Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 102 of 410
Found at i:30103604 original size:191 final size:195
Alignment explanation
Indices: 30103254--30103640 Score: 548
Period size: 191 Copynumber: 2.0 Consensus size: 195
30103244 GTTTTTAAAA
** *
30103254 CAAAACAAGCATGCATGCCTGAGAAAGTGAACCATTCGTAATTGCGCATGATCATAGATGAACTC
1 CAAAACAAGCATGCATGCCTGAGAAAGTGAACCATAAGTAATTGCGCATGATAATAGATGAAC-C
** * *
30103319 ACCAATAACATATAAGGCATTTATGGGTGGAAATGTTAAATAAAGTACGAGTTTGAGTCCAATAA
65 ACCAATAACATATAA-G-AACTATGGGTGGAAATGCTAAATAAAGCACGAGTTTGAGTCCAATAA
* * * *
30103384 TGTATAAAACTTGGGTTTAAGTCTATTTATACGCATTTGTGCATGACTCTTCTTCTCAAATAACT
128 TGTACAAAACTTGAGTTTAAGTATATTTATACGCAATTGTGCATGACTCTTCTTCTCAAATAACT
30103449 TAG
193 TAG
* *
30103452 CAAAACAAGCGTGCATGCTTGAGAAAGTGAACCATAAGTAATTGCGCATGATAATAGATGAA-C-
1 CAAAACAAGCATGCATGCCTGAGAAAGTGAACCATAAGTAATTGCGCATGATAATAGATGAACCA
* * *
30103515 CCAATAATATATAA-AACT-TGGGTGGAAATGCTAAATAAAGCACTAGTTTGAGTCTAATAATGT
66 CCAATAACATATAAGAACTATGGGTGGAAATGCTAAATAAAGCACGAGTTTGAGTCCAATAATGT
* * *
30103578 ACAAAACTTGAGTTTAAGTATATTTATACGCAATTGTGTATGCCTTTTCTTCTCAAATAACTT
131 ACAAAACTTGAGTTTAAGTATATTTATACGCAATTGTGCATGACTCTTCTTCTCAAATAACTT
30103641 TAACAATCCC
Statistics
Matches: 170, Mismatches: 19, Indels: 7
0.87 0.10 0.04
Matches are distributed among these distances:
191 97 0.57
192 2 0.01
195 13 0.08
196 1 0.01
198 57 0.34
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.30
Consensus pattern (195 bp):
CAAAACAAGCATGCATGCCTGAGAAAGTGAACCATAAGTAATTGCGCATGATAATAGATGAACCA
CCAATAACATATAAGAACTATGGGTGGAAATGCTAAATAAAGCACGAGTTTGAGTCCAATAATGT
ACAAAACTTGAGTTTAAGTATATTTATACGCAATTGTGCATGACTCTTCTTCTCAAATAACTTAG
Found at i:30106188 original size:30 final size:31
Alignment explanation
Indices: 30106154--30106212 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 31
30106144 GTAAATACTC
* **
30106154 AAAATTTGAAGGGTTAA-AGTGTAAATATAA
1 AAAATGTGAAGGGCGAATAGTGTAAATATAA
*
30106184 AAAATGTGAATGGCGAATAGTGTAAATAT
1 AAAATGTGAAGGGCGAATAGTGTAAATAT
30106213 TTTAAGGGTG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 13 0.54
31 11 0.46
ACGTcount: A:0.47, C:0.02, G:0.22, T:0.29
Consensus pattern (31 bp):
AAAATGTGAAGGGCGAATAGTGTAAATATAA
Found at i:30106466 original size:11 final size:12
Alignment explanation
Indices: 30106444--30106482 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
30106434 ATAAATGTTA
30106444 TTTAATTAATAT
1 TTTAATTAATAT
30106456 TTTAATT-ATAT
1 TTTAATTAATAT
* *
30106467 TTTTAGTAATAT
1 TTTAATTAATAT
30106479 TTTA
1 TTTA
30106483 TTATTAAATG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
11 9 0.39
12 14 0.61
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (12 bp):
TTTAATTAATAT
Found at i:30107721 original size:19 final size:20
Alignment explanation
Indices: 30107699--30107736 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
30107689 CAAGAAAATA
*
30107699 TTGATAAAT-AAAGAATATG
1 TTGAAAAATAAAAGAATATG
30107718 TTGAAAAATAAAAGAATAT
1 TTGAAAAATAAAAGAATAT
30107737 ATGAATATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.58, C:0.00, G:0.13, T:0.29
Consensus pattern (20 bp):
TTGAAAAATAAAAGAATATG
Found at i:30120118 original size:5 final size:5
Alignment explanation
Indices: 30120108--30120139 Score: 55
Period size: 5 Copynumber: 6.2 Consensus size: 5
30120098 ATAGAATATA
30120108 AGAAT AGAAT AGAAT AGAAT AGAAT AGTAAT A
1 AGAAT AGAAT AGAAT AGAAT AGAAT AG-AAT A
30120140 TTATTCAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 22 0.85
6 4 0.15
ACGTcount: A:0.59, C:0.00, G:0.19, T:0.22
Consensus pattern (5 bp):
AGAAT
Found at i:30122691 original size:11 final size:11
Alignment explanation
Indices: 30122664--30122707 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
30122654 ATATAAACAT
*
30122664 TATTTAATTAA
1 TATTTTATTAA
30122675 TATTTTATTAA
1 TATTTTATTAA
* *
30122686 GATTTTTAGTAA
1 TA-TTTTATTAA
30122698 TATTTTATTA
1 TATTTTATTA
30122708 TTAAATGATT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
11 18 0.67
12 9 0.33
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:30127428 original size:29 final size:29
Alignment explanation
Indices: 30127371--30127462 Score: 127
Period size: 29 Copynumber: 3.2 Consensus size: 29
30127361 TGCCTATATT
*
30127371 TGGCCCATTAAGCCC-AATCATAT-TCATA
1 TGGCCCATTAAGCCCAAATCACATGT-ATA
*
30127399 TGGCCCATTAAGCCCAAATCACCTGTATA
1 TGGCCCATTAAGCCCAAATCACATGTATA
30127428 TGGCCCATT-AGACCCAAATCACATGTATA
1 TGGCCCATTAAG-CCCAAATCACATGTATA
30127457 TGGCCC
1 TGGCCC
30127463 GTTAGGCCTA
Statistics
Matches: 58, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
28 17 0.29
29 40 0.69
30 1 0.02
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (29 bp):
TGGCCCATTAAGCCCAAATCACATGTATA
Found at i:30131253 original size:10 final size:10
Alignment explanation
Indices: 30131238--30131284 Score: 60
Period size: 10 Copynumber: 4.6 Consensus size: 10
30131228 TAACACATTG
30131238 AATTTTAATT
1 AATTTTAATT
30131248 AATTTTATAATT
1 AA-TTT-TAATT
*
30131260 AATTTTGATT
1 AATTTTAATT
30131270 AATTTTAATT
1 AATTTTAATT
30131280 -ATTTT
1 AATTTT
30131285 CAACTGATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
9 5 0.15
10 15 0.45
11 6 0.18
12 7 0.21
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (10 bp):
AATTTTAATT
Found at i:30132321 original size:15 final size:15
Alignment explanation
Indices: 30132301--30132329 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
30132291 CAGACAAAGA
30132301 AGTGCCAATCATCCT
1 AGTGCCAATCATCCT
30132316 AGTGCCAATCATCC
1 AGTGCCAATCATCC
30132330 GAGGAAGGCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.34, G:0.14, T:0.24
Consensus pattern (15 bp):
AGTGCCAATCATCCT
Found at i:30136002 original size:16 final size:15
Alignment explanation
Indices: 30135964--30136004 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 15
30135954 GATGATAATC
30135964 ATTAATATATAATTAT
1 ATTAAT-TATAATTAT
*
30135980 ATCAATTATAATATAT
1 ATTAATTATAAT-TAT
30135996 ATTAATTAT
1 ATTAATTAT
30136005 TATCAACTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 6 0.27
16 16 0.73
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (15 bp):
ATTAATTATAATTAT
Found at i:30140591 original size:12 final size:12
Alignment explanation
Indices: 30140574--30140600 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
30140564 GACCACAGTT
30140574 GGATAAGGGAAA
1 GGATAAGGGAAA
30140586 GGATAAGGGAAA
1 GGATAAGGGAAA
30140598 GGA
1 GGA
30140601 AAAAGTGATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.44, T:0.07
Consensus pattern (12 bp):
GGATAAGGGAAA
Found at i:30140980 original size:78 final size:79
Alignment explanation
Indices: 30140844--30141025 Score: 235
Period size: 78 Copynumber: 2.3 Consensus size: 79
30140834 TTCGAATGAT
* *
30140844 TTCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
1 TTCCGGGCTAAGTCCCGAAGGCATGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
30140909 TGTGCGAGTTACTAA
66 TGTGCGAGTTACT-A
* * * **
30140924 TTCCGGGCTAAG-CCCGAAGGCATGGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TTCCGGGCTAAGTCCCGAAGGCATGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCAT
30140986 TTGTGCGAGTTACTA
65 TTGTGCGAGTTACTA
* *
30141001 TAACCGGGCTATGTCCCGAAGGCAT
1 T-TCCGGGCTAAGTCCCGAAGGCAT
30141026 TTGAACGAGT
Statistics
Matches: 90, Mismatches: 9, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
77 3 0.03
78 50 0.56
79 25 0.28
80 12 0.13
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
TTCCGGGCTAAGTCCCGAAGGCATGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTA
Found at i:30141035 original size:40 final size:39
Alignment explanation
Indices: 30140846--30141028 Score: 212
Period size: 40 Copynumber: 4.6 Consensus size: 39
30140836 CGAATGATTT
* *
30140846 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
30140885 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATT
1 -CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
* *
30140926 CCGGGCTAAG-CCCGAAGGCA-TGGTGCGAGTTATTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
30140963 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
30141004 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
30141029 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 13, Indels: 16
0.81 0.09 0.11
Matches are distributed among these distances:
38 23 0.19
39 19 0.16
40 70 0.57
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:30143437 original size:17 final size:18
Alignment explanation
Indices: 30143395--30143443 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
30143385 AGTTGAAAAG
30143395 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
30143414 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
30143431 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
30143444 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:30144334 original size:40 final size:40
Alignment explanation
Indices: 30144268--30144434 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
30144258 AAATTGAATG
* * *
30144268 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
30144307 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
30144347 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
30144387 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
30144427 ATATCCGG
1 ATATCCGG
30144435 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:30157260 original size:124 final size:124
Alignment explanation
Indices: 30157038--30157262 Score: 317
Period size: 124 Copynumber: 1.8 Consensus size: 124
30157028 GAATTATGTG
* * ** * * *
30157038 AAATGAAATATGGATGTATATTGATTATTGATTTATGTGTGTATGAGTATTTGAATGATACCCGG
1 AAATGAAATATGAATGTATAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATACCCGG
* * **
30157103 GCTAAGTCCCGAAGGCGATTATGCTTGTGATTATATTTGCGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGACGATTATGCTGGAAATTATATTTGCGTTTGAGCCTTAGTAACGA
* *
30157162 AAATGAAATATGAATGTCTAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATATCCGG
1 AAATGAAATATGAATGTATAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATACCCGG
30157227 GCTAAGTCCCGAAGAC-ATTTATGCTGGAAATTATAT
66 GCTAAGTCCCGAAGACGA-TTATGCTGGAAATTATAT
30157263 CCGGGTTAAG
Statistics
Matches: 87, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
123 1 0.01
124 86 0.99
ACGTcount: A:0.31, C:0.11, G:0.23, T:0.35
Consensus pattern (124 bp):
AAATGAAATATGAATGTATAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATACCCGG
GCTAAGTCCCGAAGACGATTATGCTGGAAATTATATTTGCGTTTGAGCCTTAGTAACGA
Found at i:30157384 original size:40 final size:40
Alignment explanation
Indices: 30157257--30157386 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
30157247 ATGCTGGAAA
* *
30157257 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
30157297 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
30157337 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
30157377 TTATATCCGG
1 TTATATCCGG
30157387 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:30157385 original size:80 final size:80
Alignment explanation
Indices: 30157219--30157386 Score: 198
Period size: 80 Copynumber: 2.1 Consensus size: 80
30157209 CAATTGAATG
* * *
30157219 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACATTCATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
30157284 ATTGTGCTAGTGGCT
66 ATTGTGCTAGTGGCT
* * * ** *
30157299 ACATCCGGGCTAAGACCCGAAGGCATTCGTGC-GAGTCATTCTATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGACATTCATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGGC
*
30157363 -ATTCGTGC-ACGTGGTT
65 AATT-GTGCTA-GTGGCT
30157379 ATATCCGG
1 ATATCCGG
30157387 TTGTATTCCG
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
79 5 0.07
80 69 0.93
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGACATTCATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCTAGTGGCT
Found at i:30163315 original size:50 final size:50
Alignment explanation
Indices: 30163234--30163476 Score: 254
Period size: 50 Copynumber: 4.8 Consensus size: 50
30163224 TTCGTTGTGA
* *
30163234 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
* * ** * * *
30163284 GTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCG-TTAACTTCG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA--TAG
* * * * * * *
30163335 ATCACGTATGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
* * * *
30163385 GTCACGTGTATAGTACTAAGCGCAGGCTACTACGTGCACCAGATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
* * *
30163435 GTCGCATGTGTAGTACTAAGTACAGGCTACTACGCGTACCAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG
30163477 GGAGCTTCGG
Statistics
Matches: 151, Mismatches: 39, Indels: 6
0.77 0.20 0.03
Matches are distributed among these distances:
49 3 0.02
50 112 0.74
51 35 0.23
52 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.28
Consensus pattern (50 bp):
GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
Found at i:30163410 original size:101 final size:101
Alignment explanation
Indices: 30163235--30163416 Score: 276
Period size: 101 Copynumber: 1.8 Consensus size: 101
30163225 TCGTTGTGAG
* * * * *
30163235 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATTGATAGGTCGCATGTGTAGTAC
1 TCACGTATGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATGGATAAGTCACATGTATAGTAC
*
30163300 TAAGTGCAGGCTACTATGCATACCCGTTAACTTCGA
66 TAAGCGCAGGCTACTATGCATACCCGTTAACTTCGA
* *
30163336 TCACGTATGTAGTACTAAGTGCAGGCTACTACGTGTA-TCAGATGGTTAAGTCACGTGTATAGTA
1 TCACGTATGTAGTACTAAGTGCAGGCTACTACGTGTACT-AGATGGATAAGTCACATGTATAGTA
30163400 CTAAGCGCAGGCTACTA
65 CTAAGCGCAGGCTACTA
30163417 CGTGCACCAG
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
100 1 0.01
101 71 0.99
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (101 bp):
TCACGTATGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATGGATAAGTCACATGTATAGTAC
TAAGCGCAGGCTACTATGCATACCCGTTAACTTCGA
Found at i:30163698 original size:16 final size:16
Alignment explanation
Indices: 30163677--30163708 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
30163667 AGAATGGAGT
30163677 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
30163693 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
30163709 TAAAACAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:30166990 original size:40 final size:40
Alignment explanation
Indices: 30166935--30167039 Score: 113
Period size: 40 Copynumber: 2.6 Consensus size: 40
30166925 TTATCTCAGT
* *
30166935 ATCGCACACTTAGTGCCACATATAACCAAAGCTAT-TCCA
1 ATCGCACACTAAGTGCCAAATATAACCAAAGCTATCTCCA
* * ** * *
30166974 ATTCGCACACTAAGTGCTATATATAGTCGAAGCTATCTCGA
1 A-TCGCACACTAAGTGCCAAATATAACCAAAGCTATCTCCA
*
30167015 AACGCACACTAAGTGCCAAATATAA
1 ATCGCACACTAAGTGCCAAATATAA
30167040 TCGATTCATC
Statistics
Matches: 53, Mismatches: 11, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
39 1 0.02
40 48 0.91
41 4 0.08
ACGTcount: A:0.37, C:0.26, G:0.13, T:0.24
Consensus pattern (40 bp):
ATCGCACACTAAGTGCCAAATATAACCAAAGCTATCTCCA
Found at i:30169460 original size:46 final size:45
Alignment explanation
Indices: 30169404--30169571 Score: 160
Period size: 46 Copynumber: 3.6 Consensus size: 45
30169394 TGGTTGAGCA
30169404 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAA-G
* * ** * *
30169450 TCTGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCAT-TTATG-GA-T-GCGAAG
* *
30169497 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAA-G
* * * *
30169543 CCCGAGCTCGTTAAGTTGAGTCTGAGTTC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC
30169572 GCTTATGAGC
Statistics
Matches: 98, Mismatches: 17, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 58 0.59
47 30 0.31
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAAG
Found at i:30169560 original size:93 final size:93
Alignment explanation
Indices: 30169401--30169572 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
30169391 GGATGGTTGA
* * * * *
30169401 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTAAGT
30169466 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
30169494 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTAAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTAAGT
*
30169559 TGAGTCTGAGTTCG
66 TGAGTCCGAGTTCG
30169573 CTTATGAGCG
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTAAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:30176678 original size:8 final size:8
Alignment explanation
Indices: 30176665--30176691 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
30176655 ACAAATAGTC
30176665 GATAATGT
1 GATAATGT
30176673 GATAATGT
1 GATAATGT
30176681 GATAATGT
1 GATAATGT
30176689 GAT
1 GAT
30176692 GATGATTCCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.26, T:0.37
Consensus pattern (8 bp):
GATAATGT
Found at i:30176707 original size:10 final size:10
Alignment explanation
Indices: 30176692--30176724 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
30176682 ATAATGTGAT
30176692 GATGATTCCC
1 GATGATTCCC
30176702 GATGATTCCC
1 GATGATTCCC
*
30176712 GATGATCCCC
1 GATGATTCCC
30176722 GAT
1 GAT
30176725 AAAATAACGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.21, C:0.30, G:0.21, T:0.27
Consensus pattern (10 bp):
GATGATTCCC
Found at i:30180023 original size:40 final size:40
Alignment explanation
Indices: 30179960--30180057 Score: 117
Period size: 40 Copynumber: 2.5 Consensus size: 40
30179950 TTATCTCAGT
*
30179960 ATCGCACACTTAGTGCCACATATAACCAAAGCTAT-TCCA
1 ATCGCACACTAAGTGCCACATATAACCAAAGCTATCTCCA
* * * * *
30179999 ATTCGCACACTAAGTGCTATATATAGCCGAAGCTATCTCGA
1 A-TCGCACACTAAGTGCCACATATAACCAAAGCTATCTCCA
*
30180040 AACGCACACTAAGTGCCA
1 ATCGCACACTAAGTGCCA
30180058 AACATAATCG
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
39 1 0.02
40 44 0.90
41 4 0.08
ACGTcount: A:0.35, C:0.29, G:0.14, T:0.22
Consensus pattern (40 bp):
ATCGCACACTAAGTGCCACATATAACCAAAGCTATCTCCA
Found at i:30182042 original size:28 final size:28
Alignment explanation
Indices: 30181993--30182050 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 28
30181983 TCAGCAAAAT
**
30181993 TACTAGACTAATCTTTAATAAACT-TTAA
1 TACTAGACTAATAATTAATAAA-TATTAA
* *
30182021 TACTAGCCTAATAATTACTAAATATTAA
1 TACTAGACTAATAATTAATAAATATTAA
30182049 TA
1 TA
30182051 TTATACGGAC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
27 1 0.04
28 24 0.96
ACGTcount: A:0.45, C:0.14, G:0.03, T:0.38
Consensus pattern (28 bp):
TACTAGACTAATAATTAATAAATATTAA
Found at i:30188496 original size:54 final size:53
Alignment explanation
Indices: 30188409--30188855 Score: 280
Period size: 54 Copynumber: 8.3 Consensus size: 53
30188399 ATACTTTAGT
*
30188409 TTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAA
1 TTACCAAAATACCCTTGGTTTATAAAATTACCAAAATA-CCCTAGTTTGTAAAA
* *
30188463 TTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTAGTTTATAAAA
1 TTACCAAAATACCCTTGGTTTATAAAATTACCAAAATA-CCCTAGTTTGTAAAA
** * * * * *
30188517 TTACCAAAATACCCCCGATTTATAAAATTACCTAAATATCCTCGATTCGTAAAA
1 TTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCTAG-TTTGTAAAA
* ** ** ** * *
30188571 TTACTAAAATACCCTCAGTTTGCAAAATTACTGAAATACTCTCGATTTGTAAAA
1 TTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCTAG-TTTGTAAAA
** ** * **** * * *
30188625 TTACTGAAATACTCC-T-GTAAGATAGAATTACCGTTTTACCCTCGATTGTGAAA
1 TTACCAAAATAC-CCTTGGT-TTATAAAATTACCAAAATACCCTAGTTTGTAAAA
* * * *
30188678 TTACTAAAATACCCCTATAGG---GTAGAATTACCAAAACACCCCTAGTTTGTAAAA
1 TTACCAAAATA-CCCT-T-GGTTTATAAAATTACCAAAATA-CCCTAGTTTGTAAAA
* * * * * *
30188732 TTACCAAAATACCAC-TAGTTTGTGAAATTATCGAAATACCCTCAATTTGTAAAA
1 TTACCAAAATACC-CTTGGTTTATAAAATTACCAAAATACCCT-AGTTTGTAAAA
* * * * *
30188786 TTACCAAAATATCCC-TGATTTACAAAATTA-CAGAAATACCCTTGATTTGTAGAT
1 TTACCAAAATA-CCCTTGGTTTATAAAATTACCA-AAATACCCTAG-TTTGTAAAA
*
30188840 TTACCAAAACACCCTT
1 TTACCAAAATACCCTT
30188856 ATAGGATGAA
Statistics
Matches: 309, Mismatches: 66, Indels: 36
0.75 0.16 0.09
Matches are distributed among these distances:
51 1 0.00
52 1 0.00
53 46 0.15
54 255 0.83
55 5 0.02
57 1 0.00
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (53 bp):
TTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCTAGTTTGTAAAA
Found at i:30188586 original size:27 final size:27
Alignment explanation
Indices: 30188409--30188854 Score: 234
Period size: 27 Copynumber: 16.6 Consensus size: 27
30188399 ATACTTTAGT
* * * **
30188409 TTACCAAAATACCCTTGGTTTACAAAA
1 TTACTAAAATACCCTCGATTTGTAAAA
* *
30188436 TTACCAAAATACCC-CTAGTTTGTAAAA
1 TTACTAAAATACCCTCGA-TTTGTAAAA
* * *
30188463 TTACTAAAATACCCTTGGTTTATAAAA
1 TTACTAAAATACCCTCGATTTGTAAAA
* * *
30188490 TTACCAAAATACCC-CTAGTTTATAAAA
1 TTACTAAAATACCCTCGA-TTTGTAAAA
* * *
30188517 TTACCAAAATACCCCCGATTTATAAAA
1 TTACTAAAATACCCTCGATTTGTAAAA
* *
30188544 TTACCT-AAATATCCTCGATTCGTAAAA
1 TTA-CTAAAATACCCTCGATTTGTAAAA
*
30188571 TTACTAAAATACCCTC-AGTTTGCAAAA
1 TTACTAAAATACCCTCGA-TTTGTAAAA
* *
30188598 TTACTGAAATACTCTCGATTTGTAAAA
1 TTACTAAAATACCCTCGATTTGTAAAA
* ** *
30188625 TTACTGAAATACTCCT-G-TAAGATAGAA
1 TTACTAAAATAC-CCTCGATTTG-TAAAA
***** *
30188652 TTACCGTTTTACCCTCGA-TTGTGAAA
1 TTACTAAAATACCCTCGATTTGTAAAA
* ** *
30188678 TTACTAAAATACCC-CTATAGGGTAGAA
1 TTACTAAAATACCCTCGAT-TTGTAAAA
* * *
30188705 TTACCAAAACACCC-CTAGTTTGTAAAA
1 TTACTAAAATACCCTCGA-TTTGTAAAA
* * *
30188732 TTACCAAAATACCACTAG-TTTGTGAAA
1 TTACTAAAATACC-CTCGATTTGTAAAA
* *
30188759 TTA-TCGAAATACCCTCAATTTGTAAAA
1 TTACT-AAAATACCCTCGATTTGTAAAA
* **
30188786 TTACCAAAATATCCCT-GATTTACAAAA
1 TTACTAAAATA-CCCTCGATTTGTAAAA
* * *
30188813 TTAC-AGAAATACCCTTGATTTGTAGAT
1 TTACTA-AAATACCCTCGATTTGTAAAA
* *
30188840 TTACCAAAACACCCT
1 TTACTAAAATACCCT
30188855 TATAGGATGA
Statistics
Matches: 323, Mismatches: 72, Indels: 48
0.73 0.16 0.11
Matches are distributed among these distances:
25 2 0.01
26 27 0.08
27 281 0.87
28 13 0.04
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (27 bp):
TTACTAAAATACCCTCGATTTGTAAAA
Found at i:30188813 original size:81 final size:79
Alignment explanation
Indices: 30188409--30188854 Score: 292
Period size: 81 Copynumber: 5.5 Consensus size: 79
30188399 ATACTTTAGT
* ** * * *
30188409 TTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCC-CTAGTTTGTAAAATTACTAAAAT
1 TTACCAAAATACCC-TAGTTTGTAAAATTACTAAAATACCCTCGA-TTTGTAAAATTACCAAAAT
*
30188473 ACCCTTGGTTTATAAAA
64 ACCC-TGATTTATAAAA
* * * * *
30188490 TTACCAAAATACCCCTAGTTTATAAAATTACCAAAATACCCCCGATTTATAAAATTACCTAAATA
1 TTACCAAAATA-CCCTAGTTTGTAAAATTACTAAAATACCCTCGATTTGTAAAATTACCAAAATA
* **
30188555 TCCTCGATTCGTAAAA
65 CCCT-GATTTATAAAA
* * * * **
30188571 TTACTAAAATACCCTCAGTTTGCAAAATTACTGAAATACTCTCGATTTGTAAAATTACTGAAATA
1 TTACCAAAATACCCT-AGTTTGTAAAATTACTAAAATACCCTCGATTTGTAAAATTACCAAAATA
** *
30188636 CTCCTG-TAAGATAGAA
65 C-CCTGAT-TTATAAAA
**** * * * * ** * *
30188652 TTACCGTTTTACCCTCGATTGTGAAATTACTAAAATACCC-CTATAGGGTAGAATTACCAAAACA
1 TTACCAAAATACCCTAGTTTGTAAAATTACTAAAATACCCTCGAT-TTGTAAAATTACCAAAATA
*
30188716 CCCCT-AGTTTGTAAAA
65 -CCCTGA-TTTATAAAA
* * *
30188732 TTACCAAAATACCACTAGTTTGTGAAATTA-TCGAAATACCCTCAATTTGTAAAATTACCAAAAT
1 TTACCAAAATACC-CTAGTTTGTAAAATTACT-AAAATACCCTCGATTTGTAAAATTACCAAAAT
*
30188796 ATCCCTGATTTACAAAA
64 A-CCCTGATTTATAAAA
* * * * *
30188813 TTA-CAGAAATACCCTTGATTTGTAGATTTACCAAAACACCCT
1 TTACCA-AAATACCCTAG-TTTGTAAAATTACTAAAATACCCT
30188855 TATAGGATGA
Statistics
Matches: 279, Mismatches: 69, Indels: 34
0.73 0.18 0.09
Matches are distributed among these distances:
79 3 0.01
80 60 0.22
81 204 0.73
82 12 0.04
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (79 bp):
TTACCAAAATACCCTAGTTTGTAAAATTACTAAAATACCCTCGATTTGTAAAATTACCAAAATAC
CCTGATTTATAAAA
Found at i:30188917 original size:27 final size:27
Alignment explanation
Indices: 30188887--30188947 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
30188877 ACCTCTAATA
30188887 GGTAAAAAGACCGTAA-AGCCCCTGTAG
1 GGTAAAAAGACCGTAATA-CCCCTGTAG
** * *
30188914 GGTAAAGTGACCGTAATACCCTTGTAT
1 GGTAAAAAGACCGTAATACCCCTGTAG
30188941 GGTAAAA
1 GGTAAAA
30188948 TGATGAATAC
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
27 27 0.96
28 1 0.04
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (27 bp):
GGTAAAAAGACCGTAATACCCCTGTAG
Found at i:30189788 original size:25 final size:25
Alignment explanation
Indices: 30189750--30189819 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
30189740 AGGAAGTGCT
* *
30189750 AAAAGGGCTCTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
* *
30189775 AAAAGGGCTTTGCCCTAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
30189800 AAAAAGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
30189820 ATTAAAAGAG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:30189821 original size:24 final size:25
Alignment explanation
Indices: 30189750--30189832 Score: 87
Period size: 25 Copynumber: 3.4 Consensus size: 25
30189740 AGGAAGTGCT
* * * *
30189750 AAAAGGGCTCTGCCCCAGTTTACCG
1 AAAAAGGCTTTGCCCCAGTTTATCA
* *
30189775 AAAAGGGCTTTGCCCTAGTTTATCA
1 AAAAAGGCTTTGCCCCAGTTTATCA
*
30189800 AAAAAGGCTTTGCCCCAG-TTATTA
1 AAAAAGGCTTTGCCCCAGTTTATCA
*
30189824 AAAGAGGCT
1 AAAAAGGCT
30189833 AGGCCTCCAG
Statistics
Matches: 50, Mismatches: 8, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
24 13 0.26
25 37 0.74
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.25
Consensus pattern (25 bp):
AAAAAGGCTTTGCCCCAGTTTATCA
Found at i:30198375 original size:49 final size:49
Alignment explanation
Indices: 30198318--30198494 Score: 336
Period size: 49 Copynumber: 3.6 Consensus size: 49
30198308 ATGTATGAGA
30198318 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
30198367 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
30198416 TGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
30198465 TGTATATGTGTGATAAGGCCTAATGGCCGA
1 TGTATATATGTGATAAGGCCTAATGGCCGA
30198495 CGGCCTAATG
Statistics
Matches: 127, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
49 127 1.00
ACGTcount: A:0.29, C:0.09, G:0.31, T:0.31
Consensus pattern (49 bp):
TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:30198501 original size:15 final size:15
Alignment explanation
Indices: 30198481--30198511 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
30198471 TGTGTGATAA
30198481 GGCCTAATGGCCGAC
1 GGCCTAATGGCCGAC
30198496 GGCCTAATGGCCGAC
1 GGCCTAATGGCCGAC
30198511 G
1 G
30198512 TGATGAATGT
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:0.19, C:0.32, G:0.35, T:0.13
Consensus pattern (15 bp):
GGCCTAATGGCCGAC
Found at i:30198507 original size:64 final size:64
Alignment explanation
Indices: 30198432--30198560 Score: 240
Period size: 64 Copynumber: 2.0 Consensus size: 64
30198422 TGTGTGATAA
* *
30198432 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATGTGTGATAAGGCCTAATGGCCGAC
1 GGCCTAATGGCCGACGTGATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGAC
30198496 GGCCTAATGGCCGACGTGATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGAC
1 GGCCTAATGGCCGACGTGATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGAC
30198560 G
1 G
30198561 TGATGAATGT
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 63 1.00
ACGTcount: A:0.27, C:0.15, G:0.33, T:0.26
Consensus pattern (64 bp):
GGCCTAATGGCCGACGTGATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGAC
Found at i:30198710 original size:37 final size:36
Alignment explanation
Indices: 30198655--30198741 Score: 138
Period size: 37 Copynumber: 2.3 Consensus size: 36
30198645 AACTTGGAAA
30198655 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGT-AGACCCGATGACTACGTGTGGAGAT
*
30198693 TATGTCCGGGTACGACCCGATGACTGCGTGTGGAGAT
1 TATGTCCGGGTA-GACCCGATGACTACGTGTGGAGAT
30198730 TATGTCCGGGTA
1 TATGTCCGGGTA
30198742 AGACTTCGCA
Statistics
Matches: 47, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
36 1 0.02
37 42 0.89
38 4 0.09
ACGTcount: A:0.20, C:0.20, G:0.34, T:0.26
Consensus pattern (36 bp):
TATGTCCGGGTAGACCCGATGACTACGTGTGGAGAT
Found at i:30215068 original size:10 final size:10
Alignment explanation
Indices: 30215055--30215100 Score: 65
Period size: 10 Copynumber: 4.5 Consensus size: 10
30215045 AGCTCACTTG
30215055 AGCTCGTTTT
1 AGCTCGTTTT
*
30215065 AGCTCGTTTG
1 AGCTCGTTTT
30215075 AGCTCGATTTT
1 AGCTCG-TTTT
*
30215086 AGCTCGTTTC
1 AGCTCGTTTT
30215096 AGCTC
1 AGCTC
30215101 ATTTCTTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
10 23 0.72
11 9 0.28
ACGTcount: A:0.13, C:0.24, G:0.22, T:0.41
Consensus pattern (10 bp):
AGCTCGTTTT
Found at i:30215068 original size:20 final size:21
Alignment explanation
Indices: 30215045--30215090 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
30215035 AGCTCCAATC
30215045 AGCTCACTTGAGCTCG-TTTT
1 AGCTCACTTGAGCTCGATTTT
**
30215065 AGCTCGTTTGAGCTCGATTTT
1 AGCTCACTTGAGCTCGATTTT
30215086 AGCTC
1 AGCTC
30215091 GTTTCAGCTC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 14 0.61
21 9 0.39
ACGTcount: A:0.15, C:0.24, G:0.22, T:0.39
Consensus pattern (21 bp):
AGCTCACTTGAGCTCGATTTT
Found at i:30215087 original size:21 final size:21
Alignment explanation
Indices: 30215052--30215104 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
30215042 ATCAGCTCAC
30215052 TTGAGCTCG-TTTTAGCTCGT
1 TTGAGCTCGATTTTAGCTCGT
30215072 TTGAGCTCGATTTTAGCTCGT
1 TTGAGCTCGATTTTAGCTCGT
*
30215093 TTCAGCTC-ATTT
1 TTGAGCTCGATTT
30215105 CTTTTTCATT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 13 0.42
21 18 0.58
ACGTcount: A:0.13, C:0.21, G:0.21, T:0.45
Consensus pattern (21 bp):
TTGAGCTCGATTTTAGCTCGT
Found at i:30215339 original size:15 final size:15
Alignment explanation
Indices: 30215319--30215349 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
30215309 ATTATATGAA
30215319 TAATTATATTTTATT
1 TAATTATATTTTATT
*
30215334 TAATTATGTTTTATT
1 TAATTATATTTTATT
30215349 T
1 T
30215350 CTTTGTAGGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (15 bp):
TAATTATATTTTATT
Found at i:30224434 original size:40 final size:39
Alignment explanation
Indices: 30224343--30224493 Score: 128
Period size: 40 Copynumber: 3.8 Consensus size: 39
30224333 ATATAACCGT
* *
30224343 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
*
30224383 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTA-GCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATG--ACTA
* * ** *
30224423 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
* *
30224463 GCATAATTGTCTTCGGGAT-TTAGCCCGGATA
1 GCACAA-TGCCTTCGGG-TCTTAGCCCGGATA
30224494 TCATTCAATT
Statistics
Matches: 92, Mismatches: 13, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
38 1 0.01
39 4 0.04
40 85 0.92
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
Found at i:30224477 original size:80 final size:80
Alignment explanation
Indices: 30224343--30224492 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
30224333 ATATAACCGT
*
30224343 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
30224407 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
30224423 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
30224486 CCCGGAT
64 CCCGGAT
30224493 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:30232417 original size:40 final size:39
Alignment explanation
Indices: 30232326--30232476 Score: 128
Period size: 40 Copynumber: 3.8 Consensus size: 39
30232316 ATATAACCGT
* *
30232326 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
*
30232366 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTA-GCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATG--ACTA
* * ** *
30232406 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
* *
30232446 GCATAATTGTCTTCGGGAT-TTAGCCCGGATA
1 GCACAA-TGCCTTCGGG-TCTTAGCCCGGATA
30232477 TCATTCAATT
Statistics
Matches: 92, Mismatches: 13, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
38 1 0.01
39 4 0.04
40 85 0.92
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
Found at i:30232460 original size:80 final size:80
Alignment explanation
Indices: 30232326--30232475 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
30232316 ATATAACCGT
*
30232326 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
30232390 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
30232406 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
30232469 CCCGGAT
64 CCCGGAT
30232476 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:30235555 original size:30 final size:30
Alignment explanation
Indices: 30235521--30235579 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
30235511 TTCCCGAGCC
*
30235521 TAGGGGCAAAAGTGTAATTATGCAAAAGTA
1 TAGGGGCAAAAATGTAATTATGCAAAAGTA
* *
30235551 TAGGGGCAAAAATGTAATTTTGCCAAAGT
1 TAGGGGCAAAAATGTAATTATGCAAAAGT
30235580 TCATATTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.41, C:0.08, G:0.25, T:0.25
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATGCAAAAGTA
Found at i:30243100 original size:40 final size:40
Alignment explanation
Indices: 30243034--30243200 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
30243024 AAATTGAATG
* * *
30243034 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
30243073 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
30243113 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
30243153 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
30243193 ATATCCGG
1 ATATCCGG
30243201 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:30251093 original size:40 final size:40
Alignment explanation
Indices: 30251027--30251193 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
30251017 AAATTGAATG
* * *
30251027 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
30251066 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
30251106 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
30251146 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
30251186 ATATCCGG
1 ATATCCGG
30251194 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:30257594 original size:29 final size:27
Alignment explanation
Indices: 30257560--30257662 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
30257550 TACTCAATCA
*
30257560 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
30257589 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
30257618 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
30257647 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
30257663 ATCTCGTCCC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:30265627 original size:29 final size:27
Alignment explanation
Indices: 30265593--30265695 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
30265583 TACTCAATCA
*
30265593 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
30265622 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
30265651 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
30265680 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
30265696 ATCTCGTCCC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:30270521 original size:3 final size:3
Alignment explanation
Indices: 30270513--30270541 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
30270503 TTTTCGTAAA
30270513 TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
30270542 TTTATAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:30272005 original size:51 final size:51
Alignment explanation
Indices: 30271929--30272048 Score: 161
Period size: 51 Copynumber: 2.4 Consensus size: 51
30271919 TCCCAAACTT
* * * *
30271929 ACTTCATACTTCATCCGGAATTATTACTTTGTTGTTCTGGCTTCAACAAGA
1 ACTTCATATTTCATCCGGAATTATTACTTTATTGCTCTAGCTTCAACAAGA
* *
30271980 ACTTCATATTTCATCCTG-ATATATTACTTTATTGCTCTAGTTTCAACAAGA
1 ACTTCATATTTCATCCGGAAT-TATTACTTTATTGCTCTAGCTTCAACAAGA
*
30272031 GCTTCATATTTCATCCGG
1 ACTTCATATTTCATCCGG
30272049 TGTGAAAAAC
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
50 2 0.03
51 58 0.97
ACGTcount: A:0.26, C:0.22, G:0.12, T:0.41
Consensus pattern (51 bp):
ACTTCATATTTCATCCGGAATTATTACTTTATTGCTCTAGCTTCAACAAGA
Found at i:30272920 original size:16 final size:16
Alignment explanation
Indices: 30272885--30272934 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
30272875 TCTATAATTC
*
30272885 ATATTATAATTTAAATA
1 ATATAATAA-TTAAATA
*
30272902 ATATAATAATTATATA
1 ATATAATAATTAAATA
*
30272918 ATATAATAATTTAATA
1 ATATAATAATTAAATA
30272934 A
1 A
30272935 AGTAAGAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
16 21 0.72
17 8 0.28
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
ATATAATAATTAAATA
Found at i:30279704 original size:51 final size:50
Alignment explanation
Indices: 30279628--30279746 Score: 166
Period size: 51 Copynumber: 2.3 Consensus size: 50
30279618 TCCCAAACTT
* * * *
30279628 ACTTCATACTTCATCCAGAATTATTACTTTGTTGTTCTGGCTTCAACAAGA
1 ACTTCATATTTCATCC-GAATTATTACTTTATTGCTCTAGCTTCAACAAGA
*
30279679 ACTTCATATTTCATCCGAATATATTACTTTATTGCTCTAGTTTCAACAAGA
1 ACTTCATATTTCATCCGAAT-TATTACTTTATTGCTCTAGCTTCAACAAGA
*
30279730 GCTTCATATTTCATCCG
1 ACTTCATATTTCATCCG
30279747 GATAACTTAG
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
50 4 0.07
51 57 0.93
ACGTcount: A:0.28, C:0.22, G:0.10, T:0.40
Consensus pattern (50 bp):
ACTTCATATTTCATCCGAATTATTACTTTATTGCTCTAGCTTCAACAAGA
Found at i:30280643 original size:16 final size:16
Alignment explanation
Indices: 30280605--30280654 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
30280595 TCTATAATTC
*
30280605 ATATTATAATTTAAATA
1 ATATAATAA-TTAAATA
* *
30280622 AAATAATAATTATATA
1 ATATAATAATTAAATA
*
30280638 ATATAATAATTTAATA
1 ATATAATAATTAAATA
30280654 A
1 A
30280655 AGTAAGAAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
16 20 0.74
17 7 0.26
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
ATATAATAATTAAATA
Found at i:30299077 original size:40 final size:40
Alignment explanation
Indices: 30298950--30299079 Score: 147
Period size: 40 Copynumber: 3.2 Consensus size: 40
30298940 ATGCTGGAAA
* * *
30298950 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * **
30298990 CTACATCCGGGCTAAGACCCGAAGGCATTCT-TGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATT-TGTGCGAGTGG
* *
30299030 TTCTATCCGGGCCAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
30299070 TTATATCCGG
1 TTATATCCGG
30299080 TTATATTCCG
Statistics
Matches: 73, Mismatches: 14, Indels: 6
0.78 0.15 0.06
Matches are distributed among these distances:
39 2 0.03
40 70 0.96
41 1 0.01
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:30304901 original size:32 final size:32
Alignment explanation
Indices: 30304864--30304936 Score: 78
Period size: 32 Copynumber: 2.3 Consensus size: 32
30304854 TGGCATAAAA
*
30304864 CATCAGTAACT-GTAATA-AATTCGGTACATAGC
1 CATCAGTAA-TGGTAATATAA-TCGGCACATAGC
**
30304896 CATCAGCGATGGTAATATAATCGGCACATAGC
1 CATCAGTAATGGTAATATAATCGGCACATAGC
*
30304928 CATAAGTAA
1 CATCAGTAA
30304937 ATATGATCGA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
31 1 0.03
32 30 0.91
33 2 0.06
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.25
Consensus pattern (32 bp):
CATCAGTAATGGTAATATAATCGGCACATAGC
Found at i:30304945 original size:27 final size:27
Alignment explanation
Indices: 30304909--30304970 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
30304899 CAGCGATGGT
* * *
30304909 AATATAATCGGCACATAGCCATAAGTA
1 AATATGATCGACACAGAGCCATAAGTA
* *
30304936 AATATGATCGACACAGAGTCATCAGTA
1 AATATGATCGACACAGAGCCATAAGTA
30304963 AATATGAT
1 AATATGAT
30304971 ATGTAACGCC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.44, C:0.16, G:0.16, T:0.24
Consensus pattern (27 bp):
AATATGATCGACACAGAGCCATAAGTA
Found at i:30306335 original size:39 final size:40
Alignment explanation
Indices: 30306281--30306503 Score: 276
Period size: 40 Copynumber: 5.6 Consensus size: 40
30306271 AACCCAAGTA
*
30306281 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATG
* *
30306320 CCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-CAACTCGCACAAATG
* *
30306360 CCTTCGGGA-TTAGCCCGGGTATAGCAACTACTCGTACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGC-A--ACTCGCACAAATG
*
30306402 CCTTCGGGACTT-GCCCGGATATAGTC-ACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-CAACTCGCACAAATG
* * *
30306441 CCTTCGGGACTTAGCTCGGATATAGGAACTCGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATG
*
30306481 CCTTCGAGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
30306504 CATCCGAATA
Statistics
Matches: 158, Mismatches: 16, Indels: 19
0.82 0.08 0.10
Matches are distributed among these distances:
38 1 0.01
39 49 0.31
40 73 0.46
41 1 0.01
42 31 0.20
43 3 0.02
ACGTcount: A:0.26, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATG
Found at i:30312436 original size:27 final size:28
Alignment explanation
Indices: 30312379--30312448 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
30312369 AAATTTGTAC
**
30312379 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
30312407 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
30312434 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
30312449 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:30312457 original size:27 final size:27
Alignment explanation
Indices: 30312379--30312460 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
30312369 AAATTTGTAC
* *
30312379 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
30312407 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
30312434 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
30312461 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:30320317 original size:40 final size:40
Alignment explanation
Indices: 30320258--30320399 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
30320248 AAATTGAATG
* * *
30320258 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
30320298 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
30320338 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
30320378 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
30320400 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:30320400 original size:40 final size:39
Alignment explanation
Indices: 30320297--30320425 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
30320287 TGCTGGAAAT
* * *
30320297 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
30320337 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
30320377 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
30320417 TATATCCGG
1 TATATCCGG
30320426 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:30328321 original size:40 final size:40
Alignment explanation
Indices: 30328255--30328421 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
30328245 AAATTGAATG
* * *
30328255 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
30328294 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
30328334 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
30328374 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
30328414 ATATCCGG
1 ATATCCGG
30328422 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:30331642 original size:9 final size:9
Alignment explanation
Indices: 30331626--30331666 Score: 57
Period size: 9 Copynumber: 4.7 Consensus size: 9
30331616 TTAATTTAGA
30331626 AATTAATTT
1 AATTAATTT
*
30331635 AGTTAATTT
1 AATTAATTT
*
30331644 AATTAATTA
1 AATTAATTT
30331653 AATTAATTT
1 AATTAATTT
30331662 -ATTAA
1 AATTAA
30331667 ATAAAAATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
8 5 0.18
9 23 0.82
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (9 bp):
AATTAATTT
Found at i:30331653 original size:13 final size:13
Alignment explanation
Indices: 30331625--30331668 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
30331615 TTTAATTTAG
*
30331625 AAATTAATTTAGTT
1 AAATTAA-TTAATT
*
30331639 AATTTAATTAATT
1 AAATTAATTAATT
*
30331652 AAATTAATTTATT
1 AAATTAATTAATT
30331665 AAAT
1 AAAT
30331669 AAAAATATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
13 20 0.77
14 6 0.23
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (13 bp):
AAATTAATTAATT
Found at i:30333076 original size:51 final size:52
Alignment explanation
Indices: 30332955--30333088 Score: 193
Period size: 51 Copynumber: 2.6 Consensus size: 52
30332945 ATGTCACTAG
30332955 TGACT-CAAGTGTGGTACTATGTGAAGGCCACTTTGTAAAGAAAGATAGCTT
1 TGACTACAAGTGTGGTACTATGTGAAGGCCACTTTGTAAAGAAAGATAGCTT
* * *
30333006 TG-GTCACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAG-AAGGTAGCTT
1 TGACT-ACAAGTGTGGTACTATGTGAAGGCCACTTTGTAAAGAAAGATAGCTT
* *
30333057 TGACTACAAGGGTGGTACTATGTGATGGCCAC
1 TGACTACAAGTGTGGTACTATGTGAAGGCCAC
30333089 CGGGTATCCA
Statistics
Matches: 74, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
50 1 0.01
51 38 0.51
52 35 0.47
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (52 bp):
TGACTACAAGTGTGGTACTATGTGAAGGCCACTTTGTAAAGAAAGATAGCTT
Found at i:30336004 original size:14 final size:14
Alignment explanation
Indices: 30335985--30336023 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
30335975 TTGTTTTACT
30335985 GAAAATGGCTTCCG
1 GAAAATGGCTTCCG
** *
30335999 GAAAATGATTTCTG
1 GAAAATGGCTTCCG
30336013 GAAAATGGCTT
1 GAAAATGGCTT
30336024 ACTTTCCTGG
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (14 bp):
GAAAATGGCTTCCG
Found at i:30336633 original size:16 final size:19
Alignment explanation
Indices: 30336608--30336663 Score: 55
Period size: 18 Copynumber: 2.9 Consensus size: 19
30336598 TAAAATTGAA
30336608 ATATTAAATAATTTATTAA-
1 ATATT-AATAATTTATTAAT
30336627 A-A-TAATAAATTATATTAATT
1 ATATTAAT-AATT-TATTAA-T
30336647 ATATTAATAATTTATTA
1 ATATTAATAATTTATTA
30336664 TATGACTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
16 3 0.10
17 5 0.16
18 7 0.23
19 1 0.03
20 6 0.19
21 5 0.16
22 4 0.13
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
ATATTAATAATTTATTAAT
Found at i:30341098 original size:28 final size:28
Alignment explanation
Indices: 30341057--30341125 Score: 93
Period size: 28 Copynumber: 2.5 Consensus size: 28
30341047 AGTCAAATTC
* * *
30341057 TAACGGTTAAATTCTAACGACCATATTG
1 TAACGGTTAGATTCCAACAACCATATTG
30341085 TAACGGTTAGATTCCAACAACCATATTG
1 TAACGGTTAGATTCCAACAACCATATTG
* *
30341113 TAACAGTCAGATT
1 TAACGGTTAGATT
30341126 TTTGCATTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.30
Consensus pattern (28 bp):
TAACGGTTAGATTCCAACAACCATATTG
Found at i:30346909 original size:40 final size:40
Alignment explanation
Indices: 30346835--30347012 Score: 191
Period size: 40 Copynumber: 4.5 Consensus size: 40
30346825 GAGTCACGTA
** *
30346835 CCTTCGGGAT-TTAA-CCGGATATAACCACAAGCACAATTG
1 CCTTCGGG-TCTTAACCCGGATATAATAACTAGCACAATTG
* * *
30346874 CCTTCGGGTCTTAACCCGGATTTAGTAACTTGCACAATTG
1 CCTTCGGGTCTTAACCCGGATATAATAACTAGCACAATTG
* *
30346914 CCTTCGGGTCTTAACCCGGATATAACAACTCGCACGAA-TG
1 CCTTCGGGTCTTAACCCGGATATAATAACTAGCAC-AATTG
* * * *
30346954 CCTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATG
1 CCTTCGGGTCTTAACCCGGATATAATAACTAGCACAATTG
* *
30346994 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGTCTTAACCCGG
30347013 GTATCATTCA
Statistics
Matches: 119, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
38 1 0.01
39 14 0.12
40 102 0.86
41 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
CCTTCGGGTCTTAACCCGGATATAATAACTAGCACAATTG
Found at i:30349509 original size:93 final size:93
Alignment explanation
Indices: 30349265--30349582 Score: 343
Period size: 93 Copynumber: 3.4 Consensus size: 93
30349255 TGTAACCCGC
* * * *
30349265 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--GCGTTCGCATCCATAAGTGAACTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGCATCCATAAGCGAACTCGGA
* *
30349328 CTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
65 CTCAACTCAACGAGGTCGGA---C-A-TTCGCAT
* * * * *
30349361 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCGCATCCATAAGTGAACTCGGAC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGCATCCATAAGCGAACTCGGAC
*
30349422 TCAACTCAACGAGGTC-GAGCGTTCGCAT
66 TCAACTCAACGAGGTCGGA-CATTCGCAT
*
30349450 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-TCA-CGAACTCG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG---CATCCATAAGCGAACTCG
*
30349512 GACTCAACTCAACGAGTTCGGACATTCGCAT
63 GACTCAACTCAACGAGGTCGGACATTCGCAT
30349543 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
30349583 TCAACCATCC
Statistics
Matches: 195, Mismatches: 16, Indels: 25
0.83 0.07 0.11
Matches are distributed among these distances:
88 2 0.01
89 3 0.02
90 2 0.01
91 2 0.01
92 32 0.16
93 142 0.73
94 6 0.03
95 3 0.02
96 3 0.02
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGCATCCATAAGCGAACTCGGAC
TCAACTCAACGAGGTCGGACATTCGCAT
Found at i:30349515 original size:139 final size:139
Alignment explanation
Indices: 30349265--30349573 Score: 582
Period size: 139 Copynumber: 2.2 Consensus size: 139
30349255 TGTAACCCGC
*
30349265 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGCATCCATAAGTGAACTCGGACT
30349330 CAACTCAACGAGTTCGGATGCCTAGTTACATCTCACGAACTCGGACTCAACTCAACGAGTTCGGA
66 CAACTCAACGAGTTCGGATGCCTAGTTACATCTCACGAACTCGGACTCAACTCAACGAGTTCGGA
*
30349395 CGCTCGCAT
131 CACTCGCAT
*
30349404 CCATAAGTGAACTCGGACTCAACTCAACGAGGTCGAGCGTTCGCATCCATAAGTGAACTCGGACT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGCATCCATAAGTGAACTCGGACT
30349469 CAACTCAACGAGTTCGGATGCCTAGTTACATCTCACGAACTCGGACTCAACTCAACGAGTTCGGA
66 CAACTCAACGAGTTCGGATGCCTAGTTACATCTCACGAACTCGGACTCAACTCAACGAGTTCGGA
*
30349534 CATTCGCAT
131 CACTCGCAT
30349543 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAG
30349574 TTCGGATGCT
Statistics
Matches: 166, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
139 166 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (139 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGCATCCATAAGTGAACTCGGACT
CAACTCAACGAGTTCGGATGCCTAGTTACATCTCACGAACTCGGACTCAACTCAACGAGTTCGGA
CACTCGCAT
Found at i:30349579 original size:46 final size:47
Alignment explanation
Indices: 30349265--30349579 Score: 368
Period size: 46 Copynumber: 6.8 Consensus size: 47
30349255 TGTAACCCGC
* *
30349265 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG-GCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCAT
*
30349311 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA-G-C-A-TTCGCAT
* *
30349361 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGC--TCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA-GCATTCGCAT
* *
30349404 CCATAAGTGAACTCGGACTCAACTCAACGAGGTC-GAGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCAT
*
30349450 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA-G-C-A-TTCGCAT
* *
30349500 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA-CATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCAT
30349543 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
30349580 TGCTCAACCA
Statistics
Matches: 231, Mismatches: 18, Indels: 40
0.80 0.06 0.14
Matches are distributed among these distances:
42 3 0.01
43 7 0.03
44 5 0.02
45 6 0.03
46 129 0.56
47 61 0.26
48 6 0.03
49 4 0.02
50 6 0.03
51 4 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (47 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCAT
Found at i:30352001 original size:30 final size:30
Alignment explanation
Indices: 30351957--30352045 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
30351947 CAAAGATAAC
30351957 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
30351986 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
30352016 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
30352046 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:30352005 original size:15 final size:15
Alignment explanation
Indices: 30351957--30352036 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
30351947 CAAAGATAAC
*
30351957 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
30351971 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
30351986 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
30352001 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
30352016 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
30352031 AAGAAA
1 AAGAAA
30352037 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:30352045 original size:15 final size:15
Alignment explanation
Indices: 30351968--30352045 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
30351958 AGAAAACCGA
30351968 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
30351983 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
30351997 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
30352012 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
30352028 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
30352043 ATA
1 ATA
30352046 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:30355056 original size:46 final size:46
Alignment explanation
Indices: 30354989--30355302 Score: 374
Period size: 46 Copynumber: 6.8 Consensus size: 46
30354979 TGTAACCCGC
*
30354989 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
30355035 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * * *
30355085 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
30355128 CCATAAGTGAACTCGGACTCAACTCAACGAGGTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
30355174 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * * *
30355224 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
30355267 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
30355303 ATGCTCAACC
Statistics
Matches: 229, Mismatches: 21, Indels: 36
0.80 0.07 0.13
Matches are distributed among these distances:
42 4 0.02
43 6 0.03
44 4 0.02
45 4 0.02
46 133 0.58
47 56 0.24
48 6 0.03
49 4 0.02
50 6 0.03
51 6 0.03
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:30355233 original size:93 final size:93
Alignment explanation
Indices: 30354989--30355306 Score: 350
Period size: 93 Copynumber: 3.4 Consensus size: 93
30354979 TGTAACCCGC
* * * *
30354989 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--GCGTTCGCATCCATAAGTGAACTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGCATCCATAAGCGAACTCGGA
* *
30355052 CTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
65 CTCAACTCAACGAGGTCGGA---C-A-TTCGCAT
* * * * *
30355085 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCGCATCCATAAGTGAACTCGGAC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGCATCCATAAGCGAACTCGGAC
* *
30355146 TCAACTCAACGAGGTCGGGCGTTCGCAT
66 TCAACTCAACGAGGTCGGACATTCGCAT
*
30355174 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-TCA-CGAACTCG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG---CATCCATAAGCGAACTCG
*
30355236 GACTCAACTCAACGAGTTCGGACATTCGCAT
63 GACTCAACTCAACGAGGTCGGACATTCGCAT
30355267 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
30355307 TCAACCATCC
Statistics
Matches: 195, Mismatches: 17, Indels: 23
0.83 0.07 0.10
Matches are distributed among these distances:
88 2 0.01
89 3 0.02
90 2 0.01
91 2 0.01
92 30 0.15
93 146 0.75
94 4 0.02
95 3 0.02
96 3 0.02
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGCATCCATAAGCGAACTCGGAC
TCAACTCAACGAGGTCGGACATTCGCAT
Found at i:30355322 original size:139 final size:139
Alignment explanation
Indices: 30354989--30355302 Score: 592
Period size: 139 Copynumber: 2.3 Consensus size: 139
30354979 TGTAACCCGC
30354989 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACT
30355054 CAACTCAACGAGTTCGGATGCCTAGTTACATCTCACGAACTCGGACTCAACTCAACGAGTTCGGA
66 CAACTCAACGAGTTCGGATGCCTAGTTACATCTCACGAACTCGGACTCAACTCAACGAGTTCGGA
*
30355119 CGCTCGCAT
131 CACTCGCAT
*
30355128 CCATAAGTGAACTCGGACTCAACTCAACGAGGTCGGGCGTTCGCATCCATAAGTGAACTCGGACT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACT
30355193 CAACTCAACGAGTTCGGATGCCTAGTTACATCTCACGAACTCGGACTCAACTCAACGAGTTCGGA
66 CAACTCAACGAGTTCGGATGCCTAGTTACATCTCACGAACTCGGACTCAACTCAACGAGTTCGGA
*
30355258 CATTCGCAT
131 CACTCGCAT
*
30355267 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
30355303 ATGCTCAACC
Statistics
Matches: 171, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
139 171 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (139 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACT
CAACTCAACGAGTTCGGATGCCTAGTTACATCTCACGAACTCGGACTCAACTCAACGAGTTCGGA
CACTCGCAT
Found at i:30358846 original size:32 final size:32
Alignment explanation
Indices: 30358801--30358879 Score: 97
Period size: 32 Copynumber: 2.5 Consensus size: 32
30358791 TCCCAATATT
*
30358801 CCCACACGTCCGTGTAGTTCACCCGTGTAGGG-
1 CCCACACGCCCGTGTAGTTCACCCGTGT-GGGA
* * *
30358833 CCCACAAGCCCGTGTGGTTCACTCGTGTGGGA
1 CCCACACGCCCGTGTAGTTCACCCGTGTGGGA
*
30358865 CCCACACGCCTGTGT
1 CCCACACGCCCGTGT
30358880 GGCCCACACG
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
31 3 0.08
32 37 0.93
ACGTcount: A:0.15, C:0.35, G:0.28, T:0.22
Consensus pattern (32 bp):
CCCACACGCCCGTGTAGTTCACCCGTGTGGGA
Found at i:30361874 original size:40 final size:39
Alignment explanation
Indices: 30361821--30361919 Score: 135
Period size: 39 Copynumber: 2.5 Consensus size: 39
30361811 GGTTACAGTG
* *
30361821 ACTCGCACGAATGCCTTCGGGACTTAACCTGGGTTTAGTA
1 ACTCGCACGAATGCCTTCGGG-CTTAACCCGGATTTAGTA
* * * *
30361861 ACTTGCACAAATGCCTTCGGGCTTAGCCCGGATTTATTA
1 ACTCGCACGAATGCCTTCGGGCTTAACCCGGATTTAGTA
30361900 ACTCGCACGAATGCCTTCGG
1 ACTCGCACGAATGCCTTCGG
30361920 ATCCTAGTCC
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 32 0.63
40 19 0.37
ACGTcount: A:0.22, C:0.27, G:0.23, T:0.27
Consensus pattern (39 bp):
ACTCGCACGAATGCCTTCGGGCTTAACCCGGATTTAGTA
Found at i:30361889 original size:79 final size:81
Alignment explanation
Indices: 30361788--30361972 Score: 211
Period size: 79 Copynumber: 2.3 Consensus size: 81
30361778 ACGACTCGCT
** * *
30361788 CAAATGCCTTCGGGACGAAGCCCGG-TTACAGTGACTCGCACGAATGCCTTCGGGA-CTTA-ACC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-CAGTAACTCGCACGAATGCCTTC-GGATCCTAGACC
* *
30361850 TGGGTTTAGTAACTT-GCA
64 -GGATATAGTAACTTAGCA
* * *
30361868 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTCAGTAACTCGCACGAATGCCTTCGGATCCTAGACCGG
*
30361932 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
30361948 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
30361973 CATCATTCGA
Statistics
Matches: 90, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
78 3 0.03
79 51 0.57
80 36 0.40
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTCAGTAACTCGCACGAATGCCTTCGGATCCTAGACCGG
ATATAGTAACTTAGCA
Found at i:30361913 original size:39 final size:40
Alignment explanation
Indices: 30361781--30361972 Score: 167
Period size: 40 Copynumber: 4.8 Consensus size: 40
30361771 GGATATAACG
* * ** * *
30361781 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGG-TTACAGTG
1 ACTCGCACGAATGCCTTCGGGACTTAGCCCGGATT-TAGTA
* * *
30361821 ACTCGCACGAATGCCTTCGGGACTTAACCTGGGTTTAGTA
1 ACTCGCACGAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* * *
30361861 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACGAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* * * *
30361900 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCACGAATGCCTTCGGGA-CTTAGCCCGGATTTAGTA
* *
30361940 ACTTAGCAC-AAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACGAATGCCTTCGGGACTTAGCCCGGA
30361973 CATCATTCGA
Statistics
Matches: 122, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 80 0.66
41 10 0.08
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
ACTCGCACGAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:30370027 original size:49 final size:49
Alignment explanation
Indices: 30369970--30370147 Score: 220
Period size: 49 Copynumber: 3.7 Consensus size: 49
30369960 ACATATCTAA
30369970 GCCGATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAG
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAG
* * * *
30370019 GCCGATGCCATGTCCTAGACAGGTCTTACACTGGCTCTCATCTATCG-G
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAG
* * * *
30370067 TGTCAATGCCATGTCCCAGACAGGTCTTACACT-AGCTTGCATA-ACTCAAG
1 -GCCGATGCCATGTCCCAGACAGGTCTTACACTGA-CTTTCATATA-TCGAG
*
30370117 GCCGATG-CATGTCCCAGACATGTCTTACACT
1 GCCGATGCCATGTCCCAGACAGGTCTTACACT
30370148 AGCTCTTATC
Statistics
Matches: 110, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
48 25 0.23
49 84 0.76
50 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (49 bp):
GCCGATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAG
Found at i:30370092 original size:98 final size:97
Alignment explanation
Indices: 30369974--30370158 Score: 275
Period size: 98 Copynumber: 1.9 Consensus size: 97
30369964 ATCTAAGCCG
* * *
30369974 ATGCCATGTCCCAGACAGGTCTTACACT-GACTTTCATATA-TCGAGGCCGATGCCATGTCCTAG
1 ATGCCATGTCCCAGACAGGTCTTACACTAG-CTTGCATA-ACTCAAGGCCGATG-CATGTCCCAG
*
30370037 ACAGGTCTTACACTGGCTCTCATCTATCGGTGTCA
63 ACAGGTCTTACACTAGCTCTCATCTATCGGTGTCA
30370072 ATGCCATGTCCCAGACAGGTCTTACACTAGCTTGCATAACTCAAGGCCGATGCATGTCCCAGACA
1 ATGCCATGTCCCAGACAGGTCTTACACTAGCTTGCATAACTCAAGGCCGATGCATGTCCCAGACA
* *
30370137 TGTCTTACACTAGCTCTTATCT
66 GGTCTTACACTAGCTCTCATCT
30370159 CAATACCGAT
Statistics
Matches: 79, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
97 32 0.41
98 46 0.58
99 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (97 bp):
ATGCCATGTCCCAGACAGGTCTTACACTAGCTTGCATAACTCAAGGCCGATGCATGTCCCAGACA
GGTCTTACACTAGCTCTCATCTATCGGTGTCA
Found at i:30370178 original size:46 final size:48
Alignment explanation
Indices: 30370077--30370196 Score: 172
Period size: 46 Copynumber: 2.5 Consensus size: 48
30370067 TGTCAATGCC
* * *
30370077 ATGTCCCAGACAGGTCTTACACTAGCTTGCATAACTCAAGGCCGATGC
1 ATGTCCCAGACATGTCTTACACTAGCTTGCATAACTCAAGACCGATGA
* * *
30370125 ATGTCCCAGACATGTCTTACACTAGC-T-CTTATCTCAATACCGATGA
1 ATGTCCCAGACATGTCTTACACTAGCTTGCATAACTCAAGACCGATGA
30370171 ATGTCCCAGACATGTCTTACACTAGC
1 ATGTCCCAGACATGTCTTACACTAGC
30370197 ACACATATCA
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
46 40 0.61
47 1 0.02
48 25 0.38
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.27
Consensus pattern (48 bp):
ATGTCCCAGACATGTCTTACACTAGCTTGCATAACTCAAGACCGATGA
Found at i:30370869 original size:20 final size:18
Alignment explanation
Indices: 30370832--30370874 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 18
30370822 CTATAGCAAC
30370832 TCACAATTT-CAATTATT
1 TCACAATTTACAATTATT
30370849 TCACACATTTACAACTTATT
1 TCACA-ATTTACAA-TTATT
*
30370869 TTACAA
1 TCACAA
30370875 ACTTTACAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 5 0.23
18 4 0.18
19 4 0.18
20 9 0.41
ACGTcount: A:0.37, C:0.21, G:0.00, T:0.42
Consensus pattern (18 bp):
TCACAATTTACAATTATT
Found at i:30371770 original size:22 final size:22
Alignment explanation
Indices: 30371742--30371790 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
30371732 GATCATATTG
*
30371742 CAACATTGTAACGTTCAGATTC
1 CAACATTGTAACATTCAGATTC
30371764 CAACATTGTAACATTCAGATTC
1 CAACATTGTAACATTCAGATTC
30371786 CAACA
1 CAACA
30371791 GTCAGATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.37, C:0.24, G:0.10, T:0.29
Consensus pattern (22 bp):
CAACATTGTAACATTCAGATTC
Found at i:30372125 original size:22 final size:23
Alignment explanation
Indices: 30372094--30372140 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
30372084 TATTAGAATA
30372094 ATAAAATATAAT-TTT-AAAATGT
1 ATAAAATATAATATTTGAAAA-GT
*
30372116 ATAAATTATAATATTTGAAAAGT
1 ATAAAATATAATATTTGAAAAGT
30372139 AT
1 AT
30372141 TATAATTGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 11 0.50
23 7 0.32
24 4 0.18
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.40
Consensus pattern (23 bp):
ATAAAATATAATATTTGAAAAGT
Found at i:30372269 original size:12 final size:12
Alignment explanation
Indices: 30372252--30372278 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
30372242 TAATATAAAC
30372252 AAAAAAAAAAAG
1 AAAAAAAAAAAG
30372264 AAAAAAAAAAAG
1 AAAAAAAAAAAG
30372276 AAA
1 AAA
30372279 GAGAAACGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAAG
Found at i:30378277 original size:18 final size:18
Alignment explanation
Indices: 30378254--30378299 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
30378244 ATATATATAT
*
30378254 TTTTAAAAAATTTTAAAA
1 TTTTAAAAAATGTTAAAA
* *
30378272 TTTTAAGAAATGTTAGAA
1 TTTTAAAAAATGTTAAAA
30378290 -TTTAAAAAAT
1 TTTTAAAAAAT
30378300 AAAAATTTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 9 0.38
18 15 0.62
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (18 bp):
TTTTAAAAAATGTTAAAA
Found at i:30378941 original size:20 final size:19
Alignment explanation
Indices: 30378918--30378970 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 19
30378908 AGTTTTGAAT
30378918 ATTTTTATAAATTTTAGTAA
1 ATTTTTATAAATTTTA-TAA
**
30378938 ATTTTTATATTTTTTATAA
1 ATTTTTATAAATTTTATAA
*
30378957 TTTTTTAT-AATTTT
1 ATTTTTATAAATTTT
30378971 TCCTTTTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
18 4 0.14
19 10 0.36
20 14 0.50
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (19 bp):
ATTTTTATAAATTTTATAA
Found at i:30378971 original size:9 final size:9
Alignment explanation
Indices: 30378918--30378971 Score: 63
Period size: 9 Copynumber: 5.7 Consensus size: 9
30378908 AGTTTTGAAT
30378918 ATTTTTATA
1 ATTTTTATA
*
30378927 AATTTTAGTAA
1 ATTTTTA-T-A
30378938 ATTTTTATA
1 ATTTTTATA
*
30378947 TTTTTTATA
1 ATTTTTATA
30378956 ATTTTTTATA
1 A-TTTTTATA
30378966 ATTTTT
1 ATTTTT
30378972 CCTTTTTTTG
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
9 20 0.53
10 11 0.29
11 7 0.18
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (9 bp):
ATTTTTATA
Found at i:30380912 original size:10 final size:11
Alignment explanation
Indices: 30380879--30380935 Score: 60
Period size: 11 Copynumber: 5.1 Consensus size: 11
30380869 TTTTAAATCA
*
30380879 TTTATATATTT
1 TTTATAAATTT
30380890 TTTATAAATTT
1 TTTATAAATTT
*
30380901 TTTATAGATTT
1 TTTATAAATTT
** *
30380912 TCAATAATTTT
1 TTTATAAATTT
30380923 TTTATAAAATTT
1 TTTAT-AAATTT
30380935 T
1 T
30380936 AGAATTTACT
Statistics
Matches: 36, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
11 30 0.83
12 6 0.17
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (11 bp):
TTTATAAATTT
Found at i:30381639 original size:2 final size:2
Alignment explanation
Indices: 30381632--30381659 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
30381622 AGTTCGTACA
30381632 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
30381660 GTATGTGCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:30391143 original size:40 final size:40
Alignment explanation
Indices: 30391082--30391189 Score: 155
Period size: 40 Copynumber: 2.7 Consensus size: 40
30391072 CATTTGAATG
* *
30391082 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTTG-TT
* **
30391122 ATATCCGGGCTAAGACTCGAAGGCATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGTT
30391162 ATATCCGGGCTAAGACCCGAAGGCATTT
1 ATATCCGGGCTAAGACCCGAAGGCATTT
30391190 GTGCAAGTCA
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
40 58 0.97
41 2 0.03
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGTT
Found at i:30391246 original size:82 final size:80
Alignment explanation
Indices: 30391082--30391255 Score: 199
Period size: 80 Copynumber: 2.2 Consensus size: 80
30391072 CATTTGAATG
* * * ** * *
30391082 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACTCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTCACCAAATCCGGGCTAAGACCCGAAGGCA
*
30391147 TTCGTGCGAGTTGTT
66 TTCGTGCGAGTGGTT
* *
30391162 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCACCACCAATCCGGGTTAAGACCCGAAGG
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTCACCA--AATCCGGGCTAAGACCCGAAGG
**
30391227 CAATT-GTGCTTGTGGTT
64 C-ATTCGTGCGAGTGGTT
30391244 ATATCC-GGCTAA
1 ATATCCGGGCTAA
30391256 ATTCCGAAGA
Statistics
Matches: 79, Mismatches: 12, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
80 35 0.44
81 6 0.08
82 35 0.44
83 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.26
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTCACCAAATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTGGTT
Found at i:30399300 original size:40 final size:40
Alignment explanation
Indices: 30399201--30399371 Score: 186
Period size: 40 Copynumber: 4.3 Consensus size: 40
30399191 CATTTGAATG
* *
30399201 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTG-TT
* *
30399241 ATAT-CGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTT
* ****
30399280 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTT
* * * * *
30399320 AAATCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTT
30399360 ATATCC-GGCTAA
1 ATATCCGGGCTAA
30399372 ATTTCGAAGA
Statistics
Matches: 108, Mismatches: 21, Indels: 5
0.81 0.16 0.04
Matches are distributed among these distances:
39 37 0.34
40 71 0.66
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTT
Found at i:30399370 original size:79 final size:79
Alignment explanation
Indices: 30399201--30399371 Score: 211
Period size: 79 Copynumber: 2.2 Consensus size: 79
30399191 CATTTGAATG
* * * ** *
30399201 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCGGGCTAAGACCCGAAGGCAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTCACCAAATCGGGCTAAGACCCGAAGGCAT
*
30399266 TCGTGCGAGTTGTT
66 TCGTGCGAGTGGTT
* *
30399280 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCACCAAATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTCACCAAAT-CGGGCTAAGACCCGAAGGC-
**
30399345 ATT-GTGCTTGTGGTT
64 ATTCGTGCGAGTGGTT
30399360 ATATCC-GGCTAA
1 ATATCCGGGCTAA
30399372 ATTTCGAAGA
Statistics
Matches: 79, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
79 43 0.54
80 33 0.42
81 3 0.04
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (79 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTCACCAAATCGGGCTAAGACCCGAAGGCAT
TCGTGCGAGTGGTT
Found at i:30408997 original size:33 final size:33
Alignment explanation
Indices: 30408932--30408998 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
30408922 CAAATAAGAG
30408932 TTGAAAAACTGAAATGGTTTTATCGAATAAACT
1 TTGAAAAACTGAAATGGTTTTATCGAATAAACT
30408965 TTGAAAAACTGAAATGGTTTTATCGAATAAACT
1 TTGAAAAACTGAAATGGTTTTATCGAATAAACT
30408998 T
1 T
30408999 CATTATCAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.42, C:0.09, G:0.15, T:0.34
Consensus pattern (33 bp):
TTGAAAAACTGAAATGGTTTTATCGAATAAACT
Found at i:30409329 original size:17 final size:17
Alignment explanation
Indices: 30409291--30409332 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
30409281 TACAAAAATA
*
30409291 ATAAGAATACCAATTTT
1 ATAATAATACCAATTTT
*
30409308 ATAATAATATCAATTTT
1 ATAATAATACCAATTTT
30409325 ATAATAAT
1 ATAATAAT
30409333 GGTAATAATC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.50, C:0.07, G:0.02, T:0.40
Consensus pattern (17 bp):
ATAATAATACCAATTTT
Found at i:30409833 original size:52 final size:52
Alignment explanation
Indices: 30409719--30409835 Score: 130
Period size: 52 Copynumber: 2.2 Consensus size: 52
30409709 AGAGCAAGGC
* *
30409719 AATAATAAATAAATAAATAAGCAAATAAAAAAATCATGAAAGGCTGAAATTAT
1 AATAATAAATAAATAAATAA-CAAATAAAAAAATAATGAAAAGCTGAAATTAT
* * ** *
30409772 CATAATAAATACATAAATAA-ATAATAAAAATTTAATGAAAAGTTGAAATTA-
1 AATAATAAATAAATAAATAACA-AATAAAAAAATAATGAAAAGCTGAAATTAT
30409823 AATAAGTAAATAA
1 AATAA-TAAATAA
30409836 GTTATAAATG
Statistics
Matches: 53, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
51 5 0.09
52 30 0.57
53 18 0.34
ACGTcount: A:0.62, C:0.04, G:0.08, T:0.26
Consensus pattern (52 bp):
AATAATAAATAAATAAATAACAAATAAAAAAATAATGAAAAGCTGAAATTAT
Found at i:30411666 original size:44 final size:44
Alignment explanation
Indices: 30411584--30411893 Score: 269
Period size: 44 Copynumber: 7.0 Consensus size: 44
30411574 AGACGTATAG
** * ** * *
30411584 GATTTGTAATTTCAATCTACTCCGTTGCAACCTCAGGGAGATGA
1 GATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAA
* * * *
30411628 GATTTGTAGCTTTAATATGCTCCACTACAACTTTAGGGAGATAA
1 GATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAA
* * * * *
30411672 GATTTGCTATCTTCAATCTGCTCCACTGTAACTTCCGAGAAATAA
1 GATTTG-TAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAA
* * **
30411717 TATTTGTAGCTTCAATCTGCTCTACTGCAACTTCAAAGAGATAA
1 GATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAA
** * * *
30411761 GATTTACCATCTTCAATCTGCTCCATTGCAACTTCAGGGAAATAA
1 GATTT-GTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAA
* * * *
30411806 GATTTGTAGTTTTAATATGCTCCACTGCAACTTCATGGAGATAA
1 GATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAA
* * * * * * **
30411850 GACTTATGGTTTTAATCTGCTCCACTACAACTTTGGGGAGATAA
1 GATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAA
30411894 TAAATCTTAT
Statistics
Matches: 211, Mismatches: 53, Indels: 4
0.79 0.20 0.01
Matches are distributed among these distances:
44 141 0.67
45 70 0.33
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.34
Consensus pattern (44 bp):
GATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAA
Found at i:30411738 original size:89 final size:89
Alignment explanation
Indices: 30411594--30411882 Score: 314
Period size: 89 Copynumber: 3.3 Consensus size: 89
30411584 GATTTGTAAT
* ** * * * * *
30411594 TTCAATCTACTCCGTTGCAACCTCAGGGAGATGAGATTTGTAGCTTTAATATGCTCCACTACAAC
1 TTCAATCTGCTCCACTGCAACTTCAGAGAAATAAGATTTGTAGCTTTAATATGCTCCACTGCAAC
* *
30411659 TTTAGGGAGATAAGATTTGCTATC
66 TTCAAGGAGATAAGATTTGCTATC
* * * * * *
30411683 TTCAATCTGCTCCACTGTAACTTCCGAGAAATAATATTTGTAGCTTCAATCTGCTCTACTGCAAC
1 TTCAATCTGCTCCACTGCAACTTCAGAGAAATAAGATTTGTAGCTTTAATATGCTCCACTGCAAC
* * *
30411748 TTCAAAGAGATAAGATTTACCATC
66 TTCAAGGAGATAAGATTTGCTATC
* * *
30411772 TTCAATCTGCTCCATTGCAACTTCAGGGAAATAAGATTTGTAGTTTTAATATGCTCCACTGCAAC
1 TTCAATCTGCTCCACTGCAACTTCAGAGAAATAAGATTTGTAGCTTTAATATGCTCCACTGCAAC
* *
30411837 TTCATGGAGATAAGACTTATGGT-T-
66 TTCAAGGAGATAAGA-TT-TGCTATC
*
30411861 TT-AATCTGCTCCACTACAACTT
1 TTCAATCTGCTCCACTGCAACTT
30411883 TGGGGAGATA
Statistics
Matches: 163, Mismatches: 35, Indels: 5
0.80 0.17 0.02
Matches are distributed among these distances:
88 18 0.11
89 141 0.87
90 3 0.02
91 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (89 bp):
TTCAATCTGCTCCACTGCAACTTCAGAGAAATAAGATTTGTAGCTTTAATATGCTCCACTGCAAC
TTCAAGGAGATAAGATTTGCTATC
Found at i:30428331 original size:43 final size:43
Alignment explanation
Indices: 30428250--30428420 Score: 236
Period size: 43 Copynumber: 4.0 Consensus size: 43
30428240 TCTGAATTCA
* ** *
30428250 TTCACCGGCATT-TCGCCTGCTAGGCTTGAAGCCCGATATCGT
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
* * *
30428292 TTCACCGGCATTATAGCCTGCTAGGCCCGAGGCCTGATATTAT
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
*
30428335 CTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
* *
30428378 TTCACCGACATTATAGCCAGCTAGGCCCGAAGCCCGTATATCA
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCG-ATATCA
30428421 CATTTCGATA
Statistics
Matches: 113, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
42 12 0.11
43 95 0.84
44 6 0.05
ACGTcount: A:0.22, C:0.32, G:0.22, T:0.25
Consensus pattern (43 bp):
TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
Found at i:30429312 original size:70 final size:70
Alignment explanation
Indices: 30429195--30429326 Score: 201
Period size: 70 Copynumber: 1.9 Consensus size: 70
30429185 TAGCACATAA
* * * * *
30429195 CACCATGATTTTGTCCTAATTTAGACAGCCAATAATTTACAGTATTACAACAGCATATTAATCAG
1 CACCATAAATTTGTCCTAATTTAGACAACCAATAATTTACAGCATTACAACAGCAAATTAATCAG
30429260 CTAAG
66 CTAAG
* *
30429265 CACCATAAATTTGTCCTAATTTGGACAACCAATAATTTACAGCATTACAGCAGCAAATTAAT
1 CACCATAAATTTGTCCTAATTTAGACAACCAATAATTTACAGCATTACAACAGCAAATTAAT
30429327 TAGTAACAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
70 55 1.00
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.30
Consensus pattern (70 bp):
CACCATAAATTTGTCCTAATTTAGACAACCAATAATTTACAGCATTACAACAGCAAATTAATCAG
CTAAG
Found at i:30434012 original size:31 final size:31
Alignment explanation
Indices: 30433960--30434025 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
30433950 AACCCTTCTT
* *
30433960 GCATTAAATCCAATCAAAATCAACAAATATA
1 GCATGAAATCCAACCAAAATCAACAAATATA
* *
30433991 GCATGAAATGCAACCAAAATCAACAAATTTA
1 GCATGAAATCCAACCAAAATCAACAAATATA
30434022 GCAT
1 GCAT
30434026 AAAAATACAG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.52, C:0.20, G:0.08, T:0.21
Consensus pattern (31 bp):
GCATGAAATCCAACCAAAATCAACAAATATA
Found at i:30438296 original size:9 final size:9
Alignment explanation
Indices: 30438284--30438571 Score: 107
Period size: 9 Copynumber: 32.1 Consensus size: 9
30438274 AAGTATAATA
30438284 AAGTTATGT
1 AAGTTATGT
*
30438293 AAGTCATGT
1 AAGTTATGT
30438302 -A-TTATGT
1 AAGTTATGT
*
30438309 AAGATAT-T
1 AAGTTATGT
*
30438317 TA-TTATGT
1 AAGTTATGT
30438325 AAGTTATGT
1 AAGTTATGT
*
30438334 AAATTATGT
1 AAGTTATGT
*
30438343 AAGTTATGA
1 AAGTTATGT
* *
30438352 AATTTGATCTTT
1 AAGTT-A--TGT
* *
30438364 AAATTATAT
1 AAGTTATGT
30438373 AAGTTATGT
1 AAGTTATGT
*
30438382 -A-TTATCT
1 AAGTTATGT
*
30438389 AAGTTATGA
1 AAGTTATGT
* *
30438398 AATTTGATCTTT
1 AAGTT-A--TGT
*
30438410 AAATTATGT
1 AAGTTATGT
30438419 AAGTTATGT
1 AAGTTATGT
30438428 -A-TTATGT
1 AAGTTATGT
* *
30438435 AAGTTTTGA
1 AAGTTATGT
* *
30438444 AATTTGATCTTT
1 AAGTT-A--TGT
*
30438456 AAATTATGT
1 AAGTTATGT
* *
30438465 AACTCATGT
1 AAGTTATGT
*
30438474 -A-TTATAT
1 AAGTTATGT
*
30438481 AAGTTAT-A
1 AAGTTATGT
*
30438489 AAATTATGT
1 AAGTTATGT
**
30438498 AAGTTATAA
1 AAGTTATGT
* *
30438507 AATTTAATCTTT
1 AAGTT-A--TGT
*
30438519 AAATTATGT
1 AAGTTATGT
30438528 AAGTTATGT
1 AAGTTATGT
30438537 -A-TTATGT
1 AAGTTATGT
30438544 AAGTTATGT
1 AAGTTATGT
*
30438553 AAATTATGT
1 AAGTTATGT
30438562 AAGTTATGT
1 AAGTTATGT
30438571 A
1 A
30438572 TTAAATAATA
Statistics
Matches: 203, Mismatches: 51, Indels: 50
0.67 0.17 0.16
Matches are distributed among these distances:
7 29 0.14
8 20 0.10
9 127 0.63
10 3 0.01
11 4 0.02
12 20 0.10
ACGTcount: A:0.37, C:0.03, G:0.14, T:0.47
Consensus pattern (9 bp):
AAGTTATGT
Found at i:30438308 original size:16 final size:15
Alignment explanation
Indices: 30438287--30438346 Score: 66
Period size: 16 Copynumber: 3.7 Consensus size: 15
30438277 TATAATAAAG
30438287 TTATGTAAGTCATGTA
1 TTATGTAAGT-ATGTA
*
30438303 TTATGTAAGATATTTA
1 TTATGTAAG-TATGTA
30438319 TTATGTAAGTTATGTAAA
1 TTATGTAAG-TATGT--A
30438337 TTATGTAAGT
1 TTATGTAAGT
30438347 TATGAAATTT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
16 26 0.68
17 2 0.05
18 10 0.26
ACGTcount: A:0.35, C:0.02, G:0.17, T:0.47
Consensus pattern (15 bp):
TTATGTAAGTATGTA
Found at i:30438391 original size:16 final size:16
Alignment explanation
Indices: 30438366--30438396 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
30438356 TGATCTTTAA
30438366 ATTATATAAGTTATGT
1 ATTATATAAGTTATGT
*
30438382 ATTATCTAAGTTATG
1 ATTATATAAGTTATG
30438397 AAATTTGATC
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:0.35, C:0.03, G:0.13, T:0.48
Consensus pattern (16 bp):
ATTATATAAGTTATGT
Found at i:30438398 original size:46 final size:46
Alignment explanation
Indices: 30438318--30438493 Score: 271
Period size: 46 Copynumber: 3.8 Consensus size: 46
30438308 TAAGATATTT
30438318 ATTATGTAAGTTATGTAAATTATGTAAGTTATGAAATTTGATCTTTAA
1 ATTATGTAAGTTATGT--ATTATGTAAGTTATGAAATTTGATCTTTAA
* *
30438366 ATTATATAAGTTATGTATTATCTAAGTTATGAAATTTGATCTTTAA
1 ATTATGTAAGTTATGTATTATGTAAGTTATGAAATTTGATCTTTAA
*
30438412 ATTATGTAAGTTATGTATTATGTAAGTTTTGAAATTTGATCTTTAA
1 ATTATGTAAGTTATGTATTATGTAAGTTATGAAATTTGATCTTTAA
* * * *
30438458 ATTATGTAACTCATGTATTATATAAGTTATAAAATT
1 ATTATGTAAGTTATGTATTATGTAAGTTATGAAATT
30438494 ATGTAAGTTA
Statistics
Matches: 118, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
46 103 0.87
48 15 0.13
ACGTcount: A:0.37, C:0.03, G:0.12, T:0.47
Consensus pattern (46 bp):
ATTATGTAAGTTATGTATTATGTAAGTTATGAAATTTGATCTTTAA
Found at i:30438462 original size:30 final size:29
Alignment explanation
Indices: 30438428--30438535 Score: 92
Period size: 30 Copynumber: 3.5 Consensus size: 29
30438418 TAAGTTATGT
*
30438428 ATTATGTAAGTTTTGAAATTTGATCTTTAA
1 ATTATGTAAGTTATGAAATTT-ATCTTTAA
* * * *
30438458 ATTATGTAACTCATG-TATTATATAAGTTATAAA
1 ATTATGTAAGTTATGAAATT-TAT--CTT-T-AA
*
30438491 ATTATGTAAGTTATAAAATTTAATCTTTAA
1 ATTATGTAAGTTATGAAATTT-ATCTTTAA
30438521 ATTATGTAAGTTATG
1 ATTATGTAAGTTATG
30438536 TATTATGTAA
Statistics
Matches: 60, Mismatches: 11, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
29 5 0.08
30 29 0.48
31 3 0.05
32 3 0.05
33 15 0.25
34 5 0.08
ACGTcount: A:0.39, C:0.04, G:0.11, T:0.46
Consensus pattern (29 bp):
ATTATGTAAGTTATGAAATTTATCTTTAA
Found at i:30438510 original size:63 final size:64
Alignment explanation
Indices: 30438412--30438568 Score: 212
Period size: 63 Copynumber: 2.5 Consensus size: 64
30438402 TGATCTTTAA
* * * * *
30438412 ATTATGTAAGTTATG--TATTATGTAAGTTTTGAAATTTGATCTTTAAATTATGTAACTCATGT
1 ATTATATAAGTTATGAAAATTATGTAAGTTATAAAATTTAATCTTTAAATTATGTAACTCATGT
* *
30438474 ATTATATAAGTTAT-AAAATTATGTAAGTTATAAAATTTAATCTTTAAATTATGTAAGTTATGT
1 ATTATATAAGTTATGAAAATTATGTAAGTTATAAAATTTAATCTTTAAATTATGTAACTCATGT
* *
30438537 ATTATGTAAGTTATGTAAATTATGTAAGTTAT
1 ATTATATAAGTTATGAAAATTATGTAAGTTAT
30438569 GTATTAAATA
Statistics
Matches: 83, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
62 13 0.16
63 54 0.65
64 16 0.19
ACGTcount: A:0.38, C:0.03, G:0.13, T:0.47
Consensus pattern (64 bp):
ATTATATAAGTTATGAAAATTATGTAAGTTATAAAATTTAATCTTTAAATTATGTAACTCATGT
Found at i:30438542 original size:16 final size:16
Alignment explanation
Indices: 30438521--30438574 Score: 90
Period size: 16 Copynumber: 3.2 Consensus size: 16
30438511 TAATCTTTAA
30438521 ATTATGTAAGTTATGT
1 ATTATGTAAGTTATGT
30438537 ATTATGTAAGTTATGT
1 ATTATGTAAGTTATGT
30438553 AAATTATGTAAGTTATGT
1 --ATTATGTAAGTTATGT
30438571 ATTA
1 ATTA
30438575 AATAATATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
16 20 0.56
18 16 0.44
ACGTcount: A:0.35, C:0.00, G:0.17, T:0.48
Consensus pattern (16 bp):
ATTATGTAAGTTATGT
Found at i:30439846 original size:25 final size:25
Alignment explanation
Indices: 30439812--30439886 Score: 105
Period size: 25 Copynumber: 3.0 Consensus size: 25
30439802 CAGAAAACTA
* *
30439812 GAGAAGTAGCAGAGGGATGCCGACG
1 GAGATGTAGCAGAGGGATGCCAACG
30439837 GAGATGTAGCAGAGGGATGCCAACG
1 GAGATGTAGCAGAGGGATGCCAACG
* * *
30439862 GAGATGTAGCATAGAGCTGCCAACG
1 GAGATGTAGCAGAGGGATGCCAACG
30439887 ACGATGCGGA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 45 1.00
ACGTcount: A:0.32, C:0.17, G:0.39, T:0.12
Consensus pattern (25 bp):
GAGATGTAGCAGAGGGATGCCAACG
Found at i:30443082 original size:8 final size:7
Alignment explanation
Indices: 30443071--30443133 Score: 56
Period size: 7 Copynumber: 8.4 Consensus size: 7
30443061 TTAATCAACT
30443071 AACCCGTA
1 AACCC-TA
30443079 AACCCTA
1 AACCCTA
30443086 ATACCCT-
1 A-ACCCTA
30443093 AACCCTTAA
1 AACCC-T-A
*
30443102 AACCTTA
1 AACCCTA
*
30443109 AACACTA
1 AACCCTA
30443116 ATACCCTA
1 A-ACCCTA
30443124 AACCCTA
1 AACCCTA
30443131 AAC
1 AAC
30443134 ACTTTCAAAC
Statistics
Matches: 46, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
6 4 0.09
7 21 0.46
8 17 0.37
9 4 0.09
ACGTcount: A:0.43, C:0.37, G:0.02, T:0.19
Consensus pattern (7 bp):
AACCCTA
Found at i:30443116 original size:22 final size:22
Alignment explanation
Indices: 30443068--30443136 Score: 63
Period size: 22 Copynumber: 3.1 Consensus size: 22
30443058 CATTTAATCA
30443068 ACTAACCCGTAAACCCTAATAC
1 ACTAACCCGTAAACCCTAATAC
* * *
30443090 CCTAACCCTTAAAACCTTAA-AC
1 ACTAACCCGT-AAACCCTAATAC
30443112 ACTAATACCC-TAAACCCTAA-AC
1 ACT-A-ACCCGTAAACCCTAATAC
30443134 ACT
1 ACT
30443137 TTCAAACACC
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
22 25 0.64
23 10 0.26
24 4 0.10
ACGTcount: A:0.42, C:0.36, G:0.01, T:0.20
Consensus pattern (22 bp):
ACTAACCCGTAAACCCTAATAC
Found at i:30443131 original size:15 final size:15
Alignment explanation
Indices: 30443072--30443131 Score: 68
Period size: 15 Copynumber: 3.9 Consensus size: 15
30443062 TAATCAACTA
30443072 ACCCGTAAACCCTAAT
1 ACCC-TAAACCCTAAT
*
30443088 ACCCT-AACCCTTAAA
1 ACCCTAAACCC-TAAT
* *
30443103 ACCTTAAACACTAAT
1 ACCCTAAACCCTAAT
30443118 ACCCTAAACCCTAA
1 ACCCTAAACCCTAA
30443132 ACACTTTCAA
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
14 5 0.14
15 23 0.64
16 8 0.22
ACGTcount: A:0.42, C:0.37, G:0.02, T:0.20
Consensus pattern (15 bp):
ACCCTAAACCCTAAT
Done.