Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 132 of 318
Found at i:40385748 original size:20 final size:20
Alignment explanation
Indices: 40385723--40385760 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
40385713 GTTTACTCGC
*
40385723 GATTTTCAACATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
40385743 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
40385761 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.05, G:0.11, T:0.50
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:40390165 original size:40 final size:38
Alignment explanation
Indices: 40390041--40390167 Score: 119
Period size: 40 Copynumber: 3.2 Consensus size: 38
40390031 AAATTGAATG
* * * * *
40390041 ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGCCCGAAGGCATTTGTGC-AGTAATT
* * *
40390080 ATATCCGGGTTAAGGCCCGAAGGCATTCGTGCGAGTTATT
1 ATATCCGGGCTAA-GCCCGAAGGCATTTGTGC-AGTAATT
* *
40390120 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAG-CCCGAAGGCATTTGTGCA-GTAATT
40390160 ATATCCGG
1 ATATCCGG
40390168 TTATATTCCG
Statistics
Matches: 71, Mismatches: 14, Indels: 5
0.79 0.16 0.06
Matches are distributed among these distances:
39 14 0.20
40 57 0.80
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (38 bp):
ATATCCGGGCTAAGCCCGAAGGCATTTGTGCAGTAATT
Found at i:40395358 original size:20 final size:20
Alignment explanation
Indices: 40395333--40395370 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
40395323 GTTTATTCGC
*
40395333 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
40395353 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
40395371 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:40401421 original size:17 final size:18
Alignment explanation
Indices: 40401379--40401427 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
40401369 AGTTGAAAAG
40401379 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
40401398 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
40401415 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
40401428 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:40402314 original size:40 final size:37
Alignment explanation
Indices: 40402248--40402348 Score: 121
Period size: 40 Copynumber: 2.6 Consensus size: 37
40402238 AAATTGAATG
* *
40402248 ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGCCCGAAGGCAATTATGCT--AAAGT
* * **
40402287 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTATGGT
1 ATATCCGGGCTAAG-CCCGAAGGCAATTATGCTAAAGT
40402325 ATATCCGGGCTAAGCCCGAAGGCA
1 ATATCCGGGCTAAGCCCGAAGGCA
40402349 TTCGTGCGAG
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
37 10 0.19
38 15 0.28
39 13 0.24
40 16 0.30
ACGTcount: A:0.30, C:0.22, G:0.27, T:0.22
Consensus pattern (37 bp):
ATATCCGGGCTAAGCCCGAAGGCAATTATGCTAAAGT
Found at i:40402378 original size:77 final size:76
Alignment explanation
Indices: 40402248--40402394 Score: 190
Period size: 77 Copynumber: 1.9 Consensus size: 76
40402238 AAATTGAATG
*
40402248 ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCAA
1 ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGA-CCGAAGGCAA
40402313 TTGTGCTATGGT
65 TTGTGCTATGGT
* * ** *
40402325 ATATCCGGGCTAAGCCCGAAGGC-ATTCGTGC-GAGTTATTCTATCCGGGCTAAGACCGAAGGCA
1 ATATCCGGGCTAAGCCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCGAAGGCA
*
40402388 TTTGTGC
64 ATTGTGC
40402395 ACGTGATTAT
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
76 19 0.31
77 42 0.69
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (76 bp):
ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCGAAGGCAAT
TGTGCTATGGT
Found at i:40402408 original size:39 final size:39
Alignment explanation
Indices: 40402248--40402410 Score: 147
Period size: 39 Copynumber: 4.2 Consensus size: 39
40402238 AAATTGAATG
* * * **
40402248 ATATCCGGGCTAAGCCCGAAGACAATTATGCTG-GAAATT
1 ATATCCGGGCTAAGACCGAAGGCAATTGTGC-GAGTGATT
* * *
40402287 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTA-TG-GT
1 ATATCCGGGCTAAGA-CCGAAGGCAATTGTGCGAGTGATT
* *
40402325 ATATCCGGGCTAAGCCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCGAAGGCAATT-GTGCGAGTGATT
* *
40402364 CTATCCGGGCTAAGACCGAAGGCATTTGTGC-ACGTGATT
1 ATATCCGGGCTAAGACCGAAGGCAATTGTGCGA-GTGATT
40402403 ATATCCGG
1 ATATCCGG
40402411 TTATATTCCG
Statistics
Matches: 99, Mismatches: 18, Indels: 14
0.76 0.14 0.11
Matches are distributed among these distances:
36 3 0.03
37 13 0.13
38 16 0.16
39 51 0.52
40 16 0.16
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCGAAGGCAATTGTGCGAGTGATT
Found at i:40406957 original size:19 final size:20
Alignment explanation
Indices: 40406933--40406970 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
40406923 GGTACCACCA
40406933 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
40406952 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
40406971 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:40407265 original size:46 final size:45
Alignment explanation
Indices: 40407198--40407364 Score: 196
Period size: 47 Copynumber: 3.6 Consensus size: 45
40407188 CGCCCCTAAG
*
40407198 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGGCGTT-GCATCCATAAA
* *
40407244 TGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-T-CA
1 TGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTGCATCCATAAA
* * * *
40407291 CGAACTCGGACTCAACTCAACGAGTTCGGACATTGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGGCGTTGCATCCATAAA
40407336 TGAACTCGGACTCAACTCAACGAGTTCGG
1 TGAACTCGGACTCAACTCAACGAGTTCGG
40407365 ATGCTCAACC
Statistics
Matches: 103, Mismatches: 10, Indels: 17
0.79 0.08 0.13
Matches are distributed among these distances:
42 5 0.05
43 1 0.01
44 2 0.02
45 28 0.27
46 28 0.27
47 29 0.28
48 2 0.02
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGGCGTTGCATCCATAAA
Found at i:40407313 original size:47 final size:48
Alignment explanation
Indices: 40407194--40407368 Score: 179
Period size: 46 Copynumber: 3.8 Consensus size: 48
40407184 AACCCGCCCC
* * * *
40407194 TAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-CGTTCGCATCCA
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATT-ACATCCA
**
40407240 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A-TTACATCCA
* *
40407288 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTGCATCCA
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTACATCCA
*
40407332 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGC
40407369 TCAACCATCC
Statistics
Matches: 109, Mismatches: 9, Indels: 20
0.79 0.07 0.14
Matches are distributed among these distances:
42 5 0.05
43 2 0.02
44 3 0.03
45 29 0.27
46 31 0.28
47 29 0.27
48 3 0.03
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (48 bp):
TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTACATCCA
Found at i:40407357 original size:92 final size:93
Alignment explanation
Indices: 40407199--40407368 Score: 297
Period size: 92 Copynumber: 1.8 Consensus size: 93
40407189 GCCCCTAAGT
* *
40407199 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
40407264 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
40407292 GAACTCGGACTCAACTCAACGAGTTCGGACATT-GCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
40407356 CGAGTTCGGATGC
66 CGAGTTCGGATGC
40407369 TCAACCATCC
Statistics
Matches: 73, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
92 43 0.59
93 30 0.41
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:40414537 original size:19 final size:20
Alignment explanation
Indices: 40414513--40414550 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
40414503 GGTACCACCA
40414513 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
40414532 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
40414551 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:40414937 original size:46 final size:46
Alignment explanation
Indices: 40414774--40414944 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
40414764 AACCCGCCCC
* * * *
40414774 TAAGTGAACTC-GACTCAACTCAACGAG-CCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
40414818 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
40414866 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
40414911 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
40414945 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 13, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
43 6 0.06
44 12 0.11
45 18 0.17
46 32 0.30
47 29 0.28
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:40414943 original size:93 final size:91
Alignment explanation
Indices: 40414779--40414947 Score: 275
Period size: 93 Copynumber: 1.8 Consensus size: 91
40414769 GCCCCTAAGT
* *
40414779 GAACTCGACTCAACTCAACGAGCCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAACG
1 GAACTCGACTCAACTCAACGAGCCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAACG
40414844 AGTTCGGATGCCTAGTTACATCTCAC
66 AGTTCGGATGCCTAGTTACATCTCAC
* * *
40414870 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTC-GACTCAACTCAACGAG-CCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
40414935 CGAGTTCGGATGC
64 CGAGTTCGGATGC
40414948 TCAACCATCC
Statistics
Matches: 71, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
91 6 0.08
92 16 0.23
93 49 0.69
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (91 bp):
GAACTCGACTCAACTCAACGAGCCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAACG
AGTTCGGATGCCTAGTTACATCTCAC
Found at i:40414963 original size:46 final size:45
Alignment explanation
Indices: 40414822--40414963 Score: 132
Period size: 46 Copynumber: 3.1 Consensus size: 45
40414812 CATCCATAAA
40414822 TGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCTCA-
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCT-AG
* * * *
40414869 CGAACTCGGACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT-AAG
1 TGAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCTAG
40414915 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CTAG
40414961 TGA
1 TGA
40414964 CATGTCACTT
Statistics
Matches: 78, Mismatches: 8, Indels: 19
0.74 0.08 0.18
Matches are distributed among these distances:
44 8 0.10
45 2 0.03
46 33 0.42
47 31 0.40
49 3 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCTAG
Found at i:40415401 original size:30 final size:30
Alignment explanation
Indices: 40415367--40415426 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
40415357 ATTTAATACG
40415367 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** *
40415397 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
40415427 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:40426514 original size:70 final size:69
Alignment explanation
Indices: 40426425--40426729 Score: 283
Period size: 70 Copynumber: 4.4 Consensus size: 69
40426415 GTGTAATTGG
** * * * *
40426425 TATTGTCAGTTATTTGACTAGCGATGGGCCCAATTATTAT-TTGATTTATTCAACTAGTGCAAGT
1 TATTGTCAGTTATCCGACTAGCGCTGGGCACAATTATT-TGTTGATTTATTCGACTAGTGCAGGT
40426489 CACAA
65 CACAA
* * * ** * **
40426494 TAATTGTCAGCTATCCGACTAGCTCTAGGTGCAATTATTTGTTGATTTATTTGACTAAAGCAGGT
1 T-ATTGTCAGTTATCCGACTAGCGCTGGGCACAATTATTTGTTGATTTATTCGACTAGTGCAGGT
*
40426559 CATAA
65 CACAA
* * * * *
40426564 TTATTGTCAGTTATCTGACTAGAGCTGGGCACAATTATTTGTCGATTTATTCGACTAGTGTAGGG
1 -TATTGTCAGTTATCCGACTAGCGCTGGGCACAATTATTTGTTGATTTATTCGACTAGTGCAGGT
40426629 CACAA
65 CACAA
* * * ** * *
40426634 CTATTGTCGGTTATCCGACTAGCGCTGGGTACAATTATTTATCAACTTATTTGACTAGTGCAGAG
1 -TATTGTCAGTTATCCGACTAGCGCTGGGCACAATTATTTGTTGATTTATTCGACTAGTGCAG-G
40426699 -CACAA
64 TCACAA
40426704 CTATTGTC-GATTATCCGACTAGCGCT
1 -TATTGTCAG-TTATCCGACTAGCGCT
40426730 AGGCTTAAAA
Statistics
Matches: 193, Mismatches: 38, Indels: 9
0.80 0.16 0.04
Matches are distributed among these distances:
69 3 0.02
70 188 0.97
71 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.36
Consensus pattern (69 bp):
TATTGTCAGTTATCCGACTAGCGCTGGGCACAATTATTTGTTGATTTATTCGACTAGTGCAGGTC
ACAA
Found at i:40426600 original size:34 final size:34
Alignment explanation
Indices: 40426562--40426725 Score: 118
Period size: 36 Copynumber: 4.7 Consensus size: 34
40426552 AGCAGGTCAT
*
40426562 AATTATTGTCAGTTATCTGACTAGAGCTGGGCAC
1 AATTATTGTCAGTTATCTGACTAGTGCTGGGCAC
*
40426596 AATTATTTGTCGATTTAT-TCGACTAGTG-TAGGGCAC
1 AATTA-TTGTC-AGTTATCT-GACTAGTGCT-GGGCAC
* * * * *
40426632 AACTATTGTCGGTTATCCGACTAGCGCTGGGTAC
1 AATTATTGTCAGTTATCTGACTAGTGCTGGGCAC
* * * * *
40426666 AATTATTTATCAACTTATTTGACTAGTGCAGAGCAC
1 AATTA-TTGTC-AGTTATCTGACTAGTGCTGGGCAC
* *
40426702 AACTATTGTC-GATTATCCGACTAG
1 AATTATTGTCAG-TTATCTGACTAG
40426726 CGCTAGGCTT
Statistics
Matches: 98, Mismatches: 23, Indels: 18
0.71 0.17 0.13
Matches are distributed among these distances:
34 35 0.36
35 21 0.21
36 42 0.43
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (34 bp):
AATTATTGTCAGTTATCTGACTAGTGCTGGGCAC
Found at i:40426684 original size:140 final size:140
Alignment explanation
Indices: 40426425--40426690 Score: 338
Period size: 140 Copynumber: 1.9 Consensus size: 140
40426415 GTGTAATTGG
* * * * *
40426425 TATTGTCAGTTATTTGACTAGCGATGGGCCCAATTATTATTTGATTTATTCAACTAGTGCAAGTC
1 TATTGTCAGTTATCTGACTAGAGATGGGCACAATTATTATTCGATTTATTCAACTAGTGCAAGGC
* * * ** *
40426490 ACAATAATTGTCAGCTATCCGACTAGCTCTAGGTGCAATTATTTGTTGATTTATTTGACTAAAGC
66 ACAATAATTGTCAGCTATCCGACTAGCGCTAGGTACAATTATTTATCAACTTATTTGACTAAAGC
40426555 AGGTCATAAT
131 AGGTCATAAT
* * * *
40426565 TATTGTCAGTTATCTGACTAGAGCTGGGCACAATTATT-TGTCGATTTATTCGACTAGTGTAGGG
1 TATTGTCAGTTATCTGACTAGAGATGGGCACAATTATTAT-TCGATTTATTCAACTAGTGCAAGG
* * *
40426629 CACAACT-ATTGTCGGTTATCCGACTAGCGCTGGGTACAATTATTTATCAACTTATTTGACTA
65 CACAA-TAATTGTCAGCTATCCGACTAGCGCTAGGTACAATTATTTATCAACTTATTTGACTA
40426691 GTGCAGAGCA
Statistics
Matches: 106, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
139 1 0.01
140 104 0.98
141 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (140 bp):
TATTGTCAGTTATCTGACTAGAGATGGGCACAATTATTATTCGATTTATTCAACTAGTGCAAGGC
ACAATAATTGTCAGCTATCCGACTAGCGCTAGGTACAATTATTTATCAACTTATTTGACTAAAGC
AGGTCATAAT
Found at i:40426709 original size:140 final size:140
Alignment explanation
Indices: 40426425--40426725 Score: 331
Period size: 140 Copynumber: 2.1 Consensus size: 140
40426415 GTGTAATTGG
* * * * *
40426425 TATTGTCAGTTATTTGACTAGCGATGGGCCCAATTATTATTTGATTTATTCAACTAGTGCAAGTC
1 TATTGTCAGTTATCTGACTAGAGATGGGCACAATTATTATTCGATTTATTCAACTAGTGCAAGGC
* * * ** *
40426490 ACAATAATTGTCAGCTATCCGACTAGCTCTAGGTGCAATTATTTGTTGATTTATTTGACTAAAGC
66 ACAATAATTGTCAGCTATCCGACTAGCGCTAGGTACAATTATTTATCAACTTATTTGACTAAAGC
* *
40426555 AGGTCATAAT
131 AGGTCACAAC
* * * *
40426565 TATTGTCAGTTATCTGACTAGAGCTGGGCACAATTATT-TGTCGATTTATTCGACTAGTGTAGGG
1 TATTGTCAGTTATCTGACTAGAGATGGGCACAATTATTAT-TCGATTTATTCAACTAGTGCAAGG
* * * **
40426629 CACAACT-ATTGTCGGTTATCCGACTAGCGCTGGGTACAATTATTTATCAACTTATTTGACTAGT
65 CACAA-TAATTGTCAGCTATCCGACTAGCGCTAGGTACAATTATTTATCAACTTATTTGACTAAA
40426693 GCAGAG-CACAAC
129 GCAG-GTCACAAC
*
40426705 TATTGTC-GATTATCCGACTAG
1 TATTGTCAG-TTATCTGACTAG
40426726 CGCTAGGCTT
Statistics
Matches: 134, Mismatches: 23, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
139 2 0.01
140 130 0.97
141 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (140 bp):
TATTGTCAGTTATCTGACTAGAGATGGGCACAATTATTATTCGATTTATTCAACTAGTGCAAGGC
ACAATAATTGTCAGCTATCCGACTAGCGCTAGGTACAATTATTTATCAACTTATTTGACTAAAGC
AGGTCACAAC
Found at i:40428593 original size:33 final size:33
Alignment explanation
Indices: 40428537--40428611 Score: 84
Period size: 33 Copynumber: 2.3 Consensus size: 33
40428527 CAAGTTTCCG
*
40428537 AATAAGACCATAGCCAGGCTATGGCAAT-TGAAT
1 AATAAGACCATAACCAGGCTATGGC-ATGTGAAT
*
40428570 AATAAGACCATAACC-GAGTTATGGCATGTGAAT
1 AATAAGACCATAACCAG-GCTATGGCATGTGAAT
*
40428603 GA-AAGACCA
1 AATAAGACCA
40428612 CGACAGGGCC
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
32 10 0.27
33 27 0.73
ACGTcount: A:0.41, C:0.17, G:0.21, T:0.20
Consensus pattern (33 bp):
AATAAGACCATAACCAGGCTATGGCATGTGAAT
Found at i:40436650 original size:46 final size:46
Alignment explanation
Indices: 40436600--40436728 Score: 215
Period size: 46 Copynumber: 2.8 Consensus size: 46
40436590 TGGTTGAGCA
*
40436600 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*
40436646 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*
40436692 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
40436729 GCGGGTTACA
Statistics
Matches: 79, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
45 2 0.03
46 77 0.97
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:40441377 original size:33 final size:33
Alignment explanation
Indices: 40441312--40441386 Score: 82
Period size: 33 Copynumber: 2.3 Consensus size: 33
40441302 CAAGTTGCCA
* *
40441312 AATAAGACCATAGCTGGGCTATGACAATTGAAT
1 AATAAGACCATAACTGGGCTAAGACAATTGAAT
* *
40441345 AATAGGACCATAACTGGGTTAAGAC-ATGTGAAT
1 AATAAGACCATAACTGGGCTAAGACAAT-TGAAT
*
40441378 GA-AAGACCA
1 AATAAGACCA
40441387 CGACAGGGCC
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
32 8 0.23
33 27 0.77
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (33 bp):
AATAAGACCATAACTGGGCTAAGACAATTGAAT
Found at i:40447298 original size:40 final size:40
Alignment explanation
Indices: 40447235--40447326 Score: 116
Period size: 40 Copynumber: 2.3 Consensus size: 40
40447225 ATTAAGTTCA
*
40447235 GCACTAAGTGTGCGGTTTCAAATAGCTTCGACTATA-AATG
1 GCACTAAGTGTGCGGTTTCAAATAGCTTCGACTACATAA-G
* * *
40447275 GCACTAAGTGTGCGAG-TTGAAATAGCTTCGGCTACATGAG
1 GCACTAAGTGTGCG-GTTTCAAATAGCTTCGACTACATAAG
40447315 GCACTAAGTGTG
1 GCACTAAGTGTG
40447327 TGATACCTAG
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
40 44 0.96
41 2 0.04
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.27
Consensus pattern (40 bp):
GCACTAAGTGTGCGGTTTCAAATAGCTTCGACTACATAAG
Found at i:40456611 original size:30 final size:30
Alignment explanation
Indices: 40456576--40456632 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
40456566 TTTACGAGCC
40456576 TAGGGGCAAAAA-CATAATTTTGACAAAGTT
1 TAGGGG-AAAAATCATAATTTTGACAAAGTT
* *
40456606 TAGGGGAAAAATTATAATTTTGCCAAA
1 TAGGGGAAAAATCATAATTTTGACAAA
40456633 ATATGATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.44, C:0.09, G:0.19, T:0.28
Consensus pattern (30 bp):
TAGGGGAAAAATCATAATTTTGACAAAGTT
Found at i:40456960 original size:27 final size:27
Alignment explanation
Indices: 40456930--40456983 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
40456920 TGTCATGTGA
* *
40456930 AATTGAATGGAAAATTATTGTTACATG
1 AATTGAATGGAAAATTACTATTACATG
**
40456957 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGAAAATTACTATTACATG
40456984 GGTTGTATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.41, C:0.06, G:0.15, T:0.39
Consensus pattern (27 bp):
AATTGAATGGAAAATTACTATTACATG
Found at i:40457308 original size:49 final size:50
Alignment explanation
Indices: 40457228--40457460 Score: 272
Period size: 49 Copynumber: 4.7 Consensus size: 50
40457218 ATCTATTGTG
* *
40457228 AGGTCACGTGTGTAGTACTAAGTACAGGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * * ** *
40457278 -GGTCGCATGTGTAGTACTAAATGCAGGCTACTATGCATACCCGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TT
* * * * * **
40457328 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* *
40457378 AGGTCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* *
40457428 -GGTCGCATGTGTAGTACTAAGTGCAAGCTACTA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
40457461 TGCGTACCAG
Statistics
Matches: 153, Mismatches: 28, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
49 70 0.46
50 47 0.31
51 36 0.24
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
Found at i:40461545 original size:49 final size:49
Alignment explanation
Indices: 40461473--40461704 Score: 259
Period size: 49 Copynumber: 4.7 Consensus size: 49
40461463 CTGGTACGCA
* *
40461473 TAGTAGCCTGCACTTAATACTACACATGCGACCAATTATCC-AGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGA-TACACG
** ** *
40461522 TAGTAGCCTGCACTTAGTACTACACACATGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC-AATTATCCGATACACG
* * * * ** *
40461572 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTATGCA
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCCGATACACG
* *
40461623 TAGTAGCCTGCATTTAGTACTACACATGCGACCAATTATCCGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGATACACG
* *
40461672 TAGTAGCCTGCACTTAGTACTACATACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC
40461705 TCACAATAGA
Statistics
Matches: 150, Mismatches: 29, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
49 67 0.45
50 46 0.31
51 37 0.25
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGATACACG
Found at i:40461693 original size:100 final size:99
Alignment explanation
Indices: 40461473--40461704 Score: 286
Period size: 100 Copynumber: 2.3 Consensus size: 99
40461463 CTGGTACGCA
* * * *
40461473 TAGTAGCCTGCACTTAATACTACACATGCGACCAATTATCCAGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCAGTACACATAGTAGCCTGCACTTA
* *
40461538 GTACTACACACATGACCTAACCATCTGATACACG
66 GTACTACACACACGACCTAACCATCCGATACACG
* ** ** *
40461572 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTATGCATAGTAGCCTGCATT
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCCAGTACACATAGTAGCCTGCACT
** **
40461637 TAGTACTACACATGCGACC-AATTATCCGATACACG
64 TAGTACTACACACACGACCTAACCATCCGATACACG
*
40461672 TAGTAGCCTGCACTTAGTACTACATACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
40461705 TCACAATAGA
Statistics
Matches: 113, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
99 29 0.26
100 46 0.41
101 38 0.34
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCAGTACACATAGTAGCCTGCACTTA
GTACTACACACACGACCTAACCATCCGATACACG
Found at i:40461980 original size:27 final size:27
Alignment explanation
Indices: 40461950--40462003 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
40461940 TCATACAACC
* *
40461950 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
40461977 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
40462004 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:40464467 original size:46 final size:46
Alignment explanation
Indices: 40464395--40464523 Score: 183
Period size: 46 Copynumber: 2.8 Consensus size: 46
40464385 CACTGCTGTT
*
40464395 ATGTGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGGCT-CGAG
1 ATGT-AGCCAGTGTAAGACATGTCTGGGACATGCATCGGGCTACAAG
*
40464441 ATGTAAGCCAGTGTAAGACATGTCTGGGACATGCATC-AGCTACAAG
1 ATGT-AGCCAGTGTAAGACATGTCTGGGACATGCATCGGGCTACAAG
* *
40464487 ATGT-GCTAGTGTAAGACATGTCTAGGACATGCATCGG
1 ATGTAGCCAGTGTAAGACATGTCTGGGACATGCATCGG
40464524 CACGGATATA
Statistics
Matches: 75, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
44 29 0.39
45 3 0.04
46 43 0.57
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (46 bp):
ATGTAGCCAGTGTAAGACATGTCTGGGACATGCATCGGGCTACAAG
Found at i:40467428 original size:18 final size:17
Alignment explanation
Indices: 40467375--40467419 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 17
40467365 AATATTATTT
40467375 ATTAAATTAATTTT--A
1 ATTAAATTAATTTTCAA
40467390 ATT-AATTAATTTTCAA
1 ATTAAATTAATTTTCAA
40467406 ATTAAATT-ATTTTC
1 ATTAAATTAATTTTC
40467420 TCAACTTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 10 0.37
15 3 0.11
16 10 0.37
17 4 0.15
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.53
Consensus pattern (17 bp):
ATTAAATTAATTTTCAA
Found at i:40467430 original size:17 final size:16
Alignment explanation
Indices: 40467379--40467430 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 16
40467369 TTATTTATTA
40467379 AATTAATTTT--AATT
1 AATTAATTTTCAAATT
40467393 AATTAATTTTCAAATT
1 AATTAATTTTCAAATT
* *
40467409 AAATTATTTTCTCAACTT
1 -AATTAATTT-TCAAATT
40467427 AATT
1 AATT
40467431 CTAATTCCAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
14 10 0.31
16 4 0.12
17 12 0.38
18 6 0.19
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (16 bp):
AATTAATTTTCAAATT
Found at i:40474998 original size:22 final size:22
Alignment explanation
Indices: 40474973--40475017 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
40474963 AAAGTGTCGA
*
40474973 CACACGAGCGTGCCCCCTGTCT
1 CACACGAGCATGCCCCCTGTCT
* * *
40474995 CACATGGGCATGTCCCCTGTCT
1 CACACGAGCATGCCCCCTGTCT
40475017 C
1 C
40475018 GCATGGGCGT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.13, C:0.42, G:0.22, T:0.22
Consensus pattern (22 bp):
CACACGAGCATGCCCCCTGTCT
Found at i:40481007 original size:34 final size:35
Alignment explanation
Indices: 40480959--40481028 Score: 92
Period size: 34 Copynumber: 2.0 Consensus size: 35
40480949 ATTAATATAC
40480959 TTTATTGTTTTAATAAACTATTTAAT-A-TTATAAA
1 TTTATTGTTTTAATAAA-TATTTAATAATTTATAAA
*
40480993 TTTATT-TTTATAATAAATATTTTATAATTTATAAA
1 TTTATTGTTT-TAATAAATATTTAATAATTTATAAA
40481028 T
1 T
40481029 ATTTAATAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
33 10 0.31
34 14 0.44
35 8 0.25
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.56
Consensus pattern (35 bp):
TTTATTGTTTTAATAAATATTTAATAATTTATAAA
Found at i:40481557 original size:9 final size:9
Alignment explanation
Indices: 40481543--40481583 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
40481533 ATAAGTTTGA
*
40481543 AATTAACTG
1 AATTAACCG
40481552 AATTAACCG
1 AATTAACCG
* *
40481561 AATAAATCG
1 AATTAACCG
40481570 AATTAACCG
1 AATTAACCG
40481579 AATTA
1 AATTA
40481584 TTTGCATAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.49, C:0.15, G:0.10, T:0.27
Consensus pattern (9 bp):
AATTAACCG
Found at i:40482917 original size:2 final size:2
Alignment explanation
Indices: 40482910--40482948 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
40482900 CACTTGGGCC
40482910 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
40482949 CTAATTATTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:40484104 original size:24 final size:24
Alignment explanation
Indices: 40484077--40484125 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
40484067 TATTGACAAG
*
40484077 AAGTATGCTTAATCCCATAGATGA
1 AAGTATGCTTAAACCCATAGATGA
40484101 AAGTATGCTTAAACCCATAGATGA
1 AAGTATGCTTAAACCCATAGATGA
40484125 A
1 A
40484126 GTTCTTTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.27
Consensus pattern (24 bp):
AAGTATGCTTAAACCCATAGATGA
Found at i:40489837 original size:29 final size:27
Alignment explanation
Indices: 40489800--40489900 Score: 114
Period size: 28 Copynumber: 3.6 Consensus size: 27
40489790 ATACAGAAAA
* *
40489800 TGTGACAGTGTCACCAGATACAAATATTT
1 TGTGGCAGTGCCACCAGA-ACAAATA-TT
*
40489829 TGTGGCAGTGCCACCAGAACAAATATA
1 TGTGGCAGTGCCACCAGAACAAATATT
* *
40489856 TGTGGCAGGGCCACCAGAACAGATAATT
1 TGTGGCAGTGCCACCAGAACAAAT-ATT
40489884 TGTGGCA-TAGCCACCAG
1 TGTGGCAGT-GCCACCAG
40489901 GACTCTTCCT
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.37
28 24 0.38
29 16 0.25
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.22
Consensus pattern (27 bp):
TGTGGCAGTGCCACCAGAACAAATATT
Found at i:40489896 original size:28 final size:27
Alignment explanation
Indices: 40489811--40489900 Score: 101
Period size: 27 Copynumber: 3.2 Consensus size: 27
40489801 GTGACAGTGT
*
40489811 CACCAGATACAAATATTTTGTGGCAGTGC
1 CACCAGA-ACAAATAATTTGTGGCA-TGC
* *
40489840 CACCAGAACAAAT-ATATGTGGCAGGGC
1 CACCAGAACAAATAATTTGTGGCA-TGC
*
40489867 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAAATAATTTGTGGCAT-GC
40489895 CACCAG
1 CACCAG
40489901 GACTCTTCCT
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
27 23 0.43
28 23 0.43
29 7 0.13
ACGTcount: A:0.34, C:0.23, G:0.22, T:0.20
Consensus pattern (27 bp):
CACCAGAACAAATAATTTGTGGCATGC
Found at i:40490053 original size:28 final size:28
Alignment explanation
Indices: 40490006--40490098 Score: 159
Period size: 28 Copynumber: 3.3 Consensus size: 28
40489996 AAATTAACCC
* *
40490006 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
40490034 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
*
40490062 TAGAGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
40490090 TAGGGGTAT
1 TAGGGGTAT
40490099 TCTAGTACAT
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 61 1.00
ACGTcount: A:0.32, C:0.08, G:0.26, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAATGGTAATTTTGCATACA
Found at i:40497541 original size:26 final size:26
Alignment explanation
Indices: 40497510--40497617 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
40497500 TGAAATGCCC
*
40497510 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
40497536 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
40497562 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
40497588 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
40497614 ATCA
1 ATCA
40497618 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:40499951 original size:29 final size:30
Alignment explanation
Indices: 40499893--40499951 Score: 68
Period size: 29 Copynumber: 2.0 Consensus size: 30
40499883 AAATTAGATC
* * *
40499893 AAATCAAAATTTTATGTATAGAATTGCACA
1 AAATCAAAAGTTTATGCATAGAATTACACA
40499923 AAATC-AAAGTTTATGCATATG-ATTACACA
1 AAATCAAAAGTTTATGCATA-GAATTACACA
40499952 TTAAATCATA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
29 19 0.76
30 6 0.24
ACGTcount: A:0.46, C:0.12, G:0.10, T:0.32
Consensus pattern (30 bp):
AAATCAAAAGTTTATGCATAGAATTACACA
Found at i:40509179 original size:17 final size:17
Alignment explanation
Indices: 40509138--40509173 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
40509128 TTAAATAATC
40509138 ACTAATTCAACAAAATT
1 ACTAATTCAACAAAATT
*
40509155 ACTAATTCGACAAAATT
1 ACTAATTCAACAAAATT
40509172 AC
1 AC
40509174 CTATTCAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.50, C:0.19, G:0.03, T:0.28
Consensus pattern (17 bp):
ACTAATTCAACAAAATT
Found at i:40512183 original size:16 final size:16
Alignment explanation
Indices: 40512162--40512192 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
40512152 TCATTTCCTC
40512162 TTAAAAATCCAGTTAT
1 TTAAAAATCCAGTTAT
40512178 TTAAAAATCCAGTTA
1 TTAAAAATCCAGTTA
40512193 CACCTAATGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.13, G:0.06, T:0.35
Consensus pattern (16 bp):
TTAAAAATCCAGTTAT
Found at i:40523111 original size:11 final size:11
Alignment explanation
Indices: 40523095--40523142 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
40523085 CTTTATATAC
40523095 TAATAAAATAA
1 TAATAAAATAA
*
40523106 TAATAAAATATCT
1 TAATAAAATA--A
* *
40523119 TATTAAAATAT
1 TAATAAAATAA
40523130 TAATAAAATAA
1 TAATAAAATAA
40523141 TA
1 TA
40523143 TTTATCTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
11 22 0.71
13 9 0.29
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:40523160 original size:27 final size:26
Alignment explanation
Indices: 40523099--40523171 Score: 78
Period size: 27 Copynumber: 2.7 Consensus size: 26
40523089 ATATACTAAT
40523099 AAAATAATAATAAAATATCTTATTAA
1 AAAATAATAATAAAATATCTTATTAA
*
40523125 AATATTAATAA-AATAATAT-TTATCTAA
1 AA-AATAATAATAA-AATATCTTAT-TAA
*
40523152 ATAAATAATTATAAAATATC
1 A-AAATAATAATAAAATATC
40523172 AAAATATCTC
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
26 8 0.21
27 27 0.71
28 3 0.08
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (26 bp):
AAAATAATAATAAAATATCTTATTAA
Found at i:40524678 original size:31 final size:31
Alignment explanation
Indices: 40524635--40524711 Score: 129
Period size: 31 Copynumber: 2.5 Consensus size: 31
40524625 TAACGGTTAC
40524635 TGGGCCGAAGCCTTTTCATAAATCATATCACT
1 TGGGCCGAAGCCTTTTCATAAATCATATCA-T
*
40524667 T-GGTCGAAGCCTTTTCATAAATCATATCAT
1 TGGGCCGAAGCCTTTTCATAAATCATATCAT
40524697 TGGGCCGAAGCCTTT
1 TGGGCCGAAGCCTTT
40524712 ACTGTAAACG
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
30 2 0.05
31 39 0.93
32 1 0.02
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.32
Consensus pattern (31 bp):
TGGGCCGAAGCCTTTTCATAAATCATATCAT
Found at i:40524786 original size:42 final size:42
Alignment explanation
Indices: 40524739--40524826 Score: 140
Period size: 42 Copynumber: 2.1 Consensus size: 42
40524729 CCTTAGGCCT
* ** *
40524739 ATTTCAATATCACATGTAATGTCAATGGATGTATGCAAGCCC
1 ATTTCAATATCACATGAAATACCAATGAATGTATGCAAGCCC
40524781 ATTTCAATATCACATGAAATACCAATGAATGTATGCAAGCCC
1 ATTTCAATATCACATGAAATACCAATGAATGTATGCAAGCCC
40524823 ATTT
1 ATTT
40524827 GGGGAGACTA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.31
Consensus pattern (42 bp):
ATTTCAATATCACATGAAATACCAATGAATGTATGCAAGCCC
Found at i:40525041 original size:26 final size:26
Alignment explanation
Indices: 40524970--40525092 Score: 196
Period size: 26 Copynumber: 4.8 Consensus size: 26
40524960 CCTCTTTAAT
*
40524970 AACTGGGGCA-AAGCCCTTTTCGATA
1 AACTGGGGCATAAGCCCTTTTCAATA
40524995 AACTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
* *
40525020 AACTAGGGCATAAGCCCTTTTCGATA
1 AACTGGGGCATAAGCCCTTTTCAATA
40525046 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
40525072 AACTGAGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
40525093 GCACTTCCTC
Statistics
Matches: 91, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
25 33 0.36
26 58 0.64
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAATA
Found at i:40526113 original size:54 final size:53
Alignment explanation
Indices: 40526000--40526149 Score: 156
Period size: 54 Copynumber: 2.8 Consensus size: 53
40525990 CATCCTACAA
* * * * *** **
40526000 GGGTGTTTTGGTAAATCTACAAATCAAGGGTATTTCTGTAATTTTGTAAATTAG
1 GGGTATTTTGGT-AATTTACAAATTAAGGGTATTTCGGTAATTTCACAAACCAG
*
40526054 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAG
1 GGGTATTTTGGTAA-TTTACAAATTAAGGGTATTTCGGTAATTTCACAAACCAG
* * * *
40526108 TGGTATTTTGGTAATTTACAAACTAAGGGTGTTTTGGTAATT
1 GGGTATTTTGGTAATTTACAAATTAAGGGTATTTCGGTAATT
40526150 CTACCCTATA
Statistics
Matches: 80, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
53 26 0.32
54 54 0.68
ACGTcount: A:0.29, C:0.08, G:0.23, T:0.41
Consensus pattern (53 bp):
GGGTATTTTGGTAATTTACAAATTAAGGGTATTTCGGTAATTTCACAAACCAG
Found at i:40526142 original size:26 final size:26
Alignment explanation
Indices: 40525998--40526149 Score: 121
Period size: 27 Copynumber: 5.7 Consensus size: 26
40525988 TTCATCCTAC
* *
40525998 AAGGGTGTTTTGGTAAATCTACAAA-T
1 AAGGGTATTTTGGT-AATTTACAAACT
** *
40526024 CAAGGGTATTTCT-GTAATTTTGTAAATT
1 -AAGGGTATTT-TGGTAA-TTTACAAACT
* *
40526052 AGGGGTATTTTGGTAATTTTACAAATT
1 AAGGGTATTTTGGTAA-TTTACAAACT
* *
40526079 GAGGGTATTTCGGTAATTTCACAAAC-
1 AAGGGTATTTTGGTAATTT-ACAAACT
*
40526105 CAGTGGTATTTTGGTAATTTACAAACT
1 AAG-GGTATTTTGGTAATTTACAAACT
*
40526132 AAGGGTGTTTTGGTAATT
1 AAGGGTATTTTGGTAATT
40526150 CTACCCTATA
Statistics
Matches: 103, Mismatches: 15, Indels: 15
0.77 0.11 0.11
Matches are distributed among these distances:
26 28 0.27
27 73 0.71
28 2 0.02
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.40
Consensus pattern (26 bp):
AAGGGTATTTTGGTAATTTACAAACT
Found at i:40526219 original size:27 final size:27
Alignment explanation
Indices: 40526186--40526271 Score: 118
Period size: 27 Copynumber: 3.2 Consensus size: 27
40526176 TTCACAATTG
* *
40526186 AGGGTAAAACGGTAATTTTGTAAATCA
1 AGGGTAAAACAGTAATTCTGTAAATCA
*
40526213 AGGGTAAAACAGTAATTCTGTAAATCG
1 AGGGTAAAACAGTAATTCTGTAAATCA
* * *
40526240 AGGGTAAAATAATAATTCTATAAATCA
1 AGGGTAAAACAGTAATTCTGTAAATCA
40526267 AGGGT
1 AGGGT
40526272 GTGACAGCCC
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.43, C:0.08, G:0.21, T:0.28
Consensus pattern (27 bp):
AGGGTAAAACAGTAATTCTGTAAATCA
Found at i:40527989 original size:40 final size:40
Alignment explanation
Indices: 40527931--40528098 Score: 175
Period size: 40 Copynumber: 4.2 Consensus size: 40
40527921 CAATTGAATG
* *
40527931 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTG-CTT
*
40527972 -TATCCGGGCTAATACCCGAAGGC-ATTCGTGCAAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAG-TGCTT
* * *
40528011 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGT-CGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGC-TT
** *
40528051 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTGCTT
40528091 ATATCCGG
1 ATATCCGG
40528099 TTGTATTCCG
Statistics
Matches: 110, Mismatches: 9, Indels: 17
0.81 0.07 0.12
Matches are distributed among these distances:
39 8 0.07
40 98 0.89
41 4 0.04
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGCTT
Found at i:40528069 original size:80 final size:79
Alignment explanation
Indices: 40527931--40528098 Score: 230
Period size: 80 Copynumber: 2.1 Consensus size: 79
40527921 CAATTGAATG
* * *
40527931 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTTTATCCGGGCTAATACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGA-TTTATCCGGGCTAAGACCCGAAGGCA
*
40527996 TTCGTGCAAGTTGTT
65 TTCGTGCAAGTGGTT
* *
40528011 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGTCG-TTATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT-GATT-TATCCGGGCTAAGACCCGAAGGC
**
40528075 ATTCGTGCGTGTGGTT
64 ATTCGTGCAAGTGGTT
40528091 ATATCCGG
1 ATATCCGG
40528099 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
79 2 0.03
80 75 0.96
81 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (79 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGATTTATCCGGGCTAAGACCCGAAGGCAT
TCGTGCAAGTGGTT
Found at i:40535995 original size:40 final size:40
Alignment explanation
Indices: 40535937--40536104 Score: 175
Period size: 40 Copynumber: 4.2 Consensus size: 40
40535927 CAATTGAATG
* *
40535937 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTG-CTT
*
40535978 -TATCCGGGCTAATACCCGAAGGC-ATTCGTGCAAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAG-TGCTT
* * *
40536017 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGT-CGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGC-TT
** *
40536057 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTGCTT
40536097 ATATCCGG
1 ATATCCGG
40536105 TTGTATTCCG
Statistics
Matches: 110, Mismatches: 9, Indels: 17
0.81 0.07 0.12
Matches are distributed among these distances:
39 8 0.07
40 98 0.89
41 4 0.04
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGCTT
Found at i:40536075 original size:80 final size:79
Alignment explanation
Indices: 40535937--40536104 Score: 230
Period size: 80 Copynumber: 2.1 Consensus size: 79
40535927 CAATTGAATG
* * *
40535937 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTTTATCCGGGCTAATACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGA-TTTATCCGGGCTAAGACCCGAAGGCA
*
40536002 TTCGTGCAAGTTGTT
65 TTCGTGCAAGTGGTT
* *
40536017 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGTCG-TTATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT-GATT-TATCCGGGCTAAGACCCGAAGGC
**
40536081 ATTCGTGCGTGTGGTT
64 ATTCGTGCAAGTGGTT
40536097 ATATCCGG
1 ATATCCGG
40536105 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
79 2 0.03
80 75 0.96
81 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (79 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGATTTATCCGGGCTAAGACCCGAAGGCAT
TCGTGCAAGTGGTT
Found at i:40537667 original size:27 final size:27
Alignment explanation
Indices: 40537481--40537662 Score: 159
Period size: 27 Copynumber: 6.7 Consensus size: 27
40537471 GGTGTTACAG
* * ** *
40537481 AGGGTACTTTGGTAATTTTTACAAGTCG
1 AGGGTATTTTAGTAA-TTTTACAAACCA
* * *
40537509 AGGGTATTTCAATAATTTTACAAATCA
1 AGGGTATTTTAGTAATTTTACAAACCA
*
40537536 GGGGGTATTTTAGTAATTTTACAAACCA
1 -AGGGTATTTTAGTAATTTTACAAACCA
*
40537564 GGGGTATTTTAGTAATTTTACAAACC-
1 AGGGTATTTTAGTAATTTTACAAACCA
* *** * *
40537590 AGGGTATTTTGGTAATTTTATTGATCG
1 AGGGTATTTTAGTAATTTTACAAACCA
* **
40537617 AGGGTATTTTGGTAATTTTGTAAACCA
1 AGGGTATTTTAGTAATTTTACAAACCA
*
40537644 AGGGTATTTCAGTAATTTT
1 AGGGTATTTTAGTAATTTT
40537663 GTAAATTGAG
Statistics
Matches: 129, Mismatches: 23, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
26 20 0.16
27 75 0.58
28 34 0.26
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.41
Consensus pattern (27 bp):
AGGGTATTTTAGTAATTTTACAAACCA
Found at i:40537674 original size:27 final size:27
Alignment explanation
Indices: 40537480--40537857 Score: 146
Period size: 27 Copynumber: 13.9 Consensus size: 27
40537470 GGGTGTTACA
40537480 GAGGGTACTTT-GGTAATTTT-TACAAGTC
1 GAGGGTA-TTTCGGTAATTTTGTA-AA-TC
** **
40537508 GAGGGTATTTCAATAATTTTACAAATC
1 GAGGGTATTTCGGTAATTTTGTAAATC
* ** **
40537535 AGGGGGTATTTTAGTAATTTTACAAA-C
1 -GAGGGTATTTCGGTAATTTTGTAAATC
* ** **
40537562 CAGGGGTATTTTAGTAATTTTACAAA-C
1 GA-GGGTATTTCGGTAATTTTGTAAATC
* * * **
40537589 CAGGGTATTTTGGTAATTTTATTGATC
1 GAGGGTATTTCGGTAATTTTGTAAATC
* *
40537616 GAGGGTATTTTGGTAATTTTGTAAACC
1 GAGGGTATTTCGGTAATTTTGTAAATC
* * *
40537643 AAGGGTATTTCAGTAATTTTGTAAATT
1 GAGGGTATTTCGGTAATTTTGTAAATC
** * *
40537670 GAGGGTAAAAT-GGTAATTCTATCT-TA-C
1 GAGGGT-ATTTCGGTAATT-T-TGTAAATC
* **
40537697 -AGGAGTATTTCAGTAATTTTACAAAATC
1 GAGG-GTATTTCGGTAATTTT-GTAAATC
** *
40537725 GAGGGTATTTCAATAATTTTGCAAAAT-
1 GAGGGTATTTCGGTAATTTTG-TAAATC
* **
40537752 AAGGGTATTTCGGTAATTTTACAAATC
1 GAGGGTATTTCGGTAATTTTGTAAATC
* * * *
40537779 GAGGATATTTGGGTAATTTTATAAATT
1 GAGGGTATTTCGGTAATTTTGTAAATC
* * ** *
40537806 GGGGGTACTAT-GGTAATTTTACAAGTC
1 GAGGGTA-TTTCGGTAATTTTGTAAATC
* *
40537833 GAGGGTATTTCAGTAATTTGGTAAA
1 GAGGGTATTTCGGTAATTTTGTAAA
40537858 CTAAAGTATT
Statistics
Matches: 273, Mismatches: 59, Indels: 37
0.74 0.16 0.10
Matches are distributed among these distances:
25 1 0.00
26 32 0.12
27 169 0.62
28 65 0.24
29 6 0.02
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.39
Consensus pattern (27 bp):
GAGGGTATTTCGGTAATTTTGTAAATC
Found at i:40537794 original size:109 final size:106
Alignment explanation
Indices: 40537492--40537851 Score: 260
Period size: 109 Copynumber: 3.3 Consensus size: 106
40537482 GGGTACTTTG
* * * *
40537492 GTAATTTTTACAAGTCGAGGGTATTTCAATAATTTTAC-AAATCAGGGGGTATTTTAGTAATTTT
1 GTAA-TTTTACAAATCGAGGGTATTTCAATAATTTTGCAAAAT-A-AGGGTATTTCAGTAATTTT
* * * **
40537556 ACAAA-CCAGGGGTATTTTAGTAATTTTACAAACCAGGGTATTTTG
63 ACAAATCGA-GGGTA-TTTGGTAATTCTACAAACCAGGGTATTTCA
*** *** * ** **
40537601 GTAATTTTATTGATCGAGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTCAGTAATTTTGTA
1 GTAATTTTACAAATCGAGGGTATTTCAATAATTTTGCAAAATAAGGGTATTTCAGTAATTTTACA
* ** **
40537666 AATTGAGGGTAAAATGGTAATTCTATCTTA-CAGGAGTATTTCA
66 AATCGAGGGT-ATTTGGTAATTCTA-CAAACCAGG-GTATTTCA
*
40537709 GTAATTTTACAAAATCGAGGGTATTTCAATAATTTTGCAAAATAAGGGTATTTCGGTAATTTTAC
1 GTAATTTTAC-AAATCGAGGGTATTTCAATAATTTTGCAAAATAAGGGTATTTCAGTAATTTTAC
* * * *** * *
40537774 AAATCGAGGATATTTGGGTAATTTTATAAATTGGGGGTACTAT-G
65 AAATCGAGGGTATTT-GGTAATTCTACAAA-CCAGGGTA-TTTCA
* *
40537818 GTAATTTTACAAGTCGAGGGTATTTCAGTAATTT
1 GTAATTTTACAAATCGAGGGTATTTCAATAATTT
40537852 GGTAAACTAA
Statistics
Matches: 190, Mismatches: 51, Indels: 21
0.73 0.19 0.08
Matches are distributed among these distances:
107 37 0.19
108 69 0.36
109 80 0.42
110 4 0.02
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.39
Consensus pattern (106 bp):
GTAATTTTACAAATCGAGGGTATTTCAATAATTTTGCAAAATAAGGGTATTTCAGTAATTTTACA
AATCGAGGGTATTTGGTAATTCTACAAACCAGGGTATTTCA
Found at i:40537812 original size:54 final size:54
Alignment explanation
Indices: 40537481--40537851 Score: 220
Period size: 54 Copynumber: 6.8 Consensus size: 54
40537471 GGTGTTACAG
* *
40537481 AGGGTACTTT-GGTAATTTTTACAAGTCGAGGGTATTTCAATAATTTTAC-AAATCA
1 AGGGTA-TTTCGGTAA-TTTTACAAATCGAGGGTATTTCAGTAATTTTACAAAAT-A
* ** * * **
40537536 GGGGGTATTTTAGTAATTTTACAAA-CCAGGGGTATTTTAGTAATTTTAC-AAACC
1 -AGGGTATTTCGGTAATTTTACAAATCGA-GGGTATTTCAGTAATTTTACAAAATA
* *** ** ** **
40537590 AGGGTATTTTGGTAATTTTATTGATCGAGGGTATTTTGGTAATTTTGTAAACCA
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAAATA
* ** * ** * * *
40537644 AGGGTATTTCAGTAATTTTGTAAATTGAGGGTAAAAT-GGTAATTCTATC---TTA
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGT-ATTTCAGTAATTTTA-CAAAATA
* * *
40537696 CAGGAGTATTTCAGTAATTTTACAAAATCGAGGGTATTTCAATAATTTTGCAAAATA
1 -AGG-GTATTTCGGTAATTTTAC-AAATCGAGGGTATTTCAGTAATTTTACAAAATA
* ** * * *
40537753 AGGGTATTTCGGTAATTTTACAAATCGAGGATATTTGGGTAATTTTATAAATTG
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAAATA
* * *
40537807 GGGGTACTAT-GGTAATTTTACAAGTCGAGGGTATTTCAGTAATTT
1 AGGGTA-TTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTT
40537852 GGTAAACTAA
Statistics
Matches: 244, Mismatches: 57, Indels: 30
0.74 0.17 0.09
Matches are distributed among these distances:
52 1 0.00
53 39 0.16
54 121 0.50
55 69 0.28
56 12 0.05
57 2 0.01
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.39
Consensus pattern (54 bp):
AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAAATA
Found at i:40547921 original size:13 final size:13
Alignment explanation
Indices: 40547903--40547929 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
40547893 GAAATAATCG
40547903 CACACGGGCGTGT
1 CACACGGGCGTGT
40547916 CACACGGGCGTGT
1 CACACGGGCGTGT
40547929 C
1 C
40547930 CCTGTCGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:40550292 original size:18 final size:20
Alignment explanation
Indices: 40550269--40550307 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
40550259 GTCAAGGAAA
40550269 TCAAAG-ACC-ACAACCACC
1 TCAAAGCACCAACAACCACC
40550287 TCAAAGCTACCAACAACCACC
1 TCAAAGC-ACCAACAACCACC
40550308 CTACCAACAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
20 3 0.17
21 9 0.50
ACGTcount: A:0.44, C:0.44, G:0.05, T:0.08
Consensus pattern (20 bp):
TCAAAGCACCAACAACCACC
Found at i:40558503 original size:40 final size:39
Alignment explanation
Indices: 40558417--40558618 Score: 176
Period size: 40 Copynumber: 5.1 Consensus size: 39
40558407 TGAATGATAC
* * *
40558417 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGTTATAT
1 CCGGGCTAAGACCCGAAGGCA-TTGTGCAAGTTGTTATAT
*
40558456 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATT-GTGCAAGTTGTTATAT
*** *
40558496 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGC-ATTGTGCAAGTTGTTATAT
* *** *
40558536 CTGGG-TAAGACCCGAAGGCAATTGTAG-AAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGC-ATTGT-GCAAGTTGTTATAT
* ** *
40558575 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGC-ATTGTGCAAGTTGTTATAT
40558615 CCGG
1 CCGG
40558619 TTGAATCCCG
Statistics
Matches: 140, Mismatches: 17, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
38 2 0.01
39 62 0.44
40 73 0.52
41 3 0.02
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (39 bp):
CCGGGCTAAGACCCGAAGGCATTGTGCAAGTTGTTATAT
Found at i:40558556 original size:39 final size:40
Alignment explanation
Indices: 40558454--40558602 Score: 196
Period size: 40 Copynumber: 3.8 Consensus size: 40
40558444 CTAGTGTTAT
* *** *
40558454 ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTTAT
1 ATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTTACCAA
40558494 ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTACCAA
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTACCAA
*
40558534 ATCTGGG-TAAGACCCGAAGGCAATTGTAG-AAGTTACCAA
1 ATCCGGGCTAAGACCCGAAGGCAATTGT-GCAAGTTACCAA
*
40558573 ATCCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGC
40558603 TTGTGGTTAT
Statistics
Matches: 98, Mismatches: 7, Indels: 8
0.87 0.06 0.07
Matches are distributed among these distances:
39 37 0.38
40 58 0.59
41 3 0.03
ACGTcount: A:0.30, C:0.22, G:0.28, T:0.21
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTACCAA
Found at i:40566469 original size:25 final size:26
Alignment explanation
Indices: 40566375--40566483 Score: 166
Period size: 26 Copynumber: 4.2 Consensus size: 26
40566365 TGATACAAAT
40566375 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
40566401 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
40566427 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
40566453 TGATAATGGTTTA-GTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
40566478 TGATAA
1 TGATAA
40566484 GAATTTCATG
Statistics
Matches: 77, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
25 18 0.23
26 59 0.77
ACGTcount: A:0.34, C:0.06, G:0.23, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:40568509 original size:136 final size:136
Alignment explanation
Indices: 40568264--40568685 Score: 772
Period size: 136 Copynumber: 3.1 Consensus size: 136
40568254 GAGTAGTCTC
*
40568264 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATG-TTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
**
40568329 TGTTATCTGAATAAGGGTTTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
65 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
40568394 ACTGTTA
130 ACTGTTA
40568401 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
40568466 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
40568531 CTGTTA
131 CTGTTA
40568537 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
* *
40568602 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATTTGAAAAGGGCTCTGGCCTAGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
40568667 CTGTTA
131 CTGTTA
**
40568673 CCTGAATGGGCTT
1 CCCAAATGGGCTT
40568686 AGGCCCAATA
Statistics
Matches: 278, Mismatches: 7, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
136 258 0.93
137 20 0.07
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (136 bp):
CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
CTGTTA
Found at i:40569976 original size:40 final size:40
Alignment explanation
Indices: 40569921--40570124 Score: 214
Period size: 40 Copynumber: 5.1 Consensus size: 40
40569911 TGAATGATAC
* * * * *
40569921 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGTTATAT
*
40569961 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTTGTTATAT
*** *
40570001 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGTTATAT
*** *
40570041 CCGGG-TAAAGACCCGAAGGCAATTGTGCAAGTTACCAAAT
1 CCGGGCT-AAGACCCGAAGGCAATTGTGCAAGTTGTTATAT
* ** *
40570081 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGTTATAT
40570121 CCGG
1 CCGG
40570125 TTGAATCCCG
Statistics
Matches: 143, Mismatches: 17, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
39 3 0.02
40 136 0.95
41 4 0.03
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGTTATAT
Found at i:40575680 original size:28 final size:28
Alignment explanation
Indices: 40575611--40575711 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
40575601 GACAAGATTG
* * * *
40575611 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
40575641 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
40575669 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
40575698 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
40575712 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:40583631 original size:28 final size:28
Alignment explanation
Indices: 40583562--40583662 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
40583552 GACAAGATTG
* * * *
40583562 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
40583592 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
40583620 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
40583649 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
40583663 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:40586202 original size:14 final size:14
Alignment explanation
Indices: 40586183--40586219 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
40586173 AGTCTCCAAT
*
40586183 TATAATAAACATAA
1 TATAATAAACAAAA
*
40586197 TATAATAAATAAAA
1 TATAATAAACAAAA
40586211 TATAATAAA
1 TATAATAAA
40586220 ATATACTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (14 bp):
TATAATAAACAAAA
Found at i:40587961 original size:36 final size:37
Alignment explanation
Indices: 40587912--40587992 Score: 146
Period size: 36 Copynumber: 2.2 Consensus size: 37
40587902 CATATCTCGG
40587912 GTCAATAAGATAACTAAATGTATCTTATATAAAATAAA
1 GTCAA-AAGATAACTAAATGTATCTTATATAAAATAAA
40587950 GTCAAAA-ATAACTAAATGTATCTTATATAAAATAAA
1 GTCAAAAGATAACTAAATGTATCTTATATAAAATAAA
40587986 GTCAAAA
1 GTCAAAA
40587993 CCTTTGGTAA
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
36 36 0.84
37 2 0.05
38 5 0.12
ACGTcount: A:0.54, C:0.09, G:0.07, T:0.30
Consensus pattern (37 bp):
GTCAAAAGATAACTAAATGTATCTTATATAAAATAAA
Found at i:40587985 original size:20 final size:20
Alignment explanation
Indices: 40587926--40587985 Score: 56
Period size: 20 Copynumber: 3.2 Consensus size: 20
40587916 ATAAGATAAC
40587926 TAAATGTATCTTATATAAAA
1 TAAATGTATCTTATATAAAA
** * *
40587946 TAAA-G--TCAAAAAT-AAC
1 TAAATGTATCTTATATAAAA
40587962 TAAATGTATCTTATATAAAA
1 TAAATGTATCTTATATAAAA
40587982 TAAA
1 TAAA
40587986 GTCAAAACCT
Statistics
Matches: 28, Mismatches: 8, Indels: 8
0.64 0.18 0.18
Matches are distributed among these distances:
16 6 0.21
17 6 0.21
19 6 0.21
20 10 0.36
ACGTcount: A:0.55, C:0.07, G:0.05, T:0.33
Consensus pattern (20 bp):
TAAATGTATCTTATATAAAA
Found at i:40592758 original size:11 final size:11
Alignment explanation
Indices: 40592739--40592770 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
40592729 TCTGAGTTAG
40592739 AAAAA-TATTT
1 AAAAATTATTT
40592749 AAAAATTATTT
1 AAAAATTATTT
40592760 AAAAATTATTT
1 AAAAATTATTT
40592771 TTTTTGTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.24
11 16 0.76
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
AAAAATTATTT
Found at i:40594045 original size:56 final size:56
Alignment explanation
Indices: 40593959--40594151 Score: 323
Period size: 56 Copynumber: 3.4 Consensus size: 56
40593949 GACCATGGCA
*
40593959 TCGATATATGTATGCGAGTAAGACCACGTTTTATACGTTGGCATCGATATGTGACT
1 TCGATATATGTGTGCGAGTAAGACCACGTTTTATACGTTGGCATCGATATGTGACT
* *
40594015 TCGATATATGTGTGCGAGTAAGACCACGTTTTATACATTGGCATCGATATATGACT
1 TCGATATATGTGTGCGAGTAAGACCACGTTTTATACGTTGGCATCGATATGTGACT
* *
40594071 TCGATATATGTGTGCGAGTAAGACCACGTTTTATGCGTTGGCATCAATATGTGACT
1 TCGATATATGTGTGCGAGTAAGACCACGTTTTATACGTTGGCATCGATATGTGACT
* *
40594127 CCGATATATTTGTGCGAGTAAGACC
1 TCGATATATGTGTGCGAGTAAGACC
40594152 CTGTTTGGGA
Statistics
Matches: 128, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 128 1.00
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (56 bp):
TCGATATATGTGTGCGAGTAAGACCACGTTTTATACGTTGGCATCGATATGTGACT
Found at i:40594169 original size:56 final size:56
Alignment explanation
Indices: 40593959--40594180 Score: 263
Period size: 56 Copynumber: 4.0 Consensus size: 56
40593949 GACCATGGCA
* * *
40593959 TCGATATATGTATGCGAGTAAGACCACGTTTTATAC-GTTGGCATCGATATGTGACT
1 TCGATATATGTGTGCGAGTAAGACCACGTTTAAGACAG-TGGCATCGATATGTGACT
* * * *
40594015 TCGATATATGTGTGCGAGTAAGACCACGTTTTATACATTGGCATCGATATATGACT
1 TCGATATATGTGTGCGAGTAAGACCACGTTTAAGACAGTGGCATCGATATGTGACT
* *
40594071 TCGATATATGTGTGCGAGTAAGACCACGTTTTATG-C-GTTGGCATCAATATGTGACT
1 TCGATATATGTGTGCGAGTAAGACCACG-TTTAAGACAG-TGGCATCGATATGTGACT
* * **
40594127 CCGATATATTTGTGCGAGTAAGACC-CTGTTTGGGACAGTGGCATCGATATGTGA
1 TCGATATATGTGTGCGAGTAAGACCAC-GTTTAAGACAGTGGCATCGATATGTGA
40594181 TTACATGTAA
Statistics
Matches: 146, Mismatches: 14, Indels: 12
0.85 0.08 0.07
Matches are distributed among these distances:
55 5 0.03
56 137 0.94
57 4 0.03
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (56 bp):
TCGATATATGTGTGCGAGTAAGACCACGTTTAAGACAGTGGCATCGATATGTGACT
Found at i:40594169 original size:112 final size:112
Alignment explanation
Indices: 40593959--40594176 Score: 339
Period size: 112 Copynumber: 1.9 Consensus size: 112
40593949 GACCATGGCA
* *
40593959 TCGATATATGTATGCGAGTAAGACCACGTTTTATACGTTGGCATCGATATGTGACTTCGATATAT
1 TCGATATATGTATGCGAGTAAGACCACGTTTTATACGTTGGCATCAATATGTGACTCCGATATAT
* * *
40594024 GTGTGCGAGTAAGACCACGTTTTATACATTGGCATCGATATATGACT
66 GTGTGCGAGTAAGACCACGTTTGAGACAGTGGCATCGATATATGACT
* *
40594071 TCGATATATGTGTGCGAGTAAGACCACGTTTTATGCGTTGGCATCAATATGTGACTCCGATATAT
1 TCGATATATGTATGCGAGTAAGACCACGTTTTATACGTTGGCATCAATATGTGACTCCGATATAT
* *
40594136 TTGTGCGAGTAAGACC-CTGTTTGGGACAGTGGCATCGATAT
66 GTGTGCGAGTAAGACCAC-GTTTGAGACAGTGGCATCGATAT
40594177 GTGATTACAT
Statistics
Matches: 96, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
111 1 0.01
112 95 0.99
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (112 bp):
TCGATATATGTATGCGAGTAAGACCACGTTTTATACGTTGGCATCAATATGTGACTCCGATATAT
GTGTGCGAGTAAGACCACGTTTGAGACAGTGGCATCGATATATGACT
Found at i:40599902 original size:22 final size:22
Alignment explanation
Indices: 40599863--40599921 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
40599853 GTTTTAAGAA
*
40599863 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
40599884 TTGTTTTAATATTTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
40599906 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
40599922 GATTTATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 16 0.47
22 11 0.32
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:40599938 original size:26 final size:24
Alignment explanation
Indices: 40599892--40599951 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
40599882 ATTTGTTTTA
*
40599892 ATATTTATTTTTATGTTTTTAAAT
1 ATATTTATTTTTATATTTTTAAAT
40599916 ATATTTGATTTATTATATTTTTAAAT
1 ATATTT-ATTT-TTATATTTTTAAAT
* *
40599942 TTTTTTATTT
1 ATATTTATTT
40599952 AATAAAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.19
25 8 0.26
26 17 0.55
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.68
Consensus pattern (24 bp):
ATATTTATTTTTATATTTTTAAAT
Found at i:40602529 original size:44 final size:47
Alignment explanation
Indices: 40602472--40602676 Score: 120
Period size: 46 Copynumber: 4.4 Consensus size: 47
40602462 CATGTCCCTG
*
40602472 ACATGGTCTTACACTAGCTCAAC-TCGT-AGTC-GATGCATGTCACAA
1 ACAT-GTCTTACACTAGCTCAACATCGTGAGGCTGATGCATGTCACAA
* * * * * *
40602517 ACATTTCTTACACTGGCT-TACATCTTGAGGCTGATGCATGTCCCAG
1 ACATGTCTTACACTAGCTCAACATCGTGAGGCTGATGCATGTCACAA
* * * * * *
40602563 ACATGTCTTACACTAGCTC-TCGTC-TCAATG-TCGATGTCATGTCCCAG
1 ACATGTCTTACACTAGCTCAACATCGT-GAGGCT-GATG-CATGTCACAA
* ** * * * * *
40602610 ACATGGTCTTACACTAGCTCTA-ATAATGTGGCCGATACATGTCCCAG
1 ACAT-GTCTTACACTAGCTCAACATCGTGAGGCTGATGCATGTCACAA
40602657 ACATGTCTTACACTAGCTCA
1 ACATGTCTTACACTAGCTCA
40602677 CAATAACCCA
Statistics
Matches: 127, Mismatches: 22, Indels: 21
0.75 0.13 0.12
Matches are distributed among these distances:
43 2 0.02
44 15 0.12
45 9 0.07
46 52 0.41
47 28 0.22
48 20 0.16
49 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (47 bp):
ACATGTCTTACACTAGCTCAACATCGTGAGGCTGATGCATGTCACAA
Found at i:40604474 original size:2 final size:2
Alignment explanation
Indices: 40604467--40604525 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
40604457 AATTGCATAA
40604467 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
40604509 AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC A
40604526 TATATATATA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:40604530 original size:2 final size:2
Alignment explanation
Indices: 40604525--40604550 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
40604515 ACACACACAC
40604525 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
40604551 TGATTTAATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:40605671 original size:15 final size:18
Alignment explanation
Indices: 40605637--40605672 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
40605627 TAAACTTAAT
40605637 AAATCACTTATATAACAA
1 AAATCACTTATATAACAA
40605655 AAATCA-TTATATAA-AA
1 AAATCACTTATATAACAA
40605671 AA
1 AA
40605673 CCTTTTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 4 0.22
17 8 0.44
18 6 0.33
ACGTcount: A:0.61, C:0.11, G:0.00, T:0.28
Consensus pattern (18 bp):
AAATCACTTATATAACAA
Found at i:40605869 original size:49 final size:49
Alignment explanation
Indices: 40605786--40605919 Score: 182
Period size: 49 Copynumber: 2.8 Consensus size: 49
40605776 AAAATGGGTT
* * * *
40605786 GTTA-CAACTCACATGCCCTACCAGTGGTCTATCTTATCCACCAATCTG
1 GTTAGCAACTAACATGCCCTACCAGTGGACCATCTTATCCACCAATCTA
* * *
40605834 GTTAGCAACTAACATGCCTTACAAGTGGACCATCTTATCTACCAATCTA
1 GTTAGCAACTAACATGCCCTACCAGTGGACCATCTTATCCACCAATCTA
40605883 GTTAGCAACTAACATGCCCTACCAGT-GACCCATCTTA
1 GTTAGCAACTAACATGCCCTACCAGTGGA-CCATCTTA
40605920 CTCTTCTAGA
Statistics
Matches: 75, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
48 6 0.08
49 69 0.92
ACGTcount: A:0.29, C:0.31, G:0.13, T:0.28
Consensus pattern (49 bp):
GTTAGCAACTAACATGCCCTACCAGTGGACCATCTTATCCACCAATCTA
Found at i:40609398 original size:11 final size:11
Alignment explanation
Indices: 40609382--40609406 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
40609372 ACTTTTTTAG
40609382 TGAATTTAAAA
1 TGAATTTAAAA
40609393 TGAATTTAAAA
1 TGAATTTAAAA
40609404 TGA
1 TGA
40609407 TAAAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.12, T:0.36
Consensus pattern (11 bp):
TGAATTTAAAA
Found at i:40616013 original size:21 final size:22
Alignment explanation
Indices: 40615988--40616034 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
40615978 ATGAAAAGAT
40615988 AGCTTGGA-AAGAGAAAACAGC
1 AGCTTGGAGAAGAGAAAACAGC
* *
40616009 AGCTTGGAGAAGAGAGATCAGC
1 AGCTTGGAGAAGAGAAAACAGC
40616031 AGCT
1 AGCT
40616035 CACTTTTGGC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 8 0.35
22 15 0.65
ACGTcount: A:0.40, C:0.15, G:0.32, T:0.13
Consensus pattern (22 bp):
AGCTTGGAGAAGAGAAAACAGC
Found at i:40616211 original size:28 final size:28
Alignment explanation
Indices: 40616179--40616277 Score: 128
Period size: 28 Copynumber: 3.5 Consensus size: 28
40616169 TCGACTGCAG
*
40616179 CTAAGACACATTAAAAACAAGTACTAAA
1 CTAAGACACATTAAAAACAAGTATTAAA
* *
40616207 CTAAGACACATTAATAACATGTATTAAA
1 CTAAGACACATTAAAAACAAGTATTAAA
*
40616235 CTAAGACACATTAATAACATA-TATTAAA
1 CTAAGACACATTAAAAACA-AGTATTAAA
* *
40616263 CGAAGACATATTAAA
1 CTAAGACACATTAAA
40616278 CACTTTAATT
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
28 63 1.00
ACGTcount: A:0.54, C:0.15, G:0.07, T:0.24
Consensus pattern (28 bp):
CTAAGACACATTAAAAACAAGTATTAAA
Found at i:40622845 original size:28 final size:28
Alignment explanation
Indices: 40622813--40622883 Score: 124
Period size: 28 Copynumber: 2.5 Consensus size: 28
40622803 TTGGCAGCAG
40622813 CTAAGACACATTAAAAACAAGTATTAAA
1 CTAAGACACATTAAAAACAAGTATTAAA
* *
40622841 CTAAGACACATTAATAGCAAGTATTAAA
1 CTAAGACACATTAAAAACAAGTATTAAA
40622869 CTAAGACACATTAAA
1 CTAAGACACATTAAA
40622884 CATTTTAATT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.54, C:0.15, G:0.08, T:0.23
Consensus pattern (28 bp):
CTAAGACACATTAAAAACAAGTATTAAA
Found at i:40623551 original size:52 final size:50
Alignment explanation
Indices: 40623453--40623552 Score: 112
Period size: 52 Copynumber: 2.0 Consensus size: 50
40623443 TATAACTTTC
* **
40623453 ATGTTAGTTAAGTATGCATCATAAATAATGACTTGCATTATGTAACTCCT
1 ATGTTAGTTAAGTATGCATCATAAATAATGACTTACATTAAATAACTCCT
* * *
40623503 ATGTTAGTTTAAGTCTGCATTATTAAATTAA-GTCTTACATTAAATAACTC
1 ATGTTAG-TTAAGTATGCATCA-TAAA-TAATGACTTACATTAAATAACTC
40623553 ATTTGTTTAT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
50 7 0.17
51 12 0.29
52 19 0.46
53 3 0.07
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (50 bp):
ATGTTAGTTAAGTATGCATCATAAATAATGACTTACATTAAATAACTCCT
Found at i:40623709 original size:9 final size:9
Alignment explanation
Indices: 40623692--40623765 Score: 52
Period size: 9 Copynumber: 8.6 Consensus size: 9
40623682 TTTATTTAAG
*
40623692 TTAAAGTGT
1 TTAATGTGT
40623701 TTAATGTGT
1 TTAATGTGT
40623710 TT--TGTGT
1 TTAATGTGT
40623717 TTAATAAGTGT
1 TTAAT--GTGT
*
40623728 TTAAATTTGT
1 TT-AATGTGT
*
40623738 TTAATATG-
1 TTAATGTGT
40623746 TT--TGT-T
1 TTAATGTGT
40623752 TTAATGTGT
1 TTAATGTGT
40623761 TTAAT
1 TTAAT
40623766 TGCAGGTGTC
Statistics
Matches: 52, Mismatches: 4, Indels: 18
0.70 0.05 0.24
Matches are distributed among these distances:
6 4 0.08
7 7 0.13
8 5 0.10
9 22 0.42
10 5 0.10
11 6 0.12
12 3 0.06
ACGTcount: A:0.26, C:0.00, G:0.18, T:0.57
Consensus pattern (9 bp):
TTAATGTGT
Found at i:40624234 original size:53 final size:53
Alignment explanation
Indices: 40624154--40624262 Score: 218
Period size: 53 Copynumber: 2.1 Consensus size: 53
40624144 TTCAGCTCAT
40624154 TATTAGCTCATAAGATGATCACATGTGACCATTCGGCTAGCCTCTTTTAACAC
1 TATTAGCTCATAAGATGATCACATGTGACCATTCGGCTAGCCTCTTTTAACAC
40624207 TATTAGCTCATAAGATGATCACATGTGACCATTCGGCTAGCCTCTTTTAACAC
1 TATTAGCTCATAAGATGATCACATGTGACCATTCGGCTAGCCTCTTTTAACAC
40624260 TAT
1 TAT
40624263 AAATAGTTGT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 56 1.00
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.33
Consensus pattern (53 bp):
TATTAGCTCATAAGATGATCACATGTGACCATTCGGCTAGCCTCTTTTAACAC
Found at i:40624400 original size:15 final size:15
Alignment explanation
Indices: 40624380--40624409 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
40624370 TTATTAAGCA
*
40624380 TTGCTTGTGGCGTCT
1 TTGCTTATGGCGTCT
40624395 TTGCTTATGGCGTCT
1 TTGCTTATGGCGTCT
40624410 ATCCTTTCTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.03, C:0.20, G:0.30, T:0.47
Consensus pattern (15 bp):
TTGCTTATGGCGTCT
Found at i:40631949 original size:11 final size:10
Alignment explanation
Indices: 40631935--40631969 Score: 52
Period size: 11 Copynumber: 3.3 Consensus size: 10
40631925 TAAAAAGTAC
40631935 AAAAATTATAA
1 AAAAATT-TAA
40631946 AAAAATTTAA
1 AAAAATTTAA
40631956 AAAAATTTTAA
1 AAAAA-TTTAA
40631967 AAA
1 AAA
40631970 TCAATTAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 8 0.35
11 15 0.65
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (10 bp):
AAAAATTTAA
Found at i:40632717 original size:14 final size:15
Alignment explanation
Indices: 40632698--40632735 Score: 60
Period size: 14 Copynumber: 2.5 Consensus size: 15
40632688 CCAAAATTTT
40632698 TTATTTTTAA-AAAA
1 TTATTTTTAATAAAA
40632712 TTATTTTTAATAAAA
1 TTATTTTTAATAAAA
40632727 TTATATTTT
1 TTAT-TTTT
40632736 TATCCCCCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 10 0.45
15 8 0.36
16 4 0.18
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TTATTTTTAATAAAA
Found at i:40634115 original size:25 final size:25
Alignment explanation
Indices: 40634087--40634166 Score: 124
Period size: 25 Copynumber: 3.2 Consensus size: 25
40634077 TTTTTTATAA
40634087 ACTTTAAATTAGGAATTCTATTAGG
1 ACTTTAAATTAGGAATTCTATTAGG
*
40634112 ACTTTAAATTAAGAATTCTATTAGG
1 ACTTTAAATTAGGAATTCTATTAGG
* **
40634137 ACTTTAAATTAGGAACTAGATTAGG
1 ACTTTAAATTAGGAATTCTATTAGG
40634162 ACTTT
1 ACTTT
40634167 CCTTTTGTAA
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 50 1.00
ACGTcount: A:0.38, C:0.09, G:0.15, T:0.39
Consensus pattern (25 bp):
ACTTTAAATTAGGAATTCTATTAGG
Found at i:40634149 original size:13 final size:13
Alignment explanation
Indices: 40634087--40634150 Score: 55
Period size: 13 Copynumber: 5.1 Consensus size: 13
40634077 TTTTTTATAA
40634087 ACTTTAAATTAGG
1 ACTTTAAATTAGG
*
40634100 AATTCT--ATTAGG
1 ACTT-TAAATTAGG
*
40634112 ACTTTAAATTAAG
1 ACTTTAAATTAGG
*
40634125 AATTCT--ATTAGG
1 ACTT-TAAATTAGG
40634137 ACTTTAAATTAGG
1 ACTTTAAATTAGG
40634150 A
1 A
40634151 ACTAGATTAG
Statistics
Matches: 39, Mismatches: 6, Indels: 12
0.68 0.11 0.21
Matches are distributed among these distances:
11 2 0.05
12 17 0.44
13 18 0.46
14 2 0.05
ACGTcount: A:0.39, C:0.08, G:0.14, T:0.39
Consensus pattern (13 bp):
ACTTTAAATTAGG
Found at i:40638707 original size:25 final size:25
Alignment explanation
Indices: 40638679--40638759 Score: 128
Period size: 25 Copynumber: 3.2 Consensus size: 25
40638669 GTTTTTTATA
40638679 GACTTTAAATTAAGAATTCTATTAG
1 GACTTTAAATTAAGAATTCTATTAG
40638704 GACTTTAAATTAAGAATTCTATTAG
1 GACTTTAAATTAAGAATTCTATTAG
**
40638729 GACTTTAAATT-AGAAATTGGATTAG
1 GACTTTAAATTAAG-AATTCTATTAG
40638754 GACTTT
1 GACTTT
40638760 TCCTTTGTAA
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
24 2 0.04
25 51 0.96
ACGTcount: A:0.38, C:0.07, G:0.15, T:0.40
Consensus pattern (25 bp):
GACTTTAAATTAAGAATTCTATTAG
Found at i:40641695 original size:14 final size:14
Alignment explanation
Indices: 40641670--40641710 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
40641660 TTGACCTTTA
40641670 TTTCTGTTTTTTTCT
1 TTTCT-TTTTTTTCT
40641685 TTTCTTTTTTTTCT
1 TTTCTTTTTTTTCT
*
40641699 TTT-TTATTTTTC
1 TTTCTTTTTTTTC
40641711 AGCCTTCACT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 8 0.32
14 12 0.48
15 5 0.20
ACGTcount: A:0.02, C:0.12, G:0.02, T:0.83
Consensus pattern (14 bp):
TTTCTTTTTTTTCT
Found at i:40644129 original size:21 final size:22
Alignment explanation
Indices: 40644068--40644118 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
40644058 TGTTTTCAAC
* *
40644068 ACTATTTAAGTATTGTTTGAGT
1 ACTATTTCAGCATTGTTTGAGT
40644090 ACTATTTCAGCATTGTTTGAGT
1 ACTATTTCAGCATTGTTTGAGT
40644112 ACTATTT
1 ACTATTT
40644119 TGGGTTGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.25, C:0.10, G:0.16, T:0.49
Consensus pattern (22 bp):
ACTATTTCAGCATTGTTTGAGT
Found at i:40649066 original size:33 final size:33
Alignment explanation
Indices: 40648969--40649067 Score: 162
Period size: 33 Copynumber: 3.0 Consensus size: 33
40648959 TTTCTTCTTG
* *
40648969 ACATTCCAACTCCTGTCCAGCAACAAAACACCC
1 ACATTCCAGCTCCTGTCCAGCAACAAAACACTC
*
40649002 ACATTCCAGCTCCTGTCCAGCAGCAAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACAAAACACTC
*
40649035 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACAAAACACTC
40649068 CCACTCAGTC
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 61 1.00
ACGTcount: A:0.32, C:0.41, G:0.09, T:0.17
Consensus pattern (33 bp):
ACATTCCAGCTCCTGTCCAGCAACAAAACACTC
Found at i:40653190 original size:29 final size:29
Alignment explanation
Indices: 40653148--40653204 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
40653138 AATTTAAAAG
40653148 AGAAAAAAAAAACAAATCAGTTTCTTCTA
1 AGAAAAAAAAAACAAATCAGTTTCTTCTA
40653177 AGAAAAAAAAAACAAATCAGTTTCTTCT
1 AGAAAAAAAAAACAAATCAGTTTCTTCT
40653205 TCATTGCAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.54, C:0.14, G:0.07, T:0.25
Consensus pattern (29 bp):
AGAAAAAAAAAACAAATCAGTTTCTTCTA
Found at i:40657037 original size:51 final size:52
Alignment explanation
Indices: 40656931--40657037 Score: 146
Period size: 52 Copynumber: 2.1 Consensus size: 52
40656921 AATCCAAATA
*
40656931 GTCACGAATTAACTAATCTTTTGAGCTTAAAAATTGACAGCTTGTTTGAACT
1 GTCACGAATTAACTAATCTTTTGAGATTAAAAATTGACAGCTTGTTTGAACT
* * * *
40656983 GTCACGAATTGAGTAATCTTTTGAGATT-GAAATTGACAGCTT-TATTGAATT
1 GTCACGAATTAACTAATCTTTTGAGATTAAAAATTGACAGCTTGT-TTGAACT
40657034 GTCA
1 GTCA
40657038 TTAATAAACT
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
50 1 0.02
51 23 0.47
52 25 0.51
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (52 bp):
GTCACGAATTAACTAATCTTTTGAGATTAAAAATTGACAGCTTGTTTGAACT
Found at i:40658283 original size:16 final size:16
Alignment explanation
Indices: 40658262--40658303 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
40658252 GTTCATACCC
40658262 TTTCAAATTTGGATTT
1 TTTCAAATTTGGATTT
* * *
40658278 TTTCAAGTTTTGTTTT
1 TTTCAAATTTGGATTT
40658294 TTTCAAATTT
1 TTTCAAATTT
40658304 CGGCTTGGAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.21, C:0.07, G:0.10, T:0.62
Consensus pattern (16 bp):
TTTCAAATTTGGATTT
Found at i:40669496 original size:21 final size:22
Alignment explanation
Indices: 40669470--40669516 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
40669460 TAGCAAATTT
40669470 TTCTTCT-TCAGCAACAACTT-C
1 TTCTTCTGT-AGCAACAACTTCC
*
40669491 TTCTTCTGTAGTAACAACTTCC
1 TTCTTCTGTAGCAACAACTTCC
40669513 TTCT
1 TTCT
40669517 CAACAATAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 17 0.74
22 6 0.26
ACGTcount: A:0.21, C:0.30, G:0.06, T:0.43
Consensus pattern (22 bp):
TTCTTCTGTAGCAACAACTTCC
Found at i:40671552 original size:35 final size:35
Alignment explanation
Indices: 40671508--40671674 Score: 192
Period size: 35 Copynumber: 4.6 Consensus size: 35
40671498 TCCTCATTGA
** *
40671508 AATACCATACCTACATTTTTCAACTCGGTATAGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
40671543 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
40671583 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
40671618 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
* *
40671653 GATATCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
40671675 CTTTGCCATG
Statistics
Matches: 115, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
35 85 0.74
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.24, G:0.10, T:0.32
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:40671591 original size:75 final size:74
Alignment explanation
Indices: 40671503--40671674 Score: 221
Period size: 75 Copynumber: 2.4 Consensus size: 74
40671493 GGTTTTCCTC
** * * **
40671503 ATTGA-AATACCATACCTACATTTTTCAACTCGGTATAGGA-AATGCCATACCTACATTTCTTAA
1 ATTGATAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAA
40671566 CTCAGTATGG
65 CTCAGTATGG
*
40671576 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGATAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
40671641 CTCAGTATGG
65 CTCAGTATGG
40671651 A-TGAT-AT--CATACCTACATTTCACA
1 ATTGATAATACCATACCTACATTTCACA
40671675 CTTTGCCATG
Statistics
Matches: 89, Mismatches: 7, Indels: 9
0.85 0.07 0.09
Matches are distributed among these distances:
70 17 0.19
72 2 0.02
73 5 0.06
74 7 0.08
75 58 0.65
ACGTcount: A:0.34, C:0.23, G:0.10, T:0.32
Consensus pattern (74 bp):
ATTGATAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAAC
TCAGTATGG
Found at i:40677106 original size:46 final size:46
Alignment explanation
Indices: 40677052--40677253 Score: 289
Period size: 46 Copynumber: 4.4 Consensus size: 46
40677042 TGTCATAGTG
* ** * * *
40677052 TCTTTCAACTATGGTCTTATTCATTTTC-TGTCATGTTGCCAGGGTA
1 TCTTTCAACCATGGTCTTACACA-TTTCATATCAGGTTGCCATGGTA
** *
40677098 TCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
*
40677144 TCTTTCAACCATGGTCTTACACATTTCATATGAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
*
40677190 TCTTTCAACCATGGTCTTACACATTTCACATCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
40677236 TCTTTCAACCATGGTCTT
1 TCTTTCAACCATGGTCTT
40677254 GCATGTGACA
Statistics
Matches: 145, Mismatches: 10, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
45 4 0.03
46 141 0.97
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.40
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
Found at i:40679123 original size:40 final size:39
Alignment explanation
Indices: 40679030--40679252 Score: 306
Period size: 40 Copynumber: 5.6 Consensus size: 39
40679020 TATTCGGATG
* *
40679030 ATATCC-GGCTAAGTCCCGAAGGCATTTGTGCGAGTTCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGCT
40679068 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTG-CT
*
40679108 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC---TAG-TGCT
*
40679151 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTG-CT
* *
40679191 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGCT
*
40679231 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
40679253 TACTTGGGTT
Statistics
Matches: 167, Mismatches: 10, Indels: 15
0.87 0.05 0.08
Matches are distributed among these distances:
38 6 0.04
39 44 0.26
40 78 0.47
41 2 0.01
43 35 0.21
44 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (39 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGCT
Found at i:40679271 original size:83 final size:80
Alignment explanation
Indices: 40679030--40679252 Score: 362
Period size: 83 Copynumber: 2.8 Consensus size: 80
40679020 TATTCGGATG
40679030 ATATCC-GGCTAAGTCCCGAAGGCATTTGTGCGAGTT-CTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGGCA
40679093 TTTGTGCTAGTGACT
66 TTTGTGCTAGTGACT
* *
40679108 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCTATACCCGGGCTAAGTCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC--G-AGTTGCTATATCCGGGCTAAGTCCCGAAG
40679173 GCATTTGTGCTAGTGACT
63 GCATTTGTGCTAGTGACT
* *
40679191 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGG
40679253 TACTTGGGTT
Statistics
Matches: 134, Mismatches: 6, Indels: 9
0.90 0.04 0.06
Matches are distributed among these distances:
78 6 0.04
79 39 0.29
80 12 0.09
81 2 0.01
82 4 0.03
83 71 0.53
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGGCA
TTTGTGCTAGTGACT
Found at i:40687456 original size:28 final size:27
Alignment explanation
Indices: 40687393--40687462 Score: 131
Period size: 27 Copynumber: 2.6 Consensus size: 27
40687383 ATAGTGAGTC
40687393 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
40687420 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
40687448 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
40687463 GTACAAATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 23 0.55
28 19 0.45
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:40690465 original size:40 final size:40
Alignment explanation
Indices: 40690410--40690634 Score: 260
Period size: 40 Copynumber: 5.6 Consensus size: 40
40690400 TATTCGGATG
*
40690410 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTCCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACT
*
40690450 ATATCCGGGCTAAGTCCCGAAGGCATTTGTG-GTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGTG-AGTTACT
* * * *
40690490 ATATCCGGGCGAAGTCCGGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGT--GTG-AGTTACT
* *
40690533 ATA-CTCGGGCTAAGTCCTGAAGGCATTTGTGCT-AGTGACT
1 ATATC-CGGGCTAAGTCCCGAAGGCATTTGTG-TGAGTTACT
* * *
40690573 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACT
*
40690613 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
40690635 TACTTGGGTT
Statistics
Matches: 159, Mismatches: 18, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
39 15 0.09
40 107 0.67
41 2 0.01
42 2 0.01
43 33 0.21
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACT
Found at i:40690653 original size:83 final size:79
Alignment explanation
Indices: 40690410--40690634 Score: 324
Period size: 83 Copynumber: 2.8 Consensus size: 79
40690400 TATTCGGATG
* *
40690410 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTCCTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCC-GGCTAAGTCCCGAAGGCA
40690475 TTTGTGGTAGTGACT
65 TTTGTGGTAGTGACT
* * * *
40690490 ATATCCGGGCGAAGTCCGGAAGGCATTTGTGCGAGTAGTTGCTATACTCGGGCTAAGTCCTGAAG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC--G-AGTTGCTATA-TCCGGCTAAGTCCCGAAG
*
40690555 GCATTTGTGCTAGTGACT
62 GCATTTGTGGTAGTGACT
* *
40690573 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGCTAAGTCCCGAAGG
40690635 TACTTGGGTT
Statistics
Matches: 128, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
79 16 0.12
80 39 0.30
81 1 0.01
82 1 0.01
83 69 0.54
84 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (79 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGCTAAGTCCCGAAGGCAT
TTGTGGTAGTGACT
Found at i:40691456 original size:28 final size:28
Alignment explanation
Indices: 40691420--40691477 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
40691410 ATAAATTTTG
40691420 TAATCGAACCTTGATGAGCCTATTTTCA
1 TAATCGAACCTTGATGAGCCTATTTTCA
*
40691448 TAATCGAACCTTGATGAGTCTATTTTCA
1 TAATCGAACCTTGATGAGCCTATTTTCA
40691476 TA
1 TA
40691478 TGGAAGAAGC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (28 bp):
TAATCGAACCTTGATGAGCCTATTTTCA
Found at i:40695141 original size:12 final size:12
Alignment explanation
Indices: 40695126--40695150 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
40695116 TCATTTTTTC
40695126 TTTTTTTTTCAT
1 TTTTTTTTTCAT
40695138 TTTTTTTTTCAT
1 TTTTTTTTTCAT
40695150 T
1 T
40695151 CCCTAATTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTTTTTTTCAT
Found at i:40697069 original size:46 final size:46
Alignment explanation
Indices: 40697004--40697113 Score: 141
Period size: 46 Copynumber: 2.4 Consensus size: 46
40696994 TTATCTTTGA
* * * *
40697004 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTC-TTTTCATGT
*
40697050 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCTTTTCATGT
* *
40697096 CACGTTGTCATGGTATCT
1 CATGTTGCCATGGTATCT
40697114 GTGACAGCCC
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
45 5 0.09
46 51 0.91
ACGTcount: A:0.18, C:0.22, G:0.16, T:0.44
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCTTTTCATGT
Found at i:40698027 original size:123 final size:123
Alignment explanation
Indices: 40697808--40698268 Score: 816
Period size: 123 Copynumber: 3.8 Consensus size: 123
40697798 GAGTTATGTG
*
40697808 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCTGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
40697873 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
40697931 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
40697996 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
*
40698054 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGAATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
* *
40698119 GCTAAGTCCCGAAGGCAATTATGCTAGTGACATGTTTGTGTTCGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
* * * * *
40698177 AAATGAAATATGGATGTGTAATGATTATTGATTTATGTGTGCATGAGCAATTGAATGATA-CCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
* *
40698241 GCTAAGTCCCGAAGACATTTATGCTAGT
66 GCTAAGTCCCGAAGGCAATTATGCTAGT
40698269 AATTATATCC
Statistics
Matches: 327, Mismatches: 11, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
122 30 0.09
123 297 0.91
ACGTcount: A:0.30, C:0.10, G:0.26, T:0.34
Consensus pattern (123 bp):
AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
Found at i:40698292 original size:40 final size:40
Alignment explanation
Indices: 40698237--40698480 Score: 301
Period size: 40 Copynumber: 6.1 Consensus size: 40
40698227 TTGAATGATA
* * * * **
40698237 CCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
* * * *
40698277 CCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGACTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTG-TTATAT
*
40698317 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
*
40698357 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
* *
40698397 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
* * ** *
40698437 CCGGGCTAAGACCCGAGGGCATTCGTGCGTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
40698477 CCGG
1 CCGG
40698481 TTGTATTCCG
Statistics
Matches: 182, Mismatches: 20, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
40 180 0.99
41 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
Found at i:40705150 original size:64 final size:64
Alignment explanation
Indices: 40705073--40705265 Score: 150
Period size: 64 Copynumber: 3.1 Consensus size: 64
40705063 TAATGATTAT
40705073 TGATATATGTGTGTATGAGTATTTGAATGGTACCCGGGCTAAGTCCCGAAGGCAATTATGCTAG
1 TGATATATGTGTGTATGAGTATTTGAATGGTACCCGGGCTAAGTCCCGAAGGCAATTATGCTAG
* * * ** * *** * *** * * *
40705137 TGATATGTTTGTGTTTGAG-CCTT--A--GTA-ACGAAAATGAAATATGGATGTGTAATGAT--T
1 TGATATATGTGTGTATGAGTATTTGAATGGTACCCG-GGCT-AAGTCCCGAAG-GCAATTATGCT
*
40705194 AT
63 AG
40705196 TGATATATGTGTGTATGAGTATTTGAATGGTACCCGGGCTAAGTCCCGAAGGCAATTATGCTAG
1 TGATATATGTGTGTATGAGTATTTGAATGGTACCCGGGCTAAGTCCCGAAGGCAATTATGCTAG
40705260 TGATAT
1 TGATAT
40705266 GTTTGTGTTC
Statistics
Matches: 84, Mismatches: 34, Indels: 22
0.60 0.24 0.16
Matches are distributed among these distances:
58 2 0.02
59 22 0.26
60 8 0.10
61 7 0.08
62 7 0.08
63 8 0.10
64 28 0.33
65 2 0.02
ACGTcount: A:0.28, C:0.11, G:0.26, T:0.34
Consensus pattern (64 bp):
TGATATATGTGTGTATGAGTATTTGAATGGTACCCGGGCTAAGTCCCGAAGGCAATTATGCTAG
Found at i:40705158 original size:123 final size:123
Alignment explanation
Indices: 40704923--40705380 Score: 830
Period size: 123 Copynumber: 3.7 Consensus size: 123
40704913 GAATTATGTG
40704923 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAAT-GTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
40704987 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
40705045 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
40705110 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
40705168 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
*
40705233 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
* * * * *
40705291 AAATGAAATATGGATGTGTAATGATTATTGATTTATGTGTGCATGAGCAATTGAATGATA-CCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
* *
40705355 GCTAAGTCCCGAAGACATTTATGCTA
66 GCTAAGTCCCGAAGGCAATTATGCTA
40705381 NAGTCGGTAA
Statistics
Matches: 327, Mismatches: 8, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
122 84 0.26
123 243 0.74
ACGTcount: A:0.30, C:0.10, G:0.25, T:0.34
Consensus pattern (123 bp):
AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
Found at i:40707645 original size:80 final size:80
Alignment explanation
Indices: 40707561--40707709 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
40707551 TATGGTAACC
* * * *
40707561 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
40707625 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
40707641 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
40707706 CCGG
66 CCGG
40707710 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Done.