Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 18 of 250
Found at i:5134157 original size:21 final size:23
Alignment explanation
Indices: 5134133--5134181 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
5134123 AATTTCATTG
*
5134133 AAATTTTCT-C-AAAATTCTATC
1 AAATTTTCTACAAAAATTCTAAC
5134154 AAA-TTTCTACAAAAATTCTAAC
1 AAATTTTCTACAAAAATTCTAAC
5134176 -AATTTT
1 AAATTTT
5134182 ATTTGTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 5 0.21
21 6 0.25
22 13 0.54
ACGTcount: A:0.43, C:0.16, G:0.00, T:0.41
Consensus pattern (23 bp):
AAATTTTCTACAAAAATTCTAAC
Found at i:5134380 original size:48 final size:45
Alignment explanation
Indices: 5134316--5134450 Score: 164
Period size: 48 Copynumber: 2.8 Consensus size: 45
5134306 AGTGATAATT
*
5134316 TTAAATTTTCAATACTATTCGATTTTTTCTTAATTTATGCAAATT-TAA
1 TTAAA-TTTCAATACTATT-GATTTTTT-TTCATTTATGC-AATTATAA
5134364 TTAAATTTGCAATACTATTTGATATTTTTTTCATTTATGCAATTATAA
1 TTAAATTT-CAATACTA-TTGAT-TTTTTTTCATTTATGCAATTATAA
5134412 TTAAAATTTCAATACTACTTGATTTTTTTTTCATTTATG
1 TT-AAATTTCAATACTA-TTGA-TTTTTTTTCATTTATG
5134451 ATGTTTGCAT
Statistics
Matches: 79, Mismatches: 2, Indels: 12
0.85 0.02 0.13
Matches are distributed among these distances:
47 7 0.09
48 58 0.73
49 14 0.18
ACGTcount: A:0.32, C:0.10, G:0.05, T:0.53
Consensus pattern (45 bp):
TTAAATTTCAATACTATTGATTTTTTTTCATTTATGCAATTATAA
Found at i:5136090 original size:18 final size:18
Alignment explanation
Indices: 5136048--5136083 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
5136038 CGCTAGGTGC
*
5136048 ATATCCTAGCCCTTATAT
1 ATATCCTAACCCTTATAT
5136066 ATATCCTAACCCTTATAT
1 ATATCCTAACCCTTATAT
5136084 GTTTCCTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.28, G:0.03, T:0.39
Consensus pattern (18 bp):
ATATCCTAACCCTTATAT
Found at i:5144189 original size:47 final size:47
Alignment explanation
Indices: 5144120--5144291 Score: 237
Period size: 47 Copynumber: 3.7 Consensus size: 47
5144110 GGATGGTTGA
5144120 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
5144167 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAG
5144215 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
*
5144260 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTC
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
5144292 ACTTATGGAT
Statistics
Matches: 109, Mismatches: 7, Indels: 18
0.81 0.05 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 29 0.27
47 60 0.55
48 3 0.03
50 5 0.05
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (47 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:5144237 original size:46 final size:46
Alignment explanation
Indices: 5144170--5144342 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
5144160 TAACTAGGCA
5144170 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
5144216 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
5144261 CATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
5144309 CCCGAGCTCGTTGAGTTGATTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
5144343 GGGGCGGGTT
Statistics
Matches: 106, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 59 0.56
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:5144263 original size:93 final size:93
Alignment explanation
Indices: 5144123--5144337 Score: 385
Period size: 93 Copynumber: 2.3 Consensus size: 93
5144113 TGGTTGAGCA
5144123 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAACTCGTTGAGTTG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAACTCGTTGAGTTG
*
5144188 AGTCCGAGTTCACTTATGGATGCGAATG
66 AGTCCGAGTTCACTTATGGATGCGAACG
5144216 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAACTCGTTGAGTTG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAACTCGTTGAGTTG
*
5144281 AGTCTGAGTTCACTTATGGATGCGAACG
66 AGTCCGAGTTCACTTATGGATGCGAACG
* * *
5144309 CCCGAGCTCGTTGAGTTGATTCCGAGTTC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC
5144338 ACTTAGGGGC
Statistics
Matches: 117, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 117 1.00
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAACTCGTTGAGTTG
AGTCCGAGTTCACTTATGGATGCGAACG
Found at i:5156266 original size:25 final size:25
Alignment explanation
Indices: 5156217--5156276 Score: 61
Period size: 24 Copynumber: 2.4 Consensus size: 25
5156207 TATGCATAAC
*
5156217 AACATATAAGAATATGATAAT-AAA
1 AACATATATGAATATGATAATAAAA
*
5156241 AACATATATGCATAATGAT-ATGAAAA
1 AACATATATGAAT-ATGATAAT-AAAA
5156267 ATACATATAT
1 A-ACATATAT
5156277 ATATAATATG
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
24 13 0.43
25 5 0.17
26 4 0.13
27 8 0.27
ACGTcount: A:0.57, C:0.07, G:0.08, T:0.28
Consensus pattern (25 bp):
AACATATATGAATATGATAATAAAA
Found at i:5159928 original size:144 final size:144
Alignment explanation
Indices: 5159697--5160854 Score: 1760
Period size: 144 Copynumber: 8.0 Consensus size: 144
5159687 TGTGACCTGA
* * * * * * *
5159697 AAGCCAATTGGAGGATAGATTCAAAT-TAATCAAATTTGTTAGTCTCCCAATATCTTCTGGAATG
1 AAGCCTATTGGAGGATAGA-TCCAATGCAACCAAATTCGTTAGTCTCCCAATTTCTTGTGGAATG
* * * * * **
5159761 GGTTCACTAAGTTGGTTACTTTGAAGGAACAACGAGTTAAGATTGGTTAAGTTGCTGACAGAAGA
65 GATCCATTAAGTTGGTTGCTTTGAAGGTACAACGAGGCAAGATTGGTTAAGTTGCTGACAGAAGA
* *
5159826 TGGTATTAGACCAAC
130 TGGGATTGGACCAAC
* * * * * *
5159841 AAGACTATTGGAGGATAGATCCAATTCAAGCAAATTCGTTAGTCTCCCAATATCTTCTGGAATAG
1 AAGCCTATTGGAGGATAGATCCAATGCAACCAAATTCGTTAGTCTCCCAATTTCTTGTGGAATGG
* * * *
5159906 ATTCATTAAGTTGGTTGATTTGAAGGAACAACGAGGTAAGATTGGTTAAGTTGCTGACAGAAGAT
66 ATCCATTAAGTTGGTTGCTTTGAAGGTACAACGAGGCAAGATTGGTTAAGTTGCTGACAGAAGAT
*
5159971 GGTATTGGACCAAC
131 GGGATTGGACCAAC
* *
5159985 AAGACTATTGGAGGATAGATCCAATTCAACCAAATTCGTTAGTCTCCCAATTTCTTGTGGAATGG
1 AAGCCTATTGGAGGATAGATCCAATGCAACCAAATTCGTTAGTCTCCCAATTTCTTGTGGAATGG
*
5160050 ATCCATTAAGTTGGTTGCTTTGAAGGTCCAACGAGGCAAGATTGGTTAAGTTGCTGACAGAAGAT
66 ATCCATTAAGTTGGTTGCTTTGAAGGTACAACGAGGCAAGATTGGTTAAGTTGCTGACAGAAGAT
5160115 GGGATTGGACCAAC
131 GGGATTGGACCAAC
* * *
5160129 AAGCCTATTGTAGGATAGATCGAATGCAACCAAATTCGTTAATCTCCCAATTTCTTGTGGAATGG
1 AAGCCTATTGGAGGATAGATCCAATGCAACCAAATTCGTTAGTCTCCCAATTTCTTGTGGAATGG
* *
5160194 ATCCATCAAGTTGGTTGCTTTGAAGGTCCAACGAGGCAAGATTGGTTAAGTTGCTGACAGAAGAT
66 ATCCATTAAGTTGGTTGCTTTGAAGGTACAACGAGGCAAGATTGGTTAAGTTGCTGACAGAAGAT
5160259 GGGATTGGACCAAC
131 GGGATTGGACCAAC
** *
5160273 AAGCCTATTGTCGGATAGATCGAATGCAACCAAATTCGTTAGTCTCCCAATTTCTTGTGGAATGG
1 AAGCCTATTGGAGGATAGATCCAATGCAACCAAATTCGTTAGTCTCCCAATTTCTTGTGGAATGG
* * * *
5160338 ATCCACTAAGTTGGTTGCTTTGAAGGTCCAACGAGGTAAGATTGGTTAAGTTGCTGACCGAAGAT
66 ATCCATTAAGTTGGTTGCTTTGAAGGTACAACGAGGCAAGATTGGTTAAGTTGCTGACAGAAGAT
*
5160403 GGTATTGGACCAAC
131 GGGATTGGACCAAC
* * * *
5160417 AAGACTATTGGAGGATAGATCCAATTCAACCAAATTCGTTAGTCTCCCAATATCTTCTGGAATGG
1 AAGCCTATTGGAGGATAGATCCAATGCAACCAAATTCGTTAGTCTCCCAATTTCTTGTGGAATGG
*
5160482 ATCCATTAAGTTGGTTGCTTTGAAGGTACAACGAGGCAAGATTGGTTAAGTAGCTGACAGAAGAT
66 ATCCATTAAGTTGGTTGCTTTGAAGGTACAACGAGGCAAGATTGGTTAAGTTGCTGACAGAAGAT
5160547 GGGATTGGACCAAC
131 GGGATTGGACCAAC
* *
5160561 AAGCCTATTGGAGGATAGATCTAATGCAACCAAATTCTTTAGTCTCCCAATTTCTTGTGGAATGG
1 AAGCCTATTGGAGGATAGATCCAATGCAACCAAATTCGTTAGTCTCCCAATTTCTTGTGGAATGG
*
5160626 ATCCATTAAGTTTGTTGCTTTGAAGGTACAACGAGGCAAGATTGGTTAAGTTGCTGACAGAAGAT
66 ATCCATTAAGTTGGTTGCTTTGAAGGTACAACGAGGCAAGATTGGTTAAGTTGCTGACAGAAGAT
*
5160691 GAGATTGGACCAAC
131 GGGATTGGACCAAC
* * *
5160705 AAGCCTATTGGAGGATAGATCTAATGCAACCAAATTCCTTAAGTCTCCAAATTTCTTGTGGAATG
1 AAGCCTATTGGAGGATAGATCCAATGCAACCAAATTCGTT-AGTCTCCCAATTTCTTGTGGAATG
* * *
5160770 GATCCAATAAGTTGGTTGCTTTGAAGGTACAACGAGGCAAGATTCGTTAAGTTGCTGAAAGAAGA
65 GATCCATTAAGTTGGTTGCTTTGAAGGTACAACGAGGCAAGATTGGTTAAGTTGCTGACAGAAGA
*
5160835 TGGGATTGGACCAAT
130 TGGGATTGGACCAAC
5160850 AAGCC
1 AAGCC
5160855 CGTTGTTTGA
Statistics
Matches: 946, Mismatches: 66, Indels: 3
0.93 0.07 0.00
Matches are distributed among these distances:
143 5 0.01
144 839 0.89
145 102 0.11
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (144 bp):
AAGCCTATTGGAGGATAGATCCAATGCAACCAAATTCGTTAGTCTCCCAATTTCTTGTGGAATGG
ATCCATTAAGTTGGTTGCTTTGAAGGTACAACGAGGCAAGATTGGTTAAGTTGCTGACAGAAGAT
GGGATTGGACCAAC
Found at i:5165928 original size:215 final size:212
Alignment explanation
Indices: 5165560--5165973 Score: 729
Period size: 215 Copynumber: 1.9 Consensus size: 212
5165550 AATACATACA
5165560 ATATCTATAACACCCCAAACCCAACCTAGACGTTAAGGCAGAATCTGGCGTGTCACATTAAAATG
1 ATATCTATAACACCCCAAACCCAACCTAGACGTTAAGGCAGAATCTGGCGTGTCACATTAAAATG
* *
5165625 CTTTTCGAAAAAAAACTGTCTTATTAATAAATCTCGCTTGAAAGATAAAAGCCCCTTTTGTTTAA
66 CTTTTCGAAAAAAAACTGTCTTATTAATAAATCTCGCTTGAAAGATAAAAACCCATTTTGTTTAA
5165690 TTCTAAAGTCAACTTAATTATTTGTTAACCATTTTAAACCAGCCTTACTTTTAAAAACATGTTTG
131 TTCTAAAGTCAACTTAATTATTTGTTAACCATTTTAAACCAGCCTTACTTTTAAAAACATGTTTG
5165755 TTGCAGAAGCATTTCTG
196 TTGCAGAAGCATTTCTG
* * * * *
5165772 ATATCTATAACACCCCAAATCCGACCTAGACGTTATGGCCGAATCTGGCGTGTCACTTTAAAATG
1 ATATCTATAACACCCCAAACCCAACCTAGACGTTAAGGCAGAATCTGGCGTGTCACATTAAAATG
*
5165837 CTTTTTCGAAAAAAAACTTTGTCTTATTAATAAATCTTGCTTGAAAGATAAAAACCCATTTTGTT
66 C-TTTTCGAAAAAAAAC--TGTCTTATTAATAAATCTCGCTTGAAAGATAAAAACCCATTTTGTT
5165902 TAATTCTAAAGTCAACTTAATTATTTGTTAACCATTTTAAACCAGCCTTACTTTTAAAAACATGT
128 TAATTCTAAAGTCAACTTAATTATTTGTTAACCATTTTAAACCAGCCTTACTTTTAAAAACATGT
5165967 TTGTTGC
193 TTGTTGC
5165974 GAAAACGTGA
Statistics
Matches: 191, Mismatches: 8, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
212 61 0.32
213 15 0.08
215 115 0.60
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.35
Consensus pattern (212 bp):
ATATCTATAACACCCCAAACCCAACCTAGACGTTAAGGCAGAATCTGGCGTGTCACATTAAAATG
CTTTTCGAAAAAAAACTGTCTTATTAATAAATCTCGCTTGAAAGATAAAAACCCATTTTGTTTAA
TTCTAAAGTCAACTTAATTATTTGTTAACCATTTTAAACCAGCCTTACTTTTAAAAACATGTTTG
TTGCAGAAGCATTTCTG
Found at i:5166355 original size:33 final size:33
Alignment explanation
Indices: 5166310--5166390 Score: 144
Period size: 33 Copynumber: 2.5 Consensus size: 33
5166300 CGCATCAATA
*
5166310 TGGGCCTAAGCCCATTACAATAATGATGACACT
1 TGGGCCTTAGCCCATTACAATAATGATGACACT
*
5166343 TGGGCCTTAGCCCATTACAATAATGATGGCACT
1 TGGGCCTTAGCCCATTACAATAATGATGACACT
5166376 TGGGCCTTAGCCCAT
1 TGGGCCTTAGCCCAT
5166391 AGTAGCCTTA
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:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (33 bp):
TGGGCCTTAGCCCATTACAATAATGATGACACT
Found at i:5169841 original size:17 final size:18
Alignment explanation
Indices: 5169821--5169854 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
5169811 AAGTGAATTG
5169821 AAATTGC-GAAATTAAAT
1 AAATTGCAGAAATTAAAT
5169838 AAATTGCAGAAATTAAA
1 AAATTGCAGAAATTAAA
5169855 ATGAGGAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.56, C:0.06, G:0.12, T:0.26
Consensus pattern (18 bp):
AAATTGCAGAAATTAAAT
Found at i:5170597 original size:10 final size:10
Alignment explanation
Indices: 5170578--5170627 Score: 68
Period size: 10 Copynumber: 5.0 Consensus size: 10
5170568 TGAAATTCTA
5170578 AAAGATAAAT
1 AAAGATAAAT
5170588 ACAA-ATAAAT
1 A-AAGATAAAT
5170598 AAAGATAAAT
1 AAAGATAAAT
5170608 AAAGATAAAT
1 AAAGATAAAT
5170618 GAAA-ATAAAT
1 -AAAGATAAAT
5170628 CCTAAAATTA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
9 2 0.05
10 30 0.81
11 5 0.14
ACGTcount: A:0.70, C:0.02, G:0.08, T:0.20
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:5171824 original size:13 final size:12
Alignment explanation
Indices: 5171796--5171829 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
5171786 ATTAAAATTT
*
5171796 TGAATATAATCA
1 TGAATATAAGCA
5171808 TGAATATCAAGCA
1 TGAATAT-AAGCA
5171821 TGAATATAA
1 TGAATATAA
5171830 CCATTTCCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.50, C:0.09, G:0.12, T:0.29
Consensus pattern (12 bp):
TGAATATAAGCA
Found at i:5172615 original size:42 final size:42
Alignment explanation
Indices: 5172496--5172624 Score: 159
Period size: 42 Copynumber: 3.0 Consensus size: 42
5172486 CACATAGTAC
* * *
5172496 CATACCAATGCCATATCCTAGATATGGTCTTACATGTAATCT
1 CATACCGATGCCATATCCCAGATATGGTCTTACACGTAATCT
** * * * *
5172538 TGTATCGATGCCAATAGCCCAGCTATGGTCTTACACGAAATCT
1 CATACCGATGCC-ATATCCCAGATATGGTCTTACACGTAATCT
*
5172581 CATACCGATGCCATATCCCAAATATGGTCTTACACGTAATCT
1 CATACCGATGCCATATCCCAGATATGGTCTTACACGTAATCT
5172623 CA
1 CA
5172625 ATAACCTTAA
Statistics
Matches: 70, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
42 36 0.51
43 34 0.49
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.29
Consensus pattern (42 bp):
CATACCGATGCCATATCCCAGATATGGTCTTACACGTAATCT
Found at i:5174361 original size:29 final size:29
Alignment explanation
Indices: 5174298--5174362 Score: 69
Period size: 29 Copynumber: 2.2 Consensus size: 29
5174288 TAATTAAAAT
* *
5174298 AAAAATAATAAGAAAAGAAATAAAATTAA
1 AAAAATAAAAAGAAAAGAAATAAAATAAA
* * *
5174327 ATAAATAAAAAG-CAAGAAATTAAATAAGA
1 AAAAATAAAAAGAAAAGAAATAAAATAA-A
5174356 AAAAATA
1 AAAAATA
5174363 TATCAAATCT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
28 12 0.41
29 17 0.59
ACGTcount: A:0.74, C:0.02, G:0.08, T:0.17
Consensus pattern (29 bp):
AAAAATAAAAAGAAAAGAAATAAAATAAA
Found at i:5178710 original size:144 final size:144
Alignment explanation
Indices: 5178479--5179636 Score: 1760
Period size: 144 Copynumber: 8.0 Consensus size: 144
5178469 TGTGACCTGA
* * * * * * *
5178479 AAGCCAATTGGAGGATAGATTCAAAT-TAATCAAATTTGTTAGTCTCCCAATATCTTCTGGAATG
1 AAGCCTATTGGAGGATAGA-TCCAATGCAACCAAATTCGTTAGTCTCCCAATTTCTTGTGGAATG
* * * * * **
5178543 GGTTCACTAAGTTGGTTACTTTGAAGGAACAACGAGTTAAGATTGGTTAAGTTGCTGACAGAAGA
65 GATCCATTAAGTTGGTTGCTTTGAAGGTACAACGAGGCAAGATTGGTTAAGTTGCTGACAGAAGA
* *
5178608 TGGTATTAGACCAAC
130 TGGGATTGGACCAAC
* * * * * *
5178623 AAGACTATTGGAGGATAGATCCAATTCAAGCAAATTCGTTAGTCTCCCAATATCTTCTGGAATAG
1 AAGCCTATTGGAGGATAGATCCAATGCAACCAAATTCGTTAGTCTCCCAATTTCTTGTGGAATGG
* * * *
5178688 ATTCATTAAGTTGGTTGATTTGAAGGAACAACGAGGTAAGATTGGTTAAGTTGCTGACAGAAGAT
66 ATCCATTAAGTTGGTTGCTTTGAAGGTACAACGAGGCAAGATTGGTTAAGTTGCTGACAGAAGAT
*
5178753 GGTATTGGACCAAC
131 GGGATTGGACCAAC
* *
5178767 AAGACTATTGGAGGATAGATCCAATTCAACCAAATTCGTTAGTCTCCCAATTTCTTGTGGAATGG
1 AAGCCTATTGGAGGATAGATCCAATGCAACCAAATTCGTTAGTCTCCCAATTTCTTGTGGAATGG
*
5178832 ATCCATTAAGTTGGTTGCTTTGAAGGTCCAACGAGGCAAGATTGGTTAAGTTGCTGACAGAAGAT
66 ATCCATTAAGTTGGTTGCTTTGAAGGTACAACGAGGCAAGATTGGTTAAGTTGCTGACAGAAGAT
5178897 GGGATTGGACCAAC
131 GGGATTGGACCAAC
* * *
5178911 AAGCCTATTGTAGGATAGATCGAATGCAACCAAATTCGTTAATCTCCCAATTTCTTGTGGAATGG
1 AAGCCTATTGGAGGATAGATCCAATGCAACCAAATTCGTTAGTCTCCCAATTTCTTGTGGAATGG
* *
5178976 ATCCATCAAGTTGGTTGCTTTGAAGGTCCAACGAGGCAAGATTGGTTAAGTTGCTGACAGAAGAT
66 ATCCATTAAGTTGGTTGCTTTGAAGGTACAACGAGGCAAGATTGGTTAAGTTGCTGACAGAAGAT
5179041 GGGATTGGACCAAC
131 GGGATTGGACCAAC
** *
5179055 AAGCCTATTGTCGGATAGATCGAATGCAACCAAATTCGTTAGTCTCCCAATTTCTTGTGGAATGG
1 AAGCCTATTGGAGGATAGATCCAATGCAACCAAATTCGTTAGTCTCCCAATTTCTTGTGGAATGG
* * * *
5179120 ATCCACTAAGTTGGTTGCTTTGAAGGTCCAACGAGGTAAGATTGGTTAAGTTGCTGACCGAAGAT
66 ATCCATTAAGTTGGTTGCTTTGAAGGTACAACGAGGCAAGATTGGTTAAGTTGCTGACAGAAGAT
*
5179185 GGTATTGGACCAAC
131 GGGATTGGACCAAC
* * * *
5179199 AAGACTATTGGAGGATAGATCCAATTCAACCAAATTCGTTAGTCTCCCAATATCTTCTGGAATGG
1 AAGCCTATTGGAGGATAGATCCAATGCAACCAAATTCGTTAGTCTCCCAATTTCTTGTGGAATGG
*
5179264 ATCCATTAAGTTGGTTGCTTTGAAGGTACAACGAGGCAAGATTGGTTAAGTAGCTGACAGAAGAT
66 ATCCATTAAGTTGGTTGCTTTGAAGGTACAACGAGGCAAGATTGGTTAAGTTGCTGACAGAAGAT
5179329 GGGATTGGACCAAC
131 GGGATTGGACCAAC
* *
5179343 AAGCCTATTGGAGGATAGATCTAATGCAACCAAATTCTTTAGTCTCCCAATTTCTTGTGGAATGG
1 AAGCCTATTGGAGGATAGATCCAATGCAACCAAATTCGTTAGTCTCCCAATTTCTTGTGGAATGG
*
5179408 ATCCATTAAGTTTGTTGCTTTGAAGGTACAACGAGGCAAGATTGGTTAAGTTGCTGACAGAAGAT
66 ATCCATTAAGTTGGTTGCTTTGAAGGTACAACGAGGCAAGATTGGTTAAGTTGCTGACAGAAGAT
*
5179473 GAGATTGGACCAAC
131 GGGATTGGACCAAC
* * *
5179487 AAGCCTATTGGAGGATAGATCTAATGCAACCAAATTCCTTAAGTCTCCAAATTTCTTGTGGAATG
1 AAGCCTATTGGAGGATAGATCCAATGCAACCAAATTCGTT-AGTCTCCCAATTTCTTGTGGAATG
* * *
5179552 GATCCAATAAGTTGGTTGCTTTGAAGGTACAACGAGGCAAGATTCGTTAAGTTGCTGAAAGAAGA
65 GATCCATTAAGTTGGTTGCTTTGAAGGTACAACGAGGCAAGATTGGTTAAGTTGCTGACAGAAGA
*
5179617 TGGGATTGGACCAAT
130 TGGGATTGGACCAAC
5179632 AAGCC
1 AAGCC
5179637 CGTTGTTTGA
Statistics
Matches: 946, Mismatches: 66, Indels: 3
0.93 0.07 0.00
Matches are distributed among these distances:
143 5 0.01
144 839 0.89
145 102 0.11
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (144 bp):
AAGCCTATTGGAGGATAGATCCAATGCAACCAAATTCGTTAGTCTCCCAATTTCTTGTGGAATGG
ATCCATTAAGTTGGTTGCTTTGAAGGTACAACGAGGCAAGATTGGTTAAGTTGCTGACAGAAGAT
GGGATTGGACCAAC
Found at i:5182611 original size:32 final size:31
Alignment explanation
Indices: 5182549--5182639 Score: 105
Period size: 32 Copynumber: 2.9 Consensus size: 31
5182539 TAGGATAAAG
*
5182549 GTAATAAAAT--ATAATTTACATATAAAAATAT
1 GTAATAAAATAAATAATATA-ATAT-AAAATAT
* *
5182580 GTAATAATATAAATCATATAATAATAAAATAT
1 GTAATAAAATAAATAATATAAT-ATAAAATAT
*
5182612 GTAATAAAATATATAATATAATATAAAA
1 GTAATAAAATAAATAATATAATATAAAA
5182640 AGAATAATAT
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
31 15 0.29
32 28 0.55
33 8 0.16
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.34
Consensus pattern (31 bp):
GTAATAAAATAAATAATATAATATAAAATAT
Found at i:5182616 original size:12 final size:12
Alignment explanation
Indices: 5182595--5182636 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
5182585 AATATAAATC
5182595 ATATAATAATAAA
1 ATAT-ATAATAAA
*
5182608 ATATGTAATAAA
1 ATATATAATAAA
*
5182620 ATATATAATATA
1 ATATATAATAAA
5182632 ATATA
1 ATATA
5182637 AAAAGAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
12 22 0.85
13 4 0.15
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (12 bp):
ATATATAATAAA
Found at i:5182759 original size:21 final size:21
Alignment explanation
Indices: 5182735--5182775 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
5182725 TAATTTTATA
5182735 AATAAAAT-ATATAATAATATG
1 AATAAAATAATAT-ATAATATG
*
5182756 AATAATATAATATATAATAT
1 AATAAAATAATATATAATAT
5182776 ATAAAAATAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (21 bp):
AATAAAATAATATATAATATG
Found at i:5182765 original size:17 final size:15
Alignment explanation
Indices: 5182735--5182962 Score: 108
Period size: 15 Copynumber: 15.4 Consensus size: 15
5182725 TAATTTTATA
*
5182735 AATAAAATATATAAT
1 AATATAATATATAAT
5182750 AATATGAATAATATAAT
1 AATAT-AAT-ATATAAT
*
5182767 -ATATAATATATAAA
1 AATATAATATATAAT
* *
5182781 AATACT-ATGTACTAAA
1 AATA-TAATATA-TAAT
5182797 ACATATAATATA-AATGT
1 A-ATATAATATATAA--T
5182814 AA-ATAATATATACAT
1 AATATAATATATA-AT
* *
5182829 -ATAAAAGTATATGAAA
1 AATATAA-TATAT-AAT
*
5182845 AATTAAAATATATAAT
1 AA-TATAATATATAAT
*
5182861 AATATAATAGATAA-
1 AATATAATATATAAT
5182875 AATATAATA-A-AAT
1 AATATAATATATAAT
5182888 AA-ATAATATAT-AT
1 AATATAATATATAAT
* *
5182901 AATGAAAATACAT-AT
1 AAT-ATAATATATAAT
*
5182916 AATAT-ATA-GTAA-
1 AATATAATATATAAT
* *
5182928 AATACAATATAAAAT
1 AATATAATATATAAT
* *
5182943 AAAAT-ATATATAAA
1 AATATAATATATAAT
5182957 AATATA
1 AATATA
5182963 TGATAAAAAA
Statistics
Matches: 165, Mismatches: 22, Indels: 52
0.69 0.09 0.22
Matches are distributed among these distances:
12 13 0.08
13 15 0.09
14 30 0.18
15 53 0.32
16 26 0.16
17 23 0.14
18 5 0.03
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.32
Consensus pattern (15 bp):
AATATAATATATAAT
Found at i:5182920 original size:22 final size:21
Alignment explanation
Indices: 5182851--5182989 Score: 87
Period size: 22 Copynumber: 6.7 Consensus size: 21
5182841 GAAAAATTAA
*
5182851 AATATATAATAATATA-ATAGAT
1 AATATATAATAAAATACAT--AT
* *
5182873 AAAATATAATAAAATAAATA-
1 AATATATAATAAAATACATAT
5182893 ATATATATAATGAAAATACATAT
1 A-ATATATAAT-AAAATACATAT
*
5182916 AATATATAGTAAAATACA-AT
1 AATATATAATAAAATACATAT
*
5182936 -ATA-A-AATAAAATATATAT
1 AATATATAATAAAATACATAT
*
5182954 AAAAATATATGATAAAA-A-ATAT
1 ---AATATATAATAAAATACATAT
* *
5182976 ATTAGATAATAAAA
1 AATATATAATAAAA
5182990 AATAATATAT
Statistics
Matches: 95, Mismatches: 11, Indels: 25
0.73 0.08 0.19
Matches are distributed among these distances:
17 9 0.09
18 3 0.03
19 14 0.15
20 3 0.03
21 17 0.18
22 38 0.40
23 5 0.05
24 6 0.06
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (21 bp):
AATATATAATAAAATACATAT
Found at i:5182923 original size:43 final size:41
Alignment explanation
Indices: 5182843--5182989 Score: 103
Period size: 40 Copynumber: 3.6 Consensus size: 41
5182833 AAGTATATGA
* * *
5182843 AAAATTAA-AATATATAATAATATAATAGATAAAATATAAT
1 AAAATAAATAATATATAATAATAAAATACATAAAATATAAT
*
5182883 AAAATAAATAATATAT-ATAATGAAAATACATATAATATATAGT
1 AAAATAAATAATATATAATAAT-AAAATACATA-AA-ATATAAT
* *
5182926 AAAATACAAT-ATA-A-AATAA-AATATATATAAAA-AT-AT
1 AAAATA-AATAATATATAATAATAAAATACATAAAATATAAT
** *
5182962 ATGATAAAAAATATATTAGATAATAAAA
1 AAAATAAATAATATA-TA-ATAATAAAA
5182990 AATAATATAT
Statistics
Matches: 84, Mismatches: 11, Indels: 23
0.71 0.09 0.19
Matches are distributed among these distances:
35 2 0.02
36 8 0.10
37 3 0.04
38 1 0.01
39 3 0.04
40 24 0.29
41 18 0.21
42 7 0.08
43 15 0.18
44 3 0.04
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.31
Consensus pattern (41 bp):
AAAATAAATAATATATAATAATAAAATACATAAAATATAAT
Found at i:5182951 original size:111 final size:111
Alignment explanation
Indices: 5182737--5182951 Score: 257
Period size: 111 Copynumber: 1.9 Consensus size: 111
5182727 ATTTTATAAA
* * *
5182737 TAAAATATATAATAATATGAATAATATAATATATAATATATAAAAATACTATGTACTAAAACATA
1 TAAAATATATAATAATATGAATAATATAATATATAATAAATAAAAATACTATATAATAAAACATA
*
5182802 TAATATAAATGTAAATAATATATACATATAAAAGTATATGAAAAAT
66 TAATATAAATGTAAATAATATATACAAATAAAAGTATATGAAAAAT
5182848 TAAAATATATAATAATAT-AATAGATA-AA-ATATAATAAAATAAATAATA-TATATAATGAAAA
1 TAAAATATATAATAATATGAATA-ATATAATATATAAT-AAATAAA-AATACTATATAAT--AAA
*
5182909 TACATATAATATATA-GTAAAATACA-ATATA-AAATAAAA-TATAT
61 -ACATATAATATAAATGT-AAATA-ATATATACAAATAAAAGTATAT
5182952 ATAAAAATAT
Statistics
Matches: 91, Mismatches: 5, Indels: 16
0.81 0.04 0.14
Matches are distributed among these distances:
109 7 0.08
110 18 0.20
111 30 0.33
112 12 0.13
113 23 0.25
114 1 0.01
ACGTcount: A:0.61, C:0.03, G:0.04, T:0.33
Consensus pattern (111 bp):
TAAAATATATAATAATATGAATAATATAATATATAATAAATAAAAATACTATATAATAAAACATA
TAATATAAATGTAAATAATATATACAAATAAAAGTATATGAAAAAT
Found at i:5182970 original size:41 final size:39
Alignment explanation
Indices: 5182827--5182970 Score: 107
Period size: 41 Copynumber: 3.5 Consensus size: 39
5182817 TAATATATAC
* * *
5182827 ATATAAAAGTATATGA-AAAATTAAAATATATAATAATATA
1 ATATAAAAATATA-GATAAAA-TAAAATATAAAATAAAATA
*
5182867 ATAGATAAAATATA-ATAAAATAAATAATATATATAATGAAAATA
1 ATATA-AAAATATAGATAAAAT-AA-AATATA-A-AAT-AAAATA
* *
5182911 CATAT-AATATATAG-TAAAATACAATATAAAATAAAATA
1 -ATATAAAAATATAGATAAAATAAAATATAAAATAAAATA
5182949 TATATAAAAATATATGATAAAA
1 -ATATAAAAATATA-GATAAAA
5182971 AATATATTAG
Statistics
Matches: 83, Mismatches: 9, Indels: 23
0.72 0.08 0.20
Matches are distributed among these distances:
38 10 0.12
39 12 0.14
40 12 0.14
41 24 0.29
42 1 0.01
43 16 0.19
44 5 0.06
45 3 0.04
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (39 bp):
ATATAAAAATATAGATAAAATAAAATATAAAATAAAATA
Found at i:5182984 original size:16 final size:14
Alignment explanation
Indices: 5182943--5182977 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
5182933 AATATAAAAT
5182943 AAAATATAT-AT-A
1 AAAATATATGATAA
5182955 AAAATATATGATAA
1 AAAATATATGATAA
5182969 AAAATATAT
1 AAAATATAT
5182978 TAGATAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 9 0.43
13 2 0.10
14 10 0.48
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (14 bp):
AAAATATATGATAA
Found at i:5185145 original size:14 final size:14
Alignment explanation
Indices: 5185098--5185145 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
5185088 GTACGAATGG
*
5185098 AATGGTAGGAACGA
1 AATGGTAGGAACAA
*
5185112 AAGGGTAGGAACAA
1 AATGGTAGGAACAA
*
5185126 AATGGTATGAACAA
1 AATGGTAGGAACAA
*
5185140 ATTGGT
1 AATGGT
5185146 CGGTTTAGGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.44, C:0.06, G:0.31, T:0.19
Consensus pattern (14 bp):
AATGGTAGGAACAA
Found at i:5190363 original size:12 final size:12
Alignment explanation
Indices: 5190348--5190388 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
5190338 CTTTTTTCGA
5190348 TTTTTTTT--AT
1 TTTTTTTTGAAT
5190358 TTTTTTTTCGAAT
1 TTTTTTTT-GAAT
*
5190371 TTTTTTTCGAAT
1 TTTTTTTTGAAT
5190383 TTTTTT
1 TTTTTT
5190389 ATTTATTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
10 8 0.30
12 10 0.37
13 9 0.33
ACGTcount: A:0.12, C:0.05, G:0.05, T:0.78
Consensus pattern (12 bp):
TTTTTTTTGAAT
Found at i:5190372 original size:13 final size:13
Alignment explanation
Indices: 5190356--5190388 Score: 59
Period size: 12 Copynumber: 2.6 Consensus size: 13
5190346 GATTTTTTTT
5190356 ATTTTTTTTTCGA
1 ATTTTTTTTTCGA
5190369 A-TTTTTTTTCGA
1 ATTTTTTTTTCGA
5190381 ATTTTTTT
1 ATTTTTTT
5190389 ATTTATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.63
13 7 0.37
ACGTcount: A:0.15, C:0.06, G:0.06, T:0.73
Consensus pattern (13 bp):
ATTTTTTTTTCGA
Found at i:5190818 original size:14 final size:14
Alignment explanation
Indices: 5190771--5190818 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
5190761 GTACGAATGG
*
5190771 AATGGTAGGAACGA
1 AATGGTAGGAACAA
*
5190785 AAGGGTAGGAACAA
1 AATGGTAGGAACAA
*
5190799 AATGGTATGAACAA
1 AATGGTAGGAACAA
*
5190813 ATTGGT
1 AATGGT
5190819 CGATTTAGGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.44, C:0.06, G:0.31, T:0.19
Consensus pattern (14 bp):
AATGGTAGGAACAA
Found at i:5198158 original size:144 final size:144
Alignment explanation
Indices: 5197954--5198217 Score: 483
Period size: 144 Copynumber: 1.8 Consensus size: 144
5197944 AGATCTAATT
* *
5197954 CAACCAAATTCGTTAGTCTCCCAATATCTTCTGGAATGGATCCATTAAGTTGGTTTCTTTGAAGG
1 CAACCAAATTCGTTAGTCTCCCAATATCTTCTGGAATGGATCCATCAAGTTGGTTGCTTTGAAGG
*
5198019 GACAACGAGGCAAGATTGGTTAAGTTGCTGACAGAAGATGGGATTGGACCAAAAAGATAATTGGA
66 AACAACGAGGCAAGATTGGTTAAGTTGCTGACAGAAGATGGGATTGGACCAAAAAGATAATTGGA
5198084 GGATAGATTCAGTG
131 GGATAGATTCAGTG
5198098 CAACCAAATTCGTTAGTCTCCCAATATCTTCTGGAATGGATCCATCAAGTTGGTTGCTTTGAAGG
1 CAACCAAATTCGTTAGTCTCCCAATATCTTCTGGAATGGATCCATCAAGTTGGTTGCTTTGAAGG
* *
5198163 AACAACGAGGCAAGATTGGTTAAGTTGCTGATAGATGATGGGATTGGACCAAAAA
66 AACAACGAGGCAAGATTGGTTAAGTTGCTGACAGAAGATGGGATTGGACCAAAAA
5198218 ACCAATTGTT
Statistics
Matches: 115, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
144 115 1.00
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.28
Consensus pattern (144 bp):
CAACCAAATTCGTTAGTCTCCCAATATCTTCTGGAATGGATCCATCAAGTTGGTTGCTTTGAAGG
AACAACGAGGCAAGATTGGTTAAGTTGCTGACAGAAGATGGGATTGGACCAAAAAGATAATTGGA
GGATAGATTCAGTG
Found at i:5202624 original size:22 final size:23
Alignment explanation
Indices: 5202585--5202633 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
5202575 ATGCATAGCG
*
5202585 TATATATAAAAACGTATACGTA-A
1 TATATATAAAAACATATA-GTATA
*
5202608 TATA-ATAAAAATATATAGTATA
1 TATATATAAAAACATATAGTATA
5202630 TATA
1 TATA
5202634 CATGTTAGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 3 0.13
22 16 0.70
23 4 0.17
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.35
Consensus pattern (23 bp):
TATATATAAAAACATATAGTATA
Found at i:5202669 original size:12 final size:13
Alignment explanation
Indices: 5202639--5202680 Score: 52
Period size: 12 Copynumber: 3.3 Consensus size: 13
5202629 ATATACATGT
5202639 TAGTAATAAT-AA
1 TAGTAATAATGAA
*
5202651 TAATAATAATGAA
1 TAGTAATAATGAA
5202664 -AGTAATAATGCAA
1 TAGTAATAATG-AA
5202677 TAGT
1 TAGT
5202681 GACGACAATG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
12 18 0.72
13 4 0.16
14 3 0.12
ACGTcount: A:0.55, C:0.02, G:0.12, T:0.31
Consensus pattern (13 bp):
TAGTAATAATGAA
Found at i:5206383 original size:108 final size:108
Alignment explanation
Indices: 5206241--5206836 Score: 901
Period size: 108 Copynumber: 5.5 Consensus size: 108
5206231 GTACTCCCGA
*
5206241 TTTACAGAATTACTATTTTACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTTTAAAATT
1 TTTACAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTTTAAAATT
*
5206306 ACCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAG
66 ACCGTTTTACCCTCGATTTACAGAATTACTATTTTACCCTCAG
5206349 TTTACAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTTTAAAATT
1 TTTACAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTTTAAAATT
* * *
5206414 ACCGTTTTACCCTCGATTTATAGAATTATTATTTTACCCTTAG
66 ACCGTTTTACCCTCGATTTACAGAATTACTATTTTACCCTCAG
** *
5206457 TTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTTTAAAATT
1 TTTACAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTTTAAAATT
* **
5206522 ACCGTTTTACCCTCAATTTACAGAATTACCGTTTTACCCTCAG
66 ACCGTTTTACCCTCGATTTACAGAATTACTATTTTACCCTCAG
* ** *
5206565 TTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTC-A-GTTTACAGAA
1 TTTACAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTTTA-A-AA
** *
5206628 TTACTATTTTACCCTCGATTTACAGAATTACTGTTTTACCCTCAG
64 TTACCGTTTTACCCTCGATTTACAGAATTACTATTTTACCCTCAG
* *
5206673 TTTACAGAATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTGTAAAATT
1 TTTACAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTTTAAAATT
* * * *
5206738 ACCATTTTACCCTTGATTTATAGAATTACTAGTTTACCCTCAG
66 ACCGTTTTACCCTCGATTTACAGAATTACTATTTTACCCTCAG
* * *
5206781 TTTACAAAATTA-TCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTTGATT
1 TTTACAGAATTACT-ATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATT
5206837 GTGAAATTAC
Statistics
Matches: 449, Mismatches: 34, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
106 4 0.01
107 3 0.01
108 437 0.97
109 2 0.00
110 3 0.01
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (108 bp):
TTTACAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTTTAAAATT
ACCGTTTTACCCTCGATTTACAGAATTACTATTTTACCCTCAG
Found at i:5206824 original size:27 final size:27
Alignment explanation
Indices: 5206238--5206836 Score: 735
Period size: 27 Copynumber: 22.2 Consensus size: 27
5206228 AAAGTACTCC
**
5206238 CGATTTACAGAATTACTATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
5206265 CGATTTACAGAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
5206292 CGATTTTTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
5206319 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
5206346 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
5206373 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
5206400 CGATTTTTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* ***
5206427 CGATTTATAGAATTATTATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
5206454 -TAGTTTACAGAATTACCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
5206481 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
5206508 CGATTTTTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
5206535 CAATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
5206562 C-AGTTTATAGAATTACCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
5206589 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
5206616 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
5206643 CGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
5206670 C-AGTTTACAGAATTACTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
5206697 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * *
5206724 CGATTTGTAAAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
5206751 TGATTTATAGAATTACTAG-TTTACCCT
1 CGATTTACAGAATTAC-CGTTTTACCCT
* * *
5206778 C-AGTTTACAAAATTATCATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
5206805 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
5206832 TGATT
1 CGATT
5206837 GTGAAATTAC
Statistics
Matches: 499, Mismatches: 59, Indels: 28
0.85 0.10 0.05
Matches are distributed among these distances:
26 6 0.01
27 487 0.98
28 6 0.01
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:5206871 original size:27 final size:27
Alignment explanation
Indices: 5206841--5207011 Score: 234
Period size: 27 Copynumber: 6.3 Consensus size: 27
5206831 TTGATTGTGA
*
5206841 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
5206868 AATTTCCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
5206895 AATTACTGAAATACCCTTATAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
5206922 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
5206949 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
5206976 AAATACCGAAATACTCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
5207003 AATTACCGA
1 AATTACCGA
5207012 GATATCCTTT
Statistics
Matches: 124, Mismatches: 20, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 124 1.00
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:5207028 original size:27 final size:27
Alignment explanation
Indices: 5206863--5207036 Score: 97
Period size: 27 Copynumber: 6.4 Consensus size: 27
5206853 ACCCCTGTAG
* * * *
5206863 GGTAGAATTTCCGAAATACCCCTAT-A
1 GGTAGAATTACCGAAATATCCTTTTGA
* * *
5206889 GGGTAGAATTACTGAAATACCCTTAT-A
1 -GGTAGAATTACCGAAATATCCTTTTGA
* * * *
5206916 GGATAGAATTACCAAAATACCCCTGT-A
1 GG-TAGAATTACCGAAATATCCTTTTGA
* * *
5206943 GGGTAGAATTATCGAAATACCCTTGT-A
1 -GGTAGAATTACCGAAATATCCTTTTGA
* * *
5206970 GGGTAGAAATACCGAAATACTCCTGTAG-
1 -GGTAGAATTACCGAAATA-TCCTTTTGA
*
5206998 GGTAGAATTACCGAGATATCCTTTTGA
1 GGTAGAATTACCGAAATATCCTTTTGA
*
5207025 GGTAAAATTACC
1 GGTAGAATTACC
5207037 ATTTTACCCC
Statistics
Matches: 121, Mismatches: 21, Indels: 10
0.80 0.14 0.07
Matches are distributed among these distances:
26 8 0.07
27 108 0.89
28 5 0.04
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.27
Consensus pattern (27 bp):
GGTAGAATTACCGAAATATCCTTTTGA
Found at i:5207296 original size:27 final size:27
Alignment explanation
Indices: 5207235--5207297 Score: 92
Period size: 27 Copynumber: 2.3 Consensus size: 27
5207225 CGGAGGAAGC
5207235 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTATGCCACAAATATCT
* *
5207262 GTTTTGGTGGCTGTGCCAC-AATATCT
1 GTTCTGGTGGCTATGCCACAAATATCT
5207288 GTATCTGGTG
1 GT-TCTGGTG
5207298 ACTCCGTCAC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
26 9 0.28
27 23 0.72
ACGTcount: A:0.17, C:0.19, G:0.27, T:0.37
Consensus pattern (27 bp):
GTTCTGGTGGCTATGCCACAAATATCT
Found at i:5207448 original size:6 final size:6
Alignment explanation
Indices: 5207439--5207590 Score: 152
Period size: 6 Copynumber: 25.0 Consensus size: 6
5207429 TTGCATTCAC
*
5207439 ATTCTG ATTCTG ATTCTG -TTACGTA ATTCTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT-C-TG ATTCTG ATTCTG ATTCTG ATTCTG
* * * *
5207488 -TTACTG ATTCTG ATTCTG ATTCTG -TCACTTA ATTCTA ATTCTG ATTTTG
1 ATT-CTG ATTCTG ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG ATTCTG
*
5207537 ATTCTG -TTACTA ATAT-TG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATT-CTG AT-TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG
5207585 ATTCTG
1 ATTCTG
5207591 TTACTGTCTG
Statistics
Matches: 124, Mismatches: 10, Indels: 24
0.78 0.06 0.15
Matches are distributed among these distances:
5 8 0.06
6 105 0.85
7 7 0.06
8 4 0.03
ACGTcount: A:0.20, C:0.16, G:0.14, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:5207523 original size:55 final size:53
Alignment explanation
Indices: 5207439--5207596 Score: 202
Period size: 55 Copynumber: 3.0 Consensus size: 53
5207429 TTGCATTCAC
5207439 ATTCTGATTCTGATTCTGTTACGTAATTCTGATTCTGATTCTGATTCTGTTACTG
1 ATTCTGATTCTGATTCTG-TAC-TAATTCTGATTCTGATTCTGATTCTGTTACTG
* * *
5207494 ATTCTGATTCTGATTCTGTCACTTAATTCTAATTCTGATTTTGATTCTGTTACTA
1 ATTCTGATTCTGATTCTGT-AC-TAATTCTGATTCTGATTCTGATTCTGTTACTG
5207549 ATAT-TGATTCTGATTCTG-----ATTCTGATTCTGATTCTGATTCTGTTACTG
1 AT-TCTGATTCTGATTCTGTACTAATTCTGATTCTGATTCTGATTCTGTTACTG
5207597 TCTGTTGTAA
Statistics
Matches: 94, Mismatches: 7, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
48 27 0.29
54 1 0.01
55 65 0.69
56 1 0.01
ACGTcount: A:0.20, C:0.16, G:0.15, T:0.50
Consensus pattern (53 bp):
ATTCTGATTCTGATTCTGTACTAATTCTGATTCTGATTCTGATTCTGTTACTG
Found at i:5209614 original size:108 final size:107
Alignment explanation
Indices: 5209472--5210059 Score: 903
Period size: 108 Copynumber: 5.4 Consensus size: 107
5209462 GTACTCCCGA
*
5209472 TTTACAGAATTACTGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTTTAAAATT
1 TTTACAGAATTAC-GTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTTTAAAATT
* *
5209537 ACCGTTTTACCCTCGATTTACAGAATTATCGTTTTACCCTCAG
65 ACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
*
5209580 TTTACAGAATTATCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTTGATTTTTAAAATT
1 TTTACAGAATTA-CGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTTTAAAATT
5209645 ACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
65 ACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
* * * *
5209688 TTTACAGAATTACCATTTTACCATCGATTTACAAAATTACCGTTTTACCCTCGATTGTTAAAATT
1 TTTACAGAATTA-CGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTTTAAAATT
* *
5209753 ACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCTTTAG
65 ACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
* *
5209796 TTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTTTACCCTC-A-GTTTACAGAA
1 TTTACAGAATTA-CGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTTTA-A-AA
* * *
5209859 TTACTATTTTACCCTCGATTTACAGAATTATCGTTTTACCCTCAA
63 TTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
*
5209904 TTTACAGAATTAC-TGTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTGTAAAATT
1 TTTACAGAATTACGT-TTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTTTAAAATT
* * *
5209968 ACCATTTTACCCTTGATTTACAGAATTACTGGTTTACCCTCAG
65 ACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
*
5210011 TTTACAAAATTATCGTTTTACCCTCGATTTACAGAATTACCGTTTTACC
1 TTTACAGAATTA-CGTTTTACCCTCGATTTACAGAATTACCGTTTTACC
5210060 ATTGATTGTG
Statistics
Matches: 439, Mismatches: 33, Indels: 16
0.90 0.07 0.03
Matches are distributed among these distances:
106 4 0.01
107 90 0.21
108 340 0.77
109 5 0.01
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (107 bp):
TTTACAGAATTACGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTTTAAAATTA
CCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
Found at i:5210066 original size:27 final size:27
Alignment explanation
Indices: 5209469--5210059 Score: 766
Period size: 27 Copynumber: 21.9 Consensus size: 27
5209459 AAAGTACTCC
*
5209469 CGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
5209496 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
5209523 CGATTTTTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
5209550 CGATTTACAGAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
5209577 C-AGTTTACAGAATTATCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
5209604 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* ** * *
5209631 TGATTTTTAAAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
5209658 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
5209685 C-AGTTTACAGAATTACCATTTTACCAT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
5209712 CGATTTACAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
5209739 CGATTGTTA-A-AATTACCATTTTACCCT
1 CGA-T-TTACAGAATTACCGTTTTACCCT
5209766 CGATTTACAGAATTACCGTTTTA-CCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
5209792 TTAGTTTACAGAATTACCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
5209820 CGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
5209847 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
5209874 CGATTTACAGAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
5209901 CAATTTACAGAATTACTG-TTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
5209927 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * *
5209954 CGATTTGTAAAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
5209981 TGATTTACAGAATTACTGGTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
5210008 C-AGTTTACAAAATTATCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
5210035 CGATTTACAGAATTACCGTTTTACC
1 CGATTTACAGAATTACCGTTTTACC
5210060 ATTGATTGTG
Statistics
Matches: 489, Mismatches: 60, Indels: 30
0.84 0.10 0.05
Matches are distributed among these distances:
25 3 0.01
26 34 0.07
27 439 0.90
28 10 0.02
29 3 0.01
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:5210108 original size:27 final size:27
Alignment explanation
Indices: 5210071--5210266 Score: 214
Period size: 27 Copynumber: 7.3 Consensus size: 27
5210061 TTGATTGTGA
* * *
5210071 AATTACTGAAATACCCTTGCAGTGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
5210098 AATTTCCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
5210125 AATTACTGAAATACCCTTATAGGATAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
5210152 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
5210179 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
5210206 AAATACCGAAATACTCATGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
5210233 AATTACTGAGATACCCTTGT-GAGGTAA
1 AATTACCGAAATACCCTTGTAG-GGTAG
5210260 AATTACC
1 AATTACC
5210267 ATTTTCCCCT
Statistics
Matches: 139, Mismatches: 29, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
26 1 0.01
27 138 0.99
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:5210136 original size:54 final size:53
Alignment explanation
Indices: 5210071--5210266 Score: 250
Period size: 54 Copynumber: 3.6 Consensus size: 53
5210061 TTGATTGTGA
* * *
5210071 AATTACTGAAATACCCTTGCAGTGTAGAATTTCCGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCTTGTAG-GTAGAATTACCGAAATACCCCTGTAGGGTAG
* *
5210125 AATTACTGAAATACCCTTATAGGATAGAATTACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGG-TAGAATTACCGAAATACCCCTGTAGGGTAG
* * *
5210179 AATTA-TCGAAATACCCTTGTAGGGTAGAAATACCGAAATACTCATGTAGGGTAG
1 AATTACT-GAAATACCCTTGTA-GGTAGAATTACCGAAATACCCCTGTAGGGTAG
* *
5210233 AATTACTGAGATACCCTTGTGAGGTAAAATTACC
1 AATTACTGAAATACCCTTGT-AGGTAGAATTACC
5210267 ATTTTCCCCT
Statistics
Matches: 124, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
53 2 0.02
54 118 0.95
55 4 0.03
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (53 bp):
AATTACTGAAATACCCTTGTAGGTAGAATTACCGAAATACCCCTGTAGGGTAG
Found at i:5210502 original size:27 final size:26
Alignment explanation
Indices: 5210464--5210550 Score: 102
Period size: 27 Copynumber: 3.3 Consensus size: 26
5210454 CGGAGGAAGC
5210464 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTATGCCAC-AATATCT
*
5210491 GTTCTGGTGGCTGTGCCACAATATCT
1 GTTCTGGTGGCTATGCCACAATATCT
* * * * *
5210517 GTATCTGGTGACTTTGTCACGATGTCT
1 GT-TCTGGTGGCTATGCCACAATATCT
5210544 GTTCTGG
1 GTTCTGG
5210551 CAGCCATGCT
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
26 14 0.26
27 39 0.74
ACGTcount: A:0.16, C:0.21, G:0.26, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTATGCCACAATATCT
Found at i:5210677 original size:6 final size:6
Alignment explanation
Indices: 5210668--5210814 Score: 135
Period size: 6 Copynumber: 24.2 Consensus size: 6
5210658 TTGCATTCAC
* *
5210668 ATTCTG ATTCTG ATTCTG -TCACGTA ATTCTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG ATTCTG ATTCTG
* *
5210717 -TTACTG ATTCTG ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTG ATTCTG
1 ATT-CTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG
*
5210766 -TTACTA ATAT-TG ATTCTG ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG
1 ATT-CTG AT-TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG
5210814 A
1 A
5210815 GTCTCATTTT
Statistics
Matches: 117, Mismatches: 10, Indels: 28
0.75 0.06 0.18
Matches are distributed among these distances:
5 9 0.08
6 96 0.82
7 9 0.08
8 3 0.03
ACGTcount: A:0.20, C:0.18, G:0.15, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:5210752 original size:55 final size:55
Alignment explanation
Indices: 5210668--5210795 Score: 204
Period size: 55 Copynumber: 2.3 Consensus size: 55
5210658 TTGCATTCAC
* **
5210668 ATTCTGATTCTGATTCTGTCACGTAATTCTGATTCTGATTCTGATT-CTGTTACTG
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTG-TTACTAATACTG
*
5210723 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGTTACTAATATTG
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGTTACTAATACTG
5210778 ATTCTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTG
5210796 ATTCTGTTAC
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
54 2 0.03
55 66 0.97
ACGTcount: A:0.20, C:0.18, G:0.15, T:0.48
Consensus pattern (55 bp):
ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGTTACTAATACTG
Found at i:5210814 original size:24 final size:24
Alignment explanation
Indices: 5210696--5210813 Score: 152
Period size: 24 Copynumber: 4.9 Consensus size: 24
5210686 TCACGTAATT
5210696 CTGATTCTGATTCTGATTCTGTTA
1 CTGATTCTGATTCTGATTCTGTTA
*
5210720 CTGATTCTGATTCTGATTCTGTCA
1 CTGATTCTGATTCTGATTCTGTTA
*
5210744 CCTAATTCTGATTCTGATTCTGTTA
1 -CTGATTCTGATTCTGATTCTGTTA
*
5210769 CTAATAT-TGATTCTGATTCTGATT-
1 CTGAT-TCTGATTCTGATTCTG-TTA
5210793 CTGATTCTG-TTACTGATTCTG
1 CTGATTCTGATT-CTGATTCTG
5210814 AGTCTCATTT
Statistics
Matches: 85, Mismatches: 4, Indels: 10
0.86 0.04 0.10
Matches are distributed among these distances:
23 3 0.04
24 57 0.67
25 25 0.29
ACGTcount: A:0.19, C:0.18, G:0.15, T:0.48
Consensus pattern (24 bp):
CTGATTCTGATTCTGATTCTGTTA
Found at i:5220953 original size:72 final size:72
Alignment explanation
Indices: 5220709--5220941 Score: 261
Period size: 72 Copynumber: 3.2 Consensus size: 72
5220699 GAAGAGTTTG
* * * * * *
5220709 AAACTGTTGGACCTATC-ACATAATCAAATTACTGGTCCTATTCCTTCTACCCTGTGCAACTTAA
1 AAACAGTTGGACCTATCTAGA-AACCAAATTACTGGTCCTATCCCTTCTACCTTGGGCAACTTAA
* *
5220773 CAAACTTG
65 CCAACTTA
* * *
5220781 AAACAGTTGGACCTATCTGGAAACCAAATTATTGGCCCTATCCCTTCTACCTTGGGCAACTTAAC
1 AAACAGTTGGACCTATCTAGAAACCAAATTACTGGTCCTATCCCTTCTACCTTGGGCAACTTAAC
5220846 CAACTTA
66 CAACTTA
* ** * * * *
5220853 GAATTGTTGAACCTATCTAGAAACCAAATTACTGGTCCTATCCCTTCTGCCTTGGGTAAATTAAC
1 AAACAGTTGGACCTATCTAGAAACCAAATTACTGGTCCTATCCCTTCTACCTTGGGCAACTTAAC
*
5220918 CAATTTA
66 CAACTTA
* *
5220925 AAAGAGTTGGACTTATC
1 AAACAGTTGGACCTATC
5220942 CTTTAATCAA
Statistics
Matches: 133, Mismatches: 27, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
72 132 0.99
73 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (72 bp):
AAACAGTTGGACCTATCTAGAAACCAAATTACTGGTCCTATCCCTTCTACCTTGGGCAACTTAAC
CAACTTA
Found at i:5221376 original size:144 final size:144
Alignment explanation
Indices: 5221116--5221394 Score: 332
Period size: 144 Copynumber: 1.9 Consensus size: 144
5221106 CAATCCCTCA
* * * *
5221116 TGAAATTGGAAACTTAAAGAATTTGGTTGCATTGAATTTAAGTAACAACAATCTCAATCATCGGA
1 TGAAATTGGAAACTTAAAGAATTTGGTTGAATTGAATCTAAGTAAAAACAAGCTCAATCATCGGA
* * * *
5221181 TTCCTCAATCCCTAACTACTTTATCCAAATTGAGCTACTTGTACTTGGATTCAAAT-TTTCTACA
66 TCCCTCAATCACTAACTAATTTATCCAAATTGAGCTACTTGTACTTGGATTCAAATCTTT-TAAA
5221245 AGGTCCAATTCCTAG
130 AGGTCCAATTCCTAG
* * ** *
5221260 TGAAATTGGAAACTTGAAGAATTTGTTTGAATTGAATCTAAGTAAAAACAAGCTCAATGGTTTGG
1 TGAAATTGGAAACTTAAAGAATTTGGTTGAATTGAATCTAAGTAAAAACAAGCTCAAT-CATCGG
* * * * *
5221325 -TCCCTTC-ATCACTAGCTAATTTATCTAGATTGAGCTATTTGTTCCTT-GATTCAAATCTTTTA
65 ATCCC-TCAATCACTAACTAATTTATCCAAATTGAGCTACTTG-TACTTGGATTCAAATCTTTTA
5221387 AAAGGTCC
128 AAAGGTCC
5221395 CTTACCATCT
Statistics
Matches: 113, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
144 101 0.89
145 12 0.11
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (144 bp):
TGAAATTGGAAACTTAAAGAATTTGGTTGAATTGAATCTAAGTAAAAACAAGCTCAATCATCGGA
TCCCTCAATCACTAACTAATTTATCCAAATTGAGCTACTTGTACTTGGATTCAAATCTTTTAAAA
GGTCCAATTCCTAG
Found at i:5225713 original size:46 final size:43
Alignment explanation
Indices: 5225610--5225715 Score: 113
Period size: 46 Copynumber: 2.3 Consensus size: 43
5225600 GAGGAAGTTG
* * * *
5225610 AGTAGTTTATCTACACCATTGAGTGGTTTATCCACATCGTTTT
1 AGTAGTTTATCTGCACCATTGAGTGGTTTAACCACACCGTATT
* *
5225653 AGCAAATTTTATCTGCACCATTTGAGTGGTTTAACCACACCGTATT
1 AG--TAGTTTATCTGCACCA-TTGAGTGGTTTAACCACACCGTATT
5225699 AGTAGTTTCAATCTGCA
1 AGTAGTTT--ATCTGCA
5225716 TACATGTTGT
Statistics
Matches: 50, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
43 2 0.04
44 4 0.08
45 13 0.26
46 31 0.62
ACGTcount: A:0.26, C:0.20, G:0.16, T:0.38
Consensus pattern (43 bp):
AGTAGTTTATCTGCACCATTGAGTGGTTTAACCACACCGTATT
Found at i:5225839 original size:18 final size:18
Alignment explanation
Indices: 5225816--5225870 Score: 65
Period size: 18 Copynumber: 2.8 Consensus size: 18
5225806 TTTATTACTG
5225816 GTGGTTTATCCACAATGA
1 GTGGTTTATCCACAATGA
*
5225834 GTGGTTCATCCACAACTATGA
1 GTGGTTTATCCAC-A--ATGA
5225855 GTGGTTTTATCCACAA
1 GTGG-TTTATCCACAA
5225871 CGTGGTGTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
18 12 0.39
19 2 0.06
21 9 0.29
22 8 0.26
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (18 bp):
GTGGTTTATCCACAATGA
Found at i:5225854 original size:21 final size:22
Alignment explanation
Indices: 5225816--5225871 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 22
5225806 TTTATTACTG
5225816 GTGGTTT-ATCCAC-A--ATGA
1 GTGGTTTCATCCACAACTATGA
5225834 GTGG-TTCATCCACAACTATGA
1 GTGGTTTCATCCACAACTATGA
*
5225855 GTGGTTTTATCCACAAC
1 GTGGTTTCATCCACAAC
5225872 GTGGTGTAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
17 2 0.06
18 10 0.31
19 1 0.03
21 8 0.25
22 11 0.34
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (22 bp):
GTGGTTTCATCCACAACTATGA
Found at i:5228224 original size:37 final size:38
Alignment explanation
Indices: 5228140--5228235 Score: 115
Period size: 38 Copynumber: 2.6 Consensus size: 38
5228130 TCACACCAGT
*
5228140 TTGGCACCCAGTGCCTCATCGGATAGTTCGAAGCAAAG
1 TTGGCACCCAGTGCCTCATCGGATAGTCCGAAGCAAAG
* * *
5228178 TTGACACCCAGTGTCTCATCGGCCTAG-CCGAAG-AAAG
1 TTGGCACCCAGTGCCTCATCGG-ATAGTCCGAAGCAAAG
* *
5228215 TTGGTACCCAGTACCTCATCG
1 TTGGCACCCAGTGCCTCATCG
5228236 AATCTATCCG
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
37 21 0.43
38 25 0.51
39 3 0.06
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.22
Consensus pattern (38 bp):
TTGGCACCCAGTGCCTCATCGGATAGTCCGAAGCAAAG
Found at i:5229264 original size:26 final size:26
Alignment explanation
Indices: 5229226--5229309 Score: 123
Period size: 26 Copynumber: 3.2 Consensus size: 26
5229216 TGATACAAAT
* *
5229226 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
5229252 TTATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* *
5229278 TGACAATGGGCTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
5229304 TGATAA
1 TGATAA
5229310 GAATTTCATG
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 51 1.00
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:5233548 original size:24 final size:24
Alignment explanation
Indices: 5233521--5233571 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
5233511 TAGCGCAAGG
5233521 TGGACCGTCGCCGTCGAGAGGTCA
1 TGGACCGTCGCCGTCGAGAGGTCA
5233545 TGGACCGTCGCCGTCGAGAGGTCA
1 TGGACCGTCGCCGTCGAGAGGTCA
5233569 TGG
1 TGG
5233572 CCGAGGTCAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.16, C:0.27, G:0.39, T:0.18
Consensus pattern (24 bp):
TGGACCGTCGCCGTCGAGAGGTCA
Found at i:5237392 original size:24 final size:26
Alignment explanation
Indices: 5237322--5237394 Score: 107
Period size: 25 Copynumber: 2.9 Consensus size: 26
5237312 AATTGATAAA
*
5237322 GGTTAGGTAAATGTTCCATGATAATG
1 GGTTAGGTAAATGTTTCATGATAATG
*
5237348 GGTTAGGTAAA-ATTTCATGATAATG
1 GGTTAGGTAAATGTTTCATGATAATG
5237373 GG-T-GGTAAATGTTTCATGATAA
1 GGTTAGGTAAATGTTTCATGATAA
5237395 GAATTTCATG
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
23 6 0.14
24 12 0.28
25 14 0.33
26 11 0.26
ACGTcount: A:0.33, C:0.05, G:0.26, T:0.36
Consensus pattern (26 bp):
GGTTAGGTAAATGTTTCATGATAATG
Found at i:5244192 original size:26 final size:26
Alignment explanation
Indices: 5244155--5244238 Score: 125
Period size: 26 Copynumber: 3.2 Consensus size: 26
5244145 TGATACAAAT
*
5244155 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
5244181 TGATAATGGGTTAGGTAAATG-TCTCA
1 TGATAATGGGTTAGGTAAATGTTC-CA
* *
5244207 TGATAATGGGCTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
5244233 TGATAA
1 TGATAA
5244239 GAATTTCATG
Statistics
Matches: 53, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
25 2 0.04
26 50 0.94
27 1 0.02
ACGTcount: A:0.33, C:0.07, G:0.25, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:5247809 original size:23 final size:23
Alignment explanation
Indices: 5247795--5247919 Score: 74
Period size: 26 Copynumber: 4.9 Consensus size: 23
5247785 AAATGACATA
5247795 ATAATATAAAATAAATATAATAT
1 ATAATATAAAATAAATATAATAT
*
5247818 ATAATATAAAAGTATATATGTGAA-A-
1 ATAATATAAAA-TA-A-ATAT-AATAT
*
5247843 ATAATATATAATATATATAAATAATAT
1 ATAATATA-AA-ATA-A-ATATAATAT
5247870 GAGTAATATATAAAATAATTATATAATAT
1 -A-TAATAT--AAAATAA--ATATAATAT
*
5247899 ATAATATAAAAATAAAAATAA
1 ATAATAT-AAAATAAATATAA
5247920 AGCAAATAAC
Statistics
Matches: 83, Mismatches: 6, Indels: 25
0.73 0.05 0.22
Matches are distributed among these distances:
23 11 0.13
24 7 0.08
25 11 0.13
26 21 0.25
27 9 0.11
28 3 0.04
29 18 0.22
30 2 0.02
31 1 0.01
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (23 bp):
ATAATATAAAATAAATATAATAT
Found at i:5247819 original size:7 final size:7
Alignment explanation
Indices: 5247792--5247906 Score: 81
Period size: 7 Copynumber: 17.1 Consensus size: 7
5247782 ATAAAATGAC
5247792 ATAATAAT
1 ATAAT-AT
5247800 ATAA-A-
1 ATAATAT
5247805 ATAA-AT
1 ATAATAT
5247811 ATAATAT
1 ATAATAT
5247818 ATAATAT
1 ATAATAT
5247825 A-AA-AGT
1 ATAATA-T
5247831 AT-ATAT
1 ATAATAT
*
5247837 GTGAA-A-
1 AT-AATAT
5247843 ATAATAT
1 ATAATAT
5247850 ATAATAT
1 ATAATAT
*
5247857 AT-ATAA
1 ATAATAT
5247863 ATAATAT
1 ATAATAT
5247870 GAGTAATAT
1 -A-TAATAT
5247879 ATAA-A-
1 ATAATAT
5247884 ATAATTAT
1 ATAA-TAT
5247892 ATAATAT
1 ATAATAT
5247899 ATAATAT
1 ATAATAT
5247906 A
1 A
5247907 AAAATAAAAA
Statistics
Matches: 88, Mismatches: 4, Indels: 31
0.72 0.03 0.25
Matches are distributed among these distances:
5 12 0.14
6 20 0.23
7 39 0.44
8 11 0.12
9 6 0.07
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (7 bp):
ATAATAT
Found at i:5247856 original size:20 final size:19
Alignment explanation
Indices: 5247792--5247907 Score: 119
Period size: 20 Copynumber: 5.8 Consensus size: 19
5247782 ATAAAATGAC
5247792 ATAATAATATAAAATAA-AT
1 ATAAT-ATATAAAATAATAT
* *
5247811 ATAATATATAATATAAAAGT
1 ATAATATATAAAATAATA-T
*
5247831 AT-ATATGTGAAAATAATAT
1 ATAATATAT-AAAATAATAT
5247850 ATAATATATATAAATAATAT
1 ATAATATATA-AAATAATAT
5247870 GAGTAATATATAAAATAATTAT
1 -A-TAATATATAAAATAA-TAT
*
5247892 ATAATATATAATATAA
1 ATAATATATAAAATAA
5247908 AAATAAAAAT
Statistics
Matches: 83, Mismatches: 6, Indels: 15
0.80 0.06 0.14
Matches are distributed among these distances:
18 10 0.12
19 15 0.18
20 38 0.46
21 8 0.10
22 12 0.14
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.36
Consensus pattern (19 bp):
ATAATATATAAAATAATAT
Found at i:5248671 original size:43 final size:43
Alignment explanation
Indices: 5248623--5248853 Score: 381
Period size: 43 Copynumber: 5.4 Consensus size: 43
5248613 TATTTAAAAA
* * * *
5248623 AAACGCCGCTAAAGGTCATGACCTTTAGTGGCGCTTTTCTCAC
1 AAACGCCGCCAAAGGTCATGACCTATAGCGGCGCTTTTCCCAC
*
5248666 AAACGCCGCCAAAGGTCATGACCTATAGCGGCGCTTTTCCCTC
1 AAACGCCGCCAAAGGTCATGACCTATAGCGGCGCTTTTCCCAC
5248709 AAACGCCGCCAAAGGTCATGACCTATAGCGGCGCTTTTCCCAC
1 AAACGCCGCCAAAGGTCATGACCTATAGCGGCGCTTTTCCCAC
*
5248752 AAACGCCGCCAAAGGTCATGACCTATAGCGGCGCTTTTCCCTC
1 AAACGCCGCCAAAGGTCATGACCTATAGCGGCGCTTTTCCCAC
* *
5248795 AAACGCCGCTAAAGGTCATGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCCAAAGGTCATGACCTATAGCGGCGCTTTTCCCAC
*
5248838 AAACGCCGCTAAAGGT
1 AAACGCCGCCAAAGGT
5248854 AATAAAATTT
Statistics
Matches: 178, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 178 1.00
ACGTcount: A:0.25, C:0.32, G:0.21, T:0.22
Consensus pattern (43 bp):
AAACGCCGCCAAAGGTCATGACCTATAGCGGCGCTTTTCCCAC
Found at i:5248983 original size:19 final size:21
Alignment explanation
Indices: 5248942--5248989 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
5248932 TTAAAATTTT
5248942 AACTAAAAATATTAAAATAAA
1 AACTAAAAATATTAAAATAAA
* *
5248963 AA-TAAAAAT-TTAGAATCAA
1 AACTAAAAATATTAAAATAAA
5248982 AACTAAAA
1 AACTAAAA
5248990 TAAATAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 10 0.42
20 12 0.50
21 2 0.08
ACGTcount: A:0.69, C:0.06, G:0.02, T:0.23
Consensus pattern (21 bp):
AACTAAAAATATTAAAATAAA
Found at i:5254815 original size:17 final size:16
Alignment explanation
Indices: 5254787--5254823 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 16
5254777 TATTGATTAA
5254787 TTTTAAATTTTTTTAT
1 TTTTAAATTTTTTTAT
5254803 TTTTAACATTTTTTTAT
1 TTTTAA-ATTTTTTTAT
5254820 TTTT
1 TTTT
5254824 TCTTTTGGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTAAATTTTTTTAT
Found at i:5254989 original size:7 final size:7
Alignment explanation
Indices: 5254889--5254972 Score: 109
Period size: 7 Copynumber: 12.0 Consensus size: 7
5254879 TAAAATATTA
*
5254889 AATTTTA
1 AATTTTT
5254896 AATTTTT
1 AATTTTT
*
5254903 ACGTTTTT
1 A-ATTTTT
5254911 --TTTTT
1 AATTTTT
5254916 AATTTTT
1 AATTTTT
5254923 AATTTTT
1 AATTTTT
5254930 AATTTTT
1 AATTTTT
5254937 AATTTTT
1 AATTTTT
*
5254944 AAATTTT
1 AATTTTT
5254951 AATTTTTT
1 AA-TTTTT
5254959 AATTTTT
1 AATTTTT
5254966 AATTTTT
1 AATTTTT
5254973 GAGTTTATTT
Statistics
Matches: 69, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
5 5 0.07
7 53 0.77
8 11 0.16
ACGTcount: A:0.27, C:0.01, G:0.01, T:0.70
Consensus pattern (7 bp):
AATTTTT
Found at i:5255611 original size:9 final size:10
Alignment explanation
Indices: 5255590--5255614 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
5255580 TAACGAGTAT
5255590 AAATTTAAAA
1 AAATTTAAAA
5255600 AAATTTAAAA
1 AAATTTAAAA
5255610 AAATT
1 AAATT
5255615 CTTTAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (10 bp):
AAATTTAAAA
Found at i:5256345 original size:15 final size:16
Alignment explanation
Indices: 5256327--5256360 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
5256317 AGAAGTTATA
5256327 GTTTAGT-GTTTAGGG
1 GTTTAGTAGTTTAGGG
*
5256342 GTTTAGTATTTTAGGG
1 GTTTAGTAGTTTAGGG
5256358 GTT
1 GTT
5256361 ATAGATTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.15, C:0.00, G:0.35, T:0.50
Consensus pattern (16 bp):
GTTTAGTAGTTTAGGG
Found at i:5256472 original size:41 final size:41
Alignment explanation
Indices: 5256412--5256653 Score: 360
Period size: 41 Copynumber: 5.9 Consensus size: 41
5256402 GGGGTTATAT
* *
5256412 GACTTTTAGCGGCGTTTTACCGAAAGCACCGCTAATGCTCC
1 GACTTTTAGCGGCGTTTTACCGAAAGCGCCGCTATTGCTCC
* *
5256453 GAATTTTAGCGGCGTTTTACCTAAAGCGCCGCTATTGCTCC
1 GACTTTTAGCGGCGTTTTACCGAAAGCGCCGCTATTGCTCC
* *
5256494 GACTTTTAGCGGCGTTTTATCGAAAGCGCCGCTATTGCTTC
1 GACTTTTAGCGGCGTTTTACCGAAAGCGCCGCTATTGCTCC
*
5256535 GACTTTTAGCGGCGTTTTACCTAAAGCGCCGCTATTGCTCC
1 GACTTTTAGCGGCGTTTTACCGAAAGCGCCGCTATTGCTCC
* * *
5256576 GACTTTTAGCGGCGTTTTATCGAAAGCGCCACTATTGCTCT
1 GACTTTTAGCGGCGTTTTACCGAAAGCGCCGCTATTGCTCC
* *
5256617 GACTTTTAGCGGCGTTTTA-GGTAAAACGCCGCTATTG
1 GACTTTTAGCGGCGTTTTACCG-AAAGCGCCGCTATTG
5256654 TTCTGTGTTT
Statistics
Matches: 182, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
40 1 0.01
41 181 0.99
ACGTcount: A:0.19, C:0.26, G:0.23, T:0.32
Consensus pattern (41 bp):
GACTTTTAGCGGCGTTTTACCGAAAGCGCCGCTATTGCTCC
Found at i:5259062 original size:31 final size:32
Alignment explanation
Indices: 5259004--5259067 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 32
5258994 CATACATTTG
*
5259004 TCATAATTTAATATATTTATTACATAAAAATC
1 TCATAATATAATATATTTATTACATAAAAATC
*
5259036 TCATAATATAAT-TATTTAATTA-ATAAATATC
1 TCATAATATAATATATTT-ATTACATAAAAATC
5259067 T
1 T
5259068 TTTACTAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 14 0.48
32 15 0.52
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (32 bp):
TCATAATATAATATATTTATTACATAAAAATC
Found at i:5259346 original size:3 final size:3
Alignment explanation
Indices: 5259338--5259401 Score: 58
Period size: 3 Copynumber: 19.7 Consensus size: 3
5259328 TCAATTTATT
5259338 TAA TAA TAA TAA TAA TAA TTAA TAA TTAA TAA CTAA TATA TAA -ACCA
1 TAA TAA TAA TAA TAA TAA -TAA TAA -TAA TAA -TAA TA-A TAA TA--A
*
5259385 TAA TAA TAA TTA TAA TA
1 TAA TAA TAA TAA TAA TA
5259402 TATTTATATA
Statistics
Matches: 52, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
2 1 0.02
3 37 0.71
4 13 0.25
5 1 0.02
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:5259362 original size:7 final size:7
Alignment explanation
Indices: 5259337--5259375 Score: 55
Period size: 7 Copynumber: 5.9 Consensus size: 7
5259327 TTCAATTTAT
5259337 TTAATAA
1 TTAATAA
5259344 -TAATAA
1 TTAATAA
5259350 -TAATAA
1 TTAATAA
5259356 TTAATAA
1 TTAATAA
5259363 TTAATAA
1 TTAATAA
*
5259370 CTAATA
1 TTAATA
5259376 TATAAACCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
6 12 0.40
7 18 0.60
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (7 bp):
TTAATAA
Found at i:5261019 original size:25 final size:27
Alignment explanation
Indices: 5260982--5261034 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
5260972 TCAAACATGC
5260982 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
5261008 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
5261034 A
1 A
5261035 AAACAGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:5262555 original size:32 final size:32
Alignment explanation
Indices: 5262518--5262579 Score: 124
Period size: 32 Copynumber: 1.9 Consensus size: 32
5262508 GCTTACCATG
5262518 CCCATCATCCATTAACTATTAAAATGCTAATA
1 CCCATCATCCATTAACTATTAAAATGCTAATA
5262550 CCCATCATCCATTAACTATTAAAATGCTAA
1 CCCATCATCCATTAACTATTAAAATGCTAA
5262580 AATGCATACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.40, C:0.26, G:0.03, T:0.31
Consensus pattern (32 bp):
CCCATCATCCATTAACTATTAAAATGCTAATA
Found at i:5263777 original size:32 final size:34
Alignment explanation
Indices: 5263741--5263805 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 34
5263731 TAACAGTGGT
*
5263741 ACTGGGCCAGAG-CCCTT-TTCAGATTACAATAA
1 ACTGGGCCAGAGCCCCTTATTCAGATAACAATAA
**
5263773 ACTGGGCCTTAGCCCCTTATTCAGATAACAATA
1 ACTGGGCCAGAGCCCCTTATTCAGATAACAATA
5263806 TGGCCCATAG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 10 0.36
33 5 0.18
34 13 0.46
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (34 bp):
ACTGGGCCAGAGCCCCTTATTCAGATAACAATAA
Found at i:5263827 original size:137 final size:136
Alignment explanation
Indices: 5263581--5263866 Score: 500
Period size: 137 Copynumber: 2.1 Consensus size: 136
5263571 CATTGGGCCT
** *
5263581 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTATAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
* *
5263646 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGACCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAATATGGCCCATAGGACCATTTCAAAATACATGCAACATCAAT-AA
*
5263711 CGTATGC
130 CATATGC
5263718 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
5263783 AGCCCCTTATTCAGATAACAATATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAATATGGCCCATAGGACCATTTCAAAATACATGCAACATCAATAAC
5263848 ATATGC
131 ATATGC
5263854 AAGCCCATTTGGG
1 AAGCCCATTTGGG
5263867 GAGACTACTC
Statistics
Matches: 142, Mismatches: 7, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
136 21 0.15
137 121 0.85
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAATATGGCCCATAGGACCATTTCAAAATACATGCAACATCAATAAC
ATATGC
Found at i:5264151 original size:25 final size:27
Alignment explanation
Indices: 5264114--5264166 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 27
5264104 TCAAACATGC
5264114 ATTTAGGTCAATTTAACC-C-TAGGGGT
1 ATTTAGGTCAATTT-ACCTCTTAGGGGT
*
5264140 ATTTCGGT-AATTTACCTCTTAGGGGT
1 ATTTAGGTCAATTTACCTCTTAGGGGT
5264166 A
1 A
5264167 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 3 0.12
25 6 0.25
26 15 0.62
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTACCTCTTAGGGGT
Found at i:5265579 original size:8 final size:7
Alignment explanation
Indices: 5265537--5265589 Score: 88
Period size: 7 Copynumber: 7.3 Consensus size: 7
5265527 GATGTGAATA
5265537 ATAAAAT
1 ATAAAAT
5265544 ATAAAAT
1 ATAAAAT
5265551 ATAAAAT
1 ATAAAAT
5265558 ATAAAAT
1 ATAAAAT
5265565 ATAAAAT
1 ATAAAAT
5265572 ATTAAAAT
1 A-TAAAAT
5265580 ATCAAAAT
1 AT-AAAAT
5265588 AT
1 AT
5265590 TAGAATAATA
Statistics
Matches: 44, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
7 30 0.68
8 14 0.32
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (7 bp):
ATAAAAT
Found at i:5265596 original size:8 final size:8
Alignment explanation
Indices: 5265533--5265596 Score: 73
Period size: 7 Copynumber: 8.5 Consensus size: 8
5265523 CAATGATGTG
*
5265533 AATAATAA
1 AATATTAA
5265541 AATA-TAA
1 AATATTAA
5265548 AATA-TAA
1 AATATTAA
5265555 AATA-TAA
1 AATATTAA
5265562 AATA-TAA
1 AATATTAA
5265569 AATATTAA
1 AATATTAA
*
5265577 AATATCAA
1 AATATTAA
*
5265585 AATATTAG
1 AATATTAA
5265593 AATA
1 AATA
5265597 ATAATAATTA
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
7 28 0.54
8 24 0.46
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (8 bp):
AATATTAA
Found at i:5265848 original size:14 final size:13
Alignment explanation
Indices: 5265827--5265889 Score: 53
Period size: 14 Copynumber: 4.9 Consensus size: 13
5265817 AACATGTAGA
5265827 AAAATATATATAT
1 AAAATATATATAT
5265840 AATAATATA-ATATT
1 AA-AATATATATA-T
*
5265854 AAAGATATATAAAT
1 AAA-ATATATATAT
*
5265868 -AAA-ATA-GTAT
1 AAAATATATATAT
5265878 AAAATATATATA
1 AAAATATATATA
5265890 CGTAATATAG
Statistics
Matches: 39, Mismatches: 4, Indels: 14
0.68 0.07 0.25
Matches are distributed among these distances:
10 2 0.05
11 6 0.15
12 4 0.10
13 10 0.26
14 15 0.38
15 2 0.05
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (13 bp):
AAAATATATATAT
Found at i:5265899 original size:25 final size:25
Alignment explanation
Indices: 5265750--5265947 Score: 93
Period size: 25 Copynumber: 7.8 Consensus size: 25
5265740 GTGATAATAT
* *
5265750 TAAAA-ATATGTACATAATATAGTGT
1 TAAAATATATATACATAATATAGT-A
*
5265775 TAAAA-ATACATACATAATATAGT-
1 TAAAATATATATACATAATATAGTA
* * *
5265798 TAAGATATATACATAAGATAACAT-GTA
1 TAA-A-ATATATAT-ACATAATATAGTA
* * *
5265825 GAAAAATATATATATAATAATATAATA
1 -TAAAATATATATA-CATAATATAGTA
* * * *
5265852 TTAAAGATATATAAATAAAATAGTA
1 TAAAATATATATACATAATATAGTA
* *
5265877 TAAAATATATATACGTAATATAGAA
1 TAAAATATATATACATAATATAGTA
** * *
5265902 TTTAA-A-ATATACCTAATATATTA
1 TAAAATATATATACATAATATAGTA
* *
5265925 AAAGAATATATATAATATAATAT
1 TAA-AATATATAT-ACATAATAT
5265948 TAAGAAATAT
Statistics
Matches: 131, Mismatches: 30, Indels: 22
0.72 0.16 0.12
Matches are distributed among these distances:
23 17 0.13
24 4 0.03
25 56 0.43
26 35 0.27
27 17 0.13
28 2 0.02
ACGTcount: A:0.56, C:0.04, G:0.07, T:0.34
Consensus pattern (25 bp):
TAAAATATATATACATAATATAGTA
Found at i:5265964 original size:45 final size:46
Alignment explanation
Indices: 5265834--5265964 Score: 117
Period size: 45 Copynumber: 2.8 Consensus size: 46
5265824 AGAAAAATAT
* * *
5265834 ATATATAATAATATAATATTAAAGATATATAAATAAAATAGTATAAAAT
1 ATATAT-ATAATATAATATT-AAGAAATAT-AATAATATAGTATAAAAA
* *
5265883 ATATATACGTAATATAGA-ATTTA-AAATATACCTAATATA-T-TAAAAGA
1 ATATATA--TAATATA-ATATTAAGAAATATA-ATAATATAGTATAAAA-A
5265930 ATATATATAATATAATATTAAGAAATATAATAATA
1 ATATATATAATATAATATTAAGAAATATAATAATA
5265965 ACAACAAAAA
Statistics
Matches: 68, Mismatches: 7, Indels: 18
0.73 0.08 0.19
Matches are distributed among these distances:
44 1 0.01
45 16 0.24
46 12 0.18
47 9 0.13
48 12 0.18
49 7 0.10
50 10 0.15
51 1 0.01
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.35
Consensus pattern (46 bp):
ATATATATAATATAATATTAAGAAATATAATAATATAGTATAAAAA
Found at i:5266527 original size:30 final size:29
Alignment explanation
Indices: 5266495--5266680 Score: 293
Period size: 30 Copynumber: 6.3 Consensus size: 29
5266485 TGAAGCAAGT
* *
5266495 GTGGCTAGTGGATTTGGTGGTGGAAAAGGT
1 GTGGCTAGTGGAGTTGGTGGTGGAAAA-GA
5266525 GTGGCTAGTGGAGTTGGTGGTGGAAAAAGA
1 GTGGCTAGTGGAGTTGGTGGTGG-AAAAGA
*
5266555 GTGGCTAGTAGAGTTGGTGGTGGAAAAG-
1 GTGGCTAGTGGAGTTGGTGGTGGAAAAGA
5266583 GTGGCTAGTGGAGTTGGTGGTGGAAAAGA
1 GTGGCTAGTGGAGTTGGTGGTGGAAAAGA
*
5266612 GTGGCTAGTGGAGTTGGTGGTGGAAAATGT
1 GTGGCTAGTGGAGTTGGTGGTGGAAAA-GA
5266642 GTGGCTAGTGGAGTTGGTGGTGGAAAAGGA
1 GTGGCTAGTGGAGTTGGTGGTGGAAAA-GA
5266672 GTGGCTAGT
1 GTGGCTAGT
5266681 TGAGAAAAGT
Statistics
Matches: 146, Mismatches: 7, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
28 27 0.18
29 32 0.22
30 83 0.57
31 4 0.03
ACGTcount: A:0.23, C:0.04, G:0.47, T:0.26
Consensus pattern (29 bp):
GTGGCTAGTGGAGTTGGTGGTGGAAAAGA
Found at i:5266638 original size:87 final size:90
Alignment explanation
Indices: 5266495--5266680 Score: 306
Period size: 87 Copynumber: 2.1 Consensus size: 90
5266485 TGAAGCAAGT
* *
5266495 GTGGCTAGTGGATTTGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGC
1 GTGGCTAGTGGAGTTGGTGGTGGAAAAGGAGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGC
5266560 TAGTAGAGTTGGTGGTGGAAAA-G-
66 TAGTAGAGTTGGTGGTGGAAAAGGA
* *
5266583 GTGGCTAGTGGAGTTGGTGGTGGAAAA-GAGTGGCTAGTGGAGTTGGTGGTGGAAAATGTGTGGC
1 GTGGCTAGTGGAGTTGGTGGTGGAAAAGGAGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGC
*
5266647 TAGTGGAGTTGGTGGTGGAAAAGGA
66 TAGTAGAGTTGGTGGTGGAAAAGGA
5266672 GTGGCTAGT
1 GTGGCTAGT
5266681 TGAGAAAAGT
Statistics
Matches: 91, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
87 55 0.60
88 27 0.30
89 9 0.10
ACGTcount: A:0.23, C:0.04, G:0.47, T:0.26
Consensus pattern (90 bp):
GTGGCTAGTGGAGTTGGTGGTGGAAAAGGAGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGC
TAGTAGAGTTGGTGGTGGAAAAGGA
Found at i:5267447 original size:14 final size:14
Alignment explanation
Indices: 5267428--5267477 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
5267418 GAGTGGATTT
* *
5267428 TTGAAAAATATAAA
1 TTGAAAAACAGAAA
5267442 TTGAAAAAACAGAAA
1 TTG-AAAAACAGAAA
*
5267457 TTGAAAAGCAGAAA
1 TTGAAAAACAGAAA
5267471 TT-AAAAA
1 TTGAAAAA
5267478 GACCTCAGTA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
13 4 0.13
14 15 0.48
15 12 0.39
ACGTcount: A:0.64, C:0.04, G:0.12, T:0.20
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:5267590 original size:73 final size:74
Alignment explanation
Indices: 5267494--5267701 Score: 283
Period size: 75 Copynumber: 2.8 Consensus size: 74
5267484 AGTATGTGAG
* * *
5267494 CCGAGACTCAACTCACCTCTCGCAATATGGGTT-ATTTTTTGACAAACAGAAATTGAAATTACCT
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGACAAACAGAAATTGAAAATACCT
*
5267558 CAGTGTGTC
66 CAGCGTGTC
* * * *
5267567 CCGAGGCTCAACTCACCTTTCGCAATATGAGTTGAGTTTTTGAAAAACAGAAATTTAAAAATACC
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGACAAACAGAAA-TTGAAAATACC
5267632 TCAGCGTGTC
65 TCAGCGTGTC
* * *
5267642 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTACGAACAGAAATTGAA
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTGACAAACAGAAATTGAA
5267702 GAACAGAAAT
Statistics
Matches: 116, Mismatches: 15, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
73 30 0.26
74 17 0.15
75 51 0.44
76 4 0.03
77 14 0.12
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (74 bp):
CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGACAAACAGAAATTGAAAATACCT
CAGCGTGTC
Found at i:5267707 original size:14 final size:14
Alignment explanation
Indices: 5267688--5267715 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
5267678 TTTTTTTTAC
5267688 GAACAGAAATTGAA
1 GAACAGAAATTGAA
5267702 GAACAGAAATTGAA
1 GAACAGAAATTGAA
5267716 AAAACCTCAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.21, T:0.14
Consensus pattern (14 bp):
GAACAGAAATTGAA
Found at i:5267715 original size:165 final size:149
Alignment explanation
Indices: 5267703--5268229 Score: 529
Period size: 145 Copynumber: 3.5 Consensus size: 149
5267693 GAAATTGAAG
* ** *
5267703 AACAGAAATTGAAAAAACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTA
1 AACAGAAATTGAAAATACCTCAGC--GTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
* * *
5267768 ATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAAT
64 ATTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAAT
5267833 ATGAGTTGATTTTT---GAAA
129 ATGAGTTGATTTTTGACGAAA
* *
5267851 AACAGAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 AACAGAAA-TTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
* *
5267916 TTTTTTTTTACGAACAGAAATTGAAAAACAGAAATTGAAAAGACCTCAGCATGTGAGCC-GAGGC
65 ------TTT-----------TTGAAAAACAGAAATTGAAAATACCTCAGC--GTG-TCCTGAGGC
5267980 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAC---A
110 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGACGAAA
* * **
5268017 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
* * * *
5268082 TTTTGACAAACAGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTAGCAATAT
66 TTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
5268147 GAGTTGA-TTTT---GAAA
131 GAGTTGATTTTTGACGAAA
* * * ** *
5268162 AACAAAAATT-AAAAGTATCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAGTTGA
1 AACAGAAATTGAAAA-TACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
5268226 TTTT
65 TTTT
5268230 CCTTGAAAAG
Statistics
Matches: 326, Mismatches: 24, Indels: 61
0.79 0.06 0.15
Matches are distributed among these distances:
144 3 0.01
145 67 0.21
146 35 0.11
147 36 0.11
148 34 0.10
149 14 0.04
153 3 0.01
159 3 0.01
164 27 0.08
165 52 0.16
166 50 0.15
167 2 0.01
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (149 bp):
AACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
TTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
GAGTTGATTTTTGACGAAA
Found at i:5267762 original size:92 final size:91
Alignment explanation
Indices: 5267606--5267773 Score: 259
Period size: 92 Copynumber: 1.8 Consensus size: 91
5267596 AGTTGAGTTT
* *
5267606 TTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAAACAGAAATTGAAAAATACCTCAGCGTGGCCTGAGGCTCAACTCACCTCTCGCAATATG
*
5267671 AGTTGATTTTTTTTTACGAACAGAAA
66 AGTTAATTTTTTTTTACGAACAGAAA
*
5267697 TTGAAGAACAGAAATTGAAAAA-ACCTCAGCATGTGAGCC-GAGGCTCAACTCACCTCTCGCAAT
1 TTGAAAAACAGAAATTGAAAAATACCTCAGC--GTG-GCCTGAGGCTCAACTCACCTCTCGCAAT
5267760 ATGAGTTAATTTTT
63 ATGAGTTAATTTTT
5267774 GACAAACAGA
Statistics
Matches: 70, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
90 8 0.11
91 20 0.29
92 40 0.57
93 2 0.03
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (91 bp):
TTGAAAAACAGAAATTGAAAAATACCTCAGCGTGGCCTGAGGCTCAACTCACCTCTCGCAATATG
AGTTAATTTTTTTTTACGAACAGAAA
Found at i:5267828 original size:73 final size:73
Alignment explanation
Indices: 5267697--5267920 Score: 340
Period size: 74 Copynumber: 3.0 Consensus size: 73
5267687 CGAACAGAAA
* * **
5267697 TTGAAGAACAGAAATTGAAAAAACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAATACCTCAGC--GTGTCCCGAGGCTCAACTCACCTCTCGCAATAT
*
5267762 GAGTTAATTT
64 GAGTTGATTT
* *
5267772 TTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
5267837 GTTGATTT
66 GTTGATTT
* *
5267845 TTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAAACAGAAA-TTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATG
5267910 AGTTGATTT
65 AGTTGATTT
5267919 TT
1 TT
5267921 TTTTACGAAC
Statistics
Matches: 137, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
73 53 0.39
74 58 0.42
75 26 0.19
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.27
Consensus pattern (73 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTT
Found at i:5267947 original size:14 final size:14
Alignment explanation
Indices: 5267928--5267956 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
5267918 TTTTTTTACG
5267928 AACAGAAATTGAAA
1 AACAGAAATTGAAA
5267942 AACAGAAATTGAAA
1 AACAGAAATTGAAA
5267956 A
1 A
5267957 GACCTCAGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.07, G:0.14, T:0.14
Consensus pattern (14 bp):
AACAGAAATTGAAA
Found at i:5267964 original size:239 final size:239
Alignment explanation
Indices: 5267449--5268157 Score: 1231
Period size: 239 Copynumber: 3.0 Consensus size: 239
5267439 AAATTGAAAA
* * * *
5267449 AACAGAAATTGAAAAGCAGAAATTAAAAAGACCTCAGTATGTGAGCCGAGACTCAACTCACCTCT
1 AACAGAAATTGAAAAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCT
* * *
5267514 CGCAATATGGGTTATTTTTTGACAAACAGAAATTGAAATTACCTCAGTGTGTCCCGAGGCTCAAC
66 CGCAATATGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAAC
*
5267579 TCACCTTTCGCAATATGAGTTGAGTTTTTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCT
131 TCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCT
5267644 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTACG
195 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTACG
* *
5267689 AACAGAAATTGAAGAACAGAAATTGAAAAAACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCT
1 AACAGAAATTGAAAAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCT
5267754 CGCAATATGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAAC
66 CGCAATATGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAAC
5267819 TCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTG
131 TCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTG
5267884 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTACG
196 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTACG
5267928 AACAGAAATTGAAAAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCT
1 AACAGAAATTGAAAAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCT
* * **
5267993 CGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAAC
66 CGCAATATGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAAC
* * * *
5268058 TCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAA-TTGAAATTACCTCAACGTGTCCTG
131 TCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTG
*
5268122 AGGCTCAACTCACCTCTAGCAATATGAGTTGATTTT
196 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
5268158 GAAAAACAAA
Statistics
Matches: 448, Mismatches: 21, Indels: 2
0.95 0.04 0.00
Matches are distributed among these distances:
238 56 0.12
239 249 0.56
240 143 0.32
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (239 bp):
AACAGAAATTGAAAAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCT
CGCAATATGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAAC
TCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTG
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTACG
Found at i:5268001 original size:92 final size:91
Alignment explanation
Indices: 5267845--5268012 Score: 268
Period size: 92 Copynumber: 1.8 Consensus size: 91
5267835 GAGTTGATTT
* *
5267845 TTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAAACAGAAATTTAAAAAGACCTCAGCGTGGCCTGAGGCTCAACTCACCTCTCGCAATATG
5267910 AGTTGATTTTTTTTTACGAACAGAAA
66 AGTTGATTTTTTTTTACGAACAGAAA
*
5267936 TTGAAAAACAGAAA-TTGAAAAGACCTCAGCATGTGAGCC-GAGGCTCAACTCACCTCTCGCAAT
1 TTGAAAAACAGAAATTTAAAAAGACCTCAGC--GTG-GCCTGAGGCTCAACTCACCTCTCGCAAT
5267999 ATGAGTTGATTTTT
63 ATGAGTTGATTTTT
5268013 GACAAACAGA
Statistics
Matches: 71, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
90 14 0.20
91 14 0.20
92 41 0.58
93 2 0.03
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (91 bp):
TTGAAAAACAGAAATTTAAAAAGACCTCAGCGTGGCCTGAGGCTCAACTCACCTCTCGCAATATG
AGTTGATTTTTTTTTACGAACAGAAA
Found at i:5268199 original size:72 final size:73
Alignment explanation
Indices: 5267975--5268229 Score: 431
Period size: 73 Copynumber: 3.5 Consensus size: 73
5267965 CATGTGAGCC
5267975 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAA
5268040 CGTGTCTT
66 CGTGTCTT
5268048 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAA
*
5268113 CGTGTCCT
66 CGTGTCTT
* * * * * *
5268121 GAGGCTCAACTCACCTCTAGCAATATGAGTTGA-TTTTGAAAAACAAAAATTAAAAGTATCTCAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAA
5268185 CGTGTCTT
66 CGTGTCTT
*
5268193 GAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
5268230 CCTTGAAAAG
Statistics
Matches: 171, Mismatches: 10, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
72 64 0.37
73 107 0.63
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.30
Consensus pattern (73 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAA
CGTGTCTT
Found at i:5275930 original size:12 final size:12
Alignment explanation
Indices: 5275908--5275943 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
5275898 TGGGATATGC
*
5275908 AATGAATGAATG
1 AATGCATGAATG
*
5275920 GATGCATGAATG
1 AATGCATGAATG
5275932 AATGCATGAATG
1 AATGCATGAATG
5275944 TCAAATGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.42, C:0.06, G:0.28, T:0.25
Consensus pattern (12 bp):
AATGCATGAATG
Found at i:5275930 original size:16 final size:17
Alignment explanation
Indices: 5275904--5275935 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
5275894 AGTATGGGAT
5275904 ATGCAATGAATGAATGG
1 ATGCAATGAATGAATGG
5275921 ATGC-ATGAATGAATG
1 ATGCAATGAATGAATG
5275936 CATGAATGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.41, C:0.06, G:0.28, T:0.25
Consensus pattern (17 bp):
ATGCAATGAATGAATGG
Found at i:5277537 original size:22 final size:21
Alignment explanation
Indices: 5277511--5277552 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
5277501 CAATGATGTG
5277511 AATATAAAATATATAAAATATA
1 AATATAAAATAT-TAAAATATA
*
5277533 AATATTAAATATTAAAATAT
1 AATATAAAATATTAAAATAT
5277553 CAAAATATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (21 bp):
AATATAAAATATTAAAATATA
Found at i:5277552 original size:8 final size:8
Alignment explanation
Indices: 5277511--5277567 Score: 59
Period size: 8 Copynumber: 7.5 Consensus size: 8
5277501 CAATGATGTG
5277511 AATA-TAA
1 AATATTAA
5277518 AATATATAA
1 AATAT-TAA
5277527 AATA-T-A
1 AATATTAA
5277533 AATATT-A
1 AATATTAA
5277540 AATATTAA
1 AATATTAA
*
5277548 AATATCAA
1 AATATTAA
*
5277556 AATATTAG
1 AATATTAA
5277564 AATA
1 AATA
5277568 ATAATAATTA
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
6 5 0.12
7 13 0.30
8 18 0.42
9 7 0.16
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (8 bp):
AATATTAA
Found at i:5277552 original size:37 final size:36
Alignment explanation
Indices: 5277511--5277611 Score: 89
Period size: 37 Copynumber: 2.6 Consensus size: 36
5277501 CAATGATGTG
5277511 AATATAAAATATATAAAATATAAATATTAAATATT-AA
1 AATATAAAATATATAAAATA-AAATATT-AATATTGAA
*
5277548 AATATCAAAATAT-TAGAATAATAATAATTAATATTGACA
1 AATAT-AAAATATATAAAATAA-AAT-ATTAATATTGA-A
* *
5277587 AATAAAAAATAAAATAGAAATAAAA
1 AATATAAAAT-ATATA-AAATAAAA
5277612 AAGATGTACA
Statistics
Matches: 52, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
36 1 0.02
37 20 0.38
38 16 0.31
39 6 0.12
40 4 0.08
41 5 0.10
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.30
Consensus pattern (36 bp):
AATATAAAATATATAAAATAAAATATTAATATTGAA
Found at i:5277780 original size:22 final size:24
Alignment explanation
Indices: 5277717--5277781 Score: 80
Period size: 25 Copynumber: 2.8 Consensus size: 24
5277707 CGTGATAATA
*
5277717 TTAAAAATATGTACATAATATAGTG
1 TTAAAAATATATACATAATATAG-G
*
5277742 TTAAAAATACATACATAATATA-G
1 TTAAAAATATATACATAATATAGG
*
5277765 TT-AAGATATATACATAA
1 TTAAAAATATATACATAA
5277782 GATAACATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
22 13 0.36
23 3 0.08
25 20 0.56
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.34
Consensus pattern (24 bp):
TTAAAAATATATACATAATATAGG
Found at i:5277868 original size:27 final size:27
Alignment explanation
Indices: 5277731--5277868 Score: 92
Period size: 25 Copynumber: 5.3 Consensus size: 27
5277721 AAATATGTAC
* * * *
5277731 ATAATATAGTGTTAAA-A-ATACATAC
1 ATAATATAGTATAAAATATATATATAA
* *
5277756 ATAATATAGT-TAAGATATATACATAA
1 ATAATATAGTATAAAATATATATATAA
* *
5277782 GATAACAT-GTAGAAAA-ATATATATAA
1 -ATAATATAGTATAAAATATATATATAA
* * *
5277808 ATAATATAATAT-TAA-AGATATATAA
1 ATAATATAGTATAAAATATATATATAA
* *
5277833 ATAAAATAGTATAAAATATATATATAC
1 ATAATATAGTATAAAATATATATATAA
*
5277860 GTAATATAG
1 ATAATATAG
5277869 AATTTAAAAT
Statistics
Matches: 87, Mismatches: 19, Indels: 12
0.74 0.16 0.10
Matches are distributed among these distances:
24 3 0.03
25 38 0.44
26 22 0.25
27 24 0.28
ACGTcount: A:0.56, C:0.04, G:0.08, T:0.33
Consensus pattern (27 bp):
ATAATATAGTATAAAATATATATATAA
Found at i:5278491 original size:30 final size:30
Alignment explanation
Indices: 5278457--5278647 Score: 303
Period size: 30 Copynumber: 6.4 Consensus size: 30
5278447 AATGAAGCAA
*
5278457 GTGTGGCTAGTGGATTTGGTGGTGGAAAAG
1 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
5278487 GTGTGGCTAGTGGAGTTGGTGGTGGAGAAA-
1 GTGTGGCTAGTGGAGTTGGTGGTGGA-AAAG
* *
5278517 GAGTGGCTAGTAGAGTTGGTGGTGGAAAAG
1 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
*
5278547 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAA
1 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
* *
5278577 GAGTGGCTAGTGGAGTTGGTGGTGGAAAAT
1 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
5278607 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
1 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
*
5278637 GAGTGGCTAGT
1 GTGTGGCTAGT
5278648 TGAGAAAAGT
Statistics
Matches: 148, Mismatches: 11, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
29 3 0.02
30 142 0.96
31 3 0.02
ACGTcount: A:0.22, C:0.04, G:0.48, T:0.27
Consensus pattern (30 bp):
GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
Found at i:5278523 original size:60 final size:60
Alignment explanation
Indices: 5278413--5278647 Score: 330
Period size: 60 Copynumber: 3.9 Consensus size: 60
5278403 TAGGTACAAG
* * * ** * * * *
5278413 TGGTGGTGGAGCAA-GTGTGGTTAGTGGAGTAGGTAATGAAGCAAGTGTGGCTAGTGGATT
1 TGGTGGTGGA-AAAGGTGTGGCTAGTGGAGTTGGTGGTGGAGAAAGAGTGGCTAGTGGAGT
*
5278473 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAGAAAGAGTGGCTAGTAGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAGAAAGAGTGGCTAGTGGAGT
*
5278533 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAGAAAGAGTGGCTAGTGGAGT
*
5278593 TGGTGGTGGAAAATGTGTGGCTAGTGGAGTTGGTGGTGGA-AAAGGAGTGGCTAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAGAAA-GAGTGGCTAGT
5278648 TGAGAAAAGT
Statistics
Matches: 160, Mismatches: 13, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
59 5 0.03
60 155 0.97
ACGTcount: A:0.23, C:0.04, G:0.47, T:0.26
Consensus pattern (60 bp):
TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAGAAAGAGTGGCTAGTGGAGT
Found at i:5279548 original size:26 final size:26
Alignment explanation
Indices: 5279518--5279625 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
5279508 TGAAATTCCC
5279518 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
5279544 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
5279570 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
5279596 ATCATGGAACAGTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
5279622 ATCA
1 ATCA
5279626 ATTTGTATCA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:5281594 original size:5 final size:6
Alignment explanation
Indices: 5281581--5281617 Score: 56
Period size: 6 Copynumber: 5.8 Consensus size: 6
5281571 ATAATTTAAT
5281581 AAATAA AAATAA AAATCTAA AAATAA AAATAA AAATA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATA
5281618 TATAATATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 23 0.79
8 6 0.21
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.19
Consensus pattern (6 bp):
AAATAA
Found at i:5281603 original size:14 final size:14
Alignment explanation
Indices: 5281584--5281610 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
5281574 ATTTAATAAA
5281584 TAAAAATAAAAATC
1 TAAAAATAAAAATC
5281598 TAAAAATAAAAAT
1 TAAAAATAAAAAT
5281611 AAAAATATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.04, G:0.00, T:0.22
Consensus pattern (14 bp):
TAAAAATAAAAATC
Found at i:5281615 original size:21 final size:22
Alignment explanation
Indices: 5281558--5281629 Score: 67
Period size: 20 Copynumber: 3.2 Consensus size: 22
5281548 CAACCTAATC
*
5281558 ATAAAAATTACAAATAATTTAATAA
1 ATAAAAA-TA-AAA-AATCTAATAA
5281583 ATAAAAAT-AAAAATCTAA-AA
1 ATAAAAATAAAAAATCTAATAA
* *
5281603 ATAAAAATAAAAATATATAATAT
1 ATAAAAATAAAAA-ATCTAATAA
5281626 ATAA
1 ATAA
5281630 TTTTATACAA
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
20 10 0.24
21 10 0.24
22 8 0.20
23 5 0.12
24 1 0.02
25 7 0.17
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (22 bp):
ATAAAAATAAAAAATCTAATAA
Found at i:5281655 original size:9 final size:9
Alignment explanation
Indices: 5281641--5281717 Score: 100
Period size: 9 Copynumber: 8.6 Consensus size: 9
5281631 TTTATACAAA
*
5281641 TAATTCAGT
1 TAATTCGGT
5281650 TAATTCGGT
1 TAATTCGGT
* *
5281659 TAATTTGGA
1 TAATTCGGT
5281668 TAATTCGGT
1 TAATTCGGT
*
5281677 TAATTCGAT
1 TAATTCGGT
*
5281686 TAATTCTGT
1 TAATTCGGT
*
5281695 TAATTCGAT
1 TAATTCGGT
5281704 TAATTCGGT
1 TAATTCGGT
5281713 TAATT
1 TAATT
5281718 TTATACTTAT
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 57 1.00
ACGTcount: A:0.29, C:0.09, G:0.16, T:0.47
Consensus pattern (9 bp):
TAATTCGGT
Found at i:5282801 original size:127 final size:126
Alignment explanation
Indices: 5282315--5282867 Score: 547
Period size: 128 Copynumber: 4.4 Consensus size: 126
5282305 GGTAAATCAC
* * * * * * * * * * *
5282315 AACCCAGCATGATTAGGCACGATTTATCGAATTTCCAAATACGAAATATTGTCTTATTTTAA-TC
1 AACCCAGCACGATTGGGCACGATCTCTCAAACTTCCAAACACGAAATATTGCCTCATTCTAAGTT
* * * * * * *
5282379 TAAG-AAACATGGATGAAATTTCCAAGGGATATTCCATGTTTTAGTCGAACGAAAGATTGC
66 TAAGAAAACATGGATGAAATTTCAAAAGGATATTCCGTATTTTAGTCGAACGAAAAATCGA
* * *
5282439 AACCCAGCACGATTGGGCACGATCCCTCAAACTTCCAAACACGAAACATTGCCTTATTCT-AGTT
1 AACCCAGCACGATTGGGCACGATCTCTCAAACTTCCAAACACGAAATATTGCCTCATTCTAAGTT
* * ** * *
5282503 TGAGAAAACACGGATGAAATTTCAAAAGGATATTCCGTATCATAGTAGAATGAAAGAAAATCGA
66 TAAGAAAACATGGATGAAATTTCAAAAGGATATTCCGTATTTTAGTCGAACG--A-AAAATCGA
* * * * * *
5282567 AACCCAACACGATTGGGCACGATCTTTCAAACTTCCAAACATGAAATATTGCCTC-GTCTCAGCT
1 AACCCAGCACGATTGGGCACGATCTCTCAAACTTCCAAACACGAAATATTGCCTCATTCTAAGTT
* * * * *
5282631 TAAGAAAACATGGATGGAATTTTAAAGAGGATAATCCGCATTTTAGTCGAATGAAAAATCGA
66 TAAGAAAACATGGATGAAATTTCAAA-AGGATATTCCGTATTTTAGTCGAACGAAAAATCGA
* * * * * * *
5282693 AACCTAGCACGATTGGGCACGATCTCTCGAACTCCCCAAATACGAAATATTGCCTCGTTTTAATT
1 AACCCAGCACGATTGGGCACGATCTCTCAAACT-TCCAAACACGAAATATTGCCTCATTCTAAGT
* * *
5282758 TTAACAAAACATGGATGAAATTTCCAAAGGATATTCCGTATTTTAGTTGAACGAAAAATCGA
65 TTAAGAAAACATGGATGAAATTTCAAAAGGATATTCCGTATTTTAGTCGAACGAAAAATCGA
* * * * * *
5282820 AACCCAGCATGATTGGGCACAATTTCTCGAACCTCCAAACACAAAATA
1 AACCCAGCACGATTGGGCACGATCTCTCAAACTTCCAAACACGAAATA
5282868 ATTCCTTAAG
Statistics
Matches: 350, Mismatches: 70, Indels: 16
0.80 0.16 0.04
Matches are distributed among these distances:
123 1 0.00
124 53 0.15
125 38 0.11
126 49 0.14
127 83 0.24
128 105 0.30
129 21 0.06
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.26
Consensus pattern (126 bp):
AACCCAGCACGATTGGGCACGATCTCTCAAACTTCCAAACACGAAATATTGCCTCATTCTAAGTT
TAAGAAAACATGGATGAAATTTCAAAAGGATATTCCGTATTTTAGTCGAACGAAAAATCGA
Found at i:5284857 original size:21 final size:18
Alignment explanation
Indices: 5284833--5284877 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 18
5284823 ATATTATGTA
5284833 TATGTATTTCTAATGCTATAT
1 TATGTATTTC--ATG-TATAT
5284854 TATGT-TTTCATGTATAT
1 TATGTATTTCATGTATAT
5284871 TATGTAT
1 TATGTAT
5284878 ATACCTCTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
17 10 0.43
18 4 0.17
20 4 0.17
21 5 0.22
ACGTcount: A:0.27, C:0.07, G:0.11, T:0.56
Consensus pattern (18 bp):
TATGTATTTCATGTATAT
Found at i:5285021 original size:24 final size:24
Alignment explanation
Indices: 5284975--5285021 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
5284965 CATATATATA
**
5284975 CTATTATTTTATTTATTTTTATTC
1 CTATTATTTTATTTATTAATATTC
5284999 CTATTATATTTA-TTATTAATATT
1 CTATTAT-TTTATTTATTAATATT
5285022 AGTATATGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (24 bp):
CTATTATTTTATTTATTAATATTC
Found at i:5285581 original size:19 final size:19
Alignment explanation
Indices: 5285557--5285593 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
5285547 TTTTGAATGC
5285557 TATGTTATGTATATATTTT
1 TATGTTATGTATATATTTT
*
5285576 TATGTTGTGTATATATTT
1 TATGTTATGTATATATTT
5285594 CTAATATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.14, T:0.62
Consensus pattern (19 bp):
TATGTTATGTATATATTTT
Found at i:5285756 original size:24 final size:23
Alignment explanation
Indices: 5285731--5285818 Score: 62
Period size: 21 Copynumber: 3.9 Consensus size: 23
5285721 TATGTTTTAT
5285731 ATATAT-T-ATGTATATATTTTC
1 ATATATATTATGTATATATTTTC
5285752 A-ATATTATTA-GT-TATATTTT-
1 ATATA-TATTATGTATATATTTTC
* *
5285772 ATATACTATTCCATGTACATATTTCC
1 ATATA-TATT--ATGTATATATTTTC
*
5285798 ATATCATCTTATGTATATATT
1 ATAT-ATATTATGTATATATT
5285819 CTTAAACATT
Statistics
Matches: 52, Mismatches: 5, Indels: 17
0.70 0.07 0.23
Matches are distributed among these distances:
20 4 0.08
21 17 0.33
22 3 0.06
23 2 0.04
24 12 0.23
25 6 0.12
26 7 0.13
27 1 0.02
ACGTcount: A:0.33, C:0.10, G:0.05, T:0.52
Consensus pattern (23 bp):
ATATATATTATGTATATATTTTC
Found at i:5286118 original size:11 final size:11
Alignment explanation
Indices: 5286096--5286126 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
5286086 ATATTTATTT
5286096 TATATATATATG
1 TATATAT-TATG
5286108 TATATATTATG
1 TATATATTATG
5286119 TATATATT
1 TATATATT
5286127 TTAACATTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 12 0.63
12 7 0.37
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (11 bp):
TATATATTATG
Found at i:5289023 original size:26 final size:26
Alignment explanation
Indices: 5288994--5289103 Score: 170
Period size: 26 Copynumber: 4.2 Consensus size: 26
5288984 TGGTACAAAT
5288994 TGATAATAGGTTAGGTAAATG-TTCAA
1 TGATAATAGGTTAGGTAAATGTTTC-A
*
5289020 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
5289046 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
5289072 TGATAAT-GAGTTAGGTAAATGTTTCA
1 TGATAATAG-GTTAGGTAAATGTTTCA
5289098 TGATAA
1 TGATAA
5289104 GAATTTCATG
Statistics
Matches: 79, Mismatches: 3, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
25 1 0.01
26 76 0.96
27 2 0.03
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:5290190 original size:27 final size:26
Alignment explanation
Indices: 5290150--5290235 Score: 109
Period size: 27 Copynumber: 3.2 Consensus size: 26
5290140 CTTACTATGA
5290150 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAT-TATCTGT
*
5290177 TCTGGTGGCCCTGCCACGATTATCTGT
1 TCTGGTGGCTCTGCCAC-ATTATCTGT
* **
5290204 ATCTGGTGACTCTATCACATTATCTGT
1 -TCTGGTGGCTCTGCCACATTATCTGT
5290231 TCTGG
1 TCTGG
5290236 CAGTCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
26 5 0.10
27 32 0.62
28 15 0.29
ACGTcount: A:0.15, C:0.26, G:0.22, T:0.37
Consensus pattern (26 bp):
TCTGGTGGCTCTGCCACATTATCTGT
Found at i:5294231 original size:26 final size:26
Alignment explanation
Indices: 5294169--5294276 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
5294159 TGGTACAAAG
5294169 TGATAATAGGTTAGGTAAATG-TTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
5294194 T-ATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
5294219 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
5294245 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
5294271 TGATAA
1 TGATAA
5294277 GAATTTCATG
Statistics
Matches: 78, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
24 19 0.24
25 5 0.06
26 54 0.69
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:5295775 original size:26 final size:27
Alignment explanation
Indices: 5295710--5295784 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 27
5295700 AAAAGTAGCT
* * *
5295710 AAATTACTATAATACCCCTATGTATGG
1 AAATTACTATTATACCCCTAGGTATGA
* *
5295737 AAATTACTGTTATACCCCTAGGTGT-A
1 AAATTACTATTATACCCCTAGGTATGA
*
5295763 AAATTACCATTATACCCCTAGG
1 AAATTACTATTATACCCCTAGG
5295785 GTTAATTTTG
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
26 20 0.49
27 21 0.51
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.32
Consensus pattern (27 bp):
AAATTACTATTATACCCCTAGGTATGA
Found at i:5295927 original size:27 final size:27
Alignment explanation
Indices: 5295886--5296024 Score: 174
Period size: 27 Copynumber: 5.2 Consensus size: 27
5295876 GAGGAAGCGT
*
5295886 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
5295913 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
5295940 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
5295967 TCTGGTGGC-CTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
5295994 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
5296020 TCTGG
1 TCTGG
5296025 CAGCCATGCT
Statistics
Matches: 100, Mismatches: 10, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
26 18 0.18
27 76 0.76
28 6 0.06
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:5295971 original size:54 final size:54
Alignment explanation
Indices: 5295886--5296024 Score: 192
Period size: 54 Copynumber: 2.6 Consensus size: 54
5295876 GAGGAAGCGT
* * *
5295886 TCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGC-CTGCCACAAATATCTGTA
* *
5295940 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCCTGCCACAAATATCTGTA
* *
5295994 TCTGGTGACTCTGTCACAT-TATCTGTTCTGG
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGG
5296025 CAGCCATGCT
Statistics
Matches: 77, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
53 26 0.34
54 51 0.66
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (54 bp):
TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCCTGCCACAAATATCTGTA
Found at i:5298228 original size:21 final size:21
Alignment explanation
Indices: 5298204--5298245 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
5298194 AAATAATTTT
5298204 ATATATATATATATATCTTTA
1 ATATATATATATATATCTTTA
* *
5298225 ATATATATATGTATATGTTTA
1 ATATATATATATATATCTTTA
5298246 TGCAATATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.52
Consensus pattern (21 bp):
ATATATATATATATATCTTTA
Found at i:5299670 original size:20 final size:21
Alignment explanation
Indices: 5299647--5299687 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
5299637 CAATTTTCTA
*
5299647 TATTTTTTTATTAA-ATTTTG
1 TATTTTTTTATAAACATTTTG
5299667 TATTTTTTTATAAACATTTTG
1 TATTTTTTTATAAACATTTTG
5299688 AGTACTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.66
Consensus pattern (21 bp):
TATTTTTTTATAAACATTTTG
Done.