Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 157 of 378
Found at i:45468956 original size:46 final size:46
Alignment explanation
Indices: 45468742--45469010 Score: 215
Period size: 46 Copynumber: 5.8 Consensus size: 46
45468732 TGTAACCCGC
* * *
45468742 CCATAA-TCGAACTCGGACTCAACTTAACGAGCTCGGGCGTTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
* * * * *
45468788 CCATAAGTGAACTTGGACTCAACTCAACGAGTTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-TTCGCAT
* * * * * * * *
45468834 ACATTTCA-CGAACTCGGACTCAACTCAACAAGTTCGGATGCCTAG-TT
1 CCA--TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-TTCGCAT
* * * *
45468881 ACATTTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGTTTGCAT
1 CCA--TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
* * ** *
45468928 CCATAAGTGAACTCGAATTCAACTCAACGAGTTCAAATGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
45468974 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
45469011 TGCCCAAATA
Statistics
Matches: 186, Mismatches: 31, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
45 2 0.01
46 102 0.55
47 80 0.43
48 2 0.01
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
Found at i:45472421 original size:22 final size:23
Alignment explanation
Indices: 45472371--45472422 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
45472361 ATGTTTTCAC
45472371 TTTTATTCTACTTTAAGACTACT
1 TTTTATTCTACTTTAAGACTACT
* *
45472394 TTTTATTTTTCTTTAAG-CGTA-T
1 TTTTATTCTACTTTAAGAC-TACT
45472416 TTTTATT
1 TTTTATT
45472423 AGGTTTTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 9 0.35
23 17 0.65
ACGTcount: A:0.21, C:0.12, G:0.06, T:0.62
Consensus pattern (23 bp):
TTTTATTCTACTTTAAGACTACT
Found at i:45478071 original size:19 final size:20
Alignment explanation
Indices: 45478030--45478072 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
45478020 TTTTGTAAAG
* *
45478030 TTTGTAAAATAGATGGTAGT
1 TTTGTAAAATAGATGGAAAT
*
45478050 TTTGTGAAATA-ATGGAAAT
1 TTTGTAAAATAGATGGAAAT
45478069 TTTG
1 TTTG
45478073 GGTTGCTATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.35, C:0.00, G:0.23, T:0.42
Consensus pattern (20 bp):
TTTGTAAAATAGATGGAAAT
Found at i:45478695 original size:46 final size:46
Alignment explanation
Indices: 45478525--45478737 Score: 273
Period size: 46 Copynumber: 4.6 Consensus size: 46
45478515 TGATATGTAT
* * * * *
45478525 GCTAGAGTAAAACATGTCTGGCACATGCATTGGCATAAAGACGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATAAAGATGAGA
* *
45478571 GCTAGTGTAAGACATGTCTGGGATATGCATAGGCATAAAGATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATAAAGATGAGA
45478617 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATAAAGATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATAAAGATGAGA
* * ** * *
45478663 GCTAGTGTAAGACATGTCTGGGACATGTATCGGCCTCGAGATATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATAAAGAT-GA-GA
* *
45478711 GCTAGTGTAAGACCTGTCTGAGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
45478738 GCGTCAGCTT
Statistics
Matches: 149, Mismatches: 16, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
46 122 0.82
47 1 0.01
48 26 0.17
ACGTcount: A:0.32, C:0.16, G:0.29, T:0.23
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATAAAGATGAGA
Found at i:45478814 original size:49 final size:49
Alignment explanation
Indices: 45478755--45478886 Score: 160
Period size: 48 Copynumber: 2.7 Consensus size: 49
45478745 CTTGTTGCGT
* *
45478755 GTCAGTGTAAGACCTATTTGGGACATGGCATCGACACCGATAGATGAGA
1 GTCAGTGTAAGACCTATCTGGGACATGGCATCGACACCGATAGATGAAA
** * * *
45478804 G-CTAGTGTAAGACCTA-CTGGGACACAGCATCGGCATCGATATATGAAA
1 GTC-AGTGTAAGACCTATCTGGGACATGGCATCGACACCGATAGATGAAA
**
45478852 GTCAGTGTAAGACCTATCTAAGACATGGCATCGAC
1 GTCAGTGTAAGACCTATCTGGGACATGGCATCGAC
45478887 TTTGATGTGC
Statistics
Matches: 68, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
48 40 0.59
49 28 0.41
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.22
Consensus pattern (49 bp):
GTCAGTGTAAGACCTATCTGGGACATGGCATCGACACCGATAGATGAAA
Found at i:45482301 original size:41 final size:40
Alignment explanation
Indices: 45482231--45482361 Score: 129
Period size: 35 Copynumber: 3.5 Consensus size: 40
45482221 ATCACAGTGA
* * *
45482231 CATGTTTAACATGCGAATCAGAATTAGAATTAGAATAATGG
1 CATGCTTAACATGCGAATCATAATCAGAA-TAGAATAATGG
45482272 CATGCTTAACATGCGAATCATAATC-----AGAATAATGG
1 CATGCTTAACATGCGAATCATAATCAGAATAGAATAATGG
* *
45482307 CATGCTCAACCTGCGAATCATAATC-----AGAATAATGG
1 CATGCTTAACATGCGAATCATAATCAGAATAGAATAATGG
*
45482342 CATGCTCAACATGCGAATCA
1 CATGCTTAACATGCGAATCA
45482362 GAATGTCAAT
Statistics
Matches: 84, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
35 62 0.74
41 22 0.26
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.25
Consensus pattern (40 bp):
CATGCTTAACATGCGAATCATAATCAGAATAGAATAATGG
Found at i:45482373 original size:35 final size:35
Alignment explanation
Indices: 45482262--45482361 Score: 182
Period size: 35 Copynumber: 2.9 Consensus size: 35
45482252 AATTAGAATT
*
45482262 AGAATAATGGCATGCTTAACATGCGAATCATAATC
1 AGAATAATGGCATGCTCAACATGCGAATCATAATC
*
45482297 AGAATAATGGCATGCTCAACCTGCGAATCATAATC
1 AGAATAATGGCATGCTCAACATGCGAATCATAATC
45482332 AGAATAATGGCATGCTCAACATGCGAATCA
1 AGAATAATGGCATGCTCAACATGCGAATCA
45482362 GAATGTCAAT
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 62 1.00
ACGTcount: A:0.39, C:0.20, G:0.18, T:0.23
Consensus pattern (35 bp):
AGAATAATGGCATGCTCAACATGCGAATCATAATC
Found at i:45488393 original size:16 final size:16
Alignment explanation
Indices: 45488362--45488413 Score: 65
Period size: 14 Copynumber: 3.4 Consensus size: 16
45488352 AAAGTTGTCA
45488362 CTATAGTTTT-AGAAT
1 CTATAGTTTTCAGAAT
45488377 CTATAGTTTTCAGAAT
1 CTATAGTTTTCAGAAT
* *
45488393 CTAGAG--TTCACAAT
1 CTATAGTTTTCAGAAT
45488407 CTATAGT
1 CTATAGT
45488414 AATCTATATT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
14 12 0.38
15 10 0.31
16 10 0.31
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.40
Consensus pattern (16 bp):
CTATAGTTTTCAGAAT
Found at i:45489822 original size:26 final size:26
Alignment explanation
Indices: 45489765--45489815 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
45489755 GACATGTTTA
45489765 ACATGCAAATCAGAATTAGAATAATG
1 ACATGCAAATCAGAATTAGAATAATG
* *
45489791 ACATGCGAATCATAATTAGAATAAT
1 ACATGCAAATCAGAATTAGAATAAT
45489816 ATCATGCTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.49, C:0.12, G:0.14, T:0.25
Consensus pattern (26 bp):
ACATGCAAATCAGAATTAGAATAATG
Found at i:45492787 original size:40 final size:40
Alignment explanation
Indices: 45492732--45492811 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
45492722 TCAAAAAAGT
45492732 ACCTAACGCTTTCTAGCTCTCGCTCACATGGTCCTTGTCA
1 ACCTAACGCTTTCTAGCTCTCGCTCACATGGTCCTTGTCA
*
45492772 ACCTAACGCTTTCTAGCTCTCGCTCACATGGTTCTTGTCA
1 ACCTAACGCTTTCTAGCTCTCGCTCACATGGTCCTTGTCA
45492812 TAGTATGAAC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.17, C:0.34, G:0.15, T:0.34
Consensus pattern (40 bp):
ACCTAACGCTTTCTAGCTCTCGCTCACATGGTCCTTGTCA
Found at i:45494501 original size:41 final size:41
Alignment explanation
Indices: 45494431--45494514 Score: 125
Period size: 41 Copynumber: 2.0 Consensus size: 41
45494421 ATGTAAAAAC
* *
45494431 AGTAGACATGCTTAACATGTATTCAGTTCAATAGTAGTAGT
1 AGTAGACATGCTTAACATGTATTCAGTTCAAAAGTAATAGT
*
45494472 AGTAGACATGCTTAACATGTA-TCTGGTTCAAAAGTAATAGT
1 AGTAGACATGCTTAACATGTATTC-AGTTCAAAAGTAATAGT
45494513 AG
1 AG
45494515 GCATGCTAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
40 2 0.05
41 37 0.95
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (41 bp):
AGTAGACATGCTTAACATGTATTCAGTTCAAAAGTAATAGT
Found at i:45494527 original size:38 final size:40
Alignment explanation
Indices: 45494431--45494528 Score: 121
Period size: 41 Copynumber: 2.5 Consensus size: 40
45494421 ATGTAAAAAC
*
45494431 AGTAGACATGCTTAACATGTATTCAGTTCAATAGTAGTAGT
1 AGTAGACATGCTTAACATGTATTCAGTTCAATAG-AGTAAT
*
45494472 AGTAGACATGCTTAACATGTA-TCTGGTTCAA-A-AGTAAT
1 AGTAGACATGCTTAACATGTATTC-AGTTCAATAGAGTAAT
* *
45494510 AGTAGGCATGCTAAACATG
1 AGTAGACATGCTTAACATG
45494529 CAATTGATAA
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
38 22 0.42
40 3 0.06
41 27 0.52
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (40 bp):
AGTAGACATGCTTAACATGTATTCAGTTCAATAGAGTAAT
Found at i:45501233 original size:40 final size:40
Alignment explanation
Indices: 45501159--45501300 Score: 158
Period size: 40 Copynumber: 3.5 Consensus size: 40
45501149 CCGCACCAAG
* * * * * *
45501159 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
45501199 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * * *
45501239 GCCTTCGGGTCTTGGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
*
45501279 GCCTTCGGGTCTTAACCCGGAT
1 GCCTTCGGGTCTTAGCCCGGAT
45501301 GTAATTTTCA
Statistics
Matches: 85, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 85 1.00
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:45509357 original size:40 final size:40
Alignment explanation
Indices: 45509283--45509424 Score: 158
Period size: 40 Copynumber: 3.5 Consensus size: 40
45509273 CCGCACCAAG
* * * * * *
45509283 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
45509323 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * * *
45509363 GCCTTCGGGTCTTGGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
*
45509403 GCCTTCGGGTCTTAACCCGGAT
1 GCCTTCGGGTCTTAGCCCGGAT
45509425 GTAATTTTCA
Statistics
Matches: 85, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 85 1.00
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:45513421 original size:21 final size:21
Alignment explanation
Indices: 45513397--45513446 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
45513387 ATGATGAATC
*
45513397 CGGCTTCTAAGATGGGTTAAT
1 CGGCTTCTAAGATGGGTCAAT
*
45513418 CGGCTTCTGAGATGGGTCAAT
1 CGGCTTCTAAGATGGGTCAAT
*
45513439 TGGCTTCT
1 CGGCTTCT
45513447 TTGGAGTAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.18, C:0.18, G:0.30, T:0.34
Consensus pattern (21 bp):
CGGCTTCTAAGATGGGTCAAT
Found at i:45516086 original size:29 final size:27
Alignment explanation
Indices: 45516052--45516154 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
45516042 TACTCAATCA
*
45516052 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
45516081 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
45516110 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
45516139 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
45516155 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:45518465 original size:23 final size:23
Alignment explanation
Indices: 45518434--45518508 Score: 82
Period size: 23 Copynumber: 3.3 Consensus size: 23
45518424 ACACGTAATT
*
45518434 TTCTATAAAGCCTTGGTGGAGTA
1 TTCTGTAAAGCCTTGGTGGAGTA
* *
45518457 TT-TGGTAAAACC-TGTGTGGTGTA
1 TTCT-GTAAAGCCTTG-GTGGAGTA
*
45518480 TTCTGTAAAGCCTTTGTGGAGTA
1 TTCTGTAAAGCCTTGGTGGAGTA
45518503 TTCTGT
1 TTCTGT
45518509 GATGACTGTG
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
22 3 0.07
23 37 0.88
24 2 0.05
ACGTcount: A:0.21, C:0.12, G:0.27, T:0.40
Consensus pattern (23 bp):
TTCTGTAAAGCCTTGGTGGAGTA
Found at i:45518518 original size:46 final size:46
Alignment explanation
Indices: 45518434--45518533 Score: 123
Period size: 46 Copynumber: 2.2 Consensus size: 46
45518424 ACACGTAATT
* *
45518434 TTCTATAAAGCCTTGGTGGAGTATTTGGTAAAACCTGTGTGGTGTA
1 TTCTGTAAAGCCTTGGTGGAGTATTTGGTAAAACCTGTGTGGCGTA
* **
45518480 TTCTGTAAAGCCTTTGTGGAGTATTCT-GTGATGA-CTGTGTGGCGTA
1 TTCTGTAAAGCCTTGGTGGAGTATT-TGGT-AAAACCTGTGTGGCGTA
45518526 TTCTGTAA
1 TTCTGTAA
45518534 CACCCTTAAG
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
46 44 0.94
47 3 0.06
ACGTcount: A:0.21, C:0.12, G:0.28, T:0.39
Consensus pattern (46 bp):
TTCTGTAAAGCCTTGGTGGAGTATTTGGTAAAACCTGTGTGGCGTA
Found at i:45518520 original size:23 final size:23
Alignment explanation
Indices: 45518449--45518533 Score: 84
Period size: 23 Copynumber: 3.7 Consensus size: 23
45518439 TAAAGCCTTG
45518449 GTGGAGTATT-TGGTAAA-ACCTGT
1 GTGGAGTATTCT-GTAAAGA-CTGT
* * *
45518472 GTGGTGTATTCTGTAAAGCCTTT
1 GTGGAGTATTCTGTAAAGACTGT
* *
45518495 GTGGAGTATTCTGTGATGACTGT
1 GTGGAGTATTCTGTAAAGACTGT
*
45518518 GTGGCGTATTCTGTAA
1 GTGGAGTATTCTGTAA
45518534 CACCCTTAAG
Statistics
Matches: 50, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
23 49 0.98
24 1 0.02
ACGTcount: A:0.20, C:0.11, G:0.31, T:0.39
Consensus pattern (23 bp):
GTGGAGTATTCTGTAAAGACTGT
Found at i:45520766 original size:20 final size:20
Alignment explanation
Indices: 45520726--45520772 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
45520716 TGCTAATTAA
*
45520726 AAATATTTAAACTTATATTT
1 AAATATTTAAACATATATTT
45520746 AAATATTTAAA-ATATAGTTT
1 AAATATTTAAACATATA-TTT
*
45520766 ATATATT
1 AAATATT
45520773 CTAATTAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 4 0.17
20 20 0.83
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (20 bp):
AAATATTTAAACATATATTT
Found at i:45521040 original size:13 final size:13
Alignment explanation
Indices: 45521024--45521076 Score: 61
Period size: 13 Copynumber: 4.1 Consensus size: 13
45521014 TTTAAACTAA
45521024 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
** *
45521037 ACTTCCCAAAAAC
1 ACTTTTCAAAAGC
* *
45521050 ACTTTTCTACAGC
1 ACTTTTCAAAAGC
45521063 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
45521076 A
1 A
45521077 TTGCCAAACT
Statistics
Matches: 30, Mismatches: 10, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.38, C:0.28, G:0.06, T:0.28
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:45521773 original size:34 final size:34
Alignment explanation
Indices: 45521735--45521803 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
45521725 AAATGAATGT
45521735 GATAAATTACTCATTCGAGTACAAGCAACCTGTG
1 GATAAATTACTCATTCGAGTACAAGCAACCTGTG
45521769 GATAAATTACTCATTCGAGTACAAGCAACCTGTG
1 GATAAATTACTCATTCGAGTACAAGCAACCTGTG
45521803 G
1 G
45521804 CCATGTTCTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (34 bp):
GATAAATTACTCATTCGAGTACAAGCAACCTGTG
Found at i:45524263 original size:20 final size:19
Alignment explanation
Indices: 45524234--45524281 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
45524224 TTTAATTGAA
*
45524234 TAATAAATTTAAAATTAAAT
1 TAATATATTT-AAATTAAAT
*
45524254 TAATATATTTAAATTTAAT
1 TAATATATTTAAATTAAAT
45524273 TATATATAT
1 TA-ATATAT
45524282 ATTATTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 10 0.40
20 15 0.60
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
TAATATATTTAAATTAAAT
Found at i:45525639 original size:26 final size:26
Alignment explanation
Indices: 45525603--45525655 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
45525593 AGTAAGTAAC
*
45525603 TTAAAAATTGATTTCGGTCTCATAAG
1 TTAAAAATTGATTTCGGTCTAATAAG
45525629 TTAAAAATTGATTTCGGTCTAATAAG
1 TTAAAAATTGATTTCGGTCTAATAAG
45525655 T
1 T
45525656 GACTCACTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.36, C:0.09, G:0.15, T:0.40
Consensus pattern (26 bp):
TTAAAAATTGATTTCGGTCTAATAAG
Found at i:45528476 original size:17 final size:17
Alignment explanation
Indices: 45528454--45528486 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
45528444 TCACGTTAAG
*
45528454 AAATAATTTAAAAAAAC
1 AAATAATTCAAAAAAAC
45528471 AAATAATTCAAAAAAA
1 AAATAATTCAAAAAAA
45528487 ATACATGAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.73, C:0.06, G:0.00, T:0.21
Consensus pattern (17 bp):
AAATAATTCAAAAAAAC
Found at i:45532458 original size:30 final size:29
Alignment explanation
Indices: 45532364--45532465 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
45532354 TATAGTGAAT
* * *
45532364 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
45532393 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
45532421 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
45532451 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
45532466 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:45536819 original size:40 final size:41
Alignment explanation
Indices: 45536770--45536869 Score: 127
Period size: 40 Copynumber: 2.5 Consensus size: 41
45536760 AAATTATAAT
* *
45536770 CGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGGC-TAC-ATC
1 CGGGCTAAGACCCGAAGGCAATTCGTGCGAGT--CATACTATC
*
45536810 CGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATTCTATC
1 CGGGCTAAGACCCGAAGGCAATTCGTGCGAGTCATACTATC
45536850 CGGGCTAAGACCCGAAGGCA
1 CGGGCTAAGACCCGAAGGCA
45536870 TTTTGCAAAT
Statistics
Matches: 53, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
38 1 0.02
39 5 0.09
40 47 0.89
ACGTcount: A:0.25, C:0.26, G:0.30, T:0.19
Consensus pattern (41 bp):
CGGGCTAAGACCCGAAGGCAATTCGTGCGAGTCATACTATC
Found at i:45543652 original size:30 final size:29
Alignment explanation
Indices: 45543558--45543659 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
45543548 TATAGTGAAT
* * *
45543558 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
45543587 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
45543615 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
45543645 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
45543660 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:45546443 original size:18 final size:18
Alignment explanation
Indices: 45546420--45546454 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
45546410 TGGGCCGTGT
45546420 GGGCCACACAGGCATGTA
1 GGGCCACACAGGCATGTA
* *
45546438 GGGCCATACGGGCATGT
1 GGGCCACACAGGCATGT
45546455 CACATAGGCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.26, G:0.37, T:0.14
Consensus pattern (18 bp):
GGGCCACACAGGCATGTA
Found at i:45546869 original size:40 final size:40
Alignment explanation
Indices: 45546808--45546883 Score: 125
Period size: 40 Copynumber: 1.9 Consensus size: 40
45546798 CGGTACCTTA
*
45546808 TGGTGTGTAGGGTTGGATGGGTCGATATTATCCCCATATT
1 TGGTGTGTAGGGATGGATGGGTCGATATTATCCCCATATT
* *
45546848 TGGTGTGTAGGGATGGGTGGGTCGATTTTATCCCCA
1 TGGTGTGTAGGGATGGATGGGTCGATATTATCCCCA
45546884 CATGGTGTGC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.16, C:0.13, G:0.36, T:0.36
Consensus pattern (40 bp):
TGGTGTGTAGGGATGGATGGGTCGATATTATCCCCATATT
Found at i:45548718 original size:37 final size:37
Alignment explanation
Indices: 45548639--45548721 Score: 130
Period size: 37 Copynumber: 2.2 Consensus size: 37
45548629 AACCTTTAGT
* * *
45548639 TCGGGGCTTACCCGGACAAAATCTCCACCCGTGGTCA
1 TCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCA
*
45548676 TCGGGTCTTACCCGGACATAATCTCCACACGTAGTCA
1 TCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCA
45548713 TCGGGTCTT
1 TCGGGTCTT
45548722 TAGAGCTCGG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.20, C:0.33, G:0.23, T:0.24
Consensus pattern (37 bp):
TCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCA
Found at i:45548908 original size:47 final size:47
Alignment explanation
Indices: 45548843--45549322 Score: 809
Period size: 47 Copynumber: 10.2 Consensus size: 47
45548833 TCGGGACTTA
* * * * * *
45548843 TCACATTTATACACTTTCACATCCATCACATTGGCCACTCGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTG
* * *
45548890 TCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTG
* *
45548937 TCACATATATGCACTTTCACATTCATCACATGGGCCATTAGGCCTTG
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTG
*
45548984 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTG
* *
45549031 TCTCATATATGCACTTTCACATTCATCACATCGGCCATTAGGCCTTG
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTG
45549078 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTG
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTG
45549125 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTG
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTG
45549172 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTG
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTG
45549219 TCACATATATACA-TTTCACATTCATCACATCGGCCATTAGGCCTTG
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTG
* *
45549265 TCACATATATGCACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTG
45549312 TCACATATATA
1 TCACATATATA
45549323 TATCTCATAC
Statistics
Matches: 414, Mismatches: 18, Indels: 2
0.95 0.04 0.00
Matches are distributed among these distances:
46 45 0.11
47 369 0.89
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.33
Consensus pattern (47 bp):
TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTG
Found at i:45548917 original size:25 final size:25
Alignment explanation
Indices: 45548889--45548967 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
45548879 ACTCGGCCTT
*
45548889 ATCACATATATACACTTTCACATTC
1 ATCACATATATGCACTTTCACATTC
* * * *
45548914 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATGCACTTTC-ACATTC
45548936 ATCACATATATGCACTTTCACATTC
1 ATCACATATATGCACTTTCACATTC
45548961 ATCACAT
1 ATCACAT
45548968 GGGCCATTAG
Statistics
Matches: 40, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.12
24 6 0.15
25 18 0.45
ACGTcount: A:0.30, C:0.29, G:0.06, T:0.34
Consensus pattern (25 bp):
ATCACATATATGCACTTTCACATTC
Found at i:45552504 original size:40 final size:40
Alignment explanation
Indices: 45552482--45552926 Score: 736
Period size: 40 Copynumber: 11.2 Consensus size: 40
45552472 TTCGCCTGAA
* *
45552482 TATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGA
1 TATATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGT
*
45552522 TATATCACTAGCACGAATGCTCTTCGGAAGTTAGTCCGGT
1 TATATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGT
*
45552562 TATATCACTAGCATGAATGCTCTTCGGAACTTAGTCCGGT
1 TATATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGT
*
45552602 TATATCACTAGCATGAATGCTCTTC-GAACTTAGT-CGGT
1 TATATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGT
*
45552640 TATATCACTAGCACGAATGCTCTTCGGAACTTAG-CCGGA
1 TATATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGT
*
45552679 TATATCACTAGCATGAATGCTCTTCGGAACTTAGTCCGGT
1 TATATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGT
* *
45552719 TATATCACTAGCATGAATGCTCTTCGGAACTTAGTCC-GA
1 TATATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGT
45552758 TATATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGT
1 TATATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGT
* *
45552798 TATATCACTAGCACGAATGCTCTTCGGAACTTAGTACGGA
1 TATATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGT
*
45552838 TATATCACTAGCATGAATGCTCTTCGGAACTTAGTCCGGT
1 TATATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGT
* *
45552878 TATATCACTAGCACGAATGCTCTTCGGAACTTAGTCTGGA
1 TATATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGT
45552918 TATATCACT
1 TATATCACT
45552927 CTCAATTCTC
Statistics
Matches: 381, Mismatches: 20, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
38 28 0.07
39 90 0.24
40 263 0.69
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (40 bp):
TATATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGT
Found at i:45554918 original size:37 final size:37
Alignment explanation
Indices: 45554839--45554921 Score: 130
Period size: 37 Copynumber: 2.2 Consensus size: 37
45554829 AACCTTTAGT
* * *
45554839 TCGGGGCTTACCCGGACAAAATCTCCACCCGTGGTCA
1 TCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCA
*
45554876 TCGGGTCTTACCCGGACATAATCTCCACACGTAGTCA
1 TCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCA
45554913 TCGGGTCTT
1 TCGGGTCTT
45554922 TAGAGCTCGG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.20, C:0.33, G:0.23, T:0.24
Consensus pattern (37 bp):
TCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCA
Found at i:45555107 original size:47 final size:47
Alignment explanation
Indices: 45555038--45555568 Score: 882
Period size: 47 Copynumber: 11.3 Consensus size: 47
45555028 CCCTTCGGGA
* * * * * *
45555038 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATGCACTTTCACATTCATCACATCGGCCATTAGGC
* * *
45555085 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATGCACTTTCACATTCATCACATCGGCCATTAGGC
*
45555132 CTTATCACATATATGCACTTTCACATTCATCACATGGGCCATTAGGC
1 CTTATCACATATATGCACTTTCACATTCATCACATCGGCCATTAGGC
* *
45555179 CTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATGCACTTTCACATTCATCACATCGGCCATTAGGC
* * *
45555226 CTTATCTCATATATGCACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATGCACTTTCACATTCATCACATCGGCCATTAGGC
*
45555273 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATGCACTTTCACATTCATCACATCGGCCATTAGGC
*
45555320 CTTGTCACATATATGCACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATGCACTTTCACATTCATCACATCGGCCATTAGGC
*
45555367 CTTGTCACATATATGCACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATGCACTTTCACATTCATCACATCGGCCATTAGGC
*
45555414 CTTGTCACATATATGCACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATGCACTTTCACATTCATCACATCGGCCATTAGGC
45555461 CTTATCACATATATGCACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATGCACTTTCACATTCATCACATCGGCCATTAGGC
*
45555508 CTTGTCACATATATGCACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATGCACTTTCACATTCATCACATCGGCCATTAGGC
45555555 CTTATCACATATAT
1 CTTATCACATATAT
45555569 ATATCTCATA
Statistics
Matches: 461, Mismatches: 23, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 461 1.00
ACGTcount: A:0.27, C:0.30, G:0.11, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATGCACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:45555116 original size:25 final size:25
Alignment explanation
Indices: 45555088--45555166 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
45555078 ACTCGGCCTT
*
45555088 ATCACATATATACACTTTCACATTC
1 ATCACATATATGCACTTTCACATTC
* * * *
45555113 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATGCACTTTC-ACATTC
45555135 ATCACATATATGCACTTTCACATTC
1 ATCACATATATGCACTTTCACATTC
45555160 ATCACAT
1 ATCACAT
45555167 GGGCCATTAG
Statistics
Matches: 40, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.12
24 6 0.15
25 18 0.45
ACGTcount: A:0.30, C:0.29, G:0.06, T:0.34
Consensus pattern (25 bp):
ATCACATATATGCACTTTCACATTC
Found at i:45563271 original size:150 final size:151
Alignment explanation
Indices: 45563097--45563401 Score: 576
Period size: 150 Copynumber: 2.0 Consensus size: 151
45563087 ATAAAAAAAA
45563097 TTTAATCAAAATAATTATAATTGATCATAAATTATCTAAAAATAATCAAATATGAAACATTAAAT
1 TTTAATCAAAATAATTATAATTGATCATAAATTATCTAAAAATAATCAAATATGAAACATTAAAT
*
45563162 AAAAGAAACTTCCTACAAAAACTTTGCATCTTGCCTTCTAAGATCTTGGAAATCATGGAGAATAA
66 AAAAGAAACTTCCTACAAAAACTTTGCATCTTGCCTTCTAAGATCTTGAAAATCATGGAGAATAA
45563227 ATTTGATCATCGATAAAAGGT
131 ATTTGATCATCGATAAAAGGT
45563248 TTTAATC-AAATAATTATAATTGATCATAAATTATCTAAAAATAATCAAATATGAAACATTAAAT
1 TTTAATCAAAATAATTATAATTGATCATAAATTATCTAAAAATAATCAAATATGAAACATTAAAT
*
45563312 AAAAGAAACTTCCTGCAAAAACTTTGCATCTTGCCTTCTAAGATCTTGAAAATCATGGAGAATAA
66 AAAAGAAACTTCCTACAAAAACTTTGCATCTTGCCTTCTAAGATCTTGAAAATCATGGAGAATAA
*
45563377 ATTTGATCATCGATAAAAGTT
131 ATTTGATCATCGATAAAAGGT
45563398 TTTA
1 TTTA
45563402 TCACTTTGAG
Statistics
Matches: 151, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
150 144 0.95
151 7 0.05
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.33
Consensus pattern (151 bp):
TTTAATCAAAATAATTATAATTGATCATAAATTATCTAAAAATAATCAAATATGAAACATTAAAT
AAAAGAAACTTCCTACAAAAACTTTGCATCTTGCCTTCTAAGATCTTGAAAATCATGGAGAATAA
ATTTGATCATCGATAAAAGGT
Found at i:45564417 original size:15 final size:15
Alignment explanation
Indices: 45564397--45564427 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
45564387 AATCTATTTA
45564397 AAATAAAAAATTAAT
1 AAATAAAAAATTAAT
*
45564412 AAATAAAAATTTAAT
1 AAATAAAAAATTAAT
45564427 A
1 A
45564428 TAAATAAATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (15 bp):
AAATAAAAAATTAAT
Found at i:45573544 original size:5 final size:5
Alignment explanation
Indices: 45573526--45573559 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
45573516 TTATTATAAC
45573526 TAATA TAATA -AATA TAATA TAATAA TAATA TAAT
1 TAATA TAATA TAATA TAATA TAAT-A TAATA TAAT
45573560 TAAAATAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
4 4 0.15
5 18 0.67
6 5 0.19
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
TAATA
Found at i:45573553 original size:11 final size:10
Alignment explanation
Indices: 45573526--45573559 Score: 52
Period size: 11 Copynumber: 3.4 Consensus size: 10
45573516 TTATTATAAC
45573526 TAATATAATA
1 TAATATAATA
45573536 -AATATAATA
1 TAATATAATA
45573545 TAATAATAATA
1 TAAT-ATAATA
45573556 TAAT
1 TAAT
45573560 TAAAATAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 9 0.41
10 3 0.14
11 10 0.45
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
TAATATAATA
Found at i:45573566 original size:14 final size:13
Alignment explanation
Indices: 45573526--45573567 Score: 52
Period size: 14 Copynumber: 3.2 Consensus size: 13
45573516 TTATTATAAC
45573526 TAATATAATAAATA
1 TAATATAATAAA-A
45573540 TAATATAAT--AA
1 TAATATAATAAAA
45573551 TAATATAATTAAAA
1 TAATATAA-TAAAA
45573565 TAA
1 TAA
45573568 AATATCACTT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 9 0.36
12 2 0.08
14 14 0.56
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
TAATATAATAAAA
Found at i:45573571 original size:16 final size:15
Alignment explanation
Indices: 45573526--45573572 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 15
45573516 TTATTATAAC
*
45573526 TAATATAAT-AAATA
1 TAATAAAATAAAATA
*
45573540 TAATATAATAATAATA
1 TAATAAAATAA-AATA
45573556 TAATTAAAATAAAATA
1 TAA-TAAAATAAAATA
45573572 T
1 T
45573573 CACTTACTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 9 0.31
15 1 0.03
16 12 0.41
17 7 0.24
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
TAATAAAATAAAATA
Found at i:45576873 original size:19 final size:18
Alignment explanation
Indices: 45576848--45576919 Score: 83
Period size: 18 Copynumber: 3.8 Consensus size: 18
45576838 CTAATTCTAT
45576848 TTTTTTTACTTCTTTTT-AA
1 TTTTTTT-CTT-TTTTTAAA
*
45576867 CTTTTTTCTTTTTCTTTAAA
1 TTTTTTTC-TTTT-TTTAAA
*
45576887 TTTTTTTCTTTTTTTAAG
1 TTTTTTTCTTTTTTTAAA
45576905 TTTTTTTCTTTTTTT
1 TTTTTTTCTTTTTTT
45576920 TCTTTTTTTT
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
18 23 0.49
19 15 0.32
20 9 0.19
ACGTcount: A:0.11, C:0.10, G:0.01, T:0.78
Consensus pattern (18 bp):
TTTTTTTCTTTTTTTAAA
Found at i:45576929 original size:18 final size:18
Alignment explanation
Indices: 45576848--45576920 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 18
45576838 CTAATTCTAT
*
45576848 TTTTTTTACTTCTTTTTAA
1 TTTTTTT-CTTTTTTTTAA
*
45576867 CTTTTTTCTTTTTCTTTAAA
1 TTTTTTTCTTTTT-TTT-AA
45576887 TTTTTTTC-TTTTTTTAA
1 TTTTTTTCTTTTTTTTAA
45576904 GTTTTTTTCTTTTTTTT
1 -TTTTTTTCTTTTTTTT
45576921 CTTTTTTTTT
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
17 2 0.04
18 16 0.34
19 20 0.43
20 9 0.19
ACGTcount: A:0.11, C:0.10, G:0.01, T:0.78
Consensus pattern (18 bp):
TTTTTTTCTTTTTTTTAA
Found at i:45576930 original size:10 final size:9
Alignment explanation
Indices: 45576868--45576929 Score: 61
Period size: 9 Copynumber: 6.7 Consensus size: 9
45576858 TCTTTTTAAC
45576868 TTTTTTCTT
1 TTTTTTCTT
**
45576877 TTTCTTTAAAT
1 TTT-TTT-CTT
45576888 TTTTTTCTT
1 TTTTTTCTT
***
45576897 TTTTTAAGT
1 TTTTTTCTT
45576906 TTTTTTCTT
1 TTTTTTCTT
45576915 TTTTTTCTT
1 TTTTTTCTT
45576924 TTTTTT
1 TTTTTT
45576930 TTAATTATTT
Statistics
Matches: 41, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
9 31 0.76
10 6 0.15
11 4 0.10
ACGTcount: A:0.08, C:0.08, G:0.02, T:0.82
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:45577054 original size:14 final size:12
Alignment explanation
Indices: 45577037--45577108 Score: 60
Period size: 14 Copynumber: 5.8 Consensus size: 12
45577027 TTTTCTAAAA
45577037 TTTTAAATATATAT
1 TTTTAAAT-TAT-T
45577051 TTTTGAAATTATT
1 TTTT-AAATTATT
45577064 TTTTAAA--A-T
1 TTTTAAATTATT
*
45577073 TTTGAATATTATAT
1 TTTTAA-ATTAT-T
45577087 TTTTGAAATTATT
1 TTTT-AAATTATT
45577100 TTTTAAATT
1 TTTTAAATT
45577109 TTAAATATTA
Statistics
Matches: 49, Mismatches: 2, Indels: 16
0.73 0.03 0.24
Matches are distributed among these distances:
9 6 0.12
10 2 0.04
12 9 0.18
13 10 0.20
14 16 0.33
15 6 0.12
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (12 bp):
TTTTAAATTATT
Found at i:45577059 original size:22 final size:22
Alignment explanation
Indices: 45576959--45577158 Score: 90
Period size: 23 Copynumber: 8.8 Consensus size: 22
45576949 TGTGTTATTA
* * *
45576959 ATTTTAAAAATTTAAAATGTAT
1 ATTTTTAAAATTTTAAATATAT
* *
45576981 A-TTTGAAATGTTTTATAATATAT
1 ATTTTTAAA-ATTTTA-AATATAT
* *
45577004 AATTTTTTAAATTTTAAAAAT-T
1 -ATTTTTAAAATTTTAAATATAT
45577026 ATTTTCTAAAATTTTAAATATAT
1 ATTTT-TAAAATTTTAAATATAT
*
45577049 ATTTTTGAAATTATTTTTTAAA-ATTTT
1 ATTTTT-AAA--A--TTTTAAATA-TAT
* * * *
45577076 GAATATTATATTTTTGAAAT-TAT
1 -ATTTTTAAAATTTT-AAATATAT
45577099 -TTTTT-AAATTTTAAATAT-T
1 ATTTTTAAAATTTTAAATATAT
* *
45577118 ATTTTTTAAATATTAAATATAT
1 ATTTTTAAAATTTTAAATATAT
*
45577140 TTTTTTAATAATATTTAAA
1 ATTTTTAA-AAT-TTTAAA
45577159 CTTTGAAATT
Statistics
Matches: 133, Mismatches: 24, Indels: 40
0.68 0.12 0.20
Matches are distributed among these distances:
19 5 0.04
20 11 0.08
21 26 0.20
22 27 0.20
23 28 0.21
24 14 0.11
25 6 0.05
26 1 0.01
27 11 0.08
28 4 0.03
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (22 bp):
ATTTTTAAAATTTTAAATATAT
Found at i:45577065 original size:12 final size:12
Alignment explanation
Indices: 45577048--45577108 Score: 56
Period size: 12 Copynumber: 5.1 Consensus size: 12
45577038 TTTAAATATA
45577048 TATTTTTGAAAT
1 TATTTTTGAAAT
*
45577060 TATTTTTTAAA-
1 TATTTTTGAAAT
45577071 -A-TTTTGAATATT
1 TATTTTTGAA-A-T
45577083 ATATTTTTGAAAT
1 -TATTTTTGAAAT
*
45577096 TATTTTTTAAAT
1 TATTTTTGAAAT
45577108 T
1 T
45577109 TTAAATATTA
Statistics
Matches: 40, Mismatches: 3, Indels: 12
0.73 0.05 0.22
Matches are distributed among these distances:
9 6 0.15
10 2 0.05
12 22 0.55
13 1 0.03
14 2 0.05
15 7 0.17
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (12 bp):
TATTTTTGAAAT
Found at i:45577093 original size:36 final size:36
Alignment explanation
Indices: 45577021--45577128 Score: 170
Period size: 35 Copynumber: 3.1 Consensus size: 36
45577011 TAAATTTTAA
*
45577021 AAATTATTTTCTAAAATTTTAAATA-TATATTTTTG
1 AAATTATTTTTTAAAATTTTAAATATTATATTTTTG
*
45577056 AAATTATTTTTTAAAATTTTGAATATTATATTTTTG
1 AAATTATTTTTTAAAATTTTAAATATTATATTTTTG
45577092 AAATTATTTTTT-AAATTTTAAATATTAT-TTTTT-
1 AAATTATTTTTTAAAATTTTAAATATTATATTTTTG
45577125 AAAT
1 AAAT
45577129 ATTAAATATA
Statistics
Matches: 69, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
33 4 0.06
34 5 0.07
35 38 0.55
36 22 0.32
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (36 bp):
AAATTATTTTTTAAAATTTTAAATATTATATTTTTG
Found at i:45577154 original size:23 final size:21
Alignment explanation
Indices: 45577094--45577149 Score: 87
Period size: 21 Copynumber: 2.7 Consensus size: 21
45577084 TATTTTTGAA
*
45577094 ATTATTTTTTAAATTTTAAAT
1 ATTATTTTTTAAATATTAAAT
45577115 ATTATTTTTTAAATATTAAAT
1 ATTATTTTTTAAATATTAAAT
*
45577136 A-TATTTTTTTAATA
1 ATTATTTTTTAAATA
45577150 ATATTTAAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
20 12 0.36
21 21 0.64
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (21 bp):
ATTATTTTTTAAATATTAAAT
Found at i:45577261 original size:15 final size:15
Alignment explanation
Indices: 45577238--45577271 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
45577228 TTTACATAGA
45577238 ATTTATTAAATTATT
1 ATTTATTAAATTATT
*
45577253 ATTTTTTAAATTATT
1 ATTTATTAAATTATT
45577268 -TTTA
1 ATTTA
45577272 AATATATTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
14 3 0.18
15 14 0.82
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
ATTTATTAAATTATT
Found at i:45577311 original size:12 final size:13
Alignment explanation
Indices: 45577296--45577325 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
45577286 TTTTTAAATT
45577296 TTTTA-TTAAAAA
1 TTTTATTTAAAAA
45577308 TTTTATTTAAAAA
1 TTTTATTTAAAAA
45577321 TTTTA
1 TTTTA
45577326 AATATTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
TTTTATTTAAAAA
Found at i:45577333 original size:17 final size:17
Alignment explanation
Indices: 45577311--45577355 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
45577301 TTAAAAATTT
45577311 TATTTAAAAATTTTAAA
1 TATTTAAAAATTTTAAA
* *
45577328 TATTTAAATATTTTATA
1 TATTTAAAAATTTTAAA
45577345 T-TATTAAAAAT
1 TAT-TTAAAAAT
45577356 AAAAATAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 1 0.04
17 23 0.96
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TATTTAAAAATTTTAAA
Found at i:45587014 original size:2 final size:2
Alignment explanation
Indices: 45587007--45587045 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
45586997 GAGACTAGTC
45587007 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
45587046 CATGTCATGA
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:45587649 original size:16 final size:15
Alignment explanation
Indices: 45587628--45587675 Score: 60
Period size: 16 Copynumber: 3.1 Consensus size: 15
45587618 GATGTGAATA
45587628 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
45587644 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
* *
45587659 ATCAAATTATTAGAAT
1 AT-AAAATATTAAAAT
45587675 A
1 A
45587676 ATAATAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
15 8 0.28
16 21 0.72
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:45587658 original size:8 final size:8
Alignment explanation
Indices: 45587624--45587675 Score: 52
Period size: 8 Copynumber: 6.5 Consensus size: 8
45587614 TAATGATGTG
*
45587624 AATAATAA
1 AATATTAA
45587632 AATATATAA
1 AATAT-TAA
45587641 AATA-TAA
1 AATATTAA
45587648 AATATTAA
1 AATATTAA
*
45587656 AATATCAA
1 AATATTAA
* *
45587664 ATTATTAG
1 AATATTAA
45587672 AATA
1 AATA
45587676 ATAATAATTA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
7 7 0.19
8 22 0.61
9 7 0.19
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (8 bp):
AATATTAA
Found at i:45587841 original size:23 final size:19
Alignment explanation
Indices: 45587790--45587843 Score: 54
Period size: 23 Copynumber: 2.6 Consensus size: 19
45587780 ATACTACATC
45587790 AATATGTACATATATAAAA
1 AATATGTACATATATAAAA
**
45587809 AATAAATACATGATAATATTAAA
1 AATATGTACAT-AT-ATA--AAA
45587832 AATATGTACATA
1 AATATGTACATA
45587844 ATATTGTGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
19 9 0.33
20 2 0.07
21 3 0.11
22 1 0.04
23 12 0.44
ACGTcount: A:0.57, C:0.06, G:0.06, T:0.31
Consensus pattern (19 bp):
AATATGTACATATATAAAA
Found at i:45587947 original size:25 final size:25
Alignment explanation
Indices: 45587821--45588046 Score: 78
Period size: 25 Copynumber: 9.0 Consensus size: 25
45587811 TAAATACATG
* *
45587821 ATAATATTAAAAATATGTACATAAT
1 ATAATATTAAAGATATATACATAAT
** * * *
45587846 ATTGTGTTAAAAATACATACATAAT
1 ATAATATTAAAGATATATACATAAT
* *
45587871 AT-A-GTT-AAGATATATACATAAG
1 ATAATATTAAAGATATATACATAAT
* * *
45587893 ATAACATGTAAAAAAAATATATATAAATAAT
1 ATAATAT-T-----AAAGATATATACATAAT
*
45587924 ATAATATTAAAGATATATACATAAA
1 ATAATATTAAAGATATATACATAAT
* *
45587949 ATAGTA-TAAA-ATATATATATATAT
1 ATAATATTAAAGATATATACATA-AT
* * * *
45587973 GTAATA-TAGAATTTAAAATATACCTAAT
1 ATAATATTA-AA---GATATATACATAAT
* *
45588001 AT-AT-TAAAAGA-ATATATATAAT
1 ATAATATTAAAGATATATACATAAT
*
45588023 ATAATATT-AAGAAATATA-ATAAT
1 ATAATATTAAAGATATATACATAAT
45588046 A
1 A
45588047 ACAAAAAAGG
Statistics
Matches: 151, Mismatches: 31, Indels: 40
0.68 0.14 0.18
Matches are distributed among these distances:
22 26 0.17
23 27 0.18
24 18 0.12
25 44 0.29
26 2 0.01
27 3 0.02
28 3 0.02
29 8 0.05
30 1 0.01
31 19 0.13
ACGTcount: A:0.56, C:0.04, G:0.06, T:0.35
Consensus pattern (25 bp):
ATAATATTAAAGATATATACATAAT
Found at i:45587966 original size:27 final size:27
Alignment explanation
Indices: 45587862--45587969 Score: 80
Period size: 27 Copynumber: 4.1 Consensus size: 27
45587852 TTAAAAATAC
* *
45587862 ATACATAATATAGT-TAAGATATATAC
1 ATACATAATATAGTATAAAATATATAT
* * * *
45587888 ATAAGATAACAT-GTAAAAAAAATATAT
1 AT-ACATAATATAGTATAAAATATATAT
* * * *
45587915 ATAAATAATATAATAT-TAA-AGATAT
1 ATACATAATATAGTATAAAATATATAT
*
45587940 ATACATAAAATAGTATAAAATATATAT
1 ATACATAATATAGTATAAAATATATAT
45587967 ATA
1 ATA
45587970 TATGTAATAT
Statistics
Matches: 60, Mismatches: 17, Indels: 9
0.70 0.20 0.10
Matches are distributed among these distances:
25 18 0.30
26 15 0.25
27 27 0.45
ACGTcount: A:0.58, C:0.04, G:0.06, T:0.32
Consensus pattern (27 bp):
ATACATAATATAGTATAAAATATATAT
Found at i:45588569 original size:30 final size:30
Alignment explanation
Indices: 45588533--45588647 Score: 185
Period size: 30 Copynumber: 3.8 Consensus size: 30
45588523 TAGGTACAAG
* *
45588533 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
* *
45588563 TGGTGGTGAAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
*
45588593 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
45588623 TGGTGGTGGAAAAGGAGTGGCTAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGT
45588648 TGAGAAAAGT
Statistics
Matches: 77, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 77 1.00
ACGTcount: A:0.23, C:0.03, G:0.49, T:0.25
Consensus pattern (30 bp):
TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
Found at i:45590851 original size:14 final size:14
Alignment explanation
Indices: 45590832--45590870 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
45590822 AAAATTACAA
45590832 TTTTGCCCCTAAAC
1 TTTTGCCCCTAAAC
45590846 TTTTGCCCCTAAAC
1 TTTTGCCCCTAAAC
*
45590860 TTTTGTCCCTA
1 TTTTGCCCCTA
45590871 GGCTCGGGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.18, C:0.33, G:0.08, T:0.41
Consensus pattern (14 bp):
TTTTGCCCCTAAAC
Found at i:45596583 original size:19 final size:19
Alignment explanation
Indices: 45596559--45596602 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
45596549 CACAAGCGTG
* *
45596559 TGCCCAGCCCTTGTGGAAA
1 TGCCCAGCCCATATGGAAA
45596578 TGCCCAGCCCATATGGAAA
1 TGCCCAGCCCATATGGAAA
45596597 TGCCCA
1 TGCCCA
45596603 AGTTGTGTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.25, C:0.34, G:0.23, T:0.18
Consensus pattern (19 bp):
TGCCCAGCCCATATGGAAA
Found at i:45598429 original size:6 final size:6
Alignment explanation
Indices: 45598418--45598456 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
45598408 TAAGTCTAAC
* **
45598418 AAAATA AAAATA AACATA AGCATA AAAATA AAAATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAA
45598457 CAAATGAACT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.77, C:0.05, G:0.03, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:45607483 original size:13 final size:13
Alignment explanation
Indices: 45607461--45607493 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
45607451 TTGCTTTAGT
45607461 TTAG-TTAGTTAA
1 TTAGTTTAGTTAA
45607473 TTAGTTTAGTTAA
1 TTAGTTTAGTTAA
45607486 TTAGTTTA
1 TTAGTTTA
45607494 ATAAACAACC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.20
13 16 0.80
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.55
Consensus pattern (13 bp):
TTAGTTTAGTTAA
Found at i:45608548 original size:28 final size:28
Alignment explanation
Indices: 45608516--45608621 Score: 78
Period size: 28 Copynumber: 3.8 Consensus size: 28
45608506 GACTAATAAT
45608516 AATAATAGTAAAAGATAATAAATAAAAA
1 AATAATAGTAAAAGATAATAAATAAAAA
* *
45608544 AATAATCAGT-AAAGAAAATAAAATAATAA
1 AATAAT-AGTAAAAGATAAT-AAATAAAAA
* *
45608573 AGTAATA-AAACAAGA-AATAAA-AAATAA
1 AATAATAGTAA-AAGATAATAAATAAA-AA
* *
45608600 TAATAATACTAATA-ATAATAAA
1 -AATAATAGTAAAAGATAATAAA
45608622 AAGGGTACAA
Statistics
Matches: 62, Mismatches: 8, Indels: 16
0.72 0.09 0.19
Matches are distributed among these distances:
26 2 0.03
27 6 0.10
28 32 0.52
29 22 0.35
ACGTcount: A:0.70, C:0.03, G:0.06, T:0.22
Consensus pattern (28 bp):
AATAATAGTAAAAGATAATAAATAAAAA
Found at i:45608567 original size:29 final size:28
Alignment explanation
Indices: 45608516--45608579 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 28
45608506 GACTAATAAT
*
45608516 AATAATAGTAAAAGATAATAAATAAAAA
1 AATAATAGTAAAAGAAAATAAATAAAAA
*
45608544 AATAATCAGT-AAAGAAAATAAAATAATAA
1 AATAAT-AGTAAAAGAAAAT-AAATAAAAA
*
45608573 AGTAATA
1 AATAATA
45608580 AAACAAGAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
28 15 0.48
29 16 0.52
ACGTcount: A:0.69, C:0.02, G:0.08, T:0.22
Consensus pattern (28 bp):
AATAATAGTAAAAGAAAATAAATAAAAA
Found at i:45619255 original size:23 final size:24
Alignment explanation
Indices: 45619210--45619256 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
45619200 AATAGCCAGA
*
45619210 AAATATTTTTAATAAAAGGAACAT
1 AAATATTTTTAATAAAAGAAACAT
45619234 AAAT-TTTATTAA-AAAAGAAACAT
1 AAATATTT-TTAATAAAAGAAACAT
45619257 GTGTGGTACG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 13 0.62
24 8 0.38
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.32
Consensus pattern (24 bp):
AAATATTTTTAATAAAAGAAACAT
Found at i:45622492 original size:66 final size:66
Alignment explanation
Indices: 45622406--45622538 Score: 194
Period size: 66 Copynumber: 2.0 Consensus size: 66
45622396 CTCAATATCA
* * *
45622406 CGCCTTTTCAAATCTGCATAAGATTTCTGTCTATCAGAAGTTATTTTTAAATGATCTAGAATCAA
1 CGCCTTTTCAAATCTGCATAAGATTTCTGTCTATCAGAAGTCATTTTTAAACGATCTAGAACCAA
45622471 T
66 T
** * * *
45622472 CGCCTTTTCAGGTTTGCATAAGATTTTTGTCTATCAGAAGTCATTTTTAGACGATCTAGAACCAA
1 CGCCTTTTCAAATCTGCATAAGATTTCTGTCTATCAGAAGTCATTTTTAAACGATCTAGAACCAA
45622537 T
66 T
45622538 C
1 C
45622539 TAACCTTATC
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
66 59 1.00
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.38
Consensus pattern (66 bp):
CGCCTTTTCAAATCTGCATAAGATTTCTGTCTATCAGAAGTCATTTTTAAACGATCTAGAACCAA
T
Found at i:45646776 original size:17 final size:17
Alignment explanation
Indices: 45646743--45646777 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
45646733 CAAATATCCA
**
45646743 TATTCATAAATTTAAAT
1 TATTCATAAATAAAAAT
45646760 TATTCATAAATAAAAAT
1 TATTCATAAATAAAAAT
45646777 T
1 T
45646778 TTGAGATAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (17 bp):
TATTCATAAATAAAAAT
Found at i:45647936 original size:184 final size:184
Alignment explanation
Indices: 45647624--45647989 Score: 606
Period size: 184 Copynumber: 2.0 Consensus size: 184
45647614 TTAATTCATT
**
45647624 TGAAAATGTTGTTTGAAGGACTTGATTTAGGTGAATCAGATTAGATTTGATCGTGAGGAAAGTCG
1 TGAAAATGTCATTTGAAGGACTTGATTTAGGTGAATCAGATTAGATTTGATCGTGAGGAAAGTCG
* * *
45647689 ATAAGACCTTCGGTGAAAGGTGTGTGTTCTTTTGCAAGTGAATTGTGGCAAACTTTGTGTAGGTT
66 ATAAGACCTTCGGTGAAAGGTGTGTGTTCTTTTACAAGTAAATTGTGGCAAACTTTATGTAGGTT
* * *
45647754 TAGGGCCATACGATCTCCCACACAGGTGGACCATACGGCCATGTGCCTCTGATG
131 TAGGGCCACACGATCTCCCACACAAGTGGACCACACGGCCATGTGCCTCTGATG
** *
45647808 TGAAAATGTCATTTGAAGGACTTGATTTAGGTGAATTGGATTAGATTTGATCGTGAGGAACGTCG
1 TGAAAATGTCATTTGAAGGACTTGATTTAGGTGAATCAGATTAGATTTGATCGTGAGGAAAGTCG
45647873 ATAAGACCTTCGGTGAAAGGTGTGTGTTCTTTTACAAGTAAATTGTGGCAAACTTTATGTAGGTT
66 ATAAGACCTTCGGTGAAAGGTGTGTGTTCTTTTACAAGTAAATTGTGGCAAACTTTATGTAGGTT
* * *
45647938 TAGGGCCACACGATCTCCTATACAAGTGGACTACACGGCCATGTGCCTCTGA
131 TAGGGCCACACGATCTCCCACACAAGTGGACCACACGGCCATGTGCCTCTGA
45647990 AAATCCTAGG
Statistics
Matches: 168, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
184 168 1.00
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (184 bp):
TGAAAATGTCATTTGAAGGACTTGATTTAGGTGAATCAGATTAGATTTGATCGTGAGGAAAGTCG
ATAAGACCTTCGGTGAAAGGTGTGTGTTCTTTTACAAGTAAATTGTGGCAAACTTTATGTAGGTT
TAGGGCCACACGATCTCCCACACAAGTGGACCACACGGCCATGTGCCTCTGATG
Found at i:45651898 original size:26 final size:26
Alignment explanation
Indices: 45651862--45651971 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
45651852 TGATACAAAT
45651862 TGATAATAGGTTAGGTAAATG-TTCAA
1 TGATAATAGGTTAGGTAAATGTTTC-A
*
45651888 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
45651914 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
45651940 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
45651966 TGATAA
1 TGATAA
45651972 GAATTTCATG
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
26 78 0.98
27 2 0.03
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:45653483 original size:26 final size:26
Alignment explanation
Indices: 45653454--45653506 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
45653444 TTTACAGTTT
45653454 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* * *
45653480 TACCTCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
45653506 T
1 T
45653507 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:45654000 original size:137 final size:137
Alignment explanation
Indices: 45653754--45654040 Score: 529
Period size: 137 Copynumber: 2.1 Consensus size: 137
45653744 GAGTAGTCTC
45653754 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
*
45653819 TGTTATCTGAATAAGGGGCTAAGGCCTAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
45653884 ACTGTTA
131 ACTGTTA
45653891 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
* *
45653956 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGTTCTGGCCCAGTACT
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
45654021 ACTGTTA
131 ACTGTTA
**
45654028 CCTGAATGGGCTT
1 CCCAAATGGGCTT
45654041 AGGTCCAATG
Statistics
Matches: 145, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
137 145 1.00
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.32
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:45659410 original size:40 final size:40
Alignment explanation
Indices: 45659355--45659616 Score: 402
Period size: 40 Copynumber: 6.6 Consensus size: 40
45659345 TATTCGGATG
*
45659355 ATAACTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
45659395 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
**
45659435 ATAACCGGGCTAAGTCCCGAAGGCATTTGTATGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
45659475 ATATCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
45659515 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
45659555 ATAACCGGGTTAAATCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
* *
45659595 ATATCC-GGCTAATTCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
45659617 TACTTGGTTT
Statistics
Matches: 208, Mismatches: 13, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
39 16 0.08
40 192 0.92
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:45683021 original size:49 final size:49
Alignment explanation
Indices: 45682967--45683283 Score: 598
Period size: 49 Copynumber: 6.5 Consensus size: 49
45682957 GATATACATA
45682967 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATG
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATG
45683016 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATG
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATG
45683065 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATG
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATG
45683114 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATG
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATG
* *
45683163 TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGGAAGTGTATG
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATG
*
45683212 TATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATG
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATG
*
45683261 TACATGTGATAAGGCCTAATGGC
1 TATATGTGATAAGGCCTAATGGC
45683284 TAATGCAAAA
Statistics
Matches: 262, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 262 1.00
ACGTcount: A:0.30, C:0.09, G:0.31, T:0.30
Consensus pattern (49 bp):
TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATG
Found at i:45683441 original size:37 final size:37
Alignment explanation
Indices: 45683384--45683504 Score: 199
Period size: 37 Copynumber: 3.3 Consensus size: 37
45683374 GGAATATGTT
*
45683384 CCGGGTGAGA-CCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
45683420 CCGGGTAAGACCCGATGACTACGTGTGGAAATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
45683457 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
45683494 CTGGGTAAGAC
1 CCGGGTAAGAC
45683505 TTCTTTTATA
Statistics
Matches: 79, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
36 9 0.11
37 70 0.89
ACGTcount: A:0.26, C:0.18, G:0.33, T:0.22
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:45691608 original size:6 final size:6
Alignment explanation
Indices: 45691590--45691708 Score: 120
Period size: 6 Copynumber: 19.3 Consensus size: 6
45691580 AAGAAACATT
45691590 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAGGTA A-CAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
* * *
45691639 ATCAGA ACCAGA ATCAGA ATTAGGTA A-CAGA ATCAGA ATCAGT ATCAGGTA
1 ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCA-G-A
45691690 A-CAGA ATCAGA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA AT
45691709 GTGAATGCAA
Statistics
Matches: 96, Mismatches: 6, Indels: 22
0.77 0.05 0.18
Matches are distributed among these distances:
5 7 0.07
6 75 0.78
7 9 0.09
8 5 0.05
ACGTcount: A:0.48, C:0.16, G:0.18, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:45691637 original size:31 final size:31
Alignment explanation
Indices: 45691599--45691708 Score: 145
Period size: 31 Copynumber: 3.5 Consensus size: 31
45691589 TATCAGAACT
45691599 AGAATCAGAATCAGAATCAGAATCAGGTAAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
* *
45691630 AGAATCAGAATCAGAACCAGAATCA-G-AATT
1 AGAATCAGAATCAGAATCAGAATCAGGTAA-C
*
45691660 AGGTAA-CAGAATCAGAATCAGTATCAGGTAAC
1 A-G-AATCAGAATCAGAATCAGAATCAGGTAAC
45691692 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
45691709 GTGAATGCAA
Statistics
Matches: 68, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
29 2 0.03
30 4 0.06
31 56 0.82
32 4 0.06
33 2 0.03
ACGTcount: A:0.48, C:0.15, G:0.19, T:0.17
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGAATCAGGTAAC
Found at i:45691705 original size:19 final size:19
Alignment explanation
Indices: 45691610--45691680 Score: 110
Period size: 19 Copynumber: 3.8 Consensus size: 19
45691600 GAATCAGAAT
45691610 CAGAATCAGAATCAGGTAA
1 CAGAATCAGAATCAGGTAA
45691629 CAGAATCAGAATCA-G-AA
1 CAGAATCAGAATCAGGTAA
*
45691646 CCAGAATCAGAATTAGGTAA
1 -CAGAATCAGAATCAGGTAA
45691666 CAGAATCAGAATCAG
1 CAGAATCAGAATCAG
45691681 TATCAGGTAA
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
17 2 0.04
18 14 0.30
19 29 0.62
20 2 0.04
ACGTcount: A:0.48, C:0.17, G:0.20, T:0.15
Consensus pattern (19 bp):
CAGAATCAGAATCAGGTAA
Found at i:45691708 original size:37 final size:37
Alignment explanation
Indices: 45691599--45691699 Score: 150
Period size: 37 Copynumber: 2.7 Consensus size: 37
45691589 TATCAGAACT
45691599 AGAATCAGAATCAGAATCAGAATCAGGTAACAGAATC
1 AGAATCAGAATCAGAATCAGAATCAGGTAACAGAATC
* *
45691636 AGAATCAGAACCAGAATCAGAATTAGGTAACAGAATC
1 AGAATCAGAATCAGAATCAGAATCAGGTAACAGAATC
*
45691673 AGAATCAGTATCAGGTAA-CAGAATCAG
1 AGAATCAGAATCA-G-AATCAGAATCAG
45691700 AATCAGAATG
Statistics
Matches: 57, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
37 46 0.81
38 9 0.16
39 2 0.04
ACGTcount: A:0.48, C:0.16, G:0.20, T:0.17
Consensus pattern (37 bp):
AGAATCAGAATCAGAATCAGAATCAGGTAACAGAATC
Found at i:45691875 original size:27 final size:26
Alignment explanation
Indices: 45691827--45691886 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
45691817 GTGAGGCTGC
* *
45691827 CAGATATTGTGACAAAGTCACCAGCTA
1 CAGATATTGTGACAAAGCCACCAG-AA
* * *
45691854 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACAAAGCCACCAGAA
45691880 CAGATAT
1 CAGATAT
45691887 ATATATGTGG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 8 0.29
27 20 0.71
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACAAAGCCACCAGAA
Found at i:45692186 original size:27 final size:27
Alignment explanation
Indices: 45692155--45692378 Score: 238
Period size: 27 Copynumber: 8.3 Consensus size: 27
45692145 GGGGCAAAAT
* *
45692155 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* * *
45692182 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
*
45692209 GGTATTTTTACCCTACAAGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* *
45692236 GGTAA-TCTACCTTACAAGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* * * * *
45692262 AGTAATTCTACCTTATAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
** * * *
45692289 TATAATTCTACCCTACAGGGGTATTCC
1 GGTAATTTTACCCTACAAGGGTATTTC
45692316 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
*
45692343 GGT-ATTTCTACCCAACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
45692370 GGTAATTTT
1 GGTAATTTT
45692379 GTAGATCGAG
Statistics
Matches: 168, Mismatches: 26, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
26 26 0.15
27 138 0.82
28 4 0.02
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (27 bp):
GGTAATTTTACCCTACAAGGGTATTTC
Found at i:45692202 original size:54 final size:53
Alignment explanation
Indices: 45692144--45692251 Score: 119
Period size: 54 Copynumber: 2.0 Consensus size: 53
45692134 TTAACACCCT
45692144 AGGGGCAAAAT-GGTAATTTTACCCCACAAGGGTATCTCAGTAATTCTACCCTAC
1 AGGGG-AAAATCGGTAATTTTACCCCACAAGGGTATCTCAGTAA-TCTACCCTAC
* ** * * * * *
45692198 AGGGGTATTTCGGTATTTTTACCCTACAAGGGTATTTCGGTAATCTACCTTAC
1 AGGGGAAAATCGGTAATTTTACCCCACAAGGGTATCTCAGTAATCTACCCTAC
45692251 A
1 A
45692252 AGGGTATTTC
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
53 12 0.27
54 33 0.73
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.31
Consensus pattern (53 bp):
AGGGGAAAATCGGTAATTTTACCCCACAAGGGTATCTCAGTAATCTACCCTAC
Found at i:45692325 original size:54 final size:54
Alignment explanation
Indices: 45692159--45692373 Score: 263
Period size: 54 Copynumber: 4.0 Consensus size: 54
45692149 CAAAATGGTA
* * * *
45692159 ATTT-TACCCCACAAGGGTATCTCAGTAATTCTACCCTACAGGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGGT
* * *
45692212 ATTTTTACCCTACAAGGGTATTTCGGTAA-TCTACCTTACAAGGGTATTTCAGT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGGT
* * * * ** * *
45692265 AATTCTACCTTATAGGGGTATTTCTATAATTCTACCCTACAGGGGTATTCCGGT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGGT
* *
45692319 ATTTCTACCCTACAAGGGTATTTCGGTATTTCTACCCAACAAGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGGT
45692373 A
1 A
45692374 ATTTTGTAGA
Statistics
Matches: 133, Mismatches: 27, Indels: 3
0.82 0.17 0.02
Matches are distributed among these distances:
53 47 0.35
54 86 0.65
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.35
Consensus pattern (54 bp):
ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGGT
Found at i:45692390 original size:27 final size:27
Alignment explanation
Indices: 45692333--45692673 Score: 133
Period size: 27 Copynumber: 12.7 Consensus size: 27
45692323 CTACCCTACA
** * *
45692333 AGGGTATTTCGGT-ATTTCTACCCAACA
1 AGGGTATTTCGGTAATTT-TACAGATCG
**
45692360 AGGGTATTTCGGTAATTTTGTAGATCG
1 AGGGTATTTCGGTAATTTTACAGATCG
*** * * * *
45692387 AGGGTAAAACGATAATTCTATAAATC-
1 AGGGTATTTCGGTAATTTTACAGATCG
45692413 AGGGGTACTTT-GGTAATTTTACA-AGTCG
1 A-GGGTA-TTTCGGTAATTTTACAGA-TCG
** *
45692441 AGGGTATTTCAATAATTTTACAGGTCG
1 AGGGTATTTCGGTAATTTTACAGATCG
* * *
45692468 AGGGTATTTCAGTAATTTCACAAATC-
1 AGGGTATTTCGGTAATTTTACAGATCG
* * * *
45692494 AGGGGTATTTTGATAATTTTACA-AACC
1 A-GGGTATTTCGGTAATTTTACAGATCG
* * *
45692521 AGGGGTATTTTGGTAATTTTACA-AACC
1 A-GGGTATTTCGGTAATTTTACAGATCG
* * * **
45692548 AGGGGTATTTTGGTAATTTTATAAATAA
1 A-GGGTATTTCGGTAATTTTACAGATCG
** * *
45692576 AGGGTATTTTAGTAATTTTACA-AACT
1 AGGGTATTTCGGTAATTTTACAGATCG
* * * * * *
45692602 ATGGTATTTTGGTAATTTTATAAACCA
1 AGGGTATTTCGGTAATTTTACAGATCG
* * * *
45692629 AGGGCATTTTGGTAATTTTACA-AACT
1 AGGGTATTTCGGTAATTTTACAGATCG
*
45692655 AGGGGTATTTTGGTAATTT
1 A-GGGTATTTCGGTAATTT
45692674 GGTAAACTAA
Statistics
Matches: 250, Mismatches: 52, Indels: 24
0.77 0.16 0.07
Matches are distributed among these distances:
26 31 0.12
27 212 0.85
28 7 0.03
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (27 bp):
AGGGTATTTCGGTAATTTTACAGATCG
Found at i:45692445 original size:81 final size:80
Alignment explanation
Indices: 45692360--45692543 Score: 192
Period size: 81 Copynumber: 2.3 Consensus size: 80
45692350 CTACCCAACA
** *
45692360 AGGGTATTTCGGTAATTTTGTAGATCGAGGGTAAAAC-GATAA-TTCTATAAATCAGGGGTACTT
1 AGGGTATTTCGGTAATTTTACAGATCGAGGGTAAAACAG-TAATTTC-ACAAATCAGGGGTACTT
* * *
45692423 TGGTAATTTTACAAGTCG
64 TGATAATTTTACAA-ACC
** * *** *
45692441 AGGGTATTTCAATAATTTTACAGGTCGAGGGTATTTCAGTAATTTCACAAATCAGGGGTATTTTG
1 AGGGTATTTCGGTAATTTTACAGATCGAGGGTAAAACAGTAATTTCACAAATCAGGGGTACTTTG
45692506 ATAATTTTACAAACC
66 ATAATTTTACAAACC
*
45692521 AGGGGTATTTTGGTAATTTTACA
1 A-GGGTATTTCGGTAATTTTACA
45692544 AACCAGGGGT
Statistics
Matches: 84, Mismatches: 16, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
80 2 0.02
81 78 0.93
82 4 0.05
ACGTcount: A:0.31, C:0.10, G:0.22, T:0.36
Consensus pattern (80 bp):
AGGGTATTTCGGTAATTTTACAGATCGAGGGTAAAACAGTAATTTCACAAATCAGGGGTACTTTG
ATAATTTTACAAACC
Found at i:45692456 original size:54 final size:53
Alignment explanation
Indices: 45692397--45692673 Score: 263
Period size: 54 Copynumber: 5.2 Consensus size: 53
45692387 AGGGTAAAAC
* * * *
45692397 GATAATTCTATAAATCAGGGGTACTTTGGTAATTTTACAAGTC-GAGGGTATTTC
1 GATAATTTTATAAATCAGGGGTATTTTGGTAATTTTACAA-ACAG-GGGTATTTT
* * ** ** *
45692451 AATAATTTTACAGGTC-GAGGGTATTTCAGTAATTTCACAAATCAGGGGTATTTT
1 GATAATTTTATAAATCAG-GGGTATTTTGGTAATTTTACAAA-CAGGGGTATTTT
* *
45692505 GATAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTT
1 GATAATTTTATAAATCAGGGGTATTTTGGTAATTTTACAAA-CAGGGGTATTTT
* * * * *
45692559 GGTAATTTTATAAATAAAGGGTATTTTAGTAATTTTACAAACTA-TGGTATTTT
1 GATAATTTTATAAATCAGGGGTATTTTGGTAATTTTACAAAC-AGGGGTATTTT
* * * *
45692612 GGTAATTTTATAAACCAAGGGCATTTTGGTAATTTTACAAACTAGGGGTATTTT
1 GATAATTTTATAAATCAGGGGTATTTTGGTAATTTTACAAAC-AGGGGTATTTT
*
45692666 GGTAATTT
1 GATAATTT
45692674 GGTAAACTAA
Statistics
Matches: 186, Mismatches: 31, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
53 50 0.27
54 134 0.72
55 2 0.01
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (53 bp):
GATAATTTTATAAATCAGGGGTATTTTGGTAATTTTACAAACAGGGGTATTTT
Found at i:45692554 original size:81 final size:81
Alignment explanation
Indices: 45692399--45692673 Score: 263
Period size: 81 Copynumber: 3.4 Consensus size: 81
45692389 GGTAAAACGA
* * * * ** ***
45692399 TAATTCTATAAATCAGGGGTACTTTGGTAATTTTACAAGTC-GAGGGTATTTCAATAATTTTACA
1 TAATTTTACAAATCAGGGGTATTTTGATAATTTTACAAACCAG-GGGTATTTTGGTAATTTTACA
*** **
45692463 GGTC-GAGGGTATTTCAG
65 AACCAG-GGGTATTTTGG
*
45692480 TAATTTCACAAATCAGGGGTATTTTGATAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAA
1 TAATTTTACAAATCAGGGGTATTTTGATAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAA
45692545 ACCAGGGGTATTTTGG
66 ACCAGGGGTATTTTGG
* * * * * *
45692561 TAATTTTATAAATAAAGGGTATTTT-AGTAATTTTACAAACTA-TGGTATTTTGGTAATTTTATA
1 TAATTTTACAAATCAGGGGTATTTTGA-TAATTTTACAAACCAGGGGTATTTTGGTAATTTTACA
* *
45692624 AACCAAGGGCATTTTGG
65 AACCAGGGGTATTTTGG
*
45692641 TAATTTTACAAA-CTAGGGGTATTTTGGTAATTT
1 TAATTTTACAAATC-AGGGGTATTTTGATAATTT
45692674 GGTAAACTAA
Statistics
Matches: 161, Mismatches: 28, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
80 62 0.39
81 97 0.60
82 2 0.01
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.40
Consensus pattern (81 bp):
TAATTTTACAAATCAGGGGTATTTTGATAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAA
ACCAGGGGTATTTTGG
Found at i:45692652 original size:107 final size:108
Alignment explanation
Indices: 45692468--45692673 Score: 317
Period size: 107 Copynumber: 1.9 Consensus size: 108
45692458 TTACAGGTCG
* *
45692468 AGGGTATTTCAGTAATTTCACAAATCAGGGGTATTTTGATAATTTTACAAACCAGGGGTATTTTG
1 AGGGTATTTCAGTAATTTCACAAATCAGGGGTATTTTGATAATTTTACAAACCAAGGGCATTTTG
45692533 GTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAATAA
66 GTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAATAA
* * * * *
45692576 AGGGTATTTTAGTAATTTTACAAA-CTA-TGGTATTTTGGTAATTTTATAAACCAAGGGCATTTT
1 AGGGTATTTCAGTAATTTCACAAATC-AGGGGTATTTTGATAATTTTACAAACCAAGGGCATTTT
*
45692639 GGTAATTTTACAAACTAGGGGTATTTTGGTAATTT
65 GGTAATTTTACAAACCAGGGGTATTTTGGTAATTT
45692674 GGTAAACTAA
Statistics
Matches: 89, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
107 66 0.74
108 23 0.26
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.40
Consensus pattern (108 bp):
AGGGTATTTCAGTAATTTCACAAATCAGGGGTATTTTGATAATTTTACAAACCAAGGGCATTTTG
GTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAATAA
Found at i:45692682 original size:27 final size:27
Alignment explanation
Indices: 45692469--45692673 Score: 245
Period size: 27 Copynumber: 7.6 Consensus size: 27
45692459 TACAGGTCGA
** *
45692469 GGGTATTTCAGTAATTTCACAAA-TCAG
1 GGGTATTTTGGTAATTTTACAAACT-AG
* *
45692496 GGGTATTTTGATAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACTAG
*
45692523 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACTAG
* *
45692550 GGGTATTTTGGTAATTTTATAAA-TAAA
1 GGGTATTTTGGTAATTTTACAAACT-AG
*
45692577 GGGTATTTTAGTAATTTTACAAACTA-
1 GGGTATTTTGGTAATTTTACAAACTAG
* * * *
45692603 TGGTATTTTGGTAATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACTAG
*
45692630 GGGCATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
45692657 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
45692674 GGTAAACTAA
Statistics
Matches: 153, Mismatches: 21, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
26 22 0.14
27 130 0.85
28 1 0.01
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:45692689 original size:80 final size:80
Alignment explanation
Indices: 45692479--45692689 Score: 219
Period size: 80 Copynumber: 2.6 Consensus size: 80
45692469 GGGTATTTCA
* * * * * **
45692479 GTAATTTCACAAATCAGGGGTATTTT-GATAATTTTACAAACCAGGGGTATTTTGGTAATTTTAC
1 GTAATTTTACAAATAAAGGGTATTTTAG-TAATTTGACAAACTA-AAGTATTTTGGTAATTTTAC
* *
45692543 AAACCAGGGGTATTTTG
64 AAACCAAGGGCATTTTG
* * ** *
45692560 GTAATTTTATAAATAAAGGGTATTTTAGTAATTTTACAAACTATGGTATTTTGGTAATTTTATAA
1 GTAATTTTACAAATAAAGGGTATTTTAGTAATTTGACAAACTAAAGTATTTTGGTAATTTTACAA
45692625 ACCAAGGGCATTTTG
66 ACCAAGGGCATTTTG
* * **
45692640 GTAATTTTACAAACT-AGGGGTATTTTGGTAATTTGGTAAACTAAAGTATT
1 GTAATTTTACAAA-TAAAGGGTATTTTAGTAATTTGACAAACTAAAGTATT
45692690 CTAAATAGGG
Statistics
Matches: 111, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
80 73 0.66
81 37 0.33
82 1 0.01
ACGTcount: A:0.33, C:0.08, G:0.19, T:0.40
Consensus pattern (80 bp):
GTAATTTTACAAATAAAGGGTATTTTAGTAATTTGACAAACTAAAGTATTTTGGTAATTTTACAA
ACCAAGGGCATTTTG
Found at i:45694459 original size:46 final size:46
Alignment explanation
Indices: 45694323--45694596 Score: 200
Period size: 46 Copynumber: 5.8 Consensus size: 46
45694313 TCATTTGTGC
*
45694323 GCTAGTGTAAGA-CATGTCTGGGACATGCATCGGCCAC-ATTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGCATCGG-CACGA-GATGAGA
* * * *
45694369 GCCATTGCAAGACCATGTCTGGGACATGGCATCGGCATTGAGATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACAT-GCATCGGCA-CGAGATGAGA
* * *
45694417 GCTAGAGTAAGA-CATGTCTAGGACATGCATCGGCTACGAGAT--GT
1 GCTAGTGTAAGACCATGTCTGGGACATGCATCGGC-ACGAGATGAGA
* ** *
45694461 GCCAGTGTAAGACCATAACTGGGGCATGGCATCGGCACGGAGATGTGAGA
1 GCTAGTGTAAGACCATGTCTGGGACAT-GCATCGGCAC-GAGA--TGAGA
* * * ** **
45694511 GCTAGTGTAAGACCATGTCTAGGACATGACGTCGGCCTCGATTTCGTTA
1 GCTAGTGTAAGACCATGTCTGGGACATG-CATCGG-CACGAGAT-GAGA
*
45694560 G-TCAGTGTAAGACCATGTCTGGGACGTGGCATCGGCA
1 GCT-AGTGTAAGACCATGTCTGGGACAT-GCATCGGCA
45694597 TTACACGTTA
Statistics
Matches: 177, Mismatches: 34, Indels: 32
0.73 0.14 0.13
Matches are distributed among these distances:
44 11 0.06
45 12 0.07
46 34 0.19
47 30 0.17
48 25 0.14
49 32 0.18
50 31 0.18
51 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.22
Consensus pattern (46 bp):
GCTAGTGTAAGACCATGTCTGGGACATGCATCGGCACGAGATGAGA
Found at i:45694575 original size:99 final size:92
Alignment explanation
Indices: 45694323--45694596 Score: 273
Period size: 94 Copynumber: 2.9 Consensus size: 92
45694313 TCATTTGTGC
* * * * * * *
45694323 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATGAGAGCCATTGCAAGACCATGT
1 GCTAGAGTAAGACATGTCTAGGACATGCATCGGCTACGA-GAT--GTGCCAGTGTAAGACCATGT
**
45694387 CTGGGACATGGCATCGGCATTGAGATGAGA
63 CTGGGACATGGCATCGGCACGGAGATGAGA
**
45694417 GCTAGAGTAAGACATGTCTAGGACATGCATCGGCTACGAGATGTGCCAGTGTAAGACCATAACTG
1 GCTAGAGTAAGACATGTCTAGGACATGCATCGGCTACGAGATGTGCCAGTGTAAGACCATGTCTG
*
45694482 GGGCATGGCATCGGCACGGAGATGTGAGA
66 GGACATGGCATCGGCACGGAGA--TGAGA
* * ** *
45694511 GCTAGTGTAAGACCATGTCTAGGACATGACGTCGGCCT-CGATTTCGTTAGTCAGTGTAAGACCA
1 GCTAGAGTAAGA-CATGTCTAGGACATG-CATCGG-CTACGAGAT-G-T-GCCAGTGTAAGACCA
*
45694575 TGTCTGGGACGTGGCATCGGCA
60 TGTCTGGGACATGGCATCGGCA
45694597 TTACACGTTA
Statistics
Matches: 150, Mismatches: 21, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
92 37 0.25
94 52 0.35
95 16 0.11
96 9 0.06
97 3 0.02
98 1 0.01
99 32 0.21
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.22
Consensus pattern (92 bp):
GCTAGAGTAAGACATGTCTAGGACATGCATCGGCTACGAGATGTGCCAGTGTAAGACCATGTCTG
GGACATGGCATCGGCACGGAGATGAGA
Found at i:45702481 original size:21 final size:22
Alignment explanation
Indices: 45702457--45702507 Score: 77
Period size: 21 Copynumber: 2.3 Consensus size: 22
45702447 ATTAATTCCT
45702457 TTCATTTATATTCAAACACA-A
1 TTCATTTATATTCAAACACACA
*
45702478 TTCATTTCTATTCAAACACACTA
1 TTCATTTATATTCAAACACAC-A
45702501 TTCATTT
1 TTCATTT
45702508 TTGCTTTCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 19 0.70
23 8 0.30
ACGTcount: A:0.35, C:0.22, G:0.00, T:0.43
Consensus pattern (22 bp):
TTCATTTATATTCAAACACACA
Found at i:45706293 original size:42 final size:43
Alignment explanation
Indices: 45706189--45706303 Score: 101
Period size: 43 Copynumber: 2.7 Consensus size: 43
45706179 ACAATAGTAG
* * * ** **
45706189 TGTCCCAGACGTGGTCTTACATGTAACCAAATATTGATGCCTC
1 TGTCCCAGACATGGTCTTACATGAAATCAAATATCAATGCCGA
*
45706232 TGTTTCC-GACA-GGTTCTTACATGAAATCAAATA-CAATGCCGA
1 TG-TCCCAGACATGG-TCTTACATGAAATCAAATATCAATGCCGA
*
45706274 TGTCCCAGACATGGTCTTACACGTAAATCA
1 TGTCCCAGACATGGTCTTACATG-AAATCA
45706304 TAAGTCGATG
Statistics
Matches: 57, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
41 3 0.05
42 21 0.37
43 30 0.53
44 3 0.05
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (43 bp):
TGTCCCAGACATGGTCTTACATGAAATCAAATATCAATGCCGA
Found at i:45713759 original size:20 final size:20
Alignment explanation
Indices: 45713731--45713771 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
45713721 ATACACGGAT
45713731 TGCCCAGAAAGCTCGTACAA
1 TGCCCAGAAAGCTCGTACAA
*
45713751 TGCCTAGAAAGCTCGTACAA
1 TGCCCAGAAAGCTCGTACAA
45713771 T
1 T
45713772 ACATATATCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.34, C:0.27, G:0.20, T:0.20
Consensus pattern (20 bp):
TGCCCAGAAAGCTCGTACAA
Found at i:45716061 original size:16 final size:17
Alignment explanation
Indices: 45716027--45716072 Score: 60
Period size: 16 Copynumber: 2.8 Consensus size: 17
45716017 GTCTTCAAGT
*
45716027 TAAGAAAGATTAC-ACC
1 TAAGAAAGAGTACGACC
45716043 TAAGAAAGAGTACGA-C
1 TAAGAAAGAGTACGACC
*
45716059 TAAGAGAGAGTACG
1 TAAGAAAGAGTACG
45716073 CCTTAGAGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
16 26 0.96
17 1 0.04
ACGTcount: A:0.48, C:0.13, G:0.24, T:0.15
Consensus pattern (17 bp):
TAAGAAAGAGTACGACC
Found at i:45717368 original size:25 final size:25
Alignment explanation
Indices: 45717340--45717395 Score: 87
Period size: 25 Copynumber: 2.2 Consensus size: 25
45717330 TTGTGGCGTG
*
45717340 TTATCTGTAAGGTATTT-GTGGAAAA
1 TTATCTGTAAAGTATTTAG-GGAAAA
45717365 TTATCTGTAAAGTATTTAGGGAAAA
1 TTATCTGTAAAGTATTTAGGGAAAA
45717390 TTATCT
1 TTATCT
45717396 AGAATAACCT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
25 28 0.97
26 1 0.03
ACGTcount: A:0.34, C:0.05, G:0.20, T:0.41
Consensus pattern (25 bp):
TTATCTGTAAAGTATTTAGGGAAAA
Found at i:45726006 original size:46 final size:46
Alignment explanation
Indices: 45725956--45726131 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
45725946 TGGTTGAGCA
45725956 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
45726002 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
45726047 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
45726095 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
45726132 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 63 0.56
47 29 0.26
48 3 0.03
50 5 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:45726112 original size:93 final size:93
Alignment explanation
Indices: 45725953--45726124 Score: 326
Period size: 93 Copynumber: 1.8 Consensus size: 93
45725943 GGATGGTTGA
*
45725953 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
45726018 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
45726046 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
45726111 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
45726125 CTTATGGGCG
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 77 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:45736660 original size:36 final size:36
Alignment explanation
Indices: 45736613--45736687 Score: 141
Period size: 36 Copynumber: 2.1 Consensus size: 36
45736603 CTGAAAACCT
45736613 TAGTTTATAAGAAAAACTATTTGTTTTTAGTAAAGG
1 TAGTTTATAAGAAAAACTATTTGTTTTTAGTAAAGG
*
45736649 TAGTTTATAAGAAAAACTGTTTGTTTTTAGTAAAGG
1 TAGTTTATAAGAAAAACTATTTGTTTTTAGTAAAGG
45736685 TAG
1 TAG
45736688 AGTTTTGATC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.37, C:0.03, G:0.19, T:0.41
Consensus pattern (36 bp):
TAGTTTATAAGAAAAACTATTTGTTTTTAGTAAAGG
Found at i:45745077 original size:24 final size:24
Alignment explanation
Indices: 45745032--45745075 Score: 74
Period size: 22 Copynumber: 1.9 Consensus size: 24
45745022 AAAAAGCAAA
45745032 AAGAAGAACACAAGAACAAAAACC
1 AAGAAGAACACAAGAACAAAAACC
45745056 AAGAAGAA-AC-AGAACAAAAA
1 AAGAAGAACACAAGAACAAAAA
45745076 AATAACATGC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 10 0.50
23 2 0.10
24 8 0.40
ACGTcount: A:0.70, C:0.16, G:0.14, T:0.00
Consensus pattern (24 bp):
AAGAAGAACACAAGAACAAAAACC
Found at i:45750313 original size:24 final size:21
Alignment explanation
Indices: 45750264--45750313 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 21
45750254 ATAAAGTAGG
45750264 TTATATATTATTTTTATAATA
1 TTATATATTATTTTTATAATA
*
45750285 TTATATATTATGATTTTTTAAT-
1 TTATATATTAT--TTTTATAATA
45750307 TTATATA
1 TTATATA
45750314 ATAATAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 11 0.42
22 7 0.27
23 8 0.31
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (21 bp):
TTATATATTATTTTTATAATA
Found at i:45751460 original size:32 final size:34
Alignment explanation
Indices: 45751424--45751488 Score: 80
Period size: 34 Copynumber: 2.0 Consensus size: 34
45751414 TAACAGTGGT
*
45751424 ACTGGACCAGAGCCC-TT-TTCAGATTACAATAA
1 ACTGGACCAGAGCCCTTTATTCAGATAACAATAA
* **
45751456 ACTGGGCCTTAGCCCTTTATTCAGATAACAATA
1 ACTGGACCAGAGCCCTTTATTCAGATAACAATA
45751489 TGGCCCATAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 12 0.44
33 2 0.07
34 13 0.48
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (34 bp):
ACTGGACCAGAGCCCTTTATTCAGATAACAATAA
Found at i:45753318 original size:26 final size:26
Alignment explanation
Indices: 45753287--45753394 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
45753277 TTGAATGCCC
*
45753287 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
45753313 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
45753339 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
45753365 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
45753391 ATCA
1 ATCA
45753395 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:45759362 original size:26 final size:26
Alignment explanation
Indices: 45759331--45759438 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
45759321 TGGAATGCCC
*
45759331 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
45759357 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
45759383 ATCATGGAATATTTATCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
45759409 ATCATAGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
45759435 ATCA
1 ATCA
45759439 ATTTGTACCA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.37, C:0.23, G:0.06, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:45761446 original size:27 final size:27
Alignment explanation
Indices: 45761408--45761480 Score: 146
Period size: 27 Copynumber: 2.7 Consensus size: 27
45761398 CATGCTAGAG
45761408 AAGGAATGCCTTTGTGGCAATATATGA
1 AAGGAATGCCTTTGTGGCAATATATGA
45761435 AAGGAATGCCTTTGTGGCAATATATGA
1 AAGGAATGCCTTTGTGGCAATATATGA
45761462 AAGGAATGCCTTTGTGGCA
1 AAGGAATGCCTTTGTGGCA
45761481 GACTCTAAAG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.29
Consensus pattern (27 bp):
AAGGAATGCCTTTGTGGCAATATATGA
Found at i:45761494 original size:27 final size:26
Alignment explanation
Indices: 45761408--45761554 Score: 127
Period size: 27 Copynumber: 5.5 Consensus size: 26
45761398 CATGCTAGAG
*
45761408 AAGGAATGCCTTTGTGGCAA-TATATGA
1 AAGGAATGCCTTTGTGGCAACTCTA--A
*
45761435 AAGGAATGCCTTTGTGGCAA-TATATGA
1 AAGGAATGCCTTTGTGGCAACTCTA--A
45761462 AAGGAATGCCTTTGTGGCAGACTCTAA
1 AAGGAATGCCTTTGTGGCA-ACTCTAA
* * *
45761489 AGGGAATGCCTTCGTGGAAGACTCTAA
1 AAGGAATGCCTTTGTGGCA-ACTCTAA
* ** **
45761516 AGGGAATGCCTTCATAGAAAACTCTAA
1 AAGGAATGCCTTTGT-GGCAACTCTAA
45761543 AAGGAATGCCTT
1 AAGGAATGCCTT
45761555 GACAACGTAC
Statistics
Matches: 110, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
27 103 0.94
28 4 0.04
29 3 0.03
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.26
Consensus pattern (26 bp):
AAGGAATGCCTTTGTGGCAACTCTAA
Found at i:45764842 original size:25 final size:24
Alignment explanation
Indices: 45764801--45764858 Score: 59
Period size: 24 Copynumber: 2.4 Consensus size: 24
45764791 TTTTAATTTG
45764801 ATTA-AAAATAACAGTTA-ATGATAA
1 ATTATAAAATAACAGTTATAT--TAA
45764825 ATTATAAAATAATC-GTTATATTAA
1 ATTATAAAATAA-CAGTTATATTAA
*
45764849 ATAATAAAAT
1 ATTATAAAAT
45764859 GTCAACCACG
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
24 16 0.53
25 11 0.37
26 3 0.10
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.34
Consensus pattern (24 bp):
ATTATAAAATAACAGTTATATTAA
Found at i:45770995 original size:12 final size:12
Alignment explanation
Indices: 45770978--45771007 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
45770968 CTCACATACT
45770978 CGTGTGCTAGGC
1 CGTGTGCTAGGC
45770990 CGTGTGCTAGGC
1 CGTGTGCTAGGC
45771002 CGTGTG
1 CGTGTG
45771008 AAAACTTGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.07, C:0.23, G:0.43, T:0.27
Consensus pattern (12 bp):
CGTGTGCTAGGC
Found at i:45775747 original size:29 final size:30
Alignment explanation
Indices: 45775700--45775767 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
45775690 TGGCCTAAGA
* *
45775700 GTAAATACTCAAAATTTGAAGGATTAA-AGT
1 GTAAATA-TCAAAAGTTGAAGGACTAATAGT
*
45775730 GTAAATATGAAAAGTTGAAGGACTAATAGT
1 GTAAATATCAAAAGTTGAAGGACTAATAGT
*
45775760 GCAAATAT
1 GTAAATAT
45775768 TTTAATGGTG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (30 bp):
GTAAATATCAAAAGTTGAAGGACTAATAGT
Found at i:45777946 original size:46 final size:46
Alignment explanation
Indices: 45777881--45778235 Score: 527
Period size: 46 Copynumber: 7.7 Consensus size: 46
45777871 GTGTGCTCTC
45777881 TGATATGAAAT-ATGTAAGACCATGGTTGAAAGATACCATGGCAATC-
1 TGATATGAAATGA-GTAAGACCATGGTTGAAAGATACCATGGCAA-CA
* *
45777927 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* *
45777973 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* *
45778019 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* *
45778065 TGATATGAAATGAATAAGAGCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * * *
45778111 TGACAGGAAATGAATAAGACCATGATTGAAAGATACCATGGCAACA
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
*
45778157 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* *
45778203 TGACA-GAAAATGAGTAAGACCATAGTTGAAAGA
1 TGATATG-AAATGAGTAAGACCATGGTTGAAAGA
45778236 CAGTATGCCA
Statistics
Matches: 290, Mismatches: 16, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
45 2 0.01
46 288 0.99
ACGTcount: A:0.41, C:0.13, G:0.23, T:0.22
Consensus pattern (46 bp):
TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
Found at i:45778552 original size:16 final size:17
Alignment explanation
Indices: 45778531--45778563 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
45778521 ATAATGGAGC
45778531 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
45778547 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
45778564 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:45784787 original size:40 final size:39
Alignment explanation
Indices: 45784666--45784789 Score: 176
Period size: 39 Copynumber: 3.2 Consensus size: 39
45784656 TGTGAATGAA
* *
45784666 TGTGCGAATTGTGATATCCGGGCTAAGCCCAAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
45784705 TGTGCAAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
45784744 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
45784784 TGTGCG
1 TGTGCG
45784790 GGTTACCATA
Statistics
Matches: 74, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 57 0.77
40 17 0.23
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.25
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:45784805 original size:40 final size:40
Alignment explanation
Indices: 45784683--45784819 Score: 134
Period size: 39 Copynumber: 3.5 Consensus size: 40
45784673 ATTGTGATAT
* * * ** *
45784683 CCGGGCTAAG-CCCAAAGGCAATTGTGCAAGCTATGATAT
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
*** *
45784722 CCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTGTGATAT
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
* * *
45784761 CCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTACCATAA
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
*
45784801 CCGGGCTACGTCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
45784820 TGTTTTGAAC
Statistics
Matches: 84, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
39 44 0.52
40 40 0.48
ACGTcount: A:0.24, C:0.24, G:0.31, T:0.21
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
Found at i:45789961 original size:6 final size:6
Alignment explanation
Indices: 45789943--45789981 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
45789933 CTTCAAAAAT
* *
45789943 AAATAG AAATAA AAGTAA AAATAAA AAATAA AAATAA AA
1 AAATAA AAATAA AAATAA AAAT-AA AAATAA AAATAA AA
45789982 TGAGTTTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
6 23 0.79
7 6 0.21
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:45797909 original size:93 final size:93
Alignment explanation
Indices: 45797797--45797969 Score: 310
Period size: 93 Copynumber: 1.9 Consensus size: 93
45797787 CGCCCATAAG
* *
45797797 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
45797862 ACGAGCTCGGATGCCTAGTTACATCTCT
66 ACGAGCTCGGATGCCTAGTTACATCTCT
*
45797890 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
45797955 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
45797970 CAAACATCCT
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.31, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCT
Found at i:45797965 original size:46 final size:46
Alignment explanation
Indices: 45797790--45797965 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
45797780 CGTAACCCGC
* * *
45797790 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
45797836 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
45797882 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
45797929 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
45797966 TGCCCAAACA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 69 0.63
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:45797984 original size:46 final size:46
Alignment explanation
Indices: 45797798--45797984 Score: 145
Period size: 46 Copynumber: 4.0 Consensus size: 46
45797788 GCCCATAAGC
** *
45797798 GAACTCGGACTCAACTCAACGAGCTCGG--G-CGTTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCCAT-ACATCC-T-AGT
* *
45797844 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT--C
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCCA--TACATC-CTAGT
* * * * *
45797891 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--AAGT
1 GAACTCGGACTCAACTCAACGAGCTCGG--ATGCCCATACATCCTAGT
* *
45797937 GAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAACATCCTAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCCATACATCCTAGT
45797983 GA
1 GA
45797985 CATGTCACTT
Statistics
Matches: 113, Mismatches: 16, Indels: 24
0.74 0.10 0.16
Matches are distributed among these distances:
44 8 0.07
46 61 0.54
47 31 0.27
48 1 0.01
49 5 0.04
50 5 0.04
51 2 0.02
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGCTCGGATGCCCATACATCCTAGT
Done.