Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009634.1 Hibiscus syriacus cultivar Beakdansim tig00117034_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 17174986
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 29 of 78
Found at i:6014487 original size:18 final size:19
Alignment explanation
Indices: 6014438--6014487 Score: 68
Period size: 18 Copynumber: 2.7 Consensus size: 19
6014428 TTTCAAATAA
* *
6014438 TTTATATTTAATTAATTAT
1 TTTATATTTATTTTATTAT
6014457 TTTAT-TTTATTTTATTAT
1 TTTATATTTATTTTATTAT
6014475 TTTATATTT-TTTT
1 TTTATATTTATTTT
6014488 CCTTATCTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 20 0.71
19 8 0.29
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTATATTTATTTTATTAT
Found at i:6016736 original size:16 final size:16
Alignment explanation
Indices: 6016705--6016759 Score: 60
Period size: 16 Copynumber: 3.4 Consensus size: 16
6016695 CTAACATGCA
6016705 AACTATATAATGTATACT
1 AACTATATAA--TATACT
6016723 AACTATATAATATACT
1 AACTATATAATATACT
* *
6016739 AATTATTTAATAT-CT
1 AACTATATAATATACT
6016754 AA-TATA
1 AACTATA
6016760 ATATGCATTG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
14 3 0.09
15 4 0.12
16 17 0.50
18 10 0.29
ACGTcount: A:0.47, C:0.09, G:0.02, T:0.42
Consensus pattern (16 bp):
AACTATATAATATACT
Found at i:6018226 original size:17 final size:18
Alignment explanation
Indices: 6018204--6018241 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
6018194 CACTTTAGTT
6018204 TTTTTTCTTT-CTGTTTC
1 TTTTTTCTTTCCTGTTTC
*
6018221 TTTTTTCTTTCCTTTTTC
1 TTTTTTCTTTCCTGTTTC
6018239 TTT
1 TTT
6018242 CCTTTTTCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.00, C:0.18, G:0.03, T:0.79
Consensus pattern (18 bp):
TTTTTTCTTTCCTGTTTC
Found at i:6018236 original size:11 final size:11
Alignment explanation
Indices: 6018217--6018288 Score: 83
Period size: 11 Copynumber: 6.3 Consensus size: 11
6018207 TTTCTTTCTG
*
6018217 TTTCTTTTTTC
1 TTTCCTTTTTC
6018228 TTTCCTTTTTC
1 TTTCCTTTTTC
6018239 TTTCCTTTTTC
1 TTTCCTTTTTC
6018250 TCTT-CTTTTTC
1 T-TTCCTTTTTC
*
6018261 TTTCTTTTTTTC
1 TTTC-CTTTTTC
6018273 TTTTCACTTTTTC
1 -TTTC-CTTTTTC
6018286 TTT
1 TTT
6018289 TGCAACTGCG
Statistics
Matches: 53, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
10 2 0.04
11 30 0.57
12 11 0.21
13 10 0.19
ACGTcount: A:0.01, C:0.22, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTCCTTTTTC
Found at i:6018242 original size:22 final size:22
Alignment explanation
Indices: 6018217--6018288 Score: 92
Period size: 22 Copynumber: 3.1 Consensus size: 22
6018207 TTTCTTTCTG
6018217 TTTCTTTTTTCTTTCCTTTTTC
1 TTTCTTTTTTCTTTCCTTTTTC
*
6018239 TTTCCTTTTTCTCTT-CTTTTTC
1 TTTCTTTTTTCT-TTCCTTTTTC
6018261 TTTCTTTTTTTCTTTTCACTTTTTC
1 TTTC-TTTTTTC-TTTC-CTTTTTC
6018286 TTT
1 TTT
6018289 TGCAACTGCG
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
22 22 0.51
23 10 0.23
24 1 0.02
25 10 0.23
ACGTcount: A:0.01, C:0.22, G:0.00, T:0.76
Consensus pattern (22 bp):
TTTCTTTTTTCTTTCCTTTTTC
Found at i:6029701 original size:24 final size:25
Alignment explanation
Indices: 6029668--6029719 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 25
6029658 TTTTTTTTCT
*
6029668 TTTCTATTTCGTT-ATTTTCTTCATC
1 TTTCTATTTC-TTGATCTTCTTCATC
*
6029693 TTTCT-TTTCTTGATCTTCTTCTTC
1 TTTCTATTTCTTGATCTTCTTCATC
6029717 TTT
1 TTT
6029720 TATCATCATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 2 0.08
24 17 0.71
25 5 0.21
ACGTcount: A:0.08, C:0.21, G:0.04, T:0.67
Consensus pattern (25 bp):
TTTCTATTTCTTGATCTTCTTCATC
Found at i:6036286 original size:16 final size:15
Alignment explanation
Indices: 6036237--6036291 Score: 58
Period size: 16 Copynumber: 3.6 Consensus size: 15
6036227 ACTATCTAGT
6036237 ATATACTAATTATATA
1 ATATA-TAATTATATA
* *
6036253 ATATA-AACTATGTA
1 ATATATAATTATATA
*
6036267 ATATACTAATTATTTA
1 ATATA-TAATTATATA
6036283 ATATATAAT
1 ATATATAAT
6036292 ATAAAATGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
14 12 0.36
15 4 0.12
16 17 0.52
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (15 bp):
ATATATAATTATATA
Found at i:6041065 original size:23 final size:24
Alignment explanation
Indices: 6041038--6041096 Score: 93
Period size: 24 Copynumber: 2.5 Consensus size: 24
6041028 CAGTCGAAAC
*
6041038 TGCCACATAGAAT-TGCACCGAAG
1 TGCCACGTAGAATATGCACCGAAG
6041061 TGCCACGTAGAATATGCACCGAAG
1 TGCCACGTAGAATATGCACCGAAG
*
6041085 TTCCACGTAGAA
1 TGCCACGTAGAA
6041097 ATGTCCCCAA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
23 12 0.36
24 21 0.64
ACGTcount: A:0.34, C:0.25, G:0.22, T:0.19
Consensus pattern (24 bp):
TGCCACGTAGAATATGCACCGAAG
Found at i:6041118 original size:23 final size:23
Alignment explanation
Indices: 6041087--6041165 Score: 88
Period size: 23 Copynumber: 3.4 Consensus size: 23
6041077 CACCGAAGTT
* * *
6041087 CCACGTAGAAATGTCCCCAAGGA
1 CCACATAGAAATGTCTCAAAGGA
6041110 CCACATAGAAATGTCTCAAAGGA
1 CCACATAGAAATGTCTCAAAGGA
* * *
6041133 CCGCGA-AGAAAAGTCTCGAAGGA
1 CCAC-ATAGAAATGTCTCAAAGGA
6041156 CCACATAGAA
1 CCACATAGAA
6041166 TTATCCCGAA
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
22 1 0.02
23 45 0.96
24 1 0.02
ACGTcount: A:0.41, C:0.25, G:0.22, T:0.13
Consensus pattern (23 bp):
CCACATAGAAATGTCTCAAAGGA
Found at i:6050465 original size:20 final size:20
Alignment explanation
Indices: 6050436--6050481 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
6050426 CCAAATTTGG
* *
6050436 AGTGGCTGATAGTGGTTCAC
1 AGTGGTTGATAGTGGATCAC
*
6050456 AGTGGTTGATGGTGGATCAC
1 AGTGGTTGATAGTGGATCAC
6050476 AGTGGT
1 AGTGGT
6050482 CAAAGGTGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.20, C:0.11, G:0.39, T:0.30
Consensus pattern (20 bp):
AGTGGTTGATAGTGGATCAC
Found at i:6050489 original size:20 final size:20
Alignment explanation
Indices: 6050447--6050490 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
6050437 GTGGCTGATA
* ** *
6050447 GTGGTTCACAGTGGTTGATG
1 GTGGATCACAGTGGTCAAAG
6050467 GTGGATCACAGTGGTCAAAG
1 GTGGATCACAGTGGTCAAAG
6050487 GTGG
1 GTGG
6050491 TTTGACGATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.11, G:0.41, T:0.27
Consensus pattern (20 bp):
GTGGATCACAGTGGTCAAAG
Found at i:6055218 original size:2 final size:2
Alignment explanation
Indices: 6055211--6055237 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6055201 GAAAAACAAA
6055211 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
6055238 ATAAACATCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6056043 original size:14 final size:15
Alignment explanation
Indices: 6056026--6056057 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
6056016 ATATTTCTGG
6056026 AAAACGTTTTCCG-A
1 AAAACGTTTTCCGTA
6056040 AAAACGTTTTCCGTA
1 AAAACGTTTTCCGTA
6056055 AAA
1 AAA
6056058 TGAATTACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.41, C:0.19, G:0.12, T:0.28
Consensus pattern (15 bp):
AAAACGTTTTCCGTA
Found at i:6056240 original size:27 final size:29
Alignment explanation
Indices: 6056199--6056256 Score: 77
Period size: 27 Copynumber: 2.1 Consensus size: 29
6056189 TTATTTATCA
*
6056199 TAAAATTAATATTA-TTATTTTTTAAATAT
1 TAAAATTAATATTATTTA-TTATTAAATAT
6056228 TAAAA-TAAT-TTATTTATTATTAAATAT
1 TAAAATTAATATTATTTATTATTAAATAT
6056255 TA
1 TA
6056257 TTTTTATAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
27 15 0.56
28 7 0.26
29 5 0.19
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (29 bp):
TAAAATTAATATTATTTATTATTAAATAT
Found at i:6056489 original size:27 final size:26
Alignment explanation
Indices: 6056422--6056493 Score: 74
Period size: 27 Copynumber: 2.7 Consensus size: 26
6056412 AGATTAATAT
*
6056422 TAAATATATAAATAATATTATTCATTA
1 TAAATA-ATAAATAATATTATTCACTA
* *
6056449 TTAATAATTTAATAATATTATT-ACTA
1 TAAATAA-TAAATAATATTATTCACTA
6056475 TGAAATTAATAAATAATAT
1 T-AAA-TAATAAATAATAT
6056494 AAATTTTATT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
26 5 0.14
27 29 0.78
28 3 0.08
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.44
Consensus pattern (26 bp):
TAAATAATAAATAATATTATTCACTA
Found at i:6056601 original size:22 final size:23
Alignment explanation
Indices: 6056573--6056619 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
6056563 TTGATTATTT
6056573 TATTATAATATTAAAAATA-TAA
1 TATTATAATATTAAAAATATTAA
* *
6056595 TATTATATTATTAGAAATATTAA
1 TATTATAATATTAAAAATATTAA
6056618 TA
1 TA
6056620 AATATATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (23 bp):
TATTATAATATTAAAAATATTAA
Found at i:6056624 original size:22 final size:22
Alignment explanation
Indices: 6056581--6056641 Score: 54
Period size: 22 Copynumber: 2.8 Consensus size: 22
6056571 TTTATTATAA
*
6056581 TATTAAAAATATAATATTATAT
1 TATTAAAAATATAATATAATAT
*
6056603 TATTAGAAATATTAATA-AATAT
1 TATTAAAAATA-TAATATAATAT
* *
6056625 ATTTTAATAAT-TAATAT
1 -TATTAAAAATATAATAT
6056642 TTTGATTAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
21 5 0.16
22 14 0.45
23 12 0.39
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (22 bp):
TATTAAAAATATAATATAATAT
Found at i:6056887 original size:42 final size:42
Alignment explanation
Indices: 6056834--6056915 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
6056824 ACCAAACACT
* * *
6056834 GGAAAATATTTTCC-GAAAAATGAATTCCGTGAAACAAACAAG
1 GGAAAACATTTTCCAG-AAAACGAATTACGTGAAACAAACAAG
*
6056876 GGAAAACATTTTCCAGAAAACGAATTACGTGATACAAACA
1 GGAAAACATTTTCCAGAAAACGAATTACGTGAAACAAACA
6056916 CCCCAGACAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 34 0.97
43 1 0.03
ACGTcount: A:0.48, C:0.16, G:0.16, T:0.21
Consensus pattern (42 bp):
GGAAAACATTTTCCAGAAAACGAATTACGTGAAACAAACAAG
Found at i:6063677 original size:42 final size:41
Alignment explanation
Indices: 6063596--6063677 Score: 110
Period size: 42 Copynumber: 2.0 Consensus size: 41
6063586 CAAAAGTCTT
* * * *
6063596 ATAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTG
1 ATAGATGACCCGAAAGACTTAGCATCATGCTCGAAAGACTG
*
6063637 ATAGATGACCCGAAAGATTTAAGCATCATGCTCGAAAGACT
1 ATAGATGACCCGAAAGACTT-AGCATCATGCTCGAAAGACT
6063678 TACTGATAGC
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
41 17 0.49
42 18 0.51
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.23
Consensus pattern (41 bp):
ATAGATGACCCGAAAGACTTAGCATCATGCTCGAAAGACTG
Found at i:6063735 original size:259 final size:259
Alignment explanation
Indices: 6063273--6063958 Score: 1059
Period size: 259 Copynumber: 2.6 Consensus size: 259
6063263 ATTGGGTAAA
* *
6063273 AAACTTTGGAAATCACTTTCTCATTTTTTGAAAATCATGGGAAAACATCCTA-CCAGAAGGCCTT
1 AAACTTTGGAAATCGCTTTCTCATTTTTTGAAAATCATGGGAAAACATCCTACCCA-AAGGTCTT
* * * * * *
6063337 ATAGATGGCCTGAAGGACTTATCATCTTGCTTGAAAGATTGATAGATGATCCGAACGATTTAAGT
65 ATAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTGATAGATGACCCGAAAGATTTAAGC
*
6063402 ATCATGCTCAAAAGACTTACTGATGGCCCGAAGGACTTACAAATTTTGGAAATAGTTTACTAGGT
130 ATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACAAATTTTGGAAATAGTTTACTAGGT
* * *
6063467 AAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAACATTTCATTTTCTGAAAAGATTTAAATGAG
195 AAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAATTTCATTTTCTAAAAAGATATAAATGAG
* * ** *
6063532 AAACTTTGAAAATCGCTTTTTCATTTTCCGAAAATCATGGGAAAACATCCTACCCAAAAGTCTTA
1 AAACTTTGGAAATCGCTTTCTCATTTTTTGAAAATCATGGGAAAACATCCTACCCAAAGGTCTTA
6063597 TAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTGATAGATGACCCGAAAGATTTAAGCA
66 TAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTGATAGATGACCCGAAAGATTTAAGCA
*
6063662 TCATGCTCGAAAGACTTACTGATAGCCCGAAGGACTTACAAATTTTGGAAATAGTTTACTAGGTA
131 TCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACAAATTTTGGAAATAGTTTACTAGGTA
* *
6063727 ATAAACTTTGGTAATCGCTTTCTTACTTTTCAAAAATTTCATTTTCTAAAAAGATATAAATGAG
196 AGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAATTTCATTTTCTAAAAAGATATAAATGAG
* * * ***
6063791 AAACTTTGGAAATCGCTTTCTCATTTTTTGAATATCATGGGAAAACATCATGCTTGAAGGTCTTA
1 AAACTTTGGAAATCGCTTTCTCATTTTTTGAAAATCATGGGAAAACATCCTACCCAAAGGTCTTA
* * * * * *
6063856 TAGATGGCCCAAAGAACTTATCATCTTCCTCGAAATACTGACAGATGACCCGAAGGATTTAAGCA
66 TAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTGATAGATGACCCGAAAGATTTAAGCA
*
6063921 TCATGCTCGAAAGACTTATTGATGGCCCGAAGGACTTA
131 TCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTA
6063959 AGTATCATGC
Statistics
Matches: 387, Mismatches: 39, Indels: 2
0.90 0.09 0.00
Matches are distributed among these distances:
259 384 0.99
260 3 0.01
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (259 bp):
AAACTTTGGAAATCGCTTTCTCATTTTTTGAAAATCATGGGAAAACATCCTACCCAAAGGTCTTA
TAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTGATAGATGACCCGAAAGATTTAAGCA
TCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACAAATTTTGGAAATAGTTTACTAGGTA
AGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAATTTCATTTTCTAAAAAGATATAAATGAG
Found at i:6063978 original size:22 final size:22
Alignment explanation
Indices: 6063914--6063978 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 22
6063904 CCCGAAGGAT
*
6063914 TTAAGCATCATGCTCGAAAGAC
1 TTAAGTATCATGCTCGAAAGAC
* * *
6063936 TT-A-T-TGATGGCCCGAAGGAC
1 TTAAGTATCAT-GCTCGAAAGAC
6063956 TTAAGTATCATGCTCGAAAGAC
1 TTAAGTATCATGCTCGAAAGAC
6063978 T
1 T
6063979 GACAGATGAC
Statistics
Matches: 32, Mismatches: 7, Indels: 8
0.68 0.15 0.17
Matches are distributed among these distances:
19 3 0.09
20 11 0.34
21 2 0.06
22 13 0.41
23 3 0.09
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (22 bp):
TTAAGTATCATGCTCGAAAGAC
Found at i:6064001 original size:83 final size:84
Alignment explanation
Indices: 6063836--6064041 Score: 247
Period size: 83 Copynumber: 2.5 Consensus size: 84
6063826 CATGGGAAAA
* * * * * * * *
6063836 CATCATGCTTGAAGGTCTTATAGATGGCCCAAAGAACTT-ATCATCTTCCTCGAAATACTGACAG
1 CATCATGCTAGAAAGACTTATTGATGGCCCGAAGGACTTAATCATCATCCTCGAAAGACTGACAG
*
6063900 ATGACCCGAAGGATTTAAG
66 ATGACCCGAAAGATTTAAG
* *
6063919 CATCATGCTCGAAAGACTTATTGATGGCCCGAAGGACTTAAGT-ATCATGCTCGAAAGACTGACA
1 CATCATGCTAGAAAGACTTATTGATGGCCCGAAGGACTTAA-TCATCATCCTCGAAAGACTGACA
6063983 GATGACCCGAAAGA-TTAAG
65 GATGACCCGAAAGATTTAAG
* * * *
6064002 CATCATTCTAGAAAGACCTACTGATGGCCCGAAAGACTTA
1 CATCATGCTAGAAAGACTTATTGATGGCCCGAAGGACTTA
6064042 CAAATTTTGG
Statistics
Matches: 106, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
83 73 0.69
84 32 0.30
85 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (84 bp):
CATCATGCTAGAAAGACTTATTGATGGCCCGAAGGACTTAATCATCATCCTCGAAAGACTGACAG
ATGACCCGAAAGATTTAAG
Found at i:6064016 original size:41 final size:42
Alignment explanation
Indices: 6063884--6064041 Score: 176
Period size: 42 Copynumber: 3.8 Consensus size: 42
6063874 TATCATCTTC
* * *
6063884 CTCGAAATACTGACAGATGACCCGAAGGATTTAAGCATCATG
1 CTCGAAAGACTGACAGATGACCCGAAAGACTTAAGCATCATG
* ** * * *
6063926 CTCGAAAGACTTATTGATGGCCCGAAGGACTTAAGTATCATG
1 CTCGAAAGACTGACAGATGACCCGAAAGACTTAAGCATCATG
*
6063968 CTCGAAAGACTGACAGATGACCCGAAAGA-TTAAGCATCATT
1 CTCGAAAGACTGACAGATGACCCGAAAGACTTAAGCATCATG
* * *
6064009 CTAGAAAGACCT-ACTGATGGCCCGAAAGACTTA
1 CTCGAAAGA-CTGACAGATGACCCGAAAGACTTA
6064042 CAAATTTTGG
Statistics
Matches: 97, Mismatches: 17, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
41 33 0.34
42 64 0.66
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.22
Consensus pattern (42 bp):
CTCGAAAGACTGACAGATGACCCGAAAGACTTAAGCATCATG
Found at i:6064224 original size:342 final size:343
Alignment explanation
Indices: 6063588--6064300 Score: 1101
Period size: 342 Copynumber: 2.1 Consensus size: 343
6063578 ATCCTACCCA
* * * *
6063588 AAAGTCTTATAGATGGCCCGAAGGACTT-ATCATCTTGCTCGAAAGACTGATAGATGACCCGAAA
1 AAAGACTTATTGATGGCCCGAAGGACTTAATCATCATGCTCGAAAGACTGACAGATGACCCGAAA
* * *
6063652 GATTTAAGCATCATGCTCGAAAGACTTACTGATAGCCCGAAGGACTTACAAATTTTGGAAATAGT
66 GATTTAAGCATCATGCTAGAAAGACCTACTGATAGCCCGAAAGACTTACAAATTTTGGAAATAGT
* *
6063717 TTACTAGGTAATAAACTTTGGTAATCGCTTTCTTACTTTTCAAAAATTTCATTTTCTAAAAAGAT
131 TTACTAGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAATTTCATTTTCTAAAAAGAT
* * * **
6063782 ATAAATGAGAAACTTTGGAAATCGCTTTCTCATTTTTTGAATATCATGGGAAAACATCATGCTTG
196 ATAAATGAGAAACTTTGGAAATCGCTTTCTAATTTTATGAAAATCATGGGAAAACATCATGCTCA
* *
6063847 AAGGTCTTATAGATGGCCCAAAGAACTTATCATCTTCCTCGAAATACTGACAGATGACCCGAAGG
261 AAGGTCTTATAGATAGCCCAAAGAACTTATCATCTTCCTCGAAAGACTGACAGATGACCCGAAGG
6063912 ATTTAAGCATCATGCTCG
326 ATTTAAGCATCATGCTCG
6063930 AAAGACTTATTGATGGCCCGAAGGACTTAAGT-ATCATGCTCGAAAGACTGACAGATGACCCGAA
1 AAAGACTTATTGATGGCCCGAAGGACTTAA-TCATCATGCTCGAAAGACTGACAGATGACCCGAA
* *
6063994 AGA-TTAAGCATCATTCTAGAAAGACCTACTGATGGCCCGAAAGACTTACAAATTTTGGAAATAG
65 AGATTTAAGCATCATGCTAGAAAGACCTACTGATAGCCCGAAAGACTTACAAATTTTGGAAATAG
* *
6064058 TTTACTAGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAATTTTCATTTTCTGAAAAGA
130 TTTACTAGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAATTTCATTTTCTAAAAAGA
* * *
6064123 TTTAAATGAGAAACTTTGGAATTCGCTTTCTAATTTTATGAAAATCATGGGAAAACATCCTG-TC
195 TATAAATGAGAAACTTTGGAAATCGCTTTCTAATTTTATGAAAATCATGGGAAAACATCATGCT-
* * ** * *
6064187 CAAAGGTCTTATAGATAGCCCGAAGGACTTATCATCTTGTTTGAAAGACTGATAGATGACCCGAA
259 CAAAGGTCTTATAGATAGCCCAAAGAACTTATCATCTTCCTCGAAAGACTGACAGATGACCCGAA
6064252 GGATTTAAGCATCATGCTCG
324 GGATTTAAGCATCATGCTCG
* *
6064272 AAAGACTTACTGATGGCCCGAATGACTTA
1 AAAGACTTATTGATGGCCCGAAGGACTTA
6064301 CAAATTTTGG
Statistics
Matches: 337, Mismatches: 31, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
341 1 0.00
342 301 0.89
343 34 0.10
344 1 0.00
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (343 bp):
AAAGACTTATTGATGGCCCGAAGGACTTAATCATCATGCTCGAAAGACTGACAGATGACCCGAAA
GATTTAAGCATCATGCTAGAAAGACCTACTGATAGCCCGAAAGACTTACAAATTTTGGAAATAGT
TTACTAGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAATTTCATTTTCTAAAAAGAT
ATAAATGAGAAACTTTGGAAATCGCTTTCTAATTTTATGAAAATCATGGGAAAACATCATGCTCA
AAGGTCTTATAGATAGCCCAAAGAACTTATCATCTTCCTCGAAAGACTGACAGATGACCCGAAGG
ATTTAAGCATCATGCTCG
Found at i:6064410 original size:259 final size:257
Alignment explanation
Indices: 6063935--6064675 Score: 1063
Period size: 259 Copynumber: 2.9 Consensus size: 257
6063925 GCTCGAAAGA
* * *
6063935 CTTATTGATGGCCCGAAGGACTTAAGT-ATCATGCTCGAAAGACTGACAGATGACCCGAAAGA-T
1 CTTATAGATGGCCCGAAGGACTT-A-TCATCTTGCTCGAAAGACTGATAGATGACCCGAAAGATT
* * *
6063998 TAAGCATCATTCTAGAAAGACCTACTGATGGCCCGAAAGACTTACAAATTTTGGAAATAGTTTAC
64 TAAGCATCATGCTCGAAAGACTTACTGATGGCCCG-AAGACTTACAAATTTTGGAAATAGTTTAC
*
6064063 TAGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAATTTTCATTTTCTGAAAAGATTTAA
128 TAGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAATTTCATTTTCTGAAAAGATTTAA
* * * **
6064128 ATGAGAAACTTTGGAATTCGCTTTCTAATTTTATGAAAATCATGGGAAAACATCCTGTCCAAAGG
193 ATGAGAAACTTTGGAAATCGCTTTCTCATTTT-TCAAAATCATGGGAAAACATCCTACCCAAAGG
6064193 T
257 T
* * * *
6064194 CTTATAGATAGCCCGAAGGACTTATCATCTTGTTTGAAAGACTGATAGATGACCCGAAGGATTTA
1 CTTATAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTGATAGATGACCCGAAAGATTTA
6064259 AGCATCATGCTCGAAAGACTTACTGATGGCCCGAATGACTTACAAATTTTGGAAATAGTTTACTA
66 AGCATCATGCTCGAAAGACTTACTGATGGCCCGAA-GACTTACAAATTTTGGAAATAGTTTACTA
* *
6064324 GGTAAGAAAATTTGGAAATCAG-TTTCTTATTTTTCAAAAATTTCATTTTCTGAAAAGATTTAAA
130 GGTAAGAAACTTTGGAAATC-GCTTTCTTACTTTTCAAAAATTTCATTTTCTGAAAAGATTTAAA
* * * * *
6064388 TGAGAAACTTCGAAAATCGCTTTCTCATTTTTCAAATTCATGTGAAAACATCCTACCCGAAGGT
194 TGAGAAACTTTGGAAATCGCTTTCTCATTTTTCAAAATCATGGGAAAACATCCTACCCAAAGGT
* * * * *
6064452 CTTATGGATGGCCTGAAGGACTTATCATCTTGCTCAAAAGACTTG-TAGATGACCTGAATGATTT
1 CTTATAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGAC-TGATAGATGACCCGAAAGATTT
* * *
6064516 AAGCATCATGCTCGAAAGACTTACTGATGACCCGAAG------GAATTTTGGAAATATTTTACT-
65 AAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGACTTACAAATTTTGGAAATAGTTTACTA
6064574 GGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAATTTCATTTTCTGAAAAGATTTAAAT
130 GGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAATTTCATTTTCTGAAAAGATTTAAAT
6064639 GAGAAACTTTGGAAATCGCTTTCTCATTTTTCAAAAT
195 GAGAAACTTTGGAAATCGCTTTCTCATTTTTCAAAAT
6064676 AACTTAATGG
Statistics
Matches: 437, Mismatches: 39, Indels: 21
0.88 0.08 0.04
Matches are distributed among these distances:
249 1 0.00
250 95 0.22
251 19 0.04
257 2 0.00
258 148 0.34
259 171 0.39
260 1 0.00
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Consensus pattern (257 bp):
CTTATAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTGATAGATGACCCGAAAGATTTA
AGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGACTTACAAATTTTGGAAATAGTTTACTAG
GTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAATTTCATTTTCTGAAAAGATTTAAATG
AGAAACTTTGGAAATCGCTTTCTCATTTTTCAAAATCATGGGAAAACATCCTACCCAAAGGT
Found at i:6068715 original size:2 final size:2
Alignment explanation
Indices: 6068708--6068754 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
6068698 ATGCAAATGT
6068708 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6068750 TA TA T
1 TA TA T
6068755 GATAATGTGC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:6068798 original size:28 final size:28
Alignment explanation
Indices: 6068758--6068815 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 28
6068748 TATATATGAT
*
6068758 AATGTGCTAAGTGAAA-AGGTTCTACGTG
1 AATGTGATAAGTGAAACA-GTTCTACGTG
6068786 AATGTGATAAGTGAAACAGTTCTACGTG
1 AATGTGATAAGTGAAACAGTTCTACGTG
6068814 AA
1 AA
6068816 GATACCCTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
28 27 0.96
29 1 0.04
ACGTcount: A:0.36, C:0.10, G:0.26, T:0.28
Consensus pattern (28 bp):
AATGTGATAAGTGAAACAGTTCTACGTG
Found at i:6069029 original size:24 final size:23
Alignment explanation
Indices: 6068960--6069039 Score: 115
Period size: 23 Copynumber: 3.4 Consensus size: 23
6068950 TTCTACGCAA
6068960 TCCTTCGGGACATTTCTATGTGG
1 TCCTTCGGGACATTTCTATGTGG
**
6068983 TCCTTCTAGACATTTCTATGTGG
1 TCCTTCGGGACATTTCTATGTGG
* *
6069006 TCCTTCGGGACAAATTCTACGTGG
1 TCCTTCGGGAC-ATTTCTATGTGG
6069030 TCCTTCGGGA
1 TCCTTCGGGA
6069040 AAAAACTATG
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
23 30 0.60
24 20 0.40
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (23 bp):
TCCTTCGGGACATTTCTATGTGG
Found at i:6083376 original size:21 final size:20
Alignment explanation
Indices: 6083348--6083387 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
6083338 GTGAACCAAA
6083348 TGAACAGTATCGATACTGAT
1 TGAACAGTATCGATACTGAT
*
6083368 TGAATCAGTATGGATACTGA
1 TGAA-CAGTATCGATACTGA
6083388 GGTGGTGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.30
Consensus pattern (20 bp):
TGAACAGTATCGATACTGAT
Found at i:6084030 original size:2 final size:2
Alignment explanation
Indices: 6084023--6084047 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6084013 CTGCAAATGT
6084023 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
6084048 GATAATGTGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6084104 original size:28 final size:28
Alignment explanation
Indices: 6084051--6084104 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
6084041 TATATATGAT
* **
6084051 AATGTGCTAAGTGAAAAGGTTCTACGTG
1 AATGTGATAAGTGAAAAAATTCTACGTG
*
6084079 AATGTGATAAGTGAAAAAATTTTACG
1 AATGTGATAAGTGAAAAAATTCTACG
6084105 CGAAGATACC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.39, C:0.07, G:0.24, T:0.30
Consensus pattern (28 bp):
AATGTGATAAGTGAAAAAATTCTACGTG
Found at i:6084300 original size:24 final size:24
Alignment explanation
Indices: 6084267--6084312 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
6084257 CGGGATATTT
*
6084267 CTACGTGGTCCTTCGGGACAAATC
1 CTACGCGGTCCTTCGGGACAAATC
6084291 CTACGCGGTCCTTCGGGACAAA
1 CTACGCGGTCCTTCGGGACAAA
6084313 ACTATGTGGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.22, C:0.30, G:0.26, T:0.22
Consensus pattern (24 bp):
CTACGCGGTCCTTCGGGACAAATC
Found at i:6089854 original size:23 final size:23
Alignment explanation
Indices: 6089804--6089856 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
6089794 GAGTCGAGGG
*
6089804 TTCTACGTTGTCATTCGGGACAA
1 TTCTACGTTGTCATTCGGAACAA
* * *
6089827 ATCTACGTTGTCTTTCGGAACAT
1 TTCTACGTTGTCATTCGGAACAA
6089850 TTCTACG
1 TTCTACG
6089857 CGGTTCTTCG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.38
Consensus pattern (23 bp):
TTCTACGTTGTCATTCGGAACAA
Found at i:6090294 original size:31 final size:33
Alignment explanation
Indices: 6090251--6090334 Score: 100
Period size: 33 Copynumber: 2.6 Consensus size: 33
6090241 ATGAATGAAC
*
6090251 AATGCATAATGTTATATGT-TT-TTGTTGGTTA
1 AATGCATGATGTTATATGTATTATTGTTGGTTA
* *
6090282 AATGCATGATGTTATATATATTATTGTTGTTTA
1 AATGCATGATGTTATATGTATTATTGTTGGTTA
** *
6090315 AATATATGATGTTTTATGTA
1 AATGCATGATGTTATATGTA
6090335 CATTATGATA
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
31 17 0.39
32 2 0.05
33 25 0.57
ACGTcount: A:0.30, C:0.02, G:0.17, T:0.51
Consensus pattern (33 bp):
AATGCATGATGTTATATGTATTATTGTTGGTTA
Found at i:6095230 original size:33 final size:31
Alignment explanation
Indices: 6095164--6095241 Score: 84
Period size: 33 Copynumber: 2.5 Consensus size: 31
6095154 CATGAATGAA
* * *
6095164 AAATGCATAATGTTATATGTTTTTGTTGGTT
1 AAATGCATGATGTTATATATTCTTGTTGGTT
*
6095195 AAATGCATGATGTTACATATATTCTTGTTGTTT
1 AAATGCATGATGTT--ATATATTCTTGTTGGTT
**
6095228 AAATATATGATGTT
1 AAATGCATGATGTT
6095242 TTATGTACAT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
31 13 0.33
33 26 0.67
ACGTcount: A:0.29, C:0.05, G:0.17, T:0.49
Consensus pattern (31 bp):
AAATGCATGATGTTATATATTCTTGTTGGTT
Found at i:6099438 original size:21 final size:21
Alignment explanation
Indices: 6099412--6099470 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
6099402 TGAAAATAAA
*
6099412 AAATAA-TAGTAATAGTAATAT
1 AAATAATTA-TAATAATAATAT
6099433 AAATAATTATAATAATAATATT
1 AAATAATTATAATAATAATA-T
*
6099455 AGAT-ATTAATAATAAT
1 AAATAATT-ATAATAAT
6099471 CTTGAGAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
21 19 0.58
22 14 0.42
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (21 bp):
AAATAATTATAATAATAATAT
Found at i:6100982 original size:2 final size:2
Alignment explanation
Indices: 6100975--6101009 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
6100965 GAGAAAAACA
6100975 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6101010 AACCAACATC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6105301 original size:22 final size:22
Alignment explanation
Indices: 6105276--6105616 Score: 408
Period size: 22 Copynumber: 15.4 Consensus size: 22
6105266 ATAATAAATT
6105276 TTTTAAAATAAATCAATTCATA
1 TTTTAAAATAAATCAATTCATA
*
6105298 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATTCATA
6105320 TTTTAAAATAAATCAA-TCAATA
1 TTTTAAAATAAATCAATTC-ATA
**
6105342 TTTTAAAATAAAT-TTTTCCATA
1 TTTTAAAATAAATCAATT-CATA
6105364 TTTTAAAATAAATCAA-TCTATA
1 TTTTAAAATAAATCAATTC-ATA
*
6105386 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATTCATA
* *
6105408 TTTTAAAATAAATAAATCCATA
1 TTTTAAAATAAATCAATTCATA
*
6105430 TTTTAAAATAAA--ATTTTCCATA
1 TTTTAAAATAAATCA-ATT-CATA
6105452 TTTTAAAATAAATCAATTCATA
1 TTTTAAAATAAATCAATTCATA
***
6105474 TTTTAAAATAAATTTTTTTTCATA
1 TTTTAAAATAAA--TCAATTCATA
* *
6105498 TTTTAAATTAAATCAATCCATA
1 TTTTAAAATAAATCAATTCATA
*
6105520 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATTCATA
* *
6105542 TTTTAAAATAAAT-ATTTTCATG
1 TTTTAAAATAAATCA-ATTCATA
*
6105564 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATTCATA
6105586 TTTTAAAATAAATCAATAT-ATA
1 TTTTAAAATAAATCAAT-TCATA
6105608 TTTTAAAAT
1 TTTTAAAAT
6105617 GGATTTAAAT
Statistics
Matches: 277, Mismatches: 27, Indels: 30
0.83 0.08 0.09
Matches are distributed among these distances:
20 1 0.00
21 4 0.01
22 248 0.90
23 5 0.02
24 19 0.07
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.42
Consensus pattern (22 bp):
TTTTAAAATAAATCAATTCATA
Found at i:6105328 original size:44 final size:44
Alignment explanation
Indices: 6105276--6105616 Score: 449
Period size: 44 Copynumber: 7.7 Consensus size: 44
6105266 ATAATAAATT
6105276 TTTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCCATA
***
6105320 TTTTAAAATAAATCAA-TCAATATTTTAAAATAAATTTTTCCATA
1 TTTTAAAATAAATCAATTC-ATATTTTAAAATAAATCAATCCATA
6105364 TTTTAAAATAAATCAA-TCTATATTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATTC-ATATTTTAAAATAAATCAATCCATA
* * **
6105408 TTTTAAAATAAATAAATCCATATTTTAAAATAAAAT-TTTCCATA
1 TTTTAAAATAAATCAATTCATATTTTAAAAT-AAATCAATCCATA
*** *
6105452 TTTTAAAATAAATCAATTCATATTTTAAAATAAATTTTTTTTCATA
1 TTTTAAAATAAATCAATTCATATTTTAAAATAAA--TCAATCCATA
* *
6105498 TTTTAAATTAAATCAATCCATATTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCCATA
* *
6105542 TTTTAAAATAAAT-ATTTTCATGTTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCA-ATTCATATTTTAAAATAAATCAATCCATA
6105586 TTTTAAAATAAATCAATAT-ATATTTTAAAAT
1 TTTTAAAATAAATCAAT-TCATATTTTAAAAT
6105617 GGATTTAAAT
Statistics
Matches: 262, Mismatches: 26, Indels: 18
0.86 0.08 0.06
Matches are distributed among these distances:
43 6 0.02
44 209 0.80
45 8 0.03
46 39 0.15
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.42
Consensus pattern (44 bp):
TTTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCCATA
Found at i:6105351 original size:66 final size:65
Alignment explanation
Indices: 6105276--6105616 Score: 463
Period size: 66 Copynumber: 5.1 Consensus size: 65
6105266 ATAATAAATT
*
6105276 TTTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCAAT
1 TTTTAAAATAAAT-ATTTCATATTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCAAT
6105341 A
65 A
* * *
6105342 TTTTAAAATAAATTTTTCCATATTTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCAT
1 TTTTAAAATAAATATTT-CATATTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCAAT
6105407 A
65 A
* * **
6105408 TTTTAAAATAAATAAATCCATATTTTAAAATAAAAT-TTTCCATATTTTAAAATAAATCAATTC-
1 TTTTAAAATAAAT-ATTTCATATTTTAAAAT-AAATCAATCCATATTTTAAAATAAATCAA-TCA
6105471 ATA
63 ATA
* * *
6105474 TTTTAAAATAAATTTTTTTTCATATTTTAAATTAAATCAATCCATATTTTAAAATAAATCAATCC
1 TTTTAAAATAAA---TATTTCATATTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCA
6105539 ATA
63 ATA
*
6105542 TTTTAAAATAAATATTTTCATGTTTTAAAATAAATCAATCCATATTTTAAAATAAATCAAT-ATA
1 TTTTAAAATAAATA-TTTCATATTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCA-A
6105606 TA
64 TA
6105608 TTTTAAAAT
1 TTTTAAAAT
6105617 GGATTTAAAT
Statistics
Matches: 244, Mismatches: 20, Indels: 22
0.85 0.07 0.08
Matches are distributed among these distances:
65 3 0.01
66 177 0.73
67 13 0.05
68 50 0.20
69 1 0.00
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.42
Consensus pattern (65 bp):
TTTTAAAATAAATATTTCATATTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCAATA
Found at i:6109138 original size:11 final size:11
Alignment explanation
Indices: 6109122--6109154 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
6109112 ATCAATTTTT
6109122 TTTATTTATTA
1 TTTATTTATTA
6109133 TTTATTTATTA
1 TTTATTTATTA
6109144 -TTA-TTATTA
1 TTTATTTATTA
6109153 TT
1 TT
6109155 ATTATTAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 6 0.29
10 4 0.19
11 11 0.52
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
TTTATTTATTA
Found at i:6109142 original size:15 final size:14
Alignment explanation
Indices: 6109122--6109160 Score: 55
Period size: 12 Copynumber: 2.9 Consensus size: 14
6109112 ATCAATTTTT
6109122 TTTATTTATTATTTA
1 TTTA-TTATTATTTA
6109137 TTTATTATTA-TTA
1 TTTATTATTATTTA
6109150 -TTATTATTATT
1 TTTATTATTATT
6109161 AAAATATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 9 0.39
13 4 0.17
14 6 0.26
15 4 0.17
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (14 bp):
TTTATTATTATTTA
Found at i:6109171 original size:3 final size:3
Alignment explanation
Indices: 6109127--6109161 Score: 52
Period size: 3 Copynumber: 11.0 Consensus size: 3
6109117 TTTTTTTTAT
6109127 TTA TTA TTTA TTTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA -TTA -TTA TTA TTA TTA TTA TTA TTA TTA
6109162 AAATATTATT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 24 0.77
4 7 0.23
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:6114301 original size:18 final size:18
Alignment explanation
Indices: 6114278--6114315 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
6114268 CAAGTTTATC
6114278 TTTTCGAAATTCAATTTA
1 TTTTCGAAATTCAATTTA
*
6114296 TTTTCGAAATTTAATTTA
1 TTTTCGAAATTCAATTTA
6114314 TT
1 TT
6114316 ATTTTATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.08, G:0.05, T:0.55
Consensus pattern (18 bp):
TTTTCGAAATTCAATTTA
Found at i:6114881 original size:61 final size:61
Alignment explanation
Indices: 6114786--6114954 Score: 266
Period size: 61 Copynumber: 2.8 Consensus size: 61
6114776 GACATCTGAT
* * * *
6114786 CAGAAGCCACAGGAAATGATAAATGTGCTGTCAAATGCTTTACGAACATTGAAAATCTAGG
1 CAGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATGCTTTACGAACATTAAAAATCTAGG
* *
6114847 CAGAAGCCACAGGAAAGGATGAATGTGTTATCAAATGCTTTATGAACATTAAAAATCTAGG
1 CAGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATGCTTTACGAACATTAAAAATCTAGG
**
6114908 CAGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATATTTTACGAAC
1 CAGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATGCTTTACGAAC
6114955 CAGTAATTAT
Statistics
Matches: 98, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
61 98 1.00
ACGTcount: A:0.40, C:0.15, G:0.22, T:0.24
Consensus pattern (61 bp):
CAGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATGCTTTACGAACATTAAAAATCTAGG
Found at i:6115351 original size:22 final size:22
Alignment explanation
Indices: 6115326--6115427 Score: 143
Period size: 22 Copynumber: 4.6 Consensus size: 22
6115316 TACATTCCTT
* *
6115326 AAAGATGGTAGATATAT-TCTTC
1 AAAGATGATAGAT-TCTCTCTTC
6115348 AAAGATGATAGATTCTCTCTTC
1 AAAGATGATAGATTCTCTCTTC
6115370 AAAGATGATAGATTCTCTCTTC
1 AAAGATGATAGATTCTCTCTTC
*
6115392 AAAGATGATAGATTCTCTTTTC
1 AAAGATGATAGATTCTCTCTTC
* *
6115414 AAAGAAGAAAGATT
1 AAAGATGATAGATT
6115428 TATTGGATTT
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
21 2 0.03
22 72 0.97
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.34
Consensus pattern (22 bp):
AAAGATGATAGATTCTCTCTTC
Found at i:6115986 original size:19 final size:19
Alignment explanation
Indices: 6115935--6115987 Score: 51
Period size: 19 Copynumber: 2.9 Consensus size: 19
6115925 CATTTCCAGA
6115935 AGAGTTCATAATGAGAA-G
1 AGAGTTCATAATGAGAAGG
* *
6115953 A-A-CTCAT-CTGAAGAAGG
1 AGAGTTCATAATG-AGAAGG
6115970 AGAGTTCATAATGAGAAG
1 AGAGTTCATAATGAGAAG
6115988 AACTTGTTCA
Statistics
Matches: 26, Mismatches: 4, Indels: 9
0.67 0.10 0.23
Matches are distributed among these distances:
15 2 0.08
16 8 0.31
17 3 0.12
18 2 0.08
19 9 0.35
20 2 0.08
ACGTcount: A:0.43, C:0.09, G:0.26, T:0.21
Consensus pattern (19 bp):
AGAGTTCATAATGAGAAGG
Found at i:6116030 original size:118 final size:122
Alignment explanation
Indices: 6115798--6116121 Score: 516
Period size: 118 Copynumber: 2.7 Consensus size: 122
6115788 CACTCGATGG
* *
6115798 ATCAACATTTTCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAGAAGAAGTTCATAC
1 ATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAGAAGAAGTTCATAA
* *
6115863 TGAGAAGAACTTGTTCAACCTTTTGCTCGATTCTATCACAGAATGAGATAGAT-TAGC
66 TGAGAAGAACTTGTTCAACCTTTTGCTCGACTCTATCACAGAAAGAGATAGATCT-GC
6115920 ATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAA-G-G-AG-AGTTCATAA
1 ATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAGAAGAAGTTCATAA
6115981 TGAGAAGAACTTGTTCAACCTTTTGCAT-GACTCTATCACAGAAAGAGATAGATCTGC
66 TGAGAAGAACTTGTTCAACCTTTTGC-TCGACTCTATCACAGAAAGAGATAGATCTGC
* ** *
6116038 ATCAACATTTCCAAAACTGTTCATAATGAGAAGAACTCATCTGAAGAAGGAGAAGAAGTTAATAA
1 ATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAGAAGAAGTTCATAA
6116103 TGAGAAGAACTTGTTCAAC
66 TGAGAAGAACTTGTTCAAC
6116122 TTTAATTTGA
Statistics
Matches: 188, Mismatches: 8, Indels: 12
0.90 0.04 0.06
Matches are distributed among these distances:
118 104 0.55
119 5 0.03
120 2 0.01
121 3 0.02
122 74 0.39
ACGTcount: A:0.40, C:0.16, G:0.19, T:0.26
Consensus pattern (122 bp):
ATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAGAAGAAGTTCATAA
TGAGAAGAACTTGTTCAACCTTTTGCTCGACTCTATCACAGAAAGAGATAGATCTGC
Found at i:6116201 original size:137 final size:136
Alignment explanation
Indices: 6116038--6116395 Score: 551
Period size: 137 Copynumber: 2.6 Consensus size: 136
6116028 ATAGATCTGC
* * *
6116038 ATCAACATTTCCAAAACTGTTCATAATGAGAAGAACTCATCTGAAGAAGGAGAAGAAGTTAATAA
1 ATCAACATTTCCAGAAGTGTTCATAATGAGAAGAACTCATCT-AAGAAGGAGAAGAAGTTCATAA
*
6116103 TGAGAAGAACTTGTTCAACTTTAATTTGATTCATCACATATTGAAGTTGAATCAACAATACC-CT
65 TGAGAAGAACTTGTTCAACCTTAATTTGATTCATCACATATTGAAGTTGAATCAACAATACCTC-
6116167 TTTTAAAG
129 TTTTAAAG
*
6116175 ATCAACATTTCCAGAAGTGTTCATAATGAGAAGAACTCGTCTAAAGAAGGAGAAGAAGTTCATAA
1 ATCAACATTTCCAGAAGTGTTCATAATGAGAAGAACTCATCT-AAGAAGGAGAAGAAGTTCATAA
* *
6116240 TGAGAAGAACTTGTTCAACCTTAATTTGATTCGTCACATATTGAAGTTGAATTAACAATACCTCT
65 TGAGAAGAACTTGTTCAACCTTAATTTGATTCATCACATATTGAAGTTGAATCAACAATACCTCT
*
6116305 TTTGAAG
130 TTTAAAG
* * * *
6116312 GTCAACATTTCCAGAAGAGATCATAATGAGAAGAACTCATCT-A-AAGAAGAAGAAGTTCATAAT
1 ATCAACATTTCCAGAAGTGTTCATAATGAGAAGAACTCATCTAAGAAGGAGAAGAAGTTCATAAT
*
6116375 GAGAAGAGCTTGTTCAACCTT
66 GAGAAGAACTTGTTCAACCTT
6116396 TTGCTAGATC
Statistics
Matches: 205, Mismatches: 15, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
134 39 0.19
135 1 0.00
137 164 0.80
138 1 0.00
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (136 bp):
ATCAACATTTCCAGAAGTGTTCATAATGAGAAGAACTCATCTAAGAAGGAGAAGAAGTTCATAAT
GAGAAGAACTTGTTCAACCTTAATTTGATTCATCACATATTGAAGTTGAATCAACAATACCTCTT
TTAAAG
Found at i:6116255 original size:20 final size:20
Alignment explanation
Indices: 6116192--6116256 Score: 55
Period size: 17 Copynumber: 3.3 Consensus size: 20
6116182 TTTCCAGAAG
6116192 TGTTCATAATGAGAAGAACT
1 TGTTCATAATGAGAAGAACT
* * * *
6116212 CGTCTAAAGAAGGAGAAGAA--
1 TGT-T-CATAATGAGAAGAACT
6116232 -GTTCATAATGAGAAGAACT
1 TGTTCATAATGAGAAGAACT
6116251 TGTTCA
1 TGTTCA
6116257 ACCTTAATTT
Statistics
Matches: 33, Mismatches: 7, Indels: 10
0.66 0.14 0.20
Matches are distributed among these distances:
17 11 0.33
18 1 0.03
19 2 0.06
20 7 0.21
21 1 0.03
22 11 0.33
ACGTcount: A:0.42, C:0.11, G:0.23, T:0.25
Consensus pattern (20 bp):
TGTTCATAATGAGAAGAACT
Found at i:6116626 original size:9 final size:9
Alignment explanation
Indices: 6116612--6116663 Score: 50
Period size: 9 Copynumber: 5.4 Consensus size: 9
6116602 GACATCAGTT
6116612 TTTTTTTAA
1 TTTTTTTAA
6116621 TTTTTTTAA
1 TTTTTTTAA
*
6116630 TTTTTTATTA
1 TTTTTT-TAA
* *
6116640 TTTATATTAT
1 TTT-TTTTAA
6116650 TTTTTATTAA
1 TTTTT-TTAA
6116660 TTTT
1 TTTT
6116664 AATAATAAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
9 16 0.47
10 16 0.47
11 2 0.06
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTTTTTAA
Found at i:6116635 original size:19 final size:19
Alignment explanation
Indices: 6116610--6116664 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 19
6116600 TAGACATCAG
* *
6116610 TTTTTTTTTAATTTTTTTAA
1 TTTTTTATTAATTTTATT-A
6116630 TTTTTTATT-ATTTATATTA
1 TTTTTTATTAATTT-TATTA
6116649 TTTTTTATTAATTTTA
1 TTTTTTATTAATTTTA
6116665 ATAATAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTTTATTAATTTTATTA
Found at i:6118080 original size:8 final size:8
Alignment explanation
Indices: 6118067--6118122 Score: 51
Period size: 8 Copynumber: 6.6 Consensus size: 8
6118057 TAATAAATAA
6118067 TATTTATT
1 TATTTATT
6118075 TATTTATT
1 TATTTATT
6118083 TA-TTATAT
1 TATTTAT-T
6118091 TATATTATAT
1 TAT-TTAT-T
*
6118101 TATATTATA
1 TAT-TTATT
*
6118110 TATTTTTT
1 TATTTATT
6118118 TATTT
1 TATTT
6118123 TATATAAATT
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
7 4 0.10
8 21 0.50
9 3 0.07
10 14 0.33
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (8 bp):
TATTTATT
Found at i:6118082 original size:12 final size:13
Alignment explanation
Indices: 6118067--6118114 Score: 55
Period size: 12 Copynumber: 3.7 Consensus size: 13
6118057 TAATAAATAA
6118067 TATTTATTTAT-T
1 TATTTATTTATAT
6118079 TATTTA-TTATAT
1 TATTTATTTATAT
6118091 TATATTATATTATAT
1 TAT-TTAT-TTATAT
*
6118106 TATATATTT
1 TATTTATTT
6118115 TTTTATTTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
11 4 0.13
12 10 0.32
13 5 0.16
14 3 0.10
15 9 0.29
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
TATTTATTTATAT
Found at i:6118093 original size:5 final size:5
Alignment explanation
Indices: 6118066--6118110 Score: 62
Period size: 5 Copynumber: 9.8 Consensus size: 5
6118056 ATAATAAATA
6118066 ATATT -TATT -TATT -TATT -TATT ATATT ATATT ATATT ATATT ATAT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATAT
6118111 ATTTTTTTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
4 16 0.41
5 23 0.59
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (5 bp):
ATATT
Found at i:6118410 original size:15 final size:15
Alignment explanation
Indices: 6118387--6118434 Score: 57
Period size: 14 Copynumber: 3.4 Consensus size: 15
6118377 AACTTTTAAT
6118387 ATATATATATATATA
1 ATATATATATATATA
*
6118402 ATATTTATAT-TA-A
1 ATATATATATATATA
*
6118415 ATATATAGATAT-TA
1 ATATATATATATATA
6118429 ATATAT
1 ATATAT
6118435 TTTTAAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
13 9 0.32
14 10 0.36
15 9 0.32
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (15 bp):
ATATATATATATATA
Found at i:6118421 original size:11 final size:13
Alignment explanation
Indices: 6118385--6118434 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
6118375 AAAACTTTTA
6118385 ATAT-ATATATAT
1 ATATAATATATAT
*
6118397 ATATAATATTTAT
1 ATATAATATATAT
*
6118410 AT-TAAATATATAG
1 ATAT-AATATATAT
6118423 ATATTAATATAT
1 ATA-TAATATAT
6118435 TTTTAAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
12 5 0.16
13 18 0.58
14 7 0.23
15 1 0.03
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (13 bp):
ATATAATATATAT
Found at i:6120857 original size:64 final size:64
Alignment explanation
Indices: 6120785--6121009 Score: 326
Period size: 64 Copynumber: 3.5 Consensus size: 64
6120775 GTGCACCAAG
*
6120785 TGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAAATAGCCTGGTGCATCGATGCATGGCT
1 TGTGCATCGATGCATCAAATGCATTCGATGTTTTG-AAAATAGCCTGGTGCATCGATGCATGGCT
6120849 TGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATAGCCTGGTGCATCGATGCATGGCT
1 TGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATAGCCTGGTGCATCGATGCATGGCT
** * * **
6120913 TGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATAGAG
1 TGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATAGCCTG-GTGCATCGATGCATGGCT
* * **
6120978 AGTGCATCGGTGCATGGAATGCATTCGATGTT
1 TGTGCATCGATGCATCAAATGCATTCGATGTT
6121010 CAATTAATTC
Statistics
Matches: 148, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
64 101 0.68
65 47 0.32
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.31
Consensus pattern (64 bp):
TGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATAGCCTGGTGCATCGATGCATGGCT
Found at i:6121029 original size:129 final size:127
Alignment explanation
Indices: 6120785--6121057 Score: 302
Period size: 129 Copynumber: 2.1 Consensus size: 127
6120775 GTGCACCAAG
* * * ***
6120785 TGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCCTGGTGCATCGATGCATGGCTT
1 TGTGCATCGATGCATCAAATGCATTCGATGTTTGAAAAATAGCCAGGTGCATCGATGCATAGAGA
* * *
6120850 GTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATAGCCTGGTGCATCGATGCATGG-C
66 GTGCATCGATGCATCAAATGCATTCGATG-TTTCAAAATAGCATGATGCATCGATGCATGGAC
**
6120912 TTGTGCATCGATGCATCAAATGCATTCGATGTTTTG-AAAATATTCAGAGTGCATCGATGCATAG
1 -TGTGCATCGATGCATCAAATGCATTCGATG-TTTGAAAAATAGCCAG-GTGCATCGATGCATAG
* ** *
6120976 AGAGTGCATCGGTGCATGGAATGCATTCGATG-TTCAATTAAT-TCATCGATGCATCGATGCATG
63 AGAGTGCATCGATGCATCAAATGCATTCGATGTTTCAA--AATAGCAT-GATGCATCGATGCATG
6121039 GAC
125 GAC
*
6121042 TGATGCATCGGTGCAT
1 TG-TGCATCGATGCAT
6121058 GCCTTTGAAT
Statistics
Matches: 122, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
127 4 0.03
128 39 0.32
129 66 0.54
130 13 0.11
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (127 bp):
TGTGCATCGATGCATCAAATGCATTCGATGTTTGAAAAATAGCCAGGTGCATCGATGCATAGAGA
GTGCATCGATGCATCAAATGCATTCGATGTTTCAAAATAGCATGATGCATCGATGCATGGAC
Found at i:6121049 original size:65 final size:65
Alignment explanation
Indices: 6120787--6121058 Score: 233
Period size: 64 Copynumber: 4.2 Consensus size: 65
6120777 GCACCAAGTG
* * ** *
6120787 TGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCCTG-GTGCATCGATGCATGG-CTT
1 TGCATCGGTGCATGAAATGCATTCGATGTTT-CAAAATATTCAGAGTGCATCGATGCATGGAC-T
6120850 G-
64 GA
* * * ** *
6120851 TGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATAGCCTG-GTGCATCGATGCATGG-CTT
1 TGCATCGGTGCATGAAATGCATTCGATG-TTTCAAAATATTCAGAGTGCATCGATGCATGGAC-T
6120914 G-
64 GA
* * * *
6120915 TGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATAGA--G
1 TGCATCGGTGCATGAAATGCATTCGATG-TTTCAAAATATTCAGAGTGCATCGATGCATGGACTG
6120978 A
65 A
* *
6120979 GTGCATCGGTGCATGGAATGCATTCGATG-TTC-AATTAATTCATCGA-TGCATCGATGCATGGA
1 -TGCATCGGTGCATGAAATGCATTCGATGTTTCAAAAT-ATTCA--GAGTGCATCGATGCATGGA
6121041 CTGA
62 CTGA
6121045 TGCATCGGTGCATG
1 TGCATCGGTGCATG
6121059 CCTTTGAATA
Statistics
Matches: 186, Mismatches: 12, Indels: 19
0.86 0.06 0.09
Matches are distributed among these distances:
62 3 0.02
63 8 0.04
64 114 0.61
65 59 0.32
66 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (65 bp):
TGCATCGGTGCATGAAATGCATTCGATGTTTCAAAATATTCAGAGTGCATCGATGCATGGACTGA
Found at i:6127487 original size:22 final size:21
Alignment explanation
Indices: 6127446--6127485 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
6127436 GAGTTTGTTT
*
6127446 TCATTTTTCAATTTTGAAACG
1 TCATTTTTCAATTTTAAAACG
6127467 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
6127486 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.33, C:0.10, G:0.05, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACG
Found at i:6129481 original size:19 final size:19
Alignment explanation
Indices: 6129457--6129508 Score: 104
Period size: 19 Copynumber: 2.7 Consensus size: 19
6129447 AAATAGCCTG
6129457 GTGCATCGATGCATGGCTT
1 GTGCATCGATGCATGGCTT
6129476 GTGCATCGATGCATGGCTT
1 GTGCATCGATGCATGGCTT
6129495 GTGCATCGATGCAT
1 GTGCATCGATGCAT
6129509 CAAATGCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.17, C:0.21, G:0.31, T:0.31
Consensus pattern (19 bp):
GTGCATCGATGCATGGCTT
Found at i:6129498 original size:83 final size:83
Alignment explanation
Indices: 6129411--6129572 Score: 288
Period size: 83 Copynumber: 2.0 Consensus size: 83
6129401 GTGCACCAAG
*
6129411 TGTGCATCGATGCATAAAATGCATTCGATGTTTAAAAAATAGCCTGGTGCATCGATGCATGGCTT
1 TGTGCATCGATGCATAAAATGCATTCGATGTTTAAAAAATAGCCTGGTACATCGATGCATGGCTT
6129476 GTGCATCGATGCATGGCT
66 GTGCATCGATGCATGGCT
* **
6129494 TGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATAGCCTGGTACATCGATGCATGGCTT
1 TGTGCATCGATGCATAAAATGCATTCGATGTTTAAAAAATAGCCTGGTACATCGATGCATGGCTT
6129559 GTGCATCGATGCAT
66 GTGCATCGATGCAT
6129573 CAAATGCATT
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
83 75 1.00
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.31
Consensus pattern (83 bp):
TGTGCATCGATGCATAAAATGCATTCGATGTTTAAAAAATAGCCTGGTACATCGATGCATGGCTT
GTGCATCGATGCATGGCT
Found at i:6129547 original size:64 final size:65
Alignment explanation
Indices: 6129479--6129654 Score: 246
Period size: 64 Copynumber: 2.7 Consensus size: 65
6129469 ATGGCTTGTG
*
6129479 CATCGATGCATGGCTTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATAGCCTG-GTA
1 CATCGATGCATGGCTTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATAGCCAGAGTA
** *
6129543 CATCGATGCATGGCTTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTG
1 CATCGATGCATGGCTTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATAGCCAGAGTA
* *** * **
6129608 CATCGATGCATAGAGAGTGCATCGGTGCATGGAATGCATTCGATGTT
1 CATCGATGCATGGCTTGTGCATCGATGCATCAAATGCATTCGATGTT
6129655 CAATTAATTC
Statistics
Matches: 100, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
64 58 0.58
65 42 0.42
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.31
Consensus pattern (65 bp):
CATCGATGCATGGCTTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATAGCCAGAGTA
Found at i:6129694 original size:65 final size:65
Alignment explanation
Indices: 6129476--6129703 Score: 197
Period size: 64 Copynumber: 3.5 Consensus size: 65
6129466 TGCATGGCTT
* * * ** *
6129476 GTGCATCGATGCATGG-CTTG-TGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATAGCCT
1 GTGCATCGATGCATGGAC-TGATGCATCGGTGCATGAAATGCATTCGATG-TTTCAAAATATTCA
6129539 G-
64 GA
* * * *
6129540 GTACATCGATGCATGG-CTTG-TGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCA
1 GTGCATCGATGCATGGAC-TGATGCATCGGTGCATGAAATGCATTCGATG-TTTCAAAATATTCA
6129603 GA
64 GA
* * *
6129605 GTGCATCGATGCATAGA--GAGTGCATCGGTGCATGGAATGCATTCGATG-TTC-AATTAATTCA
1 GTGCATCGATGCATGGACTGA-TGCATCGGTGCATGAAATGCATTCGATGTTTCAAAAT-ATTCA
6129666 TCGA
64 --GA
6129670 -TGCATCGATGCATGGACTGATGCATCGGTGCATG
1 GTGCATCGATGCATGGACTGATGCATCGGTGCATG
6129704 CCTTTGAATA
Statistics
Matches: 143, Mismatches: 12, Indels: 17
0.83 0.07 0.10
Matches are distributed among these distances:
62 3 0.02
63 8 0.06
64 75 0.52
65 55 0.38
66 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.30
Consensus pattern (65 bp):
GTGCATCGATGCATGGACTGATGCATCGGTGCATGAAATGCATTCGATGTTTCAAAATATTCAGA
Found at i:6132153 original size:15 final size:15
Alignment explanation
Indices: 6132133--6132164 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
6132123 GATCAATACC
6132133 TTTTGCATACATTCA
1 TTTTGCATACATTCA
6132148 TTTTGCATACATTCA
1 TTTTGCATACATTCA
6132163 TT
1 TT
6132165 ATTCATTGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.25, C:0.19, G:0.06, T:0.50
Consensus pattern (15 bp):
TTTTGCATACATTCA
Found at i:6139861 original size:18 final size:18
Alignment explanation
Indices: 6139834--6139871 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
6139824 CAAGTTTATC
*
6139834 TTTTCGAAATTCAATTTA
1 TTTTCAAAATTCAATTTA
6139852 TTTTCAAAATTCAATTTA
1 TTTTCAAAATTCAATTTA
6139870 TT
1 TT
6139872 ATTTTATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.34, C:0.11, G:0.03, T:0.53
Consensus pattern (18 bp):
TTTTCAAAATTCAATTTA
Found at i:6140444 original size:61 final size:61
Alignment explanation
Indices: 6140343--6140511 Score: 284
Period size: 61 Copynumber: 2.8 Consensus size: 61
6140333 GGCATCTAAT
* *
6140343 CAGAAACCACAGGAAATGATGAATGCGTTGTCAAATGCTTTACGAACATTGAAAATATAGG
1 CAGAAGCCACAGGAAATGATGAATGTGTTGTCAAATGCTTTACGAACATTGAAAATATAGG
* * *
6140404 TAGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATGCTTTACGAACATTGAAAATCTAGG
1 CAGAAGCCACAGGAAATGATGAATGTGTTGTCAAATGCTTTACGAACATTGAAAATATAGG
*
6140465 CAGAAGCCACAGGAAATGATGAATGTGTTGTCAAATGTTTTACGAAC
1 CAGAAGCCACAGGAAATGATGAATGTGTTGTCAAATGCTTTACGAAC
6140512 CAGTAATTAT
Statistics
Matches: 100, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
61 100 1.00
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.24
Consensus pattern (61 bp):
CAGAAGCCACAGGAAATGATGAATGTGTTGTCAAATGCTTTACGAACATTGAAAATATAGG
Found at i:6140983 original size:22 final size:22
Alignment explanation
Indices: 6140878--6140984 Score: 153
Period size: 22 Copynumber: 4.9 Consensus size: 22
6140868 ACATCTACAT
*
6140878 TCTTCAAAGATGATAGATACAT-
1 TCTTCAAAGATGATAGATTC-TC
6140900 TCTTCAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
*
6140922 TCTTCAAAGATGATATATTCTC
1 TCTTCAAAGATGATAGATTCTC
6140944 TCTTCAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
* * *
6140966 TTTTCAAAGAAGAAAGATT
1 TCTTCAAAGATGATAGATT
6140985 TATTGGATTT
Statistics
Matches: 78, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
21 1 0.01
22 77 0.99
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (22 bp):
TCTTCAAAGATGATAGATTCTC
Found at i:6141581 original size:118 final size:121
Alignment explanation
Indices: 6141356--6141682 Score: 527
Period size: 118 Copynumber: 2.7 Consensus size: 121
6141346 CACTCGATGG
* *
6141356 ATCAACATTTTCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAGAAGAAGTTCATAA
1 ATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTTATCTGAAGAA-GAGAAGAAGTTCATAA
* *
6141421 TGAGAAGAACTTGTTCAACCTTTTGCTCGATTCTATCACAGAAGGAGATAGATTAGC
65 TGAGAAGAACTTGTTCAACCTTTTGCTCGACTCTATCACAGAAGGAGATAGATCAGC
*
6141478 ATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTTATCTGAAGAA-TG-AG-AGTTCATAAT
1 ATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTTATCTGAAGAAGAGAAGAAGTTCATAAT
*
6141540 GAGAAGAGCTTGTTCAACCTTTTGCAT-GACTCTATCACAGAAGGAGATAGATCAGC
66 GAGAAGAACTTGTTCAACCTTTTGC-TCGACTCTATCACAGAAGGAGATAGATCAGC
*
6141596 ATCAACATTTCCAGAAGTGTTCATAATGAGAAGAACTTATCTGAAGAAGGAGAAGAAGTTCATAA
1 ATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTTATCTGAAGAA-GAGAAGAAGTTCATAA
*
6141661 TGAGAAGAACTTATTCAACCTT
65 TGAGAAGAACTTGTTCAACCTT
6141683 AATTTGATTC
Statistics
Matches: 190, Mismatches: 10, Indels: 10
0.90 0.05 0.05
Matches are distributed among these distances:
118 108 0.57
119 3 0.02
120 2 0.01
121 2 0.01
122 75 0.39
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.26
Consensus pattern (121 bp):
ATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTTATCTGAAGAAGAGAAGAAGTTCATAAT
GAGAAGAACTTGTTCAACCTTTTGCTCGACTCTATCACAGAAGGAGATAGATCAGC
Found at i:6141845 original size:137 final size:135
Alignment explanation
Indices: 6141596--6141953 Score: 567
Period size: 137 Copynumber: 2.6 Consensus size: 135
6141586 ATAGATCAGC
* *
6141596 ATCAACATTTCCAGAAGTGTTCATAATGAGAAGAACTTATCTGAAGAAGGAGAAGAAGTTCATAA
1 ATCAACATTTCCAGAA-AGTTCATAATGAGAAGAACTCATCTGAAG-AGGAGAAGAAGTTCATAA
*
6141661 TGAGAAGAACTTATTCAACCTTAATTTGATTCATCACATATTGAAGTTGAATCAACAATACCTCT
64 TGAGAAGAACTTGTTCAACCTTAATTTGATTCATCACATATTGAAGTTGAATCAACAATACCTCT
*
6141726 TTTGAAT
129 TTTGAAG
* * * *
6141733 ATTAACATTTCCAGAAACGTTCATAATGAGAACAACTCATCTAAAGCAGGAGAAGAAATTCATAA
1 ATCAACATTTCCAGAAA-GTTCATAATGAGAAGAACTCATCTGAAG-AGGAGAAGAAGTTCATAA
6141798 TGAGAAGAACTTGTTCAACCTTAATTTGATTCATCACATATTGAAGTTGAATCAACAATACCTCT
64 TGAGAAGAACTTGTTCAACCTTAATTTGATTCATCACATATTGAAGTTGAATCAACAATACCTCT
6141863 TTTGAAG
129 TTTGAAG
*
6141870 GTCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGA--AGAAGAAGTTCATAAT
1 ATCAACATTTCCAGAA-AGTTCATAATGAGAAGAACTCATCTGAAGAGGAGAAGAAGTTCATAAT
*
6141933 GAGAAGAGCTTGTTCAACCTT
65 GAGAAGAACTTGTTCAACCTT
6141954 TTGGTAGATC
Statistics
Matches: 204, Mismatches: 15, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
134 35 0.17
136 1 0.00
137 167 0.82
138 1 0.00
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.29
Consensus pattern (135 bp):
ATCAACATTTCCAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAGAAGAAGTTCATAATG
AGAAGAACTTGTTCAACCTTAATTTGATTCATCACATATTGAAGTTGAATCAACAATACCTCTTT
TGAAG
Found at i:6142209 original size:16 final size:16
Alignment explanation
Indices: 6142180--6142228 Score: 75
Period size: 16 Copynumber: 3.1 Consensus size: 16
6142170 TTTTTTTAAT
6142180 TTTATT-TTATTATTA
1 TTTATTATTATTATTA
6142195 TTTATTAATTA-TATTA
1 TTTATT-ATTATTATTA
6142211 TTTATTATTATTATTA
1 TTTATTATTATTATTA
6142227 TT
1 TT
6142229 AATAAAAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
15 10 0.32
16 18 0.58
17 3 0.10
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTATTATTATTATTA
Found at i:6142227 original size:32 final size:31
Alignment explanation
Indices: 6142180--6142246 Score: 89
Period size: 32 Copynumber: 2.1 Consensus size: 31
6142170 TTTTTTTAAT
* * **
6142180 TTTATTTTATTATTATTTATTAATTATATTA
1 TTTATTTTATTATTATTAATAAAAAATATTA
6142211 TTTATTATTATTATTATTAATAAAAAATATTA
1 TTTATT-TTATTATTATTAATAAAAAATATTA
6142243 TTTA
1 TTTA
6142247 CATTACATGC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
31 6 0.19
32 25 0.81
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (31 bp):
TTTATTTTATTATTATTAATAAAAAATATTA
Found at i:6142244 original size:3 final size:3
Alignment explanation
Indices: 6142181--6142229 Score: 57
Period size: 3 Copynumber: 16.0 Consensus size: 3
6142171 TTTTTTAATT
6142181 TTA TT- TTA TTA TTA TTTA TTAA TTA -TA TTA TTTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA -TTA TT-A TTA TTA TTA -TTA TTA TTA TTA TTA
6142227 TTA
1 TTA
6142230 ATAAAAAATA
Statistics
Matches: 41, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
2 4 0.10
3 28 0.68
4 9 0.22
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:6142929 original size:16 final size:16
Alignment explanation
Indices: 6142884--6142930 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 16
6142874 TAAAGCATGT
6142884 TTTTA-TTTATTATAA
1 TTTTAGTTTATTATAA
6142899 TTTT-G--TATTCA-AA
1 TTTTAGTTTATT-ATAA
6142912 TTTTAGTTTATTATAA
1 TTTTAGTTTATTATAA
6142928 TTT
1 TTT
6142931 AATCATTAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 11
0.70 0.00 0.30
Matches are distributed among these distances:
13 10 0.38
14 2 0.08
15 5 0.19
16 9 0.35
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.64
Consensus pattern (16 bp):
TTTTAGTTTATTATAA
Found at i:6142952 original size:2 final size:2
Alignment explanation
Indices: 6142945--6143032 Score: 176
Period size: 2 Copynumber: 44.0 Consensus size: 2
6142935 ATTAACATAA
6142945 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6142987 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6143029 AT AT
1 AT AT
6143033 TAGGTAAAAT
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 86 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6143426 original size:15 final size:16
Alignment explanation
Indices: 6143408--6143441 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
6143398 TTATTTATTT
*
6143408 ATTTTATTTT-TATAA
1 ATTTAATTTTATATAA
6143423 ATTTAATTTTATATAA
1 ATTTAATTTTATATAA
6143439 ATT
1 ATT
6143442 ACTTTTTGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
ATTTAATTTTATATAA
Found at i:6143724 original size:15 final size:14
Alignment explanation
Indices: 6143702--6143739 Score: 58
Period size: 15 Copynumber: 2.6 Consensus size: 14
6143692 TAAAAAATTG
*
6143702 TTAATATATATATA
1 TTAATATATAGATA
6143716 TTAAATATATAGATA
1 TT-AATATATAGATA
6143731 TTAATATAT
1 TTAATATAT
6143740 TTTTAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (14 bp):
TTAATATATAGATA
Found at i:6144440 original size:21 final size:21
Alignment explanation
Indices: 6144391--6144445 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
6144381 AGTTTCCAGA
**
6144391 ATCGCAACACGAACTTCGACT
1 ATCGCAATGCGAACTTCGACT
*
6144412 ATCGCAATGCGAACTTGGACT
1 ATCGCAATGCGAACTTCGACT
6144433 ATCGCAATGCGAA
1 ATCGCAATGCGAA
6144446 TATGTAAATC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.33, C:0.27, G:0.20, T:0.20
Consensus pattern (21 bp):
ATCGCAATGCGAACTTCGACT
Found at i:6144458 original size:20 final size:20
Alignment explanation
Indices: 6144433--6144484 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
6144423 AACTTGGACT
6144433 ATCGCAATGCGAATATGTAA
1 ATCGCAATGCGAATATGTAA
6144453 ATCGCAATGCGAATATGTAA
1 ATCGCAATGCGAATATGTAA
6144473 ATCGCAATGCGA
1 ATCGCAATGCGA
6144485 TAGTCGAAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.23
Consensus pattern (20 bp):
ATCGCAATGCGAATATGTAA
Found at i:6144508 original size:21 final size:21
Alignment explanation
Indices: 6144474--6144519 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
6144464 AATATGTAAA
6144474 TCGCAATGCGATAGTCGAAGT
1 TCGCAATGCGATAGTCGAAGT
* *
6144495 TCGCATTGCTATAGTCGAAGT
1 TCGCAATGCGATAGTCGAAGT
6144516 TCGC
1 TCGC
6144520 GTCCAAATTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (21 bp):
TCGCAATGCGATAGTCGAAGT
Found at i:6144605 original size:21 final size:21
Alignment explanation
Indices: 6144574--6144642 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 21
6144564 CGATTTACAT
*
6144574 ATTCGCATTGCGATAGTCCAA
1 ATTCGCGTTGCGATAGTCCAA
* *
6144595 GTTCGCGTTGCGATTTATTCCAA
1 ATTCGCGTTGCGA--TAGTCCAA
6144618 ATT--CGTTGCGATAGTCCAA
1 ATTCGCGTTGCGATAGTCCAA
*
6144637 AATCGC
1 ATTCGC
6144643 AACGACTGGT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
19 9 0.24
21 20 0.53
23 9 0.24
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (21 bp):
ATTCGCGTTGCGATAGTCCAA
Found at i:6144737 original size:6 final size:6
Alignment explanation
Indices: 6144726--6144752 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
6144716 GACACGTATT
6144726 ACCACG ACCACG ACCACG ACCACG ACC
1 ACCACG ACCACG ACCACG ACCACG ACC
6144753 CGAGACGAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.52, G:0.15, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:6144785 original size:5 final size:5
Alignment explanation
Indices: 6144753--6144784 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
6144743 GACCACGACC
*
6144753 CGAGA CGAGA CGAGA CGAGA CGAGA CGGGA CG
1 CGAGA CGAGA CGAGA CGAGA CGAGA CGAGA CG
6144785 GCGACGACGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.34, C:0.22, G:0.44, T:0.00
Consensus pattern (5 bp):
CGAGA
Found at i:6145291 original size:6 final size:6
Alignment explanation
Indices: 6145269--6145293 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
6145259 CTGTCTCGTC
6145269 TCGTGG TCGTGG TCGTGG TCGTGG T
1 TCGTGG TCGTGG TCGTGG TCGTGG T
6145294 AATACGTGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.48, T:0.36
Consensus pattern (6 bp):
TCGTGG
Found at i:6145402 original size:19 final size:19
Alignment explanation
Indices: 6145378--6145705 Score: 188
Period size: 21 Copynumber: 15.8 Consensus size: 19
6145368 TCGTTGCGAT
*
6145378 TTTGGACTATCGCAACAAA
1 TTTGGACTATCGCAACGAA
*
6145397 TTTGGAATAAATCGCAACGCGAA
1 TTTGGACT--ATCGCAA--CGAA
* *
6145420 CTTCGACTATCGCAACGAA
1 TTTGGACTATCGCAACGAA
*
6145439 CTTGGACTATCGCAACGAA
1 TTTGGACTATCGCAACGAA
* *
6145458 TTTGGAATAAATCGTAATGCGAA
1 TTTGGACT--ATCGCAA--CGAA
* **
6145481 CTTCAACTATCGCAACGAA
1 TTTGGACTATCGCAACGAA
* *
6145500 CTTGGAATAAATCGCAACGCGAA
1 TTTGGACT--ATCGCAA--CGAA
*
6145523 CTTGGACTATCGCAACGAA
1 TTTGGACTATCGCAACGAA
*
6145542 TTTGGAATAAATCGCAACGAA
1 TTTGGACT--ATCGCAACGAA
*
6145563 TTTGGAATAAATCGCAACGCGAA
1 TTTGGACT--ATCGCAA--CGAA
* *
6145586 CTTCGACTATCGCAACGAA
1 TTTGGACTATCGCAACGAA
* *
6145605 CTTGGAATAAATCGCAACGCGAA
1 TTTGGACT--ATCGCAA--CGAA
*
6145628 CTTGGACTATCGCAACGAA
1 TTTGGACTATCGCAACGAA
*
6145647 TTTGGAATAAATCGCAACGCGAA
1 TTTGGACT--ATCGCAA--CGAA
* *
6145670 CTTCGACTATCGCAACGCGAA
1 TTTGGACTATCGCAA--CGAA
*
6145691 CTTGGACTATCGCAA
1 TTTGGACTATCGCAA
6145706 TGCGAATATG
Statistics
Matches: 253, Mismatches: 32, Indels: 46
0.76 0.10 0.14
Matches are distributed among these distances:
19 74 0.29
21 123 0.49
23 56 0.22
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.22
Consensus pattern (19 bp):
TTTGGACTATCGCAACGAA
Found at i:6145412 original size:21 final size:21
Alignment explanation
Indices: 6145386--6145665 Score: 235
Period size: 21 Copynumber: 13.4 Consensus size: 21
6145376 ATTTTGGACT
* *
6145386 ATCGCAACAAATTTGGAATAA
1 ATCGCAACGAACTTGGAATAA
* *
6145407 ATCGCAACGCGAACTTCGACT--
1 ATCGCAA--CGAACTTGGAATAA
*
6145428 ATCGCAACGAACTTGGACT--
1 ATCGCAACGAACTTGGAATAA
*
6145447 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAACTTGGAATAA
* *
6145468 ATCGTAATGCGAACTT-CAACT--
1 ATCGCAA--CGAACTTGGAA-TAA
6145489 ATCGCAACGAACTTGGAATAA
1 ATCGCAACGAACTTGGAATAA
*
6145510 ATCGCAACGCGAACTTGGACT--
1 ATCGCAA--CGAACTTGGAATAA
*
6145531 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAACTTGGAATAA
*
6145552 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAACTTGGAATAA
* *
6145573 ATCGCAACGCGAACTTCGACT--
1 ATCGCAA--CGAACTTGGAATAA
6145594 ATCGCAACGAACTTGGAATAA
1 ATCGCAACGAACTTGGAATAA
*
6145615 ATCGCAACGCGAACTTGGACT--
1 ATCGCAA--CGAACTTGGAATAA
*
6145636 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAACTTGGAATAA
6145657 ATCGCAACG
1 ATCGCAACG
6145666 CGAACTTCGA
Statistics
Matches: 214, Mismatches: 23, Indels: 44
0.76 0.08 0.16
Matches are distributed among these distances:
19 66 0.31
20 2 0.01
21 98 0.46
22 2 0.01
23 46 0.21
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.21
Consensus pattern (21 bp):
ATCGCAACGAACTTGGAATAA
Found at i:6145601 original size:105 final size:105
Alignment explanation
Indices: 6145382--6145705 Score: 494
Period size: 105 Copynumber: 3.1 Consensus size: 105
6145372 TGCGATTTTG
* * * * *
6145382 GACTATCGCAACAAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGACT
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAAT
* *
6145447 --ATCGCAACGAATTTGGAATAAATCGTAATGCGAACTTC
66 AAATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
*
6145485 AACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAAT
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAAT
6145550 AAATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
66 AAATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
6145590 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAAT
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAAT
* * * *
6145655 AAATCGCAACGCGAACTTCGACT--ATCGCAACGCGAACTTG
66 AAATCGCAA--CGAATTTGGAATAAATCGCAACGCGAACTTC
6145695 GACTATCGCAA
1 GACTATCGCAA
6145706 TGCGAATATG
Statistics
Matches: 204, Mismatches: 13, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
103 59 0.29
105 136 0.67
107 9 0.04
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.21
Consensus pattern (105 bp):
GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAAT
AAATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
Found at i:6145703 original size:42 final size:40
Alignment explanation
Indices: 6145379--6145711 Score: 264
Period size: 42 Copynumber: 8.0 Consensus size: 40
6145369 CGTTGCGATT
* * *
6145379 TTGGACTATCGCAACAAATTTGGAATAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAACTTGGACT--ATCGCAACGCGAAC
* *
6145421 TTCGACTATCGCAACGAACTTGGACTATCGCAA--CGAAT
1 TTGGACTATCGCAACGAACTTGGACTATCGCAACGCGAAC
* * **
6145459 TTGGAATAAATCGTAATGCGAACTTCAACTATCGCAA--CGAAC
1 TTGGACT--ATCGCAA--CGAACTTGGACTATCGCAACGCGAAC
* *
6145501 TTGGAATAAATCGCAACGCGAACTTGGACTATCGCAA--CGAAT
1 TTGGACT--ATCGCAA--CGAACTTGGACTATCGCAACGCGAAC
* * *
6145543 TTGGAATAAATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAACGAACTTGGACT--ATCGCAACGCGAAC
* *
6145587 TTCGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAACTTGGACT--ATCGCAACGCGAAC
* *
6145629 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAACTTGGACT--ATCGCAACGCGAAC
* *
6145671 TTCGACTATCGCAACGCGAACTTGGACTATCGCAATGCGAA
1 TTGGACTATCGCAA--CGAACTTGGACTATCGCAACGCGAA
6145712 TATGTAAATC
Statistics
Matches: 253, Mismatches: 28, Indels: 20
0.84 0.09 0.07
Matches are distributed among these distances:
38 9 0.04
40 23 0.09
42 202 0.80
44 19 0.08
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.22
Consensus pattern (40 bp):
TTGGACTATCGCAACGAACTTGGACTATCGCAACGCGAAC
Found at i:6145711 original size:84 final size:81
Alignment explanation
Indices: 6145378--6145705 Score: 382
Period size: 84 Copynumber: 4.0 Consensus size: 81
6145368 TCGTTGCGAT
* *
6145378 TTTGGACT-ATCGCAACAAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTT
1 TTTGGAATAATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTT
6145442 GGACTATCGCAACGAA
66 GGACTATCGCAACGAA
* * * * *
6145458 TTTGGAATAAATCGTAATGCGAACTT-CAACT--ATCGCAA--CGAACTTGGAATAAATCGCAAC
1 TTTGGAAT-AATCGCAA--CGAATTTGGAA-TAAATCGCAACGCGAACTTCGACT--ATCGCAA-
6145518 GCGAACTTGGACTATCGCAACGAA
59 -CGAACTTGGACTATCGCAACGAA
6145542 TTTGGAATAAATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACT
1 TTTGGAAT-AATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACT
*
6145607 TGGAATAAATCGCAACGCGAA
65 TGGACT--ATCGCAA--CGAA
* *
6145628 CTTGGACT-ATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGCGAAC
1 TTTGGAATAATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAA--CGAAC
6145692 TTGGACTATCGCAA
64 TTGGACTATCGCAA
6145706 TGCGAATATG
Statistics
Matches: 212, Mismatches: 16, Indels: 36
0.80 0.06 0.14
Matches are distributed among these distances:
80 17 0.08
82 38 0.18
83 4 0.02
84 122 0.58
86 31 0.15
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.22
Consensus pattern (81 bp):
TTTGGAATAATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTT
GGACTATCGCAACGAA
Found at i:6148279 original size:24 final size:24
Alignment explanation
Indices: 6148225--6148279 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
6148215 ATTTATTGTT
* *
6148225 TCGTTTATTGTCTCGTTTGTAATC
1 TCGTTTATTGTCTCGTTTATAAGC
*
6148249 TCCTTTATTGAT-TCGTTTATAAGC
1 TCGTTTATTG-TCTCGTTTATAAGC
6148273 TCGTTTA
1 TCGTTTA
6148280 CTCGATTCTC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
24 25 0.96
25 1 0.04
ACGTcount: A:0.16, C:0.16, G:0.15, T:0.53
Consensus pattern (24 bp):
TCGTTTATTGTCTCGTTTATAAGC
Found at i:6148487 original size:23 final size:23
Alignment explanation
Indices: 6148457--6148535 Score: 104
Period size: 23 Copynumber: 3.4 Consensus size: 23
6148447 ACATTAAACA
*
6148457 AACGTTAAACGAAAATGTTCATG
1 AACGTTAAACGAAAATGTTCACG
* * * *
6148480 AACGTTAAATGAATATGTTCGCA
1 AACGTTAAACGAAAATGTTCACG
*
6148503 AATGTTAAACGAAAATGTTCACG
1 AACGTTAAACGAAAATGTTCACG
6148526 AACGTTAAAC
1 AACGTTAAAC
6148536 AAACAAGTCT
Statistics
Matches: 45, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.27
Consensus pattern (23 bp):
AACGTTAAACGAAAATGTTCACG
Found at i:6148550 original size:46 final size:46
Alignment explanation
Indices: 6148455--6148558 Score: 129
Period size: 46 Copynumber: 2.3 Consensus size: 46
6148445 AAACATTAAA
* ** * *
6148455 CAAACGTTAAACGAAAATGTTCATGAACGTTAAATGAATATGTTCG
1 CAAACGTTAAACGAAAATGTTCACGAACGTTAAACAAACAAGTTCG
*
6148501 CAAATGTTAAACGAAAATGTTCACGAACGTTAAACAAACAAG-TCTG
1 CAAACGTTAAACGAAAATGTTCACGAACGTTAAACAAACAAGTTC-G
*
6148547 CAAACGCTAAAC
1 CAAACGTTAAAC
6148559 AAACACAAAC
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
45 2 0.04
46 47 0.96
ACGTcount: A:0.44, C:0.17, G:0.15, T:0.23
Consensus pattern (46 bp):
CAAACGTTAAACGAAAATGTTCACGAACGTTAAACAAACAAGTTCG
Found at i:6152585 original size:37 final size:37
Alignment explanation
Indices: 6152523--6152832 Score: 319
Period size: 38 Copynumber: 8.2 Consensus size: 37
6152513 TTTCAAAATA
6152523 AAAAATCATTTTTTAAATATA-TATATATTATACG-TTTC
1 AAAAAT-ATTTTTTAAA-A-ACTATATATTATACGTTTTC
*
6152561 AAAAATATTTTTTAAAAAATTATATATTATACGTTTTC
1 AAAAATATTTTTT-AAAAACTATATATTATACGTTTTC
* * * *
6152599 AAAAGTAATTTTTAAAAACTATATATTATACAATTTTT
1 AAAAATATTTTTTAAAAACTATATATTATAC-GTTTTC
*
6152637 AAAAATATTTTTTAAAAACTATATATTACACGTTTTC
1 AAAAATATTTTTTAAAAACTATATATTATACGTTTTC
* *
6152674 AAAAATATTTTTTTTAAAAAACCATATATTATAAGTTTTC
1 AAAAATA--TTTTTT-AAAAACTATATATTATACGTTTTC
* *
6152714 AAAAAT-TGTTTTTTAAAACTATATAATATATATATGTTTTC
1 AAAAATAT-TTTTTAAAAAC--TAT-ATAT-TATACGTTTTC
* * *
6152755 AAAAAT-TGTTTTT-AAAATTATATAATATATGTTTTC
1 AAAAATAT-TTTTTAAAAACTATATATTATACGTTTTC
6152791 AAAAAT-TATTTTT-AAAACTATATATTATACGTTTTC
1 AAAAATAT-TTTTTAAAAACTATATATTATACGTTTTC
6152827 AAAAAT
1 AAAAAT
6152833 TGTTTATAAA
Statistics
Matches: 238, Mismatches: 22, Indels: 26
0.83 0.08 0.09
Matches are distributed among these distances:
36 50 0.21
37 58 0.24
38 64 0.27
39 8 0.03
40 35 0.15
41 23 0.10
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.46
Consensus pattern (37 bp):
AAAAATATTTTTTAAAAACTATATATTATACGTTTTC
Found at i:6152872 original size:13 final size:14
Alignment explanation
Indices: 6152854--6152887 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
6152844 TATATAATAT
*
6152854 ATATTTTTAAAA-C
1 ATATTTTCAAAACC
6152867 ATATTTTCAAAACC
1 ATATTTTCAAAACC
6152881 ATATTTT
1 ATATTTT
6152888 ATATTTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.41, C:0.12, G:0.00, T:0.47
Consensus pattern (14 bp):
ATATTTTCAAAACC
Found at i:6152907 original size:21 final size:21
Alignment explanation
Indices: 6152867--6152908 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
6152857 TTTTTAAAAC
*
6152867 ATATTTTCAAAACCATATTTT
1 ATATTTTCAAAACCAGATTTT
* *
6152888 ATATTTTTAAAACCCGATTTT
1 ATATTTTCAAAACCAGATTTT
6152909 TAAAATTATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.36, C:0.14, G:0.02, T:0.48
Consensus pattern (21 bp):
ATATTTTCAAAACCAGATTTT
Found at i:6152915 original size:71 final size:68
Alignment explanation
Indices: 6152763--6152931 Score: 180
Period size: 71 Copynumber: 2.4 Consensus size: 68
6152753 TCAAAAATTG
* * *
6152763 TTTTTAAAATTATATAATATATGTTTTCAAAAATTATTTTTAAAACTATATATTATACGTTTTCA
1 TTTTTAAAATTATATAATATATATTTTCAAAAATTATTTTCAAAACCATATATTATAC-TTTTCA
6152828 AAAA
65 AAAA
* *
6152832 TTGTTTATAAATTATATAATATATATTTTTAAAACA-TATTTTCAAAACCATATTTTATA-TTTT
1 TT-TTTA-AAATTATATAATATATATTTTCAAAA-ATTATTTTCAAAACCATATATTATACTTTT
*
6152895 TAAAACCCGA
63 CAAAA----A
*
6152905 TTTTTAAAATTATATATTATATGATTT
1 TTTTTAAAATTATATAATATAT-ATTT
6152932 AAAAAGTTTA
Statistics
Matches: 85, Mismatches: 7, Indels: 13
0.81 0.07 0.12
Matches are distributed among these distances:
69 10 0.12
70 4 0.05
71 59 0.69
72 9 0.11
73 3 0.04
ACGTcount: A:0.41, C:0.07, G:0.03, T:0.49
Consensus pattern (68 bp):
TTTTTAAAATTATATAATATATATTTTCAAAAATTATTTTCAAAACCATATATTATACTTTTCAA
AAA
Found at i:6152925 original size:35 final size:33
Alignment explanation
Indices: 6152532--6152935 Score: 128
Period size: 37 Copynumber: 10.9 Consensus size: 33
6152522 AAAAAATCAT
* * *
6152532 TTTTTAAATATATATATATTATACGTTTCAAAAATA
1 TTTTTAAA-AT-TATATATTATA-TTTTTAAAACTA
* *
6152568 TTTTTTAAAAAATTATATATTATACGTTTTCAAAAGTAA
1 -TTTTT--AAAATTATATATTATA--TTTTTAAAACT-A
* *
6152607 TTTTTAAAAACTATATATTATACAATTTTTAAAAATA
1 TTTTT-AAAATTATATATTAT---ATTTTTAAAACTA
* * * *
6152644 TTTTTTAAAAACTATATATTACACGTTTTCAAAAATA
1 -TTTTT-AAAATTATATATTATA--TTTTTAAAACTA
** * * *
6152681 TTTTTTTTAAAAAACCATATATTATAAGTTTTCAAAAATTGT
1 ---TTTTT--AAAATTATATATTAT-A-TTTT-TAAAACT-A
* *
6152723 TTTTTAAAACTATATAATATATATATGTTTTCAAAAATTG
1 TTTTTAAAA-T-TAT-ATAT-TATAT-TTTT--AAAACTA
* *
6152763 TTTTTAAAATTATATAATATATGTTTTCAAAAATTA
1 TTTTTAAAATTATATATTATAT-TTTT--AAAACTA
* *
6152799 TTTTTAAAACTATATATTATACGTTTTCAAAA--A
1 TTTTTAAAATTATATATTATA--TTTTTAAAACTA
6152832 TTGTTTATAAATTATATAATATATATTTTTAAAACATA
1 TT-TTTA-AAATTATAT-AT-TATATTTTTAAAAC-TA
* ** * *
6152870 TTTTCAAAACCATATTTTATATTTTTAAAACCCGA
1 TTTTTAAAATTATATATTATATTTTTAAAA--CTA
*
6152905 TTTTTAAAATTATATATTATATGATTTAAAA
1 TTTTTAAAATTATATATTATAT-TTTTAAAA
6152936 AGTTTAAATT
Statistics
Matches: 298, Mismatches: 34, Indels: 71
0.74 0.08 0.18
Matches are distributed among these distances:
33 3 0.01
34 17 0.06
35 41 0.14
36 54 0.18
37 60 0.20
38 52 0.17
39 19 0.06
40 37 0.12
41 15 0.05
ACGTcount: A:0.43, C:0.06, G:0.03, T:0.47
Consensus pattern (33 bp):
TTTTTAAAATTATATATTATATTTTTAAAACTA
Found at i:6166248 original size:37 final size:37
Alignment explanation
Indices: 6166207--6166414 Score: 256
Period size: 37 Copynumber: 5.5 Consensus size: 37
6166197 AAAAAAATTC
* *
6166207 TAAAAAATATATATTATACGTGTTCAAAAATATTTTT
1 TAAAAACTATATATTATACGTTTTCAAAAATATTTTT
* *
6166244 TAAAAATTATATATTATACGTTTTCAAAAGTATTTTTT
1 TAAAAACTATATATTATACGTTTTCAAAAATA-TTTTT
* *
6166282 TAAAAAACTATATATTATACATTTTTTTAAAAATATTTTT
1 T-AAAAACTATATATTATAC--GTTTTCAAAAATATTTTT
*
6166322 TAAAAACTATATATTAAACGTTTTCAAAAATATTTGTT
1 TAAAAACTATATATTATACGTTTTCAAAAATATTT-TT
* *
6166360 TAAAAACCATATATTATACGATTTCAAAAAT-TGTTTT
1 TAAAAACTATATATTATACGTTTTCAAAAATAT-TTTT
* *
6166397 TCAAAACTATATAATATA
1 TAAAAACTATATATTATA
6166415 TATATATATA
Statistics
Matches: 149, Mismatches: 16, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
37 61 0.41
38 38 0.26
39 34 0.23
40 6 0.04
41 10 0.07
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.44
Consensus pattern (37 bp):
TAAAAACTATATATTATACGTTTTCAAAAATATTTTT
Found at i:6166282 original size:39 final size:37
Alignment explanation
Indices: 6166207--6166572 Score: 237
Period size: 39 Copynumber: 9.6 Consensus size: 37
6166197 AAAAAAATTC
* * *
6166207 TAAAAAATATATATTATACGTGTTCAAAAATATTTTT
1 TAAAAACTATATATTATACGTTTTCAAAAATTTTTTT
*
6166244 TAAAAATTATATATTATACGTTTTCAAAAGTATTTTTTT
1 TAAAAACTATATATTATACGTTTTCAAAA--ATTTTTTT
* * * *
6166283 AAAAAACTATATATTATACATTTTTTTAAAAATATTTTT
1 TAAAAACTATATATTATAC--GTTTTCAAAAATTTTTTT
* *
6166322 TAAAAACTATATATTAAACGTTTTCAAAAATATTTGTT
1 TAAAAACTATATATTATACGTTTTCAAAAAT-TTTTTT
* *
6166360 TAAAAACCATATATTATACGATTTCAAAAATTGTTTTT
1 TAAAAACTATATATTATACGTTTTCAAAAATT-TTTTT
* * ** *
6166398 CAAAACTATATAATATATATATATATATATATTCAAAAA-TTGTTT
1 --TAA--A-A-ACTATATAT-TATACGT-T-TTCAAAAATTTTTTT
** * * *
6166443 TTGAAATTATATAATATA-TTTTTCAAAAATTATTTTT
1 TAAAAACTATATATTATACGTTTTCAAAAATT-TTTTT
* * *
6166480 GAAATAA-TATA-A-TATATGTTTTCAAAAATTGTTTT
1 TAAA-AACTATATATTATACGTTTTCAAAAATTTTTTT
* *
6166515 T-AAAATTATATATTATA--TCTTTCAAAAATTGTTTT
1 TAAAAACTATATATTATACGT-TTTCAAAAATTTTTTT
* * *
6166550 T-CAAACTATATAATATATGTTTT
1 TAAAAACTATATATTATACGTTTT
6166573 TAAATCATAT
Statistics
Matches: 263, Mismatches: 41, Indels: 51
0.74 0.12 0.14
Matches are distributed among these distances:
33 2 0.01
34 7 0.03
35 47 0.18
36 22 0.08
37 49 0.19
38 42 0.16
39 55 0.21
40 3 0.01
41 9 0.03
42 1 0.00
43 1 0.00
44 7 0.03
45 8 0.03
46 2 0.01
47 8 0.03
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.47
Consensus pattern (37 bp):
TAAAAACTATATATTATACGTTTTCAAAAATTTTTTT
Found at i:6166468 original size:35 final size:36
Alignment explanation
Indices: 6166413--6166572 Score: 216
Period size: 35 Copynumber: 4.5 Consensus size: 36
6166403 CTATATAATA
* *
6166413 TATATATATATATATATTCAAAAATTGTTTTTGAAAT
1 TATATA-ATATATGTTTTCAAAAATTGTTTTTGAAAT
*
6166450 TATATAATATAT-TTTTCAAAAATTATTTTTGAAAT
1 TATATAATATATGTTTTCAAAAATTGTTTTTGAAAT
* *
6166485 AATATAATATATGTTTTCAAAAATTGTTTTTAAAAT
1 TATATAATATATGTTTTCAAAAATTGTTTTTGAAAT
* * * *
6166521 TATATATTATAT-CTTTCAAAAATTGTTTTTCAAAC
1 TATATAATATATGTTTTCAAAAATTGTTTTTGAAAT
6166556 TATATAATATATGTTTT
1 TATATAATATATGTTTT
6166573 TAAATCATAT
Statistics
Matches: 109, Mismatches: 12, Indels: 5
0.87 0.10 0.04
Matches are distributed among these distances:
35 63 0.58
36 40 0.37
37 6 0.06
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.50
Consensus pattern (36 bp):
TATATAATATATGTTTTCAAAAATTGTTTTTGAAAT
Found at i:6166504 original size:71 final size:71
Alignment explanation
Indices: 6166409--6166572 Score: 231
Period size: 71 Copynumber: 2.3 Consensus size: 71
6166399 AAAACTATAT
* * * *
6166409 AATATATATATATATATATATTCAAAAATTGTTTTTGAAATTATATAATATATTTTTCAAAAATT
1 AATA-ATATA-ATATATGTTTTCAAAAATTGTTTTTAAAATTATATAATATATCTTTCAAAAATT
*
6166474 ATTTTTGA
64 ATTTTTCA
* *
6166482 AATAATATAATATATGTTTTCAAAAATTGTTTTTAAAATTATATATTATATCTTTCAAAAATTGT
1 AATAATATAATATATGTTTTCAAAAATTGTTTTTAAAATTATATAATATATCTTTCAAAAATTAT
6166547 TTTTCA
66 TTTTCA
6166553 AACT-ATATAATATATGTTTT
1 AA-TAATATAATATATGTTTT
6166573 TAAATCATAT
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
71 73 0.88
72 6 0.07
73 4 0.05
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.49
Consensus pattern (71 bp):
AATAATATAATATATGTTTTCAAAAATTGTTTTTAAAATTATATAATATATCTTTCAAAAATTAT
TTTTCA
Found at i:6166613 original size:71 final size:70
Alignment explanation
Indices: 6166409--6166612 Score: 180
Period size: 71 Copynumber: 2.9 Consensus size: 70
6166399 AAAACTATAT
* * * ** ** *
6166409 AATATATATATATATATATATTCAAAAATTGTTTTTGAAATTATATAATATATTTTTCAAAAATT
1 AATA-ATATA-ATATATGTTTTCAAAAATTATTTTCAAAACCATATTATATA-TTTTCAAAAATT
*
6166474 ATTTTTGA
63 ATTTTTCA
* * ** *
6166482 AATAATATAATATATGTTTTCAAAAATTGTTTTTAAAATTATA-TATTATATCTTTCAAAAATTG
1 AATAATATAATATATGTTTTCAAAAATTATTTTCAAAACCATATTA-TATAT-TTTCAAAAATTA
6166546 TTTTTCA
64 TTTTTCA
* *
6166553 AACT-ATATAATATATGTTTTTAAATCA-TATTTTCAAAACCATATTATATATTTTCAAAAA
1 AA-TAATATAATATATGTTTTCAAA-AATTATTTTCAAAACCATATTATATATTTTCAAAAA
6166613 AATAATTTTT
Statistics
Matches: 114, Mismatches: 12, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
70 11 0.10
71 90 0.79
72 9 0.08
73 4 0.04
ACGTcount: A:0.43, C:0.06, G:0.03, T:0.48
Consensus pattern (70 bp):
AATAATATAATATATGTTTTCAAAAATTATTTTCAAAACCATATTATATATTTTCAAAAATTATT
TTTCA
Found at i:6168002 original size:34 final size:36
Alignment explanation
Indices: 6167958--6168057 Score: 143
Period size: 34 Copynumber: 2.8 Consensus size: 36
6167948 TTTCGTCCTA
*
6167958 CTAGGATTCAAACTCCTAAAAATATGATATA-A-TTT
1 CTAGGATTCAAACTCCTAAAAATAGGATA-ACATTTT
6167993 -TAGGATTCAAACTCCTAAAAATAGGATAACATTTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAACATTTT
*
6168028 GCTATGATTCAAACTCCTAAAAATAGGATA
1 -CTAGGATTCAAACTCCTAAAAATAGGATA
6168058 GAGTTCTACT
Statistics
Matches: 59, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
33 1 0.02
34 28 0.47
35 3 0.05
37 27 0.46
ACGTcount: A:0.43, C:0.15, G:0.11, T:0.31
Consensus pattern (36 bp):
CTAGGATTCAAACTCCTAAAAATAGGATAACATTTT
Found at i:6168083 original size:37 final size:37
Alignment explanation
Indices: 6167955--6168093 Score: 135
Period size: 37 Copynumber: 3.8 Consensus size: 37
6167945 ATTTTTCGTC
* *
6167955 CTACTAGGATTCAAACTCCTAAAAATATGATATA-ATT
1 CTACTAAGATTCAAACTCCTAAAAATAGGATA-ACATT
*
6167992 -T--TAGGATTCAAACTCCTAAAAATAGGATAACATT
1 CTACTAAGATTCAAACTCCTAAAAATAGGATAACATT
* * * *
6168026 TTGCTATGATTCAAACTCCTAAAAATAGGATAGA-GTT
1 CTACTAAGATTCAAACTCCTAAAAATAGGATA-ACATT
* * *
6168063 CTACTAAGATTTAAATTCCTAAAGATAGGAT
1 CTACTAAGATTCAAACTCCTAAAAATAGGAT
6168094 CCACAAGCAC
Statistics
Matches: 88, Mismatches: 9, Indels: 10
0.82 0.08 0.09
Matches are distributed among these distances:
33 1 0.01
34 30 0.34
35 1 0.01
36 1 0.01
37 54 0.61
38 1 0.01
ACGTcount: A:0.42, C:0.14, G:0.12, T:0.32
Consensus pattern (37 bp):
CTACTAAGATTCAAACTCCTAAAAATAGGATAACATT
Found at i:6168512 original size:2 final size:2
Alignment explanation
Indices: 6168507--6168541 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
6168497 TTAGTGTTAT
6168507 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6168542 TTCCTATTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:6168642 original size:22 final size:22
Alignment explanation
Indices: 6168578--6168643 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 22
6168568 ATATTGCTTT
6168578 TGATTTT-CTTTTTTTTATTATTA
1 TGATTTTACTTTTTTTTA-TA-TA
* * * *
6168601 TTATTTTACTTATATATATATA
1 TGATTTTACTTTTTTTTATATA
*
6168623 TGCTTTTACTTTTTTTTATAT
1 TGATTTTACTTTTTTTTATAT
6168644 TTTACTCATT
Statistics
Matches: 33, Mismatches: 9, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
22 18 0.55
23 8 0.24
24 7 0.21
ACGTcount: A:0.23, C:0.06, G:0.03, T:0.68
Consensus pattern (22 bp):
TGATTTTACTTTTTTTTATATA
Found at i:6168675 original size:16 final size:18
Alignment explanation
Indices: 6168654--6168688 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
6168644 TTTACTCATT
6168654 TATTTAT-CTAT-TTTTA
1 TATTTATCCTATATTTTA
6168670 TATTTATCCTATATTTTA
1 TATTTATCCTATATTTTA
6168688 T
1 T
6168689 GTTTTTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 4 0.24
18 6 0.35
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.66
Consensus pattern (18 bp):
TATTTATCCTATATTTTA
Found at i:6169878 original size:26 final size:26
Alignment explanation
Indices: 6169848--6169900 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
6169838 TGTTTGCCTT
6169848 TGTGTTTGTTTTTAGCATTTGCATCA
1 TGTGTTTGTTTTTAGCATTTGCATCA
6169874 TGTGTTTGTTTTTAGCATTTGCATCA
1 TGTGTTTGTTTTTAGCATTTGCATCA
6169900 T
1 T
6169901 AACAAGAGGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.15, C:0.11, G:0.19, T:0.55
Consensus pattern (26 bp):
TGTGTTTGTTTTTAGCATTTGCATCA
Found at i:6173376 original size:21 final size:20
Alignment explanation
Indices: 6173331--6173399 Score: 66
Period size: 20 Copynumber: 3.2 Consensus size: 20
6173321 CAAAAAGGGC
*
6173331 AAAAAGAAAAAAGAAAATAAGCA
1 AAAAAGAAAAAA-CAAA-AA-CA
*
6173354 AAAAAGCAAAAAACAAGAACA
1 AAAAAG-AAAAAACAAAAACA
* *
6173375 AAAAAGAAAGAACAAAAATA
1 AAAAAGAAAAAACAAAAACA
6173395 AAAAA
1 AAAAA
6173400 AGGGGACAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
20 16 0.40
21 8 0.20
22 2 0.05
23 8 0.20
24 6 0.15
ACGTcount: A:0.80, C:0.07, G:0.10, T:0.03
Consensus pattern (20 bp):
AAAAAGAAAAAACAAAAACA
Found at i:6173385 original size:14 final size:14
Alignment explanation
Indices: 6173331--6173392 Score: 54
Period size: 14 Copynumber: 4.3 Consensus size: 14
6173321 CAAAAAGGGC
*
6173331 AAAAAGAAAAAAGA
1 AAAAAGAAAAAACA
6173345 AAATAAGCAAAAAAGCA
1 AAA-AAG-AAAAAA-CA
* *
6173362 AAAAA-CAAGAACA
1 AAAAAGAAAAAACA
*
6173375 AAAAAGAAAGAACA
1 AAAAAGAAAAAACA
6173389 AAAA
1 AAAA
6173393 TAAAAAAAGG
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
13 7 0.17
14 18 0.45
15 3 0.08
16 8 0.20
17 4 0.10
ACGTcount: A:0.79, C:0.08, G:0.11, T:0.02
Consensus pattern (14 bp):
AAAAAGAAAAAACA
Found at i:6174059 original size:22 final size:22
Alignment explanation
Indices: 6174031--6174085 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
6174021 GCTATCCCAT
6174031 CAAACCTTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
*
6174053 CAAACCTTTGAGTATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
6174075 CAAACCTTTGA
1 CAAACCTTTGA
6174086 CCAAACACAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.36, C:0.25, G:0.13, T:0.25
Consensus pattern (22 bp):
CAAACCTTTGAGCATCAAATGC
Found at i:6175094 original size:36 final size:36
Alignment explanation
Indices: 6175043--6175324 Score: 285
Period size: 36 Copynumber: 8.0 Consensus size: 36
6175033 ACTAGAAGAG
*
6175043 TTTTGTCTCTATTGAGACAGTTTCCCTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
* *
6175079 TTTTTTCTCTCTTGAGACAGTTTCTCTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
* * * *
6175115 TTTCGTCTATCTTGAGACATTTTCCCTTGAAATAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
6175151 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
* * * * *
6175187 ------ATAT-TTGA-ATATGTTTTCTTTGAAACAAA
1 TTTTGTCTCTCTTGAGACA-GTTTCCCTTGAAACAAA
** * ** * *
6175216 TTCCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAG
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAAC-AAA
*
6175253 TTTTGTCTCTCTTGAGACAGTTTCTCTTGAAAC-AA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
*
6175288 TTTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAA
1 TTTT-GTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
6175325 ACTTTTGAAT
Statistics
Matches: 200, Mismatches: 34, Indels: 23
0.78 0.13 0.09
Matches are distributed among these distances:
28 2 0.01
29 19 0.09
30 2 0.01
35 6 0.03
36 137 0.69
37 34 0.17
ACGTcount: A:0.26, C:0.20, G:0.13, T:0.41
Consensus pattern (36 bp):
TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
Found at i:6175273 original size:102 final size:102
Alignment explanation
Indices: 6175099--6175287 Score: 281
Period size: 102 Copynumber: 1.9 Consensus size: 102
6175089 CTTGAGACAG
* * *
6175099 TTTCTCTTGAAACAAATTTCGTCTATCTTGAGACATTTTCCCTTGAAATAAATTTTGTCTCTCTT
1 TTTCTCTTGAAACAAATTCCGTCTACCTTGAGACAGTTTCCCTTGAAATAAATTTTGTCTCTCTT
6175164 GAGACAGTTTCCCTTGAAACAAAATATTTGAATATGT
66 GAGACAGTTTCCCTTGAAACAAAATATTTGAATATGT
* ** * *
6175201 TTTCT-TTGAAACAAATTCCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCT
1 TTTCTCTTGAAACAAATTCCGTCTACCTTGAGACAGTTTCCCTT-GAAATAAATTTTGTCTCTCT
*
6175265 TGAGACAGTTTCTCTTGAAACAA
65 TGAGACAGTTTCCCTTGAAACAA
6175288 TTTTCGTCTA
Statistics
Matches: 77, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
101 32 0.42
102 45 0.58
ACGTcount: A:0.27, C:0.19, G:0.13, T:0.41
Consensus pattern (102 bp):
TTTCTCTTGAAACAAATTCCGTCTACCTTGAGACAGTTTCCCTTGAAATAAATTTTGTCTCTCTT
GAGACAGTTTCCCTTGAAACAAAATATTTGAATATGT
Found at i:6175316 original size:138 final size:137
Alignment explanation
Indices: 6175063--6175387 Score: 420
Period size: 138 Copynumber: 2.4 Consensus size: 137
6175053 ATTGAGACAG
* *
6175063 TTTCCCTTGAAACAAATTTTTTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTCGTCTATCTT
1 TTTCCCTTGAAACAAATTTTATCTCCCTTGAGACAGTTTCTCTTGAAACAAATTTCGTCTATCTT
* *
6175128 GAGACATTTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAA-TATT
66 GAGACAGTTTCCCTTGAAATAAATTTTGTCTATCTTGAGACAGTTTCCCTTGAAACAAAACT-TT
*
6175192 TGAATATG
130 TGAATATA
* * *** * * * * *
6175200 TTTTCTTTGAAACAAATTCCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCT
1 TTTCCCTTGAAACAAATTTTATCTCCCTTGAGACAGTTTCTCTTGAAAC-AAATTTCGTCTATCT
* *
6175265 TGAGACAGTTTCTCTTGAAA-CAATTTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAAACTT
65 TGAGACAGTTTCCCTTGAAATAAATTTT-GTCTATCTTGAGACAGTTTCCCTTGAAACAAAACTT
*
6175329 TTGAATTTA
129 TTGAATATA
* * *
6175338 TTTCCCCTAAAACAAATTTTATCTCCCTTGAGACAGTTACTCTTGAAACA
1 TTTCCCTTGAAACAAATTTTATCTCCCTTGAGACAGTTTCTCTTGAAACA
6175388 CAAAATCTTC
Statistics
Matches: 158, Mismatches: 27, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
137 48 0.30
138 109 0.69
139 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.12, T:0.40
Consensus pattern (137 bp):
TTTCCCTTGAAACAAATTTTATCTCCCTTGAGACAGTTTCTCTTGAAACAAATTTCGTCTATCTT
GAGACAGTTTCCCTTGAAATAAATTTTGTCTATCTTGAGACAGTTTCCCTTGAAACAAAACTTTT
GAATATA
Found at i:6175417 original size:67 final size:66
Alignment explanation
Indices: 6175299--6175456 Score: 201
Period size: 68 Copynumber: 2.4 Consensus size: 66
6175289 TTTCGTCTAT
* * **
6175299 CTTGAGACAGTTTCCCTTGAAACAAAACTTTTGAATTTATTTCCCCTAAAACA-AATTTTATCTC
1 CTTGAGACAGTTTCTCTTGAAACAAAAATTTCAAATTTATTTCCCCTAAAACATAATTTTATCTC
6175363 C
66 C
* * * *
6175364 CTTGAGACAGTTACTCTTGAAACACAAAATCTTCAAATTTATTTCCCTTAAAACATAATTTTGTT
1 CTTGAGACAGTTTCTCTTGAAACA-AAAAT-TTCAAATTTATTTCCCCTAAAACATAATTTTATC
6175429 TCC
64 TCC
* *
6175432 CTTGAGACCGTTTCTCATGAAACAA
1 CTTGAGACAGTTTCTCTTGAAACAA
6175457 CAGATATCTT
Statistics
Matches: 79, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
65 22 0.28
66 4 0.05
67 22 0.28
68 31 0.39
ACGTcount: A:0.33, C:0.22, G:0.09, T:0.36
Consensus pattern (66 bp):
CTTGAGACAGTTTCTCTTGAAACAAAAATTTCAAATTTATTTCCCCTAAAACATAATTTTATCTC
C
Found at i:6175992 original size:100 final size:100
Alignment explanation
Indices: 6175673--6176020 Score: 570
Period size: 100 Copynumber: 3.4 Consensus size: 100
6175663 GAATCAAGAT
*
6175673 TCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGCTTGTCAACAAAATTTCATTCAG
1 TCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAAAATTTCATTCAG
6175738 AGCCAATTTCAACTTCACAGCGAAGGATATTGGAC
66 AGCCAATTTCAACTTCACAGCGAAGGATATTGGAC
*
6175773 TCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTTCCAAT
1 TCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAA-AA-TTT-C-AT
**
6175838 CTCAGAGCCAATTTCAACTTCACAATGAAGGATATTGGAC
62 -TCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGAC
* *
6175878 TCCAGACAACGCAAGTTCAACTTCACGATGAATGGACCGCTGCTTGTCAACAAAATTTCATTCAG
1 TCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAAAATTTCATTCAG
*
6175943 AGCCAATTTCAACTTCACAGCGAAAGATATTGGAC
66 AGCCAATTTCAACTTCACAGCGAAGGATATTGGAC
* *
6175978 TCCAGACAATGCAAGTTCAACTTCACGACGAAGGGATCGCTGC
1 TCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGC
6176021 CATCGAAATT
Statistics
Matches: 229, Mismatches: 14, Indels: 10
0.91 0.06 0.04
Matches are distributed among these distances:
100 126 0.55
101 4 0.02
102 4 0.02
103 4 0.02
104 4 0.02
105 87 0.38
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.22
Consensus pattern (100 bp):
TCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAAAATTTCATTCAG
AGCCAATTTCAACTTCACAGCGAAGGATATTGGAC
Found at i:6176541 original size:34 final size:36
Alignment explanation
Indices: 6176497--6176596 Score: 161
Period size: 34 Copynumber: 2.8 Consensus size: 36
6176487 TTTCGTCCTA
6176497 CTAGGATTCAAACTCCTAAAAATAGGATATA-A-TTT
1 CTAGGATTCAAACTCCTAAAAATAGGATA-ACATTTT
6176532 -TAGGATTCAAACTCCTAAAAATAGGATAACATTTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAACATTTT
6176567 GCTAGGATTCAAACTCCTAAAAATAGGATA
1 -CTAGGATTCAAACTCCTAAAAATAGGATA
6176597 GAGTTCTACT
Statistics
Matches: 61, Mismatches: 0, Indels: 6
0.91 0.00 0.09
Matches are distributed among these distances:
33 1 0.02
34 29 0.48
35 3 0.05
37 28 0.46
ACGTcount: A:0.43, C:0.15, G:0.13, T:0.29
Consensus pattern (36 bp):
CTAGGATTCAAACTCCTAAAAATAGGATAACATTTT
Found at i:6176582 original size:37 final size:35
Alignment explanation
Indices: 6176497--6176632 Score: 159
Period size: 37 Copynumber: 3.8 Consensus size: 35
6176487 TTTCGTCCTA
6176497 CTAGGATTCAAACTCCTAAAAATAGGATATAATTT
1 CTAGGATTCAAACTCCTAAAAATAGGATATAATTT
6176532 -TAGGATTCAAACTCCTAAAAATAGGATA-ACATTTT
1 CTAGGATTCAAACTCCTAAAAATAGGATATA-A-TTT
* *
6176567 GCTAGGATTCAAACTCCTAAAAATAGGATAGAGTTCT
1 -CTAGGATTCAAACTCCTAAAAATAGGATATAATT-T
* * * *
6176604 ACTAAGATTTAAATTCCTAAAGATAGGAT
1 -CTAGGATTCAAACTCCTAAAAATAGGAT
6176633 CCACAAGCAC
Statistics
Matches: 89, Mismatches: 6, Indels: 10
0.85 0.06 0.10
Matches are distributed among these distances:
33 1 0.01
34 29 0.33
35 3 0.03
36 2 0.02
37 53 0.60
38 1 0.01
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.30
Consensus pattern (35 bp):
CTAGGATTCAAACTCCTAAAAATAGGATATAATTT
Found at i:6177050 original size:2 final size:2
Alignment explanation
Indices: 6177045--6177106 Score: 117
Period size: 2 Copynumber: 31.5 Consensus size: 2
6177035 TTAGTGTTAT
6177045 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6177087 TA TA TA TA TA T- TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
6177107 TTAATTTCCT
Statistics
Matches: 59, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 58 0.98
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Done.