Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 100 of 316
Found at i:31073858 original size:7 final size:7
Alignment explanation
Indices: 31073846--31073870 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
31073836 TTCATTCATC
31073846 AATTACT
1 AATTACT
31073853 AATTACT
1 AATTACT
31073860 AATTACT
1 AATTACT
31073867 AATT
1 AATT
31073871 CATCAACCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (7 bp):
AATTACT
Found at i:31076093 original size:30 final size:30
Alignment explanation
Indices: 31076059--31076120 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
31076049 GATGATTGAT
31076059 TTGATTAAATAATATCTATTTGATTCATAC
1 TTGATTAAATAATATCTATTTGATTCATAC
31076089 TTGATTAAATAATATCTATTTGATTCATAC
1 TTGATTAAATAATATCTATTTGATTCATAC
31076119 TT
1 TT
31076121 ATAATGTTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.35, C:0.10, G:0.06, T:0.48
Consensus pattern (30 bp):
TTGATTAAATAATATCTATTTGATTCATAC
Found at i:31079148 original size:17 final size:17
Alignment explanation
Indices: 31079116--31079162 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
31079106 CCATTACAGT
*
31079116 AACAGTAAACAATGCAGC
1 AACAGT-AACAGTGCAGC
*
31079134 AACAGTAACAGTGCAGT
1 AACAGTAACAGTGCAGC
*
31079151 AACAATAACAGT
1 AACAGTAACAGT
31079163 TCAGATATGC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 20 0.77
18 6 0.23
ACGTcount: A:0.49, C:0.19, G:0.17, T:0.15
Consensus pattern (17 bp):
AACAGTAACAGTGCAGC
Found at i:31079529 original size:44 final size:42
Alignment explanation
Indices: 31079468--31079594 Score: 114
Period size: 44 Copynumber: 2.9 Consensus size: 42
31079458 GTTGGTATTG
*
31079468 ATCTGAATTATCGTGTAAGACCGTGTCTGGGACACAGGCATCGT
1 ATCTG-ATT-TCGTGTAAGACCATGTCTGGGACACAGGCATCGT
* * *
31079512 AT-TGAAATTTACGTGTAAGAACATGTCCGGGACATC-GGTATCGT
1 ATCTG--ATTT-CGTGTAAGACCATGTCTGGGACA-CAGGCATCGT
** * *
31079556 ATCTGATTTCGTACAAGACCCTGTCTGGGACAAAGGCAT
1 ATCTGATTTCGTGTAAGACCATGTCTGGGACACAGGCAT
31079595 TAATACTAAA
Statistics
Matches: 67, Mismatches: 11, Indels: 12
0.74 0.12 0.13
Matches are distributed among these distances:
42 22 0.33
43 7 0.10
44 35 0.52
45 3 0.04
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.28
Consensus pattern (42 bp):
ATCTGATTTCGTGTAAGACCATGTCTGGGACACAGGCATCGT
Found at i:31081277 original size:17 final size:17
Alignment explanation
Indices: 31081255--31081297 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
31081245 TACCCATATA
*
31081255 GGGCCCACGAGCTCGTG
1 GGGCCCACAAGCTCGTG
31081272 GGGCCCACAAGCTCGTG
1 GGGCCCACAAGCTCGTG
31081289 GGGCCCACA
1 GGGCCCACA
31081298 TAGCCCATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.16, C:0.37, G:0.37, T:0.09
Consensus pattern (17 bp):
GGGCCCACAAGCTCGTG
Found at i:31083533 original size:19 final size:20
Alignment explanation
Indices: 31083495--31083533 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
31083485 TCAATGATTC
31083495 AATGGATATAAAACTCTTGA
1 AATGGATATAAAACTCTTGA
31083515 AATGG-TATGAAAA-TCTTGA
1 AATGGATAT-AAAACTCTTGA
31083534 GATGAAATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.44, C:0.08, G:0.18, T:0.31
Consensus pattern (20 bp):
AATGGATATAAAACTCTTGA
Found at i:31087916 original size:44 final size:44
Alignment explanation
Indices: 31087866--31087954 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
31087856 AAGTATCTTC
31087866 AATCTTATCTCATTATAAAACAAATTTTAGATCAAGTCTAAACA
1 AATCTTATCTCATTATAAAACAAATTTTAGATCAAGTCTAAACA
*
31087910 AATCTTATCTCATTATAAAACCAATTTTAGATCAAGTCTAAACA
1 AATCTTATCTCATTATAAAACAAATTTTAGATCAAGTCTAAACA
31087954 A
1 A
31087955 TCATTGAAGT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.45, C:0.17, G:0.04, T:0.34
Consensus pattern (44 bp):
AATCTTATCTCATTATAAAACAAATTTTAGATCAAGTCTAAACA
Found at i:31087955 original size:21 final size:22
Alignment explanation
Indices: 31087883--31087954 Score: 74
Period size: 22 Copynumber: 3.3 Consensus size: 22
31087873 TCTCATTATA
31087883 AAACAAATTTTAGATCAAGTCT
1 AAACAAATTTTAGATCAAGTCT
* ** * *
31087905 AAACAAATCTTATCTC-ATTAT
1 AAACAAATTTTAGATCAAGTCT
*
31087926 AAAACCAATTTTAGATCAAGTCT
1 -AAACAAATTTTAGATCAAGTCT
31087949 AAACAA
1 AAACAA
31087955 TCATTGAAGT
Statistics
Matches: 36, Mismatches: 12, Indels: 4
0.69 0.23 0.08
Matches are distributed among these distances:
21 3 0.08
22 30 0.83
23 3 0.08
ACGTcount: A:0.47, C:0.17, G:0.06, T:0.31
Consensus pattern (22 bp):
AAACAAATTTTAGATCAAGTCT
Found at i:31091266 original size:22 final size:24
Alignment explanation
Indices: 31091224--31091269 Score: 69
Period size: 22 Copynumber: 2.0 Consensus size: 24
31091214 CAATACAAAA
*
31091224 TTTTTAATTTTTCCTTTTAATTTC
1 TTTTTAATTTTTCATTTTAATTTC
31091248 TTTTTAA-TTTT-ATTTTAATTTC
1 TTTTTAATTTTTCATTTTAATTTC
31091270 ACTAATCTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 10 0.48
23 4 0.19
24 7 0.33
ACGTcount: A:0.20, C:0.09, G:0.00, T:0.72
Consensus pattern (24 bp):
TTTTTAATTTTTCATTTTAATTTC
Found at i:31091753 original size:24 final size:24
Alignment explanation
Indices: 31091707--31091753 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
31091697 AATTATCAAT
* *
31091707 TTGAGTTTTAAATATTGATGGGTA
1 TTGAGTTTTAAATATTAAAGGGTA
*
31091731 TTGAGTTTTAAATTTTAAAGGGT
1 TTGAGTTTTAAATATTAAAGGGT
31091754 TTATGCTAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.23, T:0.47
Consensus pattern (24 bp):
TTGAGTTTTAAATATTAAAGGGTA
Found at i:31097491 original size:18 final size:18
Alignment explanation
Indices: 31097451--31097491 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
31097441 AATAAATTAT
*
31097451 AAAAATTATTTAAAAATA
1 AAAAATTATTTAAAAAGA
31097469 AAAAATTA-TTAAAAAGA
1 AAAAATTATTTAAAAAGA
31097486 ATAAAA
1 A-AAAA
31097492 CATGGCATAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (18 bp):
AAAAATTATTTAAAAAGA
Found at i:31098373 original size:30 final size:30
Alignment explanation
Indices: 31098339--31098398 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
31098329 ACTTATCAAG
31098339 CAAATATCTCTAAAATAATAACAAAATTAA
1 CAAATATCTCTAAAATAATAACAAAATTAA
* *
31098369 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATATCTCTAAAATAATAACAAAATTAA
31098399 TAATAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.58, C:0.12, G:0.02, T:0.28
Consensus pattern (30 bp):
CAAATATCTCTAAAATAATAACAAAATTAA
Found at i:31099175 original size:13 final size:14
Alignment explanation
Indices: 31099147--31099180 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
31099137 AATTAACACG
31099147 AAATAGTTTATTTT
1 AAATAGTTTATTTT
31099161 AAATAGTTT-TTTT
1 AAATAGTTTATTTT
31099174 AAA-AGTT
1 AAATAGTT
31099181 ACCAATACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 4 0.20
13 7 0.35
14 9 0.45
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (14 bp):
AAATAGTTTATTTT
Found at i:31113313 original size:49 final size:49
Alignment explanation
Indices: 31113256--31113376 Score: 145
Period size: 49 Copynumber: 2.4 Consensus size: 49
31113246 GTGGTGTGTT
* *
31113256 AGTGTAAGACCTGTTTGGGACACGGCATCGACAC-CGATAGATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACACGGCATCGAC-CTCGATAGATGAAAGCC
* * * * * *
31113305 AGTGTAAGACCTGTCTAGGACATGGCATTGGCCTCGCTATATGAAAGCC
1 AGTGTAAGACCTGTCTGGGACACGGCATCGACCTCGATAGATGAAAGCC
31113354 AGTGTAAGACCATGTCTGGGACA
1 AGTGTAAGACC-TGTCTGGGACA
31113377 TAGCGTCAGC
Statistics
Matches: 61, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
48 1 0.02
49 50 0.82
50 10 0.16
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.21
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACACGGCATCGACCTCGATAGATGAAAGCC
Found at i:31117279 original size:12 final size:13
Alignment explanation
Indices: 31117245--31117284 Score: 55
Period size: 13 Copynumber: 3.0 Consensus size: 13
31117235 TTTTTTTAAG
31117245 TAGTTTATTGATA
1 TAGTTTATTGATA
31117258 TAGTCATTATT-ATA
1 TAGT--TTATTGATA
31117272 TAGTTTATTGATA
1 TAGTTTATTGATA
31117285 AAAATAAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
12 5 0.21
13 7 0.29
14 7 0.29
15 5 0.21
ACGTcount: A:0.33, C:0.03, G:0.12, T:0.53
Consensus pattern (13 bp):
TAGTTTATTGATA
Found at i:31121522 original size:22 final size:18
Alignment explanation
Indices: 31121479--31121527 Score: 89
Period size: 18 Copynumber: 2.7 Consensus size: 18
31121469 CCCGAAAAGG
31121479 TGATTGATTACCAGTTGA
1 TGATTGATTACCAGTTGA
*
31121497 TGATTGATTACCAGTTGG
1 TGATTGATTACCAGTTGA
31121515 TGATTGATTACCA
1 TGATTGATTACCA
31121528 ACGAAGGTGG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.27, C:0.12, G:0.22, T:0.39
Consensus pattern (18 bp):
TGATTGATTACCAGTTGA
Found at i:31124316 original size:48 final size:47
Alignment explanation
Indices: 31124207--31124377 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 47
31124197 TGATATATGT
* * *
31124207 GCTAGTGTAAGACATGTTTGGAACATGCATCAGCC--ACA-ACATTAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTTA-AGATATTA-A
* *
31124253 GCCAGTGTAAGACATGTCTAGGACATGCATCAGCCTTAAGATATTTAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTTAAGATA-TTAA
* * * * *
31124301 GCTAGTGTAAGACATGTTTGGGACATGCATCGGCATTGAGATGA--GA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTTAAGAT-ATTAA
31124347 GCTAGTGTAAGACATGTCTGGGACATGCATC
1 GCTAGTGTAAGACATGTCTGGGACATGCATC
31124378 GGGCTCGCGA
Statistics
Matches: 107, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
46 62 0.58
47 1 0.01
48 40 0.37
49 4 0.04
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.26
Consensus pattern (47 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTTAAGATATTAA
Found at i:31124359 original size:94 final size:94
Alignment explanation
Indices: 31124207--31124421 Score: 261
Period size: 94 Copynumber: 2.3 Consensus size: 94
31124197 TGATATATGT
* *
31124207 GCTAGTGTAAGACATGTTTGGAACATGCATCAGCCACAACATTAGAGCCAGTGTAAGACATGTCT
1 GCTAGTGTAAGACATGTTTGGGACATGCATCAGCCACAACATGAGAGCCAGTGTAAGACATGTCT
* **
31124272 AGGACATGCATCAGCCTTAAGATATTTAA
66 AGGACATGCATCAGCCTCAAGATATACAA
* ** * *
31124301 GCTAGTGTAAGACATGTTTGGGACATGCATC-GGCATTGAGATGAGAGCTAGTGTAAGACATGTC
1 GCTAGTGTAAGACATGTTTGGGACATGCATCAGCCA-CAACATGAGAGCCAGTGTAAGACATGTC
* * * **
31124365 TGGGACATGCATCGGGCTCGCGATATACAA
65 TAGGACATGCATCAGCCTCAAGATATACAA
* *
31124395 GCTAGCGTAAGACCTGTTTGGGACATG
1 GCTAGTGTAAGACATGTTTGGGACATG
31124422 GCGTCAACTT
Statistics
Matches: 103, Mismatches: 17, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
93 3 0.03
94 100 0.97
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (94 bp):
GCTAGTGTAAGACATGTTTGGGACATGCATCAGCCACAACATGAGAGCCAGTGTAAGACATGTCT
AGGACATGCATCAGCCTCAAGATATACAA
Found at i:31124417 original size:48 final size:46
Alignment explanation
Indices: 31124207--31124575 Score: 174
Period size: 46 Copynumber: 7.8 Consensus size: 46
31124197 TGATATATGT
* * * * * *
31124207 GCTAGTGTAAGACATGTTTGGAACATGCATCAGCCA-CAACATTAGA
1 GCTAGTGTAAGACATGTTTGGGACATGCATC-GGCATCGAGATGAAA
* * * * * **
31124253 GCCAGTGTAAGACATGTCTAGGACATGCATCAGCCTTAAGAT-ATTTAA
1 GCTAGTGTAAGACATGTTTGGGACATGCATCGGCATCGAGATGA---AA
* *
31124301 GCTAGTGTAAGACATGTTTGGGACATGCATCGGCATTGAGATGAGA
1 GCTAGTGTAAGACATGTTTGGGACATGCATCGGCATCGAGATGAAA
* * *
31124347 GCTAGTGTAAGACATGTCTGGGACATGCATCGGGC-TCGCGATATACAA
1 GCTAGTGTAAGACATGTTTGGGACATGCATC-GGCATCGAGAT-GA-AA
* * * ** * * * *
31124395 GCTAGCGTAAGACCTGTTTGGGACATGGCGTCAAC-TTGTGGTG--T
1 GCTAGTGTAAGACATGTTTGGGACAT-GCATCGGCATCGAGATGAAA
* * * ** * *
31124439 GTTAGTGTAAGACCTTTTTGGGACATGGCATCAACACCGATAGATGAGA
1 GCTAGTGTAAGACATGTTTGGGACAT-GCATCGGCATCG--AGATGAAA
* * * * *
31124488 GCTAGTGTAAGACCTATCTGGGACATGGCATCGGCCTCGCTATATGAAA
1 GCTAGTGTAAGACATGTTTGGGACAT-GCATCGGCATCG--AGATGAAA
* * *
31124537 GCCAGTGTAAGACCATGTCTGGGACATAGCACCGGCATC
1 GCTAGTGTAAGA-CATGTTTGGGACAT-GCATCGGCATC
31124576 TTAACCGGTG
Statistics
Matches: 250, Mismatches: 58, Indels: 26
0.75 0.17 0.08
Matches are distributed among these distances:
44 31 0.12
45 3 0.01
46 67 0.27
47 7 0.03
48 66 0.26
49 55 0.22
50 21 0.08
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTTTGGGACATGCATCGGCATCGAGATGAAA
Found at i:31124510 original size:49 final size:49
Alignment explanation
Indices: 31124441--31124563 Score: 140
Period size: 49 Copynumber: 2.5 Consensus size: 49
31124431 TGTGGTGTGT
* * *
31124441 TAGTGTAAGACCTTTTTGGGACATGGCATCAACAC-CGATAGATGAGAGC
1 TAGTGTAAGACCTATCTGGGACATGGCATCAAC-CTCGATAGATGAAAGC
** * *
31124490 TAGTGTAAGACCTATCTGGGACATGGCATCGGCCTCGCTATATGAAAGC
1 TAGTGTAAGACCTATCTGGGACATGGCATCAACCTCGATAGATGAAAGC
* *
31124539 CAGTGTAAGACCATGTCTGGGACAT
1 TAGTGTAAGACC-TATCTGGGACAT
31124564 AGCACCGGCA
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
48 1 0.02
49 51 0.81
50 11 0.17
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.24
Consensus pattern (49 bp):
TAGTGTAAGACCTATCTGGGACATGGCATCAACCTCGATAGATGAAAGC
Found at i:31127468 original size:16 final size:15
Alignment explanation
Indices: 31127441--31127479 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
31127431 ATAACTAGTA
*
31127441 TATAATTATATTTAT
1 TATAATTATATTAAT
31127456 TATAATATATATTAAT
1 TATAAT-TATATTAAT
*
31127472 TATTATTA
1 TATAATTA
31127480 ATTTTGAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATAATTATATTAAT
Found at i:31134980 original size:37 final size:37
Alignment explanation
Indices: 31134930--31135004 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
31134920 TAGAGTTGTA
*
31134930 GAGAGAACTAATCGAACTCTTTTGAACATGGTTCGGT
1 GAGAGAACTAATCGAACTCTTTTGAACACGGTTCGGT
31134967 GAGAGAACTAATCGAACTCTTTTGAACACGGTTCGGT
1 GAGAGAACTAATCGAACTCTTTTGAACACGGTTCGGT
31135004 G
1 G
31135005 CATGCTAACT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.28
Consensus pattern (37 bp):
GAGAGAACTAATCGAACTCTTTTGAACACGGTTCGGT
Found at i:31138930 original size:10 final size:10
Alignment explanation
Indices: 31138915--31138953 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
31138905 TATTTCTCTC
*
31138915 AAAAAAAGTA
1 AAAAAAAATA
31138925 AAAAAAAATA
1 AAAAAAAATA
*
31138935 AAAAAATATA
1 AAAAAAAATA
31138945 AAAATAAAA
1 AAAA-AAAA
31138954 CAATTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
10 22 0.88
11 3 0.12
ACGTcount: A:0.85, C:0.00, G:0.03, T:0.13
Consensus pattern (10 bp):
AAAAAAAATA
Found at i:31138964 original size:14 final size:16
Alignment explanation
Indices: 31138928--31138962 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
31138918 AAAAGTAAAA
31138928 AAAAATAAAAAAATAT
1 AAAAATAAAAAAATAT
*
31138944 AAAAATAAAACAAT-T
1 AAAAATAAAAAAATAT
31138959 AAAA
1 AAAA
31138963 TATTATGTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (16 bp):
AAAAATAAAAAAATAT
Found at i:31141382 original size:20 final size:20
Alignment explanation
Indices: 31141345--31141383 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
31141335 AAAAGGCTCT
***
31141345 TTGACCTTTAACTTTAACGG
1 TTGACCTTTAAAGGTAACGG
31141365 TTGACCTTTAAAGGTAACG
1 TTGACCTTTAAAGGTAACG
31141384 ACACTTTTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (20 bp):
TTGACCTTTAAAGGTAACGG
Found at i:31141544 original size:11 final size:11
Alignment explanation
Indices: 31141530--31141612 Score: 75
Period size: 11 Copynumber: 7.9 Consensus size: 11
31141520 TATAGAAAAG
*
31141530 TATTTAAAATT
1 TATTAAAAATT
*
31141541 TATTAAAAAAT
1 TATTAAAAATT
31141552 TATTAAAAATT
1 TATTAAAAATT
** *
31141563 TAGAAAAAAAT
1 TATTAAAAATT
31141574 TATTAAAAA-T
1 TATTAAAAATT
* *
31141584 TATTAAAAGTA
1 TATTAAAAATT
31141595 TA-TAAAAA--
1 TATTAAAAATT
31141603 TATTAAAAAT
1 TATTAAAAAT
31141613 ATAGAAAAAA
Statistics
Matches: 58, Mismatches: 11, Indels: 7
0.76 0.14 0.09
Matches are distributed among these distances:
8 2 0.03
9 6 0.10
10 14 0.24
11 36 0.62
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.37
Consensus pattern (11 bp):
TATTAAAAATT
Found at i:31141606 original size:29 final size:29
Alignment explanation
Indices: 31141546--31141751 Score: 91
Period size: 30 Copynumber: 6.9 Consensus size: 29
31141536 AAATTTATTA
*
31141546 AAAAATTATTAAAAATTTAGAAAAAAATTATT
1 AAAAATTATTAAAAA-TTATAAAAAAA-TA-T
* *
31141578 AAAAATTATT-AAAAGTATATAAAAATATT
1 AAAAATTATTAAAAATTATAAAAAAATA-T
** * *
31141607 AAAAATATAGAAAAAAATATAAAAATCAT-T
1 AAAAAT-TATTAAAAATTATAAAAA-AATAT
* * * * * *
31141637 AAAATTTATAAAAAGAATATATAAAATTTT
1 AAAAATTATTAAAA-ATTATAAAAAAATAT
* *
31141667 AAAAATCATTAAAATTTATAAAAAAATATATAT
1 AAAAATTATTAAAAATTAT--AAAAA-A-ATAT
* *
31141700 ATAAAATTTTTTAAAATT-TATAAAAAATAT
1 A-AAAATTATTAAAAATTATA-AAAAAATAT
*
31141730 AAAAAATA-T-AAAA-TATAAAAAA
1 AAAAATTATTAAAAATTATAAAAAA
31141752 TGTTATGAAA
Statistics
Matches: 135, Mismatches: 27, Indels: 30
0.70 0.14 0.16
Matches are distributed among these distances:
26 6 0.04
27 6 0.04
28 1 0.01
29 26 0.19
30 42 0.31
31 21 0.16
32 17 0.13
33 4 0.03
34 12 0.09
ACGTcount: A:0.65, C:0.01, G:0.02, T:0.33
Consensus pattern (29 bp):
AAAAATTATTAAAAATTATAAAAAAATAT
Found at i:31141690 original size:10 final size:10
Alignment explanation
Indices: 31141535--31141734 Score: 79
Period size: 10 Copynumber: 19.4 Consensus size: 10
31141525 AAAAGTATTT
31141535 AAAATTTATTA
1 AAAATTTA-TA
*
31141546 AAAAATTATTA
1 AAAATTTA-TA
*
31141557 AAAATTTAGAA
1 AAAATTTA-TA
*
31141568 AAAAATTATTA
1 AAAATTTA-TA
31141579 AAAA-TTATTA
1 AAAATTTA-TA
* *
31141589 AAAGTATATA
1 AAAATTTATA
*
31141599 AAAATAT-TA
1 AAAATTTATA
* *
31141608 AAAATATAGA
1 AAAATTTATA
**
31141618 AAAAAATATA
1 AAAATTTATA
* *
31141628 AAAA-TCATT
1 AAAATTTATA
31141637 AAAATTTATA
1 AAAATTTATA
**
31141647 AAAAGAATATA
1 AAAA-TTTATA
31141658 TAAAATTT-TA
1 -AAAATTTATA
* *
31141668 AAAA-TCATT
1 AAAATTTATA
31141677 AAAATTTATAAA
1 AAAATTTAT--A
31141689 AAAATATATATA
1 AAAAT-T-TATA
* *
31141701 TAAAATTTTTT
1 -AAAATTTATA
31141712 AAAATTTATA
1 AAAATTTATA
*
31141722 AAAA-ATATA
1 AAAATTTATA
31141731 AAAA
1 AAAA
31141735 ATATAAAATA
Statistics
Matches: 146, Mismatches: 31, Indels: 26
0.72 0.15 0.13
Matches are distributed among these distances:
8 1 0.01
9 32 0.22
10 54 0.37
11 39 0.27
12 11 0.08
13 6 0.04
14 3 0.02
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.34
Consensus pattern (10 bp):
AAAATTTATA
Found at i:31141734 original size:19 final size:19
Alignment explanation
Indices: 31141535--31141772 Score: 102
Period size: 19 Copynumber: 12.2 Consensus size: 19
31141525 AAAAGTATTT
31141535 AAAATTTATTAAAAAATTATTA
1 AAAATTTA-TAAAAAA-TA-TA
*
31141557 AAAATTTAGAAAAAAATTATTA
1 AAAATTTA-TAAAAAA-TA-TA
*
31141579 AAAA-TTATTAAAAGTATATA
1 AAAATTTA-TAAAA-AATATA
* *
31141599 AAAATATTA-AAAATATAGA
1 AAAAT-TTATAAAAAATATA
** *
31141618 AAAAAATAT-AAAAATCATT
1 AAAATTTATAAAAAAT-ATA
31141637 AAAATTTATAAAAAGAATATA
1 AAAATTTAT-AAAA-AATATA
*
31141658 TAAAATTT-T-AAAAATCATT
1 -AAAATTTATAAAAAAT-ATA
31141677 AAAATTTATAAAAAA-AT-
1 AAAATTTATAAAAAATATA
* * ** * *
31141694 -ATATATATAAAATTTTTT
1 AAAATTTATAAAAAATATA
31141712 AAAATTTATAAAAAATATA
1 AAAATTTATAAAAAATATA
* *
31141731 AAAA-ATATAAAATATA-A
1 AAAATTTATAAAAAATATA
31141748 AAAATGTTATGAAATAAATA-A
1 AAAAT-TTAT-AAA-AAATATA
31141769 AAAA
1 AAAA
31141773 GAAACTAAAA
Statistics
Matches: 167, Mismatches: 30, Indels: 39
0.71 0.13 0.17
Matches are distributed among these distances:
16 10 0.06
17 6 0.04
18 29 0.17
19 42 0.25
20 18 0.11
21 24 0.14
22 38 0.23
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.33
Consensus pattern (19 bp):
AAAATTTATAAAAAATATA
Found at i:31146120 original size:28 final size:25
Alignment explanation
Indices: 31146096--31146147 Score: 68
Period size: 28 Copynumber: 2.0 Consensus size: 25
31146086 AGTACTGTAT
31146096 TAGTGGCTTTGCCACGTAATTACTGCTC
1 TAGTGGCTTTGCCACGT--TTACTG-TC
*
31146124 TGGTGGCTTTGCCACGTTTACTGT
1 TAGTGGCTTTGCCACGTTTACTGT
31146148 TAGCAGTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 1 0.04
26 6 0.26
28 16 0.70
ACGTcount: A:0.13, C:0.23, G:0.25, T:0.38
Consensus pattern (25 bp):
TAGTGGCTTTGCCACGTTTACTGTC
Found at i:31146324 original size:33 final size:34
Alignment explanation
Indices: 31146281--31146346 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 34
31146271 CCCACACTAT
* *
31146281 TACTGTATAGGGCTAAGGCCCAGACTG-TACTGA
1 TACTGAATAGGGCCAAGGCCCAGACTGTTACTGA
* *
31146314 TACTGAATAGGGCCCAGGCCCATACTGTTACTG
1 TACTGAATAGGGCCAAGGCCCAGACTGTTACTG
31146347 CATTCATTGT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
33 23 0.82
34 5 0.18
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (34 bp):
TACTGAATAGGGCCAAGGCCCAGACTGTTACTGA
Found at i:31146966 original size:342 final size:343
Alignment explanation
Indices: 31146305--31146986 Score: 1132
Period size: 342 Copynumber: 2.0 Consensus size: 343
31146295 AAGGCCCAGA
* *
31146305 CTGTACTGATACTGAATAGGGCCCAGGCCCATACTGTTACTGCATTCATTGTTTACTATTTGACT
1 CTGTACTGATACTGAATAGGGCCCAGGCCCAGACTGTTACTGCATGCATTGTTTACTATTTGACT
31146370 AGTAAGGGATTACACACTGAGTTTTCACAAACTCACCCTTTCTTTTAACTGTACAGGTAATCCTC
66 AGTAAGGGATTACACACTGAGTTTTCACAAACTCACCCTTTCTTTTAACTGTACAGGTAATCCTC
* * * * *
31146435 ATCCTTAGACGGTTTGGAGCCGCGAGGGACTCAGAGATGGCCACACGATTGCTGATGTTCTACTT
131 AGCCTTAGACGGTTTAGAGCCACGAGGGACTCAGAGATGGCCAAACAATTGCTGATGTTCTACTT
*
31146500 TTGACTTTAATTACTCAAAATTCATATTAGATTTTTGGTTATTTAATAAGGCCATTTGAGGTTTT
196 TTGACTTTAATTACTCAAAATTCATATTAGATTTTTGGTTATGTAATAAGGCCATTTGAGGTTTT
* *
31146565 TAACTTTTATTTAGGCTTTGATTTCTTACCTTAAGCTGCTAGACTAGGAATATACGAGTTTTCAA
261 TAACTTCTATTTAGGCTTTGATTTCTTACCTTAAGCTGCTAGACTAGGAATAGACGAGTTTTCAA
*
31146630 ACCAATTACTGTTTTAAG
326 ACCAATTACTATTTTAAG
*
31146648 CTGTACTGATACTGAATAGGGCCCAGG-CCAGACTGTTACTGCATGCATTGTTTACTGTTTGACT
1 CTGTACTGATACTGAATAGGGCCCAGGCCCAGACTGTTACTGCATGCATTGTTTACTATTTGACT
* * *
31146712 AGTAGGGGATTACACACTGAGTTTTCGCAAACTCACCCTTTCTTTTAACTGTACATGTAATCCTC
66 AGTAAGGGATTACACACTGAGTTTTCACAAACTCACCCTTTCTTTTAACTGTACAGGTAATCCTC
* * * *
31146777 AGCCTTTGACGGTTTAGAGTCACGAGGGACTCGGAGGTGGCCAAACAATTGCTGATGTTCTACTT
131 AGCCTTAGACGGTTTAGAGCCACGAGGGACTCAGAGATGGCCAAACAATTGCTGATGTTCTACTT
* * * *
31146842 TTGATTTTAATTACTCAAATTTCATATTTGATTTTTTGTTATGTAATAAGGCCATTTGAGGTTTT
196 TTGACTTTAATTACTCAAAATTCATATTAGATTTTTGGTTATGTAATAAGGCCATTTGAGGTTTT
* *
31146907 TAACTTCTATTTGGGCTTTGATTTCTTACCTTAAGCTGCTAGATTAGGAATAGACGAGTTTTCAA
261 TAACTTCTATTTAGGCTTTGATTTCTTACCTTAAGCTGCTAGACTAGGAATAGACGAGTTTTCAA
31146972 ACCAATTACTATTTT
326 ACCAATTACTATTTT
31146987 CAAAAACATA
Statistics
Matches: 314, Mismatches: 25, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
342 287 0.91
343 27 0.09
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.37
Consensus pattern (343 bp):
CTGTACTGATACTGAATAGGGCCCAGGCCCAGACTGTTACTGCATGCATTGTTTACTATTTGACT
AGTAAGGGATTACACACTGAGTTTTCACAAACTCACCCTTTCTTTTAACTGTACAGGTAATCCTC
AGCCTTAGACGGTTTAGAGCCACGAGGGACTCAGAGATGGCCAAACAATTGCTGATGTTCTACTT
TTGACTTTAATTACTCAAAATTCATATTAGATTTTTGGTTATGTAATAAGGCCATTTGAGGTTTT
TAACTTCTATTTAGGCTTTGATTTCTTACCTTAAGCTGCTAGACTAGGAATAGACGAGTTTTCAA
ACCAATTACTATTTTAAG
Found at i:31149397 original size:66 final size:66
Alignment explanation
Indices: 31149308--31149464 Score: 171
Period size: 66 Copynumber: 2.4 Consensus size: 66
31149298 ACGACTAGTA
* * * *
31149308 GACACGCCCGTGT-CTTAGACCGTGTGAAAA-TAGGGCA-TACATACTGACTTGTGTC-ACACGG
1 GACACGCCCGTGTGC-TAGGCCGTGTGAAAACTAGAG-AGT--ATACTAACTTATG-CAACACGG
31149369 CCAAG-
61 CCAAGT
*
31149374 GACACGCCCGTGTGCTAGGCCGTGTGAAAACTTGAGAGTATACTAACTTATGCAACACGGCCAAG
1 GACACGCCCGTGTGCTAGGCCGTGTGAAAACTAGAGAGTATACTAACTTATGCAACACGGCCAAG
31149439 T
66 T
* *
31149440 CACACGCCTGTGTGCTAGGCCGTGT
1 GACACGCCCGTGTGCTAGGCCGTGT
31149465 ACAATTTAAG
Statistics
Matches: 79, Mismatches: 7, Indels: 10
0.82 0.07 0.10
Matches are distributed among these distances:
64 1 0.01
65 22 0.28
66 51 0.65
67 5 0.06
ACGTcount: A:0.25, C:0.26, G:0.27, T:0.22
Consensus pattern (66 bp):
GACACGCCCGTGTGCTAGGCCGTGTGAAAACTAGAGAGTATACTAACTTATGCAACACGGCCAAG
T
Found at i:31149481 original size:66 final size:65
Alignment explanation
Indices: 31149363--31149530 Score: 182
Period size: 66 Copynumber: 2.6 Consensus size: 65
31149353 GACTTGTGTC
* * * *
31149363 ACACGGCCAAGGACACGCCCGTGTGCTAGGCCGTGTGAAAACTTGAGAGTATACTAACTTATGCA
1 ACACGGCCAAGCACACGCCTGTGTGCTAGGCCGTGTGAAAACTTAAGAGTATACTAACTTATACA
* * * *
31149428 ACACGGCCAAGTCACACGCCTGTGTGCTAGGCCGTGT-ACAATTTAAGGGGTATACTAACTTCTA
1 ACACGGCCAAG-CACACGCCTGTGTGCTAGGCCGTGTGAAAACTTAA-GAGTATACTAACTTATA
*
31149492 CC
64 CA
31149494 ACACGGCC-AGCCACACGCCCATGTGTG--AGGCCGTGTG
1 ACACGGCCAAG-CACACG-CC-TGTGTGCTAGGCCGTGTG
31149531 GAGCAAACTG
Statistics
Matches: 88, Mismatches: 10, Indels: 9
0.82 0.09 0.08
Matches are distributed among these distances:
65 34 0.39
66 48 0.55
67 6 0.07
ACGTcount: A:0.26, C:0.28, G:0.26, T:0.20
Consensus pattern (65 bp):
ACACGGCCAAGCACACGCCTGTGTGCTAGGCCGTGTGAAAACTTAAGAGTATACTAACTTATACA
Found at i:31150562 original size:23 final size:23
Alignment explanation
Indices: 31150533--31150645 Score: 135
Period size: 22 Copynumber: 5.0 Consensus size: 23
31150523 CTGATGAACA
*
31150533 GTAAGCTCTATTGAGCTGAAACG
1 GTAAGCTCTATCGAGCTGAAACG
*
31150556 GTAAGCTCTATCGAGCTG-AACA
1 GTAAGCTCTATCGAGCTGAAACG
*
31150578 GTAAGCTCATAT-GAGCTGAAATG
1 GTAAGCTC-TATCGAGCTGAAACG
**
31150601 GTAAGCTCTATCGAGCT-AAATA
1 GTAAGCTCTATCGAGCTGAAACG
31150623 GTAAGCTC-ATGCGAGCTGAAACG
1 GTAAGCTCTAT-CGAGCTGAAACG
31150646 ATAATTCCAA
Statistics
Matches: 78, Mismatches: 7, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
21 2 0.03
22 38 0.49
23 38 0.49
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.24
Consensus pattern (23 bp):
GTAAGCTCTATCGAGCTGAAACG
Found at i:31150578 original size:45 final size:45
Alignment explanation
Indices: 31150527--31150645 Score: 177
Period size: 45 Copynumber: 2.6 Consensus size: 45
31150517 CCTAAGCTGA
31150527 TGAACAGTAAGCTC-TATTGAGCTGAAACGGTAAGCTCTATCGAGC
1 TGAACAGTAAGCTCATA-TGAGCTGAAACGGTAAGCTCTATCGAGC
*
31150572 TGAACAGTAAGCTCATATGAGCTGAAATGGTAAGCTCTATCGAGC
1 TGAACAGTAAGCTCATATGAGCTGAAACGGTAAGCTCTATCGAGC
* * **
31150617 TAAATAGTAAGCTCATGCGAGCTGAAACG
1 TGAACAGTAAGCTCATATGAGCTGAAACG
31150646 ATAATTCCAA
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
45 65 0.97
46 2 0.03
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.24
Consensus pattern (45 bp):
TGAACAGTAAGCTCATATGAGCTGAAACGGTAAGCTCTATCGAGC
Found at i:31150887 original size:18 final size:19
Alignment explanation
Indices: 31150847--31150887 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
31150837 ATTCATACTT
* *
31150847 CAAGTATTTCAATTATATA
1 CAAGCATTTCAATAATATA
31150866 CAAGCATTTCAATAAT-TA
1 CAAGCATTTCAATAATATA
31150884 CAAG
1 CAAG
31150888 TATAGAAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.44, C:0.15, G:0.07, T:0.34
Consensus pattern (19 bp):
CAAGCATTTCAATAATATA
Found at i:31157215 original size:39 final size:39
Alignment explanation
Indices: 31157172--31157251 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
31157162 ATCCTTTCAC
*
31157172 GAATATTTGGTAATAGCCCGCTAAGCCTGGAAAACTATG
1 GAATATTTGGTAATAGCCCGCTAAGCCTAGAAAACTATG
31157211 GAATATTTGGTAATAGCCCGCTAAGCCTAGAAAACTATG
1 GAATATTTGGTAATAGCCCGCTAAGCCTAGAAAACTATG
31157250 GA
1 GA
31157252 CTTCCATACG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.25
Consensus pattern (39 bp):
GAATATTTGGTAATAGCCCGCTAAGCCTAGAAAACTATG
Found at i:31163299 original size:28 final size:28
Alignment explanation
Indices: 31163234--31163357 Score: 176
Period size: 28 Copynumber: 4.4 Consensus size: 28
31163224 GAGATTGGCG
* * * *
31163234 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
31163263 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
31163291 CTAAGTGTGCGAGTATGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
31163319 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
31163347 CTGAGTGTGCG
1 CTAAGTGTGCG
31163358 GACTTAATAT
Statistics
Matches: 86, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
28 71 0.83
29 15 0.17
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:31170108 original size:21 final size:21
Alignment explanation
Indices: 31170067--31170108 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
31170057 AAGAAAGGAA
* **
31170067 ATAATAAAAGAAATACTAAGG
1 ATAATAAAAGAAAAAAAAAGG
31170088 ATAATAAAAGAAAAAAAAAGG
1 ATAATAAAAGAAAAAAAAAGG
31170109 GTTATTACCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.69, C:0.02, G:0.14, T:0.14
Consensus pattern (21 bp):
ATAATAAAAGAAAAAAAAAGG
Found at i:31171664 original size:27 final size:28
Alignment explanation
Indices: 31171580--31171677 Score: 162
Period size: 28 Copynumber: 3.5 Consensus size: 28
31171570 TAAATTGTAC
* *
31171580 AGCACTAAGTGTGCGTGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
31171608 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
31171636 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
*
31171663 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
31171678 GACTTAATAT
Statistics
Matches: 67, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
27 24 0.36
28 43 0.64
ACGTcount: A:0.26, C:0.12, G:0.29, T:0.34
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:31171688 original size:27 final size:27
Alignment explanation
Indices: 31171580--31171690 Score: 107
Period size: 28 Copynumber: 4.0 Consensus size: 27
31171570 TAAATTGTAC
** * *
31171580 AGCACTAAGTGTGCGTGTTTGATTATGT
1 AGCACTAAGTGTGCG-ACTTGAATATAT
* *
31171608 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
31171636 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
31171663 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
31171690 A
1 A
31171691 CTTTTGAATC
Statistics
Matches: 75, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
27 30 0.40
28 45 0.60
ACGTcount: A:0.28, C:0.12, G:0.26, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:31176577 original size:23 final size:23
Alignment explanation
Indices: 31176517--31176646 Score: 126
Period size: 23 Copynumber: 5.7 Consensus size: 23
31176507 GTTACATTTT
*
31176517 GAGCTGAAACAGTAAGCTC-TATT
1 GAGCTGAAACAGTAAGCTCATA-C
*
31176540 GAGCT-AAACAATAAGCTCATAC
1 GAGCTGAAACAGTAAGCTCATAC
*
31176562 GAGCTGAAACGGTAAGCTC-TATC
1 GAGCTGAAACAGTAAGCTCATA-C
* *
31176585 AAGCTG-AACAATAAGCTCATAC
1 GAGCTGAAACAGTAAGCTCATAC
* *
31176607 CAGCTGAAACAGTAAGCTCCA-AT
1 GAGCTGAAACAGTAAGCT-CATAC
31176630 GAGCTGAAAACAGTAAG
1 GAGCTG-AAACAGTAAG
31176647 ATTTTTTGAG
Statistics
Matches: 89, Mismatches: 11, Indels: 13
0.79 0.10 0.12
Matches are distributed among these distances:
22 35 0.39
23 42 0.47
24 12 0.13
ACGTcount: A:0.40, C:0.21, G:0.20, T:0.19
Consensus pattern (23 bp):
GAGCTGAAACAGTAAGCTCATAC
Found at i:31176581 original size:45 final size:45
Alignment explanation
Indices: 31176517--31176634 Score: 173
Period size: 45 Copynumber: 2.6 Consensus size: 45
31176507 GTTACATTTT
31176517 GAGCTGAAACAGTAAGCTCTATTGAGCTAAACAATAAGCTCATAC
1 GAGCTGAAACAGTAAGCTCTATTGAGCTAAACAATAAGCTCATAC
* ** *
31176562 GAGCTGAAACGGTAAGCTCTATCAAGCTGAACAATAAGCTCATAC
1 GAGCTGAAACAGTAAGCTCTATTGAGCTAAACAATAAGCTCATAC
* * *
31176607 CAGCTGAAACAGTAAGCTCCAATGAGCT
1 GAGCTGAAACAGTAAGCTCTATTGAGCT
31176635 GAAAACAGTA
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 63 1.00
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.20
Consensus pattern (45 bp):
GAGCTGAAACAGTAAGCTCTATTGAGCTAAACAATAAGCTCATAC
Found at i:31179382 original size:41 final size:41
Alignment explanation
Indices: 31179315--31179418 Score: 120
Period size: 41 Copynumber: 2.5 Consensus size: 41
31179305 TGTGGATTCT
* * * * *
31179315 CGTCACCTTGTGTGAGCAG-CACTATGTAGCTATGTCTTGAC
1 CGTCAGCTTCTGTGAGCAGAC-CTATGTAGCAACGTCTTAAC
*
31179356 CGTTAGCTTCTGTGAGCAGACCTATGTAGCAACGTCTTAAC
1 CGTCAGCTTCTGTGAGCAGACCTATGTAGCAACGTCTTAAC
* *
31179397 CGTCAGCTTGTGTAAGCAGACC
1 CGTCAGCTTCTGTGAGCAGACC
31179419 CGTTAATAGC
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
41 52 0.98
42 1 0.02
ACGTcount: A:0.22, C:0.25, G:0.24, T:0.29
Consensus pattern (41 bp):
CGTCAGCTTCTGTGAGCAGACCTATGTAGCAACGTCTTAAC
Found at i:31182411 original size:42 final size:42
Alignment explanation
Indices: 31182364--31182471 Score: 119
Period size: 44 Copynumber: 2.5 Consensus size: 42
31182354 ACCCTTAGTT
*
31182364 CGTGTGCAACACTGACTTTAAAACACGGCCATGGCACACACC
1 CGTGTGCAACACTGACTTTAAAACACAGCCATGGCACACACC
* * **
31182406 CGTGTGTACAACACTGTCTTTAAACCACAGCCATGGCACATGCC
1 CGTGTG--CAACACTGACTTTAAAACACAGCCATGGCACACACC
* * *
31182450 TGTGTACAACATTGAC-TTAAAA
1 CGTGTGCAACACTGACTTTAAAA
31182472 TTTTAAGTGC
Statistics
Matches: 54, Mismatches: 10, Indels: 5
0.78 0.14 0.07
Matches are distributed among these distances:
41 5 0.09
42 14 0.26
44 35 0.65
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (42 bp):
CGTGTGCAACACTGACTTTAAAACACAGCCATGGCACACACC
Found at i:31184954 original size:27 final size:27
Alignment explanation
Indices: 31184647--31184953 Score: 472
Period size: 27 Copynumber: 11.4 Consensus size: 27
31184637 TGGATAAGTT
* *
31184647 GTAGAATTACCGAAATACCCCTATAGG
1 GTAGAATTACTGAAATACCCCTGTAGG
31184674 GTAGAATTA-TCGAAATACCCCTGTAGG
1 GTAGAATTACT-GAAATACCCCTGTAGG
* *
31184701 GTAGAATTACCGAAATACCCCTATAGG
1 GTAGAATTACTGAAATACCCCTGTAGG
31184728 GTAGAATTACTGAAATACCCCTGTAGG
1 GTAGAATTACTGAAATACCCCTGTAGG
*
31184755 GTAGAATTATTGAAATACCCCTGTAGG
1 GTAGAATTACTGAAATACCCCTGTAGG
*
31184782 GTAGAATTACTGAAATACCCCTTTAGG
1 GTAGAATTACTGAAATACCCCTGTAGG
31184809 GTAGAATTACTGAAATACCCCTGTAGG
1 GTAGAATTACTGAAATACCCCTGTAGG
*
31184836 GTAGAATTATTGAAATACCCCTGTAGG
1 GTAGAATTACTGAAATACCCCTGTAGG
*
31184863 GTAGAATTACTGAAATACCCTTGTAGG
1 GTAGAATTACTGAAATACCCCTGTAGG
*
31184890 GTAGAATTACTGAAATACCTCTGTAGG
1 GTAGAATTACTGAAATACCCCTGTAGG
* * * *
31184917 ATAGAATTACCGAGATACCCTTGTAGG
1 GTAGAATTACTGAAATACCCCTGTAGG
*
31184944 GTAAAATTAC
1 GTAGAATTAC
31184954 CATTTTGCCC
Statistics
Matches: 256, Mismatches: 22, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
27 256 1.00
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.27
Consensus pattern (27 bp):
GTAGAATTACTGAAATACCCCTGTAGG
Found at i:31184977 original size:27 final size:27
Alignment explanation
Indices: 31184955--31185017 Score: 126
Period size: 27 Copynumber: 2.3 Consensus size: 27
31184945 TAAAATTACC
31184955 ATTTTGCCCCTAGGGTGTTAAATGACT
1 ATTTTGCCCCTAGGGTGTTAAATGACT
31184982 ATTTTGCCCCTAGGGTGTTAAATGACT
1 ATTTTGCCCCTAGGGTGTTAAATGACT
31185009 ATTTTGCCC
1 ATTTTGCCC
31185018 ATCGTGCGTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (27 bp):
ATTTTGCCCCTAGGGTGTTAAATGACT
Found at i:31185365 original size:16 final size:16
Alignment explanation
Indices: 31185344--31185375 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
31185334 TTTTAGGCTT
31185344 AATGGGCCAACGGGCC
1 AATGGGCCAACGGGCC
31185360 AATGGGCCAACGGGCC
1 AATGGGCCAACGGGCC
31185376 CACTTTGGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.31, G:0.38, T:0.06
Consensus pattern (16 bp):
AATGGGCCAACGGGCC
Found at i:31190103 original size:134 final size:134
Alignment explanation
Indices: 31189863--31190150 Score: 486
Period size: 134 Copynumber: 2.1 Consensus size: 134
31189853 TGGATAAGTT
31189863 GTAGAATTACCGAAATACCCCTATAGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACTG
1 GTAGAATTACCGAAATACCCCTATAGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACTG
*
31189928 AAATACCCCTGTAGGGTAGAATTATTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTA
66 AAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTA
31189993 TAGG
131 TAGG
** *
31189997 GTAGAATTATTGAAATACCCCTATAGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTATTG
1 GTAGAATTACCGAAATACCCCTATAGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACTG
* * * *
31190062 AAATACCCCTGTAGGGTAGAATTACTGAAATACCCTTGTAGGGTAGAATTACTGAAATACCTCTG
66 AAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTA
31190127 TAGG
131 TAGG
* *
31190131 ATAGAATTACCGAGATACCC
1 GTAGAATTACCGAAATACCC
31190151 TTGTGGGGTA
Statistics
Matches: 142, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
134 142 1.00
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (134 bp):
GTAGAATTACCGAAATACCCCTATAGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACTG
AAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTA
TAGG
Found at i:31190168 original size:27 final size:27
Alignment explanation
Indices: 31189863--31190167 Score: 452
Period size: 27 Copynumber: 11.4 Consensus size: 27
31189853 TGGATAAGTT
* *
31189863 GTAGAATTACCGAAATACCCCTATA-G
1 GTAGAATTACTGAAATACCCCTGTAGG
31189889 GTAGAATTACTGAAATACCCCTGTAGG
1 GTAGAATTACTGAAATACCCCTGTAGG
31189916 GTAGAATTACTGAAATACCCCTGTAGG
1 GTAGAATTACTGAAATACCCCTGTAGG
*
31189943 GTAGAATTATTGAAATACCCCTGTAGG
1 GTAGAATTACTGAAATACCCCTGTAGG
* *
31189970 GTAGAATTACCGAAATACCCCTATAGG
1 GTAGAATTACTGAAATACCCCTGTAGG
* *
31189997 GTAGAATTATTGAAATACCCCTATA-G
1 GTAGAATTACTGAAATACCCCTGTAGG
31190023 GTAGAATTACTGAAATACCCCTGTAGG
1 GTAGAATTACTGAAATACCCCTGTAGG
*
31190050 GTAGAATTATTGAAATACCCCTGTAGG
1 GTAGAATTACTGAAATACCCCTGTAGG
*
31190077 GTAGAATTACTGAAATACCCTTGTAGG
1 GTAGAATTACTGAAATACCCCTGTAGG
*
31190104 GTAGAATTACTGAAATACCTCTGTAGG
1 GTAGAATTACTGAAATACCCCTGTAGG
* * * * *
31190131 ATAGAATTACCGAGATACCCTTGTGGG
1 GTAGAATTACTGAAATACCCCTGTAGG
*
31190158 GTAAAATTAC
1 GTAGAATTAC
31190168 CATTTTGCCC
Statistics
Matches: 254, Mismatches: 23, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
26 47 0.19
27 207 0.81
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (27 bp):
GTAGAATTACTGAAATACCCCTGTAGG
Found at i:31196364 original size:27 final size:27
Alignment explanation
Indices: 31196301--31196550 Score: 349
Period size: 27 Copynumber: 9.3 Consensus size: 27
31196291 TGGATAAGTT
*
31196301 GTAGAATTACCGAAATACCCCTGTA-G
1 GTAGAATTACTGAAATACCCCTGTAGG
31196327 GTAGAATTACTGAAATACCCCTGTAGG
1 GTAGAATTACTGAAATACCCCTGTAGG
* *
31196354 GTAGAATTACTGAAATGCTCCTGTAGG
1 GTAGAATTACTGAAATACCCCTGTAGG
* *
31196381 GTAGAATTACTGAAATACCTCTATAGG
1 GTAGAATTACTGAAATACCCCTGTAGG
* *
31196408 TTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACTGAAATACCCCTGTAGG
*
31196435 GTAGAATTATTGAAATACCCCTGTAGG
1 GTAGAATTACTGAAATACCCCTGTAGG
*
31196462 GTAGAATTACTCAAATACCCCTGTAGG
1 GTAGAATTACTGAAATACCCCTGTAGG
* *
31196489 GTAGAATTACCGACATACCCCTGTAGG
1 GTAGAATTACTGAAATACCCCTGTAGG
* * * *
31196516 GTAGAATTACCGAGATACCCTTGTGGG
1 GTAGAATTACTGAAATACCCCTGTAGG
*
31196543 GTAAAATT
1 GTAGAATT
31196551 CCCATTTTGC
Statistics
Matches: 200, Mismatches: 23, Indels: 1
0.89 0.10 0.00
Matches are distributed among these distances:
26 24 0.12
27 176 0.88
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.27
Consensus pattern (27 bp):
GTAGAATTACTGAAATACCCCTGTAGG
Found at i:31197266 original size:27 final size:26
Alignment explanation
Indices: 31197228--31197287 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
31197218 CCACATATAT
* *
31197228 ATATTTGTTCTGGTGGCCTAGGCACA
1 ATATCTGTTCTGGTGACCTAGGCACA
* * *
31197254 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGGCACA
31197281 ATATCTG
1 ATATCTG
31197288 GCAGCCTCGC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.37
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGGCACA
Found at i:31208653 original size:43 final size:43
Alignment explanation
Indices: 31208586--31208909 Score: 479
Period size: 43 Copynumber: 7.5 Consensus size: 43
31208576 AAGTTTGGTT
* *
31208586 TAATGTAA-TGGCACTAAGTTTGCGATATAATTATAGCTTCGGC
1 TAAT-TAATTGGCACTAAGTGTGCGATACAATTATAGCTTCGGC
31208629 TAATTAATTGGCACTAAGTGTGCGATACAATTATAGCTTCGGC
1 TAATTAATTGGCACTAAGTGTGCGATACAATTATAGCTTCGGC
*
31208672 TAATTAATTGGGACTAAGTGTGCGATACAATTATAGCTTCGGC
1 TAATTAATTGGCACTAAGTGTGCGATACAATTATAGCTTCGGC
** **
31208715 TAATTAATTGGCACTAAGTGTGTAATACAATTATAGCTTCTAC
1 TAATTAATTGGCACTAAGTGTGCGATACAATTATAGCTTCGGC
* * *
31208758 TAATTAATTGGCACTAAGTGTGCAATATAATTATAGCTTCGGT
1 TAATTAATTGGCACTAAGTGTGCGATACAATTATAGCTTCGGC
*
31208801 TAATTAATTGGCACTAAGTGTGCGATACAATTATAGCTTCGGT
1 TAATTAATTGGCACTAAGTGTGCGATACAATTATAGCTTCGGC
* * * *
31208844 TAATTAATTGGCACTAAGTGTGCGAAACCATTATAACTTCGGT
1 TAATTAATTGGCACTAAGTGTGCGATACAATTATAGCTTCGGC
* *
31208887 TAATTAATTAGCACTAAATGTGC
1 TAATTAATTGGCACTAAGTGTGC
31208910 AAGTTTATTG
Statistics
Matches: 260, Mismatches: 20, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
42 3 0.01
43 257 0.99
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.35
Consensus pattern (43 bp):
TAATTAATTGGCACTAAGTGTGCGATACAATTATAGCTTCGGC
Found at i:31213398 original size:56 final size:56
Alignment explanation
Indices: 31213338--31213447 Score: 157
Period size: 56 Copynumber: 2.0 Consensus size: 56
31213328 AGACAGGGTC
* * *
31213338 TTACTCGTAAATACATATCGGAATCACATATCGATGCTAACATATTAAACGTGGAT
1 TTACTCGCAAACACATATCGGAATCACATATCGATGCCAACATATTAAACGTGGAT
* * * *
31213394 TTACTTGCACACACATATTGGAATCACATATCGATGCCAACGTATTAAACGTGG
1 TTACTCGCAAACACATATCGGAATCACATATCGATGCCAACATATTAAACGTGG
31213448 TCTTACACAT
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
56 47 1.00
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.29
Consensus pattern (56 bp):
TTACTCGCAAACACATATCGGAATCACATATCGATGCCAACATATTAAACGTGGAT
Found at i:31213463 original size:43 final size:43
Alignment explanation
Indices: 31213415--31213907 Score: 608
Period size: 43 Copynumber: 11.5 Consensus size: 43
31213405 CACATATTGG
*** * *
31213415 AATCACATATCGATGCCAACGTATTAAACGTGGTCTTACACAT
1 AATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACACGT
* * * *
31213458 AATCACATATTGATGTCAACATCCCAGACGTGGTTTTACACGT
1 AATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACACGT
31213501 GAA-CACATATCGATGCC-ACTGTCCCAGACAG-GGTCTTACACGT
1 -AATCACATATCGATGCCAAC-GTCCCAGAC-GTGGTCTTACACGT
* *
31213544 AATCACATATTGATGCCAACGTCCCAGACGTAGTCTTACACGAT
1 AATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACACG-T
* * *
31213588 AA-CACATATCGATGCC-ACTATCCTAGACAG-GGTCTTACACAT
1 AATCACATATCGATGCCAAC-GTCCCAGAC-GTGGTCTTACACGT
*
31213630 AATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACACAT
1 AATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACACGT
* * *
31213673 AATCACATATCGATACCAATGTCCCAGACATGGTCTTACACGT
1 AATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACACGT
* *
31213716 AATCACATATCGATGCCAATGTCCTAGACGTGGTCTTACACGT
1 AATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACACGT
* *
31213759 AATCACATATCGATGCCAACATCCCAGATGTGGTCTTACACG-
1 AATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACACGT
* *
31213801 AGAACACATATCAATGCC-ACTGTCCCAGACAG-GGTCTTACACGT
1 A-ATCACATATCGATGCCAAC-GTCCCAGAC-GTGGTCTTACACGT
* *
31213845 AATCACATATCGATGCCAACATCCCAGACGTGATCTTACACGT
1 AATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACACGT
31213888 AATCACATATCGATGCCAAC
1 AATCACATATCGATGCCAAC
31213908 TCAAAAATGT
Statistics
Matches: 391, Mismatches: 41, Indels: 36
0.84 0.09 0.08
Matches are distributed among these distances:
42 15 0.04
43 361 0.92
44 15 0.04
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.25
Consensus pattern (43 bp):
AATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACACGT
Found at i:31213465 original size:56 final size:55
Alignment explanation
Indices: 31213350--31213469 Score: 145
Period size: 56 Copynumber: 2.1 Consensus size: 55
31213340 ACTCGTAAAT
* * * *
31213350 ACATATCGGAATCACATATCGATGCTAACATATTAAACGTGGATTTACTTGCACAC
1 ACATATTGGAATCACATATCGATGCCAACATATTAAACGTGGATTTAC-TACAAAC
*
31213406 ACATATTGGAATCACATATCGATGCCAACGTATTAAACGTGG-TCTTAC-ACATAATC
1 ACATATTGGAATCACATATCGATGCCAACATATTAAACGTGGAT-TTACTACA-AA-C
31213462 ACATATTG
1 ACATATTG
31213470 ATGTCAACAT
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
54 2 0.04
55 2 0.04
56 52 0.93
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (55 bp):
ACATATTGGAATCACATATCGATGCCAACATATTAAACGTGGATTTACTACAAAC
Found at i:31220057 original size:27 final size:27
Alignment explanation
Indices: 31220027--31220204 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
31220017 ATATTGAGTC
* * * *
31220027 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
31220054 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
31220081 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
31220109 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
31220136 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
31220163 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
31220190 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
31220205 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:31220166 original size:82 final size:81
Alignment explanation
Indices: 31220048--31220203 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
31220038 TGCTATATAA
* *
31220048 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
31220113 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
31220130 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
31220194 CACTTAGTGC
65 CACTTAGTGC
31220204 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:31222566 original size:29 final size:28
Alignment explanation
Indices: 31222498--31222566 Score: 68
Period size: 29 Copynumber: 2.4 Consensus size: 28
31222488 TTTGTGACAG
* *
31222498 AGGCATTTCCTTTCAGAGGTTCGCCACAT
1 AGGCA-TTCCTTTCAGAGGTTAGCCACAA
* *
31222527 AGGC-TTACCTTTCATGAGTTTATCCACAA
1 AGGCATT-CCTTTCA-GAGGTTAGCCACAA
31222556 AGGCATTCCTT
1 AGGCATTCCTT
31222567 AACATTCAGT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
27 2 0.06
28 7 0.21
29 22 0.67
30 2 0.06
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.33
Consensus pattern (28 bp):
AGGCATTCCTTTCAGAGGTTAGCCACAA
Found at i:31222592 original size:61 final size:61
Alignment explanation
Indices: 31222518--31222709 Score: 189
Period size: 61 Copynumber: 3.2 Consensus size: 61
31222508 TTTCAGAGGT
* *
31222518 TCGCCACATAGGCTTACCTTTCATGAGTTTATCCACAAAGGCATTCCTTAACATTCAGTAC
1 TCGCCACAAAGGCTTACCTTTCATGAGTTTTTCCACAAAGGCATTCCTTAACATTCAGTAC
* ** * * *
31222579 TCGCCACAAAGGCTTTCCTTTC-TAGAGTTTTTCCGTAAAGGCATTTCTT-TCA--AAGGT--
1 TCGCCACAAAGGCTTACCTTTCAT-GAGTTTTTCCACAAAGGCATTCCTTAACATTCA-GTAC
* * * * *
31222636 TCGCAACATAGGTTTACCTTTTATTGAGTTTTTCCACAAAGGCGTTCCTTAACATTCAGTAC
1 TCGCCACAAAGGCTTACCTTTCA-TGAGTTTTTCCACAAAGGCATTCCTTAACATTCAGTAC
*
31222698 TTGCCACAAAGG
1 TCGCCACAAAGG
31222710 TTTTCTTGTC
Statistics
Matches: 100, Mismatches: 22, Indels: 17
0.72 0.16 0.12
Matches are distributed among these distances:
57 17 0.17
58 22 0.22
59 5 0.05
60 5 0.05
61 42 0.42
62 9 0.09
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (61 bp):
TCGCCACAAAGGCTTACCTTTCATGAGTTTTTCCACAAAGGCATTCCTTAACATTCAGTAC
Found at i:31222664 original size:119 final size:117
Alignment explanation
Indices: 31222463--31222835 Score: 412
Period size: 119 Copynumber: 3.1 Consensus size: 117
31222453 CCAGAGATAA
* * *
31222463 CCACAAAGGCTTTCGTGTCTAGA-TTTTT-GTGACAGAGGCATTTCCTTTCAGAGGTTCGCCACA
1 CCACAAAGGCTTTCCTTTCTAGAGTTTTTCGT-A-A-AGGCATTTCCTTTCAAAGGTTCGCCACA
31222526 TAGGCTTACCTTTCATGAGTTTATCCACAAAGGCATTCCTTAACATTCAGTACTCG
63 TAGGCTTACCTTTCATGAGTTT-TCCACAAAGGCATTCCTTAACATTCAGTACTCG
*
31222582 CCACAAAGGCTTTCCTTTCTAGAGTTTTTCCGTAAAGGCATTT-CTTTCAAAGGTTCGCAACATA
1 CCACAAAGGCTTTCCTTTCTAGAGTTTTT-CGTAAAGGCATTTCCTTTCAAAGGTTCGCCACATA
* * * *
31222646 GGTTTACCTTTTATTGAGTTTTTCCACAAAGGCGTTCCTTAACATTCAGTACTTG
65 GGCTTACCTTTCA-TGAG-TTTTCCACAAAGGCATTCCTTAACATTCAGTACTCG
* * * * * ** * * *
31222701 CCACAAAGG-TTTTCTTGTCCAGAGTTTTAACATAGAGTAATTTCCTTTCATAGGTTTGCCACGT
1 CCACAAAGGCTTTCCTT-TCTAGAGTTTT-TCGTAAAGGCATTTCCTTTCAAAGGTTCGCCACAT
* * * * *
31222765 AGGCTTACCTTTCATAAGTTTTACCGCAAAGGCATTCCTTAAAATTTAGTACTCA
64 AGGCTTACCTTTCATGAGTTTT-CCACAAAGGCATTCCTTAACATTCAGTACTCG
*
31222820 CTACAAAGGCTTTCCT
1 CCACAAAGGCTTTCCT
31222836 ATCCAATGTT
Statistics
Matches: 214, Mismatches: 30, Indels: 19
0.81 0.11 0.07
Matches are distributed among these distances:
118 40 0.19
119 129 0.60
120 42 0.20
121 1 0.00
122 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.35
Consensus pattern (117 bp):
CCACAAAGGCTTTCCTTTCTAGAGTTTTTCGTAAAGGCATTTCCTTTCAAAGGTTCGCCACATAG
GCTTACCTTTCATGAGTTTTCCACAAAGGCATTCCTTAACATTCAGTACTCG
Found at i:31226845 original size:16 final size:16
Alignment explanation
Indices: 31226824--31226890 Score: 89
Period size: 16 Copynumber: 4.2 Consensus size: 16
31226814 TGAATTACTA
31226824 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
** *
31226840 ATTACAATTTTATTCC
1 ATTACAGCTCTATTCC
*
31226856 ATTACAGCTCTATTCT
1 ATTACAGCTCTATTCC
*
31226872 ATTACAGCCCTATTCC
1 ATTACAGCTCTATTCC
31226888 ATT
1 ATT
31226891 CCAGTGAACC
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 42 1.00
ACGTcount: A:0.27, C:0.27, G:0.04, T:0.42
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:31229959 original size:30 final size:30
Alignment explanation
Indices: 31229925--31229981 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
31229915 TTCCCGAGCC
31229925 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * *
31229955 TAGGGGCAAAATTGTAATTTTGCAAAA
1 TAGGGGCAAAAGTGTAAATATGCAAAA
31229982 TTTTGAGTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.42, C:0.07, G:0.25, T:0.26
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:31232624 original size:27 final size:27
Alignment explanation
Indices: 31232593--31232770 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
31232583 TAAATTGTAC
31232593 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
31232620 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
31232646 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
31232674 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
31232702 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
31232729 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
31232756 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
31232771 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:31232707 original size:82 final size:81
Alignment explanation
Indices: 31232594--31232749 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
31232584 AAATTGTACA
* *
31232594 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
31232658 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
31232675 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
31232740 TGCGAGTTGA
65 TGCGAATTGA
31232750 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:31232761 original size:82 final size:81
Alignment explanation
Indices: 31232590--31232770 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
31232580 GATTAAATTG
* *
31232590 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
31232655 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
31232671 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
31232735 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
31232753 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
31232771 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:31237291 original size:79 final size:80
Alignment explanation
Indices: 31237085--31237396 Score: 423
Period size: 79 Copynumber: 3.9 Consensus size: 80
31237075 TTACACTATA
* * *
31237085 AGGGTATTTTGATAATTTTACAAATCGAGGGTATTTCGATAATTTTACAAAT-AGAAGGTATTTC
1 AGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCAATAATTTTACAAATCA-AGGGTATTTC
* *
31237149 GGTAATTTTACAAATCG
65 AGTAATTTCAC-AATCG
* * *
31237166 AGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCAGTATTTTTACAAATTAAGGGTATTTCA
1 AGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCAATAATTTTACAAATCAAGGGTATTTCA
31237231 GTAATTTCACAATCG
66 GTAATTTCACAATCG
* * * *
31237246 AGGGTATTTTGAT-ATTTTACAAATTGTGGGTATTTCAATAATTTTACAAATCGAGGGT-TTTCA
1 AGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCAATAATTTTACAAATCAAGGGTATTTCA
31237309 GTAATTTCACAATCG
66 GTAATTTCACAATCG
* * * * * *
31237324 ATGGCATTTCGGTAGTTTTACAAATCGAGGGTATTTCAATAATTTTACAAATCGAGGGTATTTTA
1 AGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCAATAATTTTACAAATCAAGGGTATTTCA
31237389 GTAATTTC
66 GTAATTTC
31237397 TCTTCATTAT
Statistics
Matches: 206, Mismatches: 22, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
78 29 0.14
79 81 0.39
80 29 0.14
81 66 0.32
82 1 0.00
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.39
Consensus pattern (80 bp):
AGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCAATAATTTTACAAATCAAGGGTATTTCA
GTAATTTCACAATCG
Found at i:31237393 original size:27 final size:27
Alignment explanation
Indices: 31237058--31237395 Score: 361
Period size: 27 Copynumber: 12.7 Consensus size: 27
31237048 TTACACTACA
** * *
31237058 AGGGTATTTTGGTAATTTTACACTAT-A
1 AGGGTATTTCAGTAATTTTACA-AATCG
*
31237085 AGGGTATTT-TGATAATTTTACAAATCG
1 AGGGTATTTCAG-TAATTTTACAAATCG
*
31237112 AGGGTATTTC-GATAATTTTACAAATAG
1 AGGGTATTTCAG-TAATTTTACAAATCG
* *
31237139 AAGGTATTTCGGTAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
31237166 AGGGTATTTC-GATAATTTTACAAATCG
1 AGGGTATTTCAG-TAATTTTACAAATCG
* **
31237193 AGGGTATTTCAGTATTTTTACAAATTA
1 AGGGTATTTCAGTAATTTTACAAATCG
*
31237220 AGGGTATTTCAGTAATTTCAC-AATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* *
31237246 AGGGTATTT-TG-ATATTTTACAAATTG
1 AGGGTATTTCAGTA-ATTTTACAAATCG
* *
31237272 TGGGTATTTCAATAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
*
31237299 AGGGT-TTTCAGTAATTTCAC-AATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* * * *
31237324 ATGGCATTTCGGTAGTTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
*
31237351 AGGGTATTTCAATAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
*
31237378 AGGGTATTTTAGTAATTT
1 AGGGTATTTCAGTAATTT
31237396 CTCTTCATTA
Statistics
Matches: 263, Mismatches: 36, Indels: 24
0.81 0.11 0.07
Matches are distributed among these distances:
24 1 0.00
25 15 0.06
26 53 0.20
27 191 0.73
28 3 0.01
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (27 bp):
AGGGTATTTCAGTAATTTTACAAATCG
Found at i:31237748 original size:28 final size:28
Alignment explanation
Indices: 31237711--31237771 Score: 95
Period size: 28 Copynumber: 2.2 Consensus size: 28
31237701 TGGCCCCTTT
* *
31237711 AGGCCCAATCTCGTTCACATGGCCCATC
1 AGGCCCAATCACATTCACATGGCCCATC
*
31237739 AGGCCCAATCACATTCATATGGCCCATC
1 AGGCCCAATCACATTCACATGGCCCATC
31237767 AGGCC
1 AGGCC
31237772 TAACTACTAC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.25, C:0.38, G:0.18, T:0.20
Consensus pattern (28 bp):
AGGCCCAATCACATTCACATGGCCCATC
Found at i:31240121 original size:11 final size:11
Alignment explanation
Indices: 31240105--31240132 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
31240095 GCCAAAGCCC
31240105 ATATCACAATA
1 ATATCACAATA
31240116 ATATCACAATA
1 ATATCACAATA
31240127 ATATCA
1 ATATCA
31240133 TACATGCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.54, C:0.18, G:0.00, T:0.29
Consensus pattern (11 bp):
ATATCACAATA
Found at i:31240648 original size:27 final size:27
Alignment explanation
Indices: 31240618--31240706 Score: 108
Period size: 27 Copynumber: 3.3 Consensus size: 27
31240608 TATGTCAGTC
31240618 ATTTTACACTACAAGGGTATTTTGGTA
1 ATTTTACACTACAAGGGTATTTTGGTA
* *
31240645 ATTTTACACTATAAGGGTATTTTGATA
1 ATTTTACACTACAAGGGTATTTTGGTA
* * * *
31240672 ATTTTACA-AATCGAGGGTGTTTCGGTA
1 ATTTTACACTA-CAAGGGTATTTTGGTA
31240699 ATTTTACA
1 ATTTTACA
31240707 AATTGAGGGT
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
26 1 0.02
27 52 0.98
ACGTcount: A:0.30, C:0.10, G:0.18, T:0.42
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATTTTGGTA
Found at i:31240707 original size:27 final size:27
Alignment explanation
Indices: 31240631--31241022 Score: 400
Period size: 27 Copynumber: 14.7 Consensus size: 27
31240621 TTACACTACA
* * *
31240631 AGGGTATTTTGGTAATTTTACACTAT-A
1 AGGGTATTTCGGTAATTTTACA-AATCG
* *
31240658 AGGGTATTTTGATAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* *
31240685 AGGGTGTTTCGGTAATTTTACAAATTG
1 AGGGTATTTCGGTAATTTTACAAATCG
* * *
31240712 AGGGTATTTCGATAATTTTATAAATTG
1 AGGGTATTTCGGTAATTTTACAAATCG
* **
31240739 AGGGTATTTCGATAATTACACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* *
31240766 AGGGTATTTCGATAATTTTACAAATCA
1 AGGGTATTTCGGTAATTTTACAAATCG
*
31240793 AGGGTATTTCAGTAATTTTAC-AATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
31240819 AGGGTATTTCGGTAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* ** *
31240846 GGGGTATTTCAATAATTTTACAAATCT
1 AGGGTATTTCGGTAATTTTACAAATCG
* ** * *
31240873 AGGGTTTTTCATTGATTTCAC-AATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* *
31240899 AGGGTATTTTGGTAATTTTACAAATCT
1 AGGGTATTTCGGTAATTTTACAAATCG
** *
31240926 AGGGTATTTTAGTAATTTCAC-AATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* *
31240952 AGGATATGTCGGTAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* * **
31240979 AGAGTTTTTTAGTAA-TTT-CATAATCG
1 AGGGTATTTCGGTAATTTTACA-AATCG
31241005 AGGGTATTTCGGTAATTT
1 AGGGTATTTCGGTAATTT
31241023 CTCTTTATTA
Statistics
Matches: 303, Mismatches: 56, Indels: 12
0.82 0.15 0.03
Matches are distributed among these distances:
25 2 0.01
26 84 0.28
27 217 0.72
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (27 bp):
AGGGTATTTCGGTAATTTTACAAATCG
Found at i:31240839 original size:53 final size:54
Alignment explanation
Indices: 31240631--31241022 Score: 406
Period size: 53 Copynumber: 7.3 Consensus size: 54
31240621 TTACACTACA
* * * *
31240631 AGGGTATTTTGGTAATTTTACACTAT-AAGGGTATTTTGATAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACA-AATCGAGGGTATTTCGATAATTTTACAAATCG
* * * *
31240685 AGGGTGTTTCGGTAATTTTACAAATTGAGGGTATTTCGATAATTTTATAAATTG
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCGATAATTTTACAAATCG
* ** *
31240739 AGGGTATTTCGATAATTACACAAATCGAGGGTATTTCGATAATTTTACAAATCA
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCGATAATTTTACAAATCG
* *
31240793 AGGGTATTTCAGTAATTTTAC-AATCGAGGGTATTTCGGTAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCGATAATTTTACAAATCG
* ** * * * *
31240846 GGGGTATTTCAATAATTTTACAAATCTAGGGTTTTTC-ATTGATTTCAC-AATCG
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCGA-TAATTTTACAAATCG
* * * *
31240899 AGGGTATTTTGGTAATTTTACAAATCTAGGGTATTT-TAGTAATTTCAC-AATCG
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCGA-TAATTTTACAAATCG
* * * **
31240952 AGGATATGTCGGTAATTTTACAAATCGAGAGT-TTTTTAGTAA-TTT-CATAATCG
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCGA-TAATTTTACA-AATCG
31241005 AGGGTATTTCGGTAATTT
1 AGGGTATTTCGGTAATTT
31241023 CTCTTTATTA
Statistics
Matches: 288, Mismatches: 43, Indels: 15
0.83 0.12 0.04
Matches are distributed among these distances:
51 1 0.00
52 5 0.02
53 155 0.54
54 127 0.44
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (54 bp):
AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCGATAATTTTACAAATCG
Found at i:31240861 original size:80 final size:80
Alignment explanation
Indices: 31240629--31241014 Score: 377
Period size: 80 Copynumber: 4.8 Consensus size: 80
31240619 TTTTACACTA
** * * *
31240629 CAAGGGTATTTTGGTAATTTTACACTAT-AAGGGTATTTTGATAATTTTACAAATCGAGGGTGTT
1 CAAGGGTATTTCAGTAATTTTACA--ATCGAGGGTATTTTGGTAATTTTACAAATCGAGGGTATT
**
31240693 TCGGTAATTTTACAAAT
64 TCAATAATTTTACAAAT
** * * * * **
31240710 TGAGGGTATTTC-GATAATTTTATAAATTGAGGGTATTTCGATAATTACACAAATCGAGGGTATT
1 CAAGGGTATTTCAG-TAATTTTA-CAATCGAGGGTATTTTGGTAATTTTACAAATCGAGGGTATT
*
31240774 TCGATAATTTTACAAAT
64 TCAATAATTTTACAAAT
* *
31240791 CAAGGGTATTTCAGTAATTTTACAATCGAGGGTATTTCGGTAATTTTACAAATCGGGGGTATTTC
1 CAAGGGTATTTCAGTAATTTTACAATCGAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTC
31240856 AATAATTTTACAAAT
66 AATAATTTTACAAAT
* * * * * * *
31240871 CTAGGGTTTTTCATTGATTTCACAATCGAGGGTATTTTGGTAATTTTACAAATCTAGGGTATTTT
1 CAAGGGTATTTCAGTAATTTTACAATCGAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTC
* *
31240936 AGTAATTTCAC-AAT
66 AATAATTTTACAAAT
* * * * * * *
31240950 CGAGGATATGTCGGTAATTTTACAAATCGAGAGTTTTTTAGTAA-TTT-CATAATCGAGGGTATT
1 CAAGGGTATTTCAGTAATTTTAC-AATCGAGGGTATTTTGGTAATTTTACA-AATCGAGGGTATT
31241013 TC
64 TC
31241015 GGTAATTTCT
Statistics
Matches: 256, Mismatches: 43, Indels: 14
0.82 0.14 0.04
Matches are distributed among these distances:
78 2 0.01
79 34 0.13
80 136 0.53
81 82 0.32
82 2 0.01
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (80 bp):
CAAGGGTATTTCAGTAATTTTACAATCGAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTC
AATAATTTTACAAAT
Found at i:31241376 original size:28 final size:28
Alignment explanation
Indices: 31241352--31241427 Score: 98
Period size: 28 Copynumber: 2.7 Consensus size: 28
31241342 CCGAATCTTG
*
31241352 TTCACATTGCCCATCAGGCCCAATCACT
1 TTCACATGGCCCATCAGGCCCAATCACT
* * *
31241380 TTCATATGGCCCATTAGGCCCAATCACA
1 TTCACATGGCCCATCAGGCCCAATCACT
* *
31241408 TTCATATGGCCCATTAGGCC
1 TTCACATGGCCCATCAGGCC
31241428 TAACTACTTC
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.25, C:0.34, G:0.14, T:0.26
Consensus pattern (28 bp):
TTCACATGGCCCATCAGGCCCAATCACT
Found at i:31248073 original size:29 final size:29
Alignment explanation
Indices: 31248041--31248120 Score: 110
Period size: 29 Copynumber: 2.8 Consensus size: 29
31248031 ACATGGCCTA
*
31248041 TTAGGCCCAAATCACATTTTTAT-AGCCCT
1 TTAGGCCCAAATCACATTTATATGA-CCCT
*
31248070 TTAGGTCCAAATCACATTTATATGACCCT
1 TTAGGCCCAAATCACATTTATATGACCCT
*
31248099 TTAGACCCAAATCACA-TTATAT
1 TTAGGCCCAAATCACATTTATAT
31248121 TCATGCTCAT
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
28 6 0.13
29 39 0.85
30 1 0.02
ACGTcount: A:0.33, C:0.25, G:0.09, T:0.34
Consensus pattern (29 bp):
TTAGGCCCAAATCACATTTATATGACCCT
Found at i:31251376 original size:24 final size:27
Alignment explanation
Indices: 31251344--31251395 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 27
31251334 AGTTCATGCA
31251344 ATATTAAAGC-ATTTAA-ATAC-AACT
1 ATATTAAAGCTATTTAACATACGAACT
31251368 ATATTAAAGCTTATTTAACATACGAACT
1 ATATTAAAGC-TATTTAACATACGAACT
31251396 TACTTCGATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
24 10 0.42
26 6 0.25
27 4 0.17
28 4 0.17
ACGTcount: A:0.46, C:0.13, G:0.06, T:0.35
Consensus pattern (27 bp):
ATATTAAAGCTATTTAACATACGAACT
Found at i:31254941 original size:43 final size:43
Alignment explanation
Indices: 31254903--31255049 Score: 113
Period size: 41 Copynumber: 3.5 Consensus size: 43
31254893 TATGTGTTCT
* *
31254903 TGTGTAAGACCACATCTTGGACATTGGCATCGATATGTGATTA
1 TGTGTAAGACCACATCTGGGACATCGGCATCGATATGTGATTA
** * *
31254946 TGTGTAAGACCATGTCTGGGACATCGGCATTG-TATTTGATT-
1 TGTGTAAGACCACATCTGGGACATCGGCATCGATATGTGATTA
* *** * * * *
31254987 CGTGTAAGACCTTGTCTAGG--ATAGTCATCGATATGTGATTG
1 TGTGTAAGACCACATCTGGGACATCGGCATCGATATGTGATTA
** *
31255028 CATGTAAGACCATATCTGGGAC
1 TGTGTAAGACCACATCTGGGAC
31255050 GTTGGCATTG
Statistics
Matches: 83, Mismatches: 17, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
39 7 0.08
40 8 0.10
41 33 0.40
42 8 0.10
43 27 0.33
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (43 bp):
TGTGTAAGACCACATCTGGGACATCGGCATCGATATGTGATTA
Found at i:31264817 original size:39 final size:40
Alignment explanation
Indices: 31264772--31264882 Score: 98
Period size: 40 Copynumber: 2.8 Consensus size: 40
31264762 CGGGGTTTAG
* * *
31264772 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
31264811 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * *
31264851 CCGGATATAGTCGCTAGCACAAATGCCTTCGG
1 CCGGATATAACCACTAGCATAAAGGCCTTCGG
31264883 ATCTTAGTCC
Statistics
Matches: 60, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
39 15 0.25
40 45 0.75
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:31264842 original size:40 final size:40
Alignment explanation
Indices: 31264795--31264939 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
31264785 CTCGCACAAG
* * * * *
31264795 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
31264835 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
31264875 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
*
31264916 GCCTTCGGGACTTAGCCTGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
31264940 CATTCGAGTA
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.65
41 26 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:31266175 original size:38 final size:38
Alignment explanation
Indices: 31266133--31266208 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
31266123 CAAGAACTCC
31266133 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
31266171 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
31266209 AAAGGATGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.32
Consensus pattern (38 bp):
TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
Found at i:31269589 original size:30 final size:30
Alignment explanation
Indices: 31269555--31269619 Score: 121
Period size: 30 Copynumber: 2.2 Consensus size: 30
31269545 CCCAAAGGCT
*
31269555 GTGTCCTCTACACGGCTGGGACACACGGCC
1 GTGTCCTCTACACAGCTGGGACACACGGCC
31269585 GTGTCCTCTACACAGCTGGGACACACGGCC
1 GTGTCCTCTACACAGCTGGGACACACGGCC
31269615 GTGTC
1 GTGTC
31269620 TCTGCCCGTG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.17, C:0.35, G:0.29, T:0.18
Consensus pattern (30 bp):
GTGTCCTCTACACAGCTGGGACACACGGCC
Found at i:31270962 original size:20 final size:20
Alignment explanation
Indices: 31270937--31270974 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
31270927 GTAACATATA
31270937 TCATGAACTCAGACCACAAC
1 TCATGAACTCAGACCACAAC
* *
31270957 TCATGAGCTCAGATCACA
1 TCATGAACTCAGACCACA
31270975 TAGTTCCTAG
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:0.37, C:0.32, G:0.13, T:0.18
Consensus pattern (20 bp):
TCATGAACTCAGACCACAAC
Found at i:31275121 original size:39 final size:39
Alignment explanation
Indices: 31275025--31275152 Score: 166
Period size: 39 Copynumber: 3.3 Consensus size: 39
31275015 GCTTAAAGAC
* ** * **
31275025 CCGCAGGCTATATGCTTGAATTATATTCGGGCTTAAAGAC
1 CCGCAGGCTATATGCTGGAATTATAACCGGACTT-AAGGT
* *
31275065 CCGAAGGCTATATGCTGGAATTATACCCGGACTTAAGGT
1 CCGCAGGCTATATGCTGGAATTATAACCGGACTTAAGGT
*
31275104 CCGCAGGCTATGTGCTGGAATTATAACCGGACTTAAGGT
1 CCGCAGGCTATATGCTGGAATTATAACCGGACTTAAGGT
31275143 CCGCAGGCTA
1 CCGCAGGCTA
31275153 CGCGCTGGAA
Statistics
Matches: 78, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 49 0.63
40 29 0.37
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.26
Consensus pattern (39 bp):
CCGCAGGCTATATGCTGGAATTATAACCGGACTTAAGGT
Found at i:31275160 original size:39 final size:39
Alignment explanation
Indices: 31275078--31275162 Score: 143
Period size: 39 Copynumber: 2.2 Consensus size: 39
31275068 AAGGCTATAT
* * *
31275078 GCTGGAATTATACCCGGACTTAAGGTCCGCAGGCTATGT
1 GCTGGAATTATAACCGGACTTAAGGTCCGCAGGCTACGC
31275117 GCTGGAATTATAACCGGACTTAAGGTCCGCAGGCTACGC
1 GCTGGAATTATAACCGGACTTAAGGTCCGCAGGCTACGC
31275156 GCTGGAA
1 GCTGGAA
31275163 ATATGTCCTA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (39 bp):
GCTGGAATTATAACCGGACTTAAGGTCCGCAGGCTACGC
Found at i:31283015 original size:39 final size:39
Alignment explanation
Indices: 31282920--31283047 Score: 184
Period size: 39 Copynumber: 3.3 Consensus size: 39
31282910 GCTTAAAGAC
** * **
31282920 CCGCAGGCTATATGCTGGAATTATATTCGGGCTTAAAGAC
1 CCGCAGGCTATATGCTGGAATTATAACCGGACTT-AAGGT
*
31282960 CCGCAGGCTATATGCTGGAATTATACCCGGACTTAAGGT
1 CCGCAGGCTATATGCTGGAATTATAACCGGACTTAAGGT
*
31282999 CCGCAGGCTATGTGCTGGAATTATAACCGGACTTAAGGT
1 CCGCAGGCTATATGCTGGAATTATAACCGGACTTAAGGT
31283038 CCGCAGGCTA
1 CCGCAGGCTA
31283048 CGCGCTGGAA
Statistics
Matches: 81, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 50 0.62
40 31 0.38
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
CCGCAGGCTATATGCTGGAATTATAACCGGACTTAAGGT
Found at i:31283055 original size:39 final size:39
Alignment explanation
Indices: 31282973--31283057 Score: 143
Period size: 39 Copynumber: 2.2 Consensus size: 39
31282963 CAGGCTATAT
* * *
31282973 GCTGGAATTATACCCGGACTTAAGGTCCGCAGGCTATGT
1 GCTGGAATTATAACCGGACTTAAGGTCCGCAGGCTACGC
31283012 GCTGGAATTATAACCGGACTTAAGGTCCGCAGGCTACGC
1 GCTGGAATTATAACCGGACTTAAGGTCCGCAGGCTACGC
31283051 GCTGGAA
1 GCTGGAA
31283058 ATATGTCCTA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (39 bp):
GCTGGAATTATAACCGGACTTAAGGTCCGCAGGCTACGC
Found at i:31294619 original size:39 final size:39
Alignment explanation
Indices: 31294506--31294630 Score: 162
Period size: 39 Copynumber: 3.2 Consensus size: 39
31294496 NNNNNGACCT
* ** **
31294506 GCAGGCTATATGCAGGAATTATATTCGG-CTTAAAGACCC
1 GCAGGCTATATGCTGGAATTATAACCGGACTT-AAGGTCC
* *
31294545 GCAGGCTATATGCTGGAATTATACCCGGACTTAAGGTCT
1 GCAGGCTATATGCTGGAATTATAACCGGACTTAAGGTCC
*
31294584 GCAGGCTATGTGCTGGAATTATAACCGGACTTAAGGTCC
1 GCAGGCTATATGCTGGAATTATAACCGGACTTAAGGTCC
31294623 GCAGGCTA
1 GCAGGCTA
31294631 GGCGCTGGAA
Statistics
Matches: 76, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
39 73 0.96
40 3 0.04
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (39 bp):
GCAGGCTATATGCTGGAATTATAACCGGACTTAAGGTCC
Found at i:31294638 original size:39 final size:39
Alignment explanation
Indices: 31294556--31294640 Score: 134
Period size: 39 Copynumber: 2.2 Consensus size: 39
31294546 CAGGCTATAT
* * * *
31294556 GCTGGAATTATACCCGGACTTAAGGTCTGCAGGCTATGT
1 GCTGGAATTATAACCGGACTTAAGGTCCGCAGGCTAGGC
31294595 GCTGGAATTATAACCGGACTTAAGGTCCGCAGGCTAGGC
1 GCTGGAATTATAACCGGACTTAAGGTCCGCAGGCTAGGC
31294634 GCTGGAA
1 GCTGGAA
31294641 ATATGTCCTA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.25, C:0.21, G:0.31, T:0.24
Consensus pattern (39 bp):
GCTGGAATTATAACCGGACTTAAGGTCCGCAGGCTAGGC
Found at i:31308999 original size:14 final size:13
Alignment explanation
Indices: 31308966--31309005 Score: 55
Period size: 14 Copynumber: 3.1 Consensus size: 13
31308956 AATATCCTGG
31308966 AAAATTAA-AACA
1 AAAATTAAGAACA
*
31308978 AGAATTAAGAACA
1 AAAATTAAGAACA
31308991 CAAAATTAAGAACA
1 -AAAATTAAGAACA
31309005 A
1 A
31309006 GTCAAATATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 7 0.29
13 5 0.21
14 12 0.50
ACGTcount: A:0.68, C:0.10, G:0.07, T:0.15
Consensus pattern (13 bp):
AAAATTAAGAACA
Found at i:31312653 original size:16 final size:16
Alignment explanation
Indices: 31312632--31312668 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
31312622 ATAGGAAATT
31312632 TGGCCATCATGGGTTA
1 TGGCCATCATGGGTTA
31312648 TGGCCATCATGGGTTA
1 TGGCCATCATGGGTTA
31312664 TGGCC
1 TGGCC
31312669 TAATTGTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.16, C:0.22, G:0.32, T:0.30
Consensus pattern (16 bp):
TGGCCATCATGGGTTA
Found at i:31313269 original size:45 final size:45
Alignment explanation
Indices: 31313143--31313275 Score: 135
Period size: 45 Copynumber: 2.9 Consensus size: 45
31313133 TACTAATATA
* *
31313143 TCAGCTCGTAAGAGCTTACTGTTTTCAGCTCATTGGAGCTTACCGTT
1 TCAGCTCGTAA-AGCTTACTG-TTTCAGCTCAATAGAGCTTACCGTT
* * * ** **
31313190 TCAACTCGTATGAGCTTACTATTT-AGCTTGATAGAGCTTATTGTT
1 TCAGCTCGTA-AAGCTTACTGTTTCAGCTCAATAGAGCTTACCGTT
31313235 T-AGCTCGATAAAGCTTACTGTTTCAGCTCAATAGAGCTTAC
1 TCAGCTCG-TAAAGCTTACTGTTTCAGCTCAATAGAGCTTAC
31313276 TGTCCATTAG
Statistics
Matches: 68, Mismatches: 15, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
44 16 0.24
45 32 0.47
46 3 0.04
47 17 0.25
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (45 bp):
TCAGCTCGTAAAGCTTACTGTTTCAGCTCAATAGAGCTTACCGTT
Found at i:31313272 original size:23 final size:23
Alignment explanation
Indices: 31313153--31313278 Score: 114
Period size: 23 Copynumber: 5.5 Consensus size: 23
31313143 TCAGCTCGTA
*
31313153 AGAGCTTACTGTTTTCAGCTCATT
1 AGAGCTTACTG-TTTCAGCTCAAT
* * * *
31313177 GGAGCTTACCGTTTCAACTC-GT
1 AGAGCTTACTGTTTCAGCTCAAT
* **
31313199 ATGAGCTTACTATTT-AGCTTGAT
1 A-GAGCTTACTGTTTCAGCTCAAT
* *
31313222 AGAGCTTATTGTTT-AGCTCGAT
1 AGAGCTTACTGTTTCAGCTCAAT
*
31313244 AAAGCTTACTGTTTCAGCTCAAT
1 AGAGCTTACTGTTTCAGCTCAAT
31313267 AGAGCTTACTGT
1 AGAGCTTACTGT
31313279 CCATTAGCCC
Statistics
Matches: 82, Mismatches: 17, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
22 34 0.41
23 39 0.48
24 9 0.11
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.38
Consensus pattern (23 bp):
AGAGCTTACTGTTTCAGCTCAAT
Found at i:31313923 original size:17 final size:17
Alignment explanation
Indices: 31313901--31313933 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
31313891 CACATTGAAG
31313901 TGTTTTAGCGAAAACCT
1 TGTTTTAGCGAAAACCT
*
31313918 TGTTTTATCGAAAACC
1 TGTTTTAGCGAAAACC
31313934 CTTCTTTAAA
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:0.30, C:0.18, G:0.15, T:0.36
Consensus pattern (17 bp):
TGTTTTAGCGAAAACCT
Found at i:31315076 original size:28 final size:29
Alignment explanation
Indices: 31315044--31315135 Score: 116
Period size: 29 Copynumber: 3.2 Consensus size: 29
31315034 TACTTACATG
*
31315044 CATATGGCCCACTAGGCCC-AATCTCATT
1 CATATGGCCCATTAGGCCCAAATCTCATT
31315072 CATATGGCCCATTAGGCCCAAATCAT-ATT
1 CATATGGCCCATTAGGCCCAAATC-TCATT
** * *
31315101 GGTATAGCCCATTAGGCCCAAATCACATT
1 CATATGGCCCATTAGGCCCAAATCTCATT
31315130 CATATG
1 CATATG
31315136 TCATGCTTTC
Statistics
Matches: 53, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
28 18 0.34
29 34 0.64
30 1 0.02
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (29 bp):
CATATGGCCCATTAGGCCCAAATCTCATT
Found at i:31315355 original size:16 final size:16
Alignment explanation
Indices: 31315334--31315364 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
31315324 AAACTTCTAG
31315334 CTTTTCGGCATTTCGC
1 CTTTTCGGCATTTCGC
31315350 CTTTTCGGCATTTCG
1 CTTTTCGGCATTTCG
31315365 GGATTTGCCG
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:0.06, C:0.29, G:0.19, T:0.45
Consensus pattern (16 bp):
CTTTTCGGCATTTCGC
Found at i:31328576 original size:16 final size:16
Alignment explanation
Indices: 31328555--31328585 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
31328545 TGGTGACCGT
31328555 GAATTACAAGTTAAAC
1 GAATTACAAGTTAAAC
31328571 GAATTACAAGTTAAA
1 GAATTACAAGTTAAA
31328586 AGCTAAATCT
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:0.52, C:0.10, G:0.13, T:0.26
Consensus pattern (16 bp):
GAATTACAAGTTAAAC
Found at i:31330573 original size:32 final size:32
Alignment explanation
Indices: 31330532--31330599 Score: 127
Period size: 32 Copynumber: 2.1 Consensus size: 32
31330522 ATAGATTTTG
31330532 AATGATGCCATTATTGAATGCTTGGTTGTTTA
1 AATGATGCCATTATTGAATGCTTGGTTGTTTA
*
31330564 AATGATGCCATTGTTGAATGCTTGGTTGTTTA
1 AATGATGCCATTATTGAATGCTTGGTTGTTTA
31330596 AATG
1 AATG
31330600 TTTAATGATA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.25, C:0.09, G:0.24, T:0.43
Consensus pattern (32 bp):
AATGATGCCATTATTGAATGCTTGGTTGTTTA
Found at i:31331317 original size:22 final size:22
Alignment explanation
Indices: 31331292--31331342 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
31331282 TGGCTCATTG
31331292 GAACTTATTGTTCAGCTCGATA
1 GAACTTATTGTTCAGCTCGATA
* *
31331314 GAACTTATTTTTTAGCTCGATA
1 GAACTTATTGTTCAGCTCGATA
*
31331336 GAGCTTA
1 GAACTTA
31331343 CTGTCCATCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (22 bp):
GAACTTATTGTTCAGCTCGATA
Found at i:31334168 original size:25 final size:25
Alignment explanation
Indices: 31334140--31334224 Score: 89
Period size: 25 Copynumber: 3.4 Consensus size: 25
31334130 ATATTCTGTA
*
31334140 AAGCTTTTGTAGAGAACTCTTTGTG
1 AAGCCTTTGTAGAGAACTCTTTGTG
*
31334165 AAGCCTTTGTGGAGAACTCTTTGTG
1 AAGCCTTTGTAGAGAACTCTTTGTG
* * * * * *
31334190 GAGCCTTTATGGTGAACTCTCTATG
1 AAGCCTTTGTAGAGAACTCTTTGTG
*
31334215 AAGTCTTTGT
1 AAGCCTTTGT
31334225 GGAAAATTCC
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 50 1.00
ACGTcount: A:0.21, C:0.15, G:0.25, T:0.39
Consensus pattern (25 bp):
AAGCCTTTGTAGAGAACTCTTTGTG
Found at i:31334188 original size:14 final size:14
Alignment explanation
Indices: 31334145--31334192 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
31334135 CTGTAAAGCT
*
31334145 TTTGTAGAGAACTC
1 TTTGTGGAGAACTC
*
31334159 TTTGT-GA-AGC-C
1 TTTGTGGAGAACTC
31334170 TTTGTGGAGAACTC
1 TTTGTGGAGAACTC
31334184 TTTGTGGAG
1 TTTGTGGAG
31334193 CCTTTATGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
11 6 0.21
12 4 0.14
13 4 0.14
14 15 0.52
ACGTcount: A:0.21, C:0.12, G:0.29, T:0.38
Consensus pattern (14 bp):
TTTGTGGAGAACTC
Found at i:31336584 original size:333 final size:333
Alignment explanation
Indices: 31335967--31336599 Score: 1160
Period size: 333 Copynumber: 1.9 Consensus size: 333
31335957 TCATCATATC
31335967 ATATAAATAACAATAAATTACTTAAAATGATAATTATGTTACTACATTTACACCTGAACTTACCT
1 ATATAAATAACAATAAATTACTTAAAATGATAATTATGTTACTACATTTACACCTGAACTTACCT
31336032 AGGTACAAAATAAAGAAATTTTGCAATTTAGTCCACAATCTTTTCCTTTACCAGATCAAGGTTGA
66 AGGTACAAAATAAAGAAATTTTGCAATTTAGTCCACAATCTTTTCCTTTACCAGATCAAGGTTGA
* *
31336097 TTCAACGTCTTTCTTGGTCTAAAATAACACATTTTGTTGATTTAATACTCACATTTATCAAAATA
131 TTCAACGTCTTTCTTGGTCTAAAATAACACATTTAGCTGATTTAATACTCACATTTATCAAAATA
31336162 GTCCTTAACTCACTTTGGAAAATTACAATTTTACCCCTAAACTTTTGCATATTTACACTTTTGCC
196 GTCCTTAACTCACTTTGGAAAATTACAATTTTACCCCTAAACTTTTGCATATTTACACTTTTGCC
*
31336227 CCAAAGCTCAAAAATTATATTTTTTTTCCAAAATTATTATAAATAACATTAAATTATCATATCAC
261 CCAAAGCTCAAAAATTATATTTTTTTTCCAAAATCATTATAAATAACATTAAATTATCATATCAC
31336292 AAAGTATA
326 AAAGTATA
* * *
31336300 ATATAAATAACATTAAATTACTTAAAATGATAATTATGTTACTACATTTGCACTTGAACTTACCT
1 ATATAAATAACAATAAATTACTTAAAATGATAATTATGTTACTACATTTACACCTGAACTTACCT
*
31336365 AGGTACAAAATAAAGAAATTTTGCAATTTAGTCCACAATCTTTTCCTTTCCCAGATCAAGGTTGA
66 AGGTACAAAATAAAGAAATTTTGCAATTTAGTCCACAATCTTTTCCTTTACCAGATCAAGGTTGA
*
31336430 TTCAACGTCTTTCTTGGTCTCAAATAACACATTTAGCTGATTTAATACTCACATTTATCAAAATA
131 TTCAACGTCTTTCTTGGTCTAAAATAACACATTTAGCTGATTTAATACTCACATTTATCAAAATA
* *
31336495 GTCCTTAACTCACTTTGGAAAAATTATAATTTTGCCCCTAAACTTTTGCATATTTACACTTTTGC
196 GTCCTTAACTCACTTTGG-AAAATTACAATTTTACCCCTAAACTTTTGCATATTTACACTTTTGC
31336560 CCCAAAGCTCAAAAATTA-ATTTTTTTTCCAAAATCATTAT
260 CCCAAAGCTCAAAAATTATATTTTTTTTCCAAAATCATTAT
31336600 GTTTTATGAC
Statistics
Matches: 289, Mismatches: 10, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
333 227 0.79
334 62 0.21
ACGTcount: A:0.37, C:0.18, G:0.08, T:0.37
Consensus pattern (333 bp):
ATATAAATAACAATAAATTACTTAAAATGATAATTATGTTACTACATTTACACCTGAACTTACCT
AGGTACAAAATAAAGAAATTTTGCAATTTAGTCCACAATCTTTTCCTTTACCAGATCAAGGTTGA
TTCAACGTCTTTCTTGGTCTAAAATAACACATTTAGCTGATTTAATACTCACATTTATCAAAATA
GTCCTTAACTCACTTTGGAAAATTACAATTTTACCCCTAAACTTTTGCATATTTACACTTTTGCC
CCAAAGCTCAAAAATTATATTTTTTTTCCAAAATCATTATAAATAACATTAAATTATCATATCAC
AAAGTATA
Found at i:31343018 original size:28 final size:28
Alignment explanation
Indices: 31342987--31343078 Score: 78
Period size: 33 Copynumber: 3.1 Consensus size: 28
31342977 CATTCACTCA
31342987 CAGTCTGGGCCTTAACCCTATACAGTAT
1 CAGTCTGGGCCTTAACCCTATACAGTAT
* *
31343015 CAGTGCAATCTGGGCCTTAGCCCTATACAGTAA
1 CA--G---TCTGGGCCTTAACCCTATACAGTAT
* * *
31343048 CAGTGTGGGCC-TAAGCCCAATATAGTAT
1 CAGTCTGGGCCTTAA-CCCTATACAGTAT
31343076 CAG
1 CAG
31343079 AACAGTGTAA
Statistics
Matches: 51, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
27 2 0.04
28 22 0.43
30 1 0.02
31 1 0.02
33 25 0.49
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (28 bp):
CAGTCTGGGCCTTAACCCTATACAGTAT
Found at i:31343032 original size:33 final size:33
Alignment explanation
Indices: 31342990--31343052 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
31342980 TCACTCACAG
*
31342990 TCTGGGCCTTAACCCTATACAGTATCAGTGCAA
1 TCTGGGCCTTAACCCTATACAGTAACAGTGCAA
*
31343023 TCTGGGCCTTAGCCCTATACAGTAACAGTG
1 TCTGGGCCTTAACCCTATACAGTAACAGTG
31343053 TGGGCCTAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (33 bp):
TCTGGGCCTTAACCCTATACAGTAACAGTGCAA
Found at i:31343462 original size:27 final size:27
Alignment explanation
Indices: 31343432--31343483 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
31343422 GGGCATAATC
31343432 GTCATTTTACCATATAGGGGTATTATA
1 GTCATTTTACCATATAGGGGTATTATA
* *
31343459 GTCATTTTTCCCTATAGGGGTATTA
1 GTCATTTTACCATATAGGGGTATTA
31343484 CAGTAATCCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.25, C:0.13, G:0.19, T:0.42
Consensus pattern (27 bp):
GTCATTTTACCATATAGGGGTATTATA
Found at i:31343498 original size:27 final size:27
Alignment explanation
Indices: 31343439--31343509 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
31343429 ATCGTCATTT
* * * **
31343439 TACCATATAGGGGTATTATAGTCATTT
1 TACCCTATAGGGGTATTACAGTAATCC
*
31343466 TTCCCTATAGGGGTATTACAGTAATCC
1 TACCCTATAGGGGTATTACAGTAATCC
*
31343493 TACCCTACAGGGGTATT
1 TACCCTATAGGGGTATT
31343510 TCGATAATTT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (27 bp):
TACCCTATAGGGGTATTACAGTAATCC
Found at i:31343532 original size:27 final size:27
Alignment explanation
Indices: 31343500--31343668 Score: 130
Period size: 27 Copynumber: 6.3 Consensus size: 27
31343490 TCCTACCCTA
*
31343500 CAGGGGTATTTCGA-TAATTTTGCAAAT
1 CAGGGGTATTT-GAGTAATTTTACAAAT
** *
31343527 TGGGGGTATTTTAGTAATTTTACAAAT
1 CAGGGGTATTTGAGTAATTTTACAAAT
* * *
31343554 CAGGGGTATTTTAGTAAGTTTAC-AAC
1 CAGGGGTATTTGAGTAATTTTACAAAT
* **
31343580 CCGAGGGTATTTCG-GTAATTTCGCAAAT
1 CAG-GGGTATTT-GAGTAATTTTACAAAT
* * **
31343608 CAGGGGTATTTCAGTAAGTTTACAACC
1 CAGGGGTATTTGAGTAATTTTACAAAT
* *
31343635 CTGGGGTATTTCGA-TAATTTCACAAAT
1 CAGGGGTATTT-GAGTAATTTTACAAAT
31343662 CAGGGGT
1 CAGGGGT
31343669 CTTAACGATA
Statistics
Matches: 108, Mismatches: 28, Indels: 12
0.73 0.19 0.08
Matches are distributed among these distances:
26 5 0.05
27 98 0.91
28 5 0.05
ACGTcount: A:0.28, C:0.13, G:0.24, T:0.35
Consensus pattern (27 bp):
CAGGGGTATTTGAGTAATTTTACAAAT
Found at i:31343588 original size:54 final size:54
Alignment explanation
Indices: 31343529--31343668 Score: 194
Period size: 54 Copynumber: 2.6 Consensus size: 54
31343519 TTGCAAATTG
* *
31343529 GGGGTATTTTAGTAATTTTACAAATCAGGGGTATTTTAGTAAGTTTACAACCC-
1 GGGGTATTTTAGTAATTTCACAAATCAGGGGTATTTCAGTAAGTTTACAACCCT
** *
31343582 GAGGGTATTTCGGTAATTTCGCAAATCAGGGGTATTTCAGTAAGTTTACAACCCT
1 G-GGGTATTTTAGTAATTTCACAAATCAGGGGTATTTCAGTAAGTTTACAACCCT
*
31343637 GGGGTA-TTTCGATAATTTCACAAATCAGGGGT
1 GGGGTATTTTAG-TAATTTCACAAATCAGGGGT
31343669 CTTAACGATA
Statistics
Matches: 76, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
53 4 0.05
54 71 0.93
55 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.34
Consensus pattern (54 bp):
GGGGTATTTTAGTAATTTCACAAATCAGGGGTATTTCAGTAAGTTTACAACCCT
Found at i:31355570 original size:46 final size:47
Alignment explanation
Indices: 31355518--31355646 Score: 158
Period size: 47 Copynumber: 2.7 Consensus size: 47
31355508 CATCTCGAGG
*
31355518 TCGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTC-TTA-GTGC
1 TCGATGCATGTCCCAGACATGTCTTACACTAGCACTC--CATAATGTGC
* * *
31355565 T-GATGCCATGTCCCAAACATGGTCTTACACTAGC-TTCCATAATGTGG
1 TCGATG-CATGTCCCAGACAT-GTCTTACACTAGCACTCCATAATGTGC
31355612 TCGATGCATGTCCCAGACATGTCTTACACTAGCAC
1 TCGATGCATGTCCCAGACATGTCTTACACTAGCAC
31355647 ACACAAGAGA
Statistics
Matches: 70, Mismatches: 6, Indels: 12
0.80 0.07 0.14
Matches are distributed among these distances:
45 1 0.01
46 19 0.27
47 33 0.47
48 17 0.24
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.29
Consensus pattern (47 bp):
TCGATGCATGTCCCAGACATGTCTTACACTAGCACTCCATAATGTGC
Found at i:31355622 original size:47 final size:45
Alignment explanation
Indices: 31355473--31355644 Score: 159
Period size: 46 Copynumber: 3.7 Consensus size: 45
31355463 ATCTCATAGC
* * * * * * *
31355473 CGATACATGTTCCAAACATGTCTTACATTGGCTTACATCTCGAGGT
1 CGATGCATGTCCCAAACATGTCTTACACTAGCTTCCATAT-GTGGT
* * * *
31355519 CGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTTA-GTGCT
1 CGATGCATGTCCCAAACATGTCTTACACTAGC-TTC--CATATGTGGT
31355566 -GATGCCATGTCCCAAACATGGTCTTACACTAGCTTCCATAATGTGGT
1 CGATG-CATGTCCCAAACAT-GTCTTACACTAGCTTCCAT-ATGTGGT
*
31355613 CGATGCATGTCCCAGACATGTCTTACACTAGC
1 CGATGCATGTCCCAAACATGTCTTACACTAGC
31355645 ACACACAAGA
Statistics
Matches: 102, Mismatches: 16, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
45 2 0.02
46 45 0.44
47 36 0.35
48 17 0.17
49 2 0.02
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (45 bp):
CGATGCATGTCCCAAACATGTCTTACACTAGCTTCCATATGTGGT
Found at i:31372819 original size:46 final size:46
Alignment explanation
Indices: 31372732--31372951 Score: 225
Period size: 46 Copynumber: 4.7 Consensus size: 46
31372722 GGTAAGGTTT
*
31372732 CGATGCCATGTCCCAGACATGGTCTTACACT-GATTATCATCTCGTAGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTTA-CATCTCGTAGC
* *
31372780 CGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTC-AAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTTACATCTCGTA-GC
* * * *
31372826 CGATGCATGTCCCAGACATGTCTTGCACTAGCACT-CGTCTCAATA-C
1 CGATGCATGTCCCAGACATGTCTTACACTAGC-TTACATCTC-GTAGC
* * *
31372872 CGATGCCATGTCCCAGACATGCTCTTACACTAGCTTCCATAAT-GTGGC
1 CGATG-CATGTCCCAGACATG-TCTTACACTAGCTTACAT-CTCGTAGC
*
31372920 CGATGCATGTCCTAGACATGTCTTACACTAGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGC
31372952 ACTCACAAGT
Statistics
Matches: 148, Mismatches: 14, Indels: 22
0.80 0.08 0.12
Matches are distributed among these distances:
45 1 0.01
46 71 0.48
47 50 0.34
48 25 0.17
49 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTTACATCTCGTAGC
Found at i:31372938 original size:94 final size:92
Alignment explanation
Indices: 31372732--31372955 Score: 265
Period size: 94 Copynumber: 2.4 Consensus size: 92
31372722 GGTAAGGTTT
** * *
31372732 CGATGCCATGTCCCAGACATGGTCTTACACTGATTA-TCATCTC-GTAGCCGATGCATGTCCCAG
1 CGATG-CATGTCCCAGACAT-GTCTTACACT-AGCACTCGTCTCAATA-CCGATGCATGTCCCAG
* *
31372795 ACATGTCTTACACTGGCTTACATCTCAAGGC
62 ACATGTCTTACACTAGCTTACATATCAAGGC
*
31372826 CGATGCATGTCCCAGACATGTCTTGCACTAGCACTCGTCTCAATACCGATGCCATGTCCCAGACA
1 CGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAATACCGATG-CATGTCCCAGACA
* **
31372891 TGCTCTTACACTAGCTTCCATAAT-GTGGC
65 TG-TCTTACACTAGCTTACAT-ATCAAGGC
*
31372920 CGATGCATGTCCTAGACATGTCTTACACTAGCACTC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCACTC
31372956 ACAAGTGACC
Statistics
Matches: 113, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
91 2 0.02
92 21 0.19
93 31 0.27
94 58 0.51
95 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (92 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAATACCGATGCATGTCCCAGACAT
GTCTTACACTAGCTTACATATCAAGGC
Found at i:31376635 original size:22 final size:23
Alignment explanation
Indices: 31376601--31376644 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
31376591 TCTATCAAAA
31376601 ATTATCAAAATTAATCAAAATTT
1 ATTATCAAAATTAATCAAAATTT
*
31376624 ATTAT-AAAATTAATTAAAATT
1 ATTATCAAAATTAATCAAAATT
31376645 CAAAATTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (23 bp):
ATTATCAAAATTAATCAAAATTT
Found at i:31379039 original size:18 final size:18
Alignment explanation
Indices: 31379007--31379045 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
31378997 ACTTTATTAG
** *
31379007 AAAAAACCTTGTGGGATA
1 AAAAAACCTAATGGGACA
31379025 AAAAAACCTAATGGGACA
1 AAAAAACCTAATGGGACA
31379043 AAA
1 AAA
31379046 CCTAATGAAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.54, C:0.13, G:0.18, T:0.15
Consensus pattern (18 bp):
AAAAAACCTAATGGGACA
Found at i:31382437 original size:31 final size:31
Alignment explanation
Indices: 31382402--31382463 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
31382392 TAAAGCTTAG
31382402 TAAGTCCATATGAAAATAATAAACACTATGC
1 TAAGTCCATATGAAAATAATAAACACTATGC
31382433 TAAGTCCATATGAAAATAATAAACACTATGC
1 TAAGTCCATATGAAAATAATAAACACTATGC
31382464 CAACAAGCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.48, C:0.16, G:0.10, T:0.26
Consensus pattern (31 bp):
TAAGTCCATATGAAAATAATAAACACTATGC
Found at i:31383208 original size:32 final size:32
Alignment explanation
Indices: 31383170--31383237 Score: 136
Period size: 32 Copynumber: 2.1 Consensus size: 32
31383160 AGTTAACATG
31383170 ATATTGCAACAAAATTTATAATCATAATTCAT
1 ATATTGCAACAAAATTTATAATCATAATTCAT
31383202 ATATTGCAACAAAATTTATAATCATAATTCAT
1 ATATTGCAACAAAATTTATAATCATAATTCAT
31383234 ATAT
1 ATAT
31383238 CTTAGCTCAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.47, C:0.12, G:0.03, T:0.38
Consensus pattern (32 bp):
ATATTGCAACAAAATTTATAATCATAATTCAT
Found at i:31386722 original size:23 final size:23
Alignment explanation
Indices: 31386695--31386740 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
31386685 TTATTTCTAT
31386695 ATGTAAAACATGTACAGGTTTTA
1 ATGTAAAACATGTACAGGTTTTA
31386718 ATGTAAAACATGTACAGGTTTTA
1 ATGTAAAACATGTACAGGTTTTA
31386741 TTCAACATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.09, G:0.17, T:0.35
Consensus pattern (23 bp):
ATGTAAAACATGTACAGGTTTTA
Found at i:31387944 original size:5 final size:5
Alignment explanation
Indices: 31387934--31387965 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
31387924 GTATATGTGA
31387934 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
31387966 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:31387959 original size:9 final size:9
Alignment explanation
Indices: 31387935--31387965 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
31387925 TATATGTGAA
31387935 AAATAAAAT
1 AAATAAAAT
31387944 AAAATAAAAT
1 -AAATAAAAT
31387954 AAATAAAAT
1 AAATAAAAT
31387963 AAA
1 AAA
31387966 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Done.