Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 64 of 311
Found at i:19310447 original size:40 final size:40
Alignment explanation
Indices: 19310356--19310487 Score: 133
Period size: 40 Copynumber: 3.3 Consensus size: 40
19310346 TATAATATCA
* * **
19310356 CACACTAAGT-ACATCAAATAGCCAAAGCTATCTCAATCTCG
1 CACACTAAGTGCCA-CATATAGCCAAAGCTATCTCAAAAT-G
* *
19310397 CACACTAAGTGCCACATATAGCCGAAGCTA-CTCCAAATTG
1 CACACTAAGTGCCACATATAGCCAAAGCTATCT-CAAAATG
*** *
19310437 CACACTAAGTGCTTTATATTGCCAAAGCTATCTCAAAATG
1 CACACTAAGTGCCACATATAGCCAAAGCTATCTCAAAATG
19310477 CACACTAAGTG
1 CACACTAAGTG
19310488 AAAAACATAA
Statistics
Matches: 77, Mismatches: 11, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
40 45 0.58
41 30 0.39
42 2 0.03
ACGTcount: A:0.36, C:0.27, G:0.13, T:0.23
Consensus pattern (40 bp):
CACACTAAGTGCCACATATAGCCAAAGCTATCTCAAAATG
Found at i:19327768 original size:25 final size:25
Alignment explanation
Indices: 19327699--19327780 Score: 78
Period size: 26 Copynumber: 3.2 Consensus size: 25
19327689 GCCAACACAC
*
19327699 CAGTATCGCAGCAAAGCTGCCAGTA
1 CAGTAACGCAGCAAAGCTGCCAGTA
* * *
19327724 -A-TAATTTTGTAGCAAGGCTGCCAGTA
1 CAGTAA---CGCAGCAAAGCTGCCAGTA
19327750 CAGTAACGCAGCAAAGCTGCCAGTA
1 CAGTAACGCAGCAAAGCTGCCAGTA
19327775 TCAGTA
1 -CAGTA
19327781 TATGTGGCGA
Statistics
Matches: 44, Mismatches: 7, Indels: 11
0.71 0.11 0.18
Matches are distributed among these distances:
23 2 0.05
24 1 0.02
25 16 0.36
26 21 0.48
27 1 0.02
28 3 0.07
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.21
Consensus pattern (25 bp):
CAGTAACGCAGCAAAGCTGCCAGTA
Found at i:19353085 original size:38 final size:38
Alignment explanation
Indices: 19353034--19353109 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
19353024 GAATTAATTA
19353034 AATCTACTTATAGGTTATTAGTTCACTTCGGTAATCTT
1 AATCTACTTATAGGTTATTAGTTCACTTCGGTAATCTT
19353072 AATCTACTTATAGGTTATTAGTTCACTTCGGTAATCTT
1 AATCTACTTATAGGTTATTAGTTCACTTCGGTAATCTT
19353110 CATTAACTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (38 bp):
AATCTACTTATAGGTTATTAGTTCACTTCGGTAATCTT
Found at i:19360488 original size:46 final size:46
Alignment explanation
Indices: 19360435--19360607 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
19360425 TTGGGCATCT
19360435 GAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
1 GAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
* * *
19360481 GAGCTCATTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCC
1 GAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCC
* * *
19360528 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATTGATGCGAATGCCC
1 GAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
* * *
19360574 GAGCTCGTTGAGTTGAGTCTGAGTTCGCTTATGG
1 GAGCTCATTGAGTTGAGTCCGAGTTCACTTATGG
19360608 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 59 0.55
47 28 0.26
48 3 0.03
50 5 0.05
51 2 0.02
ACGTcount: A:0.20, C:0.19, G:0.30, T:0.31
Consensus pattern (46 bp):
GAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
Found at i:19360587 original size:93 final size:93
Alignment explanation
Indices: 19360428--19360600 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 93
19360418 AGGATATTTG
* *
19360428 GGCATCTGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAGCTCATTGAG
1 GGCATCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAGCTCATTGAG
19360493 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * *
19360521 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATTGATGCGAATGCCCGAGCTCGTTGAG
1 GGCATCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAGCTCATTGAG
*
19360586 TTGAGTCTGAGTTCG
66 TTGAGTCCGAGTTCG
19360601 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (93 bp):
GGCATCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAGCTCATTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:19365814 original size:22 final size:22
Alignment explanation
Indices: 19365786--19365829 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
19365776 GAAAATAATC
*
19365786 AAAATTAA-TAACAATTTATTAT
1 AAAATTAATTAA-AATTAATTAT
19365808 AAAATTAATTAAAATTAATTAT
1 AAAATTAATTAAAATTAATTAT
19365830 GTTAATAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 17 0.85
23 3 0.15
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (22 bp):
AAAATTAATTAAAATTAATTAT
Found at i:19371039 original size:43 final size:42
Alignment explanation
Indices: 19370928--19371055 Score: 132
Period size: 43 Copynumber: 3.0 Consensus size: 42
19370918 ATATCATACA
* * * *
19370928 ATGCCAACGTCCCAGATGTGGTATTACATGTAACCTCATATCG
1 ATGCCAACGT-CCAGACGTGGTCTTACATGTAAACACATATCG
* * *
19370971 ATGCC-ACAGTACCAGACATGTTCTTACTTGTAAACACATATCG
1 ATGCCAAC-GT-CCAGACGTGGTCTTACATGTAAACACATATCG
* *
19371014 ATGCCAACGTCCTAGACGTGGTCTTACACGTAATCACATATC
1 ATGCCAACGTCC-AGACGTGGTCTTACATGTAAACACATATC
19371056 AATATCACAT
Statistics
Matches: 69, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
42 4 0.06
43 63 0.91
44 2 0.03
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (42 bp):
ATGCCAACGTCCAGACGTGGTCTTACATGTAAACACATATCG
Found at i:19372378 original size:14 final size:15
Alignment explanation
Indices: 19372361--19372389 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
19372351 ACAAGAAAAT
19372361 TTCACAC-ATATAAA
1 TTCACACAATATAAA
19372375 TTCACACAATATAAA
1 TTCACACAATATAAA
19372390 CAAATAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACAATATAAA
Found at i:19377979 original size:40 final size:40
Alignment explanation
Indices: 19377935--19378014 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
19377925 AATATAGAAC
19377935 ATCTCCATCTAACTCCAGTGTTGAATTCTGCAATGCCCCG
1 ATCTCCATCTAACTCCAGTGTTGAATTCTGCAATGCCCCG
*
19377975 ATCTCCATCTAACTCCAGTGTTGAATTCTGTAATGCCCCG
1 ATCTCCATCTAACTCCAGTGTTGAATTCTGCAATGCCCCG
19378015 TACCCGAGAC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.23, C:0.31, G:0.15, T:0.31
Consensus pattern (40 bp):
ATCTCCATCTAACTCCAGTGTTGAATTCTGCAATGCCCCG
Found at i:19379449 original size:46 final size:45
Alignment explanation
Indices: 19379309--19379449 Score: 124
Period size: 46 Copynumber: 3.0 Consensus size: 45
19379299 GCCCATAAGC
* * * * *
19379309 GAACTCGGACTCAACTCAACGAGCTCAGATGCCTAGTTACATCTCA-C
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---ACATCCCAGT
* * * *
19379356 GAACTCGGACTCAACTCAACGAGTTCGGACGCTC-GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCC--CAGT
*
19379402 GAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCCAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AACATCCCAGT
19379448 GA
1 GA
19379450 CATGTCACTT
Statistics
Matches: 75, Mismatches: 14, Indels: 11
0.75 0.14 0.11
Matches are distributed among these distances:
43 4 0.05
45 1 0.01
46 37 0.49
47 29 0.39
48 4 0.05
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCCCAGT
Found at i:19381392 original size:30 final size:30
Alignment explanation
Indices: 19381357--19381428 Score: 76
Period size: 30 Copynumber: 2.4 Consensus size: 30
19381347 CCGAAAAAAT
* *
19381357 AAATCCAAGATAGAGA-AACCCGGAATAAAG
1 AAATCCAAGATAAAGAGAACCAGG-ATAAAG
*
19381387 AAATCC-AGAATAAAGAGATCCAGGATAAAG
1 AAATCCAAG-ATAAAGAGAACCAGGATAAAG
*
19381417 AAACCCAAGATA
1 AAATCCAAGATA
19381429 CGATACTATG
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
29 2 0.06
30 26 0.74
31 7 0.20
ACGTcount: A:0.54, C:0.17, G:0.18, T:0.11
Consensus pattern (30 bp):
AAATCCAAGATAAAGAGAACCAGGATAAAG
Found at i:19381397 original size:15 final size:15
Alignment explanation
Indices: 19381357--19381419 Score: 65
Period size: 15 Copynumber: 4.2 Consensus size: 15
19381347 CCGAAAAAAT
*
19381357 AAATCCA-AGATAGAG
1 AAATCCAGA-ATAAAG
* *
19381372 AAACCCGGAATAAAG
1 AAATCCAGAATAAAG
19381387 AAATCCAGAATAAAG
1 AAATCCAGAATAAAG
* *
19381402 AGATCCAGGATAAAG
1 AAATCCAGAATAAAG
19381417 AAA
1 AAA
19381420 CCCAAGATAC
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
15 38 0.97
16 1 0.03
ACGTcount: A:0.56, C:0.14, G:0.19, T:0.11
Consensus pattern (15 bp):
AAATCCAGAATAAAG
Found at i:19381428 original size:15 final size:15
Alignment explanation
Indices: 19381361--19381428 Score: 50
Period size: 15 Copynumber: 4.5 Consensus size: 15
19381351 AAAAATAAAT
*
19381361 CCAAGATAGAGAAAC
1 CCAAGATAAAGAAAC
* *
19381376 CC-GGAATAAAGAAAT
1 CCAAG-ATAAAGAAAC
* *
19381391 CC-AGAATAAAGAGAT
1 CCAAG-ATAAAGAAAC
*
19381406 CCAGGATAAAGAAAC
1 CCAAGATAAAGAAAC
19381421 CCAAGATA
1 CCAAGATA
19381429 CGATACTATG
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
14 1 0.02
15 40 0.95
16 1 0.02
ACGTcount: A:0.53, C:0.18, G:0.19, T:0.10
Consensus pattern (15 bp):
CCAAGATAAAGAAAC
Found at i:19384355 original size:47 final size:47
Alignment explanation
Indices: 19384272--19384405 Score: 150
Period size: 46 Copynumber: 2.9 Consensus size: 47
19384262 TGTAACCCGC
* *
19384272 CCATAAGCGAACTCGGACTCAACTCAACAAGCTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG---CAT
* * * *
19384322 -C-TCA-CGAACTCGGACTCAACTCAATGAGTTCGGACG-CTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGCAT
*
19384365 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC
19384406 CAAATATCCC
Statistics
Matches: 70, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
43 3 0.04
44 1 0.01
45 2 0.03
46 32 0.46
47 29 0.41
48 2 0.03
49 1 0.01
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.20
Consensus pattern (47 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGCAT
Found at i:19384420 original size:46 final size:45
Alignment explanation
Indices: 19384280--19384420 Score: 115
Period size: 46 Copynumber: 3.0 Consensus size: 45
19384270 GCCCATAAGC
* * * * *
19384280 GAACTCGGACTCAACTCAACAAGCTCGGATGCCTAGTTACATCTCA-C
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---ACATCCCAGT
* * * * *
19384327 GAACTCGGACTCAACTCAATGAGTTCGGACGCTC-GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCC--CAGT
*
19384373 GAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCCAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AACATCCCAGT
19384419 GA
1 GA
19384421 CATGTCACTT
Statistics
Matches: 73, Mismatches: 16, Indels: 11
0.73 0.16 0.11
Matches are distributed among these distances:
43 4 0.05
45 1 0.01
46 36 0.49
47 28 0.38
48 4 0.05
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.21
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCCCAGT
Found at i:19388582 original size:17 final size:16
Alignment explanation
Indices: 19388560--19388593 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
19388550 GAGGATGGCA
19388560 TTTGTTTGATGTTTATT
1 TTTGTTTG-TGTTTATT
*
19388577 TTTGTTTGTTTTTATT
1 TTTGTTTGTGTTTATT
19388593 T
1 T
19388594 CATAATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.09, C:0.00, G:0.15, T:0.76
Consensus pattern (16 bp):
TTTGTTTGTGTTTATT
Found at i:19394361 original size:33 final size:35
Alignment explanation
Indices: 19394323--19394403 Score: 87
Period size: 33 Copynumber: 2.4 Consensus size: 35
19394313 GCCTAAGCCC
*
19394323 ATTCAGATAACAGTGATACTAGGCCAGAG-CCCTT
1 ATTCAGATAACAGTGAAACTAGGCCAGAGCCCCTT
* * * **
19394357 -TTCAGATTACA-TTAAACTGGGCCTTAGCCCCTT
1 ATTCAGATAACAGTGAAACTAGGCCAGAGCCCCTT
19394390 ATTCAGATAACAGT
1 ATTCAGATAACAGT
19394404 ATGGCCCATA
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
32 11 0.30
33 15 0.41
34 10 0.27
35 1 0.03
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.28
Consensus pattern (35 bp):
ATTCAGATAACAGTGAAACTAGGCCAGAGCCCCTT
Found at i:19394752 original size:25 final size:27
Alignment explanation
Indices: 19394711--19394765 Score: 78
Period size: 26 Copynumber: 2.1 Consensus size: 27
19394701 AGTCAAACAT
19394711 GTATTTAGGTCAATTTAAC-CCTAGGG
1 GTATTTAGGTCAATTTAACTCCTAGGG
* *
19394737 GTATTTCGGT-AATTTATCTCCTAGGG
1 GTATTTAGGTCAATTTAACTCCTAGGG
19394763 GTA
1 GTA
19394766 AAACTGTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 7 0.27
26 19 0.73
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.38
Consensus pattern (27 bp):
GTATTTAGGTCAATTTAACTCCTAGGG
Found at i:19408462 original size:68 final size:67
Alignment explanation
Indices: 19408390--19408539 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
19408380 CATCATGTGT
* * * *
19408390 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
19408452 ATGTAG
62 ATGTAG
** * *
19408458 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
19408523 AG
66 AG
19408525 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
19408540 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:19408495 original size:64 final size:64
Alignment explanation
Indices: 19408414--19408597 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
19408404 AGACATTATG
* *
19408414 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
19408478 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
19408543 AA
63 AA
* * * *
19408545 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
19408598 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:19413793 original size:18 final size:17
Alignment explanation
Indices: 19413766--19413799 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
19413756 AATAAATATT
19413766 ATTAATAAATTAATTTA
1 ATTAATAAATTAATTTA
19413783 ATTAGATAAATTAATTT
1 ATTA-ATAAATTAATTT
19413800 TCCAATTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (17 bp):
ATTAATAAATTAATTTA
Found at i:19415330 original size:16 final size:16
Alignment explanation
Indices: 19415305--19415336 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
19415295 AGGGGGCAAA
19415305 AATGTAATTTTTGTAT
1 AATGTAATTTTTGTAT
*
19415321 AATGTGATTTTTGTAT
1 AATGTAATTTTTGTAT
19415337 TAAAATAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.16, T:0.56
Consensus pattern (16 bp):
AATGTAATTTTTGTAT
Found at i:19415874 original size:66 final size:68
Alignment explanation
Indices: 19415745--19415874 Score: 183
Period size: 66 Copynumber: 1.9 Consensus size: 68
19415735 GGGATGTATC
*
19415745 CCATGTAGACAAGAGAGCTACGTGAGAGATAAATGTAGCTAGGTCGCATGAGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTAC--G-GAGATAAATGTAGCTAGGTCGCATGAGTGATACCAAGTGA
19415810 AGGACA
63 AGGACA
* * *
19415816 CCATGTAGACAAGAGAGCTAC-GAGATAAAT-TGGCTAGGTCGCATGAGTGGTACTAAGTG
1 CCATGTAGACAAGAGAGCTACGGAGATAAATGTAGCTAGGTCGCATGAGTGATACCAAGTG
19415875 TTCACCATGT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
66 25 0.45
67 9 0.16
71 21 0.38
ACGTcount: A:0.34, C:0.15, G:0.30, T:0.21
Consensus pattern (68 bp):
CCATGTAGACAAGAGAGCTACGGAGATAAATGTAGCTAGGTCGCATGAGTGATACCAAGTGAAGG
ACA
Found at i:19417688 original size:33 final size:33
Alignment explanation
Indices: 19417604--19417688 Score: 91
Period size: 33 Copynumber: 2.6 Consensus size: 33
19417594 ATGTTCCTAA
*
19417604 TTTACTATCCCGACAA-ACTTACTCTATTTCGTG
1 TTTACTATCCCGA-AAGACTTACTCTATTCCGTG
* ** *
19417637 TTTACTGTCTTGAAAGACTTACTTTATTCCGTG
1 TTTACTATCCCGAAAGACTTACTCTATTCCGTG
* *
19417670 TTTACTACCCCGATAGACT
1 TTTACTATCCCGAAAGACT
19417689 ACCTCTCTGT
Statistics
Matches: 41, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
32 2 0.05
33 39 0.95
ACGTcount: A:0.24, C:0.25, G:0.12, T:0.40
Consensus pattern (33 bp):
TTTACTATCCCGAAAGACTTACTCTATTCCGTG
Found at i:19420411 original size:15 final size:16
Alignment explanation
Indices: 19420391--19420428 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
19420381 TATAGCGGCT
19420391 ATAAAATAGTCCAAA-
1 ATAAAATAGTCCAAAC
* *
19420406 ATAAAATATTCTAAAC
1 ATAAAATAGTCCAAAC
19420422 ATAAAAT
1 ATAAAAT
19420429 CAGTAATCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.61, C:0.11, G:0.03, T:0.26
Consensus pattern (16 bp):
ATAAAATAGTCCAAAC
Found at i:19434617 original size:27 final size:27
Alignment explanation
Indices: 19434401--19434676 Score: 214
Period size: 27 Copynumber: 10.4 Consensus size: 27
19434391 CGTACCTAAA
* *
19434401 CCCTTATGAGATAAAATGATTG-TTTTT
1 CCCTTATGTGATAAAATGA-TGATTTTG
* *
19434428 CCCTTAGGTGACAAAATG-T--TTTT-
1 CCCTTATGTGATAAAATGATGATTTTG
* *
19434451 CCCTTAGGTGATTAAATGATGATTTTG
1 CCCTTATGTGATAAAATGATGATTTTG
** *
19434478 CCCTTATGTGGCAAAATGATG-TTTTT
1 CCCTTATGTGATAAAATGATGATTTTG
* * *
19434504 CTCTTATGCGATAAAATGACGATTTTG
1 CCCTTATGTGATAAAATGATGATTTTG
* * * *
19434531 -CTTTATGAGCTAAAATGA-CAGTTTTG
1 CCCTTATGTGATAAAATGATGA-TTTTG
**
19434557 CCCTTATGTGGCAAAATGACT-ATTTTG
1 CCCTTATGTGATAAAATGA-TGATTTTG
*
19434584 CCCTTATGTGATAAAATTATGATTTTG
1 CCCTTATGTGATAAAATGATGATTTTG
** *
19434611 CCCTTATAAGGTAAAATGATGATTTTG
1 CCCTTATGTGATAAAATGATGATTTTG
* *
19434638 CCCTTATGAGGTAAAATGACT-ATTTTG
1 CCCTTATGTGATAAAATGA-TGATTTTG
19434665 CCCCTT-TGTGAT
1 -CCCTTATGTGAT
19434677 GTATGTGTAT
Statistics
Matches: 202, Mismatches: 35, Indels: 24
0.77 0.13 0.09
Matches are distributed among these distances:
23 16 0.08
24 5 0.02
25 2 0.01
26 44 0.22
27 128 0.63
28 7 0.03
ACGTcount: A:0.28, C:0.14, G:0.18, T:0.40
Consensus pattern (27 bp):
CCCTTATGTGATAAAATGATGATTTTG
Found at i:19434654 original size:81 final size:80
Alignment explanation
Indices: 19434464--19434676 Score: 270
Period size: 81 Copynumber: 2.7 Consensus size: 80
19434454 TTAGGTGATT
* * * *
19434464 AAATGATGATTTTGCCCTTATGTGGCAAAATGA-TGTTTTTCTCTTATGCGATAAAATGACGATT
1 AAATGATGATTTTGCCCTTATGTGGCAAAATGACTATTTTGCCCTTATGTGATAAAATGACGATT
* *
19434528 TTGCTTTATGAGCTA
66 TTGCCTTATAAGCTA
* * *
19434543 AAATGA-CAGTTTTGCCCTTATGTGGCAAAATGACTATTTTGCCCTTATGTGATAAAATTATGAT
1 AAATGATGA-TTTTGCCCTTATGTGGCAAAATGACTATTTTGCCCTTATGTGATAAAATGACGAT
*
19434607 TTTGCCCTTATAAGGTA
65 TTTG-CCTTATAAGCTA
* *
19434624 AAATGATGATTTTGCCCTTATGAGGTAAAATGACTATTTTGCCCCTT-TGTGAT
1 AAATGATGATTTTGCCCTTATGTGGCAAAATGACTATTTTG-CCCTTATGTGAT
19434677 GTATGTGTAT
Statistics
Matches: 116, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
78 1 0.01
79 30 0.26
80 28 0.24
81 51 0.44
82 6 0.05
ACGTcount: A:0.28, C:0.14, G:0.18, T:0.39
Consensus pattern (80 bp):
AAATGATGATTTTGCCCTTATGTGGCAAAATGACTATTTTGCCCTTATGTGATAAAATGACGATT
TTGCCTTATAAGCTA
Found at i:19435045 original size:18 final size:19
Alignment explanation
Indices: 19435005--19435052 Score: 64
Period size: 18 Copynumber: 2.6 Consensus size: 19
19434995 CTGCATATTG
*
19435005 TTTACTGTTATTACACTGA
1 TTTACTGTTACTACACTGA
19435024 -TTACTGTTACTACACT-A
1 TTTACTGTTACTACACTGA
*
19435041 TTTACTATTACT
1 TTTACTGTTACT
19435053 GCAATGGGCC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 1 0.04
18 25 0.96
ACGTcount: A:0.27, C:0.19, G:0.06, T:0.48
Consensus pattern (19 bp):
TTTACTGTTACTACACTGA
Found at i:19439515 original size:27 final size:26
Alignment explanation
Indices: 19439484--19439759 Score: 245
Period size: 27 Copynumber: 10.3 Consensus size: 26
19439474 CCTACCTGAA
19439484 CCCTTATGAGATAAAATGACTGTTTTG
1 CCCTTATGAGATAAAATGAC-GTTTTG
*
19439511 CCCTTATGTGATAAAATGACGATTTTG
1 CCCTTATGAGATAAAATGACG-TTTTG
* *
19439538 CCCTTATGAGGTAAAATGGCGGTTTTG
1 CCCTTATGAGATAAAATGAC-GTTTTG
* *
19439565 CCCTTAT-ATGGA-AAAATGATTGTTTTT
1 CCCTTATGA--GATAAAATGA-CGTTTTG
*
19439592 CCTTTAT-ATGATAAAATGACGATTTTG
1 CCCTTATGA-GATAAAATGACG-TTTTG
* * *
19439619 CCCTTATAAGCTAAAATGACGTTTTA
1 CCCTTATGAGATAAAATGACGTTTTG
* * **
19439645 CCATTATGTGGCAAAATGACTGTTTTG
1 CCCTTATGAGATAAAATGAC-GTTTTG
*
19439672 CCCTTATGTGATAAAATGACGATTTTG
1 CCCTTATGAGATAAAATGACG-TTTTG
*
19439699 CCCTTATGAGGTAAAATGACAGTTTTG
1 CCCTTATGAGATAAAATGAC-GTTTTG
* * *
19439726 CCATTATGAG-TAGAATGACAATTTTG
1 CCCTTATGAGATAAAATGAC-GTTTTG
*
19439752 CCCCTATG
1 CCCTTATG
19439760 TGATGTATGT
Statistics
Matches: 207, Mismatches: 31, Indels: 23
0.79 0.12 0.09
Matches are distributed among these distances:
26 45 0.22
27 158 0.76
28 4 0.02
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.37
Consensus pattern (26 bp):
CCCTTATGAGATAAAATGACGTTTTG
Found at i:19439545 original size:54 final size:54
Alignment explanation
Indices: 19439484--19439759 Score: 285
Period size: 54 Copynumber: 5.1 Consensus size: 54
19439474 CCTACCTGAA
*
19439484 CCCTTATGAGATAAAATGACTGTTTTGCCCTTATGTGATAAAATGACGATTTTG
1 CCCTTATGAGGTAAAATGACTGTTTTGCCCTTATGTGATAAAATGACGATTTTG
* * * * *
19439538 CCCTTATGAGGTAAAATGGCGGTTTTGCCCTTATATGGA-AAAATGATTG-TTTTT
1 CCCTTATGAGGTAAAATGACTGTTTTGCCCTTATGT-GATAAAATGA-CGATTTTG
* * ** * *
19439592 CCTTTAT-ATGATAAAATGAC-GATTTTGCCCTTATAAGCTAAAATGACG-TTTTA
1 CCCTTATGA-GGTAAAATGACTG-TTTTGCCCTTATGTGATAAAATGACGATTTTG
* * *
19439645 CCATTATGTGGCAAAATGACTGTTTTGCCCTTATGTGATAAAATGACGATTTTG
1 CCCTTATGAGGTAAAATGACTGTTTTGCCCTTATGTGATAAAATGACGATTTTG
* * * * *
19439699 CCCTTATGAGGTAAAATGACAGTTTTGCCATTATGAG-TAGAATGACAATTTTG
1 CCCTTATGAGGTAAAATGACTGTTTTGCCCTTATGTGATAAAATGACGATTTTG
*
19439752 CCCCTATG
1 CCCTTATG
19439760 TGATGTATGT
Statistics
Matches: 184, Mismatches: 30, Indels: 17
0.80 0.13 0.07
Matches are distributed among these distances:
53 67 0.36
54 114 0.62
55 3 0.02
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.37
Consensus pattern (54 bp):
CCCTTATGAGGTAAAATGACTGTTTTGCCCTTATGTGATAAAATGACGATTTTG
Found at i:19439743 original size:80 final size:79
Alignment explanation
Indices: 19439487--19439763 Score: 349
Period size: 80 Copynumber: 3.4 Consensus size: 79
19439477 ACCTGAACCC
19439487 TTATGAGATAAAATGACTGTTTTGCCCTTATGTGATAAAATGACGATTTTGCCCTTATGAGGTAA
1 TTATGAG-TAAAATGACTGTTTTGCCCTTATGTGATAAAATGACGATTTTGCCCTTATGAGGTAA
* *
19439552 AATGGCGGTTTTGCCC
65 AATGAC-GTTTTGCCA
* * * * * * *
19439568 TTAT-ATGGAAAAATGATTGTTTTTCCTTTATATGATAAAATGACGATTTTGCCCTTATAAGCTA
1 TTATGA--GTAAAATGACTGTTTTGCCCTTATGTGATAAAATGACGATTTTGCCCTTATGAGGTA
*
19439632 AAATGACGTTTTACCA
64 AAATGACGTTTTGCCA
* *
19439648 TTATGTGGCAAAATGACTGTTTTGCCCTTATGTGATAAAATGACGATTTTGCCCTTATGAGGTAA
1 TTATG-AGTAAAATGACTGTTTTGCCCTTATGTGATAAAATGACGATTTTGCCCTTATGAGGTAA
19439713 AATGACAGTTTTGCCA
65 AATGAC-GTTTTGCCA
* ** *
19439729 TTATGAGTAGAATGACAATTTTGCCCCTATGTGAT
1 TTATGAGTAAAATGACTGTTTTGCCCTTATGTGAT
19439764 GTATGTGTAT
Statistics
Matches: 166, Mismatches: 25, Indels: 11
0.82 0.12 0.05
Matches are distributed among these distances:
80 93 0.56
81 72 0.43
82 1 0.01
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.37
Consensus pattern (79 bp):
TTATGAGTAAAATGACTGTTTTGCCCTTATGTGATAAAATGACGATTTTGCCCTTATGAGGTAAA
ATGACGTTTTGCCA
Found at i:19440093 original size:18 final size:18
Alignment explanation
Indices: 19440072--19440113 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
19440062 GTTTACTGTA
19440072 ACTGCACTGA-TTATTGTT
1 ACTGCACT-ATTTATTGTT
19440090 ACTGCACTATTTATTGTT
1 ACTGCACTATTTATTGTT
*
19440108 ATTGCA
1 ACTGCA
19440114 ATGAGCCAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 1 0.05
18 21 0.95
ACGTcount: A:0.24, C:0.17, G:0.14, T:0.45
Consensus pattern (18 bp):
ACTGCACTATTTATTGTT
Found at i:19444872 original size:43 final size:43
Alignment explanation
Indices: 19444803--19444886 Score: 107
Period size: 43 Copynumber: 2.0 Consensus size: 43
19444793 ATATGAATCA
* *
19444803 CATCCATCATGAACATGGACCACTCAACGGGCTCAGATGCTTG
1 CATCCATAATGAACATGGACCACTCAACGAGCTCAGATGCTTG
* * *
19444846 CATCCATAATGAAC-TCTGACCTCTCAACGAGCTCTGATGCT
1 CATCCATAATGAACAT-GGACCACTCAACGAGCTCAGATGCT
19444887 ATATACCTCA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 1 0.03
43 34 0.97
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.24
Consensus pattern (43 bp):
CATCCATAATGAACATGGACCACTCAACGAGCTCAGATGCTTG
Found at i:19462645 original size:14 final size:15
Alignment explanation
Indices: 19462626--19462663 Score: 69
Period size: 14 Copynumber: 2.6 Consensus size: 15
19462616 ACTTACTTAC
19462626 CATTTAATTCAT-AA
1 CATTTAATTCATCAA
19462640 CATTTAATTCATCAA
1 CATTTAATTCATCAA
19462655 CATTTAATT
1 CATTTAATT
19462664 TGCTTACTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.39, C:0.16, G:0.00, T:0.45
Consensus pattern (15 bp):
CATTTAATTCATCAA
Found at i:19467615 original size:436 final size:427
Alignment explanation
Indices: 19466811--19467642 Score: 1360
Period size: 436 Copynumber: 1.9 Consensus size: 427
19466801 AACTTTAAAG
** *
19466811 GGCATTATAAAGATGAAATTGAATTAACATATGCATATAATATTATGATATAAGTTATTTTAAAT
1 GGCATTATAAAGATGAAATTGAATTAACATATGCATATAATAGGATGATATAAGTTATTTGAAAT
* * *
19466876 TGATAAATTAAAATGAAATATTGTATAGATCAACTGAACCGAGGATAACTGGGGAAAAGACAAAA
66 AGATAAATTAAAATGAAATATTGTATAGATCAACTGAACCGAGGATAACTAGGGAAAAGAAAAAA
* * *
19466941 TTACCGATTAGTCTTGGCGATCCAACTTGTTTGCTCATTTAGTCATGTAAGTTCATATGGTGTAG
131 TTACCGATTAGTCCTGGCGATCCAACTTGTTTGCTCATTTAATCATGTAAGATCATATGGTGTAG
* *
19467006 TTATATGTAATGTAATGTATATATGTTTGAATTATGAATTTGTTTGTGTGTAAGTGTAATTTGAA
196 TTATATGTAATATAATGTATATATGTTTGAATTATGAATTTGTTTGTGTGTAAGTCTAATTTGAA
19467071 TTGTTTACAATTTGATAAAATAGGGTGAGATATAGACTAAATTGTAAAGAAATGGTTATATGTGT
261 TTGTTTACAATTTGATAAAATAGGGTGAGATATAGACTAAATTGTAAAGAAATGGTTATATGTGT
*
19467136 ACCACCCCATACTCGACCCGTCTACTGAATTCGGATATCGAGTGCCACAATTCCCAAATCTCTTA
326 ACCACCCCATACCCGACCCGTCTACTGAATTCGGATATCGAGTGCCACAATTCCC-AATCTCTTA
*
19467201 GTAAGCTATTTGGAATTGATAAATTGAAATGAATATGA
390 ATAAGCTATTTGGAATTGATAAATTGAAATGAATATGA
* *
19467239 GGCATTATAAAGATGAAATTGAATTAACATATGCATATAATAGGATGGTATAAGTTATTTGGAAT
1 GGCATTATAAAGATGAAATTGAATTAACATATGCATATAATAGGATGATATAAGTTATTTGAAAT
* * * *
19467304 AGATAAATTGAAATGAATTATTGTATAGATCAAGAATTAAACTGGATCGAGGATAACTAGGGAAA
66 AGATAAATTAAAATGAAATATTGTATAGATC--------AACTGAACCGAGGATAACTAGGGAAA
*
19467369 AGAAAAAATTACCGATTAGTCCTGGCGATTCAACTTGTTTGCTCATTTAATCATGTAAGATCATA
123 AGAAAAAATTACCGATTAGTCCTGGCGATCCAACTTGTTTGCTCATTTAATCATGTAAGATCATA
19467434 TGGTGTAGTTATATGTAATATAATGTATATATGTTTGAATTATGAATTTGTTTGTGTGTAAGTCT
188 TGGTGTAGTTATATGTAATATAATGTATATATGTTTGAATTATGAATTTGTTTGTGTGTAAGTCT
*
19467499 AATTTGAATTGTTTACAATTTGGTAAAATAGGGTGAGATATAGACTAAATTGTAAAGAAATGGTT
253 AATTTGAATTGTTTACAATTTGATAAAATAGGGTGAGATATAGACTAAATTGTAAAGAAATGGTT
* *
19467564 ATATGTGTACCACCCCATACCCGACCCGTCTACTGAA-TCTGGATATCGAGTGCCTCAATTCCCT
318 ATATGTGTACCACCCCATACCCGACCCGTCTACTGAATTC-GGATATCGAGTGCCACAATTCCCA
19467628 ATCTCTTAATAAGCT
382 ATCTCTTAATAAGCT
19467643 CTTAATTGAT
Statistics
Matches: 372, Mismatches: 23, Indels: 11
0.92 0.06 0.03
Matches are distributed among these distances:
428 88 0.24
435 16 0.04
436 268 0.72
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.35
Consensus pattern (427 bp):
GGCATTATAAAGATGAAATTGAATTAACATATGCATATAATAGGATGATATAAGTTATTTGAAAT
AGATAAATTAAAATGAAATATTGTATAGATCAACTGAACCGAGGATAACTAGGGAAAAGAAAAAA
TTACCGATTAGTCCTGGCGATCCAACTTGTTTGCTCATTTAATCATGTAAGATCATATGGTGTAG
TTATATGTAATATAATGTATATATGTTTGAATTATGAATTTGTTTGTGTGTAAGTCTAATTTGAA
TTGTTTACAATTTGATAAAATAGGGTGAGATATAGACTAAATTGTAAAGAAATGGTTATATGTGT
ACCACCCCATACCCGACCCGTCTACTGAATTCGGATATCGAGTGCCACAATTCCCAATCTCTTAA
TAAGCTATTTGGAATTGATAAATTGAAATGAATATGA
Found at i:19468919 original size:84 final size:84
Alignment explanation
Indices: 19468778--19468946 Score: 320
Period size: 84 Copynumber: 2.0 Consensus size: 84
19468768 AAGTTCGAAT
*
19468778 CCCACCGTAAGCAGGAGGATTTTACTTTGCTACTTGGGTGGCAAGTCTTTGTGGTGGATTCGAAC
1 CCCACCGTAAGCAAGAGGATTTTACTTTGCTACTTGGGTGGCAAGTCTTTGTGGTGGATTCGAAC
*
19468843 TCTATGGAGTAGTTGTAGA
66 TCTATAGAGTAGTTGTAGA
19468862 CCCACCGTAAGCAAGAGGATTTTACTTTGCTACTTGGGTGGCAAGTCTTTGTGGTGGATTCGAAC
1 CCCACCGTAAGCAAGAGGATTTTACTTTGCTACTTGGGTGGCAAGTCTTTGTGGTGGATTCGAAC
19468927 TCTATAGAGTAGTTGTAGA
66 TCTATAGAGTAGTTGTAGA
19468946 C
1 C
19468947 TTGGTAAAAT
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
84 83 1.00
ACGTcount: A:0.22, C:0.17, G:0.28, T:0.32
Consensus pattern (84 bp):
CCCACCGTAAGCAAGAGGATTTTACTTTGCTACTTGGGTGGCAAGTCTTTGTGGTGGATTCGAAC
TCTATAGAGTAGTTGTAGA
Found at i:19469329 original size:20 final size:21
Alignment explanation
Indices: 19469293--19469331 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
19469283 CCGTATTCCT
19469293 CATTCTTAACTTCTTCTTTAC
1 CATTCTTAACTTCTTCTTTAC
19469314 CATT-TTAACTAT-TTCTTT
1 CATTCTTAACT-TCTTCTTT
19469332 TCTTTTTAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.21, C:0.23, G:0.00, T:0.56
Consensus pattern (21 bp):
CATTCTTAACTTCTTCTTTAC
Found at i:19471568 original size:28 final size:26
Alignment explanation
Indices: 19471508--19471573 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 26
19471498 TTGTGGAATG
19471508 GGTTTTTGAAAAGTTTTCTCAAAATT
1 GGTTTTTGAAAAGTTTTCTCAAAATT
* * *
19471534 GAG-TTTTCAAAAGTTTTTTCTAAACCTT
1 G-GTTTTTGAAAAGTTTTCTC-AAA-ATT
19471562 GGTTTTTGAAAA
1 GGTTTTTGAAAA
19471574 AGATGATTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
26 16 0.50
27 5 0.16
28 11 0.34
ACGTcount: A:0.30, C:0.09, G:0.15, T:0.45
Consensus pattern (26 bp):
GGTTTTTGAAAAGTTTTCTCAAAATT
Found at i:19473267 original size:35 final size:35
Alignment explanation
Indices: 19473158--19473268 Score: 143
Period size: 35 Copynumber: 3.2 Consensus size: 35
19473148 AGGTAAGTAC
* *
19473158 ATGTGAGCTTATATTGAACTTGTATATTTGGCTAC
1 ATGTGAGCTTATATTGAACTTGTATATTTGGTTAA
* *
19473193 ATGTGAGGTTATATTGAACTTG-AGTATTTGATTAA
1 ATGTGAGCTTATATTGAACTTGTA-TATTTGGTTAA
* * *
19473228 ATGTGAGCTTATATTAAACTTGTATATTCGGTTAT
1 ATGTGAGCTTATATTGAACTTGTATATTTGGTTAA
19473263 ATGTGA
1 ATGTGA
19473269 AGTTACCTTG
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
34 1 0.02
35 63 0.97
36 1 0.02
ACGTcount: A:0.29, C:0.07, G:0.21, T:0.43
Consensus pattern (35 bp):
ATGTGAGCTTATATTGAACTTGTATATTTGGTTAA
Found at i:19486201 original size:48 final size:49
Alignment explanation
Indices: 19486173--19486309 Score: 132
Period size: 50 Copynumber: 2.8 Consensus size: 49
19486163 ATGCAGGAAT
* * *
19486173 TTGTTTTATCATGTT-AGTCATTAGGCTTCAATAAACTCTTGCAAAAAAC
1 TTGTTTTATCAT-TTCAGTCATCAGGCTTCCATCAACTCTTGCAAAAAAC
* * * * *
19486222 TTGTTTTATCATTTCAGTCATCAGGCTTCCATCAAATCATGTAGAGAGAC
1 TTGTTTTATCATTTCAGTCATCAGGCTTCCATCAACTCTTGCA-AAAAAC
* * * * *
19486272 TTGTTTTATTATCTCAATCATCAAGCTTCTATCAACTC
1 TTGTTTTATCATTTCAGTCATCAGGCTTCCATCAACTC
19486310 ATTTGGATAC
Statistics
Matches: 72, Mismatches: 14, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
48 2 0.03
49 34 0.47
50 36 0.50
ACGTcount: A:0.29, C:0.20, G:0.12, T:0.39
Consensus pattern (49 bp):
TTGTTTTATCATTTCAGTCATCAGGCTTCCATCAACTCTTGCAAAAAAC
Found at i:19486293 original size:50 final size:48
Alignment explanation
Indices: 19486220--19486333 Score: 138
Period size: 50 Copynumber: 2.3 Consensus size: 48
19486210 CTTGCAAAAA
* * *
19486220 ACTTGTTTTATCATTTCAGTCATCAGGCTTCCATCAAATCATGTAGAGAG
1 ACTTGTTTTATCATCTCAATCATCAAGCTTCCATCAAATCAT-TAG-GAG
* * * * *
19486270 ACTTGTTTTATTATCTCAATCATCAAGCTTCTATCAACTCATTTGGAT
1 ACTTGTTTTATCATCTCAATCATCAAGCTTCCATCAAATCATTAGGAG
19486318 ACTTGTTTTATCATCT
1 ACTTGTTTTATCATCT
19486334 TAGTCTTCCA
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
48 17 0.31
49 2 0.04
50 36 0.65
ACGTcount: A:0.26, C:0.20, G:0.11, T:0.42
Consensus pattern (48 bp):
ACTTGTTTTATCATCTCAATCATCAAGCTTCCATCAAATCATTAGGAG
Found at i:19499625 original size:966 final size:966
Alignment explanation
Indices: 19497755--19499688 Score: 3825
Period size: 966 Copynumber: 2.0 Consensus size: 966
19497745 ATCAAACAAG
19497755 CTAAGACAAGCAAACATCGCCCTCAAATCAGTAACAACTCTACGGCTCAATGCATTGGCTACACA
1 CTAAGACAAGCAAACATCGCCCTCAAATCAGTAACAACTCTACGGCTCAATGCATTGGCTACACA
19497820 TTAGCCTTACCCGGATGGTATTCAATCGAACAATTATAATCTTAAGCAACTCTATCCATCTACGC
66 TTAGCCTTACCCGGATGGTATTCAATCGAACAATTATAATCTTAAGCAACTCTATCCATCTACGC
*
19497885 TACCTAAGGTTTAATTCCTTCTGAGTAAGGAGGTACTTGAAGATCTTGTGATTCGTGTAAATAAC
131 TACCTAAGGTTTAATTCCTTCTGAGTAAAGAGGTACTTGAAGATCTTGTGATTCGTGTAAATAAC
*
19497950 ACACTTCTCACCATACAGATAATGCCTCCAAATCTTCAATGCGAATACCACCGCTGCCAACTCTA
196 ACACTTCTCACCATACAGATAATGCCTCCAAATCTTCAATGCGAATACCACCACTGCCAACTCTA
19498015 AGTCATGCATCGGGTAGTTTGTTTCATGCATTTTAAGCTGACGAGATGCATATACAACTACCTTT
261 AGTCATGCATCGGGTAGTTTGTTTCATGCATTTTAAGCTGACGAGATGCATATACAACTACCTTT
19498080 CCCTCTTACATCAGCACACATCCCAAGCCAACATGAGATGCATCACTATAAACAGTGAATTCCTT
326 CCCTCTTACATCAGCACACATCCCAAGCCAACATGAGATGCATCACTATAAACAGTGAATTCCTT
*
19498145 CCTAGATTCTGGCTATATCAATATAGAGGCCTCAGTCAGAACTTTCTTAAGTTTCTCAAAACTTT
391 CCTAGATTCTGGCTATATCAATATAGAAGCCTCAGTCAGAACTTTCTTAAGTTTCTCAAAACTTT
19498210 CCTGCTGCTCATCAGTCCAGTTAAACGGTACCCCTTTATGCAACAACTTAGTCAGAGGTGCAGCA
456 CCTGCTGCTCATCAGTCCAGTTAAACGGTACCCCTTTATGCAACAACTTAGTCAGAGGTGCAGCA
19498275 ATCAATGAAAACCCCTCAACAAACCGTCTATAATACCCAGCCAAATCTAGAAAACTTCGAATCTC
521 ATCAATGAAAACCCCTCAACAAACCGTCTATAATACCCAGCCAAATCTAGAAAACTTCGAATCTC
19498340 CAACACTGACTTAGGTTGCTTCCAAGCTAGAACCGCTTCAATTTTTTGAGGATCAACCCTAATCC
586 CAACACTGACTTAGGTTGCTTCCAAGCTAGAACCGCTTCAATTTTTTGAGGATCAACCCTAATCC
19498405 CCTCAGCAGATACCACATGACCCAGAAAAGTTACCTCATGTAGCCCGAATTCACACTTGCTGAAT
651 CCTCAGCAGATACCACATGACCCAGAAAAGTTACCTCATGTAGCCCGAATTCACACTTGCTGAAT
19498470 TTAGCATACAGTTGCTTCTCCCTCAAAATCTTCAAAACAACCCGGAGATGTACATCATGTTCCTC
716 TTAGCATACAGTTGCTTCTCCCTCAAAATCTTCAAAACAACCCGGAGATGTACATCATGTTCCTC
19498535 CTCAGTCATCGAATACGCCAGAATGTCATCTATAAACACCATTACGAATCCATCCAGGTAGGGTT
781 CTCAGTCATCGAATACGCCAGAATGTCATCTATAAACACCATTACGAATCCATCCAGGTAGGGTT
19498600 GGAACACTCGGTTCATCAGATCCATAAAAGCAACTGGTGCATTTTTCAGCCCAAACAACATTACT
846 GGAACACTCGGTTCATCAGATCCATAAAAGCAACTGGTGCATTTTTCAGCCCAAACAACATTACT
19498665 AGGAACTCGTAATGATCGTAGCGAGTCCTAAACGCTGTCTTGTATACATCAGTGTC
911 AGGAACTCGTAATGATCGTAGCGAGTCCTAAACGCTGTCTTGTATACATCAGTGTC
19498721 CTAAGACAAGCAAACATCGCCCTCAAATCAGTAACAACTCTACGGCTCAATGCATTGGCTACACA
1 CTAAGACAAGCAAACATCGCCCTCAAATCAGTAACAACTCTACGGCTCAATGCATTGGCTACACA
19498786 TTAGCCTTACCCGGATGGTATTCAATCGAACAATTATAATCTTAAGCAACTCTATCCATCTACGC
66 TTAGCCTTACCCGGATGGTATTCAATCGAACAATTATAATCTTAAGCAACTCTATCCATCTACGC
19498851 TACCTAAGGTTTAATTCCTTCTGAGTAAAGAGGTACTTGAAGATCTTGTGATAT-GTGTAAATAA
131 TACCTAAGGTTTAATTCCTTCTGAGTAAAGAGGTACTTGAAGATCTTGTGAT-TCGTGTAAATAA
19498915 CACACTTCTCACCATACAGATAATGCCTCCAAATCTTCAATGCGAATACCACCACTGCCAACTCT
195 CACACTTCTCACCATACAGATAATGCCTCCAAATCTTCAATGCGAATACCACCACTGCCAACTCT
19498980 AAGTCATGCATCGGGTAGTTTGTTTCATGCATTTTAAGCTGACGAGATGCATATACAACTACCTT
260 AAGTCATGCATCGGGTAGTTTGTTTCATGCATTTTAAGCTGACGAGATGCATATACAACTACCTT
19499045 TCCCTCTTACATCAGCACACATCCCAAGCCAACATGAGATGCATCACTATAAACAGTGAATTCCT
325 TCCCTCTTACATCAGCACACATCCCAAGCCAACATGAGATGCATCACTATAAACAGTGAATTCCT
19499110 TCCTAGATTCTGGCTATATCAATATAGAAGCCTCAGTCAGAACTTTCTTAAGTTTCTCAAAACTT
390 TCCTAGATTCTGGCTATATCAATATAGAAGCCTCAGTCAGAACTTTCTTAAGTTTCTCAAAACTT
19499175 TCCTGCTGCTCATCAGTCCAGTTAAACGGTACCCCTTTATGCAACAACTTAGTCAGAGGTGCAGC
455 TCCTGCTGCTCATCAGTCCAGTTAAACGGTACCCCTTTATGCAACAACTTAGTCAGAGGTGCAGC
19499240 AATCAATGAAAACCCCTCAACAAACCGTCTATAATACCCAGCCAAATCTAGAAAACTTCGAATCT
520 AATCAATGAAAACCCCTCAACAAACCGTCTATAATACCCAGCCAAATCTAGAAAACTTCGAATCT
19499305 CCAACACTGACTTAGGTTGCTTCCAAGCTAGAACCGCTTCAATTTTTTGAGGATCAACCCTAATC
585 CCAACACTGACTTAGGTTGCTTCCAAGCTAGAACCGCTTCAATTTTTTGAGGATCAACCCTAATC
19499370 CCCTCAGCAGATACCACATGACCCAGAAAAGTTACCTCATGTAGCCCGAATTCACACTTGCTGAA
650 CCCTCAGCAGATACCACATGACCCAGAAAAGTTACCTCATGTAGCCCGAATTCACACTTGCTGAA
19499435 TTTAGCATACAGTTGCTTCTCCCTCAAAATCTTCAAAACAACCCGGAGATGTACATCATGTTCCT
715 TTTAGCATACAGTTGCTTCTCCCTCAAAATCTTCAAAACAACCCGGAGATGTACATCATGTTCCT
19499500 CCTCAGTCATCGAATACGCCAGAATGTCATCTATAAACACCATTACGAATCCATCCAGGTAGGGT
780 CCTCAGTCATCGAATACGCCAGAATGTCATCTATAAACACCATTACGAATCCATCCAGGTAGGGT
19499565 TGGAACACTCGGTTCATCAGATCCATAAAAGCAACTGGTGCATTTTTCAGCCCAAACAACATTAC
845 TGGAACACTCGGTTCATCAGATCCATAAAAGCAACTGGTGCATTTTTCAGCCCAAACAACATTAC
19499630 TAGGAACTCGTAATGATCGTAGCGAGTCCTAAACGCTGTCTTGTATACATCAGTGTC
910 TAGGAACTCGTAATGATCGTAGCGAGTCCTAAACGCTGTCTTGTATACATCAGTGTC
19499687 CT
1 CT
19499689 TGACCCTCAG
Statistics
Matches: 964, Mismatches: 3, Indels: 2
0.99 0.00 0.00
Matches are distributed among these distances:
966 963 1.00
967 1 0.00
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27
Consensus pattern (966 bp):
CTAAGACAAGCAAACATCGCCCTCAAATCAGTAACAACTCTACGGCTCAATGCATTGGCTACACA
TTAGCCTTACCCGGATGGTATTCAATCGAACAATTATAATCTTAAGCAACTCTATCCATCTACGC
TACCTAAGGTTTAATTCCTTCTGAGTAAAGAGGTACTTGAAGATCTTGTGATTCGTGTAAATAAC
ACACTTCTCACCATACAGATAATGCCTCCAAATCTTCAATGCGAATACCACCACTGCCAACTCTA
AGTCATGCATCGGGTAGTTTGTTTCATGCATTTTAAGCTGACGAGATGCATATACAACTACCTTT
CCCTCTTACATCAGCACACATCCCAAGCCAACATGAGATGCATCACTATAAACAGTGAATTCCTT
CCTAGATTCTGGCTATATCAATATAGAAGCCTCAGTCAGAACTTTCTTAAGTTTCTCAAAACTTT
CCTGCTGCTCATCAGTCCAGTTAAACGGTACCCCTTTATGCAACAACTTAGTCAGAGGTGCAGCA
ATCAATGAAAACCCCTCAACAAACCGTCTATAATACCCAGCCAAATCTAGAAAACTTCGAATCTC
CAACACTGACTTAGGTTGCTTCCAAGCTAGAACCGCTTCAATTTTTTGAGGATCAACCCTAATCC
CCTCAGCAGATACCACATGACCCAGAAAAGTTACCTCATGTAGCCCGAATTCACACTTGCTGAAT
TTAGCATACAGTTGCTTCTCCCTCAAAATCTTCAAAACAACCCGGAGATGTACATCATGTTCCTC
CTCAGTCATCGAATACGCCAGAATGTCATCTATAAACACCATTACGAATCCATCCAGGTAGGGTT
GGAACACTCGGTTCATCAGATCCATAAAAGCAACTGGTGCATTTTTCAGCCCAAACAACATTACT
AGGAACTCGTAATGATCGTAGCGAGTCCTAAACGCTGTCTTGTATACATCAGTGTC
Found at i:19507405 original size:12 final size:11
Alignment explanation
Indices: 19507387--19507420 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
19507377 ACCCATGCTC
19507387 TTTTTCTTTTT
1 TTTTTCTTTTT
19507398 TCTTTTCTTTTT
1 T-TTTTCTTTTT
19507410 TTTTTCATTTT
1 TTTTTC-TTTT
19507421 ACCAAAATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 6 0.29
12 15 0.71
ACGTcount: A:0.03, C:0.12, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTTCTTTTT
Found at i:19508714 original size:25 final size:26
Alignment explanation
Indices: 19508670--19508718 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
19508660 CTTTTCTTTT
*
19508670 CTTTTCATTTTAAGATTAGATTTTCC
1 CTTTTCATTTTAAGAATAGATTTTCC
*
19508696 CTTTTC-TTTTTAGAATAGATTTT
1 CTTTTCATTTTAAGAATAGATTTT
19508719 ATTTTTGTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 15 0.71
26 6 0.29
ACGTcount: A:0.22, C:0.12, G:0.08, T:0.57
Consensus pattern (26 bp):
CTTTTCATTTTAAGAATAGATTTTCC
Found at i:19510699 original size:5 final size:5
Alignment explanation
Indices: 19510688--19510718 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
19510678 TATTTAAATT
*
19510688 AAAAG AAGAG AAAAG AAAAG AAAAG AAAAG A
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG A
19510719 GAGAAAACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:19511873 original size:19 final size:19
Alignment explanation
Indices: 19511849--19511888 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
19511839 ATCACTTTAA
*
19511849 TAGTAAATTAATAAAATAC
1 TAGTAAAGTAATAAAATAC
19511868 TAGTAAAGTAATAAAATAC
1 TAGTAAAGTAATAAAATAC
19511887 TA
1 TA
19511889 TTAAGATAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.30
Consensus pattern (19 bp):
TAGTAAAGTAATAAAATAC
Found at i:19518744 original size:7 final size:7
Alignment explanation
Indices: 19518732--19518757 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
19518722 CCTAGATGAA
19518732 TTGGGCT
1 TTGGGCT
19518739 TTGGGCT
1 TTGGGCT
19518746 TTGGGCT
1 TTGGGCT
19518753 TTGGG
1 TTGGG
19518758 TTTCATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.00, C:0.12, G:0.46, T:0.42
Consensus pattern (7 bp):
TTGGGCT
Found at i:19519943 original size:16 final size:16
Alignment explanation
Indices: 19519901--19519943 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
19519891 GTAGATCGAC
*
19519901 AAAAGATGAAATGCCA
1 AAAAGCTGAAATGCCA
* * *
19519917 AAAACCCGAAATGCCG
1 AAAAGCTGAAATGCCA
19519933 AAAAGCTGAAA
1 AAAAGCTGAAA
19519944 GGTTGGCTAC
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.53, C:0.19, G:0.19, T:0.09
Consensus pattern (16 bp):
AAAAGCTGAAATGCCA
Found at i:19528012 original size:15 final size:15
Alignment explanation
Indices: 19527988--19528019 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
19527978 TATGCATGCA
*
19527988 AAATATAAAAGACAT
1 AAATACAAAAGACAT
19528003 AAATACAAAAGACAT
1 AAATACAAAAGACAT
19528018 AA
1 AA
19528020 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:19530521 original size:21 final size:20
Alignment explanation
Indices: 19530484--19530523 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
19530474 TATGTATGAT
19530484 TTTTGATGATTGATGATAGA
1 TTTTGATGATTGATGATAGA
* *
19530504 TTTTGAATGGTTGTTGATAG
1 TTTTG-ATGATTGATGATAG
19530524 TTAAACAAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.25, C:0.00, G:0.28, T:0.47
Consensus pattern (20 bp):
TTTTGATGATTGATGATAGA
Found at i:19531111 original size:40 final size:39
Alignment explanation
Indices: 19531022--19531116 Score: 109
Period size: 40 Copynumber: 2.4 Consensus size: 39
19531012 GCTATTTGTG
** *
19531022 GCACTTAGTGTGCAATTCGAGAAAGCTTTGGCTATATAT
1 GCACTTAGTGTGTGATTCGAGAAAGCTTCGGCTATATAT
* * * *
19531061 GCGACCTAGTGTGTGATTTGAGATAGCTTCGGCTATGTAT
1 GC-ACTTAGTGTGTGATTCGAGAAAGCTTCGGCTATATAT
19531101 GACACTTAGTGTGTGA
1 G-CACTTAGTGTGTGA
19531117 GATATCGAGT
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
39 2 0.04
40 43 0.93
41 1 0.02
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.34
Consensus pattern (39 bp):
GCACTTAGTGTGTGATTCGAGAAAGCTTCGGCTATATAT
Found at i:19531137 original size:28 final size:28
Alignment explanation
Indices: 19531097--19531156 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
19531087 CTTCGGCTAT
* * *
19531097 GTATGACACTTAGTGTGTGAGATATCGA
1 GTATAACACTTAGTGTGCGAGACATCGA
*
19531125 GTATAACACTTAGTGTGCGAGACATTGA
1 GTATAACACTTAGTGTGCGAGACATCGA
19531153 GTAT
1 GTAT
19531157 TCAACGATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.30, C:0.12, G:0.27, T:0.32
Consensus pattern (28 bp):
GTATAACACTTAGTGTGCGAGACATCGA
Found at i:19532286 original size:66 final size:63
Alignment explanation
Indices: 19532160--19532305 Score: 152
Period size: 66 Copynumber: 2.2 Consensus size: 63
19532150 ACATGGTCTC
*
19532160 ACACATGGGCGTGTGACTGGCCGTGTGGTGCAAGTCAGTACACCCCATAATTGGCACACGGCCTA
1 ACACACGGGCGTGTGACTGGCCGTGT-GTGCAAGTCAGTACACCCCATAATTGG-ACACGGCCTA
* * *
19532225 ACACACGGGCGTGTGACTTGGCCGTGT-TGCATAAGTCAGTATACCCTATAGGTTTGG-CACGGC
1 ACACACGGGCGTGTGAC-TGGCCGTGTGTGC--AAGTCAGTACACCCCATA--ATTGGACACGGC
19532288 CTA
61 CTA
** *
19532291 GTACACTGGCGTGTG
1 ACACACGGGCGTGTG
19532306 TGGCCACTTC
Statistics
Matches: 69, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
64 3 0.04
65 16 0.23
66 46 0.67
68 4 0.06
ACGTcount: A:0.21, C:0.25, G:0.30, T:0.23
Consensus pattern (63 bp):
ACACACGGGCGTGTGACTGGCCGTGTGTGCAAGTCAGTACACCCCATAATTGGACACGGCCTA
Found at i:19542264 original size:40 final size:40
Alignment explanation
Indices: 19542195--19542305 Score: 150
Period size: 40 Copynumber: 2.8 Consensus size: 40
19542185 CGGCTATTTG
* *
19542195 TGGCACTTAGTGTGCGATTCAACATAGCTTCAGCTACATA
1 TGGCACTTAGTGTGCGATTCGAGATAGCTTCAGCTACATA
* * ** *
19542235 TGGCACTTAGTGTGCAATTCGAGAAAGCTTTGGCTATATA
1 TGGCACTTAGTGTGCGATTCGAGATAGCTTCAGCTACATA
*
19542275 TGGCACTTAGTGTGCGATTTGAGATAGCTTC
1 TGGCACTTAGTGTGCGATTCGAGATAGCTTC
19542306 GACTATGTAT
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.32
Consensus pattern (40 bp):
TGGCACTTAGTGTGCGATTCGAGATAGCTTCAGCTACATA
Found at i:19547878 original size:59 final size:61
Alignment explanation
Indices: 19547807--19547923 Score: 184
Period size: 62 Copynumber: 1.9 Consensus size: 61
19547797 ATCACTTTAA
* * *
19547807 TATTAAATTAATATAATATTTA-T-CAAGATAAATATTAGATTAAATTTAATATTAAATCT
1 TATTAAAATAATAGAATATTTACTACAAGATAAATATTAAATTAAATTTAATATTAAATCT
19547866 TATTAAAATAATAGAATATTTATCTACAAGATAAATATTAAATTAAATTTAATATTAA
1 TATTAAAATAATAGAATATTTA-CTACAAGATAAATATTAAATTAAATTTAATATTAA
19547924 GATAATTACT
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
59 20 0.38
61 1 0.02
62 31 0.60
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.42
Consensus pattern (61 bp):
TATTAAAATAATAGAATATTTACTACAAGATAAATATTAAATTAAATTTAATATTAAATCT
Found at i:19547979 original size:25 final size:24
Alignment explanation
Indices: 19547916--19547988 Score: 62
Period size: 24 Copynumber: 3.0 Consensus size: 24
19547906 AATTAAATTT
* * *
19547916 AATATTAAGATAATTACTTTAACATT
1 AATATTAA-ATAAATAC-TTAAAATA
19547942 AA-ATT-AATAAAATACTATAAAATA
1 AATATTAAAT-AAATACT-TAAAATA
19547966 AATATTAAATAAATA-TTAAAATA
1 AATATTAAATAAATACTTAAAATA
19547989 TTAGACTATT
Statistics
Matches: 40, Mismatches: 3, Indels: 11
0.74 0.06 0.20
Matches are distributed among these distances:
23 10 0.25
24 14 0.35
25 11 0.28
26 5 0.12
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.36
Consensus pattern (24 bp):
AATATTAAATAAATACTTAAAATA
Found at i:19547987 original size:12 final size:12
Alignment explanation
Indices: 19547959--19547988 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
19547949 TAAAATACTA
19547959 TAAAATAAATAT
1 TAAAATAAATAT
19547971 T-AAATAAATAT
1 TAAAATAAATAT
19547982 TAAAATA
1 TAAAATA
19547989 TTAGACTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
TAAAATAAATAT
Found at i:19550300 original size:41 final size:40
Alignment explanation
Indices: 19550232--19550311 Score: 108
Period size: 41 Copynumber: 1.9 Consensus size: 40
19550222 ACAGGGGTTT
19550232 TCACACGGCCTGACACACGCCCGTGTCCATGGCCCATGTCCC
1 TCACACGGCCTGA-ACACGCCCGTGTCC-TGGCCCATGTCCC
* *
19550274 TCACACGGCCATG-ACATGCCCGTGTCCTGGCCCTTGTC
1 TCACACGGCC-TGAACACGCCCGTGTCCTGGCCCATGTC
19550312 TAAAAACCTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
40 10 0.29
41 13 0.37
42 10 0.29
43 2 0.06
ACGTcount: A:0.15, C:0.42, G:0.23, T:0.20
Consensus pattern (40 bp):
TCACACGGCCTGAACACGCCCGTGTCCTGGCCCATGTCCC
Found at i:19551430 original size:49 final size:49
Alignment explanation
Indices: 19551370--19551496 Score: 166
Period size: 49 Copynumber: 2.6 Consensus size: 49
19551360 CATTAAAGTT
* * * *
19551370 GATGCCGTGTCCCAGACAGGTCTTGCACTGAATTTTATATATCGAG-GCC
1 GATGCCATGTCCTAGACAGGTCTTACACTGAATCTTATATATCG-GTGCC
** * *
19551419 GATGCCATGTCCTAGACAGGTCTTACACTGGCTCTTATCTATCGGTGTC
1 GATGCCATGTCCTAGACAGGTCTTACACTGAATCTTATATATCGGTGCC
19551468 GATGCCATGTCCTAGACAGGTCTTACACT
1 GATGCCATGTCCTAGACAGGTCTTACACT
19551497 AACACACAAC
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
48 1 0.01
49 68 0.99
ACGTcount: A:0.21, C:0.26, G:0.23, T:0.30
Consensus pattern (49 bp):
GATGCCATGTCCTAGACAGGTCTTACACTGAATCTTATATATCGGTGCC
Found at i:19553730 original size:20 final size:20
Alignment explanation
Indices: 19553705--19553745 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
19553695 AAGGTGTAAG
19553705 AATAGTAGGGCGTGAGTGTA
1 AATAGTAGGGCGTGAGTGTA
19553725 AATAGTAGGGCGTGAGTGTA
1 AATAGTAGGGCGTGAGTGTA
19553745 A
1 A
19553746 GGCACTGCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.32, C:0.05, G:0.39, T:0.24
Consensus pattern (20 bp):
AATAGTAGGGCGTGAGTGTA
Found at i:19554382 original size:51 final size:51
Alignment explanation
Indices: 19554299--19554485 Score: 214
Period size: 51 Copynumber: 3.7 Consensus size: 51
19554289 AAAATAAAGC
* * * *
19554299 ATAAGACCATGTAAGAAAGGCTCCATGACATCCACAGATATCG-TATGAGGT
1 ATAAGACCATGTGAGAGAGGCTCCATGGCATCCACAAATAT-GATATGAGGT
*
19554350 ATAAGACCATGTGAGAGAGGCTGCATGGCATCCACAAATATGATATGAGGT
1 ATAAGACCATGTGAGAGAGGCTCCATGGCATCCACAAATATGATATGAGGT
* * * * * *
19554401 ATAAAACCATGTGAGAGAGGCTTCATGGTATCTACATATATGATATAAGGT
1 ATAAGACCATGTGAGAGAGGCTCCATGGCATCCACAAATATGATATGAGGT
* * * * *
19554452 GTAAGACCATGTGAGAAATGTTCAATGGCATCCA
1 ATAAGACCATGTGAGAGAGGCTCCATGGCATCCA
19554486 TTGTGTTAGT
Statistics
Matches: 115, Mismatches: 20, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
50 1 0.01
51 114 0.99
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (51 bp):
ATAAGACCATGTGAGAGAGGCTCCATGGCATCCACAAATATGATATGAGGT
Found at i:19555834 original size:30 final size:30
Alignment explanation
Indices: 19555800--19555859 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
19555790 AGAGGAGATG
* *
19555800 TATATGCCTAGATGAAATCGAAAGGAGAAC
1 TATATGCCTAGATGAAACCAAAAGGAGAAC
*
19555830 TATATGCCTAGGTGAAACCAAAAGGAGAAC
1 TATATGCCTAGATGAAACCAAAAGGAGAAC
19555860 CTAGTTGGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.43, C:0.15, G:0.23, T:0.18
Consensus pattern (30 bp):
TATATGCCTAGATGAAACCAAAAGGAGAAC
Found at i:19560161 original size:16 final size:16
Alignment explanation
Indices: 19560140--19560208 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
19560130 GATTAGCTAT
*
19560140 TACACCACTAATCCAA
1 TACACCTCTAATCCAA
19560156 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
19560173 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
19560189 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
19560205 TACA
1 TACA
19560209 GCGAACCAAA
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
16 35 0.69
17 16 0.31
ACGTcount: A:0.39, C:0.38, G:0.00, T:0.23
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:19560184 original size:33 final size:32
Alignment explanation
Indices: 19560140--19560208 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
19560130 GATTAGCTAT
19560140 TACACCACTAATCCAATACACCTCTAATCCCAA
1 TACACCACTAATCCAATACACCTCTAAT-CCAA
*
19560173 TACACCTCTAATCCAATACACCTCTAATCCAA
1 TACACCACTAATCCAATACACCTCTAATCCAA
19560205 TACA
1 TACA
19560209 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 8 0.23
33 27 0.77
ACGTcount: A:0.39, C:0.38, G:0.00, T:0.23
Consensus pattern (32 bp):
TACACCACTAATCCAATACACCTCTAATCCAA
Found at i:19561506 original size:15 final size:13
Alignment explanation
Indices: 19561468--19561499 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
19561458 AAATTTTTTG
*
19561468 TTTTTGAAACATA
1 TTTTTGAAAAATA
19561481 TTTTTGAAAAATA
1 TTTTTGAAAAATA
19561494 TTTTTG
1 TTTTTG
19561500 GGAAAAAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.34, C:0.03, G:0.09, T:0.53
Consensus pattern (13 bp):
TTTTTGAAAAATA
Found at i:19561720 original size:21 final size:19
Alignment explanation
Indices: 19561696--19561735 Score: 62
Period size: 21 Copynumber: 2.0 Consensus size: 19
19561686 ATCTAATTAC
19561696 AAATATTTAATAATTATAATT
1 AAATATTTAA-AA-TATAATT
19561717 AAATATTTAAAATATAATT
1 AAATATTTAAAATATAATT
19561736 TATATATTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.37
20 2 0.11
21 10 0.53
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
AAATATTTAAAATATAATT
Found at i:19562411 original size:12 final size:13
Alignment explanation
Indices: 19562388--19562454 Score: 55
Period size: 13 Copynumber: 5.2 Consensus size: 13
19562378 AATTTAACAT
19562388 TACTTTTAAAAAA
1 TACTTTTAAAAAA
*
19562401 TACTTTTAAAAAG
1 TACTTTTAAAAAA
* *
19562414 TGCTTTGAAAAAA
1 TACTTTTAAAAAA
* *
19562427 TGA-TTTTGAAAAG
1 T-ACTTTTAAAAAA
* *
19562440 TATTTTTAAGAAA
1 TACTTTTAAAAAA
19562453 TA
1 TA
19562455 AAATGTTCAT
Statistics
Matches: 41, Mismatches: 11, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
12 1 0.02
13 40 0.98
ACGTcount: A:0.46, C:0.04, G:0.10, T:0.39
Consensus pattern (13 bp):
TACTTTTAAAAAA
Found at i:19562426 original size:26 final size:26
Alignment explanation
Indices: 19562390--19562440 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
19562380 TTTAACATTA
*
19562390 CTTTTAAAAAAT-ACTTTTAAAAAGTG
1 CTTTGAAAAAATGA-TTTTAAAAAGTG
*
19562416 CTTTGAAAAAATGATTTTGAAAAGT
1 CTTTGAAAAAATGATTTTAAAAAGT
19562441 ATTTTTAAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 21 0.95
27 1 0.05
ACGTcount: A:0.45, C:0.06, G:0.12, T:0.37
Consensus pattern (26 bp):
CTTTGAAAAAATGATTTTAAAAAGTG
Found at i:19564325 original size:91 final size:92
Alignment explanation
Indices: 19564159--19564350 Score: 262
Period size: 91 Copynumber: 2.1 Consensus size: 92
19564149 ATGTCGCATT
* * * *
19564159 TGGTACTTGTACTTTCATAAAATATTCAATGTAGTACATTTACTTTGAAAATGTCCAATGTGGTA
1 TGGTACCTGTACTTTCATAAAATATCCAATGTAGTACATATACTTTGAAAATGTCCAATATGGTA
* *
19564224 TCTGAACTATCAATATGTGTTCTCTTA
66 CCTGAACTATCAATATGTGTTCTATTA
* *
19564251 TGGTACCTGTGCTTTCATAAAATATCCAATGT-GATACCTATA-TTTGAAAATGTCCAATATGGT
1 TGGTACCTGTACTTTCATAAAATATCCAATGTAG-TACATATACTTTGAAAATGTCCAATATGGT
* *
19564314 ACCTGATCTATCAATATGTGTTTTATTA
65 ACCTGAACTATCAATATGTGTTCTATTA
*
19564342 TGATACCTG
1 TGGTACCTG
19564351 GTATTATCAA
Statistics
Matches: 88, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
91 53 0.60
92 35 0.40
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (92 bp):
TGGTACCTGTACTTTCATAAAATATCCAATGTAGTACATATACTTTGAAAATGTCCAATATGGTA
CCTGAACTATCAATATGTGTTCTATTA
Found at i:19566167 original size:28 final size:28
Alignment explanation
Indices: 19566127--19566186 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 28
19566117 AAATACGTAG
* *
19566127 TTTCCACATGCATAAGTGTGAGATAAAA
1 TTTCCACATGCATAAGCGTGAAATAAAA
*
19566155 TTTCCACATGCATACGCGTGAAATAAAA
1 TTTCCACATGCATAAGCGTGAAATAAAA
19566183 TTTC
1 TTTC
19566187 TAGTATATGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.30
Consensus pattern (28 bp):
TTTCCACATGCATAAGCGTGAAATAAAA
Found at i:19574495 original size:22 final size:21
Alignment explanation
Indices: 19574466--19574506 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
19574456 TAAGATGGTC
19574466 TAATTTATGAATATTAATTCA
1 TAATTTATGAATATTAATTCA
* *
19574487 TAATATTATTAATTTTAATT
1 TAAT-TTATGAATATTAATT
19574507 TTAATCTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (21 bp):
TAATTTATGAATATTAATTCA
Found at i:19578724 original size:20 final size:19
Alignment explanation
Indices: 19578699--19578741 Score: 77
Period size: 20 Copynumber: 2.2 Consensus size: 19
19578689 TTCATACCAA
19578699 TTTAAACATAATCAACCCT
1 TTTAAACATAATCAACCCT
19578718 GTTTAAACATAATCAACCCT
1 -TTTAAACATAATCAACCCT
19578738 TTTA
1 TTTA
19578742 TTAAACCAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 4 0.17
20 19 0.83
ACGTcount: A:0.40, C:0.23, G:0.02, T:0.35
Consensus pattern (19 bp):
TTTAAACATAATCAACCCT
Found at i:19579847 original size:177 final size:175
Alignment explanation
Indices: 19579541--19579895 Score: 552
Period size: 177 Copynumber: 2.0 Consensus size: 175
19579531 TAACATGCTT
* * * **
19579541 AGTCCTATTTACTTGACCTATTTAGGTCATAATACATGTAATATAAATAAGATTTTAAAACAACA
1 AGTCATATTTACTTGACCTAATTAGGCCATAATACATGTAATATAAATAAGAGCTTAAAACAACA
19579606 CATTAAACACATAAATTTAGGGAGACAAAAAATATTCTTTAGGTTTTTATTAGTTTTCAGCTTTT
66 CATTAAACACATAAATTTAGGGAGACAAAAAATATTCTTTAGGTTTTTATTAGTTTTCAGCTTTT
* *
19579671 ACTACGTTTATTTTATATTCGCTTAATTGAAAGATCCTATTCCGA
131 ACTAAGTTTATTTTATATTCGCTTAATCGAAAGATCCTATTCCGA
*
19579716 AGTCATATTTACTTGACCTAATTAGGCCATAATACATGTAATATATAAATAAGAGCTTAGAACAA
1 AGTCATATTTACTTGACCTAATTAGGCCATAATACATGT-A-ATATAAATAAGAGCTTAAAACAA
** *
19579781 CACATTAAACAC-TCAAATTTAGGGAGA-AGAAACTTATTCTTTAGGTTTTTATTAGTTTTTAGC
64 CACATTAAACACAT-AAATTTAGGGAGACA-AAAAATATTCTTTAGGTTTTTATTAGTTTTCAGC
*
19579844 TTTTACTAAGTTTATTTTATATTCGCTTCATCGAAAGATCCTATTCCGA
127 TTTTACTAAGTTTATTTTATATTCGCTTAATCGAAAGATCCTATTCCGA
19579893 AGT
1 AGT
19579896 GAGACTATCA
Statistics
Matches: 164, Mismatches: 12, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
175 36 0.22
176 3 0.02
177 125 0.76
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (175 bp):
AGTCATATTTACTTGACCTAATTAGGCCATAATACATGTAATATAAATAAGAGCTTAAAACAACA
CATTAAACACATAAATTTAGGGAGACAAAAAATATTCTTTAGGTTTTTATTAGTTTTCAGCTTTT
ACTAAGTTTATTTTATATTCGCTTAATCGAAAGATCCTATTCCGA
Found at i:19581264 original size:23 final size:23
Alignment explanation
Indices: 19581215--19581258 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
19581205 AAGAAGATAG
19581215 AAAATATGAAACCCTAGAAAAGA
1 AAAATATGAAACCCTAGAAAAGA
*
19581238 AAAATA-GAAAGCCTAAGAAAA
1 AAAATATGAAACCCT-AGAAAA
19581259 ACAAAAGCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.64, C:0.11, G:0.14, T:0.11
Consensus pattern (23 bp):
AAAATATGAAACCCTAGAAAAGA
Found at i:19582910 original size:21 final size:20
Alignment explanation
Indices: 19582872--19582910 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
19582862 GTTACCCTCA
*
19582872 TAGGATATCTTCGATCTCTT
1 TAGGATATATTCGATCTCTT
*
19582892 TAGGATAATATTCGTTCTC
1 TAGGAT-ATATTCGATCTC
19582911 CCAATGTGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.23, C:0.18, G:0.15, T:0.44
Consensus pattern (20 bp):
TAGGATATATTCGATCTCTT
Found at i:19587096 original size:47 final size:49
Alignment explanation
Indices: 19587025--19587249 Score: 201
Period size: 47 Copynumber: 4.8 Consensus size: 49
19587015 GGGTATAATA
19587025 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAAGTT-AA-G
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAAGTTAAAGG
** * * *
19587072 TTGATGCCATGTCCCAGACATGGTCTTACACTGACACATCATG-T--A-G
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCAAGTTAAAGG
* * * *
19587118 TCGATG-CATGTCCTAGACAT-ATCTTACACTAGCT-T-ACA-TTAAGAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCA-AGTTAA-AGG
* * *
19587164 CCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTC--GTCTCAATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAAGT-TAAAGG
19587210 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCA
19587250 TAATGTGGGC
Statistics
Matches: 146, Mismatches: 18, Indels: 26
0.77 0.09 0.14
Matches are distributed among these distances:
41 1 0.01
42 2 0.01
44 10 0.07
45 14 0.10
46 48 0.33
47 51 0.35
48 20 0.14
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (49 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAAGTTAAAGG
Found at i:19587268 original size:47 final size:47
Alignment explanation
Indices: 19587025--19587289 Score: 219
Period size: 46 Copynumber: 5.7 Consensus size: 47
19587015 GGGTATAATA
* *
19587025 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCA-AGT-TAAG
1 CCGATGCCATGTCCCAGACAT-GTCTTACACTAGCTCTCATAATGT-AG
** * * *
19587072 TTGATGCCATGTCCCAGACATGGTCTTACACT-G-ACACATCATGTAG
1 CCGATGCCATGTCCCAGACAT-GTCTTACACTAGCTCTCATAATGTAG
* * *
19587118 TCGATG-CATGTCCTAGACATATCTTACACTAGCT-TACATTAA-G-AGG
1 CCGATGCCATGTCCCAGACATGTCTTACACTAGCTCT-CA-TAATGTA-G
* * **
19587164 CCGATG-CATGTCCCAGACATGTCTTACACTAGCTCTCGT-CTCAATG
1 CCGATGCCATGTCCCAGACATGTCTTACACTAGCTCTCATAATGTA-G
* *
19587210 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGG
1 CCGATGCCATGTCCCAGACAT-GTCTTACACTAGCTCTCATAATGTAG
* *
19587258 GCGATG-CATGTCCTAGACATGTCTTACACTAG
1 CCGATGCCATGTCCCAGACATGTCTTACACTAG
19587290 TGCACAAAAG
Statistics
Matches: 177, Mismatches: 28, Indels: 27
0.76 0.12 0.12
Matches are distributed among these distances:
44 9 0.05
45 19 0.11
46 64 0.36
47 61 0.34
48 23 0.13
49 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.28
Consensus pattern (47 bp):
CCGATGCCATGTCCCAGACATGTCTTACACTAGCTCTCATAATGTAG
Found at i:19590999 original size:26 final size:26
Alignment explanation
Indices: 19590956--19591005 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
19590946 TAAGGAAAAT
*
19590956 TGAAATGGAAAAATAAAATGGAAAGA
1 TGAAATGGAAAAATAAAATAGAAAGA
19590982 TGAAATGG-AAAATGAAAATAGAAA
1 TGAAATGGAAAAAT-AAAATAGAAA
19591006 CCAAAATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 5 0.23
26 17 0.77
ACGTcount: A:0.62, C:0.00, G:0.22, T:0.16
Consensus pattern (26 bp):
TGAAATGGAAAAATAAAATAGAAAGA
Found at i:19591000 original size:13 final size:12
Alignment explanation
Indices: 19590949--19590998 Score: 64
Period size: 13 Copynumber: 3.9 Consensus size: 12
19590939 ATGTTAATAA
19590949 GGAAAATTGAAAT
1 GGAAAA-TGAAAT
*
19590962 GGAAAAATAAAAT
1 GG-AAAATGAAAT
19590975 GGAAAGATGAAAT
1 GGAAA-ATGAAAT
19590988 GGAAAATGAAA
1 GGAAAATGAAA
19590999 ATAGAAACCA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
12 9 0.27
13 20 0.61
14 4 0.12
ACGTcount: A:0.60, C:0.00, G:0.24, T:0.16
Consensus pattern (12 bp):
GGAAAATGAAAT
Found at i:19591005 original size:13 final size:13
Alignment explanation
Indices: 19590949--19591005 Score: 57
Period size: 13 Copynumber: 4.4 Consensus size: 13
19590939 ATGTTAATAA
19590949 GGAAAATTG-AAAT
1 GGAAAA-TGAAAAT
19590962 GGAAAAAT-AAAAT
1 GG-AAAATGAAAAT
19590975 GGAAAGATG-AAAT
1 GGAAA-ATGAAAAT
19590988 GGAAAATGAAAAT
1 GGAAAATGAAAAT
*
19591001 AGAAA
1 GGAAA
19591006 CCAAAATTAT
Statistics
Matches: 38, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
12 6 0.16
13 28 0.74
14 4 0.11
ACGTcount: A:0.61, C:0.00, G:0.23, T:0.16
Consensus pattern (13 bp):
GGAAAATGAAAAT
Found at i:19596566 original size:19 final size:19
Alignment explanation
Indices: 19596542--19596581 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
19596532 ATCTCATCTC
19596542 ATTCA-TTGCATTTAGATTA
1 ATTCATTTGCATTTAG-TTA
19596561 ATTCATTTGCATTTAGTTA
1 ATTCATTTGCATTTAGTTA
19596580 AT
1 AT
19596582 ATTAATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (19 bp):
ATTCATTTGCATTTAGTTA
Found at i:19600247 original size:44 final size:43
Alignment explanation
Indices: 19600199--19600303 Score: 115
Period size: 44 Copynumber: 2.4 Consensus size: 43
19600189 GCCAATATAC
*
19600199 ATATATATAGCCGAATCTTTCTCGATCTCGCACACTAAGTGCAA
1 ATATATATAGCCGAATCTTT-TCGATCTCGCACAATAAGTGCAA
* * * * * *
19600243 ATATATATAGCTGAAGCTATTTTGATTTCGTACAATAAGTGCAC
1 ATATATATAGCCGAATCT-TTTCGATCTCGCACAATAAGTGCAA
19600287 ATA-AT-TAGCCGAATCTT
1 ATATATATAGCCGAATCTT
19600304 CATCGAACAC
Statistics
Matches: 51, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
41 1 0.02
42 9 0.18
43 2 0.04
44 37 0.73
45 2 0.04
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.33
Consensus pattern (43 bp):
ATATATATAGCCGAATCTTTTCGATCTCGCACAATAAGTGCAA
Found at i:19600811 original size:21 final size:20
Alignment explanation
Indices: 19600787--19600827 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
19600777 ACTTTAATAA
*
19600787 CTATTATCAAACACTCAAAAT
1 CTATCATCAAACA-TCAAAAT
*
19600808 CTATCATTAAACATCAAAAT
1 CTATCATCAAACATCAAAAT
19600828 AATCTTGTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.29
Consensus pattern (20 bp):
CTATCATCAAACATCAAAAT
Found at i:19607288 original size:13 final size:14
Alignment explanation
Indices: 19607262--19607290 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
19607252 ATGTTCAGGT
19607262 CAATAAGTATGAAG
1 CAATAAGTATGAAG
19607276 CAATAAG-ATGAAG
1 CAATAAGTATGAAG
19607289 CA
1 CA
19607291 CATGAAAGCG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.52, C:0.10, G:0.21, T:0.17
Consensus pattern (14 bp):
CAATAAGTATGAAG
Found at i:19620672 original size:8 final size:8
Alignment explanation
Indices: 19620659--19620683 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
19620649 ATATTCACTA
19620659 AGAAATAT
1 AGAAATAT
19620667 AGAAATAT
1 AGAAATAT
19620675 AGAAATAT
1 AGAAATAT
19620683 A
1 A
19620684 AACTATAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.12, T:0.24
Consensus pattern (8 bp):
AGAAATAT
Found at i:19621820 original size:55 final size:53
Alignment explanation
Indices: 19621691--19621879 Score: 186
Period size: 55 Copynumber: 3.5 Consensus size: 53
19621681 AACTTACCAT
* * * * *
19621691 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGACTTAT-GAACTCA-CTAA
1 TGCCATGCCTTGACATGGTCTTACATGGAAT-TTTGCCTTATAGAACTCATC-AA
* * *
19621744 TGACATGCCTTGGCATAGTCTTACATGGGAATTTTGCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACAT-GGAATTTTGCCTTATAG-AACTCATCAA
* * * *
19621799 TGCCATGTCTTAACATGGTCTTACAT-GATTTCCTTGCCTTATAGAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGAATT--TTGCCTTATAGAACTCATCAA
*
19621853 TGCCATGCCTTGGCATGGTCTTACATG
1 TGCCATGCCTTGACATGGTCTTACATG
19621880 ATATCCTTAT
Statistics
Matches: 111, Mismatches: 18, Indels: 12
0.79 0.13 0.09
Matches are distributed among these distances:
53 33 0.30
54 37 0.33
55 40 0.36
56 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.36
Consensus pattern (53 bp):
TGCCATGCCTTGACATGGTCTTACATGGAATTTTGCCTTATAGAACTCATCAA
Found at i:19621874 original size:54 final size:54
Alignment explanation
Indices: 19621691--19621887 Score: 213
Period size: 54 Copynumber: 3.6 Consensus size: 54
19621681 AACTTACCAT
* * * *
19621691 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGACTTAT-GAACTCA-CTAA
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCATC-AA
* * * *
19621744 TGACATGCCTTGGCATAGTCTTACATGGGA-AT-TTTGCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACAT--GATATCCTTGCCTTATAG-AACTCATCAA
* * * *
19621799 TGCCATGTCTTAACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAA
*
19621853 TGCCATGCCTTGGCATGGTCTTACATGATATCCTT
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTT
19621888 ATCTTACCAA
Statistics
Matches: 117, Mismatches: 20, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
53 31 0.26
54 44 0.38
55 41 0.35
56 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.37
Consensus pattern (54 bp):
TGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAA
Found at i:19625614 original size:40 final size:40
Alignment explanation
Indices: 19625570--19625662 Score: 125
Period size: 40 Copynumber: 2.3 Consensus size: 40
19625560 GCTACTCGTT
*
19625570 CAAATGCCTTCGGGACATAGCCCGG-TTGTAGTAACTCGCA
1 CAAATGCCTTCGGGACATAGCCCGGAAT-TAGTAACTCGCA
* * * *
19625610 CAAATGCCTTCGGGTCTTAGTCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAGCCCGGAATTAGTAACTCGCA
19625650 CAAATGCCTTCGG
1 CAAATGCCTTCGG
19625663 ATCTTAGTCC
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
40 46 0.98
41 1 0.02
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAGCCCGGAATTAGTAACTCGCA
Found at i:19625668 original size:40 final size:40
Alignment explanation
Indices: 19625598--19625714 Score: 141
Period size: 40 Copynumber: 3.0 Consensus size: 40
19625588 AGCCCGGTTG
*
19625598 TAGTAACTCGCACAAATGCCTTCGGGTCTTAGTCCGGAAT
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGAAT
*
19625638 TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG-AT
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGAAT
* * * *
19625677 ATGGTCACTTAGCACAAA-GCCTTCGGA-CTTAGCCCGGA
1 -TAGTAAC-TCGCACAAATGCCTTCGGATCTTAGTCCGGA
19625715 CATCATTCAA
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
39 11 0.16
40 48 0.72
41 8 0.12
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGAAT
Found at i:19633535 original size:40 final size:40
Alignment explanation
Indices: 19633491--19633583 Score: 125
Period size: 40 Copynumber: 2.3 Consensus size: 40
19633481 GCTACTCGTT
*
19633491 CAAATGCCTTCGGGACATAGCCCGG-TTGTAGTAACTCGCA
1 CAAATGCCTTCGGGACATAGCCCGGAAT-TAGTAACTCGCA
* * * *
19633531 CAAATGCCTTCGGGTCTTAGTCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAGCCCGGAATTAGTAACTCGCA
19633571 CAAATGCCTTCGG
1 CAAATGCCTTCGG
19633584 ATCTTAGTCC
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
40 46 0.98
41 1 0.02
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAGCCCGGAATTAGTAACTCGCA
Found at i:19633589 original size:40 final size:40
Alignment explanation
Indices: 19633519--19633596 Score: 138
Period size: 40 Copynumber: 1.9 Consensus size: 40
19633509 AGCCCGGTTG
*
19633519 TAGTAACTCGCACAAATGCCTTCGGGTCTTAGTCCGGAAT
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGAAT
*
19633559 TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
19633597 TATGGTCACT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGAAT
Found at i:19639302 original size:26 final size:26
Alignment explanation
Indices: 19639271--19639378 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
19639261 TGAAATGCCC
*
19639271 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
19639297 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
19639323 ATTATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
19639349 ATCACGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
19639375 ATCA
1 ATCA
19639379 ATTTGTACCA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:19642508 original size:55 final size:54
Alignment explanation
Indices: 19642383--19642580 Score: 229
Period size: 55 Copynumber: 3.6 Consensus size: 54
19642373 AACTTACCAT
*
19642383 TGCCATGTCTTGACATGGTCTTAC-GTGGTATCCTTGCCTTAT-GAACTCACCAA
1 TGCCATGTCTTGACATGGTCTTACAG-GGTATCCTTGCCTTATAGAACTCATCAA
* * * * *
19642436 TGCCATGCCTTGGCATGGTCTTACAGGGGAACTTTGCCTTATAGTAACTCATCAA
1 TGCCATGTCTTGACATGGTCTTACAGGGTATCCTTGCCTTATAG-AACTCATCAA
* * * *
19642491 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAA
1 TGCCATGTCTTGACATGGTCTTACAGGGTATCCTTGCCTTATAGAACTCATCAA
*** *
19642545 TGCCATGTTCCAAACATGGTCTTACATGGTATCCTT
1 TGCCATG-TCTTGACATGGTCTTACAGGGTATCCTT
19642581 ATCTTAGTGC
Statistics
Matches: 121, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
53 35 0.29
54 18 0.15
55 68 0.56
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.35
Consensus pattern (54 bp):
TGCCATGTCTTGACATGGTCTTACAGGGTATCCTTGCCTTATAGAACTCATCAA
Found at i:19651241 original size:11 final size:11
Alignment explanation
Indices: 19651225--19651258 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
19651215 GTTTAAAAAG
19651225 TTAAATTATAA
1 TTAAATTATAA
*
19651236 TTAAATCATAA
1 TTAAATTATAA
*
19651247 GTAAATTATAA
1 TTAAATTATAA
19651258 T
1 T
19651259 CAAGTAACTC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (11 bp):
TTAAATTATAA
Found at i:19652613 original size:13 final size:13
Alignment explanation
Indices: 19652595--19652639 Score: 63
Period size: 13 Copynumber: 3.4 Consensus size: 13
19652585 ATGTGAATAA
19652595 GGAAAAATGAAAT
1 GGAAAAATGAAAT
*
19652608 GGAAAAATAAAAT
1 GGAAAAATGAAAT
*
19652621 GGAAAGATGAAATT
1 GGAAAAATGAAA-T
19652635 GGAAA
1 GGAAA
19652640 TGAAAATAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
13 22 0.79
14 6 0.21
ACGTcount: A:0.60, C:0.00, G:0.24, T:0.16
Consensus pattern (13 bp):
GGAAAAATGAAAT
Found at i:19655155 original size:43 final size:43
Alignment explanation
Indices: 19655094--19655478 Score: 443
Period size: 43 Copynumber: 9.0 Consensus size: 43
19655084 ATGAGACATT
* * * * *
19655094 GATATGTGATTACTTGTAAGACCACATTTAGGATGTTGGCATC
1 GATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATC
* * *
19655137 GATATGTGATTACGTGTAAGACCATGTTTGGGATGTTGGCATC
1 GATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATC
* * *
19655180 GATATGTGATTACGTGTTAGACCACGTCTGGGATGTCGGCATC
1 GATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATC
* * * *
19655223 AATATGTGATTACGTGTAAGATCACGTCTAGGACGTTAGCATC
1 GATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATC
* *
19655266 GATATGTGATTATGTGTAAGACCACGTCTGGGACATT-GCATC
1 GATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATC
*
19655308 GATATGTGATTACGTGTAAGACCACATCTGGGACGTTGGCATC
1 GATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATC
* ****
19655351 GATATGTGATTTCGTGTAAGACCACGTCCAAAACGTTGGCATC
1 GATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATC
* * * *
19655394 GATATGTGTTTAAGAGTAAGACC-CTGTCTGGGACAG-TGACATC
1 GATATGTGATTACGTGTAAGACCAC-GTCTGGGAC-GTTGGCATC
* * * * *
19655437 GAGATGAGATTACATGTAAGACCACGTCAGGGACATTGGCAT
1 GATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
19655479 TGTACAAAAT
Statistics
Matches: 290, Mismatches: 47, Indels: 10
0.84 0.14 0.03
Matches are distributed among these distances:
42 40 0.14
43 248 0.86
44 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.30
Consensus pattern (43 bp):
GATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATC
Found at i:19655401 original size:171 final size:170
Alignment explanation
Indices: 19655088--19655474 Score: 445
Period size: 171 Copynumber: 2.3 Consensus size: 170
19655078 ATGTATATGA
* * * * **
19655088 GACATTGATATGTGATTACTTGTAAGACCACATTTAGGATGTTGGCATCGATATGTGATTACGTG
1 GACATCGATATGTGATTA-TTGTAAGACCACGTCTGGGACATT-GCATCGATATGTGATTACGTG
** * * * **** *
19655153 TAAGACCATGTTTGGGATGTTGGCATCGATATGTGATTACGTGTTAGACCACGTCTGGGATGTCG
64 TAAGACCACATCTGGGACGTTGGCATCGATATGTGATTACGTGTAAGACCACGTCCAAAACGTCG
* *
19655218 GCATCAATATGTGATTACGTGTAAGATCAC-GTCTAGGAC-GT
129 GCATCAATATGTGATTAAGAGTAAGA-CACTGTCTAGGACAGT
*
19655259 TAGCATCGATATGTGATTATGTGTAAGACCACGTCTGGGACATTGCATCGATATGTGATTACGTG
1 GA-CATCGATATGTGATTAT-TGTAAGACCACGTCTGGGACATTGCATCGATATGTGATTACGTG
* *
19655324 TAAGACCACATCTGGGACGTTGGCATCGATATGTGATTTCGTGTAAGACCACGTCCAAAACGTTG
64 TAAGACCACATCTGGGACGTTGGCATCGATATGTGATTACGTGTAAGACCACGTCCAAAACGTCG
* * * *
19655389 GCATCGATATGTGTTTAAGAGTAAGACCCTGTCTGGGACAGT
129 GCATCAATATGTGATTAAGAGTAAGACACTGTCTAGGACAGT
* * * *
19655431 GACATCGAGATGAGATTACATGTAAGACCACGTCAGGGACATTG
1 GACATCGATATGTGATTA-TTGTAAGACCACGTCTGGGACATTG
19655475 GCATTGTACA
Statistics
Matches: 181, Mismatches: 30, Indels: 10
0.82 0.14 0.05
Matches are distributed among these distances:
170 2 0.01
171 143 0.79
172 36 0.20
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.30
Consensus pattern (170 bp):
GACATCGATATGTGATTATTGTAAGACCACGTCTGGGACATTGCATCGATATGTGATTACGTGTA
AGACCACATCTGGGACGTTGGCATCGATATGTGATTACGTGTAAGACCACGTCCAAAACGTCGGC
ATCAATATGTGATTAAGAGTAAGACACTGTCTAGGACAGT
Found at i:19663708 original size:26 final size:26
Alignment explanation
Indices: 19663647--19663709 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 26
19663637 TATCCGGAGC
* * *
19663647 TCCTAATTAATGGCTTTTCGTGAGAT
1 TCCTAATTAAAGACTCTTCGTGAGAT
* *
19663673 T-CTCATTTAAAGACTCTTCGTGAGGT
1 TCCT-AATTAAAGACTCTTCGTGAGAT
19663699 TCCTAATTAAA
1 TCCTAATTAAA
19663710 AGTTCTTTGT
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
25 2 0.07
26 25 0.86
27 2 0.07
ACGTcount: A:0.27, C:0.17, G:0.16, T:0.40
Consensus pattern (26 bp):
TCCTAATTAAAGACTCTTCGTGAGAT
Found at i:19664673 original size:35 final size:35
Alignment explanation
Indices: 19664627--19664700 Score: 139
Period size: 35 Copynumber: 2.1 Consensus size: 35
19664617 GGCATGTATA
19664627 GGTTAATTTGGCCAATGTTGGCATGATAATCCAAT
1 GGTTAATTTGGCCAATGTTGGCATGATAATCCAAT
*
19664662 GGTTAATTTGGCTAATGTTGGCATGATAATCCAAT
1 GGTTAATTTGGCCAATGTTGGCATGATAATCCAAT
19664697 GGTT
1 GGTT
19664701 GTAACTAGCC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.27, C:0.12, G:0.24, T:0.36
Consensus pattern (35 bp):
GGTTAATTTGGCCAATGTTGGCATGATAATCCAAT
Found at i:19671108 original size:121 final size:121
Alignment explanation
Indices: 19670893--19671136 Score: 427
Period size: 121 Copynumber: 2.0 Consensus size: 121
19670883 AATAACTTTA
*
19670893 ACATGATGAATAATTGACTACCACTTTTGACCACAAACATCTAAGTTTAGTATATTACGAAGTAT
1 ACATGATGAATAATTGACTACCACTTTTGACCACAAACATCTAAG-TTAGTATATTACAAAGTAT
*
19670958 ACAAACATTAAGGGTCTCACATGTAGGGGTCTATCAATAAATCACACAAGTAATTTG
65 ACAAACATTAAGGGTCTCACATGTAGGGGTCCATCAATAAATCACACAAGTAATTTG
*
19671015 ACATGATGAATAATTGACTTACCACTTTTGACCACAAACATCTAAG-TAGTATATTATAAAGTAT
1 ACATGATGAATAATTGAC-TACCACTTTTGACCACAAACATCTAAGTTAGTATATTACAAAGTAT
*
19671079 ACAAACATTAAGGGTCTCACCTGTAGGGGTCCATCAATAAATCACACAAGTAATTTG
65 ACAAACATTAAGGGTCTCACATGTAGGGGTCCATCAATAAATCACACAAGTAATTTG
19671136 A
1 A
19671137 TTATCTGAGT
Statistics
Matches: 117, Mismatches: 4, Indels: 3
0.94 0.03 0.02
Matches are distributed among these distances:
121 72 0.62
122 18 0.15
123 27 0.23
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (121 bp):
ACATGATGAATAATTGACTACCACTTTTGACCACAAACATCTAAGTTAGTATATTACAAAGTATA
CAAACATTAAGGGTCTCACATGTAGGGGTCCATCAATAAATCACACAAGTAATTTG
Found at i:19674368 original size:47 final size:47
Alignment explanation
Indices: 19674261--19674596 Score: 557
Period size: 47 Copynumber: 7.1 Consensus size: 47
19674251 GAAATGATAG
19674261 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
19674310 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
19674357 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
19674404 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
19674451 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
19674498 TAAGGCCTAATGGCCGATGTGATGAATGTG-AAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
* * * * * * * *
19674546 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
19674593 TAAG
1 TAAG
19674597 TCCCGAAGGG
Statistics
Matches: 274, Mismatches: 10, Indels: 8
0.94 0.03 0.03
Matches are distributed among these distances:
46 5 0.02
47 194 0.71
48 34 0.12
49 41 0.15
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:19674771 original size:37 final size:37
Alignment explanation
Indices: 19674715--19674793 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
19674705 CCGAGCTCTA
* * *
19674715 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
19674752 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
19674789 AAGAC
1 AAGAC
19674794 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:19676703 original size:43 final size:43
Alignment explanation
Indices: 19676655--19676798 Score: 288
Period size: 43 Copynumber: 3.3 Consensus size: 43
19676645 GGTTTTCAGT
19676655 ACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTGGC
1 ACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTGGC
19676698 ACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTGGC
1 ACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTGGC
19676741 ACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTGGC
1 ACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTGGC
19676784 ACTAAGTGTGCGGGC
1 ACTAAGTGTGCGGGC
19676799 TTGAAATGCA
Statistics
Matches: 101, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 101 1.00
ACGTcount: A:0.23, C:0.15, G:0.35, T:0.27
Consensus pattern (43 bp):
ACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTGGC
Found at i:19676815 original size:29 final size:29
Alignment explanation
Indices: 19676780--19676853 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
19676770 GTTGTGAGAT
* *
19676780 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
* *
19676809 TGGCACTAAGTGTGTGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
19676838 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
19676854 TGGTTGATTA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
28 5 0.13
29 34 0.87
ACGTcount: A:0.26, C:0.15, G:0.32, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:19677212 original size:40 final size:40
Alignment explanation
Indices: 19677164--19677279 Score: 160
Period size: 40 Copynumber: 2.9 Consensus size: 40
19677154 TCGAATGATG
*
19677164 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* *
19677204 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* * * * *
19677244 TCCGTGCTAAATCCCGAAGATCAATCATGCTGGTGA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
19677280 CGTGTATTCG
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 66 1.00
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
Found at i:19681125 original size:49 final size:49
Alignment explanation
Indices: 19681056--19681297 Score: 363
Period size: 47 Copynumber: 5.1 Consensus size: 49
19681046 GAAATGATAG
19681056 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
19681105 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
19681152 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
19681199 TAAGGCCTAATGGCC-ATGTGATGAATGTGGAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
* * * * * * *
19681247 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
19681294 TAAG
1 TAAG
19681298 TCCCGAAGGG
Statistics
Matches: 180, Mismatches: 10, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
46 19 0.11
47 81 0.45
48 23 0.13
49 57 0.32
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.29
Consensus pattern (49 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
Found at i:19681482 original size:36 final size:37
Alignment explanation
Indices: 19681415--19681491 Score: 104
Period size: 36 Copynumber: 2.1 Consensus size: 37
19681405 CCGAGCTCTA
* * *
19681415 AAGA-CCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
19681451 AAGACCCGATAACTTCGTGT-GAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
19681487 AAGAC
1 AAGAC
19681492 TTCGTAATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
36 23 0.64
37 13 0.36
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.26
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:19683842 original size:46 final size:46
Alignment explanation
Indices: 19683648--19683843 Score: 193
Period size: 46 Copynumber: 4.2 Consensus size: 46
19683638 TTTGTGAGCT
* * * * * *
19683648 AGTGTAAGACATATCTGGGACATGCATCGACCA-CATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTATGA-GATGATAGCC
* * *
19683694 AGTGTAAGACCATGTCTAGGACATGGCATCGGC-ATTGAGACGATAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTA-TGAGATGATAGCC
* *
19683742 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGACAT-A-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CT-ATGAGATGATAGCC
*
19683788 AGTGTAAGACATGTCTGGGACATGCATCGGCTATGAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTATGAGATGATAGCC
*
19683834 AGTCTAAGAC
1 AGTGTAAGAC
19683844 CATGATATGA
Statistics
Matches: 124, Mismatches: 17, Indels: 18
0.78 0.11 0.11
Matches are distributed among these distances:
44 5 0.04
45 3 0.02
46 61 0.49
47 28 0.23
48 25 0.20
49 2 0.02
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTATGAGATGATAGCC
Found at i:19754193 original size:79 final size:80
Alignment explanation
Indices: 19754053--19754237 Score: 207
Period size: 79 Copynumber: 2.3 Consensus size: 80
19754043 TTGAATGATG
* *
19754053 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCAGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCAGACTAAGATCCGAAGGCAATT
19754118 GTGCGAGATACTA-A
66 GTGCGAGATACTATA
* * * * **
19754132 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCAGACTAAGAT-CCGAAGGCA
*
19754194 ATTGTGCGAGTTACTATA
63 ATTGTGCGAGATACTATA
* *
19754212 ACCGGGCTATGTCCCGAAGGCGTTTG
1 TCCGGGCTAAGTCCCGAAGGC-TTTG
19754238 AACGAGTAGC
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.63
80 32 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCAGACTAAGATCCGAAGGCAATT
GTGCGAGATACTATA
Found at i:19754244 original size:40 final size:40
Alignment explanation
Indices: 19754053--19754237 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
19754043 TTGAATGATG
* * * *
19754053 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
19754093 TCCAGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
19754133 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
19754172 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
19754213 -CCGGGCTATGTCCCGAAGGCGTTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
19754238 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
39 35 0.29
40 77 0.63
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:19754259 original size:79 final size:79
Alignment explanation
Indices: 19754106--19754260 Score: 190
Period size: 79 Copynumber: 2.0 Consensus size: 79
19754096 AGACTAAGAT
* * **
19754106 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
19754171 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* * *
19754185 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCGTTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
*
19754248 TATATCC-GGTTAA
63 TAAATCCGGGTTAA
19754261 ATTCTGAAGG
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
78 2 0.03
79 39 0.60
80 24 0.37
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAGTC
Found at i:19758649 original size:43 final size:43
Alignment explanation
Indices: 19758621--19758705 Score: 125
Period size: 43 Copynumber: 2.0 Consensus size: 43
19758611 AAATCGATTA
* *
19758621 ACAATGCCAAAGTCCCATACATGGTCTTACACGTAATCACAAT
1 ACAATGCCAAAGTCCCAGACATGGTCTTACATGTAATCACAAT
* * *
19758664 ACAGTGCCAATGTCCTAGACATGGTCTTACATGTAATCACAA
1 ACAATGCCAAAGTCCCAGACATGGTCTTACATGTAATCACAA
19758706 CTCGATAACC
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.35, C:0.26, G:0.14, T:0.25
Consensus pattern (43 bp):
ACAATGCCAAAGTCCCAGACATGGTCTTACATGTAATCACAAT
Found at i:19777381 original size:26 final size:24
Alignment explanation
Indices: 19777334--19777397 Score: 65
Period size: 26 Copynumber: 2.5 Consensus size: 24
19777324 AGAAAATTAG
*
19777334 AGAAGAAAAAGATGTCGAGAGAAAAT
1 AGAAGAAAAA-ATGTTGAGAG-AAAT
*
19777360 AGAAGAAAAAACTGTTGGGAGAAAT
1 AGAAGAAAAAA-TGTTGAGAGAAAT
*
19777385 TGAGAGAAAAAAT
1 AGA-AGAAAAAAT
19777398 TGTTTTTGAT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
25 8 0.24
26 25 0.76
ACGTcount: A:0.56, C:0.03, G:0.27, T:0.14
Consensus pattern (24 bp):
AGAAGAAAAAATGTTGAGAGAAAT
Found at i:19781548 original size:43 final size:42
Alignment explanation
Indices: 19781481--19781642 Score: 166
Period size: 43 Copynumber: 3.8 Consensus size: 42
19781471 CCGAAATATA
* *
19781481 ATTACATGTAAGACCACGTCTGGGATATTGACATTGA-ATTGTG
1 ATTACATGTAAGACCATGTCTGGGATATTG-CATCGATA-TGTG
* * * * *
19781524 ATTACGTGTAAGACCATGTTTGGGACATTCGCATCGTTATATG
1 ATTACATGTAAGACCATGTCTGGGATATT-GCATCGATATGTG
* *
19781567 ATTTCGTGTAAGACCATGTCTGGGATATTGGCATCGATATGTG
1 ATTACATGTAAGACCATGTCTGGGATATT-GCATCGATATGTG
* *
19781610 A-TAGCATGTAAGACCATATCTGGGATATGGCAT
1 ATTA-CATGTAAGACCATGTCTGGGATATTGCAT
19781643 TGTACGAGCT
Statistics
Matches: 99, Mismatches: 17, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
42 5 0.05
43 92 0.93
44 2 0.02
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.33
Consensus pattern (42 bp):
ATTACATGTAAGACCATGTCTGGGATATTGCATCGATATGTG
Found at i:19787244 original size:48 final size:48
Alignment explanation
Indices: 19787154--19787436 Score: 467
Period size: 48 Copynumber: 5.9 Consensus size: 48
19787144 TATATATGTG
* *
19787154 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTG-AA-ATATGTATGAGATATGTATA
*
19787204 TATGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
* *
19787252 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTGTA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
19787300 TGTGGTAAAGCCGAATGGATAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
19787348 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
* * *
19787396 TGTGGTAAAACCGAATGGCTAGTGTGTAATATGTAGGAGAT
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGAT
19787437 GTGTGTATAT
Statistics
Matches: 220, Mismatches: 13, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
48 194 0.88
49 2 0.01
50 24 0.11
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.31
Consensus pattern (48 bp):
TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
Found at i:19787685 original size:37 final size:37
Alignment explanation
Indices: 19787577--19787685 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
19787567 GGAAATATAT
*
19787577 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
19787614 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
** * *
19787651 TCCGGGTAAGACCTTATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
19787686 CATCTGAGCT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:19788990 original size:40 final size:40
Alignment explanation
Indices: 19788935--19789255 Score: 480
Period size: 40 Copynumber: 8.0 Consensus size: 40
19788925 GAGTTATATA
*
19788935 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
* *
19788975 TATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
* *
19789015 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTA
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
*
19789055 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
* *
19789095 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTA
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
*
19789135 TATCCGGGCTAAGTCCCGAAAAGCATTCGTGCTGGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
* * * *
19789175 TACCCGGGCTAAGTCCTGAAGAGCATTCGTGCTGGTGTTA
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
* * * * *
19789215 CATCCAGGCTAAGTCCTGAAGGGCATTCGTGCCGGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
19789255 T
1 T
19789256 GTAATCAGGC
Statistics
Matches: 254, Mismatches: 27, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 254 1.00
ACGTcount: A:0.21, C:0.23, G:0.30, T:0.26
Consensus pattern (40 bp):
TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
Found at i:19789442 original size:25 final size:25
Alignment explanation
Indices: 19789412--19789466 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
19789402 CAATGTGTAA
19789412 CGAATGAATAT-AGGCACTATGTGTG
1 CGAATGAAT-TGAGGCACTATGTGTG
*
19789437 CGAATGAATTGAGGCACTGTGTGTG
1 CGAATGAATTGAGGCACTATGTGTG
19789462 CGAAT
1 CGAAT
19789467 TCTTTAACCG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
24 1 0.04
25 27 0.96
ACGTcount: A:0.29, C:0.13, G:0.31, T:0.27
Consensus pattern (25 bp):
CGAATGAATTGAGGCACTATGTGTG
Found at i:19792918 original size:48 final size:48
Alignment explanation
Indices: 19792828--19793110 Score: 494
Period size: 48 Copynumber: 5.9 Consensus size: 48
19792818 TATATATGTG
* *
19792828 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTG-AA-ATATGTATGAGATATGTATA
*
19792878 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATAGGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
19792926 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
19792974 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
19793022 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
* *
19793070 TGTGGTAAAGCCGAATGGCTAGTGTGTAATATGTAGGAGAT
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGAT
19793111 GTGTGTATAT
Statistics
Matches: 225, Mismatches: 8, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
48 198 0.88
49 2 0.01
50 25 0.11
ACGTcount: A:0.34, C:0.06, G:0.29, T:0.31
Consensus pattern (48 bp):
TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
Found at i:19793314 original size:37 final size:37
Alignment explanation
Indices: 19793251--19793322 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
19793241 GGAAATATAT
*
19793251 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATAACTACGTGTGGAGATTTTG
* *
19793288 TCCGTGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATAACTACGTGTGGAGATTT
19793323 CATCTGAGCT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.29
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATAACTACGTGTGGAGATTTTG
Done.