Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 ID=Chr07-JGI_221_v2.0
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: 60982465
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 868082 characters in sequence are not A, C, G, or T
File 109 of 204
Found at i:33152887 original size:50 final size:50
Alignment explanation
Indices: 33152771--33153013 Score: 360
Period size: 50 Copynumber: 4.8 Consensus size: 50
33152761 GATAATGACA
* ** * *
33152771 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTACTCATGTCGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCT-CTCATCTCGG
* **
33152822 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
33152872 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
33152922 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
33152972 TGCCAATTCCATGTCCTAAACATGGTCTTACATGGGACCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
33153014 TTACCCAAAT
Statistics
Matches: 175, Mismatches: 17, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
50 141 0.81
51 34 0.19
ACGTcount: A:0.21, C:0.30, G:0.22, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:33162363 original size:16 final size:16
Alignment explanation
Indices: 33162342--33162375 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
33162332 ATTACCTCTG
33162342 AATATTATAATATATT
1 AATATTATAATATATT
33162358 AATATTATAATATATT
1 AATATTATAATATATT
33162374 AA
1 AA
33162376 AAAATCAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
AATATTATAATATATT
Found at i:33163226 original size:11 final size:11
Alignment explanation
Indices: 33163203--33163249 Score: 76
Period size: 11 Copynumber: 4.2 Consensus size: 11
33163193 AACAAATCCT
33163203 CTCTCATATTTC
1 CTCTCA-ATTTC
33163215 CTCTCAATTTC
1 CTCTCAATTTC
*
33163226 CTCTCAATTTT
1 CTCTCAATTTC
33163237 CTCTCAATTTC
1 CTCTCAATTTC
33163248 CT
1 CT
33163250 TCCAAAATTC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
11 27 0.82
12 6 0.18
ACGTcount: A:0.17, C:0.34, G:0.00, T:0.49
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:33163260 original size:22 final size:22
Alignment explanation
Indices: 33163215--33163261 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
33163205 CTCATATTTC
**
33163215 CTCTCAATTTCCTCTCAATTTT
1 CTCTCAATTTCCTCTCAAAATT
33163237 CTCTCAATTTCCT-TCCAAAATT
1 CTCTCAATTTCCTCT-CAAAATT
33163259 CTC
1 CTC
33163262 ATAAATCCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 1 0.05
22 21 0.95
ACGTcount: A:0.21, C:0.34, G:0.00, T:0.45
Consensus pattern (22 bp):
CTCTCAATTTCCTCTCAAAATT
Found at i:33163286 original size:51 final size:51
Alignment explanation
Indices: 33163229--33163344 Score: 171
Period size: 51 Copynumber: 2.3 Consensus size: 51
33163219 CAATTTCCTC
* * * *
33163229 TCAATTTTCTCTCAATTTCCTTCCAAAATTCTCAT-AAATCCATATTTAATT
1 TCAATTTCCTCTCAATTTCATTCCAAAAATCTC-TCAAAGCCATATTTAATT
33163280 TCAATTTCCTCTCAATTTCATTCCAAAAATCTCTCAAAGCCATATTTAATT
1 TCAATTTCCTCTCAATTTCATTCCAAAAATCTCTCAAAGCCATATTTAATT
*
33163331 TCAATTTGCTCTCA
1 TCAATTTCCTCTCA
33163345 CTTCCTTTTT
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
50 1 0.02
51 58 0.98
ACGTcount: A:0.31, C:0.25, G:0.02, T:0.42
Consensus pattern (51 bp):
TCAATTTCCTCTCAATTTCATTCCAAAAATCTCTCAAAGCCATATTTAATT
Found at i:33164455 original size:7 final size:7
Alignment explanation
Indices: 33164443--33164474 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
33164433 TGCAAATAGA
33164443 TATTTAG
1 TATTTAG
33164450 TATTTAG
1 TATTTAG
33164457 TATTTAG
1 TATTTAG
33164464 TATTTAG
1 TATTTAG
33164471 TATT
1 TATT
33164475 ATGTATATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.59
Consensus pattern (7 bp):
TATTTAG
Found at i:33165151 original size:18 final size:18
Alignment explanation
Indices: 33165124--33165163 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
33165114 CAGGTGCGTT
*
33165124 TCCTATCCCTTATATGTA
1 TCCTAACCCTTATATGTA
33165142 TCCTAACCCTTATATGTA
1 TCCTAACCCTTATATGTA
33165160 TCCT
1 TCCT
33165164 TTTCCGAGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.23, C:0.30, G:0.05, T:0.42
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:33165616 original size:25 final size:25
Alignment explanation
Indices: 33165588--33165635 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
33165578 TGAATATTTT
*
33165588 GAAGTTTGT-TTGATGTAATAAAATA
1 GAAGTTT-TATTGATGTAAAAAAATA
33165613 GAAGTTTTATTGATGTAAAAAAA
1 GAAGTTTTATTGATGTAAAAAAA
33165636 ATTTAAACAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 1 0.05
25 20 0.95
ACGTcount: A:0.44, C:0.00, G:0.19, T:0.38
Consensus pattern (25 bp):
GAAGTTTTATTGATGTAAAAAAATA
Found at i:33165699 original size:25 final size:25
Alignment explanation
Indices: 33165665--33165757 Score: 168
Period size: 25 Copynumber: 3.7 Consensus size: 25
33165655 TATTTTGATA
33165665 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
33165690 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
*
33165715 TTATATGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
*
33165740 TTATTTGATGTGATAAAA
1 TTATTTGATGTAATAAAA
33165758 ATTGAAAACC
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 65 1.00
ACGTcount: A:0.44, C:0.00, G:0.16, T:0.40
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAGT
Found at i:33165789 original size:23 final size:23
Alignment explanation
Indices: 33165759--33166026 Score: 473
Period size: 23 Copynumber: 11.7 Consensus size: 23
33165749 GTGATAAAAA
33165759 TTGAAAACCCTAACCTAATTAAG
1 TTGAAAACCCTAACCTAATTAAG
*
33165782 TTGAAAACCCTAACCTAATTAAA
1 TTGAAAACCCTAACCTAATTAAG
*
33165805 TTAAAAACCCTAACCTAATTAAG
1 TTGAAAACCCTAACCTAATTAAG
33165828 TTGAAAACCCTAACCTAATTAAG
1 TTGAAAACCCTAACCTAATTAAG
*
33165851 TTGAAAACCCTAACCTACTTAAG
1 TTGAAAACCCTAACCTAATTAAG
33165874 TTGAAAACCCTAACCTAATTAAG
1 TTGAAAACCCTAACCTAATTAAG
*
33165897 TTGAAAACCCTAACCTAGTTAAG
1 TTGAAAACCCTAACCTAATTAAG
*
33165920 TTGAAAACCCTAACCTAATTAAA
1 TTGAAAACCCTAACCTAATTAAG
* *
33165943 TTAAAAACCCTAACCTATTTAAG
1 TTGAAAACCCTAACCTAATTAAG
33165966 TTGAAAACCCTAACCTAATTAAG
1 TTGAAAACCCTAACCTAATTAAG
33165989 TTGAAAACCCTAACCTAATTAAG
1 TTGAAAACCCTAACCTAATTAAG
33166012 TTGAAAACCCTAACC
1 TTGAAAACCCTAACC
33166027 CTAAACTTAA
Statistics
Matches: 231, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 231 1.00
ACGTcount: A:0.44, C:0.23, G:0.07, T:0.26
Consensus pattern (23 bp):
TTGAAAACCCTAACCTAATTAAG
Found at i:33168635 original size:125 final size:125
Alignment explanation
Indices: 33168395--33168627 Score: 326
Period size: 125 Copynumber: 1.9 Consensus size: 125
33168385 CTCAAACAGA
* * * *
33168395 CTACTGTAGCAAAAGCGCATCCCCAATGGCACGATTTTCACAAATTCTTCTTAAATAGCATCCTG
1 CTACTGTAGCAAAAGCGCATCCACAAGGGCACGAATTTCACAAATTCTTCTCAAATAGCATCCTG
33168460 CTAGAAGCAAATTTATACTATTTGCTCAGAAACGTCAAAAAAAAATATTTCATCCATGAT
66 CTAGAAGCAAATTTATACTATTTGCTCAGAAACGTCAAAAAAAAATATTTCATCCATGAT
* * * *
33168520 CTACTGTAGCAAGAGCGCGTCCACGAGGGCTA-GAATTTCA-AAATTTCTTCTCAAATAGCATCT
1 CTACTGTAGCAAAAGCGCATCCACAAGGGC-ACGAATTTCACAAA-TTCTTCTCAAATAGCATCC
* * * *
33168583 TGCTAGAAGCGATTTTATATTATTTGCTCAGAAAGGTCAAAAAAA
64 TGCTAGAAGCAAATTTATACTATTTGCTCAGAAACGTCAAAAAAA
33168628 TTTATTTCTT
Statistics
Matches: 94, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
124 3 0.03
125 90 0.96
126 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.29
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCATCCACAAGGGCACGAATTTCACAAATTCTTCTCAAATAGCATCCTG
CTAGAAGCAAATTTATACTATTTGCTCAGAAACGTCAAAAAAAAATATTTCATCCATGAT
Found at i:33169181 original size:28 final size:26
Alignment explanation
Indices: 33169092--33169182 Score: 71
Period size: 28 Copynumber: 3.3 Consensus size: 26
33169082 TTATTTTTAA
*
33169092 TAAT-TAATAAA-ATTATTTATAAATT
1 TAATATAATAAATA-TATTTAAAAATT
*
33169117 TAATTATACATGAAATAT-TTTAAAATTT
1 TAA-TATA-AT-AAATATATTTAAAAATT
*
33169145 TAAAAATAATAAATAGTATTTAAATAATT
1 T-AATATAATAAATA-TATTTAAA-AATT
33169174 TAATATAAT
1 TAATATAAT
33169183 GCATAAAATT
Statistics
Matches: 52, Mismatches: 5, Indels: 15
0.72 0.07 0.21
Matches are distributed among these distances:
25 3 0.06
26 6 0.12
27 5 0.10
28 27 0.52
29 10 0.19
30 1 0.02
ACGTcount: A:0.53, C:0.01, G:0.02, T:0.44
Consensus pattern (26 bp):
TAATATAATAAATATATTTAAAAATT
Found at i:33171276 original size:26 final size:26
Alignment explanation
Indices: 33171247--33171309 Score: 85
Period size: 26 Copynumber: 2.4 Consensus size: 26
33171237 TTTATCGAGG
*
33171247 TTATTAGTTTAT-GAT-AAATGAATATT
1 TTATTAATTTATCGATAAAAT-AATA-T
33171273 TTATTAATTTATCGATAAAATAATAT
1 TTATTAATTTATCGATAAAATAATAT
33171299 TTATTAATTTA
1 TTATTAATTTA
33171310 GAGAATATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
26 23 0.68
27 7 0.21
28 4 0.12
ACGTcount: A:0.41, C:0.02, G:0.06, T:0.51
Consensus pattern (26 bp):
TTATTAATTTATCGATAAAATAATAT
Found at i:33171436 original size:38 final size:38
Alignment explanation
Indices: 33171388--33171464 Score: 111
Period size: 38 Copynumber: 2.0 Consensus size: 38
33171378 TGAATCAAAG
* * *
33171388 TTAATTGGTTCATGTAACACACAAA-AACAAAGAGTTAA
1 TTAATAGGTTCATGTAAC-CAAAAAGAAAAAAGAGTTAA
33171426 TTAATAGGTTCATGTAACCAAAAAGAAAAAAGAGTTAA
1 TTAATAGGTTCATGTAACCAAAAAGAAAAAAGAGTTAA
33171464 T
1 T
33171465 GATTTTAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
37 5 0.14
38 30 0.86
ACGTcount: A:0.49, C:0.10, G:0.14, T:0.26
Consensus pattern (38 bp):
TTAATAGGTTCATGTAACCAAAAAGAAAAAAGAGTTAA
Found at i:33173796 original size:36 final size:37
Alignment explanation
Indices: 33173720--33173808 Score: 117
Period size: 36 Copynumber: 2.4 Consensus size: 37
33173710 ACCACTCCGA
* * * *
33173720 CCACCCTACACACCACAATTGGGCTATGGTAGGCCTAT
1 CCACCCTACACACCACAA-TAGGATATGATAGGCCCAT
*
33173758 CCACCCTGCACACCACAA-AGGATATGATAGGCCCAT
1 CCACCCTACACACCACAATAGGATATGATAGGCCCAT
33173794 CCACCCTACACACCA
1 CCACCCTACACACCA
33173809 TGATAGTGGA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
36 28 0.62
38 17 0.38
ACGTcount: A:0.30, C:0.39, G:0.15, T:0.16
Consensus pattern (37 bp):
CCACCCTACACACCACAATAGGATATGATAGGCCCAT
Found at i:33173828 original size:15 final size:15
Alignment explanation
Indices: 33173808--33173838 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
33173798 CCTACACACC
33173808 ATGATAGTGGATCTA
1 ATGATAGTGGATCTA
33173823 ATGATAGTGGATCTA
1 ATGATAGTGGATCTA
33173838 A
1 A
33173839 GTCACTCAAA
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:0.35, C:0.06, G:0.26, T:0.32
Consensus pattern (15 bp):
ATGATAGTGGATCTA
Found at i:33175417 original size:9 final size:9
Alignment explanation
Indices: 33175403--33175433 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
33175393 GTTAAACGAA
33175403 TCGAGTTAT
1 TCGAGTTAT
*
33175412 TCGAGTTAA
1 TCGAGTTAT
33175421 TCGAGTTAT
1 TCGAGTTAT
33175430 TCGA
1 TCGA
33175434 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:33175504 original size:9 final size:9
Alignment explanation
Indices: 33175487--33175523 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
33175477 TGAGTTTTCG
33175487 AATTCGAAT
1 AATTCGAAT
*
33175496 AACTCGAAT
1 AATTCGAAT
33175505 AATTCGAAT
1 AATTCGAAT
33175514 AATTCGAAT
1 AATTCGAAT
33175523 A
1 A
33175524 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:33177257 original size:44 final size:44
Alignment explanation
Indices: 33177208--33177310 Score: 206
Period size: 44 Copynumber: 2.3 Consensus size: 44
33177198 ATTACATCTT
33177208 TACCCAAACGAAGAACAAACAATTAATTTAATTATTTGTAATGA
1 TACCCAAACGAAGAACAAACAATTAATTTAATTATTTGTAATGA
33177252 TACCCAAACGAAGAACAAACAATTAATTTAATTATTTGTAATGA
1 TACCCAAACGAAGAACAAACAATTAATTTAATTATTTGTAATGA
33177296 TACCCAAACGAAGAA
1 TACCCAAACGAAGAA
33177311 TGGAAGATTG
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 59 1.00
ACGTcount: A:0.49, C:0.16, G:0.10, T:0.26
Consensus pattern (44 bp):
TACCCAAACGAAGAACAAACAATTAATTTAATTATTTGTAATGA
Found at i:33177663 original size:21 final size:20
Alignment explanation
Indices: 33177631--33177671 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
33177621 ACTTTAATCC
33177631 TTAATA-TTTTTTACAGTGAT
1 TTAATATTTTTTTA-AGTGAT
33177651 TTAATATTTTTTTTAAGTGAT
1 TTAATA-TTTTTTTAAGTGAT
33177672 AAAAAAAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.32
21 6 0.32
22 7 0.37
ACGTcount: A:0.29, C:0.02, G:0.10, T:0.59
Consensus pattern (20 bp):
TTAATATTTTTTTAAGTGAT
Found at i:33202472 original size:40 final size:40
Alignment explanation
Indices: 33202394--33202472 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 40
33202384 GATGCCCTTG
*
33202394 TAAACACTTCGGTGTCCCTATGTGCACAATTGTTCCCCTA
1 TAAACACTTCGGTGTCCCTATGTGCACAATTGTGCCCCTA
*
33202434 TAAACACTTTGGTGTCCCTGAT-TGCAC-ATTCGTGCCCCT
1 TAAACACTTCGGTGTCCCT-ATGTGCACAATT-GTGCCCCT
33202473 GAATGCACTC
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
39 3 0.09
40 30 0.86
41 2 0.06
ACGTcount: A:0.20, C:0.30, G:0.16, T:0.33
Consensus pattern (40 bp):
TAAACACTTCGGTGTCCCTATGTGCACAATTGTGCCCCTA
Found at i:33202474 original size:20 final size:19
Alignment explanation
Indices: 33202449--33202520 Score: 67
Period size: 20 Copynumber: 3.6 Consensus size: 19
33202439 ACTTTGGTGT
33202449 CCCTGATTGCACATTCGTGC
1 CCCTGATTGCACA-TCGTGC
*
33202469 CCCTGAATGCAC-TCAAGTGC
1 CCCTGATTGCACATC--GTGC
33202489 CCCT-AGTTGCACACTCGTGC
1 CCCTGA-TTGCACA-TCGTGC
*
33202509 TCCTGATTGCAC
1 CCCTGATTGCAC
33202521 TTTGGTGTCC
Statistics
Matches: 43, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
18 2 0.05
19 1 0.02
20 37 0.86
21 1 0.02
22 2 0.05
ACGTcount: A:0.18, C:0.36, G:0.19, T:0.26
Consensus pattern (19 bp):
CCCTGATTGCACATCGTGC
Found at i:33202533 original size:40 final size:41
Alignment explanation
Indices: 33202438--33202533 Score: 115
Period size: 40 Copynumber: 2.4 Consensus size: 41
33202428 CCCCTATAAA
*
33202438 CACTTTGGTGTCCCT-GATTGCACATTCGTGCCCCTGAATG
1 CACTTTGGTGTCCCTAGATTGCACACTCGTGCCCCTGAATG
*** * * *
33202478 CACTCAAGTGCCCCTAG-TTGCACACTCGTGCTCCTGATTG
1 CACTTTGGTGTCCCTAGATTGCACACTCGTGCCCCTGAATG
33202518 CACTTTGGTGTCCCTA
1 CACTTTGGTGTCCCTA
33202534 AAATTGAGTG
Statistics
Matches: 44, Mismatches: 11, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
40 43 0.98
41 1 0.02
ACGTcount: A:0.16, C:0.32, G:0.21, T:0.31
Consensus pattern (41 bp):
CACTTTGGTGTCCCTAGATTGCACACTCGTGCCCCTGAATG
Found at i:33213925 original size:18 final size:18
Alignment explanation
Indices: 33213902--33213947 Score: 92
Period size: 18 Copynumber: 2.6 Consensus size: 18
33213892 GTCGAGTGGG
33213902 CCACACGGGCGTGTAGGC
1 CCACACGGGCGTGTAGGC
33213920 CCACACGGGCGTGTAGGC
1 CCACACGGGCGTGTAGGC
33213938 CCACACGGGC
1 CCACACGGGC
33213948 AGGCCACATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.17, C:0.37, G:0.37, T:0.09
Consensus pattern (18 bp):
CCACACGGGCGTGTAGGC
Found at i:33216287 original size:25 final size:24
Alignment explanation
Indices: 33216241--33216314 Score: 71
Period size: 25 Copynumber: 3.0 Consensus size: 24
33216231 ACGAGATGTG
*
33216241 AATCGGTATGCTCATGCA--AGCTTT
1 AATCGGTATGCTC-T-CACGAGCTAT
33216265 AGATCGGTATGCTCTCACGAGCTAT
1 A-ATCGGTATGCTCTCACGAGCTAT
* *
33216290 AAACTGGTATGCTCACACGAGCTAT
1 AATC-GGTATGCTCTCACGAGCTAT
33216315 GGCTCGGAAC
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
23 2 0.05
24 4 0.09
25 37 0.86
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (24 bp):
AATCGGTATGCTCTCACGAGCTAT
Found at i:33216796 original size:18 final size:18
Alignment explanation
Indices: 33216773--33216807 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
33216763 ATTTCACAAC
33216773 AACCCACTATGGCCGAAA
1 AACCCACTATGGCCGAAA
*
33216791 AACCCACTATGGTCGAA
1 AACCCACTATGGCCGAA
33216808 TATCAACTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.37, C:0.31, G:0.17, T:0.14
Consensus pattern (18 bp):
AACCCACTATGGCCGAAA
Found at i:33220040 original size:45 final size:46
Alignment explanation
Indices: 33219965--33220220 Score: 197
Period size: 45 Copynumber: 5.7 Consensus size: 46
33219955 ATGGTTGCAG
* * * *
33219965 GATGCCATAGTGTCTTTCAA-TCATGATCTTATTC-TTCTGATTCAT
1 GATGCCATAATGTCTTTCAACT-ATGGTCTTACTCGTTCTGAATCAT
* * * * * *
33220010 GATCCCATAACGTCTTTCAACTATGGTCTTACTCATT-AGAACCGT
1 GATGCCATAATGTCTTTCAACTATGGTCTTACTCGTTCTGAATCAT
* * ** *
33220055 GATGCCATAATGTCTTTCAGCTATGCTCTTACTCGTT-AAAATCGT
1 GATGCCATAATGTCTTTCAACTATGGTCTTACTCGTTCTGAATCAT
* * * *
33220100 GATGACATAACGTCTTTCAGCTATGGTCTTACTCGTTTTCG-AT-AT
1 GATGCCATAATGTCTTTCAACTATGGTCTTACTCGTTCT-GAATCAT
* * * *
33220145 GATGCCATAGTTTCTTTCAACTATGGTCTTATTCAGTTCTG-GT-AT
1 GATGCCATAATGTCTTTCAACTATGGTCTTACTC-GTTCTGAATCAT
*
33220190 -ATTGCCATAGTGTCTTTCAACTATGGTCTTA
1 GA-TGCCATAATGTCTTTCAACTATGGTCTTA
33220221 TTACTTCATT
Statistics
Matches: 174, Mismatches: 31, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
44 1 0.01
45 164 0.94
46 9 0.05
ACGTcount: A:0.23, C:0.21, G:0.16, T:0.40
Consensus pattern (46 bp):
GATGCCATAATGTCTTTCAACTATGGTCTTACTCGTTCTGAATCAT
Found at i:33222306 original size:20 final size:20
Alignment explanation
Indices: 33222242--33222307 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 20
33222232 TTAGACATTT
* *
33222242 GTGCCCCTAAATGCACTCTG
1 GTGCCCCTGAATGCACTTTG
* * * *
33222262 GTGCCCTTGACA-GTACATTC
1 GTGCCCCTGA-ATGCACTTTG
*
33222282 ATGCCCCTGAATGCACTTTG
1 GTGCCCCTGAATGCACTTTG
33222302 GTGCCC
1 GTGCCC
33222308 TTGGTTTCAC
Statistics
Matches: 32, Mismatches: 12, Indels: 4
0.67 0.25 0.08
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.18, C:0.33, G:0.21, T:0.27
Consensus pattern (20 bp):
GTGCCCCTGAATGCACTTTG
Found at i:33236912 original size:29 final size:29
Alignment explanation
Indices: 33236870--33237141 Score: 175
Period size: 29 Copynumber: 9.4 Consensus size: 29
33236860 CCCTCAAATA
* *
33236870 ATGAAAAGGGATAGCTTTGGCTATCGAAT
1 ATGAAAAGGGATAGCTTCGACTATCGAAT
* * *
33236899 ATGAACAGGGATAGCTTCGGCTATCAAAT
1 ATGAAAAGGGATAGCTTCGACTATCGAAT
* * *
33236928 ATGAAAAAGGAT-G-TTGACAACCATC-AACT
1 ATGAAAAGGGATAGCTT--CGACTATCGAA-T
* * *
33236957 ATGAAGAGGGAT-GGTAACGACTATCGAAT
1 ATGAAAAGGGATAGCT-TCGACTATCGAAT
* *
33236986 ATGAAAAGGGATAGCTTCGGCTATCAAAT
1 ATGAAAAGGGATAGCTTCGACTATCGAAT
* * * *
33237015 AAGGAAAGGGATAGCTTTGACTATCGATT
1 ATGAAAAGGGATAGCTTCGACTATCGAAT
* *
33237044 ATGAAAAGGGACAACTTC-AGCTATC-AATT
1 ATGAAAAGGGATAGCTTCGA-CTATCGAA-T
* * * *
33237073 ATGAAAAAGGAT-GGTGACGACCATCGAAT
1 ATGAAAAGGGATAGCT-TCGACTATCGAAT
* *
33237102 A-GAAATGGGATAGCTTC-AGCTATTGAAT
1 ATGAAAAGGGATAGCTTCGA-CTATCGAAT
*
33237130 ATGAAAACGGAT
1 ATGAAAAGGGAT
33237142 GGTTTTGACC
Statistics
Matches: 184, Mismatches: 44, Indels: 30
0.71 0.17 0.12
Matches are distributed among these distances:
27 3 0.02
28 23 0.12
29 150 0.82
30 8 0.04
ACGTcount: A:0.39, C:0.13, G:0.25, T:0.24
Consensus pattern (29 bp):
ATGAAAAGGGATAGCTTCGACTATCGAAT
Found at i:33242842 original size:43 final size:43
Alignment explanation
Indices: 33242792--33243019 Score: 200
Period size: 43 Copynumber: 5.3 Consensus size: 43
33242782 GTTTTTAGAA
*
33242792 ACAAACGCCACTATAGATC-GGTACCTTTAGCGGCGCTTTTTCC
1 ACAAACGCCACTAAAGATCAGG-ACCTTTAGCGGCGCTTTTTCC
* * * * * *
33242835 ATAAACGCCGCTATAGATCAGGACCTTTAGTGGTGC-TTTTAC
1 ACAAACGCCACTAAAGATCAGGACCTTTAGCGGCGCTTTTTCC
* * *
33242877 ACAAACGCCACTAAAGATCATGG-CCTTTAGCGGCGCCTCTCCC
1 ACAAACGCCACTAAAGATCA-GGACCTTTAGCGGCGCTTTTTCC
* * *
33242920 ACAAACGCCACTAAAGATC-GTGGCCTTTAGCGGCGCTTCTACC
1 ACAAACGCCACTAAAGATCAG-GACCTTTAGCGGCGCTTTTTCC
* * * * *
33242963 GCAAACGCCGCTATAAAGA--ATGACTTTTAGCGACGCTTTTT-C
1 ACAAACGCCAC--TAAAGATCAGGACCTTTAGCGGCGCTTTTTCC
33243005 ACAAACGCCACTAAA
1 ACAAACGCCACTAAA
33243020 ACATGACTTT
Statistics
Matches: 152, Mismatches: 25, Indels: 19
0.78 0.13 0.10
Matches are distributed among these distances:
40 4 0.03
41 1 0.01
42 44 0.29
43 95 0.62
44 2 0.01
45 6 0.04
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (43 bp):
ACAAACGCCACTAAAGATCAGGACCTTTAGCGGCGCTTTTTCC
Found at i:33246384 original size:93 final size:93
Alignment explanation
Indices: 33246279--33246464 Score: 311
Period size: 93 Copynumber: 2.0 Consensus size: 93
33246269 TTAGGGGGGA
* *
33246279 AAATTTGGGGGTTTTAGGGGGGAATTTTGGGATAAAACGGCAT-CATTTTTAAAAGTGAAATTAT
1 AAATTTAGGGGTTATAGGGGGGAATTTTGGGATAAAACGGC-TCCATTTTTAAAAGTGAAATTAT
*
33246343 TTTTATGGCGTTTTTGTAAAAAACGCCGC
65 TTTTATGGCGTTTTTATAAAAAACGCCGC
*
33246372 AAATTTAGGGGTTATATGGGGGAATTTTGGGATAAAACGGCTCCATTTTTAAAAGTGAAATTATT
1 AAATTTAGGGGTTATAGGGGGGAATTTTGGGATAAAACGGCTCCATTTTTAAAAGTGAAATTATT
*
33246437 TTTGTGGCGTTTTTATAAAAAACGCCGC
66 TTTATGGCGTTTTTATAAAAAACGCCGC
33246465 TATTGCTAAT
Statistics
Matches: 87, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
92 1 0.01
93 86 0.99
ACGTcount: A:0.31, C:0.09, G:0.25, T:0.35
Consensus pattern (93 bp):
AAATTTAGGGGTTATAGGGGGGAATTTTGGGATAAAACGGCTCCATTTTTAAAAGTGAAATTATT
TTTATGGCGTTTTTATAAAAAACGCCGC
Found at i:33246927 original size:38 final size:39
Alignment explanation
Indices: 33246885--33246964 Score: 101
Period size: 40 Copynumber: 2.1 Consensus size: 39
33246875 ACGCCGTTTT
* * *
33246885 GCTATT-TTATTTTTTGCGGCGTTTTT-ATAGAAAACGCC
1 GCTATTCTTATCTTTTGCGGCATTTTTCACA-AAAACGCC
33246923 GCTATTGCTTATCTTTTGCGGCATTTTTCACAAAAACGCC
1 GCTATT-CTTATCTTTTGCGGCATTTTTCACAAAAACGCC
33246963 GC
1 GC
33246965 AAAATATTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
38 6 0.17
40 28 0.78
41 2 0.06
ACGTcount: A:0.21, C:0.21, G:0.17, T:0.40
Consensus pattern (39 bp):
GCTATTCTTATCTTTTGCGGCATTTTTCACAAAAACGCC
Found at i:33247462 original size:14 final size:14
Alignment explanation
Indices: 33247422--33247480 Score: 66
Period size: 14 Copynumber: 4.1 Consensus size: 14
33247412 ACCCCTGAAT
33247422 CCCTAAACCTTAAA
1 CCCTAAACCTTAAA
*
33247436 TCCCT-AACTCTTAAC
1 -CCCTAAAC-CTTAAA
33247451 CCCTAAACCTTAAA
1 CCCTAAACCTTAAA
* *
33247465 TCCTAACCCTTAAA
1 CCCTAAACCTTAAA
33247479 CC
1 CC
33247481 ATAATCCCTA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
14 25 0.68
15 12 0.32
ACGTcount: A:0.36, C:0.39, G:0.00, T:0.25
Consensus pattern (14 bp):
CCCTAAACCTTAAA
Found at i:33247480 original size:29 final size:29
Alignment explanation
Indices: 33247422--33247477 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
33247412 ACCCCTGAAT
*
33247422 CCCTAAACCTTAAATCCCTAACTCTTAAC
1 CCCTAAACCTTAAATCCCTAACCCTTAAC
33247451 CCCTAAACCTTAAAT-CCTAACCCTTAA
1 CCCTAAACCTTAAATCCCTAACCCTTAA
33247478 ACCATAATCC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 11 0.42
29 15 0.58
ACGTcount: A:0.36, C:0.38, G:0.00, T:0.27
Consensus pattern (29 bp):
CCCTAAACCTTAAATCCCTAACCCTTAAC
Found at i:33247490 original size:21 final size:21
Alignment explanation
Indices: 33247419--33247491 Score: 58
Period size: 21 Copynumber: 3.4 Consensus size: 21
33247409 TCGACCCCTG
* *
33247419 AATCCCTAAACCTTAAATCCCT
1 AATCCCTAACCCTTAAA-CCAT
* * *
33247441 AA-CTCTTAACCCCTAAACCTT
1 AATC-CCTAACCCTTAAACCAT
**
33247462 AAATCCTAACCCTTAAACCAT
1 AATCCCTAACCCTTAAACCAT
33247483 AATCCCTAA
1 AATCCCTAA
33247492 TTCATAATCC
Statistics
Matches: 39, Mismatches: 10, Indels: 5
0.72 0.19 0.09
Matches are distributed among these distances:
21 27 0.69
22 12 0.31
ACGTcount: A:0.38, C:0.36, G:0.00, T:0.26
Consensus pattern (21 bp):
AATCCCTAACCCTTAAACCAT
Found at i:33247740 original size:15 final size:15
Alignment explanation
Indices: 33247720--33247806 Score: 54
Period size: 15 Copynumber: 5.9 Consensus size: 15
33247710 CCTAGCACGT
33247720 CTAACCCCTAAACCC
1 CTAACCCCTAAACCC
* *
33247735 CTAACCCTTTAACCC
1 CTAACCCCTAAACCC
* * * *
33247750 CTAAACCTTAAATCT
1 CTAACCCCTAAACCC
*
33247765 C-AACCCCT-AATCC
1 CTAACCCCTAAACCC
* *
33247778 ATAATCCCTAAACCC
1 CTAACCCCTAAACCC
*
33247793 AT-ACTCCCTAAACC
1 CTAAC-CCCTAAACC
33247807 GGCCTTAAAT
Statistics
Matches: 56, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
13 4 0.07
14 12 0.21
15 40 0.71
ACGTcount: A:0.34, C:0.44, G:0.00, T:0.22
Consensus pattern (15 bp):
CTAACCCCTAAACCC
Found at i:33247895 original size:273 final size:268
Alignment explanation
Indices: 33247322--33247878 Score: 639
Period size: 273 Copynumber: 2.1 Consensus size: 268
33247312 AATATATTTG
* *
33247322 ATTTATTATTATCTCTTTTAC-----AATTATATAAGAACATATTTAAAATATAAATTATAAAAA
1 ATTTATTATTATCTCTTTTACTTTTAAATAATATAAGAACATATTTAAAATATAAATTAAAAAAA
* * * *
33247382 TAATTAATCAAAACTCAAAACCTTAACTCGACCCCTGAATCCCTAAACCTTAAATCCCTAACTCT
66 TAATTAATCAAAACCCAAAACCCTAACTCGACCCCTAAATCCCTAAACCTTAAACCCCTAACTCT
* * *
33247447 TAACCCCTAAACCTTAAATCCTAACCCTTAAACCATAATCCCTAATTCATAATCCCTAAATCCAT
131 TAACCCCTAAACC----A-CCTAACCCTTAAACCATAAACCCTAAATCATAACCCCTAAATCCAT
* * *
33247512 TCCCTAAACCTTAAAATATGAACTCCTAAACCGGCCTTAGATCTTAAATTAATTATATACCCTAA
191 TCCCTAAACC---AAATAT--ACTCCTAAACCGGCCTTAAATCTTAAATAAATCATATACCCTAA
*
33247577 ACTAAAAACCCTAAACAA
251 ACCAAAAACCCTAAACAA
33247595 ATTTATTATTATCTCTTTTAC-----AATAATATAAGAACATATTTAAAATATAAATTAAAAAAA
1 ATTTATTATTATCTCTTTTACTTTTAAATAATATAAGAACATATTTAAAATATAAATTAAAAAAA
* *
33247655 TAATTAAT-ATAAACCCAAAACCCTAACTCGACCCCTAAATCCCT-AACTTTTAACCCCTAGCAC
66 TAATTAATCA-AAACCCAAAACCCTAACTCGACCCCTAAATCCCTAAACCTTAAACCCCTA--AC
* * *
33247718 GTC-TAACCCCTAAACC-CCTAACCCTTTAACCCCTAAACCTTAAATC-TCAACCCCT-AATCCA
128 -TCTTAACCCCTAAACCACCTAACCC-TTAAACCATAAACCCTAAATCAT-AACCCCTAAATCCA
*
33247779 TAATCCCTAAACC---CATACTCCCTAAACCGGCCTTAAATCTTAAATAAATCATATACCCTAAA
190 T--TCCCTAAACCAAATATACT-CCTAAACCGGCCTTAAATCTTAAATAAATCATATACCCTAAA
33247841 CCAAAAACCCTAAACAA
252 CCAAAAACCCTAAACAA
33247858 ATTTATTATTATCTCTTTTAC
1 ATTTATTATTATCTCTTTTAC
33247879 AATTATTTTA
Statistics
Matches: 256, Mismatches: 19, Indels: 28
0.84 0.06 0.09
Matches are distributed among these distances:
262 3 0.01
263 76 0.30
264 2 0.01
268 16 0.06
269 22 0.09
270 10 0.04
272 13 0.05
273 97 0.38
274 15 0.06
275 2 0.01
ACGTcount: A:0.41, C:0.27, G:0.02, T:0.30
Consensus pattern (268 bp):
ATTTATTATTATCTCTTTTACTTTTAAATAATATAAGAACATATTTAAAATATAAATTAAAAAAA
TAATTAATCAAAACCCAAAACCCTAACTCGACCCCTAAATCCCTAAACCTTAAACCCCTAACTCT
TAACCCCTAAACCACCTAACCCTTAAACCATAAACCCTAAATCATAACCCCTAAATCCATTCCCT
AAACCAAATATACTCCTAAACCGGCCTTAAATCTTAAATAAATCATATACCCTAAACCAAAAACC
CTAAACAA
Found at i:33248202 original size:73 final size:73
Alignment explanation
Indices: 33248079--33248233 Score: 220
Period size: 73 Copynumber: 2.1 Consensus size: 73
33248069 AGCATTTTTG
* * * *
33248079 GCCGCTAAAACCTCGAAAGCTCAGAAAACGACGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTC
1 GCCGCTAAAACCCCAAAAGCTCACAAAACGACGTCATTGGGCTTAGGTTTTTTTGCGGCGCTTTC
33248144 TAAAAAAC
66 TAAAAAAC
* * * *
33248152 GCCGCTAAATCCCCAAAAGCTCACAAAACGGCGTCATTGGGCTTATGTTTTTTTGTGGCGCTTTC
1 GCCGCTAAAACCCCAAAAGCTCACAAAACGACGTCATTGGGCTTAGGTTTTTTTGCGGCGCTTTC
* *
33248217 TCAGAAAC
66 TAAAAAAC
33248225 GCCGCTAAA
1 GCCGCTAAA
33248234 GACCAGAGCA
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
73 72 1.00
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.26
Consensus pattern (73 bp):
GCCGCTAAAACCCCAAAAGCTCACAAAACGACGTCATTGGGCTTAGGTTTTTTTGCGGCGCTTTC
TAAAAAAC
Found at i:33248268 original size:114 final size:113
Alignment explanation
Indices: 33248133--33248346 Score: 338
Period size: 114 Copynumber: 1.9 Consensus size: 113
33248123 AGGTTTTTTT
*
33248133 GCGGCGCTTTCTAAAAAACGCCGCTAAATCCCCAAAAGCTCACAAAACGGCGTCATTGGGCTTAT
1 GCGGCGCTTTCTAAAAAACGCCGCTAAATCCCCAAAAGCTCACAAAACGGCGTCATTGGACTTAT
* * *
33248198 GTTTTTTTGTGGCGCTTTCTCAGAAACGCCGCTAAAGACCAGAGCATTA
66 -TTTTTTTGCGGCACTTTCTCAAAAACGCCGCTAAAGACCAGAGCATTA
* * * * *
33248247 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTTAGAAAACGGCGTCGTTGGACTTAT
1 GCGGCGCTTTCTAAAAAACGCCGCTAAATCCCCAAAAGCTCACAAAACGGCGTCATTGGACTTAT
33248312 TTTTTTTGCGGCACTTTCTCAAAAACGCCGCTAAA
66 TTTTTTTGCGGCACTTTCTCAAAAACGCCGCTAAA
33248347 TCCCCGAAAG
Statistics
Matches: 91, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
113 32 0.35
114 59 0.65
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.26
Consensus pattern (113 bp):
GCGGCGCTTTCTAAAAAACGCCGCTAAATCCCCAAAAGCTCACAAAACGGCGTCATTGGACTTAT
TTTTTTTGCGGCACTTTCTCAAAAACGCCGCTAAAGACCAGAGCATTA
Found at i:33248336 original size:72 final size:73
Alignment explanation
Indices: 33248247--33248455 Score: 303
Period size: 73 Copynumber: 2.9 Consensus size: 73
33248237 CAGAGCATTA
* * * *
33248247 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTTAGAAAACGGCGTCGTTGGACTTAT
1 GCGGCACTTTCTCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAT
*
33248312 -TTTTTTT
66 GTCTTTTT
* *
33248319 GCGGCACTTTCTCAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGACGTCGTTGGGCTTAT
1 GCGGCACTTTCTCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAT
33248384 GTCTTTTT
66 GTCTTTTT
* * * * *
33248392 GCGGTACTTTCTCAAAAAAGCCGCTAAATCCCCGAAAGCCCAGAAAATGGTGTCGTTGGGCTTA
1 GCGGCACTTTCTCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTA
33248456 GGTTAGAAAG
Statistics
Matches: 122, Mismatches: 14, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
72 59 0.48
73 63 0.52
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (73 bp):
GCGGCACTTTCTCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAT
GTCTTTTT
Found at i:33248404 original size:186 final size:187
Alignment explanation
Indices: 33248079--33248419 Score: 522
Period size: 186 Copynumber: 1.8 Consensus size: 187
33248069 AGCATTTTTG
* * *
33248079 GCCGCTAAAACCTCGAAAGCTCAGAAAACGACGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTC
1 GCCGCTAAAACCCCGAAAGCTCAGAAAACGACGTCGTTGGACTTAGGTTTTTTTGCGGCACTTTC
* * *
33248144 TAAAAAACGCCGCTAAATCCCCAAAAGCTCACAAAACGGCGTCATTGGGCTTATGTTTTTTTGTG
66 TAAAAAACGCCGCTAAATCCCCAAAAGCTCACAAAACGACGTCATTGGGCTTATGTCTTTTTGCG
* * *
33248209 GCGCTTTCTCAGAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTTCTTAAAAAC
131 GCACTTTCTCAAAAAAGCCGCTAAAGACCAGAGCATTAGCGGCGCTTTCTTAAAAAC
* * * *
33248266 GCCGCTAAATCCCCGAAAGCTTAGAAAACGGCGTCGTTGGACTTA-TTTTTTTTGCGGCACTTTC
1 GCCGCTAAAACCCCGAAAGCTCAGAAAACGACGTCGTTGGACTTAGGTTTTTTTGCGGCACTTTC
* * *
33248330 TCAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGACGTCGTTGGGCTTATGTCTTTTTGCG
66 TAAAAAACGCCGCTAAATCCCCAAAAGCTCACAAAACGACGTCATTGGGCTTATGTCTTTTTGCG
*
33248395 GTACTTTCTCAAAAAAGCCGCTAAA
131 GCACTTTCTCAAAAAAGCCGCTAAA
33248420 TCCCCGAAAG
Statistics
Matches: 137, Mismatches: 17, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
186 97 0.71
187 40 0.29
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (187 bp):
GCCGCTAAAACCCCGAAAGCTCAGAAAACGACGTCGTTGGACTTAGGTTTTTTTGCGGCACTTTC
TAAAAAACGCCGCTAAATCCCCAAAAGCTCACAAAACGACGTCATTGGGCTTATGTCTTTTTGCG
GCACTTTCTCAAAAAAGCCGCTAAAGACCAGAGCATTAGCGGCGCTTTCTTAAAAAC
Found at i:33252943 original size:102 final size:102
Alignment explanation
Indices: 33252757--33253094 Score: 421
Period size: 102 Copynumber: 3.3 Consensus size: 102
33252747 TATCGATGAA
* *
33252757 CACGTGTGTAGTACTGTGTGAAGGCTATTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAACCGATAAATGATGGTCACATGTGTAGTAC
* * *
33252822 TAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
66 TAAGTGAAGGCTACTATGTGTACAGAAAAGCTTTGGT
* *
33252859 CACGTGTGTAGTACTGTGTGAAGGATACTACGTGAACCGATAAATGATGGTCACATGTGTACTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAACCGATAAATGATGGTCACATGTGTAGTAC
*
33252924 TAAGTGAAGACTACTATGTGTACAGAAAAGCTTTGGT
66 TAAGTGAAGGCTACTATGTGTACAGAAAAGCTTTGGT
* * *** * *
33252961 CACGTGTGTAATACTATGTGAAGGCTACTACGTGAACCG-TAAAACTTGATCACGTGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAACCGATAAATGATGGTCACATGTGTAGTAC
* ** * * *
33253025 TATGTGAAGGCTACTACATGAACCATAAAA-C-TTGAT
66 TAAGTGAAGGCTACTATGTGTA-CAGAAAAGCTTTGGT
** * *
33253061 CAATTGTGTAGCACTATGTGAAGGCTACTACGTG
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTG
33253095 TATCGAATGA
Statistics
Matches: 207, Mismatches: 28, Indels: 4
0.87 0.12 0.02
Matches are distributed among these distances:
100 34 0.16
101 37 0.18
102 136 0.66
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (102 bp):
CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAACCGATAAATGATGGTCACATGTGTAGTAC
TAAGTGAAGGCTACTATGTGTACAGAAAAGCTTTGGT
Found at i:33253027 original size:50 final size:50
Alignment explanation
Indices: 33252757--33253094 Score: 320
Period size: 51 Copynumber: 6.7 Consensus size: 50
33252747 TATCGATGAA
* * * ***
33252757 CACGTGTGTAGTACTGTGTGAAGGCTATTACGTGAATCGATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAAACTTGGT
* * * * * *
33252808 CACATGTGTAGTACTAAGTGAAGGCTACAATGTGTACCG-AGAAGCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTA-AAAC-TTGGT
* * ***
33252859 CACGTGTGTAGTACTGTGTGAAGGATACTACGTGAACCGATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAAACTTGGT
* * * * * * *
33252910 CACATGTGTACTACTAAGTGAAGACTACTATGTGTACAG-AAAAGCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAA-C-TTGGT
* *
33252961 CACGTGTGTAATACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGGT
* * *
33253011 CACGTGTGTAGTACTATGTGAAGGCTACTACATGAACCATAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGGT
** *
33253061 CAATTGTGTAGCACTATGTGAAGGCTACTACGTG
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG
33253095 TATCGAATGA
Statistics
Matches: 232, Mismatches: 48, Indels: 15
0.79 0.16 0.05
Matches are distributed among these distances:
49 4 0.02
50 83 0.36
51 138 0.59
52 6 0.03
53 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (50 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGGT
Found at i:33253335 original size:21 final size:22
Alignment explanation
Indices: 33253309--33253360 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
33253299 GAATATTGAC
**
33253309 TTGAAAATGGCAAAGTG-AATT
1 TTGAAAATGAAAAAGTGAAATT
*
33253330 TTGAAAGTGAAAAAGTGAAATT
1 TTGAAAATGAAAAAGTGAAATT
*
33253352 ATGAAAATG
1 TTGAAAATG
33253361 TAGAATTAGC
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 14 0.56
22 11 0.44
ACGTcount: A:0.48, C:0.02, G:0.23, T:0.27
Consensus pattern (22 bp):
TTGAAAATGAAAAAGTGAAATT
Found at i:33258560 original size:46 final size:46
Alignment explanation
Indices: 33258492--33258876 Score: 583
Period size: 46 Copynumber: 8.3 Consensus size: 46
33258482 TACCCTGTTT
*
33258492 TGGACAGCATTTATACATCAAATTGGACAGCATTAATATGCTCAAAA
1 TGGACAGCA-TTATACATCAAATTGGACAGCATCAATATGCTCAAAA
*
33258539 TGGACAGCATTATACATCAAATTGGATAGCATCAATATGCTCAAAA
1 TGGACAGCATTATACATCAAATTGGACAGCATCAATATGCTCAAAA
* *
33258585 TAGACAGCATTATACATCAAATTGGACAGCATCAATATGCTCTAAA
1 TGGACAGCATTATACATCAAATTGGACAGCATCAATATGCTCAAAA
* * * *
33258631 TAGACAGCATTATACATGAAATTGGACAACATCAATATACTCAAAA
1 TGGACAGCATTATACATCAAATTGGACAGCATCAATATGCTCAAAA
* *
33258677 TGGACAGCTTTAATATGC-TCAAATTGGACAGCATCAATATACTCAAAA
1 TGGACAGCATT-ATA--CATCAAATTGGACAGCATCAATATGCTCAAAA
33258725 TGGACAGCATTATACATCAAATTGGACAGCATCAATATGCTCAAAA
1 TGGACAGCATTATACATCAAATTGGACAGCATCAATATGCTCAAAA
* * * * *
33258771 TGTACAACATTATACATCAAATTGGACAACATTAATATACTCAAAA
1 TGGACAGCATTATACATCAAATTGGACAGCATCAATATGCTCAAAA
*
33258817 TGGACAGCATTATACATCAAATTAGACAGCATCAATATGCTCAAAA
1 TGGACAGCATTATACATCAAATTGGACAGCATCAATATGCTCAAAA
33258863 TGGACAGCATTATA
1 TGGACAGCATTATA
33258877 ACATATAAAA
Statistics
Matches: 308, Mismatches: 26, Indels: 9
0.90 0.08 0.03
Matches are distributed among these distances:
45 1 0.00
46 253 0.82
47 15 0.05
48 38 0.12
49 1 0.00
ACGTcount: A:0.43, C:0.18, G:0.13, T:0.26
Consensus pattern (46 bp):
TGGACAGCATTATACATCAAATTGGACAGCATCAATATGCTCAAAA
Found at i:33258825 original size:186 final size:186
Alignment explanation
Indices: 33258509--33258870 Score: 591
Period size: 186 Copynumber: 1.9 Consensus size: 186
33258499 CATTTATACA
* * *
33258509 TCAAATTGGACAGCATTAATATGCTCAAAATGGACAGCATTATACATCAAATTGGATAGCATCAA
1 TCAAATTGGACAGCATCAATATACTCAAAATGGACAGCATTATACATCAAATTGGACAGCATCAA
* * * *
33258574 TATGCTCAAAATAGACAGCATTATACATCAAATTGGACAGCATCAATATGCTCTAAATAGACAGC
66 TATGCTCAAAATAGACAACATTATACATCAAATTGGACAACATCAATATACTCAAAATAGACAGC
* *
33258639 ATTATACATGAAATTGGACAACATCAATATACTCAAAATGGACAGCTTTAATATGC
131 ATTATACATCAAATTAGACAACATCAATATACTCAAAATGGACAGCTTTAATATGC
33258695 TCAAATTGGACAGCATCAATATACTCAAAATGGACAGCATTATACATCAAATTGGACAGCATCAA
1 TCAAATTGGACAGCATCAATATACTCAAAATGGACAGCATTATACATCAAATTGGACAGCATCAA
* *
33258760 TATGCTCAAAAT-GTACAACATTATACATCAAATTGGACAACATTAATATACTCAAAATGGACAG
66 TATGCTCAAAATAG-ACAACATTATACATCAAATTGGACAACATCAATATACTCAAAATAGACAG
* *
33258824 CATTATACATCAAATTAGACAGCATCAATATGCTCAAAATGGACAGC
130 CATTATACATCAAATTAGACAACATCAATATACTCAAAATGGACAGC
33258871 ATTATAACAT
Statistics
Matches: 162, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
185 1 0.01
186 161 0.99
ACGTcount: A:0.43, C:0.19, G:0.13, T:0.25
Consensus pattern (186 bp):
TCAAATTGGACAGCATCAATATACTCAAAATGGACAGCATTATACATCAAATTGGACAGCATCAA
TATGCTCAAAATAGACAACATTATACATCAAATTGGACAACATCAATATACTCAAAATAGACAGC
ATTATACATCAAATTAGACAACATCAATATACTCAAAATGGACAGCTTTAATATGC
Found at i:33259610 original size:41 final size:41
Alignment explanation
Indices: 33259546--33259698 Score: 166
Period size: 41 Copynumber: 3.7 Consensus size: 41
33259536 AATGTTTCTT
* * * *
33259546 ACACTAATTGCCATCATATAGCCGAAGCTATTATAATCTCAC
1 ACACTAAGTGCCAT-AAATAGCCGAAGCTATTCTAATCTCGC
* * *
33259588 ACACTAAGTGCCTTACATAGCCGAAGCT-TTCTCAGTCTCGC
1 ACACTAAGTGCCATAAATAGCCGAAGCTATTCT-AATCTCGC
* * * *
33259629 ACACTAAGTGCCATATATAGCCGAAGTTATTCCAA-ATCGC
1 ACACTAAGTGCCATAAATAGCCGAAGCTATTCTAATCTCGC
*
33259669 ACACTAAGTGTCATAAATAGCCGAAGCTAT
1 ACACTAAGTGCCATAAATAGCCGAAGCTAT
33259699 CTCGAATTTC
Statistics
Matches: 94, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
40 34 0.36
41 45 0.48
42 15 0.16
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.26
Consensus pattern (41 bp):
ACACTAAGTGCCATAAATAGCCGAAGCTATTCTAATCTCGC
Found at i:33259691 original size:81 final size:83
Alignment explanation
Indices: 33259546--33259701 Score: 208
Period size: 81 Copynumber: 1.9 Consensus size: 83
33259536 AATGTTTCTT
* * * * *
33259546 ACACTAATTGCCATCATATAGCCGAAGCTATTATAATCTCACACACTAAGTGCCTTACATAGCCG
1 ACACTAAGTGCCATCATATAGCCGAAGCTATTACAATATCACACACTAAGTGCCATAAATAGCCG
*
33259611 AAGCTTTCTCAGTCTCGC
66 AAGCTATCTCAGTCTCGC
* * * *
33259629 ACACTAAGTGCCAT-ATATAGCCGAAGTTATTCCAA-ATCGCACACTAAGTGTCATAAATAGCCG
1 ACACTAAGTGCCATCATATAGCCGAAGCTATTACAATATCACACACTAAGTGCCATAAATAGCCG
33259692 AAGCTATCTC
66 AAGCTATCTC
33259702 GAATTTCATA
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
81 32 0.51
82 18 0.29
83 13 0.21
ACGTcount: A:0.33, C:0.27, G:0.14, T:0.26
Consensus pattern (83 bp):
ACACTAAGTGCCATCATATAGCCGAAGCTATTACAATATCACACACTAAGTGCCATAAATAGCCG
AAGCTATCTCAGTCTCGC
Found at i:33265098 original size:21 final size:21
Alignment explanation
Indices: 33265073--33265116 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
33265063 TGAAATGATG
33265073 AAAATACAAATAAAATGT-CCT
1 AAAATACAAAT-AAATGTACCT
* *
33265094 AAAATGCAACTAAATGTACCT
1 AAAATACAAATAAATGTACCT
33265115 AA
1 AA
33265117 GTACAAGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.55, C:0.16, G:0.07, T:0.23
Consensus pattern (21 bp):
AAAATACAAATAAATGTACCT
Found at i:33272310 original size:62 final size:62
Alignment explanation
Indices: 33272213--33272334 Score: 226
Period size: 62 Copynumber: 2.0 Consensus size: 62
33272203 TTTTACTCAT
33272213 CCTTTTATTTTCAAGTTAAATTATGGGTAAATATACAAATAGTCACACTACTATAAGTGTAC
1 CCTTTTATTTTCAAGTTAAATTATGGGTAAATATACAAATAGTCACACTACTATAAGTGTAC
* *
33272275 CCTTTTATTTTCAATTTAAATTATGGGTAAGTATACAAATAGTCACACTACTATAAGTGT
1 CCTTTTATTTTCAAGTTAAATTATGGGTAAATATACAAATAGTCACACTACTATAAGTGT
33272335 GCTTCCGTTG
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 58 1.00
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (62 bp):
CCTTTTATTTTCAAGTTAAATTATGGGTAAATATACAAATAGTCACACTACTATAAGTGTAC
Found at i:33274773 original size:24 final size:24
Alignment explanation
Indices: 33274744--33274798 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 24
33274734 GCTTACTGTC
* *
33274744 ACTATCATCATAGTTTGCACTGTT
1 ACTATCATCATAGCTTGCACTATT
*
33274768 ATTATCATCATAGCTTGCACTATT
1 ACTATCATCATAGCTTGCACTATT
33274792 ACTATCA
1 ACTATCA
33274799 ACTTCTTTGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.40
Consensus pattern (24 bp):
ACTATCATCATAGCTTGCACTATT
Found at i:33279412 original size:185 final size:185
Alignment explanation
Indices: 33279100--33279473 Score: 748
Period size: 185 Copynumber: 2.0 Consensus size: 185
33279090 TGGTTGCACT
33279100 AGGCACTAAGTCAATTTGGTGCTCTATGCCTCACAAAGGTGGTAAATCATCAGGTGCCTCATTAA
1 AGGCACTAAGTCAATTTGGTGCTCTATGCCTCACAAAGGTGGTAAATCATCAGGTGCCTCATTAA
33279165 AAACATCATCATAATCCTGCAAAAGAGATGTAAAGACACTAGGCAAAAAATTGTTAAGGTTAGCT
66 AAACATCATCATAATCCTGCAAAAGAGATGTAAAGACACTAGGCAAAAAATTGTTAAGGTTAGCT
33279230 AATGATAAATAATTTTGCCTAAACCTCACAAGGATACAAGGTTGTTTGTGATATA
131 AATGATAAATAATTTTGCCTAAACCTCACAAGGATACAAGGTTGTTTGTGATATA
33279285 AGGCACTAAGTCAATTTGGTGCTCTATGCCTCACAAAGGTGGTAAATCATCAGGTGCCTCATTAA
1 AGGCACTAAGTCAATTTGGTGCTCTATGCCTCACAAAGGTGGTAAATCATCAGGTGCCTCATTAA
33279350 AAACATCATCATAATCCTGCAAAAGAGATGTAAAGACACTAGGCAAAAAATTGTTAAGGTTAGCT
66 AAACATCATCATAATCCTGCAAAAGAGATGTAAAGACACTAGGCAAAAAATTGTTAAGGTTAGCT
33279415 AATGATAAATAATTTTGCCTAAACCTCACAAGGATACAAGGTTGTTTGTGATATA
131 AATGATAAATAATTTTGCCTAAACCTCACAAGGATACAAGGTTGTTTGTGATATA
33279470 AGGC
1 AGGC
33279474 TCTCCTCACA
Statistics
Matches: 189, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
185 189 1.00
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.27
Consensus pattern (185 bp):
AGGCACTAAGTCAATTTGGTGCTCTATGCCTCACAAAGGTGGTAAATCATCAGGTGCCTCATTAA
AAACATCATCATAATCCTGCAAAAGAGATGTAAAGACACTAGGCAAAAAATTGTTAAGGTTAGCT
AATGATAAATAATTTTGCCTAAACCTCACAAGGATACAAGGTTGTTTGTGATATA
Found at i:33279718 original size:19 final size:20
Alignment explanation
Indices: 33279682--33279737 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 20
33279672 AATACTTAAT
* *
33279682 AATAATAAATTCAGAATAATAA
1 AATAATAAA-T-ATAATAAGAA
*
33279704 AATAATAAA-ATAAT-AGGA
1 AATAATAAATATAATAAGAA
33279722 AATAATAAATATAATA
1 AATAATAAATATAATA
33279738 TTAGGCTCAT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
18 11 0.38
19 9 0.31
22 9 0.31
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.27
Consensus pattern (20 bp):
AATAATAAATATAATAAGAA
Found at i:33279726 original size:10 final size:8
Alignment explanation
Indices: 33279696--33279737 Score: 57
Period size: 8 Copynumber: 4.9 Consensus size: 8
33279686 ATAAATTCAG
33279696 AATAATAA
1 AATAATAA
33279704 AATAATAA
1 AATAATAA
33279712 AATAATAGGA
1 AATAATA--A
33279722 AATAATAA
1 AATAATAA
33279730 ATATAATA
1 A-ATAATA
33279738 TTAGGCTCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
8 17 0.55
9 6 0.19
10 8 0.26
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (8 bp):
AATAATAA
Found at i:33280288 original size:8 final size:9
Alignment explanation
Indices: 33280267--33280294 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
33280257 GAAAATGAAC
33280267 TTTTTAAAA
1 TTTTTAAAA
33280276 TTTTTAAAA
1 TTTTTAAAA
33280285 TTTTTAAAA
1 TTTTTAAAA
33280294 T
1 T
33280295 ATTAAAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:33281718 original size:21 final size:22
Alignment explanation
Indices: 33281693--33281742 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
33281683 AAATATTTTT
*
33281693 TAAAAAT-ATATAAATAAATTC
1 TAAAAATAATATAAATAAATCC
*
33281714 -AAAAATAATATATATAAATCC
1 TAAAAATAATATAAATAAATCC
33281735 ATAAAAAT
1 -TAAAAAT
33281743 TAAAAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 6 0.25
21 12 0.50
23 6 0.25
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (22 bp):
TAAAAATAATATAAATAAATCC
Found at i:33282149 original size:9 final size:9
Alignment explanation
Indices: 33282091--33282154 Score: 62
Period size: 9 Copynumber: 7.3 Consensus size: 9
33282081 AATAAAAGAT
33282091 TAAAAA-TA
1 TAAAAATTA
33282099 -AAAAATTA
1 TAAAAATTA
*
33282107 TTAAAATATA
1 TAAAAAT-TA
33282117 TAAAAA-TA
1 TAAAAATTA
* *
33282125 TAGAATTTA
1 TAAAAATTA
*
33282134 AAAAAATTA
1 TAAAAATTA
33282143 TAAAAATTA
1 TAAAAATTA
33282152 TAA
1 TAA
33282155 GTTTTTATGT
Statistics
Matches: 44, Mismatches: 8, Indels: 7
0.75 0.14 0.12
Matches are distributed among these distances:
7 5 0.11
8 8 0.18
9 24 0.55
10 7 0.16
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (9 bp):
TAAAAATTA
Found at i:33282279 original size:28 final size:28
Alignment explanation
Indices: 33282226--33282283 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 28
33282216 ATTATAATCA
*
33282226 ATAAAAATTATAAAAAAATAGGGAAAAT
1 ATAAAAATTATAAAAAAATAGAGAAAAT
* * *
33282254 ATAAAAATTATTAAAAATTATAGAAAAT
1 ATAAAAATTATAAAAAAATAGAGAAAAT
33282282 AT
1 AT
33282284 TTAAGATTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.07, T:0.28
Consensus pattern (28 bp):
ATAAAAATTATAAAAAAATAGAGAAAAT
Found at i:33286321 original size:163 final size:163
Alignment explanation
Indices: 33286071--33286373 Score: 471
Period size: 163 Copynumber: 1.9 Consensus size: 163
33286061 AATGCTATTT
* *
33286071 GATTCCTAGTATAAATGCCTATATGTTACTTTTATATAATCCTACTATCCTTAAATTCCATGTCA
1 GATTCCTAGTATAAAGGCCTATATGATACTTTTATATAATCCTACTATCCTTAAATTCCATGTCA
* * * * * * *
33286136 CTTACATAATTTTTTTTAACAAAATGGTGACTTTGCTCTTTGATCTAACTTATAGGGATTAATTT
66 CTTACATAATTTTTTCTAACAAAAGGGTGACTTTGCTCTTTAATCTAACCTATAAGAACTAATTT
*
33286201 GCTTATTTTTAATAAAGAGGCAAAACGTAATCC
131 GCCTATTTTTAATAAAGAGGCAAAACGTAATCC
* * * *
33286234 GATTCCTAGTATAAGGGTCTATATGATATTTTTATGTAATCCTACTATCCTTAAATTCCATGTCA
1 GATTCCTAGTATAAAGGCCTATATGATACTTTTATATAATCCTACTATCCTTAAATTCCATGTCA
*
33286299 CTTACATAATTTTTTCTAACAAAAGGGTGAGTTTGCTCTTTAATCTAACCTATAAGAACTAATTT
66 CTTACATAATTTTTTCTAACAAAAGGGTGACTTTGCTCTTTAATCTAACCTATAAGAACTAATTT
33286364 GCCTATTTTT
131 GCCTATTTTT
33286374 TTTAGTAAAA
Statistics
Matches: 125, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
163 125 1.00
ACGTcount: A:0.31, C:0.16, G:0.11, T:0.42
Consensus pattern (163 bp):
GATTCCTAGTATAAAGGCCTATATGATACTTTTATATAATCCTACTATCCTTAAATTCCATGTCA
CTTACATAATTTTTTCTAACAAAAGGGTGACTTTGCTCTTTAATCTAACCTATAAGAACTAATTT
GCCTATTTTTAATAAAGAGGCAAAACGTAATCC
Found at i:33291762 original size:3 final size:3
Alignment explanation
Indices: 33291754--33291780 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
33291744 TGAAGGTAAA
33291754 GAG GAG GAG GAG GAG GAG GAG GAG GAG
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG
33291781 ATTTGAAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.67, T:0.00
Consensus pattern (3 bp):
GAG
Found at i:33298627 original size:18 final size:17
Alignment explanation
Indices: 33298599--33298633 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
33298589 NNNNNTAAGA
*
33298599 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
33298616 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
33298634 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:33298887 original size:16 final size:16
Alignment explanation
Indices: 33298866--33298904 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
33298856 TTGATTTGCT
*
33298866 ATTACACAGCTTTTCC
1 ATTACACAGCTATTCC
**
33298882 ATTACACCTCTATTCC
1 ATTACACAGCTATTCC
33298898 ATTACAC
1 ATTACAC
33298905 CTCTAATCCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.28, C:0.33, G:0.03, T:0.36
Consensus pattern (16 bp):
ATTACACAGCTATTCC
Found at i:33298905 original size:16 final size:16
Alignment explanation
Indices: 33298879--33298935 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
33298869 ACACAGCTTT
* *
33298879 TCCATTACACCTCTAT
1 TCCAATACACCTCTAA
*
33298895 TCCATTACACCTCTAA
1 TCCAATACACCTCTAA
33298911 TCCAATACACCTCTAA
1 TCCAATACACCTCTAA
33298927 TCCAATACA
1 TCCAATACA
33298936 GCGAACCAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.33, C:0.37, G:0.00, T:0.30
Consensus pattern (16 bp):
TCCAATACACCTCTAA
Found at i:33301410 original size:23 final size:23
Alignment explanation
Indices: 33301384--33301455 Score: 81
Period size: 23 Copynumber: 3.1 Consensus size: 23
33301374 TTCATTTAAC
33301384 TTAATCGAACATGTTCACGAACA
1 TTAATCGAACATGTTCACGAACA
* * *
33301407 TTAAACAAACATGTTCATGAACA
1 TTAATCGAACATGTTCACGAACA
* * *
33301430 TATAATTGAATATGTTCACAAACA
1 T-TAATCGAACATGTTCACGAACA
33301454 TT
1 TT
33301456 GTTAATAAAT
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
23 22 0.56
24 17 0.44
ACGTcount: A:0.43, C:0.17, G:0.10, T:0.31
Consensus pattern (23 bp):
TTAATCGAACATGTTCACGAACA
Found at i:33301417 original size:46 final size:47
Alignment explanation
Indices: 33301365--33301455 Score: 123
Period size: 47 Copynumber: 2.0 Consensus size: 47
33301355 TTTAATGTTC
* *
33301365 ACAAACATGTTCATTTAAC-T-TAATCGAACATGTTCACGAACATTAA
1 ACAAACATGTTCA-TGAACATATAATCGAACATGTTCACAAACATTAA
* *
33301411 ACAAACATGTTCATGAACATATAATTGAATATGTTCACAAACATT
1 ACAAACATGTTCATGAACATATAATCGAACATGTTCACAAACATT
33301456 GTTAATAAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
45 4 0.10
46 14 0.36
47 21 0.54
ACGTcount: A:0.43, C:0.18, G:0.09, T:0.31
Consensus pattern (47 bp):
ACAAACATGTTCATGAACATATAATCGAACATGTTCACAAACATTAA
Found at i:33304751 original size:25 final size:26
Alignment explanation
Indices: 33304705--33304753 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
33304695 ATTTCATATA
*
33304705 TATATTTGAACCACAATCAAAGTTTC
1 TATAATTGAACCACAATCAAAGTTTC
*
33304731 TATAATTGCACCA-AATCAAAGTT
1 TATAATTGAACCACAATCAAAGTT
33304754 CATATATCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 10 0.48
26 11 0.52
ACGTcount: A:0.41, C:0.18, G:0.08, T:0.33
Consensus pattern (26 bp):
TATAATTGAACCACAATCAAAGTTTC
Found at i:33304759 original size:25 final size:27
Alignment explanation
Indices: 33304704--33304759 Score: 73
Period size: 25 Copynumber: 2.2 Consensus size: 27
33304694 AATTTCATAT
*
33304704 ATATATTTGAACCACAATCAAAGTTTC
1 ATATAATTGAACCACAATCAAAGTTTC
*
33304731 -TATAATTGCACCA-AATCAAAG-TTC
1 ATATAATTGAACCACAATCAAAGTTTC
33304755 ATATA
1 ATATA
33304760 TCAAATTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 3 0.12
25 12 0.46
26 11 0.42
ACGTcount: A:0.43, C:0.18, G:0.07, T:0.32
Consensus pattern (27 bp):
ATATAATTGAACCACAATCAAAGTTTC
Found at i:33306498 original size:9 final size:9
Alignment explanation
Indices: 33306479--33306515 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
33306469 TGAGTTTTCG
*
33306479 AATTAGAAT
1 AATTCGAAT
*
33306488 AACTCGAAT
1 AATTCGAAT
33306497 AATTCGAAT
1 AATTCGAAT
33306506 AATTCGAAT
1 AATTCGAAT
33306515 A
1 A
33306516 TCAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:33307554 original size:5 final size:5
Alignment explanation
Indices: 33307544--33307569 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
33307534 CTCGAAAATT
33307544 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
33307570 CAAATGCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:33309307 original size:15 final size:15
Alignment explanation
Indices: 33309287--33309318 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
33309277 AATAAACACA
33309287 ATTTTATGAAAAAAT
1 ATTTTATGAAAAAAT
*
33309302 ATTTTATTAAAAAAT
1 ATTTTATGAAAAAAT
33309317 AT
1 AT
33309319 ATTCATATGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (15 bp):
ATTTTATGAAAAAAT
Found at i:33311005 original size:19 final size:19
Alignment explanation
Indices: 33310962--33311006 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
33310952 TTTTATTGTA
33310962 ACAAATAATAAAATATCTC
1 ACAAATAATAAAATATCTC
33310981 -CTAAATAATAAAATATCTC
1 AC-AAATAATAAAATATCTC
33311000 ACAAATA
1 ACAAATA
33311007 CTAATATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 1 0.04
19 22 0.92
20 1 0.04
ACGTcount: A:0.58, C:0.16, G:0.00, T:0.27
Consensus pattern (19 bp):
ACAAATAATAAAATATCTC
Found at i:33311134 original size:19 final size:19
Alignment explanation
Indices: 33311091--33311143 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
33311081 GGTAATTGTT
33311091 AGAGA-ATATTGTTATTTG
1 AGAGATATATTGTTATTTG
*
33311109 TGAGATATATTGTTATTT-
1 AGAGATATATTGTTATTTG
*
33311127 AGAGGATATTTTGTTAT
1 AGA-GATATATTGTTAT
33311144 GTGTCATATA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
18 6 0.20
19 24 0.80
ACGTcount: A:0.30, C:0.00, G:0.21, T:0.49
Consensus pattern (19 bp):
AGAGATATATTGTTATTTG
Found at i:33311784 original size:21 final size:21
Alignment explanation
Indices: 33311758--33311816 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 21
33311748 AGCTACAAAA
* *
33311758 TTCTACCGGTAGAACTCCTA-G
1 TTCTACCGATACAACT-CTAGG
33311779 TTCTACCGATACAACTCTAGG
1 TTCTACCGATACAACTCTAGG
*
33311800 TTCTATCGATACAACTC
1 TTCTACCGATACAACTC
33311817 GGACTTCTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
20 3 0.09
21 31 0.91
ACGTcount: A:0.27, C:0.29, G:0.14, T:0.31
Consensus pattern (21 bp):
TTCTACCGATACAACTCTAGG
Found at i:33311824 original size:21 final size:20
Alignment explanation
Indices: 33311778--33311831 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 20
33311768 AGAACTCCTA
*
33311778 GTTCTACCGATACAACTCTAG
1 GTTCTATCGATACAACTC-AG
33311799 GTTCTATCGATACAACTC-G
1 GTTCTATCGATACAACTCAG
33311818 GACTTCTATCGATA
1 G--TTCTATCGATA
33311832 GAACGCACTC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 2 0.07
21 28 0.93
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (20 bp):
GTTCTATCGATACAACTCAG
Found at i:33318082 original size:30 final size:30
Alignment explanation
Indices: 33318039--33318132 Score: 81
Period size: 30 Copynumber: 3.2 Consensus size: 30
33318029 CATAAAGGCT
*
33318039 CACATATGATAGAGAACAACCATAGAGGCTTC
1 CACATAT-CTAGAGAACAACCATA-AGGCTTC
* *
33318071 CACTTAT-TAGAGAACCAA--A-AAGGTTTC
1 CACATATCTAGAGAA-CAACCATAAGGCTTC
*
33318098 CACATATCTA-AGAACAGCCATAAAGGCTTC
1 CACATATCTAGAGAACAACCAT-AAGGCTTC
33318128 CACAT
1 CACAT
33318133 TTTGATAAAT
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
26 2 0.04
27 16 0.31
28 4 0.08
29 1 0.02
30 19 0.37
31 3 0.06
32 6 0.12
ACGTcount: A:0.40, C:0.23, G:0.15, T:0.21
Consensus pattern (30 bp):
CACATATCTAGAGAACAACCATAAGGCTTC
Found at i:33319367 original size:5 final size:5
Alignment explanation
Indices: 33319357--33319388 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
33319347 ATAATTTTAC
33319357 AATAA AATAA AATAA AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AATAA AATAA AATAA AA
33319389 CCAAAATGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:33320339 original size:25 final size:25
Alignment explanation
Indices: 33320305--33320380 Score: 75
Period size: 25 Copynumber: 3.0 Consensus size: 25
33320295 CCACAACTCT
*
33320305 TATGATCTTACTGATTTTCAGCTCG
1 TATGAGCTTACTGATTTTCAGCTCG
33320330 TATGAGCTTA-TCGATTCTT-AGCTCG
1 TATGAGCTTACT-GATT-TTCAGCTCG
* * **
33320355 TATAAGCTTACCGATTCACAGCTCG
1 TATGAGCTTACTGATTTTCAGCTCG
33320380 T
1 T
33320381 GAGAGCATAC
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
24 1 0.02
25 39 0.93
26 2 0.05
ACGTcount: A:0.22, C:0.22, G:0.17, T:0.38
Consensus pattern (25 bp):
TATGAGCTTACTGATTTTCAGCTCG
Found at i:33320391 original size:25 final size:25
Alignment explanation
Indices: 33320323--33320415 Score: 89
Period size: 25 Copynumber: 3.7 Consensus size: 25
33320313 TACTGATTTT
* * * *
33320323 CAGCTCGTATGAGCTTATCGATTCT
1 CAGCTCGTATGAGCATACCAATTCA
* * * *
33320348 TAGCTCGTATAAGCTTACCGATTCA
1 CAGCTCGTATGAGCATACCAATTCA
33320373 CAGCTCGTGA-GAGCATACCAATTCA
1 CAGCTCGT-ATGAGCATACCAATTCA
*
33320398 TAGCTCGTATGAGCATAC
1 CAGCTCGTATGAGCATAC
33320416 ATGTATAGGA
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
24 1 0.02
25 55 0.96
26 1 0.02
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (25 bp):
CAGCTCGTATGAGCATACCAATTCA
Found at i:33321078 original size:20 final size:20
Alignment explanation
Indices: 33321053--33321095 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
33321043 TAATGAGACT
*
33321053 AAATGC-AATGGAAAATAATG
1 AAATGCAAAT-GAAAATAAGG
33321073 AAATGCAAATGAAAATAAGG
1 AAATGCAAATGAAAATAAGG
33321093 AAA
1 AAA
33321096 ATTTTAAAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 18 0.86
21 3 0.14
ACGTcount: A:0.60, C:0.05, G:0.19, T:0.16
Consensus pattern (20 bp):
AAATGCAAATGAAAATAAGG
Found at i:33324402 original size:20 final size:20
Alignment explanation
Indices: 33324377--33324421 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
33324367 AATTGCTAAC
*
33324377 AGAGGCACCGAAGTGTAATT
1 AGAGGCACCGAAGTGCAATT
*
33324397 AGAGGCATCGAAGTGCAATT
1 AGAGGCACCGAAGTGCAATT
33324417 AGAGG
1 AGAGG
33324422 GGTGGTAGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.36, C:0.13, G:0.33, T:0.18
Consensus pattern (20 bp):
AGAGGCACCGAAGTGCAATT
Found at i:33326977 original size:3 final size:3
Alignment explanation
Indices: 33326969--33327078 Score: 66
Period size: 3 Copynumber: 36.7 Consensus size: 3
33326959 TAATTATTGA
* * * *
33326969 TAT TAT TAT CAT TGAT TAA TAT TAT TAT TAC TAT TA- TAGT T-G TAT
1 TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT
* * * * * *
33327014 TAT TACT TAC TAC CAT GAT TAC TAT TAT CT-T TAT T-C TAT TAT TAT
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT
33327059 TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TA
33327079 GTTTTTGCTA
Statistics
Matches: 82, Mismatches: 17, Indels: 16
0.71 0.15 0.14
Matches are distributed among these distances:
2 5 0.06
3 69 0.84
4 8 0.10
ACGTcount: A:0.32, C:0.08, G:0.04, T:0.56
Consensus pattern (3 bp):
TAT
Found at i:33333682 original size:21 final size:21
Alignment explanation
Indices: 33333658--33333702 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
33333648 TGATGTCGCA
*
33333658 ACACAGACTAGTGGTGTCATG
1 ACACAGACTAGTGGTGTCACG
*
33333679 ACACAGTCTAGTGGTGTCACG
1 ACACAGACTAGTGGTGTCACG
33333700 ACA
1 ACA
33333703 TGCCCCTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.29, C:0.22, G:0.27, T:0.22
Consensus pattern (21 bp):
ACACAGACTAGTGGTGTCACG
Found at i:33335622 original size:13 final size:13
Alignment explanation
Indices: 33335604--33335629 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
33335594 ACATATAGAG
33335604 AAAAAGAAAATGT
1 AAAAAGAAAATGT
33335617 AAAAAGAAAATGT
1 AAAAAGAAAATGT
33335630 TTGACGAAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.15, T:0.15
Consensus pattern (13 bp):
AAAAAGAAAATGT
Found at i:33336884 original size:29 final size:27
Alignment explanation
Indices: 33336764--33336928 Score: 91
Period size: 29 Copynumber: 5.8 Consensus size: 27
33336754 ATAAGTGAGC
* *
33336764 CTTTATGGCGATCTTTGTTCAAAGGAAG
1 CTTTGTGGCGATCTCTGTT-AAAGGAAG
* * *
33336792 CCTTTGTGGCAATCTTTGTTAAATAGAAG
1 -CTTTGTGGCGATCTCTGTTAAA-GGAAG
* * **
33336821 CTTTTGTGGTGATCACTGTTTAAAGGGTG
1 C-TTTGTGGCGATCTCTG-TTAAAGGAAG
*
33336850 CATTTGTGGCGATCTCTGTTAAATGGATG
1 C-TTTGTGGCGATCTCTGTTAAA-GGAAG
* * *
33336879 TCTTTGTGGCTATCTCAGCTTAAA-AAATG
1 -CTTTGTGGCGATCTCTG-TTAAAGGAA-G
**
33336908 CTTTGTGGAAAT-TCTGTTAAA
1 CTTTGTGGCGATCTCTGTTAAA
33336929 ATAACACCTT
Statistics
Matches: 108, Mismatches: 21, Indels: 17
0.74 0.14 0.12
Matches are distributed among these distances:
26 5 0.05
27 3 0.03
28 20 0.19
29 69 0.64
30 11 0.10
ACGTcount: A:0.24, C:0.13, G:0.24, T:0.39
Consensus pattern (27 bp):
CTTTGTGGCGATCTCTGTTAAAGGAAG
Found at i:33342260 original size:71 final size:70
Alignment explanation
Indices: 33342120--33342260 Score: 237
Period size: 71 Copynumber: 2.0 Consensus size: 70
33342110 AAAGTTGGTT
* *
33342120 ACAATCGAGAATTGAGTTGATAAACTGCCAAACTAAAAAATCAAATGCTGAATTAAAGTAATTAA
1 ACAATCGAGAATCGAGTTGATAAACTGCCAAACTAAAAAATCAAATGCTGAATTAAAATAATTAA
33342185 CATCA
66 CATCA
* *
33342190 ACAATCGAGAATCGAGTTGATAAATTGTCAAACTAAAAAAATCAAATGCTGAATTAAAATAATTA
1 ACAATCGAGAATCGAGTTGATAAACTGCCAAACT-AAAAAATCAAATGCTGAATTAAAATAATTA
33342255 ACATCA
65 ACATCA
33342261 GCAAGAAATA
Statistics
Matches: 66, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
70 31 0.47
71 35 0.53
ACGTcount: A:0.50, C:0.13, G:0.12, T:0.25
Consensus pattern (70 bp):
ACAATCGAGAATCGAGTTGATAAACTGCCAAACTAAAAAATCAAATGCTGAATTAAAATAATTAA
CATCA
Found at i:33343269 original size:5 final size:5
Alignment explanation
Indices: 33343259--33343319 Score: 90
Period size: 5 Copynumber: 12.6 Consensus size: 5
33343249 ACGCATAATA
*
33343259 AAATC AAATC AAATC AAATC AAATC AAATC GAATC AAATC AAATC AAA--
1 AAATC AAATC AAATC AAATC AAATC AAATC AAATC AAATC AAATC AAATC
*
33343307 AAATA AAATC AAA
1 AAATC AAATC AAA
33343320 ATAAAAAATA
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
3 3 0.06
5 48 0.94
ACGTcount: A:0.64, C:0.16, G:0.02, T:0.18
Consensus pattern (5 bp):
AAATC
Found at i:33343315 original size:13 final size:13
Alignment explanation
Indices: 33343294--33343346 Score: 65
Period size: 13 Copynumber: 4.2 Consensus size: 13
33343284 AAATCGAATC
*
33343294 AAATCAAATCAAA
1 AAATAAAATCAAA
33343307 AAATAAAATCAAA
1 AAATAAAATCAAA
33343320 ATAA-AAAAT-AAA
1 A-AATAAAATCAAA
*
33343332 AAATAAAAACAAA
1 AAATAAAATCAAA
33343345 AA
1 AA
33343347 CAAAAACACA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
11 2 0.06
12 8 0.23
13 23 0.66
14 2 0.06
ACGTcount: A:0.79, C:0.08, G:0.00, T:0.13
Consensus pattern (13 bp):
AAATAAAATCAAA
Found at i:33343346 original size:12 final size:12
Alignment explanation
Indices: 33343305--33343378 Score: 60
Period size: 12 Copynumber: 6.0 Consensus size: 12
33343295 AATCAAATCA
*
33343305 AAAAATAAAATC
1 AAAAATAAAAAC
*
33343317 -AAAATAAAAAATA
1 AAAAAT-AAAAA-C
33343330 AAAAATAAAAAC
1 AAAAATAAAAAC
*
33343342 AAAAACAAAAAC
1 AAAAATAAAAAC
* * *
33343354 ACAAACACAAAC
1 AAAAATAAAAAC
33343366 AAAAATATAAAAC
1 AAAAATA-AAAAC
33343379 TAAATTAGAT
Statistics
Matches: 49, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
11 5 0.10
12 30 0.61
13 9 0.18
14 5 0.10
ACGTcount: A:0.78, C:0.12, G:0.00, T:0.09
Consensus pattern (12 bp):
AAAAATAAAAAC
Found at i:33343351 original size:18 final size:18
Alignment explanation
Indices: 33343330--33343378 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
33343320 ATAAAAAATA
33343330 AAAAATAAAAACAAAAAC
1 AAAAATAAAAACAAAAAC
* * *
33343348 AAAAACACAAACACAAAC
1 AAAAATAAAAACAAAAAC
33343366 AAAAATATAAAAC
1 AAAAATA-AAAAC
33343379 TAAATTAGAT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
18 21 0.84
19 4 0.16
ACGTcount: A:0.78, C:0.16, G:0.00, T:0.06
Consensus pattern (18 bp):
AAAAATAAAAACAAAAAC
Found at i:33343353 original size:6 final size:6
Alignment explanation
Indices: 33343330--33343370 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
33343320 ATAAAAAATA
* * *
33343330 AAAAAT AAAAAC AAAAAC AAAAAC ACAAAC ACAAAC AAAAA
1 AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAAA
33343371 TATAAAACTA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.80, C:0.17, G:0.00, T:0.02
Consensus pattern (6 bp):
AAAAAC
Found at i:33353571 original size:45 final size:45
Alignment explanation
Indices: 33353496--33353596 Score: 118
Period size: 45 Copynumber: 2.2 Consensus size: 45
33353486 AACGAGAATA
33353496 GTAATCAGTAACAGTAACAGCATTCAACACACAAAGTG-CTGAATCT-
1 GTAA-CAGTAACAGTAACAGCATTCAACACACAAAGTGTCT-AAT-TG
* * *
33353542 GTAACAGTAACGGTAACAGTA-TCTGACACACAAAGTGTCTAATTG
1 GTAACAGTAACAGTAACAGCATTC-AACACACAAAGTGTCTAATTG
33353587 GTAACAGTAA
1 GTAACAGTAA
33353597 TCGGCGCATA
Statistics
Matches: 49, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
44 3 0.06
45 40 0.82
46 6 0.12
ACGTcount: A:0.41, C:0.19, G:0.18, T:0.23
Consensus pattern (45 bp):
GTAACAGTAACAGTAACAGCATTCAACACACAAAGTGTCTAATTG
Found at i:33354568 original size:16 final size:17
Alignment explanation
Indices: 33354533--33354566 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
33354523 TAAACCCTAG
33354533 TTTTTCCTTTTTTTCTC
1 TTTTTCCTTTTTTTCTC
*
33354550 TTTTTCTTTTTCTTTCT
1 TTTTTCCTTTT-TTTCT
33354567 TTCTTTCTCC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTTCCTTTTTTTCTC
Found at i:33354657 original size:23 final size:23
Alignment explanation
Indices: 33354611--33354657 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
33354601 TTGCCTATTC
*
33354611 TGTTTTTTTCTTTTCTTTTGCTT
1 TGTTTTTTTCTTTTCTTTTACTT
*
33354634 TGTTTTTTTTTATTTC-TTTACTT
1 TGTTTTTTTCT-TTTCTTTTACTT
33354657 T
1 T
33354658 ATATTATACT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 17 0.81
24 4 0.19
ACGTcount: A:0.04, C:0.11, G:0.06, T:0.79
Consensus pattern (23 bp):
TGTTTTTTTCTTTTCTTTTACTT
Found at i:33354940 original size:11 final size:11
Alignment explanation
Indices: 33354920--33354979 Score: 65
Period size: 11 Copynumber: 5.6 Consensus size: 11
33354910 TAGAAAATTA
33354920 AAAAAGTATTTT
1 AAAAA-TATTTT
33354932 AAAAATATTTT
1 AAAAATATTTT
*
33354943 AAAAATA---A
1 AAAAATATTTT
33354951 AAAAATATTTT
1 AAAAATATTTT
33354962 -AAAATATTTTT
1 AAAAATA-TTTT
33354973 AAAAATA
1 AAAAATA
33354980 AAAGATATAT
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
8 7 0.17
10 6 0.15
11 17 0.41
12 11 0.27
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:33354952 original size:30 final size:30
Alignment explanation
Indices: 33354906--33354982 Score: 111
Period size: 30 Copynumber: 2.5 Consensus size: 30
33354896 ACCAAAATTT
*
33354906 TTTTTAGAAAATTAAAAAAGTATTTTAAAA-A
1 TTTTTA-AAAA-TAAAAAAATATTTTAAAATA
33354937 TATTTTAAAAATAAAAAAATATTTTAAAATA
1 T-TTTTAAAAATAAAAAAATATTTTAAAATA
33354968 TTTTTAAAAATAAAA
1 TTTTTAAAAATAAAA
33354983 GATATATATT
Statistics
Matches: 43, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
30 31 0.72
31 7 0.16
32 5 0.12
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (30 bp):
TTTTTAAAAATAAAAAAATATTTTAAAATA
Found at i:33355583 original size:35 final size:35
Alignment explanation
Indices: 33355529--33355607 Score: 101
Period size: 35 Copynumber: 2.3 Consensus size: 35
33355519 TATTTAATAC
* *
33355529 TATAATAT-CATTATAATTTAATTATCATAAATTCA
1 TATAATATAAATTATAATTTAAATATCATAAATT-A
*
33355564 TATAATATAAATTAT-ATTTAAATATCATTAATTA
1 TATAATATAAATTATAATTTAAATATCATAAATTA
33355598 TATAAT-TAAA
1 TATAATATAAA
33355608 ACACATAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
33 4 0.10
34 7 0.17
35 24 0.60
36 5 0.12
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (35 bp):
TATAATATAAATTATAATTTAAATATCATAAATTA
Found at i:33357395 original size:50 final size:49
Alignment explanation
Indices: 33357301--33357422 Score: 127
Period size: 50 Copynumber: 2.4 Consensus size: 49
33357291 CATTGAGGTT
* * * *** *
33357301 ATGAGAGGTCCCATTAAGACCATGTTTGGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCAGTAAGACCATGTCTGGAACATGGCAAGGGCACCAAG
* *
33357350 ATGAGAGGTCCCCCGTAAGACCATGTCTGGAACATGGCAAGGGCACCAAT
1 ATGAGAGGT-CCCAGTAAGACCATGTCTGGAACATGGCAAGGGCACCAAG
**
33357400 ATGAGAACTCCCATGTAAGACCA
1 ATGAGAGGTCCCA-GTAAGACCA
33357423 AATTTGGGAT
Statistics
Matches: 59, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
49 12 0.20
50 47 0.80
ACGTcount: A:0.30, C:0.24, G:0.28, T:0.19
Consensus pattern (49 bp):
ATGAGAGGTCCCAGTAAGACCATGTCTGGAACATGGCAAGGGCACCAAG
Found at i:33363605 original size:12 final size:12
Alignment explanation
Indices: 33363588--33363612 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
33363578 GGGGGAGAAA
33363588 TGTTATGAAAAT
1 TGTTATGAAAAT
33363600 TGTTATGAAAAT
1 TGTTATGAAAAT
33363612 T
1 T
33363613 TCCATTGGAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.16, T:0.44
Consensus pattern (12 bp):
TGTTATGAAAAT
Found at i:33364679 original size:50 final size:50
Alignment explanation
Indices: 33364592--33364715 Score: 167
Period size: 50 Copynumber: 2.5 Consensus size: 50
33364582 GGTAACGAGA
* * * **
33364592 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCACGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAAC
* *
33364642 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
1 TCCCACGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAAC
* *
33364692 TCCCATGTAAGACCATATCTGGGA
1 TCCCACGTAAGACCATGTCTGGGA
33364716 TATGACATTG
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 64 1.00
ACGTcount: A:0.26, C:0.25, G:0.29, T:0.20
Consensus pattern (50 bp):
TCCCACGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAAC
Found at i:33367691 original size:34 final size:34
Alignment explanation
Indices: 33367648--33367716 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
33367638 TGAATCCGAA
*
33367648 CAAGGACAAAGATAACAACAATATACACGAGCTT
1 CAAGGACAAAGACAACAACAATATACACGAGCTT
33367682 CAAGGACAAAGACAACAACAATATACACGAGCTT
1 CAAGGACAAAGACAACAACAATATACACGAGCTT
33367716 C
1 C
33367717 TACTTCTTAC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.49, C:0.23, G:0.14, T:0.13
Consensus pattern (34 bp):
CAAGGACAAAGACAACAACAATATACACGAGCTT
Found at i:33374619 original size:38 final size:38
Alignment explanation
Indices: 33374577--33374652 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
33374567 AAGTAGCCTA
33374577 GGAATAGTATTCTCCATTCGATTCTTTCTCATTTCTTT
1 GGAATAGTATTCTCCATTCGATTCTTTCTCATTTCTTT
33374615 GGAATAGTATTCTCCATTCGATTCTTTCTCATTTCTTT
1 GGAATAGTATTCTCCATTCGATTCTTTCTCATTTCTTT
33374653 AAAAACGCTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.18, C:0.21, G:0.11, T:0.50
Consensus pattern (38 bp):
GGAATAGTATTCTCCATTCGATTCTTTCTCATTTCTTT
Found at i:33379577 original size:29 final size:29
Alignment explanation
Indices: 33379544--33379613 Score: 86
Period size: 29 Copynumber: 2.4 Consensus size: 29
33379534 CAAATGCTTC
** *
33379544 CACATATAATAGGTTCTGCAACAAAGGCT
1 CACATATAATAGGTTCAACAACAAAGACT
* *
33379573 CACATATAACAGGTTCAACCACAAAGACT
1 CACATATAATAGGTTCAACAACAAAGACT
*
33379602 AACATATAATAG
1 CACATATAATAG
33379614 ATTTAGTCAC
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.44, C:0.21, G:0.13, T:0.21
Consensus pattern (29 bp):
CACATATAATAGGTTCAACAACAAAGACT
Found at i:33379847 original size:54 final size:52
Alignment explanation
Indices: 33379788--33379938 Score: 171
Period size: 54 Copynumber: 2.8 Consensus size: 52
33379778 GTGGCCGTCC
*
33379788 TTTCCCTATATGATGTTATAGCTAATGGCTAGGCTTTACACTATATGGTCTTCA
1 TTTCCC-ATATGATGTCATAGCTAATGGCTAGGC-TTACACTATATGGTCTTCA
* * * *
33379842 TTTCCCCATATGACT-CCGTAGCTAACGACTAGGACTTACACTATATGGTCTTCA
1 TTT-CCCATATGA-TGTCATAGCTAATGGCTAGG-CTTACACTATATGGTCTTCA
* *
33379896 TTT-CCAGATGATGTCATAGCTAATGGCAAGGCGTTACACTATA
1 TTTCCCATATGATGTCATAGCTAATGGCTAGGC-TTACACTATA
33379939 CGGTGTTCGC
Statistics
Matches: 81, Mismatches: 11, Indels: 12
0.78 0.11 0.12
Matches are distributed among these distances:
51 2 0.02
52 30 0.37
54 44 0.54
55 5 0.06
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.34
Consensus pattern (52 bp):
TTTCCCATATGATGTCATAGCTAATGGCTAGGCTTACACTATATGGTCTTCA
Found at i:33380100 original size:16 final size:16
Alignment explanation
Indices: 33380063--33380093 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
33380053 ACATAGACTC
*
33380063 CTCATTTAGAGACTTA
1 CTCATGTAGAGACTTA
33380079 CTCATGTAGAGACTT
1 CTCATGTAGAGACTT
33380094 CATCATGCTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.35
Consensus pattern (16 bp):
CTCATGTAGAGACTTA
Found at i:33383969 original size:20 final size:19
Alignment explanation
Indices: 33383923--33383970 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
33383913 CGTCCAATGG
33383923 ATTTTCATATAGCTTAGTA
1 ATTTTCATATAGCTTAGTA
*
33383942 ATTCTCATATAGCCTTAAG-A
1 ATTTTCATATAG-CTT-AGTA
33383962 ATTTTCATA
1 ATTTTCATA
33383971 CATCTTTCTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 11 0.44
20 12 0.48
21 2 0.08
ACGTcount: A:0.33, C:0.15, G:0.08, T:0.44
Consensus pattern (19 bp):
ATTTTCATATAGCTTAGTA
Found at i:33391472 original size:89 final size:89
Alignment explanation
Indices: 33391363--33391588 Score: 269
Period size: 89 Copynumber: 2.5 Consensus size: 89
33391353 AGCCAAAGCT
* * * * * *
33391363 ATCCCTTTCCATATTTTGATAG-CTGAAGTCATCCGTTTTCATAATTCGATGGTTGTCACCATCT
1 ATCCCTTTCAATAATTTGATAGTC-GAAGCCATCCCTTTTCATAATTCGATGGTCGTCACCATCC
33391427 CTTTTCATTGTTGATTGTCGTCACC
65 CTTTTCATTGTTGATTGTCGTCACC
*
33391452 ATCCCTTTTAATAATTTGATAGTCGAAGCCATCCCTTTTCATAATTCGATGGTCGTCACCATCCC
1 ATCCCTTTCAATAATTTGATAGTCGAAGCCATCCCTTTTCATAATTCGATGGTCGTCACCATCCC
* * *
33391517 TTTTCATTGTTGATTGT-TTAAAGCT
66 TTTTCATTGTTGATTGTCGT-CA-CC
* **
33391542 ATCCCTTTTC-ATAATTTGATAGTCGAAGCTATCTTTTTTTCATAATT
1 ATCCC-TTTCAATAATTTGATAGTCGAAGCCATC-CCTTTTCATAATT
33391589 TGATAGCTGA
Statistics
Matches: 118, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
88 1 0.01
89 74 0.63
90 29 0.25
91 14 0.12
ACGTcount: A:0.22, C:0.22, G:0.13, T:0.43
Consensus pattern (89 bp):
ATCCCTTTCAATAATTTGATAGTCGAAGCCATCCCTTTTCATAATTCGATGGTCGTCACCATCCC
TTTTCATTGTTGATTGTCGTCACC
Found at i:33391571 original size:30 final size:30
Alignment explanation
Indices: 33391358--33391675 Score: 213
Period size: 30 Copynumber: 10.6 Consensus size: 30
33391348 TCGATAGCCA
* * *
33391358 AAGCTATCCCTTTCCATATTTTGATAG-CTG
1 AAGCCATCCCTTTTCATAATTTGATAGTC-G
* * * * *
33391388 AAGTCATCCGTTTTCATAATTCGATGGTTG
1 AAGCCATCCCTTTTCATAATTTGATAGTCG
* * *
33391418 TCA-CCATCTCTTTTCAT--TGTTGATTGTCG
1 -AAGCCATCCCTTTTCATAAT-TTGATAGTCG
* *
33391447 TCA-CCATCCCTTTTAATAATTTGATAGTCG
1 -AAGCCATCCCTTTTCATAATTTGATAGTCG
* *
33391477 AAGCCATCCCTTTTCATAATTCGATGGTCG
1 AAGCCATCCCTTTTCATAATTTGATAGTCG
* * **
33391507 TCA-CCATCCCTTTTCAT--TGTTGATTGTTTA
1 -AAGCCATCCCTTTTCATAAT-TTGATAG-TCG
*
33391537 AAGCTATCCCTTTTCATAATTTGATAGTCG
1 AAGCCATCCCTTTTCATAATTTGATAGTCG
* **
33391567 AAGCTATCTTTTTTTCATAATTTGATAG-CTG
1 AAGCCATC-CCTTTTCATAATTTGATAGTC-G
* * * *
33391598 AAGCCATCCATTTCCATATTTTGATAGTCA
1 AAGCCATCCCTTTTCATAATTTGATAGTCG
* *
33391628 AAGCCATCCCTTTTCCATATTTTGATAGCCG
1 AAGCCATCCCTTTT-CATAATTTGATAGTCG
*
33391659 AATCCATCCCTTTTCAT
1 AAGCCATCCCTTTTCAT
33391676 TGGTCGATGA
Statistics
Matches: 227, Mismatches: 45, Indels: 32
0.75 0.15 0.11
Matches are distributed among these distances:
28 2 0.01
29 29 0.13
30 133 0.59
31 62 0.27
32 1 0.00
ACGTcount: A:0.23, C:0.23, G:0.13, T:0.41
Consensus pattern (30 bp):
AAGCCATCCCTTTTCATAATTTGATAGTCG
Found at i:33391621 original size:61 final size:61
Alignment explanation
Indices: 33391450--33391667 Score: 158
Period size: 61 Copynumber: 3.6 Consensus size: 61
33391440 ATTGTCGTCA
* * * * * * **
33391450 CCATCCCTTTT-AATAATTTGATAGTCGAAGCCATCCCTTTTCATAATTCGATGGTCGTCA-
1 CCATCCCTTTTCCATAATTTGATAGCCGAAGCCATCCATTTCCATAATTTGATAGTC-AAAG
* *** * * * *
33391510 CCATCCCTTTT-CAT--TGTTGATTGTTTAAAGCTATCCCTTTTCATAATTTGATAGTCGAAG
1 CCATCCCTTTTCCATAAT-TTGATAG-CCGAAGCCATCCATTTCCATAATTTGATAGTCAAAG
* ** * * *
33391570 CTATCTTTTTTTCATAATTTGATAGCTGAAGCCATCCATTTCCATATTTTGATAGTCAAAG
1 CCATCCCTTTTCCATAATTTGATAGCCGAAGCCATCCATTTCCATAATTTGATAGTCAAAG
* *
33391631 CCATCCCTTTTCCATATTTTGATAGCCGAATCCATCC
1 CCATCCCTTTTCCATAATTTGATAGCCGAAGCCATCC
33391668 CTTTTCATTG
Statistics
Matches: 125, Mismatches: 27, Indels: 11
0.77 0.17 0.07
Matches are distributed among these distances:
58 1 0.01
59 7 0.06
60 48 0.38
61 62 0.50
62 6 0.05
63 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.12, T:0.40
Consensus pattern (61 bp):
CCATCCCTTTTCCATAATTTGATAGCCGAAGCCATCCATTTCCATAATTTGATAGTCAAAG
Found at i:33399165 original size:30 final size:29
Alignment explanation
Indices: 33399124--33399255 Score: 165
Period size: 29 Copynumber: 4.5 Consensus size: 29
33399114 ATAGCTAAAG
* *
33399124 CCATCCATTTTCATAATTCAATGGTCGTCA
1 CCATCCCTTTTCATAATT-GATGGTCGTCA
**
33399154 CCATCCCTTTTCATTGTTGATGGTCGTCA
1 CCATCCCTTTTCATAATTGATGGTCGTCA
*
33399183 CCATCCCTTTTCATAATTCGATGGCCGTCA
1 CCATCCCTTTTCATAATT-GATGGTCGTCA
** * *
33399213 CCATCCCTTTTCATTGTTGATGGTCATTA
1 CCATCCCTTTTCATAATTGATGGTCGTCA
33399242 CCATCCCTTTTCAT
1 CCATCCCTTTTCAT
33399256 GATTTGATAG
Statistics
Matches: 89, Mismatches: 12, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
29 48 0.54
30 41 0.46
ACGTcount: A:0.19, C:0.30, G:0.12, T:0.39
Consensus pattern (29 bp):
CCATCCCTTTTCATAATTGATGGTCGTCA
Found at i:33399185 original size:29 final size:29
Alignment explanation
Indices: 33399144--33399255 Score: 170
Period size: 29 Copynumber: 3.8 Consensus size: 29
33399134 TCATAATTCA
33399144 ATGGTCGTCACCATCCCTTTTCATTGTTG
1 ATGGTCGTCACCATCCCTTTTCATTGTTG
**
33399173 ATGGTCGTCACCATCCCTTTTCATAATTCG
1 ATGGTCGTCACCATCCCTTTTCATTGTT-G
*
33399203 ATGGCCGTCACCATCCCTTTTCATTGTTG
1 ATGGTCGTCACCATCCCTTTTCATTGTTG
* *
33399232 ATGGTCATTACCATCCCTTTTCAT
1 ATGGTCGTCACCATCCCTTTTCAT
33399256 GATTTGATAG
Statistics
Matches: 74, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
29 48 0.65
30 26 0.35
ACGTcount: A:0.17, C:0.29, G:0.14, T:0.39
Consensus pattern (29 bp):
ATGGTCGTCACCATCCCTTTTCATTGTTG
Found at i:33399197 original size:59 final size:59
Alignment explanation
Indices: 33399124--33399255 Score: 219
Period size: 59 Copynumber: 2.2 Consensus size: 59
33399114 ATAGCTAAAG
* * *
33399124 CCATCCATTTTCATAATTCAATGGTCGTCACCATCCCTTTTCATTGTTGATGGTCGTCA
1 CCATCCCTTTTCATAATTCAATGGCCGTCACCATCCCTTTTCATTGTTGATGGTCATCA
* *
33399183 CCATCCCTTTTCATAATTCGATGGCCGTCACCATCCCTTTTCATTGTTGATGGTCATTA
1 CCATCCCTTTTCATAATTCAATGGCCGTCACCATCCCTTTTCATTGTTGATGGTCATCA
33399242 CCATCCCTTTTCAT
1 CCATCCCTTTTCAT
33399256 GATTTGATAG
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
59 68 1.00
ACGTcount: A:0.19, C:0.30, G:0.12, T:0.39
Consensus pattern (59 bp):
CCATCCCTTTTCATAATTCAATGGCCGTCACCATCCCTTTTCATTGTTGATGGTCATCA
Found at i:33399276 original size:30 final size:30
Alignment explanation
Indices: 33399072--33399436 Score: 196
Period size: 30 Copynumber: 12.2 Consensus size: 30
33399062 TACCACCCCA
* * *
33399072 TTTT-ATAATTTGATATCTGAAGCTATCCC
1 TTTTCATAATTTGATAGCCGAAGCCATCCC
* * * ** *
33399101 TTTCCATATTTTTATAGCTAAAGCCATCCA
1 TTTTCATAATTTGATAGCCGAAGCCATCCC
** * * *
33399131 TTTTCATAATTCAATGGTCGTCA-CCATCCC
1 TTTTCATAATTTGATAGCCG-AAGCCATCCC
* * *
33399161 TTTTCAT--TGTTGATGGTCGTCA-CCATCCC
1 TTTTCATAAT-TTGATAGCCG-AAGCCATCCC
* * *
33399190 TTTTCATAATTCGATGGCCGTCA-CCATCCC
1 TTTTCATAATTTGATAGCCG-AAGCCATCCC
* *
33399220 TTTTCAT--TGTTGATGGTC-ATTA-CCATCCC
1 TTTTCATAAT-TTGATAGCCGA--AGCCATCCC
* *
33399249 TTTTCATGATTTGATAGCCGAAGCCATCAC
1 TTTTCATAATTTGATAGCCGAAGCCATCCC
* *** *
33399279 TTTTCATAATTCGAT-TTTGAAAGCTATCCC
1 TTTTCATAATTTGATAGCCG-AAGCCATCCC
* * * *
33399309 TTTTCATAATTCGATAGTCAAAGCTATCCCC
1 TTTTCATAATTTGATAGCCGAAGCCAT-CCC
** *
33399340 TTTTCATAATTTGATAGCTAAAGCTATCCC
1 TTTTCATAATTTGATAGCCGAAGCCATCCC
* * *
33399370 TTTCCATATTTTGATAGTCGAAGCCAT-CC
1 TTTTCATAATTTGATAGCCGAAGCCATCCC
*
33399399 TTTTCTATATTTTGATAGCCGAAGCCATCCC
1 TTTTC-ATAATTTGATAGCCGAAGCCATCCC
33399430 TTTTCAT
1 TTTTCAT
33399437 TGGTCGATGA
Statistics
Matches: 271, Mismatches: 48, Indels: 33
0.77 0.14 0.09
Matches are distributed among these distances:
28 2 0.01
29 58 0.21
30 172 0.63
31 39 0.14
ACGTcount: A:0.24, C:0.24, G:0.12, T:0.40
Consensus pattern (30 bp):
TTTTCATAATTTGATAGCCGAAGCCATCCC
Found at i:33399276 original size:59 final size:59
Alignment explanation
Indices: 33399124--33399285 Score: 200
Period size: 59 Copynumber: 2.7 Consensus size: 59
33399114 ATAGCTAAAG
* * * * * *
33399124 CCATCCATTTTCATAATTCAATGGTCGTCACCATCCCTTTTCATTGTTGATGGTCGTCA
1 CCATCCCTTTTCATAATTCGATAGCCGTAACCATCCCTTTTCATTGTTGATGGTCATCA
* * *
33399183 CCATCCCTTTTCATAATTCGATGGCCGTCACCATCCCTTTTCATTGTTGATGGTCATTA
1 CCATCCCTTTTCATAATTCGATAGCCGTAACCATCCCTTTTCATTGTTGATGGTCATCA
* * *
33399242 CCATCCCTTTTCATGATTTGATAGCCG-AAGCCATCACTTTTCAT
1 CCATCCCTTTTCATAATTCGATAGCCGTAA-CCATCCCTTTTCAT
33399286 AATTCGATTT
Statistics
Matches: 92, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
58 1 0.01
59 91 0.99
ACGTcount: A:0.20, C:0.28, G:0.13, T:0.38
Consensus pattern (59 bp):
CCATCCCTTTTCATAATTCGATAGCCGTAACCATCCCTTTTCATTGTTGATGGTCATCA
Found at i:33403485 original size:27 final size:25
Alignment explanation
Indices: 33403455--33403509 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 25
33403445 CTCTTTTGAG
* *
33403455 TTAATAAATTCTCTTTGAGTTTTTATT
1 TTAAGAAATTATC-TTGAG-TTTTATT
*
33403482 TTAAGAATTTATCTTGAGTTTTATT
1 TTAAGAAATTATCTTGAGTTTTATT
33403507 TTA
1 TTA
33403510 GAAGAGTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 10 0.40
26 5 0.20
27 10 0.40
ACGTcount: A:0.27, C:0.05, G:0.09, T:0.58
Consensus pattern (25 bp):
TTAAGAAATTATCTTGAGTTTTATT
Found at i:33413903 original size:28 final size:28
Alignment explanation
Indices: 33413861--33413934 Score: 114
Period size: 28 Copynumber: 2.7 Consensus size: 28
33413851 CTATTCAGTA
**
33413861 ACAGTA-CAGTGTGGGCCTTAGCCTGAT
1 ACAGTAGCAGTGTGGGCCTTAGCCCAAT
*
33413888 ACAGTAGCAATGTGGGCCTTAGCCCAAT
1 ACAGTAGCAGTGTGGGCCTTAGCCCAAT
33413916 ACAGTAGCAGTGTGGGCCT
1 ACAGTAGCAGTGTGGGCCT
33413935 GTAACACCCC
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
27 6 0.14
28 36 0.86
ACGTcount: A:0.24, C:0.23, G:0.30, T:0.23
Consensus pattern (28 bp):
ACAGTAGCAGTGTGGGCCTTAGCCCAAT
Found at i:33414995 original size:12 final size:12
Alignment explanation
Indices: 33414970--33415008 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
33414960 ACTCGCTTCT
* *
33414970 TTACTTACTCAC
1 TTACTTGCTTAC
*
33414982 TTACTTGTTTAC
1 TTACTTGCTTAC
33414994 TTACTTGCTTAC
1 TTACTTGCTTAC
33415006 TTA
1 TTA
33415009 AATAACTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.05, T:0.51
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:33415334 original size:50 final size:50
Alignment explanation
Indices: 33415257--33415446 Score: 195
Period size: 50 Copynumber: 3.7 Consensus size: 50
33415247 TTCTGTACTG
* * ** *
33415257 CAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGC
1 CAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGATGC
* * * *
33415307 CCATGCCATGTCCTAGACATGTTCTTACA-GGGAACCTCTCATCTCGATGC
1 CAATGCCATGTCCCAGACATGGTCTTACATGGG-ACCTCTCATATCGATGC
33415357 CAACT-CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGATGC
1 CAA-TGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GATGC
* *
33415413 TAATGCCATGTCCCAAACATGGTCTTACATGGGA
1 CAATGCCATGTCCCAGACATGGTCTTACATGGGA
33415447 TCTCATTCCC
Statistics
Matches: 115, Mismatches: 15, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
49 3 0.03
50 70 0.61
51 4 0.03
53 2 0.02
55 1 0.01
56 35 0.30
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (50 bp):
CAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGATGC
Found at i:33416706 original size:28 final size:28
Alignment explanation
Indices: 33416653--33416706 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
33416643 GGATGTTACA
*
33416653 GGGCCTTAGCCCAATACAATAGCAGTGT
1 GGGCCTTAGCCCAATACAATAACAGTGT
*
33416681 GGGCCTTAGCCCAATACAGTAACAGT
1 GGGCCTTAGCCCAATACAATAACAGT
33416707 ACAGTGGAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.30, C:0.26, G:0.24, T:0.20
Consensus pattern (28 bp):
GGGCCTTAGCCCAATACAATAACAGTGT
Found at i:33417046 original size:27 final size:27
Alignment explanation
Indices: 33417016--33417073 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
33417006 TCGAATCCTA
33417016 GGGGTATAAT-AGTCATTCTACCCTATG
1 GGGGTAT-ATCAGTCATTCTACCCTATG
* * *
33417043 GGGGTATTTCGGTCATTTTACCCTATG
1 GGGGTATATCAGTCATTCTACCCTATG
33417070 GGGG
1 GGGG
33417074 GTATTTCCTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.19, C:0.17, G:0.29, T:0.34
Consensus pattern (27 bp):
GGGGTATATCAGTCATTCTACCCTATG
Found at i:33417132 original size:27 final size:27
Alignment explanation
Indices: 33417027--33417249 Score: 229
Period size: 27 Copynumber: 8.3 Consensus size: 27
33417017 GGGTATAATA
* *
33417027 GTCATTCTACCCTAT-GGGGGTATTTCG
1 GTCATTTTACCCT-TCGAGGGTATTTCG
* *
33417054 GTCATTTTACCCTATGGGGGGTATTTC-
1 GTCATTTTACCCT-TCGAGGGTATTTCG
* * *
33417081 CTCTATTTTACTCTAC-AGGGTATTTCG
1 GTC-ATTTTACCCTTCGAGGGTATTTCG
* *
33417108 GTCATTTTACCCTTCAAGGGTATTTCA
1 GTCATTTTACCCTTCGAGGGTATTTCG
* *
33417135 GTCATTTTACCTTTCGAGGGTATTTCA
1 GTCATTTTACCCTTCGAGGGTATTTCG
*
33417162 GTCATTTTACCCTTCGGGGGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
* * *
33417189 ATCATTTCACCCCTC-AGGGATATTTCG
1 GTCATTTTACCCTTCGAGGG-TATTTCG
* *
33417216 ATCATTTTACCCTTCGAGGGTATTTTG
1 GTCATTTTACCCTTCGAGGGTATTTCG
33417243 GTCATTT
1 GTCATTT
33417250 GCCCACGAAT
Statistics
Matches: 167, Mismatches: 23, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
26 22 0.13
27 121 0.72
28 24 0.14
ACGTcount: A:0.17, C:0.22, G:0.20, T:0.41
Consensus pattern (27 bp):
GTCATTTTACCCTTCGAGGGTATTTCG
Done.