC-AAAATGACTATTTTGCCCTTATGTGATAAAATAGCGATTTTGCCCTTATGAG
*
32480891 GTAAAATGACGATTTT
65 ATAAAATGACGATTTT
* * *
32480907 ACCCTTATGTGGCAAAATGACTATTTTTCCCTTATGTGATAAAAT-GATGATTTTTCCCTTATGA
1 ACCCTTATG-GGCAAAATGACTATTTTGCCCTTATGTGATAAAATAG-CGATTTTGCCCTTATGA
*
32480971 GATAAAATGATGATTTT
64 GATAAAATGACGATTTT
* * * *
32480988 GCCCTTATGAGGTAAAATGGCGATTTTGC
1 ACCCTTATG-GGCAAAATGACTATTTTGC
32481017 ATTTATAAGG
Statistics
Matches: 94, Mismatches: 14, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
80 1 0.01
81 91 0.97
82 2 0.02
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.38
Consensus pattern (80 bp):
ACCCTTATGGGCAAAATGACTATTTTGCCCTTATGTGATAAAATAGCGATTTTGCCCTTATGAGA
TAAAATGACGATTTT
Found at i:32483051 original size:40 final size:40
Alignment explanation
Indices: 32482950--32483170 Score: 216
Period size: 40 Copynumber: 5.5 Consensus size: 40
32482940 TATTTGAATG
* * * *
32482950 ATATCCGGGCTAAGTCCTGAAGGCTTTTGTGCTAAGAT-ACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC-GAG-TGACT
* * * *
32482991 ATATTCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
* * * *
32483031 ATATCCGGGCCAAAACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
* * * *
32483071 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
* **
32483111 ATATCCGGGCTAAGACCCGAAGGC-CTTGTGCGAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
32483150 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGA-CCCGAAG
32483171 ATACTTGGGT
Statistics
Matches: 150, Mismatches: 28, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
37 1 0.01
38 13 0.09
39 16 0.11
40 94 0.63
41 26 0.17
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
Found at i:32484715 original size:18 final size:19
Alignment explanation
Indices: 32484662--32484716 Score: 71
Period size: 18 Copynumber: 3.1 Consensus size: 19
32484652 GGATTTGCAT
**
32484662 ACTG-TTTACTGTTACTTT
1 ACTGATTTACTGTTACTGC
32484680 ACTGA-TTACTGTTACTGC
1 ACTGATTTACTGTTACTGC
32484698 ACT-ATTTACTGTTACTGC
1 ACTGATTTACTGTTACTGC
32484716 A
1 A
32484717 ATGGGCCAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
17 1 0.03
18 32 0.97
ACGTcount: A:0.22, C:0.20, G:0.13, T:0.45
Consensus pattern (19 bp):
ACTGATTTACTGTTACTGC
Found at i:32487714 original size:28 final size:28
Alignment explanation
Indices: 32487669--32487772 Score: 100
Period size: 28 Copynumber: 3.7 Consensus size: 28
32487659 TAAGAGTCTA
*
32487669 CCACAAAGGCATTTCTTTTCATATATTG
1 CCACAAAGGCATTCCTTTTCATATATTG
** * * *
32487697 GTACAAAGGTATTCCTTTTCACATATTT
1 CCACAAAGGCATTCCTTTTCATATATTG
* *
32487725 CCACGAAGCCATTCCTTTTCATATATTG
1 CCACAAAGGCATTCCTTTTCATATATTG
* * **
32487753 CAACGAAGAAATTCCTTTTC
1 CCACAAAGGCATTCCTTTTC
32487773 TAACATGTTT
Statistics
Matches: 60, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
28 60 1.00
ACGTcount: A:0.29, C:0.23, G:0.11, T:0.38
Consensus pattern (28 bp):
CCACAAAGGCATTCCTTTTCATATATTG
Found at i:32493056 original size:43 final size:42
Alignment explanation
Indices: 32492943--32493057 Score: 128
Period size: 43 Copynumber: 2.7 Consensus size: 42
32492933 TATGTGCTTT
* * *
32492943 CATGTAAGACTACGTCTGGGACGTTGGCATCGTATTTGATTT
1 CATGTAAGACCACGTCTGAGACGTTGGCATCGTATTTGATTA
**
32492985 TGTGTAAGACC-CTGTCT-AGGACAG-TGGCATCGATATTTGATTA
1 CATGTAAGACCAC-GTCTGA-GAC-GTTGGCATCG-TATTTGATTA
32493028 CATGTAAGACCACGTCTGAGACGTTGGCAT
1 CATGTAAGACCACGTCTGAGACGTTGGCAT
32493058 TGTACGAACT
Statistics
Matches: 59, Mismatches: 7, Indels: 13
0.75 0.09 0.16
Matches are distributed among these distances:
41 1 0.02
42 24 0.41
43 32 0.54
44 2 0.03
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.31
Consensus pattern (42 bp):
CATGTAAGACCACGTCTGAGACGTTGGCATCGTATTTGATTA
Found at i:32500376 original size:27 final size:27
Alignment explanation
Indices: 32500355--32500441 Score: 138
Period size: 27 Copynumber: 3.2 Consensus size: 27
32500345 GTAGGCGAGT
*
32500355 ATTACTGAAATACCCCTATAGGATAGA
1 ATTACTGAAATGCCCCTATAGGATAGA
*
32500382 ATTACTGAAATGCCCCTAGAGGATAGA
1 ATTACTGAAATGCCCCTATAGGATAGA
* *
32500409 ATTACTGAAATGCCCCTGTAGGGTAGA
1 ATTACTGAAATGCCCCTATAGGATAGA
32500436 ATTACT
1 ATTACT
32500442 TAATACCCTT
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (27 bp):
ATTACTGAAATGCCCCTATAGGATAGA
Found at i:32500746 original size:27 final size:27
Alignment explanation
Indices: 32500443--32500830 Score: 248
Period size: 27 Copynumber: 14.4 Consensus size: 27
32500433 AGAATTACTT
* ** *
32500443 AATACCCTTGGTTTACAAAATTACTAA
1 AATACCCTTGATTTGTAAAATTACCAA
* * *
32500470 AATACCCTCGATTAGCAAAATTACCAA
1 AATACCCTTGATTTGTAAAATTACCAA
* * *
32500497 AATACCCATGGTTTGTAAAATTATCAA
1 AATACCCTTGATTTGTAAAATTACCAA
*
32500524 AATA-CCTCTGGTTTGTAAAATTACCAA
1 AATACCCT-TGATTTGTAAAATTACCAA
* * * * ***
32500551 AATACCCCTAATTTATGAAATTATTGA
1 AATACCCTTGATTTGTAAAATTACCAA
* * ** *
32500578 AATATCCTTAACCTGTAAAATTACCGA
1 AATACCCTTGATTTGTAAAATTACCAA
** * * * *
32500605 AATACCCTCAACTTGTAAAATAATCGA
1 AATACCCTTGATTTGTAAAATTACCAA
* *
32500632 AATACCCTTAATTTTTAAAATTACCAA
1 AATACCCTTGATTTGTAAAATTACCAA
* *
32500659 AATACCCCTAATTTGTAAAATTACCAA
1 AATACCCTTGATTTGTAAAATTACCAA
*
32500686 AATACCATT-ATTT-TAAAAATTA-CAGA
1 AATACCCTTGATTTGT-AAAATTACCA-A
* *
32500712 AATACCCTTGATTTATAAAATTACAAA
1 AATACCCTTGATTTGTAAAATTACCAA
*
32500739 AATACCCTTGACTTT-TAAAAATTA-TAGA
1 AATACCCTTGA-TTTGT-AAAATTACCA-A
* * * * * * *
32500767 AGTACCATCGGTTTGCAAAATTATCGA
1 AATACCCTTGATTTGTAAAATTACCAA
* * *
32500794 AATACCCTTGGTTTGTAGATTTACCAA
1 AATACCCTTGATTTGTAAAATTACCAA
*
32500821 AACACCCTTG
1 AATACCCTTG
32500831 TAGGGTGAAA
Statistics
Matches: 286, Mismatches: 63, Indels: 24
0.77 0.17 0.06
Matches are distributed among these distances:
25 3 0.01
26 22 0.08
27 239 0.84
28 22 0.08
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (27 bp):
AATACCCTTGATTTGTAAAATTACCAA
Found at i:32500787 original size:55 final size:53
Alignment explanation
Indices: 32500594--32500803 Score: 165
Period size: 55 Copynumber: 3.9 Consensus size: 53
32500584 CTTAACCTGT
* * * * * * * *
32500594 AAAATTACCGAAATACCCTCAACTTGTAAAATAATCGAAATACCCTTAATTTTT
1 AAAATTACAGAAATACCATCGATTTGTAAAATTA-CAAAATACCCTTGATTTTA
* * *
32500648 AAAATTACCA-AAATACC-CCTAATTTGTAAAATTACCAAAATACCATT-ATTTTA
1 AAAATTA-CAGAAATACCATC-GATTTGTAAAATTA-CAAAATACCCTTGATTTTA
* * *
32500701 AAAATTACAGAAATACCCTTGATTTATAAAATTACAAAAATACCCTTGACTTTTA
1 AAAATTACAGAAATACCATCGATTTGTAAAATTAC-AAAATACCCTTGA-TTTTA
* * * * *
32500756 AAAATTATAGAAGTACCATCGGTTTGCAAAATTATCGAAATACCCTTG
1 AAAATTACAGAAATACCATCGATTTGTAAAATTA-CAAAATACCCTTG
32500804 GTTTGTAGAT
Statistics
Matches: 127, Mismatches: 21, Indels: 15
0.78 0.13 0.09
Matches are distributed among these distances:
52 3 0.02
53 42 0.33
54 37 0.29
55 44 0.35
56 1 0.01
ACGTcount: A:0.44, C:0.18, G:0.07, T:0.31
Consensus pattern (53 bp):
AAAATTACAGAAATACCATCGATTTGTAAAATTACAAAATACCCTTGATTTTA
Found at i:32501102 original size:41 final size:41
Alignment explanation
Indices: 32501057--32501185 Score: 116
Period size: 41 Copynumber: 3.1 Consensus size: 41
32501047 GATTATGAAA
* * * *
32501057 TGGATGAAGAAATTGAGGATTGCATGGTTGCTTGATAACCG
1 TGGATCAACAAATTGAGGATCGCATGGTTACTTGATAACCG
* ** * *
32501098 TGGATCCACCGATTGAGGATCGCATGGTTACTTGATGACTG
1 TGGATCAACAAATTGAGGATCGCATGGTTACTTGATAACCG
* * * * *
32501139 TGGATCCATC-GATTAAGGATCCCATGGTTACTTGATGACCG
1 TGGAT-CAACAAATTGAGGATCGCATGGTTACTTGATAACCG
32501180 TGGATC
1 TGGATC
32501186 CACCGGTGGC
Statistics
Matches: 73, Mismatches: 14, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
40 1 0.01
41 70 0.96
42 2 0.03
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (41 bp):
TGGATCAACAAATTGAGGATCGCATGGTTACTTGATAACCG
Found at i:32501186 original size:41 final size:41
Alignment explanation
Indices: 32501079--32501190 Score: 170
Period size: 41 Copynumber: 2.7 Consensus size: 41
32501069 TTGAGGATTG
* * * *
32501079 CATGGTTGCTTGATAACCGTGGATCCACCGATTGAGGATCG
1 CATGGTTACTTGATGACCGTGGATCCACCGATTAAGGATCC
* *
32501120 CATGGTTACTTGATGACTGTGGATCCATCGATTAAGGATCC
1 CATGGTTACTTGATGACCGTGGATCCACCGATTAAGGATCC
32501161 CATGGTTACTTGATGACCGTGGATCCACCG
1 CATGGTTACTTGATGACCGTGGATCCACCG
32501191 GTGGCTTTTA
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 63 1.00
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (41 bp):
CATGGTTACTTGATGACCGTGGATCCACCGATTAAGGATCC
Found at i:32501365 original size:22 final size:22
Alignment explanation
Indices: 32501335--32501396 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 22
32501325 AATTATTCTG
* *
32501335 ATTATGGCTTTGCGCCAACCTA
1 ATTATGGCTCTGTGCCAACCTA
*
32501357 CA-TATGGCTCTGTACCAACCTA
1 -ATTATGGCTCTGTGCCAACCTA
*
32501379 ATTATGGCTGTGTGCCAA
1 ATTATGGCTCTGTGCCAA
32501397 ATGTATTTGC
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
21 1 0.03
22 31 0.94
23 1 0.03
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (22 bp):
ATTATGGCTCTGTGCCAACCTA
Found at i:32503434 original size:26 final size:26
Alignment explanation
Indices: 32503400--32503605 Score: 182
Period size: 27 Copynumber: 7.7 Consensus size: 26
32503390 TACCCCTAAG
* * *
32503400 TTGTGAAATTATCGAATTACCCCGAC
1 TTGTAAAATTATCGAAATACCCCGAT
* * *
32503426 TTGTAAAATTACCGAAACACCTCCAAT
1 TTGTAAAATTATCGAAATACC-CCGAT
* **
32503453 TTGTAAAAATTATTGAAATACCCTAAT
1 TTGT-AAAATTATCGAAATACCCCGAT
* *
32503480 TTGTAAAATTATCAAAATACCCTTGAT
1 TTGTAAAATTATCGAAATACCC-CGAT
32503507 TTGTAAAATTA-CTGAAATATCCCCGA-
1 TTGTAAAATTATC-GAAATA-CCCCGAT
*
32503533 TTGTAAAATTATTGAAATACCCCTGAT
1 TTGTAAAATTATCGAAATACCCC-GAT
* * *
32503560 TTGTGAAATTACCGAAATACCCTTGAT
1 TTGTAAAATTATCGAAATACCC-CGAT
* *
32503587 TTGTGAAACTATCGAAATA
1 TTGTAAAATTATCGAAATA
32503606 ACCCTGTGGG
Statistics
Matches: 149, Mismatches: 22, Indels: 17
0.79 0.12 0.09
Matches are distributed among these distances:
25 4 0.03
26 53 0.36
27 75 0.50
28 17 0.11
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.33
Consensus pattern (26 bp):
TTGTAAAATTATCGAAATACCCCGAT
Found at i:32503537 original size:80 final size:81
Alignment explanation
Indices: 32503387--32503590 Score: 263
Period size: 80 Copynumber: 2.5 Consensus size: 81
32503377 CTCAGTTGTA
* * * *
32503387 AAATACCCCTAAGTTGTGAAATTATCGAATTACCC-CGACTTGTAAAATTACCGAAACACCTCCA
1 AAATACCCCTAATTTGTGAAATTATCGAAATACCCTTGATTTGTAAAATTACCGAAACACCTCCA
32503451 ATTTGTAAAAATTATTG
66 ATTTGT-AAAATTATTG
* * * *
32503468 AAATA-CCCTAATTTGTAAAATTATCAAAATACCCTTGATTTGTAAAATTACTGAAATATCC-CC
1 AAATACCCCTAATTTGTGAAATTATCGAAATACCCTTGATTTGTAAAATTACCGAAACA-CCTCC
*
32503531 GA-TTGTAAAATTATTG
65 AATTTGTAAAATTATTG
* *
32503547 AAATACCCCTGATTTGTGAAATTACCGAAATACCCTTGATTTGT
1 AAATACCCCTAATTTGTGAAATTATCGAAATACCCTTGATTTGT
32503591 GAAACTATCG
Statistics
Matches: 107, Mismatches: 13, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
79 15 0.14
80 63 0.59
81 27 0.25
82 2 0.02
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.33
Consensus pattern (81 bp):
AAATACCCCTAATTTGTGAAATTATCGAAATACCCTTGATTTGTAAAATTACCGAAACACCTCCA
ATTTGTAAAATTATTG
Done.