Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 92 of 373
Found at i:29470568 original size:18 final size:19
Alignment explanation
Indices: 29470530--29470568 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
29470520 ATTTTCTTTC
**
29470530 AATGATAAATGAAAATGAA
1 AATGATAAATGAAAAAAAA
29470549 AATGA-AAATGAAAAAAAA
1 AATGATAAATGAAAAAAAA
29470567 AA
1 AA
29470569 AGAGAATCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.72, C:0.00, G:0.13, T:0.15
Consensus pattern (19 bp):
AATGATAAATGAAAAAAAA
Found at i:29470870 original size:3 final size:3
Alignment explanation
Indices: 29470862--29470892 Score: 53
Period size: 3 Copynumber: 10.0 Consensus size: 3
29470852 TTATTTTTCC
29470862 TTA TTA TTA TTA TTA TTA TTA TTA TTTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA
29470893 AAATGGTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 24 0.89
4 3 0.11
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:29471053 original size:16 final size:17
Alignment explanation
Indices: 29471032--29471066 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
29471022 ACTATTTAAT
29471032 ATATAAATTAA-AAACA
1 ATATAAATTAAGAAACA
29471048 ATATAAATTAAGAAACA
1 ATATAAATTAAGAAACA
29471065 AT
1 AT
29471067 CACTTATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.66, C:0.06, G:0.03, T:0.26
Consensus pattern (17 bp):
ATATAAATTAAGAAACA
Found at i:29472054 original size:5 final size:5
Alignment explanation
Indices: 29472044--29472145 Score: 163
Period size: 5 Copynumber: 20.2 Consensus size: 5
29472034 TAATTATGTT
29472044 TTATA TTATA TTATTA TTA-A -TATA TTATA TTATA TTATA TTATA TTATA
1 TTATA TTATA TTA-TA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
29472093 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATTA TTATA TATATA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTA-TA TTATA T-TATA
29472145 T
1 T
29472146 GACAAAGAAA
Statistics
Matches: 92, Mismatches: 0, Indels: 9
0.91 0.00 0.09
Matches are distributed among these distances:
3 2 0.02
4 2 0.02
5 73 0.79
6 15 0.16
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TTATA
Found at i:29472211 original size:40 final size:40
Alignment explanation
Indices: 29472154--29472249 Score: 147
Period size: 40 Copynumber: 2.4 Consensus size: 40
29472144 ATGACAAAGA
29472154 AAGAAAGAAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
1 AAGAAAG-AAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
* *
29472195 GAGAAAGAAAGAAACAGAGAGCAAAACGAAACAGAGAAGG
1 AAGAAAGAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
*
29472235 AAGGAAGGAAAGAAA
1 AA-GAAAGAAAGAAA
29472250 AAAAGAAAAG
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
40 33 0.66
41 17 0.34
ACGTcount: A:0.64, C:0.08, G:0.28, T:0.00
Consensus pattern (40 bp):
AAGAAAGAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
Found at i:29473663 original size:41 final size:39
Alignment explanation
Indices: 29473615--29473726 Score: 111
Period size: 37 Copynumber: 2.9 Consensus size: 39
29473605 TCGACCTTGA
29473615 GTCGATGAGACACTGGGTGTCATACTATTACTTCGGATAG
1 GTCGATGAGACACTGGGTGTCA-ACTATTACTTCGGATAG
* ** ** * *
29473655 ATTCGATGAGGTACTGGGTACCAAC--TTACTTCGGCTTG
1 -GTCGATGAGACACTGGGTGTCAACTATTACTTCGGATAG
* *
29473693 GCCGATGAGACACTGGGTGTCAACTATTGCTTCG
1 GTCGATGAGACACTGGGTGTCAACTATTACTTCG
29473727 AACTATCCGA
Statistics
Matches: 55, Mismatches: 14, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
37 18 0.33
38 11 0.20
39 7 0.13
40 2 0.04
41 17 0.31
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (39 bp):
GTCGATGAGACACTGGGTGTCAACTATTACTTCGGATAG
Found at i:29475199 original size:15 final size:15
Alignment explanation
Indices: 29475175--29475204 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
29475165 CATGGTCATT
*
29475175 AAACCTTAAACCATA
1 AAACCCTAAACCATA
29475190 AAACCCTAAACCATA
1 AAACCCTAAACCATA
29475205 GACCTTATAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.53, C:0.30, G:0.00, T:0.17
Consensus pattern (15 bp):
AAACCCTAAACCATA
Found at i:29475406 original size:38 final size:39
Alignment explanation
Indices: 29475351--29475430 Score: 117
Period size: 38 Copynumber: 2.1 Consensus size: 39
29475341 TTTTTGGGGG
* *
29475351 TTTAAGGTTTTAGGGGTTATAGTTTAGTATTTAGGGTTT
1 TTTAAGGTTTTAGGGGTTATAGATTAGTATTTAGGATTT
* *
29475390 TTTAAGG-TTTAGGGGTTATAGATTAGTGTTTATGATTT
1 TTTAAGGTTTTAGGGGTTATAGATTAGTATTTAGGATTT
29475428 TTT
1 TTT
29475431 TGGGGTTTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
38 30 0.81
39 7 0.19
ACGTcount: A:0.21, C:0.00, G:0.26, T:0.53
Consensus pattern (39 bp):
TTTAAGGTTTTAGGGGTTATAGATTAGTATTTAGGATTT
Found at i:29475431 original size:39 final size:39
Alignment explanation
Indices: 29475351--29475449 Score: 110
Period size: 38 Copynumber: 2.5 Consensus size: 39
29475341 TTTTTGGGGG
* *
29475351 TTTAAGGTTTTAGGGGTTATAGTTTAGTATTTAGGGTTT
1 TTTAAGGTTTTAGGGGTTATAGATTAGTATTTAGAGTTT
* *
29475390 TTTAAGG-TTTAGGGGTTATAGATTAGTGTTTATGATTTT
1 TTTAAGGTTTTAGGGGTTATAGATTAGTATTTA-GAGTTT
** * *
29475429 TTTGGGGTTTTAAGAGTTATA
1 TTTAAGGTTTTAGGGGTTATA
29475450 TGACTTTTAG
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
38 23 0.46
39 16 0.32
40 11 0.22
ACGTcount: A:0.22, C:0.00, G:0.27, T:0.51
Consensus pattern (39 bp):
TTTAAGGTTTTAGGGGTTATAGATTAGTATTTAGAGTTT
Found at i:29477700 original size:40 final size:40
Alignment explanation
Indices: 29477663--29477848 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
29477653 GCTACTCGTT
* *
29477663 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
*
29477703 CAAATGCCTTCGGGACTTAACCAGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
29477743 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
29477783 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACCTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGT-AACTCGCA
*
29477824 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
29477849 CATCATTCAA
Statistics
Matches: 131, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
39 3 0.02
40 113 0.86
41 15 0.11
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:29477767 original size:80 final size:81
Alignment explanation
Indices: 29477630--29477848 Score: 247
Period size: 80 Copynumber: 2.8 Consensus size: 81
29477620 AAATCACGTA
* * ** *
29477630 CCTTCGGAAT-TTA-ACCGGATATAG-CTACTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTA
1 CCTTCGG-ATCTTAGACCGGATATAGTCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATT-
29477691 TAGTAACTCGCACAAATG
64 TAGTAACTCGCACAAATG
* * *
29477709 CCTTCGGGA-CTTA-ACCAGGATTTAGT-AACTCGCACAAATGCCTTCGGGACTTAACCCGGATT
1 CCTTC-GGATCTTAGACC-GGATATAGTCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATT
29477771 TAGTAACTCGCACAAATG
64 TAGTAACTCGCACAAATG
* * *
29477789 CCTTCGGATCTTAGTCCGGATATGGTCACCTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 CCTTCGGATCTTAGACCGGATATAGTCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGA
29477849 CATCATTCAA
Statistics
Matches: 120, Mismatches: 12, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
79 15 0.12
80 91 0.76
81 14 0.12
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (81 bp):
CCTTCGGATCTTAGACCGGATATAGTCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATTTA
GTAACTCGCACAAATG
Found at i:29485146 original size:40 final size:40
Alignment explanation
Indices: 29485109--29485294 Score: 243
Period size: 40 Copynumber: 4.7 Consensus size: 40
29485099 GCCACTCGTT
* *
29485109 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
29485149 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
29485189 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
29485229 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACCTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGT-AACTCGCA
*
29485270 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
29485295 CATTATTCAA
Statistics
Matches: 133, Mismatches: 9, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
39 3 0.02
40 115 0.86
41 15 0.11
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:29485213 original size:80 final size:81
Alignment explanation
Indices: 29485076--29485294 Score: 254
Period size: 80 Copynumber: 2.8 Consensus size: 81
29485066 AAATCACGTA
* * ** *
29485076 CCTTCGGAAT-TTAA-CCGGATATAG-CCACTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTA
1 CCTTCGG-ATCTTAACCCGGATATAGTCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATT-
29485137 TAGTAACTCGCACAAATG
64 TAGTAACTCGCACAAATG
* * *
29485155 CCTTCGGGA-CTTAACCCGGATTTAGT-AACTCGCACAAATGCCTTCGGGACTTAACCCGGATTT
1 CCTTC-GGATCTTAACCCGGATATAGTCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATTT
29485218 AGTAACTCGCACAAATG
65 AGTAACTCGCACAAATG
** * *
29485235 CCTTCGGATCTTAGTCCGGATATGGTCACCTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 CCTTCGGATCTTAACCCGGATATAGTCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGA
29485295 CATTATTCAA
Statistics
Matches: 120, Mismatches: 13, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
79 13 0.11
80 95 0.79
81 12 0.10
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (81 bp):
CCTTCGGATCTTAACCCGGATATAGTCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATTTA
GTAACTCGCACAAATG
Found at i:29487771 original size:35 final size:35
Alignment explanation
Indices: 29487695--29487811 Score: 162
Period size: 35 Copynumber: 3.3 Consensus size: 35
29487685 AGTCCAACTA
* *
29487695 AAACACACCAGATGCTCATAAGAGCCAATCCAAACG
1 AAACACACCA-ATGCTCATAAGAGCTAATCCAACCG
* **
29487731 AAACACACCAATACTCATAAGAGCTAATTTAACCG
1 AAACACACCAATGCTCATAAGAGCTAATCCAACCG
* *
29487766 GAACACACCAATGCTCATAAGAGCTAGTCCAACCG
1 AAACACACCAATGCTCATAAGAGCTAATCCAACCG
29487801 AAACACACCAA
1 AAACACACCAA
29487812 ACAGAGAGTA
Statistics
Matches: 70, Mismatches: 11, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
35 60 0.86
36 10 0.14
ACGTcount: A:0.44, C:0.30, G:0.12, T:0.14
Consensus pattern (35 bp):
AAACACACCAATGCTCATAAGAGCTAATCCAACCG
Found at i:29490229 original size:26 final size:30
Alignment explanation
Indices: 29490172--29490232 Score: 76
Period size: 27 Copynumber: 2.2 Consensus size: 30
29490162 GCTATAAAGT
29490172 TTGGGTTTCAAAATTATATTTTGGAAAGAA
1 TTGGGTTTCAAAATTATATTTTGGAAAGAA
* *
29490202 TTGGTTTTC-AAA-TAT-TTTTGGATA-AA
1 TTGGGTTTCAAAATTATATTTTGGAAAGAA
29490228 TTGGG
1 TTGGG
29490233 AAGTATGTGG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
26 6 0.21
27 8 0.29
28 3 0.11
29 3 0.11
30 8 0.29
ACGTcount: A:0.31, C:0.03, G:0.21, T:0.44
Consensus pattern (30 bp):
TTGGGTTTCAAAATTATATTTTGGAAAGAA
Found at i:29492643 original size:16 final size:16
Alignment explanation
Indices: 29492622--29492652 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
29492612 TTAATTTATT
*
29492622 ATATTTATATTATAAG
1 ATATTTATATGATAAG
29492638 ATATTTATATGATAA
1 ATATTTATATGATAA
29492653 ACAAATTAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (16 bp):
ATATTTATATGATAAG
Found at i:29492928 original size:13 final size:13
Alignment explanation
Indices: 29492910--29492934 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
29492900 TGTATATATA
29492910 AAAAAGGAAAAAT
1 AAAAAGGAAAAAT
29492923 AAAAAGGAAAAA
1 AAAAAGGAAAAA
29492935 AGAAATAAAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.00, G:0.16, T:0.04
Consensus pattern (13 bp):
AAAAAGGAAAAAT
Found at i:29495014 original size:46 final size:46
Alignment explanation
Indices: 29494962--29495235 Score: 406
Period size: 46 Copynumber: 6.0 Consensus size: 46
29494952 AGTGTGCTCT
29494962 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
29495008 CTGATATGAAATGTGTAAGACCATGGTTAAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
29495054 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
29495100 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * ***
29495146 GTGACATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
29495192 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
29495236 TCATGTCAAA
Statistics
Matches: 212, Mismatches: 15, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
45 1 0.00
46 211 1.00
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:29502609 original size:18 final size:18
Alignment explanation
Indices: 29502586--29502621 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
29502576 TAACATATAA
29502586 AAGTATATAATACATACC
1 AAGTATATAATACATACC
29502604 AAGTATATAATACATACC
1 AAGTATATAATACATACC
29502622 TGACCAACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.17, G:0.06, T:0.28
Consensus pattern (18 bp):
AAGTATATAATACATACC
Found at i:29502860 original size:78 final size:77
Alignment explanation
Indices: 29502764--29502952 Score: 306
Period size: 78 Copynumber: 2.4 Consensus size: 77
29502754 CGGGACTTTA
*
29502764 AGCCCTGATATAATACCAGCATAAAGCCTGCGGGACTTTAGCCCGGATATAACACCAGCACAAAT
1 AGCCCGGATATAATACCAGCATAAAGCCTGCGGGAC-TTAGCCCGGATATAACACCAGCACAAAT
*
29502829 GCCTTCGGGACTT
65 GCCTTCGAGACTT
* * * *
29502842 AGCTCGGATATAACACCAGCACAAATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACAAAT
1 AGCCCGGATATAATACCAGCATAAA-GCCTGCGGGACTTAGCCCGGATATAACACCAGCACAAAT
29502907 GCCTTCGAGACTT
65 GCCTTCGAGACTT
29502920 AGCCCGGATATAATACCAGCATAAAGCCTGCGG
1 AGCCCGGATATAATACCAGCATAAAGCCTGCGG
29502953 ACCTCATGTC
Statistics
Matches: 100, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
77 7 0.07
78 83 0.83
79 10 0.10
ACGTcount: A:0.32, C:0.29, G:0.21, T:0.19
Consensus pattern (77 bp):
AGCCCGGATATAATACCAGCATAAAGCCTGCGGGACTTAGCCCGGATATAACACCAGCACAAATG
CCTTCGAGACTT
Found at i:29502970 original size:39 final size:39
Alignment explanation
Indices: 29502754--29502948 Score: 277
Period size: 39 Copynumber: 5.0 Consensus size: 39
29502744 AAATAGCATG
* * * *
29502754 CGGGACTTTAAGCCCTGATATAATACCAGCATAAA-GCCTG
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACAAATGCCTT
29502794 CGGGACTTTAGCCCGGATATAACACCAGCACAAATGCCTT
1 CGGGAC-TTAGCCCGGATATAACACCAGCACAAATGCCTT
*
29502834 CGGGACTTAGCTCGGATATAACACCAGCACAAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACAAATGCCTT
29502873 CGGGACTTAGCCCGGATATAACACCAGCACAAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACAAATGCCTT
* * *
29502912 CGAGACTTAGCCCGGATATAATACCAGCATAAA-GCCT
1 CGGGACTTAGCCCGGATATAACACCAGCACAAATGCCT
29502949 GCGGACCTCA
Statistics
Matches: 145, Mismatches: 9, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
38 4 0.03
39 122 0.84
40 19 0.13
ACGTcount: A:0.32, C:0.28, G:0.20, T:0.20
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACAAATGCCTT
Found at i:29510226 original size:26 final size:26
Alignment explanation
Indices: 29510196--29510303 Score: 207
Period size: 26 Copynumber: 4.2 Consensus size: 26
29510186 TGAAATTCCC
29510196 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
29510222 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
29510248 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
29510274 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
29510300 ATCA
1 ATCA
29510304 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.36, C:0.27, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:29520370 original size:28 final size:28
Alignment explanation
Indices: 29520330--29520427 Score: 117
Period size: 28 Copynumber: 3.5 Consensus size: 28
29520320 AAACGAAATC
29520330 CGCACACATAGTGCCCACTGACCGATCT
1 CGCACACATAGTGCCCACTGACCGATCT
* ** * **
29520358 CGCACACATAGTGCTCGGTTAAAGAAT-T
1 CGCACACATAGTGCCCACTGACCG-ATCT
*
29520386 CGCACACACAGTGCCCACTGACCGATCT
1 CGCACACATAGTGCCCACTGACCGATCT
29520414 CGCACACATAGTGC
1 CGCACACATAGTGC
29520428 TCGGTTAAAG
Statistics
Matches: 54, Mismatches: 14, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
27 2 0.04
28 50 0.93
29 2 0.04
ACGTcount: A:0.28, C:0.35, G:0.19, T:0.18
Consensus pattern (28 bp):
CGCACACATAGTGCCCACTGACCGATCT
Found at i:29520392 original size:56 final size:56
Alignment explanation
Indices: 29520330--29520456 Score: 236
Period size: 56 Copynumber: 2.3 Consensus size: 56
29520320 AAACGAAATC
29520330 CGCACACATAGTGCCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATT
1 CGCACACATAGTGCCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATT
*
29520386 CGCACACACAGTGCCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATT
1 CGCACACATAGTGCCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATT
*
29520442 CGCACACATAATGCC
1 CGCACACATAGTGCC
29520457 TATATTCATT
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 68 1.00
ACGTcount: A:0.29, C:0.32, G:0.19, T:0.20
Consensus pattern (56 bp):
CGCACACATAGTGCCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATT
Found at i:29520444 original size:28 final size:28
Alignment explanation
Indices: 29520357--29520451 Score: 111
Period size: 28 Copynumber: 3.4 Consensus size: 28
29520347 CTGACCGATC
29520357 TCGCACACATAGTGCTCGGTTAAAGAAT
1 TCGCACACATAGTGCTCGGTTAAAGAAT
* * ** * **
29520385 TCGCACACACAGTGCCCACTGACCG-AT
1 TCGCACACATAGTGCTCGGTTAAAGAAT
29520412 CTCGCACACATAGTGCTCGGTTAAAGAAT
1 -TCGCACACATAGTGCTCGGTTAAAGAAT
29520441 TCGCACACATA
1 TCGCACACATA
29520452 ATGCCTATAT
Statistics
Matches: 51, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
27 2 0.04
28 47 0.92
29 2 0.04
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (28 bp):
TCGCACACATAGTGCTCGGTTAAAGAAT
Found at i:29525975 original size:43 final size:43
Alignment explanation
Indices: 29525915--29526005 Score: 130
Period size: 43 Copynumber: 2.1 Consensus size: 43
29525905 CTTTGAGTTC
* * *
29525915 ATTA-CAAGATTTCCTTGATTAAGTAAATGTATTATATCTTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATCTTTT
* *
29525957 ATTACCAAGATTTACTTGATTAAGAAAATGCATTGTATGTTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATCTTTT
29526000 ATTACC
1 ATTACC
29526006 TTGCAATGTG
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 4 0.09
43 39 0.91
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.44
Consensus pattern (43 bp):
ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATCTTTT
Found at i:29526827 original size:42 final size:43
Alignment explanation
Indices: 29526708--29526862 Score: 123
Period size: 43 Copynumber: 3.6 Consensus size: 43
29526698 AAAATGCAGT
* * * ** * * *
29526708 TAAAAGTCATGTTTTATAGCGGTATTTATGGGAAAAACGCCAC
1 TAAAGGTCATATTCTATAGCGACATTTATAGGAAAAGCGCCGC
* * * **
29526751 TAAAGGTTATAATCTATAGCGACATTTAT-GGGAAAGCGTTGC
1 TAAAGGTCATATTCTATAGCGACATTTATAGGAAAAGCGCCGC
* * * * *
29526793 TAGAGGTCATATTCTATAGCGCCGTTTGTAGGAAAAGTGCCGC
1 TAAAGGTCATATTCTATAGCGACATTTATAGGAAAAGCGCCGC
* *
29526836 TAAAGGTCATGTTCTATAGCGGCATTT
1 TAAAGGTCATATTCTATAGCGACATTT
29526863 TTCCATATAA
Statistics
Matches: 85, Mismatches: 26, Indels: 2
0.75 0.23 0.02
Matches are distributed among these distances:
42 31 0.36
43 54 0.64
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (43 bp):
TAAAGGTCATATTCTATAGCGACATTTATAGGAAAAGCGCCGC
Found at i:29527598 original size:21 final size:21
Alignment explanation
Indices: 29527574--29527617 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
29527564 ACTTGTTATT
29527574 ACCCTTTGAACCTTGAAACTA
1 ACCCTTTGAACCTTGAAACTA
*
29527595 ACCCTTTGAATCTTGAAACTA
1 ACCCTTTGAACCTTGAAACTA
29527616 AC
1 AC
29527618 TTTTGGCTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.34, C:0.27, G:0.09, T:0.30
Consensus pattern (21 bp):
ACCCTTTGAACCTTGAAACTA
Found at i:29534712 original size:21 final size:20
Alignment explanation
Indices: 29534662--29534715 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 20
29534652 TTCACTTGAG
29534662 TTAAAAAT-TTTCAATCGAT
1 TTAAAAATGTTTCAATCGAT
* *
29534681 TCAAAACTGTTTCAATCGATT
1 TTAAAAATGTTTCAATCGA-T
*
29534702 TTAAAATTGTTTCA
1 TTAAAAATGTTTCA
29534716 CTTGAGATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 6 0.21
20 10 0.34
21 13 0.45
ACGTcount: A:0.37, C:0.13, G:0.07, T:0.43
Consensus pattern (20 bp):
TTAAAAATGTTTCAATCGAT
Found at i:29534838 original size:14 final size:15
Alignment explanation
Indices: 29534803--29534832 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
29534793 GAGACTTTAA
29534803 AAAACTTTTTACTTT
1 AAAACTTTTTACTTT
29534818 AAAACTTTTTACTTT
1 AAAACTTTTTACTTT
29534833 GAACTTCATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.13, G:0.00, T:0.53
Consensus pattern (15 bp):
AAAACTTTTTACTTT
Found at i:29534876 original size:18 final size:18
Alignment explanation
Indices: 29534842--29534876 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
29534832 TGAACTTCAT
29534842 CAATCCTTAGTTCAAAAA
1 CAATCCTTAGTTCAAAAA
*
29534860 CAATCTTTA-TTCAAAAA
1 CAATCCTTAGTTCAAAAA
29534877 TATTTTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.46, C:0.20, G:0.03, T:0.31
Consensus pattern (18 bp):
CAATCCTTAGTTCAAAAA
Found at i:29536963 original size:20 final size:20
Alignment explanation
Indices: 29536918--29536968 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
29536908 CATTTATAGA
**
29536918 TAAGTATCGATATTTTTTCT
1 TAAGTATCGATAAATTTTCT
* *
29536938 TTAGTATCGATAAATTTTGT
1 TAAGTATCGATAAATTTTCT
*
29536958 TAAGTACCGAT
1 TAAGTATCGAT
29536969 TTGAAAGTGC
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.29, C:0.10, G:0.14, T:0.47
Consensus pattern (20 bp):
TAAGTATCGATAAATTTTCT
Found at i:29558138 original size:42 final size:43
Alignment explanation
Indices: 29558036--29558147 Score: 149
Period size: 42 Copynumber: 2.7 Consensus size: 43
29558026 CACAAGGCCA
*
29558036 AGACACACGCCTGTGT-TCTAGGCCGTGTAGCACACACGGCTG
1 AGACACACGCCTGTGTCTCTAGCCCGTGTAGCACACACGGCTG
** *
29558078 AGACACACGCCTACGTCTCTA-CCCGTGTAGCACACATGGCTG
1 AGACACACGCCTGTGTCTCTAGCCCGTGTAGCACACACGGCTG
* *
29558120 AGACACACACCTGTGTCTCT-GCTCGTGT
1 AGACACACGCCTGTGTCTCTAGCCCGTGT
29558148 GCTTAATTCT
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
42 56 0.93
43 4 0.07
ACGTcount: A:0.21, C:0.33, G:0.24, T:0.21
Consensus pattern (43 bp):
AGACACACGCCTGTGTCTCTAGCCCGTGTAGCACACACGGCTG
Found at i:29574299 original size:32 final size:32
Alignment explanation
Indices: 29574226--29574302 Score: 93
Period size: 32 Copynumber: 2.4 Consensus size: 32
29574216 GTAGCAGTAT
* * *
29574226 TATAATTGGCACAAAGCCATCAGTAACTATAA
1 TATAATCGGCACAAAGCCATCAGCAACGATAA
* *
29574258 TA-AGTTCGGCACATAGCCATCAGCAACGATAA
1 TATA-ATCGGCACAAAGCCATCAGCAACGATAA
29574290 TATAATCGGCACA
1 TATAATCGGCACA
29574303 CAACCATGGG
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
31 1 0.03
32 35 0.95
33 1 0.03
ACGTcount: A:0.40, C:0.22, G:0.16, T:0.22
Consensus pattern (32 bp):
TATAATCGGCACAAAGCCATCAGCAACGATAA
Found at i:29574426 original size:22 final size:22
Alignment explanation
Indices: 29574401--29574457 Score: 114
Period size: 22 Copynumber: 2.6 Consensus size: 22
29574391 AATCAACATA
29574401 GCACAGAGCCATATTTAGGTTG
1 GCACAGAGCCATATTTAGGTTG
29574423 GCACAGAGCCATATTTAGGTTG
1 GCACAGAGCCATATTTAGGTTG
29574445 GCACAGAGCCATA
1 GCACAGAGCCATA
29574458 ATTTGATTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (22 bp):
GCACAGAGCCATATTTAGGTTG
Found at i:29574842 original size:27 final size:27
Alignment explanation
Indices: 29574812--29574873 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
29574802 CAAAATAGTC
* *
29574812 ATTTTACCCTACAACG-GTATTTCGATA
1 ATTTTACACTACAA-GAGTATTTCGACA
*
29574839 ATTTTACACTACAAGAGTATTTCGGCA
1 ATTTTACACTACAAGAGTATTTCGACA
29574866 ATTTTACA
1 ATTTTACA
29574874 AATTGAGGGT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
26 1 0.03
27 30 0.97
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.37
Consensus pattern (27 bp):
ATTTTACACTACAAGAGTATTTCGACA
Found at i:29574885 original size:27 final size:27
Alignment explanation
Indices: 29574855--29575063 Score: 237
Period size: 27 Copynumber: 7.8 Consensus size: 27
29574845 CACTACAAGA
* *
29574855 GTATTTCGGCAATTTTACAAATTGAGG
1 GTATTTCAGTAATTTTACAAATTGAGG
* *
29574882 GTATTTTAGTAATTTTATAAATTTG-GG
1 GTATTTCAGTAATTTTACAAA-TTGAGG
* * *
29574909 GTATTTCAATAATTTTACAAATCGGGG
1 GTATTTCAGTAATTTTACAAATTGAGG
** *
29574936 GTATTTTGGTAATTTTACAAATTAAGG
1 GTATTTCAGTAATTTTACAAATTGAGG
*
29574963 GTATTT-GGATAATTTTACAAATTGAGG
1 GTATTTCAG-TAATTTTACAAATTGAGG
* *
29574990 GTATTTTAGTAATTTTACAAA-TCAGG
1 GTATTTCAGTAATTTTACAAATTGAGG
*
29575016 GTATTTCAGTAATTTTATAAATT-AGGG
1 GTATTTCAGTAATTTTACAAATTGA-GG
29575043 GTATTTCAGTAATTTTACAAA
1 GTATTTCAGTAATTTTACAAA
29575064 CTGGAGTCTT
Statistics
Matches: 156, Mismatches: 20, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
26 28 0.18
27 124 0.79
28 4 0.03
ACGTcount: A:0.33, C:0.06, G:0.18, T:0.43
Consensus pattern (27 bp):
GTATTTCAGTAATTTTACAAATTGAGG
Found at i:29574950 original size:81 final size:79
Alignment explanation
Indices: 29574827--29575063 Score: 264
Period size: 81 Copynumber: 2.9 Consensus size: 79
29574817 ACCCTACAAC
* * * *
29574827 GGTATTTCGATAATTTTAC-ACTACAAGAGTATTTCGGCAATTTTACAAATTGAGGGTATTTTAG
1 GGTATTTCAATAATTTTACAAAT-C-AGGGTATTTCGGTAATTTTACAAATT-AGGGTATTTTAG
*
29574891 TAATTTTATAAATTTG-G
63 TAATTTTACAAA-TTGAG
* * *
29574908 GGTATTTCAATAATTTTACAAATCGGGGGTATTTTGGTAATTTTACAAATTAAGGGTA-TTTGGA
1 GGTATTTCAATAATTTTACAAATC-AGGGTATTTCGGTAATTTTACAAATT-AGGGTATTTTAG-
29574972 TAATTTTACAAATTGAG
63 TAATTTTACAAATTGAG
* * * * *
29574989 GGTATTTTAGTAATTTTACAAATCAGGGTATTTCAGTAATTTTATAAATTAGGGGTATTTCAGTA
1 GGTATTTCAATAATTTTACAAATCAGGGTATTTCGGTAATTTTACAAATTA-GGGTATTTTAGTA
29575054 ATTTTACAAA
65 ATTTTACAAA
29575064 CTGGAGTCTT
Statistics
Matches: 133, Mismatches: 18, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
79 1 0.01
80 46 0.35
81 84 0.63
82 2 0.02
ACGTcount: A:0.33, C:0.07, G:0.18, T:0.42
Consensus pattern (79 bp):
GGTATTTCAATAATTTTACAAATCAGGGTATTTCGGTAATTTTACAAATTAGGGTATTTTAGTAA
TTTTACAAATTGAG
Found at i:29581847 original size:16 final size:17
Alignment explanation
Indices: 29581811--29581847 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
29581801 GTTATATTTA
*
29581811 ATTTTTGATATGTTTTT
1 ATTTTTGATATGTTTTC
29581828 ATTTTTGATATG-TTTC
1 ATTTTTGATATGTTTTC
29581844 ATTT
1 ATTT
29581848 AAAATTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.19, C:0.03, G:0.11, T:0.68
Consensus pattern (17 bp):
ATTTTTGATATGTTTTC
Found at i:29582072 original size:14 final size:15
Alignment explanation
Indices: 29582053--29582082 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
29582043 ATTTTAGTAT
29582053 ATTTTT-AAACTAAA
1 ATTTTTAAAACTAAA
29582067 ATTTTTAAAACTAAA
1 ATTTTTAAAACTAAA
29582082 A
1 A
29582083 ATAAAAATAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (15 bp):
ATTTTTAAAACTAAA
Found at i:29586042 original size:25 final size:26
Alignment explanation
Indices: 29586007--29586057 Score: 95
Period size: 25 Copynumber: 2.0 Consensus size: 26
29585997 ATTGTAGAAT
29586007 AATTAAATTATTTGTTTCACTAATGA
1 AATTAAATTATTTGTTTCACTAATGA
29586033 AATT-AATTATTTGTTTCACTAATGA
1 AATTAAATTATTTGTTTCACTAATGA
29586058 TATTTTAGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 21 0.84
26 4 0.16
ACGTcount: A:0.37, C:0.08, G:0.08, T:0.47
Consensus pattern (26 bp):
AATTAAATTATTTGTTTCACTAATGA
Found at i:29586881 original size:36 final size:36
Alignment explanation
Indices: 29586832--29586910 Score: 104
Period size: 36 Copynumber: 2.2 Consensus size: 36
29586822 ATTCCAACTA
*
29586832 AAACACACCAGATGCTCATAAGAGCTAATCCATCTG
1 AAACACACCAGATGCTCATAAGAGCCAATCCATCTG
* * * *
29586868 AAACACACTAGATGCTCATACGAGCCAGTCCATTTG
1 AAACACACCAGATGCTCATAAGAGCCAATCCATCTG
29586904 ATAACAC
1 A-AACAC
29586911 CCAATAGCTC
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
36 32 0.86
37 5 0.14
ACGTcount: A:0.38, C:0.28, G:0.14, T:0.20
Consensus pattern (36 bp):
AAACACACCAGATGCTCATAAGAGCCAATCCATCTG
Found at i:29593978 original size:40 final size:40
Alignment explanation
Indices: 29593926--29594197 Score: 445
Period size: 40 Copynumber: 6.8 Consensus size: 40
29593916 ATAACCACAA
* * * *
29593926 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
29593966 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
29594006 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
29594046 GCACAAATGCCTTCGGGTCTTAGCCCAGATATATGTCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATA--TCAACTC
29594088 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
29594128 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
29594168 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
29594198 GTATTCAAAT
Statistics
Matches: 217, Mismatches: 13, Indels: 4
0.93 0.06 0.02
Matches are distributed among these distances:
40 178 0.82
42 39 0.18
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:29594112 original size:122 final size:120
Alignment explanation
Indices: 29593926--29594193 Score: 446
Period size: 122 Copynumber: 2.2 Consensus size: 120
29593916 ATAACCACAA
* * * * *
29593926 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAGCCCAGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
* *
29593991 CGGATATATCAACTTGCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTC
66 CGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
29594046 GCACAAATGCCTTCGGGTCTTAGCCCAGATATATGTCAACTCGCACAAATGCCTTCGGGTCTTAG
1 GCACAAATGCCTTCGGGTCTTAGCCCAGATATA-G-CAACTCGCACAAATGCCTTCGGGTCTTAG
*
29594111 CCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
64 CCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
29594168 GCACAAATGCCTTCGGGTCTTAGCCC
1 GCACAAATGCCTTCGGGTCTTAGCCC
29594194 GGATGTATTC
Statistics
Matches: 138, Mismatches: 8, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
120 29 0.21
121 1 0.01
122 108 0.78
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (120 bp):
GCACAAATGCCTTCGGGTCTTAGCCCAGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
CGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:29597065 original size:47 final size:47
Alignment explanation
Indices: 29597012--29597422 Score: 678
Period size: 47 Copynumber: 8.7 Consensus size: 47
29597002 CTTCCACTTC
* * * *
29597012 CATCACATTGACCATTCGGCCTTATCATATATATATACTTTCACATT
1 CATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATT
29597059 CATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATT
1 CATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATT
*
29597106 CATCACATTGGCCATTCGGCCTTATCACATATACATACACCTTCACATT
1 CATCACATTGGCCATTCGGCCTTATCAC--ATACATACACTTTCACATT
29597155 CATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATT
1 CATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATT
*
29597202 CATCACATTGGCCATTCGGCCTGATCACATACATACACTTTCACATT
1 CATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATT
*
29597249 CATCACATTGGCCATTCGGCCTTATCACATATACATACACCTTCACATT
1 CATCACATTGGCCATTCGGCCTTATCAC--ATACATACACTTTCACATT
* * * *
29597298 CATCACATTGGCCATTCGGCTTTATCATATATATATACTTTCACATT
1 CATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATT
*
29597345 CATCACATTGGCCATTCGGCCTTATCACATACATACACCTTCACATT
1 CATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATT
29597392 CATCACATTGGCCATTCGGCCTTATCACATA
1 CATCACATTGGCCATTCGGCCTTATCACATA
29597423 TACATATCTT
Statistics
Matches: 341, Mismatches: 19, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
47 251 0.74
49 90 0.26
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.33
Consensus pattern (47 bp):
CATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATT
Found at i:29597174 original size:96 final size:96
Alignment explanation
Indices: 29597012--29597428 Score: 684
Period size: 96 Copynumber: 4.4 Consensus size: 96
29597002 CTTCCACTTC
* * *
29597012 CATCACATTGACCATTCGGCCTTAT--CATATATATATACTTTCACATTCATCACATTGGCCATT
1 CATCACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTCATCACATTGGCCATT
*
29597075 CGGCCTTATCACATACATACACTTTCACATT
66 CGGCCTTATCACATACATACACCTTCACATT
*
29597106 CATCACATTGGCCATTCGGCCTTATCACATATACATACACCTTCACATTCATCACATTGGCCATT
1 CATCACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTCATCACATTGGCCATT
*
29597171 CGGCCTTATCACATACATACACTTTCACATT
66 CGGCCTTATCACATACATACACCTTCACATT
*
29597202 CATCACATTGGCCATTCGGCCTGATCAC--ATACATACACTTTCACATTCATCACATTGGCCATT
1 CATCACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTCATCACATTGGCCATT
29597265 CGGCCTTATCACATATACATACACCTTCACATT
66 CGGCCTTATCAC--ATACATACACCTTCACATT
* * *
29597298 CATCACATTGGCCATTCGGCTTTAT--CATATATATATACTTTCACATTCATCACATTGGCCATT
1 CATCACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTCATCACATTGGCCATT
29597361 CGGCCTTATCACATACATACACCTTCACATT
66 CGGCCTTATCACATACATACACCTTCACATT
29597392 CATCACATTGGCCATTCGGCCTTATCACATATACATA
1 CATCACATTGGCCATTCGGCCTTATCACATATACATA
29597429 TCTTGTACAT
Statistics
Matches: 302, Mismatches: 13, Indels: 14
0.92 0.04 0.04
Matches are distributed among these distances:
94 114 0.38
96 188 0.62
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (96 bp):
CATCACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTCATCACATTGGCCATT
CGGCCTTATCACATACATACACCTTCACATT
Found at i:29597270 original size:143 final size:143
Alignment explanation
Indices: 29597012--29597428 Score: 771
Period size: 143 Copynumber: 2.9 Consensus size: 143
29597002 CTTCCACTTC
*
29597012 CATCACATTGACCATTCGGCCTTATCATATATATATACTTTCACATTCATCACATTGGCCATTCG
1 CATCACATTGGCCATTCGGCCTTATCATATATATATACTTTCACATTCATCACATTGGCCATTCG
29597077 GCCTTATCACATACATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACAT
66 GCCTTATCACATACATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACAT
29597142 ACACCTTCACATT
131 ACACCTTCACATT
* * *
29597155 CATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCATCACATTGGCCATTCG
1 CATCACATTGGCCATTCGGCCTTATCATATATATATACTTTCACATTCATCACATTGGCCATTCG
*
29597220 GCCTGATCACATACATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACAT
66 GCCTTATCACATACATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACAT
29597285 ACACCTTCACATT
131 ACACCTTCACATT
*
29597298 CATCACATTGGCCATTCGGCTTTATCATATATATATACTTTCACATTCATCACATTGGCCATTCG
1 CATCACATTGGCCATTCGGCCTTATCATATATATATACTTTCACATTCATCACATTGGCCATTCG
*
29597363 GCCTTATCACATACATACACCTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACAT
66 GCCTTATCACATACATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACAT
29597428 A
131 A
29597429 TCTTGTACAT
Statistics
Matches: 263, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
143 263 1.00
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (143 bp):
CATCACATTGGCCATTCGGCCTTATCATATATATATACTTTCACATTCATCACATTGGCCATTCG
GCCTTATCACATACATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACAT
ACACCTTCACATT
Found at i:29601712 original size:27 final size:28
Alignment explanation
Indices: 29601628--29601725 Score: 144
Period size: 27 Copynumber: 3.5 Consensus size: 28
29601618 CATGAGATTG
* * *
29601628 GCACTAAGTGTGCGGGTTTAAATTGTATA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
29601657 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
29601685 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
29601712 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
29601726 GACTTAATAT
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
27 24 0.37
28 23 0.35
29 18 0.28
ACGTcount: A:0.27, C:0.12, G:0.29, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:29601736 original size:27 final size:27
Alignment explanation
Indices: 29601653--29601739 Score: 111
Period size: 28 Copynumber: 3.1 Consensus size: 27
29601643 GTTTAAATTG
*
29601653 TATAGCACTAAGTGTGCGAGTTTGATTA
1 TATAGCACTAAGTGTGCGA-CTTGATTA
*
29601681 TATAGCACTAAGTGTGCGAGTTGATTA
1 TATAGCACTAAGTGTGCGACTTGATTA
* *
29601708 TATAGCACTGAGTGTGCGGACTTAATATA
1 TATAGCACTAAGTGTGC-GACTTGAT-TA
29601737 TAT
1 TAT
29601740 TTTTGAATCA
Statistics
Matches: 53, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 23 0.43
28 25 0.47
29 5 0.09
ACGTcount: A:0.30, C:0.11, G:0.24, T:0.34
Consensus pattern (27 bp):
TATAGCACTAAGTGTGCGACTTGATTA
Found at i:29605566 original size:15 final size:16
Alignment explanation
Indices: 29605546--29605583 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
29605536 TAATTTGGTT
*
29605546 AATAAACAAAA-ATTA
1 AATAAACAAAAGATGA
29605561 AATAAA-AAAAGATGA
1 AATAAACAAAAGATGA
29605576 AATAAACA
1 AATAAACA
29605584 TCATCTTCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 4 0.20
15 15 0.75
16 1 0.05
ACGTcount: A:0.74, C:0.05, G:0.05, T:0.16
Consensus pattern (16 bp):
AATAAACAAAAGATGA
Found at i:29606601 original size:25 final size:25
Alignment explanation
Indices: 29606555--29606624 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 25
29606545 GTGGATTCTC
* *
29606555 CATAGCTCATGTGACCAATTACAGT
1 CATAGCTCATGTGAACATTTACAGT
* * *
29606580 TATAGCTCGTGTGAACATTTACCGT
1 CATAGCTCATGTGAACATTTACAGT
* *
29606605 CAGAGCTCATGTGAGCATTT
1 CATAGCTCATGTGAACATTT
29606625 TCCTACATAT
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.31
Consensus pattern (25 bp):
CATAGCTCATGTGAACATTTACAGT
Found at i:29608973 original size:23 final size:23
Alignment explanation
Indices: 29608930--29608973 Score: 54
Period size: 22 Copynumber: 1.9 Consensus size: 23
29608920 AAAGGGTTTG
*
29608930 TATTATTTTAGTAAATTTTTTCA
1 TATTATTTTAGTAAATATTTTCA
*
29608953 TATTA-TTTGGTAAATAATTTT
1 TATTATTTTAGTAAAT-ATTTT
29608974 TTTTCATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.32, C:0.02, G:0.07, T:0.59
Consensus pattern (23 bp):
TATTATTTTAGTAAATATTTTCA
Found at i:29614416 original size:20 final size:20
Alignment explanation
Indices: 29614373--29614417 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
29614363 TCATCTTTTG
* *
29614373 ATAAAAATACATAAGATTTA
1 ATAAAAATACATAAAAATTA
29614393 ATAAAAATACATACAAAATT-
1 ATAAAAATACATA-AAAATTA
29614413 ATAAA
1 ATAAA
29614418 TAAATGAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.64, C:0.07, G:0.02, T:0.27
Consensus pattern (20 bp):
ATAAAAATACATAAAAATTA
Found at i:29615585 original size:19 final size:19
Alignment explanation
Indices: 29615538--29615574 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
29615528 TTTCTAAAAG
* *
29615538 AATACCCAAATTTGTAACT
1 AATACCAAAACTTGTAACT
29615557 AATACCAAAACTTGTAAC
1 AATACCAAAACTTGTAAC
29615575 GTGATACAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.46, C:0.22, G:0.05, T:0.27
Consensus pattern (19 bp):
AATACCAAAACTTGTAACT
Found at i:29615653 original size:18 final size:19
Alignment explanation
Indices: 29615632--29615671 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
29615622 CAAAAATTGT
29615632 TAAT-GATAACAAAATTTC
1 TAATCGATAACAAAATTTC
* *
29615650 TAATCGATTACAATATTTC
1 TAATCGATAACAAAATTTC
29615669 TAA
1 TAA
29615672 CGTGATAATC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.45, C:0.12, G:0.05, T:0.38
Consensus pattern (19 bp):
TAATCGATAACAAAATTTC
Found at i:29618231 original size:48 final size:44
Alignment explanation
Indices: 29618067--29618429 Score: 248
Period size: 46 Copynumber: 7.8 Consensus size: 44
29618057 TAGGGTATAA
* * * ** *
29618067 TGCCAATGCCATGTCCCAAACATGGTCTTACACTGGCTTATCCATCA
1 TGCCGATGCCATGTCCCAGACAT-GTCTTACACTGACACAT--ATCG
* * *
29618114 AGTCGATGCCATGTCCCAGACATAGTCTTACACTGGCTCTCACATATCTG
1 TGCCGATGCCATGTCCCAGACAT-GTCTTACACT-G---ACACATATC-G
* *
29618164 TGCCGATGCCATGTTCCAGACATGGTCTTACACTGACAACTTTATACG
1 TGCCGATGCCATGTCCCAGACAT-GTCTTACACTGAC-AC-ATAT-CG
*
29618212 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTCG
1 TGCCGATGCCATGTCCCAGACAT-GTCTTACACTGACACATATCG
* * *
29618257 TAGCCGATG-CATGTCCCAGACATATCTTACACTGGCTTACATCTCG
1 T-GCCGATGCCATGTCCCAGACATGTCTTACACTGAC--ACATATCG
* * * * * *
29618303 AGGCCGATG-CATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAA
1 -TGCCGATGCCATGTCCCAGACATGTCTTACACT-G-ACACATATC-G
* *
29618350 TGCCGATGCTATGTCCCAGACATGGTCTTACACTGACTCTCATAAT-G
1 TGCCGATGCCATGTCCCAGACAT-GTCTTACACTGA--CACAT-ATCG
*
29618397 TGGCCGATG-CATGTCCCAAACATGTCTTACACT
1 T-GCCGATGCCATGTCCCAGACATGTCTTACACT
29618430 AGCACACAAA
Statistics
Matches: 261, Mismatches: 34, Indels: 43
0.77 0.10 0.13
Matches are distributed among these distances:
44 11 0.04
45 17 0.07
46 70 0.27
47 61 0.23
48 63 0.24
49 6 0.02
50 30 0.11
51 3 0.01
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (44 bp):
TGCCGATGCCATGTCCCAGACATGTCTTACACTGACACATATCG
Found at i:29618299 original size:46 final size:47
Alignment explanation
Indices: 29618117--29618429 Score: 274
Period size: 46 Copynumber: 6.6 Consensus size: 47
29618107 TCCATCAAGT
*
29618117 CGATGCCATGTCCCAGACATAGTCTTACACTGGCTCTCACATATCTGT-GC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGACTCT-ACATATC-GTAGC
* * **
29618167 CGATGCCATGTTCCAGACATGGTCTTACACTGACAACTTTATA-CGT-GC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGAC-TCTACATATCGTAGC
*
29618215 CGATGCCATGTCCCAGACATGGTCTTACACTGA--C-ACATCTCGTAGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGACTCTACATATCGTAGC
* * *
29618261 CGATGCATGTCCCAGACATATCTTACACTGGCT-TACATCTCG-AGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGACTCTACATATCGTA-GC
* * *
29618307 CGATGCATGTCCCAGACATGTCTTACACT-AGCTCT-CGTCTC-AATGC
1 CGATGCATGTCCCAGACATGTCTTACACTGA-CTCTACATATCGTA-GC
*
29618353 CGATGCTATGTCCCAGACATGGTCTTACACTGACTCT-CATAAT-GTGGC
1 CGATGC-ATGTCCCAGACAT-GTCTTACACTGACTCTACAT-ATCGTAGC
*
29618401 CGATGCATGTCCCAAACATGTCTTACACT
1 CGATGCATGTCCCAGACATGTCTTACACT
29618430 AGCACACAAA
Statistics
Matches: 227, Mismatches: 21, Indels: 34
0.80 0.07 0.12
Matches are distributed among these distances:
44 12 0.05
45 19 0.08
46 71 0.31
47 26 0.11
48 60 0.26
49 3 0.01
50 34 0.15
51 2 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (47 bp):
CGATGCATGTCCCAGACATGTCTTACACTGACTCTACATATCGTAGC
Found at i:29618369 original size:138 final size:142
Alignment explanation
Indices: 29618061--29618429 Score: 407
Period size: 138 Copynumber: 2.6 Consensus size: 142
29618051 CAAACATAGG
* * * * * *
29618061 GTATAATGCCAATGCCATGTCCCAAACATGGTCTTACACTGGCTTATCCATC-AAGTCGATGCCA
1 GTATAATGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCAT-CATCGTAGCCGATG-CA
* *
29618125 TGTCCCAGACATAGTCTTACACTGGCTCTCACATATCTGTGCCGATGCCATGTTCCAGACATGGT
64 TGTCCCAGACATA-TCTTACACTGGCTCTCACATATCTGGGCCGATGCCATGTCCCAGACATGGT
29618190 CTTACACTGACAACT
128 CTTACACTGACAACT
* * *
29618205 TTATACGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATC-TCGTAGCCGATGCAT
1 GTATA-ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCATCATCGTAGCCGATGCAT
*
29618269 GTCCCAGACATATCTTACACTGGCT-T-ACATCTC-GAGGCCGATG-CATGTCCCAGACAT-GTC
65 GTCCCAGACATATCTTACACTGGCTCTCACATATCTG-GGCCGATGCCATGTCCCAGACATGGTC
*
29618329 TTACACT-AGC-TCT
129 TTACACTGA-CAACT
* * * *
29618342 CGTCTCAATGCCGATGCTATGTCCCAGACATGGTCTTACACTGACTC-TCATAATGTGGCCGATG
1 -GTAT-AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCATCAT--CGTAGCCGATG
* *
29618406 CATGTCCCAAACATGTCTTACACT
62 CATGTCCCAGACATATCTTACACT
29618430 AGCACACAAA
Statistics
Matches: 194, Mismatches: 22, Indels: 22
0.82 0.09 0.09
Matches are distributed among these distances:
137 5 0.03
138 51 0.26
139 15 0.08
140 44 0.23
141 1 0.01
142 13 0.07
143 17 0.09
144 12 0.06
145 36 0.19
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (142 bp):
GTATAATGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCATCATCGTAGCCGATGCATG
TCCCAGACATATCTTACACTGGCTCTCACATATCTGGGCCGATGCCATGTCCCAGACATGGTCTT
ACACTGACAACT
Found at i:29618403 original size:94 final size:97
Alignment explanation
Indices: 29618065--29618432 Score: 313
Period size: 94 Copynumber: 3.9 Consensus size: 97
29618055 CATAGGGTAT
* * * * * *
29618065 AATGCCAATGCCATGTCCCAAACATGGTCTTACACTGGCTTATCCATCAA-GT--CGATGCCATG
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGACATCTACAT-AATGTGCCGATGCCATG
* *
29618127 TCCCAGACATAGTCTTACACTGGCTCTCACATATC
65 TCCCAGACATAGTCTTACACTAGCTCT--CATCTC
** * * ** *
29618162 TGTGCCGATGCCATGTTCCAGACATGGTCTTACACTGACAACTTTAT-ACGTGCCGATGCCATGT
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGACATCTACATAATGTGCCGATGCCATGT
* * *
29618226 CCCAGACATGGTCTTACACT-G-ACACATCTC
66 CCCAGACATAGTCTTACACTAGCTCTCATCTC
* * * * *
29618256 -GTAGCCGATG-CATGTCCCAGACAT-ATCTTACACTGGC-T-TACAT-CTCGAGGCCGATG-CA
1 AAT-GCCGATGCCATGTCCCAGACATGGTCTTACACTGACATCTACATAAT-G-TGCCGATGCCA
*
29618314 TGTCCCAGACAT-GTCTTACACTAGCTCTCGTCTC
63 TGTCCCAGACATAGTCTTACACTAGCTCTCATCTC
*
29618348 AATGCCGATGCTATGTCCCAGACATGGTCTTACACTGAC-TCT-CATAATGTGGCCGATG-CATG
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGACATCTACATAATGT-GCCGATGCCATG
*
29618410 TCCCAAACAT-GTCTTACACTAGC
65 TCCCAGACATAGTCTTACACTAGC
29618433 ACACAAATAA
Statistics
Matches: 223, Mismatches: 34, Indels: 31
0.77 0.12 0.11
Matches are distributed among these distances:
90 13 0.06
91 16 0.07
92 31 0.14
93 29 0.13
94 61 0.27
95 3 0.01
96 3 0.01
97 37 0.17
98 30 0.13
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.27
Consensus pattern (97 bp):
AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGACATCTACATAATGTGCCGATGCCATGT
CCCAGACATAGTCTTACACTAGCTCTCATCTC
Found at i:29622835 original size:32 final size:32
Alignment explanation
Indices: 29622789--29622855 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 32
29622779 CGGTTCCCAT
29622789 TATATCTTCTGGTTCCCATGTTGCTTCTTCAA
1 TATATCTTCTGGTTCCCATGTTGCTTCTTCAA
29622821 TATATCTT-TCGGTTCCCATGTTGCTTCTTCAA
1 TATATCTTCT-GGTTCCCATGTTGCTTCTTCAA
29622853 TAT
1 TAT
29622856 TGTGACTTCG
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
31 1 0.03
32 33 0.97
ACGTcount: A:0.16, C:0.24, G:0.12, T:0.48
Consensus pattern (32 bp):
TATATCTTCTGGTTCCCATGTTGCTTCTTCAA
Found at i:29627229 original size:46 final size:44
Alignment explanation
Indices: 29627174--29627394 Score: 162
Period size: 46 Copynumber: 4.8 Consensus size: 44
29627164 ATTCGTGTGT
*
29627174 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGTC-ACATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGG-CGACA-TA-GA
*
29627220 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-A-TTGAGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCGACAT-AGA
* * * *
29627265 CGAGGACTAGTGTAAGACATGTCTGGGACGTGCATCGGCCTCGAGACAGA
1 -GA-G-CCAGTGTAAGACATGTCTGGGACATGCATCGG---CGACATAGA
* * *
29627315 -AGCCAGTGTAAGACATGTCTGGAACATGCATCGGCTACGAGATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCGAC-ATA-GA
* * *
29627360 TAGCCAATGTAAGACCATGTCTGAGACATGGCATC
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATC
29627395 AACTTGAGAT
Statistics
Matches: 144, Mismatches: 15, Indels: 30
0.76 0.08 0.16
Matches are distributed among these distances:
43 2 0.01
44 2 0.01
45 5 0.03
46 64 0.44
47 43 0.30
48 23 0.16
49 1 0.01
50 4 0.03
ACGTcount: A:0.29, C:0.20, G:0.30, T:0.21
Consensus pattern (44 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCGACATAGA
Found at i:29627404 original size:47 final size:48
Alignment explanation
Indices: 29627220--29627441 Score: 135
Period size: 47 Copynumber: 4.7 Consensus size: 48
29627210 CACATTATGA
* ** * * *
29627220 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-ATTGAGACGAG
1 GAGCCAGTGTAAGACCATGTCTGAGACATGGCATCAACTA-CGAGA-TAT
* * * ** *
29627269 GA-CTAGTGTAAGA-CATGTCTGGGACGT-GCATCGGCCT-CGAGACA-
1 GAGCCAGTGTAAGACCATGTCTGAGACATGGCATC-AACTACGAGATAT
**
29627313 GAAGCCAGTGTAAGA-CATGTCTG-GAACAT-GCATCGGCTACGAGATGAT
1 G-AGCCAGTGTAAGACCATGTCTGAG-ACATGGCATCAACTACGAGAT-AT
* *
29627361 -AGCCAATGTAAGACCATGTCTGAGACATGGCATCAACT-TGAGATAT
1 GAGCCAGTGTAAGACCATGTCTGAGACATGGCATCAACTACGAGATAT
* *
29627407 GAGCTAGTGTAAGACCGTGTCT-AGGACATGGCATC
1 GAGCCAGTGTAAGACCATGTCTGA-GACATGGCATC
29627442 GGCACCTTAC
Statistics
Matches: 144, Mismatches: 16, Indels: 28
0.77 0.09 0.15
Matches are distributed among these distances:
44 1 0.01
45 6 0.04
46 55 0.38
47 62 0.43
48 18 0.12
49 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.30, T:0.21
Consensus pattern (48 bp):
GAGCCAGTGTAAGACCATGTCTGAGACATGGCATCAACTACGAGATAT
Found at i:29639451 original size:39 final size:39
Alignment explanation
Indices: 29639350--29639611 Score: 359
Period size: 39 Copynumber: 6.7 Consensus size: 39
29639340 TAATTGAGGA
* * * *
29639350 TTATAACCGGGCTAAGACCCGCAGGCCTT-GTG-TGAGAT-
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTG-G-TG
* *
29639388 TTATATCCAGGCTAAGTCCCGAAGGCATTCATGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * **
29639427 TTATGTCTGGGCTAAGTCTTGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
29639466 TTATATCCGGGCTAAGTCACGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
29639505 TTATATCCGGGCTAAGTCCCGAAGGTATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
29639544 TTATATCCGGGCTAAGTCCCGAAGGTATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
29639583 TTATATCCGAGCTAAGTCCCGAAGGCATT
1 TTATATCCGGGCTAAGTCCCGAAGGCATT
29639612 TGTGTTGGAA
Statistics
Matches: 201, Mismatches: 20, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
38 25 0.12
39 174 0.87
40 2 0.01
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:29658399 original size:25 final size:25
Alignment explanation
Indices: 29658369--29658425 Score: 87
Period size: 25 Copynumber: 2.3 Consensus size: 25
29658359 CGTTCTGGCC
* *
29658369 CACAGCTCGTGAGAGCATACTGATT
1 CACAGCTCATGAGAGCATACCGATT
*
29658394 TACAGCTCATGAGAGCATACCGATT
1 CACAGCTCATGAGAGCATACCGATT
29658419 CACAGCT
1 CACAGCT
29658426 TGTGTAAACA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (25 bp):
CACAGCTCATGAGAGCATACCGATT
Found at i:29658804 original size:16 final size:16
Alignment explanation
Indices: 29658783--29658814 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
29658773 ACTTACCTGA
*
29658783 TTTGTGATTAGATTGT
1 TTTGTGATTAAATTGT
29658799 TTTGTGATTAAATTGT
1 TTTGTGATTAAATTGT
29658815 AAGTTATCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.22, C:0.00, G:0.22, T:0.56
Consensus pattern (16 bp):
TTTGTGATTAAATTGT
Found at i:29674939 original size:43 final size:43
Alignment explanation
Indices: 29674892--29675040 Score: 135
Period size: 43 Copynumber: 3.5 Consensus size: 43
29674882 AATGCCGACA
* * *
29674892 TCCCAGACGTGGTCTTACATGTAATTCAATATCGATGCCTCTG
1 TCCCAGACATGGTCTTACACGTAATTCAATATCGATGCCTATG
* * * * *
29674935 TCCCAAAAAGGGTCTTACACGAAATT-AGATAT-GATGCCAATG
1 TCCCAGACATGGTCTTACACGTAATTCA-ATATCGATGCCTATG
* * *
29674977 TCCCAGACATGGTCTTATACGTAAATCTC-A-ATCGAGGCCTGTG
1 TCCCAGACATGGTCTTACACGT-AAT-TCAATATCGATGCCTATG
*
29675020 TCCCAGACACGGTCTTACACG
1 TCCCAGACATGGTCTTACACG
29675041 ATGTCACAGA
Statistics
Matches: 83, Mismatches: 18, Indels: 10
0.75 0.16 0.09
Matches are distributed among these distances:
42 28 0.34
43 54 0.65
44 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACACGTAATTCAATATCGATGCCTATG
Found at i:29683597 original size:40 final size:40
Alignment explanation
Indices: 29683549--29683816 Score: 484
Period size: 40 Copynumber: 6.7 Consensus size: 40
29683539 GCAAACACAT
* *
29683549 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTC-CATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAAC-TCGCATAA
*
29683589 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
29683629 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
29683669 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
29683709 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
29683749 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
29683789 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
29683817 TCCAATGCTC
Statistics
Matches: 221, Mismatches: 6, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
39 2 0.01
40 219 0.99
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:29692088 original size:28 final size:28
Alignment explanation
Indices: 29692026--29692123 Score: 128
Period size: 28 Copynumber: 3.5 Consensus size: 28
29692016 AATATTAATC
29692026 CGCACAC-TAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
29692052 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
29692080 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
29692109 CGCACACATTAGTGC
1 CGCACAC-TTAGTGC
29692124 CAATCTCATA
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
26 7 0.11
27 15 0.23
28 23 0.36
29 12 0.19
30 7 0.11
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:29696644 original size:18 final size:18
Alignment explanation
Indices: 29696612--29696659 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
29696602 TTTGCTGTTA
* * *
29696612 GTTTTGGGCTAGGATTTG
1 GTTTTGGGTTTGGATTGG
29696630 GTTTTGGGTTTGGATTGG
1 GTTTTGGGTTTGGATTGG
*
29696648 GCTATTGGGTTT
1 G-TTTTGGGTTT
29696660 ATAATGGGCT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
18 16 0.64
19 9 0.36
ACGTcount: A:0.08, C:0.04, G:0.40, T:0.48
Consensus pattern (18 bp):
GTTTTGGGTTTGGATTGG
Found at i:29697194 original size:179 final size:179
Alignment explanation
Indices: 29696979--29697333 Score: 482
Period size: 179 Copynumber: 2.0 Consensus size: 179
29696969 GGGGAACATA
*
29696979 TTTGCTATGATCTGCTCTACTACAACTCAAAGAGATAAGATCTGCAACTTATAGT-TTCAACCTG
1 TTTGCTATGATCTACTCTACTACAACTCAAAGAGATAAGATCTGCAACTTATA-TCTTCAACCTG
* * *
29697043 TCCCACTGCAAATTCAGGAAAATGAGATTTACTATCTTCGGTTTGCTCCACT-TCAACTTCAGGA
65 TCCCACTGCAAATTCAGGAAAATGAGAATTACTATCTTCAGTCTGCTCCACTGT-AACTTCAGGA
* * *
29697107 AGATAAGACTTGTTATCTTAGAGTGCCCTA-TGTAACTTCAGGAGATAAGG
129 AGATAAGACTTGTTATCTCAGACTGCCCCATTGTAACTTCAGGAGATAAGG
* * * * * *
29697157 TTTGCTATGATCTATTCTACTACAACTTCAGAGAGATAAGATCTGTAATTTATATCTTTAATCTG
1 TTTGCTATGATCTACTCTACTACAAC-TCAAAGAGATAAGATCTGCAACTTATATCTTCAACCTG
* * * *
29697222 TCCCACTGCAAATTCAGGGAAATGAGAATTATTATCTTCAGTCTGCTCCACTGTAACTTTAGGGA
65 TCCCACTGCAAATTCAGGAAAATGAGAATTACTATCTTCAGTCTGCTCCACTGTAACTTCAGGAA
* * *
29697287 GATAAGATTTGTTATCTCAGTCTGCCCCATTTTAACTTCAGGAGATA
130 GATAAGACTTGTTATCTCAGACTGCCCCATTGTAACTTCAGGAGATA
29697334 GGACTTGTGA
Statistics
Matches: 153, Mismatches: 20, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
178 25 0.16
179 111 0.73
180 17 0.11
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.34
Consensus pattern (179 bp):
TTTGCTATGATCTACTCTACTACAACTCAAAGAGATAAGATCTGCAACTTATATCTTCAACCTGT
CCCACTGCAAATTCAGGAAAATGAGAATTACTATCTTCAGTCTGCTCCACTGTAACTTCAGGAAG
ATAAGACTTGTTATCTCAGACTGCCCCATTGTAACTTCAGGAGATAAGG
Found at i:29697274 original size:45 final size:44
Alignment explanation
Indices: 29697224--29697311 Score: 104
Period size: 45 Copynumber: 2.0 Consensus size: 44
29697214 TTAATCTGTC
*
29697224 CCACTGCAAATTCAGGGAAATGAGAATTATTATCTTCAGTCTGCT
1 CCACTGCAAATTCAGGGAAATAAGAATTATTATC-TCAGTCTGCT
* * * * * *
29697269 CCACTGTAACTTTAGGGAGATAAGATTTGTTATCTCAGTCTGC
1 CCACTGCAAATTCAGGGAAATAAGAATTATTATCTCAGTCTGC
29697312 CCCATTTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
44 9 0.25
45 27 0.75
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.33
Consensus pattern (44 bp):
CCACTGCAAATTCAGGGAAATAAGAATTATTATCTCAGTCTGCT
Found at i:29697626 original size:39 final size:41
Alignment explanation
Indices: 29697528--29697635 Score: 159
Period size: 39 Copynumber: 2.7 Consensus size: 41
29697518 TGATTTCAAC
* * *
29697528 CTGCTCCACTGCAACTTTAGGGAGATAAGGTTTGCCATGAT
1 CTGCTCTACTGCAACTTCAGAGAGATAAGGTTTGCCATGAT
*
29697569 CTGCTCTACTGCAA-TTCAGAGAGATAAGG-TTGCTATGAT
1 CTGCTCTACTGCAACTTCAGAGAGATAAGGTTTGCCATGAT
29697608 CT-CTCTACTGCAACTTCAGAGAGATAAG
1 CTGCTCTACTGCAACTTCAGAGAGATAAG
29697636 ATCTGTAATT
Statistics
Matches: 62, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
38 11 0.18
39 25 0.40
40 13 0.21
41 13 0.21
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (41 bp):
CTGCTCTACTGCAACTTCAGAGAGATAAGGTTTGCCATGAT
Found at i:29697719 original size:45 final size:44
Alignment explanation
Indices: 29697655--29698086 Score: 198
Period size: 44 Copynumber: 9.6 Consensus size: 44
29697645 TTATAGCTTT
* *
29697655 AATCTGTTCCACTACAACTTCAGGGAAATGAGATTTGTTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAAATGAGATTTGTTAT-TTC
*
29697700 AATCTGCTCCACTGTAACTTCAGGGAAATGAGATTTGTTATTTC
1 AATCTGCTCCACTGCAACTTCAGGGAAATGAGATTTGTTATTTC
* * * * *
29697744 AACCTGCTCCACTGCAACTTTAGGGAGATAATG-TTTGCTA--T-
1 AATCTGCTCCACTGCAACTTCAGGGAAATGA-GATTTGTTATTTC
* * * * * ** *
29697785 GATCTACTCTACTGCAACTTCAGAGAGACAAGATCTATAATTTATAGCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAAATGAGAT-T-T--GTTAT---TTC
* ** * * * *
29697836 CATCTATTCCATTACAACTTCAGGGAAATGAGATTTGATATCTC
1 AATCTGCTCCACTGCAACTTCAGGGAAATGAGATTTGTTATTTC
* * * * *
29697880 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTGATTTC
1 AATCTGCTCCACTGCAACTTCAGGGAAATGAGATTTGTTATTTC
** * * * *
29697924 AA-CATATTCCACTACAACTTCAGGGAGATAATG-TTTGCTA--T-
1 AATC-TGCTCCACTGCAACTTCAGGGAAATGA-GATTTGTTATTTC
* * * * * * *
29697965 GATCTGCTCTACTACAACTTCAGAGAGATAAGATCTGTAATTTATAGCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAAATGAGAT-T-T--GTTAT---TTC
* * * * *
29698016 AATCTGTTCTACTGTAACTTTAGGGAAATGAGATTTGCTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAAATGAGATTTGTTAT-TTC
* *
29698061 AGTCTACTCCACTGCAACTTCAGGGA
1 AATCTGCTCCACTGCAACTTCAGGGA
29698087 GATAAGGTCT
Statistics
Matches: 289, Mismatches: 72, Indels: 52
0.70 0.17 0.13
Matches are distributed among these distances:
40 2 0.01
41 50 0.17
42 5 0.02
43 3 0.01
44 98 0.34
45 68 0.24
47 6 0.02
49 2 0.01
50 4 0.01
51 51 0.18
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (44 bp):
AATCTGCTCCACTGCAACTTCAGGGAAATGAGATTTGTTATTTC
Found at i:29697758 original size:219 final size:222
Alignment explanation
Indices: 29697140--29697812 Score: 900
Period size: 219 Copynumber: 3.1 Consensus size: 222
29697130 TGCCCTATGT
* *
29697140 AACTTCAG-GAGATAAGGTTTGCTATGATCTATTCTACTACAACTTCAGAGAGATAAGATCTGTA
1 AACTTCAGAGAGATAAGGTTTGCTATGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTA
* * * * * *
29697204 ATTTATATCTTTAATCTGTCCCACTGCAAATTCAGGGAAATGAGAATTATTATCTTCAGTCTGCT
66 ATTTATAGCTTTAATCTGTTCCACTACAACTTCAGGGAAATGAGATTTGTTATCTTCAGTCTGCT
* * ** * * ** *
29697269 CCACTGTAACTTTAGGGAGATAAGATTTGTTATCTCAGTCTGCCCCATTTTAACTTCA-GGAGAT
131 CCACTGTAACTTCAGGGAGATAAGATTTGTTATTTCAACCTGCTCCACTGCAACTTTAGGGAGAT
* * *
29697333 -AGGACTTGTGACTCA--ACCTGCTCCACTAC
196 AAGG--TT-TG-C-CATGATCTGCTCTACTGC
* * *
29697362 AACTTCAGGGAGATAAGGTTTGCTATGAT-TGCTCTACTGCAACTTCAGAGAGATAAGATTTGTA
1 AACTTCAGAGAGATAAGGTTTGCTATGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTA
* * * *
29697426 ATTTATAGCTTCAAT-TGTTCTA-TACAACTTCAGAGAAATGAGATTTGCTATCTTCAGTCTGCT
66 ATTTATAGCTTTAATCTGTTCCACTACAACTTCAGGGAAATGAGATTTGTTATCTTCAGTCTGCT
* * *
29697489 CCACTGTAACTTCAGAGAGATAAGACTTGTGATTTCAACCTGCTCCACTGCAACTTTAGGGAGAT
131 CCACTGTAACTTCAGGGAGATAAGATTTGTTATTTCAACCTGCTCCACTGCAACTTTAGGGAGAT
29697554 AAGGTTTGCCATGATCTGCTCTACTGC
196 AAGGTTTGCCATGATCTGCTCTACTGC
29697581 AA-TTCAGAGAGATAAGG-TTGCTATGATCT-CTCTACTGCAACTTCAGAGAGATAAGATCTGTA
1 AACTTCAGAGAGATAAGGTTTGCTATGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTA
*
29697643 ATTTATAGCTTTAATCTGTTCCACTACAACTTCAGGGAAATGAGATTTGTTATCTTCAATCTGCT
66 ATTTATAGCTTTAATCTGTTCCACTACAACTTCAGGGAAATGAGATTTGTTATCTTCAGTCTGCT
* *
29697708 CCACTGTAACTTCAGGGAAATGAGATTTGTTATTTCAACCTGCTCCACTGCAACTTTAGGGAGAT
131 CCACTGTAACTTCAGGGAGATAAGATTTGTTATTTCAACCTGCTCCACTGCAACTTTAGGGAGAT
* * *
29697773 AATGTTTGCTATGATCTACTCTACTGC
196 AAGGTTTGCCATGATCTGCTCTACTGC
29697800 AACTTCAGAGAGA
1 AACTTCAGAGAGA
29697813 CAAGATCTAT
Statistics
Matches: 398, Mismatches: 44, Indels: 20
0.86 0.10 0.04
Matches are distributed among these distances:
217 58 0.15
218 22 0.06
219 139 0.35
220 93 0.23
221 11 0.03
222 55 0.14
223 20 0.05
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.33
Consensus pattern (222 bp):
AACTTCAGAGAGATAAGGTTTGCTATGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTA
ATTTATAGCTTTAATCTGTTCCACTACAACTTCAGGGAAATGAGATTTGTTATCTTCAGTCTGCT
CCACTGTAACTTCAGGGAGATAAGATTTGTTATTTCAACCTGCTCCACTGCAACTTTAGGGAGAT
AAGGTTTGCCATGATCTGCTCTACTGC
Found at i:29697763 original size:44 final size:45
Alignment explanation
Indices: 29697662--29697769 Score: 173
Period size: 45 Copynumber: 2.4 Consensus size: 45
29697652 TTTAATCTGT
* *
29697662 TCCACTACAACTTCAGGGAAATGAGATTTGTTATCTTCAATCTGC
1 TCCACTGCAACTTCAGGGAAATGAGATTTGTTATCTTCAACCTGC
*
29697707 TCCACTGTAACTTCAGGGAAATGAGATTTGTTAT-TTCAACCTGC
1 TCCACTGCAACTTCAGGGAAATGAGATTTGTTATCTTCAACCTGC
*
29697751 TCCACTGCAACTTTAGGGA
1 TCCACTGCAACTTCAGGGA
29697770 GATAATGTTT
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
44 26 0.45
45 32 0.55
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (45 bp):
TCCACTGCAACTTCAGGGAAATGAGATTTGTTATCTTCAACCTGC
Found at i:29697802 original size:181 final size:180
Alignment explanation
Indices: 29697569--29698092 Score: 748
Period size: 180 Copynumber: 2.9 Consensus size: 180
29697559 TTGCCATGAT
* * *
29697569 CTGCTCTACTGCAA-TTCAGAGAGATAA-GGTTGCTATGATCTCTCTACTGCAACTTCAGAGAGA
1 CTGCTCCACTGCAACTTCAGGGAGATAATGTTTGCTATGATCTCTCTACTGCAACTTCAGAGAGA
* *
29697632 TAAGATCTGTAATTTATAGCTTTAATCTGTTCCACTACAACTTCAGGGAAATGAGATTTGTTATC
66 TAAGATCTGTAATTTATAGCTTCAATCTGTTCCACTACAACTTCAGGGAAATGAGATTTGATATC
* * * * *
29697697 TTCAATCTGCTCCACTGTAACTTCAGGGAAATGAGATTTGTTATTTCAAC
131 TTCAGTCTGCTCCACTGCAACTTCAGGGAAATAAGACTTGTGATTTCAAC
*
29697747 CTGCTCCACTGCAACTTTAGGGAGATAATGTTTGCTATGATCTACTCTACTGCAACTTCAGAGAG
1 CTGCTCCACTGCAACTTCAGGGAGATAATGTTTGCTATGATCT-CTCTACTGCAACTTCAGAGAG
* * * * *
29697812 ACAAGATCTATAATTTATAGCTTCCATCTATTCCATTACAACTTCAGGGAAATGAGATTTGATAT
65 ATAAGATCTGTAATTTATAGCTTCAATCTGTTCCACTACAACTTCAGGGAAATGAGATTTGATAT
*
29697877 C-TCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTGATTTCAAC
130 CTTCAGTCTGCTCCACTGCAACTTCAGGGAAATAAGACTTGTGATTTCAAC
* ** * *
29697927 ATATTCCACTACAACTTCAGGGAGATAATGTTTGCTATGATCTGCTCTACTACAACTTCAGAGAG
1 CTGCTCCACTGCAACTTCAGGGAGATAATGTTTGCTATGATCT-CTCTACTGCAACTTCAGAGAG
* ** * *
29697992 ATAAGATCTGTAATTTATAGCTTCAATCTGTTCTACTGTAACTTTAGGGAAATGAGATTTGCTAT
65 ATAAGATCTGTAATTTATAGCTTCAATCTGTTCCACTACAACTTCAGGGAAATGAGATTTGATAT
* *
29698057 CTTCAGTCTACTCCACTGCAACTTCAGGGAGATAAG
130 CTTCAGTCTGCTCCACTGCAACTTCAGGGAAATAAG
29698093 GTCTTTAATT
Statistics
Matches: 307, Mismatches: 35, Indels: 5
0.88 0.10 0.01
Matches are distributed among these distances:
178 13 0.04
179 11 0.04
180 170 0.55
181 113 0.37
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (180 bp):
CTGCTCCACTGCAACTTCAGGGAGATAATGTTTGCTATGATCTCTCTACTGCAACTTCAGAGAGA
TAAGATCTGTAATTTATAGCTTCAATCTGTTCCACTACAACTTCAGGGAAATGAGATTTGATATC
TTCAGTCTGCTCCACTGCAACTTCAGGGAAATAAGACTTGTGATTTCAAC
Found at i:29698888 original size:13 final size:13
Alignment explanation
Indices: 29698868--29698936 Score: 63
Period size: 13 Copynumber: 5.4 Consensus size: 13
29698858 TGGCCTCTCC
29698868 TTTTTCTTT-TTT
1 TTTTTCTTTCTTT
*
29698880 TTCTTTCTTTCTCT
1 TT-TTTCTTTCTTT
*
29698894 TTTTTCTTTC-TC
1 TTTTTCTTTCTTT
* *
29698906 TTTCTCTTTTCTTC
1 TTTTTC-TTTCTTT
29698920 TTTTTCTTT-TTT
1 TTTTTCTTTCTTT
29698932 TTTTT
1 TTTTT
29698937 ATGAAACATT
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
12 14 0.30
13 22 0.47
14 11 0.23
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTTTCTTTCTTT
Found at i:29698892 original size:26 final size:25
Alignment explanation
Indices: 29698863--29698933 Score: 88
Period size: 26 Copynumber: 2.8 Consensus size: 25
29698853 CGCCTTGGCC
*
29698863 TCTCCTTTTTCTTTTTTTTCTTTCTT
1 TCTCCTTTTTCTTTTTTTTCTCT-TT
* *
29698889 TCTCTTTTTTCTTTCTCTTTCTCTTT
1 TCTCCTTTTTCTTT-TTTTTCTCTTT
*
29698915 TCTTCTTTTTCTTTTTTTT
1 TCTCCTTTTTCTTTTTTTT
29698934 TTTATGAAAC
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
25 4 0.11
26 27 0.71
27 7 0.18
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (25 bp):
TCTCCTTTTTCTTTTTTTTCTCTTT
Found at i:29698896 original size:17 final size:17
Alignment explanation
Indices: 29698870--29698931 Score: 74
Period size: 17 Copynumber: 3.7 Consensus size: 17
29698860 GCCTCTCCTT
*
29698870 TTTCTTTTTTTTCTTTC
1 TTTCTCTTTTTTCTTTC
29698887 TTTCTCTTTTTTCTTTC
1 TTTCTCTTTTTTCTTTC
*
29698904 TCTT-TCTCTTTTC-TTC
1 T-TTCTCTTTTTTCTTTC
*
29698920 TTTTTCTTTTTT
1 TTTCTCTTTTTT
29698932 TTTTTATGAA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
15 2 0.05
16 11 0.28
17 25 0.62
18 2 0.05
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTCTCTTTTTTCTTTC
Found at i:29698936 original size:6 final size:6
Alignment explanation
Indices: 29698867--29698935 Score: 59
Period size: 6 Copynumber: 11.0 Consensus size: 6
29698857 TTGGCCTCTC
* * * *
29698867 CTTTTT CTTTTT TTTCTTT CTTTCT CTTTTTT CTTTCT CTTTCT CTTTTCTT
1 CTTTTT CTTTTT CTT-TTT CTTTTT C-TTTTT CTTTTT CTTTTT C-TTT-TT
29698919 CTTTTT CTTTTT -TTTTT
1 CTTTTT CTTTTT CTTTTT
29698936 TATGAAACAT
Statistics
Matches: 53, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
5 5 0.09
6 30 0.57
7 16 0.30
8 2 0.04
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (6 bp):
CTTTTT
Found at i:29713442 original size:46 final size:49
Alignment explanation
Indices: 29713349--29713515 Score: 143
Period size: 46 Copynumber: 3.6 Consensus size: 49
29713339 TGATATGTGT
* * * * *
29713349 GCTAGTGTAAAACATGTCTGGGACATGCATCGGCCA--CA-CTAT-GAGA
1 GCTAGTGTAAGACATGTTTGGGACATGCATCGG-CATTGAGATATACAGA
* * * *
29713395 GCCAGCGTAAGACATGTTTGGGGCATGCATTGGCATTGA-A-ATA-AGA
1 GCTAGTGTAAGACATGTTTGGGACATGCATCGGCATTGAGATATACAGA
* * * *
29713441 GCTAGTGTATGACATGTCTGGGACATTCATCGGCCTTGAGATATACA-A
1 GCTAGTGTAAGACATGTTTGGGACATGCATCGGCATTGAGATATACAGA
*
29713489 GCTAGTGTAAGACCTGTTTGGGACATG
1 GCTAGTGTAAGACATGTTTGGGACATG
29713516 GGGTAAGCTT
Statistics
Matches: 95, Mismatches: 20, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
45 2 0.02
46 63 0.66
47 2 0.02
48 27 0.28
49 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (49 bp):
GCTAGTGTAAGACATGTTTGGGACATGCATCGGCATTGAGATATACAGA
Found at i:29713545 original size:44 final size:44
Alignment explanation
Indices: 29713492--29713604 Score: 190
Period size: 44 Copynumber: 2.6 Consensus size: 44
29713482 TATACAAGCT
*
29713492 AGTGTAAGACCTGTTTGGGACATGGGGTAAGCTTGTTGTGTGTC
1 AGTGTAAGACCTGTCTGGGACATGGGGTAAGCTTGTTGTGTGTC
*
29713536 AGTGTAAGACCTGTCTGGGACATGGGGTCAGCTTGTTGTGTGTC
1 AGTGTAAGACCTGTCTGGGACATGGGGTAAGCTTGTTGTGTGTC
* *
29713580 AATGTAGGACCTGTCTGGGACATGG
1 AGTGTAAGACCTGTCTGGGACATGG
29713605 CATCGACACT
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 65 1.00
ACGTcount: A:0.19, C:0.14, G:0.36, T:0.31
Consensus pattern (44 bp):
AGTGTAAGACCTGTCTGGGACATGGGGTAAGCTTGTTGTGTGTC
Found at i:29713667 original size:49 final size:48
Alignment explanation
Indices: 29713535--29713756 Score: 183
Period size: 49 Copynumber: 4.7 Consensus size: 48
29713525 TGTTGTGTGT
** * * * *
29713535 CAGTGTAAGACCTGTCTGGGACATGGGGTCAG-CTTG-TTG-TG-TGT
1 CAGTGTAAGACCTGTCTGGGACATGGCATTAGCCTTGATAGATGAAGC
* * *
29713579 CAATGTAGGACCTGTCTGGGACATGGCA-TCGACAC-TGATAGATGAGAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATTAG-C-CTTGATAGATGA-AGC
*
29713628 CAGTGTAAGACCTGTCTGGGACATGGCATTAGCCTTGATATATGAAGGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATTAGCCTTGATAGATGAA-GC
* * * * *
29713677 CAGTGTAAGACCTGTCTGGTACATGGCATGA-CTTTTAT-G-TGTTAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATTAGCCTTGATAGATG-AAGC
*
29713723 CAGTGTAAGACCATGTCTAGGACATGGCATTAGC
1 CAGTGTAAGACC-TGTCTGGGACATGGCATTAGC
29713757 ATCTTATCCC
Statistics
Matches: 143, Mismatches: 22, Indels: 22
0.76 0.12 0.12
Matches are distributed among these distances:
43 1 0.01
44 24 0.17
45 2 0.01
46 19 0.13
47 19 0.13
48 8 0.06
49 68 0.48
50 2 0.01
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.27
Consensus pattern (48 bp):
CAGTGTAAGACCTGTCTGGGACATGGCATTAGCCTTGATAGATGAAGC
Found at i:29720679 original size:51 final size:51
Alignment explanation
Indices: 29720615--29720740 Score: 148
Period size: 51 Copynumber: 2.5 Consensus size: 51
29720605 ACGGATGATC
* * * *
29720615 AGTGGCCAGCACATAGTACCACCCTTG-TAGTCAAAGCTACCTTCTT-CATAA
1 AGTGGCCTGCACATAGTACCACACTTGTTA-CCAAAGCTACCTT-TTACACAA
* * *
29720666 AGTGGCCTTCACATAGTACCACACTTGTTACCAAAGCTATCTTTTACACAT
1 AGTGGCCTGCACATAGTACCACACTTGTTACCAAAGCTACCTTTTACACAA
*
29720717 AGTGGCCTGCACTTAGTACCACAC
1 AGTGGCCTGCACATAGTACCACAC
29720741 ATGTGATCGA
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
50 2 0.03
51 60 0.94
52 2 0.03
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (51 bp):
AGTGGCCTGCACATAGTACCACACTTGTTACCAAAGCTACCTTTTACACAA
Found at i:29720754 original size:51 final size:51
Alignment explanation
Indices: 29720670--29720898 Score: 199
Period size: 51 Copynumber: 4.5 Consensus size: 51
29720660 TCATAAAGTG
* * * * * ** *
29720670 GCCTTCACATAGTACCACACTTGTTACCAAAGCTATCTTTTACACATAGTG
1 GCCTGCACTTAGTACTACACATGTGACCAAAGCTATCTGGTACACATAGTA
* * * * * *
29720721 GCCTGCACTTAGTACCACACATGTGATCGAAGCTATCGGGTACGCATAATA
1 GCCTGCACTTAGTACTACACATGTGACCAAAGCTATCTGGTACACATAGTA
* * * *
29720772 GCCTGCACTAAGTACTACACATGCGACCTAA-CAATCTGGTACACATAGTA
1 GCCTGCACTTAGTACTACACATGTGACCAAAGCTATCTGGTACACATAGTA
* * * * * ***
29720822 GCCTGCACTTAGTACTGCACACGTGACCTAAAACCATTTTAAACACATAGTA
1 GCCTGCACTTAGTACTACACATGTGACC-AAAGCTATCTGGTACACATAGTA
*
29720874 GCCTGCACATAGTACTACACATGTG
1 GCCTGCACTTAGTACTACACATGTG
29720899 TTCTCACAAT
Statistics
Matches: 142, Mismatches: 34, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
50 39 0.27
51 67 0.47
52 36 0.25
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.25
Consensus pattern (51 bp):
GCCTGCACTTAGTACTACACATGTGACCAAAGCTATCTGGTACACATAGTA
Found at i:29720836 original size:50 final size:50
Alignment explanation
Indices: 29720710--29720898 Score: 191
Period size: 50 Copynumber: 3.7 Consensus size: 50
29720700 AGCTATCTTT
* * * * * *
29720710 TACACATAGTGGCCTGCACTTAGTACCACACATGTGATCGAAGCTATCGGG
1 TACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAA-CAATCTGG
* * * *
29720761 TACGCATAATAGCCTGCACTAAGTACTACACATGCGACCTAACAATCTGG
1 TACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTGG
* * * **
29720811 TACACATAGTAGCCTGCACTTAGTACTGCACACGTGACCTAA-AACCATTT
1 TACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATC-TGG
*
29720861 TAAACACATAGTAGCCTGCACATAGTACTACACATGTG
1 T--ACACATAGTAGCCTGCACTTAGTACTACACATGTG
29720899 TTCTCACAAT
Statistics
Matches: 113, Mismatches: 22, Indels: 5
0.81 0.16 0.04
Matches are distributed among these distances:
49 3 0.03
50 44 0.39
51 34 0.30
52 32 0.28
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.24
Consensus pattern (50 bp):
TACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTGG
Found at i:29724222 original size:21 final size:21
Alignment explanation
Indices: 29724173--29724213 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
29724163 CTTTTATTTT
*
29724173 AATGATTGATGATAGATTATA
1 AATGTTTGATGATAGATTATA
29724194 AATGTTTGATGATAG-TTATA
1 AATGTTTGATGATAGATTATA
29724214 CAAGTTTTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.39, C:0.00, G:0.20, T:0.41
Consensus pattern (21 bp):
AATGTTTGATGATAGATTATA
Found at i:29727914 original size:27 final size:27
Alignment explanation
Indices: 29727876--29728054 Score: 166
Period size: 27 Copynumber: 6.6 Consensus size: 27
29727866 TAAATTGTAC
29727876 AGCACTAAGTGTGCGGTTTGACTATGT
1 AGCACTAAGTGTGCGGTTTGACTATGT
* *** *
29727903 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGGTTTGACTATGT
** *
29727929 ATGCACTAAGTGTGCGAATTGA-TCATGC
1 A-GCACTAAGTGTGCGGTTTGACT-ATGT
*
29727957 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCG-GTTTGACTATGT
* * *
29727985 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGGTTTGACTATGT
* *
29728012 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCG-GTTTGACTATGT
*
29728039 AGCACTGAGTGTGCGG
1 AGCACTAAGTGTGCGG
29728055 GCTCAATATA
Statistics
Matches: 127, Mismatches: 19, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
26 2 0.02
27 103 0.81
28 21 0.17
29 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGTTTGACTATGT
Found at i:29728044 original size:82 final size:81
Alignment explanation
Indices: 29727873--29728054 Score: 240
Period size: 82 Copynumber: 2.2 Consensus size: 81
29727863 GATTAAATTG
* *
29727873 TACAGCACTAAGTGTGCGGTTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGGTTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
29727938 GTGTGCGAATTGATCA
66 GTGTGCGAATTGATCA
* * ** *
29727954 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCG-GTTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* *
29728018 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGATCA
* *
29728036 TATAGCACTGAGTGTGCGG
1 TACAGCACTAAGTGTGCGG
29728055 GCTCAATATA
Statistics
Matches: 86, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
81 18 0.21
82 68 0.79
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGGTTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGATCA
Found at i:29732069 original size:93 final size:93
Alignment explanation
Indices: 29731910--29732081 Score: 240
Period size: 93 Copynumber: 1.8 Consensus size: 93
29731900 AGGATATTTG
* * * *
29731910 GGCATCCGAAGTCATTGAGTTTAGTCCGAGTTCACTTACGGATGCGAATGTCCGAACACGTTGAG
1 GGCATCCGAAGTCATTGAGTTGAGTCCGAATTCACTTACGGATGCGAACGCCCGAACACGTTGAG
29731975 TTGAGT-TCGAGTTCGAGAGATGTAACTA
66 TTGAGTCT-GAGTTCGAGAGATGTAACTA
* * * *
29732003 GGCATCC-AAGCTCGTTGAGTTGAGTCCGAATTCACTTATGGATGCGAACGCCCGAGCTCGTTGA
1 GGCATCCGAAG-TCATTGAGTTGAGTCCGAATTCACTTACGGATGCGAACGCCCGAACACGTTGA
29732067 GTTGAGTCTGAGTTC
65 GTTGAGTCTGAGTTC
29732082 ACTTATGGGC
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
92 3 0.04
93 65 0.94
94 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.28
Consensus pattern (93 bp):
GGCATCCGAAGTCATTGAGTTGAGTCCGAATTCACTTACGGATGCGAACGCCCGAACACGTTGAG
TTGAGTCTGAGTTCGAGAGATGTAACTA
Found at i:29739586 original size:42 final size:41
Alignment explanation
Indices: 29739473--29739610 Score: 109
Period size: 43 Copynumber: 3.2 Consensus size: 41
29739463 TGAGACATCG
* * *
29739473 TGTAAGACCGTGTCTGAGACACAGGCCTCG-ATTTAGATTTACA
1 TGTAAGACCATGTCTGGGACACAGGCATCGTA-TT-GATTT-CA
* * * *
29739516 TATAAGACCATGTATAGGACATCA-GCATCGTATCTGATTTCG
1 TGTAAGACCATGTCTGGGACA-CAGGCATCGTAT-TGATTTCA
* * *
29739558 TGTAAGACCCTGTCTGGGACAGAGGCATCGATATTGAATTACA
1 TGTAAGACCATGTCTGGGACACAGGCATCG-TATTG-ATTTCA
29739601 TGTAAGACCA
1 TGTAAGACCA
29739611 CGTCCAGGAT
Statistics
Matches: 74, Mismatches: 15, Indels: 12
0.73 0.15 0.12
Matches are distributed among these distances:
41 1 0.01
42 26 0.35
43 43 0.58
44 4 0.05
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (41 bp):
TGTAAGACCATGTCTGGGACACAGGCATCGTATTGATTTCA
Found at i:29739854 original size:41 final size:41
Alignment explanation
Indices: 29739799--29739882 Score: 159
Period size: 41 Copynumber: 2.0 Consensus size: 41
29739789 ATGAAGCATG
29739799 ATATATATGCAAACAAAGGAACATGGTTAAGTTTATGAATT
1 ATATATATGCAAACAAAGGAACATGGTTAAGTTTATGAATT
*
29739840 ATATATATGTAAACAAAGGAACATGGTTAAGTTTATGAATT
1 ATATATATGCAAACAAAGGAACATGGTTAAGTTTATGAATT
29739881 AT
1 AT
29739883 TCTATGAAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.44, C:0.06, G:0.17, T:0.33
Consensus pattern (41 bp):
ATATATATGCAAACAAAGGAACATGGTTAAGTTTATGAATT
Found at i:29743129 original size:32 final size:32
Alignment explanation
Indices: 29743088--29743150 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
29743078 ACTGTGTTTT
29743088 CTAAGATAGATCTGAGATCGGGTTATTACCAG
1 CTAAGATAGATCTGAGATCGGGTTATTACCAG
29743120 CTAAGATAGATCTGAGATCGGGTTATTACCA
1 CTAAGATAGATCTGAGATCGGGTTATTACCA
29743151 ATTGCGAGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.29
Consensus pattern (32 bp):
CTAAGATAGATCTGAGATCGGGTTATTACCAG
Found at i:29745809 original size:46 final size:46
Alignment explanation
Indices: 29745756--29745931 Score: 185
Period size: 46 Copynumber: 3.8 Consensus size: 46
29745746 TGTTTGGGCA
*
29745756 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATACGAATG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
* *** * ** *
29745802 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGGGATGTA-ACTGGGCA
1 TCCGAACTCATTGAGTTGAGTCCGAGTTC-ACTTATGGATAC-GAACG
* *
29745849 TCCGATCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
* * *
29745895 -CCTGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGG
1 TCC-GAACTCATTGAGTTGAGTCCGAGTTCACTTATGG
29745932 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 22, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
45 2 0.02
46 68 0.65
47 34 0.33
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
Found at i:29745871 original size:47 final size:47
Alignment explanation
Indices: 29745750--29745879 Score: 147
Period size: 47 Copynumber: 2.8 Consensus size: 47
29745740 CTAGGATGTT
**
29745750 TGGGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATAC
1 TGGGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACGGATGGATAC
**** * * *
29745797 -GAATGTCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGGGATGTA-AC
1 TGGGCATCCGAACTCATTGAGTTGAGTCCGAGTTC-ACGGATGGATAC
*
29745843 TGGGCATCCGATCTCATTGAGTTGAGTCCGAGTTCAC
1 TGGGCATCCGAACTCATTGAGTTGAGTCCGAGTTCAC
29745880 TTATGGATGC
Statistics
Matches: 65, Mismatches: 16, Indels: 5
0.76 0.19 0.06
Matches are distributed among these distances:
46 32 0.49
47 33 0.51
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.28
Consensus pattern (47 bp):
TGGGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACGGATGGATAC
Found at i:29745909 original size:93 final size:93
Alignment explanation
Indices: 29745750--29745923 Score: 287
Period size: 93 Copynumber: 1.9 Consensus size: 93
29745740 CTAGGATGTT
*
29745750 TGGGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATACGAATGTCCGAACTCGTTG
1 TGGGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGTCCGAACTCGTTG
29745815 AGTTGAGTCCGAGTTCGAGGGATGTAAC
66 AGTTGAGTCCGAGTTCGAGGGATGTAAC
* * *
29745843 TGGGCATCCGATCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTT
1 TGGGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGTCC-GAACTCGTT
*
29745907 GAGTTGAGTCTGAGTTC
65 GAGTTGAGTCCGAGTTC
29745924 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
TGGGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGTCCGAACTCGTTG
AGTTGAGTCCGAGTTCGAGGGATGTAAC
Found at i:29766064 original size:13 final size:13
Alignment explanation
Indices: 29766046--29766070 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
29766036 TATATTATAT
29766046 GTGTGAAAAATTC
1 GTGTGAAAAATTC
29766059 GTGTGAAAAATT
1 GTGTGAAAAATT
29766071 TATCGTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.04, G:0.24, T:0.32
Consensus pattern (13 bp):
GTGTGAAAAATTC
Found at i:29767247 original size:44 final size:43
Alignment explanation
Indices: 29767199--29767304 Score: 108
Period size: 44 Copynumber: 2.4 Consensus size: 43
29767189 ATTGTGGGTG
* * **
29767199 AGACCACGTCTGGGACATTGGCATCGATTTGTGATTTATGTGTA
1 AGACCACGTCTGGGACATTGCCATCAATTTGTGA-TTACATGTA
* *
29767243 AGACC-C-TCTTTGGGGCAGTGCCATCAATTTGTGATTACATGTA
1 AGACCACGTC--TGGGACATTGCCATCAATTTGTGATTACATGTA
*
29767286 AGACCAGGTCTGGGACATT
1 AGACCACGTCTGGGACATT
29767305 TGCGTTGTAC
Statistics
Matches: 49, Mismatches: 9, Indels: 9
0.73 0.13 0.13
Matches are distributed among these distances:
42 2 0.04
43 20 0.41
44 25 0.51
45 2 0.04
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (43 bp):
AGACCACGTCTGGGACATTGCCATCAATTTGTGATTACATGTA
Found at i:29775290 original size:15 final size:17
Alignment explanation
Indices: 29775270--29775302 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
29775260 ACCCATAACG
29775270 TGCTTC-ACG-TATCGA
1 TGCTTCGACGATATCGA
29775285 TGCTTCGACGATATCGA
1 TGCTTCGACGATATCGA
29775302 T
1 T
29775303 CTGACCCATC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 3 0.19
17 7 0.44
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.33
Consensus pattern (17 bp):
TGCTTCGACGATATCGA
Found at i:29776818 original size:27 final size:26
Alignment explanation
Indices: 29776704--29776819 Score: 108
Period size: 27 Copynumber: 4.3 Consensus size: 26
29776694 TCACGTAGGC
* *
29776704 GCAAAACAGTCATCTTACCACCTAAGG
1 GCAAAATAGTCAT-TTACCACATAAGG
*
29776731 GCAAATTAGTCATTTTACCACATAAGG
1 GCAAAATAGTCA-TTTACCACATAAGG
* *
29776758 GCAAAACCA-TCATTTGACCACATGAGG
1 GCAAAA-TAGTCATTT-ACCACATAAGG
* * *
29776785 GAAAAATAGTTAGTTTATCACATAAGG
1 GCAAAATAGTCA-TTTACCACATAAGG
29776812 GCAAAATA
1 GCAAAATA
29776820 ACTCAACCGT
Statistics
Matches: 72, Mismatches: 12, Indels: 10
0.77 0.13 0.11
Matches are distributed among these distances:
26 4 0.06
27 63 0.88
28 5 0.07
ACGTcount: A:0.41, C:0.20, G:0.16, T:0.23
Consensus pattern (26 bp):
GCAAAATAGTCATTTACCACATAAGG
Found at i:29777006 original size:24 final size:24
Alignment explanation
Indices: 29776955--29777050 Score: 122
Period size: 24 Copynumber: 4.0 Consensus size: 24
29776945 GCTTTATCAT
* *
29776955 ATAACTGGAGGCCT-AGCCTCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
29776980 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* *
29777004 ATAACTGGGGCATAAGCCATTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
29777028 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
29777051 GCACTTCCTC
Statistics
Matches: 63, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
24 51 0.81
25 12 0.19
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:29777122 original size:9 final size:9
Alignment explanation
Indices: 29777108--29777160 Score: 52
Period size: 9 Copynumber: 5.4 Consensus size: 9
29777098 ACATCATGTG
29777108 CATATCATA
1 CATATCATA
29777117 CATATCATA
1 CATATCATA
29777126 TGCATATCATA
1 --CATATCATA
* *
29777137 CATGTCATGTG
1 CATATCA--TA
29777148 CATATCATA
1 CATATCATA
29777157 CATA
1 CATA
29777161 CCATGTTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
9 20 0.56
11 16 0.44
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.34
Consensus pattern (9 bp):
CATATCATA
Found at i:29777129 original size:20 final size:20
Alignment explanation
Indices: 29777100--29777166 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
29777090 TTATGAATAC
29777100 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
29777120 ATCATATGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
29777140 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
29777160 ACCATGT
1 ATCATGT
29777167 TTATCAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.34, C:0.21, G:0.10, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:29777131 original size:11 final size:11
Alignment explanation
Indices: 29777100--29777156 Score: 59
Period size: 11 Copynumber: 5.5 Consensus size: 11
29777090 TTATGAATAC
*
29777100 ATCATGTGCAT
1 ATCATATGCAT
29777111 ATCATA--CAT
1 ATCATATGCAT
29777120 ATCATATGCAT
1 ATCATATGCAT
29777131 ATCATA--CAT
1 ATCATATGCAT
* *
29777140 GTCATGTGCAT
1 ATCATATGCAT
29777151 ATCATA
1 ATCATA
29777157 CATACCATGT
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
9 16 0.43
11 21 0.57
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.35
Consensus pattern (11 bp):
ATCATATGCAT
Found at i:29785015 original size:24 final size:24
Alignment explanation
Indices: 29784994--29785089 Score: 165
Period size: 24 Copynumber: 4.0 Consensus size: 24
29784984 TCCTCTTTCA
*
29784994 ATAACTGGGGCAAAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
29785018 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
29785042 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
* *
29785066 ATAACTAGGGCATAAGCCCATTTG
1 ATAACTGGGGCATAAGCCCTTTTG
29785090 CACTTCCTCC
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 69 1.00
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTG
Found at i:29785164 original size:20 final size:20
Alignment explanation
Indices: 29785139--29785177 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
29785129 TATGAATACA
29785139 TCATGTGCATATCATACATG
1 TCATGTGCATATCATACATG
29785159 TCATGTGCATATCATACAT
1 TCATGTGCATATCATACAT
29785178 ACCATGTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.36
Consensus pattern (20 bp):
TCATGTGCATATCATACATG
Found at i:29785183 original size:20 final size:20
Alignment explanation
Indices: 29785140--29785184 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
29785130 ATGAATACAT
**
29785140 CATGTGCATATCATACATGT
1 CATGTGCATATCATACATAC
29785160 CATGTGCATATCATACATAC
1 CATGTGCATATCATACATAC
29785180 CATGT
1 CATGT
29785185 TTATCAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.33
Consensus pattern (20 bp):
CATGTGCATATCATACATAC
Found at i:29792994 original size:15 final size:15
Alignment explanation
Indices: 29792976--29793014 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
29792966 TACAAGATAG
29792976 AGAAACCCAGAATAA
1 AGAAACCCAGAATAA
*
29792991 AGAAATCCAGAATAA
1 AGAAACCCAGAATAA
29793006 AGAAACCCA
1 AGAAACCCA
29793015 AGATACGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.59, C:0.21, G:0.13, T:0.08
Consensus pattern (15 bp):
AGAAACCCAGAATAA
Found at i:29792994 original size:30 final size:30
Alignment explanation
Indices: 29792946--29793014 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 30
29792936 TAAATATAAC
* *
29792946 AAGAAAACC-GAATTAAGAAATACAAG-ATA
1 AAGAAACCCAGAATAAAGAAAT-CAAGAATA
* *
29792975 GAGAAACCCAGAATAAAGAAATCCAGAATA
1 AAGAAACCCAGAATAAAGAAATCAAGAATA
29793005 AAGAAACCCA
1 AAGAAACCCA
29793015 AGATACGATA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
29 10 0.30
30 23 0.70
ACGTcount: A:0.59, C:0.16, G:0.14, T:0.10
Consensus pattern (30 bp):
AAGAAACCCAGAATAAAGAAATCAAGAATA
Found at i:29799639 original size:44 final size:43
Alignment explanation
Indices: 29799576--29799706 Score: 181
Period size: 43 Copynumber: 3.0 Consensus size: 43
29799566 TTTTATCCTA
* *
29799576 GAAAAAAGAATTTATAAAGAGGAGAATATAATCTTGGGTTGTT
1 GAAAAAAGAATTTAAAAAGAGGAGAAGATAATCTTGGGTTGTT
* *
29799619 GAAAAAAGAGTTTTAAAAAGAGGATAAGATAATCTTGGGTTGTT
1 GAAAAAAGA-ATTTAAAAAGAGGAGAAGATAATCTTGGGTTGTT
* * * *
29799663 GAAAAAAGAATTTAAAAAGAGGATAAGGTAAACATGGGTTGTT
1 GAAAAAAGAATTTAAAAAGAGGAGAAGATAATCTTGGGTTGTT
29799706 G
1 G
29799707 GATTGACCTT
Statistics
Matches: 79, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
43 40 0.51
44 39 0.49
ACGTcount: A:0.45, C:0.02, G:0.25, T:0.27
Consensus pattern (43 bp):
GAAAAAAGAATTTAAAAAGAGGAGAAGATAATCTTGGGTTGTT
Found at i:29815445 original size:12 final size:13
Alignment explanation
Indices: 29815421--29815449 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
29815411 GGGCTATAAC
29815421 TATTGCATTTATT
1 TATTGCATTTATT
29815434 TATTGC-TTTATT
1 TATTGCATTTATT
29815446 TATT
1 TATT
29815450 CATGTATGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.66
Consensus pattern (13 bp):
TATTGCATTTATT
Found at i:29823507 original size:42 final size:44
Alignment explanation
Indices: 29823438--29823541 Score: 126
Period size: 42 Copynumber: 2.4 Consensus size: 44
29823428 CTTCGACTTA
29823438 TGATTTACGTGTAAGACCATGTCTGGGACA-TCAGCATCG-TATT
1 TGATTTACGTGTAAGACCATGTCTGGGACAGT-AGCATCGATATT
* * *
29823481 TGATTT-CGTGTAAGACCCTGTTTGGGACAGTGGCATCGATATT
1 TGATTTACGTGTAAGACCATGTCTGGGACAGTAGCATCGATATT
* *
29823524 TGA-TTACATGTATGACCA
1 TGATTTACGTGTAAGACCA
29823542 CGTAGGGCGT
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
42 29 0.56
43 23 0.44
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (44 bp):
TGATTTACGTGTAAGACCATGTCTGGGACAGTAGCATCGATATT
Found at i:29825363 original size:23 final size:23
Alignment explanation
Indices: 29825331--29825387 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 23
29825321 ACGTTTACTG
*
29825331 CTATT-GCAGCTTTGCTGCATTA
1 CTATTAGCAGCTTTGCTACATTA
*
29825353 CTATTAGCAGCTTTGCTACGTTA
1 CTATTAGCAGCTTTGCTACATTA
29825376 CTATTAGCAGCT
1 CTATTAGCAGCT
29825388 ACGCTACGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 5 0.16
23 27 0.84
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.39
Consensus pattern (23 bp):
CTATTAGCAGCTTTGCTACATTA
Found at i:29825393 original size:23 final size:23
Alignment explanation
Indices: 29825350--29825395 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
29825340 CTTTGCTGCA
**
29825350 TTACTATTAGCAGCTTTGCTACG
1 TTACTATTAGCAGCTACGCTACG
29825373 TTACTATTAGCAGCTACGCTACG
1 TTACTATTAGCAGCTACGCTACG
29825396 ATATTGGTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.35
Consensus pattern (23 bp):
TTACTATTAGCAGCTACGCTACG
Found at i:29842090 original size:31 final size:31
Alignment explanation
Indices: 29842026--29842090 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
29842016 GTGGGACGAC
* *
29842026 ATAAGACATAAATTACATGGTTTTATATTAT
1 ATAAGACATAAATTACATGGTTTAATATAAT
*
29842057 ATAAGACATAAATTATAT-GTTATAATATAAT
1 ATAAGACATAAATTACATGGTT-TAATATAAT
29842088 ATA
1 ATA
29842091 TATATCATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
30 3 0.10
31 27 0.90
ACGTcount: A:0.48, C:0.05, G:0.08, T:0.40
Consensus pattern (31 bp):
ATAAGACATAAATTACATGGTTTAATATAAT
Found at i:29843253 original size:56 final size:56
Alignment explanation
Indices: 29843113--29843304 Score: 273
Period size: 56 Copynumber: 3.4 Consensus size: 56
29843103 GAAGAATATG
*
29843113 TGGCATCGATATGTGACTT-TGATATATGTGT-TCGAGTAAGACCACGTTTAATA-GT
1 TGGCATCGATATGTGA-TTCTGATATATGTGTGT-GAGTAAGTCCACGTTTAATACGT
*
29843168 TGGCATCGATATGTGATTCCGATATATGTGTGTGAGTAAGTCCACGTTTAATACGT
1 TGGCATCGATATGTGATTCTGATATATGTGTGTGAGTAAGTCCACGTTTAATACGT
* ** *
29843224 TAGCATCGATATGTGATTCTGATATATGTGTGCAAGTAAGTCCACGTTTCATACGT
1 TGGCATCGATATGTGATTCTGATATATGTGTGTGAGTAAGTCCACGTTTAATACGT
* *
29843280 TGGTATCAATATGTGATTCTGATAT
1 TGGCATCGATATGTGATTCTGATAT
29843305 GTGTTCACGA
Statistics
Matches: 124, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
54 2 0.02
55 46 0.37
56 76 0.61
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.37
Consensus pattern (56 bp):
TGGCATCGATATGTGATTCTGATATATGTGTGTGAGTAAGTCCACGTTTAATACGT
Found at i:29843350 original size:112 final size:110
Alignment explanation
Indices: 29843112--29843353 Score: 256
Period size: 112 Copynumber: 2.2 Consensus size: 110
29843102 GGAAGAATAT
* * *
29843112 GTGGCATCGATATGTGACTTTGATATATGTGTTCGAGTAAGACCACGTTTAATAGTTGGCATCGA
1 GTGGCATCGATATGTGACTTTGATATATGTGTGCAAGTAAGACCACGTTTAATAGTTGGCATCAA
** * * *
29843177 TATGTGATTCCGATATATGTGTGTGAGTAAGTCCACGTTTAATAC
66 TATGTGATTCCGATATATGTGTACGAGTAAGACCACGTCTAAGAC
* * * *
29843222 GTTAGCATCGATATGTGA-TTCTGATATATGTGTGCAAGTAAGTCCACGTTTCATACGTTGGTAT
1 G-TGGCATCGATATGTGACTT-TGATATATGTGTGCAAGTAAGACCACGTTTAATA-GTTGGCAT
* * **
29843286 CAATATGTGATTCTGATATGTGT-TCACGAGTAAGACC-CTGTCTGGGAC
63 CAATATGTGATTCCGATATATGTGT-ACGAGTAAGACCAC-GTCTAAGAC
*
29843334 AGTGGCACCGATATGTGACT
1 -GTGGCATCGATATGTGACT
29843354 ACATGTAAGA
Statistics
Matches: 107, Mismatches: 18, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
110 3 0.03
111 47 0.44
112 55 0.51
113 2 0.02
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.34
Consensus pattern (110 bp):
GTGGCATCGATATGTGACTTTGATATATGTGTGCAAGTAAGACCACGTTTAATAGTTGGCATCAA
TATGTGATTCCGATATATGTGTACGAGTAAGACCACGTCTAAGAC
Found at i:29847988 original size:16 final size:16
Alignment explanation
Indices: 29847969--29847999 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
29847959 CTTCTTCACT
29847969 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
29847985 TACTTACTTACTTAA
1 TACTCACTTACTTAA
29848000 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:29848005 original size:20 final size:20
Alignment explanation
Indices: 29847966--29848005 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
29847956 AAACTTCTTC
* *
29847966 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
29847986 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
29848006 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:29848381 original size:55 final size:55
Alignment explanation
Indices: 29848237--29848446 Score: 250
Period size: 55 Copynumber: 3.9 Consensus size: 55
29848227 GTATCCTTTT
* * * *
29848237 GAAACTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTAT-
1 GAAACTTACCAATGTCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
* * * *
29848291 G-AACTCACCAATGTTATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATA
1 GAAACTTACCAATGTCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTATA
* *
29848345 GAAACTTACCAATGTCATGTCTTGACATGGTCTTACATGATATCCTTGCC-TA-A
1 GAAACTTACCAATGTCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
* *
29848398 GAAACCTTACCAATTTCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 GAAA-CTTACCAATGT-CATGCCTTGACATGGTCTTACATGGTATCCTT
29848447 AAACCCTAAT
Statistics
Matches: 132, Mismatches: 18, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
52 2 0.02
53 46 0.35
54 14 0.11
55 68 0.52
56 2 0.02
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.34
Consensus pattern (55 bp):
GAAACTTACCAATGTCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
Done.