Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr2
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: 43198478
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2088848 characters in sequence are not A, C, G, or T
File 49 of 131
Found at i:16204667 original size:21 final size:21
Alignment explanation
Indices: 16204643--16204711 Score: 120
Period size: 21 Copynumber: 3.3 Consensus size: 21
16204633 TCTTCCCTTT
* *
16204643 CTTCTTCCCTTTCCCACGGTG
1 CTTCTTCCCTTTTCCATGGTG
16204664 CTTCTTCCCTTTTCCATGGTG
1 CTTCTTCCCTTTTCCATGGTG
16204685 CTTCTTCCCTTTTCCATGGTG
1 CTTCTTCCCTTTTCCATGGTG
16204706 CTTCTT
1 CTTCTT
16204712 TTTCTTGTGT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 46 1.00
ACGTcount: A:0.04, C:0.36, G:0.13, T:0.46
Consensus pattern (21 bp):
CTTCTTCCCTTTTCCATGGTG
Found at i:16204836 original size:51 final size:51
Alignment explanation
Indices: 16204760--16205138 Score: 499
Period size: 51 Copynumber: 7.4 Consensus size: 51
16204750 TGTGTGCGGC
* *
16204760 TTTACTAGCGGAAAGATTTGGGGAGATAGGGATCACCCCATTATATTCAGG
1 TTTACTAGCGGAAAGATCTGGGGAGATAGGGATCACCCCATTATTTTCAGG
16204811 TTTACTAGCGGAAAGATCTGGGGAGATAGGGATCACCCCATTATTTTCAGG
1 TTTACTAGCGGAAAGATCTGGGGAGATAGGGATCACCCCATTATTTTCAGG
* *
16204862 TTTACTAGCGGAAAGATCTGGGGAGACAGGCATCACCCCATTATTTTCAGG
1 TTTACTAGCGGAAAGATCTGGGGAGATAGGGATCACCCCATTATTTTCAGG
* *
16204913 TTTACTAGCGGAAAGATCTGGAGAGATAGGCATCACCCCATTATTTTCAGG
1 TTTACTAGCGGAAAGATCTGGGGAGATAGGGATCACCCCATTATTTTCAGG
* * * *
16204964 TTTACTAGCGGAAAGATCTGGGGAGATAGGGATCAACCCACTGTTTTCGGG
1 TTTACTAGCGGAAAGATCTGGGGAGATAGGGATCACCCCATTATTTTCAGG
* * * * * * *
16205015 TTTACTAGCGGGAACATCTGGGGAGGTAGGGATGAACCCATTGTTTTCGGG
1 TTTACTAGCGGAAAGATCTGGGGAGATAGGGATCACCCCATTATTTTCAGG
* * * * * * *
16205066 TTTACTAGCGGGAACATCTGGGGACG-TAGGGATCAACCCTTTGTCTTCAGC
1 TTTACTAGCGGAAAGATCTGGGGA-GATAGGGATCACCCCATTATTTTCAGG
* **
16205117 TTTACCAATGGAAAGATCTGGG
1 TTTACTAGCGGAAAGATCTGGG
16205139 ATGTAAGGGA
Statistics
Matches: 300, Mismatches: 27, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
51 299 1.00
52 1 0.00
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.27
Consensus pattern (51 bp):
TTTACTAGCGGAAAGATCTGGGGAGATAGGGATCACCCCATTATTTTCAGG
Found at i:16206409 original size:90 final size:90
Alignment explanation
Indices: 16206268--16206635 Score: 574
Period size: 90 Copynumber: 4.1 Consensus size: 90
16206258 TTGGAGCATC
* * * * * * *
16206268 CGGCGGCGGTTCCAATCCTTGTTCCGTTCTAAAAATGATGTCCAATCGGAATGGCCGACAACCGG
1 CGGCGACGATTCCATTCCTTGTTTCGTTCTAAAAAAGAAGTCCAATCAGAATGGCCGACAACCGG
16206333 AAGTCCATCTTCGTCTTGGAGAAGA
66 AAGTCCATCTTCGTCTTGGAGAAGA
* * * * * *
16206358 CGGCGACGATTCCATTCCTTGTTTCGTTCTAAAAAGGATGTCCAGTCGGAATGGCCAATAACCGG
1 CGGCGACGATTCCATTCCTTGTTTCGTTCTAAAAAAGAAGTCCAATCAGAATGGCCGACAACCGG
16206423 AAGTCCATCTTCGTCTTGGAGAAGA
66 AAGTCCATCTTCGTCTTGGAGAAGA
16206448 CGGCGACGATTCCATTCCTTGTTTCGTTCTAAAAAAGAAGTCCAATCAGAATGGCCGACAACCGG
1 CGGCGACGATTCCATTCCTTGTTTCGTTCTAAAAAAGAAGTCCAATCAGAATGGCCGACAACCGG
**
16206513 AAGTTGATCTTCGTCTTGGAGAAGA
66 AAGTCCATCTTCGTCTTGGAGAAGA
16206538 CGGCGACGATTCCATTCCTTGTTTCGTTCTAAAAAAGAAGTCCAATCAGAATGGCCGACAACCGG
1 CGGCGACGATTCCATTCCTTGTTTCGTTCTAAAAAAGAAGTCCAATCAGAATGGCCGACAACCGG
** *
16206603 AAGTTGATCTTCATCTTGGAGAAGA
66 AAGTCCATCTTCGTCTTGGAGAAGA
16206628 CGGCGACG
1 CGGCGACG
16206636 TTCAAACAGT
Statistics
Matches: 261, Mismatches: 17, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
90 261 1.00
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.25
Consensus pattern (90 bp):
CGGCGACGATTCCATTCCTTGTTTCGTTCTAAAAAAGAAGTCCAATCAGAATGGCCGACAACCGG
AAGTCCATCTTCGTCTTGGAGAAGA
Found at i:16215055 original size:2 final size:2
Alignment explanation
Indices: 16215048--16215079 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
16215038 TTAAAGTGAA
16215048 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
16215080 GTCATTGTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16215675 original size:25 final size:26
Alignment explanation
Indices: 16215647--16215708 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 26
16215637 TAAATTTTTA
16215647 AATATAATTTA-TTTATAATATTATG
1 AATATAATTTACTTTATAATATTATG
* *
16215672 AATATAATTTACTTTTTAATATTTTG
1 AATATAATTTACTTTATAATATTATG
* *
16215698 TATAAAATTTA
1 AATATAATTTA
16215709 ACATTTTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
25 11 0.34
26 21 0.66
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (26 bp):
AATATAATTTACTTTATAATATTATG
Found at i:16215706 original size:26 final size:26
Alignment explanation
Indices: 16215647--16215718 Score: 74
Period size: 26 Copynumber: 2.7 Consensus size: 26
16215637 TAAATTTTTA
* *
16215647 AATATAATTTA-TTTATAATATTATG
1 AATAAAATTTACTTTTTAATATTATG
* *
16215672 AATATAATTTACTTTTTAATATTTTG
1 AATAAAATTTACTTTTTAATATTATG
*
16215698 TATAAAATTTAACATTTTTAA
1 AATAAAATTT-AC-TTTTTAA
16215719 AGAAAATTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
25 11 0.28
26 20 0.50
27 2 0.05
28 7 0.17
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (26 bp):
AATAAAATTTACTTTTTAATATTATG
Found at i:16216435 original size:22 final size:21
Alignment explanation
Indices: 16216403--16216451 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
16216393 AGTTTAAATA
*
16216403 TTTATAAAATTTTAA-GTTTAT
1 TTTATAAAA-TTAAATGTTTAT
*
16216424 GTTTATATAATTAAATGTTTAT
1 -TTTATAAAATTAAATGTTTAT
16216446 TTTATA
1 TTTATA
16216452 CATAAAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 10 0.42
22 14 0.58
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (21 bp):
TTTATAAAATTAAATGTTTAT
Found at i:16216777 original size:19 final size:18
Alignment explanation
Indices: 16216718--16216779 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 18
16216708 TAAACCAAAA
*
16216718 TTTTT-AAAATTTTTATT
1 TTTTTAAAAATTTTTAAT
*
16216735 TTTTTAAAAAACTATTATATAT
1 TTTTT-AAAAA-T-TTTTA-AT
16216757 TTTTTAAAATATTTTTAAT
1 TTTTTAAAA-ATTTTTAAT
16216776 TTTT
1 TTTT
16216780 CCAGAATTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
17 5 0.14
19 10 0.28
20 5 0.14
21 9 0.25
22 7 0.19
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTTTAAAAATTTTTAAT
Found at i:16220806 original size:117 final size:117
Alignment explanation
Indices: 16220592--16220815 Score: 274
Period size: 117 Copynumber: 1.9 Consensus size: 117
16220582 ATTCTGTTTG
* ** *
16220592 ACCTGAAGGACGAGTAAAATCCCGGAAAGCCGAAGCATATCTAGCGGAGACATTCCCTTTCACTG
1 ACCTAAAGGACGAAAAAAATCCCGGAAAGCCGAAGCATATCTAGCAGAGACATTCCCTTTCACTG
* *
16220657 CCTGTTGATCCAAATTCCTCCCTAGATGTCCAACATTCTCAGTAGATTGTTC
66 CCTGTTGATCAAAATTCCTCCCGAGATGTCCAACATTCTCAGTAGATTGTTC
* * * * * *
16220709 ACCTAAAGGACGAAAAAAATTCTGGAAAGTCGAAGCATATGTAGCAGAGACATTATCC-TTCATT
1 ACCTAAAGGACGAAAAAAATCCCGGAAAGCCGAAGCATATCTAGCAGAGACATT-CCCTTTCACT
* *
16220773 GTCTGTTGATCAAAATTCTTCTCCG-GA-GTTCCAACATTCTCAG
65 GCCTGTTGATCAAAATTCCTC-CCGAGATG-TCCAACATTCTCAG
16220816 AAGAATGTGC
Statistics
Matches: 90, Mismatches: 14, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
116 1 0.01
117 85 0.94
118 4 0.04
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (117 bp):
ACCTAAAGGACGAAAAAAATCCCGGAAAGCCGAAGCATATCTAGCAGAGACATTCCCTTTCACTG
CCTGTTGATCAAAATTCCTCCCGAGATGTCCAACATTCTCAGTAGATTGTTC
Found at i:16222097 original size:31 final size:33
Alignment explanation
Indices: 16222062--16222124 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
16222052 TAATATATGA
*
16222062 TTATATA-ATGTAA-ATATTAAAAAATATTAAT
1 TTATATATATGTAATAAATTAAAAAATATTAAT
* *
16222093 TTATATATATTTAATAAATTAAAATATATTAA
1 TTATATATATGTAATAAATTAAAAAATATTAA
16222125 ATTAAAAGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 7 0.26
32 5 0.19
33 15 0.56
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (33 bp):
TTATATATATGTAATAAATTAAAAAATATTAAT
Found at i:16226682 original size:4 final size:4
Alignment explanation
Indices: 16226673--16226703 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
16226663 AATATAATAT
16226673 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATA
1 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATA
16226704 TTTTAAGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.23, T:0.26
Consensus pattern (4 bp):
ATAG
Found at i:16227655 original size:27 final size:29
Alignment explanation
Indices: 16227607--16227676 Score: 72
Period size: 29 Copynumber: 2.4 Consensus size: 29
16227597 ATATCATAAG
16227607 TCTCTATACTTTTTTAAATTTAA-AATTAA
1 TCTCTATAC-TTTTTAAATTTAAGAATTAA
**
16227636 TCTCTATA-TTTTTATTTTTAAGAATTTAA
1 TCTCTATACTTTTTAAATTTAAGAA-TTAA
* *
16227665 TATATATACTTT
1 TCTCTATACTTT
16227677 CCAGATAACA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
27 11 0.32
28 2 0.06
29 18 0.53
30 3 0.09
ACGTcount: A:0.34, C:0.09, G:0.01, T:0.56
Consensus pattern (29 bp):
TCTCTATACTTTTTAAATTTAAGAATTAA
Found at i:16228336 original size:30 final size:29
Alignment explanation
Indices: 16228302--16228365 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
16228292 GTGACCACTT
*
16228302 CGTAACAGAACAATACGTAAGTGACTAAAA
1 CGTAACAGAACAA-ACATAAGTGACTAAAA
***
16228332 CGTAACATTTCAAACATAAGTGACTAAAA
1 CGTAACAGAACAAACATAAGTGACTAAAA
*
16228361 TGTAA
1 CGTAA
16228366 TCTGAAACAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 19 0.66
30 10 0.34
ACGTcount: A:0.48, C:0.16, G:0.14, T:0.22
Consensus pattern (29 bp):
CGTAACAGAACAAACATAAGTGACTAAAA
Found at i:16231330 original size:30 final size:29
Alignment explanation
Indices: 16231297--16231352 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
16231287 AAAGGCCATT
16231297 TTTTTTCAA-AATTTACCGAAATGGGCCGG
1 TTTTTT-AATAATTTACCGAAATGGGCCGG
* *
16231326 TTTTTTAATTATTTACCGGAATGGGCC
1 TTTTTTAATAATTTACCGAAATGGGCC
16231353 ATTTTCCGCG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 2 0.08
29 22 0.92
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.39
Consensus pattern (29 bp):
TTTTTTAATAATTTACCGAAATGGGCCGG
Found at i:16232087 original size:29 final size:29
Alignment explanation
Indices: 16232046--16232101 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
16232036 CGCGGAAAAT
16232046 GGCCAATTCCGGTAAATAATT-AAAAAACC
1 GGCCAATTCCGGTAAAT-ATTGAAAAAACC
* *
16232075 GGCCCATTTCGGTAAATATTGAAAAAA
1 GGCCAATTCCGGTAAATATTGAAAAAA
16232102 AGGAGCTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 3 0.12
29 21 0.88
ACGTcount: A:0.43, C:0.18, G:0.16, T:0.23
Consensus pattern (29 bp):
GGCCAATTCCGGTAAATATTGAAAAAACC
Found at i:16245158 original size:26 final size:25
Alignment explanation
Indices: 16245127--16245175 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
16245117 CCCATTTTTT
*
16245127 AATAAACACCAAAAAATAATTTTAAA
1 AATAAA-AACAAAAAATAATTTTAAA
* *
16245153 AATAAAAATAAAAAATATTTTTA
1 AATAAAAACAAAAAATAATTTTA
16245176 TTAAATTTGG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 14 0.70
26 6 0.30
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (25 bp):
AATAAAAACAAAAAATAATTTTAAA
Found at i:16249747 original size:25 final size:26
Alignment explanation
Indices: 16249708--16249757 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 26
16249698 TGGTGGGAAT
16249708 TTTTATTCTATTTAATATGAATATAG
1 TTTTATTCTATTTAATATGAATATAG
*
16249734 TTTTATT-TATTTAATATTAATATA
1 TTTTATTCTATTTAATATGAATATA
16249758 AATATTAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (26 bp):
TTTTATTCTATTTAATATGAATATAG
Found at i:16249802 original size:23 final size:24
Alignment explanation
Indices: 16249776--16249831 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 24
16249766 TAGAAAATTT
16249776 AAATTTA-TTGT-TATATTTTTTGAA
1 AAATTTATTTGTATATA-TTTTT-AA
16249800 AATATTTATTTGTATATATTTTT-A
1 AA-ATTTATTTGTATATATTTTTAA
16249824 AAATTTAT
1 AAATTTAT
16249832 ATATTATTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
23 6 0.21
24 5 0.17
25 5 0.17
26 9 0.31
27 4 0.14
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (24 bp):
AAATTTATTTGTATATATTTTTAA
Found at i:16249821 original size:26 final size:24
Alignment explanation
Indices: 16249778--16249827 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 24
16249768 GAAAATTTAA
16249778 ATTTATTGTTATATTTTTTGAAAAT
1 ATTTATTGTTATATTTTTT-AAAAT
16249803 ATTTATT-TGTATATATTTTTAAAAT
1 ATTTATTGT-TATAT-TTTTTAAAAT
16249828 TTATATATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 1 0.04
25 17 0.74
26 5 0.22
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (24 bp):
ATTTATTGTTATATTTTTTAAAAT
Found at i:16249879 original size:36 final size:35
Alignment explanation
Indices: 16249815--16249884 Score: 90
Period size: 36 Copynumber: 2.0 Consensus size: 35
16249805 TTATTTGTAT
16249815 ATATTTTTAAAATTTATATATTATTTTTTGTAAAAA
1 ATATTTTTAAAATTTATATATTATTTTTTG-AAAAA
*
16249851 ATATTTTT-AAATTTAT-TTTTATAATTTTTGAAAA
1 ATATTTTTAAAATTTATATATTAT--TTTTTGAAAA
16249885 TANNNNNNNN
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
34 5 0.16
35 12 0.39
36 14 0.45
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (35 bp):
ATATTTTTAAAATTTATATATTATTTTTTGAAAAA
Found at i:16262547 original size:18 final size:19
Alignment explanation
Indices: 16262507--16262547 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
16262497 TAAAAAAAAG
*
16262507 AGAAATAAGAAAATTGTTG
1 AGAAATAAGAAAATTGTTA
16262526 AGAAA-AAGAAAATAT-TTA
1 AGAAATAAGAAAAT-TGTTA
16262544 AGAA
1 AGAA
16262548 TAAATTTAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.61, C:0.00, G:0.17, T:0.22
Consensus pattern (19 bp):
AGAAATAAGAAAATTGTTA
Found at i:16263321 original size:15 final size:15
Alignment explanation
Indices: 16263301--16263331 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
16263291 AAAGTATATA
16263301 GGGCCGAATTTATTT
1 GGGCCGAATTTATTT
16263316 GGGCCGAATTTATTT
1 GGGCCGAATTTATTT
16263331 G
1 G
16263332 AAGTTTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.13, G:0.29, T:0.39
Consensus pattern (15 bp):
GGGCCGAATTTATTT
Found at i:16266507 original size:2 final size:2
Alignment explanation
Indices: 16266500--16266529 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
16266490 AGACTTGAGT
16266500 TC 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
16266530 AGTTGTATGG
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):
TC
Found at i:16270394 original size:16 final size:16
Alignment explanation
Indices: 16270357--16270398 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
16270347 TTAATCATTT
*
16270357 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
16270373 TT-AAATATATTATAA
1 TTAAAATATATTATAA
16270388 TTAAAATATAT
1 TTAAAATATAT
16270399 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:16270405 original size:14 final size:15
Alignment explanation
Indices: 16270366--16270407 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
16270356 TTTAAACATA
*
16270366 ATTATTATTAAATAT
1 ATTATAATTAAATAT
16270381 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
16270395 A-TATAATTTAATA
1 ATTATAATTAAATA
16270408 AAATTCNNNN
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:16311184 original size:21 final size:20
Alignment explanation
Indices: 16311141--16311184 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
16311131 TCTAAAAAAT
*
16311141 TAAAATCTAAATGAAAATCC
1 TAAAATCTAAATGAAAATAC
* *
16311161 TAAAATTTAAGATGAAATTAC
1 TAAAATCTAA-ATGAAAATAC
16311182 TAA
1 TAA
16311185 TCAACAGATC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.55, C:0.09, G:0.07, T:0.30
Consensus pattern (20 bp):
TAAAATCTAAATGAAAATAC
Found at i:16315789 original size:18 final size:18
Alignment explanation
Indices: 16315768--16315802 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
16315758 CGAAAATGAT
16315768 AAAAATACTTA-AAATTAC
1 AAAAATA-TTATAAATTAC
16315786 AAAAATATTATAAATTA
1 AAAAATATTATAAATTA
16315803 GTGCAATAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (18 bp):
AAAAATATTATAAATTAC
Found at i:16317516 original size:17 final size:18
Alignment explanation
Indices: 16317494--16317530 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
16317484 ATGAAGTGTA
16317494 AAGTATATATATC-ATAT
1 AAGTATATATATCTATAT
*
16317511 AAGTATTTATATCTATAT
1 AAGTATATATATCTATAT
16317529 AA
1 AA
16317531 AATAAAAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.43
Consensus pattern (18 bp):
AAGTATATATATCTATAT
Found at i:16317675 original size:3 final size:3
Alignment explanation
Indices: 16317619--16317655 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
16317609 CAAGACATAG
* *
16317619 ATA ATG ATA ATA ATA ATA ATA ATC ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
16317656 CTTATTAGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:16318447 original size:5 final size:5
Alignment explanation
Indices: 16318439--16318470 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
16318429 TTGTAAAGTA
16318439 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AA
16318471 CAAGAAACGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:16322940 original size:24 final size:21
Alignment explanation
Indices: 16322891--16322945 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 21
16322881 TGACACCCTG
* *
16322891 TTTTATTTCATGTTAGATTAA
1 TTTTATTTGATGTTAAATTAA
16322912 TTTTATTTGATGTATAAATTATGA
1 TTTTATTTGATGT-TAAATTA--A
16322936 TTTTATTTGA
1 TTTTATTTGA
16322946 ATAAGCAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 12 0.41
22 6 0.21
24 11 0.38
ACGTcount: A:0.29, C:0.02, G:0.11, T:0.58
Consensus pattern (21 bp):
TTTTATTTGATGTTAAATTAA
Found at i:16323682 original size:13 final size:13
Alignment explanation
Indices: 16323656--16323709 Score: 56
Period size: 13 Copynumber: 4.1 Consensus size: 13
16323646 TGTTATATTT
16323656 ATTTAAAATATGAA
1 ATTTAAAAT-TGAA
16323670 ATTTAAAATTGAA
1 ATTTAAAATTGAA
* *
16323683 ATTTTATATT-AA
1 ATTTAAAATTGAA
*
16323695 TATTTAAATTTGAA
1 -ATTTAAAATTGAA
16323709 A
1 A
16323710 ATAAATATAT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
12 2 0.06
13 20 0.61
14 11 0.33
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (13 bp):
ATTTAAAATTGAA
Found at i:16335546 original size:14 final size:15
Alignment explanation
Indices: 16335527--16335560 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
16335517 ATTTATCAAT
*
16335527 TTAATTAATCTT-AA
1 TTAATTAATATTAAA
16335541 TTAATTAATATTAAA
1 TTAATTAATATTAAA
16335556 TTAAT
1 TTAAT
16335561 GATCAAAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (15 bp):
TTAATTAATATTAAA
Found at i:16339381 original size:17 final size:17
Alignment explanation
Indices: 16339359--16339402 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
16339349 TTGAAGCGGA
16339359 TTTTTTTAATTTTTAAT
1 TTTTTTTAATTTTTAAT
* *
16339376 TTTTTTTAAATTTTGAT
1 TTTTTTTAATTTTTAAT
*
16339393 ATTTTTTAAT
1 TTTTTTTAAT
16339403 CAGATTGGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (17 bp):
TTTTTTTAATTTTTAAT
Found at i:16341732 original size:32 final size:32
Alignment explanation
Indices: 16341689--16341824 Score: 97
Period size: 32 Copynumber: 4.4 Consensus size: 32
16341679 TATAAACTTA
16341689 TTTTTAGATTTTATTAAATTAAATATTAAATT
1 TTTTTAGATTTTATTAAATTAAATATTAAATT
* * * * *
16341721 TTTTT--ATATT-TTGAA-TAGATGTTAGA-T
1 TTTTTAGATTTTATTAAATTAAATATTAAATT
* * ** *
16341748 TTTTTACAATTATATTCTATT-ATTA-TAAACTT
1 TTTTTA-GATTTTATTAAATTAAATATTAAA-TT
16341780 ATTTTTAGATTTTATTAAATTAAATATTAAATT
1 -TTTTTAGATTTTATTAAATTAAATATTAAATT
*
16341813 TTTTTATATTTT
1 TTTTTAGATTTT
16341825 GAATAGAAAA
Statistics
Matches: 75, Mismatches: 19, Indels: 20
0.66 0.17 0.18
Matches are distributed among these distances:
27 6 0.08
28 8 0.11
29 4 0.05
30 10 0.13
31 4 0.05
32 28 0.37
33 11 0.15
34 4 0.05
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.58
Consensus pattern (32 bp):
TTTTTAGATTTTATTAAATTAAATATTAAATT
Found at i:16341767 original size:92 final size:93
Alignment explanation
Indices: 16341647--16341831 Score: 363
Period size: 92 Copynumber: 2.0 Consensus size: 93
16341637 TGCATACCAT
16341647 TGTTAGATTTTTTTACAATTATATTCTATTATTATAAACTTATTTTTAGATTTTATTAAATTAAA
1 TGTTAGATTTTTTTACAATTATATTCTATTATTATAAACTTATTTTTAGATTTTATTAAATTAAA
16341712 TATTAAATTTTTTTATATTTTGAATAGA
66 TATTAAATTTTTTTATATTTTGAATAGA
16341740 TGTTAGA-TTTTTTACAATTATATTCTATTATTATAAACTTATTTTTAGATTTTATTAAATTAAA
1 TGTTAGATTTTTTTACAATTATATTCTATTATTATAAACTTATTTTTAGATTTTATTAAATTAAA
16341804 TATTAAATTTTTTTATATTTTGAATAGA
66 TATTAAATTTTTTTATATTTTGAATAGA
16341832 AAAGGGATAG
Statistics
Matches: 92, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
92 85 0.92
93 7 0.08
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.56
Consensus pattern (93 bp):
TGTTAGATTTTTTTACAATTATATTCTATTATTATAAACTTATTTTTAGATTTTATTAAATTAAA
TATTAAATTTTTTTATATTTTGAATAGA
Found at i:16342569 original size:25 final size:24
Alignment explanation
Indices: 16342518--16342569 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 24
16342508 CACAACTTAA
* *
16342518 AAATTAATTTAAAATTATTTATTT
1 AAATTAATTTAAAATTATTAATAT
16342542 AAATTCAATTTATAAA-TATTAATAT
1 AAATT-AATTTA-AAATTATTAATAT
16342567 AAA
1 AAA
16342570 CTATTTTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 5 0.21
25 16 0.67
26 3 0.12
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (24 bp):
AAATTAATTTAAAATTATTAATAT
Found at i:16354588 original size:5 final size:5
Alignment explanation
Indices: 16354578--16354605 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
16354568 GAGGTAGTCC
16354578 TATTT TATTT TATTT TATTT TATTT TAT
1 TATTT TATTT TATTT TATTT TATTT TAT
16354606 ATGTCACACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TATTT
Found at i:16357716 original size:43 final size:44
Alignment explanation
Indices: 16357620--16357741 Score: 153
Period size: 43 Copynumber: 2.8 Consensus size: 44
16357610 CTTGTACAAT
** * *
16357620 GCCAACGTCCCAGACGTGGTCTTACATGTGATCAC-AGATCGAT
1 GCCAACGTCCCAGACGTGGTCTTACATGAAAACACAAGATCGAA
*
16357663 GCC-ACTGTCCCAGACAG-GGTCTTACACGAAAACACAAG-TCGAA
1 GCCAAC-GTCCCAGAC-GTGGTCTTACATGAAAACACAAGATCGAA
16357706 GCCAACGTCCCAGACGTGGTCTTACATGAAAACACA
1 GCCAACGTCCCAGACGTGGTCTTACATGAAAACACA
16357742 TATCGGAAAT
Statistics
Matches: 68, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
42 3 0.04
43 60 0.88
44 5 0.07
ACGTcount: A:0.31, C:0.30, G:0.21, T:0.18
Consensus pattern (44 bp):
GCCAACGTCCCAGACGTGGTCTTACATGAAAACACAAGATCGAA
Found at i:16359400 original size:10 final size:10
Alignment explanation
Indices: 16359369--16359402 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
16359359 TTGAAGGAAG
16359369 AAAAAAGAGA
1 AAAAAAGAGA
16359379 AAACAAAG-GA
1 AAA-AAAGAGA
16359389 AAAAAAGAGA
1 AAAAAAGAGA
16359399 AAAA
1 AAAA
16359403 GGAAGAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 4 0.18
10 14 0.64
11 4 0.18
ACGTcount: A:0.79, C:0.03, G:0.18, T:0.00
Consensus pattern (10 bp):
AAAAAAGAGA
Found at i:16361452 original size:5 final size:6
Alignment explanation
Indices: 16361437--16361462 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
16361427 ACAAAATTAC
16361437 AAAAAT AAAAAT AAAAAT AAAAAT AA
1 AAAAAT AAAAAT AAAAAT AAAAAT AA
16361463 TTTTCAAAAA
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:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:16361471 original size:19 final size:20
Alignment explanation
Indices: 16361449--16361491 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
16361439 AAATAAAAAT
16361449 AAAAA-TAAAAATAATTTTC
1 AAAAATTAAAAATAATTTTC
* *
16361468 AAAAATTTAAAATAATTTTT
1 AAAAATTAAAAATAATTTTC
16361488 AAAA
1 AAAA
16361492 TATATTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (20 bp):
AAAAATTAAAAATAATTTTC
Found at i:16363748 original size:73 final size:74
Alignment explanation
Indices: 16363648--16363795 Score: 280
Period size: 73 Copynumber: 2.0 Consensus size: 74
16363638 TGATTTCTTT
*
16363648 TAAGCTTGTAAGCTATTTAATTTAAAAAATATATAAAATTATTAAAAGAAATAAATATCCTTATG
1 TAAGCTTGTAACCTATTTAATTTAAAAAATATATAAAATTATTAAAAGAAATAAATATCCTTATG
16363713 ATAAAATGA
66 ATAAAATGA
16363722 TAAGCTTGTAACCT-TTTAATTTAAAAAATATATAAAATTATTAAAAGAAATAAATATCCTTATG
1 TAAGCTTGTAACCTATTTAATTTAAAAAATATATAAAATTATTAAAAGAAATAAATATCCTTATG
16363786 ATAAAATGA
66 ATAAAATGA
16363795 T
1 T
16363796 TGTTTTAAAG
Statistics
Matches: 73, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
73 60 0.82
74 13 0.18
ACGTcount: A:0.51, C:0.06, G:0.07, T:0.36
Consensus pattern (74 bp):
TAAGCTTGTAACCTATTTAATTTAAAAAATATATAAAATTATTAAAAGAAATAAATATCCTTATG
ATAAAATGA
Found at i:16366566 original size:4 final size:4
Alignment explanation
Indices: 16366557--16366583 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
16366547 TATTTCAGCT
16366557 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
16366584 TCTCTCATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:16372144 original size:132 final size:132
Alignment explanation
Indices: 16371981--16372244 Score: 528
Period size: 132 Copynumber: 2.0 Consensus size: 132
16371971 TCTCGTAACT
16371981 TGAGTTATAAGTAAATAAGTGACAGTCGCGCAGGTGGACAGTTTTGTTGTAAACGGTGAATTTAA
1 TGAGTTATAAGTAAATAAGTGACAGTCGCGCAGGTGGACAGTTTTGTTGTAAACGGTGAATTTAA
16372046 TTTTAAAAGCAAATTTTTATGCTCCAAATTTGTAAGTTAAATTGGATAACATCTCGTACTCGATT
66 TTTTAAAAGCAAATTTTTATGCTCCAAATTTGTAAGTTAAATTGGATAACATCTCGTACTCGATT
16372111 CC
131 CC
16372113 TGAGTTATAAGTAAATAAGTGACAGTCGCGCAGGTGGACAGTTTTGTTGTAAACGGTGAATTTAA
1 TGAGTTATAAGTAAATAAGTGACAGTCGCGCAGGTGGACAGTTTTGTTGTAAACGGTGAATTTAA
16372178 TTTTAAAAGCAAATTTTTATGCTCCAAATTTGTAAGTTAAATTGGATAACATCTCGTACTCGATT
66 TTTTAAAAGCAAATTTTTATGCTCCAAATTTGTAAGTTAAATTGGATAACATCTCGTACTCGATT
16372243 CC
131 CC
16372245 GGCGACGGTA
Statistics
Matches: 132, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
132 132 1.00
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.35
Consensus pattern (132 bp):
TGAGTTATAAGTAAATAAGTGACAGTCGCGCAGGTGGACAGTTTTGTTGTAAACGGTGAATTTAA
TTTTAAAAGCAAATTTTTATGCTCCAAATTTGTAAGTTAAATTGGATAACATCTCGTACTCGATT
CC
Found at i:16373322 original size:19 final size:19
Alignment explanation
Indices: 16373300--16373337 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
16373290 TAATTTCTAA
16373300 AAAAATT-CTAAAAATTAGC
1 AAAAATTACT-AAAATTAGC
*
16373319 AAAAGTTACTAAAATTAGC
1 AAAAATTACTAAAATTAGC
16373338 TAAATTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.88
20 2 0.12
ACGTcount: A:0.55, C:0.11, G:0.08, T:0.26
Consensus pattern (19 bp):
AAAAATTACTAAAATTAGC
Found at i:16374684 original size:19 final size:19
Alignment explanation
Indices: 16374654--16374705 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 19
16374644 ATTTAAAATA
*
16374654 AAAAATACATA-AAAATTTC
1 AAAAATA-ATATAAAAATTC
* *
16374673 AAAAA-GATATAAATATTC
1 AAAAATAATATAAAAATTC
16374691 AAAAATAATATAAAA
1 AAAAATAATATAAAA
16374706 CCAATATATT
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
17 3 0.12
18 11 0.42
19 12 0.46
ACGTcount: A:0.67, C:0.06, G:0.02, T:0.25
Consensus pattern (19 bp):
AAAAATAATATAAAAATTC
Found at i:16377566 original size:2 final size:2
Alignment explanation
Indices: 16377559--16377591 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
16377549 TGAACACCTA
*
16377559 AC AC AC AC AC AA AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
16377592 TCAAATTGCA
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:0.55, C:0.45, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:16390583 original size:20 final size:20
Alignment explanation
Indices: 16390558--16390595 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
16390548 GAGTTGAATA
*
16390558 CTATTCACTTATGAATGATG
1 CTATTCAATTATGAATGATG
16390578 CTATTCAATTATGAATGA
1 CTATTCAATTATGAATGA
16390596 ATGAATTCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.39
Consensus pattern (20 bp):
CTATTCAATTATGAATGATG
Found at i:16396258 original size:320 final size:320
Alignment explanation
Indices: 16395676--16396314 Score: 1262
Period size: 320 Copynumber: 2.0 Consensus size: 320
16395666 TTTTATTTCA
16395676 ATTAATTTCTTGTCTCGGATTTGGTTCTCTAATTATTAAAGTGATAATTACATTCTTTTGTAATT
1 ATTAATTTCTTGTCTCGGATTTGGTTCTCTAATTATTAAAGTGATAATTACATTCTTTTGTAATT
16395741 ACAAAGAATTGTAATTCGTTAGACATGTTTAGTTGACGAAGTGTAGTTATATCGTAATTCTTTAT
66 ACAAAGAATTGTAATTCGTTAGACATGTTTAGTTGACGAAGTGTAGTTATATCGTAATTCTTTAT
16395806 GTCACGTTTGATAGTATAAATTGTAATTACACAATTATATAATTTATATTTTTAAAAATATTAAT
131 GTCACGTTTGATAGTATAAATTGTAATTACACAATTATATAATTTATATTTTTAAAAATATTAAT
16395871 TGCTATAAAAAATTATTAGTATAATAAAAATATTTTCTTTAATAAAAATTAAAATCAAATCATTA
196 TGCTATAAAAAATTATTAGTATAATAAAAATATTTTCTTTAATAAAAATTAAAATCAAATCATTA
16395936 TATATATTATTTTAGTCTAAAAAGGCAATTGATAATACGATTAGAAATGAAAATAACAAT
261 TATATATTATTTTAGTCTAAAAAGGCAATTGATAATACGATTAGAAATGAAAATAACAAT
16395996 ATTAATTTCTTGTCTCGGATTTGGTTCTCTAATTATTAAAGTGATAATTACATTCTTTTGTAATT
1 ATTAATTTCTTGTCTCGGATTTGGTTCTCTAATTATTAAAGTGATAATTACATTCTTTTGTAATT
16396061 ACAAAGAATTGTAATTCGTTAGACATGTTTAGTTGACGAAGTGTAGTTATATCGTAATTCTTTAT
66 ACAAAGAATTGTAATTCGTTAGACATGTTTAGTTGACGAAGTGTAGTTATATCGTAATTCTTTAT
16396126 GTCACGTTTGATAGTATAAATTGTAATTACACAATTATATAATTTATATTTTTAAAAATATTAAT
131 GTCACGTTTGATAGTATAAATTGTAATTACACAATTATATAATTTATATTTTTAAAAATATTAAT
16396191 TGCTATAAAAAATTATTAGTATAATAAAAATATTTTTCTTTAAT-AAAATTAAAATCAAATCATT
196 TGCTATAAAAAATTATTAGTATAATAAAAATA-TTTTCTTTAATAAAAATTAAAATCAAATCATT
16396255 ATATATATTATTTTAGTCTAAAAAGGCAATTGATAATACGATTAGAAATGAAAATAACAA
260 ATATATATTATTTTAGTCTAAAAAGGCAATTGATAATACGATTAGAAATGAAAATAACAA
16396315 GAAAAATAAA
Statistics
Matches: 318, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
320 307 0.97
321 11 0.03
ACGTcount: A:0.40, C:0.08, G:0.11, T:0.42
Consensus pattern (320 bp):
ATTAATTTCTTGTCTCGGATTTGGTTCTCTAATTATTAAAGTGATAATTACATTCTTTTGTAATT
ACAAAGAATTGTAATTCGTTAGACATGTTTAGTTGACGAAGTGTAGTTATATCGTAATTCTTTAT
GTCACGTTTGATAGTATAAATTGTAATTACACAATTATATAATTTATATTTTTAAAAATATTAAT
TGCTATAAAAAATTATTAGTATAATAAAAATATTTTCTTTAATAAAAATTAAAATCAAATCATTA
TATATATTATTTTAGTCTAAAAAGGCAATTGATAATACGATTAGAAATGAAAATAACAAT
Found at i:16397033 original size:16 final size:18
Alignment explanation
Indices: 16397012--16397047 Score: 58
Period size: 16 Copynumber: 2.1 Consensus size: 18
16397002 ATTTTTTATG
16397012 ATAATTTA-AAA-TAGTT
1 ATAATTTATAAATTAGTT
16397028 ATAATTTATAAATTAGTT
1 ATAATTTATAAATTAGTT
16397046 AT
1 AT
16397048 GATAAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.44
17 3 0.17
18 7 0.39
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (18 bp):
ATAATTTATAAATTAGTT
Found at i:16406576 original size:20 final size:20
Alignment explanation
Indices: 16406548--16406586 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
16406538 GTGCGTCCAA
16406548 AATACATGAACATACGGAAG
1 AATACATGAACATACGGAAG
* * *
16406568 AATATATGATCATATGGAA
1 AATACATGAACATACGGAA
16406587 TATTAACCTG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.49, C:0.10, G:0.18, T:0.23
Consensus pattern (20 bp):
AATACATGAACATACGGAAG
Found at i:16411322 original size:22 final size:20
Alignment explanation
Indices: 16411296--16411335 Score: 62
Period size: 22 Copynumber: 1.9 Consensus size: 20
16411286 GAATTAATTT
16411296 TTAATTTTGAATTGTTTTATAA
1 TTAATTTT-AATT-TTTTATAA
16411318 TTAATTTTAATTTTTTAT
1 TTAATTTTAATTTTTTAT
16411336 GATATAAGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.33
21 4 0.22
22 8 0.44
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (20 bp):
TTAATTTTAATTTTTTATAA
Found at i:16413956 original size:18 final size:19
Alignment explanation
Indices: 16413935--16413972 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
16413925 ATGTGGAAAG
*
16413935 TGTATATGTGT-TATAAAA
1 TGTATATGTATATATAAAA
16413953 TGTATATGTATATATAAAA
1 TGTATATGTATATATAAAA
16413972 T
1 T
16413973 ATAAAGTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.45
Consensus pattern (19 bp):
TGTATATGTATATATAAAA
Found at i:16414083 original size:21 final size:21
Alignment explanation
Indices: 16414057--16414100 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
16414047 GAGTTAAAAA
16414057 ATATATATTATATAAAAAAATGC
1 ATATATA-T-TATAAAAAAATGC
16414080 ATATATATTATAAAAAAATGC
1 ATATATATTATAAAAAAATGC
16414101 GTGTATCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 13 0.62
22 1 0.05
23 7 0.33
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.34
Consensus pattern (21 bp):
ATATATATTATAAAAAAATGC
Found at i:16414170 original size:29 final size:28
Alignment explanation
Indices: 16414113--16414196 Score: 64
Period size: 30 Copynumber: 2.8 Consensus size: 28
16414103 GTATCAATAT
*
16414113 AATAATAATAACAACAACAAAAAT-AACTA-
1 AATAATAA-AA-AACAA-AAAAATGGACTAG
16414142 AATAATAAAATAACTAAAAAAATGGACTAG
1 AATAATAAAA-AAC-AAAAAAATGGACTAG
* *
16414172 ATTGAATTAAAAACGAAAAAAATGG
1 AAT-AATAAAAAAC-AAAAAAATGG
16414197 GGCAGATTCG
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
28 11 0.24
29 14 0.30
30 15 0.33
31 6 0.13
ACGTcount: A:0.64, C:0.08, G:0.08, T:0.19
Consensus pattern (28 bp):
AATAATAAAAAACAAAAAAATGGACTAG
Found at i:16414680 original size:17 final size:17
Alignment explanation
Indices: 16414658--16414694 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
16414648 TAAGAAACCA
16414658 CACCCAATACGTTAGGG
1 CACCCAATACGTTAGGG
16414675 CACCCAATACGTTAGGG
1 CACCCAATACGTTAGGG
16414692 CAC
1 CAC
16414695 AATTCCTTTA
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:0.30, C:0.32, G:0.22, T:0.16
Consensus pattern (17 bp):
CACCCAATACGTTAGGG
Found at i:16418293 original size:7 final size:7
Alignment explanation
Indices: 16418280--16418322 Score: 63
Period size: 7 Copynumber: 6.4 Consensus size: 7
16418270 GGCTGAAAAA
16418280 TAAAACT
1 TAAAACT
*
16418287 AAAAACT
1 TAAAACT
16418294 TAAAACT
1 TAAAACT
16418301 TAAAACT
1 TAAAACT
16418308 TAAAAC-
1 TAAAACT
16418314 TAAAA-T
1 TAAAACT
16418320 TAA
1 TAA
16418323 CTATTATATT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
6 8 0.24
7 25 0.76
ACGTcount: A:0.63, C:0.12, G:0.00, T:0.26
Consensus pattern (7 bp):
TAAAACT
Found at i:16418304 original size:21 final size:19
Alignment explanation
Indices: 16418275--16418322 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 19
16418265 CTGTCGGCTG
*
16418275 AAAAATAAAACTAAAAACTT
1 AAAATTAAAACTAAAAAC-T
*
16418295 AAAACTTAAAACTTAAAACT
1 AAAA-TTAAAACTAAAAACT
16418315 AAAATTAA
1 AAAATTAA
16418323 CTATTATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 4 0.16
20 9 0.36
21 12 0.48
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.23
Consensus pattern (19 bp):
AAAATTAAAACTAAAAACT
Found at i:16420335 original size:12 final size:12
Alignment explanation
Indices: 16420292--16420338 Score: 58
Period size: 14 Copynumber: 3.7 Consensus size: 12
16420282 TGGGAAAGTG
*
16420292 AAAAATAAAACT
1 AAAATTAAAACT
16420304 AAAAATTAAAAACTT
1 -AAAATT-AAAAC-T
16420319 AAAATTAAAACT
1 AAAATTAAAACT
16420331 AAAATTAA
1 AAAATTAA
16420339 CTATTATATT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
12 9 0.29
13 10 0.32
14 11 0.35
15 1 0.03
ACGTcount: A:0.70, C:0.06, G:0.00, T:0.23
Consensus pattern (12 bp):
AAAATTAAAACT
Found at i:16421811 original size:31 final size:31
Alignment explanation
Indices: 16421776--16421835 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
16421766 CCATTTTTTA
* *
16421776 CCTAAGCTAATTTTTCAGATATAATATTTGT
1 CCTAAACTAATTATTCAGATATAATATTTGT
*
16421807 CCTAAATTAATTATTCAGATATAATATTT
1 CCTAAACTAATTATTCAGATATAATATTT
16421836 TTGTTCAAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.37, C:0.12, G:0.07, T:0.45
Consensus pattern (31 bp):
CCTAAACTAATTATTCAGATATAATATTTGT
Found at i:16430755 original size:123 final size:123
Alignment explanation
Indices: 16430485--16430812 Score: 489
Period size: 123 Copynumber: 2.7 Consensus size: 123
16430475 TCAGGGTTTT
* *** * *
16430485 TAGGTCTTGGAAGAAATAATTTTGAGTCGACGTTTCTGATCAAATAGTATAAAATCGCTTCTAGC
1 TAGGTCATGGAAGAAAT-ATTTTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGC
* * *
16430550 AGGATGCTATTTGAGAAAATTTGTGAAATTGCGCCCTCGTGGACGCGCTTTTGCTATAG
65 AGGATGCTATTTGAGAAAATTTGTAAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
* *
16430609 TAGGTCATGGAAGAAATATTTTTTTTTGACGTTTCTAAGCAAATAGTATAAAATCGCTTCTAACA
1 TAGGTCATGGAAGAAATATTTTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCA
* *
16430674 GGATGCTGTTTGAGAAGAATTTGTAAAATCGCGCCCTCGTGGATGCGCTTTTGCTACAG
66 GGATGCTATTTGAGAA-AATTTGTAAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
*
16430733 TCA-GTCATGGAAGAAATA-TTTTTTTTGACTTTTCTGAGCAAATAGTATAAAATCGCTTCTAGC
1 T-AGGTCATGGAAGAAATATTTTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGC
16430796 AGGATGCTATTTGAGAA
65 AGGATGCTATTTGAGAA
16430813 NNNNNNNNNN
Statistics
Matches: 185, Mismatches: 17, Indels: 5
0.89 0.08 0.02
Matches are distributed among these distances:
123 114 0.62
124 70 0.38
125 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.34
Consensus pattern (123 bp):
TAGGTCATGGAAGAAATATTTTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCA
GGATGCTATTTGAGAAAATTTGTAAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
Found at i:16432879 original size:11 final size:11
Alignment explanation
Indices: 16432863--16432904 Score: 66
Period size: 11 Copynumber: 3.8 Consensus size: 11
16432853 AAAAAGGGAG
16432863 TTAAGAGAAAC
1 TTAAGAGAAAC
*
16432874 TTAAGAGGAAC
1 TTAAGAGAAAC
*
16432885 TTAAGAGGAAC
1 TTAAGAGAAAC
16432896 TTAAGAGAA
1 TTAAGAGAA
16432905 TTTTTGAAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.50, C:0.07, G:0.24, T:0.19
Consensus pattern (11 bp):
TTAAGAGAAAC
Found at i:16434825 original size:20 final size:17
Alignment explanation
Indices: 16434800--16434838 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 17
16434790 TTTAAATCTC
16434800 AAATTTTTAGGTTTATTTTA
1 AAATTTTT--GTTT-TTTTA
16434820 AAATTTTTGTTTTTTTA
1 AAATTTTTGTTTTTTTA
16434837 AA
1 AA
16434839 GAAAAATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.37
18 4 0.21
20 8 0.42
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (17 bp):
AAATTTTTGTTTTTTTA
Found at i:16454686 original size:156 final size:157
Alignment explanation
Indices: 16454505--16454817 Score: 610
Period size: 156 Copynumber: 2.0 Consensus size: 157
16454495 CTTAGATAAC
*
16454505 TCATGATTATAACTTACTCTTATCTTGCTGAAATGTTGGTTCTCAATTGATAACATAATATGTTT
1 TCATGATTATAACTTACTCTTATCTTGCTGAAATGTTGGTTCTCAATTGATAACATAATATGTTC
16454570 TTAACTCTTATAACTCACCTGAATTTGCTATTTATGCCTTTACCTGAACTTTCATGGAACATAAT
66 TTAACTCTTATAACTCACCTGAATTTGCTATTTATGCCTTTACCTGAACTTTCATGGAACATAAT
16454635 TTGTTTACTATCCCG-TGAGCCACATT
131 TTGTTTACTATCCCGTTGAGCCACATT
16454661 TCATGATTATAACTTACTCTTATCTTGCTGAAATGTTGGTTCTCAATTGATAACATAATATGTTC
1 TCATGATTATAACTTACTCTTATCTTGCTGAAATGTTGGTTCTCAATTGATAACATAATATGTTC
16454726 TTAACTCTTATAACTCACCTGAATTTGCTATTTATGCCTTTACCTGAACTTTCATGGAACATAAT
66 TTAACTCTTATAACTCACCTGAATTTGCTATTTATGCCTTTACCTGAACTTTCATGGAACATAAT
16454791 TTGTTTACTATCCCGTTGAGCCACATT
131 TTGTTTACTATCCCGTTGAGCCACATT
16454818 GGAATAATAA
Statistics
Matches: 155, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
156 144 0.93
157 11 0.07
ACGTcount: A:0.27, C:0.19, G:0.12, T:0.42
Consensus pattern (157 bp):
TCATGATTATAACTTACTCTTATCTTGCTGAAATGTTGGTTCTCAATTGATAACATAATATGTTC
TTAACTCTTATAACTCACCTGAATTTGCTATTTATGCCTTTACCTGAACTTTCATGGAACATAAT
TTGTTTACTATCCCGTTGAGCCACATT
Found at i:16455011 original size:49 final size:55
Alignment explanation
Indices: 16454931--16455083 Score: 183
Period size: 56 Copynumber: 2.8 Consensus size: 55
16454921 ACATGGGAGT
* *
16454931 TCTCATATCGATGCCCATGCCATGTCCCAGACATGGTCTTAC-GGGGAC-CTC-TAA
1 TCTCA-AT-GATGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACTCTCATAA
*
16454985 TCTC-A-G-TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATAA
1 TCTCAATGATGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGAC-TCTCATAA
** *
16455038 TCTCAATGATGCCAATTCCATGTCCCAGACATGGTCTTACATGGGA
1 TCTCAATGATGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGA
16455084 TGTCATCACC
Statistics
Matches: 87, Mismatches: 5, Indels: 12
0.84 0.05 0.12
Matches are distributed among these distances:
49 29 0.33
50 6 0.07
52 4 0.05
53 7 0.08
54 5 0.06
55 1 0.01
56 35 0.40
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (55 bp):
TCTCAATGATGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACTCTCATAA
Found at i:16455059 original size:56 final size:53
Alignment explanation
Indices: 16454894--16455083 Score: 205
Period size: 49 Copynumber: 3.7 Consensus size: 53
16454884 TCTTGTACTA
* * * ** * *
16454894 CCAATGCCATATCCCAGATAGGGTCTTACATGGGAGTTCTCATATC---GATG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTAATCTCAATGATG
* *
16454944 CCCATGCCATGTCCCAGACATGGTCTTAC-GGGGACCTCTAATCTC-A-G-TG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTAATCTCAATGATG
*
16454993 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATAATCTCAATGATG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGAC--CTC-TAATCTCAATGATG
*
16455049 CCAATTCCATGTCCCAGACATGGTCTTACATGGGA
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGA
16455084 TGTCATCACC
Statistics
Matches: 118, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
49 40 0.34
50 31 0.26
52 3 0.03
53 7 0.06
54 1 0.01
55 1 0.01
56 35 0.30
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (53 bp):
CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTAATCTCAATGATG
Found at i:16457041 original size:34 final size:32
Alignment explanation
Indices: 16456982--16457094 Score: 138
Period size: 35 Copynumber: 3.4 Consensus size: 32
16456972 CTAAACACAA
* *
16456982 AATTATTTAAAAA-CTAAACCATAATTTAATT
1 AATTTTTTAAAAACCTAAACCCTAATTTAATT
16457013 AATTTTCTTAAAAACTCTAAACCCTAATTTAATT
1 AATTTT-TTAAAAAC-CTAAACCCTAATTTAATT
* *
16457047 AATTTTATTTAAAACCCATAAAACCTAATTTAATT
1 AA-TTT-TTTAAAAACC-TAAACCCTAATTTAATT
16457082 AATTTTTTAAAAA
1 AATTTTTTAAAAA
16457095 AACCTTTAAA
Statistics
Matches: 71, Mismatches: 5, Indels: 10
0.83 0.06 0.12
Matches are distributed among these distances:
31 5 0.07
32 7 0.10
33 7 0.10
34 23 0.32
35 28 0.39
36 1 0.01
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (32 bp):
AATTTTTTAAAAACCTAAACCCTAATTTAATT
Found at i:16457074 original size:35 final size:34
Alignment explanation
Indices: 16456997--16457094 Score: 135
Period size: 34 Copynumber: 2.9 Consensus size: 34
16456987 TTTAAAAACT
* *
16456997 AAACCATAATTTAATTAATTTTCTTAAAAACTCTA
1 AAACC-TAATTTAATTAATTTTATTAAAAACCCTA
* *
16457032 AACCCTAATTTAATTAATTTTATTTAAAACCCATA
1 AAACCTAATTTAATTAATTTTATTAAAAACCC-TA
16457067 AAACCTAATTTAATTAATTTT-TTAAAAA
1 AAACCTAATTTAATTAATTTTATTAAAAA
16457095 AACCTTTAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
34 30 0.54
35 26 0.46
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.41
Consensus pattern (34 bp):
AAACCTAATTTAATTAATTTTATTAAAAACCCTA
Found at i:16457106 original size:35 final size:34
Alignment explanation
Indices: 16456996--16457107 Score: 120
Period size: 35 Copynumber: 3.2 Consensus size: 34
16456986 ATTTAAAAAC
* *
16456996 TAAACCATAATTTAATTAATTTTCTTAAAAA-CTC
1 TAAACC-TAATTTAATTAATTTTATTAAAAACCTT
* *
16457030 TAAACCCTAATTTAATTAATTTTATTTAAAACCCAT
1 TAAA-CCTAATTTAATTAATTTTA-TTAAAAACCTT
*
16457066 AAAACCTAATTTAATTAATTTT-TTAAAAAAACCTT
1 TAAACCTAATTTAATTAATTTTATT--AAAAACCTT
16457101 TAAACCT
1 TAAACCT
16457108 TAAAACCATA
Statistics
Matches: 65, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
33 2 0.03
34 20 0.31
35 39 0.60
36 4 0.06
ACGTcount: A:0.45, C:0.15, G:0.00, T:0.40
Consensus pattern (34 bp):
TAAACCTAATTTAATTAATTTTATTAAAAACCTT
Found at i:16457199 original size:14 final size:13
Alignment explanation
Indices: 16457169--16457204 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
16457159 TCCTAACCCT
*
16457169 AACCCTAACCTTA
1 AACCCTAAACTTA
16457182 AACCCTAAACTATA
1 AACCCTAAACT-TA
16457196 AACCCTAAA
1 AACCCTAAA
16457205 AACCTTAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 10 0.48
14 11 0.52
ACGTcount: A:0.47, C:0.33, G:0.00, T:0.19
Consensus pattern (13 bp):
AACCCTAAACTTA
Found at i:16463194 original size:34 final size:35
Alignment explanation
Indices: 16463156--16463225 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
16463146 TCAAACAAAA
* *
16463156 TTATTAAGAAAAGA-TATTTTCTTTTAAAATTTAT
1 TTATTAAAAAAAGATTATTTTCTTTCAAAATTTAT
* *
16463190 TTATTAAAAAAAGATTTTTTTCTTTCGAAATTTAT
1 TTATTAAAAAAAGATTATTTTCTTTCAAAATTTAT
16463225 T
1 T
16463226 AAGAAAATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
34 13 0.42
35 18 0.58
ACGTcount: A:0.39, C:0.04, G:0.06, T:0.51
Consensus pattern (35 bp):
TTATTAAAAAAAGATTATTTTCTTTCAAAATTTAT
Found at i:16473438 original size:25 final size:25
Alignment explanation
Indices: 16473407--16473457 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
16473397 GGCTTAGACG
*
16473407 TTAGACTCAAATTCAGAAAATTACA
1 TTAGACTCAAATTCAAAAAATTACA
16473432 TTAGACTCAAATTCAAAAAATTACA
1 TTAGACTCAAATTCAAAAAATTACA
16473457 T
1 T
16473458 CAACCACCGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.49, C:0.16, G:0.06, T:0.29
Consensus pattern (25 bp):
TTAGACTCAAATTCAAAAAATTACA
Found at i:16483963 original size:17 final size:18
Alignment explanation
Indices: 16483931--16483966 Score: 56
Period size: 17 Copynumber: 2.0 Consensus size: 18
16483921 GAAACCCTAG
16483931 CTTTTTCTCATTTCTTTCT
1 CTTTTTCT-ATTTCTTTCT
16483950 CTTTTTCT-TTTCTTTCT
1 CTTTTTCTATTTCTTTCT
16483967 TTCTTTCCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.53
19 8 0.47
ACGTcount: A:0.03, C:0.25, G:0.00, T:0.72
Consensus pattern (18 bp):
CTTTTTCTATTTCTTTCT
Found at i:16488657 original size:21 final size:20
Alignment explanation
Indices: 16488632--16488670 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
16488622 CAAATCAAAT
*
16488632 AATCAATATATATATCAATTC
1 AATCAATATAAAT-TCAATTC
16488653 AATCAATATAAATTCAAT
1 AATCAATATAAATTCAAT
16488671 AAATTCCTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.51, C:0.13, G:0.00, T:0.36
Consensus pattern (20 bp):
AATCAATATAAATTCAATTC
Found at i:16489381 original size:17 final size:18
Alignment explanation
Indices: 16489349--16489384 Score: 56
Period size: 17 Copynumber: 2.0 Consensus size: 18
16489339 GAAACCCTAG
16489349 CTTTTTCTCCTTTCTTTCT
1 CTTTTTCT-CTTTCTTTCT
16489368 CTTTTTCT-TTTCTTTCT
1 CTTTTTCTCTTTCTTTCT
16489385 TTCCTTCTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.53
19 8 0.47
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (18 bp):
CTTTTTCTCTTTCTTTCT
Found at i:16489399 original size:21 final size:21
Alignment explanation
Indices: 16489358--16489405 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 21
16489348 GCTTTTTCTC
*
16489358 CTTTCTTTCTCTTTTTCTTTT
1 CTTTCTTTCTCTTTCTCTTTT
*
16489379 CTTTCTTTC-CTTCTCTGTTTT
1 CTTTCTTTCTCTT-TCTCTTTT
16489400 CGTTTC
1 C-TTTC
16489406 AATTTGTTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 3 0.13
21 16 0.70
22 4 0.17
ACGTcount: A:0.00, C:0.27, G:0.04, T:0.69
Consensus pattern (21 bp):
CTTTCTTTCTCTTTCTCTTTT
Found at i:16489425 original size:12 final size:12
Alignment explanation
Indices: 16489408--16489432 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
16489398 TTCGTTTCAA
16489408 TTTGTTTCTTTT
1 TTTGTTTCTTTT
16489420 TTTGTTTCTTTT
1 TTTGTTTCTTTT
16489432 T
1 T
16489433 CAATTTATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.08, G:0.08, T:0.84
Consensus pattern (12 bp):
TTTGTTTCTTTT
Found at i:16512647 original size:21 final size:21
Alignment explanation
Indices: 16512623--16512669 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 21
16512613 TTAATACATG
16512623 TAATTTTCATAATTTCA-TCAC
1 TAATTTT-ATAATTTCATTCAC
*
16512644 TAATCTTTATCATTTCATTCAC
1 TAAT-TTTATAATTTCATTCAC
16512666 -AATT
1 TAATT
16512670 AATCTTTACA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
20 1 0.04
21 15 0.65
22 7 0.30
ACGTcount: A:0.32, C:0.19, G:0.00, T:0.49
Consensus pattern (21 bp):
TAATTTTATAATTTCATTCAC
Found at i:16512950 original size:22 final size:22
Alignment explanation
Indices: 16512900--16512951 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
16512890 ACTAATTCAA
* *
16512900 CAGTATGCACCAAAGTGCAAAT
1 CAGTAAGCACCAAAGTGCAAAG
* * *
16512922 CACTAAGCACCGAAGTGCGAAG
1 CAGTAAGCACCAAAGTGCAAAG
16512944 CAGTAAGC
1 CAGTAAGC
16512952 GTTGAAGCGC
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.38, C:0.25, G:0.23, T:0.13
Consensus pattern (22 bp):
CAGTAAGCACCAAAGTGCAAAG
Found at i:16513500 original size:17 final size:19
Alignment explanation
Indices: 16513455--16513501 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
16513445 GACTACAATA
*
16513455 TTCATATATTCTTATATTT
1 TTCATATATTATTATATTT
16513474 TTCACTATATTATT-TATTT
1 TTCA-TATATTATTATATTT
16513493 TTCA-ATATT
1 TTCATATATT
16513502 TTTTTTAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 5 0.19
19 13 0.50
20 8 0.31
ACGTcount: A:0.28, C:0.11, G:0.00, T:0.62
Consensus pattern (19 bp):
TTCATATATTATTATATTT
Found at i:16514253 original size:9 final size:9
Alignment explanation
Indices: 16514239--16514269 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
16514229 GTTAAACAAA
16514239 TCGAGTTAT
1 TCGAGTTAT
16514248 TCGAGTTAT
1 TCGAGTTAT
16514257 TCGAGTTAT
1 TCGAGTTAT
16514266 TCGA
1 TCGA
16514270 ATTCCCTTCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.23, C:0.13, G:0.23, T:0.42
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:16514400 original size:17 final size:17
Alignment explanation
Indices: 16514361--16514406 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 17
16514351 ACTCCCTCTA
16514361 TTTACTTTCCCTC-AAACT
1 TTTA-TTTCCC-CAAAACT
16514379 TTTA-TTCCCCAAAACTT
1 TTTATTTCCCCAAAAC-T
16514396 TTTATTTCCCC
1 TTTATTTCCCC
16514407 CCTAAACTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 1 0.04
16 9 0.36
17 5 0.20
18 10 0.40
ACGTcount: A:0.22, C:0.33, G:0.00, T:0.46
Consensus pattern (17 bp):
TTTATTTCCCCAAAACT
Found at i:16519065 original size:25 final size:25
Alignment explanation
Indices: 16519029--16519077 Score: 64
Period size: 27 Copynumber: 1.9 Consensus size: 25
16519019 TTTCATAATT
16519029 TTTTTATCTTTTAA-AAAATATAAA
1 TTTTTATCTTTTAATAAAATATAAA
*
16519053 TTTTTATGTTTTTAATTAAAATATA
1 TTTTTAT-CTTTTAA-TAAAATATA
16519078 CAAAATTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 7 0.33
25 6 0.29
27 8 0.38
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (25 bp):
TTTTTATCTTTTAATAAAATATAAA
Found at i:16525578 original size:44 final size:44
Alignment explanation
Indices: 16525510--16526229 Score: 475
Period size: 44 Copynumber: 15.6 Consensus size: 44
16525500 TCGTTCTAAC
* *
16525510 CCACTGCAACTTCAGGG-GTTTAAGAATTA-TCGCTTCAATCTGCT
1 CCACTGCAACTTCAGGGAG-ATAAG-ATTAGTAGCTTCAATCTGCT
** *
16525554 CCACTGCAACTTTGGGGAGATAAGATTAGTAGCTTCAATCTACT
1 CCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTCAATCTGCT
* *
16525598 CTACTTCAACTTCAGGGAGATAAGATTAGTAGCTTCAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTCAATCTGCT
* * ** *
16525642 CCACTGCAACTTCAGAGAGATAATATTTGTAACTTGTAGCTTTGATCTGTT
1 CCACTGCAACTTCAGGGAGATAAGA--T-T-A---GTAGCTTCAATCTGCT
* * * *
16525693 CCACTGCAACTTTAGGGAAATAAGATTTGTAGCTTCAATCTACT
1 CCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTCAATCTGCT
* * * * *
16525737 CCACTACAACTTCAAGGAGATAAGACTTGTAACTTGTAGCTTTAATTTGTT
1 CCACTGCAACTTCAGGGAGATAAGA--T-T-A---GTAGCTTCAATCTGCT
* * *
16525788 CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATTTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTCAATCTGCT
* * * * * *
16525832 CTACTGTAACTTCAGGGAGATAAGATTTGTGGCTTTAATCTACT
1 CCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTCAATCTGCT
* * * *
16525876 CCACTGCCACTTCAGGGAGATAAAATTCGCCATAATGACTTCAA-C-CCAT
1 CCACTGCAACTTCAGGGAGATAAGATTAG---T-A-G-CTTCAATCTGC-T
* * * * * * * **
16525925 CTCGCTACAACTTTAGGG-GTGTAGGATTTGTGATCTGTAGCTTTATTCTATT
1 C-CACTGCAACTTCAGGGAG-ATAAGA--T-T-A---GTAGCTTCAATCTGCT
* * * **
16525977 CCACTGCAACTTCAGGGAAATAAGATTCGCATATTCAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTCAATCTGCT
* *
16526021 CCATTGCAACTTCAGGGAGATAAGATTAGTGGCTTCAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTCAATCTGCT
* * * *
16526065 CCACTGCAACTTTAGGGGGATAAGATTCGCCATGATGATTTCAATC--CAT
1 CCACTGCAACTTCAGGGAGATAAGATTAG---T-A-G-CTTCAATCTGC-T
* * *
16526114 CCCACTGCAACTTCAGGG-GTATAGGATTTGTCGCTTCAATCTGCT
1 -CCACTGCAACTTCAGGGAG-ATAAGATTAGTAGCTTCAATCTGCT
* * *
16526159 CCACCGCAACTTTAGGGAGATAAGATTAGTGGCTTCAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTCAATCTGCT
16526203 CCACTGCAACTTCAGGGAGATAAGATT
1 CCACTGCAACTTCAGGGAGATAAGATT
16526230 CACCATAATG
Statistics
Matches: 526, Mismatches: 103, Indels: 94
0.73 0.14 0.13
Matches are distributed among these distances:
43 4 0.01
44 343 0.65
45 4 0.01
46 3 0.01
47 5 0.01
48 6 0.01
49 11 0.02
50 51 0.10
51 90 0.17
52 5 0.01
53 2 0.00
54 1 0.00
57 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (44 bp):
CCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTCAATCTGCT
Found at i:16525690 original size:51 final size:51
Alignment explanation
Indices: 16525626--16525818 Score: 195
Period size: 51 Copynumber: 3.9 Consensus size: 51
16525616 GATAAGATTA
*
16525626 GTAGCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAATATTTGTAACTT
1 GTAGCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTAACTT
** * * * *
16525677 GTAGCTTTGATCTGTTCCACTGCAACTTTAGGGAAATAAGA----T---TT
1 GTAGCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTAACTT
* * *
16525721 GTAGCTTCAATCTACTCCACTACAACTTCA-AGGAGATAAGACTTGTAACTT
1 GTAGCTTCAATCTGCTCCACTGCAACTTCAGA-GAGATAAGATTTGTAACTT
* * * *
16525772 GTAGCTTTAATTTGTTCCACTGCAACTTCAGGGAGATAAGATTTGTA
1 GTAGCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTA
16525819 GCTTTAATTT
Statistics
Matches: 111, Mismatches: 22, Indels: 18
0.74 0.15 0.12
Matches are distributed among these distances:
44 34 0.31
47 1 0.01
48 1 0.01
51 75 0.68
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.34
Consensus pattern (51 bp):
GTAGCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTAACTT
Found at i:16525726 original size:95 final size:95
Alignment explanation
Indices: 16525510--16526229 Score: 416
Period size: 95 Copynumber: 7.7 Consensus size: 95
16525500 TCGTTCTAAC
* * * * ** *
16525510 CCACTGCAACTTCAGGG-GTTTAAGAATTATCGCTTCAATCTGCTCCACTGCAACTTTGGGGAGA
1 CCACTGCAACTTCAGGGAG-ATAAGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGAGAGA
* **
16525574 TAAGA--T-T-A---GTAGCTTCAATCTACT
65 TAAGATTTGTAACTTGTAGCTTTAATCTGTT
* * *
16525598 CTACTTCAACTTCAGGGAGATAAGATTAGTAGCTTCAATCTGCTCCACTGCAACTTCAGAGAGAT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGAGAGAT
* *
16525663 AATATTTGTAACTTGTAGCTTTGATCTGTT
66 AAGATTTGTAACTTGTAGCTTTAATCTGTT
* * * *
16525693 CCACTGCAACTTTAGGGAAATAAGATTTGTAGCTTCAATCTACTCCACTACAACTTCA-AGGAGA
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGA-GAGA
* *
16525757 TAAGACTTGTAACTTGTAGCTTTAATTTGTT
65 TAAGATTTGTAACTTGTAGCTTTAATCTGTT
* * * * *
16525788 CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATTTGCTCTACTGTAACTTCAGGGAGAT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGAGAGAT
**
16525853 AAGATTTG-----TG--GCTTTAATCTACT
66 AAGATTTGTAACTTGTAGCTTTAATCTGTT
* * * * * * *
16525876 CCACTGCCACTTCAGGGAGATAAAATTCGCCATAATGACTTCAA-C-CCATCTCGCTACAACTTT
1 CCACTGCAACTTCAGGGAGATAAGATTTG---T-A-G-CTTCAATCTGC-TC-CACTGCAACTTC
* * * * * *
16525939 AG-GGGTGTAGGATTTGTGA-TCTGTAGCTTTATTCTATT
58 AGAGAG-ATAAGATTTGTAACT-TGTAGCTTTAATCTGTT
* * * ** * *
16525977 CCACTGCAACTTCAGGGAAATAAGATTCGCATATTCAATCTGCTCCATTGCAACTTCAGGGAGAT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGAGAGAT
* * *
16526042 AAGA--T-T-A---GTGGCTTCAATCTGCT
66 AAGATTTGTAACTTGTAGCTTTAATCTGTT
* * * *
16526065 CCACTGCAACTTTAGGGGGATAAGATTCGCCATGATGATTTCAATC--CATCCCACTGCAACTTC
1 CCACTGCAACTTCAGGGAGATAAGATTTG---T-A-G-CTTCAATCTGC-T-CCACTGCAACTTC
* * * *
16526128 AG-GGGTATAGGATTTGT--C-----GCTTCAATCTGCT
58 AGAGAG-ATAAGATTTGTAACTTGTAGCTTTAATCTGTT
* * * * *
16526159 CCACCGCAACTTTAGGGAGATAAGATTAGTGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGAT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGAGAGAT
16526224 AAGATT
66 AAGATT
16526230 CACCATAATG
Statistics
Matches: 497, Mismatches: 90, Indels: 90
0.73 0.13 0.13
Matches are distributed among these distances:
88 158 0.32
89 5 0.01
90 4 0.01
91 4 0.01
92 6 0.01
93 9 0.02
94 88 0.18
95 175 0.35
96 6 0.01
97 3 0.01
99 2 0.00
101 37 0.07
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (95 bp):
CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGAGAGAT
AAGATTTGTAACTTGTAGCTTTAATCTGTT
Found at i:16525818 original size:139 final size:132
Alignment explanation
Indices: 16525510--16526227 Score: 505
Period size: 139 Copynumber: 5.2 Consensus size: 132
16525500 TCGTTCTAAC
* * * * *
16525510 CCACTGCAACTTCAGGG-GTTTAAGAATTATCGCTTCAATCTGCTCCACTGCAACTTTGGGGAGA
1 CCACTGCAACTTCAGGGAG-ATAAGAATTGTAGCTTTAATCTGCTCCACTGCAACTTTAGGGAGA
* * *
16525574 TAAGATTAGTAGCTTCAATCTACTCTACTTCAACTTCAGGGAGATAAGATTAGTAGCTTCAATCT
65 TAAGATTTGTAGCTTCAATCTACTCCACTACAACTTCAGGGAGATAAGATTAGTAGCTTCAATCT
16525639 GCT
130 GCT
* * *
16525642 CCACTGCAACTTCAGAGAGATAATATTTGTAACTTGTAGCTTTGATCTGTTCCACTGCAACTTTA
1 CCACTGCAACTTCAGGGAGAT-A-A---G-AA-TTGTAGCTTTAATCTGCTCCACTGCAACTTTA
* *
16525707 GGGAAATAAGATTTGTAGCTTCAATCTACTCCACTACAACTTCAAGGAGATAAGACTTGTAACTT
59 GGGAGATAAGATTTGTAGCTTCAATCTACTCCACTACAACTTCAGGGAGATAAGA--T-T-A---
* * *
16525772 GTAGCTTTAATTTGTT
117 GTAGCTTCAATCTGCT
* * * * *
16525788 CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATTTGCTCTACTGTAACTTCAGGGAGAT
1 CCACTGCAACTTCAGGGAGATAAGAATTGTAGCTTTAATCTGCTCCACTGCAACTTTAGGGAGAT
* * * * * *
16525853 AAGATTTGTGGCTTTAATCTACTCCACTGCCACTTCAGGGAGATAAAATTCGCCATAATGACTTC
66 AAGATTTGTAGCTTCAATCTACTCCACTACAACTTCAGGGAGATAAGATTAG---T-A-G-CTTC
*
16525918 AA-C-CCAT
125 AATCTGC-T
* * * ** * * ** *
16525925 CTCGCTACAACTTTAGGGGTGTAGGATTTGTGATCTGTAGCTTTATTCTATTCCACTGCAACTTC
1 C-CACTGCAACTTCA--GG-G-A-GATAAG-AAT-TGTAGCTTTAATCTGCTCCACTGCAACTTT
* * * ** * * * *
16525990 AGGGAAATAAGATTCGCATATTCAATCTGCTCCATTGCAACTTCAGGGAGATAAGATTAGTGGCT
58 AGGGAGATAAGATTTGTAGCTTCAATCTACTCCACTACAACTTCAGGGAGATAAGATTAGTAGCT
16526055 TCAATCTGCT
123 TCAATCTGCT
* * *
16526065 CCACTGCAACTTTAGGGGGATAAG-ATTCGCCATGATGATTTCAATC--CATCCCACTGCAACTT
1 CCACTGCAACTTCAGGGAGATAAGAATT-G---T-A-GCTTT-AATCTGC-T-CCACTGCAACTT
* * * * ** * *
16526127 CAGGG-GTATAGGATTTGTCGCTTCAATCTGCTCCACCGCAACTTTAGGGAGATAAGATTAGTGG
57 TAGGGAG-ATAAGATTTGTAGCTTCAATCTACTCCACTACAACTTCAGGGAGATAAGATTAGTAG
16526191 CTTCAATCTGCT
121 CTTCAATCTGCT
16526203 CCACTGCAACTTCAGGGAGATAAGA
1 CCACTGCAACTTCAGGGAGATAAGA
16526228 TTCACCATAA
Statistics
Matches: 460, Mismatches: 83, Indels: 79
0.74 0.13 0.13
Matches are distributed among these distances:
131 1 0.00
132 21 0.05
133 2 0.00
134 5 0.01
135 2 0.00
136 4 0.01
137 12 0.03
138 119 0.26
139 167 0.36
140 7 0.02
141 4 0.01
142 3 0.01
143 5 0.01
144 2 0.00
145 73 0.16
146 33 0.07
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.31
Consensus pattern (132 bp):
CCACTGCAACTTCAGGGAGATAAGAATTGTAGCTTTAATCTGCTCCACTGCAACTTTAGGGAGAT
AAGATTTGTAGCTTCAATCTACTCCACTACAACTTCAGGGAGATAAGATTAGTAGCTTCAATCTG
CT
Found at i:16526002 original size:189 final size:186
Alignment explanation
Indices: 16525604--16526229 Score: 576
Period size: 189 Copynumber: 3.3 Consensus size: 186
16525594 TACTCTACTT
* *
16525604 CAACTTCAGGGAGATAAGATTAGTAGCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAATATT
1 CAACTTCAGGGAGATAAGATTAGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA--
* ** ** * * * *
16525669 TGTAACTTGTAGCTTTGATCTGTTCCACTGCAACTTTAGGGAAATAAGATTTG---T-A-G-CTT
64 T-T-A---GTGGCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAAATTCGCCATAATGACTT
* * * * *
16525728 CAATCTA-CTCCACTACAACTTCAAGGAG-ATAAGACTTGTAACTTGTAGCTTTAATT-TGTTCC
124 CAACCCATC-CCACTACAACTTC-AGGGGTATAGGATTTGT--C-TGTAGCTTT-ATTCTGTTCC
16525790 ACTG
183 ACTG
* * * * *
16525794 CAACTTCAGGGAGATAAGATTTGTAGCTTTAATTTGCTCTACTGTAACTTCAGGGAGATAAGATT
1 CAACTTCAGGGAGATAAGATTAGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
* * *
16525859 TGTGGCTTTAATCTACTCCACTGCCACTTCAGGGAGATAAAATTCGCCATAATGACTTCAACCCA
66 AGTGGCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAAATTCGCCATAATGACTTCAACCCA
* * * * *
16525924 TCTCGCTACAACTTTAGGGGTGTAGGATTTGTGATCTGTAGCTTTATTCTATTCCACTG
131 TCCCACTACAACTTCAGGGGTATAGGA-TT-TG-TCTGTAGCTTTATTCTGTTCCACTG
* * * ** *
16525983 CAACTTCAGGGAAATAAGATTCGCATATTCAATCTGCTCCATTGCAACTTCAGGGAGATAAGATT
1 CAACTTCAGGGAGATAAGATTAGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
* * * * * * *
16526048 AGTGGCTTCAATCTGCTCCACTGCAACTTTAGGGGGATAAGATTCGCCATGATGATTTCAATCCA
66 AGTGGCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAAATTCGCCATAATGACTTCAACCCA
* * * * *
16526113 TCCCACTGCAACTTCAGGGGTATAGGATTTGTC----GCTTCAATCTGCTCCACCG
131 TCCCACTACAACTTCAGGGGTATAGGATTTGTCTGTAGCTTTATTCTGTTCCACTG
* *
16526165 CAACTTTAGGGAGATAAGATTAGTGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
1 CAACTTCAGGGAGATAAGATTAGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
16526230 CACCATAATG
Statistics
Matches: 359, Mismatches: 65, Indels: 32
0.79 0.14 0.07
Matches are distributed among these distances:
182 71 0.20
183 36 0.10
186 3 0.01
187 4 0.01
188 11 0.03
189 172 0.48
190 59 0.16
191 2 0.01
192 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.31
Consensus pattern (186 bp):
CAACTTCAGGGAGATAAGATTAGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
AGTGGCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAAATTCGCCATAATGACTTCAACCCA
TCCCACTACAACTTCAGGGGTATAGGATTTGTCTGTAGCTTTATTCTGTTCCACTG
Found at i:16526150 original size:94 final size:92
Alignment explanation
Indices: 16525971--16526229 Score: 229
Period size: 94 Copynumber: 2.9 Consensus size: 92
16525961 GTAGCTTTAT
* * *
16525971 TCTATTCCACTGCAACTTCAGGGAAATAAGATTCG-C--AT-ATTCAAT-C-TGCTCCATTGCAA
1 TCTACTCCACTGCAACTTCAGGGAGATAAGATTCGCCATATGATTCAATCCAT-C-CCACTGCAA
* *
16526030 CTTCAGGGAGATAAGATTAGTGGCTTCAA
64 CTTCAGGGAGATAAGATTTGTCGCTTCAA
* * *
16526059 TCTGCTCCACTGCAACTTTAGGGGGATAAGATTCGCCATGATGATTTCAATCCATCCCACTGCAA
1 TCTACTCCACTGCAACTTCAGGGAGATAAGATTCGCCAT-ATGA-TTCAATCCATCCCACTGCAA
*
16526124 CTTCAGGG-GTATAGGATTTGTCGCTTCAA
64 CTTCAGGGAG-ATAAGATTTGTCGCTTCAA
* * * * * *
16526153 TCTGCTCCACCGCAACTTTAGGGAGATAAGATTAG---T-GGCTTCAAT-C-TGCTCCACTGCAA
1 TCTACTCCACTGCAACTTCAGGGAGATAAGATTCGCCATATGATTCAATCCAT-C-CCACTGCAA
16526212 CTTCAGGGAGATAAGATT
64 CTTCAGGGAGATAAGATT
16526230 CACCATAATG
Statistics
Matches: 144, Mismatches: 15, Indels: 24
0.79 0.08 0.13
Matches are distributed among these distances:
86 1 0.01
87 2 0.01
88 60 0.42
89 3 0.02
91 1 0.01
92 2 0.01
93 2 0.01
94 70 0.49
95 2 0.01
96 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.29
Consensus pattern (92 bp):
TCTACTCCACTGCAACTTCAGGGAGATAAGATTCGCCATATGATTCAATCCATCCCACTGCAACT
TCAGGGAGATAAGATTTGTCGCTTCAA
Found at i:16526155 original size:138 final size:138
Alignment explanation
Indices: 16525977--16526280 Score: 475
Period size: 138 Copynumber: 2.2 Consensus size: 138
16525967 TTATTCTATT
** * ** **
16525977 CCACTGCAACTTCAGGGAAATAAGATTCG-CATATTCAATCTGCTCCATTGCAACTTCAGGGAGA
1 CCACTGCAACTTCAGGGGTATAAGATTTGTC-GCTTCAATCTGCTCCACCGCAACTTCAGGGAGA
* * * *
16526041 TAAGATTAGTGGCTTCAATCTGCTCCACTGCAACTTTAGGGGGATAAGATTCGCCATGATGATTT
65 TAAGATTAGTGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCACCATAATGATTT
16526106 CAATCCATC
130 CAATCCATC
* *
16526115 CCACTGCAACTTCAGGGGTATAGGATTTGTCGCTTCAATCTGCTCCACCGCAACTTTAGGGAGAT
1 CCACTGCAACTTCAGGGGTATAAGATTTGTCGCTTCAATCTGCTCCACCGCAACTTCAGGGAGAT
16526180 AAGATTAGTGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCACCATAATGATTTC
66 AAGATTAGTGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCACCATAATGATTTC
16526245 AATCCATC
131 AATCCATC
16526253 CCACTGCAACTTCAGGGGTATAAGATTT
1 CCACTGCAACTTCAGGGGTATAAGATTT
16526281 ATGGTTTCTC
Statistics
Matches: 151, Mismatches: 14, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
138 150 0.99
139 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (138 bp):
CCACTGCAACTTCAGGGGTATAAGATTTGTCGCTTCAATCTGCTCCACCGCAACTTCAGGGAGAT
AAGATTAGTGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCACCATAATGATTTC
AATCCATC
Found at i:16533275 original size:17 final size:17
Alignment explanation
Indices: 16533253--16533285 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
16533243 TTTTACACCC
16533253 AAAAAAACAAAGCTTCT
1 AAAAAAACAAAGCTTCT
16533270 AAAAAAACAAAGCTTC
1 AAAAAAACAAAGCTTC
16533286 CATAATAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.61, C:0.18, G:0.06, T:0.15
Consensus pattern (17 bp):
AAAAAAACAAAGCTTCT
Found at i:16534902 original size:28 final size:30
Alignment explanation
Indices: 16534871--16534926 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
16534861 GTACATTTGA
16534871 AATTTAAT-CTTCTA-CTTTTATTTTAATG
1 AATTTAATCCTTCTATCTTTTATTTTAATG
*
16534899 AATTTAATCCTTCTATTTTTTATTTTAA
1 AATTTAATCCTTCTATCTTTTATTTTAA
16534927 AAATGCAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 8 0.32
29 6 0.24
30 11 0.44
ACGTcount: A:0.29, C:0.11, G:0.02, T:0.59
Consensus pattern (30 bp):
AATTTAATCCTTCTATCTTTTATTTTAATG
Found at i:16541564 original size:64 final size:64
Alignment explanation
Indices: 16541478--16541597 Score: 197
Period size: 64 Copynumber: 1.9 Consensus size: 64
16541468 GAGCAATGAC
* * *
16541478 ATTAAATTGAGTTTTAAGCGAACCACTTGAAATTGCTATTGAAACATGAAATCAAATCGGTTGA
1 ATTAAATTAAATTTTAAGCGAACCACTTGAAACTGCTATTGAAACATGAAATCAAATCGGTTGA
16541542 ATTAAATTAAATTTTGAA-CGAACCACTTGAAACTGCTATTGAAACATGAAATCAAA
1 ATTAAATTAAATTTT-AAGCGAACCACTTGAAACTGCTATTGAAACATGAAATCAAA
16541598 CCGACTAAAC
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
64 50 0.96
65 2 0.04
ACGTcount: A:0.42, C:0.13, G:0.14, T:0.30
Consensus pattern (64 bp):
ATTAAATTAAATTTTAAGCGAACCACTTGAAACTGCTATTGAAACATGAAATCAAATCGGTTGA
Found at i:16541616 original size:64 final size:64
Alignment explanation
Indices: 16541496--16541616 Score: 179
Period size: 64 Copynumber: 1.9 Consensus size: 64
16541486 GAGTTTTAAG
* * ** * *
16541496 CGAACCACTTGAAATTGCTATTGAAACATGAAATCAAATCGGTTGAATTAAATTAAATTTTGAA
1 CGAACCACTTGAAACTGCTATTGAAACATGAAATCAAACCGACTAAACTAAATTAAATTTTGAA
*
16541560 CGAACCACTTGAAACTGCTATTGAAACATGAAATCAAACCGACTAAACTAATTTAAA
1 CGAACCACTTGAAACTGCTATTGAAACATGAAATCAAACCGACTAAACTAAATTAAA
16541617 AAATCGATTG
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
64 50 1.00
ACGTcount: A:0.44, C:0.17, G:0.12, T:0.27
Consensus pattern (64 bp):
CGAACCACTTGAAACTGCTATTGAAACATGAAATCAAACCGACTAAACTAAATTAAATTTTGAA
Found at i:16543497 original size:17 final size:17
Alignment explanation
Indices: 16543446--16543498 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
16543436 TATGTTATAA
16543446 TTTATACTAATTAGATT
1 TTTATACTAATTAGATT
* * *
16543463 TTT-TAATTATAAGGATT
1 TTTATACTAATTA-GATT
*
16543480 TTTATACTAATTATATT
1 TTTATACTAATTAGATT
16543497 TT
1 TT
16543499 ATTATATTAA
Statistics
Matches: 27, Mismatches: 7, Indels: 4
0.71 0.18 0.11
Matches are distributed among these distances:
16 6 0.22
17 15 0.56
18 6 0.22
ACGTcount: A:0.34, C:0.04, G:0.06, T:0.57
Consensus pattern (17 bp):
TTTATACTAATTAGATT
Found at i:16551282 original size:92 final size:92
Alignment explanation
Indices: 16551103--16551314 Score: 264
Period size: 92 Copynumber: 2.3 Consensus size: 92
16551093 TAAGGGTGTA
* * * * *
16551103 AAAAGTCCTCAAACTTTTTCAAAAAAAGCAATTAAGCCCCTCTTTTTTTTTCTTTGCACTCCATT
1 AAAAGTCCTCAAACTTCTTCAAAAAAAGCAATTAAACCCCTCCTTTTTTTTCTTTCCACTCAATT
*
16551168 GAGCACTTGAACTTTCATAATGCATTG
66 GAGCACTTGAACTTTCAAAATGCATTG
* *
16551195 AAAAGTCTCTCAAACTTCTTCAAAAAAAGCAATTAAACTCCTCCTTTTTTTT-TTTCCATTCAAT
1 AAAAGTC-CTCAAACTTCTTCAAAAAAAGCAATTAAACCCCTCCTTTTTTTTCTTTCCACTCAAT
* * **
16551259 TGGGTACTTGAACTTTCAAAATGCATCA
65 TGAGCACTTGAACTTTCAAAATGCATTG
* * *
16551287 AAAAGACCATCAAAATTTTTCAAAAAAA
1 AAAAGTCC-TCAAACTTCTTCAAAAAAA
16551315 CAAATAAGGC
Statistics
Matches: 103, Mismatches: 15, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
91 1 0.01
92 62 0.60
93 40 0.39
ACGTcount: A:0.36, C:0.21, G:0.08, T:0.35
Consensus pattern (92 bp):
AAAAGTCCTCAAACTTCTTCAAAAAAAGCAATTAAACCCCTCCTTTTTTTTCTTTCCACTCAATT
GAGCACTTGAACTTTCAAAATGCATTG
Found at i:16551409 original size:19 final size:18
Alignment explanation
Indices: 16551371--16551414 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
16551361 TAATGAAATA
16551371 TAAAA-TTTAAATTTTAT
1 TAAAATTTTAAATTTTAT
* *
16551388 TAATATTTTAATTTTCTAT
1 TAAAATTTTAAATTT-TAT
16551407 TAAAATTT
1 TAAAATTT
16551415 AATAATATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 4 0.18
18 8 0.36
19 10 0.45
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (18 bp):
TAAAATTTTAAATTTTAT
Found at i:16561011 original size:5 final size:5
Alignment explanation
Indices: 16561001--16561036 Score: 63
Period size: 5 Copynumber: 7.2 Consensus size: 5
16560991 CTTACGTTGC
*
16561001 TATTT TATTT TATTC TATTT TATTT TATTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT TATTT TATTT T
16561037 TTGTTTGTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (5 bp):
TATTT
Found at i:16573113 original size:45 final size:44
Alignment explanation
Indices: 16573024--16573118 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
16573014 TTACACCTCT
*
16573024 ATTACATTCAACCAAACACAGGATTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACACAGGATTACTATTACACCTCTATTCC
*** *
16573068 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACACAGGA-TTACTATTACACCTCTATTCC
16573113 ATTACA
1 ATTACA
16573119 CCTCTAATCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 20 0.44
45 25 0.56
ACGTcount: A:0.34, C:0.27, G:0.06, T:0.33
Consensus pattern (44 bp):
ATTACATTCAACCAAACACAGGATTACTATTACACCTCTATTCC
Found at i:16573118 original size:16 final size:16
Alignment explanation
Indices: 16573099--16573150 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
16573089 GATTTGCTAT
* *
16573099 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
16573115 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
16573131 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
16573147 TACA
1 TACA
16573151 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:16573717 original size:18 final size:18
Alignment explanation
Indices: 16573694--16573732 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
16573684 TTTTGTTAGT
16573694 CAACATTCCATGTTTAAC
1 CAACATTCCATGTTTAAC
16573712 CAACATTCCATGTTTAAC
1 CAACATTCCATGTTTAAC
16573730 CAA
1 CAA
16573733 ACATAATCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.36, C:0.28, G:0.05, T:0.31
Consensus pattern (18 bp):
CAACATTCCATGTTTAAC
Found at i:16577493 original size:38 final size:38
Alignment explanation
Indices: 16577411--16577493 Score: 96
Period size: 38 Copynumber: 2.2 Consensus size: 38
16577401 GCCAAGCATG
* * *
16577411 CTCAAGTTACAAGTTAAGACAATCCGTAAGGACTTGTC
1 CTCAAGTTACAAGATAAGACAATCCATAAGGACATGTC
* * *
16577449 CTCAAGTTACAAGATAAGACAGTCTATAGGGACAT-TC
1 CTCAAGTTACAAGATAAGACAATCCATAAGGACATGTC
16577486 CTCCAAGT
1 CT-CAAGT
16577494 ATGAGTCCGC
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
37 4 0.11
38 34 0.89
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.25
Consensus pattern (38 bp):
CTCAAGTTACAAGATAAGACAATCCATAAGGACATGTC
Found at i:16578089 original size:32 final size:32
Alignment explanation
Indices: 16578053--16578113 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
16578043 ATATATATAT
*
16578053 ATATATATAAACATATATAGAGCAGGATAAAG
1 ATATATATAAACATAAATAGAGCAGGATAAAG
* * *
16578085 ATATATATAATCATAAATGGAGTAGGATA
1 ATATATATAAACATAAATAGAGCAGGATA
16578114 CAATGTCAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.51, C:0.05, G:0.16, T:0.28
Consensus pattern (32 bp):
ATATATATAAACATAAATAGAGCAGGATAAAG
Found at i:16578090 original size:2 final size:2
Alignment explanation
Indices: 16578031--16578071 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
16578021 AGAGAAAAGA
* *
16578031 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA AC AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
16578072 GAGCAGGATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:16580724 original size:36 final size:36
Alignment explanation
Indices: 16580684--16580756 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
16580674 GTTTTCCAAC
16580684 TAATTGTGCAACCCTCAATAGTAATGACATACCTTG
1 TAATTGTGCAACCCTCAATAGTAATGACATACCTTG
16580720 TAATTGTGCAACCCTCAATAGTAATGACATACCTTG
1 TAATTGTGCAACCCTCAATAGTAATGACATACCTTG
16580756 T
1 T
16580757 GAGAGATCTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.32
Consensus pattern (36 bp):
TAATTGTGCAACCCTCAATAGTAATGACATACCTTG
Found at i:16585269 original size:24 final size:24
Alignment explanation
Indices: 16585221--16585279 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
16585211 AGCAGATAGA
*
16585221 GCTTCATATTGATCATTAGGTGGT
1 GCTTCATATTGATCATTAGGAGGT
* *
16585245 GTTTGATATTGATC-TTCAGGAGGT
1 GCTTCATATTGATCATT-AGGAGGT
16585269 GCTTCATATTG
1 GCTTCATATTG
16585280 TTCAACTGAT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
23 2 0.07
24 27 0.93
ACGTcount: A:0.20, C:0.12, G:0.25, T:0.42
Consensus pattern (24 bp):
GCTTCATATTGATCATTAGGAGGT
Found at i:16586627 original size:6 final size:6
Alignment explanation
Indices: 16586618--16586648 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
16586608 CATGTACTTT
*
16586618 TTCTTA TTCTTG TTCTTA TTCTTA TTCTTA T
1 TTCTTA TTCTTA TTCTTA TTCTTA TTCTTA T
16586649 ACTTGTGTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.13, C:0.16, G:0.03, T:0.68
Consensus pattern (6 bp):
TTCTTA
Found at i:16586635 original size:12 final size:12
Alignment explanation
Indices: 16586618--16586654 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
16586608 CATGTACTTT
16586618 TTCTTATTCTTG
1 TTCTTATTCTTG
*
16586630 TTCTTATTCTTA
1 TTCTTATTCTTG
*
16586642 TTCTTATACTTG
1 TTCTTATTCTTG
16586654 T
1 T
16586655 GTTGTTAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.14, C:0.16, G:0.05, T:0.65
Consensus pattern (12 bp):
TTCTTATTCTTG
Found at i:16587639 original size:27 final size:27
Alignment explanation
Indices: 16587594--16587653 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
16587584 AATTTGACTA
* *
16587594 GTGAACCCCAGTTCACCAAACCAATTG
1 GTGAACCCCAGCTCACCAAACCAACTG
*
16587621 GTGAACCCCAGCTCGCCAAACCAACTG
1 GTGAACCCCAGCTCACCAAACCAACTG
*
16587648 GCGAAC
1 GTGAAC
16587654 ACAACTTGCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.32, C:0.37, G:0.18, T:0.13
Consensus pattern (27 bp):
GTGAACCCCAGCTCACCAAACCAACTG
Found at i:16588954 original size:21 final size:21
Alignment explanation
Indices: 16588928--16588980 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
16588918 AGCAGTGGTG
*
16588928 GTGAGATTAGTTACTATAGCA
1 GTGAGATTAGATACTATAGCA
* *
16588949 GTGAGATTGGATACTCTAGCA
1 GTGAGATTAGATACTATAGCA
16588970 GTGAGATTAGA
1 GTGAGATTAGA
16588981 AACAATAGTG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.32, C:0.09, G:0.28, T:0.30
Consensus pattern (21 bp):
GTGAGATTAGATACTATAGCA
Found at i:16594982 original size:35 final size:35
Alignment explanation
Indices: 16594901--16595193 Score: 239
Period size: 35 Copynumber: 8.3 Consensus size: 35
16594891 CGCCGGTCCT
* * *
16594901 TTTCAAATAACATCTCGCCACAACACCAAAACTTCTC
1 TTTCAATTAACATCTCGCCACAACACCGATAC-T-TC
16594938 TTTCAATTAACAGT-TCGCCACAACACCGATACTTC
1 TTTCAATTAACA-TCTCGCCACAACACCGATACTTC
* * *
16594973 TTTCAATTAACATCCCGCTACAACATCGATACTTC
1 TTTCAATTAACATCTCGCCACAACACCGATACTTC
* * * *
16595008 ATTCATTTAACATCCCACCACAACACCGATACTTC
1 TTTCAATTAACATCTCGCCACAACACCGATACTTC
* * * **
16595043 TTCCAATGAGCATCTCGCCACAACATTGATACTTC
1 TTTCAATTAACATCTCGCCACAACACCGATACTTC
* * * * * *
16595078 ATTCATTTAACATCCCACAACAACACCGATACTTA
1 TTTCAATTAACATCTCGCCACAACACCGATACTTC
* * * * *
16595113 TTTTAATTTAACGTAC-CACCACAACACCAATAGTTC
1 TTTCAA-TTAACAT-CTCGCCACAACACCGATACTTC
* * * **
16595149 TTTCAATTAACATCCCGTCACAAAATTGATACTTC
1 TTTCAATTAACATCTCGCCACAACACCGATACTTC
*
16595184 ATTCAATTAA
1 TTTCAATTAA
16595194 TATCAAGAAG
Statistics
Matches: 202, Mismatches: 49, Indels: 12
0.77 0.19 0.05
Matches are distributed among these distances:
34 2 0.01
35 143 0.71
36 28 0.14
37 28 0.14
38 1 0.00
ACGTcount: A:0.35, C:0.31, G:0.05, T:0.29
Consensus pattern (35 bp):
TTTCAATTAACATCTCGCCACAACACCGATACTTC
Found at i:16595177 original size:106 final size:105
Alignment explanation
Indices: 16594965--16595193 Score: 289
Period size: 106 Copynumber: 2.2 Consensus size: 105
16594955 CCACAACACC
* * * * * *
16594965 GATACTTCTTTCAATTAACATCCCGCTACAACATCGATACTTCATTCATTTAACATCCCACCACA
1 GATACTTCATTCAATTAACATCCCACAACAACACCGATACTTCATTAATTTAACATACCACCACA
* * * *
16595030 ACACCGATACTTCTTCCAATGAGCATCTCGCCACAACATT
66 ACACCAATACTTCTTCCAATGAACATCCCGCCACAAAATT
* *
16595070 GATACTTCATTCATTTAACATCCCACAACAACACCGATACTT-ATTTTAATTTAACGTACCACCA
1 GATACTTCATTCAATTAACATCCCACAACAACACCGATACTTCA--TTAATTTAACATACCACCA
* * * *
16595134 CAACACCAATAGTTCTTTCAATTAACATCCCGTCACAAAATT
64 CAACACCAATACTTCTTCCAATGAACATCCCGCCACAAAATT
16595176 GATACTTCATTCAATTAA
1 GATACTTCATTCAATTAA
16595194 TATCAAGAAG
Statistics
Matches: 105, Mismatches: 17, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
104 1 0.01
105 37 0.35
106 67 0.64
ACGTcount: A:0.34, C:0.30, G:0.06, T:0.30
Consensus pattern (105 bp):
GATACTTCATTCAATTAACATCCCACAACAACACCGATACTTCATTAATTTAACATACCACCACA
ACACCAATACTTCTTCCAATGAACATCCCGCCACAAAATT
Found at i:16600312 original size:10 final size:10
Alignment explanation
Indices: 16600278--16600333 Score: 58
Period size: 11 Copynumber: 5.2 Consensus size: 10
16600268 ACTAAATCCT
*
16600278 TTCTCTCAAT
1 TTCTCTCAAA
16600288 TTCTCTCTAATA
1 TTCTCTC-AA-A
16600300 TTCTCTCAAA
1 TTCTCTCAAA
*
16600310 TTCCTCGCAAA
1 TT-CTCTCAAA
16600321 TTCCTCTCAAA
1 TT-CTCTCAAA
16600332 TT
1 TT
16600334 TTTATTTAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
10 10 0.25
11 23 0.57
12 7 0.17
ACGTcount: A:0.25, C:0.30, G:0.02, T:0.43
Consensus pattern (10 bp):
TTCTCTCAAA
Found at i:16602189 original size:18 final size:18
Alignment explanation
Indices: 16602153--16602195 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
16602143 TGCCAGGTGC
* * *
16602153 GTATCCTAGCCTTTTTAT
1 GTATCCTAACCCTTATAT
16602171 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
16602189 GTTTCCT
1 GTATCCT
16602196 TTTTCTAGTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.19, C:0.26, G:0.09, T:0.47
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:16605026 original size:126 final size:126
Alignment explanation
Indices: 16604795--16605211 Score: 672
Period size: 126 Copynumber: 3.3 Consensus size: 126
16604785 CCAAACATGC
* * *
16604795 GCTACTGTAGCAAAAGCGCATTCACGTGGGAGCTTCTTTCAGTACTTCAGCTGACAAAGCATCCT
1 GCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCT
* * *
16604860 GCTTAAAGCGTTTTTGACACTATTTGCTTAGAAACGTCTACTCAAAATTAATTTTTCAAGA
66 GCTTAAAGCGTTTTTGACACTATTTGCTCAAAAACGTCTACTCGAAATTAATTTTTCAAGA
* *
16604921 GCTACTGTAGTAAAAGTGCGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCT
1 GCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCT
* * * *
16604986 GCTTAAAGCGTTTTCGACACTATTTGCTCAAAAACATCTACTCGAAATTACTTTTTCAGGA
66 GCTTAAAGCGTTTTTGACACTATTTGCTCAAAAACGTCTACTCGAAATTAATTTTTCAAGA
* * *
16605047 GCTACTGTAGCAAAAGCGCGTCCATGTGCGAGCTTCTTTCAGTACTTCTGTTGACAAAGCATCCT
1 GCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCT
* *
16605112 GGTTAAAGCGTTTTTGACACTATTTGCTCAAAAACGTCTACTCGAAATTATTTTTTCAAGA
66 GCTTAAAGCGTTTTTGACACTATTTGCTCAAAAACGTCTACTCGAAATTAATTTTTCAAGA
*
16605173 GCTACTGTAGCAAAAGTGCGTCCACGTGGGAGCTTCTTT
1 GCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTT
16605212 AAATTAACAA
Statistics
Matches: 266, Mismatches: 25, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
126 266 1.00
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (126 bp):
GCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCT
GCTTAAAGCGTTTTTGACACTATTTGCTCAAAAACGTCTACTCGAAATTAATTTTTCAAGA
Found at i:16605395 original size:96 final size:95
Alignment explanation
Indices: 16605244--16605519 Score: 331
Period size: 96 Copynumber: 2.9 Consensus size: 95
16605234 AGTAACCTTA
* *
16605244 AACCCCAAACCCTAATTTATTTAAGTTTTTACTTAAAAACCCTAAACACTAACCCTAAACTAA-T
1 AACCCTAAACCCTAATTTATTTGA-TTTTTACTTAAAAACCCTAAACACTAACCCTAAACTAATT
* * *
16605308 TTTATAAAAATTTATAATTAATTTACTCAAGT
65 TTTAAAAAAAATT-TAATTAAATTACTCAAGT
* * * *
16605340 AACCCTAAACCCTAATTTATTTGATTTTTCCTTAAAAACCCTTAACTCTAAACCCTAATCTAATT
1 AACCCTAAACCCTAATTTATTTGATTTTTACTTAAAAACCCTAAACACT-AACCCTAAACTAATT
16605405 TTTAAAAAAAATTTAATTAAATTACTCAAGT
65 TTTAAAAAAAATTTAATTAAATTACTCAAGT
* * *** * * * *
16605436 AACCCTAAACCCTAATTTAATTGATTTTTTCTTAAAAATAATAAACACGAAACCTAATCCAA-TT
1 AACCCTAAACCCTAATTTATTTGATTTTTACTTAAAAACCCTAAACACTAACCCTAAACTAATTT
*
16605500 TTGAAAAAAATTATAATTAA
66 TTAAAAAAAATT-TAATTAA
16605520 TTTAGTTGAC
Statistics
Matches: 157, Mismatches: 20, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
94 13 0.08
95 40 0.25
96 92 0.59
97 12 0.08
ACGTcount: A:0.43, C:0.18, G:0.03, T:0.36
Consensus pattern (95 bp):
AACCCTAAACCCTAATTTATTTGATTTTTACTTAAAAACCCTAAACACTAACCCTAAACTAATTT
TTAAAAAAAATTTAATTAAATTACTCAAGT
Found at i:16617041 original size:27 final size:27
Alignment explanation
Indices: 16617011--16617076 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
16617001 ACCTACCATT
* * *
16617011 CCTTCAAAGTTTACCATACATACTATC
1 CCTTCAGAGTTCACCACACATACTATC
* * *
16617038 CCTTTAGTGTTCGCCACACATACTATC
1 CCTTCAGAGTTCACCACACATACTATC
16617065 CCTTCAGAGTTC
1 CCTTCAGAGTTC
16617077 GTCAAGAATA
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.26, C:0.32, G:0.09, T:0.33
Consensus pattern (27 bp):
CCTTCAGAGTTCACCACACATACTATC
Found at i:16617192 original size:53 final size:53
Alignment explanation
Indices: 16617135--16617315 Score: 190
Period size: 53 Copynumber: 3.4 Consensus size: 53
16617125 CTTCAAATAG
* * *
16617135 TTGCCACAAGGGTTGTTCTTTTGTGTTCTCCACGAAGACATTCCTTTCATCAT
1 TTGCCACAAGGATTGTTCTTTTGTGTTCGCCACGAAGGCATTCCTTTCATCAT
* * *
16617188 TTGCCACAAGGATTTTTCTTTCCT-TAGATCGCCAC-AAGGC-TTCCATTTCAT-AGA
1 TTGCCACAAGGATTGTTCTTT--TGT-GTTCGCCACGAAGGCATTCC-TTTCATCA-T
* * * *
16617242 TTGCCACAAGGGTTGTTCTTTTGTGTGCGCTACGAAGGCATTTCTTTCATCAT
1 TTGCCACAAGGATTGTTCTTTTGTGTTCGCCACGAAGGCATTCCTTTCATCAT
*
16617295 TTGCCACAAGGATTTTTCTTT
1 TTGCCACAAGGATTGTTCTTT
16617316 CCTTAGATTG
Statistics
Matches: 104, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
52 7 0.07
53 55 0.53
54 34 0.33
55 8 0.08
ACGTcount: A:0.20, C:0.23, G:0.18, T:0.39
Consensus pattern (53 bp):
TTGCCACAAGGATTGTTCTTTTGTGTTCGCCACGAAGGCATTCCTTTCATCAT
Found at i:16617251 original size:54 final size:54
Alignment explanation
Indices: 16617188--16617357 Score: 199
Period size: 54 Copynumber: 3.2 Consensus size: 54
16617178 CTTTCATCAT
16617188 TTGCCACAAGGATTTTTCTTTCCTTAGATCGCCACAAGGCTTCCATTTCATAGA
1 TTGCCACAAGGATTTTTCTTTCCTTAGATCGCCACAAGGCTTCCATTTCATAGA
* * * * *
16617242 TTGCCACAAGGGTTGTTCTTT--TGT-G-TGCGCTACGAAGGCATTTC-TTTCATCA-T
1 TTGCCACAAGGATTTTTCTTTCCT-TAGAT-CGCCAC-AAGGC-TTCCATTTCAT-AGA
*
16617295 TTGCCACAAGGATTTTTCTTTCCTTAGATTGCCACAAGGCTTCCATTTCATAGA
1 TTGCCACAAGGATTTTTCTTTCCTTAGATCGCCACAAGGCTTCCATTTCATAGA
16617349 TTGCCACAA
1 TTGCCACAA
16617358 AGGCTTCCAT
Statistics
Matches: 94, Mismatches: 11, Indels: 22
0.74 0.09 0.17
Matches are distributed among these distances:
51 1 0.01
52 7 0.07
53 35 0.37
54 44 0.47
55 6 0.06
56 1 0.01
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.36
Consensus pattern (54 bp):
TTGCCACAAGGATTTTTCTTTCCTTAGATCGCCACAAGGCTTCCATTTCATAGA
Done.