Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 64 of 328
Found at i:17708908 original size:43 final size:43
Alignment explanation
Indices: 17708860--17708986 Score: 147
Period size: 42 Copynumber: 3.0 Consensus size: 43
17708850 AGTGCTAACG
*
17708860 AAAACCAGTAAAGGTTAAA-TAAAAGCTCATAAGAGTTTAA-TGA
1 AAAACCAGT-AAGGTTAAACTAAAA-CTCATAAGAGTTGAACTGA
*
17708903 AAAACCAGTAAGGTTAAACTAAAACTCGTAAGAGTTGAACTG-
1 AAAACCAGTAAGGTTAAACTAAAACTCATAAGAGTTGAACTGA
* * * *
17708945 AAACCCAATAAGGTT-AACTGAAACTCATATGAGTT-AACTGA
1 AAAACCAGTAAGGTTAAACTAAAACTCATAAGAGTTGAACTGA
17708986 A
1 A
17708987 GCTTATGAGA
Statistics
Matches: 74, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
40 5 0.07
41 18 0.24
42 35 0.47
43 16 0.22
ACGTcount: A:0.47, C:0.13, G:0.17, T:0.23
Consensus pattern (43 bp):
AAAACCAGTAAGGTTAAACTAAAACTCATAAGAGTTGAACTGA
Found at i:17708914 original size:22 final size:22
Alignment explanation
Indices: 17708860--17708926 Score: 54
Period size: 21 Copynumber: 3.1 Consensus size: 22
17708850 AGTGCTAACG
17708860 AAAACCAGTAA-AGGTTAAATA
1 AAAACCAGTAAGAGGTTAAATA
* *
17708881 AAAGCTCA-TAAGA-GTTTAATGA
1 AAAAC-CAGTAAGAGGTTAAAT-A
17708903 AAAACCAGT-A-AGGTTAAACTA
1 AAAACCAGTAAGAGGTTAAA-TA
17708924 AAA
1 AAA
17708927 CTCGTAAGAG
Statistics
Matches: 36, Mismatches: 4, Indels: 12
0.69 0.08 0.23
Matches are distributed among these distances:
20 1 0.03
21 25 0.69
22 10 0.28
ACGTcount: A:0.54, C:0.10, G:0.15, T:0.21
Consensus pattern (22 bp):
AAAACCAGTAAGAGGTTAAATA
Found at i:17708965 original size:20 final size:20
Alignment explanation
Indices: 17708887--17708986 Score: 71
Period size: 20 Copynumber: 4.8 Consensus size: 20
17708877 AATAAAAGCT
*
17708887 CATAAGAGTTTAA-TGAAAAAC
1 CATAAGAG-TTAACTG-AAACC
* *
17708908 CAGTAAG-GTTAAACTAAAACT
1 CA-TAAGAGTT-AACTGAAACC
*
17708929 CGTAAGAGTTGAACTGAAACC
1 CATAAGAGTT-AACTGAAACC
*
17708950 CAATAAG-GTTAACTGAAACT
1 C-ATAAGAGTTAACTGAAACC
*
17708970 CATATGAGTTAACTGAA
1 CATAAGAGTTAACTGAA
17708987 GCTTATGAGA
Statistics
Matches: 63, Mismatches: 10, Indels: 13
0.73 0.12 0.15
Matches are distributed among these distances:
19 4 0.06
20 26 0.41
21 24 0.38
22 9 0.14
ACGTcount: A:0.45, C:0.14, G:0.17, T:0.24
Consensus pattern (20 bp):
CATAAGAGTTAACTGAAACC
Found at i:17708995 original size:18 final size:19
Alignment explanation
Indices: 17708957--17708995 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
17708947 ACCCAATAAG
17708957 GTTAACTGAAACTCATATGA
1 GTTAACTGAAACT-ATATGA
*
17708977 GTTAACTGAAGCT-TATGA
1 GTTAACTGAAACTATATGA
17708995 G
1 G
17708996 AGCTAAACAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
20 12 0.67
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.31
Consensus pattern (19 bp):
GTTAACTGAAACTATATGA
Found at i:17712856 original size:30 final size:30
Alignment explanation
Indices: 17712820--17712881 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
17712810 CAACTCATAT
17712820 TGCGAGAGGTGAGTTGAG-CTTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTC-TTTTAATTTC
*
17712850 TGCGAGAGTTGAGTTGAGTCTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
17712880 TG
1 TG
17712882 TTTTTCAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.97
31 1 0.03
ACGTcount: A:0.19, C:0.10, G:0.29, T:0.42
Consensus pattern (30 bp):
TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
Found at i:17713062 original size:14 final size:13
Alignment explanation
Indices: 17713029--17713063 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
17713019 ACGTGCTGAG
*
17713029 CTATTTTTAATTT
1 CTATTTTTAATGT
17713042 CTATTTTTAATGT
1 CTATTTTTAATGT
*
17713055 CTGTTTTTA
1 CTATTTTTA
17713064 TAGAGTCAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.20, C:0.09, G:0.06, T:0.66
Consensus pattern (13 bp):
CTATTTTTAATGT
Found at i:17713741 original size:31 final size:29
Alignment explanation
Indices: 17713707--17713794 Score: 133
Period size: 30 Copynumber: 3.0 Consensus size: 29
17713697 AGCCCCCAAA
17713707 AAAAACCTAACCCTAAAAAAAAAAAAAAAG
1 AAAAACCTAACCC-AAAAAAAAAAAAAAAG
*
17713737 AAAAACCTAACTCAAAAAAAAAGAAAAAAAG
1 AAAAACCTAAC-CCAAAAAAAA-AAAAAAAG
17713768 AAAAACCTAA-CCAAAAAAAAAAAAAAA
1 AAAAACCTAACCCAAAAAAAAAAAAAAA
17713795 CCTAGCCACC
Statistics
Matches: 54, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
28 7 0.13
29 9 0.17
30 19 0.35
31 19 0.35
ACGTcount: A:0.76, C:0.15, G:0.03, T:0.06
Consensus pattern (29 bp):
AAAAACCTAACCCAAAAAAAAAAAAAAAG
Found at i:17713753 original size:26 final size:26
Alignment explanation
Indices: 17713723--17713792 Score: 95
Period size: 31 Copynumber: 2.5 Consensus size: 26
17713713 CTAACCCTAA
17713723 AAAAAAAAAAAAAGAAAAACCTAACTC
1 AAAAAAAAAAAAAGAAAAACCTAAC-C
17713750 AAAAAAAAAGAAAAAAAGAAAAACCTAACC
1 ---AAAAAA-AAAAAAAGAAAAACCTAACC
17713780 AAAAAAAAAAAAA
1 AAAAAAAAAAAAA
17713793 AACCTAGCCA
Statistics
Matches: 39, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
26 7 0.18
27 6 0.15
30 7 0.18
31 19 0.49
ACGTcount: A:0.80, C:0.11, G:0.04, T:0.04
Consensus pattern (26 bp):
AAAAAAAAAAAAAGAAAAACCTAACC
Found at i:17714333 original size:2 final size:2
Alignment explanation
Indices: 17714328--17714364 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
17714318 TAAATACTAT
*
17714328 TA TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
17714365 TTAAATACCA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:17714584 original size:21 final size:21
Alignment explanation
Indices: 17714559--17714601 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
17714549 ATATTTTCTT
*
17714559 TTATTGTAGATA-TTATTATTA
1 TTATTGTACATACTT-TTATTA
*
17714580 TTATTTTACATACTTTTATTA
1 TTATTGTACATACTTTTATTA
17714601 T
1 T
17714602 ATGCATATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.60
Consensus pattern (21 bp):
TTATTGTACATACTTTTATTA
Found at i:17723379 original size:116 final size:117
Alignment explanation
Indices: 17723258--17723637 Score: 339
Period size: 141 Copynumber: 3.0 Consensus size: 117
17723248 TATTGCGAGA
* *
17723258 GGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGC
1 GGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGC
17723323 CTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTTAATCAACTCATATTGT
66 CTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTTAATCAACTCATA-T-T
* * *
17723377 GAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGTTTTCAAAATCAACTCA
1 --G-G-TGAG-T-----T-AAG-C-C-TT---TTA-ATT---TTTGT-TTTTCAAAATCAACTCA
* * * * **
17723442 TATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAGTTTATGT-TTTAAATTG
44 TATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTTAATCA
17723506 ACTCATATT
109 ACTCATATT
* **
17723515 GCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGTGGTGAG
1 ------GGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCGAGAAGTGAG
17723580 TTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTTAATTTCAACTCATA
60 TTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTTAA--TCAACTCATA
17723638 GTGCGAGAGG
Statistics
Matches: 209, Mismatches: 23, Indels: 50
0.74 0.08 0.18
Matches are distributed among these distances:
121 1 0.00
122 67 0.32
123 13 0.06
124 1 0.00
125 8 0.04
126 2 0.01
127 2 0.01
129 1 0.00
130 5 0.02
131 2 0.01
132 2 0.01
133 5 0.02
134 1 0.00
136 2 0.01
137 2 0.01
138 1 0.00
139 2 0.01
140 21 0.10
141 68 0.33
142 3 0.01
ACGTcount: A:0.25, C:0.14, G:0.22, T:0.39
Consensus pattern (117 bp):
GGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGC
CTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTTAATCAACTCATATT
Found at i:17723465 original size:71 final size:69
Alignment explanation
Indices: 17723271--17723534 Score: 323
Period size: 71 Copynumber: 3.7 Consensus size: 69
17723261 GAGTTAAGCC
* *
17723271 TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCT
1 TTTTAATTTTTG-TTTT--AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCT
17723336 GAGGTAT
63 GAGGTAT
* * * ** * *
17723343 TTTCAATTTTTGTGTTTTAATCAACTCATATTGTGAG-AGATGAGTTGAGCCTCAAGACACGTTG
1 TTTTAATTTTTGT-TTTAAATCAACTCATATTGCGAGAAG-TGAGTTGAGCCTCGGGGCACGCTG
17723407 AGGTAT
64 AGGTAT
17723413 TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTG
1 TTTTAATTTTTGTTTT--AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTG
17723478 AGGTAT
64 AGGTAT
* * ** * *
17723484 TTTTAGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 TTTTAATTTTTGTTTTAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
17723535 TTTAATTTTT
Statistics
Matches: 165, Mismatches: 22, Indels: 13
0.82 0.11 0.06
Matches are distributed among these distances:
69 35 0.21
70 55 0.33
71 59 0.36
72 16 0.10
ACGTcount: A:0.25, C:0.14, G:0.23, T:0.38
Consensus pattern (69 bp):
TTTTAATTTTTGTTTTAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAG
GTAT
Found at i:17723579 original size:122 final size:124
Alignment explanation
Indices: 17723413--17723659 Score: 365
Period size: 122 Copynumber: 2.0 Consensus size: 124
17723403 GTTGAGGTAT
17723413 TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTG
1 TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTG
* * *
17723478 AGGTATTTT-TA-GTTTATGTTTTAAATT-GACTCATATTGCGAGAGGTGAGTTAAGCC
66 AGGTATTTTCAATGTTTATGTTTTAAATTCAACTCATAGTGCGAGAGGTGAGTTAAGCC
* **
17723534 TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGTGGTGAGTTGAGCCTCGGGGCACGCT
1 TTTTAATTTTTG-TTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCT
* * * * *
17723599 GAGGTATTTTCAATTTTTGTGTTTTAATTTCAACTCATAGTGCGAGAGGTGGGTTGAGCC
65 GAGGTATTTTCAATGTTTATGTTTTAAATTCAACTCATAGTGCGAGAGGTGAGTTAAGCC
17723659 T
1 T
17723660 CAGGTCACGC
Statistics
Matches: 111, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
121 12 0.11
122 59 0.53
123 1 0.01
124 13 0.12
125 26 0.23
ACGTcount: A:0.23, C:0.14, G:0.23, T:0.39
Consensus pattern (124 bp):
TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTG
AGGTATTTTCAATGTTTATGTTTTAAATTCAACTCATAGTGCGAGAGGTGAGTTAAGCC
Found at i:17723624 original size:263 final size:257
Alignment explanation
Indices: 17723104--17723696 Score: 1006
Period size: 263 Copynumber: 2.3 Consensus size: 257
17723094 TTTCAAGGAA
*
17723104 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTATTGT
1 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGT
17723169 TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTTAGT
66 TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTTAGT
17723234 TTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACT
131 TTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACT
17723299 CATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTT
196 CATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTT
*
17723361 AATCAACTCATATTGTGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGT
1 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGT
*
17723426 TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAGT
66 TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGTA---TT--T
17723491 TTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAA
126 TTA-GTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAA
*
17723556 TCAACTCATATTGCTAGTGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGT
190 TCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGT
17723621 TTT
255 TTT
* * * * * * * *
17723624 AATTTCAACTCATAGTGCGAGAGGTGGGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCT
1 AA--TCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTT
17723689 GTTTTCAA
64 GTTTTCAA
17723697 TTTACGTTGT
Statistics
Matches: 315, Mismatches: 13, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
257 119 0.38
260 2 0.01
262 4 0.01
263 130 0.41
265 60 0.19
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.37
Consensus pattern (257 bp):
AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGT
TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTTAGT
TTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACT
CATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTT
Found at i:17723655 original size:72 final size:71
Alignment explanation
Indices: 17723534--17723699 Score: 217
Period size: 72 Copynumber: 2.3 Consensus size: 71
17723524 GAGTTAAGCC
** * * * *
17723534 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGTGGTGAGTTGAGCCTCGGGGCACGC
1 TTTTCAATTTTTGTTTTT-AATTTCAACTCATAGTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
17723598 TGAGGTA
65 TGAGGTA
* *
17723605 TTTTCAATTTTTGTGTTTTAATTTCAACTCATAGTGCGAGAGGTGGGTTGAGCCTCAGGTCACGC
1 TTTTCAATTTTTGT-TTTTAATTTCAACTCATAGTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
17723670 TGAGGTA
65 TGAGGTA
* *
17723677 TTTTCAATTTCTGTTTTCAATTT
1 TTTTCAATTTTTGTTTTTAATTT
17723700 ACGTTGTTCA
Statistics
Matches: 83, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
71 12 0.14
72 67 0.81
73 4 0.05
ACGTcount: A:0.21, C:0.15, G:0.22, T:0.42
Consensus pattern (71 bp):
TTTTCAATTTTTGTTTTTAATTTCAACTCATAGTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCT
GAGGTA
Found at i:17723905 original size:220 final size:211
Alignment explanation
Indices: 17723506--17723913 Score: 539
Period size: 220 Copynumber: 1.9 Consensus size: 211
17723496 TTTTAAATTG
** *
17723506 ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCT
1 ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTACTTTTTCAAAATCAACTCATATTGCG
* * * * *
17723571 AGTGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTTAATTTCAACTCA
66 AGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTCTGTCTTTAAAATTCAACTCA
** * * *
17723636 TAGTGCGAGAGGTGGGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAATTTA
131 TAGTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTCAATTTA
17723701 CGTTGTTCAAGAATCA
196 CGTTGTTCAAGAATCA
* *
17723717 ACTCATATTGCGAGAGGTGGGTTGAA-CCTTTTAATTTCTACTTTTTCAAAATCAGCTCATATTG
1 ACTCATATTGCGAGAGGTGAGTT-AAGCCTTTTAATTT-TACTTTTTCAAAATCAACTCATATTG
**
17723781 CGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGGTATTTTCAATTTCTGTCTTTCAAAAAAAA
64 CGAGAGGTGAGTTGAGCCTCGGGGCAC--GCTGAGGTATTTTCAATTTCTGTCTTT------AAA
* * *
17723846 ATTCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGT
121 ATTCAACTCATAGTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGT
17723911 TTT
186 TTT
17723914 TCAAAAAAAT
Statistics
Matches: 167, Mismatches: 20, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
211 33 0.20
212 48 0.29
214 25 0.15
220 61 0.37
ACGTcount: A:0.25, C:0.16, G:0.21, T:0.38
Consensus pattern (211 bp):
ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTACTTTTTCAAAATCAACTCATATTGCG
AGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTCTGTCTTTAAAATTCAACTCA
TAGTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTCAATTTA
CGTTGTTCAAGAATCA
Found at i:17723967 original size:75 final size:76
Alignment explanation
Indices: 17723764--17724068 Score: 384
Period size: 75 Copynumber: 4.0 Consensus size: 76
17723754 CTACTTTTTC
* *
17723764 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-T-ACACGCTGAGGTATTTTCAATT
*
17723828 TCTGTCTTTCAAAAA
64 TCTGTTTTTC--AAA
* ** * *
17723843 AAAATTCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAG-ACATGCTGAGGTATTTTCAATTT
1 AAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTACACGCTGAGGTATTTTCAATTT
17723907 CTGTTTTTCAAA
65 CTGTTTTTCAAA
*
17723919 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACGCTGAGGTAATTTCAATTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTACACGCTGAGGTATTTTCAATTTC
*
17723983 TG-TTGTCAAA
66 TGTTTTTCAAA
* * * * *
17723993 AAAATCAACTCGTATTGTGAGAGGCGAGTTGAGCCTCAGGTCAAACGCCGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGT-ACACGCTGAGGTATTTTCAATTT
*
17724058 CCGTTTTTCAA
65 CTGTTTTTCAA
17724069 TTTCTGCCTT
Statistics
Matches: 200, Mismatches: 21, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
74 44 0.22
75 56 0.28
76 29 0.14
77 6 0.03
78 31 0.16
79 4 0.02
80 29 0.14
81 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (76 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTACACGCTGAGGTATTTTCAATTTC
TGTTTTTCAAA
Found at i:17724143 original size:93 final size:93
Alignment explanation
Indices: 17723990--17724161 Score: 238
Period size: 93 Copynumber: 1.8 Consensus size: 93
17723980 TTCTGTTGTC
* * *
17723990 AAAAAAATCAACTCGTATTGTGAGAGGCGAGTTGAGCCTCAGGTCAAACGCCGAGGTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCAAACGCCGAGCTATTTTCAA
*
17724055 TTTCCGTTTTTCAATTTCTGCCTTTCAA
66 TTTCCGTCTTTCAATTTCTGCCTTTCAA
* * ** *
17724083 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCACGCGCTGAGCTATTTTCA
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-TCAAACGCCGAGCTATTTTCA
*
17724147 ATTTCTGTCTTTCAA
65 ATTTCCGTCTTTCAA
17724162 AAAAATCAAC
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
92 2 0.03
93 66 0.97
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (93 bp):
AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCAAACGCCGAGCTATTTTCAA
TTTCCGTCTTTCAATTTCTGCCTTTCAA
Found at i:17724224 original size:79 final size:77
Alignment explanation
Indices: 17724061--17724442 Score: 279
Period size: 77 Copynumber: 4.8 Consensus size: 77
17724051 TCAATTTCCG
* * *
17724061 TTTTTCAATTTCTGCCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGC
1 TTTTTCAATTTCTGTCTTTC--AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTAGA
* *
17724126 TCACGCGCTGAGCTA
63 TCACACACTGAGCTA
17724141 -TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATC
1 TTTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTT-AGATC
*
17724205 ACACACTGAGGTA
65 ACACACTGAGCTA
* * * * * * ** *
17724218 TTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCAAGATGTGAGTTGAGCCTCGGGT
1 -TTTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTAGAT
** *
17724283 CACA-TGTCGAGGTA
64 CACACACT-GAGCTA
** * *
17724297 -TTTTCAAAATCTGTTTTTCAGATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTG
1 TTTTTCAATTTCTGTCTTTCA-A----------AAAAATCAACTCATATTGCGAGAGGTGAGTTG
* * *** *
17724361 AGCCTTGGCTCACGTGCTCAGCTA
55 AG-CTTAGATCACACACTGAGCTA
* *
17724385 -TTTTCAATTT-TTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTT
1 TTTTTCAATTTCTGTCTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCTT
17724443 TTTAATTTCT
Statistics
Matches: 249, Mismatches: 35, Indels: 40
0.77 0.11 0.12
Matches are distributed among these distances:
76 11 0.04
77 93 0.37
78 2 0.01
79 79 0.32
80 2 0.01
86 1 0.00
87 8 0.03
88 52 0.21
89 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (77 bp):
TTTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTAGATCA
CACACTGAGCTA
Found at i:17724335 original size:244 final size:241
Alignment explanation
Indices: 17723887--17724650 Score: 893
Period size: 249 Copynumber: 3.1 Consensus size: 241
17723877 CCTCAAGACA
*
17723887 TGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
1 TGCTGAGCTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
* * * * * * * *
17723952 CCTCAG--GACACGCTGAGGTA-ATTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGTGAG
66 CTTCAGATCACACACTGAGGTATTTTTCAATTTCTTTTTTCAAAAAAATCAACTCATATTGCGAG
* * * * ** * *
17724014 AGGCGAGTTGAGCCTCAGGTCAAACGCCGAGGTATTTTCAATTTCCGTTTTTCAATTTCTGCCTT
131 AGGTGAGTTGAGCCTC-GGTCACATGTCGAGGTATTTTCAAAATCTGTTTTTCAAGTTCTG--TT
17724079 TCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACG
193 TC---AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACG
* *
17724131 CGCTGAGCTATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
1 TGCTGAGCTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
* * *
17724196 CTTCAGATCACACACTGAGGTATTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCA
66 CTTCAGATCACACACTGAGGTA-TTTTTCAATTTCT-TTTTTCAAAAAAATCAACTCATATTGCG
*
17724261 AGATGTGAGTTGAGCCTCGGGTCACATGTCGAGGTATTTTCAAAATCTGTTTTTC-AGATTCTGT
129 AGAGGTGAGTTGAGCCTC-GGTCACATGTCGAGGTATTTTCAAAATCTGTTTTTCAAG-TTCTG-
*
17724325 TTTC-AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACG
191 TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACG
* *
17724375 TGCTCAGCTATTTTCAATTT-TTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGA
1 TGCTGAGCTATTTTCAATTTCTGTTTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGA
* * * * *
17724439 GCTTTTTA-ATTTCTGCGAGAGTTGAGTTGAGTCTTTT-AATTTCTGTTTTTC--AAAAATCAAC
65 GC--TTCAGA--TC-AC-ACA-CTGAGGT-A-T-TTTTCAATTTCT-TTTTTCAAAAAAATCAAC
* * * * *
17724500 TCATATTGCGAGAGGTGAGTTGAACCTTCAGTCACATATCGAGGTATTTTCAAAATTTGCTTTTC
119 TCATATTGCGAGAGGTGAGTTGAGCC-TCGGTCACATGTCGAGGTATTTTCAAAATCTGTTTTTC
**
17724565 AAGTTAAGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACG
183 AAGTTCTGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACG
17724624 TGCTGAGCTATTTT-AATTTCTGTTTTT
1 TGCTGAGCTATTTTCAATTTCTGTTTTT
17724651 AATGTTGTTT
Statistics
Matches: 449, Mismatches: 51, Indels: 35
0.84 0.10 0.07
Matches are distributed among these distances:
243 13 0.03
244 160 0.36
245 1 0.00
246 15 0.03
247 2 0.00
248 25 0.06
249 206 0.46
250 9 0.02
251 14 0.03
252 4 0.01
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (241 bp):
TGCTGAGCTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
CTTCAGATCACACACTGAGGTATTTTTCAATTTCTTTTTTCAAAAAAATCAACTCATATTGCGAG
AGGTGAGTTGAGCCTCGGTCACATGTCGAGGTATTTTCAAAATCTGTTTTTCAAGTTCTGTTTCA
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACG
Found at i:17724458 original size:30 final size:30
Alignment explanation
Indices: 17724422--17724483 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
17724412 CAACTCATAT
17724422 TGCGAGAGGTGAGTTGAG-CTTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTC-TTTTAATTTC
*
17724452 TGCGAGAGTTGAGTTGAGTCTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
17724482 TG
1 TG
17724484 TTTTTCAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.97
31 1 0.03
ACGTcount: A:0.19, C:0.10, G:0.29, T:0.42
Consensus pattern (30 bp):
TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
Found at i:17725343 original size:32 final size:31
Alignment explanation
Indices: 17725306--17725399 Score: 129
Period size: 32 Copynumber: 3.0 Consensus size: 31
17725296 GCCCCCCAAA
17725306 AAAAACCTAACCCTAAAAAAAAAAGAAAAAAG
1 AAAAACCTAACCC-AAAAAAAAAAGAAAAAAG
*
17725338 AAAAACCTAACCCAAAAAAAAAGAAGAGAAAAG
1 AAAAACCTAACCC-AAAAAAAA-AAGAAAAAAG
17725371 AAAAACCTAA-CCAAAAAAAAATA-AAAAAA
1 AAAAACCTAACCCAAAAAAAAA-AGAAAAAA
17725400 CCTAGCCACC
Statistics
Matches: 57, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
30 6 0.11
31 9 0.16
32 23 0.40
33 19 0.33
ACGTcount: A:0.73, C:0.15, G:0.06, T:0.05
Consensus pattern (31 bp):
AAAAACCTAACCCAAAAAAAAAAGAAAAAAG
Found at i:17729086 original size:19 final size:21
Alignment explanation
Indices: 17729051--17729092 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
17729041 GAATTTTAAA
17729051 TTTTTATATATTTAAAT-ATT
1 TTTTTATATATTTAAATAATT
17729071 TTTTTA-AT-TTTGAAATAATT
1 TTTTTATATATTT-AAATAATT
17729091 TT
1 TT
17729093 AGTTTTTTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
18 3 0.15
19 6 0.30
20 11 0.55
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (21 bp):
TTTTTATATATTTAAATAATT
Found at i:17729092 original size:17 final size:17
Alignment explanation
Indices: 17729072--17729122 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
17729062 TTAAATATTT
*
17729072 TTTTAATTTTGAAATAA
1 TTTTAATTTTTAAATAA
* **
17729089 TTTTAGTTTTTTCATAA
1 TTTTAATTTTTAAATAA
17729106 TTTTATATTTTTAAATA
1 TTTTA-ATTTTTAAATA
17729123 TATATTTTAG
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
17 18 0.69
18 8 0.31
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (17 bp):
TTTTAATTTTTAAATAA
Found at i:17729947 original size:26 final size:25
Alignment explanation
Indices: 17729911--17729994 Score: 132
Period size: 26 Copynumber: 3.2 Consensus size: 25
17729901 TGGTACAAAT
17729911 TGATAATAGGTTAGGTAAATGTTCAA
1 TGATAATAGGTTAGGTAAATGTTC-A
17729937 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTT-CA
*
17729963 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATG-TTCA
17729989 TGATAA
1 TGATAA
17729995 GAATTTCATG
Statistics
Matches: 55, Mismatches: 1, Indels: 4
0.92 0.02 0.07
Matches are distributed among these distances:
26 52 0.95
27 3 0.05
ACGTcount: A:0.36, C:0.05, G:0.24, T:0.36
Consensus pattern (25 bp):
TGATAATAGGTTAGGTAAATGTTCA
Found at i:17735281 original size:18 final size:18
Alignment explanation
Indices: 17735258--17735293 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
17735248 AAAATAATTT
17735258 TTATAATGTTTTA-AAAAA
1 TTATAAT-TTTTATAAAAA
17735276 TTATAATTTTTATAAAAA
1 TTATAATTTTTATAAAAA
17735294 AAACTTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (18 bp):
TTATAATTTTTATAAAAA
Found at i:17750543 original size:16 final size:16
Alignment explanation
Indices: 17750524--17750557 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
17750514 TAATAAAATT
17750524 ATTAAAAAATATTTAA
1 ATTAAAAAATATTTAA
* *
17750540 ATTATATAATATTTAA
1 ATTAAAAAATATTTAA
17750556 AT
1 AT
17750558 AATTTTAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
ATTAAAAAATATTTAA
Found at i:17750633 original size:26 final size:25
Alignment explanation
Indices: 17750603--17750658 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 25
17750593 AATACCTTTT
*
17750603 AATTAATTAATA-TAAATTATTTATAA
1 AATTAA-TAATACTAAAATATTT-TAA
17750629 AATTAATAATACTTAAAATATTTTAA
1 AATTAATAATAC-TAAAATATTTTAA
17750655 AATT
1 AATT
17750659 TTAAATATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
25 5 0.19
26 13 0.48
27 9 0.33
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.45
Consensus pattern (25 bp):
AATTAATAATACTAAAATATTTTAA
Found at i:17750715 original size:33 final size:33
Alignment explanation
Indices: 17750636--17750747 Score: 106
Period size: 33 Copynumber: 3.4 Consensus size: 33
17750626 TAAAATTAAT
* * *
17750636 AATACTTAAAATATTTTAA-AATTT--TAAATAT
1 AATACATAAAATATTTAAATAATTTAATAAA-AC
17750667 AATA-ATAAATTATATTTAAATAATTTAATAAAAC
1 AATACATAAA--ATATTTAAATAATTTAATAAAAC
* * *
17750701 AATACATGAAATATTTAAATAATTTAATATAAT
1 AATACATAAAATATTTAAATAATTTAATAAAAC
*
17750734 AGTACATAAAATAT
1 AATACATAAAATAT
17750748 AAATTAATCT
Statistics
Matches: 67, Mismatches: 8, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
30 4 0.06
31 4 0.06
32 8 0.12
33 38 0.57
34 5 0.07
35 8 0.12
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (33 bp):
AATACATAAAATATTTAAATAATTTAATAAAAC
Found at i:17753486 original size:1 final size:1
Alignment explanation
Indices: 17753480--17753513 Score: 59
Period size: 1 Copynumber: 34.0 Consensus size: 1
17753470 AACAAAACTG
*
17753480 AAAAAAAAAAAAAAAAAAAAAAAAAAAAACAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
17753514 TGAAAGCAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:0.97, C:0.03, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:17768494 original size:6 final size:6
Alignment explanation
Indices: 17768480--17768511 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
17768470 TAAGATTAGA
*
17768480 TTTGAT TTTGGT TTTGGT TTTGGT TTTGGT TT
1 TTTGGT TTTGGT TTTGGT TTTGGT TTTGGT TT
17768512 ACTTTTTGGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.03, C:0.00, G:0.28, T:0.69
Consensus pattern (6 bp):
TTTGGT
Found at i:17769314 original size:27 final size:27
Alignment explanation
Indices: 17769283--17769336 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
17769273 AAAAAAATGA
17769283 AAAGTTTTCTTTAACTTTAAATTTAAT
1 AAAGTTTTCTTTAACTTTAAATTTAAT
17769310 AAAGTTTTCTTTAACTTTAAATTTAAT
1 AAAGTTTTCTTTAACTTTAAATTTAAT
17769337 TAATAAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.37, C:0.07, G:0.04, T:0.52
Consensus pattern (27 bp):
AAAGTTTTCTTTAACTTTAAATTTAAT
Found at i:17771498 original size:16 final size:15
Alignment explanation
Indices: 17771456--17771495 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
17771446 TTGAAAAATT
17771456 AAAAGCAAAAGAATAA
1 AAAAG-AAAAGAATAA
* *
17771472 AAAAGAAAAGAGTGA
1 AAAAGAAAAGAATAA
17771487 AAAAGAAAA
1 AAAAGAAAA
17771496 AGAAAAGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 17 0.77
16 5 0.23
ACGTcount: A:0.75, C:0.03, G:0.17, T:0.05
Consensus pattern (15 bp):
AAAAGAAAAGAATAA
Found at i:17780856 original size:14 final size:14
Alignment explanation
Indices: 17780837--17780865 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
17780827 ACATTCAAAC
17780837 ATTAAAGCTAAAAT
1 ATTAAAGCTAAAAT
17780851 ATTAAAGCTAAAAT
1 ATTAAAGCTAAAAT
17780865 A
1 A
17780866 AGAAAACAGG
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:0.59, C:0.07, G:0.07, T:0.28
Consensus pattern (14 bp):
ATTAAAGCTAAAAT
Found at i:17782340 original size:7 final size:7
Alignment explanation
Indices: 17782321--17782349 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
17782311 TTTTTGATAT
17782321 TTTAAAA
1 TTTAAAA
17782328 -TTAAAA
1 TTTAAAA
17782334 TTTAAAA
1 TTTAAAA
17782341 TTTAAAA
1 TTTAAAA
17782348 TT
1 TT
17782350 AGAATATAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.29
7 15 0.71
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (7 bp):
TTTAAAA
Found at i:17785983 original size:31 final size:31
Alignment explanation
Indices: 17785945--17786123 Score: 170
Period size: 31 Copynumber: 5.8 Consensus size: 31
17785935 ACAAATGACA
* *
17785945 AGTGAAAAGTAGTAACTTCAGTTACCTGATC
1 AGTGAAAAGTAGTAGCTTCAGCTACCTGATC
* *
17785976 AGTGAAAAGTGGTAGCTTCTG-TACCTGATC
1 AGTGAAAAGTAGTAGCTTCAGCTACCTGATC
* * *
17786006 AGTAAAAAGTGGTAGTTTC-GACTACCTGATC
1 AGTGAAAAGTAGTAGCTTCAG-CTACCTGATC
*
17786037 AGTGAAAAGT-GATAGC-TCCGACTACCTGATC
1 AGTGAAAAGTAG-TAGCTTCAG-CTACCTGATC
* *
17786068 AGTGAAAAATAATAGC-TCTAGCTACCTGATC
1 AGTGAAAAGTAGTAGCTTC-AGCTACCTGATC
* * *
17786099 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTAGTAGCTTCAGCTAC
17786124 AAATGACAAG
Statistics
Matches: 126, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
29 1 0.01
30 29 0.23
31 93 0.74
32 3 0.02
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (31 bp):
AGTGAAAAGTAGTAGCTTCAGCTACCTGATC
Found at i:17786289 original size:42 final size:42
Alignment explanation
Indices: 17786226--17786338 Score: 147
Period size: 42 Copynumber: 2.7 Consensus size: 42
17786216 TATGTAATTC
*
17786226 GTGTAAGACCATAACTAGACTATGGCATCGA-TATATGAATAT
1 GTGTAAGACCATAACTAGACTATGGCATC-ATTATATGAAGAT
* * * *
17786268 GTGTAAGACTATAGCTGGACTATGGCATCATTATGTGAAGAT
1 GTGTAAGACCATAACTAGACTATGGCATCATTATATGAAGAT
* *
17786310 GTGTAAGACCATAATTAAACTATGGCATC
1 GTGTAAGACCATAACTAGACTATGGCATC
17786339 GAGAAAACGA
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
41 1 0.02
42 59 0.98
ACGTcount: A:0.35, C:0.14, G:0.21, T:0.29
Consensus pattern (42 bp):
GTGTAAGACCATAACTAGACTATGGCATCATTATATGAAGAT
Found at i:17795725 original size:2 final size:2
Alignment explanation
Indices: 17795718--17795744 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
17795708 ATCTAAATAA
17795718 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
17795745 AGAAAAATAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:17798484 original size:8 final size:8
Alignment explanation
Indices: 17798471--17798500 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
17798461 TAATTGTTAG
17798471 TTTTTATT
1 TTTTTATT
17798479 TTTTTATTT
1 TTTTTA-TT
17798488 TTTTTATT
1 TTTTTATT
17798496 TTTTT
1 TTTTT
17798501 TTCTGGCAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (8 bp):
TTTTTATT
Found at i:17798502 original size:10 final size:9
Alignment explanation
Indices: 17798471--17798501 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
17798461 TAATTGTTAG
17798471 TTTTTA-TT
1 TTTTTATTT
17798479 TTTTTATTT
1 TTTTTATTT
17798488 TTTTTATTT
1 TTTTTATTT
17798497 TTTTT
1 TTTTT
17798502 TCTGGCAGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 6 0.27
9 16 0.73
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (9 bp):
TTTTTATTT
Found at i:17800118 original size:20 final size:20
Alignment explanation
Indices: 17800093--17800135 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
17800083 AAAGTAAAGA
17800093 AGTATCCTTATGCTAGTGTC
1 AGTATCCTTATGCTAGTGTC
17800113 AGTATCCTTATGCTAGTGTC
1 AGTATCCTTATGCTAGTGTC
17800133 AGT
1 AGT
17800136 TTTATTTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.40
Consensus pattern (20 bp):
AGTATCCTTATGCTAGTGTC
Found at i:17804478 original size:47 final size:47
Alignment explanation
Indices: 17804409--17804501 Score: 177
Period size: 47 Copynumber: 2.0 Consensus size: 47
17804399 AGATGTTGCC
*
17804409 ACTACTTATTTCATTTTTGGGTGAAGTTTGTGAGAAAAAAAAGATCA
1 ACTACTTATTTCATTTTTGGGTGAAGATTGTGAGAAAAAAAAGATCA
17804456 ACTACTTATTTCATTTTTGGGTGAAGATTGTGAGAAAAAAAAGATC
1 ACTACTTATTTCATTTTTGGGTGAAGATTGTGAGAAAAAAAAGATC
17804502 TCGATAGGTG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (47 bp):
ACTACTTATTTCATTTTTGGGTGAAGATTGTGAGAAAAAAAAGATCA
Found at i:17815053 original size:18 final size:18
Alignment explanation
Indices: 17815032--17815070 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
17815022 TAAAATAAAA
*
17815032 ATTTAAATAAAAACTATT
1 ATTTAAATAAAAAATATT
**
17815050 ATTTTTATAAAAAATATT
1 ATTTAAATAAAAAATATT
17815068 ATT
1 ATT
17815071 GATTTAAATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTTAAATAAAAAATATT
Found at i:17815078 original size:18 final size:18
Alignment explanation
Indices: 17815038--17815084 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
17815028 AAAAATTTAA
* *
17815038 ATAAAAACTATTATTTTT
1 ATAAAAAATATTATTATT
17815056 ATAAAAAATATTATTGATT
1 ATAAAAAATATTATT-ATT
*
17815075 -TAAATAATAT
1 ATAAAAAATAT
17815085 ATTTTTACAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 23 0.92
19 2 0.08
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (18 bp):
ATAAAAAATATTATTATT
Found at i:17816295 original size:11 final size:11
Alignment explanation
Indices: 17816236--17816295 Score: 50
Period size: 11 Copynumber: 5.2 Consensus size: 11
17816226 TAATTTTAAA
*
17816236 ATTTAAATAAT
1 ATTTTAATAAT
17816247 ATTCTTAA-AAT
1 ATT-TTAATAAT
*
17816258 ATTATTGAAAAAT
1 ATT-TT-AATAAT
*
17816271 ATTTATATTAAT
1 ATTT-TAATAAT
17816283 ATTTTAATAAT
1 ATTTTAATAAT
17816294 AT
1 AT
17816296 ATATTACAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
11 19 0.47
12 14 0.35
13 7 0.17
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (11 bp):
ATTTTAATAAT
Found at i:17816321 original size:23 final size:21
Alignment explanation
Indices: 17816267--17816317 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 21
17816257 TATTATTGAA
17816267 AAATATTTATATTAATATTTT
1 AAATATTTATATTAATATTTT
*
17816288 -AATAATATATATTACA-ATTTAT
1 AAAT-ATTTATATTA-ATATTT-T
17816310 AAATATTT
1 AAATATTT
17816318 TATAGTATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 7
0.73 0.06 0.21
Matches are distributed among these distances:
20 3 0.12
21 13 0.54
22 5 0.21
23 3 0.12
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (21 bp):
AAATATTTATATTAATATTTT
Found at i:17818510 original size:22 final size:22
Alignment explanation
Indices: 17818485--17818570 Score: 56
Period size: 22 Copynumber: 4.0 Consensus size: 22
17818475 ATTATTAAAT
17818485 TTATATATAATATTTATTATTA
1 TTATATATAATATTTATTATTA
* * *
17818507 TTAT-TATAAAATATTATCA-AA
1 TTATATATAATAT-TTATTATTA
* *
17818528 TTAGATAT--TCTTTATTATGT-
1 TTATATATAATATTTATTAT-TA
* *
17818548 TTATATATGATGTTTATTATTA
1 TTATATATAATATTTATTATTA
17818570 T
1 T
17818571 AAAATATTAT
Statistics
Matches: 47, Mismatches: 10, Indels: 14
0.66 0.14 0.20
Matches are distributed among these distances:
19 5 0.11
20 8 0.17
21 12 0.26
22 22 0.47
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (22 bp):
TTATATATAATATTTATTATTA
Found at i:17818513 original size:25 final size:23
Alignment explanation
Indices: 17818472--17818521 Score: 57
Period size: 25 Copynumber: 2.1 Consensus size: 23
17818462 TTAGGCTTTG
17818472 TTTATTATTAAATTTATATATAATA
1 TTTATTATTAAATTTATA-A-AATA
*
17818497 TTTATTATT-ATTATTATAAAATA
1 TTTATTATTAAAT-TTATAAAATA
17818520 TT
1 TT
17818522 ATCAAATTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
23 6 0.26
24 3 0.13
25 14 0.61
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (23 bp):
TTTATTATTAAATTTATAAAATA
Found at i:17830009 original size:31 final size:31
Alignment explanation
Indices: 17829964--17830039 Score: 91
Period size: 31 Copynumber: 2.5 Consensus size: 31
17829954 TTTTTAAAAA
*
17829964 AAAAAAATTT-AATAGCCTAATAACTTAAAT
1 AAAAATATTTAAATAGCCTAATAACTTAAAT
* * ** *
17829994 AAAATTTTTTAAATAGTTTAATTACTTAAAT
1 AAAAATATTTAAATAGCCTAATAACTTAAAT
17830025 AAAAATATTTAAATA
1 AAAAATATTTAAATA
17830040 ATTAAATAAT
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
30 7 0.19
31 30 0.81
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.38
Consensus pattern (31 bp):
AAAAATATTTAAATAGCCTAATAACTTAAAT
Found at i:17830044 original size:22 final size:23
Alignment explanation
Indices: 17830004--17830048 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
17829994 AAAATTTTTT
* *
17830004 AAATAGTTTAATTACTTAAATAA
1 AAATAGTTTAAATAATTAAATAA
17830027 AAATA-TTTAAATAATTAAATAA
1 AAATAGTTTAAATAATTAAATAA
17830049 TATTTTTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (23 bp):
AAATAGTTTAAATAATTAAATAA
Found at i:17834945 original size:20 final size:20
Alignment explanation
Indices: 17834912--17834958 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
17834902 TGTCACTCCG
17834912 TAATTATATGTTAAAAAATT
1 TAATTATATGTTAAAAAATT
* *
17834932 TAATTGATAT-TTAAACATTT
1 TAATT-ATATGTTAAAAAATT
17834952 TAATTAT
1 TAATTAT
17834959 TTATATTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 18 0.75
21 4 0.17
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (20 bp):
TAATTATATGTTAAAAAATT
Found at i:17836701 original size:13 final size:13
Alignment explanation
Indices: 17836683--17836709 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
17836673 AGAAACCAAA
17836683 TTGATTATACCAG
1 TTGATTATACCAG
17836696 TTGATTATACCAG
1 TTGATTATACCAG
17836709 T
1 T
17836710 AAAGTATGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGATTATACCAG
Found at i:17838360 original size:30 final size:30
Alignment explanation
Indices: 17838319--17838376 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
17838309 TATTGTTAAT
17838319 TTTTATTATTATTTTAAAGACATTTGCTAA
1 TTTTATTATTATTTTAAAGACATTTGCTAA
* * *
17838349 TTTTGTTATTATTTTAGAGGCATTTGCT
1 TTTTATTATTATTTTAAAGACATTTGCT
17838377 TGTTAAGTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.26, C:0.07, G:0.12, T:0.55
Consensus pattern (30 bp):
TTTTATTATTATTTTAAAGACATTTGCTAA
Found at i:17838478 original size:18 final size:20
Alignment explanation
Indices: 17838457--17838497 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
17838447 GAAATATTTA
*
17838457 TTTTGAT-GTTTTTA-ATAT
1 TTTTGATGGTTTATATATAT
17838475 TTTTGATGGTTTATATATAT
1 TTTTGATGGTTTATATATAT
17838495 TTT
1 TTT
17838498 AAAATTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 7 0.35
19 6 0.30
20 7 0.35
ACGTcount: A:0.22, C:0.00, G:0.12, T:0.66
Consensus pattern (20 bp):
TTTTGATGGTTTATATATAT
Found at i:17842808 original size:25 final size:26
Alignment explanation
Indices: 17842780--17842828 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
17842770 TTTCATCCCA
17842780 ATTTTA-CTCCAGTAAAATTTTGACG
1 ATTTTAGCTCCAGTAAAATTTTGACG
*
17842805 ATTTTAGCTCCGGTAAAATTTTGA
1 ATTTTAGCTCCAGTAAAATTTTGA
17842829 GAAAATTCGT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 6 0.27
26 16 0.73
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.41
Consensus pattern (26 bp):
ATTTTAGCTCCAGTAAAATTTTGACG
Found at i:17845531 original size:2 final size:2
Alignment explanation
Indices: 17845524--17845564 Score: 57
Period size: 2 Copynumber: 20.0 Consensus size: 2
17845514 AATCTTAATG
17845524 TA TA TA TA TA TA TA TA TA TA -A TA TA TA TGA TA TA TGA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA T-A TA TA
17845565 AATTCTTTAC
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
1 1 0.03
2 31 0.86
3 4 0.11
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (2 bp):
TA
Found at i:17845549 original size:9 final size:9
Alignment explanation
Indices: 17845525--17845558 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
17845515 ATCTTAATGT
17845525 ATATATATA
1 ATATATATA
17845534 TATATATATA
1 -ATATATATA
*
17845544 ATATATATG
1 ATATATATA
17845553 ATATAT
1 ATATAT
17845559 GATATAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 14 0.61
10 9 0.39
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (9 bp):
ATATATATA
Found at i:17848477 original size:15 final size:13
Alignment explanation
Indices: 17848439--17848496 Score: 55
Period size: 13 Copynumber: 4.3 Consensus size: 13
17848429 GTATGTGAGA
*
17848439 AATATATATATAT
1 AATATACATATAT
* *
17848452 ACATA-ATATATTT
1 A-ATATACATATAT
17848465 AATATGAACATATAT
1 AATAT--ACATATAT
17848480 AATATACATATAT
1 AATATACATATAT
17848493 AATA
1 AATA
17848497 ATATACATGA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
12 3 0.08
13 21 0.55
14 3 0.08
15 11 0.29
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (13 bp):
AATATACATATAT
Found at i:17848819 original size:17 final size:16
Alignment explanation
Indices: 17848793--17848825 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
17848783 ATAACTAGTA
17848793 ATATTAAAATATATAT
1 ATATTAAAATATATAT
17848809 ATATATAAAATATATAT
1 ATAT-TAAAATATATAT
17848826 TAAAAAACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
ATATTAAAATATATAT
Found at i:17848823 original size:13 final size:13
Alignment explanation
Indices: 17848805--17848899 Score: 54
Period size: 13 Copynumber: 7.3 Consensus size: 13
17848795 ATTAAAATAT
17848805 ATATATATATAAA
1 ATATATATATAAA
17848818 ATATATAT-TAAA
1 ATATATATATAAA
* *
17848830 AAACTTATATATAAC
1 ATA--TATATATAAA
*
17848845 ATATAT-GA-AAA
1 ATATATATATAAA
17848856 ATATATAATATTAAA
1 ATATAT-ATA-TAAA
* * *
17848871 ACATTTACATAAA
1 ATATATATATAAA
**
17848884 A-ATACCTATAAA
1 ATATATATATAAA
17848896 ATAT
1 ATAT
17848900 TAGAAGCATA
Statistics
Matches: 61, Mismatches: 13, Indels: 16
0.68 0.14 0.18
Matches are distributed among these distances:
11 8 0.13
12 15 0.25
13 19 0.31
14 7 0.11
15 12 0.20
ACGTcount: A:0.58, C:0.06, G:0.01, T:0.35
Consensus pattern (13 bp):
ATATATATATAAA
Found at i:17848866 original size:27 final size:27
Alignment explanation
Indices: 17848793--17848874 Score: 80
Period size: 25 Copynumber: 3.0 Consensus size: 27
17848783 ATAACTAGTA
*
17848793 ATATTAAAATATATATATATATAAAATAT
1 ATATTAAAA-ATATATA-ATATAAAACAT
*
17848822 ATATTAAAAA-ACT-T-ATATATAACAT
1 ATATTAAAAATA-TATAATATAAAACAT
*
17848847 ATATGAAAAATATATAATATTAAAACAT
1 ATATTAAAAATATATAATA-TAAAACAT
17848875 TTACATAAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 11
0.75 0.07 0.19
Matches are distributed among these distances:
25 19 0.43
26 2 0.05
27 5 0.11
28 9 0.20
29 9 0.20
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.37
Consensus pattern (27 bp):
ATATTAAAAATATATAATATAAAACAT
Found at i:17849108 original size:20 final size:18
Alignment explanation
Indices: 17849071--17849113 Score: 50
Period size: 20 Copynumber: 2.3 Consensus size: 18
17849061 AATACATATA
*
17849071 AAATATGATAGATATAAT
1 AAATATGAAAGATATAAT
17849089 AAATATGTAAAGATTATAAT
1 AAATATG-AAAGA-TATAAT
*
17849109 TAATA
1 AAATA
17849114 ATAATAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 7 0.33
19 4 0.19
20 10 0.48
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.35
Consensus pattern (18 bp):
AAATATGAAAGATATAAT
Found at i:17850418 original size:23 final size:23
Alignment explanation
Indices: 17850386--17850430 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
17850376 TCTGGGTTTT
17850386 GGGGTTTGGGTCT-GGTTGTAAA
1 GGGGTTTGGGTCTAGGTTGTAAA
*
17850408 GGGGTATTGGGTCTAGTTTGTAA
1 GGGGT-TTGGGTCTAGGTTGTAA
17850431 TGGGTCAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 5 0.25
23 8 0.40
24 7 0.35
ACGTcount: A:0.16, C:0.04, G:0.42, T:0.38
Consensus pattern (23 bp):
GGGGTTTGGGTCTAGGTTGTAAA
Found at i:17853304 original size:18 final size:17
Alignment explanation
Indices: 17853258--17853303 Score: 74
Period size: 17 Copynumber: 2.7 Consensus size: 17
17853248 CCCATTAAGC
* *
17853258 CCCCCAAAAAAACTTAA
1 CCCCAAAAAAAACCTAA
17853275 CCCCAAAAAAAACCTAA
1 CCCCAAAAAAAACCTAA
17853292 CCCCAAAAAAAA
1 CCCCAAAAAAAA
17853304 AAACCAAGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.59, C:0.35, G:0.00, T:0.07
Consensus pattern (17 bp):
CCCCAAAAAAAACCTAA
Found at i:17853855 original size:2 final size:2
Alignment explanation
Indices: 17853850--17853874 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
17853840 TAAATACTAT
17853850 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
17853875 TTTAAATACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:17853858 original size:39 final size:37
Alignment explanation
Indices: 17853777--17853886 Score: 116
Period size: 39 Copynumber: 2.9 Consensus size: 37
17853767 TTTAGGTATT
* *
17853777 TTATATATA-TTATGTATATATTTTTTAATGCCATTAG
1 TTATATATATTTATGTATATA-TTTTAAATACCATTAG
* *
17853814 TTATATATTTCTTATGTATATATTCTTAAATACTATTA-
1 TTATATATAT-TTATGTATATATT-TTAAATACCATTAG
* *
17853852 TATATATATATATATATATATATTTTAAATACCAT
1 T-TATATATATTTATGTATATATTTTAAATACCAT
17853887 ATTGTGTATA
Statistics
Matches: 61, Mismatches: 8, Indels: 8
0.79 0.10 0.10
Matches are distributed among these distances:
37 18 0.30
38 14 0.23
39 29 0.48
ACGTcount: A:0.37, C:0.06, G:0.04, T:0.53
Consensus pattern (37 bp):
TTATATATATTTATGTATATATTTTAAATACCATTAG
Found at i:17853897 original size:39 final size:37
Alignment explanation
Indices: 17853773--17853905 Score: 112
Period size: 39 Copynumber: 3.5 Consensus size: 37
17853763 TTTTTTTAGG
* *
17853773 TATT-TTATATATATTATGTATATATTTTTTAATGCCA
1 TATTGTTATATATATTATGTATATA-TTTTAAATACCA
* *
17853810 T-TAGTTATATATTTCTTATGTATATATTCTTAAATA-C-
1 TATTGTTATATA--TATTATGTATATATT-TTAAATACCA
* *
17853847 TATTATATATATATATATATATATATATTTTAAATACCA
1 TATTGT-TATATATAT-TATGTATATATTTTAAATACCA
17853886 TATTGTGTATATATTATTAT
1 TATTGT-TATATA-TATTAT
17853906 TACAAATTAT
Statistics
Matches: 76, Mismatches: 10, Indels: 18
0.73 0.10 0.17
Matches are distributed among these distances:
36 1 0.01
37 18 0.24
38 17 0.22
39 37 0.49
40 3 0.04
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.54
Consensus pattern (37 bp):
TATTGTTATATATATTATGTATATATTTTAAATACCA
Found at i:17853982 original size:2 final size:2
Alignment explanation
Indices: 17853970--17854001 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
17853960 TTTTATGTAC
*
17853970 AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17854002 TTGTACATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17864456 original size:26 final size:26
Alignment explanation
Indices: 17864418--17864501 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
17864408 CATGATATTC
17864418 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
*
17864444 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
*
17864470 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCCA
17864496 TTATCA
1 TTATCA
17864502 ATTTGTATCA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.33
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCCA
Found at i:17869226 original size:71 final size:69
Alignment explanation
Indices: 17869128--17869302 Score: 217
Period size: 71 Copynumber: 2.5 Consensus size: 69
17869118 TTTTCAAGGG
* *
17869128 AAATCAACTCATATTGCGAG-AGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTT
1 AAATCAACTCATATTGCGAGAAG-TGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAATTTAT
17869192 GTTTT
65 GTTTT
* * ** * *
17869197 CAAAATCAACTCATATGGCGAGAAGTGAGTTGAGCTTCGGGGCACGCTGAGGTATTTTTAGTTTA
1 --AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAATTTA
17869262 TGTTTT
64 TGTTTT
* * *
17869268 AAATTAACTCATATTGCGAGAGGTGAGTTAAGCCT
1 AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
17869303 TTTAATTTTT
Statistics
Matches: 90, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
69 30 0.33
71 58 0.64
72 2 0.02
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.34
Consensus pattern (69 bp):
AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAATTTATG
TTTT
Found at i:17869473 original size:126 final size:126
Alignment explanation
Indices: 17869193--17869692 Score: 544
Period size: 140 Copynumber: 3.9 Consensus size: 126
17869183 TTAATTTTTG
* * * * *
17869193 TTTTCAAAATCAACTCATATGGCGAGAAGTGAGTTGAGCTTCGGGGCACGCTGAGGTATTTT-TA
1 TTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAA
* * * *
17869257 -GTTTATGTTTTAAATT-AACTCATATTGCGAGAGGTGAGTT-AAGCCTTTTAATTTTTA-T
66 TTTTTTTGTTTTAAATTCAACTCATATTGCGAGAGGTGGGTTGAA-CCTTTTAATTTCTACT
* * *
17869315 TTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGCATTTTCAA
1 TTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAA
*
17869380 TTTTTTTGTTTTAATTTCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACT
66 TTTTTTTGTTTTAAATTCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACT
* * *
17869441 TTTTCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGTTGAGGTATTTTCAA
1 TTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAA
* *
17869506 TTTCTGTTTTCAATTTACGTTGTTCAAGAATCAACTCATATTGCAAGAGGTGGGTTGAACCTTTT
66 ------TTTT---TTT--GTT-TT-AA-ATTCAACTCATATTGCGAGAGGTGGGTTGAACCTTTT
17869571 AATTTCTACT
117 AATTTCTACT
* * * *
17869581 TTTTCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAA
1 TTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAA
** * * *
17869646 TTTCTGTTT-TTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGA
66 TTT-T-TTTGTT--TTAAATTCAACTCATATTGCGAGAGGTGGGTTGA
17869693 GCCTCAGGAC
Statistics
Matches: 326, Mismatches: 31, Indels: 35
0.83 0.08 0.09
Matches are distributed among these distances:
122 57 0.17
123 1 0.00
124 13 0.04
125 36 0.11
126 62 0.19
129 27 0.08
130 4 0.01
132 4 0.01
133 3 0.01
134 3 0.01
135 4 0.01
137 3 0.01
138 2 0.01
139 2 0.01
140 105 0.32
ACGTcount: A:0.27, C:0.15, G:0.21, T:0.37
Consensus pattern (126 bp):
TTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAA
TTTTTTTGTTTTAAATTCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACT
Found at i:17869773 original size:74 final size:75
Alignment explanation
Indices: 17869586--17869800 Score: 270
Period size: 75 Copynumber: 2.9 Consensus size: 75
17869576 CTACTTTTTC
* * * * *
17869586 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTAAGGTAATTTCAATTTCT
* *
17869651 GTTTTTCAAA
66 GATTGTCAAA
* *
17869661 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTAAGGTAATTTCAGTTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTAAGGTAATTTCAATTTCT
17869726 -ATTGTCAAA
66 GATTGTCAAA
* * * ** *
17869735 AAAATCAACTCGTATTGTGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTAAGGTAATTTCAATTT
17869800 C
64 C
17869801 CGTTTTTCAA
Statistics
Matches: 121, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
74 43 0.36
75 58 0.48
76 20 0.17
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (75 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTAAGGTAATTTCAATTTCT
GATTGTCAAA
Found at i:17869873 original size:94 final size:94
Alignment explanation
Indices: 17869732--17869904 Score: 258
Period size: 94 Copynumber: 1.8 Consensus size: 94
17869722 TTCTATTGTC
* * *
17869732 AAAAAAATCAACTCGTATTGTGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGCTATTTTCAA
*
17869797 TTTCCGTTTTTCAATTTCTGCCTTTCAAA
66 TTTCCGTCTTTCAATTTCTGCCTTTCAAA
* * *
17869826 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCACACGCTGAGCTATTTTCA
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-TCACACGCCGAGCTATTTTCA
*
17869890 ATTTCTGTCTTTCAA
65 ATTTCCGTCTTTCAA
17869905 AAAAATCAAC
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
93 2 0.03
94 68 0.97
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (94 bp):
AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGCTATTTTCAA
TTTCCGTCTTTCAATTTCTGCCTTTCAAA
Found at i:17869934 original size:77 final size:77
Alignment explanation
Indices: 17869826--17870397 Score: 393
Period size: 88 Copynumber: 7.0 Consensus size: 77
17869816 GCCTTTCAAA
17869826 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGCTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGCTATTTTCAA
*
17869891 TTTCTGTCTTTC
66 TTTCTGTTTTTC
* * * *
17869903 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTCAGATCACACACTGAGGTATTTTTT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT-GGCTCACACGCTGAGCTA--TTTT
* *
17869967 CAATTTATATTTTTC
63 CAATTTCTGTTTTTC
* * * * * *
17869982 AAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTCACATG-TCGAGGTATTTTCA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCT-GAGCTATTTTCA
**
17870046 AAATCTGTTTTTC
65 ATTTCTGTTTTTC
* **
17870059 AAATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGA
1 -AA----------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCTGA
*
17870124 GCTATTTTCAATTTCTTTTTTTTTC
55 GCTATTTTCAATTTC--TGTTTTTC
* ** * * * * *
17870149 AAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTTAATTTCTGAGAGAGTTGAGTTG
1 AAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC---CT--TGGCTCACA-CGCTGAGCT-
*
17870214 AGTCTTTTAATTTCTGTTTTTC
58 A-T-TTTCAATTTCTGTTTTTC
* ** ** *
17870236 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCCAG-TCACA-TATCGAGGTATTTTC
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCACACGCT-GAGCTATTTTC
*
17870297 AAAATCTGCTTTTCAAGTTAAGTTTC
64 --AA------TTTC-TGTT---TTTC
**
17870323 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCATGCGCTGAGCTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGCTATTTTCAA
17870387 TTTCTGTTTTT
66 TTTCTGTTTTT
17870398 AATGTCTGTT
Statistics
Matches: 389, Mismatches: 61, Indels: 91
0.72 0.11 0.17
Matches are distributed among these distances:
75 3 0.01
76 7 0.02
77 69 0.18
78 7 0.02
79 73 0.19
80 35 0.09
81 1 0.00
83 5 0.01
84 32 0.08
85 9 0.02
86 8 0.02
87 13 0.03
88 107 0.28
89 13 0.03
90 7 0.02
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (77 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGCTATTTTCAA
TTTCTGTTTTTC
Found at i:17869983 original size:79 final size:76
Alignment explanation
Indices: 17869826--17870188 Score: 278
Period size: 79 Copynumber: 4.5 Consensus size: 76
17869816 GCCTTTCAAA
* * *
17869826 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGCTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTAGATCACACACTGAGCTATTTTCAA
* *
17869891 TTTCTGTCTTTC
65 TTTATATCTTTC
*
17869903 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTC
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTT-AGATCACACACTGAGCTA--TTTTC
*
17869968 AATTTATATTTTTC
63 AATTTATATCTTTC
* * ** * ** *
17869982 AAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTCACA-TGTCGAGGTATTTTCA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTAGATCACACACT-GAGCTATTTTC-
* *
17870046 AAATCTGTTTTTCAAATTCTGTTT
63 -AA------TTT-ATA-TCT-TTC
** * * * ***
17870070 TCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTAGATCACACACTGAGCTATTTTCAA
* * *
17870135 TTTCTTTTTTTTTC
65 -TT-TATATCTTTC
17870149 AAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTT
1 AAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCTT
17870189 TTTAATTTCT
Statistics
Matches: 232, Mismatches: 35, Indels: 36
0.77 0.12 0.12
Matches are distributed among these distances:
76 3 0.01
77 55 0.24
78 1 0.00
79 74 0.32
80 32 0.14
81 3 0.01
82 1 0.00
85 3 0.01
86 4 0.02
87 2 0.01
88 53 0.23
89 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.34
Consensus pattern (76 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTAGATCACACACTGAGCTATTTTCAAT
TTATATCTTTC
Found at i:17870059 original size:14 final size:13
Alignment explanation
Indices: 17870040--17870075 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
17870030 TGTCGAGGTA
17870040 TTTTCAAAATCTG
1 TTTTCAAAATCTG
*
17870053 TTTTTCAAATTCTG
1 -TTTTCAAAATCTG
17870067 TTTTCAAAA
1 TTTTCAAAA
17870076 ATCAACTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.31, C:0.14, G:0.06, T:0.50
Consensus pattern (13 bp):
TTTTCAAAATCTG
Found at i:17870205 original size:30 final size:30
Alignment explanation
Indices: 17870171--17870229 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
17870161 CTCATATTGC
17870171 GAGAGGTGAGTTGAG-CTTTTTAATTTCTGA
1 GAGAGGTGAGTTGAGTC-TTTTAATTTCTGA
*
17870201 GAGAGTTGAGTTGAGTCTTTTAATTTCTG
1 GAGAGGTGAGTTGAGTCTTTTAATTTCTG
17870230 TTTTTCAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.22, C:0.07, G:0.29, T:0.42
Consensus pattern (30 bp):
GAGAGGTGAGTTGAGTCTTTTAATTTCTGA
Found at i:17870312 original size:252 final size:244
Alignment explanation
Indices: 17869586--17870397 Score: 871
Period size: 252 Copynumber: 3.3 Consensus size: 244
17869576 CTACTTTTTC
* ** ** *
17869586 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCC-T--CAAGACATGCTGAGGTATTTTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGC-TCACGCGCTGAGCTATTTTCAATT
* * * * * *
17869648 TC-TGTTTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAG--GACACGCTAA
65 TCTTTTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGA
* * * * * * *
17869710 GGTA--ATTTCAGTTTCTA-TTGTCAAAAAAATCAACTCGTATTGTGAGAGGCGAGTTGAGCCT-
130 GGTATCTTTTCAATTTATATTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
* * ** * *
17869771 CAGGTCACACGCCGAGGTATTTTCAATTTCCGTTTTTCAATTTCTGCCTTTCAAAAAA
194 CA-GTCACATGTCGAGGTATTTTCAAAATCTGTTTTTCAAATTCTG--TTTC----AA
*
17869829 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGCTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAATTT
* *
17869894 C-TGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAG
66 CTTTTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAG
* * * *
17869958 GTATTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCG
131 GTATCTTTTCAATTTATATTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCC
*
17870023 GGTCACATGTCGAGGTATTTTCAAAATCTGTTTTTCAAATTCTGTTTTC-A
195 AGTCACATGTCGAGGTATTTTCAAAATCTGTTTTTCAAATTCTG-TTTCAA
* *
17870073 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAATTT
* *
17870138 CTTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTTA-ATTTCTGAG
66 C-TTTTTTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC--TTCAGA--TC--AC
* * * * *
17870202 AGAGTTGAGTTGAGTCTTTT-AATTTCTGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAG
123 ACA-CTGAGGT-A-TCTTTTCAATTTATATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAG
* * * * **
17870265 TTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAAGTTAAGTTTCAA
185 TTGAGCCTCCAGTCACATGTCGAGGTATTTTCAAAATCTGTTTTTCAAATTCTGTTTCAA
*
17870325 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCATGCGCTGAGCTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAATTT
*
17870390 CTGTTTTT
66 CTTTTTTT
17870398 AATGTCTGTT
Statistics
Matches: 491, Mismatches: 56, Indels: 36
0.84 0.10 0.06
Matches are distributed among these distances:
243 34 0.07
244 65 0.13
245 69 0.14
246 14 0.03
247 41 0.08
248 1 0.00
249 17 0.03
250 77 0.16
251 10 0.02
252 140 0.29
253 5 0.01
254 13 0.03
255 5 0.01
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (244 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAATTT
CTTTTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAG
GTATCTTTTCAATTTATATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCCA
GTCACATGTCGAGGTATTTTCAAAATCTGTTTTTCAAATTCTGTTTCAA
Found at i:17871090 original size:26 final size:26
Alignment explanation
Indices: 17871057--17871107 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
17871047 CCCCCCCCAA
17871057 AAAAACCTAACCCCCCCAAAAAAAAG
1 AAAAACCTAACCCCCCCAAAAAAAAG
* *
17871083 AAAAACCTAACTCCCCTAAAAAAAA
1 AAAAACCTAACCCCCCCAAAAAAAA
17871108 CCAAGAAACC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.59, C:0.31, G:0.02, T:0.08
Consensus pattern (26 bp):
AAAAACCTAACCCCCCCAAAAAAAAG
Found at i:17871116 original size:28 final size:26
Alignment explanation
Indices: 17871057--17871117 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
17871047 CCCCCCCCAA
*
17871057 AAAAACCTAACCCCCCCAAAAAAAAG
1 AAAAACCTAACCCCCCCAAAAAAAAC
* *
17871083 AAAAACCTAACTCCCCTAAAAAAAACC
1 AAAAACCTAACCCCCCCAAAAAAAA-C
17871110 AAGAAACC
1 AA-AAACC
17871118 CTAGCCACCT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 23 0.77
27 2 0.07
28 5 0.17
ACGTcount: A:0.57, C:0.33, G:0.03, T:0.07
Consensus pattern (26 bp):
AAAAACCTAACCCCCCCAAAAAAAAC
Found at i:17871783 original size:2 final size:2
Alignment explanation
Indices: 17871771--17871800 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
17871761 TTTTATGTAC
*
17871771 AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17871801 TTGTACATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17873413 original size:20 final size:21
Alignment explanation
Indices: 17873384--17873423 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
17873374 AGTTAATATT
17873384 TATTGATTAA-AAAAATTATG
1 TATTGATTAATAAAAATTATG
* *
17873404 TATTGTTTAATAAAAGTTAT
1 TATTGATTAATAAAAATTAT
17873424 TTTAAAGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.45, C:0.00, G:0.10, T:0.45
Consensus pattern (21 bp):
TATTGATTAATAAAAATTATG
Found at i:17878217 original size:47 final size:46
Alignment explanation
Indices: 17878138--17878227 Score: 135
Period size: 47 Copynumber: 1.9 Consensus size: 46
17878128 GGAGATAAGA
17878138 TCTGTAATTTTCAACCCGTTCCCTACTGCTTAGGAAGATAAGGTGG
1 TCTGTAATTTTCAACCCGTTCCCTACTGCTTAGGAAGATAAGGTGG
* * **
17878184 TCTGTCATTTTCAACCTGTTTCCCTACTGCTTAGGGGGATAAGG
1 TCTGTAATTTTCAACCCG-TTCCCTACTGCTTAGGAAGATAAGG
17878228 CTCACCGTCT
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
46 16 0.41
47 23 0.59
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.34
Consensus pattern (46 bp):
TCTGTAATTTTCAACCCGTTCCCTACTGCTTAGGAAGATAAGGTGG
Found at i:17878299 original size:44 final size:43
Alignment explanation
Indices: 17878117--17878307 Score: 161
Period size: 44 Copynumber: 4.3 Consensus size: 43
17878107 ATCCGCTCCA
* *
17878117 CTACTGTTTAGGGAGATAAGATCTGTAATTTTCAACCCGTTCC
1 CTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTGTTCC
* * *
17878160 CTACTGCTTAGGAAGATAAGGTGGTCTGTCATTTTCAACCTGTTTCC
1 CTACTGCTTAGGGAGATAA---GATCTGTAATTTTCAACCTG-TTCC
* * * * * * * *
17878207 CTACTGCTTAGGGGGATAAG-GCT-CACCGTCTTCGATCTGCTCC
1 CTACTGCTTAGGGAGATAAGATCTGTA--ATTTTCAACCTGTTCC
* *
17878250 ACTACTACTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTTCC
1 -CTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTG-TTCC
17878295 CTACTGCTTAGGG
1 CTACTGCTTAGGG
17878308 GGTTATTGCT
Statistics
Matches: 112, Mismatches: 26, Indels: 19
0.71 0.17 0.12
Matches are distributed among these distances:
43 22 0.20
44 46 0.41
45 5 0.04
46 18 0.16
47 21 0.19
ACGTcount: A:0.22, C:0.23, G:0.21, T:0.34
Consensus pattern (43 bp):
CTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTGTTCC
Found at i:17878431 original size:87 final size:88
Alignment explanation
Indices: 17878184--17878626 Score: 622
Period size: 88 Copynumber: 5.1 Consensus size: 88
17878174 GATAAGGTGG
* * * * **
17878184 TCTGTCATTTTCAACCTGTTTCCCTACTGCTTAGGGGGATAAGGCTCACCGTCTTCGATCTGCTC
1 TCTGTAATTTTCAGCCTGTTTTCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCGATCCACTC
**
17878249 CACTACTACTTAGGGAGATAAGA
66 CACTACTGTTTAGGGAGATAAGA
* ** *
17878272 TCTGTAATTTTCAGCCTGTTTCCCTACTGCTTAGGGGGTTATTGCTCACCGTCTTCGATCCGCTC
1 TCTGTAATTTTCAGCCTGTTTTCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCGATCCACTC
**
17878337 CACTACTGTTTAGGGAGATCGGA
66 CACTACTGTTTAGGGAGATAAGA
* *
17878360 TCTATAATTTTCAGCCTGTTTTCCT-CTACTTAGGGGGTTAAGGCTCACCGTCTTCGATCCACTC
1 TCTGTAATTTTCAGCCTGTTTTCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCGATCCACTC
17878424 CACTACTGTTTAGGGAGATAAGA
66 CACTACTGTTTAGGGAGATAAGA
* *
17878447 TCTGTAATTTCCAGCCTG-TTTCCTACTGCTTA-GGGGTTAAGACTCACCGTCTTCGATCCACTC
1 TCTGTAATTTTCAGCCTGTTTTCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCGATCCACTC
*
17878510 CACTACTGTTTAGGTAGATAAGA
66 CACTACTGTTTAGGGAGATAAGA
* * * * *
17878533 TCTGTAATTTCCAGCCTGTTTTCCTATTGCTTAGGGGGTTAAGGCTCACTGTCTTTGACCCACTC
1 TCTGTAATTTTCAGCCTGTTTTCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCGATCCACTC
* **
17878598 CCCTACTACTTAGGGAGATAAGA
66 CACTACTGTTTAGGGAGATAAGA
17878621 TCTGTA
1 TCTGTA
17878627 CAATCAATTT
Statistics
Matches: 320, Mismatches: 32, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
86 76 0.24
87 91 0.28
88 153 0.48
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.34
Consensus pattern (88 bp):
TCTGTAATTTTCAGCCTGTTTTCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCGATCCACTC
CACTACTGTTTAGGGAGATAAGA
Found at i:17878474 original size:43 final size:43
Alignment explanation
Indices: 17878426--17878568 Score: 105
Period size: 43 Copynumber: 3.3 Consensus size: 43
17878416 ATCCACTCCA
*
17878426 CTACTGTTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTC
1 CTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTC
* * * * * ** *
17878469 CTACTGCTTAGGG-GTTAAGACTCACCGT--CTTCGATCC-ACTCC
1 CTACTGCTTAGGGAGATAAGA-T--CTGTAATTTCCAGCCTGTTTC
* *
17878511 ACTACTGTTTAGGTAGATAAGATCTGTAATTTCCAGCCTGTTTTC
1 -CTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTG-TTTC
*
17878556 CTATTGCTTAGGG
1 CTACTGCTTAGGG
17878569 GGTTAAGGCT
Statistics
Matches: 69, Mismatches: 22, Indels: 17
0.64 0.20 0.16
Matches are distributed among these distances:
41 3 0.04
42 8 0.12
43 37 0.54
44 16 0.23
45 5 0.07
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.36
Consensus pattern (43 bp):
CTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTC
Found at i:17884548 original size:88 final size:87
Alignment explanation
Indices: 17884395--17884921 Score: 669
Period size: 88 Copynumber: 6.0 Consensus size: 87
17884385 AAATCGATTC
* ** *
17884395 TACAGATCTTATCTCCTTAAGTAGTAGTGGAGTGGATCGAAGACAGTGAGCCTTAACCCCCTAAG
1 TACAGATCTTATCTCCCTAAACAGTAGTGGAGTGGATCGAAGACGGTGAGCCTTAACCCCCTAAG
*
17884460 CAGTAGGGAAACAGACTGAAGAT
66 CAGTAGGGAAACAGGCTGAA-AT
* *
17884483 TACAGATCTTATCTCCCTAAATAGTAGTGGAGTGGATCGAAGACGGTGAGCCTTAACCCCTTAAG
1 TACAGATCTTATCTCCCTAAACAGTAGTGGAGTGGATCGAAGACGGTGAGCCTTAACCCCCTAAG
*
17884548 CAGTA-GGAACACAAGCTGAAAAT
66 CAGTAGGGAA-ACAGGCTG-AAAT
* * * * *
17884571 TACAGATCCTATCTCCCTAAACAATAGTGTAGTGGATAGAAGACGGTAAGCCTTAACCCCCCTAA
1 TACAGATCTTATCTCCCTAAACAGTAGTGGAGTGGATCGAAGACGGTGAGCCTTAA-CCCCCTAA
*
17884636 ACAGTAGGGAAACAGGCTGAAAAT
65 GCAGTAGGGAAACAGGCTG-AAAT
** * * *
17884660 TACAGATCCGATCTGCCTAAACAGTAGTGGAGTGGATCGAAGACGGAGAGTCTTAACCCCCTAAG
1 TACAGATCTTATCTCCCTAAACAGTAGTGGAGTGGATCGAAGACGGTGAGCCTTAACCCCCTAAG
*
17884725 CAATAGGGAAACAGGCTGGAAAT
66 CAGTAGGGAAACAGGCT-GAAAT
* * * * * * *
17884748 CACAAATCTTATTTCCCTAAACAGTAGTGGAGTGGATCAAAAATGGTGAGCCTTAACCACCTAAG
1 TACAGATCTTATCTCCCTAAACAGTAGTGGAGTGGATCGAAGACGGTGAGCCTTAACCCCCTAAG
17884813 CAGTAGGGAAACAGGCTGGAAAT
66 CAGTAGGGAAACAGGCT-GAAAT
* * * ** *
17884836 TACAGATCTTATTTCCTTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTATCCCCCTAAG
1 TACAGATCTTATCTCCCTAAACAGTAGTGGAGTGGATCGAAGACGGTGAGCCTTAACCCCCTAAG
* *
17884901 CAATAGGGAAACATGCTGAAA
66 CAGTAGGGAAACAGGCTGAAA
17884922 ATGATAGACC
Statistics
Matches: 383, Mismatches: 51, Indels: 11
0.86 0.11 0.02
Matches are distributed among these distances:
87 8 0.02
88 296 0.77
89 75 0.20
90 4 0.01
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.21
Consensus pattern (87 bp):
TACAGATCTTATCTCCCTAAACAGTAGTGGAGTGGATCGAAGACGGTGAGCCTTAACCCCCTAAG
CAGTAGGGAAACAGGCTGAAAT
Found at i:17884880 original size:265 final size:264
Alignment explanation
Indices: 17884417--17884923 Score: 705
Period size: 265 Copynumber: 1.9 Consensus size: 264
17884407 CTCCTTAAGT
* *
17884417 AGTAGTGGAGTGGATCGAAGACAGTGAGCCTTAACCCCCTAAGCAGTAGGGAAACAGACTGAAGA
1 AGTAGTGGAGTGGATCGAAGACAGAGAGCCTTAACCCCCTAAGCAATAGGGAAACAGACTGAAGA
* * * * *
17884482 TTACAGATCTTATCTCCCTAAATAGTAGTGGAGTGGATCGAAGACGGTGAGCCTTAACCCCTTAA
66 TCACAAATCTTATCTCCCTAAACAGTAGTGGAGTGGATCAAAAACGGTGAGCCTTAACCCCTTAA
* **
17884547 GCAGTAGGAACACAAGCTGAAAATTACAGATCCTATCTCCCTAAACAATAGTGTAGTGGATAGAA
131 GCAGTAGGAACACAAGCTGAAAATTACAGATCCTATCTCCCTAAACAATAGTGGAGCAGATAGAA
*
17884612 GACGGTAAGCCTTAACCCCCCTAAACAGTAGGGAAACAGGCTGAAAATTACAGATCCGATCTGCC
196 GACGGTAAGCCTT-ACCCCCCTAAACAATAGGGAAACAGGCTGAAAATTACAGATCCGATCTGCC
17884677 TAAAC
260 TAAAC
* * *
17884682 AGTAGTGGAGTGGATCGAAGACGGAGAGTCTTAACCCCCTAAGCAATAGGGAAACAGGCTGGAA-
1 AGTAGTGGAGTGGATCGAAGACAGAGAGCCTTAACCCCCTAAGCAATAGGGAAACAGACT-GAAG
* *
17884746 ATCACAAATCTTATTTCCCTAAACAGTAGTGGAGTGGATCAAAAATGGTGAGCCTTAACCACC-T
65 ATCACAAATCTTATCTCCCTAAACAGTAGTGGAGTGGATCAAAAACGGTGAGCCTTAACC-CCTT
* * * * * * * *
17884810 AAGCAGTAGGGAA-ACAGGCTGGAAATTACAGATCTTATTTCCTTAAGCAGTAGTGGAGCAGATC
129 AAGCAGTA-GGAACACAAGCTGAAAATTACAGATCCTATCTCCCTAAACAATAGTGGAGCAGATA
* * * *
17884874 GAAGACGGTGAGCCTTATCCCCCTAAGCAATAGGGAAACATGCTGAAAAT
193 GAAGACGGTAAGCCTTACCCCCCTAAACAATAGGGAAACAGGCTGAAAAT
17884924 GATAGACCAC
Statistics
Matches: 211, Mismatches: 28, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
264 30 0.14
265 172 0.82
266 9 0.04
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.21
Consensus pattern (264 bp):
AGTAGTGGAGTGGATCGAAGACAGAGAGCCTTAACCCCCTAAGCAATAGGGAAACAGACTGAAGA
TCACAAATCTTATCTCCCTAAACAGTAGTGGAGTGGATCAAAAACGGTGAGCCTTAACCCCTTAA
GCAGTAGGAACACAAGCTGAAAATTACAGATCCTATCTCCCTAAACAATAGTGGAGCAGATAGAA
GACGGTAAGCCTTACCCCCCTAAACAATAGGGAAACAGGCTGAAAATTACAGATCCGATCTGCCT
AAAC
Found at i:17884993 original size:134 final size:135
Alignment explanation
Indices: 17884809--17885054 Score: 379
Period size: 134 Copynumber: 1.8 Consensus size: 135
17884799 CTTAACCACC
* * *
17884809 TAAGCAGTAGGGAAACAGGCTGGAAATTACAGATCTTATTTCCTTAAGCAGTAGTGGAGC-AGAT
1 TAAGCAGTAGGGAAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCGA-AT
* *
17884873 CGAAGACGGTGAGCCTTATCCCCCTAAGCAATAGGGAAACATGCTGAAAATGATAGACCACCTTA
65 CGAAGACAGTGAGCCTTATCCCCCTAAGCAATAGGGAAACAGGCTGAAAATGATAGACCACCTTA
17884938 TCCCCT
130 TCCCCT
* * * *
17884944 TAAGCAGTAGGG-AACGGGTTGAAAATTACAGATCTTATCTCCCTCAGCAGTAGTGGAGCGAATT
1 TAAGCAGTAGGGAAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCGAATC
*
17885008 GAAGACAGTGAGCCTTATCCCCCTAAGCAGTAGGGAAACAGGCTGAA
66 GAAGACAGTGAGCCTTATCCCCCTAAGCAATAGGGAAACAGGCTGAA
17885055 GATTACAAAT
Statistics
Matches: 100, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
134 87 0.87
135 13 0.13
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.22
Consensus pattern (135 bp):
TAAGCAGTAGGGAAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCGAATC
GAAGACAGTGAGCCTTATCCCCCTAAGCAATAGGGAAACAGGCTGAAAATGATAGACCACCTTAT
CCCCT
Found at i:17885055 original size:44 final size:43
Alignment explanation
Indices: 17884874--17885056 Score: 97
Period size: 44 Copynumber: 4.1 Consensus size: 43
17884864 GGAGCAGATC
* * *
17884874 GAAGACGGTGAGCCTTATCCCCCTAAGCAATAGGGAAACATGCT
1 GAAGACAGTGAGCCTTATCCCCCTAAGCAGTAGGG-AACAGGCT
* * * *
17884918 GAA-A-ATGATAGACCACCTTATCCCCTTAAGCAGTAGGGAACGGGTT
1 GAAGACA-G-T-GA--GCCTTATCCCCCTAAGCAGTAGGGAACAGGCT
* * * * * * **
17884964 GAA-A-ATTACAGATCTTATCTCCCTCAGCAGTAGTGGAGC-GAATT
1 GAAGACAGT-GAG-CCTTATCCCCCTAAGCAGTAG-GGAACAG-GCT
17885008 GAAGACAGTGAGCCTTATCCCCCTAAGCAGTAGGGAAACAGGCT
1 GAAGACAGTGAGCCTTATCCCCCTAAGCAGTAGGG-AACAGGCT
17885052 GAAGA
1 GAAGA
17885057 TTACAAATCA
Statistics
Matches: 103, Mismatches: 24, Indels: 24
0.68 0.16 0.16
Matches are distributed among these distances:
43 22 0.21
44 42 0.41
45 6 0.06
46 12 0.12
47 21 0.20
ACGTcount: A:0.33, C:0.22, G:0.25, T:0.20
Consensus pattern (43 bp):
GAAGACAGTGAGCCTTATCCCCCTAAGCAGTAGGGAACAGGCT
Found at i:17886672 original size:14 final size:15
Alignment explanation
Indices: 17886594--17886676 Score: 52
Period size: 14 Copynumber: 5.9 Consensus size: 15
17886584 GTATTGTTTG
*
17886594 TATATTATTTACTT-
1 TATATTATTTATTTA
*
17886608 TATATTATTTATCT-
1 TATATTATTTATTTA
* *
17886622 TA-A--ATTCATTTG
1 TATATTATTTATTTA
* * * *
17886634 TATATTGTTAAATAA
1 TATATTATTTATTTA
17886649 TATATTATTTATTTA
1 TATATTATTTATTTA
17886664 TAT-TTATTTATTT
1 TATATTATTTATTT
17886677 TTTTAAAAAA
Statistics
Matches: 52, Mismatches: 13, Indels: 8
0.71 0.18 0.11
Matches are distributed among these distances:
11 6 0.12
12 2 0.04
13 2 0.04
14 24 0.46
15 18 0.35
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (15 bp):
TATATTATTTATTTA
Found at i:17888060 original size:14 final size:14
Alignment explanation
Indices: 17888041--17888070 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
17888031 CTTAATTCAG
17888041 TAATAAAAATAAAA
1 TAATAAAAATAAAA
*
17888055 TAATAAAAATTAAA
1 TAATAAAAATAAAA
17888069 TA
1 TA
17888071 TTTTATAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (14 bp):
TAATAAAAATAAAA
Found at i:17889162 original size:25 final size:24
Alignment explanation
Indices: 17889126--17889172 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
17889116 TAACAATGAT
* *
17889126 AAATTTTAATTAAAATATAATTGA
1 AAATATTAATTAAAATAAAATTGA
*
17889150 AAATATTATATTATAATAAAATT
1 AAATATTA-ATTAAAATAAAATT
17889173 TAACTTAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 7 0.37
25 12 0.63
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (24 bp):
AAATATTAATTAAAATAAAATTGA
Found at i:17892006 original size:114 final size:114
Alignment explanation
Indices: 17891806--17892033 Score: 447
Period size: 114 Copynumber: 2.0 Consensus size: 114
17891796 GACTTAATTG
17891806 AACGTTCTAAATCTTTCAAATAAGGACCTAATCATTTAAATGACAAAATGTAAGGGACCAGATTT
1 AACGTTCTAAATCTTTCAAATAAGGACCTAATCATTTAAATGACAAAATGTAAGGGACCAGATTT
*
17891871 AGAATTTTCAATTATTCATTTCTGCCAAATGCTTAAGGCATTTCACTCT
66 AGAATTTTCAATTATTCATTTCTACCAAATGCTTAAGGCATTTCACTCT
17891920 AACGTTCTAAATCTTTCAAATAAGGACCTAATCATTTAAATGACAAAATGTAAGGGACCAGATTT
1 AACGTTCTAAATCTTTCAAATAAGGACCTAATCATTTAAATGACAAAATGTAAGGGACCAGATTT
17891985 AGAATTTTCAATTATTCATTTCTACCAAATGCTTAAGGCATTTCACTCT
66 AGAATTTTCAATTATTCATTTCTACCAAATGCTTAAGGCATTTCACTCT
17892034 GTAACACCCC
Statistics
Matches: 113, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
114 113 1.00
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.34
Consensus pattern (114 bp):
AACGTTCTAAATCTTTCAAATAAGGACCTAATCATTTAAATGACAAAATGTAAGGGACCAGATTT
AGAATTTTCAATTATTCATTTCTACCAAATGCTTAAGGCATTTCACTCT
Found at i:17892486 original size:22 final size:21
Alignment explanation
Indices: 17892458--17892520 Score: 69
Period size: 20 Copynumber: 3.0 Consensus size: 21
17892448 CTTGAGGATA
17892458 GGGACACATGTCCGTGTGGCCT
1 GGGACACATG-CCGTGTGGCCT
* *
17892480 GGGACACA-CCCGTATGGCCT
1 GGGACACATGCCGTGTGGCCT
17892500 -GGA-ACATGCCAGTGTGGCCT
1 GGGACACATGCC-GTGTGGCCT
17892520 G
1 G
17892521 CCCATGTGCA
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
18 3 0.09
19 5 0.15
20 18 0.53
22 8 0.24
ACGTcount: A:0.17, C:0.29, G:0.35, T:0.19
Consensus pattern (21 bp):
GGGACACATGCCGTGTGGCCT
Found at i:17893391 original size:54 final size:52
Alignment explanation
Indices: 17893317--17893451 Score: 164
Period size: 52 Copynumber: 2.6 Consensus size: 52
17893307 ATAACATACT
* * * **
17893317 GATGTCATATCCCAGATATGGTCTTATAC-GGAATCATATTATCACATTCACACC
1 GATGCCATAGCCCAGCTATGGTCTTATACGGGAA-C-TAGAATCACATT-ACACC
* **
17893371 GATGCCATAGCCCAGCTATGGTCTTATACGGGAACTAGAATCATATTGTACC
1 GATGCCATAGCCCAGCTATGGTCTTATACGGGAACTAGAATCACATTACACC
17893423 GATGCCATAGCCCAGCTATGGTCTTATAC
1 GATGCCATAGCCCAGCTATGGTCTTATAC
17893452 AGAAATACAT
Statistics
Matches: 72, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
52 32 0.44
53 9 0.12
54 27 0.38
55 4 0.06
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (52 bp):
GATGCCATAGCCCAGCTATGGTCTTATACGGGAACTAGAATCACATTACACC
Found at i:17899012 original size:5 final size:5
Alignment explanation
Indices: 17899002--17899045 Score: 54
Period size: 5 Copynumber: 8.6 Consensus size: 5
17898992 GTGTAATTAA
*
17899002 TTTTC TTTTC TTTTC TTTT- TTTGTC GTTTC TTTTC TTCTTC TTT
1 TTTTC TTTTC TTTTC TTTTC TTT-TC TTTTC TTTTC TT-TTC TTT
17899046 CTTCTTCCTC
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
4 3 0.09
5 24 0.71
6 7 0.21
ACGTcount: A:0.00, C:0.18, G:0.05, T:0.77
Consensus pattern (5 bp):
TTTTC
Found at i:17899403 original size:21 final size:22
Alignment explanation
Indices: 17899368--17899410 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
17899358 GAACTAGGCG
*
17899368 TTAACTCGGAAAAAGTCTCAAA
1 TTAACTCGAAAAAAGTCTCAAA
17899390 TTAACTC-AAAAAAGTCTCAAA
1 TTAACTCGAAAAAAGTCTCAAA
17899411 AGCACAAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.49, C:0.19, G:0.09, T:0.23
Consensus pattern (22 bp):
TTAACTCGAAAAAAGTCTCAAA
Found at i:17902373 original size:6 final size:6
Alignment explanation
Indices: 17902362--17902394 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
17902352 GCCATATGGT
17902362 AAAATA AAAATA AAAATA AAAATA AAAATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAA
17902395 TATATTTTGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:17903313 original size:48 final size:48
Alignment explanation
Indices: 17903258--17903402 Score: 220
Period size: 48 Copynumber: 3.0 Consensus size: 48
17903248 GTCAACAATT
* * *
17903258 ATACATAACATTTAACACATATAGAGTCATATTAACTTACTCTTTTCA
1 ATACATAACATATATCACATACAGAGTCATATTAACTTACTCTTTTCA
*
17903306 ATACATAACATATATCACAAACAGAGTCATATTAACTTACT-TTTTGCA
1 ATACATAACATATATCACATACAGAGTCATATTAACTTACTCTTTT-CA
* *
17903354 ATGCATAACATATATCACATACAAAGTCATATTAACTTACTCTTTTCA
1 ATACATAACATATATCACATACAGAGTCATATTAACTTACTCTTTTCA
17903402 A
1 A
17903403 ATCTTTCTTT
Statistics
Matches: 88, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
47 4 0.05
48 80 0.91
49 4 0.05
ACGTcount: A:0.41, C:0.19, G:0.05, T:0.35
Consensus pattern (48 bp):
ATACATAACATATATCACATACAGAGTCATATTAACTTACTCTTTTCA
Found at i:17904440 original size:7 final size:8
Alignment explanation
Indices: 17904412--17904440 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
17904402 GCAATTGGGT
17904412 CCACAATC
1 CCACAATC
17904420 CCACAATC
1 CCACAATC
17904428 CCACAAT-
1 CCACAATC
17904435 CCACAA
1 CCACAA
17904441 CTGGCATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 6 0.29
8 15 0.71
ACGTcount: A:0.41, C:0.48, G:0.00, T:0.10
Consensus pattern (8 bp):
CCACAATC
Found at i:17912181 original size:16 final size:14
Alignment explanation
Indices: 17912160--17912193 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 14
17912150 AAACTTTTTT
17912160 TTATAAATGTTATATA
1 TTATAAAT-TT-TATA
17912176 TTATAAATTTTATA
1 TTATAAATTTTATA
17912190 TTAT
1 TTAT
17912194 TTTTAACATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.44
15 2 0.11
16 8 0.44
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (14 bp):
TTATAAATTTTATA
Found at i:17913631 original size:29 final size:28
Alignment explanation
Indices: 17913598--17913732 Score: 144
Period size: 28 Copynumber: 4.8 Consensus size: 28
17913588 AGTCCATATT
* *
17913598 GACTATCTTTCAAGCAATAGTAGTGCATG
1 GACTATCTTTCAAGCAAGAGT-CTGCATG
* * *
17913627 GACTATCATTCAAGCAAGAGTCCGCAGG
1 GACTATCTTTCAAGCAAGAGTCTGCATG
*
17913655 GACTATATTTCAAGCAAGAGTCTGCATG
1 GACTATCTTTCAAGCAAGAGTCTGCATG
* * * **
17913683 GACCAACTTTCAAGAAAGAGTCCACATG
1 GACTATCTTTCAAGCAAGAGTCTGCATG
* *
17913711 GACCAACTTTCAAGCAAGAGTC
1 GACTATCTTTCAAGCAAGAGTC
17913733 CATATGGAGC
Statistics
Matches: 90, Mismatches: 16, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
28 71 0.79
29 19 0.21
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.23
Consensus pattern (28 bp):
GACTATCTTTCAAGCAAGAGTCTGCATG
Found at i:17913756 original size:17 final size:17
Alignment explanation
Indices: 17913723--17913757 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
17913713 CCAACTTTCA
*
17913723 AGCAAGAGTCCATATGG
1 AGCAAGAGTCCACATGG
*
17913740 AGCAAGAGTCTACATGG
1 AGCAAGAGTCCACATGG
17913757 A
1 A
17913758 CTAACTTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.37, C:0.17, G:0.29, T:0.17
Consensus pattern (17 bp):
AGCAAGAGTCCACATGG
Found at i:17913787 original size:28 final size:28
Alignment explanation
Indices: 17913756--17913830 Score: 105
Period size: 28 Copynumber: 2.7 Consensus size: 28
17913746 AGTCTACATG
*
17913756 GACTAACTTTTAAGCAAGAGTTCGCATA
1 GACTAACTTTCAAGCAAGAGTTCGCATA
* * *
17913784 GACTACCTTTCAAGCAAGAGTTTGCATG
1 GACTAACTTTCAAGCAAGAGTTCGCATA
*
17913812 GACTATCTTTCAAGCAAGA
1 GACTAACTTTCAAGCAAGA
17913831 ATCTACAGGA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (28 bp):
GACTAACTTTCAAGCAAGAGTTCGCATA
Found at i:17913794 original size:73 final size:73
Alignment explanation
Indices: 17913667--17913804 Score: 195
Period size: 73 Copynumber: 1.9 Consensus size: 73
17913657 CTATATTTCA
* *
17913667 AGCAAGAGTCTGCATGGACCAACTTTCAAGAAAGAGTCCACATGGACCAACTTTCAAGCAAGAGT
1 AGCAAGAGTCTACATGGACCAACTTTCAAGAAAGAGTCCACATAGACCAACTTTCAAGCAAGAGT
17913732 CCATATGG
66 CCATATGG
* * * * * * *
17913740 AGCAAGAGTCTACATGGACTAACTTTTAAGCAAGAGTTCGCATAGACTACCTTTCAAGCAAGAGT
1 AGCAAGAGTCTACATGGACCAACTTTCAAGAAAGAGTCCACATAGACCAACTTTCAAGCAAGAGT
17913805 TTGCATGGAC
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
73 56 1.00
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.22
Consensus pattern (73 bp):
AGCAAGAGTCTACATGGACCAACTTTCAAGAAAGAGTCCACATAGACCAACTTTCAAGCAAGAGT
CCATATGG
Found at i:17913814 original size:101 final size:101
Alignment explanation
Indices: 17913639--17913830 Score: 235
Period size: 101 Copynumber: 1.9 Consensus size: 101
17913629 CTATCATTCA
* *
17913639 AGCAAGAGTCCGCAGGGACTATATTTCAAGCAAGAGTCTGCATGGACCAACTTTCAAGAAAGAGT
1 AGCAAGAGTCCACAGGGACTATATTTCAAGCAAGAGTCTGCATAGACCAACTTTCAAGAAAGAGT
17913704 CCACATGGACCAACTTTCAAGCAAGAGTCCATATGG
66 CCACATGGACCAACTTTCAAGCAAGAGTCCATATGG
* * * * * *
17913740 AGCAAGAGTCTACATGGACTA-ACTTTTAAGCAAGAGT-TCGCATAGACTACCTTTCAAGCAAGA
1 AGCAAGAGTCCACAGGGACTATA-TTTCAAGCAAGAGTCT-GCATAGACCAACTTTCAAGAAAGA
*** * *
17913803 GTTTGCATGGACTATCTTTCAAGCAAGA
64 GTCCACATGGACCAACTTTCAAGCAAGA
17913831 ATCTACAGGA
Statistics
Matches: 76, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
100 2 0.03
101 74 0.97
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.23
Consensus pattern (101 bp):
AGCAAGAGTCCACAGGGACTATATTTCAAGCAAGAGTCTGCATAGACCAACTTTCAAGAAAGAGT
CCACATGGACCAACTTTCAAGCAAGAGTCCATATGG
Found at i:17913844 original size:28 final size:28
Alignment explanation
Indices: 17913740--17913837 Score: 90
Period size: 28 Copynumber: 3.5 Consensus size: 28
17913730 GTCCATATGG
* * *
17913740 AGCAAGAGTCTACATGGACTAACTTTTA
1 AGCAAGAATCTACATGGACTACCTTTCA
* * *
17913768 AGCAAGAGT-TCGCATAGACTACCTTTCA
1 AGCAAGAATCT-ACATGGACTACCTTTCA
* * * *
17913796 AGCAAGAGTTTGCATGGACTATCTTTCA
1 AGCAAGAATCTACATGGACTACCTTTCA
17913824 AGCAAGAATCTACA
1 AGCAAGAATCTACA
17913838 GGAACTAACT
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
27 1 0.02
28 57 0.97
29 1 0.02
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (28 bp):
AGCAAGAATCTACATGGACTACCTTTCA
Found at i:17913964 original size:28 final size:28
Alignment explanation
Indices: 17913933--17913988 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
17913923 CATGCACAAT
**
17913933 TCCACATCTATTAACTTGCATGTATGAA
1 TCCACATCTACGAACTTGCATGTATGAA
*
17913961 TCCATATCTACGAACTTGCATGTATGAA
1 TCCACATCTACGAACTTGCATGTATGAA
17913989 ATCAATACAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.32, C:0.21, G:0.12, T:0.34
Consensus pattern (28 bp):
TCCACATCTACGAACTTGCATGTATGAA
Found at i:17914265 original size:46 final size:46
Alignment explanation
Indices: 17914205--17914296 Score: 166
Period size: 46 Copynumber: 2.0 Consensus size: 46
17914195 CATAATAATT
*
17914205 TCATGATTGGGTGTGTCATATTAAAAACTCACTAAGTTAATTTTAA
1 TCATGATTGAGTGTGTCATATTAAAAACTCACTAAGTTAATTTTAA
*
17914251 TCATGATTGAGTGTGTTATATTAAAAACTCACTAAGTTAATTTTAA
1 TCATGATTGAGTGTGTCATATTAAAAACTCACTAAGTTAATTTTAA
17914297 CTTAGATTCT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.36, C:0.10, G:0.14, T:0.40
Consensus pattern (46 bp):
TCATGATTGAGTGTGTCATATTAAAAACTCACTAAGTTAATTTTAA
Found at i:17915422 original size:16 final size:16
Alignment explanation
Indices: 17915401--17915431 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17915391 GAGAATTCTT
17915401 TGTAATTACAAGAAAG
1 TGTAATTACAAGAAAG
*
17915417 TGTAATTACTAGAAA
1 TGTAATTACAAGAAA
17915432 AATTTTATCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.06, G:0.16, T:0.29
Consensus pattern (16 bp):
TGTAATTACAAGAAAG
Found at i:17918082 original size:3 final size:3
Alignment explanation
Indices: 17918074--17918102 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
17918064 GTTTTATTCT
17918074 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
17918103 TTTTCCATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:17922641 original size:24 final size:24
Alignment explanation
Indices: 17922595--17922681 Score: 61
Period size: 24 Copynumber: 3.6 Consensus size: 24
17922585 ATTCTTAAGG
* * * *
17922595 ATAAGAATAGATAAGTAAGAGAAA
1 ATAAGAAAAGAAAAGAAAAAGAAA
17922619 ATAAGAAAAGAAAAGAAAAAGAAA
1 ATAAGAAAAGAAAAGAAAAAGAAA
* **
17922643 GA-AAAAAAATTAAAGAAAATGAGAAA
1 -ATAAGAAAAGAAAAGAAAA--AGAAA
*
17922669 AT-ATAAAAGAAAA
1 ATAAGAAAAGAAAA
17922682 AAGAATTAGA
Statistics
Matches: 49, Mismatches: 10, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
24 34 0.69
25 10 0.20
26 5 0.10
ACGTcount: A:0.72, C:0.00, G:0.16, T:0.11
Consensus pattern (24 bp):
ATAAGAAAAGAAAAGAAAAAGAAA
Found at i:17922686 original size:19 final size:18
Alignment explanation
Indices: 17922624--17922686 Score: 58
Period size: 18 Copynumber: 3.4 Consensus size: 18
17922614 AGAAAATAAG
17922624 AAAAGAAAAGA-AAAAGAA
1 AAAAGAAAA-ATAAAAGAA
*
17922642 AGAAA-AAAAATTAAAGAA
1 A-AAAGAAAAATAAAAGAA
*
17922660 AATGAGAAAATATAAAAGAA
1 AA-AAGAAAA-ATAAAAGAA
17922680 AAAAGAA
1 AAAAGAA
17922687 TTAGATTAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 9
0.73 0.08 0.18
Matches are distributed among these distances:
17 2 0.06
18 13 0.36
19 11 0.31
20 10 0.28
ACGTcount: A:0.78, C:0.00, G:0.14, T:0.08
Consensus pattern (18 bp):
AAAAGAAAAATAAAAGAA
Found at i:17922807 original size:22 final size:22
Alignment explanation
Indices: 17922760--17922809 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
17922750 TCAATTTTTT
* * *
17922760 AAAAAATTAATAGGAATAAAAG
1 AAAAAATAAATAGGAAAAAAAA
17922782 AAAAAATAAAT-GGAAAAGAAAA
1 AAAAAATAAATAGGAAAA-AAAA
17922804 AAAAAA
1 AAAAAA
17922810 GGAGAGCCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 5 0.21
22 19 0.79
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (22 bp):
AAAAAATAAATAGGAAAAAAAA
Found at i:17927413 original size:26 final size:26
Alignment explanation
Indices: 17927382--17927446 Score: 112
Period size: 26 Copynumber: 2.5 Consensus size: 26
17927372 ACAGCTCTTA
*
17927382 TGAGCTTCCCGATTAAAGGCTCTTTG
1 TGAGCTTCTCGATTAAAGGCTCTTTG
17927408 TGAGCTTCTCGATTAAAGGCTCTTTG
1 TGAGCTTCTCGATTAAAGGCTCTTTG
*
17927434 TAAGCTTCTCGAT
1 TGAGCTTCTCGAT
17927447 ATGGCTCGAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.37
Consensus pattern (26 bp):
TGAGCTTCTCGATTAAAGGCTCTTTG
Found at i:17927512 original size:25 final size:25
Alignment explanation
Indices: 17927375--17927512 Score: 88
Period size: 26 Copynumber: 5.5 Consensus size: 25
17927365 ACACACCACA
* *
17927375 GCTCTTAT-GAGCTTCCCGATTAAAG
1 GCTCTT-TGGAGCTTCTCGATTAATG
*
17927400 GCTCTTTGTGAGCTTCTCGATTAAAG
1 GCTCTTTG-GAGCTTCTCGATTAATG
*
17927426 GCTCTTTGTAAGCTTCTCGA-T-ATG
1 GCTCTTTG-GAGCTTCTCGATTAATG
* * *
17927450 GCTCGATT-GAACTTCTTGA-TATATG
1 GCTC-TTTGGAGCTTCTCGATTA-ATG
* * * * *
17927475 GCTATCTGAAGCTTTTTGATTAATG
1 GCTCTTTGGAGCTTCTCGATTAATG
17927500 GCTCTTTGGAGCT
1 GCTCTTTGGAGCT
17927513 ACCTGTTATT
Statistics
Matches: 90, Mismatches: 16, Indels: 14
0.75 0.13 0.12
Matches are distributed among these distances:
23 9 0.10
24 8 0.09
25 36 0.40
26 37 0.41
ACGTcount: A:0.20, C:0.19, G:0.22, T:0.39
Consensus pattern (25 bp):
GCTCTTTGGAGCTTCTCGATTAATG
Found at i:17927788 original size:2 final size:2
Alignment explanation
Indices: 17927781--17927812 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
17927771 TCATTACCTG
17927781 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
17927813 ATACATGGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:17930473 original size:24 final size:24
Alignment explanation
Indices: 17930382--17930495 Score: 94
Period size: 22 Copynumber: 4.9 Consensus size: 24
17930372 ACATCTCGTA
* *
17930382 AGAGCTTAGTG-TTTCAGCTCACT
1 AGAGCTTACTGTTTTCAGCTCAAT
* * * * *
17930405 GGAG-TTATTG-ATTCAGCTAAAA
1 AGAGCTTACTGTTTTCAGCTCAAT
*
17930427 AAAGCTTACTG--TTCAGCTCAAT
1 AGAGCTTACTGTTTTCAGCTCAAT
*
17930449 AGAGCTTACTGTTTTCAGCTTAAT
1 AGAGCTTACTGTTTTCAGCTCAAT
*
17930473 AGAGCTTACTATTTATCAGCTCA
1 AGAGCTTACTGTTT-TCAGCTCA
17930496 GGAGGAGCTT
Statistics
Matches: 72, Mismatches: 15, Indels: 6
0.77 0.16 0.06
Matches are distributed among these distances:
22 34 0.47
23 8 0.11
24 23 0.32
25 7 0.10
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (24 bp):
AGAGCTTACTGTTTTCAGCTCAAT
Found at i:17938601 original size:26 final size:26
Alignment explanation
Indices: 17938572--17938655 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
17938562 TGGTACAAAT
* *
17938572 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
17938598 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
17938624 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
17938650 TGATAA
1 TGATAA
17938656 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Done.