Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006103.1 Hibiscus syriacus cultivar Beakdansim tig00014463_pilon, 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: 206028
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:3842 original size:39 final size:35
Alignment explanation
Indices: 3757--3829 Score: 94
Period size: 35 Copynumber: 2.0 Consensus size: 35
3747 TATAAATAAA
*
3757 AAATTATGATTTTATATTTATTAAATAAAATTATTAT
1 AAATTAT-A-TTTATATTTATTAAATAAAATAATTAT
3794 AAATTATATTTAT-TTTATTATAATAAGAATAATTAT
1 AAATTATATTTATATTTATTA-AATAA-AATAATTAT
3830 CATTAATTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
34 7 0.21
35 10 0.30
36 9 0.27
37 7 0.21
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.51
Consensus pattern (35 bp):
AAATTATATTTATATTTATTAAATAAAATAATTAT
Found at i:3844 original size:30 final size:31
Alignment explanation
Indices: 3795--3856 Score: 83
Period size: 30 Copynumber: 2.0 Consensus size: 31
3785 AATTATTATA
* *
3795 AATTATATTTATTTTATTATAAT-A-AGAAT
1 AATTATATTAATTATATTATAATGAGAGAAT
3824 AATTATCATTAATTATATTATAATGAGAGAAT
1 AATTAT-ATTAATTATATTATAATGAGAGAAT
3856 A
1 A
3857 GTTAAACATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 6 0.21
30 15 0.54
31 1 0.04
32 6 0.21
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (31 bp):
AATTATATTAATTATATTATAATGAGAGAAT
Found at i:4531 original size:23 final size:22
Alignment explanation
Indices: 4505--4549 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
4495 ATTTAATTAT
* *
4505 TTATGTCAATATTTATTAAAATA
1 TTATATCAATAATT-TTAAAATA
*
4528 TTATATCTATAATTTTAAAATA
1 TTATATCAATAATTTTAAAATA
4550 AAAAATTATG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.49
Consensus pattern (22 bp):
TTATATCAATAATTTTAAAATA
Found at i:4542 original size:24 final size:22
Alignment explanation
Indices: 4479--4549 Score: 65
Period size: 22 Copynumber: 3.2 Consensus size: 22
4469 TAATTTATTT
*
4479 AATATTATT-TATAATTATTTA
1 AATATTATTCTATAATTATTAA
* * *
4500 ATTATTTATGTCAATATTTATTAA
1 AATA-TTAT-TCTATAATTATTAA
4524 AATATTATATCTATAATT-TTAA
1 AATATTAT-TCTATAATTATTAA
4546 AATA
1 AATA
4550 AAAAATTATG
Statistics
Matches: 39, Mismatches: 8, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
21 3 0.08
22 12 0.31
23 12 0.31
24 12 0.31
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.52
Consensus pattern (22 bp):
AATATTATTCTATAATTATTAA
Found at i:4588 original size:30 final size:28
Alignment explanation
Indices: 4521--4603 Score: 82
Period size: 27 Copynumber: 2.9 Consensus size: 28
4511 CAATATTTAT
*
4521 TAAAATATTATATCTATAATTTTA--AAA
1 TAAAATATTATATTTAT-ATTTTATTAAA
*
4548 TAAAAAATTATGATTTATATTTTATTAAA
1 TAAAATATTAT-ATTTATATTTTATTAAA
*
4577 TAAAATTATTATAAATTATA-TTTATTA
1 TAAAA-TATTAT-ATTTATATTTTATTA
4604 TTATTATAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
27 16 0.34
28 5 0.11
29 15 0.32
30 11 0.23
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (28 bp):
TAAAATATTATATTTATATTTTATTAAA
Found at i:4839 original size:794 final size:789
Alignment explanation
Indices: 3689--5540 Score: 2477
Period size: 795 Copynumber: 2.3 Consensus size: 789
3679 AAATATCAGA
3689 ATAATTTATTTAATATTATTTATGTCATATTATTATTAAAATATTATATCTATAATTTTATAAAT
1 ATAA-TTATTT-A-ATTATTTATGTCATA-T-TTATTAAAATATTATATCTATAATTTTATAAAT
3754 AAAAAATTATGATTT-TATATTTATTAAATAAAATTATTATAAATTATATTTATTTTATTATAAT
61 AAAAAATTATGATTTATAT-TTTATTAAATAAAATTATTATAAATTATATTTATTTTATTATAAT
*
3818 AAGAATAAT-TATCATTAATTATATTATAATGAGAGAATAGTTAAACATATGCGTCGATACATTT
125 AAGAATAATATATCATTAATTATATTATAATGAGAGAATAGTTAAACATATGTGTCGATACA-TT
* * *
3882 TGCTAAAAGTATCGAAAATATGTTACATCGAAACCGAT-ATTATAATATAATAGGTAAATTTACA
189 T-CTAAAAGTATCG-ACACATGTTACATCGAAACTGATAATTATAATATAATAGGTAAATTTACA
*
3946 ATGTAACTGGTATACACAATAATAAAACCGATAAAAATTACCGAAAACATCATTATTTTAACAAA
252 ATGTAACTGGTATACACAATAATAAAACCGATAAAAATTACCAAAAACATCATTATTTTAACAAA
*
4011 ACCGGTAAAGCGCTATCGATTTTGTTATTTTTACCGGTTTTGTTATTGTTTGGCATTTTACC-AA
317 ACCGGTAAAGCGCTATCGATTTTGTTATTTTTACCGGTTTTGTTATTGTTGGGCATTTTACCGAA
*
4075 ATGTTAAAAAACATTGATGTTTTAGGTAGAAATAATAATGTTTTAGGTAATTTTTA-C-TGGTTT
382 ATGTT-AAAAACATTGATGTTTTAGGTAGAAATAATAATATTTTAGGTAA-TTTTACCGTGGTTT
* *
4138 TGTTATGCC-C-AAC-A-ATAACAA-AAC-CGA-TAAAAATAGACTTTTTAATGATAAAATTAGT
445 TGTTATGCCACAAACAACATAACAATAACACCAGTAAAAATAGACTTTTTAATAATAAAATTAGT
* *
4196 -AA-ACAAATTATACAAATTAATTTTAA-TTTTTAGTTTGTAAGTTATCACAATATAACTAATGA
510 AAACACAAACTATAC-AATTAATTTTAATTTTTTAGTTTGTAAGTTACCACAATATAACTAATGA
* **
4258 AAAAAGGAC-ACGTATTTCAATTTCGATATTAGCTTTCTATTAATAAAATAAAAAAATAAAAAAA
574 AAAAAGAACAAAATATTTCAATTTCGATATTAGCTTTC------T--AAT-AAAAAAT-AAAAAA
* * *
4322 TTTATATATAATTACAATATAA-TTTAAAAAA-AATCATAATGAAGTGATG-AAAATAATAATAA
629 -TTATATATAATTACAATATAATTTTAAAAAATAATCATAATAAAGCGATGAAAAAAAATAATAA
* *
4384 TTAGAATATAACTATAAACATCAAATACAATAAAAAATATTATTTATTAA-AAAATAATAATATT
693 TTACAATATAACTACAAACATCAAATACAATAAAAAATATTATTTATTAACAAAATAATAATATT
* *
4448 ATTATTTTTAAAATATTAGAATAATTTATTTAATATTATTT
758 ATT-TTGTT-AAATATT--AA-AATTT-TTT--TAATA-TT
4489 ATAATTATTTAATTATTTATGTCAATATTTATTAAAATATTATATCTATAATTTTA-AAATAAAA
1 ATAATTATTTAATTATTTATGTC-ATATTTATTAAAATATTATATCTATAATTTTATAAATAAAA
*
4553 AATTATGATTTATATTTTATTAAATAAAATTATTATAAATTATATTTATTATTATTATAATAATA
65 AATTATGATTTATATTTTATTAAATAAAATTATTATAAATTATATTTATT-TTATTATAATAAGA
*
4618 ATAATATATCATTAATTATATTATAATGAGAGAATAGTT-AACATATGTGTAGATACATTTCTAA
129 ATAATATATCATTAATTATATTATAATGAGAGAATAGTTAAACATATGTGTCGATACATTTCTAA
4682 AAGTATCGACACATGTTACATCGAAACTGATAATTATAATATAATAGGTAAATTTACAATGT-AC
194 AAGTATCGACACATGTTACATCGAAACTGATAATTATAATATAATAGGTAAATTTACAATGTAAC
* * *
4746 CGGTATACAACAATAA-CAAACCGGTAAAAATTACCAAAAACATCATTATTTTAACAAAACC-GT
259 TGGTATAC-ACAATAATAAAACCGATAAAAATTACCAAAAACATCATTATTTTAACAAAACCGGT
*
4809 AAAGCGCTA-CAGGTTTTGTTATTTTTTTACCGGTTTTGTTATTGTTGGGCATTTTACCGGAAAT
323 AAAGCGCTATC-GATTTTGTTA--TTTTTACCGGTTTTGTTATTGTTGGGCATTTTACC-GAAAT
* *
4873 GTTAAAAATATTGATGTTTTAGGTAGAAATAATAATATTTTAGGTAATTTTACCGGTTTTGTTTT
384 GTTAAAAACATTGATGTTTTAGGTAGAAATAATAATATTTTAGGTAATTTTACC-G--TGGTTTT
4938 GTTATGCCTAACAATAACAAAACATAACAATAACAAAACCAGTAAAAATAGACTTTTTAATAATA
446 GTTATGCC--AC-A-AAC--AACATAACAATAAC---ACCAGTAAAAATAGACTTTTTAATAATA
* *
5003 AAATTAGTAAACACAAACTATACAATTAATTTTAATTTTTTAGTTTGTAAGTTGCCACAATCTAA
502 AAATTAGTAAACACAAACTATACAATTAATTTTAATTTTTTAGTTTGTAAGTTACCACAATATAA
* *
5068 CTAATGAAAAAATAACAAAATATTTCTATTTCGATATTAGCTTTCTAATAAAAAATAAAAAATTA
567 CTAATGAAAAAAGAACAAAATATTTCAATTTCGATATTAGCTTTCTAATAAAAAATAAAAAATTA
*
5133 TATATAATTACAATATAATTTTAAAAAATAATCATAATAAAGCGATGAAAAAAAATCATAATTAC
632 TATATAATTACAATATAATTTTAAAAAATAATCATAATAAAGCGATGAAAAAAAATAATAATTAC
* *
5198 AATATAATTACAAACATCAAATACAATAAATAATATTATTTATTAACAAAATAATAATATTATTT
697 AATATAACTACAAACATCAAATACAATAAAAAATATTATTTATTAACAAAATAATAATATTATTT
5263 TGTTAAATATTAAAATTTTTTTAATATT
762 TGTTAAATATTAAAATTTTTTTAATATT
* *
5291 AT--TTATGTCA--A--TA--T--T-TTTATTAAAATA-T-TATCTATAATTTTATAAAT-AAAA
1 ATAATTATTTAATTATTTATGTCATATTTATTAAAATATTATATCTATAATTTTATAAATAAAAA
*
5342 ATTATAATTATTATATTTTATTAAAATAAAATTATTAT-AATTATA-TTATTTTTATTATAATAA
66 ATTATGA-T-TTATATTTTATT-AAATAAAATTATTATAAATTATATTTA-TTTTATTATAATAA
* *
5405 GAAT-A-ATATCATTAATTATATTATAATAAGAG-ATAATTAAACATATGTGTCGATACATTTCT
127 GAATAATATATCATTAATTATATTATAATGAGAGAATAGTTAAACATATGTGTCGATACATTTCT
*
5467 AAAAGTATCGACACATATGTTACATCG-AACTGATAATTATAATGTAATAGGT-AATTTACAATG
192 AAAAGTATCGACAC--ATGTTACATCGAAACTGATAATTATAATATAATAGGTAAATTTACAATG
5530 TAACTGGTATA
255 TAACTGGTATA
5541 AATATACCGG
Statistics
Matches: 958, Mismatches: 45, Indels: 110
0.86 0.04 0.10
Matches are distributed among these distances:
786 5 0.01
787 74 0.08
788 57 0.06
789 35 0.04
790 33 0.03
791 17 0.02
792 20 0.02
793 71 0.07
794 89 0.09
795 100 0.10
796 74 0.08
797 46 0.05
798 5 0.01
799 20 0.02
800 10 0.01
802 5 0.01
803 4 0.00
805 6 0.01
806 5 0.01
807 23 0.02
808 16 0.02
809 37 0.04
810 67 0.07
811 17 0.02
812 1 0.00
814 2 0.00
815 30 0.03
816 14 0.01
817 50 0.05
818 25 0.03
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (789 bp):
ATAATTATTTAATTATTTATGTCATATTTATTAAAATATTATATCTATAATTTTATAAATAAAAA
ATTATGATTTATATTTTATTAAATAAAATTATTATAAATTATATTTATTTTATTATAATAAGAAT
AATATATCATTAATTATATTATAATGAGAGAATAGTTAAACATATGTGTCGATACATTTCTAAAA
GTATCGACACATGTTACATCGAAACTGATAATTATAATATAATAGGTAAATTTACAATGTAACTG
GTATACACAATAATAAAACCGATAAAAATTACCAAAAACATCATTATTTTAACAAAACCGGTAAA
GCGCTATCGATTTTGTTATTTTTACCGGTTTTGTTATTGTTGGGCATTTTACCGAAATGTTAAAA
ACATTGATGTTTTAGGTAGAAATAATAATATTTTAGGTAATTTTACCGTGGTTTTGTTATGCCAC
AAACAACATAACAATAACACCAGTAAAAATAGACTTTTTAATAATAAAATTAGTAAACACAAACT
ATACAATTAATTTTAATTTTTTAGTTTGTAAGTTACCACAATATAACTAATGAAAAAAGAACAAA
ATATTTCAATTTCGATATTAGCTTTCTAATAAAAAATAAAAAATTATATATAATTACAATATAAT
TTTAAAAAATAATCATAATAAAGCGATGAAAAAAAATAATAATTACAATATAACTACAAACATCA
AATACAATAAAAAATATTATTTATTAACAAAATAATAATATTATTTTGTTAAATATTAAAATTTT
TTTAATATT
Found at i:4967 original size:16 final size:16
Alignment explanation
Indices: 4946--4976 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
4936 TTGTTATGCC
4946 TAACAATAACAAAACA
1 TAACAATAACAAAACA
4962 TAACAATAACAAAAC
1 TAACAATAACAAAAC
4977 CAGTAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.68, C:0.19, G:0.00, T:0.13
Consensus pattern (16 bp):
TAACAATAACAAAACA
Found at i:5375 original size:30 final size:29
Alignment explanation
Indices: 5317--5393 Score: 84
Period size: 33 Copynumber: 2.4 Consensus size: 29
5307 TTATTAAAAT
5317 ATTATCTATAATTTTATAAATAAAAATTATA
1 ATTAT-TAT-ATTTTATAAATAAAAATTATA
5348 ATTATTATATTTTATTAAAATAAAATTATTATA
1 ATTATTATATTTTA-T-AAATAAAA--ATTATA
5381 ATTA-TATTATTTT
1 ATTATTA-TATTTT
5394 TATTATAATA
Statistics
Matches: 41, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
29 6 0.15
30 4 0.10
31 13 0.32
32 2 0.05
33 16 0.39
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (29 bp):
ATTATTATATTTTATAAATAAAAATTATA
Found at i:5418 original size:29 final size:29
Alignment explanation
Indices: 5378--5441 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
5368 TAAAATTATT
* *
5378 ATAATTATATTATTTTTATTATAATAAGA-
1 ATAA-TATATTAATTATATTATAATAAGAG
5407 ATAATATCATTAATTATATTATAATAAGAG
1 ATAATAT-ATTAATTATATTATAATAAGAG
5437 ATAAT
1 ATAAT
5442 TAAACATATG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
28 3 0.10
29 23 0.74
30 5 0.16
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.45
Consensus pattern (29 bp):
ATAATATATTAATTATATTATAATAAGAG
Found at i:5421 original size:38 final size:35
Alignment explanation
Indices: 5350--5429 Score: 99
Period size: 34 Copynumber: 2.2 Consensus size: 35
5340 AAATTATAAT
*
5350 TATTATATTTTATTAAAATAAAATTATTATAATTA
1 TATTATATTTTATTAAAATAAAATTATCATAATTA
*
5385 TATTAT-TTTTATTATAATAAGAATAATATCATTAATTA
1 TATTATATTTTATTAAAATAA-AAT--TATCA-TAATTA
5423 TATTATA
1 TATTATA
5430 ATAAGAGATA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
34 13 0.34
35 9 0.24
37 4 0.11
38 12 0.32
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (35 bp):
TATTATATTTTATTAAAATAAAATTATCATAATTA
Found at i:5711 original size:197 final size:194
Alignment explanation
Indices: 5488--5958 Score: 569
Period size: 194 Copynumber: 2.4 Consensus size: 194
5478 CACATATGTT
* *
5488 ACATCG-AACTGATAATTATAATGTAATAGGT-AATTTACAATGTAACTGGTATAAATATACCGG
1 ACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGG
* * *
5551 TTTTATAAGATAATATGTTAACATAATGTATCGAAACAAATTTA-AAAAGTGTCGATAC-TTTTG
66 TTTT-TAAGAAAATA-GGT-ACATAATATATCG--ACAAATTTATAAAAGTGTCGATACTTTTTG
*
5614 TCCATAATGAAT-GCCAAACGAGGTGCACGCATAAAGTGTCGATACATTTATTAAAAGTATCAAT
126 TCCATAATGAATGGCC-AACAAGGTGCACGCATAAAGTGTCGATACATTTA--AAAAGTATCAAT
5678 CCC-AAA
188 CCCAAAA
* * * * *
5684 ACATCGAAACCGATAATTACAATGTAATAGGTAAATTTACAATGTACCCGGTAGAAATATATCAG
1 ACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGG
* * * **** *
5749 TTTTTGAGAAAATAGGTATATAATATATCGACACATTTATGTTTGTGTCGATACTTTTTTTCCAT
66 TTTTTAAGAAAATAGGTACATAATATATCGACAAATTTATAAAAGTGTCGATACTTTTTGTCCAT
* ** *
5814 AATGAATGGCCAACAAGGTGCACGCCTAAAGTGTCGATACATTTAAATTGTATCGATCCCAAAA
131 AATGAATGGCCAACAAGGTGCACGCATAAAGTGTCGATACATTTAAAAAGTATCAATCCCAAAA
* * *
5878 ACATCGAAACCGATGATTATAATGTAATAGGTAAATTTACAATATTACCGGTATAAATATACCGG
1 ACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGG
5943 TTTAGTT-AGAAAATAG
66 TTT--TTAAGAAAATAG
5959 TCAATATAAG
Statistics
Matches: 236, Mismatches: 31, Indels: 17
0.83 0.11 0.06
Matches are distributed among these distances:
193 20 0.08
194 73 0.31
195 68 0.29
196 13 0.06
197 31 0.13
198 31 0.13
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.31
Consensus pattern (194 bp):
ACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGG
TTTTTAAGAAAATAGGTACATAATATATCGACAAATTTATAAAAGTGTCGATACTTTTTGTCCAT
AATGAATGGCCAACAAGGTGCACGCATAAAGTGTCGATACATTTAAAAAGTATCAATCCCAAAA
Found at i:6132 original size:64 final size:64
Alignment explanation
Indices: 5972--6189 Score: 361
Period size: 64 Copynumber: 3.5 Consensus size: 64
5962 ATATAAGTGC
** * *
5972 TACCTATTACATTATA-AA-CGCTACCTAATATGTTATTGTACTTTATAATATTTTCGGTT-AA
1 TACCTATTTTATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTTCCGGTTAAA
6033 TACCTATTTTATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTTCCGGTTAAA
1 TACCTATTTTATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTTCCGGTTAAA
*
6097 TACCTATTTTATTATATAAGTGCTACCTAATATGTTATTGTACTTGATAATATTTCCGGTTAAA
1 TACCTATTTTATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTTCCGGTTAAA
*
6161 TACCTATTTTATTATATAAGCGATACCTA
1 TACCTATTTTATTATATAAGCGCTACCTA
6190 TTACTTATAT
Statistics
Matches: 147, Mismatches: 7, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
61 14 0.10
62 2 0.01
63 39 0.27
64 92 0.63
ACGTcount: A:0.32, C:0.14, G:0.10, T:0.44
Consensus pattern (64 bp):
TACCTATTTTATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTTCCGGTTAAA
Found at i:6186 original size:23 final size:22
Alignment explanation
Indices: 6160--6220 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 22
6150 TTCCGGTTAA
6160 ATACCTATTTTATTATATAAGCG
1 ATACCTA-TTTATTATATAAGCG
6183 ATACCTA-TTACTTATATAAGCG
1 ATACCTATTTA-TTATATAAGCG
* *
6205 TTACCTAATATATTAT
1 ATACCT-ATTTATTAT
6221 TGTACTTGAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
21 3 0.09
22 16 0.48
23 12 0.36
24 2 0.06
ACGTcount: A:0.36, C:0.15, G:0.07, T:0.43
Consensus pattern (22 bp):
ATACCTATTTATTATATAAGCG
Found at i:6211 original size:86 final size:85
Alignment explanation
Indices: 6096--6328 Score: 294
Period size: 83 Copynumber: 2.8 Consensus size: 85
6086 TTCCGGTTAA
* *
6096 ATACCTATTTTATTATATAAGTGCTACCTAATATGTTATTGTACTTGATAATATTTCCGGTTAAA
1 ATACCTA-TTAATTATATAAGCGCTACCTAATATGTTATTGTACTTGA-AATATTTCCGGTTAAA
*
6161 TACCTATTTTATTATATAAGCG
64 TACATATTTTATTATATAAGCG
* * * *
6183 ATACCTATTACTTATATAAGCGTTACCTAATATATTATTGTACTTG--ATATTTCAGGTTAAATA
1 ATACCTATTAATTATATAAGCGCTACCTAATATGTTATTGTACTTGAAATATTTCCGGTTAAATA
6246 CATATTTTATTATATAAGCG
66 CATATTTTATTATATAAGCG
* * * * * *
6266 TTACCTATTAATTATATAAACGCTACTTAATATG--ATTATACTTAAAAATATTTTCGGTTAAAT
1 ATACCTATTAATTATATAAGCGCTACCTAATATGTTATTGTACTT-GAAATATTTCCGGTTAAAT
6329 GAATAACCAA
Statistics
Matches: 126, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
81 8 0.06
83 63 0.50
84 14 0.11
86 34 0.27
87 7 0.06
ACGTcount: A:0.35, C:0.12, G:0.09, T:0.44
Consensus pattern (85 bp):
ATACCTATTAATTATATAAGCGCTACCTAATATGTTATTGTACTTGAAATATTTCCGGTTAAATA
CATATTTTATTATATAAGCG
Found at i:9864 original size:19 final size:19
Alignment explanation
Indices: 9842--9881 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
9832 TAATTGTAAT
9842 TAACCCTTTTCACCATTGG
1 TAACCCTTTTCACCATTGG
*
9861 TAACTCTTTTCACCATTGG
1 TAACCCTTTTCACCATTGG
9880 TA
1 TA
9882 CTTCTAGTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.23, C:0.28, G:0.10, T:0.40
Consensus pattern (19 bp):
TAACCCTTTTCACCATTGG
Found at i:11613 original size:13 final size:13
Alignment explanation
Indices: 11595--11620 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11585 TCTTAATTTT
11595 TTTAAAAATTAAA
1 TTTAAAAATTAAA
11608 TTTAAAAATTAAA
1 TTTAAAAATTAAA
11621 AATATTATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TTTAAAAATTAAA
Found at i:12176 original size:36 final size:34
Alignment explanation
Indices: 12134--12202 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
12124 ATAATACCCC
12134 TCTATATATAATTTTTTTCAATTAAGTCACTGTT
1 TCTATATATAATTTTTTTCAATTAAGTCACTGTT
12168 TCTATATATAATTTTTTTCAATTAAGTCACTGTT
1 TCTATATATAATTTTTTTCAATTAAGTCACTGTT
12202 T
1 T
12203 TTATTGAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.54
Consensus pattern (34 bp):
TCTATATATAATTTTTTTCAATTAAGTCACTGTT
Found at i:22379 original size:4 final size:4
Alignment explanation
Indices: 22370--22402 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
22360 GTGTGGTTCA
*
22370 AATT AATT AATT AATT AATT AATT AACT AATT A
1 AATT AATT AATT AATT AATT AATT AATT AATT A
22403 TGCTTTTGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (4 bp):
AATT
Found at i:27226 original size:3 final size:3
Alignment explanation
Indices: 27218--27249 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
27208 AATCAAAGGT
27218 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
27250 TATTGTTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:27999 original size:24 final size:24
Alignment explanation
Indices: 27952--28016 Score: 80
Period size: 24 Copynumber: 2.8 Consensus size: 24
27942 AAATATATTT
* **
27952 GTGAACAT-TAATTGAACATGTTC
1 GTGAACATATAAATGAACACATTC
27975 GTGAACATATAAATGAACACATTC
1 GTGAACATATAAATGAACACATTC
*
27999 GTGAACA-ATAAATAAACA
1 GTGAACATATAAATGAACA
28017 GACATCTTCA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
23 18 0.49
24 19 0.51
ACGTcount: A:0.46, C:0.14, G:0.14, T:0.26
Consensus pattern (24 bp):
GTGAACATATAAATGAACACATTC
Found at i:28016 original size:23 final size:24
Alignment explanation
Indices: 27972--28016 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
27962 ATTGAACATG
*
27972 TTCGTGAACATATAAATGAACACA
1 TTCGTGAACATATAAATAAACACA
27996 TTCGTGAACA-ATAAATAAACA
1 TTCGTGAACATATAAATAAACA
28017 GACATCTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.49, C:0.16, G:0.11, T:0.24
Consensus pattern (24 bp):
TTCGTGAACATATAAATAAACACA
Found at i:28507 original size:245 final size:244
Alignment explanation
Indices: 28018--28505 Score: 960
Period size: 245 Copynumber: 2.0 Consensus size: 244
28008 AAATAAACAG
28018 ACATCTTCAAAAATAAATAAATGAGTATGAATATAATATTAAAAATTTAAACGAATATCAACCGA
1 ACATCTTCAAAAATAAATAAATGAGTATGAATATAATATTAAAAATTTAAACGAATATCAACCGA
28083 ACACAAGCATCTTAAAAAATAAATAAACAAACACAAACATAACCTTATTCGTTCAAGCTCGATTT
66 ACACAAGCATCTTAAAAAATAAATAAACAAACACAAACATAACCTTATTCGTTCAAGCTCGATTT
28148 ATTTACACCCATGCTTAAACCACTCTACCAGGGACCAATATTAACCAAGGAAGTAGCAAAAATAC
131 ATTTACACCCATGCTTAAACCACTCTACCAGGGACCAATATTAACCAAGGAAGTAGCAAAAATAC
28213 AAATCATGTGATTTTAATCATATCATTTTCATTGCTTTTTATTCCCCCCC
196 AAATCATGTGATTTTAATCA-ATCATTTTCATTGCTTTTTATTCCCCCCC
28263 ACATCTTCAAAAATAAATAAATGAGTATGAATATAATATTAAAAATTTAAACGAATATCAACCGA
1 ACATCTTCAAAAATAAATAAATGAGTATGAATATAATATTAAAAATTTAAACGAATATCAACCGA
28328 ACACAAGCATCTTAAAAAATAAATAAACAAACACAAACATAACCTTATTCGTTCAAGCTCGATTT
66 ACACAAGCATCTTAAAAAATAAATAAACAAACACAAACATAACCTTATTCGTTCAAGCTCGATTT
28393 ATTTACACCCATGCTTAAACCACTCTACCAGGGACCAATATTAACCAAGGAAGTAGCAAAAATAC
131 ATTTACACCCATGCTTAAACCACTCTACCAGGGACCAATATTAACCAAGGAAGTAGCAAAAATAC
28458 AAATCATGTGATTTTAATC-ATCATTTTCATTGCTTTTTATTCCCCCCC
196 AAATCATGTGATTTTAATCAATCATTTTCATTGCTTTTTATTCCCCCCC
28506 CCCCCCCGAG
Statistics
Matches: 243, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
243 29 0.12
245 214 0.88
ACGTcount: A:0.43, C:0.20, G:0.08, T:0.28
Consensus pattern (244 bp):
ACATCTTCAAAAATAAATAAATGAGTATGAATATAATATTAAAAATTTAAACGAATATCAACCGA
ACACAAGCATCTTAAAAAATAAATAAACAAACACAAACATAACCTTATTCGTTCAAGCTCGATTT
ATTTACACCCATGCTTAAACCACTCTACCAGGGACCAATATTAACCAAGGAAGTAGCAAAAATAC
AAATCATGTGATTTTAATCAATCATTTTCATTGCTTTTTATTCCCCCCC
Found at i:30090 original size:23 final size:23
Alignment explanation
Indices: 30064--30111 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
30054 ATAAAGTACA
*
30064 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
30087 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
30110 AT
1 AT
30112 TTACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:30517 original size:21 final size:22
Alignment explanation
Indices: 30492--30543 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
30482 ACACTTTACA
*
30492 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
30515 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
30538 ATATAA
1 ATATAA
30544 GGGCTACCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:30528 original size:23 final size:23
Alignment explanation
Indices: 30502--30564 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
30492 ATATAACCAC
30502 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
30525 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
30548 TACCTATTACATCATAT
1 TACCTATTACATTATAT
30565 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:30857 original size:428 final size:431
Alignment explanation
Indices: 30223--31280 Score: 2052
Period size: 428 Copynumber: 2.5 Consensus size: 431
30213 AGATCGATAC
30223 TTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATT
1 TTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATT
30288 ATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTAATAATAATATATATC
66 ATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTAATAATAATATATATC
30353 GTAACGT-AAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
131 GTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
30417 AAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAG
196 AAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAG
30482 ACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGGG
261 ACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGGG
30547 CTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATC
326 CTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATC
30612 GATAC-TTTTTTAAAACTTATGTAATTTATGTTTCAA-TTT
391 GATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTT
30651 TTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATT
1 TTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATT
*
30716 ATTTGATT-ATTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTAATAATAATATATATC
66 ATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTAATAATAATATATATC
30780 GTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
131 GTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
30845 AAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAG
196 AAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAG
30910 ACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGGG
261 ACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGGG
*
30975 CTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATAGTTTTTATAAAAAGGATC
326 CTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATC
*
31040 GATACTTTTTTTAAAAGTTATGTAATTTATGTTTCAATTTT
391 GATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTT
31081 TTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATT
1 TTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATT
*
31146 ATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTAATAATAATATATACC
66 ATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTAATAATAATATATATC
31211 GTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
131 GTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
31276 AAGAT
196 AAGAT
31281 GTATATACCT
Statistics
Matches: 621, Mismatches: 5, Indels: 5
0.98 0.01 0.01
Matches are distributed among these distances:
427 62 0.10
428 329 0.53
429 30 0.05
430 76 0.12
431 124 0.20
ACGTcount: A:0.40, C:0.13, G:0.08, T:0.40
Consensus pattern (431 bp):
TTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATT
ATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTAATAATAATATATATC
GTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
AAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAG
ACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGGG
CTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATC
GATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTT
Found at i:30945 original size:21 final size:22
Alignment explanation
Indices: 30920--30971 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
30910 ACACTTTACA
*
30920 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
30943 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
30966 ATATAA
1 ATATAA
30972 GGGCTACCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:30956 original size:23 final size:23
Alignment explanation
Indices: 30930--30992 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
30920 ATATAACCAC
30930 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
30953 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
30976 TACCTATTACATCATAT
1 TACCTATTACATTATAT
30993 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:31336 original size:25 final size:25
Alignment explanation
Indices: 31279--31344 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
31269 CACTCAAAAG
*
31279 ATGTATATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
***
31304 ACAAACATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
*
31329 TTGTACATACCTAAAT
1 ATGTACATACCTAAAT
31345 TTAATGATAA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.35
Consensus pattern (25 bp):
ATGTACATACCTAAATATGTAGTTA
Found at i:32504 original size:198 final size:199
Alignment explanation
Indices: 31870--33781 Score: 3634
Period size: 198 Copynumber: 9.7 Consensus size: 199
31860 ACAGCAACAA
31870 ATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACTTATTACATTATACTT
1 ATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACTTATTACATTATACTT
31935 TTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTT
66 TTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTT
32000 GTTTTTAATTCATTCTGGAAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAG
131 GTTTTTAATTCATTCTGGAAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAG
32065 ACAT
196 ACAT
*
32069 ATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACGTATTACATTATACTT
1 ATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACTTATTACATTATACTT
32134 TTGGGTTCGATGATTTTGGGATCGACAC-TTTT-TATATGGATCGACACTTTATGGGTGCACCTT
66 TTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTT
32197 GTTTTTAATTCATTCTGG-AAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAG
131 GTTTTTAATTCATTCTGGAAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAG
32261 ACAT
196 ACAT
32265 ATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACTTATTACATTATACTT
1 ATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACTTATTACATTATACTT
32330 TTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTT
66 TTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTT
32395 GTTTTTAATTCATTCTGGAAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAG
131 GTTTTTAATTCATTCTGGAAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAG
32460 ACAT
196 ACAT
*
32464 ATTCTCTCAT-AAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTT
1 ATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACTTATTACATTATACTT
32528 TTGGGTTCGATGATTTTGGGATCGACAC-TTTT-TATATGGATCGACACTTTATGGGTGCACCTT
66 TTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTT
32591 GTTTTTAATTCATTCTGGAAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAG
131 GTTTTTAATTCATTCTGGAAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAG
32656 ACAT
196 ACAT
32660 ATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACTTATTACATTATACTT
1 ATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACTTATTACATTATACTT
32725 TTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTT
66 TTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTT
32790 GTTTTTAATTCATTCTGGAAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAG
131 GTTTTTAATTCATTCTGGAAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAG
32855 ACAT
196 ACAT
32859 ATTCTCTCAT-AAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACTTATTACATTATACTT
1 ATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACTTATTACATTATACTT
32923 TTGGGTTCGATGA-TTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTT
66 TTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTT
32987 GTTTTTAATTCATTCTGGAAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAG
131 GTTTTTAATTCATTCTGGAAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAG
33052 ACAT
196 ACAT
*
33056 ATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTT
1 ATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACTTATTACATTATACTT
33121 TTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTT
66 TTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTT
33186 G-TTTTAATTCATTCTGGAAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAG
131 GTTTTTAATTCATTCTGGAAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAG
33250 ACAT
196 ACAT
33254 ATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACTTATTACATTATACTT
1 ATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACTTATTACATTATACTT
33319 TTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTT
66 TTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTT
33384 GTTTTTAATTCATTCTGG-AAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAG
131 GTTTTTAATTCATTCTGGAAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAG
33448 ACAT
196 ACAT
*
33452 ATTCTCTCATAAAACCGGTATAATTGTACCGGTTGGATTGAAAAATTACTTATTACATTATACTT
1 ATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACTTATTACATTATACTT
33517 TTGGGTTCGATGATTTTGGGATCGACAC--TTT-TATATGGATCGACACTTTATGGGTGCACCTT
66 TTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTT
33579 GTTTTTAATTCATTCTGGAAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAG
131 GTTTTTAATTCATTCTGGAAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAG
33644 ACAT
196 ACAT
* *
33648 ATTCTCTCATAAAACCGATATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTT
1 ATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACTTATTACATTATACTT
* * * *
33713 TTGGTTTTCGATGTTTTTGGGATTGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCC
66 TTGG-GTTCGATGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCT
33778 TGTT
130 TGTT
33782 GGCCATATTG
Statistics
Matches: 1685, Mismatches: 14, Indels: 27
0.98 0.01 0.02
Matches are distributed among these distances:
195 49 0.03
196 371 0.22
197 289 0.17
198 610 0.36
199 333 0.20
200 33 0.02
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.38
Consensus pattern (199 bp):
ATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACTTATTACATTATACTT
TTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTT
GTTTTTAATTCATTCTGGAAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAG
ACAT
Found at i:33145 original size:396 final size:397
Alignment explanation
Indices: 31870--33781 Score: 3630
Period size: 395 Copynumber: 4.8 Consensus size: 397
31860 ACAGCAACAA
31870 ATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACTTATTACATTATACTT
1 ATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACTTATTACATTATACTT
31935 TTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTT
66 TTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTT
32000 GTTTTTAATTCATTCTGGAAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAG
131 GTTTTTAATTCATTCTGGAAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAG
*
32065 ACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACGTATTACATTAT
196 ACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTAT
32130 ACTTTTGGGTTCGATGATTTTGGGATCGACAC-TTTT-TATATGGATCGACACTTTATGGGTGCA
261 ACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCA
32193 CCTTGTTTTTAATTCATTCTGGAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATT
326 CCTTGTTTTTAATTCATTCTGGAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATT
32258 TAGACAT
391 TAGACAT
32265 ATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACTTATTACATTATACTT
1 ATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACTTATTACATTATACTT
32330 TTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTT
66 TTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTT
32395 GTTTTTAATTCATTCTGGAAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAG
131 GTTTTTAATTCATTCTGGAAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAG
32460 ACATATTCTCTCAT-AAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTAT
196 ACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTAT
32524 ACTTTTGGGTTCGATGATTTTGGGATCGACAC-TTTT-TATATGGATCGACACTTTATGGGTGCA
261 ACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCA
32587 CCTTGTTTTTAATTCATTCTGGAAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTAT
326 CCTTGTTTTTAATTCATTCTGG-AAAAAAATATCGACACAAACTATATTAGTGTCGACACATTAT
32652 TTAGACAT
390 TTAGACAT
32660 ATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACTTATTACATTATACTT
1 ATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACTTATTACATTATACTT
32725 TTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTT
66 TTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTT
32790 GTTTTTAATTCATTCTGGAAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAG
131 GTTTTTAATTCATTCTGGAAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAG
*
32855 ACATATTCTCTCAT-AAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACTTATTACATTAT
196 ACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTAT
32919 ACTTTTGGGTTCGATGA-TTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCA
261 ACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCA
32983 CCTTGTTTTTAATTCATTCTGGAAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTAT
326 CCTTGTTTTTAATTCATTCTGG-AAAAAAATATCGACACAAACTATATTAGTGTCGACACATTAT
33048 TTAGACAT
390 TTAGACAT
*
33056 ATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTT
1 ATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACTTATTACATTATACTT
33121 TTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTT
66 TTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTT
33186 G-TTTTAATTCATTCTGGAAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAG
131 GTTTTTAATTCATTCTGGAAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAG
*
33250 ACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACTTATTACATTAT
196 ACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTAT
33315 ACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCA
261 ACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCA
33380 CCTTGTTTTTAATTCATTCTGGAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATT
326 CCTTGTTTTTAATTCATTCTGGAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATT
33445 TAGACAT
391 TAGACAT
*
33452 ATTCTCTCATAAAACCGGTATAATTGTACCGGTTGGATTGAAAAATTACTTATTACATTATACTT
1 ATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACTTATTACATTATACTT
33517 TTGGGTTCGATGATTTTGGGATCGACAC--TTT-TATATGGATCGACACTTTATGGGTGCACCTT
66 TTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTT
33579 GTTTTTAATTCATTCTGGAAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAG
131 GTTTTTAATTCATTCTGGAAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAG
*
33644 ACATATTCTCTCATAAAACCGATATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTAT
196 ACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTAT
* * *
33709 ACTTTTGGTTTTCGATGTTTTTGGGATTGACACTTTTTATATATGGATCGACACTTTATGGGTGC
261 ACTTTTGG-GTTCGATGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGC
*
33774 ACCCTGTT
325 ACCTTGTT
33782 GGCCATATTG
Statistics
Matches: 1499, Mismatches: 11, Indels: 14
0.98 0.01 0.01
Matches are distributed among these distances:
393 32 0.02
394 285 0.19
395 675 0.45
396 438 0.29
397 69 0.05
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.38
Consensus pattern (397 bp):
ATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACTTATTACATTATACTT
TTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTT
GTTTTTAATTCATTCTGGAAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAG
ACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTAT
ACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCA
CCTTGTTTTTAATTCATTCTGGAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATT
TAGACAT
Found at i:33946 original size:19 final size:19
Alignment explanation
Indices: 33900--33948 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
33890 TTATATTCAC
*
33900 ATACAAAAATATAAATCGT
1 ATACAAAATTATAAATCGT
*
33919 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
33938 ATACAAAATTA
1 ATACAAAATTA
33949 ACTCGACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:34167 original size:15 final size:15
Alignment explanation
Indices: 34147--34183 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
34137 TACGACTTTT
34147 AACAATTTTACCACA
1 AACAATTTTACCACA
34162 AACAATTTTACCACA
1 AACAATTTTACCACA
34177 AACAATT
1 AACAATT
34184 CAACTCATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.27
Consensus pattern (15 bp):
AACAATTTTACCACA
Found at i:36001 original size:19 final size:20
Alignment explanation
Indices: 35967--36012 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
35957 TCCGGTATCA
35967 TTTTACCGGTTTTATCAT-T
1 TTTTACCGGTTTTATCATAT
35986 TTGTTACCGG-TTTATCATAT
1 TT-TTACCGGTTTTATCATAT
36006 TTTTACC
1 TTTTACC
36013 TGTTATATCG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 15 0.60
20 10 0.40
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.54
Consensus pattern (20 bp):
TTTTACCGGTTTTATCATAT
Found at i:36160 original size:20 final size:20
Alignment explanation
Indices: 36134--36179 Score: 76
Period size: 20 Copynumber: 2.3 Consensus size: 20
36124 CACTTTTAAA
36134 TTTACCGGTTTTATCAT-TT
1 TTTACCGGTTTTATCATATT
36153 TGTTACCGGTTTTATCATATT
1 T-TTACCGGTTTTATCATATT
36174 TTTACC
1 TTTACC
36180 TGGTATATCG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.54
Consensus pattern (20 bp):
TTTACCGGTTTTATCATATT
Found at i:36853 original size:21 final size:20
Alignment explanation
Indices: 36767--36924 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
36757 AAATGACCAA
**
36767 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
36786 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
36806 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
36826 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
36847 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
36868 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
36888 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
36909 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
36925 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:36953 original size:20 final size:20
Alignment explanation
Indices: 36891--37120 Score: 232
Period size: 20 Copynumber: 11.5 Consensus size: 20
36881 CGATTTTCCA
* ** *
36891 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
36911 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
36931 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
36951 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
36971 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
36991 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
37011 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
37031 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
37051 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
37071 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
37091 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
37111 AAATCACAAC
1 AAATCGCAAC
37121 ACTGAAATTT
Statistics
Matches: 176, Mismatches: 28, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 172 0.98
21 2 0.01
ACGTcount: A:0.37, C:0.25, G:0.19, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:37846 original size:24 final size:24
Alignment explanation
Indices: 37802--37848 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
37792 AAATTTGGTC
*
37802 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCAGACTTTGATA
*
37826 TTGGTCAATA-CACAGATTTTGAT
1 TTGGTCAATATC-CAGACTTTGAT
37849 GATGTTTCAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 1 0.05
24 19 0.95
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCAGACTTTGATA
Found at i:40373 original size:33 final size:34
Alignment explanation
Indices: 40322--40659 Score: 275
Period size: 33 Copynumber: 9.9 Consensus size: 34
40312 CGGAAATTAC
*
40322 AATCGCAACGA-GAGAATCGCAATGCGAAATGAA
1 AATCGCAACGATGAAAATCGCAATGCGAAATGAA
*
40355 AATCCCAAC-ATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAACGATGAAAATCGCAATGC-GAAATGAA
*
40389 AATCGCAACGA-GAGAATCGCAATGCGAAATGAA
1 AATCGCAACGATGAAAATCGCAATGCGAAATGAA
*
40422 AATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAG
1 AATCGCAA--CG--ATGAAAATCGCAATGCGAAATGAA
40455 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAA--CG--ATGAAAATCGCAATGCGAAATGAA
*
40493 AATCGCAACGA-GAGAATCGCAATGCGAAATGAA
1 AATCGCAACGATGAAAATCGCAATGCGAAATGAA
*
40526 AATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAG
1 AATCGCAA--CG--ATGAAAATCGCAATGCGAAATGAA
*
40559 AATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAG
1 AATCGCAA--CG--ATGAAAATCGCAATGCGAAATGAA
40592 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAA--CG--ATGAAAATCGCAATGCGAAATGAA
*
40630 AATCGCAACGA-GAGAATCGCAATGCGAAAT
1 AATCGCAACGATGAAAATCGCAATGCGAAAT
40660 TATAAACGCA
Statistics
Matches: 270, Mismatches: 12, Indels: 46
0.82 0.04 0.14
Matches are distributed among these distances:
32 1 0.00
33 175 0.65
34 33 0.12
35 9 0.03
36 8 0.03
37 4 0.01
38 40 0.15
ACGTcount: A:0.46, C:0.18, G:0.23, T:0.13
Consensus pattern (34 bp):
AATCGCAACGATGAAAATCGCAATGCGAAATGAA
Found at i:40449 original size:52 final size:52
Alignment explanation
Indices: 40364--40637 Score: 446
Period size: 52 Copynumber: 5.2 Consensus size: 52
40354 AAATCCCAAC
40364 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
40417 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
40469 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
40521 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
* * * * *
40573 ATGAAAATCGCAACGAGAGAATCG-CAATGCGAAATGA-A-AATCGCAATGCGAA
1 ATGAAAATCGCAATGCGA-AAT-GAAAAT-CGCAACGAGAGAATCGCAATGCGAA
40625 ATGAAAATCGCAA
1 ATGAAAATCGCAA
40638 CGAGAGAATC
Statistics
Matches: 213, Mismatches: 5, Indels: 7
0.95 0.02 0.03
Matches are distributed among these distances:
52 183 0.86
53 23 0.11
54 7 0.03
ACGTcount: A:0.46, C:0.17, G:0.23, T:0.14
Consensus pattern (52 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
Found at i:40564 original size:14 final size:14
Alignment explanation
Indices: 40545--40599 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
40535 GCGAAATGAA
40545 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
40559 AATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAG
40578 AATCGCAACGAGAG
1 AATCGCAACGAGAG
40592 AATCGCAA
1 AATCGCAA
40600 TGCGAAATGA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.45, C:0.20, G:0.24, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:40675 original size:52 final size:52
Alignment explanation
Indices: 40322--40659 Score: 253
Period size: 52 Copynumber: 6.6 Consensus size: 52
40312 CGGAAATTAC
*
40322 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAA--C---ATGAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
* * *
40369 AATCGCAATGCG-GA-AAT-GAAAAT-CGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCGCAA--CGAGAGAATCG-CAATGCGAAATGA-A-AATCGCAATGCGAAATGAA
* * * * *
40422 AATCGCAATGCGA-AAT-GAAAAT-CGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAGAATCG-CAATGCGAAATGA-A-AATCGCAATGCGAAATGAA
* * * * *
40474 AATCGCAATGCGA-AAT-GAAAAT-CGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAGAATCG-CAATGCGAAATGA-A-AATCGCAATGCGAAATGAA
* * * * *
40526 AATCGCAATGCGA-AAT-GAAAAT-CGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAGAATCG-CAATGCGAAATGA-A-AATCGCAATGCGAAATGAA
40578 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
40630 AATCGCAACGAGAGAATCGCAATGCGAAAT
1 AATCGCAACGAGAGAATCGCAATGCGAAAT
40660 TATAAACGCA
Statistics
Matches: 267, Mismatches: 10, Indels: 23
0.89 0.03 0.08
Matches are distributed among these distances:
46 7 0.03
47 15 0.06
48 9 0.03
49 2 0.01
50 1 0.00
51 1 0.00
52 205 0.77
53 20 0.07
54 7 0.03
ACGTcount: A:0.46, C:0.18, G:0.23, T:0.13
Consensus pattern (52 bp):
AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
Found at i:40689 original size:85 final size:85
Alignment explanation
Indices: 40322--40659 Score: 385
Period size: 85 Copynumber: 4.0 Consensus size: 85
40312 CGGAAATTAC
*
40322 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAA--C---ATGAAAATCGCAATGCG-
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA--CGA
* * *
40381 GA-AAT-GAAAAT-CGCAACGAGA
64 GAGAATCG-CAATGCGAAATGA-A
* * * *
40402 GAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCG-CAATGC
1 -AATCGCAA--CG--A-GAGAATCGCAATGCGAAATGAAAATCGCAATGCGA-AAT-GAAAAT-C
* *
40466 GAAATGA-A-AATCGCAATGCGAAATGAA
57 GCAACGAGAGAATCGCAATGCGAAATGAA
40493 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGA
40558 GAATCGCAATGCGAAATGAA
66 GAATCGCAATGCGAAATGAA
40578 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGA
40643 GAATCGCAATGCGAAAT
66 GAATCGCAATGCGAAAT
40660 TATAAACGCA
Statistics
Matches: 223, Mismatches: 15, Indels: 34
0.82 0.06 0.12
Matches are distributed among these distances:
81 8 0.04
83 9 0.04
84 7 0.03
85 134 0.60
86 29 0.13
88 2 0.01
90 8 0.04
91 9 0.04
92 12 0.05
93 5 0.02
ACGTcount: A:0.46, C:0.18, G:0.23, T:0.13
Consensus pattern (85 bp):
AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGA
GAATCGCAATGCGAAATGAA
Found at i:40778 original size:52 final size:53
Alignment explanation
Indices: 40666--40781 Score: 225
Period size: 53 Copynumber: 2.2 Consensus size: 53
40656 AAATTATAAA
40666 CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATTT
1 CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATTT
40719 CGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATTT
1 CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATTT
40771 CGCATTGCGAT
1 CGCATTGCGAT
40782 AGTCATTTTT
Statistics
Matches: 63, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 30 0.48
53 33 0.52
ACGTcount: A:0.14, C:0.24, G:0.18, T:0.44
Consensus pattern (53 bp):
CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATTT
Found at i:40789 original size:19 final size:19
Alignment explanation
Indices: 40684--40781 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
40674 GATTCTCTCG
40684 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
40704 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
40723 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
40737 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
40756 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
40775 TTGCGAT
1 TTGCGAT
40782 AGTCATTTTT
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 6 0.08
16 7 0.10
17 7 0.10
19 36 0.51
20 15 0.21
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:40907 original size:14 final size:14
Alignment explanation
Indices: 40888--40924 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
40878 CATCAATTAC
40888 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
40902 ACAAATCATCTTTT
1 ACAAATCAACTTTT
40916 ACAAATCAA
1 ACAAATCAA
40925 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:42904 original size:14 final size:14
Alignment explanation
Indices: 42885--42941 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
42875 GCGAAATGAA
*
42885 AATCGCAACGACAG
1 AATCGCAACGAAAG
42899 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
42916 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
42932 AATCGCAACG
1 AATCGCAACG
42942 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:42912 original size:33 final size:33
Alignment explanation
Indices: 42866--42958 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
42856 GCGAAACCAA
*
42866 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
42899 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
42932 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
42959 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:42923 original size:19 final size:19
Alignment explanation
Indices: 42829--42963 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
42819 TAGTTTACTT
* *
42829 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
42849 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
42868 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
42887 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
42901 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
42920 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
42934 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
42953 TCGCAATGCGA
1 TCGCAACGCGA
42964 TTTTGGTTCG
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:43012 original size:19 final size:19
Alignment explanation
Indices: 42959--43086 Score: 116
Period size: 19 Copynumber: 7.3 Consensus size: 19
42949 AAAATCGCAA
42959 TGCGATTTTGG-TTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
42977 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
42991 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
43010 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
43024 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
43043 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
43062 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
43082 TGCGA
1 TGCGA
43087 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 20
0.76 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 3 0.03
18 9 0.10
19 40 0.44
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.45
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:43012 original size:33 final size:33
Alignment explanation
Indices: 42959--43049 Score: 141
Period size: 33 Copynumber: 2.8 Consensus size: 33
42949 AAAATCGCAA
42959 TGCGATTTTGG-TTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
42991 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
43024 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
43050 TTGGTTTCGC
Statistics
Matches: 55, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 11 0.20
33 42 0.76
34 2 0.04
ACGTcount: A:0.08, C:0.19, G:0.29, T:0.45
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:43250 original size:93 final size:93
Alignment explanation
Indices: 43134--43416 Score: 550
Period size: 93 Copynumber: 3.1 Consensus size: 93
43124 ATGGATTGCA
43134 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
43198 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
43226 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
43291 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
43319 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
43384 TAGCAGAATTGGCAGCAACCGAATAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
43412 TTACT
1 TTACT
43417 AAGCAATCTA
Statistics
Matches: 189, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
92 4 0.02
93 185 0.98
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:45135 original size:14 final size:14
Alignment explanation
Indices: 45116--45205 Score: 72
Period size: 14 Copynumber: 5.7 Consensus size: 14
45106 TTGAAATGAA
45116 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
45130 AATCGCAACGCGAAATGAC
1 AATCGCAA--CG--A-GAG
45149 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
45163 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
45182 AATCGCAACGAGAG
1 AATCGCAACGAGAG
45196 AATCGCAACG
1 AATCGCAACG
45206 CGAAATGAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
14 30 0.48
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 20 0.32
ACGTcount: A:0.43, C:0.23, G:0.24, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:45153 original size:33 final size:33
Alignment explanation
Indices: 45108--45222 Score: 221
Period size: 33 Copynumber: 3.5 Consensus size: 33
45098 TCTTTTGGTT
45108 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
45141 GAAATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
45174 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
45207 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
45223 TGCGATTTTG
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 80 1.00
ACGTcount: A:0.46, C:0.21, G:0.23, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:45154 original size:19 final size:19
Alignment explanation
Indices: 45130--45227 Score: 90
Period size: 19 Copynumber: 5.7 Consensus size: 19
45120 GCAACGAGAG
*
45130 AATCGCAACGCGAAATGAC
1 AATCGCAACGCGAAATGAA
*
45149 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
45163 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
45182 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
45196 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
45215 AATCGCAATGCGA
1 AATCGCAACGCGA
45228 TTTTGGTTTC
Statistics
Matches: 64, Mismatches: 5, Indels: 20
0.72 0.06 0.22
Matches are distributed among these distances:
14 20 0.31
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 32 0.50
ACGTcount: A:0.44, C:0.22, G:0.23, T:0.10
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:45258 original size:14 final size:14
Alignment explanation
Indices: 45239--45295 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
45229 TTTGGTTTCG
45239 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
45253 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
45272 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
45286 CGTTGCGATT
1 CGTTGCGATT
45296 TTCATTTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:45271 original size:33 final size:33
Alignment explanation
Indices: 45223--45303 Score: 144
Period size: 33 Copynumber: 2.5 Consensus size: 33
45213 AAAATCGCAA
**
45223 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
45256 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
45289 TGCGATTTTCATTTC
1 TGCGATTTTCATTTC
45304 TCTCGTTGCG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.09, C:0.22, G:0.22, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:45306 original size:21 final size:21
Alignment explanation
Indices: 45280--45355 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
45270 CGCGTTGCGA
45280 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
45301 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
45321 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
*
45342 TTATCTCGTTGCGA
1 TTCTCTCGTTGCGA
45356 CTCTTCTGCA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 17 0.36
21 30 0.64
ACGTcount: A:0.12, C:0.25, G:0.17, T:0.46
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:45336 original size:41 final size:41
Alignment explanation
Indices: 45279--45356 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
45269 TCGCGTTGCG
*
45279 ATTCTCTCGTTGCGATTTTCATTTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
45320 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
45357 TCTTCTGCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.13, C:0.26, G:0.17, T:0.45
Consensus pattern (41 bp):
ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
Found at i:45477 original size:33 final size:33
Alignment explanation
Indices: 45435--45505 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
45425 AATACTAACT
*
45435 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
45468 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
45501 TGAAA
1 TGAAA
45506 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:45739 original size:22 final size:22
Alignment explanation
Indices: 45687--45741 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
45677 TGGTTGTGAG
**
45687 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
45709 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
45731 GGATTTCTTCG
1 GGATTTCTTCG
45742 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:45934 original size:20 final size:20
Alignment explanation
Indices: 45911--46061 Score: 187
Period size: 20 Copynumber: 7.5 Consensus size: 20
45901 TATGTATTAT
45911 CGTTGCGATTTACGGATACG
1 CGTTGCGATTTACGGATACG
*
45931 CGTTGCGATATACGGATACG
1 CGTTGCGATTTACGGATACG
* **
45951 CATTGCGATTTACCCATACG
1 CGTTGCGATTTACGGATACG
*
45971 CGTTGCGATTTACGGATACA
1 CGTTGCGATTTACGGATACG
45991 CGTTGCGATTTACGGATACG
1 CGTTGCGATTTACGGATACG
* *
46011 CGTTGCGATTTATGTG-TTCG
1 CGTTGCGATTTACG-GATACG
* ** *
46031 CGTTGCGATTTTCATATTCG
1 CGTTGCGATTTACGGATACG
46051 CGTTGCGATTT
1 CGTTGCGATTT
46062 TGGAAAATCG
Statistics
Matches: 113, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
20 112 0.99
21 1 0.01
ACGTcount: A:0.19, C:0.21, G:0.26, T:0.34
Consensus pattern (20 bp):
CGTTGCGATTTACGGATACG
Found at i:46055 original size:60 final size:60
Alignment explanation
Indices: 45888--46061 Score: 213
Period size: 60 Copynumber: 2.9 Consensus size: 60
45878 CTTTAAATAT
** *
45888 CGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATACGCGTTGCGATATACGGATA
1 CGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATACGCGTTGCGATTTACGGATA
* *** * *
45949 CGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATACACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATACGCGTTGCGATTTACGGATA
* * ** *
46009 CGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATTCGCGTTGCGATTT
1 CGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATACGCGTTGCGATTT
46062 TGGAAAATCG
Statistics
Matches: 93, Mismatches: 20, Indels: 1
0.82 0.18 0.01
Matches are distributed among these distances:
60 84 0.90
61 9 0.10
ACGTcount: A:0.19, C:0.20, G:0.25, T:0.36
Consensus pattern (60 bp):
CGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATACGCGTTGCGATTTACGGATA
Found at i:46078 original size:21 final size:21
Alignment explanation
Indices: 46048--46130 Score: 69
Period size: 21 Copynumber: 4.0 Consensus size: 21
46038 ATTTTCATAT
*
46048 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
46069 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
* *
46090 TCGCATTACGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
46111 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
46131 CTGATTTGCG
Statistics
Matches: 45, Mismatches: 15, Indels: 4
0.70 0.23 0.06
Matches are distributed among these distances:
20 1 0.02
21 42 0.93
22 2 0.04
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:49558 original size:13 final size:13
Alignment explanation
Indices: 49548--49593 Score: 58
Period size: 13 Copynumber: 3.4 Consensus size: 13
49538 CGAGAACAAA
49548 AAAAAAGAACAAAGG
1 AAAAAAGAA-AAA-G
49563 AAAAAAGAGAAAA-
1 AAAAAAGA-AAAAG
49576 AAAAAAGAAAAAG
1 AAAAAAGAAAAAG
49589 AAAAA
1 AAAAA
49594 TGGGAAAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
12 4 0.14
13 13 0.45
15 11 0.38
16 1 0.03
ACGTcount: A:0.83, C:0.02, G:0.15, T:0.00
Consensus pattern (13 bp):
AAAAAAGAAAAAG
Found at i:52137 original size:67 final size:67
Alignment explanation
Indices: 52040--52221 Score: 267
Period size: 67 Copynumber: 2.7 Consensus size: 67
52030 TTTGAGATTA
* *
52040 TTTCTCTCAAAACAAAGTTTCGTCTCGTTTGAGACAATTTCCCTTGAAACATAAACCTTTAAAAT
1 TTTCTCTCGAAACAAAGTTTCGTCTTGTTTGAGACAATTTCCCTTGAAACATAAACCTTTAAAAT
52105 TG
66 TG
* * * * *
52107 TTTCTCTTGAAACAAAGTTTCGTCTTGTTTGGGACAATTTCTCTTGAAACATAAACCTTTGAGAT
1 TTTCTCTCGAAACAAAGTTTCGTCTTGTTTGAGACAATTTCCCTTGAAACATAAACCTTTAAAAT
52172 TG
66 TG
* *
52174 TTTCTCTCGAAACAAAGTTTCGT-TTCGCTTGAGACAGTTTCCCTTGAA
1 TTTCTCTCGAAACAAAGTTTCGTCTT-GTTTGAGACAATTTCCCTTGAA
52222 GCCCATATTT
Statistics
Matches: 102, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
66 2 0.02
67 100 0.98
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.38
Consensus pattern (67 bp):
TTTCTCTCGAAACAAAGTTTCGTCTTGTTTGAGACAATTTCCCTTGAAACATAAACCTTTAAAAT
TG
Found at i:52988 original size:137 final size:137
Alignment explanation
Indices: 52778--53036 Score: 376
Period size: 137 Copynumber: 1.9 Consensus size: 137
52768 CCTCAATACA
* * * * *
52778 AAGGAACAATATCGTTCACCGATCATATCTCCTCAACGTAAAGGAGCAATGTCATCCTCAGACAA
1 AAGGAACAATATCGTCCACCGACCAGATCTCCTCAACATAAAGGAGCAATGTCACCCTCAGACAA
* * * **
52843 TCATACTTCCTCAATACGAAGAAACTGTGTTGTCT-TCAAATTATCCAAATACGTCTAGACTTCC
66 GCAGACTTCCTCAACACGAAGAAACCATGTTGTCTCT-AAATTATCCAAATACGTCTAGACTTCC
52907 TCAACATG
130 TCAACATG
* * *
52915 AAGGAACAATGTTGTCCACCGACCAGATCTCCTCAACATAAAGGAGCAATGTTACCCTCAGACAA
1 AAGGAACAATATCGTCCACCGACCAGATCTCCTCAACATAAAGGAGCAATGTCACCCTCAGACAA
*
52980 GCAGACTTCCTCAACACGAAGGAACCATGTTGTCTCTAAATTATCCAAATACGTCTA
66 GCAGACTTCCTCAACACGAAGAAACCATGTTGTCTCTAAATTATCCAAATACGTCTA
53037 AACGTTCTCA
Statistics
Matches: 107, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
137 106 0.99
138 1 0.01
ACGTcount: A:0.35, C:0.26, G:0.14, T:0.25
Consensus pattern (137 bp):
AAGGAACAATATCGTCCACCGACCAGATCTCCTCAACATAAAGGAGCAATGTCACCCTCAGACAA
GCAGACTTCCTCAACACGAAGAAACCATGTTGTCTCTAAATTATCCAAATACGTCTAGACTTCCT
CAACATG
Found at i:53263 original size:104 final size:104
Alignment explanation
Indices: 53083--53422 Score: 396
Period size: 104 Copynumber: 3.3 Consensus size: 104
53073 ACGACCCGAC
* * * * * *
53083 TTCCTCAACAAGAAGGAACATCATCATATGAAAGTGACCAAAACTCTTCAACATGGATGAGCAGT
1 TTCCTCAACAAGAAGGAACAACGTCATCTGAAAGTGACCATAACTCTTCAACATGGATAAGCAAT
* * *
53148 GTCATCTTCAACACTAGATTATCTCCAGATTGACTCGAA
66 GTCGTCTTCAACACCAGATTATCTCTAGATTGACTCGAA
* * ** *
53187 TTCCTTAACAAGAAGGAACAACGTCATCTAAAAACGACCATAACTCTTCAACATGGATAAGTAAT
1 TTCCTCAACAAGAAGGAACAACGTCATCTGAAAGTGACCATAACTCTTCAACATGGATAAGCAAT
* *
53252 GTCGTTTTCAACACCAGATTATCTCTAGATTGACTCGAG
66 GTCGTCTTCAACACCAGATTATCTCTAGATTGACTCGAA
* * * * *
53291 TTCCTCAACAAGAA-GAACAACGTCATTTGAAAGTGGCCATAACTTTTCAACATTGATGAA-CAT
1 TTCCTCAACAAGAAGGAACAACGTCATCTGAAAGTGACCATAACTCTTCAACATGGAT-AAGCAA
* * * *
53354 TGACGTCTTCAACACCAAATTATCTCTATATTGACTCGAC
65 TGTCGTCTTCAACACCAGATTATCTCTAGATTGACTCGAA
** * *
53394 TTCCTCAATGAGAAGGAATAATGTCATCT
1 TTCCTCAACAAGAAGGAACAACGTCATCT
53423 TCAACAAAAA
Statistics
Matches: 198, Mismatches: 36, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
103 84 0.42
104 114 0.58
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.27
Consensus pattern (104 bp):
TTCCTCAACAAGAAGGAACAACGTCATCTGAAAGTGACCATAACTCTTCAACATGGATAAGCAAT
GTCGTCTTCAACACCAGATTATCTCTAGATTGACTCGAA
Found at i:53549 original size:128 final size:128
Alignment explanation
Indices: 53295--53558 Score: 329
Period size: 128 Copynumber: 2.1 Consensus size: 128
53285 CTCGAGTTCC
* * * * *
53295 TCAACAAGAAGAACAACGTCATTTGAAAGTGGCCATAACTTTTCAACATTGATGAACATTGACGT
1 TCAACAAAAAGAACAACGTCATCTGAAAGCGGCCATAACTTTTCAACATTGATGAACAATGACAT
* * *
53360 CTTCAACACCAAATTATCTCTATATTGACTCGACTTCCTCAATGAGAAGGAATAATGTCATCT
66 CTTCAACACCAAATTATCTCCATATTGACCCGACTTCCTCAATGAGAAGGAACAATGTCATCT
* * *
53423 TCAACAAAAAGGAACAATGTCATCTGAAAGCGGCCATAACTCTTT-AACA-TGAATGAGCAATGT
1 TCAACAAAAA-GAACAACGTCATCTGAAAGCGGCCATAACT-TTTCAACATTG-ATGAACAATGA
* * *
53486 CATCTTCAACA-CAAATTATCTCCATATTTACCCGACTTCCTTAATGAGAATGAACAACT-TCAT
63 CATCTTCAACACCAAATTATCTCCATATTGACCCGACTTCCTCAATGAGAAGGAACAA-TGTCAT
53549 CT
127 CT
*
53551 TCAGCAAA
1 TCAACAAA
53559 CAATTTACCT
Statistics
Matches: 117, Mismatches: 15, Indels: 8
0.84 0.11 0.06
Matches are distributed among these distances:
128 64 0.55
129 50 0.43
130 3 0.03
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.28
Consensus pattern (128 bp):
TCAACAAAAAGAACAACGTCATCTGAAAGCGGCCATAACTTTTCAACATTGATGAACAATGACAT
CTTCAACACCAAATTATCTCCATATTGACCCGACTTCCTCAATGAGAAGGAACAATGTCATCT
Found at i:55112 original size:51 final size:51
Alignment explanation
Indices: 54984--55113 Score: 181
Period size: 51 Copynumber: 2.5 Consensus size: 51
54974 GTTGATGTGA
* *
54984 TACTTTCAATTTATGCATTTTGGTCAATGTTTATTTATGATTAAGCTATTT
1 TACTTTCATTTTATGCATTTTGGTCACTGTTTATTTATGATTAAGCTATTT
* * * * *
55035 TACTTTTATTTTATGCATTTTAGTCACTGTTTATTTCTGATTTAGTTATTGT
1 TACTTTCATTTTATGCATTTTGGTCACTGTTTATTTATGATTAAGCTATT-T
55087 T-CTTTCATTTTATGCATTTTGGTCACT
1 TACTTTCATTTTATGCATTTTGGTCACT
55114 TGTTATGCTT
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
51 67 0.97
52 2 0.03
ACGTcount: A:0.21, C:0.12, G:0.12, T:0.56
Consensus pattern (51 bp):
TACTTTCATTTTATGCATTTTGGTCACTGTTTATTTATGATTAAGCTATTT
Found at i:56295 original size:16 final size:16
Alignment explanation
Indices: 56274--56304 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
56264 ATAAATAAAC
*
56274 GAACATAAATGAACAT
1 GAACATAAACGAACAT
56290 GAACATAAACGAACA
1 GAACATAAACGAACA
56305 AATTTTTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.16, G:0.13, T:0.13
Consensus pattern (16 bp):
GAACATAAACGAACAT
Found at i:56400 original size:14 final size:14
Alignment explanation
Indices: 56383--56422 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
56373 AACAAACATA
*
56383 AACGAACACGAACG
1 AACGAACACAAACG
*
56397 AACGAACATAAACG
1 AACGAACACAAACG
56411 AAC-AACACAAAC
1 AACGAACACAAAC
56423 ACACAAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
13 8 0.35
14 15 0.65
ACGTcount: A:0.57, C:0.28, G:0.12, T:0.03
Consensus pattern (14 bp):
AACGAACACAAACG
Found at i:57786 original size:19 final size:19
Alignment explanation
Indices: 57759--57823 Score: 75
Period size: 19 Copynumber: 3.6 Consensus size: 19
57749 AAAACCGAAA
*
57759 TCGGTTTTTTCGGTTCGGT
1 TCGGGTTTTTCGGTTCGGT
*
57778 TCGGGTTTTT---TAACGGT
1 TCGGGTTTTTCGGT-TCGGT
57795 TCGGGTTTTTCGGTTCGGT
1 TCGGGTTTTTCGGTTCGGT
57814 TC-GGTTTTTC
1 TCGGGTTTTTC
57824 AATGAAAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
16 1 0.03
17 14 0.36
18 8 0.21
19 15 0.38
20 1 0.03
ACGTcount: A:0.03, C:0.15, G:0.31, T:0.51
Consensus pattern (19 bp):
TCGGGTTTTTCGGTTCGGT
Found at i:57821 original size:17 final size:18
Alignment explanation
Indices: 57765--57823 Score: 61
Period size: 18 Copynumber: 3.3 Consensus size: 18
57755 GAAATCGGTT
57765 TTTTCGGTTCGGTTCGGG
1 TTTTCGGTTCGGTTCGGG
57783 TTTT---TTAACGGTTCGGG
1 TTTTCGGTT--CGGTTCGGG
*
57800 TTTTTCGGTTCGGTTCGGT
1 -TTTTCGGTTCGGTTCGGG
57819 TTTTC
1 TTTTC
57824 AATGAAAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 12
0.72 0.02 0.26
Matches are distributed among these distances:
15 2 0.06
17 9 0.26
18 13 0.38
19 8 0.24
21 2 0.06
ACGTcount: A:0.03, C:0.15, G:0.31, T:0.51
Consensus pattern (18 bp):
TTTTCGGTTCGGTTCGGG
Found at i:69198 original size:9 final size:10
Alignment explanation
Indices: 69171--69197 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
69161 GACAGAGGTT
69171 TATTTTTTAA
1 TATTTTTTAA
69181 TATTTTTTAA
1 TATTTTTTAA
69191 TATTTTT
1 TATTTTT
69198 ATGTGCATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (10 bp):
TATTTTTTAA
Found at i:69464 original size:14 final size:14
Alignment explanation
Indices: 69445--69503 Score: 57
Period size: 14 Copynumber: 4.0 Consensus size: 14
69435 TCAAAAAAGA
69445 TTAAATAAATATAT
1 TTAAATAAATATAT
*
69459 TTAAATTAATATAAAT
1 TTAAA-TAA-ATATAT
*
69475 ATTAAAT-TATATAT
1 -TTAAATAAATATAT
69489 TTAAAATAAATATAT
1 TT-AAATAAATATAT
69504 ATTGATCACG
Statistics
Matches: 36, Mismatches: 4, Indels: 9
0.73 0.08 0.18
Matches are distributed among these distances:
13 2 0.06
14 14 0.39
15 9 0.25
16 6 0.17
17 5 0.14
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
TTAAATAAATATAT
Found at i:69501 original size:31 final size:31
Alignment explanation
Indices: 69444--69502 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
69434 ATCAAAAAAG
*
69444 ATTAAATAAATATATTTAAATTAATATAAAT
1 ATTAAATAAATATATTTAAATAAATATAAAT
*
69475 ATTAAAT-TATATATTTAAAATAAATATA
1 ATTAAATAAATATATTT-AAATAAATATA
69503 TATTGATCAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 8 0.32
31 17 0.68
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (31 bp):
ATTAAATAAATATATTTAAATAAATATAAAT
Found at i:71130 original size:56 final size:56
Alignment explanation
Indices: 71044--71154 Score: 204
Period size: 56 Copynumber: 2.0 Consensus size: 56
71034 GGACTTAAGC
*
71044 TAAGAATCATTTATCTTGAAAGTTCATAAGCTCCTTTAGTCTTGTCTGAGATGTTG
1 TAAGAATCATTTATCCTGAAAGTTCATAAGCTCCTTTAGTCTTGTCTGAGATGTTG
*
71100 TAAGAATCATTTATCCTGAAAGTTCATAAGCTCCTTTAGTCTTGTCTGAGTTGTT
1 TAAGAATCATTTATCCTGAAAGTTCATAAGCTCCTTTAGTCTTGTCTGAGATGTT
71155 TTCTCACACT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 53 1.00
ACGTcount: A:0.26, C:0.15, G:0.17, T:0.41
Consensus pattern (56 bp):
TAAGAATCATTTATCCTGAAAGTTCATAAGCTCCTTTAGTCTTGTCTGAGATGTTG
Found at i:79132 original size:50 final size:51
Alignment explanation
Indices: 79075--79174 Score: 184
Period size: 50 Copynumber: 2.0 Consensus size: 51
79065 ACATTTTTAC
*
79075 ATACGTAAATGCCATGCATGTATATGTTAAGCTCTATGTTTGATT-TAGAG
1 ATACGTAAATGCCATGCATGTATATGTTAAGCTCTATGTTCGATTATAGAG
79125 ATACGTAAATGCCATGCATGTATATGTTAAGCTCTATGTTCGATTATAGA
1 ATACGTAAATGCCATGCATGTATATGTTAAGCTCTATGTTCGATTATAGA
79175 AACTCTGAAC
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
50 44 0.92
51 4 0.08
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.37
Consensus pattern (51 bp):
ATACGTAAATGCCATGCATGTATATGTTAAGCTCTATGTTCGATTATAGAG
Found at i:81768 original size:20 final size:21
Alignment explanation
Indices: 81723--81774 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
81713 GTGTATTCTC
*
81723 ATTTT-ATAATAATTTATTAA
1 ATTTTAATAATAATTTATAAA
*
81743 A-TTTAATAATTATTT-TAAA
1 ATTTTAATAATAATTTATAAA
*
81762 ATTTTAATGATAA
1 ATTTTAATAATAA
81775 AAAATATTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
19 7 0.27
20 19 0.73
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (21 bp):
ATTTTAATAATAATTTATAAA
Found at i:85055 original size:18 final size:17
Alignment explanation
Indices: 85034--85074 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
85024 ACCATAATGG
85034 TATTTAAATAATATTATT
1 TATTTAAATAATA-TATT
*
85052 TATTAAAATAATATATT
1 TATTTAAATAATATATT
*
85069 TTTTTA
1 TATTTA
85075 TAAACACGCA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TATTTAAATAATATATT
Found at i:85068 original size:17 final size:18
Alignment explanation
Indices: 85034--85069 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
85024 ACCATAATGG
*
85034 TATTTAAATAATATTATT
1 TATTAAAATAATATTATT
85052 TATTAAAATAATA-TATT
1 TATTAAAATAATATTATT
85069 T
1 T
85070 TTTTATAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TATTAAAATAATATTATT
Found at i:87249 original size:2 final size:2
Alignment explanation
Indices: 87192--87234 Score: 63
Period size: 2 Copynumber: 22.0 Consensus size: 2
87182 CCGCTCAAAT
87192 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TCA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA
87233 TA
1 TA
87235 ATAAATAACA
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
1 2 0.05
2 34 0.89
3 2 0.05
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:88460 original size:13 final size:13
Alignment explanation
Indices: 88442--88466 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
88432 TATTGCTTAT
88442 TTTATTTTATTTA
1 TTTATTTTATTTA
88455 TTTATTTTATTT
1 TTTATTTTATTT
88467 CTCATTTTTC
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:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTATTTTATTTA
Found at i:91743 original size:23 final size:23
Alignment explanation
Indices: 91714--91764 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
91704 TACATTTTTA
91714 ATATTATAATAAAATAATCAATT
1 ATATTATAATAAAATAATCAATT
* **
91737 ATATTATAATAATATAATTGATT
1 ATATTATAATAAAATAATCAATT
91760 ATATT
1 ATATT
91765 TTTATTTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (23 bp):
ATATTATAATAAAATAATCAATT
Found at i:91930 original size:23 final size:23
Alignment explanation
Indices: 91904--91948 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
91894 AATAATATTT
91904 TAATAAAGATATTTAAAATATAC
1 TAATAAAGATATTTAAAATATAC
* * *
91927 TAATTAATATTTTTAAAATATA
1 TAATAAAGATATTTAAAATATA
91949 ATATAACACT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (23 bp):
TAATAAAGATATTTAAAATATAC
Found at i:92317 original size:14 final size:14
Alignment explanation
Indices: 92283--92327 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
92273 TCAGAAATGT
* *
92283 AATTCATTTTCCAGT
1 AATTCATTTTTCA-A
92298 AATTCATTTTTCAA
1 AATTCATTTTTCAA
*
92312 AATTCAATTTTCAA
1 AATTCATTTTTCAA
92326 AA
1 AA
92328 AACCAATTAC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
14 15 0.56
15 12 0.44
ACGTcount: A:0.38, C:0.16, G:0.02, T:0.44
Consensus pattern (14 bp):
AATTCATTTTTCAA
Found at i:95206 original size:114 final size:116
Alignment explanation
Indices: 94995--95275 Score: 478
Period size: 114 Copynumber: 2.4 Consensus size: 116
94985 TATATATTTT
*
94995 CCAGAACCATACACCCACCTGCATACCAGTAAGGACTTACCCTGAGCACAAAGCCGAGGAGCATG
1 CCAGAACCATACACCCACCTGCACACCAGTAAGGACTTACCCT-AGCACAAAGCCGAGGAGCATG
95060 CGATAATAACTTTCCCATCCAATCACTCCAATCACCAAAATGTGTAGGTTCC
65 CGATAATAACTTTCCCATCCAATCACTCCAATCACCAAAATGTGTAGGTTCC
* *
95112 CCATAACCATACACCCACCTGCACACCAGTAAGGACTTACCCT-GCACAAA-CCGAGGAGCCTGC
1 CCAGAACCATACACCCACCTGCACACCAGTAAGGACTTACCCTAGCACAAAGCCGAGGAGCATGC
95175 -AGTAATAACTTTCCCATCCAATCACTCCAATCACCAAAATGTGTAGGTTCC
66 GA-TAATAACTTTCCCATCCAATCACTCCAATCACCAAAATGTGTAGGTTCC
*
95226 CCAGAACCATACACCCACCAGCACACCAGTAAGGACTTACCCTAAGCACA
1 CCAGAACCATACACCCACCTGCACACCAGTAAGGACTTACCCT-AGCACA
95276 CAGCAAATGA
Statistics
Matches: 156, Mismatches: 5, Indels: 7
0.93 0.03 0.04
Matches are distributed among these distances:
113 1 0.01
114 102 0.65
115 7 0.04
116 5 0.03
117 41 0.26
ACGTcount: A:0.34, C:0.35, G:0.14, T:0.17
Consensus pattern (116 bp):
CCAGAACCATACACCCACCTGCACACCAGTAAGGACTTACCCTAGCACAAAGCCGAGGAGCATGC
GATAATAACTTTCCCATCCAATCACTCCAATCACCAAAATGTGTAGGTTCC
Found at i:96211 original size:13 final size:13
Alignment explanation
Indices: 96193--96235 Score: 86
Period size: 13 Copynumber: 3.3 Consensus size: 13
96183 GGTGGTCAAC
96193 GGTCAACGGGTCG
1 GGTCAACGGGTCG
96206 GGTCAACGGGTCG
1 GGTCAACGGGTCG
96219 GGTCAACGGGTCG
1 GGTCAACGGGTCG
96232 GGTC
1 GGTC
96236 GGACCGATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.14, C:0.23, G:0.47, T:0.16
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:99861 original size:149 final size:148
Alignment explanation
Indices: 99592--99892 Score: 476
Period size: 149 Copynumber: 2.0 Consensus size: 148
99582 GAGTCGAGGG
* * * * * * *
99592 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAATATTTATGAGGTCTTTGAGGCACATA
1 TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTATGAAGTCTTTAAGACACATA
* * *
99657 CTTGGTCCTTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCTTTATGGACATTATTAT
66 CTTGATCCCTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATTAT
*
99722 ATGGCACTACGGTGCAAT
131 AAGGCACTACGGTGCAAT
* *
99740 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACACAT
1 TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTATGAAGTCTT-TAAGACACAT
99805 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATTA
65 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATTA
99870 TAAGGCACTACGGTGCAAT
130 TAAGGCACTACGGTGCAAT
99889 TCTA
1 TCTA
99893 TGCGTCACTA
Statistics
Matches: 139, Mismatches: 13, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
148 47 0.34
149 92 0.66
ACGTcount: A:0.27, C:0.15, G:0.22, T:0.37
Consensus pattern (148 bp):
TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTATGAAGTCTTTAAGACACATA
CTTGATCCCTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATTAT
AAGGCACTACGGTGCAAT
Found at i:99928 original size:22 final size:23
Alignment explanation
Indices: 99874--99933 Score: 88
Period size: 23 Copynumber: 2.7 Consensus size: 23
99864 TTATTATAAG
99874 GCACTACGGTGCAATTCTATGCGT
1 GCACTACGGTGCAATTCTA-GCGT
99898 -CACTACGGTGCAATTCTA-CGT
1 GCACTACGGTGCAATTCTAGCGT
*
99919 GCACTTCGGTGCAAT
1 GCACTACGGTGCAAT
99934 GATACGAGCT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
21 3 0.09
22 13 0.38
23 18 0.53
ACGTcount: A:0.22, C:0.27, G:0.23, T:0.28
Consensus pattern (23 bp):
GCACTACGGTGCAATTCTAGCGT
Found at i:99939 original size:22 final size:22
Alignment explanation
Indices: 99874--99939 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 22
99864 TTATTATAAG
* *
99874 GCACTACGGTGCAATTCTATGCGT
1 GCACTACGGTGCAA-T-GATACGT
**
99898 -CACTACGGTGCAATTCTACGT
1 GCACTACGGTGCAATGATACGT
*
99919 GCACTTCGGTGCAATGATACG
1 GCACTACGGTGCAATGATACG
99940 AGCTGTGGTG
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 5 0.14
22 18 0.50
23 13 0.36
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (22 bp):
GCACTACGGTGCAATGATACGT
Found at i:100457 original size:154 final size:154
Alignment explanation
Indices: 100163--100450 Score: 535
Period size: 154 Copynumber: 1.9 Consensus size: 154
100153 TAATATATAT
* *
100163 ATATATATATATGATAATGCTAAGAAAGTAGATGATGATATATGTACCTGAGTGTCTTTGTTATA
1 ATATATATATATGATAATGCTAAGAAAGTAGATGATGATATATGTACATGAATGTCTTTGTTATA
100228 TAAAAAGGTATATGATTTTGTATGATAAATTAGTATTAAATGTTCATGTGTTTTGTTATATGGGA
66 TAAAAAGGTATATGATTTTGTATGATAAATTAGTATTAAATGTTCATGTGTTTTGTTATATGGGA
100293 TGTTTAATGATAGAGGTAATGATA
131 TGTTTAATGATAGAGGTAATGATA
100317 ATATATATATATGATAATGCTAAGAAAGTAGATGATGATATATGTACATGAAAT-TCTTTGTTAT
1 ATATATATATATGATAATGCTAAGAAAGTAGATGATGATATATGTACATG-AATGTCTTTGTTAT
100381 ATAAAAAGGTATATGA-TTTGTATGATAAATTAGTATTAAATGTTCATGTGTTTTGTTATATGGG
65 ATAAAAAGGTATATGATTTTGTATGATAAATTAGTATTAAATGTTCATGTGTTTTGTTATATGGG
100445 ATGTTT
130 ATGTTT
100451 TTATGATTTC
Statistics
Matches: 131, Mismatches: 2, Indels: 3
0.96 0.01 0.02
Matches are distributed among these distances:
153 54 0.41
154 75 0.57
155 2 0.02
ACGTcount: A:0.36, C:0.03, G:0.19, T:0.42
Consensus pattern (154 bp):
ATATATATATATGATAATGCTAAGAAAGTAGATGATGATATATGTACATGAATGTCTTTGTTATA
TAAAAAGGTATATGATTTTGTATGATAAATTAGTATTAAATGTTCATGTGTTTTGTTATATGGGA
TGTTTAATGATAGAGGTAATGATA
Found at i:105244 original size:151 final size:148
Alignment explanation
Indices: 105011--105318 Score: 465
Period size: 151 Copynumber: 2.1 Consensus size: 148
105001 GAGTCGAGGG
* * * * * *
105011 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATTTATGAGGTCTTTGAGGCACATA
1 TCTACGCGGTCCTTCGGGACATATATATATTCTATGGAACATTGATGAAGTCTTTAAGACACATA
* *
105076 CTTGGTCCTTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATTAT
66 CTTGATCCCTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATTAT
*
105141 ATGGCACTACGGTGCAAT
131 AAGGCACTACGGTGCAAT
*
105159 TCTACGCGGTCCTTCGGGATATATATATATATTCTATGGAACA-TGAGTGAAGTCTTGTAAGACA
1 TCTACGCGGTCCTTCGGG--ACATATATATATTCTATGGAACATTGA-TGAAGTCTT-TAAGACA
105223 CATACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTATGGACATTA
62 CATACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTATGGACATTA
*
105288 TTATAAGGCACTACGGTGTAAT
127 TTATAAGGCACTACGGTGCAAT
*
105310 TCTATGCGG
1 TCTACGCGG
105319 CACTACGGTG
Statistics
Matches: 144, Mismatches: 12, Indels: 5
0.89 0.07 0.03
Matches are distributed among these distances:
148 18 0.12
149 2 0.01
150 28 0.19
151 96 0.67
ACGTcount: A:0.27, C:0.15, G:0.22, T:0.36
Consensus pattern (148 bp):
TCTACGCGGTCCTTCGGGACATATATATATTCTATGGAACATTGATGAAGTCTTTAAGACACATA
CTTGATCCCTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATTAT
AAGGCACTACGGTGCAAT
Found at i:105575 original size:18 final size:19
Alignment explanation
Indices: 105552--105596 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
105542 AAATAATTCG
105552 ATGATAATGATAGAGATA-
1 ATGATAATGATAGAGATAT
* *
105570 ATGATAAT-ATATATATAT
1 ATGATAATGATAGAGATAT
105588 ATGATAATG
1 ATGATAATG
105597 CTAAGAAAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 7 0.30
18 16 0.70
ACGTcount: A:0.49, C:0.00, G:0.16, T:0.36
Consensus pattern (19 bp):
ATGATAATGATAGAGATAT
Found at i:105763 original size:154 final size:156
Alignment explanation
Indices: 105556--105862 Score: 573
Period size: 154 Copynumber: 2.0 Consensus size: 156
105546 AATTCGATGA
105556 TAATGATAGAGATAATGATAATATATATATATATGATAATGCTAAGAAAGTAGATGATGATATAT
1 TAATGATAGAGATAATGATAATATATATATATATGATAATGCTAAGAAAGTAGATGATGATATAT
* *
105621 GTACCTGTGTGTCTTTGTTATATAAAAAGGTATATGATTTTGTATGATAAATTAGTATTAAATGT
66 GTACATGAGTGTCTTTGTTATATAAAAAGGTATATGATTTTGTATGATAAATTAGTATTAAATGT
*
105686 TCCTGTGTTTTGTTATATGGGATGTT
131 TCATGTGTTTTGTTATATGGGATGTT
105712 TAATGATAGAGATAATGAT-A-ATATATATATATGATAATGCTAAGAAAGTAGATGATGATATAT
1 TAATGATAGAGATAATGATAATATATATATATATGATAATGCTAAGAAAGTAGATGATGATATAT
105775 GTACATGAGTGTCTTTGTTATATAAAAAGGTATATGATTTTGTATGATAAATTAGTATTAAATGT
66 GTACATGAGTGTCTTTGTTATATAAAAAGGTATATGATTTTGTATGATAAATTAGTATTAAATGT
105840 TCATGTGTTTTGTTATATGGGAT
131 TCATGTGTTTTGTTATATGGGAT
105863 ATTTTTATGA
Statistics
Matches: 148, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
154 128 0.86
155 1 0.01
156 19 0.13
ACGTcount: A:0.36, C:0.03, G:0.19, T:0.41
Consensus pattern (156 bp):
TAATGATAGAGATAATGATAATATATATATATATGATAATGCTAAGAAAGTAGATGATGATATAT
GTACATGAGTGTCTTTGTTATATAAAAAGGTATATGATTTTGTATGATAAATTAGTATTAAATGT
TCATGTGTTTTGTTATATGGGATGTT
Found at i:111147 original size:117 final size:117
Alignment explanation
Indices: 111008--111292 Score: 489
Period size: 117 Copynumber: 2.4 Consensus size: 117
110998 TTATATATTT
111008 TCCAGAACCATACACCCACCTGCACACCAGTAAGGACTTACCCTGAGCACAAAGCCGAGGAGCCT
1 TCCAGAACCATACACCCACCTGCACACCAGTAAGGACTTACCCTGAGCACAAAGCCGAGGAGCCT
* * *
111073 ACGGTAATAATTTTCCCATCCAATCACTCCGATCACCAAAATGTGTAGGTTC
66 ACGGTAATAACTTTCCAATCCAATCACTCCAATCACCAAAATGTGTAGGTTC
*
111125 TCCATAACCATACACCCACCTGCACACCAGTAAGGACTTACCCTGAGCACAAAGCCGAGGAGCCT
1 TCCAGAACCATACACCCACCTGCACACCAGTAAGGACTTACCCTGAGCACAAAGCCGAGGAGCCT
* *
111190 GCGGTAATAACTTTCCAATCCAATCACTCCAATCACCAAAATGTGTATGTTC
66 ACGGTAATAACTTTCCAATCCAATCACTCCAATCACCAAAATGTGTAGGTTC
* * *
111242 CCCAGAACCATACACCCACCAGCACACCAGTAAGGACTTACCCTAAGCACA
1 TCCAGAACCATACACCCACCTGCACACCAGTAAGGACTTACCCTGAGCACA
111293 CAACAAATGA
Statistics
Matches: 158, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
117 158 1.00
ACGTcount: A:0.33, C:0.34, G:0.15, T:0.18
Consensus pattern (117 bp):
TCCAGAACCATACACCCACCTGCACACCAGTAAGGACTTACCCTGAGCACAAAGCCGAGGAGCCT
ACGGTAATAACTTTCCAATCCAATCACTCCAATCACCAAAATGTGTAGGTTC
Found at i:118060 original size:54 final size:54
Alignment explanation
Indices: 117922--118060 Score: 172
Period size: 54 Copynumber: 2.6 Consensus size: 54
117912 GATAGATGGT
* * * *
117922 GTGCCCACGCCTTAACTGAAGGCTTCTTATGCGGTAGTTCTGGATGAATAAGCC
1 GTGCCCACGCCTTAACTGAAGACTTCTTCTGCGGTAGCTCTGGATAAATAAGCC
* * * *
117976 GTGCTCACGCCTTAACTGGAGACTTATTCTGCGGTAGCTCAT-GATAAATAAGTC
1 GTGCCCACGCCTTAACTGAAGACTTCTTCTGCGGTAGCTC-TGGATAAATAAGCC
* *
118030 GTGCCCACGCCTCAACTGAAGATTTCTTCTG
1 GTGCCCACGCCTTAACTGAAGACTTCTTCTG
118061 TGTTAGGTCA
Statistics
Matches: 71, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
54 70 0.99
55 1 0.01
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.29
Consensus pattern (54 bp):
GTGCCCACGCCTTAACTGAAGACTTCTTCTGCGGTAGCTCTGGATAAATAAGCC
Found at i:119726 original size:60 final size:60
Alignment explanation
Indices: 119646--119769 Score: 164
Period size: 60 Copynumber: 2.1 Consensus size: 60
119636 ACTCGTGTTT
*
119646 TAAATTGATCCCTAAACTTTT-AA-ATATTTAGATTTCATCCCCAAACTATAACTATCATTC
1 TAAATTGATCCCCAAACTTTTGAACAT-TTTA-ATTTCATCCCCAAACTATAACTATCATTC
** *
119706 TAAATT-AGTCCCCAAACTTTTGAACATTTTAATTTCATCCCCAAACTATGGCTTTCATTC
1 TAAATTGA-TCCCCAAACTTTTGAACATTTTAATTTCATCCCCAAACTATAACTATCATTC
119766 TAAA
1 TAAA
119770 CTTGTAACAC
Statistics
Matches: 57, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
59 1 0.02
60 48 0.84
61 6 0.11
62 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.05, T:0.38
Consensus pattern (60 bp):
TAAATTGATCCCCAAACTTTTGAACATTTTAATTTCATCCCCAAACTATAACTATCATTC
Found at i:120368 original size:23 final size:23
Alignment explanation
Indices: 120342--120386 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
120332 CACCACAGCT
*
120342 CGTATAAATGCACCGAAGTGCCC
1 CGTAGAAATGCACCGAAGTGCCC
* *
120365 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
120387 ATATAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCC
Found at i:120637 original size:149 final size:149
Alignment explanation
Indices: 120367--120662 Score: 565
Period size: 149 Copynumber: 2.0 Consensus size: 149
120357 AAGTGCCCCG
*
120367 TAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGAATCA
1 TAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCCTTAAGAATCA
*
120432 TATACATATACTATGGATCAAGTATGTGTCTTTCAAGACTTCACACAGGTTCCAAAGAATATACA
66 TATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACAGGTTCCAAAGAATATACA
*
120497 TATGTCCTAAAGAACCGAA
131 TATATCCTAAAGAACCGAA
120516 TAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCCTTAAGAATCA
1 TAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCCTTAAGAATCA
120581 TATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACAGGTTCCAAAGAATATACA
66 TATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACAGGTTCCAAAGAATATACA
120646 TATATCCTAAAGAACCG
131 TATATCCTAAAGAACCG
120663 CGTAGACCCT
Statistics
Matches: 144, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
149 144 1.00
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (149 bp):
TAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCCTTAAGAATCA
TATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACAGGTTCCAAAGAATATACA
TATATCCTAAAGAACCGAA
Found at i:121265 original size:67 final size:67
Alignment explanation
Indices: 121161--121298 Score: 204
Period size: 67 Copynumber: 2.1 Consensus size: 67
121151 ATTGGTTCCC
* *
121161 CCCCCCTGGGGGTATCGATTCCCCACAAGCATTCTGGAATTTCATATACGATGAGGGGGTATCGG
1 CCCCCCTGGGGGTATCGATTCCCCACAAGCAATCTGGAAATTCATATACGATGAGGGGGTATCGG
121226 TT
66 TT
* * * * * *
121228 CCCCCCTTGGGGTATCGATTCCCCTCTAGTAATCTGGAAATTCATATCCGTTGAGGGGGTATCGG
1 CCCCCCTGGGGGTATCGATTCCCCACAAGCAATCTGGAAATTCATATACGATGAGGGGGTATCGG
121293 TT
66 TT
121295 CCCC
1 CCCC
121299 TTGAATGGGT
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
67 63 1.00
ACGTcount: A:0.19, C:0.28, G:0.25, T:0.28
Consensus pattern (67 bp):
CCCCCCTGGGGGTATCGATTCCCCACAAGCAATCTGGAAATTCATATACGATGAGGGGGTATCGG
TT
Found at i:122337 original size:60 final size:60
Alignment explanation
Indices: 122236--122387 Score: 148
Period size: 60 Copynumber: 2.5 Consensus size: 60
122226 ATAAAATTAG
* ** ** * *
122236 AATATTCAAAAGTTTGGGGACTAATTTAGAAAGAGGGTCATAGTCTAG-GGATGAACTCAG
1 AATACTCAAAAGTTTAAGGACTAATTTAGAAAGAGAATCATAGT-TAGAGGATGAAATCAA
* * *
122296 AATGCTCAAAAGTTTAAGGACTAATTTAGAATA-AGAATCATAGTTTGAGGATGAAATTAA
1 AATACTCAAAAGTTTAAGGACTAATTTAGAA-AGAGAATCATAGTTAGAGGATGAAATCAA
* * *
122356 AATATTCAAAAATTTAAGGATTAATTTA-AAAG
1 AATACTCAAAAGTTTAAGGACTAATTTAGAAAG
122388 GAAGTTTATA
Statistics
Matches: 75, Mismatches: 14, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
58 1 0.01
59 4 0.05
60 69 0.92
61 1 0.01
ACGTcount: A:0.43, C:0.07, G:0.20, T:0.30
Consensus pattern (60 bp):
AATACTCAAAAGTTTAAGGACTAATTTAGAAAGAGAATCATAGTTAGAGGATGAAATCAA
Found at i:124880 original size:2 final size:2
Alignment explanation
Indices: 124873--124916 Score: 52
Period size: 2 Copynumber: 22.0 Consensus size: 2
124863 GGGCCCAATT
* * * *
124873 TC TC TC TC TC TC TC CC TC TC CC TC TC CC TC TC TC CC 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
124915 TC
1 TC
124917 AATATAGGTT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.59, G:0.00, T:0.41
Consensus pattern (2 bp):
TC
Found at i:131460 original size:31 final size:31
Alignment explanation
Indices: 131422--131483 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
131412 ATACATTTTG
131422 GTACTTAAACTCGGTTT-AACGGTGTAATTTA
1 GTACTTAAACTCGGTTTGAA-GGTGTAATTTA
* *
131453 GTACTTAAATTTGGTTTGAAGGTGTAATTTA
1 GTACTTAAACTCGGTTTGAAGGTGTAATTTA
131484 ACATGGAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 26 0.93
32 2 0.07
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.42
Consensus pattern (31 bp):
GTACTTAAACTCGGTTTGAAGGTGTAATTTA
Found at i:137989 original size:61 final size:61
Alignment explanation
Indices: 137913--138032 Score: 170
Period size: 61 Copynumber: 2.0 Consensus size: 61
137903 TACGTTTAAG
* * *
137913 GATATACATATATTTAGGACAAAGCAGCAATTTAGTTTTATAAATAGC-TTATAAATAAAAA
1 GATACACATATATTTAGGACAAAACAGCAATTTAATTTTATAAATA-CTTTATAAATAAAAA
* * *
137974 GATACACATATATTTAGGATAAAACAGTAATTTAATTTTATAAATACTTTATGAATAAA
1 GATACACATATATTTAGGACAAAACAGCAATTTAATTTTATAAATACTTTATAAATAAA
138033 TAAAAAATGG
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
60 1 0.02
61 51 0.98
ACGTcount: A:0.47, C:0.07, G:0.10, T:0.35
Consensus pattern (61 bp):
GATACACATATATTTAGGACAAAACAGCAATTTAATTTTATAAATACTTTATAAATAAAAA
Found at i:146243 original size:60 final size:59
Alignment explanation
Indices: 146134--146247 Score: 151
Period size: 60 Copynumber: 1.9 Consensus size: 59
146124 ACTATGGCTA
* *
146134 TCATTCTAAATTAGTCCTCAAACTTTTGAACATTTCAATGTCATCCCCAAACTATGATCT
1 TCATTCTAAATTAGTCCCCAAACTTTTGAACATTCCAATGTCATCCCC-AACTATGATCT
* *
146194 TCATTCTAAATT-GATCCCCAAACTTTTTGAACATTCCAATTTTAT-CCCAACTAT
1 TCATTCTAAATTAG-TCCCCAAAC-TTTTGAACATTCCAATGTCATCCCCAACTAT
146248 ATGTATATAC
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
59 7 0.15
60 23 0.48
61 18 0.38
ACGTcount: A:0.32, C:0.25, G:0.05, T:0.38
Consensus pattern (59 bp):
TCATTCTAAATTAGTCCCCAAACTTTTGAACATTCCAATGTCATCCCCAACTATGATCT
Found at i:146468 original size:60 final size:60
Alignment explanation
Indices: 146365--146525 Score: 207
Period size: 60 Copynumber: 2.7 Consensus size: 60
146355 TTTGGATGAA
* * * **
146365 TTTGGGAATAAAATTGGAA-GATTCAAAAGTTTAGGGACCAATTTAGAAAGAGGTTCATAG
1 TTTGGGGATGAAATTGGAATG-TTCAAAAGTTTAAGGACCAATTTAGAAAGAGAATCATAG
* * *
146425 TTTGGGGGTGAAATTGGAATGTTCAAAAGTTTAAGGACTAATTTAGAATGAGAATCATAG
1 TTTGGGGATGAAATTGGAATGTTCAAAAGTTTAAGGACCAATTTAGAAAGAGAATCATAG
* * *
146485 TTTGGGGATGAAATTAGAATATTCAAACGTTTAAGGACCAA
1 TTTGGGGATGAAATTGGAATGTTCAAAAGTTTAAGGACCAA
146526 ACAAAAATTA
Statistics
Matches: 87, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
60 86 0.99
61 1 0.01
ACGTcount: A:0.39, C:0.07, G:0.25, T:0.30
Consensus pattern (60 bp):
TTTGGGGATGAAATTGGAATGTTCAAAAGTTTAAGGACCAATTTAGAAAGAGAATCATAG
Found at i:148546 original size:22 final size:22
Alignment explanation
Indices: 148521--148565 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
148511 AGAATTAATC
*
148521 AAAGGCCTTGGTAGATAAGATA
1 AAAGGCCTTGGAAGATAAGATA
* *
148543 AAAGGCTTTTGAAGATAAGATA
1 AAAGGCCTTGGAAGATAAGATA
148565 A
1 A
148566 TATAGGACGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.44, C:0.07, G:0.24, T:0.24
Consensus pattern (22 bp):
AAAGGCCTTGGAAGATAAGATA
Found at i:148713 original size:34 final size:37
Alignment explanation
Indices: 148669--148770 Score: 149
Period size: 34 Copynumber: 2.8 Consensus size: 37
148659 TTTCGTCCTA
*
148669 CTAGGATTCAAACTCCTAAAAATATGATAGA-A-TTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGACATTTT
148704 -TAGGATTCAAACTCCTAAAAATAGGATA-ACATTTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGACATTTT
*
148739 GCTAGGATTCAAATTCCTAAAAATAGGATAGA
1 -CTAGGATTCAAACTCCTAAAAATAGGATAGA
148771 GTTCTACTAA
Statistics
Matches: 60, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
33 1 0.02
34 28 0.47
35 3 0.05
37 27 0.45
38 1 0.02
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (37 bp):
CTAGGATTCAAACTCCTAAAAATAGGATAGACATTTT
Found at i:148757 original size:37 final size:36
Alignment explanation
Indices: 148669--148804 Score: 152
Period size: 37 Copynumber: 3.8 Consensus size: 36
148659 TTTCGTCCTA
*
148669 CTAGGATTCAAACTCCTAAAAATATGATAGAA-TTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGAATTTT
148704 -TAGGATTCAAACTCCTAAAAATAGGATA-ACATTTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGA-ATTTT
* * *
148739 GCTAGGATTCAAATTCCTAAAAATAGGATAGAGTTCTA
1 -CTAGGATTCAAACTCCTAAAAATAGGATAGAATT-TT
* * * *
148777 CTAAGATTTAAATTCCTAAAGATAGGAT
1 CTAGGATTCAAACTCCTAAAAATAGGAT
148805 CCACAAGCAC
Statistics
Matches: 88, Mismatches: 7, Indels: 10
0.84 0.07 0.10
Matches are distributed among these distances:
33 1 0.01
34 28 0.32
35 3 0.03
37 54 0.61
38 2 0.02
ACGTcount: A:0.42, C:0.13, G:0.14, T:0.31
Consensus pattern (36 bp):
CTAGGATTCAAACTCCTAAAAATAGGATAGAATTTT
Found at i:149202 original size:18 final size:17
Alignment explanation
Indices: 149163--149261 Score: 62
Period size: 18 Copynumber: 5.5 Consensus size: 17
149153 ATTATATGAA
149163 TATT-TTATTCATTTAT
1 TATTATTATTCATTTAT
*
149179 TTTTATTATTCATGTTAT
1 TATTATTATTCAT-TTAT
*
149197 TATTATTATATGTATATATAT
1 TATTATTAT-T-CAT-T-TAT
149218 ATATTATT-TTCATTTAT
1 -TATTATTATTCATTTAT
*
149235 T-TTTTTACTAT-ATTTTAT
1 TATTATTA-T-TCA-TTTAT
149253 TATTATTAT
1 TATTATTAT
149262 ATATATATAT
Statistics
Matches: 65, Mismatches: 7, Indels: 20
0.71 0.08 0.22
Matches are distributed among these distances:
15 4 0.06
16 4 0.06
17 13 0.20
18 21 0.32
19 8 0.12
20 4 0.06
21 4 0.06
22 7 0.11
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.66
Consensus pattern (17 bp):
TATTATTATTCATTTAT
Found at i:149231 original size:56 final size:52
Alignment explanation
Indices: 149162--149277 Score: 146
Period size: 56 Copynumber: 2.2 Consensus size: 52
149152 TATTATATGA
* * *
149162 ATATT-TTATTCATTTATTTTTATTATTCATGTTATTATTATTATATGTATATATAT
1 ATATTATT-TTCATTTATTTTT-TTACT-ATATT-TTATTATTAT-TATATATATAT
149218 ATATTATTTTCATTTATTTTTTTACTATATTTTATTATTATTATATATATAT
1 ATATTATTTTCATTTATTTTTTTACTATATTTTATTATTATTATATATATAT
149270 AT-TTATTT
1 ATATTATTT
149278 AATATTTTAC
Statistics
Matches: 56, Mismatches: 3, Indels: 7
0.85 0.05 0.11
Matches are distributed among these distances:
51 6 0.11
52 12 0.21
53 10 0.18
54 4 0.07
55 4 0.07
56 18 0.32
57 2 0.04
ACGTcount: A:0.30, C:0.03, G:0.02, T:0.65
Consensus pattern (52 bp):
ATATTATTTTCATTTATTTTTTTACTATATTTTATTATTATTATATATATAT
Found at i:149482 original size:21 final size:22
Alignment explanation
Indices: 149458--149516 Score: 70
Period size: 21 Copynumber: 2.7 Consensus size: 22
149448 ACTTTATAAC
149458 TTTATATTATTTTTT-ATTATT
1 TTTATATTATTTTTTCATTATT
149479 TTTAT-TT-TTTTATTCATTATT
1 TTTATATTATTTT-TTCATTATT
*
149500 ATTATATTATTATTTTC
1 TTTATATTATT-TTTTC
149517 TTTAAAAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
19 4 0.12
20 4 0.12
21 15 0.47
22 2 0.06
23 5 0.16
24 2 0.06
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (22 bp):
TTTATATTATTTTTTCATTATT
Found at i:152885 original size:22 final size:21
Alignment explanation
Indices: 152850--152900 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
152840 AGATCCAATC
152850 AAGAAGAAA-AAAGAAAAGAAGCA
1 AAGAA-AAACAAAGAAAA-AA-CA
152873 AA-AAAAACAAAGAAAAAACA
1 AAGAAAAACAAAGAAAAAACA
152893 AAGAAAAA
1 AAGAAAAA
152901 AGAGAAACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
20 4 0.15
21 10 0.38
22 10 0.38
23 2 0.08
ACGTcount: A:0.80, C:0.06, G:0.14, T:0.00
Consensus pattern (21 bp):
AAGAAAAACAAAGAAAAAACA
Found at i:152888 original size:11 final size:11
Alignment explanation
Indices: 152874--152901 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
152864 AAAGAAGCAA
152874 AAAAAACAAAG
1 AAAAAACAAAG
152885 AAAAAACAAAG
1 AAAAAACAAAG
152896 AAAAAA
1 AAAAAA
152902 GAGAAACAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.86, C:0.07, G:0.07, T:0.00
Consensus pattern (11 bp):
AAAAAACAAAG
Found at i:153607 original size:22 final size:22
Alignment explanation
Indices: 153576--153630 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
153566 GCTATCCCAT
*
153576 CAAACATTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
153598 CAAACCTTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
153620 CAAACCTTTGA
1 CAAACCTTTGA
153631 CCAAACACAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.38, C:0.25, G:0.13, T:0.24
Consensus pattern (22 bp):
CAAACCTTTGAGCATCAAATGC
Found at i:154054 original size:18 final size:18
Alignment explanation
Indices: 154031--154066 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
154021 TCAACATCAA
* *
154031 ATATTGGGGCATTTTTGG
1 ATATTGAGGCATCTTTGG
154049 ATATTGAGGCATCTTTGG
1 ATATTGAGGCATCTTTGG
154067 GGATTCAACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.19, C:0.08, G:0.31, T:0.42
Consensus pattern (18 bp):
ATATTGAGGCATCTTTGG
Found at i:154583 original size:36 final size:36
Alignment explanation
Indices: 154486--154606 Score: 188
Period size: 36 Copynumber: 3.3 Consensus size: 36
154476 ATTGAAAACA
* *
154486 TTTCCCTTGAAATAAATTTCGTCTCTCTTGAGATAG
1 TTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAG
* *
154522 TTTACCTTGAAACAAAATTTTGTCTCTCTTGAGACAG
1 TTTCCCTTGAAA-TAAATTTTGTCTCTCTTGAGACAG
*
154559 TTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAA
1 TTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAG
154595 TTTCCCTTGAAA
1 TTTCCCTTGAAA
154607 CAAAATATTT
Statistics
Matches: 77, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
36 45 0.58
37 32 0.42
ACGTcount: A:0.27, C:0.20, G:0.12, T:0.40
Consensus pattern (36 bp):
TTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAG
Found at i:154646 original size:138 final size:137
Alignment explanation
Indices: 154429--154809 Score: 428
Period size: 138 Copynumber: 2.8 Consensus size: 137
154419 GATTGCTTTT
* * * *
154429 TTAAAACAAATTTTGTCTCCCTTGAGAC-AGTTCTCTTG-AACATAAACATTGAAAACATTTCCC
1 TTAAAACAAATTTTGTCTCTCTTGAGACAATTTCCCTTGAAACA-AAATATTGAAAACATTTCCC
* * *
154492 TTGAAATAAATTTCGTCTCTCTTGAGATAGTTTAC-CTTGAAACAAAATTTTGTCTCTCTTGAGA
65 TTGAAACAAATTTCGTCTCCCTTGAGACAG-TTACTCTTGAAACAAAATTTTGTCTCTCTTGAGA
154556 CAGTTTCCC
129 CAGTTTCCC
* * * ** * *
154565 TTGAAATAAATTTTGTCTCTCTTGAGACAATTTCCCTTGAAACAAAATATTTGAATATGTTTTCT
1 TTAAAACAAATTTTGTCTCTCTTGAGACAATTTCCCTTGAAACAAAATA-TTGAAAACATTTCCC
* * * * *
154630 TTGAAACAAATTTCGTCTCCCTTGAGACAGTTGCTTTTGGAACTAAGTTTTGTCTCTCTTGAGAC
65 TTGAAACAAATTTCGTCTCCCTTGAGACAGTTACTCTTGAAACAAAATTTTGTCTCTCTTGAGAC
*
154695 AGTTTCTC
130 AGTTTCCC
* * * * * ** *
154703 TTAAAACAAATTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAAATCTTTAAATTATTTCCCC
1 TTAAAACAAATTTTGTCTCTCTTGAGACAATTTCCCTTGAAACAAAATATTGAAAACATTTCCCT
* * *
154768 TAAAAC-AATTTTGTCTCCCTTGAGACAATTACTCTTGAAACA
66 TGAAACAAATTTCGTCTCCCTTGAGACAGTTACTCTTGAAACA
154810 CAAAATCTTC
Statistics
Matches: 201, Mismatches: 40, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
136 55 0.27
137 29 0.14
138 117 0.58
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38
Consensus pattern (137 bp):
TTAAAACAAATTTTGTCTCTCTTGAGACAATTTCCCTTGAAACAAAATATTGAAAACATTTCCCT
TGAAACAAATTTCGTCTCCCTTGAGACAGTTACTCTTGAAACAAAATTTTGTCTCTCTTGAGACA
GTTTCCC
Done.