Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 124 of 228
Found at i:36597330 original size:84 final size:84
Alignment explanation
Indices: 36597236--36597517 Score: 322
Period size: 84 Copynumber: 3.2 Consensus size: 84
36597226 AATAAATTTA
36597236 ATATTAAAACAATATTTATAATTATTTTGAAAACTTTTAAATTTTATAGGTTATATTAAAACCAT
1 ATATTAAAACAATATTTATAATTATTTTGAAAACTTTTAAATTTTATAGGTTATATTAAAACCAT
36597301 ATTTATAATACTAATATAG
66 ATTTATAATACTAATATAG
* * *
36597320 ATATTAAAACAATATTTATAA-AATTTT-ATAAA-TTTAATAGTAATAAATTTAATA-CTAATA-
1 ATATTAAAACAATATTTATAATTATTTTGA-AAACTTT--TA--AAT---TTT-ATAGGTTATAT
* * *
36597380 TAGAAACCTTATAAATTTAGAAAACTTATATAG
57 TA-AAACC--AT--ATTTATAATACTAATATAG
* * *
36597413 ATATTAAAACAATATTTGTAATTATTTAGAAAACTTTTAAATTTTATAGGTTATATTAAAACAAT
1 ATATTAAAACAATATTTATAATTATTTTGAAAACTTTTAAATTTTATAGGTTATATTAAAACCAT
36597478 ATTTATAATACTAATATAG
66 ATTTATAATACTAATATAG
36597497 ATATTAAAACAATATTTATAA
1 ATATTAAAACAATATTTATAA
36597518 AATTTTATAA
Statistics
Matches: 163, Mismatches: 16, Indels: 38
0.75 0.07 0.18
Matches are distributed among these distances:
82 4 0.02
83 8 0.05
84 59 0.36
86 5 0.03
87 3 0.02
88 13 0.08
89 14 0.09
90 3 0.02
91 5 0.03
93 38 0.23
94 7 0.04
95 4 0.02
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.41
Consensus pattern (84 bp):
ATATTAAAACAATATTTATAATTATTTTGAAAACTTTTAAATTTTATAGGTTATATTAAAACCAT
ATTTATAATACTAATATAG
Found at i:36597367 original size:15 final size:15
Alignment explanation
Indices: 36597347--36597379 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
36597337 ATAAAATTTT
*
36597347 ATAAATTTAATAGTA
1 ATAAATTTAATACTA
36597362 ATAAATTTAATACTA
1 ATAAATTTAATACTA
36597377 ATA
1 ATA
36597380 TAGAAACCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (15 bp):
ATAAATTTAATACTA
Found at i:36597532 original size:177 final size:177
Alignment explanation
Indices: 36597236--36597622 Score: 747
Period size: 177 Copynumber: 2.2 Consensus size: 177
36597226 AATAAATTTA
* *
36597236 ATATTAAAACAATATTTATAATTATTTTGAAAACTTTTAAATTTTATAGGTTATATTAAAACCAT
1 ATATTAAAACAATATTTATAATTATTTAGAAAACTTTTAAATTTTATAGGTTATATTAAAACAAT
36597301 ATTTATAATACTAATATAGATATTAAAACAATATTTATAAAATTTTATAAATTTAATAGTAATAA
66 ATTTATAATACTAATATAGATATTAAAACAATATTTATAAAATTTTATAAATTTAATAGTAATAA
36597366 ATTTAATACTAATATAGAAACCTTATAAATTTAGAAAACTTATATAG
131 ATTTAATACTAATATAGAAACCTTATAAATTTAGAAAACTTATATAG
*
36597413 ATATTAAAACAATATTTGTAATTATTTAGAAAACTTTTAAATTTTATAGGTTATATTAAAACAAT
1 ATATTAAAACAATATTTATAATTATTTAGAAAACTTTTAAATTTTATAGGTTATATTAAAACAAT
36597478 ATTTATAATACTAATATAGATATTAAAACAATATTTATAAAATTTTATAAATTTAATAGTAATAA
66 ATTTATAATACTAATATAGATATTAAAACAATATTTATAAAATTTTATAAATTTAATAGTAATAA
36597543 ATTTAATACTAATATAGAAACCTTATAAATTTAGAAAACTTATATAG
131 ATTTAATACTAATATAGAAACCTTATAAATTTAGAAAACTTATATAG
36597590 ATATTAAAACAATATTTATAATTATTTAGAAAA
1 ATATTAAAACAATATTTATAATTATTTAGAAAA
36597623 TGTTATCATT
Statistics
Matches: 206, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
177 206 1.00
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.41
Consensus pattern (177 bp):
ATATTAAAACAATATTTATAATTATTTAGAAAACTTTTAAATTTTATAGGTTATATTAAAACAAT
ATTTATAATACTAATATAGATATTAAAACAATATTTATAAAATTTTATAAATTTAATAGTAATAA
ATTTAATACTAATATAGAAACCTTATAAATTTAGAAAACTTATATAG
Found at i:36597544 original size:15 final size:15
Alignment explanation
Indices: 36597524--36597556 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
36597514 ATAAAATTTT
*
36597524 ATAAATTTAATAGTA
1 ATAAATTTAATACTA
36597539 ATAAATTTAATACTA
1 ATAAATTTAATACTA
36597554 ATA
1 ATA
36597557 TAGAAACCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (15 bp):
ATAAATTTAATACTA
Found at i:36599614 original size:24 final size:23
Alignment explanation
Indices: 36599571--36599623 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
36599561 TGGGCAAATA
*
36599571 GGAATTGGGGGGAAATGAAATCGG
1 GGAATTGGGGGGAAACGAAAT-GG
36599595 GGAATT-GGGGGAATACGAAATGG
1 GGAATTGGGGGGAA-ACGAAATGG
*
36599618 GAAATT
1 GGAATT
36599624 AGGGAATGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 14 0.54
24 12 0.46
ACGTcount: A:0.36, C:0.04, G:0.42, T:0.19
Consensus pattern (23 bp):
GGAATTGGGGGGAAACGAAATGG
Found at i:36599619 original size:22 final size:22
Alignment explanation
Indices: 36599566--36599620 Score: 58
Period size: 24 Copynumber: 2.4 Consensus size: 22
36599556 GAAACTGGGC
* *
36599566 AAATAGGAATTGGGGGGAAATG
1 AAATGGGAATTGGGGGGAAACG
36599588 AAATCGGGGAATT-GGGGGAATACG
1 AAAT--GGGAATTGGGGGGAA-ACG
36599612 AAATGGGAA
1 AAATGGGAA
36599621 ATTAGGGAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
22 9 0.32
23 7 0.25
24 12 0.43
ACGTcount: A:0.40, C:0.04, G:0.40, T:0.16
Consensus pattern (22 bp):
AAATGGGAATTGGGGGGAAACG
Found at i:36600192 original size:22 final size:22
Alignment explanation
Indices: 36600158--36600210 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
36600148 ATAGGCCCCT
36600158 AACTTT-AACCCGTAACCTTTA
1 AACTTTAAACCCGTAACCTTTA
36600179 AACTTTAAACCCGTAACCTTTA
1 AACTTTAAACCCGTAACCTTTA
36600201 AACTTTAAAC
1 AACTTTAAAC
36600211 TCTTAAACCC
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 6 0.19
22 25 0.81
ACGTcount: A:0.38, C:0.26, G:0.04, T:0.32
Consensus pattern (22 bp):
AACTTTAAACCCGTAACCTTTA
Found at i:36600216 original size:15 final size:14
Alignment explanation
Indices: 36600171--36600248 Score: 57
Period size: 15 Copynumber: 5.4 Consensus size: 14
36600161 TTTAACCCGT
36600171 AACCTTTAAACTTTA
1 AACC-TTAAACTTTA
* *
36600186 AACCCGTAACCTTTA
1 AA-CCTTAAACTTTA
*
36600201 AACTTTAAACTCTTA
1 AACCTTAAACT-TTA
* **
36600216 AACCCTAAACTACA
1 AACCTTAAACTTTA
* *
36600230 AACCTTACACTCTA
1 AACCTTAAACTTTA
36600244 AACCT
1 AACCT
36600249 GTAACCTTAC
Statistics
Matches: 48, Mismatches: 13, Indels: 5
0.73 0.20 0.08
Matches are distributed among these distances:
14 22 0.46
15 24 0.50
16 2 0.04
ACGTcount: A:0.40, C:0.29, G:0.01, T:0.29
Consensus pattern (14 bp):
AACCTTAAACTTTA
Found at i:36600232 original size:29 final size:30
Alignment explanation
Indices: 36600174--36600252 Score: 83
Period size: 29 Copynumber: 2.7 Consensus size: 30
36600164 AACCCGTAAC
* **
36600174 CTTTAAACT-TTAAACCCGTAACCTTTAAA
1 CTTTAAACTCTTAAACCCGTAAACTACAAA
36600203 CTTTAAACTCTTAAACCC-TAAACTACAAA
1 CTTTAAACTCTTAAACCCGTAAACTACAAA
* * *
36600232 CCTTACACTC-TAAACCTGTAA
1 CTTTAAACTCTTAAACCCGTAA
36600253 CCTTACACTC
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
28 6 0.14
29 28 0.67
30 8 0.19
ACGTcount: A:0.39, C:0.28, G:0.03, T:0.30
Consensus pattern (30 bp):
CTTTAAACTCTTAAACCCGTAAACTACAAA
Found at i:36601285 original size:266 final size:266
Alignment explanation
Indices: 36600805--36601611 Score: 1296
Period size: 266 Copynumber: 3.1 Consensus size: 266
36600795 GTATTTTGCT
* * *
36600805 TTTTTACGGCGTTTTAACGTCAGCGCCACTAATTGAAGTATACATCGAGACCAAAACGGTGCATT
1 TTTTTGCGGCGTTTTAACGTCAGCGCCACTAATTGAAATATACATCGAGACCAAAACGGTGCGTT
* *
36600870 TTGGTTCAGATATTTTGCGGCGTTTTCCTATAAGCGCCACTAAATGTAGCATAGCTTAAGACAAA
66 TTGGTTCAGATATTTTGCGGCGTTTTCCTATAAGCGCCACTAAATGTAACATAGCTTAAGACCAA
* *
36600935 ACACTGCGTTTTGTTAAGATACGTTGCGGCGC-TT-GATCCAAAGCGCCGCTAAAGCTATTCTTT
131 ACACTGCGTTTTGTTAAGATACGTTGCGGCGCTTTGGCT-C-AAGCGCCGCTAATGCTATTCTTT
*
36600998 AACGGCGTTTTCTAGTAAGCGCCACTAATATAAGTATACATCAAAATTAAAACTACGCGCTTTAG
194 AACGGCGTTTTCTAGTAAGCGCCACTAATATAAGTATACATCAAAATTAAAACTACGCGTTTTAG
36601063 TTAAGATA
259 TTAAGATA
*
36601071 TTTTTGCGGCGTTTCAACGTCAGCGCCACTAATTGAAATATACATCGAGACCAAAACGGTGCGTT
1 TTTTTGCGGCGTTTTAACGTCAGCGCCACTAATTGAAATATACATCGAGACCAAAACGGTGCGTT
*
36601136 TTGCTTCAGATATTTTGCGGCGTTTTCCTATACA-CGCCACTAAATGTAACATAGCTTAAGACCA
66 TTGGTTCAGATATTTTGCGGCGTTTTCCTATA-AGCGCCACTAAATGTAACATAGCTTAAGACCA
* * *
36601200 AACACTGTGTTTTGTTAAGATACTTTGCGGCACTTTGGCTCAAGCGCCGCTAATGCTATTCTTTA
130 AACACTGCGTTTTGTTAAGATACGTTGCGGCGCTTTGGCTCAAGCGCCGCTAATGCTATTCTTTA
* *
36601265 ACGGCGTTTTCTAGTAAGCGCCAC-----TAA-TATA-ATCAAAATTAAAACTATGTGTTTTAGT
195 ACGGCGTTTTCTAGTAAGCGCCACTAATATAAGTATACATCAAAATTAAAACTACGCGTTTTAGT
36601323 TAAGATA
260 TAAGATA
36601330 TTTTTGCGGCGTTTTAACGTCAGCGCCACTAATTGAAAGTATACATCGAGACCAAAACGGTGCGT
1 TTTTTGCGGCGTTTTAACGTCAGCGCCACTAATTGAAA-TATACATCGAGACCAAAACGGTGCGT
* * *
36601395 TTTGGTTCAGATTTTTTACGGCATTTTCCTATAAGCGCCACTAAATGTAACATAGCTTAAGACCA
65 TTTGGTTCAGATATTTTGCGGCGTTTTCCTATAAGCGCCACTAAATGTAACATAGCTTAAGACCA
36601460 AACACTGCGTTTTGTTAAGATACGTTGCGGCGCTTTGGCTCAAGCGCCGCTAAAT-CTATTCTTT
130 AACACTGCGTTTTGTTAAGATACGTTGCGGCGCTTTGGCTCAAGCGCCGCT-AATGCTATTCTTT
*
36601524 AACGGTGTTTTCTAGTAAGCGCCACTAATATAAGTATACATCAAAATTAAAACTACGCGTTTTAG
194 AACGGCGTTTTCTAGTAAGCGCCACTAATATAAGTATACATCAAAATTAAAACTACGCGTTTTAG
*
36601589 TAAAGATA
259 TTAAGATA
36601597 -TTTTGCGGCGCTTTT
1 TTTTTGCGGCG-TTTT
36601612 TACGAAACGC
Statistics
Matches: 500, Mismatches: 27, Indels: 27
0.90 0.05 0.05
Matches are distributed among these distances:
259 69 0.14
260 170 0.34
261 6 0.01
265 3 0.01
266 211 0.42
267 39 0.08
268 2 0.00
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (266 bp):
TTTTTGCGGCGTTTTAACGTCAGCGCCACTAATTGAAATATACATCGAGACCAAAACGGTGCGTT
TTGGTTCAGATATTTTGCGGCGTTTTCCTATAAGCGCCACTAAATGTAACATAGCTTAAGACCAA
ACACTGCGTTTTGTTAAGATACGTTGCGGCGCTTTGGCTCAAGCGCCGCTAATGCTATTCTTTAA
CGGCGTTTTCTAGTAAGCGCCACTAATATAAGTATACATCAAAATTAAAACTACGCGTTTTAGTT
AAGATA
Found at i:36602365 original size:40 final size:41
Alignment explanation
Indices: 36602195--36602394 Score: 287
Period size: 41 Copynumber: 4.9 Consensus size: 41
36602185 TGAGTTTTGG
* * *
36602195 GGGCATTTAGCGAG-GTTTTTGAAAAAGCGCCACTAGTGCTC
1 GGGCCTTTAGCG-GCGTTTTTGAAAAAGCGCCGCTAATGCTC
*
36602236 GGGCCTTTAGTGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
** * *
36602277 TAGCCTTTAGCGGCGTTTTTGAAAAAGTGTCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
* *
36602318 TGGCCTTTAGCGGCATTTTTGAAAAAGCGCCG-TAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
36602358 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAAT
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAAT
36602395 AATAATAAAA
Statistics
Matches: 142, Mismatches: 15, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
40 39 0.27
41 103 0.73
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (41 bp):
GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
Found at i:36603381 original size:7 final size:7
Alignment explanation
Indices: 36603326--36603424 Score: 57
Period size: 7 Copynumber: 14.7 Consensus size: 7
36603316 ATTAAATAAT
36603326 GTTTAGG
1 GTTTAGG
*
36603333 GGTTAGG
1 GTTTAGG
36603340 GATTT-GG
1 G-TTTAGG
*
36603347 GGTT-GG
1 GTTTAGG
*
36603353 G-TTAGA
1 GTTTAGG
*
36603359 GTTTAGA
1 GTTTAGG
36603366 GTTTAGG
1 GTTTAGG
36603373 GTTTAGG
1 GTTTAGG
**
36603380 GTTTAAA
1 GTTTAGG
*
36603387 GATTAGG
1 GTTTAGG
36603394 GATTTAGG
1 G-TTTAGG
*
36603402 G-TT-GA
1 GTTTAGG
36603407 G-TTAGG
1 GTTTAGG
36603413 GTTTAGG
1 GTTTAGG
*
36603420 ATTTA
1 GTTTA
36603425 TGATTTAGAT
Statistics
Matches: 72, Mismatches: 14, Indels: 12
0.73 0.14 0.12
Matches are distributed among these distances:
5 6 0.08
6 11 0.15
7 47 0.65
8 8 0.11
ACGTcount: A:0.21, C:0.00, G:0.39, T:0.39
Consensus pattern (7 bp):
GTTTAGG
Found at i:36603383 original size:21 final size:21
Alignment explanation
Indices: 36603354--36603432 Score: 76
Period size: 21 Copynumber: 3.9 Consensus size: 21
36603344 TGGGGTTGGG
*
36603354 TTAGAGTTTAGAGTTTAGGGT
1 TTAGGGTTTAGAGTTTAGGGT
* *
36603375 TTAGGGTTTAAAGATTAGGGAT
1 TTAGGGTTTAGAGTTTAGGG-T
36603397 TTAGGG-TT-GAG-TTAGGGT
1 TTAGGGTTTAGAGTTTAGGGT
*
36603415 TTAGGATTTATGA-TTTAG
1 TTAGGGTTTA-GAGTTTAG
36603433 ATTAATTAGT
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
18 6 0.12
19 8 0.17
20 2 0.04
21 25 0.52
22 7 0.15
ACGTcount: A:0.25, C:0.00, G:0.33, T:0.42
Consensus pattern (21 bp):
TTAGGGTTTAGAGTTTAGGGT
Found at i:36604646 original size:21 final size:21
Alignment explanation
Indices: 36604621--36604666 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
36604611 CCCTCCCCCC
*
36604621 TCCCCCC-GAAATCCCCAACTT
1 TCCCCCCTAAAATCCCCAA-TT
*
36604642 TCCCCCCTAAAATCCCTAATT
1 TCCCCCCTAAAATCCCCAATT
36604663 TCCC
1 TCCC
36604667 ACATCCAAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.24, C:0.50, G:0.02, T:0.24
Consensus pattern (21 bp):
TCCCCCCTAAAATCCCCAATT
Found at i:36604647 original size:22 final size:21
Alignment explanation
Indices: 36604622--36604666 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
36604612 CCTCCCCCCT
*
36604622 CCCCCCGAAATCCCCAACTTTC
1 CCCCCCAAAATCCCCAA-TTTC
* *
36604644 CCCCCTAAAATCCCTAATTTC
1 CCCCCCAAAATCCCCAATTTC
36604665 CC
1 CC
36604667 ACATCCAAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.24, C:0.51, G:0.02, T:0.22
Consensus pattern (21 bp):
CCCCCCAAAATCCCCAATTTC
Found at i:36613867 original size:134 final size:133
Alignment explanation
Indices: 36613638--36614036 Score: 708
Period size: 134 Copynumber: 3.0 Consensus size: 133
36613628 TGAAGATAAT
* *
36613638 AGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATAGAAGATTTTACCTCCCTGACT
1 AGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACT
*
36613703 ACAGTGGAGTACATTGAAGCTGATAATTCTATCTCCCTGTATTTAGCAGTGGAATAGATTGAAGA
66 ACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTT-GCAGTGGAATAGATTGAAGA
36613768 TTGC
130 TTGC
*
36613772 AGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGGTTTTACCTCCCTGACT
1 AGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACT
*
36613837 ACAGTGGAATACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGA
66 ACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTT-GCAGTGGAATAGATTGAAGA
36613902 TTGC
130 TTGC
*
36613906 AGATCTTGCCTTCCTGTATTTGGCAGTGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACT
1 AGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACT
*
36613971 ACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGCATTTGCCAGTGGAATAGATTGAAGA
66 ACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTG-CAGTGGAATAGATTGAAGA
36614036 T
130 T
36614037 CAAAGATGGC
Statistics
Matches: 254, Mismatches: 10, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
133 1 0.00
134 253 1.00
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (133 bp):
AGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACT
ACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGCAGTGGAATAGATTGAAGAT
TGC
Found at i:36614008 original size:42 final size:42
Alignment explanation
Indices: 36613961--36614104 Score: 126
Period size: 42 Copynumber: 3.2 Consensus size: 42
36613951 CAGATTTTAC
36613961 CTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTAT
1 CTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTAT
* * * * * * *
36614003 CTCCCTGCATTTGCCAGTGGAATAGATTGAAGATCAAAGATGGCAGATTTTAC
1 CTCCCTG-A-CT-ACAGTGGAGTACATTGAAG--C--CGAT---A-ATTCTAT
36614056 CTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTAT
1 CTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTAT
36614098 CTCCCTG
1 CTCCCTG
36614105 TATTTGGCAG
Statistics
Matches: 77, Mismatches: 14, Indels: 22
0.68 0.12 0.19
Matches are distributed among these distances:
42 19 0.25
43 2 0.03
44 1 0.01
45 16 0.21
46 3 0.04
47 1 0.01
48 1 0.01
49 3 0.04
50 16 0.21
51 1 0.01
52 2 0.03
53 12 0.16
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (42 bp):
CTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTAT
Found at i:36614047 original size:95 final size:95
Alignment explanation
Indices: 36613938--36614131 Score: 370
Period size: 95 Copynumber: 2.0 Consensus size: 95
36613928 GCAGTGAAGC
36613938 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTAT
36614003 CTCCCTGCATTTGCCAGTGGAATAGATTGA
66 CTCCCTGCATTTGCCAGTGGAATAGATTGA
36614033 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTAT
* *
36614098 CTCCCTGTATTTGGCAGTGGAATAGATTGA
66 CTCCCTGCATTTGCCAGTGGAATAGATTGA
36614128 AGAT
1 AGAT
36614132 TGCAGATCTT
Statistics
Matches: 97, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
95 97 1.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.29
Consensus pattern (95 bp):
AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTAT
CTCCCTGCATTTGCCAGTGGAATAGATTGA
Found at i:36614067 original size:229 final size:229
Alignment explanation
Indices: 36613804--36614265 Score: 861
Period size: 229 Copynumber: 2.0 Consensus size: 229
36613794 GCAGCGAAGC
*
36613804 AGATCAAAGATGGCAGGTTTTACCTCCCTGACTACAGTGGAATACATTGAAGCCGATAATTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAATACATTGAAGCCGATAATTCTAT
*
36613869 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGTG
66 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCG
*
36613934 AAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATT
131 AAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACT
36613999 CTATCTCCCTGCATTTGCCAGTGGAATAGATTGA
196 CTATCTCCCTGCATTTGCCAGTGGAATAGATTGA
*
36614033 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAATACATTGAAGCCGATAATTCTAT
36614098 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCG
66 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCG
*
36614163 AAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACTATAGTGGAGTACATTGAAGCCGATAACT
131 AAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACT
* *
36614228 CTATCTCCCTGTATTTGGCAGTGGAATAGATTGA
196 CTATCTCCCTGCATTTGCCAGTGGAATAGATTGA
36614262 AGAT
1 AGAT
36614266 TGCAGATCTT
Statistics
Matches: 226, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
229 226 1.00
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.30
Consensus pattern (229 bp):
AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAATACATTGAAGCCGATAATTCTAT
CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCG
AAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACT
CTATCTCCCTGCATTTGCCAGTGGAATAGATTGA
Found at i:36614184 original size:134 final size:134
Alignment explanation
Indices: 36614033--36614945 Score: 1736
Period size: 134 Copynumber: 6.8 Consensus size: 134
36614023 AATAGATTGA
36614033 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTAT
36614098 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCG
66 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCG
36614163 AAGC
131 AAGC
* *
36614167 AGATCAAAGATGGCAGATTTTACCTCCCTGACTATAGTGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTAT
36614232 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCG
66 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCG
36614297 AAGC
131 AAGC
* *
36614301 AGATCGAAGATGGCAAATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTAT
*
36614366 CTCCCTGTATTTGGCAGTAGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCG
66 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCG
36614431 AAGC
131 AAGC
36614435 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTAT
36614500 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCG
66 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCG
36614565 AAGC
131 AAGC
*
36614569 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTTCATTGAAGCCGATAATTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTAT
36614634 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCG
66 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCG
36614699 AAGC
131 AAGC
36614703 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTAT
*
36614768 CTCCCTGTATTTGGTAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCG
66 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCG
36614833 AAGC
131 AAGC
* *
36614837 AGATCAAATATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTAT
*
36614902 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTACAGATCTT
66 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTT
36614946 ATCTCCCTAA
Statistics
Matches: 762, Mismatches: 17, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
134 762 1.00
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (134 bp):
AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTAT
CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCG
AAGC
Found at i:36614335 original size:363 final size:363
Alignment explanation
Indices: 36613670--36614399 Score: 1334
Period size: 363 Copynumber: 2.0 Consensus size: 363
36613660 GCAGCGAAGC
*
36613670 AGATCAAAGATAGAAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCTGATAATTCTAT
1 AGATCAAAGATAGAAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTAT
36613735 CTCCCTGTATTTAGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCG
66 CTCCCTGTATTTAGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCG
* *
36613800 AAGCAGATCAAAGATGGCAGGTTTTACCTCCCTGACTACAGTGGAATACATTGAAGCCGATAATT
131 AAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAATACATTGAAGCCGATAACT
36613865 CTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGC
196 CTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGC
* *
36613930 AGTGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGAT
261 AGCGAAGCAGATCAAAGATGGCAAATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGAT
*
36613995 AATTCTATCTCCCTGCATTTGCCAGTGGAATAGATTGA
326 AATTCTATCTCCCTGCATTTGCCAGTAGAATAGATTGA
* *
36614033 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTAT
1 AGATCAAAGATAGAAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTAT
*
36614098 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCG
66 CTCCCTGTATTTAGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCG
* *
36614163 AAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACTATAGTGGAGTACATTGAAGCCGATAACT
131 AAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAATACATTGAAGCCGATAACT
36614228 CTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGC
196 CTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGC
*
36614293 AGCGAAGCAGATCGAAGATGGCAAATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGAT
261 AGCGAAGCAGATCAAAGATGGCAAATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGAT
* *
36614358 AATTCTATCTCCCTGTATTTGGCAGTAGAATAGATTGA
326 AATTCTATCTCCCTGCATTTGCCAGTAGAATAGATTGA
36614396 AGAT
1 AGAT
36614400 TGCAGATCTT
Statistics
Matches: 353, Mismatches: 14, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
363 353 1.00
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (363 bp):
AGATCAAAGATAGAAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTAT
CTCCCTGTATTTAGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCG
AAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAATACATTGAAGCCGATAACT
CTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGC
AGCGAAGCAGATCAAAGATGGCAAATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGAT
AATTCTATCTCCCTGCATTTGCCAGTAGAATAGATTGA
Found at i:36617943 original size:132 final size:132
Alignment explanation
Indices: 36617599--36617949 Score: 347
Period size: 132 Copynumber: 2.7 Consensus size: 132
36617589 TAGATGTTTG
* * * *
36617599 GCAATTCGGGAAATCGTACCCTATCGTGCTGGGTTGCAATTTCCTATTTGTTCGAAACAATCGAA
1 GCAATTCGGGGAATCGTACCCTATCGTGCTGGGTTGCAATTTCCTATTTGCTCAAAATAATCGAA
** * ****
36617664 TAT-TC-CTTCGGTGTTCCACTCATGTCTTTTAAAAAATTTTATTAAAACGAAAGAAATGTTCGA
66 TATCTCTC-T-GGAATTTCACTCATGTCTTTTAAAAAAAAAAATTAAAACG--AGAAATGTTCGA
36617727 TATTTA
127 TATTTA
** * * * * *
36617733 GCAATTCATGGAATCGTGCCCTAACGTGTTGGG-TGCAATTT-CTCGTTTGCTCAAAATAATCAA
1 GCAATTCGGGGAATCGTACCCTATCGTGCTGGGTTGCAATTTCCT-ATTTGCTCAAAATAATCGA
* * * * *
36617796 ATGTCTCTTTAGAATTTCATTCATGT-TTTCTAAAAAAAAAAACTTATAAA-G-GAAATGTTCGG
65 ATATCTCTCTGGAATTTCACTCATGTCTTT-TAAAAAAAAAAA-TTA-AAACGAGAAATGTTCGA
36617858 TATTTA
127 TATTTA
* * *
36617864 GCAGTTCGGGGAATAGTACCCTATCGTGCTGGGTTACAATTTCCTATTTGCTCAAAATAATCGAA
1 GCAATTCGGGGAATCGTACCCTATCGTGCTGGGTTGCAATTTCCTATTTGCTCAAAATAATCGAA
36617929 TATCTCTCTGGAATTTCACTC
66 TATCTCTCTGGAATTTCACTC
36617950 GTATCTTCCA
Statistics
Matches: 172, Mismatches: 37, Indels: 18
0.76 0.16 0.08
Matches are distributed among these distances:
131 42 0.24
132 47 0.27
133 46 0.27
134 34 0.20
135 3 0.02
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (132 bp):
GCAATTCGGGGAATCGTACCCTATCGTGCTGGGTTGCAATTTCCTATTTGCTCAAAATAATCGAA
TATCTCTCTGGAATTTCACTCATGTCTTTTAAAAAAAAAAATTAAAACGAGAAATGTTCGATATT
TA
Found at i:36620598 original size:43 final size:43
Alignment explanation
Indices: 36620504--36620647 Score: 157
Period size: 43 Copynumber: 3.3 Consensus size: 43
36620494 AAGGACAAAC
* * * *
36620504 CTTTAGTGGCGTTTGTGATAACAGCGCCGCT-AAAGCTTCATGAT
1 CTTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAAG--TCATGGT
* *
36620548 CTTTAGCGGCATTTGTGAAAAAAGCGTCGCTAAAAGTCATGGT
1 CTTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAAGTCATGGT
* * *
36620591 CTTTAGCGGCGTTT-TCGGAAAAAGCACCGCTAAAGGTCATGGT
1 CTTTAGCGGCGTTTGT-GAAAAAAGCGCCGCTAAAAGTCATGGT
*
36620634 CTATAGCGGCGTTT
1 CTTTAGCGGCGTTT
36620648 TTGGGAAAAA
Statistics
Matches: 86, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
42 1 0.01
43 55 0.64
44 26 0.30
45 4 0.05
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.29
Consensus pattern (43 bp):
CTTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAAGTCATGGT
Found at i:36620656 original size:44 final size:43
Alignment explanation
Indices: 36620463--36620657 Score: 153
Period size: 43 Copynumber: 4.5 Consensus size: 43
36620453 AGGTTATATT
* * * ***
36620463 TTTAGCGGCGTTTTTGTG-AGAAGCGCCGCTAAAGGACA-AACC
1 TTTAGCGGCGTTTTTG-GAAAAAGCACCGCTAAAGGTCATGGTC
* * * * * *
36620505 TTTAGTGGCGTTTGT-GATAACAGCGCCGCTAAAGCTTCATGATC
1 TTTAGCGGCGTTTTTGGA-AAAAGCACCGCTAAAG-GTCATGGTC
* * * ** *
36620549 TTTAGCGGCATTTGTGAAAAAAGCGTCGCTAAAAGTCATGGTC
1 TTTAGCGGCGTTTTTGGAAAAAGCACCGCTAAAGGTCATGGTC
*
36620592 TTTAGCGGCGTTTTCGGAAAAAGCACCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTTTGGAAAAAGCACCGCTAAAGGTCATGGTC
*
36620635 TATAGCGGCGTTTTTGGGAAAAA
1 TTTAGCGGCGTTTTT-GGAAAAA
36620658 ACGCCACTAA
Statistics
Matches: 122, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
40 1 0.01
42 27 0.22
43 58 0.48
44 35 0.29
45 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (43 bp):
TTTAGCGGCGTTTTTGGAAAAAGCACCGCTAAAGGTCATGGTC
Found at i:36625013 original size:11 final size:10
Alignment explanation
Indices: 36624987--36625050 Score: 53
Period size: 10 Copynumber: 6.5 Consensus size: 10
36624977 ATATAAAAAT
36624987 TAAAAATTTA
1 TAAAAATTTA
*
36624997 TTAAAATTTA
1 TAAAAATTTA
**
36625007 TAAAAAAATA
1 TAAAAATTTA
*
36625017 CAAAAATATTA
1 TAAAAAT-TTA
36625028 T-AAAATTT-
1 TAAAAATTTA
36625036 TCAAAAA-TTA
1 T-AAAAATTTA
36625046 TAAAA
1 TAAAA
36625051 TTACTTCAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 9
0.71 0.14 0.15
Matches are distributed among these distances:
8 1 0.02
9 8 0.19
10 31 0.74
11 2 0.05
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (10 bp):
TAAAAATTTA
Found at i:36625074 original size:21 final size:20
Alignment explanation
Indices: 36625019--36625061 Score: 63
Period size: 18 Copynumber: 2.2 Consensus size: 20
36625009 AAAAAATACA
36625019 AAAATATTATAAAATT--TTC
1 AAAA-ATTATAAAATTACTTC
36625038 AAAAATTATAAAATTACTTC
1 AAAAATTATAAAATTACTTC
36625058 AAAA
1 AAAA
36625062 GTATATAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 11 0.50
19 4 0.18
20 7 0.32
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.35
Consensus pattern (20 bp):
AAAAATTATAAAATTACTTC
Found at i:36628401 original size:36 final size:36
Alignment explanation
Indices: 36628356--36628435 Score: 106
Period size: 36 Copynumber: 2.2 Consensus size: 36
36628346 CGATCTTAAA
* *
36628356 TCAACGAGCCTTAGTAAAATCAGTTGTGAATGTAGG
1 TCAACGAGCCTTAATAAAATCAGCTGTGAATGTAGG
* * *
36628392 TCAATGAGCCTTAATAACATTAGCTGTGAATGTAGG
1 TCAACGAGCCTTAATAAAATCAGCTGTGAATGTAGG
*
36628428 TCAGCGAG
1 TCAACGAG
36628436 TTGTTAGGAG
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.28
Consensus pattern (36 bp):
TCAACGAGCCTTAATAAAATCAGCTGTGAATGTAGG
Found at i:36628545 original size:104 final size:104
Alignment explanation
Indices: 36628271--36628617 Score: 308
Period size: 104 Copynumber: 3.3 Consensus size: 104
36628261 CAAGCTGTCT
* * * * * * * * *
36628271 GAAGGCTGCGATCTTAAATCAGCGAACCTTAGTAAAATTATCTATGAATGTAAGTTAGCGAGCTG
1 GAAGGTTGCGATCTTAAATCAGCGAGCCTTAATAATATTAGCTGTGAACGTACGTCAGCGAGCTG
* * * * *
36628336 TTAGGAGTTGCGATCTTAAATCAACGAGCCTTAGTAA-AATC
66 TTAGGAGTTGCGATATTAAATCAGCTA-ACTCA--AATAATC
* * ** ** * * * *
36628377 --A-GTTGTGAAT-GTAGGTCAATGAGCCTTAATAACATTAGCTGTGAATGTAGGTCAGCGAGTT
1 GAAGGTTGCG-ATCTTAAATCAGCGAGCCTTAATAATATTAGCTGTGAACGTACGTCAGCGAGCT
* *
36628438 GTTAGGAGTTGCGATCTTAGATCAGCTAACTCAAATAATC
65 GTTAGGAGTTGCGATATTAAATCAGCTAACTCAAATAATC
* * * * * *
36628478 GGAGGTTGCGATCTTAAATTAGCGAGCCTTAGTAATATTCGTTGTGAACGTACGTCAGTGAGCTG
1 GAAGGTTGCGATCTTAAATCAGCGAGCCTTAATAATATTAGCTGTGAACGTACGTCAGCGAGCTG
* *
36628543 TTAGGAGTTGGGGTATTAAATCAGCTAACTCAAATAATC
66 TTAGGAGTTGCGATATTAAATCAGCTAACTCAAATAATC
*
36628582 GAAGGTTGCTATCTTAAATCAGCGAGCCTTAATAAT
1 GAAGGTTGCGATCTTAAATCAGCGAGCCTTAATAAT
36628618 GGAAACTAAC
Statistics
Matches: 192, Mismatches: 43, Indels: 14
0.77 0.17 0.06
Matches are distributed among these distances:
100 2 0.01
101 4 0.02
102 3 0.02
103 70 0.36
104 113 0.59
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (104 bp):
GAAGGTTGCGATCTTAAATCAGCGAGCCTTAATAATATTAGCTGTGAACGTACGTCAGCGAGCTG
TTAGGAGTTGCGATATTAAATCAGCTAACTCAAATAATC
Found at i:36639570 original size:16 final size:17
Alignment explanation
Indices: 36639549--36639582 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
36639539 AAATATTATG
36639549 AAATAAA-AACAAACAA
1 AAATAAATAACAAACAA
*
36639565 AAATAAATATCAAACAA
1 AAATAAATAACAAACAA
36639582 A
1 A
36639583 CGCTATCCCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.76, C:0.12, G:0.00, T:0.12
Consensus pattern (17 bp):
AAATAAATAACAAACAA
Found at i:36643867 original size:9 final size:9
Alignment explanation
Indices: 36643853--36643999 Score: 59
Period size: 9 Copynumber: 15.1 Consensus size: 9
36643843 TTTTGGTACC
36643853 ATAATTTTT
1 ATAATTTTT
36643862 ATAATTTTTTT
1 ATAA--TTTTT
36643873 ATGAA-TTTT
1 AT-AATTTTT
*
36643882 ATATTTCTTT
1 ATAATT-TTT
*
36643892 ATATTTTTT
1 ATAATTTTT
36643901 ATAATTTTCT
1 ATAATTTT-T
*
36643911 -TACGA-TTAT
1 ATA--ATTTTT
*
36643920 ATAAAATTTT
1 AT-AATTTTT
36643930 ATAATTTATTT
1 ATAA-TT-TTT
* *
36643941 CTATATTTCT
1 ATA-ATTTTT
36643951 AT-ATATTTT
1 ATAAT-TTTT
36643960 ATAATTTTT
1 ATAATTTTT
*
36643969 TTACGATTTTT
1 ATA--ATTTTT
36643980 ATAATTTTTT
1 ATAA-TTTTT
*
36643990 CTAATTTTT
1 ATAATTTTT
36643999 A
1 A
36644000 ATAAACTTTA
Statistics
Matches: 106, Mismatches: 13, Indels: 38
0.68 0.08 0.24
Matches are distributed among these distances:
8 3 0.03
9 44 0.42
10 32 0.30
11 24 0.23
12 3 0.03
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (9 bp):
ATAATTTTT
Found at i:36643883 original size:20 final size:19
Alignment explanation
Indices: 36643853--36644001 Score: 72
Period size: 20 Copynumber: 7.7 Consensus size: 19
36643843 TTTTGGTACC
36643853 ATAATTTTTATAATTTTTTT
1 ATAA-TTTTATAATTTTTTT
*
36643873 ATGAATTTTAT-ATTTCTTT
1 AT-AATTTTATAATTTTTTT
* *
36643892 ATATTTTTTATAATTTTCTT
1 ATA-ATTTTATAATTTTTTT
** * **
36643912 ACGATTATATAA-AATTTT
1 ATAATTTTATAATTTTTTT
* * * *
36643930 ATAATTTATTTCTATATTTCT
1 ATAATTT-TAT-AATTTTTTT
36643951 ATATATTTTATAATTTTTTT
1 ATA-ATTTTATAATTTTTTT
* *
36643971 ACGATTTTTATAA-TTTTTT
1 A-TAATTTTATAATTTTTTT
*
36643990 CTAATTTT-TAAT
1 ATAATTTTATAAT
36644002 AAACTTTAAA
Statistics
Matches: 93, Mismatches: 27, Indels: 20
0.66 0.19 0.14
Matches are distributed among these distances:
17 3 0.03
18 13 0.14
19 30 0.32
20 31 0.33
21 12 0.13
22 4 0.04
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (19 bp):
ATAATTTTATAATTTTTTT
Found at i:36643995 original size:30 final size:29
Alignment explanation
Indices: 36643889--36643998 Score: 98
Period size: 30 Copynumber: 3.7 Consensus size: 29
36643879 TTTATATTTC
* *
36643889 TTTATATTTTTTATAATTTTCTTACGA-T
1 TTTATATATTTTATAATTTTTTTACGATT
* * *
36643917 TATATAAAATTTTATAATTTATTTCTA-TATT
1 TTTAT-ATATTTTATAATTT-TTT-TACGATT
*
36643948 TCTATATATTTTATAATTTTTTTACGATT
1 TTTATATATTTTATAATTTTTTTACGATT
* *
36643977 TTTATAATTTTTTCTAATTTTT
1 TTTAT-ATATTTTATAATTTTT
36643999 AATAAACTTT
Statistics
Matches: 65, Mismatches: 11, Indels: 10
0.76 0.13 0.12
Matches are distributed among these distances:
28 6 0.09
29 22 0.34
30 30 0.46
31 7 0.11
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.64
Consensus pattern (29 bp):
TTTATATATTTTATAATTTTTTTACGATT
Found at i:36644016 original size:20 final size:20
Alignment explanation
Indices: 36643991--36644040 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
36643981 TAATTTTTTC
*
36643991 TAATTTTTAATAAACTTTAA
1 TAATTTTTAATAAAATTTAA
*
36644011 -ATATTTTTATTAAAATTTAA
1 TA-ATTTTTAATAAAATTTAA
36644031 TAATTTTTAA
1 TAATTTTTAA
36644041 AACTTTCATT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
19 1 0.04
20 23 0.92
21 1 0.04
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (20 bp):
TAATTTTTAATAAAATTTAA
Found at i:36644788 original size:27 final size:27
Alignment explanation
Indices: 36644737--36644788 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
36644727 CTCATCTTAG
** *
36644737 TTTAATTAATAAGTGTTTTTGTTAAAC
1 TTTAATTAATAAGTGTTGCTCTTAAAC
*
36644764 TTTATTTAATAAGTGTTGCTCTTAA
1 TTTAATTAATAAGTGTTGCTCTTAA
36644789 TTAATCTAGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.31, C:0.06, G:0.12, T:0.52
Consensus pattern (27 bp):
TTTAATTAATAAGTGTTGCTCTTAAAC
Found at i:36648899 original size:52 final size:50
Alignment explanation
Indices: 36648784--36648901 Score: 148
Period size: 50 Copynumber: 2.3 Consensus size: 50
36648774 TAATAAAGTT
*
36648784 ATGCATTATGTAACTTCCATGCTAGTTAAGTATGCATCATAAATAATGAC
1 ATGCATTATGTAACTCCCATGCTAGTTAAGTATGCATCATAAATAATGAC
* * *
36648834 ATGCATTATGTAACTCCCATGTTAGTTTAAGTCTGCATCATTAAATTAA-GTC
1 ATGCATTATGTAACTCCCATGCTAG-TTAAGTATGCATCA-TAAA-TAATGAC
* *
36648886 TTGCATTAAGTAACTC
1 ATGCATTATGTAACTC
36648902 TTTTGTTCAT
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
50 23 0.39
51 13 0.22
52 20 0.34
53 3 0.05
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (50 bp):
ATGCATTATGTAACTCCCATGCTAGTTAAGTATGCATCATAAATAATGAC
Found at i:36651171 original size:13 final size:13
Alignment explanation
Indices: 36651153--36651192 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
36651143 TCTGATACTC
36651153 TGTTTTCAAGATA
1 TGTTTTCAAGATA
*
36651166 TGTTTTCAAGTTA
1 TGTTTTCAAGATA
36651179 TGTTTT-AA-ATA
1 TGTTTTCAAGATA
36651190 TGT
1 TGT
36651193 GTTTTACGCG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 5 0.20
12 2 0.08
13 18 0.72
ACGTcount: A:0.28, C:0.05, G:0.15, T:0.53
Consensus pattern (13 bp):
TGTTTTCAAGATA
Found at i:36660728 original size:27 final size:27
Alignment explanation
Indices: 36660672--36660729 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
36660662 CCCCAAAGTA
*
36660672 ACCCCATGATTATTGTCCCAATGAATT
1 ACCCCATGATTATTGTCCCAATGAACT
* * * *
36660699 ACCCCATGTTTATTTTCCTAATGGACT
1 ACCCCATGATTATTGTCCCAATGAACT
36660726 ACCC
1 ACCC
36660730 TGTGTTTACT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.26, C:0.29, G:0.10, T:0.34
Consensus pattern (27 bp):
ACCCCATGATTATTGTCCCAATGAACT
Found at i:36670914 original size:24 final size:26
Alignment explanation
Indices: 36670861--36670914 Score: 62
Period size: 24 Copynumber: 2.2 Consensus size: 26
36670851 TGCGTTATTG
*
36670861 TAATTAATATAATTTATTTATTATAA
1 TAATTAATATAATTTATTAATTATAA
36670887 -AATT-ATATAATTT-TATAATTA-AA
1 TAATTAATATAATTTAT-TAATTATAA
36670910 TAATT
1 TAATT
36670915 TTTACACATT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
23 3 0.12
24 18 0.72
25 4 0.16
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (26 bp):
TAATTAATATAATTTATTAATTATAA
Found at i:36674286 original size:22 final size:20
Alignment explanation
Indices: 36674258--36674302 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 20
36674248 GATTTGATGG
36674258 TGAAGAATTACCCAAATGAAGA
1 TGAAGAATTA-CCAAATG-AGA
*
36674280 TGAAGAATTATCAAATGAGA
1 TGAAGAATTACCAAATGAGA
36674300 TGA
1 TGA
36674303 GTTTTGATGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 6 0.27
21 6 0.27
22 10 0.45
ACGTcount: A:0.49, C:0.09, G:0.20, T:0.22
Consensus pattern (20 bp):
TGAAGAATTACCAAATGAGA
Found at i:36674608 original size:19 final size:18
Alignment explanation
Indices: 36674579--36674615 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
36674569 TGAATCAGGA
36674579 TTTTTAAAATTTTTTAAT
1 TTTTTAAAATTTTTTAAT
36674597 TTTTTAATAATTTTTTAAT
1 TTTTTAA-AATTTTTTAAT
36674616 CCGACTGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTTTAAAATTTTTTAAT
Found at i:36675788 original size:19 final size:20
Alignment explanation
Indices: 36675761--36675803 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
36675751 AAAATAATTA
36675761 AAATAATTT-TCAAAAATTCT
1 AAATAATTTAT-AAAAATTCT
36675781 AAAT-ATTTATAAAAATTCT
1 AAATAATTTATAAAAATTCT
36675800 AAAT
1 AAAT
36675804 TTTCATATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (20 bp):
AAATAATTTATAAAAATTCT
Found at i:36679127 original size:14 final size:14
Alignment explanation
Indices: 36679108--36679138 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
36679098 GCTCGTCGAA
36679108 GATCAGTAGTTTTT
1 GATCAGTAGTTTTT
36679122 GATCAGTAGTTTTT
1 GATCAGTAGTTTTT
36679136 GAT
1 GAT
36679139 GTTTTGACCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.23, C:0.06, G:0.23, T:0.48
Consensus pattern (14 bp):
GATCAGTAGTTTTT
Found at i:36686407 original size:11 final size:11
Alignment explanation
Indices: 36686391--36686421 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
36686381 GTGCTGGTCT
36686391 TGCAAATGACA
1 TGCAAATGACA
36686402 TGCAAATGACA
1 TGCAAATGACA
36686413 TGCAAATGA
1 TGCAAATGA
36686422 TGGATGTTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.45, C:0.16, G:0.19, T:0.19
Consensus pattern (11 bp):
TGCAAATGACA
Found at i:36686945 original size:17 final size:16
Alignment explanation
Indices: 36686923--36686954 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
36686913 TTATAGATTA
36686923 TTGGAAGCTCGATCAGT
1 TTGGAAGCTC-ATCAGT
36686940 TTGGAAGCTCATCAG
1 TTGGAAGCTCATCAG
36686955 AGACCTATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (16 bp):
TTGGAAGCTCATCAGT
Found at i:36690541 original size:38 final size:37
Alignment explanation
Indices: 36690468--36690546 Score: 106
Period size: 38 Copynumber: 2.1 Consensus size: 37
36690458 TATTACGAAA
* *
36690468 TCTTACCCGGACATAATCTCCACACGAAGTTATCGGG
1 TCTTACCCGGACAAAATCTCCACACGAAGTCATCGGG
*
36690505 TCTTACCCGGACAAAAAT-TCCCACACGTAGTCATCGGG
1 TCTTACCCGGAC-AAAATCT-CCACACGAAGTCATCGGG
36690543 TCTT
1 TCTT
36690547 TAGAGCTCAG
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
37 13 0.35
38 24 0.65
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (37 bp):
TCTTACCCGGACAAAATCTCCACACGAAGTCATCGGG
Found at i:36690744 original size:47 final size:47
Alignment explanation
Indices: 36690665--36691092 Score: 665
Period size: 47 Copynumber: 9.2 Consensus size: 47
36690655 CCCTTCGGGA
* * * * * * *
36690665 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*** *
36690712 CCCGTCACATATATACACTTTCACATTTATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36690759 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36690808 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36690855 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36690902 C-TATCACATATATACACTTTCACATTCATCAC-TCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36690947 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36690994 CTTATTCAC--ATAT--A--TTCACATTCATCACATCGGCCATTAGGC
1 CTTA-TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36691036 CTTATTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTA-TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36691084 CTTATCACA
1 CTTATCACA
36691093 ATTTAGAATT
Statistics
Matches: 355, Mismatches: 15, Indels: 22
0.91 0.04 0.06
Matches are distributed among these distances:
42 37 0.10
44 5 0.01
45 14 0.04
46 67 0.19
47 150 0.42
48 36 0.10
49 46 0.13
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:36690827 original size:96 final size:94
Alignment explanation
Indices: 36690665--36691092 Score: 665
Period size: 96 Copynumber: 4.6 Consensus size: 94
36690655 CCCTTCGGGA
* * * * * * * ***
36690665 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCCCCGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
36690730 TTTCACATTTATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
36690759 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
36690824 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
36690855 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC-TATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
36690919 TTTCACATTCATCAC-TCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
36690947 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATTCAC--ATAT--A
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA-TCACATATATACA
36691008 --TTCACATTCATCACATCGGCCATTAGGC
65 CTTTCACATTCATCACATCGGCCATTAGGC
36691036 CTTATTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
1 CTTA-TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
36691093 ATTTAGAATT
Statistics
Matches: 316, Mismatches: 11, Indels: 18
0.92 0.03 0.05
Matches are distributed among these distances:
88 14 0.04
89 21 0.07
90 48 0.15
92 65 0.21
93 33 0.10
94 52 0.16
96 83 0.26
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:36709995 original size:95 final size:93
Alignment explanation
Indices: 36709829--36710018 Score: 265
Period size: 95 Copynumber: 2.0 Consensus size: 93
36709819 TCTTCTCTTA
* * * *
36709829 TTGGATATTTAATTGGACATTGGAAACCTTTATGATCTTTTGAACTACACCAATAACATTGCATG
1 TTGGATATTTAATTGGACATCGGAAACCCTCATGATCTTTTGAACTACACCAATAACATTGCATC
* * *
36709894 AAAGGTGATAGCTCAATCTTATCTCACTCT
66 AAAGGTGAAAGATCAATCGTA-CTC-CTCT
* *
36709924 TTGGATATTTAATTGGACATCGGAAACCCTCATGATCTTTTGAACTACACCGATAACATTTCA-C
1 TTGGATATTTAATTGGACATCGGAAACCCTCATGATCTTTTGAACTACACCAATAACATTGCATC
36709988 AACAGGTGAAAGATCAATCGTACTCCTCT
66 AA-AGGTGAAAGATCAATCGTACTCCTCT
36710017 TT
1 TT
36710019 TCGTTTGACC
Statistics
Matches: 85, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
93 6 0.07
94 5 0.06
95 74 0.87
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.34
Consensus pattern (93 bp):
TTGGATATTTAATTGGACATCGGAAACCCTCATGATCTTTTGAACTACACCAATAACATTGCATC
AAAGGTGAAAGATCAATCGTACTCCTCT
Found at i:36715485 original size:190 final size:190
Alignment explanation
Indices: 36715162--36715533 Score: 568
Period size: 190 Copynumber: 2.0 Consensus size: 190
36715152 TTGTAGATGA
*
36715162 ATATGAATGGTAAGTTAATTTTCAATATACGAACTTACTAAGCATTAAATGCTTACTCAATTTTT
1 ATATGAATGGTAAGTTAATTTTCAATATACGAACTCACTAAGCATTAAATGCTTACTCAATTTTT
* * *
36715227 CTTTCCTTTATTTTATAATACTCGGAAGCTCGTAAAGGTTAGAAGCGGGTTGGAGCAAGATCACA
66 CTTTCCTCTATTTTATAATACTCGGAAGCTCGTAAAGGTTAGAAGCGGCTCGGAGCAAGATCACA
* *
36715292 CTATCCT-TCAGCTCACCTTGGTATAATTAGTAAAATTACTTTTGGTATAATGCTTACTCG
131 CTATCCTAT-AGCTCACCTTGGTATAATTAGTAAAATAACTTTTGATATAATGCTTACTCG
** * * **
36715352 ATATGAATGGTAAGTTAA-TTTCTGTTATACGAACTCACTAAGCATTAAATGTTTGCTCGTTTTT
1 ATATGAATGGTAAGTTAATTTTC-AATATACGAACTCACTAAGCATTAAATGCTTACTCAATTTT
* * * *
36715416 TCTTTCCTCTGTTTTATAGTACTCGGAAGCTTGTAAAGGTTGGAAGCGGCTCGGAGCAAGATCAC
65 TCTTTCCTCTATTTTATAATACTCGGAAGCTCGTAAAGGTTAGAAGCGGCTCGGAGCAAGATCAC
36715481 ACTATCCTATAGCTCACCTTGGTATAATTAGTAAAATAACTTTTGATATAATG
130 ACTATCCTATAGCTCACCTTGGTATAATTAGTAAAATAACTTTTGATATAATG
36715534 GCAAGTATAG
Statistics
Matches: 164, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
189 4 0.02
190 159 0.97
191 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.37
Consensus pattern (190 bp):
ATATGAATGGTAAGTTAATTTTCAATATACGAACTCACTAAGCATTAAATGCTTACTCAATTTTT
CTTTCCTCTATTTTATAATACTCGGAAGCTCGTAAAGGTTAGAAGCGGCTCGGAGCAAGATCACA
CTATCCTATAGCTCACCTTGGTATAATTAGTAAAATAACTTTTGATATAATGCTTACTCG
Found at i:36723843 original size:27 final size:27
Alignment explanation
Indices: 36723812--36723989 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
36723802 TAAATTGTAC
36723812 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * ** *
36723839 TGCACTAAGTGTGCTAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
36723865 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
36723893 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
36723921 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
36723948 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
36723975 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
36723990 GACTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:36723953 original size:82 final size:81
Alignment explanation
Indices: 36723813--36723968 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
36723803 AAATTGTACA
* * *
36723813 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCTAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
36723878 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
** *
36723894 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACTAAGT
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAGT
*
36723958 GTGCGAGTTGA
64 GTGCGAATTGA
36723969 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:36723980 original size:82 final size:81
Alignment explanation
Indices: 36723809--36723989 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
36723799 GATTAAATTG
* * *
36723809 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCTAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
36723874 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
36723890 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
36723954 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
36723972 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
36723990 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:36733858 original size:11 final size:11
Alignment explanation
Indices: 36733842--36733873 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
36733832 TTATATTCAA
36733842 ATAATAATAAC
1 ATAATAATAAC
36733853 ATAATAATAAC
1 ATAATAATAAC
36733864 ATAATAATAA
1 ATAATAATAA
36733874 AAGCTAGCAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (11 bp):
ATAATAATAAC
Found at i:36734175 original size:22 final size:22
Alignment explanation
Indices: 36734149--36734192 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
36734139 AATTATACTT
36734149 GAGTCTTAAAACTATTCACATC
1 GAGTCTTAAAACTATTCACATC
36734171 GAGTCTTAAAACTATTCACATC
1 GAGTCTTAAAACTATTCACATC
36734193 TTTACAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.23, G:0.09, T:0.32
Consensus pattern (22 bp):
GAGTCTTAAAACTATTCACATC
Found at i:36739699 original size:18 final size:19
Alignment explanation
Indices: 36739676--36739714 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
36739666 GAAATAAAAC
*
36739676 ATGTATAATAAA-ATTAAA
1 ATGTATAAAAAATATTAAA
36739694 ATGTATAAAAAATATTAAA
1 ATGTATAAAAAATATTAAA
36739713 AT
1 AT
36739715 AAAATTTTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (19 bp):
ATGTATAAAAAATATTAAA
Found at i:36752488 original size:15 final size:15
Alignment explanation
Indices: 36752470--36752500 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
36752460 TTAGTTCTAG
36752470 TTTGAGTTAAATTCT
1 TTTGAGTTAAATTCT
36752485 TTTGAGTTAAATTCT
1 TTTGAGTTAAATTCT
36752500 T
1 T
36752501 CATTAAACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.06, G:0.13, T:0.55
Consensus pattern (15 bp):
TTTGAGTTAAATTCT
Found at i:36754338 original size:56 final size:56
Alignment explanation
Indices: 36754276--36754425 Score: 169
Period size: 55 Copynumber: 2.7 Consensus size: 56
36754266 GAGATTGGCG
* * * *
36754276 CTAAGTGTGCGGGTTTAAATTGTGCAGCACTAAGTGTGCGA-ATTGACTATGTAGCA
1 CTAAGTGTGCGAGCTT-AATTATGCAGCACTAAGTGTGCGAGATTGACTATATAGCA
* * * *
36754332 CTAAGTGTGCGAGCTTGATTATGTAGCACTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGCTTAATTATGCAGCACTAAGTGTGCGAGATTGACTATATAGCA
* ** *
36754388 CTAAGTGTGCGAG-TTGATTATATAGCACTGAGTGTGCG
1 CTAAGTGTGCGAGCTTAATTATGCAGCACTAAGTGTGCG
36754426 GACTTATTAT
Statistics
Matches: 83, Mismatches: 10, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
55 44 0.53
56 39 0.47
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.32
Consensus pattern (56 bp):
CTAAGTGTGCGAGCTTAATTATGCAGCACTAAGTGTGCGAGATTGACTATATAGCA
Found at i:36754358 original size:28 final size:27
Alignment explanation
Indices: 36754301--36754438 Score: 188
Period size: 28 Copynumber: 5.0 Consensus size: 27
36754291 TAAATTGTGC
* * *
36754301 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGATTATAT
*
36754328 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGATTATAT
36754356 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAG-TTGATTATAT
36754384 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGATTATAT
* *
36754411 AGCACTGAGTGTGCGGACTT-ATTATAT
1 AGCACTAAGTGTGC-GAGTTGATTATAT
36754438 A
1 A
36754439 TTTTTGAAAC
Statistics
Matches: 103, Mismatches: 6, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
27 47 0.46
28 56 0.54
ACGTcount: A:0.28, C:0.13, G:0.26, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGATTATAT
Found at i:36754366 original size:55 final size:55
Alignment explanation
Indices: 36754301--36754425 Score: 189
Period size: 55 Copynumber: 2.3 Consensus size: 55
36754291 TAAATTGTGC
* *
36754301 AGCACTAAGTGTGCGA-ATTGACTATGTAGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGATTGACTATATAGCACTAAGTGTGCGAG-TTGATTATAT
* *
36754356 AGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGATTGACTATATAGCACTAAGTGTGCGAGTTGATTATAT
*
36754411 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
36754426 GACTTATTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
55 39 0.61
56 25 0.39
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGATTGACTATATAGCACTAAGTGTGCGAGTTGATTATAT
Found at i:36765512 original size:37 final size:37
Alignment explanation
Indices: 36765471--36765546 Score: 116
Period size: 37 Copynumber: 2.1 Consensus size: 37
36765461 TATTACGAAA
* * *
36765471 TCTTACCCGGACATAATCTCCACACGAAGTTATCGGG
1 TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
*
36765508 TCTTACCCGGACAAAATCCCCACACGTAGTCATCGGG
1 TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
36765545 TC
1 TC
36765547 CTTAGAACTC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.26, C:0.33, G:0.18, T:0.22
Consensus pattern (37 bp):
TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
Found at i:36765828 original size:93 final size:94
Alignment explanation
Indices: 36765668--36766175 Score: 742
Period size: 93 Copynumber: 5.5 Consensus size: 94
36765658 CCCTTCGGGA
** * * * * ** * * *
36765668 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACACATATACAC
36765733 TTTCACATTCATCACATCGGCCATTAAGC
66 TTTCACATTCATCACATCGGCCATTAAGC
* *
36765762 CTTATCACGCATATACAC-TTCACATTCATCACATCGGCCATTAAGCCTTATCACGCATATACAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACACATATACAC
36765826 TTTCACATTCATCACATCGGCCATTAAGC
66 TTTCACATTCATCACATCGGCCATTAAGC
* *
36765855 CTTATCACATATTATACACTTTCACATTCATCACATCGGCTA-T-AGCCTTATCACACATATACA
1 CTTATCACACA-TATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACACATATACA
*
36765918 CTTTCACATTCATCACATCGGCCATTAGGC
65 CTTTCACATTCATCACATCGGCCATTAAGC
* *
36765948 CTTATCACACATATACAC-TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACACATATACAC
*
36766012 TTTCACATTCATCACATCGGCCATT-AGG
66 TTTCACATTCATCACATCGGCCATTAAGC
* *
36766040 CTTATCACACATATACACGTTCACATTCATCACATC-GCCATT-AGCCTTATCACAGATATACAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACACATATACAC
* *
36766103 ATTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAAGC
*
36766132 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTA
36766176 GGCTTTCACA
Statistics
Matches: 375, Mismatches: 31, Indels: 16
0.89 0.07 0.04
Matches are distributed among these distances:
91 64 0.17
92 68 0.18
93 200 0.53
94 22 0.06
95 21 0.06
ACGTcount: A:0.30, C:0.31, G:0.08, T:0.31
Consensus pattern (94 bp):
CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACACATATACAC
TTTCACATTCATCACATCGGCCATTAAGC
Found at i:36766073 original size:117 final size:116
Alignment explanation
Indices: 36765948--36766263 Score: 284
Period size: 138 Copynumber: 2.5 Consensus size: 116
36765938 GCCATTAGGC
36765948 CTTATCACACATATACAC-TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
* *
36766012 TTTCACATTCATCACATCGGCCATTAGGCTTATCACACATA-TACACGT-T-CA
66 TTTCACATTCATCACATCGGCCATTAGGCTT-TCACA-AAACT-CACATATCCA
**
36766063 CATTCATCACATCGCCAT-TAGC-CTTATCACAGATATACACATTCACATTCATCACATCGGCCA
1 C-TT-ATCACA----CATATA-CACTT-TCAC--AT-T---CA-TCACA-TCGGC-CAT------
36766126 TTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCTTTCACAAAACT
43 -TAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCTTTCACAAAACT
36766191 CACATAATCCA
107 CACAT-ATCCA
* *
36766202 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATA
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
36766264 TACACTTCCA
Statistics
Matches: 162, Mismatches: 8, Indels: 60
0.70 0.03 0.26
Matches are distributed among these distances:
115 1 0.01
116 2 0.01
117 25 0.15
120 3 0.02
121 5 0.03
122 4 0.02
124 5 0.03
125 4 0.02
126 5 0.03
127 2 0.01
128 2 0.01
129 5 0.03
130 4 0.02
131 5 0.03
133 8 0.05
134 5 0.03
136 6 0.04
137 11 0.07
138 57 0.35
139 3 0.02
ACGTcount: A:0.32, C:0.30, G:0.08, T:0.30
Consensus pattern (116 bp):
CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCTTTCACAAAACTCACATATCCA
Found at i:36766176 original size:47 final size:47
Alignment explanation
Indices: 36765668--36766185 Score: 766
Period size: 47 Copynumber: 11.2 Consensus size: 47
36765658 CCCTTCGGGA
** * * * * *
36765668 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
36765715 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
36765762 CTTATCACGCATATACAC-TTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
36765808 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
36765855 CTTATCACATATTATACACTTTCACATTCATCACATCGGCTA-TA-GC
1 CTTATCACACA-TATACACTTTCACATTCATCACATCGGCCATTAGGC
36765901 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
36765948 CTTATCACACATATACAC-TTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
36765994 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG-
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
36766040 CTTATCACACATATACACGTTCACATTCATCACATC-GCCATTA-GC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
36766085 CTTATCACAGATATACACATTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
36766132 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG-
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
36766178 CTT-TCACA
1 CTTATCACA
36766186 AAACTCACAT
Statistics
Matches: 438, Mismatches: 25, Indels: 18
0.91 0.05 0.04
Matches are distributed among these distances:
44 1 0.00
45 75 0.17
46 149 0.34
47 184 0.42
48 29 0.07
ACGTcount: A:0.30, C:0.31, G:0.08, T:0.31
Consensus pattern (47 bp):
CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:36769632 original size:40 final size:40
Alignment explanation
Indices: 36769588--36769691 Score: 118
Period size: 40 Copynumber: 2.6 Consensus size: 40
36769578 CTAGCATGAT
* *
36769588 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGAACCTAGCCCGGATACAACACCAGCACGAA
* * ** *
36769628 TGCTCTTCGGAACTTAGTCCGGATACCTCACTAGCACGAA
1 TGCTCTTCGGAACCTAGCCCGGATACAACACCAGCACGAA
* **
36769668 TGCTCTTCGAAATTTAGCCCGGAT
1 TGCTCTTCGGAACCTAGCCCGGAT
36769692 TTAGTAACTC
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 54 1.00
ACGTcount: A:0.25, C:0.30, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGAACCTAGCCCGGATACAACACCAGCACGAA
Found at i:36769725 original size:40 final size:39
Alignment explanation
Indices: 36769681--36769854 Score: 206
Period size: 40 Copynumber: 4.4 Consensus size: 39
36769671 TCTTCGAAAT
*
36769681 TTAGCCCGGATTTAGTAACTCGCACTAA-TGCCTTCGGGTC
1 TTAGCCCGGATATA-TAACTCGCAC-AATTGCCTTCGGGTC
* *
36769721 TTAGCCCGGATATATCAACTTGCACAATTGCCTTTGGGTC
1 TTAGCCCGGATATAT-AACTCGCACAATTGCCTTCGGGTC
* *
36769761 TTAGCCCGGATATATCAATTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAT-AACTCGCACAATTGCCTTCGGGTC
* * * *
36769801 TTAGCCCGGATATAATCACTAGCTCAATTGCCTTCAGGTC
1 TTAGCCCGGATAT-ATAACTCGCACAATTGCCTTCGGGTC
*
36769841 TTAACCCGGATATA
1 TTAGCCCGGATATA
36769855 GCAACTCGTT
Statistics
Matches: 117, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
39 4 0.03
40 111 0.95
41 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (39 bp):
TTAGCCCGGATATATAACTCGCACAATTGCCTTCGGGTC
Found at i:36769765 original size:80 final size:80
Alignment explanation
Indices: 36769681--36769862 Score: 251
Period size: 80 Copynumber: 2.3 Consensus size: 80
36769671 TCTTCGAAAT
* * *
36769681 TTAGCCCGGATTTAGTAACTCGCACTAATGCCTTCGGGTCTTAGCCCGGATAT-ATCAACTTGCA
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAATC-ACTAGCA
**
36769745 CAATTGCCTTTGGGTC
65 CAATTGCCTTCAGGTC
* *
36769761 TTAGCCCGGATATA-TCAATTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCT
1 TTAGCCCGGATATAGT-AACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCA
36769825 CAATTGCCTTCAGGTC
65 CAATTGCCTTCAGGTC
* *
36769841 TTAACCCGGATATAGCAACTCG
1 TTAGCCCGGATATAGTAACTCG
36769863 TTCAAATACT
Statistics
Matches: 89, Mismatches: 10, Indels: 6
0.85 0.10 0.06
Matches are distributed among these distances:
79 1 0.01
80 85 0.96
81 3 0.03
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (80 bp):
TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCAC
AATTGCCTTCAGGTC
Found at i:36770246 original size:29 final size:29
Alignment explanation
Indices: 36770207--36770285 Score: 97
Period size: 29 Copynumber: 2.7 Consensus size: 29
36770197 CTTAATAATC
*
36770207 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
* *
36770237 AACTCGCACACTTAGGGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
36770266 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
36770286 ATCTCACAAC
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
28 3 0.07
29 36 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.16, T:0.23
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:36770328 original size:43 final size:43
Alignment explanation
Indices: 36770267--36770414 Score: 287
Period size: 43 Copynumber: 3.4 Consensus size: 43
36770257 TGCATTTCAA
36770267 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
36770310 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
36770353 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
*
36770396 GCTCGCACACTTAGTGCCA
1 GCCCGCACACTTAGTGCCA
36770415 TGTACTTTAA
Statistics
Matches: 104, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
43 104 1.00
ACGTcount: A:0.27, C:0.35, G:0.15, T:0.23
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:36770431 original size:29 final size:29
Alignment explanation
Indices: 36770397--36770472 Score: 109
Period size: 29 Copynumber: 2.6 Consensus size: 29
36770387 ACACTTATTG
*
36770397 CTCGCACACTTAGTGCCATGTACTTT-AAA
1 CTCGCACACTTAGTGCCATGCA-TTTCAAA
*
36770426 CTCGCACACTTAGTGCCATGCATTTCAAG
1 CTCGCACACTTAGTGCCATGCATTTCAAA
*
36770455 CCCGCACACTTAGTGCCA
1 CTCGCACACTTAGTGCCA
36770473 ATCTCACAAC
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
28 3 0.07
29 40 0.93
ACGTcount: A:0.25, C:0.33, G:0.16, T:0.26
Consensus pattern (29 bp):
CTCGCACACTTAGTGCCATGCATTTCAAA
Found at i:36770515 original size:43 final size:43
Alignment explanation
Indices: 36770454--36770556 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
36770444 TGCATTTCAA
36770454 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
36770497 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
36770540 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
36770557 TGAAAACCAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.26, C:0.36, G:0.16, T:0.22
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:36770527 original size:187 final size:187
Alignment explanation
Indices: 36770212--36770556 Score: 681
Period size: 187 Copynumber: 1.8 Consensus size: 187
36770202 TAATCAACCA
36770212 CGCACACTTAGTGCCATGTACTTTAAACTCGCACACTTAGGGCCATGCATTTCAAGCCCGCACAC
1 CGCACACTTAGTGCCATGTACTTTAAACTCGCACACTTAGGGCCATGCATTTCAAGCCCGCACAC
36770277 TTAGTGCCAATCTCACAACCGTGAACACTTATTGCCCGCACACTTAGTGCCAATCTCACAACCGT
66 TTAGTGCCAATCTCACAACCGTGAACACTTATTGCCCGCACACTTAGTGCCAATCTCACAACCGT
36770342 GAACACTTATTGCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCT
131 GAACACTTATTGCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCT
*
36770399 CGCACACTTAGTGCCATGTACTTTAAACTCGCACACTTAGTGCCATGCATTTCAAGCCCGCACAC
1 CGCACACTTAGTGCCATGTACTTTAAACTCGCACACTTAGGGCCATGCATTTCAAGCCCGCACAC
36770464 TTAGTGCCAATCTCACAACCGTGAACACTTATTGCCCGCACACTTAGTGCCAATCTCACAACCGT
66 TTAGTGCCAATCTCACAACCGTGAACACTTATTGCCCGCACACTTAGTGCCAATCTCACAACCGT
36770529 GAACACTTATTGCCCGCACACTTAGTGC
131 GAACACTTATTGCCCGCACACTTAGTGC
36770557 TGAAAACCAA
Statistics
Matches: 157, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
187 157 1.00
ACGTcount: A:0.27, C:0.33, G:0.15, T:0.25
Consensus pattern (187 bp):
CGCACACTTAGTGCCATGTACTTTAAACTCGCACACTTAGGGCCATGCATTTCAAGCCCGCACAC
TTAGTGCCAATCTCACAACCGTGAACACTTATTGCCCGCACACTTAGTGCCAATCTCACAACCGT
GAACACTTATTGCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCT
Found at i:36772472 original size:37 final size:37
Alignment explanation
Indices: 36772412--36772487 Score: 116
Period size: 37 Copynumber: 2.1 Consensus size: 37
36772402 TATTACGAAA
* * *
36772412 TCTTACCCGGACATAATCTCCACACGAAGTTATCGGG
1 TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
*
36772449 TCTTACCCGGACAAAATCCCCACACGTAGTCATCGGG
1 TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
36772486 TC
1 TC
36772488 CTTAGAACTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.26, C:0.33, G:0.18, T:0.22
Consensus pattern (37 bp):
TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
Found at i:36772686 original size:47 final size:47
Alignment explanation
Indices: 36772608--36773107 Score: 739
Period size: 47 Copynumber: 10.6 Consensus size: 47
36772598 CCCTTCGGGA
** * * * * *
36772608 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
36772655 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
36772702 CTTATCACGCATATACACTTTCACATTCATCACATCAGCCATTAAGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
36772749 CTTATCACGCATATACACTTTCACATTCATCACATCAGCCATTAAGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
36772796 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ACATATACACTTTCACATTCATCACATCGGCCATTAGGC
36772845 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
36772892 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
36772939 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATAAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
36772986 CTTATCACAGATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
36773033 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
36773080 CTTATCACATATATATACACTTTCACAT
1 CTTATCAC--ACATATACACTTTCACAT
36773108 ATGGGTTTAA
Statistics
Matches: 419, Mismatches: 30, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
47 361 0.86
49 58 0.14
ACGTcount: A:0.30, C:0.31, G:0.08, T:0.31
Consensus pattern (47 bp):
CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:36781898 original size:20 final size:20
Alignment explanation
Indices: 36781875--36781921 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
36781865 GGGTTAAGAT
*
36781875 TGAGCTGAATTGAGCTTGAA
1 TGAGCTGAATTGAGCTCGAA
* * *
36781895 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAA
36781915 TGAGCTG
1 TGAGCTG
36781922 GAAACAAGCT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.23, C:0.13, G:0.34, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAA
Found at i:36782658 original size:5 final size:5
Alignment explanation
Indices: 36782648--36782709 Score: 56
Period size: 5 Copynumber: 12.0 Consensus size: 5
36782638 CTCTTGCCTC
* *
36782648 TCTTT TCTTT T-TATT TCATTT TCTTT T-TCT TCTCTT GCTTTT TCTTT
1 TCTTT TCTTT TCT-TT TC-TTT TCTTT TCTTT TCT-TT TC-TTT TCTTT
36782695 TCTTT TCTTT TCTTT
1 TCTTT TCTTT TCTTT
36782710 GTTTTCTCTT
Statistics
Matches: 47, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
4 4 0.09
5 32 0.68
6 9 0.19
7 2 0.04
ACGTcount: A:0.03, C:0.19, G:0.02, T:0.76
Consensus pattern (5 bp):
TCTTT
Found at i:36782705 original size:15 final size:14
Alignment explanation
Indices: 36782648--36782716 Score: 57
Period size: 16 Copynumber: 4.6 Consensus size: 14
36782638 CTCTTGCCTC
36782648 TCTTTTCTTTTTATT
1 TCTTTTCTTTTT-TT
*
36782663 TCATTTTCTTTTTCT
1 TC-TTTTCTTTTTTT
*
36782678 TCTCTTGCTTTTTCTTT
1 TCT-TTTC-TTTT-TTT
*
36782695 TCTTTTCTTTTCTT
1 TCTTTTCTTTTTTT
*
36782709 TGTTTTCT
1 TCTTTTCT
36782717 CTTTACAAGA
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
14 10 0.23
15 12 0.27
16 17 0.39
17 5 0.11
ACGTcount: A:0.03, C:0.19, G:0.03, T:0.75
Consensus pattern (14 bp):
TCTTTTCTTTTTTT
Found at i:36782706 original size:36 final size:37
Alignment explanation
Indices: 36782650--36782719 Score: 101
Period size: 36 Copynumber: 1.9 Consensus size: 37
36782640 CTTGCCTCTC
36782650 TTTTCTTTTTATTTCATTTTCTTT-TTCTTCTCTTGCT
1 TTTTCTTTTTATTTCATTTTCTTTGTT-TTCTCTTGCT
36782687 TTTTCTTTTCT-TTTC-TTTTCTTTGTTTTCTCTT
1 TTTTCTTTT-TATTTCATTTTCTTTGTTTTCTCTT
36782720 TACAAGAATG
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
36 15 0.48
37 15 0.48
38 1 0.03
ACGTcount: A:0.03, C:0.19, G:0.03, T:0.76
Consensus pattern (37 bp):
TTTTCTTTTTATTTCATTTTCTTTGTTTTCTCTTGCT
Found at i:36783674 original size:12 final size:12
Alignment explanation
Indices: 36783654--36783679 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
36783644 TTTTTTTCGA
36783654 TTTTTTTTGAAT
1 TTTTTTTTGAAT
36783666 TTTTTTTTGAAT
1 TTTTTTTTGAAT
36783678 TT
1 TT
36783680 CTTCTCTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.00, G:0.08, T:0.77
Consensus pattern (12 bp):
TTTTTTTTGAAT
Found at i:36785210 original size:20 final size:20
Alignment explanation
Indices: 36785187--36785233 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
36785177 GGGTTAAGAT
*
36785187 TGAGCTGAATTGAGCTTGAA
1 TGAGCTGAATTGAGCTCGAA
* * *
36785207 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAA
36785227 TGAGCTG
1 TGAGCTG
36785234 GAAACAAGCT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.23, C:0.13, G:0.34, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAA
Found at i:36787449 original size:20 final size:20
Alignment explanation
Indices: 36787426--36787472 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
36787416 GGGTTAAGAT
*
36787426 TGAGCTGAATTGAGCTTGAA
1 TGAGCTGAATTGAGCTCGAA
* * *
36787446 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAA
36787466 TGAGCTG
1 TGAGCTG
36787473 GAAACGAGCT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.23, C:0.13, G:0.34, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAA
Found at i:36787930 original size:36 final size:36
Alignment explanation
Indices: 36787883--36787955 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
36787873 AAAATCTGAT
36787883 ACCAAATGATAAAGGATCACGAGCGGACCAAGATCG
1 ACCAAATGATAAAGGATCACGAGCGGACCAAGATCG
36787919 ACCAAATGATAAAGGATCACGAGCGGACCAAGATCG
1 ACCAAATGATAAAGGATCACGAGCGGACCAAGATCG
36787955 A
1 A
36787956 GTTGTGAAGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.42, C:0.22, G:0.25, T:0.11
Consensus pattern (36 bp):
ACCAAATGATAAAGGATCACGAGCGGACCAAGATCG
Found at i:36795278 original size:39 final size:40
Alignment explanation
Indices: 36795074--36795296 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
36795064 TTGAATGCTG
* * * * * *
36795074 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
36795114 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
36795154 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
36795194 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
36795234 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
36795273 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
36795297 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 35 0.22
40 118 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:36795316 original size:79 final size:80
Alignment explanation
Indices: 36795149--36795331 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
36795139 GTGCGAGATA
* * *
36795149 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
36795214 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
36795229 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
36795293 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
36795308 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
36795332 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:36808921 original size:14 final size:14
Alignment explanation
Indices: 36808877--36808930 Score: 56
Period size: 14 Copynumber: 3.8 Consensus size: 14
36808867 ACTCTCCTCA
*
36808877 TTCTTTTCTTTCTTT
1 TTCTTTT-TCTCTTT
*
36808892 TTC-TTTTCACTCTT
1 TTCTTTTTCTCT-TT
*
36808906 TTGTTTTTCTCTTT
1 TTCTTTTTCTCTTT
36808920 TTCTTTTTCTC
1 TTCTTTTTCTC
36808931 GCTCAATAGA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
13 3 0.09
14 19 0.59
15 10 0.31
ACGTcount: A:0.02, C:0.22, G:0.02, T:0.74
Consensus pattern (14 bp):
TTCTTTTTCTCTTT
Found at i:36811027 original size:11 final size:11
Alignment explanation
Indices: 36811011--36811051 Score: 57
Period size: 12 Copynumber: 3.7 Consensus size: 11
36811001 ATACAAACTT
36811011 TTTTTTTTGAA
1 TTTTTTTTGAA
*
36811022 TTTTTTTTCAAA
1 TTTTTTTT-GAA
36811034 TTTTTTTTG-A
1 TTTTTTTTGAA
36811044 TTTTTTTT
1 TTTTTTTT
36811052 ACAATCTCGT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
10 9 0.33
11 8 0.30
12 10 0.37
ACGTcount: A:0.15, C:0.02, G:0.05, T:0.78
Consensus pattern (11 bp):
TTTTTTTTGAA
Found at i:36811027 original size:12 final size:12
Alignment explanation
Indices: 36811010--36811051 Score: 52
Period size: 11 Copynumber: 3.7 Consensus size: 12
36811000 AATACAAACT
36811010 TTTTTTTTTGAA
1 TTTTTTTTTGAA
*
36811022 -TTTTTTTTCAA
1 TTTTTTTTTGAA
*
36811033 ATTTTTTTTG-A
1 TTTTTTTTTGAA
36811044 TTTTTTTT
1 TTTTTTTT
36811052 ACAATCTCGT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
11 18 0.69
12 8 0.31
ACGTcount: A:0.14, C:0.02, G:0.05, T:0.79
Consensus pattern (12 bp):
TTTTTTTTTGAA
Found at i:36818124 original size:15 final size:15
Alignment explanation
Indices: 36818104--36818158 Score: 60
Period size: 15 Copynumber: 3.8 Consensus size: 15
36818094 CACCTCCTCA
*
36818104 TTCTTTTCTTTCTTT
1 TTCTTTTCTCTCTTT
*
36818119 TTCTTTTCACTCTTT
1 TTCTTTTCTCTCTTT
* *
36818134 TTGTTTT-TCTATTT
1 TTCTTTTCTCTCTTT
36818148 TTCTTTT-TCTC
1 TTCTTTTCTCTC
36818159 GATCAATAGC
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
14 14 0.42
15 19 0.58
ACGTcount: A:0.04, C:0.20, G:0.02, T:0.75
Consensus pattern (15 bp):
TTCTTTTCTCTCTTT
Found at i:36820215 original size:17 final size:17
Alignment explanation
Indices: 36820181--36820215 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
36820171 AATCACTTCT
*
36820181 TTTTTTTTAATTCCGAA
1 TTTTTTTTAATACCGAA
*
36820198 TTTTTTTTAATACTGAA
1 TTTTTTTTAATACCGAA
36820215 T
1 T
36820216 ACACAAAGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.26, C:0.09, G:0.06, T:0.60
Consensus pattern (17 bp):
TTTTTTTTAATACCGAA
Found at i:36823126 original size:10 final size:10
Alignment explanation
Indices: 36823110--36823167 Score: 64
Period size: 10 Copynumber: 5.7 Consensus size: 10
36823100 CAACTCCGAC
36823110 CAGCTCAATT
1 CAGCTCAATT
* *
36823120 GAGCTCATTT
1 CAGCTCAATT
36823130 CAGCTCAA-T
1 CAGCTCAATT
36823139 CGAGCTCAATT
1 C-AGCTCAATT
*
36823150 TAGCTACAATT
1 CAGCT-CAATT
36823161 CAGCTCA
1 CAGCTCA
36823168 TTATTTTATT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 2 0.05
10 27 0.69
11 10 0.26
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.29
Consensus pattern (10 bp):
CAGCTCAATT
Found at i:36823133 original size:20 final size:20
Alignment explanation
Indices: 36823110--36823169 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
36823100 CAACTCCGAC
36823110 CAGCTCAATTGAGCTCATTT
1 CAGCTCAATTGAGCTCATTT
*
36823130 CAGCTCAATCGAGCTCAATTT
1 CAGCTCAATTGAGCTC-ATTT
*
36823151 -AGCTACAATTCAGCTCATT
1 CAGCT-CAATTGAGCTCATT
36823170 ATTTTATTGG
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
20 22 0.63
21 13 0.37
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.32
Consensus pattern (20 bp):
CAGCTCAATTGAGCTCATTT
Found at i:36825380 original size:20 final size:20
Alignment explanation
Indices: 36825333--36825380 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
36825323 AGTAAGCTCG
36825333 GTTGAGCTCAAACGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
**** *
36825353 AACAAGCTCAAATGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
36825373 GTTGAGCT
1 GTTGAGCT
36825381 GGACGGTCTC
Statistics
Matches: 19, Mismatches: 9, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.21
Consensus pattern (20 bp):
GTTGAGCTCAAACGAGCTGA
Found at i:36827107 original size:48 final size:48
Alignment explanation
Indices: 36827052--36827157 Score: 137
Period size: 48 Copynumber: 2.2 Consensus size: 48
36827042 TTGTCTTTTC
*
36827052 TTTCTTTTTCAATTT-TCTCT-TTTTCCTCACA-CTTTTGTTCAATCTCAA
1 TTTCTTTTTCAATTTCTCTCTCTTTT--TCACATCCTTT-TTCAATCTCAA
* *
36827100 TTTCTTTTTCGATTTCTTTCTCTTTTTCACATCCTTTTTCAATCTCAA
1 TTTCTTTTTCAATTTCTCTCTCTTTTTCACATCCTTTTTCAATCTCAA
36827148 TTTCTTTTTC
1 TTTCTTTTTC
36827158 CATGACACTC
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
48 40 0.77
49 8 0.15
50 4 0.08
ACGTcount: A:0.14, C:0.25, G:0.02, T:0.59
Consensus pattern (48 bp):
TTTCTTTTTCAATTTCTCTCTCTTTTTCACATCCTTTTTCAATCTCAA
Found at i:36827154 original size:18 final size:17
Alignment explanation
Indices: 36827133--36827232 Score: 56
Period size: 18 Copynumber: 5.4 Consensus size: 17
36827123 TTTTCACATC
*
36827133 CTTTTTCAATCTCAATTT
1 CTTTTTCAATCTC-GTTT
*
36827151 CTTTTTCCATGACACTCGTTT
1 CTTTTT-CA--A-TCTCGTTT
* *
36827172 CTTTTACACTCTCGTTT
1 CTTTTTCAATCTCGTTT
* *
36827189 CTTTCTTCAATCTCACTCT
1 CTTT-TTCAATCTC-GTTT
* *
36827208 CTTTTTCAATTTCTTTTT
1 CTTTTTCAATCTC-GTTT
36827226 CTTTTTC
1 CTTTTTC
36827233 TTTCATTTCT
Statistics
Matches: 63, Mismatches: 13, Indels: 12
0.72 0.15 0.14
Matches are distributed among these distances:
17 11 0.17
18 30 0.48
19 8 0.13
20 2 0.03
21 9 0.14
22 3 0.05
ACGTcount: A:0.14, C:0.27, G:0.03, T:0.56
Consensus pattern (17 bp):
CTTTTTCAATCTCGTTT
Found at i:36828229 original size:12 final size:12
Alignment explanation
Indices: 36828191--36828222 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
36828181 ATACTTCGAT
36828191 TTTTTTTTTGAA
1 TTTTTTTTTGAA
36828203 TTTTTTTTTGAA
1 TTTTTTTTTGAA
36828215 TTTTTTTT
1 TTTTTTTT
36828223 CAAATTTCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.12, C:0.00, G:0.06, T:0.81
Consensus pattern (12 bp):
TTTTTTTTTGAA
Found at i:36828329 original size:11 final size:11
Alignment explanation
Indices: 36828315--36828343 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
36828305 TCCAACTCAA
36828315 TTTTTTTTGA-
1 TTTTTTTTGAC
36828325 TTTTTTTTGAC
1 TTTTTTTTGAC
36828336 TTTTTTTT
1 TTTTTTTT
36828344 ACGTTACGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.07, C:0.03, G:0.07, T:0.83
Consensus pattern (11 bp):
TTTTTTTTGAC
Found at i:36829786 original size:20 final size:20
Alignment explanation
Indices: 36829739--36829786 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
36829729 AGTAAGCTCG
36829739 GTTGAGCTCAAACGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
**** *
36829759 AACAAGCTCAAATGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
36829779 GTTGAGCT
1 GTTGAGCT
36829787 GGACGGTCTC
Statistics
Matches: 19, Mismatches: 9, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.21
Consensus pattern (20 bp):
GTTGAGCTCAAACGAGCTGA
Found at i:36840172 original size:20 final size:20
Alignment explanation
Indices: 36840126--36840172 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
36840116 AGCTCGTTTC
**
36840126 CAGCTCACTTGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* *
36840146 CAACTCACTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
36840166 CAGCTCA
1 CAGCTCA
36840173 ATTTTAACCC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.30, C:0.34, G:0.13, T:0.23
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:36841721 original size:9 final size:9
Alignment explanation
Indices: 36841707--36841741 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
36841697 AGAAGTGAGC
36841707 AAAAAAAGA
1 AAAAAAAGA
*
36841716 AAAAAAAGT
1 AAAAAAAGA
36841725 AAAAAAAGA
1 AAAAAAAGA
36841734 ACAAAAAA
1 A-AAAAAA
36841742 AAGTGAAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 17 0.74
10 6 0.26
ACGTcount: A:0.86, C:0.03, G:0.09, T:0.03
Consensus pattern (9 bp):
AAAAAAAGA
Found at i:36841731 original size:21 final size:21
Alignment explanation
Indices: 36841707--36841750 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
36841697 AGAAGTGAGC
*
36841707 AAAAAAAGAAAAAAAAGTAAA
1 AAAAAAACAAAAAAAAGTAAA
* *
36841728 AAAAGAACAAAAAAAAGTGAA
1 AAAAAAACAAAAAAAAGTAAA
36841749 AA
1 AA
36841751 GTCTTGTGAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.82, C:0.02, G:0.11, T:0.05
Consensus pattern (21 bp):
AAAAAAACAAAAAAAAGTAAA
Found at i:36844600 original size:4 final size:4
Alignment explanation
Indices: 36844591--36844618 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
36844581 AAGTTTTATT
36844591 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
36844619 CTTAGTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:36847362 original size:23 final size:22
Alignment explanation
Indices: 36847310--36847362 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
36847300 TCCACGTCTT
*
36847310 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
36847332 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
36847355 TTTCTTTT
1 TTTCTTTT
36847363 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:36849755 original size:6 final size:6
Alignment explanation
Indices: 36849728--36849767 Score: 53
Period size: 6 Copynumber: 6.3 Consensus size: 6
36849718 CTAAGTAAAT
*
36849728 AAATAA ATAAAAA AAATAAA AAATAA AAATAA AAATAA AA
1 AAATAA A-AATAA AAAT-AA AAATAA AAATAA AAATAA AA
36849768 CTTTACAACT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 19 0.63
7 11 0.37
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:36850066 original size:20 final size:20
Alignment explanation
Indices: 36850020--36850066 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
36850010 AGCTCGTTTC
*
36850020 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* *
36850040 CAACTCACTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
36850060 CAGCTCA
1 CAGCTCA
36850067 ATTTTAACCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.36, G:0.13, T:0.21
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:36854639 original size:19 final size:18
Alignment explanation
Indices: 36854603--36854642 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
36854593 TTTCCACTCG
*
36854603 TTTCTTTTTCAACTTCTC
1 TTTCTTTTTCAACATCTC
*
36854621 TTTCTTTTTCCACAATCTC
1 TTTCTTTTTCAAC-ATCTC
36854640 TTT
1 TTT
36854643 GTTTGTTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.12, C:0.28, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTCTTTTTCAACATCTC
Found at i:36854747 original size:18 final size:18
Alignment explanation
Indices: 36854718--36854777 Score: 59
Period size: 18 Copynumber: 3.2 Consensus size: 18
36854708 CTCTTTCTTT
36854718 TCTTTTTCCAATCTTTTTC
1 TCTTTTT-CAATCTTTTTC
*
36854737 TCTTTTTCAAT-TTTTGTT
1 TCTTTTTCAATCTTTT-TC
*
36854755 TCTTTTTCAGTTTCTTTTTC
1 TCTTTTTCA--ATCTTTTTC
36854775 TCT
1 TCT
36854778 CGTCACTCTT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
17 4 0.12
18 14 0.41
19 7 0.21
20 5 0.15
21 4 0.12
ACGTcount: A:0.08, C:0.20, G:0.03, T:0.68
Consensus pattern (18 bp):
TCTTTTTCAATCTTTTTC
Found at i:36857284 original size:13 final size:13
Alignment explanation
Indices: 36857266--36857317 Score: 79
Period size: 13 Copynumber: 4.0 Consensus size: 13
36857256 ACTAGCACTC
36857266 TTTTTTTT-ACAA
1 TTTTTTTTCACAA
36857278 TTTTTTTTCACAA
1 TTTTTTTTCACAA
*
36857291 TTTTTTTTTCAAAA
1 -TTTTTTTTCACAA
36857305 TTTTTTTTCACAA
1 TTTTTTTTCACAA
36857318 CTTGATATCC
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
12 8 0.22
13 16 0.44
14 12 0.33
ACGTcount: A:0.25, C:0.12, G:0.00, T:0.63
Consensus pattern (13 bp):
TTTTTTTTCACAA
Found at i:36857306 original size:27 final size:26
Alignment explanation
Indices: 36857266--36857317 Score: 86
Period size: 27 Copynumber: 2.0 Consensus size: 26
36857256 ACTAGCACTC
*
36857266 TTTTTTTTACAATTTTTTTTCACAAT
1 TTTTTTTTAAAATTTTTTTTCACAAT
36857292 TTTTTTTTCAAAATTTTTTTTCACAA
1 TTTTTTTT-AAAATTTTTTTTCACAA
36857318 CTTGATATCC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 8 0.33
27 16 0.67
ACGTcount: A:0.25, C:0.12, G:0.00, T:0.63
Consensus pattern (26 bp):
TTTTTTTTAAAATTTTTTTTCACAAT
Found at i:36857372 original size:12 final size:12
Alignment explanation
Indices: 36857355--36857401 Score: 67
Period size: 12 Copynumber: 3.8 Consensus size: 12
36857345 TGGAAACTAG
36857355 TTTTTTTCGAAT
1 TTTTTTTCGAAT
*
36857367 TTTTTTTTGAATT
1 TTTTTTTCGAA-T
*
36857380 TTTTTTTCGAGT
1 TTTTTTTCGAAT
36857392 TTTTTTTCGA
1 TTTTTTTCGA
36857402 GAAACTACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
12 21 0.68
13 10 0.32
ACGTcount: A:0.13, C:0.06, G:0.11, T:0.70
Consensus pattern (12 bp):
TTTTTTTCGAAT
Found at i:36857373 original size:13 final size:13
Alignment explanation
Indices: 36857355--36857398 Score: 72
Period size: 13 Copynumber: 3.5 Consensus size: 13
36857345 TGGAAACTAG
36857355 TTTTTTTCGAATT
1 TTTTTTTCGAATT
36857368 TTTTTTT-GAATT
1 TTTTTTTCGAATT
*
36857380 TTTTTTTCGAGTT
1 TTTTTTTCGAATT
36857393 TTTTTT
1 TTTTTT
36857399 CGAGAAACTA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
12 12 0.41
13 17 0.59
ACGTcount: A:0.11, C:0.05, G:0.09, T:0.75
Consensus pattern (13 bp):
TTTTTTTCGAATT
Found at i:36859439 original size:27 final size:27
Alignment explanation
Indices: 36859408--36859585 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
36859398 TAAATTGTAC
36859408 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
36859435 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
36859461 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
36859489 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* * *
36859517 AGCACTAAGTGTGCGATTTCATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
36859544 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
36859571 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
36859586 TACTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:36859549 original size:82 final size:81
Alignment explanation
Indices: 36859409--36859564 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
36859399 AAATTGTACA
* * *
36859409 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATCAATACGATGCACTAAGTGT
36859474 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
** *
36859490 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTCATTACG-TAGCACTAAGT
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATCAATACGAT-GCACTAAGT
*
36859554 GTGCGAGTTGA
64 GTGCGAATTGA
36859565 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATCAATACGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:36859576 original size:82 final size:81
Alignment explanation
Indices: 36859405--36859585 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
36859395 GATTAAATTG
* * *
36859405 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATCAATACGATGCACTAA
36859470 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
36859486 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTCATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATCAATACGAT-GCACT
* **
36859550 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
36859568 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
36859586 TACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATCAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:36869475 original size:21 final size:22
Alignment explanation
Indices: 36869432--36869480 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
36869422 TCTTTTTGGA
36869432 TTTCTTTTTCTTTTCAATCTCTT
1 TTTC-TTTTCTTTTCAATCTCTT
* *
36869455 TTTCTTTTC-TTTCGATTTCTT
1 TTTCTTTTCTTTTCAATCTCTT
36869476 TTTCT
1 TTTCT
36869481 CGCTCGTACT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 15 0.62
22 5 0.21
23 4 0.17
ACGTcount: A:0.06, C:0.20, G:0.02, T:0.71
Consensus pattern (22 bp):
TTTCTTTTCTTTTCAATCTCTT
Found at i:36870459 original size:33 final size:32
Alignment explanation
Indices: 36870406--36870474 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 32
36870396 TTAAACTTGA
**
36870406 TTTTTTTTTGCTCACCTTTTTTTTTCTTTTCTT
1 TTTTTTTTTGCTCACCTTTTTTTCACTTTT-TT
*
36870439 TTTTTTTTTGCTCGA-TTTTTTTTCACTTTTTT
1 TTTTTTTTTGCTC-ACCTTTTTTTCACTTTTTT
36870471 TTTT
1 TTTT
36870475 GAATTTTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
32 6 0.19
33 25 0.78
34 1 0.03
ACGTcount: A:0.04, C:0.14, G:0.04, T:0.77
Consensus pattern (32 bp):
TTTTTTTTTGCTCACCTTTTTTTCACTTTTTT
Found at i:36870470 original size:13 final size:13
Alignment explanation
Indices: 36870454--36870515 Score: 61
Period size: 13 Copynumber: 4.5 Consensus size: 13
36870444 TTTTGCTCGA
*
36870454 TTTTTTTTCACTT
1 TTTTTTTTCAATT
*
36870467 TTTTTTTTGAATT
1 TTTTTTTTCAATT
* *
36870480 TTTTTTCAATCAAAT
1 TTTTTT--TTCAATT
36870495 TTTTTTTTCGAATT
1 TTTTTTTTC-AATT
36870509 TTTTTTT
1 TTTTTTT
36870516 GATTTTTTTG
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
13 19 0.49
14 10 0.26
15 10 0.26
ACGTcount: A:0.16, C:0.08, G:0.03, T:0.73
Consensus pattern (13 bp):
TTTTTTTTCAATT
Found at i:36873380 original size:27 final size:27
Alignment explanation
Indices: 36873349--36873526 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
36873339 TAAATTGTAC
36873349 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
36873376 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
36873402 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
36873430 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
36873458 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
36873485 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
36873512 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
36873527 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:36873463 original size:82 final size:81
Alignment explanation
Indices: 36873350--36873505 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
36873340 AAATTGTACA
* *
36873350 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
36873414 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
36873431 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
36873496 TGCGAGTTGA
65 TGCGAATTGA
36873506 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:36873517 original size:82 final size:81
Alignment explanation
Indices: 36873346--36873526 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
36873336 GATTAAATTG
* *
36873346 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
36873411 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
36873427 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
36873491 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
36873509 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
36873527 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:36877706 original size:17 final size:18
Alignment explanation
Indices: 36877684--36877724 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
36877674 CATTTCTTTT
36877684 TCTTTTGAATCACTC-TC
1 TCTTTTGAATCACTCATC
**
36877701 TCTTTTTTATCACTCATC
1 TCTTTTGAATCACTCATC
36877719 T-TTTTG
1 TCTTTTG
36877725 TTTTTCTTCT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 17 0.85
18 3 0.15
ACGTcount: A:0.15, C:0.24, G:0.05, T:0.56
Consensus pattern (18 bp):
TCTTTTGAATCACTCATC
Found at i:36877747 original size:12 final size:12
Alignment explanation
Indices: 36877732--36877762 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
36877722 TTGTTTTTCT
36877732 TCTTTTCTTTAC
1 TCTTTTCTTTAC
*
36877744 TCTTTTCTTTAT
1 TCTTTTCTTTAC
36877756 TCTTTTC
1 TCTTTTC
36877763 ATTTTTTGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.06, C:0.23, G:0.00, T:0.71
Consensus pattern (12 bp):
TCTTTTCTTTAC
Done.