Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 64 of 362
Found at i:19549139 original size:9 final size:9
Alignment explanation
Indices: 19549126--19549211 Score: 109
Period size: 9 Copynumber: 9.6 Consensus size: 9
19549116 ATAAGTATAA
*
19549126 AATTAACCA
1 AATTAACCG
*
19549135 AATTAACCA
1 AATTAACCG
*
19549144 AATTAATCG
1 AATTAACCG
*
19549153 AATTAATCG
1 AATTAACCG
*
19549162 AATTACCCG
1 AATTAACCG
*
19549171 AATTACCCG
1 AATTAACCG
*
19549180 AATTACCCG
1 AATTAACCG
19549189 AATTAACCG
1 AATTAACCG
19549198 AATTAACCG
1 AATTAACCG
19549207 AATTA
1 AATTA
19549212 TTTGTATAAA
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 72 1.00
ACGTcount: A:0.44, C:0.22, G:0.08, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:19549242 original size:6 final size:6
Alignment explanation
Indices: 19549231--19549283 Score: 70
Period size: 6 Copynumber: 8.5 Consensus size: 6
19549221 AATTATATGT
* *
19549231 TTTTTA TTTTTA TTTTTA TTTTTA GTTTTA GTTTTAGA TTTTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA -TTTT-TA TTTTTA TTTTTA
19549281 TTT
1 TTT
19549284 ATTAAATTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
6 33 0.80
7 7 0.17
8 1 0.02
ACGTcount: A:0.17, C:0.00, G:0.06, T:0.77
Consensus pattern (6 bp):
TTTTTA
Found at i:19549332 original size:18 final size:18
Alignment explanation
Indices: 19549309--19549346 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
19549299 ATTTTTATGA
19549309 TTGGGTTGGGTAATTGGG
1 TTGGGTTGGGTAATTGGG
19549327 TTGGGTTGGGTAATTGGG
1 TTGGGTTGGGTAATTGGG
19549345 TT
1 TT
19549347 AATATATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.11, C:0.00, G:0.47, T:0.42
Consensus pattern (18 bp):
TTGGGTTGGGTAATTGGG
Found at i:19549346 original size:13 final size:13
Alignment explanation
Indices: 19549308--19549332 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19549298 AATTTTTATG
19549308 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
19549321 ATTGGGTTGGGT
1 ATTGGGTTGGGT
19549333 TGGGTAATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.00, G:0.48, T:0.40
Consensus pattern (13 bp):
ATTGGGTTGGGTA
Found at i:19549459 original size:18 final size:18
Alignment explanation
Indices: 19549436--19549470 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
19549426 TTTTATTAAT
*
19549436 TTTTTTCGGTTAACCAAA
1 TTTTTTCAGTTAACCAAA
19549454 TTTTTTCAGTTAACCAA
1 TTTTTTCAGTTAACCAA
19549471 CCAGTTTCGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.17, G:0.09, T:0.46
Consensus pattern (18 bp):
TTTTTTCAGTTAACCAAA
Found at i:19553451 original size:21 final size:21
Alignment explanation
Indices: 19553417--19553457 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
19553407 AATTAACTAC
*
19553417 TTTTAGATTATTTATTTTAAT
1 TTTTAGATTATTTAATTTAAT
19553438 TTTTA-ATTATTTTAATTTAA
1 TTTTAGATTA-TTTAATTTAA
19553458 AATATTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (21 bp):
TTTTAGATTATTTAATTTAAT
Found at i:19567893 original size:5 final size:5
Alignment explanation
Indices: 19567850--19567885 Score: 65
Period size: 5 Copynumber: 7.4 Consensus size: 5
19567840 CAATTATTAG
19567850 TATAA TATAA TATAA TATAA TATAA TATAA TA-AA TA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TA
19567886 ATAAAATATA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 4 0.13
5 27 0.87
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
TATAA
Found at i:19571702 original size:19 final size:18
Alignment explanation
Indices: 19571678--19571734 Score: 51
Period size: 19 Copynumber: 2.9 Consensus size: 18
19571668 CCCTTAATTT
19571678 ATATATATAATTTTGTTAA
1 ATATATATAATTTT-TTAA
* *
19571697 ATATATTTTATTTTTTAA
1 ATATATATAATTTTTTAA
*
19571715 AAATATCAGTTAATTTTTTA
1 ATATAT-A--TAATTTTTTA
19571735 TATAAATTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
18 9 0.30
19 12 0.40
21 9 0.30
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.56
Consensus pattern (18 bp):
ATATATATAATTTTTTAA
Found at i:19571901 original size:104 final size:107
Alignment explanation
Indices: 19571734--19571934 Score: 284
Period size: 104 Copynumber: 1.9 Consensus size: 107
19571724 TTAATTTTTT
* * ** *
19571734 ATATAAATTTTATATGTTAAATATTTATTTTCATGTACATTATGAGTATGGTAAATTCTAATA-T
1 ATATAAATTTTATATGTGAAATATTTATTTCCACATACATTATGAGTATGATAAATTCTAATATT
19571798 A-AAAATC-AATGAATTACTTCAAAAATCATTAATTTTAGTAA
66 ATAAAATCAAAT-AATTACTTCAAAAATCATTAATTTTAGTAA
* * *
19571839 ATATAATTTTTATATGTGAAATATTT-TTTCCACATACATTGTGAGTATGATAGATTCTAATATT
1 ATATAAATTTTATATGTGAAATATTTATTTCCACATACATTATGAGTATGATAAATTCTAATATT
*
19571903 ATAAAATCAAATAATTACTTCAAATATCATTA
66 ATAAAATCAAATAATTACTTCAAAAATCATTA
19571935 TTATTTTTAT
Statistics
Matches: 84, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
104 30 0.36
105 26 0.31
106 25 0.30
107 3 0.04
ACGTcount: A:0.42, C:0.08, G:0.07, T:0.43
Consensus pattern (107 bp):
ATATAAATTTTATATGTGAAATATTTATTTCCACATACATTATGAGTATGATAAATTCTAATATT
ATAAAATCAAATAATTACTTCAAAAATCATTAATTTTAGTAA
Found at i:19572366 original size:28 final size:29
Alignment explanation
Indices: 19572322--19572394 Score: 78
Period size: 30 Copynumber: 2.5 Consensus size: 29
19572312 ATGAAAAATA
* *
19572322 AATTAAAAAACTTAAAAGCA-A-GTTTATT
1 AATT-AAAAACTTAAAAGAATATGTTTAAT
*
19572350 AATTAAAAACTTGAAAATAATATGTTTAAT
1 AATTAAAAACTT-AAAAGAATATGTTTAAT
19572380 AATTAAAAACATTAA
1 AATTAAAAAC-TTAA
19572395 TTAAAAAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
27 8 0.21
28 9 0.24
29 1 0.03
30 18 0.47
31 2 0.05
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.33
Consensus pattern (29 bp):
AATTAAAAACTTAAAAGAATATGTTTAAT
Found at i:19577419 original size:20 final size:20
Alignment explanation
Indices: 19577381--19577419 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
19577371 ATTTAATAAA
**
19577381 TAAAAATAAAAATCTAAAAC
1 TAAAAATAAAAATAAAAAAC
*
19577401 TAAAAATAGAAATAAAAAA
1 TAAAAATAAAAATAAAAAA
19577420 TATAATTTTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.74, C:0.05, G:0.03, T:0.18
Consensus pattern (20 bp):
TAAAAATAAAAATAAAAAAC
Found at i:19577450 original size:9 final size:9
Alignment explanation
Indices: 19577436--19577512 Score: 59
Period size: 9 Copynumber: 8.6 Consensus size: 9
19577426 TTTATACAAA
19577436 TAATTCGAT
1 TAATTCGAT
*
19577445 TAATTCGGT
1 TAATTCGAT
19577454 TAATTC-AGT
1 TAATTCGA-T
*
19577463 TAATTC-AGG
1 TAATTCGA-T
**
19577472 TAATTCGGG
1 TAATTCGAT
*
19577481 TAATTCGGT
1 TAATTCGAT
*
19577490 TAATTCTAT
1 TAATTCGAT
*
19577499 TAATTCGGT
1 TAATTCGAT
19577508 TAATT
1 TAATT
19577513 TTATATTTAT
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
9 57 1.00
ACGTcount: A:0.29, C:0.10, G:0.17, T:0.44
Consensus pattern (9 bp):
TAATTCGAT
Found at i:19577459 original size:18 final size:18
Alignment explanation
Indices: 19577436--19577512 Score: 95
Period size: 18 Copynumber: 4.3 Consensus size: 18
19577426 TTTATACAAA
19577436 TAATTCGATTAATTCGGT
1 TAATTCGATTAATTCGGT
19577454 TAATTC-AGTTAATTCAGG-
1 TAATTCGA-TTAATTC-GGT
**
19577472 TAATTCGGGTAATTCGGT
1 TAATTCGATTAATTCGGT
*
19577490 TAATTCTATTAATTCGGT
1 TAATTCGATTAATTCGGT
19577508 TAATT
1 TAATT
19577513 TTATATTTAT
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
17 3 0.06
18 45 0.90
19 2 0.04
ACGTcount: A:0.29, C:0.10, G:0.17, T:0.44
Consensus pattern (18 bp):
TAATTCGATTAATTCGGT
Found at i:19577475 original size:27 final size:27
Alignment explanation
Indices: 19577436--19577512 Score: 93
Period size: 27 Copynumber: 2.9 Consensus size: 27
19577426 TTTATACAAA
* *
19577436 TAATTCGATTAATTCGGTTAATTCAGT
1 TAATTCTAGTAATTCGGTTAATTCAGT
* *
19577463 TAATTC-AGGTAATTCGGGTAATTCGGT
1 TAATTCTA-GTAATTCGGTTAATTCAGT
*
19577490 TAATTCTATTAATTCGGTTAATT
1 TAATTCTAGTAATTCGGTTAATT
19577513 TTATATTTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
26 1 0.02
27 41 0.95
28 1 0.02
ACGTcount: A:0.29, C:0.10, G:0.17, T:0.44
Consensus pattern (27 bp):
TAATTCTAGTAATTCGGTTAATTCAGT
Found at i:19578396 original size:14 final size:14
Alignment explanation
Indices: 19578377--19578406 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
19578367 CTATATCGAG
19578377 ACCAATCCAAATCA
1 ACCAATCCAAATCA
*
19578391 ACCAATCCAATTCA
1 ACCAATCCAAATCA
19578405 AC
1 AC
19578407 ATATTTCAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (14 bp):
ACCAATCCAAATCA
Found at i:19585409 original size:14 final size:15
Alignment explanation
Indices: 19585364--19585406 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
19585354 TTGGGTTGAG
19585364 AAAATT-ATTTAATT
1 AAAATTAATTTAATT
19585378 AAAATTTAA-TTAATT
1 AAAA-TTAATTTAATT
19585393 AAAATTAATTTAAT
1 AAAATTAATTTAAT
19585407 AAATAATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 8 0.31
15 17 0.65
16 1 0.04
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
AAAATTAATTTAATT
Found at i:19592432 original size:33 final size:34
Alignment explanation
Indices: 19592390--19592457 Score: 129
Period size: 33 Copynumber: 2.0 Consensus size: 34
19592380 ATTAGGTGTT
19592390 AGATTGCATTTTACCCATTCTACT-AAAAAATAG
1 AGATTGCATTTTACCCATTCTACTAAAAAAATAG
19592423 AGATTGCATTTTACCCATTCTACTAAAAAAATAG
1 AGATTGCATTTTACCCATTCTACTAAAAAAATAG
19592457 A
1 A
19592458 AATATTAGGC
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 24 0.71
34 10 0.29
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (34 bp):
AGATTGCATTTTACCCATTCTACTAAAAAAATAG
Found at i:19593303 original size:21 final size:21
Alignment explanation
Indices: 19593277--19593319 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
19593267 GGTTCGCTGT
*
19593277 ATTGGATTAGAGGTGTATTGG
1 ATTGGATTAGAGGTGTAATGG
19593298 ATTGGATTAGAGGTGTAATGG
1 ATTGGATTAGAGGTGTAATGG
19593319 A
1 A
19593320 ATAGAGGTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.37, T:0.35
Consensus pattern (21 bp):
ATTGGATTAGAGGTGTAATGG
Found at i:19593319 original size:16 final size:16
Alignment explanation
Indices: 19593300--19593332 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
19593290 TGTATTGGAT
*
19593300 TGGATTAGAGGTGTAA
1 TGGAATAGAGGTGTAA
19593316 TGGAATAGAGGTGTAA
1 TGGAATAGAGGTGTAA
19593332 T
1 T
19593333 AGCAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.36, T:0.30
Consensus pattern (16 bp):
TGGAATAGAGGTGTAA
Found at i:19593377 original size:45 final size:44
Alignment explanation
Indices: 19593311--19593405 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
19593301 GGATTAGAGG
* *
19593311 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
19593356 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
19593400 TGTAAT
1 TGTAAT
19593406 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:19593588 original size:18 final size:17
Alignment explanation
Indices: 19593567--19593601 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
19593557 TTATTATTTA
*
19593567 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
19593585 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
19593602 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:19593595 original size:28 final size:27
Alignment explanation
Indices: 19593525--19593597 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
19593515 TTTATTATCA
*
19593525 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
19593553 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
19593580 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
19593598 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:19593732 original size:18 final size:17
Alignment explanation
Indices: 19593711--19593745 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
19593701 TTATTATTAA
*
19593711 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
19593729 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
19593746 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:19593733 original size:144 final size:147
Alignment explanation
Indices: 19593486--19593757 Score: 487
Period size: 144 Copynumber: 1.9 Consensus size: 147
19593476 ATGATTATTG
19593486 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTA--TATTATCAAAAATAAATAATTTAATCATATTTAA
*
19593551 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
64 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
19593616 ATAAATTTGTTTTGGTAAA
129 ATAAATTTGTTTTGGTAAA
*
19593635 TTATT-TTATTTAAATTTTAATAAGATTA-A-TATCAATAATAAATAATTTAATCATATTTAAAC
1 TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
19593697 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
19593758 ATATTCTTAT
Statistics
Matches: 121, Mismatches: 2, Indels: 5
0.95 0.02 0.04
Matches are distributed among these distances:
144 92 0.76
145 1 0.01
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (147 bp):
TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCAT
AAATTTGTTTTGGTAAA
Found at i:19593789 original size:54 final size:54
Alignment explanation
Indices: 19593731--19593909 Score: 128
Period size: 55 Copynumber: 3.1 Consensus size: 54
19593721 ATTAAAATAT
*
19593731 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAACC
1 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
** * * * * *
19593785 ATAATATATGATACTGTAAAATAT-AAAATAACATAATTATTATTAAATAT-AATATAATTAAAA
1 ATAAT-T-T-A-A---TAAAAT-TCTTAATAA-TTAA-TATTCTT--ATATGAAT-TTACTCAAA
*
19593848 TAT
53 -AC
*
19593851 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATC
1 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
19593905 ATAAT
1 ATAAT
19593910 ATATGATTAT
Statistics
Matches: 91, Mismatches: 18, Indels: 32
0.65 0.13 0.23
Matches are distributed among these distances:
54 10 0.11
55 11 0.12
56 4 0.04
57 7 0.08
58 5 0.05
59 11 0.12
61 11 0.12
62 5 0.05
63 7 0.08
64 4 0.04
65 11 0.12
66 5 0.05
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (54 bp):
ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
Found at i:19593791 original size:61 final size:61
Alignment explanation
Indices: 19593726--19593913 Score: 190
Period size: 61 Copynumber: 3.1 Consensus size: 61
19593716 TTTTAATTAA
*
19593726 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAACCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
* * * * * * * * * * *
19593787 AATATATGATACT-GTAAAA-T-ATAA-AATAACATAATTATTAT-TAAATATAAT-ATAATTAA
1 AATATATAAT-TTAATAAAATTCTTAATAATTA-AT-ATTCTTATATGAATTTACTCA-AATCAT
19593846 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
19593907 AATATAT
1 AATATAT
19593914 GATTATAACT
Statistics
Matches: 94, Mismatches: 23, Indels: 20
0.69 0.17 0.15
Matches are distributed among these distances:
58 6 0.06
59 29 0.31
60 16 0.17
61 37 0.39
62 6 0.06
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
Found at i:19593824 original size:120 final size:120
Alignment explanation
Indices: 19593694--19593916 Score: 419
Period size: 120 Copynumber: 1.9 Consensus size: 120
19593684 ATCATATTTA
* *
19593694 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
19593759 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAAAT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAAAT
19593814 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
19593879 TATTCTTATATGAATTTACTCAAATCATAATATATGAT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGAT
19593917 TATAACTAAT
Statistics
Matches: 100, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 100 1.00
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.42
Consensus pattern (120 bp):
AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAAAT
Found at i:19593852 original size:18 final size:17
Alignment explanation
Indices: 19593831--19593865 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
19593821 TTATTATTAA
19593831 ATATAATATAATTAAAAT
1 ATATAATATAA-TAAAAT
*
19593849 ATATAATTTAATAAAAT
1 ATATAATATAATAAAAT
19593866 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATATAATATAATAAAAT
Found at i:19593928 original size:17 final size:16
Alignment explanation
Indices: 19593906--19593952 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
19593896 ACTCAAATCA
19593906 TAATATATGATTATAAC
1 TAATATATGATT-TAAC
*
19593923 T-A-ATATGATTTAAT
1 TAATATATGATTTAAC
19593937 TAAATATATGATTTAA
1 T-AATATATGATTTAA
19593953 TAAAATTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 4 0.15
15 8 0.31
16 2 0.08
17 12 0.46
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (16 bp):
TAATATATGATTTAAC
Found at i:19593953 original size:17 final size:17
Alignment explanation
Indices: 19593925--19593958 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
19593915 ATTATAACTA
*
19593925 ATATGATTTAATTAAAT
1 ATATGATTTAATAAAAT
19593942 ATATGATTTAATAAAAT
1 ATATGATTTAATAAAAT
19593959 TTAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
ATATGATTTAATAAAAT
Found at i:19594100 original size:92 final size:92
Alignment explanation
Indices: 19593991--19594184 Score: 277
Period size: 93 Copynumber: 2.1 Consensus size: 92
19593981 GATTATAGTT
* * *
19593991 TATGAATTTGTATAATTT-AAATAA-TAATTATTACATATAATT-TAATAATAATATATAATTTC
1 TATGAATTTATACAATTTAAAATAATTAA-TATTAAATATAATTAT-ATAATAATATATAATTTC
* *
19594053 ATAAAATTCTTGATAATAAAAATTTTCTTA
64 ATAAAATTCTTAATAAT-AAAATGTTCTTA
* *
19594083 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAGTGATATATAATTTCAT
1 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
19594148 AAAATTCTTAATAATAAAATGTTCTTA
66 AAAATTCTTAATAATAAAATGTTCTTA
19594175 TATGAATTTA
1 TATGAATTTA
19594185 CTAAAATCAA
Statistics
Matches: 92, Mismatches: 7, Indels: 6
0.88 0.07 0.06
Matches are distributed among these distances:
92 37 0.40
93 51 0.55
94 4 0.04
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (92 bp):
TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
AAAATTCTTAATAATAAAATGTTCTTA
Found at i:19602901 original size:5 final size:6
Alignment explanation
Indices: 19602886--19602911 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
19602876 CAATTTTACA
19602886 AAAAAT AAAAAT AAAAAT AAAAAT AA
1 AAAAAT AAAAAT AAAAAT AAAAAT AA
19602912 TTTTAGTTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:19604071 original size:17 final size:17
Alignment explanation
Indices: 19604036--19604072 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
19604026 GAATTTTTTT
*
19604036 AAATATATAAATTCCAA
1 AAATATATAAATTACAA
*
19604053 AAATATATAAATTATAA
1 AAATATATAAATTACAA
19604070 AAA
1 AAA
19604073 ATTTTAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (17 bp):
AAATATATAAATTACAA
Found at i:19605911 original size:43 final size:42
Alignment explanation
Indices: 19605754--19605911 Score: 126
Period size: 43 Copynumber: 3.7 Consensus size: 42
19605744 TAGGATTTCG
* * * *
19605754 ATATGTGATTTCGTGTAAGACCACATTTGGGAC-GTTGGCATC
1 ATATTTGATTACGTGTAAGACCACGTCTGGGACAG-TGGCATC
* * * * *
19605796 GAT-TTGAGATTTACGTGTACGACCATGTTTGGGACA-TCGACATC
1 -ATATT-TGA-TTACGTGTAAGACCACGTCTGGGACAGT-GGCATC
*
19605840 ATATTTGATTTCGTGTAAGACC-CTGTCTGGGACAGTGGCATC
1 ATATTTGATTACGTGTAAGACCAC-GTCTGGGACAGTGGCATC
*
19605882 AATATTTGATTACATGTAAGACCACGTCTG
1 -ATATTTGATTACGTGTAAGACCACGTCTG
19605912 AGATGTTGGC
Statistics
Matches: 91, Mismatches: 15, Indels: 18
0.73 0.12 0.15
Matches are distributed among these distances:
42 27 0.30
43 35 0.38
44 29 0.32
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (42 bp):
ATATTTGATTACGTGTAAGACCACGTCTGGGACAGTGGCATC
Found at i:19607227 original size:22 final size:22
Alignment explanation
Indices: 19607202--19607243 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
19607192 TCTAAGCGTT
19607202 TGGAAATTTTTATACGAGATTC
1 TGGAAATTTTTATACGAGATTC
19607224 TGGAAATTTTTATACGAGAT
1 TGGAAATTTTTATACGAGAT
19607244 CGGTTTAGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.33, C:0.07, G:0.19, T:0.40
Consensus pattern (22 bp):
TGGAAATTTTTATACGAGATTC
Found at i:19607961 original size:17 final size:17
Alignment explanation
Indices: 19607941--19607973 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
19607931 TGATTTTATT
19607941 TCTTTTTCTTTT-TTTTC
1 TCTTTTT-TTTTGTTTTC
19607958 TCTTTTTTTTTGTTTT
1 TCTTTTTTTTTGTTTT
19607974 TATTCTTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.00, C:0.12, G:0.03, T:0.85
Consensus pattern (17 bp):
TCTTTTTTTTTGTTTTC
Found at i:19607973 original size:27 final size:27
Alignment explanation
Indices: 19607934--19607988 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
19607924 CTTCTTTTGA
* * *
19607934 TTTTATTTCTTTTTCTTTTTTTTCTCT
1 TTTTATTTCTTTTTATTCTTCTTCTCT
* *
19607961 TTTTTTTTGTTTTTATTCTTCTTCTCT
1 TTTTATTTCTTTTTATTCTTCTTCTCT
19607988 T
1 T
19607989 CTTTCCTTTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.04, C:0.15, G:0.02, T:0.80
Consensus pattern (27 bp):
TTTTATTTCTTTTTATTCTTCTTCTCT
Found at i:19611584 original size:47 final size:47
Alignment explanation
Indices: 19611533--19611708 Score: 237
Period size: 47 Copynumber: 3.7 Consensus size: 47
19611523 TTAGGATTCT
* * *
19611533 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
19611580 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
19611627 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
19611674 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
19611709 TCCCGAAGGG
Statistics
Matches: 115, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
46 1 0.01
47 114 0.99
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:19611883 original size:37 final size:37
Alignment explanation
Indices: 19611829--19611905 Score: 118
Period size: 37 Copynumber: 2.1 Consensus size: 37
19611819 GAGCTCTAAG
* * *
19611829 GACCCGATGACTACGTGTGGGGATTTTGTCCGGGTAA
1 GACCCGATAACTACGTGTGGAGATTATGTCCGGGTAA
*
19611866 GACCCGATAACTTCGTGTGGAGATTATGTCCGGGTAA
1 GACCCGATAACTACGTGTGGAGATTATGTCCGGGTAA
19611903 GAC
1 GAC
19611906 TTCGTAATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.22, C:0.19, G:0.32, T:0.26
Consensus pattern (37 bp):
GACCCGATAACTACGTGTGGAGATTATGTCCGGGTAA
Found at i:19620910 original size:20 final size:20
Alignment explanation
Indices: 19620887--19620926 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
19620877 TTTATTAATT
19620887 TTTAATAACTTTTTAAAATG
1 TTTAATAACTTTTTAAAATG
* * *
19620907 TTTATTTATTTTTTAAAATG
1 TTTAATAACTTTTTAAAATG
19620927 CTACTATGAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.57
Consensus pattern (20 bp):
TTTAATAACTTTTTAAAATG
Found at i:19623174 original size:48 final size:48
Alignment explanation
Indices: 19623103--19623230 Score: 143
Period size: 48 Copynumber: 2.7 Consensus size: 48
19623093 AGCTCCCGTA
* * * *
19623103 TAAGACCATATCTGGGATATGGCTTCGGCAGT-GACATGTGATCCCATG
1 TAAGACCATGTTTGGGACATGGCTTCGGCA-TCGACATGTGATCCCACG
* * **
19623151 TAAGACCATGTTTGGGACATGGCTTTGTCATCGTTATGTGATCCCACG
1 TAAGACCATGTTTGGGACATGGCTTCGGCATCGACATGTGATCCCACG
*
19623199 TAAGACCATGTTCGGGACATGGCATT-GGCATC
1 TAAGACCATGTTTGGGACATGGC-TTCGGCATC
19623231 ATAATGGGAC
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
47 1 0.01
48 65 0.96
49 2 0.03
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (48 bp):
TAAGACCATGTTTGGGACATGGCTTCGGCATCGACATGTGATCCCACG
Found at i:19623346 original size:93 final size:93
Alignment explanation
Indices: 19623187--19623359 Score: 231
Period size: 93 Copynumber: 1.9 Consensus size: 93
19623177 GTCATCGTTA
* * *
19623187 TGTGATCCCACGTAAGACCATGTTCGGGACATGGCATTGGCATCATAATGGGACATCGTATAAGA
1 TGTGATCCCACGTAAAACCATGTTCGGGACATGACATTGGCATCATAATGGGACATCATATAAGA
19623252 CCATAACTGGGCTATCGGCTTCGATATG
66 CCATAACTGGGCTATCGGCTTCGATATG
* * * * * *
19623280 TGTGATCCCATGTAAAACCGTGTTTGGGACATGACATTGGCATCATTATGTGGTC-TCATGTAAG
1 TGTGATCCCACGTAAAACCATGTTCGGGACATGACATTGGCATCATAATG-GGACATCATATAAG
**
19623344 ACCATATTTGGGCTAT
65 ACCATAACTGGGCTAT
19623360 GACATTTGCA
Statistics
Matches: 68, Mismatches: 11, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
93 65 0.96
94 3 0.04
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (93 bp):
TGTGATCCCACGTAAAACCATGTTCGGGACATGACATTGGCATCATAATGGGACATCATATAAGA
CCATAACTGGGCTATCGGCTTCGATATG
Found at i:19623354 original size:48 final size:48
Alignment explanation
Indices: 19623138--19623365 Score: 148
Period size: 48 Copynumber: 4.8 Consensus size: 48
19623128 CGGCAGTGAC
* * * * *
19623138 ATGTGATCCCATGTAAGACCATGTTTGGGACATGGCTTTGTCATCGTT
1 ATGTGGTCCCATGTAAGACCATGTTTGGGACATGACATTGGCATCATT
* * * * *
19623186 ATGTGATCCCACGTAAGACCATGTTCGGGACATGGCATTGGCATCATA
1 ATGTGGTCCCATGTAAGACCATGTTTGGGACATGACATTGGCATCATT
* * * * *** * *
19623234 ATG-GGACATCGTATAAGACCATAACTGGG-C-T---ATCGGCTTCGA-T
1 ATGTGGTC-CCATGTAAGACCATGTTTGGGACATGACATTGGCATC-ATT
* *
19623277 ATGTGTGATCCCATGTAAAACCGTGTTTGGGACATGACATTGGCATCATT
1 ATGTG-G-TCCCATGTAAGACCATGTTTGGGACATGACATTGGCATCATT
* *
19623327 ATGTGGTCTCATGTAAGACCATATTTGGG-CTATGACATT
1 ATGTGGTCCCATGTAAGACCATGTTTGGGAC-ATGACATT
19623366 TGCACTCTAC
Statistics
Matches: 134, Mismatches: 34, Indels: 24
0.70 0.18 0.12
Matches are distributed among these distances:
43 10 0.07
44 2 0.01
45 14 0.10
46 3 0.02
47 5 0.04
48 85 0.63
49 2 0.01
50 13 0.10
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (48 bp):
ATGTGGTCCCATGTAAGACCATGTTTGGGACATGACATTGGCATCATT
Found at i:19630964 original size:48 final size:48
Alignment explanation
Indices: 19630859--19630971 Score: 156
Period size: 48 Copynumber: 2.4 Consensus size: 48
19630849 AGCTCCTGTA
* ** *
19630859 TAAGACCATATCTAAGATATGGCTTTGGCAGTGACATGTGATCCCATG
1 TAAGACCATGTCTGGGACATGGCTTTGGCAGTGACATGTGATCCCATG
**
19630907 TAAGACCATGTCTGGGACATGGCTTTGGCA-TCGTTATGTGATCCCATG
1 TAAGACCATGTCTGGGACATGGCTTTGGCAGT-GACATGTGATCCCATG
19630955 TAAGACCATGTCTGGGA
1 TAAGACCATGTCTGGGA
19630972 TGTCGAAACC
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
47 1 0.02
48 57 0.98
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (48 bp):
TAAGACCATGTCTGGGACATGGCTTTGGCAGTGACATGTGATCCCATG
Found at i:19631692 original size:13 final size:15
Alignment explanation
Indices: 19631658--19631691 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 15
19631648 ATGTCATGCA
19631658 AATAAACATAGAAAAT
1 AATAAACATA-AAAAT
19631674 AATAAACATAAAATAT
1 AATAAACATAAAA-AT
19631690 AA
1 AA
19631692 AATTACATGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 3 0.18
16 14 0.82
ACGTcount: A:0.71, C:0.06, G:0.03, T:0.21
Consensus pattern (15 bp):
AATAAACATAAAAAT
Found at i:19632198 original size:13 final size:13
Alignment explanation
Indices: 19632182--19632295 Score: 51
Period size: 13 Copynumber: 8.8 Consensus size: 13
19632172 AAAATTATAC
19632182 ATAAAAATAAATA
1 ATAAAAATAAATA
*
19632195 ATAATAATAAAATA
1 ATAAAAAT-AAATA
* *
19632209 AT-ATAATGAATA
1 ATAAAAATAAATA
* *
19632221 ATATATATAATTATA
1 ATAAAAATAA--ATA
* *
19632236 AT-ATAATATATA
1 ATAAAAATAAATA
*
19632248 A-ATAAAATATATA
1 ATA-AAAATAAATA
19632261 AT-AAAAT--ATA
1 ATAAAAATAAATA
*
19632271 ATAAATAATACATAA
1 ATAAA-AATAAAT-A
19632286 ATAAAAATAA
1 ATAAAAATAA
19632296 TATATATAAT
Statistics
Matches: 77, Mismatches: 12, Indels: 23
0.69 0.11 0.21
Matches are distributed among these distances:
10 5 0.06
11 2 0.03
12 18 0.23
13 25 0.32
14 16 0.21
15 11 0.14
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.32
Consensus pattern (13 bp):
ATAAAAATAAATA
Found at i:19632199 original size:3 final size:3
Alignment explanation
Indices: 19632191--19632308 Score: 81
Period size: 3 Copynumber: 39.0 Consensus size: 3
19632181 CATAAAAATA
*
19632191 AAT AAT AAT AAT AA- AAT AAT -AT AAT GAAT AAT -AT ATAT AAT TAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT A-AT AAT AAT
19632235 AAT -AT AAT ATAT AAAT AA- AAT ATAT AAT AA- AAT -AT AAT AAAT AAT
1 AAT AAT AAT A-AT -AAT AAT AAT A-AT AAT AAT AAT AAT AAT -AAT AAT
*
19632280 ACAT AAAT AAA AAT AAT -AT ATAT AAT AAT
1 A-AT -AAT AAT AAT AAT AAT A-AT AAT AAT
19632309 TTTTTACATA
Statistics
Matches: 94, Mismatches: 4, Indels: 34
0.71 0.03 0.26
Matches are distributed among these distances:
2 16 0.17
3 53 0.56
4 23 0.24
5 2 0.02
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:19632222 original size:12 final size:11
Alignment explanation
Indices: 19632182--19632308 Score: 94
Period size: 10 Copynumber: 12.0 Consensus size: 11
19632172 AAAATTATAC
*
19632182 ATAAAAATAA-
1 ATAATAATAAT
19632192 ATAATAATAAT
1 ATAATAATAAT
*
19632203 AAAATAAT-AT
1 ATAATAATAAT
19632213 AATGAATAATATAT
1 -AT-AATAATA-AT
*
19632227 ATAATTATAAT
1 ATAATAATAAT
19632238 ATAAT-AT-AT
1 ATAATAATAAT
19632247 A-AATAA-AAT
1 ATAATAATAAT
*
19632256 AT-ATAATAAA
1 ATAATAATAAT
19632266 AT-ATAATAA-
1 ATAATAATAAT
19632275 ATAATACATAA-
1 ATAATA-ATAAT
*
19632286 ATAAAAATAAT
1 ATAATAATAAT
19632297 ATATATAATAAT
1 ATA-ATAATAAT
19632309 TTTTTACATA
Statistics
Matches: 97, Mismatches: 7, Indels: 24
0.76 0.05 0.19
Matches are distributed among these distances:
8 3 0.03
9 13 0.13
10 31 0.32
11 27 0.28
12 19 0.20
13 2 0.02
14 2 0.02
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.33
Consensus pattern (11 bp):
ATAATAATAAT
Found at i:19632237 original size:35 final size:35
Alignment explanation
Indices: 19632177--19632305 Score: 108
Period size: 35 Copynumber: 3.6 Consensus size: 35
19632167 TTTTTAAAAT
* *
19632177 TATACATAAAA-ATA-AATAATAATAATAAAATAA
1 TATAAATAAAATATATAATAATTATAATAAAATAA
*
19632210 TAT-AATGAATAATATAT-ATAATTATAATATAAT-A
1 TATAAAT-AA-AATATATAATAATTATAATAAAATAA
*
19632244 TATAAATAAAATATATAATAAAATATAAT-AAATAA
1 TATAAATAAAATATATAAT-AATTATAATAAAATAA
19632279 TACATAAATAAAAATAATATATATAAT
1 T--ATAAAT-AAAAT-ATATA-ATAAT
19632306 AATTTTTTAC
Statistics
Matches: 77, Mismatches: 6, Indels: 20
0.75 0.06 0.19
Matches are distributed among these distances:
32 2 0.03
33 12 0.16
34 13 0.17
35 30 0.39
37 6 0.08
38 5 0.06
39 7 0.09
40 2 0.03
ACGTcount: A:0.64, C:0.02, G:0.01, T:0.33
Consensus pattern (35 bp):
TATAAATAAAATATATAATAATTATAATAAAATAA
Found at i:19632242 original size:43 final size:41
Alignment explanation
Indices: 19632187--19632308 Score: 135
Period size: 43 Copynumber: 2.9 Consensus size: 41
19632177 TATACATAAA
19632187 AATAAATAATAATAATAAAATAATATA-ATGAATAATATATAT
1 AATAAATAATAATAATAAAATAATATATAT-AATAATA-ATAT
*
19632229 AATTATAAT-ATAAT-ATATAAATAAAATATATAATAA-AATAT
1 AA-TA-AATAATAATAATA-AAATAATATATATAATAATAATAT
19632270 AATAAATAATACATAAATAAAAATAATATATATAATAAT
1 AATAAATAATA-AT-AAT-AAAATAATATATATAATAAT
19632309 TTTTTACATA
Statistics
Matches: 68, Mismatches: 2, Indels: 18
0.77 0.02 0.20
Matches are distributed among these distances:
39 3 0.04
40 5 0.07
41 8 0.12
42 6 0.09
43 40 0.59
44 6 0.09
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.34
Consensus pattern (41 bp):
AATAAATAATAATAATAAAATAATATATATAATAATAATAT
Found at i:19632333 original size:19 final size:21
Alignment explanation
Indices: 19632295--19632333 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
19632285 AATAAAAATA
*
19632295 ATATATATAATAATTTTTTAC
1 ATATATATAATAATTGTTTAC
19632316 ATATATA-AATAA-TGTTTA
1 ATATATATAATAATTGTTTA
19632334 TAGTAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 5 0.29
21 7 0.41
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (21 bp):
ATATATATAATAATTGTTTAC
Found at i:19632373 original size:29 final size:29
Alignment explanation
Indices: 19632340--19632396 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
19632330 TTTATAGTAA
*
19632340 AAATAAATAATATATAAAATATTTAAAAT
1 AAATAAATAATATATAAAAAATTTAAAAT
* *
19632369 AAATAAGTTATATATAAAAAATTTAAAA
1 AAATAAATAATATATAAAAAATTTAAAA
19632397 AGGATTAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (29 bp):
AAATAAATAATATATAAAAAATTTAAAAT
Found at i:19632592 original size:30 final size:30
Alignment explanation
Indices: 19632558--19632615 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
19632548 ATAATGGCCA
* *
19632558 TTAGGACTAAATTGAAACAAAAATAAAAGG
1 TTAGGACCAAATTAAAACAAAAATAAAAGG
* *
19632588 TTAGGGCCAAATTAAAATAAAAATAAAA
1 TTAGGACCAAATTAAAACAAAAATAAAA
19632616 TGAAATTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.59, C:0.07, G:0.14, T:0.21
Consensus pattern (30 bp):
TTAGGACCAAATTAAAACAAAAATAAAAGG
Found at i:19634032 original size:45 final size:45
Alignment explanation
Indices: 19633977--19634600 Score: 254
Period size: 45 Copynumber: 14.0 Consensus size: 45
19633967 CCATGCTGAA
* *
19633977 ATCTTTGATCTGCTCCCCGCCTAATACAGAGACACCAAATCTGTC
1 ATCTTCGATCTGCTCCCCGTCTAATACAGAGACACCAAATCTGTC
* * * * * * *
19634022 ATCTTCGATCTGCT--TCGATGTAA-ACACACAAATGTCAGATCTG-C
1 ATCTTCGATCTGCTCCCCG-TCTAATACAGAGACA--CCAAATCTGTC
*
19634066 TATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTC
1 -ATCTTCGATCTGCTCCCCGTCTAATACAGAGACACCAAATCTGTC
* ** * * * * *
19634112 ATCTTCGATCTACT--TTGATGTAA-ACACACGA-ATGTCAGATCT-AC
1 ATCTTCGATCTGCTCCCCG-TCTAATACAGA-GACA--CCAAATCTGTC
*
19634156 TATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTC
1 -ATCTTCGATCTGCTCCCCGTCTAATACAGAGACACCAAATCTGTC
* * * * *
19634202 ATCTTCGATCTGCT--TCGATGTAA-ACACACGA-ATGTCAGATCTG-C
1 ATCTTCGATCTGCTCCCCG-TCTAATACAGA-GACA--CCAAATCTGTC
* *
19634246 TATCTTCGATCTGCTCCCTGTCTAATACAGAGACGCCAAATCTGTC
1 -ATCTTCGATCTGCTCCCCGTCTAATACAGAGACACCAAATCTGTC
* * * * *
19634292 ATCTTCGATCTGCT--TCGATGTAA-ACACACGA-ATGTCAGATCTG-C
1 ATCTTCGATCTGCTCCCCG-TCTAATACAGA-GACA--CCAAATCTGTC
*
19634336 TATCTTCGATCTGCTCCCCGTCTAATGCAGAGACACCAAATCTGTC
1 -ATCTTCGATCTGCTCCCCGTCTAATACAGAGACACCAAATCTGTC
* * * * * *
19634382 ATCTTCGATCTACT--TCGATGTAA-ACACACGA-ATGTCAGATCTG-C
1 ATCTTCGATCTGCTCCCCG-TCTAATACAGA-GACA--CCAAATCTGTC
* **
19634426 TATCTTCAATCTGCTCCCCGTCTAAT--AGAGATGCCAAATCTGTC
1 -ATCTTCGATCTGCTCCCCGTCTAATACAGAGACACCAAATCTGTC
* * * * *
19634470 ATCTTCGATCTGCT--TCGATGTAA-ACACACGA-ATGTCAGATCTG-C
1 ATCTTCGATCTGCTCCCCG-TCTAATACAGA-GACA--CCAAATCTGTC
* *
19634514 TATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTG--
1 -ATCTTCGATCTGCTCCCCGTCTAATACAGAGACACCAAATCTGTC
* * ** **
19634558 ATTCTTCGATTTGTTCCTTGTC-AATACAGAGATGCCAAATCTG
1 A-TCTTCGATCTGCTCCCCGTCTAATACAGAGACACCAAATCTG
19634601 CTATCGGTGA
Statistics
Matches: 423, Mismatches: 96, Indels: 122
0.66 0.15 0.19
Matches are distributed among these distances:
41 2 0.00
42 4 0.01
43 73 0.17
44 53 0.13
45 224 0.53
46 36 0.09
47 31 0.07
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.30
Consensus pattern (45 bp):
ATCTTCGATCTGCTCCCCGTCTAATACAGAGACACCAAATCTGTC
Found at i:19634091 original size:90 final size:90
Alignment explanation
Indices: 19633977--19634557 Score: 1022
Period size: 90 Copynumber: 6.5 Consensus size: 90
19633967 CCATGCTGAA
* * *
19633977 ATCTTTGATCTGCTCCCCGCCTAATACAGAGACACCAAATCTGTCATCTTCGATCTGCTTCGATG
1 ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATG
*
19634042 TAAACACACAAATGTCAGATCTGCT
66 TAAACACACGAATGTCAGATCTGCT
* *
19634067 ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTACTTTGATG
1 ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATG
*
19634132 TAAACACACGAATGTCAGATCTACT
66 TAAACACACGAATGTCAGATCTGCT
19634157 ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATG
1 ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATG
19634222 TAAACACACGAATGTCAGATCTGCT
66 TAAACACACGAATGTCAGATCTGCT
*
19634247 ATCTTCGATCTGCTCCCTGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATG
1 ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATG
19634312 TAAACACACGAATGTCAGATCTGCT
66 TAAACACACGAATGTCAGATCTGCT
* * *
19634337 ATCTTCGATCTGCTCCCCGTCTAATGCAGAGACACCAAATCTGTCATCTTCGATCTACTTCGATG
1 ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATG
19634402 TAAACACACGAATGTCAGATCTGCT
66 TAAACACACGAATGTCAGATCTGCT
* *
19634427 ATCTTCAATCTGCTCCCCGTCTAAT--AGAGATGCCAAATCTGTCATCTTCGATCTGCTTCGATG
1 ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATG
19634490 TAAACACACGAATGTCAGATCTGCT
66 TAAACACACGAATGTCAGATCTGCT
*
19634515 ATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTG
1 ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTG
19634558 ATTCTTCGAT
Statistics
Matches: 467, Mismatches: 22, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
88 83 0.18
90 384 0.82
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.29
Consensus pattern (90 bp):
ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATG
TAAACACACGAATGTCAGATCTGCT
Found at i:19640810 original size:18 final size:18
Alignment explanation
Indices: 19640787--19640823 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
19640777 TTCTTTGGTT
19640787 CACCTTCCAATGCGCATA
1 CACCTTCCAATGCGCATA
19640805 CACCTTCCAATGCGCATA
1 CACCTTCCAATGCGCATA
19640823 C
1 C
19640824 GTGTCCCTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.41, G:0.11, T:0.22
Consensus pattern (18 bp):
CACCTTCCAATGCGCATA
Found at i:19642600 original size:10 final size:10
Alignment explanation
Indices: 19642585--19642609 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
19642575 TTTTAGGTTT
19642585 TCTCTTTCTC
1 TCTCTTTCTC
19642595 TCTCTTTCTC
1 TCTCTTTCTC
19642605 TCTCT
1 TCTCT
19642610 CTGGTAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (10 bp):
TCTCTTTCTC
Found at i:19646638 original size:13 final size:13
Alignment explanation
Indices: 19646622--19646702 Score: 58
Period size: 13 Copynumber: 5.7 Consensus size: 13
19646612 AAAATAAAAA
19646622 ATAATAAAATATT
1 ATAATAAAATATT
19646635 ATAATGAATAATATAT
1 ATAAT-AA-AATAT-T
19646651 ATAATAAAATGATATAAT
1 ATAAT-AAA--ATAT--T
*
19646669 ATAATAAAAT-CT
1 ATAATAAAATATT
19646681 ATAAATAAAATA-T
1 AT-AATAAAATATT
19646694 ATAATAAAA
1 ATAATAAAA
19646703 ATAATAAATA
Statistics
Matches: 58, Mismatches: 2, Indels: 17
0.75 0.03 0.22
Matches are distributed among these distances:
12 10 0.17
13 16 0.28
14 2 0.03
15 8 0.14
16 8 0.14
17 7 0.12
18 7 0.12
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.33
Consensus pattern (13 bp):
ATAATAAAATATT
Found at i:19646672 original size:18 final size:17
Alignment explanation
Indices: 19646645--19646748 Score: 66
Period size: 17 Copynumber: 6.6 Consensus size: 17
19646635 ATAATGAATA
19646645 ATATATATAATAAAATG
1 ATATATATAATAAAATG
19646662 ATATAATATAAT-AAA--
1 ATAT-ATATAATAAAATG
*
19646677 ATCTATA-AATAAAAT-
1 ATATATATAATAAAATG
*
19646692 ATATA-AT-A-AAAATA
1 ATATATATAATAAAATG
* *
19646706 ATAAATATAAT-AAATA
1 ATATATATAATAAAATG
* *
19646722 ATACATA-AATAAAAATA
1 ATATATATAAT-AAAATG
19646739 ATATATATAA
1 ATATATATAA
19646749 AAATTTTTTA
Statistics
Matches: 71, Mismatches: 5, Indels: 21
0.73 0.05 0.22
Matches are distributed among these distances:
13 8 0.11
14 12 0.17
15 12 0.17
16 12 0.17
17 18 0.25
18 9 0.13
ACGTcount: A:0.65, C:0.02, G:0.01, T:0.32
Consensus pattern (17 bp):
ATATATATAATAAAATG
Found at i:19646684 original size:30 final size:29
Alignment explanation
Indices: 19646614--19646750 Score: 108
Period size: 29 Copynumber: 4.7 Consensus size: 29
19646604 ACATAATAAA
19646614 AATAAAA-A-ATAATAAAATATTATAAT-G
1 AATAAAATATATAATAAAATA-TATAATAG
* *
19646641 AATAATATATATAATAAAATGATATAATAT
1 AATAAAATATATAATAAAAT-ATATAATAG
* *
19646671 AATAAAATCTATAAATAAAATATATAATAAA
1 AATAAAATATAT-AATAAAATATATAAT-AG
19646702 AATAATAA-ATATAAT-AAATA-ATACATA-
1 AATAA-AATATATAATAAAATATATA-ATAG
19646729 AATAAAAATAATATATATAAAA
1 AAT-AAAAT-ATATA-ATAAAA
19646751 ATTTTTTACA
Statistics
Matches: 91, Mismatches: 6, Indels: 22
0.76 0.05 0.18
Matches are distributed among these distances:
27 11 0.12
28 7 0.08
29 28 0.31
30 23 0.25
31 20 0.22
32 2 0.02
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.31
Consensus pattern (29 bp):
AATAAAATATATAATAAAATATATAATAG
Found at i:19646701 original size:25 final size:24
Alignment explanation
Indices: 19646667--19646748 Score: 76
Period size: 25 Copynumber: 3.2 Consensus size: 24
19646657 AAATGATATA
*
19646667 ATATAATAAAATCTATAAATAAAAT
1 ATATAATAAAAT-AATAAATAAAAT
*
19646692 ATATAATAAAAATAATAAATATAAT
1 ATATAAT-AAAATAATAAATAAAAT
* *
19646717 AAATAATACATAAATAA-AAATAATAT
1 ATATAAT--A-AAATAATAAATAAAAT
19646743 ATATAA
1 ATATAA
19646749 AAATTTTTTA
Statistics
Matches: 47, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
25 23 0.49
26 18 0.38
27 6 0.13
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (24 bp):
ATATAATAAAATAATAAATAAAAT
Found at i:19646703 original size:13 final size:13
Alignment explanation
Indices: 19646606--19646752 Score: 55
Period size: 15 Copynumber: 9.8 Consensus size: 13
19646596 TAAATTATAC
*
19646606 ATAATAAAAATAA
1 ATAATAAAAATAT
*
19646619 AAAATAATAAAATATT
1 ATAAT-A-AAAATA-T
19646635 ATAATGAATAATATAT
1 ATAAT-AA-AA-ATAT
19646651 ATAAT-AAAATGAT
1 ATAATAAAAAT-AT
*
19646664 ATAATATAATAAAATCT
1 AT-A-AT-A-AAAATAT
19646681 ATAA-ATAAAATAT
1 ATAATA-AAAATAT
19646694 ATAATAAAAATAATAAAT
1 ATAAT--AAA-AAT--AT
*
19646712 ATAATAAATAATAC
1 ATAATAAA-AATAT
19646726 ATAAATAAAAATAAT
1 AT-AATAAAAAT-AT
19646741 ATATATAAAAAT
1 ATA-ATAAAAAT
19646753 TTTTTACATA
Statistics
Matches: 106, Mismatches: 8, Indels: 38
0.70 0.05 0.25
Matches are distributed among these distances:
12 2 0.02
13 22 0.21
14 10 0.09
15 29 0.27
16 25 0.24
17 6 0.06
18 12 0.11
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.31
Consensus pattern (13 bp):
ATAATAAAAATAT
Found at i:19646730 original size:45 final size:45
Alignment explanation
Indices: 19646606--19646752 Score: 146
Period size: 43 Copynumber: 3.2 Consensus size: 45
19646596 TAAATTATAC
* *
19646606 ATAATAAAAATAA-AAA-ATAATAAAATATTATA-ATGAATAATATAT
1 ATAATAAAAATAATAAATATAAT-AAATA--ATACATAAATAAAATAT
*
19646651 ATAAT-AAAATGATATAATATAAT-AA-AAT-CTATAAATAAAATAT
1 ATAATAAAAATAATA-AATATAATAAATAATAC-ATAAATAAAATAT
19646694 ATAATAAAAATAATAAATATAATAAATAATACATAAATAAAAATAAT
1 ATAATAAAAATAATAAATATAATAAATAATACATAAAT-AAAAT-AT
19646741 ATATATAAAAAT
1 ATA-ATAAAAAT
19646753 TTTTTACATA
Statistics
Matches: 86, Mismatches: 4, Indels: 21
0.77 0.04 0.19
Matches are distributed among these distances:
42 2 0.02
43 24 0.28
44 17 0.20
45 17 0.20
46 8 0.09
47 10 0.12
48 8 0.09
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.31
Consensus pattern (45 bp):
ATAATAAAAATAATAAATATAATAAATAATACATAAATAAAATAT
Found at i:19646738 original size:33 final size:34
Alignment explanation
Indices: 19646681--19646752 Score: 103
Period size: 33 Copynumber: 2.2 Consensus size: 34
19646671 AATAAAATCT
*
19646681 ATAAATAAAATATATAATAAAAATAATAAATATA
1 ATAAATAAAACATATAATAAAAATAATAAATATA
* *
19646715 ATAAATAATACATA-AATAAAAATAATATATATA
1 ATAAATAAAACATATAATAAAAATAATAAATATA
19646748 A-AAAT
1 ATAAAT
19646753 TTTTTACATA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
32 4 0.11
33 19 0.54
34 12 0.34
ACGTcount: A:0.69, C:0.01, G:0.00, T:0.29
Consensus pattern (34 bp):
ATAAATAAAACATATAATAAAAATAATAAATATA
Found at i:19646817 original size:29 final size:29
Alignment explanation
Indices: 19646784--19646840 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
19646774 TTTATAGTAA
*
19646784 AAATAAATAATATATAAAATATTTAAAAT
1 AAATAAATAATATATAAAAAATTTAAAAT
*
19646813 AAATAAATTATATATAAAAAATTTAAAA
1 AAATAAATAATATATAAAAAATTTAAAA
19646841 AGGATTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (29 bp):
AAATAAATAATATATAAAAAATTTAAAAT
Found at i:19647036 original size:30 final size:30
Alignment explanation
Indices: 19647002--19647059 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
19646992 ATAATGGCCA
* *
19647002 TTAGGACTAAATTGAAACAAAAATAAAAGG
1 TTAGGACCAAATTAAAACAAAAATAAAAGG
* *
19647032 TTAGGGCCAAATTAAAATAAAAATAAAA
1 TTAGGACCAAATTAAAACAAAAATAAAA
19647060 TGAAATTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.59, C:0.07, G:0.14, T:0.21
Consensus pattern (30 bp):
TTAGGACCAAATTAAAACAAAAATAAAAGG
Found at i:19651355 original size:20 final size:20
Alignment explanation
Indices: 19651318--19651355 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
19651308 CGCTTTCACT
*
19651318 CTTATTTATCAATTAATTCA
1 CTTATTTATCAATAAATTCA
19651338 CTTATTTGAT-AATAAATT
1 CTTATTT-ATCAATAAATT
19651356 TTATCACAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 14 0.88
21 2 0.12
ACGTcount: A:0.37, C:0.11, G:0.03, T:0.50
Consensus pattern (20 bp):
CTTATTTATCAATAAATTCA
Found at i:19655850 original size:20 final size:19
Alignment explanation
Indices: 19655821--19655890 Score: 68
Period size: 20 Copynumber: 3.6 Consensus size: 19
19655811 AAATCAAGTG
*
19655821 AAAATTATTTTAACCAAATC
1 AAAATGATTTTAA-CAAATC
* * *
19655841 AAAATGATTTCAATCAAGTT
1 AAAATGATTTTAA-CAAATC
* *
19655861 AAAATCATTTTAACACATC
1 AAAATGATTTTAACAAATC
19655880 AAAATGATTTT
1 AAAATGATTTT
19655891 CAAACAAGTC
Statistics
Matches: 39, Mismatches: 11, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
19 13 0.33
20 26 0.67
ACGTcount: A:0.47, C:0.13, G:0.04, T:0.36
Consensus pattern (19 bp):
AAAATGATTTTAACAAATC
Found at i:19655856 original size:40 final size:40
Alignment explanation
Indices: 19655812--19655899 Score: 124
Period size: 40 Copynumber: 2.2 Consensus size: 40
19655802 ACAATTTTAA
*
19655812 AATCAAGTGAAAATTATTTTAACCAAATCAAAATGA-TTTC
1 AATCAAGTGAAAATCATTTTAA-CAAATCAAAATGATTTTC
* *
19655852 AATCAAGTTAAAATCATTTTAACACATCAAAATGATTTTC
1 AATCAAGTGAAAATCATTTTAACAAATCAAAATGATTTTC
*
19655892 AAACAAGT
1 AATCAAGT
19655900 CAGAATTGCT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
39 12 0.28
40 31 0.72
ACGTcount: A:0.48, C:0.14, G:0.07, T:0.32
Consensus pattern (40 bp):
AATCAAGTGAAAATCATTTTAACAAATCAAAATGATTTTC
Found at i:19657430 original size:14 final size:14
Alignment explanation
Indices: 19657413--19657473 Score: 68
Period size: 14 Copynumber: 4.4 Consensus size: 14
19657403 TTGGGTATTT
19657413 AGAATAAAAAATTG
1 AGAATAAAAAATTG
** *
19657427 AGAATTGACAATTG
1 AGAATAAAAAATTG
*
19657441 AGAATAAAAAATCG
1 AGAATAAAAAATTG
* *
19657455 AGAACAAGAAATTG
1 AGAATAAAAAATTG
19657469 AGAAT
1 AGAAT
19657474 CAAATTGTGA
Statistics
Matches: 36, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
14 36 1.00
ACGTcount: A:0.57, C:0.05, G:0.18, T:0.20
Consensus pattern (14 bp):
AGAATAAAAAATTG
Found at i:19657467 original size:28 final size:28
Alignment explanation
Indices: 19657413--19657473 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
19657403 TTGGGTATTT
* **
19657413 AGAATAAAAAATTGAGAATTGACAATTG
1 AGAATAAAAAATCGAGAAAAGACAATTG
19657441 AGAATAAAAAATCGAGAACAAGA-AATTG
1 AGAATAAAAAATCGAGAA-AAGACAATTG
19657469 AGAAT
1 AGAAT
19657474 CAAATTGTGA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 27 0.93
29 2 0.07
ACGTcount: A:0.57, C:0.05, G:0.18, T:0.20
Consensus pattern (28 bp):
AGAATAAAAAATCGAGAAAAGACAATTG
Found at i:19657811 original size:21 final size:22
Alignment explanation
Indices: 19657777--19657817 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
19657767 AAAAACACCG
19657777 TAAATCGATAAATTT-TCAAAA
1 TAAATCGATAAATTTCTCAAAA
19657798 TAAA-CGATATAATTTCTCAA
1 TAAATCGATA-AATTTCTCAA
19657818 TTAATTTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.28
21 9 0.50
22 4 0.22
ACGTcount: A:0.49, C:0.12, G:0.05, T:0.34
Consensus pattern (22 bp):
TAAATCGATAAATTTCTCAAAA
Found at i:19659663 original size:26 final size:26
Alignment explanation
Indices: 19659623--19659678 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
19659613 ATATAATAAT
19659623 AATATAATAAATAATACA-AATTTAAA
1 AATATAATAAATAATA-ATAATTTAAA
** *
19659649 AATATAATACTTAATAATAATTTCAA
1 AATATAATAAATAATAATAATTTAAA
19659675 AATA
1 AATA
19659679 GCATTTACTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 1 0.04
26 25 0.96
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (26 bp):
AATATAATAAATAATAATAATTTAAA
Found at i:19661596 original size:88 final size:87
Alignment explanation
Indices: 19661473--19661690 Score: 285
Period size: 88 Copynumber: 2.5 Consensus size: 87
19661463 ACAATACAGA
* * * * **
19661473 GATGGCAAATCATCTTAGATTTGCATCAGCGTAAACA-CGTGAAAGCCAAACCTGCTATGTCTTC
1 GATGCCAAATCATCTTGGATCTGCTTCAGTATAAACATC-TGAAAGCCAAACCTGCTATGTCTTC
**
19661537 GATTTGCTCCTTTGTAGGCACAAG
65 GATTTGCTCC-TTGTAAACACAAG
* * *
19661561 GATGCCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTCAGACCTGCTATGTCTTCG
1 GATGCCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAAGCCAAACCTGCTATGTCTTCG
19661626 ATTTGCTCCTTGTAAACACAAG
66 ATTTGCTCCTTGTAAACACAAG
* * *
19661648 AATGCCAAATCATCTTGGATCTGCTTTAGTAAAAACATCTGAA
1 GATGCCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAA
19661691 GATTAGATCT
Statistics
Matches: 115, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
87 51 0.44
88 63 0.55
89 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (87 bp):
GATGCCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAAGCCAAACCTGCTATGTCTTCG
ATTTGCTCCTTGTAAACACAAG
Found at i:19661670 original size:87 final size:88
Alignment explanation
Indices: 19661478--19661706 Score: 291
Period size: 87 Copynumber: 2.6 Consensus size: 88
19661468 ACAGAGATGG
* * * ** * * *
19661478 CAAATCATCTTAGATTTGCATCAGCGTAAACA-CGTGAAAGCCAAACCTGCTATGTCTTCGATTT
1 CAAATCATCTTGGATCTGCTTCAGTATAAACATC-TGAAGGTCAGACCTGCTATGTCTTCGATTT
** *
19661542 GCTCCTTTGTAGGCACAAGGATGC
65 GCTCCTTTGTAAACACAAGAATGC
19661566 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTCAGACCTGCTATGTCTTCGATTTG
1 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTCAGACCTGCTATGTCTTCGATTTG
19661631 CTCC-TTGTAAACACAAGAATGC
66 CTCCTTTGTAAACACAAGAATGC
* * * * *
19661653 CAAATCATCTTGGATCTGCTTTAGTAAAAACATCTGAAGATTAGATCTGCTATG
1 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTCAGACCTGCTATG
19661707 CTTTGGTCTG
Statistics
Matches: 124, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
87 64 0.52
88 59 0.48
89 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.31
Consensus pattern (88 bp):
CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTCAGACCTGCTATGTCTTCGATTTG
CTCCTTTGTAAACACAAGAATGC
Found at i:19664843 original size:39 final size:39
Alignment explanation
Indices: 19664799--19664883 Score: 116
Period size: 40 Copynumber: 2.2 Consensus size: 39
19664789 CCTTCGGAGT
* *
19664799 TTAGCCGGATATAGCCACTAGCTCAAATGCCTTCGGGAC
1 TTAGCCGGATATAGCAACTAGCACAAATGCCTTCGGGAC
* * *
19664838 TTAGCCCGGTTATAGTAACTTGCACAAATGCCTTCGGGAC
1 TTAG-CCGGATATAGCAACTAGCACAAATGCCTTCGGGAC
19664878 TTAGCC
1 TTAGCC
19664884 CGGTATAATA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
39 6 0.15
40 34 0.85
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
TTAGCCGGATATAGCAACTAGCACAAATGCCTTCGGGAC
Found at i:19664866 original size:40 final size:39
Alignment explanation
Indices: 19664822--19664902 Score: 135
Period size: 40 Copynumber: 2.1 Consensus size: 39
19664812 GCCACTAGCT
* *
19664822 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAATAACTCGCA
19664862 CAAATGCCTTCGGGACTTAGCCCGGTATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTATAATAACTCGCA
19664901 CA
1 CA
19664903 TATGAAATCA
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
39 14 0.36
40 25 0.64
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGTATAATAACTCGCA
Found at i:19672562 original size:15 final size:15
Alignment explanation
Indices: 19672520--19672562 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
19672510 ATAACTTTGA
*
19672520 ATGCAAATG-ATGCG
1 ATGCAAATGCATGAG
19672534 ATG-AAATGCTATGAG
1 ATGCAAATGC-ATGAG
19672549 ATGCAAATGCATGA
1 ATGCAAATGCATGA
19672563 ATGTAAAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 5 0.20
14 3 0.12
15 11 0.44
16 6 0.24
ACGTcount: A:0.40, C:0.12, G:0.26, T:0.23
Consensus pattern (15 bp):
ATGCAAATGCATGAG
Found at i:19676697 original size:26 final size:26
Alignment explanation
Indices: 19676657--19676712 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
19676647 ATATAATAAT
19676657 AATATAATAAATAATACA-AATTTAAA
1 AATATAATAAATAATA-ATAATTTAAA
** *
19676683 AATATAATACTTAATAATAATTTCAA
1 AATATAATAAATAATAATAATTTAAA
19676709 AATA
1 AATA
19676713 GCATTTACTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 1 0.04
26 25 0.96
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (26 bp):
AATATAATAAATAATAATAATTTAAA
Found at i:19692053 original size:44 final size:44
Alignment explanation
Indices: 19691988--19692115 Score: 175
Period size: 44 Copynumber: 2.9 Consensus size: 44
19691978 TATGTATGAG
* * * *
19691988 GCATCCGAGCTCATTAAGTTGGTCTGAGTTCATTATGGATGTGA
1 GCATCCGAGCTCGTTGAGTTGGTCCGAGTTCATTATGGATGCGA
* * *
19692032 GCATCTGAGCTTGTTGCGTTGGTCCGAGTTCATTATGGATGCGA
1 GCATCCGAGCTCGTTGAGTTGGTCCGAGTTCATTATGGATGCGA
* *
19692076 GCATCCGAGCTCGTTGAGTTAGTCCAAGTTCATTATGGAT
1 GCATCCGAGCTCGTTGAGTTGGTCCGAGTTCATTATGGAT
19692116 ACGATACATG
Statistics
Matches: 72, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 72 1.00
ACGTcount: A:0.20, C:0.18, G:0.28, T:0.34
Consensus pattern (44 bp):
GCATCCGAGCTCGTTGAGTTGGTCCGAGTTCATTATGGATGCGA
Found at i:19694294 original size:66 final size:65
Alignment explanation
Indices: 19694175--19694297 Score: 192
Period size: 65 Copynumber: 1.9 Consensus size: 65
19694165 CATCAGGAAG
* * *
19694175 ATTATCCTCATTGGGCTCTTCCCTTGAACTTCAAACCTATATAGAAACTAGATACTATTGGGGAC
1 ATTATCCTCATTCGGCTCTTCCCTTAAACCTCAAACCTATATAGAAACTAGATACTATTGGGGAC
* *
19694240 ATTATCCTCCTTCGGCTCTTCCCTTAAACCTCTAAACCTATATGGAAACTAGATACTA
1 ATTATCCTCATTCGGCTCTTCCCTTAAACCTC-AAACCTATATAGAAACTAGATACTA
19694298 ATGGATCTAC
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
65 28 0.54
66 24 0.46
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (65 bp):
ATTATCCTCATTCGGCTCTTCCCTTAAACCTCAAACCTATATAGAAACTAGATACTATTGGGGAC
Found at i:19695600 original size:12 final size:12
Alignment explanation
Indices: 19695565--19695609 Score: 63
Period size: 12 Copynumber: 3.6 Consensus size: 12
19695555 AAACTTAAAC
*
19695565 AAATAAATAAGAA
1 AAATAAATAAG-T
19695578 AAATGAAATAAGT
1 AAAT-AAATAAGT
19695591 AAATAAATAAGT
1 AAATAAATAAGT
19695603 AAATAAA
1 AAATAAA
19695610 AATATAAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
12 15 0.50
13 8 0.27
14 7 0.23
ACGTcount: A:0.71, C:0.00, G:0.09, T:0.20
Consensus pattern (12 bp):
AAATAAATAAGT
Found at i:19695662 original size:3 final size:3
Alignment explanation
Indices: 19695654--19695934 Score: 118
Period size: 3 Copynumber: 95.3 Consensus size: 3
19695644 CAATGAAAAC
* * * ** * * *
19695654 AAT AAT AAT AAT AAT AAT ACT AAT AAT AAT AGT AGT AGC AGT AGT AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * ** *
19695702 AGT AGT AGT AA- AA- AAT AAT AAT AAT GAT GGT AAT AAT AAT AGT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
** * * * * *
19695748 AAT AAT -AT GCT AAAT AAT AGT AGT AA- AA- AAT AAT AGT AAC AGT
1 AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
19695791 AAT TAT AGA- AAT GAT AAT AGT AAT -AT AAT AAT AAT AAT AAT -AT
1 AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * *
19695834 ATT GAT AAT AAAT AAT AAT AGT AA- AAGG AAT AGT AAT AAT AAG AAT
1 AAT AAT AAT -AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT
* *
19695880 ATT AAT AAT AGT AAT AAT -AT AAAT AAT -AT AAAT AAT AAT -AT ATAT
1 AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT -AAT AAT AAT AAT A-AT
19695925 AAT AAT AAT A
1 AAT AAT AAT A
19695935 TAGCAAAAAT
Statistics
Matches: 217, Mismatches: 44, Indels: 34
0.74 0.15 0.12
Matches are distributed among these distances:
2 23 0.11
3 180 0.83
4 14 0.06
ACGTcount: A:0.57, C:0.01, G:0.10, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:19695779 original size:13 final size:13
Alignment explanation
Indices: 19695736--19695786 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
19695726 TGATGGTAAT
*
19695736 AATAATAGT-AAT
1 AATAATAGTAAAA
*
19695748 AATAATATGCTAAAT
1 AATAATA-G-TAAAA
*
19695763 AATAGTAGTAAAA
1 AATAATAGTAAAA
19695776 AATAATAGTAA
1 AATAATAGTAA
19695787 CAGTAATTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
12 7 0.21
13 15 0.45
14 2 0.06
15 9 0.27
ACGTcount: A:0.59, C:0.02, G:0.10, T:0.29
Consensus pattern (13 bp):
AATAATAGTAAAA
Found at i:19697042 original size:14 final size:14
Alignment explanation
Indices: 19697018--19697056 Score: 60
Period size: 14 Copynumber: 2.7 Consensus size: 14
19697008 TAATTGGGTT
19697018 GTTTAGTTGGGCTTG
1 GTTT-GTTGGGCTTG
*
19697033 GTTTGTTGGGTTTG
1 GTTTGTTGGGCTTG
19697047 GTTTGTTGGG
1 GTTTGTTGGG
19697057 GTAGTGGGCA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 19 0.83
15 4 0.17
ACGTcount: A:0.03, C:0.03, G:0.44, T:0.51
Consensus pattern (14 bp):
GTTTGTTGGGCTTG
Found at i:19697828 original size:45 final size:45
Alignment explanation
Indices: 19697779--19697934 Score: 190
Period size: 45 Copynumber: 3.5 Consensus size: 45
19697769 TTCAATCTGT
* * **
19697779 TCCACTACAACTTCAGGGAAATAAGATTCACTATCTTCAGTCTAC
1 TCCACTGCAACTTCAGGGAGATAAGACCCACTATCTTCAGTCTAC
* *
19697824 TCCACTGCAACTTCAGGGAGATAAGACCCACTATCTTTAGTCTGC
1 TCCACTGCAACTTCAGGGAGATAAGACCCACTATCTTCAGTCTAC
** * ** *
19697869 TCCACTGCAACTTCAGGGAGATAAGA--CTTTAACTTCAACCTGC
1 TCCACTGCAACTTCAGGGAGATAAGACCCACTATCTTCAGTCTAC
19697912 TCCACTGCAACTTCAGGGAGATA
1 TCCACTGCAACTTCAGGGAGATA
19697935 CAGTTTGTTT
Statistics
Matches: 99, Mismatches: 12, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
43 34 0.34
45 65 0.66
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (45 bp):
TCCACTGCAACTTCAGGGAGATAAGACCCACTATCTTCAGTCTAC
Found at i:19698564 original size:13 final size:13
Alignment explanation
Indices: 19698546--19698571 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
19698536 TGCTTGAAAA
19698546 AGGTCGTAATAAT
1 AGGTCGTAATAAT
19698559 AGGTCGTAATAAT
1 AGGTCGTAATAAT
19698572 GGAAAAACTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (13 bp):
AGGTCGTAATAAT
Found at i:19709900 original size:26 final size:26
Alignment explanation
Indices: 19709870--19709933 Score: 85
Period size: 26 Copynumber: 2.5 Consensus size: 26
19709860 CAAAAATTAT
**
19709870 TAAAAAAACTTAAACAAATAAATAAG
1 TAAAAAAAAATAAACAAATAAATAAG
19709896 -AAAAATAAAATAAACAAATAAATAAG
1 TAAAAA-AAAATAAACAAATAAATAAG
*
19709922 TAAATAAAAATA
1 TAAAAAAAAATA
19709934 TAAAATATGA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 5 0.15
26 24 0.73
27 4 0.12
ACGTcount: A:0.73, C:0.05, G:0.03, T:0.19
Consensus pattern (26 bp):
TAAAAAAAAATAAACAAATAAATAAG
Found at i:19709939 original size:21 final size:19
Alignment explanation
Indices: 19709903--19709953 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 19
19709893 AAGAAAAATA
19709903 AAATAAACAA-ATAAATAAG
1 AAATAAA-AATATAAATAAG
*
19709922 TAAATAAAAATATAAAATATG
1 -AAATAAAAATAT-AAATAAG
19709943 ACAATAAAAAT
1 A-AATAAAAAT
19709954 GACACTAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 2 0.07
20 10 0.37
21 15 0.56
ACGTcount: A:0.71, C:0.04, G:0.04, T:0.22
Consensus pattern (19 bp):
AAATAAAAATATAAATAAG
Found at i:19709997 original size:3 final size:3
Alignment explanation
Indices: 19709991--19710017 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
19709981 AATAATAATA
19709991 ATG ATG ATG ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG
19710018 GTAATAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
ATG
Found at i:19710025 original size:3 final size:3
Alignment explanation
Indices: 19710019--19710269 Score: 187
Period size: 3 Copynumber: 85.0 Consensus size: 3
19710009 ATGATGATGG
* ** *
19710019 TAA TAA TAA TAG TAA TAA TAA T-A TGC TAAA TAA TAG TAA TAA -AA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA
* * * * * * *
19710063 -AA TAA TAG TAA CAG TAA TTA TAA AAA TGA TAA TAG TAA T-A TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
19710109 -GA TGA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-A TAT
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * *
19710155 TGA TAA TAAA TAA TAA TAG TAA AAA GAA CAA TAA TAA TAA CAA TAA
1 TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
19710201 T-A TAAA TAA TAA T-A TATA TAA -AA TAA TAA TAA TAA TAA TAA TGA
1 TAA T-AA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
19710245 TCA TAA TAA TAA TAAA TAA TAA TAA
1 TAA TAA TAA TAA T-AA TAA TAA TAA
19710270 GAAAATAGTA
Statistics
Matches: 197, Mismatches: 38, Indels: 26
0.75 0.15 0.10
Matches are distributed among these distances:
2 17 0.09
3 168 0.85
4 12 0.06
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:19710935 original size:3 final size:3
Alignment explanation
Indices: 19710927--19710957 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
19710917 TTGAAACAAA
19710927 AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
19710958 AAAGATAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:19713063 original size:27 final size:28
Alignment explanation
Indices: 19713006--19713074 Score: 90
Period size: 30 Copynumber: 2.5 Consensus size: 28
19712996 TGTAGCAATT
*
19713006 TTTTTTATT-TTATAAAAATTACCTTAAA
1 TTTTTTATTATTATAAAAATGACCTT-AA
19713034 TTTTTTATTAATTATAAAAATGACC-T-A
1 TTTTTTATT-ATTATAAAAATGACCTTAA
19713061 TTTTTTATTATTAT
1 TTTTTTATTATTAT
19713075 TATATATATA
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
26 5 0.13
27 10 0.26
28 9 0.24
29 1 0.03
30 13 0.34
ACGTcount: A:0.36, C:0.06, G:0.01, T:0.57
Consensus pattern (28 bp):
TTTTTTATTATTATAAAAATGACCTTAA
Found at i:19713610 original size:18 final size:20
Alignment explanation
Indices: 19713588--19713634 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 20
19713578 TACATAAATT
*
19713588 ATTTACATAAA-AATTAT-A
1 ATTTACATAAATAACTATCA
*
19713606 TTTTACA-AAATAACTATCA
1 ATTTACATAAATAACTATCA
19713625 ATTTACATAA
1 ATTTACATAA
19713635 TTCAAAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
17 3 0.13
18 11 0.48
19 7 0.30
20 2 0.09
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (20 bp):
ATTTACATAAATAACTATCA
Found at i:19715248 original size:19 final size:19
Alignment explanation
Indices: 19715226--19715272 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 19
19715216 ATTAATTACT
19715226 AAAAAATTATATAAAAAT-A
1 AAAAAATT-TATAAAAATCA
19715245 AAAACAATTTATAAAAATCA
1 AAAA-AATTTATAAAAATCA
19715265 ATAAAAAT
1 A-AAAAAT
19715273 ACACATTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 13 0.52
20 9 0.36
21 3 0.12
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (19 bp):
AAAAAATTTATAAAAATCA
Found at i:19718795 original size:18 final size:17
Alignment explanation
Indices: 19718774--19718809 Score: 63
Period size: 18 Copynumber: 2.1 Consensus size: 17
19718764 TAAAAAGAAA
19718774 AATAACATTAAATATTTT
1 AATAACATTAAAT-TTTT
19718792 AATAACATTAAATTTTT
1 AATAACATTAAATTTTT
19718809 A
1 A
19718810 TATAGATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (17 bp):
AATAACATTAAATTTTT
Found at i:19722790 original size:21 final size:21
Alignment explanation
Indices: 19722765--19722813 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
19722755 TGTCAATTTT
*
19722765 CACACGGCCGCGTGCCCTGGA
1 CACACGGCCGCGTCCCCTGGA
* *
19722786 CACACGGCCTCTTCCCCTGGA
1 CACACGGCCGCGTCCCCTGGA
19722807 CACACGG
1 CACACGG
19722814 GCATGTGTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.16, C:0.45, G:0.27, T:0.12
Consensus pattern (21 bp):
CACACGGCCGCGTCCCCTGGA
Found at i:19724288 original size:21 final size:23
Alignment explanation
Indices: 19724252--19724293 Score: 70
Period size: 21 Copynumber: 1.9 Consensus size: 23
19724242 AAAATGTCAA
19724252 AATATGCATAATAAGTCCATTTC
1 AATATGCATAATAAGTCCATTTC
19724275 AATATGC-T-ATAAGTCCATT
1 AATATGCATAATAAGTCCATT
19724294 CAACCAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 11 0.58
22 1 0.05
23 7 0.37
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.36
Consensus pattern (23 bp):
AATATGCATAATAAGTCCATTTC
Found at i:19727457 original size:38 final size:38
Alignment explanation
Indices: 19727384--19727493 Score: 121
Period size: 38 Copynumber: 2.8 Consensus size: 38
19727374 CTAATCCAAT
* * *
19727384 CAAAACATGCAAAACAGAAGCGAATAAGAACTGGTCCACC
1 CAAAACATGC-CAACAGAAGC-TATAAGAGCTGGTCCACC
* *
19727424 CAAAACATGCCAACAGAAGCTATAAGAGTTGGTCTACC
1 CAAAACATGCCAACAGAAGCTATAAGAGCTGGTCCACC
* * *
19727462 CGAAACATGCCAATAAAAGCTCATAAGAGCTG
1 CAAAACATGCCAACAGAAGCT-ATAAGAGCTG
19727494 AACAGAAGCT
Statistics
Matches: 60, Mismatches: 9, Indels: 3
0.83 0.12 0.04
Matches are distributed among these distances:
38 32 0.53
39 18 0.30
40 10 0.17
ACGTcount: A:0.44, C:0.24, G:0.18, T:0.15
Consensus pattern (38 bp):
CAAAACATGCCAACAGAAGCTATAAGAGCTGGTCCACC
Found at i:19729098 original size:34 final size:34
Alignment explanation
Indices: 19729060--19729127 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 34
19729050 CAAATTGTGA
*
19729060 GTTTATTCTTTTATCTCTTTGAAAGAATTTGTTT
1 GTTTATTCTGTTATCTCTTTGAAAGAATTTGTTT
* * *
19729094 GTTTATTCTGTTGTCTCTTTGAGAGAGTTTGTTT
1 GTTTATTCTGTTATCTCTTTGAAAGAATTTGTTT
19729128 TGAACTTATC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.16, C:0.09, G:0.18, T:0.57
Consensus pattern (34 bp):
GTTTATTCTGTTATCTCTTTGAAAGAATTTGTTT
Found at i:19732083 original size:11 final size:11
Alignment explanation
Indices: 19732043--19732082 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
19732033 ACAATAACAA
19732043 CAAAATAATAG
1 CAAAATAATAG
*
19732054 CAACATAATAG
1 CAAAATAATAG
* *
19732065 TAAAATAGTAG
1 CAAAATAATAG
19732076 CAAAATA
1 CAAAATA
19732083 GGGAGAAAAC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.60, C:0.10, G:0.10, T:0.20
Consensus pattern (11 bp):
CAAAATAATAG
Found at i:19735867 original size:42 final size:42
Alignment explanation
Indices: 19735820--19735966 Score: 154
Period size: 43 Copynumber: 3.5 Consensus size: 42
19735810 GTTACCAAGA
*
19735820 TGTGATTACATGTAAGACCATGTCTGAGACATTGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGCATTGTAT
* * * *
19735862 TGTGATTACGTGTAAGACCATTTTTGGGACATTGTCATCGTTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTG-CATTG-TAT
* * * *
19735906 T-CGATTTCATGTAAGACCCTGTCTGGGACAGTGGCATTG-AT
1 TGTGATTACATGTAAGACCATGTCTGGGACA-TTGCATTGTAT
*
19735947 ATGTGATAACATGTAAGACC
1 -TGTGATTACATGTAAGACC
19735967 TTATCTAGGA
Statistics
Matches: 84, Mismatches: 16, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
41 2 0.02
42 31 0.37
43 45 0.54
44 6 0.07
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.35
Consensus pattern (42 bp):
TGTGATTACATGTAAGACCATGTCTGGGACATTGCATTGTAT
Found at i:19738061 original size:27 final size:27
Alignment explanation
Indices: 19738031--19738085 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
19738021 CGAAAAAATG
*
19738031 ATTCGAGTATTCAAAAAATTGTCTTGT
1 ATTCGAGTATTCAAAAAATTATCTTGT
19738058 ATTCGAGTATTCAAAAAATTATCTTGT
1 ATTCGAGTATTCAAAAAATTATCTTGT
19738085 A
1 A
19738086 CTTCTAAAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.40
Consensus pattern (27 bp):
ATTCGAGTATTCAAAAAATTATCTTGT
Found at i:19743622 original size:43 final size:44
Alignment explanation
Indices: 19743564--19743678 Score: 144
Period size: 43 Copynumber: 2.7 Consensus size: 44
19743554 GTTACCGAGA
* * *
19743564 TGTGGTTACATGTAAGACCATGTCTGGGACATTGGCATTG-TAT
1 TGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTTAT
*
19743607 TGTGATTACGTGTAAGACCATGTCTAGGACATTGGCATCGTTAT
1 TGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTTAT
* * * *
19743651 T-CGATTTCGTGTAAGACCTTGTGTGGGA
1 TGTGATTACGTGTAAGACCATGTCTGGGA
19743679 AAGTTTCGTC
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
43 58 0.94
44 4 0.06
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.35
Consensus pattern (44 bp):
TGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTTAT
Found at i:19743822 original size:33 final size:32
Alignment explanation
Indices: 19743780--19743845 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 32
19743770 GTCAAGTTGA
* *
19743780 GAAAGAATGTATGGATGAGTTAAGTGACTCAG
1 GAAAGAATGTATGAATGAGTTAAATGACTCAG
*
19743812 GAAAGTAATGTGTGAATGAGTTAAATGACTCAG
1 GAAAG-AATGTATGAATGAGTTAAATGACTCAG
19743845 G
1 G
19743846 TACGACGAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 5 0.17
33 25 0.83
ACGTcount: A:0.38, C:0.06, G:0.30, T:0.26
Consensus pattern (32 bp):
GAAAGAATGTATGAATGAGTTAAATGACTCAG
Found at i:19747480 original size:19 final size:19
Alignment explanation
Indices: 19747453--19747493 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
19747443 CACATAAGAC
* *
19747453 AAACGAACAAAGAAAACAA
1 AAACAAACAAACAAAACAA
*
19747472 AAACAAACAAACAATACAA
1 AAACAAACAAACAAAACAA
19747491 AAA
1 AAA
19747494 ATAAAATTGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.76, C:0.17, G:0.05, T:0.02
Consensus pattern (19 bp):
AAACAAACAAACAAAACAA
Found at i:19749931 original size:39 final size:39
Alignment explanation
Indices: 19749878--19749960 Score: 123
Period size: 39 Copynumber: 2.2 Consensus size: 39
19749868 GATCAGCTAC
*
19749878 CAAA-TTCTCACGTCCTTTCTTATCCTTAATCTCGAGAT
1 CAAATTTCTCACGTCCTTTCTTATACTTAATCTCGAGAT
* *
19749916 CAAATTTCTCACGTCCTTTCTTATATTTAATCTTGAGAT
1 CAAATTTCTCACGTCCTTTCTTATACTTAATCTCGAGAT
*
19749955 CGAATT
1 CAAATT
19749961 CTTGCAAAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
38 4 0.10
39 36 0.90
ACGTcount: A:0.25, C:0.24, G:0.08, T:0.42
Consensus pattern (39 bp):
CAAATTTCTCACGTCCTTTCTTATACTTAATCTCGAGAT
Found at i:19751740 original size:30 final size:30
Alignment explanation
Indices: 19751704--19751763 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
19751694 TATAGAAAAC
* *
19751704 ATACATTGGTTCTTACACTTGGGTGGGATT
1 ATACATTGGTCCTTACACTTGGGAGGGATT
19751734 ATACATTGGTCCTTACACTTGGGAGGGATT
1 ATACATTGGTCCTTACACTTGGGAGGGATT
19751764 CTTTTGTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.22, C:0.15, G:0.27, T:0.37
Consensus pattern (30 bp):
ATACATTGGTCCTTACACTTGGGAGGGATT
Found at i:19756730 original size:30 final size:30
Alignment explanation
Indices: 19756670--19756733 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
19756660 ATTTTCGGAC
* *
19756670 TTAGGGGTAAAATGGTCATTTTGTAAAAGT
1 TTAGGGGCAAAATGGTCATTTTGCAAAAGT
**
19756700 TTAGGGGCAAAATGGTCATTTTGCCCAAGT
1 TTAGGGGCAAAATGGTCATTTTGCAAAAGT
19756730 TTAG
1 TTAG
19756734 ATTATTGAGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.30, C:0.09, G:0.27, T:0.34
Consensus pattern (30 bp):
TTAGGGGCAAAATGGTCATTTTGCAAAAGT
Found at i:19757203 original size:46 final size:46
Alignment explanation
Indices: 19757093--19757223 Score: 149
Period size: 46 Copynumber: 2.8 Consensus size: 46
19757083 CGACCACATT
* * * *
19757093 ACGAGAGCCAGTGTAAGACCATGTTTGAGACATGGCATCGGTATTGAG
1 ACGAGAGCCAGTGTAAGA-CATGTCTGAGACAT-GCATCAGCATCGAG
* *
19757141 ACGAGAGCTAGTGTAAGACATGTCTGAGACATGCATCAGCCTCGAG
1 ACGAGAGCCAGTGTAAGACATGTCTGAGACATGCATCAGCATCGAG
*
19757187 -CTGTA-AGCCAGTGTAAGACATGTCTGGGACATGCATC
1 AC-G-AGAGCCAGTGTAAGACATGTCTGAGACATGCATC
19757224 GACTACGAGT
Statistics
Matches: 73, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
45 1 0.01
46 41 0.56
47 14 0.19
48 17 0.23
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (46 bp):
ACGAGAGCCAGTGTAAGACATGTCTGAGACATGCATCAGCATCGAG
Found at i:19767257 original size:21 final size:21
Alignment explanation
Indices: 19767231--19767281 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
19767221 GTGGTCCGAG
19767231 GGACACGCCTGTGTGACCCTA
1 GGACACGCCTGTGTGACCCTA
19767252 GGACACGCCTGTGTGACCCTA
1 GGACACGCCTGTGTGACCCTA
19767273 GGACACGCC
1 GGACACGCC
19767282 CGTGCTACAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.20, C:0.35, G:0.29, T:0.16
Consensus pattern (21 bp):
GGACACGCCTGTGTGACCCTA
Found at i:19773460 original size:57 final size:58
Alignment explanation
Indices: 19773393--19773520 Score: 204
Period size: 57 Copynumber: 2.2 Consensus size: 58
19773383 ATTTCTTCAT
*
19773393 TTGATTTGGATTGAAACGCGACTTTATTCAAAAATAACTTTTGGCTTCTTCT-CACAG
1 TTGATTTGGATTGAAACGCGACTTTATTCAAAAACAACTTTTGGCTTCTTCTCCACAG
* * *
19773450 TTGATTTGGATTGAAAGGCGACTTTGTTCAAAAACAACTTTTGGCTTCTTCTCCACAT
1 TTGATTTGGATTGAAACGCGACTTTATTCAAAAACAACTTTTGGCTTCTTCTCCACAG
*
19773508 TTGAATTGGATTG
1 TTGATTTGGATTG
19773521 GAAGGTGACT
Statistics
Matches: 65, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
57 49 0.75
58 16 0.25
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (58 bp):
TTGATTTGGATTGAAACGCGACTTTATTCAAAAACAACTTTTGGCTTCTTCTCCACAG
Found at i:19787737 original size:23 final size:25
Alignment explanation
Indices: 19787702--19787762 Score: 72
Period size: 24 Copynumber: 2.5 Consensus size: 25
19787692 TAATTCATTT
* *
19787702 AATTTAATTAAAT-AAATTATTAAA
1 AATTTAATAAAATAAAAATATTAAA
19787726 AATTT-ATAAAATAAAAATATTAAA
1 AATTTAATAAAATAAAAATATTAAA
* *
19787750 AAATAAATAAAAT
1 AATTTAATAAAAT
19787763 TAATTCAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
23 6 0.19
24 18 0.58
25 7 0.23
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (25 bp):
AATTTAATAAAATAAAAATATTAAA
Found at i:19787742 original size:16 final size:16
Alignment explanation
Indices: 19787722--19787756 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
19787712 AATAAATTAT
*
19787722 TAAAAAT-TTATAAAA
1 TAAAAATATTAAAAAA
19787737 TAAAAATATTAAAAAA
1 TAAAAATATTAAAAAA
19787753 TAAA
1 TAAA
19787757 TAAAATTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
TAAAAATATTAAAAAA
Found at i:19788017 original size:13 final size:13
Alignment explanation
Indices: 19787999--19788038 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
19787989 ATTTCCTAAT
19787999 TTTTAAAATATCA
1 TTTTAAAATATCA
19788012 TTTT-AAATAT--
1 TTTTAAAATATCA
*
19788022 TTTTAAACTATCA
1 TTTTAAAATATCA
19788035 TTTT
1 TTTT
19788039 CACGATTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
10 4 0.17
11 5 0.22
12 6 0.26
13 8 0.35
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (13 bp):
TTTTAAAATATCA
Found at i:19788046 original size:23 final size:23
Alignment explanation
Indices: 19787997--19788047 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
19787987 AGATTTCCTA
*
19787997 ATTTTTAAAATATCATTTTAAAT
1 ATTTTTAAAATATCATTTTAAAG
* * *
19788020 ATTTTTAAACTATCATTTTCACG
1 ATTTTTAAAATATCATTTTAAAG
19788043 ATTTT
1 ATTTT
19788048 ATGGTAAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.35, C:0.10, G:0.02, T:0.53
Consensus pattern (23 bp):
ATTTTTAAAATATCATTTTAAAG
Found at i:19792236 original size:29 final size:28
Alignment explanation
Indices: 19792184--19792244 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 28
19792174 TATAATATAA
19792184 TTTATAATTTAATTAAAAAATTAAAATATT
1 TTTATAATTTAATTAAAAAATT--AATATT
* *
19792214 TTTATAA-TTAATTATAAATTTAATATT
1 TTTATAATTTAATTAAAAAATTAATATT
19792241 TTTA
1 TTTA
19792245 ATTAGAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 10 0.34
29 12 0.41
30 7 0.24
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (28 bp):
TTTATAATTTAATTAAAAAATTAATATT
Found at i:19792780 original size:14 final size:14
Alignment explanation
Indices: 19792753--19792804 Score: 63
Period size: 14 Copynumber: 3.8 Consensus size: 14
19792743 GCTACCAAAA
*
19792753 AATTAAATATAATT
1 AATTACATATAATT
*
19792767 AATTACATAAAATT
1 AATTACATATAATT
19792781 AATTTA-A-ATAATT
1 AA-TTACATATAATT
19792794 AATTACATATA
1 AATTACATATA
19792805 GTAAAATTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
12 3 0.09
13 8 0.25
14 18 0.56
15 3 0.09
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (14 bp):
AATTACATATAATT
Found at i:19795084 original size:21 final size:21
Alignment explanation
Indices: 19795041--19795087 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
19795031 ATTATACACT
*
19795041 ATAA-AACATTTGAAATATCA
1 ATAATAACATTTGAAATATAA
* *
19795061 ATAATAACATTTGAGATTTAA
1 ATAATAACATTTGAAATATAA
19795082 ATAATA
1 ATAATA
19795088 TCAATTTTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 4 0.17
21 19 0.83
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.34
Consensus pattern (21 bp):
ATAATAACATTTGAAATATAA
Found at i:19796599 original size:18 final size:17
Alignment explanation
Indices: 19796576--19796609 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
19796566 GAATAGATTT
19796576 TTAATTAAATAAATTTAA
1 TTAATTAAA-AAATTTAA
19796594 TTAATTAAAAAATTTA
1 TTAATTAAAAAATTTA
19796610 TTTTTTAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TTAATTAAAAAATTTAA
Done.