Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168004.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_26, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 16099665
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 5 of 77
Found at i:597892 original size:42 final size:43
Alignment explanation
Indices: 597801--597882 Score: 139
Period size: 43 Copynumber: 1.9 Consensus size: 43
597791 CTTTGAGAAC
597801 AAAATAAA-TGCTACTCTAAACAGAGGCACCATAACTTTTAAA
1 AAAATAAATTGCTACTCTAAACAGAGGCACCATAACTTTTAAA
* *
597843 AAAATAAATTGCTCCTCTAAACAGAGGTACCATAACTTTT
1 AAAATAAATTGCTACTCTAAACAGAGGCACCATAACTTTT
597883 CGAATATAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
42 8 0.22
43 29 0.78
ACGTcount: A:0.44, C:0.20, G:0.10, T:0.27
Consensus pattern (43 bp):
AAAATAAATTGCTACTCTAAACAGAGGCACCATAACTTTTAAA
Found at i:598296 original size:22 final size:22
Alignment explanation
Indices: 598221--598809 Score: 265
Period size: 21 Copynumber: 25.8 Consensus size: 22
598211 GATTTCACAT
*
598221 CTCAAAGATTCTCATTTGAA-A
1 CTCAAAGATTCTCATTTAAAGA
* *
598242 CTCAAAGATTTTCATTTGAAGA
1 CTCAAAGATTCTCATTTAAAGA
* * *
598264 CTAAAAAAATTCTCATTTAAAAA
1 CT-CAAAGATTCTCATTTAAAGA
* * *
598287 CTCAAAAATTCTCATCT-GAGTA
1 CTCAAAGATTCTCATTTAAAG-A
* *
598309 TTTATCAAAGATTCTCATTT-ATGA
1 ---CTCAAAGATTCTCATTTAAAGA
598333 CTCAAAGATTCTCATTTAAAGA
1 CTCAAAGATTCTCATTTAAAGA
*
598355 CTCAAAGATTCTCATTT-GAGTA
1 CTCAAAGATTCTCATTTAAAG-A
* *
598377 TTTCTTAAA-AGTTTTCATTT-AAGA
1 ---CTCAAAGA-TTCTCATTTAAAGA
* * * *
598401 CTTAAAGATTTTTATTTGAAAATGT
1 CTCAAAGATTCTCATTT--AAA-GA
*
598426 CTTAAAGATTCTCATTTAAA-A
1 CTCAAAGATTCTCATTTAAAGA
*
598447 CATCTTAAAGATTCTCA-TTGAAGA
1 C-TC--AAAGATTCTCATTTAAAGA
* * *
598471 CTCAAAGGTTATCATTTGAAAATGT
1 CTCAAAGATTCTCATTT--AAA-GA
* *
598496 CTTAAAGATTCTCA-TTCAAGA
1 CTCAAAGATTCTCATTTAAAGA
* *
598517 CTCAAAGAATCTCATTTGAAAATA
1 CTCAAAGATTCTCATTT--AAAGA
*
598541 TCTTAAAGATTCTCA-TTAAAGA
1 -CTCAAAGATTCTCATTTAAAGA
*
598563 CTCAAA-ATTTCTCATTTAAAAATA
1 CTCAAAGA-TTCTCATTT--AAAGA
* *
598587 TCTTAAAGATTTTCATTT-AAGA
1 -CTCAAAGATTCTCATTTAAAGA
*
598609 CTCAAAGATTCTCATTTGAAAATA
1 CTCAAAGATTCTCATTT--AAAGA
* * *
598633 TCTTAAAGATTTTCATTCAAA-A
1 -CTCAAAGATTCTCATTTAAAGA
* * * *
598655 TTGAAAGATTTTCATTTAAAAATA
1 CTCAAAGATTCTCATTT--AAAGA
*
598679 TCTTAAAGATTCTCATTT-AAGA
1 -CTCAAAGATTCTCATTTAAAGA
* * *
598701 CTTAAAGATTCTTATTTGAAAATGT
1 CTCAAAGATTCTCATTT--AAA-GA
* *
598726 CTTAAAGATTTTCATTT-AAGA
1 CTCAAAGATTCTCATTTAAAGA
* * *
598747 CACAAAGGTTCTCATTTGAAAATGT
1 CTCAAAGATTCTCATTT--AAA-GA
*
598772 CTTAAAGATTCTCATTT-AAGA
1 CTCAAAGATTCTCATTTAAAGA
* *
598793 CTTAAAAATTCTCATTT
1 CTCAAAGATTCTCATTT
598810 GAGGATTCAT
Statistics
Matches: 440, Mismatches: 77, Indels: 102
0.71 0.12 0.16
Matches are distributed among these distances:
20 1 0.00
21 162 0.37
22 63 0.14
23 32 0.07
24 39 0.09
25 142 0.32
26 1 0.00
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.38
Consensus pattern (22 bp):
CTCAAAGATTCTCATTTAAAGA
Found at i:598330 original size:17 final size:18
Alignment explanation
Indices: 598308--598371 Score: 58
Period size: 22 Copynumber: 3.2 Consensus size: 18
598298 TCATCTGAGT
598308 ATTTA-TCAAAGATTCTC
1 ATTTACTCAAAGATTCTC
598325 ATTTATGACTCAAAGATTCTC
1 A-TT-T-ACTCAAAGATTCTC
598346 ATTTAAAGACTCAAAGATTCTC
1 ATTT----ACTCAAAGATTCTC
598368 ATTT
1 ATTT
598372 GAGTATTTCT
Statistics
Matches: 40, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
17 1 0.03
18 2 0.05
19 2 0.05
20 3 0.08
21 13 0.32
22 19 0.47
ACGTcount: A:0.36, C:0.17, G:0.08, T:0.39
Consensus pattern (18 bp):
ATTTACTCAAAGATTCTC
Found at i:598358 original size:68 final size:68
Alignment explanation
Indices: 598243--598410 Score: 212
Period size: 68 Copynumber: 2.4 Consensus size: 68
598233 CATTTGAAAC
*
598243 TCAAAGATTTTCATTTGAAGACTAAAAAAATTCTCATTTAAAAACTCAAAAATTCTCATCTGAGT
1 TCAAAGATTTTCATTT-AAGACT-AAAAGATTCTCATTTAAAAACTCAAAAATTCTCATCTGAGT
598308 ATTTA
64 ATTTA
* * * * * *
598313 TCAAAGATTCTCATTTATGACTCAAAGATTCTCATTTAAAGACTCAAAGATTCTCATTTGAGTAT
1 TCAAAGATTTTCATTTAAGACTAAAAGATTCTCATTTAAAAACTCAAAAATTCTCATCTGAGTAT
*
598378 TTC
66 TTA
* *
598381 TTAAA-AGTTTTCATTTAAGACTTAAAGATT
1 TCAAAGA-TTTTCATTTAAGACTAAAAGATT
598411 TTTATTTGAA
Statistics
Matches: 85, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
67 1 0.01
68 64 0.75
69 5 0.06
70 15 0.18
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.38
Consensus pattern (68 bp):
TCAAAGATTTTCATTTAAGACTAAAAGATTCTCATTTAAAAACTCAAAAATTCTCATCTGAGTAT
TTA
Found at i:598808 original size:46 final size:46
Alignment explanation
Indices: 598219--598811 Score: 521
Period size: 46 Copynumber: 12.9 Consensus size: 46
598209 AGGATTTCAC
* * *
598219 ATCTCAAAGATTCTCATTTGAA-ACTCAAAGATTTTCATTTG--AAG
1 ATCTTAAAGATTCTCATTT-AAGACTCAAAGATTCTCATTTGAAAAT
* * * * * **
598263 A-CTAAAAAAATTCTCATTTAAAAACTCAAAAATTCTCATCTGAGTAT
1 ATCT-TAAAGATTCTCATTT-AAGACTCAAAGATTCTCATTTGAAAAT
* * * * *
598310 TTATCAAAGATTCTCATTTATGACTCAAAGATTCTCATTT--AAAG
1 ATCTTAAAGATTCTCATTTAAGACTCAAAGATTCTCATTTGAAAAT
* * * * *
598354 A-CTCAAAGATTCTCATTTGAGTATTTCTTAAA-AGTTTTCATTT---AAG
1 ATCTTAAAGATTCTCATTTAAG-A---CTCAAAGA-TTCTCATTTGAAAAT
* * * * *
598400 A-CTTAAAGATTTTTATTTGAAAATGTCTTAAAGATTCTCATTT-AAAAC
1 ATCTTAAAGATTCTCATTT---AA-GACTCAAAGATTCTCATTTGAAAAT
* * *
598448 ATCTTAAAGATTCTCATTGAAGACTCAAAGGTTATCATTTGAAAAT
1 ATCTTAAAGATTCTCATTTAAGACTCAAAGATTCTCATTTGAAAAT
* * *
598494 GTCTTAAAGATTCTCATTCAAGACTCAAAGAATCTCATTTGAAAAT
1 ATCTTAAAGATTCTCATTTAAGACTCAAAGATTCTCATTTGAAAAT
* *
598540 ATCTTAAAGATTCTCATTAAAGACTCAAA-ATTTCTCATTTAAAAAT
1 ATCTTAAAGATTCTCATTTAAGACTCAAAGA-TTCTCATTTGAAAAT
*
598586 ATCTTAAAGATTTTCATTTAAGACTCAAAGATTCTCATTTGAAAAT
1 ATCTTAAAGATTCTCATTTAAGACTCAAAGATTCTCATTTGAAAAT
* * * * * * *
598632 ATCTTAAAGATTTTCATTCAAAATTGAAAGATTTTCATTTAAAAAT
1 ATCTTAAAGATTCTCATTTAAGACTCAAAGATTCTCATTTGAAAAT
* *
598678 ATCTTAAAGATTCTCATTTAAGACTTAAAGATTCTTATTTGAAAAT
1 ATCTTAAAGATTCTCATTTAAGACTCAAAGATTCTCATTTGAAAAT
* * * *
598724 GTCTTAAAGATTTTCATTTAAGACACAAAGGTTCTCATTTGAAAAT
1 ATCTTAAAGATTCTCATTTAAGACTCAAAGATTCTCATTTGAAAAT
* * *
598770 GTCTTAAAGATTCTCATTTAAGACTTAAAAATTCTCATTTGA
1 ATCTTAAAGATTCTCATTTAAGACTCAAAGATTCTCATTTGA
598812 GGATTCATAA
Statistics
Matches: 451, Mismatches: 77, Indels: 40
0.79 0.14 0.07
Matches are distributed among these distances:
43 19 0.04
44 18 0.04
45 32 0.07
46 333 0.74
47 29 0.06
48 4 0.01
49 15 0.03
50 1 0.00
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.38
Consensus pattern (46 bp):
ATCTTAAAGATTCTCATTTAAGACTCAAAGATTCTCATTTGAAAAT
Found at i:599233 original size:22 final size:22
Alignment explanation
Indices: 599198--599239 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
599188 TTAAAACAAG
*
599198 TTTCATCAACTGATCCTTATAT
1 TTTCATCAACTGATCATTATAT
599220 TTTCATC-ACTTGATCATTAT
1 TTTCATCAAC-TGATCATTAT
599240 TCATAGGCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 2 0.11
22 16 0.89
ACGTcount: A:0.26, C:0.21, G:0.05, T:0.48
Consensus pattern (22 bp):
TTTCATCAACTGATCATTATAT
Found at i:600091 original size:19 final size:18
Alignment explanation
Indices: 600069--600141 Score: 72
Period size: 14 Copynumber: 4.4 Consensus size: 18
600059 TTTGAGTTTT
600069 TTTTTTCTCCTTTTCATC
1 TTTTTTCTCCTTTTCATC
600087 ATTTTTTCCTCC-TTTCAT-
1 -TTTTTT-CTCCTTTTCATC
600105 TTTTTTCT-CTTTTC-TC
1 TTTTTTCTCCTTTTCATC
600121 TTTTTT-T--TTTT-ATC
1 TTTTTTCTCCTTTTCATC
600135 TTTTTTC
1 TTTTTTC
600142 ATCCATTAGT
Statistics
Matches: 49, Mismatches: 0, Indels: 14
0.78 0.00 0.22
Matches are distributed among these distances:
14 12 0.24
15 3 0.06
16 12 0.24
17 6 0.12
19 12 0.24
20 4 0.08
ACGTcount: A:0.05, C:0.22, G:0.00, T:0.73
Consensus pattern (18 bp):
TTTTTTCTCCTTTTCATC
Found at i:600124 original size:16 final size:17
Alignment explanation
Indices: 600069--600141 Score: 75
Period size: 16 Copynumber: 4.4 Consensus size: 17
600059 TTTGAGTTTT
600069 TTTTTTCTCCTTTTCATC
1 TTTTTTCT-CTTTTCATC
*
600087 ATTTTTTCCTCCTTTCAT-
1 -TTTTTT-CTCTTTTCATC
600105 TTTTTTCTCTTTTC-TC
1 TTTTTTCTCTTTTCATC
600121 TTTTTT-T-TTTT-ATC
1 TTTTTTCTCTTTTCATC
600135 TTTTTTC
1 TTTTTTC
600142 ATCCATTAGT
Statistics
Matches: 48, Mismatches: 2, Indels: 12
0.77 0.03 0.19
Matches are distributed among these distances:
14 12 0.25
15 2 0.04
16 13 0.27
17 6 0.12
19 13 0.27
20 2 0.04
ACGTcount: A:0.05, C:0.22, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTTTTCTCTTTTCATC
Found at i:602944 original size:17 final size:17
Alignment explanation
Indices: 602922--602978 Score: 70
Period size: 17 Copynumber: 3.6 Consensus size: 17
602912 ATGATCATAA
602922 AAATGATGCATAGAATG
1 AAATGATGCATAGAATG
602939 AAATGAT--AT-G-AT-
1 AAATGATGCATAGAATG
602951 AATATGATGCATAGAATG
1 AA-ATGATGCATAGAATG
602969 AAATGATGCA
1 AAATGATGCA
602979 GATGCATAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
12 2 0.06
13 7 0.21
14 1 0.03
15 4 0.12
16 1 0.03
17 17 0.50
18 2 0.06
ACGTcount: A:0.47, C:0.05, G:0.21, T:0.26
Consensus pattern (17 bp):
AAATGATGCATAGAATG
Found at i:604710 original size:50 final size:51
Alignment explanation
Indices: 604627--604733 Score: 146
Period size: 51 Copynumber: 2.1 Consensus size: 51
604617 TAAATAGGCC
*
604627 CAAATGGTTAAAAATTTAGAAATTTC-AAAAAAAATATTTCCAAATTGACT
1 CAAATGGTGAAAAATTTAGAAATTTCAAAAAAAAATATTTCCAAATTGACT
* * * *
604677 CAAATGGTGAAAATTTTAGAAA-TTCAAAAAAAAAATATTTCTAATTTGGCT
1 CAAATGGTGAAAAATTTAGAAATTTC-AAAAAAAAATATTTCCAAATTGACT
604728 CAAATG
1 CAAATG
604734 ATAGAATAAT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
49 3 0.06
50 20 0.40
51 27 0.54
ACGTcount: A:0.49, C:0.09, G:0.10, T:0.32
Consensus pattern (51 bp):
CAAATGGTGAAAAATTTAGAAATTTCAAAAAAAAATATTTCCAAATTGACT
Found at i:604730 original size:51 final size:50
Alignment explanation
Indices: 604612--604733 Score: 156
Period size: 50 Copynumber: 2.4 Consensus size: 50
604602 AATAAAAAGA
* * *
604612 ATTTCTAAATAGGCCCAAATGGTTAAAAATTTAGAAATTTCAAAAAAAAT
1 ATTTCTAAATTGGCTCAAATGGTGAAAAATTTAGAAATTTCAAAAAAAAT
* * *
604662 ATTTCCAAATTGACTCAAATGGTGAAAATTTTAGAAA-TTCAAAAAAAAAAT
1 ATTTCTAAATTGGCTCAAATGGTGAAAAATTTAGAAATTTC--AAAAAAAAT
*
604713 ATTTCTAATTTGGCTCAAATG
1 ATTTCTAAATTGGCTCAAATG
604734 ATAGAATAAT
Statistics
Matches: 61, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
49 3 0.05
50 31 0.51
51 27 0.44
ACGTcount: A:0.47, C:0.11, G:0.11, T:0.32
Consensus pattern (50 bp):
ATTTCTAAATTGGCTCAAATGGTGAAAAATTTAGAAATTTCAAAAAAAAT
Found at i:605074 original size:22 final size:24
Alignment explanation
Indices: 605025--605074 Score: 68
Period size: 22 Copynumber: 2.1 Consensus size: 24
605015 GTAACCAAAC
*
605025 CCCAAACCTTATTCTAGTTTGTAGA
1 CCCAAACCTTATTCTA-TTTATAGA
605050 CCCAAACC-TATTCT-TTTATAGA
1 CCCAAACCTTATTCTATTTATAGA
605072 CCC
1 CCC
605075 TTAGTTAAGC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 10 0.42
24 6 0.25
25 8 0.33
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.34
Consensus pattern (24 bp):
CCCAAACCTTATTCTATTTATAGA
Found at i:605676 original size:14 final size:14
Alignment explanation
Indices: 605641--605685 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
605631 TATGCCAAAA
*
605641 AATTTTCCTTGCCTT
1 AATTTT-CTTTCCTT
605656 -ATTTTCTTTCCTT
1 AATTTTCTTTCCTT
605669 AATTTTC--TCCTT
1 AATTTTCTTTCCTT
605681 AATTT
1 AATTT
605686 CTATCCAAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
12 10 0.36
13 7 0.25
14 11 0.39
ACGTcount: A:0.16, C:0.22, G:0.02, T:0.60
Consensus pattern (14 bp):
AATTTTCTTTCCTT
Found at i:607800 original size:2 final size:2
Alignment explanation
Indices: 607790--607827 Score: 67
Period size: 2 Copynumber: 18.5 Consensus size: 2
607780 AAAATGAAAA
607790 AT AT CAT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
607828 CACACACATA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 33 0.94
3 2 0.06
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:609210 original size:32 final size:33
Alignment explanation
Indices: 609174--609253 Score: 76
Period size: 32 Copynumber: 2.5 Consensus size: 33
609164 TAATAAATAT
* * *
609174 TTGAATTTAATTTATTT-ATTATTAAAGTGAAA
1 TTGAATTTAAGTTATTTAAATAATAAAGTGAAA
* * *
609206 TTGAACTTGAGTTATTTAAATAATAAATTGAAA
1 TTGAATTTAAGTTATTTAAATAATAAAGTGAAA
*
609239 TT-AATTTGAG-TATTT
1 TTGAATTTAAGTTATTT
609254 TAAAAATTGA
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
31 5 0.12
32 21 0.52
33 14 0.35
ACGTcount: A:0.40, C:0.01, G:0.11, T:0.47
Consensus pattern (33 bp):
TTGAATTTAAGTTATTTAAATAATAAAGTGAAA
Found at i:610092 original size:19 final size:18
Alignment explanation
Indices: 610065--610104 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
610055 ATTAAAAATC
*
610065 AAAACTAATAATTTAATAA
1 AAAACTAATAATATAA-AA
*
610084 AAAATTAATAATATAAAA
1 AAAACTAATAATATAAAA
610102 AAA
1 AAA
610105 TTATTGAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.28
Consensus pattern (18 bp):
AAAACTAATAATATAAAA
Found at i:622223 original size:6 final size:6
Alignment explanation
Indices: 622212--622237 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
622202 TTTACTTATG
622212 TAAATA TAAATA TAAATA TAAATA TA
1 TAAATA TAAATA TAAATA TAAATA TA
622238 TATTTATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (6 bp):
TAAATA
Found at i:622481 original size:2 final size:2
Alignment explanation
Indices: 622476--622500 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
622466 TGTGAATGTG
622476 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
622501 CCCTAATCTC
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:623432 original size:2 final size:2
Alignment explanation
Indices: 623425--623487 Score: 117
Period size: 2 Copynumber: 31.5 Consensus size: 2
623415 ATATCTCCAA
*
623425 TC TC TC TC TC TC TT TC 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 TC TC TC TC TC TC TC TC
623467 TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC T
623488 TGTTGTATAT
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:625794 original size:3 final size:3
Alignment explanation
Indices: 625786--625815 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
625776 GCATATGAAA
625786 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
625816 ATTTGAATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:629228 original size:19 final size:19
Alignment explanation
Indices: 629204--629241 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
629194 ATTTGTAGGC
629204 CAATAAACTACACACCTGT
1 CAATAAACTACACACCTGT
629223 CAATAAACTACACACCTGT
1 CAATAAACTACACACCTGT
629242 TCTGCAGACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.32, G:0.05, T:0.21
Consensus pattern (19 bp):
CAATAAACTACACACCTGT
Found at i:633329 original size:18 final size:18
Alignment explanation
Indices: 633306--633342 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
633296 CCATAACAAT
*
633306 CAACTATGAGTAAAGACA
1 CAACTACGAGTAAAGACA
633324 CAACTACGAGTAAAGACA
1 CAACTACGAGTAAAGACA
633342 C
1 C
633343 TATTGTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.49, C:0.22, G:0.16, T:0.14
Consensus pattern (18 bp):
CAACTACGAGTAAAGACA
Found at i:633763 original size:15 final size:15
Alignment explanation
Indices: 633739--633768 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
633729 TGAATTTGTT
*
633739 AGGCCTGCATAGATA
1 AGGCCCGCATAGATA
633754 AGGCCCGCATAGATA
1 AGGCCCGCATAGATA
633769 CCTTTCTCGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.23, G:0.27, T:0.17
Consensus pattern (15 bp):
AGGCCCGCATAGATA
Found at i:636603 original size:18 final size:17
Alignment explanation
Indices: 636578--636622 Score: 72
Period size: 19 Copynumber: 2.5 Consensus size: 17
636568 TAACTCGAAA
636578 TTAATATAATATTATTT
1 TTAATATAATATTATTT
636595 TTAAATATAAATATTATTT
1 TT-AATAT-AATATTATTT
636614 TTAATATAA
1 TTAATATAA
636623 ATATAAACTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
17 4 0.15
18 10 0.38
19 12 0.46
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTAATATAATATTATTT
Found at i:636623 original size:18 final size:18
Alignment explanation
Indices: 636578--636626 Score: 82
Period size: 18 Copynumber: 2.7 Consensus size: 18
636568 TAACTCGAAA
636578 TTAATAT-AATATTATTT
1 TTAATATAAATATTATTT
636595 TTAAATATAAATATTATTT
1 TT-AATATAAATATTATTT
636614 TTAATATAAATAT
1 TTAATATAAATAT
636627 AAACTTAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
17 2 0.07
18 16 0.53
19 12 0.40
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TTAATATAAATATTATTT
Found at i:636637 original size:18 final size:18
Alignment explanation
Indices: 636595--636637 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
636585 AATATTATTT
* **
636595 TTAAATATAAATATTATT
1 TTAAATATAAATATAAAC
*
636613 TTTAATATAAATATAAAC
1 TTAAATATAAATATAAAC
636631 TTAAATA
1 TTAAATA
636638 AACATATATA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (18 bp):
TTAAATATAAATATAAAC
Found at i:636644 original size:24 final size:24
Alignment explanation
Indices: 636617--636662 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
636607 ATTATTTTTA
* *
636617 ATATAAATATAAACTTAAATAAAC
1 ATATAAACATAAAATTAAATAAAC
*
636641 ATATATACATAAAATTAAATAA
1 ATATAAACATAAAATTAAATAA
636663 TTAATTAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (24 bp):
ATATAAACATAAAATTAAATAAAC
Found at i:637965 original size:285 final size:286
Alignment explanation
Indices: 637450--638019 Score: 858
Period size: 285 Copynumber: 2.0 Consensus size: 286
637440 AAATATTGTC
* * * * *
637450 GATAGATTAATTAATTTTATCAATGGAAATGATGTTCAATAAAAAATTTTAAAAGTGCTTATAAG
1 GATAGATTAATTAATTTTATCAATGAAAATAATATTCAAGAAAAAATTTAAAAAGTGCTTATAAG
** * * *
637515 AATTTTTTTTCTTTAAATTTTTTTATTTTTCAATATTTAAAGTGTTTAAAATGTCCAAGAAAAAT
66 AATAATTTCTCTTTAAATTTTTTTATTTTTCAATATTTAAAGTGTTCAAAATGACCAAGAAAAAT
* *
637580 TTTTTCTTTAAATTTTCTTCTTTTCTATCAAACCACTTAGATCTACCATAGCTTGATTTGTCTTA
131 GTTTTCTTTAAATTTTCTTCTTTTCTACCAAACCACTTAGATCTACCATAGCTTGATTTGTCTTA
**
637645 TAATTAATATATTAAAATAAAATGACCTATCATTTGATTTAAC-TTGACTTAAAAATAATTTGAA
196 TAATTAATATATTAAAATAAAATGACCTATCATTTGATTTAACTTTGACTTAAAAATAATTCAAA
**
637709 ACTCGAAATTACCTTACACTTGTGGA
261 ACTAAAAATTACCTTACACTTGTGGA
* *
637735 GATAGATTTATTAATTTTATCAATGAAAATAATATTCAAGCAAAAATTTAAAAAGTGCTTATAAG
1 GATAGATTAATTAATTTTATCAATGAAAATAATATTCAAGAAAAAATTTAAAAAGTGCTTATAAG
637800 AA-AATTTCT-TTTAAATTTTTTTTTATTTTTCAATATTTAAAGTGTTCAAAATGACCAAGAAAA
66 AATAATTTCTCTTTAAA--TTTTTTTATTTTTCAATATTTAAAGTGTTCAAAATGACCAAGAAAA
* * * *
637863 ATGTTTTCTTTAAATTTTCTTCTTTTCTACCAAGCCACTTAGATCTGCCCTTGCTTGATTTGTCT
129 ATGTTTTCTTTAAATTTTCTTCTTTTCTACCAAACCACTTAGATCTACCATAGCTTGATTTGTCT
* * * *
637928 TATGATTAATATATTAAAGTAAAATGACCTGTCATTTGATTTAACTTTGACTTGAAAATAATTCA
194 TATAATTAATATATTAAAATAAAATGACCTATCATTTGATTTAACTTTGACTTAAAAATAATTCA
*
637993 AAACTAAAAATTACCTTACATTTGTGG
259 AAACTAAAAATTACCTTACACTTGTGG
638020 TGACTTAAAC
Statistics
Matches: 255, Mismatches: 27, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
283 6 0.02
284 4 0.02
285 205 0.80
286 40 0.16
ACGTcount: A:0.37, C:0.11, G:0.09, T:0.43
Consensus pattern (286 bp):
GATAGATTAATTAATTTTATCAATGAAAATAATATTCAAGAAAAAATTTAAAAAGTGCTTATAAG
AATAATTTCTCTTTAAATTTTTTTATTTTTCAATATTTAAAGTGTTCAAAATGACCAAGAAAAAT
GTTTTCTTTAAATTTTCTTCTTTTCTACCAAACCACTTAGATCTACCATAGCTTGATTTGTCTTA
TAATTAATATATTAAAATAAAATGACCTATCATTTGATTTAACTTTGACTTAAAAATAATTCAAA
ACTAAAAATTACCTTACACTTGTGGA
Found at i:639725 original size:13 final size:13
Alignment explanation
Indices: 639709--639747 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
639699 AAGGATTAAA
639709 TAAAAATTAAAAT
1 TAAAAATTAAAAT
*
639722 TAAAAATCAAAAT
1 TAAAAATTAAAAT
*
639735 TAATAGATTAAAA
1 TAA-AAATTAAAA
639748 ATTTTCGTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 15 0.68
14 7 0.32
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.28
Consensus pattern (13 bp):
TAAAAATTAAAAT
Found at i:646678 original size:2 final size:2
Alignment explanation
Indices: 646671--646695 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
646661 TTTAAAATTA
646671 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
646696 CATACATACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:648781 original size:13 final size:13
Alignment explanation
Indices: 648763--648787 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
648753 ATTTAAAATC
648763 AAATTTAAATTTA
1 AAATTTAAATTTA
648776 AAATTTAAATTT
1 AAATTTAAATTT
648788 TAATTGAGTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
AAATTTAAATTTA
Found at i:664480 original size:14 final size:15
Alignment explanation
Indices: 664455--664483 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
664445 TAAATAAATG
664455 ATAAATTTTTAAAAA
1 ATAAATTTTTAAAAA
664470 ATAAA-TTTTAAAAA
1 ATAAATTTTTAAAAA
664484 TATTATTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
ATAAATTTTTAAAAA
Found at i:673427 original size:31 final size:29
Alignment explanation
Indices: 673387--673461 Score: 84
Period size: 27 Copynumber: 2.6 Consensus size: 29
673377 AATTTAATTA
* *
673387 AAATAAAATTTAAATTTAATTTAATATTATT
1 AAATTAAA-TTAAATTTAATTTAAT-TTATC
*
673418 AAATTAAATTAAA-ATAATTTAATTTATC
1 AAATTAAATTAAATTTAATTTAATTTATC
673446 AAA-TAAATT-AATTTAA
1 AAATTAAATTAAATTTAA
673462 GTATTTTAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
26 2 0.05
27 9 0.23
28 7 0.18
29 9 0.23
30 5 0.13
31 7 0.18
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (29 bp):
AAATTAAATTAAATTTAATTTAATTTATC
Found at i:675887 original size:17 final size:17
Alignment explanation
Indices: 675867--675903 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
675857 CAAATTTGTT
675867 ATAAATATTAAATTAAA
1 ATAAATATTAAATTAAA
675884 ATAAATATTAAATTAAA
1 ATAAATATTAAATTAAA
675901 ATA
1 ATA
675904 TTTAAAACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
ATAAATATTAAATTAAA
Found at i:679258 original size:14 final size:14
Alignment explanation
Indices: 679235--679299 Score: 54
Period size: 12 Copynumber: 5.1 Consensus size: 14
679225 AATATTATAA
679235 AATATCATAAAAAT
1 AATATCATAAAAAT
*
679249 AATAT--TATAAA-
1 AATATCATAAAAAT
*
679260 AATATCATGCAAAA-
1 AATATCAT-AAAAAT
679274 AATATCAT-AAAAT
1 AATATCATAAAAAT
679287 -AT-TCATAAAAAT
1 AATATCATAAAAAT
679299 A
1 A
679300 TCATGCAATA
Statistics
Matches: 42, Mismatches: 3, Indels: 13
0.72 0.05 0.22
Matches are distributed among these distances:
11 9 0.21
12 16 0.38
13 1 0.02
14 16 0.38
ACGTcount: A:0.62, C:0.08, G:0.02, T:0.29
Consensus pattern (14 bp):
AATATCATAAAAAT
Found at i:679267 original size:25 final size:23
Alignment explanation
Indices: 679215--679297 Score: 103
Period size: 24 Copynumber: 3.4 Consensus size: 23
679205 CAAAATAATT
679215 TCATACAAAAAATATTATAAAATA
1 TCATA-AAAAAATATTATAAAATA
679239 TCATAAAAATAATATTATAAAAATA
1 TCATAAAAA-AATATTAT-AAAATA
* *
679264 TCATGCAAAAAATATCATAAAATA
1 TCAT-AAAAAAATATTATAAAATA
679288 TTCATAAAAA
1 -TCATAAAAA
679298 TATCATGCAA
Statistics
Matches: 52, Mismatches: 3, Indels: 8
0.83 0.05 0.13
Matches are distributed among these distances:
23 4 0.08
24 23 0.44
25 21 0.40
26 4 0.08
ACGTcount: A:0.61, C:0.08, G:0.01, T:0.29
Consensus pattern (23 bp):
TCATAAAAAAATATTATAAAATA
Found at i:679321 original size:11 final size:11
Alignment explanation
Indices: 679222--679303 Score: 69
Period size: 14 Copynumber: 7.0 Consensus size: 11
679212 ATTTCATACA
*
679222 AAAAATATTAT
1 AAAAATATCAT
679233 -AAAATATCAT
1 AAAAATATCAT
*
679243 AAAAATAATATTAT
1 --AAA-AATATCAT
679257 AAAAATATCAT
1 AAAAATATCAT
679268 GCAAAAAATATCAT
1 ---AAAAATATCAT
679282 -AAAATATTCAT
1 AAAAATA-TCAT
679293 AAAAATATCAT
1 AAAAATATCAT
679304 GCAATAATAT
Statistics
Matches: 59, Mismatches: 3, Indels: 18
0.74 0.04 0.22
Matches are distributed among these distances:
10 15 0.25
11 15 0.25
12 9 0.15
13 2 0.03
14 18 0.31
ACGTcount: A:0.61, C:0.07, G:0.01, T:0.30
Consensus pattern (11 bp):
AAAAATATCAT
Found at i:679374 original size:28 final size:26
Alignment explanation
Indices: 679330--679390 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
679320 AAAATCCATT
*
679330 CAAAAA-ATCATGTAATAACAAAAAATA
1 CAAAAATATCATGCAAT-A-AAAAAATA
* *
679357 CAAAAATATTATGCAATAAAAAAATG
1 CAAAAATATCATGCAATAAAAAAATA
679383 CAAAAATA
1 CAAAAATA
679391 AATAATAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
26 15 0.50
27 7 0.23
28 8 0.27
ACGTcount: A:0.66, C:0.10, G:0.05, T:0.20
Consensus pattern (26 bp):
CAAAAATATCATGCAATAAAAAAATA
Found at i:684971 original size:2 final size:2
Alignment explanation
Indices: 684964--684990 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
684954 TGTGTATGGA
684964 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 A
684991 CAGTATTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:687444 original size:25 final size:25
Alignment explanation
Indices: 687404--687451 Score: 71
Period size: 24 Copynumber: 1.9 Consensus size: 25
687394 TATTTGTCAT
*
687404 TTTTTATTTTATTTTTAA-AGAAAA
1 TTTTTATTTAATTTTTAATAGAAAA
687428 TTTTTATTTAATTTTTTAATAGAA
1 TTTTTATTTAA-TTTTTAATAGAA
687452 TTTAAAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 10 0.48
25 7 0.33
26 4 0.19
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.60
Consensus pattern (25 bp):
TTTTTATTTAATTTTTAATAGAAAA
Found at i:688095 original size:13 final size:13
Alignment explanation
Indices: 688077--688115 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
688067 TCTACTTAAG
*
688077 TATATTAAAATTT
1 TATATTAAAATTA
*
688090 TATATTAAAATAA
1 TATATTAAAATTA
*
688103 TATATAAAAATTA
1 TATATTAAAATTA
688116 AAAAATAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TATATTAAAATTA
Found at i:688725 original size:6 final size:6
Alignment explanation
Indices: 688701--688742 Score: 50
Period size: 6 Copynumber: 6.7 Consensus size: 6
688691 GTTTTTGGCT
688701 TTTTTGG TTTTATG CTTTTTG TTTTTG TTTTTG TTTTT- TTTT
1 TTTTT-G TTTT-TG -TTTTTG TTTTTG TTTTTG TTTTTG TTTT
688743 AGGTTTTTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
5 4 0.12
6 17 0.52
7 7 0.21
8 5 0.15
ACGTcount: A:0.02, C:0.02, G:0.14, T:0.81
Consensus pattern (6 bp):
TTTTTG
Found at i:693111 original size:17 final size:18
Alignment explanation
Indices: 693086--693138 Score: 67
Period size: 17 Copynumber: 3.1 Consensus size: 18
693076 AAAAACAATT
693086 ATAAAATAAATATAATAA
1 ATAAAATAAATATAATAA
*
693104 CT-AAATAAATA-AATAA
1 ATAAAATAAATATAATAA
*
693120 ATAAAATAAA-ATAAAAA
1 ATAAAATAAATATAATAA
693137 AT
1 AT
693139 CGAAACGGCT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
16 7 0.23
17 22 0.73
18 1 0.03
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.25
Consensus pattern (18 bp):
ATAAAATAAATATAATAA
Found at i:693112 original size:4 final size:4
Alignment explanation
Indices: 693089--693138 Score: 57
Period size: 4 Copynumber: 12.0 Consensus size: 4
693079 AACAATTATA
*
693089 AAAT AAAT ATAAT AACT AAAT AAAT AAAT AAAT AAAAT AAAAT AAA- AAAT
1 AAAT AAAT A-AAT AAAT AAAT AAAT AAAT AAAT -AAAT -AAAT AAAT AAAT
693139 CGAAACGGCT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
3 3 0.07
4 25 0.61
5 13 0.32
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:693138 original size:25 final size:25
Alignment explanation
Indices: 693089--693138 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
693079 AACAATTATA
* *
693089 AAATAAATATAATAACTAAATAAAT
1 AAATAAATAAAATAAATAAATAAAT
693114 AAATAAATAAAATAAAATAAA-AAAT
1 AAATAAATAAAAT-AAATAAATAAAT
693139 CGAAACGGCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 16 0.73
26 6 0.27
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (25 bp):
AAATAAATAAAATAAATAAATAAAT
Found at i:693638 original size:16 final size:16
Alignment explanation
Indices: 693614--693647 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
693604 CAAATTTTGG
*
693614 AAATTTTTTAGAA-AA
1 AAATTTTTTTGAACAA
693629 AAATTTTTTTGAACAA
1 AAATTTTTTTGAACAA
693645 AAA
1 AAA
693648 ATTTCCCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.53, C:0.03, G:0.06, T:0.38
Consensus pattern (16 bp):
AAATTTTTTTGAACAA
Found at i:694052 original size:8 final size:8
Alignment explanation
Indices: 694039--694080 Score: 54
Period size: 8 Copynumber: 5.6 Consensus size: 8
694029 TCAATAAAAG
694039 ATAAAATA
1 ATAAAATA
694047 ATAAAATA
1 ATAAAATA
694055 AT--AA-A
1 ATAAAATA
*
694060 ATGAAATA
1 ATAAAATA
694068 ATAAAATA
1 ATAAAATA
694076 ATAAA
1 ATAAA
694081 TAAGACTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
5 3 0.10
6 2 0.07
7 2 0.07
8 23 0.77
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (8 bp):
ATAAAATA
Found at i:694066 original size:13 final size:13
Alignment explanation
Indices: 694050--694074 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
694040 TAAAATAATA
694050 AAATAATAAAATG
1 AAATAATAAAATG
694063 AAATAATAAAAT
1 AAATAATAAAAT
694075 AATAAATAAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.24
Consensus pattern (13 bp):
AAATAATAAAATG
Found at i:694551 original size:130 final size:129
Alignment explanation
Indices: 694329--694643 Score: 355
Period size: 130 Copynumber: 2.4 Consensus size: 129
694319 GAGGCTCTAA
* * * * *
694329 AACTTTGAAAAGTAAATAAAGCTCTTCTAAATAGAGACTCAATGACTTTTGGAAAGTAAATAAAG
1 AACTTTGAAAAGTAAATAAAGCTCCTCTAAATAGAGGCTCAA-CAC-TTTGAAAAATAAATAAAG
* * * *
694394 CTCCTTTAAACAGAAGCTCAATGACTTTTGGAAAAGT-AATAAGGCTCCAATAAATAGAAGCTTA
64 CTCCTATAAACAGAAGCTCAATGAC-TTTGGAAAAATAAATAAGGCTCCAATAAACAGAAGCTCA
694458 AC
128 AC
* * * *
694460 AACTTTGGAAAAGTAAATAAGGCTCCTCTAAACAGAGGCTTAACACTTTGAAAAATAAATAAGGC
1 AACTTT-GAAAAGTAAATAAAGCTCCTCTAAATAGAGGCTCAACACTTTGAAAAATAAATAAAGC
* * * ** * *
694525 TCCTATAATCAG-AGACTTAATGACTTTGGAAAAATAAATAAGGCTTCTTTAAGCAGATGCTCAA
65 TCCTATAAACAGAAG-CTCAATGACTTTGGAAAAATAAATAAGGCTCCAATAAACAGAAGCTCAA
694589 C
129 C
* * * *
694590 AACTTTGAAAAATAAATAAAGCTCCTCTAAGTAGAGGCTCAACAATTTTAAAAA
1 AACTTTGAAAAGTAAATAAAGCTCCTCTAAATAGAGGCTCAACACTTTGAAAAA
694644 AATAATACAC
Statistics
Matches: 154, Mismatches: 27, Indels: 8
0.81 0.14 0.04
Matches are distributed among these distances:
129 53 0.34
130 62 0.40
131 8 0.05
132 31 0.20
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.26
Consensus pattern (129 bp):
AACTTTGAAAAGTAAATAAAGCTCCTCTAAATAGAGGCTCAACACTTTGAAAAATAAATAAAGCT
CCTATAAACAGAAGCTCAATGACTTTGGAAAAATAAATAAGGCTCCAATAAACAGAAGCTCAAC
Found at i:694632 original size:43 final size:43
Alignment explanation
Indices: 694307--694644 Score: 243
Period size: 44 Copynumber: 7.8 Consensus size: 43
694297 AACATAAAAA
* * * *
694307 CTCCTTTAAATTGAGGCTCTAA-AACTTTGAAAAGTAAATAAAG
1 CTCCTCTAAATAGAGGCTC-AACAACTTTGAAAAATAAATAAGG
* * ** * * *
694350 CTCTTCTAAATAGAGACTCAATGACTTTTGGAAAGTAAATAAAG
1 CTCCTCTAAATAGAGGCTCAACAAC-TTTGAAAAATAAATAAGG
* * * ** *
694394 CTCCTTTAAACAGAAGCTCAATGACTTTTGGAAAAGT-AATAAGG
1 CTCCTCTAAATAGAGGCTCAACAAC-TTT-GAAAAATAAATAAGG
** * * *
694438 CTCCAATAAATAGAAGCTTAACAACTTTGGAAAAGTAAATAAGG
1 CTCCTCTAAATAGAGGCTCAACAACTTT-GAAAAATAAATAAGG
* *
694482 CTCCTCTAAACAGAGGCTTAAC-ACTTTGAAAAATAAATAAGG
1 CTCCTCTAAATAGAGGCTCAACAACTTTGAAAAATAAATAAGG
* * * **
694524 CTCCTAT-AATCAGAGACTTAATGACTTTGGAAAAATAAATAAGG
1 CTCCTCTAAAT-AGAGGCTCAACAACTTT-GAAAAATAAATAAGG
* * ** * *
694568 CTTCTTTAAGCAGATGCTCAACAACTTTGAAAAATAAATAAAG
1 CTCCTCTAAATAGAGGCTCAACAACTTTGAAAAATAAATAAGG
* * *
694611 CTCCTCTAAGTAGAGGCTCAACAATTTTAAAAAA
1 CTCCTCTAAATAGAGGCTCAACAACTTTGAAAAA
694645 ATAATACACC
Statistics
Matches: 243, Mismatches: 44, Indels: 16
0.80 0.15 0.05
Matches are distributed among these distances:
41 2 0.01
42 31 0.13
43 80 0.33
44 123 0.51
45 7 0.03
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.27
Consensus pattern (43 bp):
CTCCTCTAAATAGAGGCTCAACAACTTTGAAAAATAAATAAGG
Found at i:695288 original size:25 final size:25
Alignment explanation
Indices: 695254--695323 Score: 76
Period size: 25 Copynumber: 3.0 Consensus size: 25
695244 AGATGCTCAT
*
695254 TTAAATATTCTTATTTGAAAACTTC
1 TTAAAGATTCTTATTTGAAAACTTC
* *
695279 TTAAAGATTCTCA-TTCAAAA-TTC
1 TTAAAGATTCTTATTTGAAAACTTC
*
695302 --AAAGATTTTTATTTGAAAACTT
1 TTAAAGATTCTTATTTGAAAACTT
695324 TAAATTTTAT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
21 9 0.24
22 6 0.16
23 5 0.14
24 6 0.16
25 11 0.30
ACGTcount: A:0.39, C:0.11, G:0.06, T:0.44
Consensus pattern (25 bp):
TTAAAGATTCTTATTTGAAAACTTC
Found at i:698697 original size:9 final size:9
Alignment explanation
Indices: 698683--698746 Score: 67
Period size: 10 Copynumber: 6.7 Consensus size: 9
698673 TATTTTGCTT
698683 AAAAAAAT-
1 AAAAAAATA
698691 AAAAAAATA
1 AAAAAAATA
698700 CAAAAAAATACA
1 -AAAAAAAT--A
698712 AAAAAAATA
1 AAAAAAATA
*
698721 CAAAAAATACA
1 -AAAAAA-ATA
698732 AAAAAAATA
1 AAAAAAATA
698741 AAAAAA
1 AAAAAA
698747 GAAAGTGATT
Statistics
Matches: 48, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
8 8 0.17
9 9 0.19
10 20 0.42
11 10 0.21
12 1 0.02
ACGTcount: A:0.84, C:0.06, G:0.00, T:0.09
Consensus pattern (9 bp):
AAAAAAATA
Found at i:698704 original size:10 final size:10
Alignment explanation
Indices: 698683--698746 Score: 82
Period size: 11 Copynumber: 6.6 Consensus size: 10
698673 TATTTTGCTT
698683 AAAAAAAT--
1 AAAAAAATAC
698691 AAAAAAATAC
1 AAAAAAATAC
698701 AAAAAAATAC
1 AAAAAAATAC
698711 AAAAAAAATAC
1 -AAAAAAATAC
698722 -AAAAAATAC
1 AAAAAAATAC
698731 AAAAAAAATA-
1 -AAAAAAATAC
698741 AAAAAA
1 AAAAAA
698747 GAAAGTGATT
Statistics
Matches: 51, Mismatches: 0, Indels: 9
0.85 0.00 0.15
Matches are distributed among these distances:
8 8 0.16
9 15 0.29
10 10 0.20
11 18 0.35
ACGTcount: A:0.84, C:0.06, G:0.00, T:0.09
Consensus pattern (10 bp):
AAAAAAATAC
Found at i:698705 original size:11 final size:11
Alignment explanation
Indices: 698691--698746 Score: 84
Period size: 11 Copynumber: 5.5 Consensus size: 11
698681 TTAAAAAAAT
698691 AAAAAAATAC-
1 AAAAAAATACA
698701 AAAAAAATACA
1 AAAAAAATACA
698712 AAAAAAATAC-
1 AAAAAAATACA
698722 -AAAAAATACA
1 AAAAAAATACA
698732 AAAAAAATA-A
1 AAAAAAATACA
698742 AAAAA
1 AAAAA
698747 GAAAGTGATT
Statistics
Matches: 43, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
9 9 0.21
10 16 0.37
11 18 0.42
ACGTcount: A:0.84, C:0.07, G:0.00, T:0.09
Consensus pattern (11 bp):
AAAAAAATACA
Found at i:699928 original size:109 final size:107
Alignment explanation
Indices: 699775--700201 Score: 452
Period size: 109 Copynumber: 4.0 Consensus size: 107
699765 AGTTATGGTT
** * ** *
699775 ACTTTTATTTTCCTGACTTACGGTTCAGTTTCGGTCGTCATTAATCTTTGACTCGTGGTTTAATC
1 ACTTTTATTTT-CTGACTTACGGTTCAGTCCCAGTTATCTTTAATCTTTGACTCGTGGTTTAATC
* * * *
699840 TTGATCATTTTTATAGCTTCTCGACTTACGATTTAATCATAATC
65 CTGATAATTTTTATAGCTTTTCGACTTACGGTTTAATC-TAATC
*
699884 ACTTTTATTTAT-TGGACTTACGGTTCAGTCTCAGTTATCTTTAATCTTTGACTCGTGGTTTAAT
1 ACTTTTATTT-TCT-GACTTACGGTTCAGTCCCAGTTATCTTTAATCTTTGACTCGTGGTTTAAT
* * * * *
699948 ACC-GATCATTCTTATAGCTTTTCGACTTATGGTTTAAACCTAGTC
64 -CCTGATAATTTTTATAGCTTTTCGACTTACGGTTT-AATCTAATC
* *
699993 GCTTTTATTTCTCTGACTTACGATTCAGTCCCAGTTATCTTTAATCTTTGACTCGTGGTTTAATC
1 ACTTTTATTT-TCTGACTTACGGTTCAGTCCCAGTTATCTTTAATCTTTGACTCGTGGTTTAATC
* * * *
700058 CTGATAATTTTTATAG-TTTTTGAATTGCGGTTTAATCTCAT-
65 CTGATAATTTTTATAGCTTTTCGACTTACGGTTTAATCTAATC
* * * * *
700099 TCTCTTTATTTTCTAATTTACGG-TCTAATCCCAGTTATCTTTGATCTTTGACTCGTGGTTTAAT
1 ACT-TTTATTTTCTGACTTACGGTTC-AGTCCCAGTTATCTTTAATCTTTGACTCGTGGTTTAAT
* * **
700163 CCTGATAATTTTTATAG-TTTTTGAATTGTGGTTTAATCT
64 CCTGATAATTTTTATAGCTTTTCGACTTACGGTTTAATCT
700202 CATTCTCCTT
Statistics
Matches: 278, Mismatches: 32, Indels: 19
0.84 0.10 0.06
Matches are distributed among these distances:
105 2 0.01
106 85 0.31
107 12 0.04
108 16 0.06
109 157 0.56
110 6 0.02
ACGTcount: A:0.21, C:0.17, G:0.14, T:0.48
Consensus pattern (107 bp):
ACTTTTATTTTCTGACTTACGGTTCAGTCCCAGTTATCTTTAATCTTTGACTCGTGGTTTAATCC
TGATAATTTTTATAGCTTTTCGACTTACGGTTTAATCTAATC
Found at i:700090 original size:37 final size:36
Alignment explanation
Indices: 700049--700204 Score: 90
Period size: 35 Copynumber: 4.4 Consensus size: 36
700039 TTTGACTCGT
* *
700049 GGTTTAATCCTGATAATTTTTATAGTTTTTGAATTGC
1 GGTTTAATCCTCATAATCTTTATA-TTTTTGAATTGC
** * *
700086 GGTTTAAT-CTCATTCTCTTTAT-TTTCT-AATTTAC
1 GGTTTAATCCTCATAATCTTTATATTTTTGAA-TTGC
* * * * * * *
700120 GGTCTAATCC-CAGTTATCTTT-GATCTTTGACTCGT
1 GGTTTAATCCTCA-TAATCTTTATATTTTTGAATTGC
* * *
700155 GGTTTAATCCTGATAATTTTTATAGTTTTTGAATTGT
1 GGTTTAATCCTCATAATCTTTATA-TTTTTGAATTGC
700192 GGTTTAAT-CTCAT
1 GGTTTAATCCTCAT
700205 TCTCCTTATT
Statistics
Matches: 87, Mismatches: 24, Indels: 17
0.68 0.19 0.13
Matches are distributed among these distances:
33 2 0.02
34 16 0.18
35 27 0.31
36 17 0.20
37 25 0.29
ACGTcount: A:0.22, C:0.13, G:0.14, T:0.51
Consensus pattern (36 bp):
GGTTTAATCCTCATAATCTTTATATTTTTGAATTGC
Found at i:700229 original size:106 final size:106
Alignment explanation
Indices: 699915--700234 Score: 430
Period size: 106 Copynumber: 3.0 Consensus size: 106
699905 GGTTCAGTCT
* * * * *
699915 CAGTTATCTTTAATCTTTGACTCGTGGTTTAATACC-GATCATTCTTATAGCTTTTCGACTTATG
1 CAGTTATCTTTAATCTTTGACTCGTGGTTTAAT-CCTGATAATTTTTATAG-TTTTTGAATTGTG
* * * * * * *
699979 GTTTAAAC-CTAGTCGCTTTTATTTCTCTGACTTACGAT-TCAGTCC
64 GTTTAATCTC-ATTCTC-TTTATTT-TCTAATTTACGGTCT-AATCC
*
700024 CAGTTATCTTTAATCTTTGACTCGTGGTTTAATCCTGATAATTTTTATAGTTTTTGAATTGCGGT
1 CAGTTATCTTTAATCTTTGACTCGTGGTTTAATCCTGATAATTTTTATAGTTTTTGAATTGTGGT
700089 TTAATCTCATTCTCTTTATTTTCTAATTTACGGTCTAATCC
66 TTAATCTCATTCTCTTTATTTTCTAATTTACGGTCTAATCC
*
700130 CAGTTATCTTTGATCTTTGACTCGTGGTTTAATCCTGATAATTTTTATAGTTTTTGAATTGTGGT
1 CAGTTATCTTTAATCTTTGACTCGTGGTTTAATCCTGATAATTTTTATAGTTTTTGAATTGTGGT
*
700195 TTAATCTCATTCTCCTTATTTTCTAATTTACGGTCTAATC
66 TTAATCTCATTCTCTTTATTTTCTAATTTACGGTCTAATC
700235 TCAATCTCTT
Statistics
Matches: 192, Mismatches: 16, Indels: 9
0.88 0.07 0.04
Matches are distributed among these distances:
106 116 0.60
107 8 0.04
108 22 0.11
109 46 0.24
ACGTcount: A:0.21, C:0.17, G:0.13, T:0.48
Consensus pattern (106 bp):
CAGTTATCTTTAATCTTTGACTCGTGGTTTAATCCTGATAATTTTTATAGTTTTTGAATTGTGGT
TTAATCTCATTCTCTTTATTTTCTAATTTACGGTCTAATCC
Found at i:700379 original size:44 final size:45
Alignment explanation
Indices: 700296--700380 Score: 136
Period size: 44 Copynumber: 1.9 Consensus size: 45
700286 AAATCGTAGT
*
700296 TTAATCTCAATTGTTGTTATTTTTTGACTCGTGATTTAATCCCGG
1 TTAATCTCAATTATTGTTATTTTTTGACTCGTGATTTAATCCCGG
* *
700341 TTAATCTCGATTATTGTTA-TTTTTGACTCGTGGTTTAATC
1 TTAATCTCAATTATTGTTATTTTTTGACTCGTGATTTAATC
700381 TCGATCTCTT
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
44 20 0.54
45 17 0.46
ACGTcount: A:0.20, C:0.14, G:0.15, T:0.51
Consensus pattern (45 bp):
TTAATCTCAATTATTGTTATTTTTTGACTCGTGATTTAATCCCGG
Found at i:707520 original size:7 final size:7
Alignment explanation
Indices: 707508--707600 Score: 53
Period size: 7 Copynumber: 12.7 Consensus size: 7
707498 TAAATCAAGC
707508 AAATAAA
1 AAATAAA
707515 AAATAAA
1 AAATAAA
*
707522 AAATCAA
1 AAATAAA
** *
707529 TGATAAT
1 AAATAAA
* *
707536 CAACAAA
1 AAATAAA
*
707543 AGATAAA
1 AAATAAA
*
707550 AACTAAA
1 AAATAAA
707557 AAATAATA
1 AAATAA-A
707565 AAATGAAA
1 AAAT-AAA
*
707573 TAATAAA
1 AAATAAA
707580 TAAA-ACTAA
1 -AAATA--AA
707589 AAATAAA
1 AAATAAA
707596 AAATA
1 AAATA
707601 GGTAATTGAG
Statistics
Matches: 63, Mismatches: 17, Indels: 12
0.68 0.18 0.13
Matches are distributed among these distances:
7 44 0.70
8 14 0.22
9 5 0.08
ACGTcount: A:0.73, C:0.05, G:0.03, T:0.18
Consensus pattern (7 bp):
AAATAAA
Found at i:707576 original size:41 final size:39
Alignment explanation
Indices: 707508--707600 Score: 107
Period size: 41 Copynumber: 2.3 Consensus size: 39
707498 TAAATCAAGC
*
707508 AAATAAAAAATAAAAAATCAATGATAATCAACAAAAGATAA
1 AAATAAAAAATAAAAAATCAA-GATAATAAACAAAA-ATAA
* * *
707549 AAACTAAAAAATAATAAAATGAA-ATAATAAATAAAACTAA
1 AAA-TAAAAAATAA-AAAATCAAGATAATAAACAAAAATAA
707589 AAATAAAAAATA
1 AAATAAAAAATA
707601 GGTAATTGAG
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
39 9 0.20
40 6 0.13
41 14 0.30
42 10 0.22
43 7 0.15
ACGTcount: A:0.73, C:0.05, G:0.03, T:0.18
Consensus pattern (39 bp):
AAATAAAAAATAAAAAATCAAGATAATAAACAAAAATAA
Found at i:707593 original size:16 final size:16
Alignment explanation
Indices: 707548--707595 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 16
707538 ACAAAAGATA
707548 AAAACTAAAAA-ATAAT
1 AAAACTAAAAATA-AAT
707564 AAAA-TGAAATAATAAAT
1 AAAACT-AAA-AATAAAT
707581 AAAACTAAAAATAAA
1 AAAACTAAAAATAAA
707596 AAATAGGTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
15 1 0.04
16 13 0.46
17 12 0.43
18 2 0.07
ACGTcount: A:0.75, C:0.04, G:0.02, T:0.19
Consensus pattern (16 bp):
AAAACTAAAAATAAAT
Found at i:707796 original size:11 final size:10
Alignment explanation
Indices: 707777--707809 Score: 50
Period size: 11 Copynumber: 3.3 Consensus size: 10
707767 AAGGTGTTCT
707777 AAATAAAAAA
1 AAATAAAAAA
707787 AAACTAAAAAA
1 AAA-TAAAAAA
707798 AAA-AAAAAA
1 AAATAAAAAA
707807 AAA
1 AAA
707810 AGCAAAGATG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 9 0.41
10 3 0.14
11 10 0.45
ACGTcount: A:0.91, C:0.03, G:0.00, T:0.06
Consensus pattern (10 bp):
AAATAAAAAA
Found at i:707799 original size:15 final size:15
Alignment explanation
Indices: 707775--707804 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
707765 AAAAGGTGTT
*
707775 CTAAATAAAAAAAAA
1 CTAAAAAAAAAAAAA
707790 CTAAAAAAAAAAAAA
1 CTAAAAAAAAAAAAA
707805 AAAAAAGCAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.83, C:0.07, G:0.00, T:0.10
Consensus pattern (15 bp):
CTAAAAAAAAAAAAA
Found at i:714208 original size:13 final size:13
Alignment explanation
Indices: 714190--714223 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
714180 TTCGGTTGGG
714190 ATTAAATTTATAT
1 ATTAAATTTATAT
*
714203 ATTAAATATATAT
1 ATTAAATTTATAT
714216 ATTAAATT
1 ATTAAATT
714224 AAGATCGAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
ATTAAATTTATAT
Found at i:716626 original size:3 final size:3
Alignment explanation
Indices: 716618--716654 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
716608 ATTGTTGGTG
716618 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
716655 TGTTCTTTGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:718908 original size:2 final size:2
Alignment explanation
Indices: 718901--718944 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
718891 CTTAAACATA
* *
718901 AT AT AT AT AT AT GT AT AT AT AT AA 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
718943 AT
1 AT
718945 TCACATGTCA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:721691 original size:59 final size:58
Alignment explanation
Indices: 721560--722034 Score: 416
Period size: 59 Copynumber: 8.1 Consensus size: 58
721550 TTTATACAAA
* * * *
721560 AAAAATTGATACTTTCAACTTTTTCTCAGAAATATATTTTTAAAAATTTTTATTTTCAAG
1 AAAAATTGATACTTTCAACTTTTTTTCA-AAATATTTTTTTGAAAA-TTTTATTTTTAAG
*
721620 GAAAATTGATACTTTCAACTTTTTTTCAAAGATATTTTTTTGAAAATTTTATTTTTAAG
1 AAAAATTGATACTTTCAACTTTTTTTCAAA-ATATTTTTTTGAAAATTTTATTTTTAAG
* ** * * **
721679 AAAAATTAATACTTTCAACTTTTCCTCAAAA-AATATTTTGAAGTTTTTATTTTTAAG
1 AAAAATTGATACTTTCAACTTTTTTTCAAAATATTTTTTTGAAAATTTTATTTTTAAG
* * * *
721736 AAAAATTAATACTTTCAACTTTTCTTT-AAAGTA---TTTTGAAATTTTTATTTTCAA-
1 AAAAATTGATACTTTCAACTTTT-TTTCAAAATATTTTTTTGAAAATTTTATTTTTAAG
* * *
721790 AGAAAATTGATACTTTCAATTTTTTCTTAAAAATATATTTTT-AAAATTTTTATTTTTAA-
1 A-AAAATTGATACTTTCAACTTTTT-TTCAAAATATTTTTTTGAAAA-TTTTATTTTTAAG
* ** *
721849 AGAAAATTGATACTTTTAACTTTTTTTCAAAAATACTTTTTGAGGAAAACTTTTATTTCTAAG
1 A-AAAATTGATACTTTCAACTTTTTTTC-AAAATA-TTTTT-TTGAAAA-TTTTATTTTTAAG
* * * * *
721912 AAAAATTGATACTTTGAACTTTTTCTCAAAA-ATGCTTTTTGAAATTTTTTTTTTATTTTCAAG
1 AAAAATTGATACTTTCAACTTTTTTTCAAAATAT-TTTTTTGAAA-----ATTTTATTTTTAAG
* * *
721975 GAAAATTGATACTTTTAACTTTTCTTCAAAACTA-TTTTTT-AAAATTTTATTTTT-AG
1 AAAAATTGATACTTTCAACTTTTTTTCAAAA-TATTTTTTTGAAAATTTTATTTTTAAG
722031 AAAA
1 AAAA
722035 TCATTGAAAA
Statistics
Matches: 345, Mismatches: 47, Indels: 50
0.78 0.11 0.11
Matches are distributed among these distances:
54 2 0.01
55 41 0.12
56 10 0.03
57 57 0.17
58 8 0.02
59 89 0.26
60 47 0.14
61 4 0.01
62 42 0.12
63 44 0.13
65 1 0.00
ACGTcount: A:0.37, C:0.09, G:0.06, T:0.49
Consensus pattern (58 bp):
AAAAATTGATACTTTCAACTTTTTTTCAAAATATTTTTTTGAAAATTTTATTTTTAAG
Found at i:721764 original size:30 final size:30
Alignment explanation
Indices: 721673--721764 Score: 70
Period size: 28 Copynumber: 3.2 Consensus size: 30
721663 AAATTTTATT
721673 TTTAAGAAAAATTAATACTTTCAACTTTTC
1 TTTAAGAAAAATTAATACTTTCAACTTTTC
* * * * *
721703 -CTCA-AAAAA-T-AT--TTTGAAGTTTTTATT
1 TTTAAGAAAAATTAATACTTTCAA--CTTT-TC
721730 TTTAAGAAAAATTAATACTTTCAACTTTTC
1 TTTAAGAAAAATTAATACTTTCAACTTTTC
721760 TTTAA
1 TTTAA
721765 AGTATTTTGA
Statistics
Matches: 43, Mismatches: 10, Indels: 18
0.61 0.14 0.25
Matches are distributed among these distances:
24 5 0.12
26 5 0.12
27 2 0.05
28 7 0.16
29 7 0.16
30 7 0.16
31 5 0.12
33 5 0.12
ACGTcount: A:0.39, C:0.11, G:0.04, T:0.46
Consensus pattern (30 bp):
TTTAAGAAAAATTAATACTTTCAACTTTTC
Found at i:721843 original size:171 final size:174
Alignment explanation
Indices: 721560--722034 Score: 506
Period size: 171 Copynumber: 2.7 Consensus size: 174
721550 TTTATACAAA
* * *
721560 AAAAATTGATACTTTCAACTTTTTCTCAGAAATAT-ATTTTTAAAAATTTTTATTTTCAAGGAAA
1 AAAAATTAATACTTTCAACTTTTTCTCA-AAA-ATGCTTTTT-GAAATTTTTATTTTCAAGGAAA
* *
721624 ATTGATACTTTCAACTTTTTT-TCAAAGATATTTTTTTGAAAATTTTATTTTTAAGAAAAATTAA
63 ATTGATACTTTCAA-TTTTTTCTTAAAAATA-TTTTTT-AAAATTTTATTTTTAAGAAAAATTAA
** *
721688 TACTTTCAACTTTTCCTCAAAAAATA-TTTT-G-AAGTTTTTATTTTTAAG
125 TACTTTCAACTTTTCCTC-AAAAATACTTTTGGAAAACTTTTATTTCTAAG
** *
721736 AAAAATTAATACTTTCAAC-TTTTCT-TTAAA-G-TATTTTGAAATTTTTATTTTCAAAGAAAAT
1 AAAAATTAATACTTTCAACTTTTTCTCAAAAATGCT-TTTTGAAATTTTTATTTTCAAGGAAAAT
*
721797 TGATACTTTCAATTTTTTCTTAAAAATATATTTTTAAAATTTTTATTTTTAA-AGAAAATTGATA
65 TGATACTTTCAATTTTTTCTTAAAAATAT-TTTTTAAAA-TTTTATTTTTAAGA-AAAATTAATA
* **
721861 CTTTTAACTTTTTTTCAAAAATACTTTTTGAGGAAAACTTTTATTTCTAAG
127 CTTTCAACTTTTCCTCAAAAATAC-TTTT--GGAAAACTTTTATTTCTAAG
* *
721912 AAAAATTGATACTTTGAACTTTTTCTCAAAAATGCTTTTTGAAATTTTTTTTTTATTTTCAAGGA
1 AAAAATTAATACTTTCAACTTTTTCTCAAAAATGCTTTTTGAAA-----TTTTTATTTTCAAGGA
* * *
721977 AAATTGATACTTTTAA-CTTTTCTTCAAAACTATTTTTTAAAATTTTATTTTT-AGAAAA
61 AAATTGATACTTTCAATTTTTTCTT-AAAAATATTTTTTAAAATTTTATTTTTAAGAAAA
722035 TCATTGAAAA
Statistics
Matches: 254, Mismatches: 22, Indels: 41
0.80 0.07 0.13
Matches are distributed among these distances:
170 19 0.07
171 81 0.32
172 9 0.04
173 2 0.01
175 7 0.03
176 49 0.19
177 6 0.02
178 3 0.01
179 9 0.04
180 1 0.00
181 4 0.02
182 11 0.04
183 16 0.06
184 37 0.15
ACGTcount: A:0.37, C:0.09, G:0.06, T:0.49
Consensus pattern (174 bp):
AAAAATTAATACTTTCAACTTTTTCTCAAAAATGCTTTTTGAAATTTTTATTTTCAAGGAAAATT
GATACTTTCAATTTTTTCTTAAAAATATTTTTTAAAATTTTATTTTTAAGAAAAATTAATACTTT
CAACTTTTCCTCAAAAATACTTTTGGAAAACTTTTATTTCTAAG
Found at i:721995 original size:63 final size:63
Alignment explanation
Indices: 721835--722029 Score: 211
Period size: 62 Copynumber: 3.1 Consensus size: 63
721825 TATTTTTAAA
* * * *
721835 ATTTTTATTTTTAAAGAAAATTGATACTTTTAACTTTTTTTCAAAAATACTTTTTGAGGAA---A
1 ATTTTTATTTTCAAGGAAAATTGATACTTTTAACTTTTTCTCAAAAATACTTTTTGA--AATTTT
* * * *
721897 ACTTTTA-TTTCTAAGAAAAATTGATACTTTGAACTTTTTCTCAAAAATGCTTTTTGAAATTTT
1 ATTTTTATTTTC-AAGGAAAATTGATACTTTTAACTTTTTCTCAAAAATACTTTTTGAAATTTT
* * * *
721960 TTTTTTATTTTCAAGGAAAATTGATACTTTTAAC-TTTTCTTCAAAACTATTTTTTAAAATTTT
1 ATTTTTATTTTCAAGGAAAATTGATACTTTTAACTTTTTC-TCAAAAATACTTTTTGAAATTTT
722023 ATTTTTA
1 ATTTTTA
722030 GAAAATCATT
Statistics
Matches: 110, Mismatches: 17, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
60 2 0.02
61 3 0.03
62 51 0.46
63 50 0.45
64 4 0.04
ACGTcount: A:0.34, C:0.09, G:0.07, T:0.51
Consensus pattern (63 bp):
ATTTTTATTTTCAAGGAAAATTGATACTTTTAACTTTTTCTCAAAAATACTTTTTGAAATTTT
Found at i:722041 original size:121 final size:120
Alignment explanation
Indices: 721722--722034 Score: 322
Period size: 121 Copynumber: 2.6 Consensus size: 120
721712 TATTTTGAAG
* * * * * *
721722 TTTTTATTTTTAAGAAAAATTAATACTTTCAACTTTTCTT-TAAAGTA-TTTTGAAATTTTTATT
1 TTTTTA-TTTTAAGGAAAATTGATACTTTTAACTTTTCTTCAAAAATATTTTTGAAAATTTTATT
* * *
721785 TTCAA-AGAAAATTGATACTTTCAATTTTTTCTTAAAAATATATTTTTAAAATTTTTA
65 TT-AAGA-AAAATTGATACTTTCAACTTTTTCTCAAAAATAGATTTTTAAAATTTTTA
*
721842 TTTTTA----AA-GAAAATTGATACTTTTAACTTTTTTTCAAAAATACTTTTTGAGGAAAACTTT
1 TTTTTATTTTAAGGAAAATTGATACTTTTAACTTTTCTTCAAAAATA-TTTTT---GAAAA-TTT
* * *
721902 TATTTCTAAGAAAAATTGATACTTTGAACTTTTTCTCAAAAAT-GCTTTTTGAAATTTTT-
61 TATTT-TAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATAGATTTTTAAAATTTTTA
* *
721961 TTTTTATTTTCAAGGAAAATTGATACTTTTAACTTTTCTTCAAAACTATTTTTTAAAATTTTATT
1 TTTTTATTTT-AAGGAAAATTGATACTTTTAACTTTTCTTCAAAAATATTTTTGAAAATTTTATT
*
722026 TTTAGAAAA
65 TTAAGAAAA
722035 TCATTGAAAA
Statistics
Matches: 161, Mismatches: 17, Indels: 31
0.77 0.08 0.15
Matches are distributed among these distances:
114 22 0.14
115 7 0.04
117 4 0.02
119 13 0.08
120 31 0.19
121 43 0.27
122 2 0.01
124 7 0.04
125 32 0.20
ACGTcount: A:0.36, C:0.08, G:0.06, T:0.50
Consensus pattern (120 bp):
TTTTTATTTTAAGGAAAATTGATACTTTTAACTTTTCTTCAAAAATATTTTTGAAAATTTTATTT
TAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATAGATTTTTAAAATTTTTA
Found at i:722112 original size:4 final size:4
Alignment explanation
Indices: 722105--722135 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
722095 TACACAAGAA
*
722105 AAAT AAAT AAAT AAAT AAAT AGAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
722136 AAAAACTTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:722580 original size:11 final size:11
Alignment explanation
Indices: 722564--722588 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
722554 CAGATTCTGG
722564 AAATTTCCAAA
1 AAATTTCCAAA
722575 AAATTTCCAAA
1 AAATTTCCAAA
722586 AAA
1 AAA
722589 CTTAGAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.60, C:0.16, G:0.00, T:0.24
Consensus pattern (11 bp):
AAATTTCCAAA
Found at i:723255 original size:85 final size:86
Alignment explanation
Indices: 723138--723340 Score: 232
Period size: 85 Copynumber: 2.4 Consensus size: 86
723128 TCTAAAAATG
* * ** * * *
723138 ATGACCTAGATCGAACTGAAGTCTGAAATGAATAGCTT-GAACTAAGCTAAAGATA-GATCTGAT
1 ATGACCTGGATAGAACCAAAGTCTGAAATGAATAACTTGGAA-GAAGCTAAAGA-AGGATCTGAC
723201 ATAAGCCGAAATCC-AAAACAAA
64 ATAAGCCGAAATCCAAAAACAAA
** * * *
723223 ATGATTTGGATTGAACCAAAGTCTGAAGTGAATAACTTGGAAGAAGCTGAAGAAGGATCTGACAT
1 ATGACCTGGATAGAACCAAAGTCTGAAATGAATAACTTGGAAGAAGCTAAAGAAGGATCTGACAT
* *
723288 ACGTCGAAATCCAAAAACAAA
66 AAGCCGAAATCCAAAAACAAA
*
723309 ATGACCTGGATAGAACCAAAGTCTAAAATGAA
1 ATGACCTGGATAGAACCAAAGTCTGAAATGAA
723341 AGTCAAAGAA
Statistics
Matches: 97, Mismatches: 18, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
84 1 0.01
85 58 0.60
86 38 0.39
ACGTcount: A:0.44, C:0.15, G:0.20, T:0.21
Consensus pattern (86 bp):
ATGACCTGGATAGAACCAAAGTCTGAAATGAATAACTTGGAAGAAGCTAAAGAAGGATCTGACAT
AAGCCGAAATCCAAAAACAAA
Found at i:723503 original size:86 final size:86
Alignment explanation
Indices: 723374--723613 Score: 268
Period size: 86 Copynumber: 2.8 Consensus size: 86
723364 GTTAAAATCC
* * * * **
723374 AAAACAAAATGACCTTGACT-GAACCAAAATCTGGAATGAATAATCTGGACTAAATTAAAGAAAG
1 AAAACAAAATGACCTAGA-TAGAACCGAAGTCTGAAATGAATAATCTGGACTAAACCAAAGAAAG
* *
723438 ATCTAGCATAGGCTAAAATCTG
65 ATCTAGCATAGGCCAAAATCTA
* * * * *
723460 AAAATAAAATGACTTAGATAGAACTGAAGTCTGAAATGAATAATCTGGACTAAACCAAAAAAATA
1 AAAACAAAATGACCTAGATAGAACCGAAGTCTGAAATGAATAATCTGGACTAAACCAAAGAAAGA
* * *
723525 TATGGCATAGGCCAAAATTTA
66 TCTAGCATAGGCCAAAATCTA
* * * *
723546 AAAACAAAATGACCTAGATCGAACCGAAGTCT-AAAGTGAATACTTTGGACTAAACCAAAGAAGG
1 AAAACAAAATGACCTAGATAGAACCGAAGTCTGAAA-TGAATAATCTGGACTAAACCAAAGAAAG
723610 ATCT
65 ATCT
723614 GAAAATGACC
Statistics
Matches: 126, Mismatches: 26, Indels: 4
0.81 0.17 0.03
Matches are distributed among these distances:
85 4 0.03
86 122 0.97
ACGTcount: A:0.47, C:0.15, G:0.16, T:0.22
Consensus pattern (86 bp):
AAAACAAAATGACCTAGATAGAACCGAAGTCTGAAATGAATAATCTGGACTAAACCAAAGAAAGA
TCTAGCATAGGCCAAAATCTA
Found at i:724507 original size:48 final size:49
Alignment explanation
Indices: 724454--724548 Score: 149
Period size: 48 Copynumber: 2.0 Consensus size: 49
724444 ATCCTTTCCT
*
724454 AACTCAAA-CTGCTCTTTATGGGTTTTCAATTTGAGC-CTTTCTTTTTGG
1 AACTCAAATC-GCCCTTTATGGGTTTTCAATTTGAGCTCTTTCTTTTTGG
*
724502 AACTCAAATCGCCCTTTATGGGTTTTCAATTTGAGCTCTTTTTTTTT
1 AACTCAAATCGCCCTTTATGGGTTTTCAATTTGAGCTCTTTCTTTTT
724549 TTTTAACTCA
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
48 33 0.77
49 10 0.23
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.47
Consensus pattern (49 bp):
AACTCAAATCGCCCTTTATGGGTTTTCAATTTGAGCTCTTTCTTTTTGG
Found at i:724584 original size:51 final size:51
Alignment explanation
Indices: 724453--724657 Score: 197
Period size: 51 Copynumber: 4.0 Consensus size: 51
724443 TATCCTTTCC
* * * * *
724453 TAACTCAAACTGCTCTTTATGGGTTTTCAATTTGAGC-C--TTTCTTTTTG
1 TAACTCAAACCGCCCTTTACGGGTTTTCAATTTGAGCTCTTTTTTTTTTTT
* * *
724501 GAACTCAAATCGCCCTTTATGGGTTTTCAATTTGAGCTCTTTTTTTTTTTT
1 TAACTCAAACCGCCCTTTACGGGTTTTCAATTTGAGCTCTTTTTTTTTTTT
*
724552 TAACTCAAACCGCCCTTTACAGGATTTT-AATTT-AGGCTCTTTTTTTTTTTTTT
1 TAACTCAAACCGCCCTTTAC-GGGTTTTCAATTTGA-GCTC--TTTTTTTTTTTT
* * * * *
724605 TGAATTCAAACCACCATTTACGGGTTTTCAATTTGAGC-CTTTTCTCTTTTT
1 T-AACTCAAACCGCCCTTTACGGGTTTTCAATTTGAGCTCTTTTTTTTTTTT
724656 TA
1 TA
724658 TTTTTTATTT
Statistics
Matches: 131, Mismatches: 16, Indels: 18
0.79 0.10 0.11
Matches are distributed among these distances:
48 33 0.25
49 1 0.01
50 2 0.02
51 45 0.34
52 6 0.05
53 20 0.15
54 23 0.18
55 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.12, T:0.49
Consensus pattern (51 bp):
TAACTCAAACCGCCCTTTACGGGTTTTCAATTTGAGCTCTTTTTTTTTTTT
Found at i:724676 original size:72 final size:71
Alignment explanation
Indices: 724593--724732 Score: 201
Period size: 72 Copynumber: 2.0 Consensus size: 71
724583 TTAGGCTCTT
* * *
724593 TTTTTTTTTTTTTGAATTCAAACCACCATTTACGGGTTTTCAATTTGAGC-CTTTTCTCTTTTTT
1 TTTTTTATTTTTTGAACTCAAACCACCATTTACGGGTTTTCAATTTGAACTCTTTT-TCTTTTTT
724657 ATTTTTTA
65 -TTTTTTA
* * *
724665 TTTTTTATTTTTTTAACTCAAACTACCCTTTACGGGTTTTCAATTTGAACTCTTTTTCTTTTTTT
1 TTTTTTATTTTTTGAACTCAAACCACCATTTACGGGTTTTCAATTTGAACTCTTTTTCTTTTTTT
724730 TTT
66 TTT
724733 GTTAAAAAAA
Statistics
Matches: 61, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
71 4 0.07
72 52 0.85
73 5 0.08
ACGTcount: A:0.18, C:0.16, G:0.07, T:0.59
Consensus pattern (71 bp):
TTTTTTATTTTTTGAACTCAAACCACCATTTACGGGTTTTCAATTTGAACTCTTTTTCTTTTTTT
TTTTTA
Found at i:724679 original size:8 final size:7
Alignment explanation
Indices: 724651--724677 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
724641 GCCTTTTCTC
724651 TTTTTTA
1 TTTTTTA
724658 TTTTTTA
1 TTTTTTA
724665 TTTTTTA
1 TTTTTTA
724672 TTTTTT
1 TTTTTT
724678 TAACTCAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (7 bp):
TTTTTTA
Found at i:732634 original size:134 final size:134
Alignment explanation
Indices: 732394--732662 Score: 493
Period size: 134 Copynumber: 2.0 Consensus size: 134
732384 CTCTTTGACT
732394 AATGCAGCAATATAGTCTTCTTGCTAATTCAACCATTGTCTTAACCTACTTAAGTAACTATTCAA
1 AATGCAGCAATATAGTCTTCTTGCTAATTCAACCATTGTCTTAACCTACTTAAGTAACTATTCAA
732459 CACGTTATTTTCTGTTTGCACCTAGGTACTTTTTTCCTCCAACTCAGCATATTATTGCTTTAATC
66 CACGTTATTTTCTGTTTGCACCTAGGTACTTTTTTCCTCCAACTCAGCATATTATTGCTTTAATC
732524 ACTC
131 ACTC
* * *
732528 AATGCAGCAATATAGTTTTCTTGCTAATTCAGCCATTGTCTTAACCTATTTAAGTAACTATTCAA
1 AATGCAGCAATATAGTCTTCTTGCTAATTCAACCATTGTCTTAACCTACTTAAGTAACTATTCAA
* *
732593 CATGTTATTTTCTGTTTGCACCTAGGTACTTTTTTCCTCCAACTCAGCATATTCTTGCTTTAATC
66 CACGTTATTTTCTGTTTGCACCTAGGTACTTTTTTCCTCCAACTCAGCATATTATTGCTTTAATC
732658 ACTC
131 ACTC
732662 A
1 A
732663 TTCTCATCAG
Statistics
Matches: 130, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
134 130 1.00
ACGTcount: A:0.26, C:0.23, G:0.10, T:0.41
Consensus pattern (134 bp):
AATGCAGCAATATAGTCTTCTTGCTAATTCAACCATTGTCTTAACCTACTTAAGTAACTATTCAA
CACGTTATTTTCTGTTTGCACCTAGGTACTTTTTTCCTCCAACTCAGCATATTATTGCTTTAATC
ACTC
Found at i:734957 original size:50 final size:50
Alignment explanation
Indices: 734899--735004 Score: 187
Period size: 50 Copynumber: 2.1 Consensus size: 50
734889 AACTTATTAC
* *
734899 TTGA-CATTTACTTAAGGAGTCGCCCCTAATCTTTTTTGTTTAGGTGTGA
1 TTGACCATTTACTTAAGGAGTCGCCCCTAATCATTTTTGTTTAGGTGCGA
734948 TTGACCATTTACTTAAGGAGTCGCCCCTAATCATTTTTGTTTAGGTGCGA
1 TTGACCATTTACTTAAGGAGTCGCCCCTAATCATTTTTGTTTAGGTGCGA
734998 TTGACCA
1 TTGACCA
735005 CCTGATTGAA
Statistics
Matches: 54, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
49 4 0.07
50 50 0.93
ACGTcount: A:0.22, C:0.19, G:0.20, T:0.40
Consensus pattern (50 bp):
TTGACCATTTACTTAAGGAGTCGCCCCTAATCATTTTTGTTTAGGTGCGA
Found at i:735700 original size:59 final size:59
Alignment explanation
Indices: 735486--736151 Score: 603
Period size: 60 Copynumber: 11.3 Consensus size: 59
735476 CCTTAAAACA
* * *
735486 TTTTGAAATTTTTATTTTCAAGAAAAATTGATCCTTTGAACTTTTTCTCAGAAATATTT
1 TTTTGAAATTTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTT
* * * * *
735545 GTTTTTAAAATTTTATTTTCAAGAAAAATTGCTACTTCCAACTTTTTCTCAAATATA-TT
1 -TTTTGAAATTTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTT
* * *
735604 TTTTGAAAATTTTATTGTT-AAGAAAAATTCATACTTTC-ACATTTTCCTCAAAAATATTT
1 TTTTGAAATTTTTATT-TTCAAGAAAAATTGATACTTTCAAC-TTTTTCTCAAAAATATTT
** * *
735663 TTTTGAAATTTTTATTTTTTAGAAAAATTGATGCTTTCAAACTTTTTCTCAAAAA-A-TA
1 TTTTGAAATTTTTATTTTCAAGAAAAATTGATACTTTC-AACTTTTTCTCAAAAATATTT
* * * *
735721 TTTTGCAGTTTTTATTTTTAAGAAAAATTGATACTTTTAACTTTTTCTCAAAACAT-TTT
1 TTTTGAAATTTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTTCTCAAAA-ATATTT
* * * * * *
735780 TTTT--TACTTTTATTTCCAAGAAAAATTGATACTTTTAATTTTTTTTCTCAAAAATATAT
1 TTTTGAAATTTTTATTTTCAAGAAAAATTGATACTTTCAA--CTTTTTCTCAAAAATATTT
* *
735839 TTTT-AAATTTTTATTTTCAAGAAAAATTGATACTTTCAAC-TTTTAT-AAAAATGCTTT
1 TTTTGAAATTTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAAT-ATTT
** * * * * *
735896 TTGAAGGAAACTTTTATTTTCAAGGAAAATTGATACTTTTAATTTTTTTTCTCAAAAATATAT
1 TT--TTGAAATTTTTATTTTCAAGAAAAATTGATACTTTCAA--CTTTTTCTCAAAAATATTT
* * * * *
735959 TTTT-AAAATTTAATTTTC-AGAAAAAATTGATACTTTCAATTTTTTCTTAAAAACT-TAT
1 TTTTGAAATTTTTATTTTCAAG-AAAAATTGATACTTTCAACTTTTTCTCAAAAA-TATTT
* * * * * **
736017 TTTTAAAATTTTTATTTTCAAGAAAAATTGATGCTTTTAACTTTTCCTTAAAAAT-GCT
1 TTTTGAAATTTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTT
** *
736075 TTTTGATTTTTTTTTATTTTCAA-AGAAAATTGATATTTTCAACTTTTTCTCAAAAATA-TT
1 TTTTGA--AATTTTTATTTTCAAGA-AAAATTGATACTTTCAACTTTTTCTCAAAAATATTT
*
736135 TTTT-AAAATTTTATTTT
1 TTTTGAAATTTTTATTTT
736152 TATGAAATCA
Statistics
Matches: 500, Mismatches: 77, Indels: 61
0.78 0.12 0.10
Matches are distributed among these distances:
56 6 0.01
57 64 0.13
58 110 0.22
59 106 0.21
60 197 0.39
61 2 0.00
63 9 0.02
64 6 0.01
ACGTcount: A:0.35, C:0.10, G:0.06, T:0.50
Consensus pattern (59 bp):
TTTTGAAATTTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTT
Found at i:736220 original size:22 final size:21
Alignment explanation
Indices: 736175--736220 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
736165 AAAATTAAAG
*
736175 AATGTTTTAATTAAATAAATA
1 AATGTTTTAATTAAATAAACA
* *
736196 AATGATTTTAATTTAATCAACA
1 AATG-TTTTAATTAAATAAACA
736218 AAT
1 AAT
736221 ACATAAGCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.41
Consensus pattern (21 bp):
AATGTTTTAATTAAATAAACA
Found at i:736257 original size:11 final size:11
Alignment explanation
Indices: 736241--736276 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
736231 AAAAATTAAT
736241 AATAATAAATA
1 AATAATAAATA
736252 AATAATAAATA
1 AATAATAAATA
*
736263 AACAGATAAATA
1 AATA-ATAAATA
736275 AA
1 AA
736277 AAAACTAGGT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 14 0.61
12 9 0.39
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.22
Consensus pattern (11 bp):
AATAATAAATA
Found at i:737025 original size:22 final size:22
Alignment explanation
Indices: 736999--737040 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
736989 TAAAACTCTA
736999 CTTTTATTTATTTAT-TATTTAT
1 CTTTTATTTA-TTATCTATTTAT
737021 CTTTTATTTATTATCTATTT
1 CTTTTATTTATTATCTATTT
737041 TGAAGCTTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.71
Consensus pattern (22 bp):
CTTTTATTTATTATCTATTTAT
Found at i:737923 original size:1 final size:1
Alignment explanation
Indices: 737919--737945 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
737909 TTGAGTCCTC
737919 TTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTT
737946 AAGGATAGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:745351 original size:19 final size:16
Alignment explanation
Indices: 745310--745341 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
745300 AAATACACTT
745310 TCATTTATTCCACAAA
1 TCATTTATTCCACAAA
745326 TCATTTATTCCACAAA
1 TCATTTATTCCACAAA
745342 AGTCCATTTA
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:0.38, C:0.25, G:0.00, T:0.38
Consensus pattern (16 bp):
TCATTTATTCCACAAA
Found at i:747402 original size:37 final size:38
Alignment explanation
Indices: 747342--747416 Score: 125
Period size: 37 Copynumber: 2.0 Consensus size: 38
747332 AGGATTGAAA
747342 ATTTATTATAAAAATTTCTTTTAAATAAAGAAGAAAGAT
1 ATTTATTAT-AAAATTTCTTTTAAATAAAGAAGAAAGAT
*
747381 ATTTATTAT-AAATTTTTTTTAAATAAAGAAGAAAGA
1 ATTTATTATAAAATTTCTTTTAAATAAAGAAGAAAGA
747417 GAAACAACTA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
37 26 0.74
39 9 0.26
ACGTcount: A:0.51, C:0.01, G:0.08, T:0.40
Consensus pattern (38 bp):
ATTTATTATAAAATTTCTTTTAAATAAAGAAGAAAGAT
Found at i:750013 original size:14 final size:14
Alignment explanation
Indices: 749994--750029 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
749984 ATTTGTTTCA
749994 TGAAAAATAACTTT
1 TGAAAAATAACTTT
*
750008 TGAAAAATAATTTT
1 TGAAAAATAACTTT
750022 TGAAAAAT
1 TGAAAAAT
750030 GTTTACATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.53, C:0.03, G:0.08, T:0.36
Consensus pattern (14 bp):
TGAAAAATAACTTT
Found at i:750220 original size:15 final size:15
Alignment explanation
Indices: 750182--750263 Score: 58
Period size: 16 Copynumber: 5.1 Consensus size: 15
750172 ATTATTAAAG
*
750182 AATATTGAAATTATTT
1 AATATTAAAATTA-TT
*
750198 ATTATTAAAATTATT
1 AATATTAAAATTATT
*
750213 AATATTAAAAATAATT
1 AATATT-AAAATTATT
*
750229 ATATTTTAATAATAATATTT
1 A-ATATTAA-AAT--TA-TT
750249 AATATTAAAA-TATT
1 AATATTAAAATTATT
750263 A
1 A
750264 TGCTAATATA
Statistics
Matches: 53, Mismatches: 7, Indels: 14
0.72 0.09 0.19
Matches are distributed among these distances:
14 3 0.06
15 9 0.17
16 22 0.42
17 7 0.13
18 2 0.04
19 7 0.13
20 3 0.06
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (15 bp):
AATATTAAAATTATT
Found at i:750223 original size:16 final size:16
Alignment explanation
Indices: 750189--750279 Score: 58
Period size: 19 Copynumber: 5.2 Consensus size: 16
750179 AAGAATATTG
*
750189 AAATTATTTATTATT-A
1 AAATTA-TTAATATTAA
750205 AAATTATTAATATTAA
1 AAATTATTAATATTAA
* *
750221 AAATAATTATATTTTAA
1 AAATTATTA-ATATTAA
*
750238 TAATAATATTTAATATTAA
1 -AA-ATTA-TTAATATTAA
*
750257 AATATTATGCTAATATAAA
1 AA-ATTAT--TAATATTAA
750276 AAAT
1 AAAT
750280 ACTTAAAATA
Statistics
Matches: 60, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
15 7 0.12
16 15 0.25
17 7 0.12
18 10 0.17
19 18 0.30
20 3 0.05
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (16 bp):
AAATTATTAATATTAA
Found at i:750318 original size:18 final size:18
Alignment explanation
Indices: 750291--750360 Score: 50
Period size: 18 Copynumber: 3.6 Consensus size: 18
750281 CTTAAAATAA
*
750291 ATTATGTATTATTTTTAT
1 ATTATTTATTATTTTTAT
750309 ATTATTTATTAATATATTATAAT
1 ATTATTTATT-AT-T-TT-T-AT
* * **
750332 ATTAGTTATTAATAGTAT
1 ATTATTTATTATTTTTAT
750350 ATTATTTATTA
1 ATTATTTATTA
750361 ATAGTATATT
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
18 21 0.51
19 3 0.07
20 1 0.02
21 3 0.07
22 2 0.05
23 11 0.27
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (18 bp):
ATTATTTATTATTTTTAT
Found at i:750326 original size:23 final size:23
Alignment explanation
Indices: 750307--750414 Score: 86
Period size: 23 Copynumber: 5.0 Consensus size: 23
750297 TATTATTTTT
750307 ATATTATTTATTAATATATTATA
1 ATATTATTTATTAATATATTATA
* *
750330 ATATTAGTTATT-A-ATA--GT-
1 ATATTATTTATTAATATATTATA
*
750348 ATATTATTTATTAATAGTA-TATT
1 ATATTATTTATTAATA-TATTATA
* * *
750371 GTAATATTTATTAAT-TAATATA
1 ATATTATTTATTAATATATTATA
* *
750393 ACAATATTTATTAATATATTAT
1 ATATTATTTATTAATATATTAT
750415 TTATTAATAT
Statistics
Matches: 68, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
18 11 0.16
19 2 0.03
20 1 0.01
21 7 0.10
22 18 0.26
23 29 0.43
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.53
Consensus pattern (23 bp):
ATATTATTTATTAATATATTATA
Found at i:750353 original size:41 final size:41
Alignment explanation
Indices: 750306--750414 Score: 123
Period size: 45 Copynumber: 2.6 Consensus size: 41
750296 GTATTATTTT
750306 TATATTATTTATTAATATATTATAATA-TTAGTT-ATTAATA
1 TATATTATTTATTAATATATTATAATATTTA-TTAATTAATA
*
750346 GTATATTATTTATTAATAGTATATTGTAATATTTATTAATTAATA
1 -TATATTATTTATT-A-A-TATATTATAATATTTATTAATTAATA
* *
750391 TAACAATATTTATTAATATATTAT
1 T-ATATTATTTATTAATATATTAT
750415 TTATTAATAT
Statistics
Matches: 58, Mismatches: 4, Indels: 11
0.79 0.05 0.15
Matches are distributed among these distances:
41 13 0.22
42 8 0.14
43 2 0.03
44 15 0.26
45 20 0.34
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (41 bp):
TATATTATTTATTAATATATTATAATATTTATTAATTAATA
Found at i:750361 original size:18 final size:18
Alignment explanation
Indices: 750330--750370 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
750320 ATATATTATA
750330 ATATTAGTTATTAATAGT
1 ATATTAGTTATTAATAGT
*
750348 ATATTATTTATTAATAGT
1 ATATTAGTTATTAATAGT
750366 ATATT
1 ATATT
750371 GTAATATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (18 bp):
ATATTAGTTATTAATAGT
Found at i:750405 original size:18 final size:17
Alignment explanation
Indices: 750379--750426 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 17
750369 TTGTAATATT
*
750379 TATTAATTAATATAACAA
1 TATTTATTAATATAA-AA
*
750397 TATTTATTAATAT--AT
1 TATTTATTAATATAAAA
750412 TATTTATTAATATAA
1 TATTTATTAATATAA
750427 TATTATTGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 14 0.54
18 12 0.46
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (17 bp):
TATTTATTAATATAAAA
Found at i:750429 original size:18 final size:18
Alignment explanation
Indices: 750372--750433 Score: 67
Period size: 18 Copynumber: 3.6 Consensus size: 18
750362 TAGTATATTG
*
750372 TAATATTTATTAATTAATA
1 TAATA-TTATTTATTAATA
* *
750391 TAACAATATTTATT-A-A
1 TAATATTATTTATTAATA
750407 T-ATATTATTTATTAATA
1 TAATATTATTTATTAATA
750424 TAATATTATT
1 TAATATTATT
750434 GATAAGTAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
15 10 0.29
16 3 0.09
17 3 0.09
18 15 0.43
19 4 0.11
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (18 bp):
TAATATTATTTATTAATA
Found at i:750429 original size:30 final size:29
Alignment explanation
Indices: 750347--750430 Score: 84
Period size: 33 Copynumber: 2.8 Consensus size: 29
750337 TTATTAATAG
750347 TATATTATTTATTAATAGT-ATA-TTGTAA
1 TATATTATTTATTAATA-TAATATTTGTAA
* *
750375 TAT-TTATTAATTAATATAACAATATTTATTAA
1 TATATTATTTATTAATAT---AATATTT-GTAA
750407 TATATTATTTATTAATATAATATT
1 TATATTATTTATTAATATAATATT
750431 ATTGATAAGT
Statistics
Matches: 46, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
26 1 0.02
27 12 0.26
28 3 0.07
30 9 0.20
31 2 0.04
32 6 0.13
33 13 0.28
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.54
Consensus pattern (29 bp):
TATATTATTTATTAATATAATATTTGTAA
Found at i:750499 original size:16 final size:18
Alignment explanation
Indices: 750480--750518 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
750470 GTCCTACTCA
750480 TAAATAGTTT-T-TTTTT
1 TAAATAGTTTCTCTTTTT
*
750496 TAAATATTTTCTCTTTTT
1 TAAATAGTTTCTCTTTTT
750514 TAAAT
1 TAAAT
750519 CTATAAGATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 9 0.45
17 1 0.05
18 10 0.50
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.64
Consensus pattern (18 bp):
TAAATAGTTTCTCTTTTT
Found at i:751202 original size:43 final size:43
Alignment explanation
Indices: 751141--751226 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
751131 ACAAAACTGG
751141 TTACATAATTTTTAGTTTTACAGTCTTTTAGGGTTTTATACCT
1 TTACATAATTTTTAGTTTTACAGTCTTTTAGGGTTTTATACCT
751184 TTACATAATTTTTAGTTTTACAGTCTTTTAGGGTTTTATACCT
1 TTACATAATTTTTAGTTTTACAGTCTTTTAGGGTTTTATACCT
751227 GTTATCATTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.23, C:0.12, G:0.12, T:0.53
Consensus pattern (43 bp):
TTACATAATTTTTAGTTTTACAGTCTTTTAGGGTTTTATACCT
Found at i:762490 original size:3 final size:3
Alignment explanation
Indices: 762482--762519 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
762472 TCGGCACATC
762482 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
762520 TTTTCTTTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:766688 original size:3 final size:3
Alignment explanation
Indices: 766680--766717 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
766670 CGAAGGATAA
766680 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
766718 AAAATAAACT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:767077 original size:19 final size:19
Alignment explanation
Indices: 766998--767092 Score: 63
Period size: 19 Copynumber: 4.9 Consensus size: 19
766988 TATTTTTATT
*
766998 AAAATATTA-ATTTAA-TA
1 AAAATATTATATTAAATTA
767015 AAAATATTAGATTATATATAATT-
1 AAAATATT--A-TAT-TA-AATTA
* **
767038 AAAATATAAT-TTATTTTA
1 AAAATATTATATTAAATTA
767056 AAAATATTATATTAAATTA
1 AAAATATTATATTAAATTA
* *
767075 AAATTATTAAATTAAATT
1 AAAATATTATATTAAATT
767093 TAGATCAAAT
Statistics
Matches: 60, Mismatches: 9, Indels: 16
0.71 0.11 0.19
Matches are distributed among these distances:
17 10 0.17
18 11 0.18
19 24 0.40
20 1 0.02
21 3 0.05
22 1 0.02
23 9 0.15
24 1 0.02
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (19 bp):
AAAATATTATATTAAATTA
Found at i:771232 original size:16 final size:16
Alignment explanation
Indices: 771211--771243 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
771201 CATTTACTAC
771211 TCTTTTCTTTTC-TTTT
1 TCTTTT-TTTTCATTTT
771227 TCTTTTTTTTCATTTT
1 TCTTTTTTTTCATTTT
771243 T
1 T
771244 TGTTTTGAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (16 bp):
TCTTTTTTTTCATTTT
Found at i:772423 original size:32 final size:32
Alignment explanation
Indices: 772382--772446 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
772372 TATTTTTTAC
772382 TTTTTATAAATATTAGTATATAGTTACAAACG
1 TTTTTATAAATATTAGTATATAGTTACAAACG
772414 TTTTTATAAATATTAGTATATAGTTACAAACG
1 TTTTTATAAATATTAGTATATAGTTACAAACG
772446 T
1 T
772447 AAATATGTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.40, C:0.06, G:0.09, T:0.45
Consensus pattern (32 bp):
TTTTTATAAATATTAGTATATAGTTACAAACG
Found at i:773365 original size:15 final size:15
Alignment explanation
Indices: 773345--773383 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
773335 GAATTTATAA
773345 AATTTAAAATATCTT
1 AATTTAAAATATCTT
* * *
773360 ATTTTAAAATTTTTT
1 AATTTAAAATATCTT
773375 AATTTAAAA
1 AATTTAAAA
773384 ATTTGCTGTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (15 bp):
AATTTAAAATATCTT
Found at i:774261 original size:30 final size:30
Alignment explanation
Indices: 774225--774283 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
774215 TAATTTTTAA
*
774225 TTTATTTAAAATTATTAAATATAATTTATG
1 TTTATTTAAAATTATTAAATATAAATTATG
774255 TTTATTTAAAATTATTAAATATAAATTAT
1 TTTATTTAAAATTATTAAATATAAATTAT
774284 ATAAATATCT
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:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (30 bp):
TTTATTTAAAATTATTAAATATAAATTATG
Found at i:774288 original size:15 final size:14
Alignment explanation
Indices: 774233--774291 Score: 55
Period size: 15 Copynumber: 4.0 Consensus size: 14
774223 AATTTATTTA
774233 AAATTATTAAATAT
1 AAATTATTAAATAT
* ** *
774247 AATTTATGTTTATTT
1 AAATTAT-TAAATAT
774262 AAAATTATTAAATAT
1 -AAATTATTAAATAT
774277 AAATTATATAAATAT
1 AAATTAT-TAAATAT
774292 CTCATCAATT
Statistics
Matches: 34, Mismatches: 8, Indels: 5
0.72 0.17 0.11
Matches are distributed among these distances:
14 13 0.38
15 15 0.44
16 6 0.18
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (14 bp):
AAATTATTAAATAT
Found at i:793936 original size:18 final size:17
Alignment explanation
Indices: 793915--793962 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 17
793905 ATACTAAGCT
793915 TAAAAGAAAAAAAATAAA
1 TAAAA-AAAAAAAATAAA
* *
793933 TAAATAAAAAAGAATTAA
1 TAAA-AAAAAAAAATAAA
793951 TGAAAAAAAAAA
1 T-AAAAAAAAAA
793963 GAAAAAGAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
18 21 0.84
19 4 0.16
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (17 bp):
TAAAAAAAAAAAATAAA
Found at i:793960 original size:19 final size:18
Alignment explanation
Indices: 793915--793965 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 18
793905 ATACTAAGCT
793915 TAAAAGAAAAAA-AATAAA
1 TAAAA-AAAAAAGAATAAA
* *
793933 TAAATAAAAAAGAATTAA
1 TAAAAAAAAAAGAATAAA
793951 TGAAAAAAAAAAGAA
1 T-AAAAAAAAAAGAA
793966 AAAGAAGACT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 6 0.21
18 10 0.36
19 12 0.43
ACGTcount: A:0.78, C:0.00, G:0.08, T:0.14
Consensus pattern (18 bp):
TAAAAAAAAAAGAATAAA
Found at i:795179 original size:38 final size:39
Alignment explanation
Indices: 795074--795180 Score: 117
Period size: 38 Copynumber: 2.7 Consensus size: 39
795064 CAAATGTTAT
* ** *
795074 CTTTACTTTTAAAGTCATGTGCCTCTATTATAAATGAGC
1 CTTTATTTTTAAAGTTGTGTGCCTCTATTATAAAGGAGC
* * * * *
795113 ATTCAATTTTTAAATTTGCGTGCTTCTATTA-AAAGGAGC
1 CTT-TATTTTTAAAGTTGTGTGCCTCTATTATAAAGGAGC
795152 CTTTATTTTTAAAGTTGTGTGCCTCTATT
1 CTTTATTTTTAAAGTTGTGTGCCTCTATT
795181 GATGAAGAGT
Statistics
Matches: 53, Mismatches: 14, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
38 22 0.42
39 11 0.21
40 20 0.38
ACGTcount: A:0.26, C:0.15, G:0.14, T:0.45
Consensus pattern (39 bp):
CTTTATTTTTAAAGTTGTGTGCCTCTATTATAAAGGAGC
Found at i:795237 original size:41 final size:42
Alignment explanation
Indices: 795155--795248 Score: 102
Period size: 42 Copynumber: 2.2 Consensus size: 42
795145 AAGGAGCCTT
* * *
795155 TATTTTTAAAGTTGTGTGCCTCTATTGATGAAGAGTGTTTTA
1 TATTTTAAAAGTTGTGAGCCTCTATTGATGAAGAGTCTTTTA
* *
795197 TATTTTAAAAGTTGTTGAGCCTCTTTTGA-GATGAG-CTTTTA
1 TATTTTAAAAGTTG-TGAGCCTCTATTGATGAAGAGTCTTTTA
*
795238 TGTTATTAAAA
1 TATT-TTAAAA
795249 AAGTCAAAGT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
41 8 0.18
42 24 0.55
43 12 0.27
ACGTcount: A:0.27, C:0.07, G:0.19, T:0.47
Consensus pattern (42 bp):
TATTTTAAAAGTTGTGAGCCTCTATTGATGAAGAGTCTTTTA
Found at i:796971 original size:11 final size:11
Alignment explanation
Indices: 796955--796992 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
796945 ATTAGTTGAT
796955 GGGTATTGTGA
1 GGGTATTGTGA
*
796966 GGGTATTAT--
1 GGGTATTGTGA
796975 GGGTATTGTGA
1 GGGTATTGTGA
796986 GGGTATT
1 GGGTATT
796993 ATAACTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
9 8 0.35
11 15 0.65
ACGTcount: A:0.18, C:0.00, G:0.42, T:0.39
Consensus pattern (11 bp):
GGGTATTGTGA
Found at i:796978 original size:20 final size:20
Alignment explanation
Indices: 796953--796994 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
796943 CTATTAGTTG
796953 ATGGGTATTGTGAGGGTATT
1 ATGGGTATTGTGAGGGTATT
796973 ATGGGTATTGTGAGGGTATT
1 ATGGGTATTGTGAGGGTATT
796993 AT
1 AT
796995 AACTTTTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.21, C:0.00, G:0.38, T:0.40
Consensus pattern (20 bp):
ATGGGTATTGTGAGGGTATT
Found at i:798742 original size:13 final size:14
Alignment explanation
Indices: 798719--798745 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
798709 TTTTCCTCAA
798719 AAAATTTTTTTTTG
1 AAAATTTTTTTTTG
798733 AAAATTTTTTTTT
1 AAAATTTTTTTTT
798746 AAGAAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.67
Consensus pattern (14 bp):
AAAATTTTTTTTTG
Found at i:798871 original size:177 final size:176
Alignment explanation
Indices: 798573--798976 Score: 593
Period size: 177 Copynumber: 2.3 Consensus size: 176
798563 TTGTGCAGGG
* *
798573 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTCTTTTGAAAC-TTTAATTTCGAGGAAAATT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATT-TTTTGAAACTTTTAATTTCGAAGAAAATT
* *
798637 GATACTTTCAACTTTTCCTCAAAAATTTATTTTTTTGAAACTTTAATTTCGAGGAAAATTGATAC
65 GATACTTTCAACTTTTCCCCAAAAA-TTATTTTTTTGAAACTTTAATTTCAAGGAAAATTGATAC
*
798702 TTTCAAATTTTCCTCAAAAAATTTTTTTTTGAAAATTTT-TTTTTAAGA
129 TTTCAAATTTTCCTCAAAAAACTTTTTTTTG-AAATTTTATTTTTAAGA
798750 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGGAAACTTTTAATTTCGAAGAAAATT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTT-GAAACTTTTAATTTCGAAGAAAATT
*
798815 GATACTTTCAACTTTTCCCCAAAAA-TA-TTTTTTGAAAACTTTGATTTTCAAGGAAAATTGATA
65 GATACTTTCAACTTTTCCCCAAAAATTATTTTTTTG-AAACTTT-AATTTCAAGGAAAATTGATA
* * * *
798878 CTTTCAACTTTTCTTCAAAAACCTTTTTTTTGAAATTTTATTTTTAAGG
128 CTTTCAAATTTTCCTCAAAAAACTTTTTTTTGAAATTTTATTTTTAAGA
* *
798927 AAAATTGATACTTTCAACTTTTCCTTAAAAACTCTTTTTTTGAAA-TTTTA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAA-T-ATTTTTTGAAACTTTTA
798977 TATATTTTTT
Statistics
Matches: 208, Mismatches: 12, Indels: 14
0.89 0.05 0.06
Matches are distributed among these distances:
175 7 0.03
176 20 0.10
177 128 0.62
178 47 0.23
179 6 0.03
ACGTcount: A:0.35, C:0.13, G:0.07, T:0.45
Consensus pattern (176 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAACTTTTAATTTCGAAGAAAATTG
ATACTTTCAACTTTTCCCCAAAAATTATTTTTTTGAAACTTTAATTTCAAGGAAAATTGATACTT
TCAAATTTTCCTCAAAAAACTTTTTTTTGAAATTTTATTTTTAAGA
Found at i:798976 original size:59 final size:58
Alignment explanation
Indices: 798571--798977 Score: 507
Period size: 59 Copynumber: 6.9 Consensus size: 58
798561 TTTTGTGCAG
* * * * *
798571 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTCTTTTGAAACTTTAATTTCGA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAATTTTATTTTCAA
* * *
798629 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATTTATTTTTTTGAAACTTTAATTTCGA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAA--TATTTTTTTGAAATTTTATTTTCAA
* * *
798689 GGAAAATTGATACTTTCAAATTTTCCTCAAAAAATTTTTTTTTGAAAATTTT-TTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTC-AAAAATATTTTTTTG-AAATTTTATTTTCAA
* * *
798748 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGGAAACTTTTAATTTCGAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAA-TTTTATTTTC-AA
* *
798808 -GAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTGAAAACTTTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTG-AAA-TTTTATTTTCAA
* *
798866 GGAAAATTGATACTTTCAACTTTTCTTCAAAAACCT-TTTTTTTGAAATTTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAA--TATTTTTTTGAAATTTTATTTTCAA
* *
798925 GGAAAATTGATACTTTCAACTTTTCCTTAAAAACTCTTTTTTTGAAATTTTAT
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAA-TATTTTTTTGAAATTTTAT
798978 ATATTTTTTG
Statistics
Matches: 311, Mismatches: 25, Indels: 25
0.86 0.07 0.07
Matches are distributed among these distances:
57 3 0.01
58 59 0.19
59 174 0.56
60 62 0.20
61 13 0.04
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.45
Consensus pattern (58 bp):
GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAATTTTATTTTCAA
Found at i:799006 original size:5 final size:5
Alignment explanation
Indices: 798998--799077 Score: 51
Period size: 5 Copynumber: 15.6 Consensus size: 5
798988 GATTTTATTT
* *
798998 AAATA AAAT- -AATA AAACA AAATA AAAGTGA AAAT- AAATA AAA-A AGAGTA
1 AAATA AAATA AAATA AAATA AAATA AAA-T-A AAATA AAATA AAATA A-AATA
*
799047 AAACAA AAATAA AAATA AAATA AAGATA AAA
1 AAA-TA AAAT-A AAATA AAATA AA-ATA AAA
799078 GAATATTAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 20
0.69 0.07 0.24
Matches are distributed among these distances:
3 3 0.05
4 6 0.10
5 28 0.47
6 18 0.31
7 4 0.07
ACGTcount: A:0.76, C:0.03, G:0.06, T:0.15
Consensus pattern (5 bp):
AAATA
Found at i:799053 original size:36 final size:35
Alignment explanation
Indices: 798997--799079 Score: 98
Period size: 36 Copynumber: 2.4 Consensus size: 35
798987 GGATTTTATT
* *
798997 TAAATAAAATA-ATAAAAC-AAAATAAAAGTGAAAA
1 TAAATAAAAAAGATAAAACAAAAATAAAAAT-AAAA
799031 TAAATAAAAAAGAGTAAAACAAAAATAAAAATAAAA
1 TAAATAAAAAAGA-TAAAACAAAAATAAAAATAAAA
* *
799067 TAAAGATAAAAGA
1 TAAATAAAAAAGA
799080 ATATTAAATA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
34 10 0.24
35 1 0.02
36 21 0.50
37 10 0.24
ACGTcount: A:0.75, C:0.02, G:0.07, T:0.16
Consensus pattern (35 bp):
TAAATAAAAAAGATAAAACAAAAATAAAAATAAAA
Found at i:799075 original size:11 final size:11
Alignment explanation
Indices: 798998--799077 Score: 54
Period size: 11 Copynumber: 6.7 Consensus size: 11
798988 GATTTTATTT
798998 AAATAAAATAATA
1 AAATAAAAT-A-A
*
799011 AAACAAAATAA
1 AAATAAAATAA
*
799022 AAGTGAAAATAA
1 AAAT-AAAATAA
*
799034 ATAAAAAAGAGTAA
1 A-AATAAA-A-TAA
799048 AACA-AAAATAA
1 AA-ATAAAATAA
799059 AAATAAAATAA
1 AAATAAAATAA
*
799070 AGATAAAA
1 AAATAAAA
799078 GAATATTAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
10 1 0.02
11 22 0.40
12 13 0.24
13 14 0.25
14 5 0.09
ACGTcount: A:0.76, C:0.03, G:0.06, T:0.15
Consensus pattern (11 bp):
AAATAAAATAA
Done.