Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr1
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: 37323695
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 1370832 characters in sequence are not A, C, G, or T
File 7 of 93
Found at i:3472930 original size:2 final size:2
Alignment explanation
Indices: 3472923--3473009 Score: 158
Period size: 2 Copynumber: 43.5 Consensus size: 2
3472913 TTGGTACAAA
3472923 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3472965 -T AT AT NAT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3473007 AT A
1 AT A
3473010 ATTTGTAATG
Statistics
Matches: 83, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.01
2 80 0.96
3 2 0.02
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3487462 original size:72 final size:73
Alignment explanation
Indices: 3487377--3487521 Score: 229
Period size: 72 Copynumber: 2.0 Consensus size: 73
3487367 AGTAGAAACT
* *
3487377 CTTTTTATCCTCATCCTCTTAGTTAGGACAAAGAATTT-ATGAAACCATTACTATAAATCAACAT
1 CTTTTTATCCTCATCCTCTTAGGTAGGACAAAGAATTTCATGAAACCATTACTATAAATCAACAC
3487441 TTTTTTTC
66 TTTTTTTC
* * * *
3487449 CTTTTTATCCTCATCCTCTTAGGTAGGACAAAGAATTTCATGAAACCGTTATTATAAGTCAATAC
1 CTTTTTATCCTCATCCTCTTAGGTAGGACAAAGAATTTCATGAAACCATTACTATAAATCAACAC
3487514 TTTTTTTC
66 TTTTTTTC
3487522 TTTACTTTCA
Statistics
Matches: 66, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
72 37 0.56
73 29 0.44
ACGTcount: A:0.30, C:0.19, G:0.09, T:0.41
Consensus pattern (73 bp):
CTTTTTATCCTCATCCTCTTAGGTAGGACAAAGAATTTCATGAAACCATTACTATAAATCAACAC
TTTTTTTC
Found at i:3492207 original size:2 final size:2
Alignment explanation
Indices: 3492195--3492227 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
3492185 AAAAAGGTAT
*
3492195 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3492228 TTTATTTCAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:3495000 original size:33 final size:33
Alignment explanation
Indices: 3494963--3495040 Score: 120
Period size: 33 Copynumber: 2.4 Consensus size: 33
3494953 GATGGAAAAT
* * *
3494963 GGTGGTGGAGAACCATTAGGGAACGAAACTGGA
1 GGTGGTGAAGAACCACTAGGGAACGAAAATGGA
*
3494996 GGTGGTGAAGAACCACTAGGGAAGGAAAATGGA
1 GGTGGTGAAGAACCACTAGGGAACGAAAATGGA
3495029 GGTGGTGAAGAA
1 GGTGGTGAAGAA
3495041 GTAGGATATT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.36, C:0.09, G:0.41, T:0.14
Consensus pattern (33 bp):
GGTGGTGAAGAACCACTAGGGAACGAAAATGGA
Found at i:3499718 original size:2 final size:2
Alignment explanation
Indices: 3499711--3499745 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
3499701 TTTTTCTCTA
*
3499711 AT AT AT AT AT AT AT AT AT A- AT AT AT AT AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3499746 TTAGGTCATT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:3499733 original size:19 final size:19
Alignment explanation
Indices: 3499709--3499745 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
3499699 TCTTTTTCTC
*
3499709 TAATATATATATATATATA
1 TAATATATATACATATATA
3499728 TAATATATATACATATAT
1 TAATATATATACATATAT
3499746 TTAGGTCATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (19 bp):
TAATATATATACATATATA
Found at i:3499735 original size:17 final size:17
Alignment explanation
Indices: 3499713--3499745 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
3499703 TTTCTCTAAT
*
3499713 ATATATATATATATATA
1 ATATATATACATATATA
3499730 ATATATATACATATAT
1 ATATATATACATATAT
3499746 TTAGGTCATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (17 bp):
ATATATATACATATATA
Found at i:3503493 original size:21 final size:21
Alignment explanation
Indices: 3503469--3503508 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
3503459 ACCTCCACCT
3503469 CCCCCTCCGCCGCCGCCAGGG
1 CCCCCTCCGCCGCCGCCAGGG
*
3503490 CCCCGTCCGCCGCCGCCAG
1 CCCCCTCCGCCGCCGCCAG
3503509 CAGCACTAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.05, C:0.62, G:0.28, T:0.05
Consensus pattern (21 bp):
CCCCCTCCGCCGCCGCCAGGG
Found at i:3504644 original size:3 final size:3
Alignment explanation
Indices: 3504638--3504668 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
3504628 TTTCATCATG
3504638 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
3504669 CTTTGAAGGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:3517835 original size:14 final size:14
Alignment explanation
Indices: 3517816--3517844 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
3517806 TGCAAAGAAA
3517816 CCCATTAATGTAAG
1 CCCATTAATGTAAG
3517830 CCCATTAATGTAAG
1 CCCATTAATGTAAG
3517844 C
1 C
3517845 TTTTCTCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.28
Consensus pattern (14 bp):
CCCATTAATGTAAG
Found at i:3541783 original size:103 final size:102
Alignment explanation
Indices: 3541657--3542175 Score: 725
Period size: 102 Copynumber: 5.0 Consensus size: 102
3541647 ACCCCAATTG
* * *
3541657 CTCAATGCAATTGAAAGATAGGGTTTTGGCTTTGTATGCTCAATGAAAATGCCTGCAAACACTTG
1 CTCAATGCAATTGTAAGATAGGGTTTTGGCTTTGTATGCTCAATGGAGATGCCTGCAAACACTT-
* * *
3541722 ATGCGCATCTTCCCCCCATTATCCTTTGATTTATCTTT
65 ATGCACATCTTTCCCCCATTACCCTTTGATTTATCTTT
*
3541760 CTCAATGCAATTGTAAGATAGGGTTTTGGCTTTGTATGCTCAATGAAGATGCCTGCAAACACTTA
1 CTCAATGCAATTGTAAGATAGGGTTTTGGCTTTGTATGCTCAATGGAGATGCCTGCAAACACTTA
* * *
3541825 CGCACATCTTTGCCCCAGTACCCTTTGATTTATCTTT
66 TGCACATCTTTCCCCCATTACCCTTTGATTTATCTTT
* * * *
3541862 CTCAATGCCATTGTAAGATAGGATTTTGGGTATGTATGCTCAATGGAGATGCCTGCAAACACTTA
1 CTCAATGCAATTGTAAGATAGGGTTTTGGCTTTGTATGCTCAATGGAGATGCCTGCAAACACTTA
*
3541927 TGCACATCTTTCCCTCATTACCCTTTGATTTATCTTT
66 TGCACATCTTTCCCCCATTACCCTTTGATTTATCTTT
* ** *
3541964 CTCAATGCAATTGTAAGATAGGATTTTGGCTTATGTATGCTCGTTGGAGAGGCCTGCAAACACTT
1 CTCAATGCAATTGTAAGATAGGGTTTTGGCTT-TGTATGCTCAATGGAGATGCCTGCAAACACTT
* * * * * *
3542029 AATGTACATCGTTCCACCACTATCATTTGATTTATCTTT
65 -ATGCACATCTTTCCCCCATTACCCTTTGATTTATCTTT
3542068 CTCAATGCAATTGTAATTAAGATAGGGTTTTGGGC-TTGTATGCTCAATGGAGATGCCTGCAAAC
1 CTCAATGCAATTG----TAAGATAGGGTTTT-GGCTTTGTATGCTCAATGGAGATGCCTGCAAAC
*
3542132 ACTTATGCACATCTTTCCCCCATTACCCTTTGATTTTTCTTT
61 ACTTATGCACATCTTTCCCCCATTACCCTTTGATTTATCTTT
3542174 CT
1 CT
3542176 TGATAGTAAA
Statistics
Matches: 368, Mismatches: 41, Indels: 11
0.88 0.10 0.03
Matches are distributed among these distances:
102 154 0.42
103 91 0.25
104 44 0.12
106 33 0.09
107 29 0.08
108 14 0.04
109 3 0.01
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.37
Consensus pattern (102 bp):
CTCAATGCAATTGTAAGATAGGGTTTTGGCTTTGTATGCTCAATGGAGATGCCTGCAAACACTTA
TGCACATCTTTCCCCCATTACCCTTTGATTTATCTTT
Found at i:3542134 original size:210 final size:205
Alignment explanation
Indices: 3541657--3542175 Score: 742
Period size: 210 Copynumber: 2.5 Consensus size: 205
3541647 ACCCCAATTG
* *
3541657 CTCAATGCAATTGA-AAGATAGGGTTTT-GGCTTTGTATGCTCAATGAAAATGCCTGCAAACACT
1 CTCAATGCAATTGATAAGATAGGGTTTTGGGC-TTGTATGCTCAATGGAGATGCCTGCAAACACT
* * * *
3541720 TGATGCGCATCTTCCCCCCATTATCCTTTGATTTATCTTTCTCAATGCAATTGTAAGATAGGGTT
65 T-ATGCACATCTTTCCCCCATTACCCTTTGATTTATCTTTCTCAATGCAATTGTAAGATAGGATT
* * * *
3541785 TTGGCTTTGTATGCTCAATGAAGATGCCTGCAAACACTTACGCACATCTTTGCCCCAGTACCCTT
129 TTGGCTTTGTATGCTCAATGAAGAGGCCTGCAAACACTTACGCACATCGTTGCCCCACTACCATT
3541850 TGATTTATCTTT
194 TGATTTATCTTT
* *
3541862 CTCAATGCCATTG-TAAGATAGGATTTTGGG-TATGTATGCTCAATGGAGATGCCTGCAAACACT
1 CTCAATGCAATTGATAAGATAGGGTTTTGGGCT-TGTATGCTCAATGGAGATGCCTGCAAACACT
*
3541925 TATGCACATCTTTCCCTCATTACCCTTTGATTTATCTTTCTCAATGCAATTGTAAGATAGGATTT
65 TATGCACATCTTTCCCCCATTACCCTTTGATTTATCTTTCTCAATGCAATTGTAAGATAGGATTT
** * * * *
3541990 TGGCTTATGTATGCTCGTTGGAGAGGCCTGCAAACACTTAATGTACATCGTT-CCACCACTATCA
130 TGGCTT-TGTATGCTCAATGAAGAGGCCTGCAAACACTT-ACGCACATCGTTGCC-CCACTACCA
3542054 TTTGATTTATCTTT
192 TTTGATTTATCTTT
3542068 CTCAATGCAATTGTAATTAAGATAGGGTTTTGGGCTTGTATGCTCAATGGAGATGCCTGCAAACA
1 CTCAATGCAATTG--A-TAAGATAGGGTTTTGGGCTTGTATGCTCAATGGAGATGCCTGCAAACA
*
3542133 CTTATGCACATCTTTCCCCCATTACCCTTTGATTTTTCTTTCT
63 CTTATGCACATCTTTCCCCCATTACCCTTTGATTTATCTTTCT
3542176 TGATAGTAAA
Statistics
Matches: 280, Mismatches: 23, Indels: 17
0.88 0.07 0.05
Matches are distributed among these distances:
204 66 0.24
205 84 0.30
206 43 0.15
210 86 0.31
211 1 0.00
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.37
Consensus pattern (205 bp):
CTCAATGCAATTGATAAGATAGGGTTTTGGGCTTGTATGCTCAATGGAGATGCCTGCAAACACTT
ATGCACATCTTTCCCCCATTACCCTTTGATTTATCTTTCTCAATGCAATTGTAAGATAGGATTTT
GGCTTTGTATGCTCAATGAAGAGGCCTGCAAACACTTACGCACATCGTTGCCCCACTACCATTTG
ATTTATCTTT
Found at i:3557772 original size:4 final size:4
Alignment explanation
Indices: 3557763--3557798 Score: 56
Period size: 4 Copynumber: 9.0 Consensus size: 4
3557753 CTCTATAGCG
3557763 ATAC ATAC ATAC ATAC ATAC ATAC ACT-C ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC A-TAC ATAC ATAC
3557799 TATATGTATA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 1 0.03
4 28 0.93
5 1 0.03
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:3558393 original size:19 final size:19
Alignment explanation
Indices: 3558365--3558403 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
3558355 TACAGAGAAA
3558365 ACCATATATAT-TGATATAT
1 ACCATATATATAT-ATATAT
*
3558384 ACCATGTATATATATATAT
1 ACCATATATATATATATAT
3558403 A
1 A
3558404 TTCTTGTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 17 0.94
20 1 0.06
ACGTcount: A:0.44, C:0.10, G:0.05, T:0.41
Consensus pattern (19 bp):
ACCATATATATATATATAT
Found at i:3575512 original size:3 final size:3
Alignment explanation
Indices: 3575506--3575534 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
3575496 AGAGGAGGAG
3575506 GAA GAA GAA GAA GAA GAA GAA -AA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
3575535 AGGGCAAACA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:3599635 original size:41 final size:37
Alignment explanation
Indices: 3599556--3599638 Score: 94
Period size: 40 Copynumber: 2.1 Consensus size: 37
3599546 TAAAAATTTA
* * * *
3599556 AAATTAAATATTAATTTTTTAAAAATATATAAAAAAT
1 AAATTAAATATTAAATTTTAAAAAATACACAAAAAAT
3599593 AAATTAAATATTAAAAAATTTTAAAAAATACACAAAATAAT
1 AAATTAAATATT---AAATTTTAAAAAATACACAAAA-AAT
3599634 AAATT
1 AAATT
3599639 TTCTCTCTCT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
37 12 0.32
40 18 0.47
41 8 0.21
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (37 bp):
AAATTAAATATTAAATTTTAAAAAATACACAAAAAAT
Found at i:3612132 original size:2 final size:2
Alignment explanation
Indices: 3612125--3612154 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
3612115 CATAACCAAA
3612125 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
3612155 ACTAACTACT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:3612209 original size:2 final size:2
Alignment explanation
Indices: 3612202--3612229 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
3612192 CNCCAAACTA
3612202 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
3612230 AAGATAGCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:3620291 original size:10 final size:11
Alignment explanation
Indices: 3620272--3620305 Score: 52
Period size: 10 Copynumber: 3.1 Consensus size: 11
3620262 ATATAAAGGG
3620272 AAATATTTAAA
1 AAATATTTAAA
3620283 AAA-ATTTAAA
1 AAATATTTAAA
3620293 TAAATATTTAAA
1 -AAATATTTAAA
3620305 A
1 A
3620306 TTATGAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
10 7 0.33
11 7 0.33
12 7 0.33
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
AAATATTTAAA
Found at i:3637309 original size:17 final size:18
Alignment explanation
Indices: 3637269--3637318 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
3637259 AGGAAATTAA
* *
3637269 GGGGGAGGAGAGGAGGGGG
1 GGGGGCGGAG-GGGGGGGG
*
3637288 TGGGGCGG-GGGGGGGGG
1 GGGGGCGGAGGGGGGGGG
3637305 GGGGGCGGAGGGGG
1 GGGGGCGGAGGGGG
3637319 TTCGATCTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 14 0.54
18 6 0.23
19 6 0.23
ACGTcount: A:0.10, C:0.04, G:0.84, T:0.02
Consensus pattern (18 bp):
GGGGGCGGAGGGGGGGGG
Found at i:3638697 original size:2 final size:2
Alignment explanation
Indices: 3638690--3638728 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
3638680 CATGCCGAAG
3638690 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3638729 AGCCCAAAAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3645380 original size:71 final size:70
Alignment explanation
Indices: 3645247--3645384 Score: 240
Period size: 71 Copynumber: 2.0 Consensus size: 70
3645237 CACCTTGTGC
* * *
3645247 AACTAACAATGGGTACTTCCCAATTTATATCAATGGTTTAAAGTTAGTTAGGTTATTAATTATAG
1 AACTAACAATGAGTACTTCCCAATTTAGATCAATGGTTTAAAGTTAGTTAAGTTATTAATTATAG
3645312 TATGT
66 TATGT
3645317 AACTAACAATGAGTACTTCCCAATTTAGATCAAATGGTTTAAAGTTAGTTAAGTTATTAATTATA
1 AACTAACAATGAGTACTTCCCAATTTAGATC-AATGGTTTAAAGTTAGTTAAGTTATTAATTATA
3645382 GTA
65 GTA
3645385 ATATTCTTAT
Statistics
Matches: 64, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
70 29 0.45
71 35 0.55
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.38
Consensus pattern (70 bp):
AACTAACAATGAGTACTTCCCAATTTAGATCAATGGTTTAAAGTTAGTTAAGTTATTAATTATAG
TATGT
Found at i:3666532 original size:10 final size:11
Alignment explanation
Indices: 3666502--3666539 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
3666492 GACACCCTAA
*
3666502 ACCATCCCCTC
1 ACCATCCCTTC
3666513 ACCATCCCTTC
1 ACCATCCCTTC
*
3666524 ACCATCCTTTC
1 ACCATCCCTTC
3666535 -CCATC
1 ACCATC
3666540 AAGTCCCCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
10 5 0.20
11 20 0.80
ACGTcount: A:0.18, C:0.55, G:0.00, T:0.26
Consensus pattern (11 bp):
ACCATCCCTTC
Found at i:3671783 original size:65 final size:64
Alignment explanation
Indices: 3671707--3671840 Score: 200
Period size: 65 Copynumber: 2.1 Consensus size: 64
3671697 CTTCTAGACC
*
3671707 CAAATTATGCATTGCTTAGCTCCTTAAATTTAAAATTA-TTTCTTTTATCCTTAT-GAAGTAAAC
1 CAAATTATGCATTGCTTAACTCCTTAAATTTAAAATTATTTTCTTTTATCCTTATAG-AGTAAA-
3671770 T
64 T
*
3671771 CAAATTTATGCATTGCTTAACTGCTTAAATTTAAAATTATTTTTCTTTTATCCTTATAGAGTAAA
1 CAAA-TTATGCATTGCTTAACTCCTTAAATTTAAAATTA-TTTTCTTTTATCCTTATAGAGTAAA
3671836 T
64 T
3671837 CAAA
1 CAAA
3671841 ATTTTGAAAT
Statistics
Matches: 64, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
64 4 0.06
65 32 0.50
66 5 0.08
67 22 0.34
68 1 0.02
ACGTcount: A:0.34, C:0.14, G:0.07, T:0.44
Consensus pattern (64 bp):
CAAATTATGCATTGCTTAACTCCTTAAATTTAAAATTATTTTCTTTTATCCTTATAGAGTAAAT
Found at i:3672101 original size:138 final size:137
Alignment explanation
Indices: 3671884--3672157 Score: 390
Period size: 138 Copynumber: 2.0 Consensus size: 137
3671874 GAAAACCGAA
* *
3671884 TTTCCTTAATAAAAGATACATTGCTTAATTACCTAACGAGTATAATTTTTTATTTTGATTTTTTT
1 TTTCCTTAATAAAAGATACATTGCTTAATTACCTAACAAGTATAATTTTTTATTTTGATTTTTCT
* **
3671949 TACAATCTGTTGATTCAATTTGACCATTTATGTAATATGTA-TTTT-TTCAAAAAATACTTCATT
66 TACAATCTATTGATT-AATTTGACCATTTATACAATATGTACTTTTCTT-AAAAAATA-TTCATT
3672012 TTTTTAAGCG
128 TTTTTAAGCG
* * * *
3672022 TTTCCTTAGTAAAAGATACATTGCTTAATTGCTTAACAAGTATAATTTTTTATTTTGGTTTTTCT
1 TTTCCTTAATAAAAGATACATTGCTTAATTACCTAACAAGTATAATTTTTTATTTTGATTTTTCT
* * * *
3672087 TACAATCTATTGATTGATTTGAGCATTTATACAATATGTACTTTTCTTAAAAACTATTTATTTTT
66 TACAATCTATTGATTAATTTGACCATTTATACAATATGTACTTTTCTTAAAAAATATTCATTTTT
3672152 TTAAGC
131 TTAAGC
3672158 ATAACATAAT
Statistics
Matches: 121, Mismatches: 13, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
137 35 0.29
138 84 0.69
139 2 0.02
ACGTcount: A:0.31, C:0.11, G:0.09, T:0.49
Consensus pattern (137 bp):
TTTCCTTAATAAAAGATACATTGCTTAATTACCTAACAAGTATAATTTTTTATTTTGATTTTTCT
TACAATCTATTGATTAATTTGACCATTTATACAATATGTACTTTTCTTAAAAAATATTCATTTTT
TTAAGCG
Found at i:3676444 original size:24 final size:21
Alignment explanation
Indices: 3676405--3676447 Score: 59
Period size: 24 Copynumber: 1.9 Consensus size: 21
3676395 TAACTAGATG
3676405 TGAATGACATTATTAATTATA
1 TGAATGACATTATTAATTATA
3676426 TGAATTGACAATTAATTAATTA
1 TGAA-TGAC-ATT-ATTAATTA
3676448 CTTTGCACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 4 0.21
22 4 0.21
23 3 0.16
24 8 0.42
ACGTcount: A:0.44, C:0.05, G:0.09, T:0.42
Consensus pattern (21 bp):
TGAATGACATTATTAATTATA
Found at i:3689485 original size:27 final size:28
Alignment explanation
Indices: 3689445--3689499 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
3689435 TTTATGCATA
*
3689445 TTTTTTTATTTAAA-AATTTTGAAAAGTT
1 TTTTTTTATATAAACAA-TTTGAAAAGTT
*
3689473 TTTTTTTA-ATAAACAATTTGAAGAGTT
1 TTTTTTTATATAAACAATTTGAAAAGTT
3689500 AGATATGTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 14 0.58
28 10 0.42
ACGTcount: A:0.36, C:0.02, G:0.09, T:0.53
Consensus pattern (28 bp):
TTTTTTTATATAAACAATTTGAAAAGTT
Found at i:3689793 original size:2 final size:2
Alignment explanation
Indices: 3689786--3689814 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
3689776 TGGCTAGCTA
3689786 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
3689815 ACACACACAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:3708663 original size:22 final size:20
Alignment explanation
Indices: 3708633--3708672 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
3708623 CTGAGGCGAA
3708633 TTTTCTTGGCTTTTTCTAAGGG
1 TTTTCTTGG--TTTTCTAAGGG
*
3708655 TTTTTTTGGTTTTCTAAG
1 TTTTCTTGGTTTTCTAAG
3708673 AAATTTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
22 8 0.47
ACGTcount: A:0.10, C:0.10, G:0.20, T:0.60
Consensus pattern (20 bp):
TTTTCTTGGTTTTCTAAGGG
Found at i:3740679 original size:20 final size:19
Alignment explanation
Indices: 3740639--3740681 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
3740629 ATTCCGTCCC
3740639 TTTAATTTTTTTTTTCATTT
1 TTTAATTTTTTTTTT-ATTT
3740659 TTTAAGTTTTTCTTTTT-TTT
1 TTTAA-TTTTT-TTTTTATTT
3740679 TTT
1 TTT
3740682 TCTTAATTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 11 0.52
21 5 0.24
22 5 0.24
ACGTcount: A:0.12, C:0.05, G:0.02, T:0.81
Consensus pattern (19 bp):
TTTAATTTTTTTTTTATTT
Found at i:3740981 original size:104 final size:105
Alignment explanation
Indices: 3740859--3741064 Score: 283
Period size: 104 Copynumber: 2.0 Consensus size: 105
3740849 ATCAATTCAC
* * * *
3740859 ATTTAAATTTATTAGAATTTGATTGTTGTTTTTTTAACTTAAAT-ATAATTTTTTTA-AAGAAAC
1 ATTTAAATTTATTAGAATTTGAATG-TGGTTTTTGAACTTAAATCAT-ATTGTTTTACAAGAAAC
* *
3740922 GTTTGGGT-ATATTTAAATAAAAGATGAGTTGGGTAAAGGTA
64 GTTTGGGTCAAATTTAAATAAAAGATGAGTTGAGTAAAGGTA
* *
3740963 ATTTAAATTTATTAGAATTTGAATGTGGTTTTTGAATTTAAATCATATTGTTTTACAAGAAACTT
1 ATTTAAATTTATTAGAATTTGAATGTGGTTTTTGAACTTAAATCATATTGTTTTACAAGAAACGT
* *
3741028 TTGGGTCAAATTTAAATAAAAGGTGATTTGAGTAAAG
66 TTGGGTCAAATTTAAATAAAAGATGAGTTGAGTAAAG
3741065 ATTGAATTAT
Statistics
Matches: 89, Mismatches: 10, Indels: 5
0.86 0.10 0.05
Matches are distributed among these distances:
103 23 0.26
104 40 0.45
105 26 0.29
ACGTcount: A:0.37, C:0.03, G:0.17, T:0.44
Consensus pattern (105 bp):
ATTTAAATTTATTAGAATTTGAATGTGGTTTTTGAACTTAAATCATATTGTTTTACAAGAAACGT
TTGGGTCAAATTTAAATAAAAGATGAGTTGAGTAAAGGTA
Found at i:3764247 original size:19 final size:20
Alignment explanation
Indices: 3764195--3764311 Score: 68
Period size: 19 Copynumber: 5.8 Consensus size: 20
3764185 CTGCCAGTTC
3764195 AAAAATTTTA-AATTTTTAT
1 AAAAATTTTATAATTTTTAT
*
3764214 AATATATTTT-T-ATTTTTA-
1 AA-AAATTTTATAATTTTTAT
*
3764232 AAAAATTTTATAATTTTACCCTTAA
1 AAAAATTTTATAA-TTT----TTAT
* *
3764257 AAAAATTTTAAAAATTTTAT
1 AAAAATTTTATAATTTTTAT
*
3764277 AACATATTTT-T-ATTTTT-T
1 AA-AAATTTTATAATTTTTAT
*
3764295 TAAAATTTTATAATTTT
1 AAAAATTTTATAATTTT
3764312 ACCCATATAA
Statistics
Matches: 75, Mismatches: 10, Indels: 26
0.68 0.09 0.23
Matches are distributed among these distances:
17 12 0.16
18 6 0.08
19 20 0.27
20 14 0.19
21 6 0.08
24 5 0.07
25 12 0.16
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (20 bp):
AAAAATTTTATAATTTTTAT
Found at i:3764248 original size:24 final size:24
Alignment explanation
Indices: 3764216--3764276 Score: 59
Period size: 25 Copynumber: 2.5 Consensus size: 24
3764206 ATTTTTATAA
* * *
3764216 TATATTTTTATTTTTAAAAAATTT
1 TATAATTTTATCTTAAAAAAATTT
*
3764240 TATAATTTTACCCTTAAAAAAATTT
1 TATAATTTTA-TCTTAAAAAAATTT
*
3764265 TAAAAATTTTAT
1 T-ATAATTTTAT
3764277 AACATATTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
24 9 0.31
25 12 0.41
26 8 0.28
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (24 bp):
TATAATTTTATCTTAAAAAAATTT
Found at i:3764293 original size:63 final size:62
Alignment explanation
Indices: 3764195--3764315 Score: 197
Period size: 63 Copynumber: 1.9 Consensus size: 62
3764185 CTGCCAGTTC
* *
3764195 AAAAATTTTAAATTTTTATAATATATTTTTATTTTTAAAAAATTTTATAATTTTACCCTTAA
1 AAAAATTTTAAAATTTTATAACATATTTTTATTTTTAAAAAATTTTATAATTTTACCCTTAA
**
3764257 AAAAATTTTAAAAATTTTATAACATATTTTTATTTTTTTAAAATTTTATAATTTTACCC
1 AAAAATTTT-AAAATTTTATAACATATTTTTATTTTTAAAAAATTTTATAATTTTACCC
3764316 ATATAATAAT
Statistics
Matches: 54, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
62 9 0.17
63 45 0.83
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (62 bp):
AAAAATTTTAAAATTTTATAACATATTTTTATTTTTAAAAAATTTTATAATTTTACCCTTAA
Found at i:3769386 original size:2 final size:2
Alignment explanation
Indices: 3769348--3769375 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
3769338 AATATCAATC
3769348 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3769376 GTACTTATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3774489 original size:17 final size:16
Alignment explanation
Indices: 3774462--3774495 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
3774452 TTTTTTTGTT
3774462 GCATGGGAAAAAAAAA
1 GCATGGGAAAAAAAAA
*
3774478 GCATGAGGAAAAAGAAA
1 GCATG-GGAAAAAAAAA
3774495 G
1 G
3774496 TTTGGTCTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.59, C:0.06, G:0.29, T:0.06
Consensus pattern (16 bp):
GCATGGGAAAAAAAAA
Found at i:3788682 original size:20 final size:20
Alignment explanation
Indices: 3788657--3788696 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
3788647 CCGACTTGCA
3788657 TAGTTAAAGTATGTCACATG
1 TAGTTAAAGTATGTCACATG
3788677 TAGTTAAAGTATGTCACATG
1 TAGTTAAAGTATGTCACATG
3788697 AGCTATGTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.10, G:0.20, T:0.35
Consensus pattern (20 bp):
TAGTTAAAGTATGTCACATG
Found at i:3792102 original size:16 final size:16
Alignment explanation
Indices: 3792054--3792097 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 16
3792044 TCTTGAAGCT
*
3792054 TTTTTTAAAAAATTTTTA
1 TTTTTTAAAAAA--GTTA
3792072 TTTTTTAAAAAAGTTA
1 TTTTTTAAAAAAGTTA
3792088 TTTTCTTAAA
1 TTTT-TTAAA
3792098 GAGTTTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 7 0.29
17 5 0.21
18 12 0.50
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (16 bp):
TTTTTTAAAAAAGTTA
Found at i:3798327 original size:262 final size:261
Alignment explanation
Indices: 3797862--3798383 Score: 1026
Period size: 262 Copynumber: 2.0 Consensus size: 261
3797852 TTAATTTTCA
3797862 ACGGAAATCTAGTCGGGTACCCTACAGTCAGCTCATTTTTCCAACGAAATTTTCTGTTAAAAATT
1 ACGGAAATCTAGTCGGGTACCCTACAGTCAGCTCATTTTTCCAACGAAATTTTCTGTTAAAAATT
3797927 TTCAACGAATTTTTAACGGAAAGTATTACTGACGAGGCTTTTACCGACGAAATTTTTAATGAAAT
66 TTCAACGAATTTTTAACGGAAAGTATTACTGACGAGGCTTTTACCGACGAAATTTTTAATGAAAT
3797992 TTTTCGTTGAAAATTGGAAATAAGCATTTTCAACGGAATTTAGCCTATTTTCAACGAAAATTTTT
131 TTTTCGTTGAAAATTGGAAATAAGCATTTTCAACGGAATTTAGCCTATTTTCAACGAAAATTTTT
3798057 GTTGGAAAAGGCTTATTTTTTTGTAGTGTTAGAAAAAGGGACTAAATTGAAGTAATTTCCAAAAT
196 GTTGGAAAAGGCTTATTTTTTTGTAGTGTTAGAAAAAGGGACTAAATTGAAGTAATTTCCAAAAT
3798122 T
261 T
3798123 NACGGAAATCTAGTCGGGTACCCTACAGTCAGCTCATTTTTCCAACGAAATTTTCTGTTAAAAAT
1 -ACGGAAATCTAGTCGGGTACCCTACAGTCAGCTCATTTTTCCAACGAAATTTTCTGTTAAAAAT
3798188 TTTCAACGAATTTTTAACGGAAAGTATTACTGACGAGGCTTTTACCGACGAAATTTTTAATGAAA
65 TTTCAACGAATTTTTAACGGAAAGTATTACTGACGAGGCTTTTACCGACGAAATTTTTAATGAAA
3798253 TTTTTCGTTGAAAATTGGAAATAAGCATTTTCAACGGAATTTAGCCTATTTTCAACGAAAATTTT
130 TTTTTCGTTGAAAATTGGAAATAAGCATTTTCAACGGAATTTAGCCTATTTTCAACGAAAATTTT
*
3798318 TGTTGGAAAAGGCTTATTTTTTTGTAGTGTTAGAAAAAGGGACTAAATTGAAGTAATTTTCAAAA
195 TGTTGGAAAAGGCTTATTTTTTTGTAGTGTTAGAAAAAGGGACTAAATTGAAGTAATTTCCAAAA
3798383 T
260 T
3798384 CAAGAGATTA
Statistics
Matches: 259, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
262 259 1.00
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.36
Consensus pattern (261 bp):
ACGGAAATCTAGTCGGGTACCCTACAGTCAGCTCATTTTTCCAACGAAATTTTCTGTTAAAAATT
TTCAACGAATTTTTAACGGAAAGTATTACTGACGAGGCTTTTACCGACGAAATTTTTAATGAAAT
TTTTCGTTGAAAATTGGAAATAAGCATTTTCAACGGAATTTAGCCTATTTTCAACGAAAATTTTT
GTTGGAAAAGGCTTATTTTTTTGTAGTGTTAGAAAAAGGGACTAAATTGAAGTAATTTCCAAAAT
T
Found at i:3801640 original size:17 final size:18
Alignment explanation
Indices: 3801604--3801642 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
3801594 TTATTTGGAG
**
3801604 TTTTTTTTAAATTTTGTT
1 TTTTTTTTAAATAATGTT
3801622 TTTTTTTTAAATAAT-TT
1 TTTTTTTTAAATAATGTT
3801639 TTTT
1 TTTT
3801643 AAAATTTCTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.77
Consensus pattern (18 bp):
TTTTTTTTAAATAATGTT
Found at i:3801939 original size:16 final size:17
Alignment explanation
Indices: 3801920--3801952 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
3801910 GGAAGAAGAT
*
3801920 TTTAAT-AATTTTTTAA
1 TTTAATCAAATTTTTAA
3801936 TTTAATCAAATTTTTAA
1 TTTAATCAAATTTTTAA
3801953 ACGAATTAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (17 bp):
TTTAATCAAATTTTTAA
Found at i:3810321 original size:3 final size:3
Alignment explanation
Indices: 3810313--3810342 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
3810303 ATCCTTCCCG
*
3810313 ACA ACA ACA ACA ACA ACA ACA ACA GCA ACA
1 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA
3810343 GCCTTAACCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.63, C:0.33, G:0.03, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:3831802 original size:4 final size:4
Alignment explanation
Indices: 3831793--3831857 Score: 60
Period size: 4 Copynumber: 15.0 Consensus size: 4
3831783 TGTAGACACT
*
3831793 TAAA TAAA TAAA TATAA -ATA TAAA TAAAA TAAAA TAAA TAAA TAAA TTAAA
1 TAAA TAAA TAAA TA-AA TAAA TAAA T-AAA T-AAA TAAA TAAA TAAA -TAAA
3831844 TAAAA TAAAA TAAA
1 T-AAA T-AAA TAAA
3831858 AAAAAAATCT
Statistics
Matches: 54, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
3 1 0.02
4 29 0.54
5 24 0.44
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
TAAA
Found at i:3831809 original size:10 final size:9
Alignment explanation
Indices: 3831794--3831865 Score: 78
Period size: 10 Copynumber: 7.9 Consensus size: 9
3831784 GTAGACACTT
3831794 AAATAAATA
1 AAATAAATA
3831803 AATATAAATA
1 AA-ATAAATA
3831813 TAAATAAAATA
1 -AAAT-AAATA
3831824 AAATAAAT-
1 AAATAAATA
*
3831832 AAATAAATT
1 AAATAAATA
3831841 AAATAAAATA
1 AAAT-AAATA
3831851 AAATAAA-A
1 AAATAAATA
3831859 AAA-AAAT
1 AAATAAAT
3831866 CTGGATGGTT
Statistics
Matches: 56, Mismatches: 1, Indels: 13
0.80 0.01 0.19
Matches are distributed among these distances:
7 3 0.05
8 12 0.21
9 13 0.23
10 21 0.38
11 7 0.12
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (9 bp):
AAATAAATA
Found at i:3831824 original size:5 final size:5
Alignment explanation
Indices: 3831794--3831862 Score: 69
Period size: 5 Copynumber: 14.6 Consensus size: 5
3831784 GTAGACACTT
*
3831794 AAAT- AAAT- AAATA TAAATA TAAATA AAATA AAAT- AAAT- AAAT- AAATT
1 AAATA AAATA AAATA -AAATA -AAATA AAATA AAATA AAATA AAATA AAATA
3831841 AAATA AAATA AAATA AAA-A AAA
1 AAATA AAATA AAATA AAATA AAA
3831863 AATCTGGATG
Statistics
Matches: 61, Mismatches: 1, Indels: 6
0.90 0.01 0.09
Matches are distributed among these distances:
4 24 0.39
5 26 0.43
6 11 0.18
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (5 bp):
AAATA
Found at i:3856533 original size:2 final size:2
Alignment explanation
Indices: 3856526--3856551 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3856516 AATGATAAGA
3856526 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
3856552 TCAATATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3857484 original size:1 final size:1
Alignment explanation
Indices: 3857478--3857514 Score: 65
Period size: 1 Copynumber: 37.0 Consensus size: 1
3857468 ATATAATCCA
*
3857478 CCCCCCCCCCCCCCCCNCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
3857515 TCCTATAATG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 34 1.00
ACGTcount: A:0.00, C:0.97, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:3863805 original size:2 final size:2
Alignment explanation
Indices: 3863798--3863838 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
3863788 TTCAGCTGAT
* *
3863798 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA TT TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3863839 TTATGTAGGA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (2 bp):
TA
Found at i:3868864 original size:2 final size:2
Alignment explanation
Indices: 3868857--3868885 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
3868847 CTGCATTTGA
3868857 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
3868886 CCCTGGTACC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:3871706 original size:2 final size:2
Alignment explanation
Indices: 3871701--3871725 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3871691 ATATATATAT
3871701 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
3871726 ATTGCAGTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:3872300 original size:11 final size:11
Alignment explanation
Indices: 3872284--3872313 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
3872274 AAAATCTCAA
3872284 AATGATGGGAT
1 AATGATGGGAT
*
3872295 AATGATGAGAT
1 AATGATGGGAT
3872306 AATGATGG
1 AATGATGG
3872314 CATTTGGTCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.33, T:0.27
Consensus pattern (11 bp):
AATGATGGGAT
Found at i:3879457 original size:30 final size:30
Alignment explanation
Indices: 3879389--3879470 Score: 92
Period size: 30 Copynumber: 2.7 Consensus size: 30
3879379 GCACACCAAT
* * * *
3879389 CGGTGCTCCCCTCTCTTGGGGAACACTAGC
1 CGGTGCTCTCCTTTCTTGGGAAACACCAGC
* *
3879419 CGGTGCTCTCCTTTCTTGGTAAACACCGGC
1 CGGTGCTCTCCTTTCTTGGGAAACACCAGC
*
3879449 CGGTGCTCTCTTTTCTTAGGGA
1 CGGTGCTCTCCTTTCTT-GGGA
3879471 GCTGGCGAGC
Statistics
Matches: 43, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
30 40 0.93
31 3 0.07
ACGTcount: A:0.12, C:0.32, G:0.26, T:0.30
Consensus pattern (30 bp):
CGGTGCTCTCCTTTCTTGGGAAACACCAGC
Found at i:3879682 original size:5 final size:5
Alignment explanation
Indices: 3879672--3879724 Score: 106
Period size: 5 Copynumber: 10.6 Consensus size: 5
3879662 TATTTTACCG
3879672 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
3879722 TAT
1 TAT
3879725 TATACATAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 48 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:3891941 original size:31 final size:32
Alignment explanation
Indices: 3891906--3891969 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
3891896 ACATGCTCGA
* *
3891906 TATCCTTCACATAACAAC-AATGCTTGTTCAT
1 TATCCTCCACATAACAACAAATGCTTATTCAT
* *
3891937 TATCCTCCATATATCAACAAATGCTTATTCAT
1 TATCCTCCACATAACAACAAATGCTTATTCAT
3891969 T
1 T
3891970 TAAACCATGC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
31 15 0.54
32 13 0.46
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.38
Consensus pattern (32 bp):
TATCCTCCACATAACAACAAATGCTTATTCAT
Found at i:3893660 original size:78 final size:78
Alignment explanation
Indices: 3893531--3893687 Score: 287
Period size: 78 Copynumber: 2.0 Consensus size: 78
3893521 TTCAAACTAG
*
3893531 ATCAAAACCCAAAAATTTGTGTCTCTGTTGATTAGAACAGGCATATATACAAATTTCTTCCTTTG
1 ATCAAAACCCAAAAATTTGTGTCCCTGTTGATTAGAACAGGCATATATACAAATTTCTTCCTTTG
3893596 TCCTTACCGACAC
66 TCCTTACCGACAC
* *
3893609 ATCAAAACCCAAAAATTTGTGTCCCTGTTGATTAGAACATGCATATATACAAATTTCTTCTTTTG
1 ATCAAAACCCAAAAATTTGTGTCCCTGTTGATTAGAACAGGCATATATACAAATTTCTTCCTTTG
3893674 TCCTTACCGACAC
66 TCCTTACCGACAC
3893687 A
1 A
3893688 AATGAAAAGT
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
78 76 1.00
ACGTcount: A:0.32, C:0.23, G:0.11, T:0.34
Consensus pattern (78 bp):
ATCAAAACCCAAAAATTTGTGTCCCTGTTGATTAGAACAGGCATATATACAAATTTCTTCCTTTG
TCCTTACCGACAC
Found at i:3903352 original size:16 final size:17
Alignment explanation
Indices: 3903316--3903352 Score: 60
Period size: 15 Copynumber: 2.3 Consensus size: 17
3903306 TGAATAATAT
3903316 TTATATTATGATATAAA
1 TTATATTATGATATAAA
3903333 -TATA-TATGATATAAA
1 TTATATTATGATATAAA
3903348 TTATA
1 TTATA
3903353 AATGGTTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 11 0.58
16 8 0.42
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (17 bp):
TTATATTATGATATAAA
Found at i:3907477 original size:2 final size:2
Alignment explanation
Indices: 3907470--3907507 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
3907460 TGAAAATTAA
3907470 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3907508 GAGAAATACT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3915505 original size:15 final size:15
Alignment explanation
Indices: 3915485--3915516 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
3915475 GATTAAAATA
*
3915485 CTTTTTCTTTTTTTT
1 CTTTTTATTTTTTTT
3915500 CTTTTTATTTTTTTT
1 CTTTTTATTTTTTTT
3915515 CT
1 CT
3915517 CTCAAACAAT
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:0.03, C:0.12, G:0.00, T:0.84
Consensus pattern (15 bp):
CTTTTTATTTTTTTT
Found at i:3927028 original size:2 final size:2
Alignment explanation
Indices: 3927021--3927045 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3927011 ATATGATAGA
3927021 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
3927046 TTCTTTCCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:3936351 original size:50 final size:50
Alignment explanation
Indices: 3936294--3936451 Score: 271
Period size: 50 Copynumber: 3.2 Consensus size: 50
3936284 TCTCAGTCGA
*
3936294 TCTTCCCCCATCTACCCCTCCTCTCTCTCAGCCGCTCTCTCACCCGTCCG
1 TCTTCCCCCGTCTACCCCTCCTCTCTCTCAGCCGCTCTCTCACCCGTCCG
3936344 TCTTCCCCCGTCTACCCCTCCTCTCTCTCAGCCGCTCTCTCACCCGTCCG
1 TCTTCCCCCGTCTACCCCTCCTCTCTCTCAGCCGCTCTCTCACCCGTCCG
* * * *
3936394 TCTTCCCCCGTCTACCCCTCCTTTCTCTCAACCGCTCTCTCACCTGTACG
1 TCTTCCCCCGTCTACCCCTCCTCTCTCTCAGCCGCTCTCTCACCCGTCCG
3936444 TCTTCCCC
1 TCTTCCCC
3936452 TCTTTCTCAC
Statistics
Matches: 103, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
50 103 1.00
ACGTcount: A:0.08, C:0.54, G:0.08, T:0.30
Consensus pattern (50 bp):
TCTTCCCCCGTCTACCCCTCCTCTCTCTCAGCCGCTCTCTCACCCGTCCG
Found at i:3936528 original size:68 final size:62
Alignment explanation
Indices: 3936456--3936584 Score: 168
Period size: 68 Copynumber: 2.0 Consensus size: 62
3936446 TTCCCCTCTT
* *
3936456 TCTCACTTGTCTTCCCCTCTCTCTCAACTGCTCTCTCACCAGTCCGTCTTCCCCTCTCTCTTAGC
1 TCTCACTTGTCTTCCCCTCTCTCTCAAC--CGCTCTCA-C---CCGTCTTCCCCTCTCTCTCAGC
3936521 CGC
60 CGC
* *
3936524 TCTCACTTGTCTTCCCCTTTCTCTCAGCCGCTCTCACCCGTCTTCCCCTCTCTCTCAGCCG
1 TCTCACTTGTCTTCCCCTCTCTCTCAACCGCTCTCACCCGTCTTCCCCTCTCTCTCAGCCG
3936585 TCCATAGTCT
Statistics
Matches: 57, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
62 23 0.40
65 1 0.02
66 7 0.12
68 26 0.46
ACGTcount: A:0.08, C:0.48, G:0.09, T:0.35
Consensus pattern (62 bp):
TCTCACTTGTCTTCCCCTCTCTCTCAACCGCTCTCACCCGTCTTCCCCTCTCTCTCAGCCGC
Found at i:3936539 original size:31 final size:31
Alignment explanation
Indices: 3936456--3936584 Score: 141
Period size: 31 Copynumber: 4.0 Consensus size: 31
3936446 TTCCCCTCTT
* * *
3936456 TCTCACTTGTCTTCCCCTCTCTCTCAACTGCTC
1 TCTCACTCGTCTTCCCCTCTCTCTCAGC--CGC
*
3936489 TCTCACCAGTCCGTCTTCCCCTCTCTCTTAGCCGC
1 TCTCA-C--T-CGTCTTCCCCTCTCTCTCAGCCGC
* *
3936524 TCTCACTTGTCTTCCCCTTTCTCTCAGCCGC
1 TCTCACTCGTCTTCCCCTCTCTCTCAGCCGC
*
3936555 TCTCACCCGTCTTCCCCTCTCTCTCAGCCG
1 TCTCACTCGTCTTCCCCTCTCTCTCAGCCG
3936585 TCCATAGTCT
Statistics
Matches: 82, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
31 48 0.59
32 1 0.01
33 5 0.06
34 2 0.02
35 7 0.09
36 1 0.01
37 18 0.22
ACGTcount: A:0.08, C:0.48, G:0.09, T:0.35
Consensus pattern (31 bp):
TCTCACTCGTCTTCCCCTCTCTCTCAGCCGC
Found at i:3938205 original size:85 final size:85
Alignment explanation
Indices: 3938062--3938263 Score: 246
Period size: 85 Copynumber: 2.4 Consensus size: 85
3938052 TTTTTAAAGG
* * * * *
3938062 TATATGAATTTGTATTTAATCTATCAAAAGACATAATTTACATTTTTTTTAGGAAAAAATTGAAG
1 TATATGAATTTCTATTTAATATATCAAAAGACATAACTTACATTTTTTTTAGAAAAAAATGGAAG
* *
3938127 GCCATCTTTCTATTTTCAAA
66 ACCATCTTTCTAATTTCAAA
* *
3938147 TATATGATTTTCTATTTAATATATCAAAAGACATAACTTACTTTTTTTTTAGAAAAAAATGGAAG
1 TATATGAATTTCTATTTAATATATCAAAAGACATAACTTACATTTTTTTTAGAAAAAAATGGAAG
* *
3938212 ACTATCTTTTTAATTTCAAA
66 ACCATCTTTCTAATTTCAAA
* * * * *
3938232 GACAAGCA--TCTATTTAATATATCAAAAAACAT
1 TATATGAATTTCTATTTAATATATCAAAAGACAT
3938264 GATTTTCTAT
Statistics
Matches: 100, Mismatches: 17, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
83 23 0.23
85 77 0.77
ACGTcount: A:0.41, C:0.11, G:0.08, T:0.41
Consensus pattern (85 bp):
TATATGAATTTCTATTTAATATATCAAAAGACATAACTTACATTTTTTTTAGAAAAAAATGGAAG
ACCATCTTTCTAATTTCAAA
Found at i:3951140 original size:29 final size:28
Alignment explanation
Indices: 3951080--3951170 Score: 107
Period size: 28 Copynumber: 3.2 Consensus size: 28
3951070 ATAAAAAAAT
3951080 TTAAATAAATATTTATATTTTTA-TTACG-
1 TTAAATAAATATTTAT-TTTTTATTTA-GA
3951108 TTAAATTAAAT-TTTATTTTTTAATTTAGA
1 TTAAA-TAAATATTTATTTTTT-ATTTAGA
* *
3951137 TTAAATAAATATTAATTTTTTATTTAAA
1 TTAAATAAATATTTATTTTTTATTTAGA
3951165 TTAAAT
1 TTAAAT
3951171 TAACTTTTAT
Statistics
Matches: 56, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
27 5 0.09
28 29 0.52
29 22 0.39
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.55
Consensus pattern (28 bp):
TTAAATAAATATTTATTTTTTATTTAGA
Found at i:3951146 original size:33 final size:33
Alignment explanation
Indices: 3951109--3951173 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 33
3951099 TTTATTACGT
* * *
3951109 TAAAT-TAAATTTTATTTTTTAATTTAGATTAAA
1 TAAATATAAATTTT-TTATTTAAATTAAATTAAA
*
3951142 TAAATATTAATTTTTTATTTAAATTAAATTAA
1 TAAATATAAATTTTTTATTTAAATTAAATTAA
3951174 CTTTTATATT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 20 0.74
34 7 0.26
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.54
Consensus pattern (33 bp):
TAAATATAAATTTTTTATTTAAATTAAATTAAA
Found at i:3951230 original size:24 final size:25
Alignment explanation
Indices: 3951203--3951249 Score: 71
Period size: 24 Copynumber: 1.9 Consensus size: 25
3951193 TTTAATTAAA
3951203 ATGATATTTATTAT-TA-TATAATAT
1 ATGATATTT-TTATATATTATAATAT
3951227 ATGATATTTTTATATATTATAAT
1 ATGATATTTTTATATATTATAAT
3951250 TAATAATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 4 0.19
24 11 0.52
25 6 0.29
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.55
Consensus pattern (25 bp):
ATGATATTTTTATATATTATAATAT
Found at i:3951302 original size:33 final size:38
Alignment explanation
Indices: 3951243--3951344 Score: 103
Period size: 33 Copynumber: 2.9 Consensus size: 38
3951233 TTTTTATATA
**
3951243 TTATA-ATTAATA-ATAATATATAAAAT-AT-TTAA-T
1 TTATATATTAATATATTTTATATAAAATAATATTAATT
* *
3951276 TTA-ATATTTAT-TATTTTATATCAAATAATATTAATT
1 TTATATATTAATATATTTTATATAAAATAATATTAATT
3951312 TTATATATTAATATATTTTA-ATAAAAATAATAT
1 TTATATATTAATATATTTTATAT-AAAATAATAT
3951345 AATATATTAA
Statistics
Matches: 55, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
32 1 0.02
33 19 0.35
34 2 0.04
35 4 0.07
36 4 0.07
37 9 0.16
38 16 0.29
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (38 bp):
TTATATATTAATATATTTTATATAAAATAATATTAATT
Found at i:3951331 original size:38 final size:35
Alignment explanation
Indices: 3951266--3951344 Score: 88
Period size: 38 Copynumber: 2.1 Consensus size: 35
3951256 TAATATATAA
* *
3951266 AATATTTAATTTAATATTTATTATTTT-ATATCAAAT
1 AATA-TTAATTTAATATTAATTATTTTAATA-AAAAT
3951302 AATATTAATTTTATATATTAATATATTTTAATAAAAAT
1 AATATTAA-TTTA-ATATTAAT-TATTTTAATAAAAAT
3951340 AATAT
1 AATAT
3951345 AATATATTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
35 4 0.11
36 8 0.22
37 7 0.19
38 15 0.41
39 3 0.08
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (35 bp):
AATATTAATTTAATATTAATTATTTTAATAAAAAT
Found at i:3952652 original size:89 final size:90
Alignment explanation
Indices: 3952500--3952694 Score: 297
Period size: 89 Copynumber: 2.2 Consensus size: 90
3952490 GTCATTAATT
* *
3952500 TCTTTAGCCATATTTTGTCATCCTTCTTCTTCATCTTTTCTCTTTCCTTTGGATTAGGTTAGTGT
1 TCTTTAACCATATTTTGTCATCCTGCTTCTTCATCTTTTCTCTTTCCTTTGGATTAGGTTAGTGT
*
3952565 AATTAGTATTATGTTATTATTAGTG
66 AATTAGTATTATGCTATTATTAGTG
*
3952590 TCTTTAACCATATTTT-TCCATCCTGC-TCTTCATCTTTTCTCTTTCCTTTGGATT-TGTCTAGT
1 TCTTTAACCATATTTTGT-CATCCTGCTTCTTCATCTTTTCTCTTTCCTTTGGATTAGGT-TAGT
*
3952652 GTAATTGGTATTATGCTATTATTAGTG
64 GTAATTAGTATTATGCTATTATTAGTG
*
3952679 TCTTTAATCATATTTT
1 TCTTTAACCATATTTT
3952695 CCTATGGAAA
Statistics
Matches: 97, Mismatches: 6, Indels: 5
0.90 0.06 0.05
Matches are distributed among these distances:
88 2 0.02
89 73 0.75
90 22 0.23
ACGTcount: A:0.18, C:0.17, G:0.12, T:0.53
Consensus pattern (90 bp):
TCTTTAACCATATTTTGTCATCCTGCTTCTTCATCTTTTCTCTTTCCTTTGGATTAGGTTAGTGT
AATTAGTATTATGCTATTATTAGTG
Found at i:3953564 original size:27 final size:27
Alignment explanation
Indices: 3953534--3953595 Score: 115
Period size: 27 Copynumber: 2.3 Consensus size: 27
3953524 AAAAAAAATG
3953534 AAGAGAGTAAAGAGGAAAGTGAAAACA
1 AAGAGAGTAAAGAGGAAAGTGAAAACA
*
3953561 AAGAGAGTAAAGAGGACAGTGAAAACA
1 AAGAGAGTAAAGAGGAAAGTGAAAACA
3953588 AAGAGAGT
1 AAGAGAGT
3953596 GAAGTCAGCA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.56, C:0.05, G:0.31, T:0.08
Consensus pattern (27 bp):
AAGAGAGTAAAGAGGAAAGTGAAAACA
Found at i:3954841 original size:51 final size:50
Alignment explanation
Indices: 3954759--3955096 Score: 224
Period size: 51 Copynumber: 6.6 Consensus size: 50
3954749 GCAACACCAG
* * * *
3954759 CAACAATGAAAATGCTGATCAGAATGTGAACAATG-TCGCTGAGAGGAATGC
1 CAACAATGAAAATGCAGGTCAGAATGAGAACAATGCT-GCTCAGAGGAAT-C
* *
3954810 CAACAATGAAAATGCAGGTCAGAGTGAGAACAATGCTGCTCAGAGCAATAC
1 CAACAATGAAAATGCAGGTCAGAATGAGAACAATGCTGCTCAGAGGAAT-C
*
3954861 CAACAACGAAAATGCAGGTCAGAATGAGAACAATGCTGCTCAGA-G-A--
1 CAACAATGAAAATGCAGGTCAGAATGAGAACAATGCTGCTCAGAGGAATC
* * * *
3954907 -AACAATGAAAATGCACGTCAGAATGAGAACAATGATGCTGTTCAGAGCAACACC
1 CAACAATGAAAATGCAGGTCAGAATGAGAAC-A--ATGCTGCTCAGAG-GA-ATC
** ** * * * ** *
3954961 AACAACAATGAAAACACAAATTACAATGAGAACAATGCTGCCCAGA--CCTA
1 --CAACAATGAAAATGCAGGTCAGAATGAGAACAATGCTGCTCAGAGGAATC
* * * * * *
3955011 CAATAATGAAAATTCAGGGCAGAATGAGAACAATGCTTCTCAGAGCTACAGC
1 CAACAATGAAAATGCAGGTCAGAATGAGAACAATGCTGCTCAGAG-GA-ATC
* * *
3955063 GACAACAATGGAAATCCAGGTGAGAATGAGAACA
1 --CAACAATGAAAATGCAGGTCAGAATGAGAACA
3955097 GTAATGCTCT
Statistics
Matches: 223, Mismatches: 45, Indels: 35
0.74 0.15 0.12
Matches are distributed among these distances:
45 28 0.13
46 1 0.00
48 45 0.20
49 1 0.00
51 84 0.38
52 2 0.01
54 37 0.17
56 1 0.00
57 24 0.11
ACGTcount: A:0.43, C:0.19, G:0.22, T:0.16
Consensus pattern (50 bp):
CAACAATGAAAATGCAGGTCAGAATGAGAACAATGCTGCTCAGAGGAATC
Found at i:3954884 original size:102 final size:98
Alignment explanation
Indices: 3954740--3955056 Score: 257
Period size: 102 Copynumber: 3.1 Consensus size: 98
3954730 AATGAAAATA
* * * *
3954740 CTGCTCAGAGCAACACCAGCAACAATGAAAATGCTGATCAGAATGTGAACAATG-TCGCTGAGAG
1 CTGCTCAGAGCAACA-C--CAACAACGAAAATGCAGATCAGAATGAGAACAATGCT-GCTCAGA-
* *
3954804 GAATGCCAACAATGAAAATGCAGGTCAGAGTGAGAAC-A-ATG
61 G-A----AACAATGAAAATGCACGTCAGAATGAGAACAAGATG
* *
3954845 CTGCTCAGAGCAATACCAACAACGAAAATGCAGGTCAGAATGAGAACAATGCTGCTCAGAGAAAC
1 CTGCTCAGAGCAACACCAACAACGAAAATGCAGATCAGAATGAGAACAATGCTGCTCAGAGAAAC
3954910 AATGAAAATGCACGTCAGAATGAGAACAATGATG
66 AATGAAAATGCACGTCAGAATGAGAACAA-GATG
* ** * * * *
3954944 CTGTTCAGAGCAACACCAACAACAATGAAAACACAAATTACAATGAGAACAATGCTGCCCAGACC
1 CTGCTCAGAGCAACACCAACAAC---GAAAATGCAGATCAGAATGAGAACAATGCTGCTCAGA--
* * * * *
3955009 TACAATAATGAAAATTCAGGGCAGAATGAGAAC-A-ATG
61 GA-AACAATGAAAATGCACGTCAGAATGAGAACAAGATG
*
3955046 CTTCTCAGAGC
1 CTGCTCAGAGC
3955057 TACAGCGACA
Statistics
Matches: 178, Mismatches: 24, Indels: 23
0.79 0.11 0.10
Matches are distributed among these distances:
96 28 0.16
97 1 0.01
99 24 0.13
100 1 0.01
101 1 0.01
102 79 0.44
103 1 0.01
104 3 0.02
105 40 0.22
ACGTcount: A:0.42, C:0.21, G:0.21, T:0.16
Consensus pattern (98 bp):
CTGCTCAGAGCAACACCAACAACGAAAATGCAGATCAGAATGAGAACAATGCTGCTCAGAGAAAC
AATGAAAATGCACGTCAGAATGAGAACAAGATG
Found at i:3954944 original size:24 final size:24
Alignment explanation
Indices: 3954872--3954944 Score: 59
Period size: 24 Copynumber: 3.2 Consensus size: 24
3954862 AACAACGAAA
*
3954872 ATGCAGGTCAGAATGAGAACAATG
1 ATGCACGTCAGAATGAGAACAATG
*
3954896 CTG--C-TCAG-A-GA-AACAATG
1 ATGCACGTCAGAATGAGAACAATG
3954914 AAAATGCACGTCAGAATGAGAACAATG
1 ---ATGCACGTCAGAATGAGAACAATG
3954941 ATGC
1 ATGC
3954945 TGTTCAGAGC
Statistics
Matches: 37, Mismatches: 3, Indels: 18
0.64 0.05 0.31
Matches are distributed among these distances:
18 7 0.19
19 2 0.05
20 1 0.03
21 6 0.16
23 1 0.03
24 10 0.27
25 1 0.03
26 2 0.05
27 7 0.19
ACGTcount: A:0.42, C:0.16, G:0.25, T:0.16
Consensus pattern (24 bp):
ATGCACGTCAGAATGAGAACAATG
Found at i:3955091 original size:102 final size:97
Alignment explanation
Indices: 3954811--3955096 Score: 272
Period size: 102 Copynumber: 2.9 Consensus size: 97
3954801 GAGGAATGCC
* * * * * *
3954811 AACAATGAAAATGCAGGTCAGAGTGAGAACAATGCTGCTCAGAGCAATAC-CAACAACGAAAATG
1 AACAATGAAAATGCAGGTCAGAATGAGAACAATGCTTCTCAGAGCAACACACAACAATGGAAATC
*
3954875 CAGGTCAGAATGAGAACAATGCTGCTCAGAGA
66 CAGGTCAGAATGAGAACAATGCTGCCCAGAGA
*
3954907 AACAATGAAAATGCACGTCAGAATGAGAACAATGATGCTGT-TCAGAGCAACACCAACAACAAT-
1 AACAATGAAAATGCAGGTCAGAATGAGAAC-A--ATGCT-TCTCAGAGCAACA-C-ACAACAATG
* ** * * *
3954970 GAAAACACAAATTACAATGAGAACAATGCTGCCCAGACCTA
60 GAAATC-CAGGTCAGAATGAGAACAATGCTGCCCAGA--GA
* * * *
3955011 CAATAATGAAAATTCAGGGCAGAATGAGAACAATGCTTCTCAGAGCTACAGCGACAACAATGGAA
1 -AACAATGAAAATGCAGGTCAGAATGAGAACAATGCTTCTCAGAGCAACA-C-ACAACAATGGAA
*
3955076 ATCCAGGTGAGAATGAGAACA
63 ATCCAGGTCAGAATGAGAACA
3955097 GTAATGCTCT
Statistics
Matches: 151, Mismatches: 26, Indels: 20
0.77 0.13 0.10
Matches are distributed among these distances:
96 28 0.19
97 1 0.01
99 15 0.10
100 1 0.01
101 4 0.03
102 69 0.46
103 5 0.03
104 2 0.01
105 26 0.17
ACGTcount: A:0.44, C:0.20, G:0.21, T:0.15
Consensus pattern (97 bp):
AACAATGAAAATGCAGGTCAGAATGAGAACAATGCTTCTCAGAGCAACACACAACAATGGAAATC
CAGGTCAGAATGAGAACAATGCTGCCCAGAGA
Found at i:3956626 original size:36 final size:35
Alignment explanation
Indices: 3956576--3956646 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 35
3956566 TCTGGTGAAA
3956576 ATTCCAAATACAACCCCATTTGGCAGCCACGGTATT
1 ATTCCAAATACAACCCCATTTGGCAGCCA-GGTATT
* * *
3956612 ATTCCCAATGCAACCCCTTTTGGCAGCCAGGTATT
1 ATTCCAAATACAACCCCATTTGGCAGCCAGGTATT
3956647 TTGATATTTG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 6 0.19
36 26 0.81
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (35 bp):
ATTCCAAATACAACCCCATTTGGCAGCCAGGTATT
Found at i:3963050 original size:30 final size:31
Alignment explanation
Indices: 3963009--3963067 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
3962999 TTCCAGAAAA
*
3963009 ATCAGTCAATCTCAAAAAATTTGGATATCTG
1 ATCAGTCAATCTCAAAAAATTCGGATATCTG
* *
3963040 ATCA-TCAATCTCAACAAGTTCGGATATC
1 ATCAGTCAATCTCAAAAAATTCGGATATC
3963068 AACATGCCCC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.37, C:0.20, G:0.12, T:0.31
Consensus pattern (31 bp):
ATCAGTCAATCTCAAAAAATTCGGATATCTG
Found at i:3968639 original size:23 final size:22
Alignment explanation
Indices: 3968563--3968675 Score: 63
Period size: 23 Copynumber: 5.0 Consensus size: 22
3968553 TACAAACATA
*
3968563 ATTT-TATTATAATTTAATAAT
1 ATTTATATTATAATTAAATAAT
* * * *
3968584 ATTTTATATTAGAAGCTAATTAAAC
1 A-TTTATATTATAA-TTAAAT-AAT
3968609 ATTT-TATTATAATTAAATAAT
1 ATTTATATTATAATTAAATAAT
* *
3968630 ATTTAATATTAAAAATAAA-ATAT
1 ATTT-ATATTATAATTAAATA-AT
* *
3968653 ATTTTTCATT-CAATTAAATAAT
1 ATTTAT-ATTATAATTAAATAAT
3968675 A
1 A
3968676 ATAATATAAT
Statistics
Matches: 69, Mismatches: 14, Indels: 17
0.69 0.14 0.17
Matches are distributed among these distances:
21 7 0.10
22 18 0.26
23 35 0.51
24 6 0.09
25 3 0.04
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.47
Consensus pattern (22 bp):
ATTTATATTATAATTAAATAAT
Found at i:3968768 original size:12 final size:11
Alignment explanation
Indices: 3968721--3968777 Score: 50
Period size: 10 Copynumber: 5.4 Consensus size: 11
3968711 ATATTCGAAT
3968721 AATAATA-TTA
1 AATAATATTTA
*
3968731 AATAATATGCTTT
1 AATAATAT--TTA
*
3968744 TATAATATTT-
1 AATAATATTTA
3968754 AAT-ATA-TTA
1 AATAATATTTA
3968763 AATAATATTTA
1 AATAATATTTA
3968774 AATA
1 AATA
3968778 TTTTCATTCC
Statistics
Matches: 38, Mismatches: 3, Indels: 11
0.73 0.06 0.21
Matches are distributed among these distances:
8 2 0.05
9 6 0.16
10 12 0.32
11 9 0.24
13 9 0.24
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (11 bp):
AATAATATTTA
Found at i:3969237 original size:26 final size:28
Alignment explanation
Indices: 3969208--3969299 Score: 73
Period size: 26 Copynumber: 3.3 Consensus size: 28
3969198 TATCATCAAC
3969208 TTAATAATAGAAAAATATATA-TTTA-A
1 TTAATAATAGAAAAATATATACTTTATA
* * *
3969234 TTAAAAAAAGTAAAATATATACTTTATA
1 TTAATAATAGAAAAATATATACTTTATA
* ** *
3969262 TAAATTTTA-AAAAATATATAATATTATA
1 TTAATAATAGAAAAATATATACT-TTATA
*
3969290 TATATTAATA
1 T-TAATAATA
3969300 TATATAATAT
Statistics
Matches: 48, Mismatches: 14, Indels: 5
0.72 0.21 0.07
Matches are distributed among these distances:
26 18 0.38
27 15 0.31
28 11 0.23
29 4 0.08
ACGTcount: A:0.57, C:0.01, G:0.02, T:0.40
Consensus pattern (28 bp):
TTAATAATAGAAAAATATATACTTTATA
Found at i:3969292 original size:12 final size:12
Alignment explanation
Indices: 3969275--3969311 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
3969265 ATTTTAAAAA
3969275 ATATATAATATT
1 ATATATAATATT
* *
3969287 ATATATATTAAT
1 ATATATAATATT
3969299 ATATATAATATT
1 ATATATAATATT
3969311 A
1 A
3969312 GTTTTGTCTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (12 bp):
ATATATAATATT
Found at i:3971145 original size:26 final size:24
Alignment explanation
Indices: 3971116--3971171 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 24
3971106 TTTATATATT
* *
3971116 AATAATATTTAAATGATTTTTTAAAA
1 AATAATATTTAAAT-A-TTATCAAAA
*
3971142 AATATTATTTAAATATTATCAAAA
1 AATAATATTTAAATATTATCAAAA
3971166 AATAAT
1 AATAAT
3971172 TTATATATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
24 12 0.46
25 1 0.04
26 13 0.50
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (24 bp):
AATAATATTTAAATATTATCAAAA
Found at i:3971173 original size:22 final size:23
Alignment explanation
Indices: 3971120--3971181 Score: 63
Period size: 22 Copynumber: 2.6 Consensus size: 23
3971110 TATATTAATA
* *
3971120 ATATTTAAATGATTTTTTAAAAAAT
1 ATATTTAAAT-A-TTATCAAAAAAT
3971145 ATTATTTAAATATTATCAAAAAAT
1 A-TATTTAAATATTATCAAAAAAT
*
3971169 A-ATTTATATATTA
1 ATATTTAAATATTA
3971182 ATATTTAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
22 11 0.33
24 11 0.33
25 2 0.06
26 9 0.27
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (23 bp):
ATATTTAAATATTATCAAAAAAT
Found at i:3977393 original size:37 final size:37
Alignment explanation
Indices: 3977319--3977395 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 37
3977309 TCAAAAGCCT
* *
3977319 TTGATTTCTTTGTGTGGGTCTAGAAAGCAATGGAAGA
1 TTGATTTCTTTGTATGGGTCTAGAAAGCAATGAAAGA
* **
3977356 TTGATTTCTTTTTATGGGTCCT-GAAAGTGATGAAAGA
1 TTGATTTCTTTGTATGGGT-CTAGAAAGCAATGAAAGA
3977393 TTG
1 TTG
3977396 CAGCATTCGG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
37 32 0.94
38 2 0.06
ACGTcount: A:0.26, C:0.08, G:0.27, T:0.39
Consensus pattern (37 bp):
TTGATTTCTTTGTATGGGTCTAGAAAGCAATGAAAGA
Found at i:3981652 original size:2 final size:2
Alignment explanation
Indices: 3981645--3981708 Score: 105
Period size: 2 Copynumber: 32.5 Consensus size: 2
3981635 TAAAAAGAAG
3981645 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G- GA -A GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
3981685 GNA GA GA GA GA GA GA GA GA GA GA G
1 G-A GA GA GA GA GA GA GA GA GA GA G
3981709 GGTCAAAGCC
Statistics
Matches: 59, Mismatches: 0, Indels: 6
0.91 0.00 0.09
Matches are distributed among these distances:
1 2 0.03
2 55 0.93
3 2 0.03
ACGTcount: A:0.48, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:3985989 original size:30 final size:30
Alignment explanation
Indices: 3985944--3986014 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 30
3985934 ACGTTCAATC
* * *
3985944 AAATCTTTATTTTTTTATATTGAACT-AAAT
1 AAATTTTTATATTTTTAT-TTGAAATCAAAT
*
3985974 AAATTTTTATATTTTTATTTTAAATCAAAT
1 AAATTTTTATATTTTTATTTGAAATCAAAT
*
3986004 AAGTTTTTATA
1 AAATTTTTATA
3986015 ATTAATGATT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
29 5 0.14
30 30 0.86
ACGTcount: A:0.38, C:0.04, G:0.03, T:0.55
Consensus pattern (30 bp):
AAATTTTTATATTTTTATTTGAAATCAAAT
Found at i:3986134 original size:33 final size:33
Alignment explanation
Indices: 3986084--3986157 Score: 103
Period size: 33 Copynumber: 2.2 Consensus size: 33
3986074 TTGATGAGGA
* *
3986084 ATGCTAACATATTATAATTAATAATAATGTGAC
1 ATGCTAATATATTATAATTAATAATAATGTAAC
* * *
3986117 ATGTTAATATATTATAATTGATGATAATGTAAC
1 ATGCTAATATATTATAATTAATAATAATGTAAC
3986150 ATGCTAAT
1 ATGCTAAT
3986158 GTAACATTAT
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:0.43, C:0.07, G:0.11, T:0.39
Consensus pattern (33 bp):
ATGCTAATATATTATAATTAATAATAATGTAAC
Found at i:4004280 original size:12 final size:11
Alignment explanation
Indices: 4004260--4004293 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
4004250 TGATCCTTAC
4004260 TTTTTAATTTT
1 TTTTTAATTTT
4004271 TTTTTCAATTTT
1 TTTTT-AATTTT
4004283 TTTCTTAATTT
1 TTT-TTAATTT
4004294 AAATTGTGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 5 0.24
12 14 0.67
13 2 0.10
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTTTAATTTT
Found at i:4007266 original size:20 final size:21
Alignment explanation
Indices: 4007232--4007273 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
4007222 TCTTCTTTAC
*
4007232 TTTTGATTAGCCAATGCTGGA
1 TTTTGATTAGACAATGCTGGA
*
4007253 TTTTG-TTAGACAATGTTGGA
1 TTTTGATTAGACAATGCTGGA
4007273 T
1 T
4007274 AGGTTTCTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.24, C:0.10, G:0.24, T:0.43
Consensus pattern (21 bp):
TTTTGATTAGACAATGCTGGA
Found at i:4007269 original size:129 final size:130
Alignment explanation
Indices: 4007039--4007289 Score: 337
Period size: 129 Copynumber: 1.9 Consensus size: 130
4007029 ACAATGCTTG
* * * *
4007039 ATGTTGTCAGAGCCAATACTTTTGTGGTAACTACAAATCTTGCCATTTATTTACTCTTCTTTGTT
1 ATGTTGTCAGAGCCAATACTTTTGTGGTAACTAAAAATCTTGCCATTGATGTACTCTTCTTTCTT
4007104 GTTGATTAGCCAACGCCAGGATTTCTTAGACAATGTTGGATAGGATTC-TTCATCATTTTGCTCC
66 GTTGATTAGCCAACGCCAGGATTTCTTAGACAATGTTGGATAGGATTCTTTCATCATTTTGCTCC
* * * * * *
4007168 ATGTTGTCAGTGCCGATGCTTTTGTGGTGATTAAAAATCTTGCCATTGATGTATTCTTCTTTACT
1 ATGTTGTCAGAGCCAATACTTTTGTGGTAACTAAAAATCTTGCCATTGATGTACTCTTCTTT-CT
* * * *
4007233 T-TTGATTAGCCAATG-CTGGATTTTGTTAGACAATGTTGGATAGGTTTCTTTCATCAT
65 TGTTGATTAGCCAACGCCAGGA-TTTCTTAGACAATGTTGGATAGGATTCTTTCATCAT
4007290 CCTTTTTGTG
Statistics
Matches: 105, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
128 4 0.04
129 91 0.87
130 10 0.10
ACGTcount: A:0.22, C:0.17, G:0.19, T:0.42
Consensus pattern (130 bp):
ATGTTGTCAGAGCCAATACTTTTGTGGTAACTAAAAATCTTGCCATTGATGTACTCTTCTTTCTT
GTTGATTAGCCAACGCCAGGATTTCTTAGACAATGTTGGATAGGATTCTTTCATCATTTTGCTCC
Found at i:4022912 original size:9 final size:9
Alignment explanation
Indices: 4022898--4022922 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
4022888 AAAAAGTACC
4022898 CATCATCCT
1 CATCATCCT
4022907 CATCATCCT
1 CATCATCCT
4022916 CATCATC
1 CATCATC
4022923 ATTTCTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.44, G:0.00, T:0.32
Consensus pattern (9 bp):
CATCATCCT
Found at i:4025405 original size:2 final size:2
Alignment explanation
Indices: 4025398--4025438 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
4025388 CATTGTTATC
4025398 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4025439 GTTCACATCC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4039143 original size:15 final size:15
Alignment explanation
Indices: 4039123--4039153 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4039113 TTCATTGAAT
4039123 TTTAATTAATTCTTA
1 TTTAATTAATTCTTA
*
4039138 TTTAATTAATTGTTA
1 TTTAATTAATTCTTA
4039153 T
1 T
4039154 AAAATAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.61
Consensus pattern (15 bp):
TTTAATTAATTCTTA
Found at i:4064704 original size:12 final size:11
Alignment explanation
Indices: 4064653--4064704 Score: 50
Period size: 12 Copynumber: 4.5 Consensus size: 11
4064643 CAAATTTTTT
*
4064653 TTTTAAATAATA
1 TTTTAAA-AAAA
*
4064665 TCTTAAAAAAA
1 TTTTAAAAAAA
*
4064676 GTTTTTAAAAAA
1 -TTTTAAAAAAA
4064688 TTTTAAATAAAA
1 TTTTAAA-AAAA
4064700 TTTTA
1 TTTTA
4064705 TTTTTTATTA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
11 9 0.27
12 24 0.73
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (11 bp):
TTTTAAAAAAA
Found at i:4065333 original size:22 final size:22
Alignment explanation
Indices: 4065305--4065362 Score: 98
Period size: 22 Copynumber: 2.6 Consensus size: 22
4065295 TTGATTTATG
*
4065305 TCACATTTGTTTATATATCCCT
1 TCACATTTGTTTAGATATCCCT
*
4065327 TCACATTTGTTTAGATATCCTT
1 TCACATTTGTTTAGATATCCCT
4065349 TCACATTTGTTTAG
1 TCACATTTGTTTAG
4065363 TTCATTTCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.22, C:0.19, G:0.09, T:0.50
Consensus pattern (22 bp):
TCACATTTGTTTAGATATCCCT
Found at i:4078619 original size:32 final size:32
Alignment explanation
Indices: 4078582--4078676 Score: 101
Period size: 32 Copynumber: 3.0 Consensus size: 32
4078572 TTAAGCTTCC
4078582 CACTTCCATGCGCCACTCCAAGTTCTTGTTCT
1 CACTTCCATGCGCCACTCCAAGTTCTTGTTCT
* *
4078614 CACTTCCATGCTG---CTCTAAGTAT-TTGCTTCC
1 CACTTCCATGC-GCCACTCCAAGT-TCTTG-TTCT
4078645 CACTT-CAGTGCGCCACTCCAAGTTCTTGTTCT
1 CACTTCCA-TGCGCCACTCCAAGTTCTTGTTCT
4078677 TGCTTCCTCT
Statistics
Matches: 51, Mismatches: 4, Indels: 16
0.72 0.06 0.23
Matches are distributed among these distances:
30 13 0.25
31 12 0.24
32 15 0.29
33 11 0.22
ACGTcount: A:0.16, C:0.35, G:0.14, T:0.36
Consensus pattern (32 bp):
CACTTCCATGCGCCACTCCAAGTTCTTGTTCT
Found at i:4078619 original size:61 final size:63
Alignment explanation
Indices: 4078546--4078676 Score: 178
Period size: 63 Copynumber: 2.1 Consensus size: 63
4078536 CGCACAGGGG
*
4078546 TTGTTCTTACTTCCACGCCGCTCCAA-T-TAAGCTTCCCACTTCCA-TGCGCCACTCCAAGTTC
1 TTGTTCTCACTTCCACGCCGCTCCAAGTATAAGCTTCCCACTT-CAGTGCGCCACTCCAAGTTC
* * * **
4078607 TTGTTCTCACTTCCATGCTGCTCTAAGTATTTGCTTCCCACTTCAGTGCGCCACTCCAAGTTC
1 TTGTTCTCACTTCCACGCCGCTCCAAGTATAAGCTTCCCACTTCAGTGCGCCACTCCAAGTTC
4078670 TTGTTCT
1 TTGTTCT
4078677 TGCTTCCTCT
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
61 22 0.36
62 3 0.05
63 36 0.59
ACGTcount: A:0.16, C:0.35, G:0.13, T:0.36
Consensus pattern (63 bp):
TTGTTCTCACTTCCACGCCGCTCCAAGTATAAGCTTCCCACTTCAGTGCGCCACTCCAAGTTC
Found at i:4087347 original size:36 final size:36
Alignment explanation
Indices: 4087300--4087370 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 36
4087290 TAGGCCCAGT
*
4087300 AGGCCGGCCAGGCCCAACACCATTGCTAACACCAAC
1 AGGCCGGCCAGGCCCAACACCATTACTAACACCAAC
* *
4087336 AGGCCGGCCAGGCCCAATACCATTATTAACACCAA
1 AGGCCGGCCAGGCCCAACACCATTACTAACACCAA
4087371 GCTGCTTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.32, C:0.38, G:0.18, T:0.11
Consensus pattern (36 bp):
AGGCCGGCCAGGCCCAACACCATTACTAACACCAAC
Found at i:4104324 original size:19 final size:19
Alignment explanation
Indices: 4104287--4104325 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
4104277 AAACCCAAAT
*
4104287 AAACTAATGTAAAAATAAA
1 AAACTAAAGTAAAAATAAA
* *
4104306 AAACTAAAGTGAAATTAAA
1 AAACTAAAGTAAAAATAAA
4104325 A
1 A
4104326 TACAAAGTTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.67, C:0.05, G:0.08, T:0.21
Consensus pattern (19 bp):
AAACTAAAGTAAAAATAAA
Found at i:4127965 original size:2 final size:2
Alignment explanation
Indices: 4127958--4127987 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4127948 CCAATATAAG
4127958 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4127988 CAATTTAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4139837 original size:24 final size:24
Alignment explanation
Indices: 4139791--4139837 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
4139781 GAATAATAAG
* * * *
4139791 CAGAACATAAAAGAGAAAGAGAAA
1 CAGAACAAAAAAAAAAAAAAGAAA
4139815 CAGAACAAAAAAAAAAAAAAGAA
1 CAGAACAAAAAAAAAAAAAAGAA
4139838 GCAAAAGCAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.74, C:0.09, G:0.15, T:0.02
Consensus pattern (24 bp):
CAGAACAAAAAAAAAAAAAAGAAA
Found at i:4140163 original size:18 final size:18
Alignment explanation
Indices: 4140140--4140184 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
4140130 AACTGCAGAG
4140140 GAAATAAA-AGCAGAGAAA
1 GAAATAAAGAG-AGAGAAA
*
4140158 GAAATAAAGAGAGAGAGA
1 GAAATAAAGAGAGAGAAA
4140176 GAAAATAAA
1 G-AAATAAA
4140185 CTCCTCAAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 15 0.62
19 9 0.38
ACGTcount: A:0.67, C:0.02, G:0.24, T:0.07
Consensus pattern (18 bp):
GAAATAAAGAGAGAGAAA
Found at i:4141751 original size:22 final size:23
Alignment explanation
Indices: 4141721--4141763 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
4141711 AAATTTTTAA
*
4141721 AAATTAAATCTT-AATATTGAAC
1 AAATAAAATCTTAAATATTGAAC
*
4141743 AAATAAAATGTTAAATATTGA
1 AAATAAAATCTTAAATATTGA
4141764 TATAAACTCC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.53, C:0.05, G:0.07, T:0.35
Consensus pattern (23 bp):
AAATAAAATCTTAAATATTGAAC
Found at i:4149234 original size:62 final size:62
Alignment explanation
Indices: 4149158--4149281 Score: 248
Period size: 62 Copynumber: 2.0 Consensus size: 62
4149148 GAGAATGGCA
4149158 ATTGATAAGCAGTTCTCTTTACAAAAGCACGAAGAAGAAAAAAAGTAAAAAGGGGAAGACCG
1 ATTGATAAGCAGTTCTCTTTACAAAAGCACGAAGAAGAAAAAAAGTAAAAAGGGGAAGACCG
4149220 ATTGATAAGCAGTTCTCTTTACAAAAGCACGAAGAAGAAAAAAAGTAAAAAGGGGAAGACCG
1 ATTGATAAGCAGTTCTCTTTACAAAAGCACGAAGAAGAAAAAAAGTAAAAAGGGGAAGACCG
4149282 GCCATTGCTA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.48, C:0.13, G:0.23, T:0.16
Consensus pattern (62 bp):
ATTGATAAGCAGTTCTCTTTACAAAAGCACGAAGAAGAAAAAAAGTAAAAAGGGGAAGACCG
Found at i:4154122 original size:2 final size:2
Alignment explanation
Indices: 4154115--4154148 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
4154105 TTCCATCATA
4154115 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4154149 TTTATTATGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4162589 original size:2 final size:2
Alignment explanation
Indices: 4162582--4162639 Score: 64
Period size: 2 Copynumber: 29.5 Consensus size: 2
4162572 GAGCTCCATT
* * * *
4162582 TC TC TC TC TT TC TT TC CC TC TC TC TC TC TC TC T- TT TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
*
4162623 TC TC TG TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC T
4162640 TAAAAAAGTC
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
1 1 0.02
2 45 0.98
ACGTcount: A:0.00, C:0.43, G:0.02, T:0.55
Consensus pattern (2 bp):
TC
Found at i:4162757 original size:23 final size:21
Alignment explanation
Indices: 4162725--4162770 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 21
4162715 ACATTTATAT
4162725 ATGTATATATATAAATAAAAAA
1 ATGTATATATAT-AATAAAAAA
4162747 ATNGTATATATATAATAAAAAA
1 AT-GTATATATATAATAAAAAA
4162769 AT
1 AT
4162771 AGAAACTACT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 13 0.57
23 10 0.43
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.33
Consensus pattern (21 bp):
ATGTATATATATAATAAAAAA
Found at i:4173377 original size:13 final size:13
Alignment explanation
Indices: 4173359--4173384 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4173349 TAGGATGCTA
4173359 ATTTTGTTTGAAC
1 ATTTTGTTTGAAC
4173372 ATTTTGTTTGAAC
1 ATTTTGTTTGAAC
4173385 CTGCACCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.15, T:0.54
Consensus pattern (13 bp):
ATTTTGTTTGAAC
Found at i:4182117 original size:17 final size:19
Alignment explanation
Indices: 4182081--4182119 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
4182071 TTAATGGGAC
*
4182081 TTTAAGAAATTAAATCGTG
1 TTTAAGAAATTAAATAGTG
4182100 TTTAAG-AA-TAAATAGTG
1 TTTAAGAAATTAAATAGTG
4182117 TTT
1 TTT
4182120 CACCAATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 11 0.58
18 2 0.11
19 6 0.32
ACGTcount: A:0.41, C:0.03, G:0.15, T:0.41
Consensus pattern (19 bp):
TTTAAGAAATTAAATAGTG
Found at i:4183979 original size:24 final size:22
Alignment explanation
Indices: 4183925--4183981 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 22
4183915 CATGCTTCCA
*
4183925 CAACCACCACCGCATCCACTCC
1 CAACCACCACCGCATCCACACC
*
4183947 CACACCCACCACTGCATCCAGCACC
1 CA-A-CCACCACCGCATCCA-CACC
4183972 GCAACCACCA
1 -CAACCACCA
4183982 TAGCCACCAC
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
22 2 0.07
23 1 0.03
24 20 0.69
25 4 0.14
26 2 0.07
ACGTcount: A:0.30, C:0.56, G:0.07, T:0.07
Consensus pattern (22 bp):
CAACCACCACCGCATCCACACC
Found at i:4204648 original size:15 final size:16
Alignment explanation
Indices: 4204630--4204662 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
4204620 ACCTTTCCGC
*
4204630 ACAAATGATAAA-TAA
1 ACAAAGGATAAAGTAA
4204645 ACAAAGGATAAAGTAA
1 ACAAAGGATAAAGTAA
4204661 AC
1 AC
4204663 TACAATTCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.64, C:0.09, G:0.12, T:0.15
Consensus pattern (16 bp):
ACAAAGGATAAAGTAA
Found at i:4223129 original size:21 final size:21
Alignment explanation
Indices: 4223088--4223129 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
4223078 AATTGGGTCC
* *
4223088 GGTTTGGTTGGTTGGTTGGTT
1 GGTTTGGTTAGTTGGTGGGTT
4223109 GGTTTGGGTTAGTT-GTGGGTT
1 GGTTT-GGTTAGTTGGTGGGTT
4223130 TGTAAGTGGC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.02, C:0.00, G:0.48, T:0.50
Consensus pattern (21 bp):
GGTTTGGTTAGTTGGTGGGTT
Found at i:4238667 original size:90 final size:90
Alignment explanation
Indices: 4238514--4238687 Score: 278
Period size: 90 Copynumber: 1.9 Consensus size: 90
4238504 GGGCCTTTAA
*
4238514 GTCTTAACCCTTTTTATGAAACCGGAATGCTTACCCATGGACCTTTAAGTCTTAACCGGGCCAGC
1 GTCTTAACCCTTTTTATGAAACCGGAATGATTACCCATGGACCTTTAAGTCTTAACCGGGCCAGC
*
4238579 TCAAAATGTCATGAAAAATTGAACT
66 CCAAAATGTCATGAAAAATTGAACT
* * * *
4238604 GTCTTAACCCTTTTTATGAAACCGGAAT-ATATGCCCATGGGCCTTTAAGTCTTCACCTGGCCAG
1 GTCTTAACCCTTTTTATGAAACCGGAATGAT-TACCCATGGACCTTTAAGTCTTAACCGGGCCAG
4238668 CCCAAAATGTCATGAAAAAT
65 CCCAAAATGTCATGAAAAAT
4238688 AAAACAAAAA
Statistics
Matches: 77, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
89 1 0.01
90 76 0.99
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (90 bp):
GTCTTAACCCTTTTTATGAAACCGGAATGATTACCCATGGACCTTTAAGTCTTAACCGGGCCAGC
CCAAAATGTCATGAAAAATTGAACT
Found at i:4242396 original size:2 final size:2
Alignment explanation
Indices: 4242389--4242413 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4242379 TTGTTGTAAC
4242389 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
4242414 TAAGATCTGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4244543 original size:19 final size:19
Alignment explanation
Indices: 4244502--4244545 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
4244492 TCTACATAGG
*
4244502 TAATTATCTTTAAGTTTAT
1 TAATTATCTTTAAGTTGAT
*
4244521 TAATTATGTTTGAAGTTGA-
1 TAATTATCTTT-AAGTTGAT
4244540 TAATTA
1 TAATTA
4244546 CTTAGGGAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.34, C:0.02, G:0.11, T:0.52
Consensus pattern (19 bp):
TAATTATCTTTAAGTTGAT
Found at i:4250857 original size:2 final size:2
Alignment explanation
Indices: 4250845--4250887 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
4250835 AAGTAGTATG
*
4250845 TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4250887 T
1 T
4250888 TATGCAAAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:4251139 original size:9 final size:9
Alignment explanation
Indices: 4251125--4251149 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
4251115 AGTAATTGCA
4251125 TATATATGT
1 TATATATGT
4251134 TATATATGT
1 TATATATGT
4251143 TATATAT
1 TATATAT
4251150 AGAGAGGTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (9 bp):
TATATATGT
Found at i:4252217 original size:2 final size:2
Alignment explanation
Indices: 4252145--4252202 Score: 100
Period size: 2 Copynumber: 29.5 Consensus size: 2
4252135 ATGCATGGCN
*
4252145 AT AT AT AT AT AT -T AT AT GT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4252186 AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT A
4252203 ATCTTAGTAT
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 52 0.98
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4263249 original size:38 final size:39
Alignment explanation
Indices: 4263160--4263254 Score: 122
Period size: 40 Copynumber: 2.4 Consensus size: 39
4263150 CACACCCGGC
* *
4263160 TCATGTACATCCCCCCACATCGTGCACATAGCCGGCACCA
1 TCATGTACATCCCCTCACATCGTGCACATAGCAGG-ACCA
* *
4263200 TCATGTGCATCCCCTCACATCGTGCACA-ATCAGTG-CCA
1 TCATGTACATCCCCTCACATCGTGCACATAGCAG-GACCA
4263238 TCATGTACATCCCCTCA
1 TCATGTACATCCCCTCA
4263255 TGTCGTGTAC
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
38 19 0.39
39 3 0.06
40 27 0.55
ACGTcount: A:0.24, C:0.40, G:0.14, T:0.22
Consensus pattern (39 bp):
TCATGTACATCCCCTCACATCGTGCACATAGCAGGACCA
Found at i:4263866 original size:182 final size:181
Alignment explanation
Indices: 4263559--4263921 Score: 717
Period size: 182 Copynumber: 2.0 Consensus size: 181
4263549 TTTGAAATGC
4263559 AGTTCACTCACCTGACAAAACTAGCACCAACAAGGTCCTAATCCAAGTAATCTCGAAATACCATT
1 AGTTCACTCACCTGACAAAACTAGCACCAACAAGGTCCTAATCCAAGTAATCTCGAAATACCATT
4263624 AAAACGTATATTTATCAATAAACCATAACAATCTCAATTAAGTTGTAAATTAAATCTAATAATTC
66 AAAACGTATATTTATCAATAAACCATAACAATCTCAATTAAGTTGTAAATTAAATCTAATAATTC
4263689 TAATGAATTTACAATAGGCAATCTACCCTCTAACCTAACATTTAACCTAAG
131 TAATGAATTTACAATAGGCAATCTACCCTCTAACCTAACATTTAACCTAAG
4263740 NAGTTCACTCACCTGACAAAACTAGCACCAACAAGGTCCTAATCCAAGTAATCTCGAAATACCAT
1 -AGTTCACTCACCTGACAAAACTAGCACCAACAAGGTCCTAATCCAAGTAATCTCGAAATACCAT
4263805 TAAAACGTATATTTATCAATAAACCATAACAATCTCAATTAAGTTGTAAATTAAATCTAATAATT
65 TAAAACGTATATTTATCAATAAACCATAACAATCTCAATTAAGTTGTAAATTAAATCTAATAATT
4263870 CTAATGAATTTACAATAGGCAATCTACCCTCTAACCTAACATTTAACCTAAG
130 CTAATGAATTTACAATAGGCAATCTACCCTCTAACCTAACATTTAACCTAAG
4263922 TTTCTAGTCT
Statistics
Matches: 181, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
182 181 1.00
ACGTcount: A:0.42, C:0.22, G:0.08, T:0.28
Consensus pattern (181 bp):
AGTTCACTCACCTGACAAAACTAGCACCAACAAGGTCCTAATCCAAGTAATCTCGAAATACCATT
AAAACGTATATTTATCAATAAACCATAACAATCTCAATTAAGTTGTAAATTAAATCTAATAATTC
TAATGAATTTACAATAGGCAATCTACCCTCTAACCTAACATTTAACCTAAG
Found at i:4264442 original size:20 final size:20
Alignment explanation
Indices: 4264405--4264457 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
4264395 GAAGAAGAAA
* **
4264405 AAGTTGCTGGAAGCTTGAAG
1 AAGTTGCTAGAAATTTGAAG
4264425 AA-TCTGCTAGAAATTTGAAG
1 AAGT-TGCTAGAAATTTGAAG
4264445 AAGTTGCTAGAAA
1 AAGTTGCTAGAAA
4264458 CTTGGATATT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
19 1 0.04
20 26 0.93
21 1 0.04
ACGTcount: A:0.38, C:0.09, G:0.26, T:0.26
Consensus pattern (20 bp):
AAGTTGCTAGAAATTTGAAG
Done.