Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 48 of 345
Found at i:14284221 original size:120 final size:120
Alignment explanation
Indices: 14283841--14284583 Score: 1323
Period size: 120 Copynumber: 6.2 Consensus size: 120
14283831 ATCATATTTA
*
14283841 AACATAATTATTATTGAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
14283906 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
* *
14283961 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGA-T
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAA-T-AATT
*
14284025 AATATTCTTATATTAATTTACTGAAATCATAATATATAATACTGTAAAATATAAATT
64 AATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
14284082 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
14284147 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
*
14284202 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAA-AAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
14284266 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
* *
14284321 AACATAATTATTATTAAATATATTTTAATT-AAATATATAATTTAATGAAATTCTTAATTGGA-T
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAA-T-AATT
14284384 AATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
64 AATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
* *
14284441 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
14284506 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
14284561 AACATAATTATTATTAAATATAT
1 AACATAATTATTATTAAATATAT
14284584 AACTTGAAAA
Statistics
Matches: 597, Mismatches: 18, Indels: 16
0.95 0.03 0.03
Matches are distributed among these distances:
118 14 0.02
119 114 0.19
120 328 0.55
121 140 0.23
122 1 0.00
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.44
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:14284371 original size:17 final size:17
Alignment explanation
Indices: 14284338--14284371 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
14284328 TTATTATTAA
* *
14284338 ATATATTTTAATTAAAT
1 ATATAATTTAATGAAAT
14284355 ATATAATTTAATGAAAT
1 ATATAATTTAATGAAAT
14284372 TCTTAATTGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (17 bp):
ATATAATTTAATGAAAT
Found at i:14284442 original size:239 final size:239
Alignment explanation
Indices: 14283841--14284583 Score: 1339
Period size: 239 Copynumber: 3.1 Consensus size: 239
14283831 ATCATATTTA
*
14283841 AACATAATTATTATTGAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
14283906 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
* * *
14283971 TTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGA-TAATATTCTTA
131 TTATTAAATATATTTTAATTAAACTATATAATTTAA-AAAATTCTTAA-T-AATTAATATTCTTA
* *
14284035 TATTAATTTACTGAAATCATAATATATAATACTGTAAAATATAAATT
193 TATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
14284082 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
14284147 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
14284212 TTATTAAATATATTTTAATTAAACTATATAATTTAAAAAATTCTTAATAATTAATATTCTTATAT
131 TTATTAAATATATTTTAATTAAACTATATAATTTAAAAAATTCTTAATAATTAATATTCTTATAT
14284277 TAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
196 TAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
* *
14284321 AACATAATTATTATTAAATATATTTTAATT-AAATATATAATTTAATGAAATTCTTAATTGGA-T
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAA-T-AATT
14284384 AATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAACATAAT
64 AATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAACATAAT
14284449 TATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTA
129 TATTATTAAATATATTTTAATTAAACTATATAATTT-AAAAAATTCTTAATAATTAATATTCTTA
14284514 TATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
193 TATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
14284561 AACATAATTATTATTAAATATAT
1 AACATAATTATTATTAAATATAT
14284584 AACTTGAAAA
Statistics
Matches: 490, Mismatches: 8, Indels: 9
0.97 0.02 0.02
Matches are distributed among these distances:
238 27 0.06
239 190 0.39
240 109 0.22
241 164 0.33
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.44
Consensus pattern (239 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
TTATTAAATATATTTTAATTAAACTATATAATTTAAAAAATTCTTAATAATTAATATTCTTATAT
TAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:14284502 original size:359 final size:361
Alignment explanation
Indices: 14283841--14284583 Score: 1409
Period size: 359 Copynumber: 2.1 Consensus size: 361
14283831 ATCATATTTA
*
14283841 AACATAATTATTATTGAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
14283906 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
14283971 TTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATAATATTCTTAT
131 TTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATAATATTCTTAT
14284036 ATTAATTTACTGAAATCATAATATATAATACTGTAAAATATAAATTAACATAATTATTATTAAAT
196 ATTAATTTACTGAAATCATAATATATAATACTGTAAAATATAAATTAACATAATTATTATTAAAT
*
14284101 ATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATTAATTTAC
261 ATATTTTAATTAAAATATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATATTAATTTAC
*
14284166 TGAAATCATAATATATGATACTGTAAAATATAAATT
326 TCAAATCATAATATATGATACTGTAAAATATAAATT
*
14284202 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAA-AAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
14284266 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
14284331 TTATTAAATATATTTTAATT-AAATATATAATTTAATGAAATTCTTAATTGGATAATATTCTTAT
131 TTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATAATATTCTTAT
*
14284395 ATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAAT
196 ATTAATTTACTGAAATCATAATATATAATACTGTAAAATATAAATTAACATAATTATTATTAAAT
*
14284460 ATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATATTAATTTAC
261 ATATTTTAATTAAAATATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATATTAATTTAC
14284525 TCAAATCATAATATATGATACTGTAAAATATAAATT
326 TCAAATCATAATATATGATACTGTAAAATATAAATT
14284561 AACATAATTATTATTAAATATAT
1 AACATAATTATTATTAAATATAT
14284584 AACTTGAAAA
Statistics
Matches: 375, Mismatches: 7, Indels: 2
0.98 0.02 0.01
Matches are distributed among these distances:
359 229 0.61
360 102 0.27
361 44 0.12
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.44
Consensus pattern (361 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
TTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATAATATTCTTAT
ATTAATTTACTGAAATCATAATATATAATACTGTAAAATATAAATTAACATAATTATTATTAAAT
ATATTTTAATTAAAATATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATATTAATTTAC
TCAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:14289450 original size:40 final size:40
Alignment explanation
Indices: 14289395--14289742 Score: 599
Period size: 40 Copynumber: 8.7 Consensus size: 40
14289385 GAGCATTGGA
14289395 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
14289435 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
14289475 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
14289515 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
14289555 ATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGATTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAG-TTG
14289596 ATATATCCGGGCTAAGACCCGAAGGCAATTATGC-AGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
14289635 ATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
14289675 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
14289715 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
14289743 ATGTTTGCGG
Statistics
Matches: 291, Mismatches: 15, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
39 35 0.12
40 222 0.76
41 34 0.12
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:14298372 original size:40 final size:40
Alignment explanation
Indices: 14298317--14298664 Score: 597
Period size: 40 Copynumber: 8.7 Consensus size: 40
14298307 GAGCATTGGA
14298317 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
14298357 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
14298397 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
14298437 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
14298477 ATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
14298517 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
14298557 ATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
14298597 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
14298637 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
14298665 AGGTGTTTGC
Statistics
Matches: 289, Mismatches: 19, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 289 1.00
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:14300675 original size:33 final size:33
Alignment explanation
Indices: 14300636--14300711 Score: 143
Period size: 33 Copynumber: 2.3 Consensus size: 33
14300626 ATTATAAAGC
*
14300636 ATGTATAATTGACCTAAAATTAATTGTTGGTGT
1 ATGTATAATTGACCTAAAATTAATTGTTGGTAT
14300669 ATGTATAATTGACCTAAAATTAATTGTTGGTAT
1 ATGTATAATTGACCTAAAATTAATTGTTGGTAT
14300702 ATGTATAATT
1 ATGTATAATT
14300712 CAAGTTTTAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.36, C:0.05, G:0.16, T:0.43
Consensus pattern (33 bp):
ATGTATAATTGACCTAAAATTAATTGTTGGTAT
Found at i:14300809 original size:37 final size:37
Alignment explanation
Indices: 14300754--14300835 Score: 128
Period size: 37 Copynumber: 2.2 Consensus size: 37
14300744 GTATAAATAT
* * *
14300754 ATTGATTAGTTCATTAAAGCATGTTCAAAGTTTTAGC
1 ATTGATTAGTTCAATAAAGCATGTTCAAAGTTTGAAC
*
14300791 ATTGATTAGTTTAATAAAGCATGTTCAAAGTTTGAAC
1 ATTGATTAGTTCAATAAAGCATGTTCAAAGTTTGAAC
14300828 ATTGATTA
1 ATTGATTA
14300836 ATAAATATTT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.35, C:0.09, G:0.16, T:0.40
Consensus pattern (37 bp):
ATTGATTAGTTCAATAAAGCATGTTCAAAGTTTGAAC
Found at i:14310914 original size:28 final size:28
Alignment explanation
Indices: 14310874--14310952 Score: 131
Period size: 28 Copynumber: 2.8 Consensus size: 28
14310864 TTTATTCAGT
* *
14310874 AAAACTCCTATTTTATTGGGATTGAATC
1 AAAACTCCCATTTTATTGGGATTGAATA
*
14310902 AAAACTCCCATTTTATGGGGATTGAATA
1 AAAACTCCCATTTTATTGGGATTGAATA
14310930 AAAACTCCCATTTTATTGGGATT
1 AAAACTCCCATTTTATTGGGATT
14310953 CATGATTGTT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 47 1.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (28 bp):
AAAACTCCCATTTTATTGGGATTGAATA
Found at i:14312595 original size:16 final size:16
Alignment explanation
Indices: 14312574--14312611 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
14312564 GTTCTTTCCA
14312574 ATGAAGACATAATATC
1 ATGAAGACATAATATC
14312590 ATGAAGACATAATATC
1 ATGAAGACATAATATC
14312606 ATGAAG
1 ATGAAG
14312612 TAGGCATTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.50, C:0.11, G:0.16, T:0.24
Consensus pattern (16 bp):
ATGAAGACATAATATC
Found at i:14313206 original size:39 final size:33
Alignment explanation
Indices: 14313133--14313198 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
14313123 CGAGAGTAAG
14313133 AACAACTAACTCTAGATTGATTAATTGAAATCT
1 AACAACTAACTCTAGATTGATTAATTGAAATCT
*
14313166 AACAACTGACTCTAGATTGATTAATTGAAATCT
1 AACAACTAACTCTAGATTGATTAATTGAAATCT
14313199 CTTTCTAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.33
Consensus pattern (33 bp):
AACAACTAACTCTAGATTGATTAATTGAAATCT
Found at i:14316136 original size:51 final size:49
Alignment explanation
Indices: 14316013--14316158 Score: 175
Period size: 51 Copynumber: 2.9 Consensus size: 49
14316003 TAGCCCAAGC
* * *
14316013 TATCTGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCAAT
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* * * *
14316062 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGT
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGA-C-CAAT
* * * *
14316113 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTATACATGCGACC
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACC
14316159 TCACAATAGA
Statistics
Matches: 81, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
49 39 0.48
50 2 0.02
51 40 0.49
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (49 bp):
TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
Found at i:14320454 original size:3 final size:3
Alignment explanation
Indices: 14320448--14320493 Score: 53
Period size: 3 Copynumber: 15.7 Consensus size: 3
14320438 ACTTTTAAAA
14320448 AAT AAT AAT AA- AGAT AA- AGA- AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT A-AT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
14320492 AA
1 AA
14320494 AATGGAAAGG
Statistics
Matches: 39, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
2 3 0.08
3 35 0.90
4 1 0.03
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:14333010 original size:46 final size:46
Alignment explanation
Indices: 14332960--14333132 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
14332950 TGGTTGAGCA
* *
14332960 TCCGAGCTCGTTGATTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
14333006 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
14333051 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
14333099 CCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
14333133 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 14, Indels: 18
0.76 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 58 0.56
47 29 0.28
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:14333116 original size:93 final size:93
Alignment explanation
Indices: 14332957--14333127 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
14332947 GGATGGTTGA
* * * *
14332957 GCATCCGAGCTCGTTGATTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
14333022 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
14333050 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTTGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
14333115 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
14333128 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:14335409 original size:13 final size:13
Alignment explanation
Indices: 14335391--14335427 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
14335381 CCCCATATAT
14335391 AGATACAGATAAC
1 AGATACAGATAAC
14335404 AGATACAGATAAC
1 AGATACAGATAAC
*
14335417 AGATGCAGATA
1 AGATACAGATA
14335428 TACATCGCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.51, C:0.14, G:0.19, T:0.16
Consensus pattern (13 bp):
AGATACAGATAAC
Found at i:14339576 original size:6 final size:6
Alignment explanation
Indices: 14339565--14339615 Score: 57
Period size: 6 Copynumber: 8.5 Consensus size: 6
14339555 AAAAACTTAA
* * * * *
14339565 AAAAAT AAAAAT AAAAGT AGAAAG AAAAAT AAAAAT AAAGAT AAAATT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
14339613 AAA
1 AAA
14339616 TTAAGCATCA
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:14343792 original size:14 final size:14
Alignment explanation
Indices: 14343773--14343809 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
14343763 TCAAAACAAG
14343773 AATTAAGAACACAT
1 AATTAAGAACACAT
14343787 AATTAAGAACACAT
1 AATTAAGAACACAT
14343801 AATTAAGAA
1 AATTAAGAA
14343810 TAAGTTAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.59, C:0.11, G:0.08, T:0.22
Consensus pattern (14 bp):
AATTAAGAACACAT
Found at i:14344190 original size:13 final size:13
Alignment explanation
Indices: 14344172--14344210 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
14344162 GCTCGGTAGG
14344172 GACACGCCCGTGT
1 GACACGCCCGTGT
14344185 GACACGCCCGTGT
1 GACACGCCCGTGT
14344198 GACACGCCCGTGT
1 GACACGCCCGTGT
14344211 ACGAGTACTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.15, C:0.38, G:0.31, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:14345540 original size:42 final size:43
Alignment explanation
Indices: 14345459--14345612 Score: 115
Period size: 43 Copynumber: 3.6 Consensus size: 43
14345449 TCCCAGACGT
* * *
14345459 GGTCTTATATGTAATCAAATATCGATGGCACTGTCCCAGATAG
1 GGTCTTACATGAAATCAAATATCGATGCCACTGTCCCAGATAG
*
14345502 GGTCTTACATGAAATCAAATA-CGATGCCGA-TGTCCCAGA-ATT
1 GGTCTTACATGAAATCAAATATCGATGCC-ACTGTCCCAGATA-G
* * *
14345544 GGTCTTGCACGTAAATCTCAAAT-T-GATGCCAAC-GTCCCAGA-CG
1 GGTCTTACATG-AAA--TCAAATATCGATGCC-ACTGTCCCAGATAG
* *
14345587 TGGTTTTACATGAAATCACATATCGA
1 -GGTCTTACATGAAATCAAATATCGA
14345613 AAATCTTATG
Statistics
Matches: 88, Mismatches: 13, Indels: 20
0.73 0.11 0.17
Matches are distributed among these distances:
41 6 0.07
42 25 0.28
43 28 0.32
44 23 0.26
45 6 0.07
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.28
Consensus pattern (43 bp):
GGTCTTACATGAAATCAAATATCGATGCCACTGTCCCAGATAG
Found at i:14345560 original size:43 final size:43
Alignment explanation
Indices: 14345471--14345612 Score: 100
Period size: 42 Copynumber: 3.3 Consensus size: 43
14345461 TCTTATATGT
* *
14345471 AATCAAATATCGATGGCACTGTCCCAGATAGGGTCTTACATGA
1 AATCAAATATCGATGCCACTGTCCCAGATAGGGTCTTACACGA
* *
14345514 AATCAAATA-CGATGCCGA-TGTCCCAGA-ATTGGTCTTGCACGTA
1 AATCAAATATCGATGCC-ACTGTCCCAGATA-GGGTCTTACACG-A
* * *
14345557 AATCTCAAAT-T-GATGCCAAC-GTCCCAGA-CGTGGTTTTACATGA
1 AA--TCAAATATCGATGCC-ACTGTCCCAGATAG-GGTCTTACACGA
*
14345600 AATCACATATCGA
1 AATCAAATATCGA
14345613 AAATCTTATG
Statistics
Matches: 78, Mismatches: 11, Indels: 20
0.72 0.10 0.18
Matches are distributed among these distances:
41 6 0.08
42 25 0.32
43 18 0.23
44 23 0.29
45 6 0.08
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (43 bp):
AATCAAATATCGATGCCACTGTCCCAGATAGGGTCTTACACGA
Found at i:14353119 original size:42 final size:42
Alignment explanation
Indices: 14353031--14353133 Score: 120
Period size: 42 Copynumber: 2.4 Consensus size: 42
14353021 CAATGCCAAC
* * * * *
14353031 TCCCAGACTGGTCTTACATGTAATCAAATATCGATGGCACTT
1 TCCCAGACAGGTCTTACATGAAATCAAATATAGATGCCACTG
14353073 TCCCAGACAGGATCTTACATGAAATCAAATA-AGATGCCGA-TG
1 TCCCAGACAGG-TCTTACATGAAATCAAATATAGATGCC-ACTG
14353115 TCCCAGACATGGTCTTACA
1 TCCCAGACA-GGTCTTACA
14353134 CGTAACTCTA
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
42 32 0.60
43 21 0.40
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.26
Consensus pattern (42 bp):
TCCCAGACAGGTCTTACATGAAATCAAATATAGATGCCACTG
Found at i:14354470 original size:42 final size:42
Alignment explanation
Indices: 14354362--14354470 Score: 107
Period size: 43 Copynumber: 2.6 Consensus size: 42
14354352 GTCTGAGACA
* *
14354362 TTGTGTAAGACCGTGTCTGGGAC-ACAGGCCTCGATTGAGATT
1 TTGTGTAAGACCATGTCTGGGACAACAGGCATCGATT-AGATT
* * *
14354404 TACGTATAAGACCATGTCTAGGACAACA-GCATCGTATCT-GATT
1 T-TGTGTAAGACCATGTCTGGGACAACAGGCATCG-AT-TAGATT
*
14354447 TTGTGTAAGACCCTGTCTGGGACA
1 TTGTGTAAGACCATGTCTGGGACA
14354471 GAGGCATTAA
Statistics
Matches: 54, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
42 20 0.37
43 28 0.52
44 5 0.09
45 1 0.02
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (42 bp):
TTGTGTAAGACCATGTCTGGGACAACAGGCATCGATTAGATT
Found at i:14360240 original size:44 final size:45
Alignment explanation
Indices: 14360177--14360388 Score: 236
Period size: 46 Copynumber: 4.7 Consensus size: 45
14360167 TAAGGTGCTG
14360177 ATGCCATGTCCCAGACATGGTCTTACACTGACACATCT-GTGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTGACACATCTAGTGCCA
* * * * *
14360221 ATGCCATGTCCCGGCCATGGTCTTACACTGACACATCTCGTAGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGACACATCTAGT-GCCA
*
14360267 ATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACATCTAGATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTGAC--ACATCTAG-TGCCA
* * * *
14360313 ATG-CATGTCCCAGACAT-GTCTTACACTAGCACTCATCTCAATGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACT-G-ACACATCT-AGTGCCA
14360359 ATGCCATGTCCCAGACATGGTCTTACACTG
1 ATGCCATGTCCCAGACATGGTCTTACACTG
14360389 GCTCTCATAG
Statistics
Matches: 143, Mismatches: 15, Indels: 17
0.82 0.09 0.10
Matches are distributed among these distances:
44 48 0.34
45 14 0.10
46 52 0.36
47 18 0.13
48 11 0.08
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (45 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGACACATCTAGTGCCA
Found at i:14360414 original size:94 final size:93
Alignment explanation
Indices: 14360176--14360441 Score: 273
Period size: 94 Copynumber: 2.9 Consensus size: 93
14360166 GTAAGGTGCT
* * * * *
14360176 GATGCCATGTCCCAGACATGGTCTTACACT-G-ACACAT-CTGTGCCAATGCCATGTCCCGGCCA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAGTGTGCCAAT-CCATGTCCCAGACA
*
14360238 TGGTCTTACACT-G-ACACATCTCGTAGTC
65 T-GTCTTACACTAGCACACATCTCATAGTC
* *
14360266 GATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TACATCTAG-ATGCCAATGCATGTCCCAGA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CA--TAGTGTGCCAATCCATGTCCCAGA
*
14360327 CATGTCTTACACTAGCACTCATCTCA-ATGTC
63 CATGTCTTACACTAGCACACATCTCATA-GTC
* * * *
14360358 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAGTGTGGTCGATTCATGTCCTAGACA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAGTGT-GCCAATCCATGTCCCAGACA
*
14360423 TGTCTTACACTAGCTCACA
65 TGTCTTACACTAGCACACA
14360442 ATAACCCATA
Statistics
Matches: 146, Mismatches: 16, Indels: 24
0.78 0.09 0.13
Matches are distributed among these distances:
88 10 0.07
89 15 0.10
90 16 0.11
91 14 0.10
92 26 0.18
93 15 0.10
94 49 0.34
95 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.28
Consensus pattern (93 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAGTGTGCCAATCCATGTCCCAGACAT
GTCTTACACTAGCACACATCTCATAGTC
Found at i:14365843 original size:287 final size:285
Alignment explanation
Indices: 14365298--14365869 Score: 826
Period size: 288 Copynumber: 2.0 Consensus size: 285
14365288 GAGTTAACTG
* *
14365298 AGTTTATTAGATTAAATTTGAAGAAAATGAAAAAGTGAATAAACACAAGGCCAAGCTTGTAGTGA
1 AGTTTATAAGATTAAATTTGAAGAAAATGAAAAAGAGAATAAACACAAGGCCAAGCTTGTAGTGA
* * * *
14365363 AGGAGTATGCATAACAACATGGGGTGGATGATATAGAAGTTTTTACTTGTGACATGTAAATAGAC
66 AGGAGTATGCATAACAACATGGGGTCGATGACATAGAAGTTTTTACCTATGACATGTAAATAGAC
* * * *
14365428 AATTCAATGAGTGATAGCACTTGCAACTCAAAAGGTATAGTCTATATACTAACTAGACAAGTCAG
131 AATACAATGAATGATAGCACTTGCAACTCAAAAGGTATAGCCCATATACTAACTAGACAAGTCAG
* * * *
14365493 CATTTTTTACATGGTGAGCTACATGAAAAGTTTTTTTGGAACAACCTTGTGGTTATGTGTAAAAA
196 CATTTTTTACAAGGTGAGCTACATGAAAAG-TTTTGTGGAACAACATTATGGTTATGTGT-AAAA
14365558 GGGAGGTGAGCAAAAGGATTACAAGTA
259 GGGAGGTGAGCAAAAGGATTACAAGTA
* * *
14365585 AGTTTATAAGATTATATTTGATGAAAATGAAAAAGAGAATGAACACAAGGCCAAGCTTGTAGTGA
1 AGTTTATAAGATTAAATTTGAAGAAAATGAAAAAGAGAATAAACACAAGGCCAAGCTTGTAGTGA
*
14365650 AGG-GTATGCATAACAACATGGGGTCGATGACATAGAAGTTTTTACACCTATGACATGTATATAG
66 AGGAGTATGCATAACAACATGGGGTCGATGACATAGAAGTTTTT--ACCTATGACATGTAAATAG
* * ** *
14365714 ACAATACAATTAATGATATCACTTGCGTCTCAAAAAGG-ATGGCCCATATACTAACTAGACAAGT
129 ACAATACAATGAATGATAGCACTTGCAACTC-AAAAGGTATAGCCCATATACTAACTAGACAAGT
* * * *
14365778 CAGCATTTTTTATAAGGTGAGTTGCATGAAATA-TTTTGTGGAACAATATTATGGTTATGTGTAA
193 CAGCATTTTTTACAAGGTGAGCTACATGAAA-AGTTTTGTGGAACAACATTATGGTTATGTGTAA
14365842 AAGGGAGGTGAGCAAAAGGATTACAAGT
257 AAGGGAGGTGAGCAAAAGGATTACAAGT
14365870 TAAAAAAGGC
Statistics
Matches: 254, Mismatches: 27, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
286 68 0.27
287 88 0.35
288 91 0.36
289 7 0.03
ACGTcount: A:0.38, C:0.11, G:0.22, T:0.28
Consensus pattern (285 bp):
AGTTTATAAGATTAAATTTGAAGAAAATGAAAAAGAGAATAAACACAAGGCCAAGCTTGTAGTGA
AGGAGTATGCATAACAACATGGGGTCGATGACATAGAAGTTTTTACCTATGACATGTAAATAGAC
AATACAATGAATGATAGCACTTGCAACTCAAAAGGTATAGCCCATATACTAACTAGACAAGTCAG
CATTTTTTACAAGGTGAGCTACATGAAAAGTTTTGTGGAACAACATTATGGTTATGTGTAAAAGG
GAGGTGAGCAAAAGGATTACAAGTA
Found at i:14367305 original size:43 final size:42
Alignment explanation
Indices: 14367212--14367332 Score: 129
Period size: 43 Copynumber: 2.8 Consensus size: 42
14367202 CGAGATGTGA
* * * *
14367212 TTACATGTAAGACCATGTCTGGGACATTTGCATTGTATTGAGC
1 TTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATCGA-C
14367255 TTACGTGTAAGACCATGTCTGGGACATTGGCATCGTTAATCGA-
1 TTACGTGTAAGACCATGTCTGGGACATTGGCATCG-T-ATCGAC
* * *
14367298 TTTCGTGTAAGA-AACTGTCTGGGACAGTGGCATCG
1 TTACGTGTAAGACCA-TGTCTGGGACATTGGCATCG
14367333 ATATGTTATA
Statistics
Matches: 68, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
42 1 0.01
43 62 0.91
44 1 0.01
45 4 0.06
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.31
Consensus pattern (42 bp):
TTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATCGAC
Found at i:14373143 original size:48 final size:48
Alignment explanation
Indices: 14373082--14373419 Score: 577
Period size: 48 Copynumber: 7.0 Consensus size: 48
14373072 ATATACACAC
* * *
14373082 ATCTCCTACATATTTCACATTAGCCATTCGGCTTTACCAAATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
14373130 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
14373178 ATCTCATACATATTTCATATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
14373226 ATCTCATACATATTTCACACTATCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
14373274 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
14373322 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
14373370 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
14373418 AT
1 AT
14373420 ATTTGTCTTG
Statistics
Matches: 277, Mismatches: 13, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 277 1.00
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.36
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:14380710 original size:40 final size:40
Alignment explanation
Indices: 14380651--14380831 Score: 233
Period size: 40 Copynumber: 4.5 Consensus size: 40
14380641 TATTCGAATG
* *
14380651 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGACT
* *
14380691 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
* * * *
14380731 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
**
14380771 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
14380811 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGA-CCCGAAG
14380832 ATACTTGGGT
Statistics
Matches: 125, Mismatches: 14, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
38 1 0.01
39 14 0.11
40 110 0.88
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
Found at i:14380784 original size:80 final size:80
Alignment explanation
Indices: 14380651--14380831 Score: 258
Period size: 80 Copynumber: 2.3 Consensus size: 80
14380641 TATTCGAATG
* * *
14380651 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTGCCATATCCGGGCTAAGACCCGAAGGCA
*
14380716 TTTGTGCTAGCGACT
66 TTTGTGCGAGCGACT
*
14380731 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGACCATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTG-CCATATCCGGGCTAAGACCCGAAGGC
* **
14380795 ATTTGTGCGAGTGGTT
65 ATTTGTGCGAGCGACT
*
14380811 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
14380832 ATACTTGGGT
Statistics
Matches: 91, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
79 16 0.18
80 75 0.82
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTGCCATATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAGCGACT
Found at i:14385253 original size:25 final size:25
Alignment explanation
Indices: 14385215--14385315 Score: 94
Period size: 25 Copynumber: 4.0 Consensus size: 25
14385205 ACTATACAAG
14385215 GCTCACACCACTTGCTGAGCTCGCA
1 GCTCACACCACTTGCTGAGCTCGCA
* * **
14385240 GCTCACACCCCTTGTTGAGCTCATA
1 GCTCACACCACTTGCTGAGCTCGCA
* * * * *
14385265 GCTCGCACCACTTGTTAAGCTTGTA
1 GCTCACACCACTTGCTGAGCTCGCA
* *
14385290 GCTCGCAACATCTTGCTGAGCTCGCA
1 GCTCACACCA-CTTGCTGAGCTCGCA
14385316 CCACTTGCTA
Statistics
Matches: 61, Mismatches: 14, Indels: 1
0.80 0.18 0.01
Matches are distributed among these distances:
25 50 0.82
26 11 0.18
ACGTcount: A:0.20, C:0.35, G:0.20, T:0.26
Consensus pattern (25 bp):
GCTCACACCACTTGCTGAGCTCGCA
Found at i:14385324 original size:18 final size:19
Alignment explanation
Indices: 14385289--14385397 Score: 89
Period size: 18 Copynumber: 5.6 Consensus size: 19
14385279 TTAAGCTTGT
* *
14385289 AGCTCGCAACATCTTGCTG
1 AGCTCGCACCATCTCGCTG
* *
14385308 AGCTCGCACCA-CTTGCTA
1 AGCTCGCACCATCTCGCTG
14385326 AGCTCCTAGCTCACACATCTCGCTG
1 AGCT-C--G--CAC-CATCTCGCTG
14385351 AGCTCGCA-CATCTCGCTG
1 AGCTCGCACCATCTCGCTG
* *
14385369 AGCTTGCA-CATCTCGTTG
1 AGCTCGCACCATCTCGCTG
14385387 AGCTCGCACCA
1 AGCTCGCACCA
14385398 CTTGATAAGC
Statistics
Matches: 75, Mismatches: 7, Indels: 16
0.77 0.07 0.16
Matches are distributed among these distances:
18 43 0.57
19 13 0.17
20 2 0.03
21 1 0.01
22 1 0.01
23 3 0.04
24 3 0.04
25 9 0.12
ACGTcount: A:0.20, C:0.37, G:0.19, T:0.24
Consensus pattern (19 bp):
AGCTCGCACCATCTCGCTG
Found at i:14385328 original size:44 final size:43
Alignment explanation
Indices: 14385264--14385359 Score: 138
Period size: 44 Copynumber: 2.2 Consensus size: 43
14385254 TTGAGCTCAT
* ** * *
14385264 AGCTCGCACCACTTGTTAAGCTTGTAGCTCGCAACATCTTGCTG
1 AGCTCGCACCACTTGCTAAGCTCCTAGCTCAC-ACATCTCGCTG
14385308 AGCTCGCACCACTTGCTAAGCTCCTAGCTCACACATCTCGCTG
1 AGCTCGCACCACTTGCTAAGCTCCTAGCTCACACATCTCGCTG
14385351 AGCTCGCAC
1 AGCTCGCAC
14385360 ATCTCGCTGA
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
43 19 0.40
44 28 0.60
ACGTcount: A:0.21, C:0.35, G:0.19, T:0.25
Consensus pattern (43 bp):
AGCTCGCACCACTTGCTAAGCTCCTAGCTCACACATCTCGCTG
Found at i:14385336 original size:25 final size:25
Alignment explanation
Indices: 14385215--14385337 Score: 73
Period size: 25 Copynumber: 5.2 Consensus size: 25
14385205 ACTATACAAG
* *
14385215 GCTCACACCACTTGCTGAGCTCGC-A
1 GCTCGCACCACTTGCTAAGCTC-CTA
* * * * *
14385240 GCTCACACCCCTTGTTGAGCTCATA
1 GCTCGCACCACTTGCTAAGCTCCTA
* **
14385265 GCTCGCACCACTTGTTAAGCTTGTA
1 GCTCGCACCACTTGCTAAGCTCCTA
*
14385290 GCTCGCAACATCTTGCT--G-----A
1 GCTCGCACCA-CTTGCTAAGCTCCTA
14385309 GCTCGCACCACTTGCTAAGCTCCTA
1 GCTCGCACCACTTGCTAAGCTCCTA
14385334 GCTC
1 GCTC
14385338 ACACATCTCG
Statistics
Matches: 78, Mismatches: 11, Indels: 18
0.73 0.10 0.17
Matches are distributed among these distances:
18 6 0.08
19 10 0.13
20 1 0.01
24 1 0.01
25 55 0.71
26 5 0.06
ACGTcount: A:0.20, C:0.36, G:0.19, T:0.26
Consensus pattern (25 bp):
GCTCGCACCACTTGCTAAGCTCCTA
Found at i:14390928 original size:5 final size:5
Alignment explanation
Indices: 14390920--14390944 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
14390910 TATAATATAT
14390920 TTTCC TTTCC TTTCC TTTCC TTTCC
1 TTTCC TTTCC TTTCC TTTCC TTTCC
14390945 ACCACTTAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (5 bp):
TTTCC
Found at i:14392896 original size:43 final size:43
Alignment explanation
Indices: 14392835--14392922 Score: 176
Period size: 43 Copynumber: 2.0 Consensus size: 43
14392825 CTACCTATAA
14392835 AAGTCATAACTCATAACCCTATTTCTATCAATTCTTTCTCATG
1 AAGTCATAACTCATAACCCTATTTCTATCAATTCTTTCTCATG
14392878 AAGTCATAACTCATAACCCTATTTCTATCAATTCTTTCTCATG
1 AAGTCATAACTCATAACCCTATTTCTATCAATTCTTTCTCATG
14392921 AA
1 AA
14392923 TGCTTCTCAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.32, C:0.25, G:0.05, T:0.39
Consensus pattern (43 bp):
AAGTCATAACTCATAACCCTATTTCTATCAATTCTTTCTCATG
Found at i:14396041 original size:20 final size:20
Alignment explanation
Indices: 14396013--14396053 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
14396003 GCTTCGTAAT
*
14396013 ATATTAAAAAATTACTTAAA
1 ATATGAAAAAATTACTTAAA
**
14396033 ATATGAAAATGTTACTTAAA
1 ATATGAAAAAATTACTTAAA
14396053 A
1 A
14396054 CATATAAATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.34
Consensus pattern (20 bp):
ATATGAAAAAATTACTTAAA
Found at i:14399238 original size:40 final size:40
Alignment explanation
Indices: 14399183--14399357 Score: 314
Period size: 40 Copynumber: 4.4 Consensus size: 40
14399173 TATGTGCATA
14399183 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
* *
14399223 GCATTCGTGCGGGTTATTATAACTGGGTTAAGTCTCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
14399263 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
14399303 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
* *
14399343 GCACTCGTGCTGGTT
1 GCATTCGTGCGGGTT
14399358 GTTACATCCG
Statistics
Matches: 129, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 129 1.00
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.29
Consensus pattern (40 bp):
GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
Found at i:14402886 original size:46 final size:46
Alignment explanation
Indices: 14402834--14403242 Score: 557
Period size: 46 Copynumber: 8.9 Consensus size: 46
14402824 TTCTGAAATG
* *
14402834 AAATGTGTAAGACCATGGTTGAAAGACACCATGGAAACATGATATA
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATA
*
14402880 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATA
* *
14402926 AAATGTGTAAGACCATGGTTGAAAGATACCATGACAACAGGATATA
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATA
* * *
14402972 AAATGTGTAAGACCATGGTTGAAAGACACCATGGCGACATGATATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATA
*
14403018 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGATATA
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATA
****
14403064 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACGGG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATA
** * * * *
14403110 AAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCGTGACATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATA
** * * *
14403156 AAATGAATAAGACCATGGTTGAAAGATACGATGGCAACATGACAGA
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATA
* * * * *
14403202 AAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
14403243 TCAAAGATAA
Statistics
Matches: 327, Mismatches: 36, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 327 1.00
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.21
Consensus pattern (46 bp):
AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATA
Found at i:14403544 original size:16 final size:17
Alignment explanation
Indices: 14403523--14403555 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
14403513 ATGATGGAGC
14403523 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
14403539 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
14403556 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:14412462 original size:51 final size:46
Alignment explanation
Indices: 14412343--14412470 Score: 213
Period size: 46 Copynumber: 2.8 Consensus size: 46
14412333 TGTAACCCAC
* *
14412343 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGAACTCAACTCAACGAGCTCGGGCGTTCGCAT
14412389 CCATAAGTGAACTCGAACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGAACTCAACTCAACGAGCTCGGGCGTTCGCAT
*
14412435 CTATAAGTGAACTC-AGACTCAACTCAACGAGCTCGG
1 CCATAAGTGAACTCGA-ACTCAACTCAACGAGCTCGG
14412471 AACTCAAATA
Statistics
Matches: 78, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
45 1 0.01
46 77 0.99
ACGTcount: A:0.29, C:0.30, G:0.22, T:0.19
Consensus pattern (46 bp):
CCATAAGTGAACTCGAACTCAACTCAACGAGCTCGGGCGTTCGCAT
Found at i:14417725 original size:37 final size:37
Alignment explanation
Indices: 14417684--14417812 Score: 125
Period size: 37 Copynumber: 3.5 Consensus size: 37
14417674 TTCTCCTCAT
* * * *
14417684 TTGAGTTTCACTT-AGTATAATAATAAGATTTGCTCGA
1 TTGAGCTTCA-TTCAGTATAACAATAAGATCTGATCGA
*
14417721 TTGAGCTTCATTCAGTATAACAGTAAGATCTGATCGA
1 TTGAGCTTCATTCAGTATAACAATAAGATCTGATCGA
* * * ** * *
14417758 TTGAGCTTTATTTAGTACAACGGTAAGATTTGACCCGA
1 TTGAGCTTCATTCAGTATAACAATAAGATCTGA-TCGA
14417796 TTGAGCTTCATTCAGTA
1 TTGAGCTTCATTCAGTA
14417813 GGACCAATAG
Statistics
Matches: 77, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
36 2 0.03
37 57 0.74
38 18 0.23
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.36
Consensus pattern (37 bp):
TTGAGCTTCATTCAGTATAACAATAAGATCTGATCGA
Found at i:14417802 original size:38 final size:38
Alignment explanation
Indices: 14417707--14417812 Score: 144
Period size: 37 Copynumber: 2.8 Consensus size: 38
14417697 AGTATAATAA
*
14417707 TAAGATTTG-CTCGATTGAGCTTCATTCAGTATAACAG
1 TAAGATTTGACTCGATTGAGCTTCATTCAGTACAACAG
* * * *
14417744 TAAGATCTGA-TCGATTGAGCTTTATTTAGTACAACGG
1 TAAGATTTGACTCGATTGAGCTTCATTCAGTACAACAG
*
14417781 TAAGATTTGACCCGATTGAGCTTCATTCAGTA
1 TAAGATTTGACTCGATTGAGCTTCATTCAGTA
14417813 GGACCAATAG
Statistics
Matches: 58, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
37 40 0.69
38 18 0.31
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (38 bp):
TAAGATTTGACTCGATTGAGCTTCATTCAGTACAACAG
Found at i:14418663 original size:22 final size:23
Alignment explanation
Indices: 14418634--14418689 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 23
14418624 TTTCAACTTT
* *
14418634 CTTAATTAAGCTTTAA-TAAATCA
1 CTTAATTAAGC-CTAATTAAACCA
14418657 -TTAATTAAGCCTAATTAAACCA
1 CTTAATTAAGCCTAATTAAACCA
14418679 CTTAATTAAGC
1 CTTAATTAAGC
14418690 ATAACCTCGT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 3 0.10
22 16 0.55
23 10 0.34
ACGTcount: A:0.43, C:0.16, G:0.05, T:0.36
Consensus pattern (23 bp):
CTTAATTAAGCCTAATTAAACCA
Found at i:14420754 original size:23 final size:24
Alignment explanation
Indices: 14420724--14420771 Score: 80
Period size: 23 Copynumber: 2.0 Consensus size: 24
14420714 ATTCGCAGAT
14420724 ATGTAGGTTGTGGAT-AAACCACC
1 ATGTAGGTTGTGGATGAAACCACC
*
14420747 ATGTAGGTTGTGGATGAAGCCACC
1 ATGTAGGTTGTGGATGAAACCACC
14420771 A
1 A
14420772 ATTCTTTCTC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 15 0.65
24 8 0.35
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (24 bp):
ATGTAGGTTGTGGATGAAACCACC
Found at i:14423229 original size:21 final size:20
Alignment explanation
Indices: 14423194--14423241 Score: 71
Period size: 21 Copynumber: 2.4 Consensus size: 20
14423184 CATGTATTAG
*
14423194 ATATTAAATAGATATTTATT
1 ATATTAAAAAGATATTTATT
14423214 ATATTATAAAAGATATTTATT
1 ATATTA-AAAAGATATTTATT
14423235 A-ATTAAA
1 ATATTAAA
14423242 TAATTATATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 2 0.08
20 10 0.38
21 14 0.54
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (20 bp):
ATATTAAAAAGATATTTATT
Found at i:14425488 original size:46 final size:46
Alignment explanation
Indices: 14425421--14425925 Score: 690
Period size: 46 Copynumber: 11.0 Consensus size: 46
14425411 AGTGTGCTCT
14425421 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
14425467 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
14425513 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
14425559 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
14425605 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGAAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
14425651 CTAATATGAAATGTGTAAGACCATGGTTGAAAGATACCATAGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
14425697 ATGATATGAAATGTGTAGGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * ** *
14425743 ATGATA-GAAAACGAATAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * ** * *
14425789 GTGACATGAAATGAATAAGACCATGGTTGAAGGATACCGTGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** ** * *
14425835 ATGACGGGAAAATGAATAAGAACATGGTTGAAAGATACCGTGGCAAC
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * * *
14425882 ATGACA-GAAAATGAGTAAGATCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
14425926 TCATGTCAAA
Statistics
Matches: 425, Mismatches: 31, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
45 1 0.00
46 382 0.90
47 42 0.10
ACGTcount: A:0.39, C:0.14, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:14448519 original size:18 final size:18
Alignment explanation
Indices: 14448496--14448531 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
14448486 CATCCAACCT
14448496 TCAAAAGTATCTACAAGA
1 TCAAAAGTATCTACAAGA
14448514 TCAAAAGTATCTACAAGA
1 TCAAAAGTATCTACAAGA
14448532 AACATAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.17, G:0.11, T:0.22
Consensus pattern (18 bp):
TCAAAAGTATCTACAAGA
Found at i:14449696 original size:25 final size:25
Alignment explanation
Indices: 14449641--14449690 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
14449631 AAAAATCACA
*
14449641 ATCAAAGATTCAAGCACATAATTAT
1 ATCAAAGATTCAAACACATAATTAT
*
14449666 ATCAAAGCTTCAAACACATAATTAT
1 ATCAAAGATTCAAACACATAATTAT
14449691 CACAAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.48, C:0.18, G:0.06, T:0.28
Consensus pattern (25 bp):
ATCAAAGATTCAAACACATAATTAT
Found at i:14451604 original size:17 final size:17
Alignment explanation
Indices: 14451582--14451632 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
14451572 ATACGTTATA
14451582 AAATTTATAAAAAATAG
1 AAATTTATAAAAAATAG
14451599 AAATTTATAAATAATTATAG
1 AAATTTATAAA-AA--ATAG
*
14451619 AAA-TTATTAAAAAT
1 AAATTTATAAAAAAT
14451633 TATATAAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
16 2 0.07
17 11 0.37
18 4 0.13
19 6 0.20
20 7 0.23
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (17 bp):
AAATTTATAAAAAATAG
Found at i:14451631 original size:36 final size:38
Alignment explanation
Indices: 14451561--14451632 Score: 96
Period size: 36 Copynumber: 1.9 Consensus size: 38
14451551 AAAAAAATCT
14451561 AATTTATAAATATACGTTATAAAATTTATAAAAAATAGA
1 AATTTATAAATATAC-TTATAAAATTTATAAAAAATAGA
*
14451600 AATTTATAAATA-A-TTATAGAAA-TTATTAAAAAT
1 AATTTATAAATATACTTATA-AAATTTATAAAAAAT
14451633 TATATAAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
36 15 0.48
37 3 0.10
38 1 0.03
39 12 0.39
ACGTcount: A:0.57, C:0.01, G:0.04, T:0.38
Consensus pattern (38 bp):
AATTTATAAATATACTTATAAAATTTATAAAAAATAGA
Found at i:14451633 original size:19 final size:20
Alignment explanation
Indices: 14451561--14451636 Score: 74
Period size: 20 Copynumber: 3.9 Consensus size: 20
14451551 AAAAAAATCT
14451561 AATTTATAAATATACGTTATA-A
1 AATTTATAAATA-A--TTATAGA
14451583 AATTTATAAA-AA--ATAGA
1 AATTTATAAATAATTATAGA
14451600 AATTTATAAATAATTATAGA
1 AATTTATAAATAATTATAGA
14451620 AA-TTATTAAA-AATTATA
1 AATTTA-TAAATAATTATA
14451637 TAAAAATTTT
Statistics
Matches: 49, Mismatches: 0, Indels: 13
0.79 0.00 0.21
Matches are distributed among these distances:
16 3 0.06
17 11 0.22
18 2 0.04
19 10 0.20
20 12 0.24
21 1 0.02
22 10 0.20
ACGTcount: A:0.57, C:0.01, G:0.04, T:0.38
Consensus pattern (20 bp):
AATTTATAAATAATTATAGA
Found at i:14451642 original size:12 final size:10
Alignment explanation
Indices: 14451606--14451729 Score: 60
Period size: 11 Copynumber: 12.0 Consensus size: 10
14451596 TAGAAATTTA
14451606 TAAATAATTA-
1 TAAA-AATTAT
*
14451616 TAGAAATTAT
1 TAAAAATTAT
14451626 TAAAAATTAT
1 TAAAAATTAT
14451636 ATAAAAATT-T
1 -TAAAAATTAT
**
14451646 TAAATGTTA-
1 TAAAAATTAT
*
14451655 TAACAACTT-T
1 TAA-AAATTAT
14451665 TAGAAAGA-TAT
1 TA-AAA-ATTAT
*
14451676 TATAAAATTTT
1 TA-AAAATTAT
*
14451687 TAGAAAAATAT
1 TA-AAAATTAT
*
14451698 AGAAAAATTAT
1 -TAAAAATTAT
14451709 TAAAACATTAT
1 TAAAA-ATTAT
*
14451720 TAAACATTAT
1 TAAAAATTAT
14451730 AAATTAGAAT
Statistics
Matches: 87, Mismatches: 16, Indels: 22
0.70 0.13 0.18
Matches are distributed among these distances:
9 14 0.16
10 31 0.36
11 41 0.47
12 1 0.01
ACGTcount: A:0.54, C:0.03, G:0.05, T:0.38
Consensus pattern (10 bp):
TAAAAATTAT
Found at i:14451648 original size:20 final size:20
Alignment explanation
Indices: 14451614--14451723 Score: 64
Period size: 21 Copynumber: 5.3 Consensus size: 20
14451604 TATAAATAAT
*
14451614 TATAGAAATTATTAAAAATTA
1 TATAAAAATT-TTAAAAATTA
**
14451635 TATAAAAATTTTAAATGTTA
1 TATAAAAATTTTAAAAATTA
* *
14451655 TA-ACAACTTTTAGAAAGA-TA
1 TATAAAAATTTTA-AAA-ATTA
* *
14451675 TTATAAAATTTTTAGAAAAATA
1 -TATAAAAATTTTA-AAAATTA
*
14451697 TAGAAAAATTATTAAAACATTA
1 TATAAAAATT-TTAAAA-ATTA
14451719 T-TAAA
1 TATAAA
14451724 CATTATAAAT
Statistics
Matches: 69, Mismatches: 13, Indels: 14
0.72 0.14 0.15
Matches are distributed among these distances:
19 8 0.12
20 14 0.20
21 26 0.38
22 21 0.30
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.37
Consensus pattern (20 bp):
TATAAAAATTTTAAAAATTA
Found at i:14451689 original size:22 final size:23
Alignment explanation
Indices: 14451647--14451697 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 23
14451637 TAAAAATTTT
*
14451647 AAATGTTATAACAACTTTTAGAA
1 AAATATTATAACAACTTTTAGAA
* *
14451670 AGATATTATAA-AATTTTTAGAA
1 AAATATTATAACAACTTTTAGAA
14451692 AAATAT
1 AAATAT
14451698 AGAAAAATTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 15 0.62
23 9 0.38
ACGTcount: A:0.51, C:0.04, G:0.08, T:0.37
Consensus pattern (23 bp):
AAATATTATAACAACTTTTAGAA
Found at i:14454662 original size:23 final size:24
Alignment explanation
Indices: 14454636--14454743 Score: 152
Period size: 23 Copynumber: 4.7 Consensus size: 24
14454626 GTAATGTTTT
*
14454636 GTAAAGCCTTTGTGGCGTATTC-A
1 GTAAAGCCTTTGTGGCATATTCTA
14454659 GTAAAGCCTTTGTGGCATATTCTA
1 GTAAAGCCTTTGTGGCATATTCTA
* *
14454683 -TAAATCCTTTGTGGCATATT-TT
1 GTAAAGCCTTTGTGGCATATTCTA
*
14454705 GTAAAGCTTTTGTGGCATATTCTA
1 GTAAAGCCTTTGTGGCATATTCTA
14454729 -TAAAGCCTTTGTGGC
1 GTAAAGCCTTTGTGGC
14454744 GTACTTTGTG
Statistics
Matches: 75, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
22 1 0.01
23 72 0.96
24 2 0.03
ACGTcount: A:0.23, C:0.16, G:0.21, T:0.40
Consensus pattern (24 bp):
GTAAAGCCTTTGTGGCATATTCTA
Found at i:14454709 original size:46 final size:46
Alignment explanation
Indices: 14454637--14454752 Score: 178
Period size: 46 Copynumber: 2.5 Consensus size: 46
14454627 TAATGTTTTG
**
14454637 TAAAGCCTTTGTGGCGTATTCAGTAAAGCCTTTGTGGCATATTCTA
1 TAAAGCCTTTGTGGCGTATTTTGTAAAGCCTTTGTGGCATATTCTA
* * *
14454683 TAAATCCTTTGTGGCATATTTTGTAAAGCTTTTGTGGCATATTCTA
1 TAAAGCCTTTGTGGCGTATTTTGTAAAGCCTTTGTGGCATATTCTA
*
14454729 TAAAGCCTTTGTGGCGTACTTTGT
1 TAAAGCCTTTGTGGCGTATTTTGT
14454753 GATGATTGTG
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 62 1.00
ACGTcount: A:0.22, C:0.16, G:0.21, T:0.41
Consensus pattern (46 bp):
TAAAGCCTTTGTGGCGTATTTTGTAAAGCCTTTGTGGCATATTCTA
Found at i:14454765 original size:46 final size:46
Alignment explanation
Indices: 14454637--14454771 Score: 148
Period size: 46 Copynumber: 2.9 Consensus size: 46
14454627 TAATGTTTTG
* * *
14454637 TAAAGCCTTTGTGGCGTA-TTCAGTAAAGCCTT-TGTGGCATATTCTA
1 TAAAGCCTTTGTGGCATACTT-TGTAAAG-ATTGTGTGGCATATTCTA
* * * *
14454683 TAAATCCTTTGTGGCATATTTTGTAAAGCTTTTGTGGCATATTCTA
1 TAAAGCCTTTGTGGCATACTTTGTAAAGATTGTGTGGCATATTCTA
* * *
14454729 TAAAGCCTTTGTGGCGTACTTTGTGATGATTGTGTGGCATATT
1 TAAAGCCTTTGTGGCATACTTTGTAAAGATTGTGTGGCATATT
14454772 TTGTAATGCC
Statistics
Matches: 77, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
45 3 0.04
46 72 0.94
47 2 0.03
ACGTcount: A:0.22, C:0.14, G:0.22, T:0.41
Consensus pattern (46 bp):
TAAAGCCTTTGTGGCATACTTTGTAAAGATTGTGTGGCATATTCTA
Found at i:14454765 original size:69 final size:69
Alignment explanation
Indices: 14454632--14454777 Score: 181
Period size: 69 Copynumber: 2.1 Consensus size: 69
14454622 ACACGTAATG
* *
14454632 TTTTGTAAAGCCTTTGTGGCGTATTCAGTAAAGCCTTTGTGGCATATTCTATAAATCCTTTGTGG
1 TTTTGTAAAGCCTTTGTGGCATATTCAGTAAAGCCTTTGTGGCATATTCTATAAATCATTTGTGG
14454697 CATA
66 CATA
* * * * *
14454701 TTTTGTAAAGCTTTTGTGGCATATTCTA-TAAAGCCTTTGTGGCGTACTT-TGT-GATGATTGTG
1 TTTTGTAAAGCCTTTGTGGCATATTC-AGTAAAGCCTTTGTGGCATA-TTCTATAAATCATT-TG
14454763 TGGCATA
63 TGGCATA
14454770 TTTTGTAA
1 TTTTGTAA
14454778 TGCCCTTAAG
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
68 4 0.06
69 60 0.90
70 3 0.04
ACGTcount: A:0.22, C:0.13, G:0.22, T:0.43
Consensus pattern (69 bp):
TTTTGTAAAGCCTTTGTGGCATATTCAGTAAAGCCTTTGTGGCATATTCTATAAATCATTTGTGG
CATA
Found at i:14458699 original size:47 final size:47
Alignment explanation
Indices: 14458648--14458989 Score: 459
Period size: 47 Copynumber: 7.1 Consensus size: 47
14458638 TTAGGATTTT
* *
14458648 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
**
14458695 ATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA--C--ATGCATATGTGTGATAAGGCCGAATGGCCA
** *
14458746 ATGTGATGAATGTGAACCTGTATATATATATGCGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA-C-----ATGCATATGTGTGATAAGGCCGAATGGCCA
*
14458799 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
*
14458846 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* *
14458893 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* * * *
14458940 ATGTGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
14458987 ATG
1 ATG
14458990 CGAAACGTGT
Statistics
Matches: 271, Mismatches: 17, Indels: 14
0.90 0.06 0.05
Matches are distributed among these distances:
47 178 0.66
49 1 0.00
50 2 0.01
51 43 0.16
52 1 0.00
53 46 0.17
ACGTcount: A:0.32, C:0.12, G:0.30, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
Found at i:14458826 original size:23 final size:23
Alignment explanation
Indices: 14458799--14458873 Score: 57
Period size: 23 Copynumber: 3.2 Consensus size: 23
14458789 CGAATGGCCA
14458799 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
* * **
14458822 ATGTG-TGATAAG-G-CCGAATGGCCA
1 ATGTGATGA-ATGTGAAC--AT-GCGT
14458846 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
14458869 ATGTG
1 ATGTG
14458874 TGATAAGGCC
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
21 1 0.03
22 4 0.11
23 16 0.43
24 11 0.30
25 4 0.11
26 1 0.03
ACGTcount: A:0.29, C:0.11, G:0.32, T:0.28
Consensus pattern (23 bp):
ATGTGATGAATGTGAACATGCGT
Found at i:14459052 original size:46 final size:46
Alignment explanation
Indices: 14458963--14459053 Score: 110
Period size: 46 Copynumber: 2.0 Consensus size: 46
14458953 GAACATGAAT
* * * * *
14458963 ATATGTGGTAAGGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAAAGGCTAATGCGAAACATGTACGAGATGG
* * *
14459009 ATATGTGGTAAAGCCAAAAGGCTAATGTGAGATATGTACGAGATG
1 ATATGTGGTAAAGCCAAAAGGCTAATGCGAAACATGTACGAGATG
14459054 TGTATATATA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.34, C:0.10, G:0.32, T:0.24
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAAAGGCTAATGCGAAACATGTACGAGATGG
Found at i:14459060 original size:141 final size:140
Alignment explanation
Indices: 14458648--14459038 Score: 367
Period size: 141 Copynumber: 2.7 Consensus size: 140
14458638 TTAGGATTTT
* ** * * *
14458648 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
1 ATGTGATGAATGTGAACATGAATATATGTGATAAGGCCGAATGGCCAATGCGA-GAACGTGAA--
*** * * * **
14458713 CGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCTGTATATATATATG
63 C--ATGCGTATGTGTGATAAAGCCAAAAGGCCAATGTGATGAATGTGAA-C---ATGCATATAT-
*
14458778 CGTGATAAGGCCGAATGGCCA
121 -GAGATAAGGCCGAATGGCCA
** * * *
14458799 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGAATATATGTGATAAGGCCGAATGGCCAATGCGA-GAACGTGAACA
* * *
14458864 TGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGG
65 TGCGTATGTGTGATAAAGCCAAAAGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGG
14458929 CCGAATGGCCA
130 CCGAATGGCCA
* *
14458940 ATGTGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGCTAATGCGA-AACGTGTATGA
1 ATGTGATGAATGTGAACATGAATATATGTGATAAGGCCGAATGGCCAATGCGAGAACGTG-A--A
* *
14459004 GATG-GATATGTG-G-TAAAGCCAAAAGGCTAATGTGA
63 CATGCG-TATGTGTGATAAAGCCAAAAGGCCAATGTGA
14459039 GATATGTACG
Statistics
Matches: 217, Mismatches: 19, Indels: 19
0.85 0.07 0.07
Matches are distributed among these distances:
139 5 0.02
140 19 0.09
141 68 0.31
142 10 0.05
143 8 0.04
146 1 0.00
147 43 0.20
149 1 0.00
151 62 0.29
ACGTcount: A:0.32, C:0.12, G:0.30, T:0.26
Consensus pattern (140 bp):
ATGTGATGAATGTGAACATGAATATATGTGATAAGGCCGAATGGCCAATGCGAGAACGTGAACAT
GCGTATGTGTGATAAAGCCAAAAGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGGC
CGAATGGCCA
Found at i:14459343 original size:37 final size:37
Alignment explanation
Indices: 14459187--14459343 Score: 251
Period size: 37 Copynumber: 4.2 Consensus size: 37
14459177 ACATGAAACT
*
14459187 TGGAGATTATGTCCGGGTAAGACCCGATGACTACGTG
1 TGGAGATTTTGTCCGGGTAAGACCCGATGACTACGTG
* * *
14459224 TGGAGATTATGTTCGGGTAAGACCCGATGAGTACGTG
1 TGGAGATTTTGTCCGGGTAAGACCCGATGACTACGTG
14459261 TGGAGATTTTGTCCGGGTAAGACCCGATGACTACGTG
1 TGGAGATTTTGTCCGGGTAAGACCCGATGACTACGTG
* * *
14459298 TGGAGATTTTGTCCGGGTAAGACCCGATAACTTCATG
1 TGGAGATTTTGTCCGGGTAAGACCCGATGACTACGTG
14459335 TGGAGATTT
1 TGGAGATTT
14459344 CGTCTGAGCT
Statistics
Matches: 112, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 112 1.00
ACGTcount: A:0.24, C:0.17, G:0.32, T:0.28
Consensus pattern (37 bp):
TGGAGATTTTGTCCGGGTAAGACCCGATGACTACGTG
Found at i:14461340 original size:69 final size:70
Alignment explanation
Indices: 14461208--14461340 Score: 205
Period size: 69 Copynumber: 1.9 Consensus size: 70
14461198 TAGTTTATTA
* * * * *
14461208 CTAATTAATTTGCTGCTGTAATGCTGTAAATTATTGGCTGTCCAAATTAGGACAAATTTATGGTA
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGTA
14461273 CTTAG
66 CTTAG
*
14461278 CTAATTAATATGCTGCTGTAATACT-TAAATTATTGTCTCTCCAAATTAGGACAAAATCATGGT
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGT
14461341 GTTATGTGCT
Statistics
Matches: 57, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
69 34 0.60
70 23 0.40
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (70 bp):
CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGTA
CTTAG
Found at i:14463867 original size:137 final size:133
Alignment explanation
Indices: 14463625--14463894 Score: 477
Period size: 137 Copynumber: 2.0 Consensus size: 133
14463615 AGTTTAAATT
*
14463625 GTATCCCTGACTGTCTTTAGTACTTATCTAAAGGAATGTTCAAAAAAAAAAATTTACTGTTCTGA
1 GTATCCCTGACTGTCTCTAGTACTTATCTAAAGGAATGTTCAAAAAAAAAAATTTACTGTTCTGA
14463690 TATGAGTTTCAAGACTGGTAATACCCCTTTATCTATTCCGGCGACGGATACGGGATTGGGGTGTT
66 TATGAGTTTCAAGACTGGTAATACCCCTTTATCTATTCCGGCGACGGATACGGGATTGGGGTGTT
14463755 ACA
131 ACA
*
14463758 GTATCCCTGACTGTCTCTAGTACTTATCTAAAGGAATGTTCAAAAAAAAAATTTTTTTTACTGTT
1 GTATCCCTGACTGTCTCTAGTACTTATCTAAAGGAATGTTCAAAAAAAAAA----ATTTACTGTT
*
14463823 CTGATATGAGTTTCAAGACTGGTAATGCCCCTTTATCTATTCCGGCGACGGATACGGGATTGGGG
62 CTGATATGAGTTTCAAGACTGGTAATACCCCTTTATCTATTCCGGCGACGGATACGGGATTGGGG
14463888 TGTTACA
127 TGTTACA
14463895 CCAAGCTTAG
Statistics
Matches: 130, Mismatches: 3, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
133 50 0.38
137 80 0.62
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.34
Consensus pattern (133 bp):
GTATCCCTGACTGTCTCTAGTACTTATCTAAAGGAATGTTCAAAAAAAAAAATTTACTGTTCTGA
TATGAGTTTCAAGACTGGTAATACCCCTTTATCTATTCCGGCGACGGATACGGGATTGGGGTGTT
ACA
Found at i:14466569 original size:64 final size:64
Alignment explanation
Indices: 14466491--14466724 Score: 256
Period size: 64 Copynumber: 3.6 Consensus size: 64
14466481 ACATTATGAG
* *
14466491 GTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAAAGAGCTACGGGATATAT
1 GTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAAAGAGCTACGAGATAAAT
*
14466555 GTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAAAT
1 GTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAAAGAGCTACGAGATAAAT
* * * * * * * * *
14466619 GTAGCTAGGTTGCATGTGTGGTTCCAAGTGAAGGACACCATGTAAACAAGAGAGCTACGAGATAA
1 GTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAAAGAGCTACGAGAT-A
14466684 AAT
62 AAT
* * * * * *
14466687 G--GCTAGGTCACATAGATGGTACTAAGTGTTCACCATGT
1 GTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGT
14466725 GTACAAGAGA
Statistics
Matches: 143, Mismatches: 23, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
63 9 0.06
64 79 0.55
65 8 0.06
66 13 0.09
67 29 0.20
68 5 0.03
ACGTcount: A:0.32, C:0.16, G:0.28, T:0.24
Consensus pattern (64 bp):
GTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAAAGAGCTACGAGATAAAT
Found at i:14469047 original size:22 final size:22
Alignment explanation
Indices: 14469021--14469096 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
14469011 ATATATTTAA
14469021 TAAAATAATAAGAAGTATGTTT
1 TAAAATAATAAGAAGTATGTTT
** * * * *
14469043 TAAAATGGTTATACGTCGATAGTTAA
1 TAAAATAATAAGAAGT--AT-GTT-T
14469069 TAAAATAATAAGAAGTATGTTT
1 TAAAATAATAAGAAGTATGTTT
14469091 TAAAAT
1 TAAAAT
14469097 GGTTATACGC
Statistics
Matches: 38, Mismatches: 12, Indels: 8
0.66 0.21 0.14
Matches are distributed among these distances:
22 17 0.45
23 3 0.08
24 4 0.11
25 3 0.08
26 11 0.29
ACGTcount: A:0.47, C:0.03, G:0.14, T:0.36
Consensus pattern (22 bp):
TAAAATAATAAGAAGTATGTTT
Found at i:14469069 original size:48 final size:48
Alignment explanation
Indices: 14469017--14469110 Score: 179
Period size: 48 Copynumber: 2.0 Consensus size: 48
14469007 CTGAATATAT
*
14469017 TTAATAAAATAATAAGAAGTATGTTTTAAAATGGTTATACGTCGATAG
1 TTAATAAAATAATAAGAAGTATGTTTTAAAATGGTTATACGCCGATAG
14469065 TTAATAAAATAATAAGAAGTATGTTTTAAAATGGTTATACGCCGAT
1 TTAATAAAATAATAAGAAGTATGTTTTAAAATGGTTATACGCCGAT
14469111 TGTAAAGTTT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.44, C:0.05, G:0.16, T:0.35
Consensus pattern (48 bp):
TTAATAAAATAATAAGAAGTATGTTTTAAAATGGTTATACGCCGATAG
Found at i:14472674 original size:28 final size:28
Alignment explanation
Indices: 14472634--14472690 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
14472624 TTTTTTAAAG
14472634 AATAAGAACAAGTAATGGATAGTACATA
1 AATAAGAACAAGTAATGGATAGTACATA
14472662 AATAAGAACAAGTAATGGATAGTACATA
1 AATAAGAACAAGTAATGGATAGTACATA
14472690 A
1 A
14472691 TATTTCAGCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.54, C:0.07, G:0.18, T:0.21
Consensus pattern (28 bp):
AATAAGAACAAGTAATGGATAGTACATA
Found at i:14488456 original size:43 final size:43
Alignment explanation
Indices: 14488390--14488554 Score: 143
Period size: 43 Copynumber: 3.9 Consensus size: 43
14488380 GTTACATCTA
* * **
14488390 TCGCATCCATTATGAACTCGGACCACTCAACGAGCTTGGATGC
1 TCGCATCCATAATGAACTTGGACCACTCAACGAGCTCAGATGC
* *
14488433 TCGCATCCATAATGAAATTGGACCACTCAATGAGCTCAGATGC
1 TCGCATCCATAATGAACTTGGACCACTCAACGAGCTCAGATGC
* ** * * * * *
14488476 -CACATATATCATGAACTTGGACCACTCAACAAGTTCGGATTC
1 TCGCATCCATAATGAACTTGGACCACTCAACGAGCTCAGATGC
* ** * * *
14488518 TCACATATATCATGAACTCGGACCACTCAATGAGCTC
1 TCGCATCCATAATGAACTTGGACCACTCAACGAGCTC
14488555 CGATTTCTTA
Statistics
Matches: 101, Mismatches: 20, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
42 32 0.32
43 69 0.68
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (43 bp):
TCGCATCCATAATGAACTTGGACCACTCAACGAGCTCAGATGC
Found at i:14500104 original size:37 final size:37
Alignment explanation
Indices: 14500063--14500141 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
14500053 TTATTACGAA
* * * *
14500063 GTCTTACCCGGACATATTCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
14500100 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
14500137 GTCTT
1 GTCTT
14500142 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:14500338 original size:47 final size:47
Alignment explanation
Indices: 14500260--14500761 Score: 833
Period size: 47 Copynumber: 10.5 Consensus size: 47
14500250 CCCTTCGGGA
* * * * * *
14500260 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
14500307 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
14500354 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
14500401 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACAT----C----GGCCATTAGGC
*
14500456 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
14500503 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
14500550 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
14500597 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
14500644 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
14500691 CTTATCTCATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
14500738 CTTATCACATATATACACTTTCAC
1 CTTATCACATATATACACTTTCAC
14500762 GTATACACAC
Statistics
Matches: 432, Mismatches: 15, Indels: 16
0.93 0.03 0.03
Matches are distributed among these distances:
47 384 0.89
51 2 0.00
55 46 0.11
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:14503009 original size:31 final size:31
Alignment explanation
Indices: 14502974--14503037 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
14502964 CCTTTTCATA
*
14502974 TTTCATATTTCATAATACTGGGCTGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
14503005 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
14503036 TT
1 TT
14503038 ACTGTAAACG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.20, G:0.16, T:0.41
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:14503359 original size:20 final size:20
Alignment explanation
Indices: 14503334--14503380 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
14503324 TTATGAATAC
14503334 ATCATGTGCATATCATA-CA
1 ATCATGTGCATATCATATCA
*
14503353 TATCATGTGCATGTCATATCA
1 -ATCATGTGCATATCATATCA
14503374 ATCATGT
1 ATCATGT
14503381 ATATCAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 23 0.92
21 2 0.08
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATATCA
Found at i:14524512 original size:17 final size:17
Alignment explanation
Indices: 14524490--14524534 Score: 81
Period size: 17 Copynumber: 2.6 Consensus size: 17
14524480 ATGACTAGCT
*
14524490 ATTTTTCTAGTTAGGTA
1 ATTTTTCAAGTTAGGTA
14524507 ATTTTTCAAGTTAGGTA
1 ATTTTTCAAGTTAGGTA
14524524 ATTTTTCAAGT
1 ATTTTTCAAGT
14524535 CAATCTTGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.27, C:0.07, G:0.16, T:0.51
Consensus pattern (17 bp):
ATTTTTCAAGTTAGGTA
Found at i:14533505 original size:27 final size:27
Alignment explanation
Indices: 14533464--14533636 Score: 222
Period size: 27 Copynumber: 6.4 Consensus size: 27
14533454 TGGATAAGTT
*
14533464 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCTTGTAGG
**
14533491 GTAGAATTATTGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCTTGTAGG
*
14533518 GTAGAATTACCGAAATACCCTTATAGG
1 GTAGAATTACCGAAATACCCTTGTAGG
*
14533545 ATAGAATTACCGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCTTGTAGG
* * * * *
14533572 GTAAAAATATTC-AAATACCCCTATAGG
1 GTAGAATTA-CCGAAATACCCTTGTAGG
*
14533599 GTAGAATTACCGAGATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCTTGTAGG
*
14533626 GTAAAATTACC
1 GTAGAATTACC
14533637 ATTTTGCCCC
Statistics
Matches: 123, Mismatches: 21, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
26 1 0.01
27 121 0.98
28 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCTTGTAGG
Found at i:14533600 original size:81 final size:81
Alignment explanation
Indices: 14533465--14533636 Score: 254
Period size: 81 Copynumber: 2.1 Consensus size: 81
14533455 GGATAAGTTG
* * * * *
14533465 TAGAATTACCGAAATACCCCTGTAGGGTAGAATTATTGAAATACCCTTGTAGGGTAGAATTACCG
1 TAGAATTACCGAAATACCCCTGTAGGGTAAAAATATTCAAATACCCCTATAGGGTAGAATTACCG
14533530 AAATACCCTTATAGGA
66 AAATACCCTTATAGGA
*
14533546 TAGAATTACCGAAATACCCTTGTAGGGTAAAAATATTCAAATACCCCTATAGGGTAGAATTACCG
1 TAGAATTACCGAAATACCCCTGTAGGGTAAAAATATTCAAATACCCCTATAGGGTAGAATTACCG
* * *
14533611 AGATACCCTTGTAGGG
66 AAATACCCTTATAGGA
*
14533627 TAAAATTACC
1 TAGAATTACC
14533637 ATTTTGCCCC
Statistics
Matches: 81, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 81 1.00
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.27
Consensus pattern (81 bp):
TAGAATTACCGAAATACCCCTGTAGGGTAAAAATATTCAAATACCCCTATAGGGTAGAATTACCG
AAATACCCTTATAGGA
Found at i:14534295 original size:19 final size:19
Alignment explanation
Indices: 14534273--14534317 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
14534263 TGTTCTGGCA
*
14534273 GCCTTGCTGCAATCTGGTG
1 GCCTCGCTGCAATCTGGTG
14534292 GCCTCGCTGCAATCTGGTG
1 GCCTCGCTGCAATCTGGTG
14534311 GCCTCGC
1 GCCTCGC
14534318 CACATATATC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.09, C:0.33, G:0.31, T:0.27
Consensus pattern (19 bp):
GCCTCGCTGCAATCTGGTG
Found at i:14541551 original size:18 final size:18
Alignment explanation
Indices: 14541528--14541585 Score: 70
Period size: 18 Copynumber: 3.4 Consensus size: 18
14541518 TTTCTGTTAT
14541528 TTTTATTAGATTTTAGAA
1 TTTTATTAGATTTTAGAA
*
14541546 TTTTA-T---TTTTATTAA
1 TTTTATTAGATTTTA-GAA
14541561 TTTTATTAGATTTTAGAA
1 TTTTATTAGATTTTAGAA
14541579 TTTTATT
1 TTTTATT
14541586 TTTATTCTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 5 0.15
15 7 0.21
16 1 0.03
17 1 0.03
18 14 0.42
19 5 0.15
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (18 bp):
TTTTATTAGATTTTAGAA
Found at i:14541565 original size:33 final size:33
Alignment explanation
Indices: 14541528--14541591 Score: 128
Period size: 33 Copynumber: 1.9 Consensus size: 33
14541518 TTTCTGTTAT
14541528 TTTTATTAGATTTTAGAATTTTATTTTTATTAA
1 TTTTATTAGATTTTAGAATTTTATTTTTATTAA
14541561 TTTTATTAGATTTTAGAATTTTATTTTTATT
1 TTTTATTAGATTTTAGAATTTTATTTTTATT
14541592 CTTTATTTCG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (33 bp):
TTTTATTAGATTTTAGAATTTTATTTTTATTAA
Found at i:14543395 original size:10 final size:11
Alignment explanation
Indices: 14543352--14543395 Score: 56
Period size: 11 Copynumber: 4.2 Consensus size: 11
14543342 ATCAAGAGTC
14543352 AAAAGGAGCCA
1 AAAAGGAGCCA
*
14543363 AAAACGAGCCA
1 AAAAGGAGCCA
*
14543374 AAAAGG-GACA
1 AAAAGGAGCCA
14543384 AAAAGGA-CCA
1 AAAAGGAGCCA
14543394 AA
1 AA
14543396 TTGAGAAGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
10 13 0.46
11 15 0.54
ACGTcount: A:0.59, C:0.18, G:0.23, T:0.00
Consensus pattern (11 bp):
AAAAGGAGCCA
Found at i:14554204 original size:21 final size:22
Alignment explanation
Indices: 14554180--14554221 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
14554170 CTACAGCACA
14554180 GGCGTG-CCCCAGGGTCACACG
1 GGCGTGTCCCCAGGGTCACACG
**
14554201 GGCGTGTCCCTTGGGTCACAC
1 GGCGTGTCCCCAGGGTCACAC
14554222 AGGCATGTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.12, C:0.36, G:0.36, T:0.17
Consensus pattern (22 bp):
GGCGTGTCCCCAGGGTCACACG
Found at i:14558879 original size:46 final size:46
Alignment explanation
Indices: 14558812--14558904 Score: 141
Period size: 46 Copynumber: 2.0 Consensus size: 46
14558802 AAATTGGGAA
* *
14558812 ATTTGCCTAATGGTCACTCCCACTCCCACATTTCCCTTACTTTAGC
1 ATTTGCCTAATGGCCACTCCCACTCCCACATTCCCCTTACTTTAGC
* * *
14558858 ATTTTCCTAGTGGCCACTCCCACTCTCACATTCCCCTTACTTTAGC
1 ATTTGCCTAATGGCCACTCCCACTCCCACATTCCCCTTACTTTAGC
14558904 A
1 A
14558905 ATTGATCATT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.19, C:0.38, G:0.09, T:0.34
Consensus pattern (46 bp):
ATTTGCCTAATGGCCACTCCCACTCCCACATTCCCCTTACTTTAGC
Found at i:14563263 original size:41 final size:41
Alignment explanation
Indices: 14563237--14563320 Score: 150
Period size: 41 Copynumber: 2.0 Consensus size: 41
14563227 TAGTTGCATG
*
14563237 TTAGGCTAAATCACATTAGGGATCATTGCATGTAGATTAAT
1 TTAGGCTAAATCACATTAGGGATCATTGCATATAGATTAAT
*
14563278 TTAGGCTAAATCACATTAGGGATCATTGCATCTAGATTAAT
1 TTAGGCTAAATCACATTAGGGATCATTGCATATAGATTAAT
14563319 TT
1 TT
14563321 TACATAATTT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.36
Consensus pattern (41 bp):
TTAGGCTAAATCACATTAGGGATCATTGCATATAGATTAAT
Found at i:14569056 original size:10 final size:10
Alignment explanation
Indices: 14569041--14569065 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
14569031 AGGTTTTAAT
14569041 TTTTAAAATA
1 TTTTAAAATA
14569051 TTTTAAAATA
1 TTTTAAAATA
14569061 TTTTA
1 TTTTA
14569066 TTTTGTCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (10 bp):
TTTTAAAATA
Found at i:14570728 original size:12 final size:12
Alignment explanation
Indices: 14570712--14570750 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
14570702 CTAATGTCAT
14570712 CATCAATGCCAA
1 CATCAATGCCAA
* **
14570724 TATCAATGCCCG
1 CATCAATGCCAA
14570736 CATCAATGCCAA
1 CATCAATGCCAA
14570748 CAT
1 CAT
14570751 ATCAGGGTTT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.36, C:0.33, G:0.10, T:0.21
Consensus pattern (12 bp):
CATCAATGCCAA
Found at i:14571493 original size:28 final size:30
Alignment explanation
Indices: 14571461--14571528 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 30
14571451 ACAAATGAAA
*
14571461 TACAACAAAAATG-AATG-AATAGA-TTTTG
1 TACAA-AAAAATGCAATGTAATAAATTTTTG
*
14571489 TACAAAAAAA-GCATTGTAATAAATTTTTG
1 TACAAAAAAATGCAATGTAATAAATTTTTG
14571518 TACAAAAAAAT
1 TACAAAAAAAT
14571529 ATGTTAACGA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
26 1 0.03
27 8 0.24
28 10 0.29
29 15 0.44
ACGTcount: A:0.53, C:0.07, G:0.10, T:0.29
Consensus pattern (30 bp):
TACAAAAAAATGCAATGTAATAAATTTTTG
Found at i:14573779 original size:18 final size:18
Alignment explanation
Indices: 14573756--14573794 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
14573746 TTCGCTACCC
14573756 CTTCTTCCTC-ATCTGCAT
1 CTTCTTCCTCAAT-TGCAT
14573774 CTTCTTCCTCAATTGCAT
1 CTTCTTCCTCAATTGCAT
14573792 CTT
1 CTT
14573795 TCTTGTCATC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.13, C:0.36, G:0.05, T:0.46
Consensus pattern (18 bp):
CTTCTTCCTCAATTGCAT
Found at i:14577631 original size:12 final size:10
Alignment explanation
Indices: 14577595--14577626 Score: 50
Period size: 9 Copynumber: 3.4 Consensus size: 10
14577585 AAATTTAAAA
14577595 AATATTTTTT
1 AATATTTTTT
14577605 -ATATTTTTT
1 AATATTTTTT
14577614 AATA-TTTTT
1 AATATTTTTT
14577623 AATA
1 AATA
14577627 ATATTATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 18 0.86
10 3 0.14
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (10 bp):
AATATTTTTT
Found at i:14578408 original size:21 final size:21
Alignment explanation
Indices: 14578374--14578417 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
14578364 AAGTCTCTAC
*
14578374 AATTTCTCCCTAAAGCTCTCA
1 AATTTCTCACTAAAGCTCTCA
* **
14578395 AATTTCTCATTAAATTTCTCA
1 AATTTCTCACTAAAGCTCTCA
14578416 AA
1 AA
14578418 GCTCTTTATA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.34, C:0.25, G:0.02, T:0.39
Consensus pattern (21 bp):
AATTTCTCACTAAAGCTCTCA
Found at i:14583848 original size:126 final size:126
Alignment explanation
Indices: 14583683--14584436 Score: 1066
Period size: 126 Copynumber: 6.0 Consensus size: 126
14583673 GGTCAATCAT
**
14583683 GAACTACTGTAGATTAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTGACATTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTGACATTGCATC
* * * * *
14583748 CTACTTGAAGCGATTTTGACACTATTTGTTCAAAAATATCTTCTCAAAATTATTTTTTCAG
66 CTGCTTAAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAG
* * *
14583809 GAACTACTCTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTTAGAAATTTTGTTGACATTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTGACATTGCATC
*
14583874 TTGCTTAAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAG
66 CTGCTTAAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAG
* * * * *
14583935 GAACTACTATAGAAAAAGGGCATCCATGTAGGAGCTTTTTTCAGAAATTTTGCTGACATTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTGACATTGCATC
14584000 CTGCTTAAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTTCAG
66 CTGCTTAAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTA-TTTTTTCAG
* *
14584062 GAACTACTGTAGAAAAAGAGCGTCCACATGGGAGCTTTTTTCTGAAATTTTGCTGACATTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTGACATTGCATC
* * * * * *
14584127 TTGC-TAGAAACATTTTTGACATTATTTGTTCAAAAACCTCTTCTCAAAATTATTTTTTCAG
66 CTGCTTA-AAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAG
* * * *
14584188 GAACTACTGTAGAAAAAGAGCGTTCACGTGGGAGCTTTTTT-ATGTAATTTTG-TAGATAGTGCA
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCA-GAAATTTTGCT-GACATTGCA
** * *
14584251 TCCTGCTTAAAGCGTTTTTGACACTATTTGTTCAGAAATGTCTTTTCAAAATTATTTTTTCAT
64 TCCTGCTTAAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAG
* * * * * *
14584314 GAAGTACTGTAGAAAAAGAGCGTCCACGTGAGAGCTTTTTTCTGTAATTTTGCTGACAGTGCATT
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTGACATTGCATC
* * *
14584379 CTGCTTGAAGCGTTCTTGACACTATTTGTTCAGAAACGTCTTCAT-AAAATTATTTTTT
66 CTGCTTAAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTC-TCAAAATTATTTTTT
14584437 TAGGGTACAA
Statistics
Matches: 563, Mismatches: 57, Indels: 16
0.89 0.09 0.03
Matches are distributed among these distances:
125 1 0.00
126 448 0.80
127 114 0.20
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.38
Consensus pattern (126 bp):
GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTGACATTGCATC
CTGCTTAAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAG
Found at i:14584392 original size:379 final size:379
Alignment explanation
Indices: 14583683--14584437 Score: 1140
Period size: 379 Copynumber: 2.0 Consensus size: 379
14583673 GGTCAATCAT
** *
14583683 GAACTACTGTAGATTAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTGACATTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACATGGGAGCTTTTTTCAGAAATTTTGCTGACATTGCATC
* * *
14583748 CTACTTGAAGCGATTTTGACACTATTTGTTCAAAAATATCTTCTCAAAATTATTTTTTCAGGAAC
66 CTACTAGAAACGATTTTGACACTATTTGTTCAAAAACATCTTCTCAAAATTATTTTTTCAGGAAC
* * *
14583813 TACTCTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTTAGAAATTTTGTTGACATTGCATCTTGC
131 TACTCTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTTAGAAATTTTGTAGACAGTGCATCCTGC
14583878 TTAAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGGAACTACT
196 TTAAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGGAACTACT
* * *
14583943 ATAGAAAAAGGGCATCCATGTAGGAGCTTTTTTCAGAAATTTTGCTGACATTGCATCCTGCTTAA
261 ATAGAAAAAGAGCATCCACGTAGGAGCTTTTTTCAGAAATTTTGCTGACAGTGCATCCTGCTTAA
*
14584008 AGCGTTTTTGACACTATTTGTTCAGAAACATCTTC-TCAAAATTATTTTTTTCAG
326 AGCGTTCTTGACACTATTTGTTCAGAAACATCTTCAT-AAAATTATTTTTTTCAG
*
14584062 GAACTACTGTAGAAAAAGAGCGTCCACATGGGAGCTTTTTTCTGAAATTTTGCTGACATTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACATGGGAGCTTTTTTCAGAAATTTTGCTGACATTGCATC
* * * *
14584127 TTGCTAGAAAC-ATTTTTGACATTATTTGTTCAAAAACCTCTTCTCAAAATTATTTTTTCAGGAA
66 CTACTAGAAACGA-TTTTGACACTATTTGTTCAAAAACATCTTCTCAAAATTATTTTTTCAGGAA
* * * *
14584191 CTACTGTAGAAAAAGAGCGTTCACGTGGGAGC-TTTTTTATGTAATTTTGTAGATAGTGCATCCT
130 CTACTCTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTTA-GAAATTTTGTAGACAGTGCATCCT
** * * *
14584255 GCTTAAAGCGTTTTTGACACTATTTGTTCAGAAATGTCTTTTCAAAATTATTTTTTCATGAAGTA
194 GCTTAAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGGAACTA
* * * * *
14584320 CTGTAGAAAAAGAGCGTCCACGT-GAGAGCTTTTTTCTGTAATTTTGCTGACAGTGCATTCTGCT
259 CTATAGAAAAAGAGCATCCACGTAG-GAGCTTTTTTCAGAAATTTTGCTGACAGTGCATCCTGCT
* *
14584384 TGAAGCGTTCTTGACACTATTTGTTCAGAAACGTCTTCATAAAATTATTTTTTT
323 TAAAGCGTTCTTGACACTATTTGTTCAGAAACATCTTCATAAAATTATTTTTTT
14584438 AGGGTACAAA
Statistics
Matches: 338, Mismatches: 34, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
378 9 0.03
379 328 0.97
380 1 0.00
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.38
Consensus pattern (379 bp):
GAACTACTGTAGAAAAAGAGCGTCCACATGGGAGCTTTTTTCAGAAATTTTGCTGACATTGCATC
CTACTAGAAACGATTTTGACACTATTTGTTCAAAAACATCTTCTCAAAATTATTTTTTCAGGAAC
TACTCTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTTAGAAATTTTGTAGACAGTGCATCCTGC
TTAAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGGAACTACT
ATAGAAAAAGAGCATCCACGTAGGAGCTTTTTTCAGAAATTTTGCTGACAGTGCATCCTGCTTAA
AGCGTTCTTGACACTATTTGTTCAGAAACATCTTCATAAAATTATTTTTTTCAG
Found at i:14584640 original size:17 final size:17
Alignment explanation
Indices: 14584618--14584682 Score: 64
Period size: 17 Copynumber: 3.9 Consensus size: 17
14584608 TAATTTTAAC
*
14584618 TTATTTAAAACACTAAT
1 TTATTTAAAACCCTAAT
14584635 TTATTTAAAAACCCTAA-
1 TTATTT-AAAACCCTAAT
** *
14584652 --ACCTAAAACTCTAAT
1 TTATTTAAAACCCTAAT
14584667 TTATTTAAAACCCTAA
1 TTATTTAAAACCCTAA
14584683 CTTAATTTAT
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
14 9 0.24
15 2 0.05
17 17 0.46
18 9 0.24
ACGTcount: A:0.46, C:0.18, G:0.00, T:0.35
Consensus pattern (17 bp):
TTATTTAAAACCCTAAT
Found at i:14584680 original size:31 final size:32
Alignment explanation
Indices: 14584623--14584682 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
14584613 TTAACTTATT
14584623 TAAAACACTAATTTATTTAAAAACCCTAAACC
1 TAAAACACTAATTTATTTAAAAACCCTAAACC
*
14584655 TAAAACTCTAATTTATTT-AAAACCCTAA
1 TAAAACACTAATTTATTTAAAAACCCTAA
14584683 CTTAATTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
31 10 0.37
32 17 0.63
ACGTcount: A:0.48, C:0.20, G:0.00, T:0.32
Consensus pattern (32 bp):
TAAAACACTAATTTATTTAAAAACCCTAAACC
Found at i:14584691 original size:22 final size:23
Alignment explanation
Indices: 14584658--14584704 Score: 87
Period size: 22 Copynumber: 2.1 Consensus size: 23
14584648 CTAAACCTAA
14584658 AACTCTAATTTATTTAAAACCCT
1 AACTCTAATTTATTTAAAACCCT
14584681 AACT-TAATTTATTTAAAACCCT
1 AACTCTAATTTATTTAAAACCCT
14584703 AA
1 AA
14584705 AAACCCTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 20 0.83
23 4 0.17
ACGTcount: A:0.43, C:0.19, G:0.00, T:0.38
Consensus pattern (23 bp):
AACTCTAATTTATTTAAAACCCT
Found at i:14584708 original size:31 final size:34
Alignment explanation
Indices: 14584673--14584748 Score: 90
Period size: 35 Copynumber: 2.3 Consensus size: 34
14584663 TAATTTATTT
14584673 AAAACCCT-A-ACTTAATTTATTTAA-AACCCTA
1 AAAACCCTAATACTTAATTTATTTAATAACCCTA
14584704 AAAACCCTAATTTACTTAATTTATTTAATAA-CCT-
1 AAAACCCTAA--TACTTAATTTATTTAATAACCCTA
*
14584738 TAAACCCTAAT
1 AAAACCCTAAT
14584749 TTAAATAATT
Statistics
Matches: 39, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
31 8 0.21
32 2 0.05
34 9 0.23
35 18 0.46
36 2 0.05
ACGTcount: A:0.43, C:0.21, G:0.00, T:0.36
Consensus pattern (34 bp):
AAAACCCTAATACTTAATTTATTTAATAACCCTA
Found at i:14584748 original size:34 final size:35
Alignment explanation
Indices: 14584682--14584751 Score: 108
Period size: 35 Copynumber: 2.0 Consensus size: 35
14584672 TAAAACCCTA
14584682 ACTTAATTTATTTAAAACCCTAAAAACCCTAATTT
1 ACTTAATTTATTTAAAACCCTAAAAACCCTAATTT
*
14584717 ACTTAATTTATTTAATAA-CCT-TAAACCCTAATTT
1 ACTTAATTTATTTAA-AACCCTAAAAACCCTAATTT
14584751 A
1 A
14584752 AATAATTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
34 13 0.39
35 18 0.55
36 2 0.06
ACGTcount: A:0.41, C:0.19, G:0.00, T:0.40
Consensus pattern (35 bp):
ACTTAATTTATTTAAAACCCTAAAAACCCTAATTT
Found at i:14584758 original size:34 final size:35
Alignment explanation
Indices: 14584685--14584767 Score: 100
Period size: 34 Copynumber: 2.4 Consensus size: 35
14584675 AACCCTAACT
**
14584685 TAATTTATTTAAAACCCTAAAAACCCTAATTTACT
1 TAATTTATTTAAAACCCTAAAAACCCTAATTTAAA
*
14584720 TAATTTATTTAATAA-CCT-TAAACCCTAATTTAAA
1 TAATTTATTTAA-AACCCTAAAAACCCTAATTTAAA
14584754 TAATTT-TTATAAAA
1 TAATTTATT-TAAAA
14584768 TAACTCTAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
33 4 0.09
34 22 0.51
35 15 0.35
36 2 0.05
ACGTcount: A:0.45, C:0.14, G:0.00, T:0.41
Consensus pattern (35 bp):
TAATTTATTTAAAACCCTAAAAACCCTAATTTAAA
Found at i:14584770 original size:36 final size:34
Alignment explanation
Indices: 14584685--14584787 Score: 95
Period size: 36 Copynumber: 2.9 Consensus size: 34
14584675 AACCCTAACT
* **
14584685 TAATTTATTTAA-AACCCTAAAAACCCTAATTTACT
1 TAATTTATTTAATAACTCT--AAACCCTAATTTAAA
14584720 TAATTTATTTAATAAC-CTTAAACCCTAATTTAAA
1 TAATTTATTTAATAACTC-TAAACCCTAATTTAAA
*
14584754 TAATTT-TTATAAAATAACTCTAAATCCTAATTTA
1 TAATTTATT-T--AATAACTCTAAACCCTAATTTA
14584788 TTTTTAAAAT
Statistics
Matches: 59, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
33 2 0.03
34 20 0.34
35 13 0.22
36 23 0.39
37 1 0.02
ACGTcount: A:0.44, C:0.16, G:0.00, T:0.41
Consensus pattern (34 bp):
TAATTTATTTAATAACTCTAAACCCTAATTTAAA
Found at i:14595095 original size:21 final size:21
Alignment explanation
Indices: 14595069--14595108 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
14595059 CCAATACATC
14595069 CCTTTCATCTCGAGTATTCCT
1 CCTTTCATCTCGAGTATTCCT
14595090 CCTTTCATCTCGAGTATTC
1 CCTTTCATCTCGAGTATTC
14595109 TCCATTTGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.15, C:0.33, G:0.10, T:0.42
Consensus pattern (21 bp):
CCTTTCATCTCGAGTATTCCT
Found at i:14595337 original size:93 final size:93
Alignment explanation
Indices: 14595225--14595396 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
14595215 GCCCATAAGT
* * *
14595225 GAACTCGGACTCAACTCAACGAACTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAACTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
14595290 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
**
14595318 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAACTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
*
14595383 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
14595397 CAAATATCCT
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAACTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:14595392 original size:46 final size:46
Alignment explanation
Indices: 14595217--14595392 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
14595207 TGTAACCCGC
* * *
14595217 CCATAAGTGAACTCGGACTCAACTCAACGAACTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
14595263 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
14595309 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
14595356 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
14595393 TGCCCAAATA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 68 0.62
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:14602226 original size:40 final size:40
Alignment explanation
Indices: 14602182--14602261 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
14602172 TTGCTTGCAG
14602182 ATTGATTTAATATATGTATCCTATTATTTTAGAATTCTTT
1 ATTGATTTAATATATGTATCCTATTATTTTAGAATTCTTT
14602222 ATTGATTTAATATATGTATCCTATTATTTTAGAATTCTTT
1 ATTGATTTAATATATGTATCCTATTATTTTAGAATTCTTT
14602262 CTCTTTTTCA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.55
Consensus pattern (40 bp):
ATTGATTTAATATATGTATCCTATTATTTTAGAATTCTTT
Found at i:14602246 original size:22 final size:21
Alignment explanation
Indices: 14602186--14602250 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
14602176 TTGCAGATTG
14602186 ATTTAATATATGTATCCTATT
1 ATTTAATATATGTATCCTATT
* * * *
14602207 ATTTTAGA-AT-TCT-TTATT
1 ATTTAATATATGTATCCTATT
14602225 GATTTAATATATGTATCCTATT
1 -ATTTAATATATGTATCCTATT
14602247 ATTT
1 ATTT
14602251 TAGAATTCTT
Statistics
Matches: 32, Mismatches: 8, Indels: 8
0.67 0.17 0.17
Matches are distributed among these distances:
18 4 0.12
19 8 0.25
20 4 0.12
21 12 0.38
22 4 0.12
ACGTcount: A:0.31, C:0.08, G:0.06, T:0.55
Consensus pattern (21 bp):
ATTTAATATATGTATCCTATT
Found at i:14602252 original size:22 final size:22
Alignment explanation
Indices: 14602187--14602252 Score: 63
Period size: 22 Copynumber: 3.2 Consensus size: 22
14602177 TGCAGATTGA
14602187 TTTAATATATGTATCCTATTAT
1 TTTAATATATGTATCCTATTAT
*
14602209 TTTAGA-AT-TCT-T--TATTGA-
1 TTTA-ATATATGTATCCTATT-AT
14602227 TTTAATATATGTATCCTATTAT
1 TTTAATATATGTATCCTATTAT
14602249 TTTA
1 TTTA
14602253 GAATTCTTTC
Statistics
Matches: 34, Mismatches: 2, Indels: 16
0.65 0.04 0.31
Matches are distributed among these distances:
17 1 0.03
18 10 0.29
19 3 0.09
20 2 0.06
21 3 0.09
22 14 0.41
23 1 0.03
ACGTcount: A:0.30, C:0.08, G:0.06, T:0.56
Consensus pattern (22 bp):
TTTAATATATGTATCCTATTAT
Found at i:14602307 original size:18 final size:19
Alignment explanation
Indices: 14602284--14602324 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
14602274 GATGCATATT
14602284 AATTTTTGAATTAATT-TA
1 AATTTTTGAATTAATTATA
* *
14602302 AATTTTTTATTTAATTATA
1 AATTTTTGAATTAATTATA
14602321 AATT
1 AATT
14602325 ATTATGATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (19 bp):
AATTTTTGAATTAATTATA
Found at i:14602576 original size:28 final size:28
Alignment explanation
Indices: 14602534--14602594 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
14602524 AAAGCCTTAT
*
14602534 ACATATATATATATAAGGTTGGTAAAAA
1 ACATATATATATATAAGATTGGTAAAAA
*
14602562 ACATATATATTTATAAGATTGGTAAAAA
1 ACATATATATATATAAGATTGGTAAAAA
14602590 A-ATAT
1 ACATAT
14602595 TTATGAATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
27 4 0.13
28 27 0.87
ACGTcount: A:0.51, C:0.03, G:0.11, T:0.34
Consensus pattern (28 bp):
ACATATATATATATAAGATTGGTAAAAA
Found at i:14624186 original size:31 final size:31
Alignment explanation
Indices: 14624151--14624212 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
14624141 TGTCAAGCAA
14624151 GGTTACACTGCTAACTTCACTATGGAGGGTT
1 GGTTACACTGCTAACTTCACTATGGAGGGTT
14624182 GGTTACACTGCTAACTTCACTATGGAGGGTT
1 GGTTACACTGCTAACTTCACTATGGAGGGTT
14624213 TAATATGTGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32
Consensus pattern (31 bp):
GGTTACACTGCTAACTTCACTATGGAGGGTT
Found at i:14625796 original size:25 final size:25
Alignment explanation
Indices: 14625761--14625830 Score: 131
Period size: 25 Copynumber: 2.8 Consensus size: 25
14625751 TAGGCCCATT
14625761 TTCACAGCTCATGTGAGCATTCTGA
1 TTCACAGCTCATGTGAGCATTCTGA
*
14625786 TTCACAACTCATGTGAGCATTCTGA
1 TTCACAGCTCATGTGAGCATTCTGA
14625811 TTCACAGCTCATGTGAGCAT
1 TTCACAGCTCATGTGAGCAT
14625831 ACATGTACAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (25 bp):
TTCACAGCTCATGTGAGCATTCTGA
Found at i:14626982 original size:15 final size:16
Alignment explanation
Indices: 14626962--14626991 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
14626952 TGGTGCCTTC
14626962 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
14626977 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
14626992 AGCATGTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:14628462 original size:22 final size:24
Alignment explanation
Indices: 14628434--14628478 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 24
14628424 ATGCCAAGTG
14628434 TGTGATAAA-AATA-AAATACATA
1 TGTGATAAATAATATAAATACATA
*
14628456 TGTGATAAATAATATACATACAT
1 TGTGATAAATAATATAAATACAT
14628479 TTGTAATACA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 9 0.45
23 4 0.20
24 7 0.35
ACGTcount: A:0.53, C:0.07, G:0.09, T:0.31
Consensus pattern (24 bp):
TGTGATAAATAATATAAATACATA
Found at i:14628947 original size:20 final size:19
Alignment explanation
Indices: 14628922--14628962 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
14628912 AAAGCAGGGG
14628922 AAGGAAAGAAAGAAAGAAGA
1 AAGGAAAGAAA-AAAGAAGA
* *
14628942 AAGGAAAGGAAAAAGGAGA
1 AAGGAAAGAAAAAAGAAGA
14628961 AA
1 AA
14628963 TAGGGATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (19 bp):
AAGGAAAGAAAAAAGAAGA
Found at i:14630101 original size:53 final size:53
Alignment explanation
Indices: 14630030--14630157 Score: 184
Period size: 53 Copynumber: 2.4 Consensus size: 53
14630020 CGAATATTGC
*
14630030 TACTGTTACTGTTACTATTACTATTTCGAATTTGTTCCGATGAGGTACTCTGTG
1 TACTG-TACTGTTACTATTACTATTCCGAATTTGTTCCGATGAGGTACTCTGTG
** *
14630084 TACTGTACTGTTACTATTACCGTTCCGAATTTGTTCTGATGAGGTACTCTGTG
1 TACTGTACTGTTACTATTACTATTCCGAATTTGTTCCGATGAGGTACTCTGTG
* * *
14630137 TACCGTACTGCTACTGTTACT
1 TACTGTACTGTTACTATTACT
14630158 GTTACTATTT
Statistics
Matches: 66, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
53 61 0.92
54 5 0.08
ACGTcount: A:0.20, C:0.20, G:0.19, T:0.42
Consensus pattern (53 bp):
TACTGTACTGTTACTATTACTATTCCGAATTTGTTCCGATGAGGTACTCTGTG
Found at i:14630306 original size:19 final size:19
Alignment explanation
Indices: 14630284--14630333 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 19
14630274 AGATCGACTA
14630284 TTACTGAATAATTTAATTG
1 TTACTGAATAATTTAATTG
* * * *
14630303 TTACTGTAT-ATCTGATTT
1 TTACTGAATAATTTAATTG
14630321 TTACTGAATAATT
1 TTACTGAATAATT
14630334 GACTGTTAAT
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
18 14 0.58
19 10 0.42
ACGTcount: A:0.32, C:0.08, G:0.10, T:0.50
Consensus pattern (19 bp):
TTACTGAATAATTTAATTG
Found at i:14636212 original size:12 final size:12
Alignment explanation
Indices: 14636195--14636219 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
14636185 GCCGACTACT
14636195 GTTACTGTTACC
1 GTTACTGTTACC
14636207 GTTACTGTTACC
1 GTTACTGTTACC
14636219 G
1 G
14636220 ATTCGGCACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (12 bp):
GTTACTGTTACC
Found at i:14636373 original size:53 final size:53
Alignment explanation
Indices: 14636260--14636373 Score: 131
Period size: 53 Copynumber: 2.2 Consensus size: 53
14636250 CTATTACCGT
* *
14636260 TACTGTTATTGTTTCGAATTTATTCCGATGAGGTACTCTGTGTACCGTACTAT
1 TACTGTTATCGTTTCGAATTTATTCCGATGAGGTACTCTGTGTACCGTACTAC
* * * * * * *
14636313 TATTGTTATCG-TTCTGGATTTGTTCTGATGAGGTACTTTGTGTACCGTATTGC
1 TACTGTTATCGTTTC-GAATTTATTCCGATGAGGTACTCTGTGTACCGTACTAC
14636366 TACTGTTA
1 TACTGTTA
14636374 CTGTTACTGT
Statistics
Matches: 50, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
52 3 0.06
53 47 0.94
ACGTcount: A:0.18, C:0.15, G:0.21, T:0.46
Consensus pattern (53 bp):
TACTGTTATCGTTTCGAATTTATTCCGATGAGGTACTCTGTGTACCGTACTAC
Found at i:14636522 original size:19 final size:19
Alignment explanation
Indices: 14636500--14636551 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 19
14636490 AAAGATCGAC
14636500 TGTTACTGAATAATTTAAT
1 TGTTACTGAATAATTTAAT
* *
14636519 TGTTACT--ATATATCTGAT
1 TGTTACTGAATA-ATTTAAT
*
14636537 TTTTACTGAATAATT
1 TGTTACTGAATAATT
14636552 GACTGTTAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
17 3 0.12
18 11 0.42
19 9 0.35
20 3 0.12
ACGTcount: A:0.33, C:0.08, G:0.10, T:0.50
Consensus pattern (19 bp):
TGTTACTGAATAATTTAAT
Found at i:14636632 original size:36 final size:36
Alignment explanation
Indices: 14636573--14636656 Score: 87
Period size: 36 Copynumber: 2.3 Consensus size: 36
14636563 GATAACCGAT
* * * * *
14636573 TAATTGATTGATACTGAATAACTGATTATTATTGAA
1 TAATTGATTGTTACCGAACAACTGACTATTACTGAA
* *
14636609 TAATTGATTGTTGCCGAACAACTGACTGTTACTGAA
1 TAATTGATTGTTACCGAACAACTGACTATTACTGAA
* *
14636645 TAAATAATTGTT
1 TAATTGATTGTT
14636657 CTGATTGACT
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.39
Consensus pattern (36 bp):
TAATTGATTGTTACCGAACAACTGACTATTACTGAA
Found at i:14639077 original size:26 final size:26
Alignment explanation
Indices: 14639041--14639099 Score: 91
Period size: 26 Copynumber: 2.3 Consensus size: 26
14639031 CATTTTCTCG
14639041 AAATTTTACTAAGGGCAAAATCATCA
1 AAATTTTACTAAGGGCAAAATCATCA
* * *
14639067 AAATTTTACTAGGGGTAAAATCATTA
1 AAATTTTACTAAGGGCAAAATCATCA
14639093 AAATTTT
1 AAATTTT
14639100 GTTAGGGATA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.44, C:0.10, G:0.12, T:0.34
Consensus pattern (26 bp):
AAATTTTACTAAGGGCAAAATCATCA
Done.