Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr5
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: 55438857
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1812582 characters in sequence are not A, C, G, or T
File 114 of 167
Found at i:38191878 original size:5 final size:5
Alignment explanation
Indices: 38191868--38191899 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
38191858 TTGTGTGTTC
38191868 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
38191900 TCTCAAATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:38191882 original size:9 final size:9
Alignment explanation
Indices: 38191868--38191898 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
38191858 TTGTGTGTTC
38191868 TTTATTTTA
1 TTTATTTTA
38191877 TTTATTTTA
1 TTTATTTTA
38191886 TTTTATTTTA
1 -TTTATTTTA
38191896 TTT
1 TTT
38191899 TTCTCAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:38197113 original size:816 final size:816
Alignment explanation
Indices: 38195536--38197735 Score: 3676
Period size: 816 Copynumber: 2.7 Consensus size: 816
38195526 TTGTGCAATT
** * * * * * * *
38195536 AGTTGGAAAGCCACTTTGCAAACTACAATCGCTTTGTCTACCACTGAAGCTGAGTACATGGCGAT
1 AGTTGGAAAGATAGTTTGCAAACTATAGTTGCTTTGTCTACTATTGAAGTTGAGTACATGGCGAT
* * * * * * * * *
38195601 TACTGAGGCTTGTAAAGAAGCTATTTTGTTGAAGGGACTATTTAGTGAACTCAATGAAGACCTTC
66 TACTGAGGCTTGTAAAGAAGATATTTGGTTAAAAGGACTCTTTGGTGAACTCAGTAAACACCTTC
* ** * * * ** * ** *
38195666 AAATCAGCACAGTATTTTGTGACAGTCAGAGTGCCATCTTTCTTACAAAAGATCAAATGTTTCAT
131 AGATCAATACAGTGTTTTGTGGCAGTCAGACTATCATCTTCCTTATGAAGGATCAAATGTTTCAT
* * * * * * *
38195731 GAGAGAACAAAACACATTAATATTCGGTATCATTTTGT-TCGTGATATTATTGCTCGTGGTGATA
196 GAAAGAATAAAGCACATTGATGTTCAGTATCATTTTGTGT-GTGATATTATTGCTCGTAGTGATA
* * ** *
38195795 TTATTGTGAGCAAAATTAGTACTCATGAAAATCCTATAGATATGATGACTAAGTCACTT-CCTAT
260 TTGTTGTGAGCAAAGTTAGTACTCATGAAAATCCTGCAGATGTGATGACTAAGTCA-TTGCCTAT
* * * *
38195859 AACCAAGTTTGAGCATTGCTTAGACTTGGTTGGTGTTCATTGTTGAAGTTAA-ACCCTTAAGGGG
324 AACCAAGTTTAAGCATTGATTGGACTTGGTTGGTGTTCATTGTTGAA--TAACACCTTTAAGGGG
** * * * * * * * *
38195923 TTTTATGGAAGAGGTAGAGAACTTGTTTATTGAAAGTTCGCGATGAAGAACTTGTTCATTGAGAA
387 TTTCGTGGAAGAGGTGGAGAACTTGTTTGTTGAGAGTTCGTGGTGAACAACTTATTCGTTGAGAA
* * * * * * * * **
38195988 TTTGTGTCAAGGTGGAGATTGTTAGAATT-AAGTGACCCAAATTCTTATTTAAATAAAATACGA-
452 TTCGTTTCAAAGTGGAGATTGTTAGAATTGAA-TGACTCGAATCCTTATTAAAATAAAAAAAAAG
*
38196051 TG-GAAAATAAAATAAAAGTAAAATCCATATAGAACTAGACTTCTTTTTATTTTATTTTAGAATA
516 TGCTAAAATAAAATAAAAGTAAAATCCATATAGAACTAGACTTCTTTTTATTTTATTTTAGAATA
38196115 AGGTTTTTAAACCTTATTAAACTCCATCTATTTTATATTGATTAGGATAAGGTGTTTCAATCCTA
581 AGGTTTTTAAACCTTATTAAACTCCATCTATTTTATATTGATTAGGATAAGGTGTTTCAATCCTA
38196180 CTAGAATATGGCTTTGCAAGCCTATAAATAGACATAGTCTATTCCTCTTGTATTTGAGTCAAATT
646 CTAGAATATGGCTTTGCAAGCCTATAAATAGACATAGTCTATTCCTCTTGTATTTGAGTCAAATT
38196245 TTTCGACATAGTGAATTTTCTTCTCCTCTTCCCATGGTTTTTTCCCGAAAGGGTTTCCACGTAAA
711 TTTCGACATAGTGAATTTTCTTCTCCTCTTCCCATGGTTTTTTCCCGAAAGGGTTTCCACGTAAA
38196310 ATTTGTGTGTTCTTTATTTTATTTTATTTTATTTTTTTCAC
776 ATTTGTGTGTTCTTTATTTTATTTTATTTTATTTTTTTCAC
38196351 AGTTGGAAAGATAGTTTGCAAACTATAGTTGCTTTGTCTACTATTGAAGTTGAGTACATGGCGAT
1 AGTTGGAAAGATAGTTTGCAAACTATAGTTGCTTTGTCTACTATTGAAGTTGAGTACATGGCGAT
38196416 TACTGAGGCTTGTAAAGAAGATATTTGGTTAAAAGGACTCTTTGGTGAACTCAGTAAACACCTTC
66 TACTGAGGCTTGTAAAGAAGATATTTGGTTAAAAGGACTCTTTGGTGAACTCAGTAAACACCTTC
38196481 AGATCAATACAGTGTTTTGTGGCAGTCAGACTATCATCTTCCTTATGAAGGATCAAATGTTTCAT
131 AGATCAATACAGTGTTTTGTGGCAGTCAGACTATCATCTTCCTTATGAAGGATCAAATGTTTCAT
38196546 GAAAGAATAAAGCACATTGATGTTCAGTATCATTTTGTGTGTGATATTATTGCTCGTAGTGATAT
196 GAAAGAATAAAGCACATTGATGTTCAGTATCATTTTGTGTGTGATATTATTGCTCGTAGTGATAT
38196611 TGTTGTGAGCAAAGTTAGTACTCATGAAAATCCTGCAGATGTGATGACTAAGTCATTGCCTATAA
261 TGTTGTGAGCAAAGTTAGTACTCATGAAAATCCTGCAGATGTGATGACTAAGTCATTGCCTATAA
38196676 CCAAGTTTAAGCATTGATTGGACTTGGTTGGTGTTCATTGTTGAATAACACCTTTAAGGGGTTTC
326 CCAAGTTTAAGCATTGATTGGACTTGGTTGGTGTTCATTGTTGAATAACACCTTTAAGGGGTTTC
38196741 GTGGAAGAGGTGGAGAACTTGTTTGTTGAGAGTTCGTGGTGAACAACTTATTCGTTGAGAATTCG
391 GTGGAAGAGGTGGAGAACTTGTTTGTTGAGAGTTCGTGGTGAACAACTTATTCGTTGAGAATTCG
38196806 TTTCAAAGTGGAGATTGTTAGAATTGAATGACTCGAATCCTTATTAAAATAAAAAAAAAGTGCTA
456 TTTCAAAGTGGAGATTGTTAGAATTGAATGACTCGAATCCTTATTAAAATAAAAAAAAAGTGCTA
38196871 AAATAAAATAAAAGTAAAATCCATATAGAACTAGACTTCTTTTTATTTTATTTTAGAATAAGGTT
521 AAATAAAATAAAAGTAAAATCCATATAGAACTAGACTTCTTTTTATTTTATTTTAGAATAAGGTT
38196936 TTTAAACCTTATTAAACTCCATCTATTTTATATTGATTAGGATAAGGTGTTTCAATCCTACTAGA
586 TTTAAACCTTATTAAACTCCATCTATTTTATATTGATTAGGATAAGGTGTTTCAATCCTACTAGA
38197001 ATATGGCTTTGCAAGCCTATAAATAGACATAGTCTATTCCTCTTGTATTTGAGTCAAATTTTTCG
651 ATATGGCTTTGCAAGCCTATAAATAGACATAGTCTATTCCTCTTGTATTTGAGTCAAATTTTTCG
38197066 ACATAGTGAATTTTCTTCTCCTCTTCCCATGGTTTTTTCCCGAAAGGGTTTCCACGTAAAATTTG
716 ACATAGTGAATTTTCTTCTCCTCTTCCCATGGTTTTTTCCCGAAAGGGTTTCCACGTAAAATTTG
38197131 TGTGTTCTTTATTTTATTTTATTTTATTTTTTTCAC
781 TGTGTTCTTTATTTTATTTTATTTTATTTTTTTCAC
38197167 AGTTGGAAAGATAGTTTGCAAACTATAGTTGCTTTGTCTACTATTGAAGTTGAGTACATGGCGAT
1 AGTTGGAAAGATAGTTTGCAAACTATAGTTGCTTTGTCTACTATTGAAGTTGAGTACATGGCGAT
38197232 TACTGAGGCTTGTAAAGAAGATATTTGGTTAAAAGGACTCTTTGGTGAACTCAGTAAACACCTTC
66 TACTGAGGCTTGTAAAGAAGATATTTGGTTAAAAGGACTCTTTGGTGAACTCAGTAAACACCTTC
38197297 AGATCAATACAGTGTTTTGTGGCAGTCAGACTATCATCTTCCTTATGAAGGATCAAATGTTTCAT
131 AGATCAATACAGTGTTTTGTGGCAGTCAGACTATCATCTTCCTTATGAAGGATCAAATGTTTCAT
38197362 GAAAGAATAAAGCACATTGATGTTCAGTATCATTTTGTGTGTGATATTATTGCTCGTAGTGATAT
196 GAAAGAATAAAGCACATTGATGTTCAGTATCATTTTGTGTGTGATATTATTGCTCGTAGTGATAT
38197427 TGTTGTGAGCAAAGTTAGTACTCATGAAAATCCTGCAGATGTGATGACTAAGTCATTGCCTATAA
261 TGTTGTGAGCAAAGTTAGTACTCATGAAAATCCTGCAGATGTGATGACTAAGTCATTGCCTATAA
38197492 CCAAGTTTAAGCATTGATTGGACTTGGTTGGTGTTCATTGTTGAATAACACCTTTAAGGGGTTTC
326 CCAAGTTTAAGCATTGATTGGACTTGGTTGGTGTTCATTGTTGAATAACACCTTTAAGGGGTTTC
38197557 GTGGAAGAGGTGGAGAACTTGTTTGTTGAGAGTTCGTGGTGAACAACTTATTCGTTGAGAATTCG
391 GTGGAAGAGGTGGAGAACTTGTTTGTTGAGAGTTCGTGGTGAACAACTTATTCGTTGAGAATTCG
38197622 TTTCAAAGTGGAGATTGTTAGAATTGAATGACTCGAATCCTTATTAAAATAAAAAAAAAGTGCTA
456 TTTCAAAGTGGAGATTGTTAGAATTGAATGACTCGAATCCTTATTAAAATAAAAAAAAAGTGCTA
* * *
38197687 AAATAAAATAAAAGTAAAATCCATATAGAATTATA-TTTTTTTTATTTTA
521 AAATAAAATAAAAGTAAAATCCATATAGAACTAGACTTCTTTTTATTTTA
38197736 CATTGGTTAT
Statistics
Matches: 1309, Mismatches: 70, Indels: 12
0.94 0.05 0.01
Matches are distributed among these distances:
813 3 0.00
814 118 0.09
815 337 0.26
816 851 0.65
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.37
Consensus pattern (816 bp):
AGTTGGAAAGATAGTTTGCAAACTATAGTTGCTTTGTCTACTATTGAAGTTGAGTACATGGCGAT
TACTGAGGCTTGTAAAGAAGATATTTGGTTAAAAGGACTCTTTGGTGAACTCAGTAAACACCTTC
AGATCAATACAGTGTTTTGTGGCAGTCAGACTATCATCTTCCTTATGAAGGATCAAATGTTTCAT
GAAAGAATAAAGCACATTGATGTTCAGTATCATTTTGTGTGTGATATTATTGCTCGTAGTGATAT
TGTTGTGAGCAAAGTTAGTACTCATGAAAATCCTGCAGATGTGATGACTAAGTCATTGCCTATAA
CCAAGTTTAAGCATTGATTGGACTTGGTTGGTGTTCATTGTTGAATAACACCTTTAAGGGGTTTC
GTGGAAGAGGTGGAGAACTTGTTTGTTGAGAGTTCGTGGTGAACAACTTATTCGTTGAGAATTCG
TTTCAAAGTGGAGATTGTTAGAATTGAATGACTCGAATCCTTATTAAAATAAAAAAAAAGTGCTA
AAATAAAATAAAAGTAAAATCCATATAGAACTAGACTTCTTTTTATTTTATTTTAGAATAAGGTT
TTTAAACCTTATTAAACTCCATCTATTTTATATTGATTAGGATAAGGTGTTTCAATCCTACTAGA
ATATGGCTTTGCAAGCCTATAAATAGACATAGTCTATTCCTCTTGTATTTGAGTCAAATTTTTCG
ACATAGTGAATTTTCTTCTCCTCTTCCCATGGTTTTTTCCCGAAAGGGTTTCCACGTAAAATTTG
TGTGTTCTTTATTTTATTTTATTTTATTTTTTTCAC
Found at i:38204367 original size:50 final size:50
Alignment explanation
Indices: 38204313--38204414 Score: 195
Period size: 50 Copynumber: 2.0 Consensus size: 50
38204303 AAAAAGAAGA
38204313 AGCTAATGTTGGTATTACCTACTATTTAATGTGACTGAGTTTGACAGTGT
1 AGCTAATGTTGGTATTACCTACTATTTAATGTGACTGAGTTTGACAGTGT
*
38204363 AGCTAATGTTGGTATTTCCTACTATTTAATGTGACTGAGTTTGACAGTGT
1 AGCTAATGTTGGTATTACCTACTATTTAATGTGACTGAGTTTGACAGTGT
38204413 AG
1 AG
38204415 GAGAGAAAAG
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.25, C:0.12, G:0.23, T:0.40
Consensus pattern (50 bp):
AGCTAATGTTGGTATTACCTACTATTTAATGTGACTGAGTTTGACAGTGT
Found at i:38205466 original size:16 final size:16
Alignment explanation
Indices: 38205445--38205476 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
38205435 TTATTTTTAT
38205445 TTAATTTCTTCAGAAA
1 TTAATTTCTTCAGAAA
*
38205461 TTAATTTTTTCAGAAA
1 TTAATTTCTTCAGAAA
38205477 AAGTTATGAT
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:0.38, C:0.09, G:0.06, T:0.47
Consensus pattern (16 bp):
TTAATTTCTTCAGAAA
Found at i:38206491 original size:7 final size:6
Alignment explanation
Indices: 38206469--38206529 Score: 54
Period size: 6 Copynumber: 10.0 Consensus size: 6
38206459 ACGTTCCTTC
* * *
38206469 TTCTTT TCTATTT TTCTTGT TTCTTAT TTCTTT TTCATT TTC--T TTGTTT
1 TTCTTT T-TCTTT TTCTT-T TTCTT-T TTCTTT TTCTTT TTCTTT TTCTTT
38206518 TTCTTT TTCTTT
1 TTCTTT TTCTTT
38206530 ACTTTCGATT
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
4 3 0.07
6 25 0.56
7 17 0.38
ACGTcount: A:0.05, C:0.15, G:0.03, T:0.77
Consensus pattern (6 bp):
TTCTTT
Found at i:38206520 original size:16 final size:16
Alignment explanation
Indices: 38206499--38206529 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
38206489 TTCTTATTTC
38206499 TTTTTCATTTTCTTTG
1 TTTTTCATTTTCTTTG
*
38206515 TTTTTCTTTTTCTTT
1 TTTTTCATTTTCTTT
38206530 ACTTTCGATT
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:0.03, C:0.13, G:0.03, T:0.81
Consensus pattern (16 bp):
TTTTTCATTTTCTTTG
Found at i:38214349 original size:62 final size:63
Alignment explanation
Indices: 38214243--38214380 Score: 149
Period size: 62 Copynumber: 2.2 Consensus size: 63
38214233 GTGGTAGGTT
* * *
38214243 GTGTAACTCATTTTTTTATGAATTAGAGGCACACGAGCTAAGGAC-TCAAGTGTGTGTCCAAGCC
1 GTGTAACTCATTTTTTTAT-AATTAGAGGCACACGAGCCAAGGACATCAA-CGTGTATCCAAGCC
* * **
38214307 GTGTAACTCATTTTTTGTAT-TTTAG-GTCACAC-AGGCCAAGGACATGGACGTGTATCCAAGCC
1 GTGTAACTCATTTTTT-TATAATTAGAGGCACACGA-GCCAAGGACATCAACGTGTATCCAAGCC
38214369 GTGTAACTCATT
1 GTGTAACTCATT
38214381 ATTTAGGATT
Statistics
Matches: 64, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
61 1 0.02
62 38 0.59
63 6 0.09
64 16 0.25
65 3 0.05
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (63 bp):
GTGTAACTCATTTTTTTATAATTAGAGGCACACGAGCCAAGGACATCAACGTGTATCCAAGCC
Found at i:38216604 original size:17 final size:17
Alignment explanation
Indices: 38216582--38216614 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
38216572 CAATTCATGA
38216582 GTCTATATATACATATT
1 GTCTATATATACATATT
*
38216599 GTCTATATATATATAT
1 GTCTATATATACATAT
38216615 ATATCATAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.09, G:0.06, T:0.48
Consensus pattern (17 bp):
GTCTATATATACATATT
Found at i:38218406 original size:20 final size:20
Alignment explanation
Indices: 38218383--38218425 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
38218373 CCTCGCATTC
38218383 CTTTCCCTTCT-CTTCCCTTA
1 CTTT-CCTTCTCCTTCCCTTA
*
38218403 CTTTCCTTCTCCTTTCCTTA
1 CTTTCCTTCTCCTTCCCTTA
38218423 CTT
1 CTT
38218426 CAATCCCAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.05, C:0.42, G:0.00, T:0.53
Consensus pattern (20 bp):
CTTTCCTTCTCCTTCCCTTA
Found at i:38218863 original size:21 final size:21
Alignment explanation
Indices: 38218837--38218892 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
38218827 AACAGCGGTG
*
38218837 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
*
38218858 GCGGTGAGATTGGATACTGTA
1 GCGGTGAGATTAGATACTGTA
*
38218879 GCGATGAGATTAGA
1 GCGGTGAGATTAGA
38218893 AATAGCGGTG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.27, C:0.09, G:0.36, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:38222280 original size:21 final size:20
Alignment explanation
Indices: 38222231--38222283 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
38222221 TATCTACAAA
** *
38222231 TTTTATAATATATTTATATT
1 TTTTATAATATATCGATATC
38222251 TTTTCATAATATATCGATAATC
1 TTTT-ATAATATATCGAT-ATC
38222273 TTTTATAATAT
1 TTTTATAATAT
38222284 TTAATCATGT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 4 0.14
21 18 0.64
22 6 0.21
ACGTcount: A:0.36, C:0.06, G:0.02, T:0.57
Consensus pattern (20 bp):
TTTTATAATATATCGATATC
Found at i:38222380 original size:10 final size:9
Alignment explanation
Indices: 38222295--38222379 Score: 64
Period size: 9 Copynumber: 8.9 Consensus size: 9
38222285 TAATCATGTA
38222295 AATTTTTAT
1 AATTTTTAT
*
38222304 AACATTTTAAT
1 -A-ATTTTTAT
*
38222315 ATTTTTTAT
1 AATTTTTAT
* *
38222324 AGTTTTCTTT
1 AATTTT-TAT
38222334 AATTTTTAT
1 AATTTTTAT
*
38222343 AAATTTTA-
1 AATTTTTAT
38222351 AATTTATTAT
1 AATTT-TTAT
38222361 AATATTTTAAT
1 AAT-TTTT-AT
38222372 AATTTTTA
1 AATTTTTA
38222380 AGCTTAAATA
Statistics
Matches: 60, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
8 4 0.07
9 24 0.40
10 18 0.30
11 14 0.23
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.61
Consensus pattern (9 bp):
AATTTTTAT
Found at i:38223817 original size:16 final size:16
Alignment explanation
Indices: 38223771--38223817 Score: 53
Period size: 18 Copynumber: 2.9 Consensus size: 16
38223761 AAGAAAAAAA
*
38223771 ATTA-AAAAATGTTTT
1 ATTATAAAAATATTTT
38223786 -TTATAAAAATAAATTTT
1 ATTATAAAAAT--ATTTT
38223803 ATTATAAAAATATTT
1 ATTATAAAAATATTT
38223818 ATATCTTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
14 3 0.11
15 6 0.22
16 4 0.15
17 4 0.15
18 10 0.37
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (16 bp):
ATTATAAAAATATTTT
Found at i:38225148 original size:22 final size:21
Alignment explanation
Indices: 38225120--38225175 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
38225110 GAATAGTTTC
* *
38225120 ACACACCCGTGTGGTCTAGATG
1 ACACACCCGTGTGGT-TACATA
*
38225142 ACACACCCGTGT-GTTCCATA
1 ACACACCCGTGTGGTTACATA
38225162 ACACACCCGTGTGG
1 ACACACCCGTGTGG
38225176 GCACACCATG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
20 15 0.50
21 3 0.10
22 12 0.40
ACGTcount: A:0.23, C:0.32, G:0.23, T:0.21
Consensus pattern (21 bp):
ACACACCCGTGTGGTTACATA
Found at i:38227531 original size:4 final size:4
Alignment explanation
Indices: 38227522--38227626 Score: 63
Period size: 4 Copynumber: 24.5 Consensus size: 4
38227512 AATTTTCCCT
*
38227522 TTTC TTTC TTTC TTTC TTTC CTTC TTTCC TTCTC TGTT- TTTC GTTTCAC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTT-C TT-TC T-TTC TTTC -TTT--C
* * *
38227571 CTTC TGTTC TTTC TATTC TTT- GTTC TTTG TATTC TTT- TTTC TTTC TTTTC
1 TTTC T-TTC TTTC T-TTC TTTC TTTC TTTC T-TTC TTTC TTTC TTTC -TTTC
38227621 TTTC TT
1 TTTC TT
38227627 CATTTAACTA
Statistics
Matches: 80, Mismatches: 8, Indels: 26
0.70 0.07 0.23
Matches are distributed among these distances:
3 7 0.09
4 44 0.55
5 24 0.30
6 4 0.05
7 1 0.01
ACGTcount: A:0.03, C:0.24, G:0.05, T:0.69
Consensus pattern (4 bp):
TTTC
Found at i:38227535 original size:8 final size:8
Alignment explanation
Indices: 38227522--38227626 Score: 63
Period size: 9 Copynumber: 12.2 Consensus size: 8
38227512 AATTTTCCCT
38227522 TTTCTTTC
1 TTTCTTTC
38227530 TTTCTTTC
1 TTTCTTTC
*
38227538 TTTCCTTC
1 TTTCTTTC
38227546 TTTCCTTCTC
1 TTT-CTT-TC
38227556 TGTT-TTTC
1 T-TTCTTTC
*
38227564 GTTTCACCTTC
1 -TTT--CTTTC
38227575 TGTTCTTTC
1 T-TTCTTTC
38227584 TATTCTTT-
1 T-TTCTTTC
* *
38227592 GTTCTTTG
1 TTTCTTTC
38227600 TATTCTTT-
1 T-TTCTTTC
38227608 TTTCTTTC
1 TTTCTTTC
38227616 TTTTCTTTC
1 -TTTCTTTC
38227625 TT
1 TT
38227627 CATTTAACTA
Statistics
Matches: 78, Mismatches: 7, Indels: 24
0.72 0.06 0.22
Matches are distributed among these distances:
7 12 0.15
8 25 0.32
9 30 0.38
10 4 0.05
11 7 0.09
ACGTcount: A:0.03, C:0.24, G:0.05, T:0.69
Consensus pattern (8 bp):
TTTCTTTC
Found at i:38227596 original size:16 final size:16
Alignment explanation
Indices: 38227575--38227623 Score: 71
Period size: 16 Copynumber: 3.1 Consensus size: 16
38227565 TTTCACCTTC
38227575 TGTTCTTTCTATTCTT
1 TGTTCTTTCTATTCTT
*
38227591 TGTTCTTTGTATTCTT
1 TGTTCTTTCTATTCTT
* *
38227607 TTTTCTTTCTTTTCTT
1 TGTTCTTTCTATTCTT
38227623 T
1 T
38227624 CTTCATTTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.04, C:0.16, G:0.06, T:0.73
Consensus pattern (16 bp):
TGTTCTTTCTATTCTT
Found at i:38227768 original size:17 final size:16
Alignment explanation
Indices: 38227742--38227774 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
38227732 TTGTCTTTCT
38227742 TTTATTTATTTAATTA
1 TTTATTTATTTAATTA
38227758 TTTACTTTATTTAATTA
1 TTTA-TTTATTTAATTA
38227775 ATATAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTATTTATTTAATTA
Found at i:38232720 original size:19 final size:19
Alignment explanation
Indices: 38232683--38232719 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
38232673 ATTATATATT
*
38232683 TATATATTTATATTAAAAA
1 TATATATTTATATAAAAAA
38232702 TATATATTT-TATAAAAAA
1 TATATATTTATATAAAAAA
38232720 AAGACACATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
TATATATTTATATAAAAAA
Found at i:38233140 original size:32 final size:32
Alignment explanation
Indices: 38233079--38233141 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 32
38233069 TAATCCAAAA
* * *
38233079 TGAATTTGGATAAATATTTGTCTAGATTCATG
1 TGAATTTGGATAAAGATTTATCTAAATTCATG
**
38233111 TGAATTTGGATGTAGATTTATCTAAATTCAT
1 TGAATTTGGATAAAGATTTATCTAAATTCAT
38233142 TATTCATGTA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.32, C:0.06, G:0.17, T:0.44
Consensus pattern (32 bp):
TGAATTTGGATAAAGATTTATCTAAATTCATG
Found at i:38233200 original size:20 final size:20
Alignment explanation
Indices: 38233163--38233213 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
38233153 ATTTTTTATT
* * *
38233163 AATTTTTAAATAATATTTTAG
1 AATTTTT-ATTAAAATTTTAA
38233184 AATTTTTATTAAAATTTTAA
1 AATTTTTATTAAAATTTTAA
*
38233204 AAATTTTATT
1 AATTTTTATT
38233214 TCTTTAAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 19 0.73
21 7 0.27
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (20 bp):
AATTTTTATTAAAATTTTAA
Found at i:38246045 original size:32 final size:31
Alignment explanation
Indices: 38245983--38246050 Score: 75
Period size: 32 Copynumber: 2.2 Consensus size: 31
38245973 GAATAAAAAA
* **
38245983 TAATAAAATAAAAATAAATAATGGCAAAATT
1 TAATTAAATAAAAATAAATAATGAAAAAATT
*
38246014 GTAATTAAATAAAAATTAA-AATGAAACAAATT
1 -TAATTAAATAAAAATAAATAATGAAA-AAATT
38246046 TAATT
1 TAATT
38246051 TAAAGCTTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
31 10 0.32
32 21 0.68
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.29
Consensus pattern (31 bp):
TAATTAAATAAAAATAAATAATGAAAAAATT
Found at i:38246983 original size:25 final size:25
Alignment explanation
Indices: 38246920--38247061 Score: 96
Period size: 24 Copynumber: 5.7 Consensus size: 25
38246910 ACTCACTACA
38246920 GCTCTTATGAG-TGTCCCGATATATATG
1 GCTCTTATGAGCT-TCCCGATA-AT-TG
* *
38246947 GCTCTCACGAGCTTCCCGATAATTG
1 GCTCTTATGAGCTTCCCGATAATTG
*
38246972 GCTCTTATGAGCTTCCTGATTAA-TG
1 GCTCTTATGAGCTTCCCGA-TAATTG
* * * *
38246997 GCT-TTTTAAGCTTCTCGAT-ATTA
1 GCTCTTATGAGCTTCCCGATAATTG
** * * *
38247020 GCTCGCATGAGCTTCCTGATTA-CG
1 GCTCTTATGAGCTTCCCGATAATTG
*
38247044 GCTCTTATGAACTTCCCG
1 GCTCTTATGAGCTTCCCG
38247062 TTACATGGCT
Statistics
Matches: 88, Mismatches: 22, Indels: 13
0.72 0.18 0.11
Matches are distributed among these distances:
22 1 0.01
23 5 0.06
24 35 0.40
25 24 0.27
26 5 0.06
27 17 0.19
28 1 0.01
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.36
Consensus pattern (25 bp):
GCTCTTATGAGCTTCCCGATAATTG
Found at i:38249897 original size:25 final size:25
Alignment explanation
Indices: 38249869--38249939 Score: 115
Period size: 25 Copynumber: 2.8 Consensus size: 25
38249859 TAGCTCTTAT
* * *
38249869 GAGCTTACCGATTCACAGCTCGCGA
1 GAGCATACTGATTCATAGCTCGCGA
38249894 GAGCATACTGATTCATAGCTCGCGA
1 GAGCATACTGATTCATAGCTCGCGA
38249919 GAGCATACTGATTCATAGCTC
1 GAGCATACTGATTCATAGCTC
38249940 TTATAAGCAT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.24
Consensus pattern (25 bp):
GAGCATACTGATTCATAGCTCGCGA
Found at i:38252804 original size:13 final size:13
Alignment explanation
Indices: 38252788--38252814 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
38252778 TTCTGATATG
38252788 AATACTAGATAAT
1 AATACTAGATAAT
38252801 AATACTAGATAAT
1 AATACTAGATAAT
38252814 A
1 A
38252815 TGAAATGTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.30
Consensus pattern (13 bp):
AATACTAGATAAT
Found at i:38252995 original size:14 final size:14
Alignment explanation
Indices: 38252976--38253002 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
38252966 CAAGTGTAAG
38252976 AACTCAGATTTTCT
1 AACTCAGATTTTCT
38252990 AACTCAGATTTTC
1 AACTCAGATTTTC
38253003 CTCTGTAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.22, G:0.07, T:0.41
Consensus pattern (14 bp):
AACTCAGATTTTCT
Found at i:38253203 original size:31 final size:32
Alignment explanation
Indices: 38253155--38253223 Score: 113
Period size: 31 Copynumber: 2.2 Consensus size: 32
38253145 AATGAGAAAT
*
38253155 TAATGACAGGTGACTAAAATGATAAAAGTATG
1 TAATGACAGGTGACTAAAATAATAAAAGTATG
*
38253187 TAATGACA-TTGACTAAAATAATAAAAGTATG
1 TAATGACAGGTGACTAAAATAATAAAAGTATG
38253218 TAATGA
1 TAATGA
38253224 TAATGCCCAT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
31 27 0.77
32 8 0.23
ACGTcount: A:0.49, C:0.06, G:0.17, T:0.28
Consensus pattern (32 bp):
TAATGACAGGTGACTAAAATAATAAAAGTATG
Found at i:38253521 original size:6 final size:6
Alignment explanation
Indices: 38253510--38253537 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
38253500 TAAAAAACTT
38253510 AATATA AATATA AATATA AATATA AATA
1 AATATA AATATA AATATA AATATA AATA
38253538 ACAAGAGCGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
AATATA
Found at i:38253986 original size:6 final size:6
Alignment explanation
Indices: 38253967--38254003 Score: 58
Period size: 6 Copynumber: 6.2 Consensus size: 6
38253957 TTATGAAAAT
38253967 AATTAA AA-TAA AATTAA AATTAA AATTAA AATATAA A
1 AATTAA AATTAA AATTAA AATTAA AATTAA AAT-TAA A
38254004 TACAATATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
5 5 0.17
6 20 0.69
7 4 0.14
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (6 bp):
AATTAA
Found at i:38265967 original size:5 final size:5
Alignment explanation
Indices: 38265957--38266019 Score: 63
Period size: 5 Copynumber: 11.6 Consensus size: 5
38265947 AAGCTAATTG
*
38265957 TAAAA TAAAA TAAAA TAAAAA TAAAAA TAAAA CAAAA TAAAAA TATTAAA
1 TAAAA TAAAA TAAAA T-AAAA T-AAAA TAAAA TAAAA T-AAAA TA--AAA
*
38266007 TAAAA CAAAA TAA
1 TAAAA TAAAA TAA
38266020 GAAATGATGA
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
5 29 0.58
6 16 0.32
7 5 0.10
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.19
Consensus pattern (5 bp):
TAAAA
Found at i:38265979 original size:6 final size:6
Alignment explanation
Indices: 38265958--38266011 Score: 53
Period size: 6 Copynumber: 9.5 Consensus size: 6
38265948 AGCTAATTGT
*
38265958 AAAAT- AAAAT- AAAATA AAAATA AAAAT- AAAA-C AAAATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
*
38266002 TTAAATA AAA
1 -AAAATA AAA
38266012 CAAAATAAGA
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
5 18 0.43
6 19 0.45
7 5 0.12
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.19
Consensus pattern (6 bp):
AAAATA
Found at i:38266007 original size:23 final size:22
Alignment explanation
Indices: 38265958--38266024 Score: 98
Period size: 22 Copynumber: 3.0 Consensus size: 22
38265948 AGCTAATTGT
*
38265958 AAAATAAAATAAAATAAAAATA
1 AAAATAAAACAAAATAAAAATA
38265980 AAAATAAAACAAAATAAAAATA
1 AAAATAAAACAAAATAAAAATA
*
38266002 TTAAATAAAACAAAATAAGAAAT
1 -AAAATAAAACAAAATAA-AAAT
38266025 GATGATGATA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
22 21 0.51
23 16 0.39
24 4 0.10
ACGTcount: A:0.78, C:0.03, G:0.01, T:0.18
Consensus pattern (22 bp):
AAAATAAAACAAAATAAAAATA
Found at i:38266038 original size:3 final size:3
Alignment explanation
Indices: 38266032--38266346 Score: 212
Period size: 3 Copynumber: 105.3 Consensus size: 3
38266022 AATGATGATG
* *
38266032 ATA ATA ATA ATA ATA ATA ATA ATA ATA A-A ATAA AGA ATA ATA A-C
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA
* ** * ** *
38266076 ATA ATA ATA ATA GTA ATA ATA AGC ATG ATA ATA ATA CCA ATA ATA AGA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
38266124 ATA ATG ATA ATA GTA ATA ATA ATA ATA ATA ATA ATAA ATA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA
* * * *
38266170 A-A AGA A-A ATA ATA ATA GTA ATA ATA ATA ATG ATA ATA GTA ATA A-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * * * * *
38266215 AAA ATA AAA ATA GTA AGA GTA ATA GTG ATA AAA ATA AAA ATA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
38266263 ATA ATA ATG GTA ATA ATG ATA ATGA ATA ATA ATA GTGA AAA AAA ATA
1 ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA AT-A ATA ATA ATA
* * *
38266310 ATA GTA AGA ATA ATA A-A ATTA ACTA AT- TTA ATA ATA A
1 ATA ATA ATA ATA ATA ATA A-TA A-TA ATA ATA ATA ATA A
38266347 AGTAGCTAAA
Statistics
Matches: 235, Mismatches: 65, Indels: 24
0.73 0.20 0.07
Matches are distributed among these distances:
2 12 0.05
3 209 0.89
4 14 0.06
ACGTcount: A:0.62, C:0.02, G:0.08, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:38267958 original size:44 final size:43
Alignment explanation
Indices: 38267907--38268251 Score: 171
Period size: 45 Copynumber: 7.7 Consensus size: 43
38267897 AGTAGTTCCA
* * * * *
38267907 ATCTGCTCTGCTGTAACTTCAGGGAAATAAGA-TTGGTATCTTC
1 ATCTGCTCTACTGCAACTTCAGGGAGATAAGACTT-ATAACTTC
*
38267950 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTATAACTTC
1 A-TCTGCTCTACTGCAACTTCAGGGAGATAAGACTTATAACTTC
* * * *
38267994 AACGTGCTCTACTGCAACTTCAGGGAGATAAG-GTT-T-GCTCTG
1 ATC-TGCTCTACTGCAACTTCAGGGAGATAAGACTTATAACT-TC
* * * *
38268036 ATCTGCTCTACTACAACTTCAGAGAGATAAGGTCTGCAATTTATAGCTTC
1 ATCTGCTCTACTGCAACTTCAGGGAGATAA-----G--ACTTATAACTTC
* * * ** * * *
38268086 AATCTGTTCCACTGCAACTTTAAAGAAATGAGA-TTCACTATCTTC
1 -ATCTGCTCTACTGCAACTTCAGGGAGATAAGACTT-A-TAACTTC
* * **
38268131 AATCTACTCCACTATAACTTCAGGGAGATAAGACTT-TAACTTC
1 -ATCTGCTCTACTGCAACTTCAGGGAGATAAGACTTATAACTTC
* * * * ** **
38268174 AACCTGCTCCACTGCTATTTCAGGGAGATAAGGTTTAGTGGCTTC
1 -ATCTGCTCTACTGCAACTTCAGGGAGATAAGACTTA-TAACTTC
*
38268219 AATCTGCTCTACTGCAACTACAGGGAGATAAGA
1 -ATCTGCTCTACTGCAACTTCAGGGAGATAAGA
38268252 TTCGCCATTA
Statistics
Matches: 232, Mismatches: 50, Indels: 38
0.73 0.16 0.12
Matches are distributed among these distances:
41 27 0.12
42 4 0.02
43 40 0.17
44 63 0.27
45 64 0.28
46 4 0.02
49 2 0.01
50 2 0.01
51 26 0.11
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (43 bp):
ATCTGCTCTACTGCAACTTCAGGGAGATAAGACTTATAACTTC
Found at i:38268152 original size:181 final size:182
Alignment explanation
Indices: 38267943--38268288 Score: 459
Period size: 181 Copynumber: 1.9 Consensus size: 182
38267933 ATAAGATTGG
* * * * *
38267943 TATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTATAACTTCAACGTGCTCTACTG
1 TATCTTCAATCTACTCCACTACAACTTCAGGGAGATAAGACTT-TAACTTCAACCTGCTCCACTG
* * *
38268008 CAACTTCAGGGAGATAAGG-TT--TGC-TCTGATCTGCTCTACTACAACTTCAGAGAGATAAG-G
65 CAACTTCAGGGAGATAAGGTTTAGTGCTTC-AATCTGCTCTACTACAACTACAGAGAGATAAGAT
* * *
38268068 TCTGCAATTTATAGCTTCAATCTGTTCCACTGCAACTTTAAAGAAATGAGATTCAC
129 TC-GCAA-TTATAACTTCAATCCGTCCCACTGCAACTTTAAAGAAATGAGATTCAC
*
38268124 TATCTTCAATCTACTCCACTATAACTTCAGGGAGATAAGACTTTAACTTCAACCTGCTCCACTGC
1 TATCTTCAATCTACTCCACTACAACTTCAGGGAGATAAGACTTTAACTTCAACCTGCTCCACTGC
* * * *
38268189 TATTTCAGGGAGATAAGGTTTAGTGGCTTCAATCTGCTCTACTGCAACTACAGGGAGATAAGATT
66 AACTTCAGGGAGATAAGGTTTAGT-GCTTCAATCTGCTCTACTACAACTACAGAGAGATAAGATT
*
38268254 CGCCATTATAACTTCAATCCGTCCCACTGCAACTT
130 CGCAATTATAACTTCAATCCGTCCCACTGCAACTT
38268289 CAGGGGTATG
Statistics
Matches: 142, Mismatches: 17, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
180 36 0.25
181 41 0.29
183 28 0.20
184 33 0.23
185 4 0.03
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (182 bp):
TATCTTCAATCTACTCCACTACAACTTCAGGGAGATAAGACTTTAACTTCAACCTGCTCCACTGC
AACTTCAGGGAGATAAGGTTTAGTGCTTCAATCTGCTCTACTACAACTACAGAGAGATAAGATTC
GCAATTATAACTTCAATCCGTCCCACTGCAACTTTAAAGAAATGAGATTCAC
Found at i:38268243 original size:88 final size:86
Alignment explanation
Indices: 38267924--38268251 Score: 236
Period size: 88 Copynumber: 3.7 Consensus size: 86
38267914 CTGCTGTAAC
* * * *
38267924 TTCAGGGAAATAAGATTGGTAT-CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTAT
1 TTCAGGGAGATAAGGTT--TATGCTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGACTT-T
* * *
38267988 AACTTCAACGTGCTCTACTGCAAC
63 AACTTCAACCTGCTCCACTGCAAT
* * *
38268012 TTCAGGGAGATAAGG-TT-TGC-TCTGATCTGCTCTACTACAACTTCAGAGAGATAAGGTCTGCA
1 TTCAGGGAGATAAGGTTTATGCTTC-AATCTGCTCCACTACAACTTCAGGGAGATAA-----G-A
* * *
38268074 ATTTATAGCTTCAATCTGTTCCACTGCAACT
59 CTTTA-A-CTTCAACCTGCTCCACTGCAA-T
** * * * * *
38268105 TT-AAAGAAATGAGATTCACTAT-CTTCAATCTACTCCACTATAACTTCAGGGAGATAAGACTTT
1 TTCAGGGAGATAAGGTT---TATGCTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGACTTT
*
38268168 AACTTCAACCTGCTCCACTGCTAT
63 AACTTCAACCTGCTCCACTGCAAT
* * *
38268192 TTCAGGGAGATAAGGTTTAGTGGCTTCAATCTGCTCTACTGCAACTACAGGGAGATAAGA
1 TTCAGGGAGATAAGGTTTA-T-GCTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGA
38268252 TTCGCCATTA
Statistics
Matches: 182, Mismatches: 37, Indels: 42
0.70 0.14 0.16
Matches are distributed among these distances:
84 3 0.02
85 30 0.16
86 1 0.01
87 4 0.02
88 72 0.40
89 1 0.01
90 8 0.04
91 5 0.03
92 24 0.13
93 3 0.02
96 28 0.15
97 3 0.02
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.30
Consensus pattern (86 bp):
TTCAGGGAGATAAGGTTTATGCTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGACTTTAAC
TTCAACCTGCTCCACTGCAAT
Found at i:38270545 original size:38 final size:38
Alignment explanation
Indices: 38270503--38270575 Score: 146
Period size: 38 Copynumber: 1.9 Consensus size: 38
38270493 AAACCAGGAG
38270503 ATAGGCTACAATCTCTACCATCTTCAAAGTTTTGAGAT
1 ATAGGCTACAATCTCTACCATCTTCAAAGTTTTGAGAT
38270541 ATAGGCTACAATCTCTACCATCTTCAAAGTTTTGA
1 ATAGGCTACAATCTCTACCATCTTCAAAGTTTTGA
38270576 TATCCCTCTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.34
Consensus pattern (38 bp):
ATAGGCTACAATCTCTACCATCTTCAAAGTTTTGAGAT
Found at i:38274191 original size:42 final size:42
Alignment explanation
Indices: 38274128--38274254 Score: 152
Period size: 42 Copynumber: 3.0 Consensus size: 42
38274118 CTTCGTTTTC
** *
38274128 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACAT-A
* * *
38274171 T-GATGCCATAGCCCAGCTATGGTCTTACATATATTCATATA
1 TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACATA
*
38274212 TCGATGCCATAGCCCAACTATAGTCTTACACGA-A-TCACATA
1 TCGATGCCATAGCCCAACTATGGTCTTACAC-ATATTCACATA
38274253 TC
1 TC
38274255 TCACTGATGC
Statistics
Matches: 72, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
41 10 0.14
42 60 0.83
43 2 0.03
ACGTcount: A:0.31, C:0.26, G:0.13, T:0.31
Consensus pattern (42 bp):
TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACATA
Found at i:38274280 original size:46 final size:47
Alignment explanation
Indices: 38274213--38274332 Score: 136
Period size: 47 Copynumber: 2.6 Consensus size: 47
38274203 ATTCATATAT
* * *
38274213 CGATGCCATAGCCCA-ACTATAGTCTTACAC-GAATCACATATCTCAC
1 CGATGCCATATCCCAGA-TATAGTCTTACACAGAAGCACATATCACAC
* * * *
38274259 TGATGCCATATCCCAGATATAGTCTTATACAGTAGCATATATCACAC
1 CGATGCCATATCCCAGATATAGTCTTACACAGAAGCACATATCACAC
* *
38274306 CGATGTCATATCCCAGATATGGTCTTA
1 CGATGCCATATCCCAGATATAGTCTTA
38274333 TACTGAAATC
Statistics
Matches: 62, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
46 25 0.40
47 37 0.60
ACGTcount: A:0.32, C:0.27, G:0.13, T:0.28
Consensus pattern (47 bp):
CGATGCCATATCCCAGATATAGTCTTACACAGAAGCACATATCACAC
Found at i:38274397 original size:31 final size:30
Alignment explanation
Indices: 38274362--38274471 Score: 157
Period size: 31 Copynumber: 3.6 Consensus size: 30
38274352 TTGTAGCCGA
*
38274362 AGCTACCACTATTCACTGATCAGGTAGTCGG
1 AGCTACCACTTTTCACTGATCAGGTAG-CGG
*
38274393 AGCTACCATTTTTCACTGATCAGGTAGCTGG
1 AGCTACCACTTTTCACTGATCAGGTAGC-GG
**
38274424 AGCTACCACTTTTCACTGATCAGGTAGCCAA
1 AGCTACCACTTTTCACTGATCAGGTAG-CGG
38274455 AGCTACCACTTTTCACT
1 AGCTACCACTTTTCACT
38274472 TGTCATTTGT
Statistics
Matches: 72, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
30 1 0.01
31 70 0.97
32 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.29
Consensus pattern (30 bp):
AGCTACCACTTTTCACTGATCAGGTAGCGG
Found at i:38274545 original size:50 final size:50
Alignment explanation
Indices: 38274447--38275473 Score: 1757
Period size: 50 Copynumber: 20.5 Consensus size: 50
38274437 CACTGATCAG
* * * *
38274447 GTAGCCAAAGCTACCACTTTTCACTTGTCATTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCCTTGATCAGATAAGT
* *
38274498 GTAACCGAAGCTATCACTTATCACTTTCACTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
* *
38274548 GTAGTCGAAGCTATTACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
*
38274598 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
* *
38274648 GTAGTCGAAGCTATTACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
*
38274698 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
* *
38274748 GTAGTCGAAGCTATTACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
*
38274798 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
* *
38274848 GTAGTCGAAGCTATTACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
*
38274898 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
* *
38274948 GTAGTCGAAGCTATTACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
*
38274998 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
* *
38275048 GTAGTCGAAGCTATTACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
*
38275098 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
* *
38275148 GTAGTCGAAGCTATTACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
*
38275198 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
* *
38275248 GTAGTCGAAGCTATTACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
*
38275298 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
* *
38275348 GTAGTCGAAGCTATTACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
38275398 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
38275448 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
38275474 GTTACCATGG
Statistics
Matches: 916, Mismatches: 60, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
50 894 0.98
51 22 0.02
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.37
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
Found at i:38274591 original size:100 final size:100
Alignment explanation
Indices: 38274462--38275473 Score: 1961
Period size: 100 Copynumber: 10.1 Consensus size: 100
38274452 CAAAGCTACC
* * *
38274462 ACTTTTCACTTGTCATTTGTCATTGATCAGATAAGTGTAACCGAAGCTATCACTTATCACTTTCA
1 ACTTATCACTT-TCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCA
38274527 CTTGTCCTTGATCAGATAAGTGTAGTCGAAGCTATT
65 CTTGTCCTTGATCAGATAAGTGTAGTCGAAGCTATT
38274563 ACTTATCACTTTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCAC
1 ACTTATCACTTTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCAC
38274628 TTGTCCTTGATCAGATAAGTGTAGTCGAAGCTATT
66 TTGTCCTTGATCAGATAAGTGTAGTCGAAGCTATT
38274663 ACTTATCACTTTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCAC
1 ACTTATCACTTTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCAC
38274728 TTGTCCTTGATCAGATAAGTGTAGTCGAAGCTATT
66 TTGTCCTTGATCAGATAAGTGTAGTCGAAGCTATT
38274763 ACTTATCACTTTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCAC
1 ACTTATCACTTTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCAC
38274828 TTGTCCTTGATCAGATAAGTGTAGTCGAAGCTATT
66 TTGTCCTTGATCAGATAAGTGTAGTCGAAGCTATT
38274863 ACTTATCACTTTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCAC
1 ACTTATCACTTTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCAC
38274928 TTGTCCTTGATCAGATAAGTGTAGTCGAAGCTATT
66 TTGTCCTTGATCAGATAAGTGTAGTCGAAGCTATT
38274963 ACTTATCACTTTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCAC
1 ACTTATCACTTTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCAC
38275028 TTGTCCTTGATCAGATAAGTGTAGTCGAAGCTATT
66 TTGTCCTTGATCAGATAAGTGTAGTCGAAGCTATT
38275063 ACTTATCACTTTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCAC
1 ACTTATCACTTTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCAC
38275128 TTGTCCTTGATCAGATAAGTGTAGTCGAAGCTATT
66 TTGTCCTTGATCAGATAAGTGTAGTCGAAGCTATT
38275163 ACTTATCACTTTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCAC
1 ACTTATCACTTTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCAC
38275228 TTGTCCTTGATCAGATAAGTGTAGTCGAAGCTATT
66 TTGTCCTTGATCAGATAAGTGTAGTCGAAGCTATT
38275263 ACTTATCACTTTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCAC
1 ACTTATCACTTTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCAC
38275328 TTGTCCTTGATCAGATAAGTGTAGTCGAAGCTATT
66 TTGTCCTTGATCAGATAAGTGTAGTCGAAGCTATT
*
38275363 ACTTATCACTTTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCAT
1 ACTTATCACTTTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCAC
* *
38275428 TTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATC
66 TTGTCCTTGATCAGATAAGTGTAGTCGAAGCTATT
38275463 ACTTATCACTT
1 ACTTATCACTT
38275474 GTTACCATGG
Statistics
Matches: 905, Mismatches: 6, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
100 895 0.99
101 10 0.01
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.37
Consensus pattern (100 bp):
ACTTATCACTTTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCAC
TTGTCCTTGATCAGATAAGTGTAGTCGAAGCTATT
Found at i:38279018 original size:21 final size:22
Alignment explanation
Indices: 38278992--38279033 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
38278982 ATGAGCGACA
38278992 ATAAAGCAAA-AATAAATGACG
1 ATAAAGCAAAGAATAAATGACG
*
38279013 ATAAAGTAAATGAATAAATGA
1 ATAAAGCAAA-GAATAAATGA
38279034 AAAGCAAGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
23 9 0.50
ACGTcount: A:0.62, C:0.05, G:0.14, T:0.19
Consensus pattern (22 bp):
ATAAAGCAAAGAATAAATGACG
Found at i:38279061 original size:6 final size:6
Alignment explanation
Indices: 38279050--38279183 Score: 89
Period size: 6 Copynumber: 22.0 Consensus size: 6
38279040 AGCTAATTGT
* *
38279050 AAAATA AAAATA AAAATA AAACTA AAAAT- AAAAT- TAAATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
* * *
38279096 TTAAATAAA ACAAATA AAAATA AAACTA AAAAT- AAAAT- TAAATA AAAATA
1 --AAA-ATA A-AAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
* * * *
38279146 TTAAATA AAACA-A AATAATA ATAATA ATAATA ATAATA
1 -AAAATA AAA-ATA AA-AATA AAAATA AAAATA AAAATA
38279184 GTAATAATAA
Statistics
Matches: 105, Mismatches: 13, Indels: 20
0.76 0.09 0.14
Matches are distributed among these distances:
5 18 0.17
6 67 0.64
7 13 0.12
8 5 0.05
9 2 0.02
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (6 bp):
AAAATA
Found at i:38279089 original size:28 final size:28
Alignment explanation
Indices: 38279057--38279145 Score: 118
Period size: 28 Copynumber: 3.4 Consensus size: 28
38279047 TGTAAAATAA
38279057 AAATAAAAATAAAACTAAAAATAAAATT
1 AAATAAAAATAAAACTAAAAATAAAATT
* *
38279085 AAATAAAAAT---A-T-TAAATAAAA-C
1 AAATAAAAATAAAACTAAAAATAAAATT
38279107 AAATAAAAATAAAACTAAAAATAAAATT
1 AAATAAAAATAAAACTAAAAATAAAATT
38279135 AAATAAAAATA
1 AAATAAAAATA
38279146 TTAAATAAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
22 10 0.20
23 8 0.16
24 1 0.02
25 2 0.04
26 1 0.02
27 8 0.16
28 21 0.41
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.21
Consensus pattern (28 bp):
AAATAAAAATAAAACTAAAAATAAAATT
Found at i:38279091 original size:22 final size:22
Alignment explanation
Indices: 38279063--38279142 Score: 79
Period size: 22 Copynumber: 3.4 Consensus size: 22
38279053 ATAAAAATAA
38279063 AAATAAAACTAAAAATAAAATT
1 AAATAAAACTAAAAATAAAATT
* * *
38279085 AAATAAAAATATTAAATAAAACAAATAA
1 AAAT--AAA-ACTAAA-AATA-AAAT-T
38279113 AAATAAAACTAAAAATAAAATT
1 AAATAAAACTAAAAATAAAATT
38279135 AAATAAAA
1 AAATAAAA
38279143 ATATTAAATA
Statistics
Matches: 46, Mismatches: 6, Indels: 12
0.72 0.09 0.19
Matches are distributed among these distances:
22 12 0.26
23 4 0.09
24 6 0.13
25 10 0.22
26 6 0.13
27 4 0.09
28 4 0.09
ACGTcount: A:0.75, C:0.04, G:0.00, T:0.21
Consensus pattern (22 bp):
AAATAAAACTAAAAATAAAATT
Found at i:38279116 original size:50 final size:51
Alignment explanation
Indices: 38279056--38279169 Score: 212
Period size: 50 Copynumber: 2.3 Consensus size: 51
38279046 TTGTAAAATA
38279056 AAAATAAAAATAAAACTAAAAATAAAATTAAATAAAAATATTAAATAAAAC
1 AAAATAAAAATAAAACTAAAAATAAAATTAAATAAAAATATTAAATAAAAC
38279107 -AAATAAAAATAAAACTAAAAATAAAATTAAATAAAAATATTAAATAAAAC
1 AAAATAAAAATAAAACTAAAAATAAAATTAAATAAAAATATTAAATAAAAC
*
38279157 AAAATAATAATAA
1 AAAATAAAAATAA
38279170 TAATAATAAT
Statistics
Matches: 61, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
50 50 0.82
51 11 0.18
ACGTcount: A:0.75, C:0.04, G:0.00, T:0.22
Consensus pattern (51 bp):
AAAATAAAAATAAAACTAAAAATAAAATTAAATAAAAATATTAAATAAAAC
Found at i:38279155 original size:28 final size:28
Alignment explanation
Indices: 38279057--38279161 Score: 93
Period size: 28 Copynumber: 4.0 Consensus size: 28
38279047 TGTAAAATAA
38279057 AAATAAAAATA--AAACTAAAAATAAAATT
1 AAATAAAAATATTAAA-T-AAAATAAAATT
*
38279085 AAATAAAAATATTAAATAAAA-CAAA-T
1 AAATAAAAATATTAAATAAAATAAAATT
*
38279111 AAA-AATAAA-ACT--A-AAAATAAAATT
1 AAATAA-AAATATTAAATAAAATAAAATT
*
38279135 AAATAAAAATATTAAATAAAACAAAAT
1 AAATAAAAATATTAAATAAAATAAAAT
38279162 AATAATAATA
Statistics
Matches: 62, Mismatches: 5, Indels: 20
0.71 0.06 0.23
Matches are distributed among these distances:
22 4 0.06
23 4 0.06
24 7 0.11
25 8 0.13
26 7 0.11
27 4 0.06
28 24 0.39
29 1 0.02
30 3 0.05
ACGTcount: A:0.74, C:0.04, G:0.00, T:0.22
Consensus pattern (28 bp):
AAATAAAAATATTAAATAAAATAAAATT
Found at i:38279167 original size:3 final size:3
Alignment explanation
Indices: 38279159--38279384 Score: 141
Period size: 3 Copynumber: 74.7 Consensus size: 3
38279149 AATAAAACAA
* * * *
38279159 AAT AAT AAT AAT AAT AAT AAT AAT AGT AAT AAT AAG CAT GAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * *
38279207 AAT ACT AAT AAT AAG AAT AAT AAT AAT GAT AAT AGT AAT AAA AAT AAA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * * * *
38279255 AAT AAT AAT AGT GAG AGT AAT AGT GAT AAA AAT AAA AAT AAT AGT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
** * * * * * *
38279303 AAT AAT GGT AGT AAT GAT AAT GACT AAT AAT AGT GAAA AAA AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT -AAT AAT AAT AAT
* *
38279350 AGT AAT AAT AAT AA- AATT AACT AAT -TT AAT AAT AA
1 AAT AAT AAT AAT AAT AA-T AA-T AAT AAT AAT AAT AA
38279385 AGTAGTTAAA
Statistics
Matches: 164, Mismatches: 54, Indels: 10
0.72 0.24 0.04
Matches are distributed among these distances:
2 3 0.02
3 153 0.93
4 8 0.05
ACGTcount: A:0.60, C:0.02, G:0.09, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:38280414 original size:25 final size:26
Alignment explanation
Indices: 38280386--38280456 Score: 74
Period size: 25 Copynumber: 2.7 Consensus size: 26
38280376 CTGGGGTAGG
* *
38280386 TTGGGTTGTAATTGGGTTGCT-TGAT
1 TTGGGTTGTAATTGGGTTGATAGGAT
* *
38280411 TTGGGTT-TAATTAGGTTGATAGGTT
1 TTGGGTTGTAATTGGGTTGATAGGAT
38280436 TTGGGTTTTGTAATTGGGTTG
1 TTGGG--TTGTAATTGGGTTG
38280457 TGTTTGTATT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
24 11 0.30
25 14 0.38
27 2 0.05
28 10 0.27
ACGTcount: A:0.14, C:0.01, G:0.35, T:0.49
Consensus pattern (26 bp):
TTGGGTTGTAATTGGGTTGATAGGAT
Found at i:38282652 original size:22 final size:22
Alignment explanation
Indices: 38282627--38282669 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
38282617 TAATTTAAAC
38282627 TTTAAATT-TGTACTAACTATTT
1 TTTAAATTATGT-CTAACTATTT
**
38282649 TTTATTTTATGTCTAACTATT
1 TTTAAATTATGTCTAACTATT
38282670 GTAATACATA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.28, C:0.09, G:0.05, T:0.58
Consensus pattern (22 bp):
TTTAAATTATGTCTAACTATTT
Found at i:38285947 original size:16 final size:16
Alignment explanation
Indices: 38285928--38285979 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
38285918 AATATTTTTT
38285928 TATTATTATGTATATA
1 TATTATTATGTATATA
*
38285944 TATTATTGAT-TTTATA
1 TATTATT-ATGTATATA
*
38285960 TTATT-TTGTGTATATA
1 -TATTATTATGTATATA
38285976 TATT
1 TATT
38285980 TTCTTTTAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
15 5 0.17
16 19 0.63
17 6 0.20
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (16 bp):
TATTATTATGTATATA
Found at i:38285958 original size:22 final size:20
Alignment explanation
Indices: 38285904--38285958 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 20
38285894 ATTGATTTCC
38285904 TATTATTTTATGTAAATATTT
1 TATTATTTTATGTAAATA-TT
* *
38285925 TTTTATTATTATGTATATATAT
1 TATTATT-TTATGTAAATAT-T
38285947 TATTGATTTTAT
1 TATT-ATTTTAT
38285959 ATTATTTTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
21 7 0.25
22 18 0.64
23 3 0.11
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (20 bp):
TATTATTTTATGTAAATATT
Found at i:38286181 original size:19 final size:18
Alignment explanation
Indices: 38286157--38286196 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
38286147 GTATTTTGAA
*
38286157 ATTTCATTTATATATTATT
1 ATTTCATATAT-TATTATT
*
38286176 ATTTCATATATTATTTTT
1 ATTTCATATATTATTATT
38286194 ATT
1 ATT
38286197 CTTATTATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (18 bp):
ATTTCATATATTATTATT
Found at i:38286186 original size:15 final size:14
Alignment explanation
Indices: 38286162--38286206 Score: 58
Period size: 15 Copynumber: 3.3 Consensus size: 14
38286152 TTGAAATTTC
38286162 ATTTATATATTATT
1 ATTTATATATTATT
38286176 ATTTCATATATTATT
1 ATTT-ATATATTATT
*
38286191 -TTTAT-TCTTATT
1 ATTTATATATTATT
38286203 ATTT
1 ATTT
38286207 TGATTTATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
12 6 0.21
13 5 0.18
14 7 0.25
15 10 0.36
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (14 bp):
ATTTATATATTATT
Found at i:38288264 original size:19 final size:19
Alignment explanation
Indices: 38288240--38288286 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
38288230 TTTACTTTCT
38288240 TTTGCATT-CATTCCATGCA
1 TTTGCATTACATTCCAT-CA
*
38288259 TTTGCATTACATTGCATCA
1 TTTGCATTACATTCCATCA
*
38288278 TGTGCATTA
1 TTTGCATTA
38288287 AACTTCACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.23, C:0.21, G:0.13, T:0.43
Consensus pattern (19 bp):
TTTGCATTACATTCCATCA
Found at i:38292510 original size:88 final size:88
Alignment explanation
Indices: 38292356--38292781 Score: 518
Period size: 88 Copynumber: 4.8 Consensus size: 88
38292346 AATCTCGACC
*
38292356 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGT
1 AGCCTTAACCCTCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGT
** *
38292421 AGTGGAGCAGATAAAAAACGGTG
66 AGTGGAGCAGATCGAAGACGGTG
* * * *
38292444 AGCCTTAACCCTCTAAGCATTAGGGTAATAGGCTGGAAATTACAGATCTTATCTCCCTAAGTAGT
1 AGCCTTAACCCTCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGT
*
38292509 AGTGGAGTAGATCGAAGACGGTG
66 AGTGGAGCAGATCGAAGACGGTG
* * *
38292532 AGCCTTAA-CCTCCTAAGCGGTAGGGTAATAGGCTGAAAATTACAGATCTTATCTCTCTAAGCAG
1 AGCCTTAACCCT-CTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAG
* *
38292596 TAGTGGAACAGATCGAGGACGGTG
65 TAGTGGAGCAGATCGAAGACGGTG
* * * * *
38292620 AGTCTTAACCCTCTAAGCAGTAGGGTAACAGGCTGGAAACTACAAATCTTATCTCCCTAAGCAAT
1 AGCCTTAACCCTCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGT
* *
38292685 AGCGGAGCAGATCGAAGACAGTG
66 AGTGGAGCAGATCGAAGACGGTG
* * * * * * * * *
38292708 AGCCTTATCTCC-CTGACCAGCAGTGG-AGA-TGGCTGAAGATTACAAATCATATCTCCCTAAAC
1 AGCCTTAAC-CCTCTAAGCAGTAG-GGTA-ACAGGCTGAAAATTACAGATCTTATCTCCCTAAGC
38292770 AGTAGTGGAGCA
63 AGTAGTGGAGCA
38292782 AATTGAAACG
Statistics
Matches: 291, Mismatches: 42, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
87 3 0.01
88 280 0.96
89 8 0.03
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.23
Consensus pattern (88 bp):
AGCCTTAACCCTCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGT
AGTGGAGCAGATCGAAGACGGTG
Found at i:38293039 original size:19 final size:19
Alignment explanation
Indices: 38293017--38293053 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
38293007 TTGCCCGGGC
* *
38293017 TACCTAATTTCAGCCCAAA
1 TACCCAATTACAGCCCAAA
38293036 TACCCAATTACAGCCCAA
1 TACCCAATTACAGCCCAA
38293054 TTACATAAAT
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:0.38, C:0.35, G:0.05, T:0.22
Consensus pattern (19 bp):
TACCCAATTACAGCCCAAA
Found at i:38293999 original size:43 final size:43
Alignment explanation
Indices: 38293930--38294286 Score: 540
Period size: 43 Copynumber: 8.3 Consensus size: 43
38293920 CATTTATTAA
*
38293930 AAAAAAGCGCCGCTAAAAGTCATGGCCTTTAGCGGCGTTTGAAG
1 AAAAAA-CGCCGCTAAAAGTCGTGGCCTTTAGCGGCGTTTGAAG
** *
38293974 AAAAAACGTAGCTAAAAATCGTGGCCTTTAGCGGCGTTTGAA-
1 AAAAAACGCCGCTAAAAGTCGTGGCCTTTAGCGGCGTTTGAAG
* *
38294016 AAAAAGCGCCGCTAAAAGTCATGGCCTTTAGCGGCGTTTGAAG
1 AAAAAACGCCGCTAAAAGTCGTGGCCTTTAGCGGCGTTTGAAG
** *
38294059 AAAAAACGTAGCTAAAAATCGTGGCCTTTAGCGGCGTTTGAA-
1 AAAAAACGCCGCTAAAAGTCGTGGCCTTTAGCGGCGTTTGAAG
* *
38294101 AAAAAGCGCCGCTAAAAGTCATGGCCTTTAGCGGCGTTTGAAG
1 AAAAAACGCCGCTAAAAGTCGTGGCCTTTAGCGGCGTTTGAAG
*
38294144 AAAAAACGCCACTAAAAGTCGTGGCCTTTAGCGGCGTTTGAAG
1 AAAAAACGCCGCTAAAAGTCGTGGCCTTTAGCGGCGTTTGAAG
* * *
38294187 -AAAAGCACCGCTAAAAGTCGTGGCCTTTAGCGGCGTTTAAAG
1 AAAAAACGCCGCTAAAAGTCGTGGCCTTTAGCGGCGTTTGAAG
38294229 AAAAAACGCCGCTAAAAGTCGTGGCCTTTAGCGGCGTTTGAAG
1 AAAAAACGCCGCTAAAAGTCGTGGCCTTTAGCGGCGTTTGAAG
*
38294272 AAAAAGCGCCGCTAA
1 AAAAAACGCCGCTAA
38294287 TTTTGGCAGA
Statistics
Matches: 280, Mismatches: 30, Indels: 7
0.88 0.09 0.02
Matches are distributed among these distances:
42 112 0.40
43 162 0.58
44 6 0.02
ACGTcount: A:0.33, C:0.20, G:0.26, T:0.21
Consensus pattern (43 bp):
AAAAAACGCCGCTAAAAGTCGTGGCCTTTAGCGGCGTTTGAAG
Found at i:38294072 original size:85 final size:85
Alignment explanation
Indices: 38293929--38294286 Score: 610
Period size: 85 Copynumber: 4.2 Consensus size: 85
38293919 GCATTTATTA
*
38293929 AAAAAAAGCGCCGCTAAAAGTCATGGCCTTTAGCGGCGTTTGAAGAAAAAACGTAGCTAAAAATC
1 AAAAAAAGCGCCGCTAAAAGTCATGGCCTTTAGCGGCGTTTGAAGAAAAAACGCAGCTAAAAATC
38293994 GTGGCCTTTAGCGGCGTTTG
66 GTGGCCTTTAGCGGCGTTTG
*
38294014 AAAAAAAGCGCCGCTAAAAGTCATGGCCTTTAGCGGCGTTTGAAGAAAAAACGTAGCTAAAAATC
1 AAAAAAAGCGCCGCTAAAAGTCATGGCCTTTAGCGGCGTTTGAAGAAAAAACGCAGCTAAAAATC
38294079 GTGGCCTTTAGCGGCGTTTG
66 GTGGCCTTTAGCGGCGTTTG
*
38294099 AAAAAAAGCGCCGCTAAAAGTCATGGCCTTTAGCGGCGTTTGAAGAAAAAACGCCA-CTAAAAGT
1 AAAAAAAGCGCCGCTAAAAGTCATGGCCTTTAGCGGCGTTTGAAGAAAAAACG-CAGCTAAAAAT
38294163 CGTGGCCTTTAGCGGCGTTTG
65 CGTGGCCTTTAGCGGCGTTTG
* * * * * *
38294184 AAGAAAAGCACCGCTAAAAGTCGTGGCCTTTAGCGGCGTTTAAAGAAAAAACGCCGCTAAAAGTC
1 AAAAAAAGCGCCGCTAAAAGTCATGGCCTTTAGCGGCGTTTGAAGAAAAAACGCAGCTAAAAATC
38294249 GTGGCCTTTAGCGGCGTTTG
66 GTGGCCTTTAGCGGCGTTTG
38294269 AAGAAAAAGCGCCGCTAA
1 AA-AAAAAGCGCCGCTAA
38294287 TTTTGGCAGA
Statistics
Matches: 261, Mismatches: 9, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
84 1 0.00
85 246 0.94
86 14 0.05
ACGTcount: A:0.33, C:0.20, G:0.26, T:0.21
Consensus pattern (85 bp):
AAAAAAAGCGCCGCTAAAAGTCATGGCCTTTAGCGGCGTTTGAAGAAAAAACGCAGCTAAAAATC
GTGGCCTTTAGCGGCGTTTG
Found at i:38294375 original size:31 final size:30
Alignment explanation
Indices: 38294340--38294405 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
38294330 CTTCCTGCAT
38294340 TAAAATCCAACC-AAATACAACAAATATAGCA
1 TAAAATCCAACCAAAATAC--CAAATATAGCA
* * *
38294371 TAAAATGCAGCCAAAATACCAAATTTAGCA
1 TAAAATCCAACCAAAATACCAAATATAGCA
38294401 TAAAA
1 TAAAA
38294406 AAATACAACC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
30 15 0.48
31 10 0.32
32 6 0.19
ACGTcount: A:0.56, C:0.20, G:0.06, T:0.18
Consensus pattern (30 bp):
TAAAATCCAACCAAAATACCAAATATAGCA
Found at i:38294686 original size:24 final size:21
Alignment explanation
Indices: 38294640--38294680 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
38294630 TTCCTATGCT
38294640 CTGCCTCCCTCGCTGCTGCCG
1 CTGCCTCCCTCGCTGCTGCCG
*
38294661 CTGCCTCCCTCTCTGCTGCC
1 CTGCCTCCCTCGCTGCTGCC
38294681 TCCGCTCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.00, C:0.54, G:0.20, T:0.27
Consensus pattern (21 bp):
CTGCCTCCCTCGCTGCTGCCG
Found at i:38295117 original size:13 final size:14
Alignment explanation
Indices: 38295092--38295120 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
38295082 TGATGAATTG
38295092 AATTAAACAATTAT
1 AATTAAACAATTAT
38295106 AATTAAAC-ATTAT
1 AATTAAACAATTAT
38295119 AA
1 AA
38295121 ATATTTAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACAATTAT
Found at i:38295324 original size:16 final size:17
Alignment explanation
Indices: 38295287--38295325 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
38295277 AAAATATTAT
*
38295287 TTAATATTAGAAAGTTA
1 TTAATATTAGAAAGTAA
*
38295304 TTAATATTTGAAAG-AA
1 TTAATATTAGAAAGTAA
38295320 TTAATA
1 TTAATA
38295326 AAATTTTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (17 bp):
TTAATATTAGAAAGTAA
Found at i:38297771 original size:149 final size:149
Alignment explanation
Indices: 38297501--38297799 Score: 571
Period size: 149 Copynumber: 2.0 Consensus size: 149
38297491 TGAGCTCGAT
*
38297501 AGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGG
1 AGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACATGGCGTTGTTACACCTAGG
38297566 GAGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTT
66 GAGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTT
38297631 GAATCTTTAAAATATTTAA
131 GAATCTTTAAAATATTTAA
*
38297650 AGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGATTTATCATACATGGCGTTGTTACACCTAGG
1 AGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACATGGCGTTGTTACACCTAGG
*
38297715 GAGGATCCATTATATCTTGCAGTTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTT
66 GAGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTT
38297780 GAATCTTTAAAATATTTAA
131 GAATCTTTAAAATATTTAA
38297799 A
1 A
38297800 TATTAAAATC
Statistics
Matches: 147, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
149 147 1.00
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.38
Consensus pattern (149 bp):
AGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACATGGCGTTGTTACACCTAGG
GAGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTT
GAATCTTTAAAATATTTAA
Found at i:38298356 original size:15 final size:15
Alignment explanation
Indices: 38298336--38298364 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
38298326 AGAATTTTGA
38298336 AATAAAACGTACCTT
1 AATAAAACGTACCTT
38298351 AATAAAACGTACCT
1 AATAAAACGTACCT
38298365 GGTCTACTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.21, G:0.07, T:0.24
Consensus pattern (15 bp):
AATAAAACGTACCTT
Found at i:38298840 original size:14 final size:13
Alignment explanation
Indices: 38298821--38298850 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
38298811 CAATATAATT
38298821 TTACTTCATATATA
1 TTACTTCATATA-A
38298835 TTACTTCATATAA
1 TTACTTCATATAA
38298848 TTA
1 TTA
38298851 TTATAGTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.37, C:0.13, G:0.00, T:0.50
Consensus pattern (13 bp):
TTACTTCATATAA
Found at i:38300560 original size:15 final size:16
Alignment explanation
Indices: 38300540--38300569 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
38300530 AAAGGTTATA
38300540 CACTG-AAAACTCATG
1 CACTGAAAAACTCATG
38300555 CACTGAAAAACTCAT
1 CACTGAAAAACTCAT
38300570 TCATAACTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.43, C:0.27, G:0.10, T:0.20
Consensus pattern (16 bp):
CACTGAAAAACTCATG
Found at i:38302567 original size:16 final size:17
Alignment explanation
Indices: 38302548--38302583 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
38302538 ATTATTTAAT
38302548 ATATAAA-TAAAAAACA
1 ATATAAATTAAAAAACA
38302564 ATATAAATTAAAAAACA
1 ATATAAATTAAAAAACA
38302581 ATA
1 ATA
38302584 AGTTATATAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.72, C:0.06, G:0.00, T:0.22
Consensus pattern (17 bp):
ATATAAATTAAAAAACA
Found at i:38302740 original size:16 final size:16
Alignment explanation
Indices: 38302696--38302744 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
38302686 TACATAAAAT
*
38302696 TTAAAATCTTGAAAATTA
1 TTAAAAT-TTG-AAATCA
*
38302714 TTGACAATTTGAAATCA
1 TT-AAAATTTGAAATCA
38302731 TTAAAATTTGAAAT
1 TTAAAATTTGAAAT
38302745 TATTTAATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 11 0.41
17 7 0.26
18 5 0.19
19 4 0.15
ACGTcount: A:0.47, C:0.06, G:0.08, T:0.39
Consensus pattern (16 bp):
TTAAAATTTGAAATCA
Found at i:38302995 original size:73 final size:72
Alignment explanation
Indices: 38302901--38303037 Score: 184
Period size: 73 Copynumber: 1.9 Consensus size: 72
38302891 GTAAACCCCT
* * * *
38302901 AAACCCTAAACCATTAACCCTTAATCCCTAAAATTTAAACACTAAACCTTAAACAATGTCCCCTT
1 AAACCCTAAACCATAAACCCTTAATCCATAAAATTTAAACACTAAACCCTAAACAATATCCCCTT
38302966 AACTTCC
66 AACTTCC
* * * * *
38302973 AAACCCATAAACCCTAAACCCTTAATCCATAGACTTTGAACACTAAACCCTAAACTATATCCCCT
1 AAACCC-TAAACCATAAACCCTTAATCCATAAAATTTAAACACTAAACCCTAAACAATATCCCCT
38303038 CAACCCCTTA
Statistics
Matches: 55, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
72 6 0.11
73 49 0.89
ACGTcount: A:0.40, C:0.33, G:0.02, T:0.25
Consensus pattern (72 bp):
AAACCCTAAACCATAAACCCTTAATCCATAAAATTTAAACACTAAACCCTAAACAATATCCCCTT
AACTTCC
Found at i:38303560 original size:14 final size:14
Alignment explanation
Indices: 38303541--38303594 Score: 56
Period size: 14 Copynumber: 3.8 Consensus size: 14
38303531 GTGTTCTTCA
38303541 TTTAGGGTTTATAG
1 TTTAGGGTTTATAG
*
38303555 TTTAGGGTTTCA-AA
1 TTTAGGGTTT-ATAG
* *
38303569 TTTAAGGTCTATAG
1 TTTAGGGTTTATAG
38303583 TTTATGGGTTTA
1 TTTA-GGGTTTA
38303595 GGGGTTAAAG
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
13 1 0.03
14 24 0.77
15 6 0.19
ACGTcount: A:0.24, C:0.04, G:0.24, T:0.48
Consensus pattern (14 bp):
TTTAGGGTTTATAG
Found at i:38304091 original size:40 final size:42
Alignment explanation
Indices: 38304005--38304103 Score: 123
Period size: 40 Copynumber: 2.4 Consensus size: 42
38303995 AATAGTTTAG
* * *
38304005 ATCTTTAGCGGCGTTTTTTCAAAAAGTGCCGCTGAAACTCAT
1 ATCTATAGCGGCGTTTTCTCAAAAAGCGCCGCTGAAACTCAT
* *
38304047 ATCTATTGCGGCGTTTTCT-AGAAAGCGCCGCT-AATACTCA-
1 ATCTATAGCGGCGTTTTCTCAAAAAGCGCCGCTGAA-ACTCAT
38304087 ATCTATAGCGGCGTTTT
1 ATCTATAGCGGCGTTTT
38304104 TGCGCAAGCG
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
40 18 0.36
41 16 0.32
42 16 0.32
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.33
Consensus pattern (42 bp):
ATCTATAGCGGCGTTTTCTCAAAAAGCGCCGCTGAAACTCAT
Found at i:38304113 original size:40 final size:39
Alignment explanation
Indices: 38304005--38304119 Score: 115
Period size: 40 Copynumber: 2.8 Consensus size: 39
38303995 AATAGTTTAG
* * *
38304005 ATCTTTAGCGGCGTTTTTTCAAAAAGTGCCGCTGAAACTCAT
1 ATCTATAGCGGCG-TTTTTC-GAAAGCGCCGCT-AAACTCAT
* *
38304047 ATCTATTGCGGCGTTTTCTAGAAAGCGCCGCTAATACTCA-
1 ATCTATAGCGGCGTTTT-TCGAAAGCGCCGCTAA-ACTCAT
*
38304087 ATCTATAGCGGCGTTTTTGCGCAAGCGCCGCTA
1 ATCTATAGCGGCGTTTTT-CGAAAGCGCCGCTA
38304120 TTGCCAATGA
Statistics
Matches: 62, Mismatches: 8, Indels: 8
0.79 0.10 0.10
Matches are distributed among these distances:
39 1 0.02
40 30 0.48
41 19 0.31
42 12 0.19
ACGTcount: A:0.23, C:0.24, G:0.22, T:0.30
Consensus pattern (39 bp):
ATCTATAGCGGCGTTTTTCGAAAGCGCCGCTAAACTCAT
Found at i:38304210 original size:40 final size:40
Alignment explanation
Indices: 38304166--38304275 Score: 107
Period size: 41 Copynumber: 2.7 Consensus size: 40
38304156 TTTAATTTTT
* * **
38304166 TAGCGGCGTTTCTATAAAAACGCCGCTATAGGCCGACCTA
1 TAGCGGCGTTTTTATAAAAACGCCGCTATACGCAAACCTA
* * *
38304206 TAGCGGCGCTTTTTA-AAAAATGCCGTTAATACTCAAACCTA
1 TAGCGGCG-TTTTTATAAAAACGCCGCT-ATACGCAAACCTA
*
38304247 TAGCGGCGTTTTTGAT-AAAGCGCCGCTAT
1 TAGCGGCGTTTTT-ATAAAAACGCCGCTAT
38304276 TGCCACTGAA
Statistics
Matches: 56, Mismatches: 10, Indels: 8
0.76 0.14 0.11
Matches are distributed among these distances:
40 25 0.45
41 31 0.55
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (40 bp):
TAGCGGCGTTTTTATAAAAACGCCGCTATACGCAAACCTA
Found at i:38304366 original size:154 final size:154
Alignment explanation
Indices: 38304072--38304427 Score: 491
Period size: 154 Copynumber: 2.3 Consensus size: 154
38304062 TTCTAGAAAG
***
38304072 CGCCGCTAATACTCAATCTATAGCGGCGTTTTTGCGCAAGCGCCGCTATTGCCAATGAAGCTCAA
1 CGCCGCTAATACTCAATCTATAGCGGCGTTTTTGAAAAAGCGCCGCTATTGCCAATGAAGCTCAA
** *
38304137 AATAAACGACGCCGTTCGGTTTAATTTTTTAGCGGCGTTTCTATAAAAACGCCGCTATAGGCCGA
66 AATAAACGACGCCGTTCGGCCTAATCTTTTAGCGGCGTTTCTATAAAAACGCCGCTATAGGCCGA
* *
38304202 CCTATAGCGGCGCTT-TTTAAAAAA
131 CCTATAGCGGCACTTCCTT-AAAAA
* * * * *
38304226 TGCCGTTAATACTCAAACCTATAGCGGCGTTTTTGATAAAGCGCCGCTATTGCCACTGAAGCTCA
1 CGCCGCTAATACTC-AATCTATAGCGGCGTTTTTGAAAAAGCGCCGCTATTGCCAATGAAGCTCA
* * * * *
38304291 CAATAAACGACGCCGTTC-GCCTAATCTTTTAGTGGCGTTTTTATAAAAACGCCGCTATATGTCG
65 AAATAAACGACGCCGTTCGGCCTAATCTTTTAGCGGCGTTTCTATAAAAACGCCGCTATAGGCCG
38304355 ACCTATAGCGGCACTTCCTTAAAAA
130 ACCTATAGCGGCACTTCCTTAAAAA
* * *
38304380 CGCCGCTAATTCTCGATCTATAGCGGCGTTTTTGAAAAAACGCCGCTA
1 CGCCGCTAATACTCAATCTATAGCGGCGTTTTTGAAAAAGCGCCGCTA
38304428 ATACTCAATT
Statistics
Matches: 176, Mismatches: 24, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
153 30 0.17
154 82 0.47
155 64 0.36
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (154 bp):
CGCCGCTAATACTCAATCTATAGCGGCGTTTTTGAAAAAGCGCCGCTATTGCCAATGAAGCTCAA
AATAAACGACGCCGTTCGGCCTAATCTTTTAGCGGCGTTTCTATAAAAACGCCGCTATAGGCCGA
CCTATAGCGGCACTTCCTTAAAAA
Found at i:38304419 original size:40 final size:40
Alignment explanation
Indices: 38304324--38304430 Score: 121
Period size: 40 Copynumber: 2.6 Consensus size: 40
38304314 ATCTTTTAGT
*
38304324 GGCGTTTTTATAAAAACGCCGCT-ATATGTCGACCTATAGC
1 GGCGTTTTTA-AAAAACGCCGCTAATATCTCGACCTATAGC
* * *
38304364 GGCACTTCCTT-AAAAACGCCGCTAAT-TCTCGATCTATAGC
1 GGC-GTT-TTTAAAAAACGCCGCTAATATCTCGACCTATAGC
38304404 GGCGTTTTTGAAAAAACGCCGCTAATA
1 GGCGTTTTT-AAAAAACGCCGCTAATA
38304431 CTCAATTTAT
Statistics
Matches: 55, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
38 2 0.04
39 2 0.04
40 45 0.82
41 4 0.07
42 2 0.04
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (40 bp):
GGCGTTTTTAAAAAACGCCGCTAATATCTCGACCTATAGC
Found at i:38305082 original size:23 final size:20
Alignment explanation
Indices: 38305043--38305094 Score: 59
Period size: 23 Copynumber: 2.5 Consensus size: 20
38305033 TGATTTCCTA
38305043 TTATTTTATGTAAATATTTT
1 TTATTTTATGTAAATATTTT
*
38305063 TTATTATTATGTATATATATTAT
1 TTATT-TTATGTA-A-ATATTTT
*
38305086 TGATTTTAT
1 TTATTTTAT
38305095 ATTATTTTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 5 0.19
21 7 0.26
22 5 0.19
23 10 0.37
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (20 bp):
TTATTTTATGTAAATATTTT
Found at i:38305085 original size:16 final size:16
Alignment explanation
Indices: 38305064--38305115 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
38305054 AAATATTTTT
38305064 TATTATTATGTATATA
1 TATTATTATGTATATA
*
38305080 TATTATTGAT-TTTATA
1 TATTATT-ATGTATATA
*
38305096 TTATT-TTGTGTATATA
1 -TATTATTATGTATATA
38305112 TATT
1 TATT
38305116 TTCTTCTAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
15 5 0.17
16 19 0.63
17 6 0.20
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (16 bp):
TATTATTATGTATATA
Found at i:38306912 original size:17 final size:17
Alignment explanation
Indices: 38306890--38306925 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
38306880 TAGGATTGAG
*
38306890 TTAAGAAAATAATTTAA
1 TTAAGAAAATAATTAAA
*
38306907 TTAAGAAATTAATTAAA
1 TTAAGAAAATAATTAAA
38306924 TT
1 TT
38306926 TAATCAATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.39
Consensus pattern (17 bp):
TTAAGAAAATAATTAAA
Found at i:38306928 original size:22 final size:22
Alignment explanation
Indices: 38306900--38306944 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
38306890 TTAAGAAAAT
*
38306900 AATTTAATTAAGAAATTAATTA
1 AATTTAATCAAGAAATTAATTA
**
38306922 AATTTAATCAATTAATTAATTA
1 AATTTAATCAAGAAATTAATTA
38306944 A
1 A
38306945 TTAATATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (22 bp):
AATTTAATCAAGAAATTAATTA
Found at i:38307136 original size:22 final size:22
Alignment explanation
Indices: 38307109--38307150 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
38307099 TTCCCAATAA
* * *
38307109 AAAATATTTATATTTTTTTATT
1 AAAATAATCATATTTATTTATT
38307131 AAAATAATCATATTTATTTA
1 AAAATAATCATATTTATTTA
38307151 ATCCTTGTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (22 bp):
AAAATAATCATATTTATTTATT
Found at i:38308536 original size:15 final size:16
Alignment explanation
Indices: 38308516--38308551 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
38308506 AAAATTATGT
38308516 TTTTC-ATCCTTCTAA
1 TTTTCAATCCTTCTAA
*
38308531 TTTTCAATCCTTTTAA
1 TTTTCAATCCTTCTAA
38308547 TTTTC
1 TTTTC
38308552 TTTCCCCTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.19, C:0.22, G:0.00, T:0.58
Consensus pattern (16 bp):
TTTTCAATCCTTCTAA
Found at i:38315502 original size:25 final size:22
Alignment explanation
Indices: 38315474--38315529 Score: 58
Period size: 25 Copynumber: 2.4 Consensus size: 22
38315464 TTGATTTTTT
38315474 TAAAAAATTAATAGCAAAATTTA
1 TAAAAAATTAATAGC-AAATTTA
* *
38315497 GCTAAAAATAATAATATCAAATTTA
1 --TAAAAA-ATTAATAGCAAATTTA
38315522 TAAAAAAT
1 TAAAAAAT
38315530 CAATCTCATC
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
22 1 0.04
23 6 0.22
25 13 0.48
26 7 0.26
ACGTcount: A:0.61, C:0.05, G:0.04, T:0.30
Consensus pattern (22 bp):
TAAAAAATTAATAGCAAATTTA
Found at i:38317774 original size:155 final size:155
Alignment explanation
Indices: 38317492--38317954 Score: 926
Period size: 155 Copynumber: 3.0 Consensus size: 155
38317482 GGGTTGCAAG
38317492 AATGGTCATGATGAGAATCGAATTCATAGCAATTGTTTCATTTTCATATGTATATCTTCATGGTT
1 AATGGTCATGATGAGAATCGAATTCATAGCAATTGTTTCATTTTCATATGTATATCTTCATGGTT
38317557 TAATCCGTAATTCACAAGTAAGTAGAGTTTCTTTTGGGTTGAAATGGTTGCTCAACAAACATGAA
66 TAATCCGTAATTCACAAGTAAGTAGAGTTTCTTTTGGGTTGAAATGGTTGCTCAACAAACATGAA
38317622 GTGAAGCATAAGATTGTCACAACCT
131 GTGAAGCATAAGATTGTCACAACCT
38317647 AATGGTCATGATGAGAATCGAATTCATAGCAATTGTTTCATTTTCATATGTATATCTTCATGGTT
1 AATGGTCATGATGAGAATCGAATTCATAGCAATTGTTTCATTTTCATATGTATATCTTCATGGTT
38317712 TAATCCGTAATTCACAAGTAAGTAGAGTTTCTTTTGGGTTGAAATGGTTGCTCAACAAACATGAA
66 TAATCCGTAATTCACAAGTAAGTAGAGTTTCTTTTGGGTTGAAATGGTTGCTCAACAAACATGAA
38317777 GTGAAGCATAAGATTGTCACAACCT
131 GTGAAGCATAAGATTGTCACAACCT
38317802 AATGGTCATGATGAGAATCGAATTCATAGCAATTGTTTCATTTTCATATGTATATCTTCATGGTT
1 AATGGTCATGATGAGAATCGAATTCATAGCAATTGTTTCATTTTCATATGTATATCTTCATGGTT
38317867 TAATCCGTAATTCACAAGTAAGTAGAGTTTCTTTTGGGTTGAAATGGTTGCTCAACAAACATGAA
66 TAATCCGTAATTCACAAGTAAGTAGAGTTTCTTTTGGGTTGAAATGGTTGCTCAACAAACATGAA
38317932 GTGAAGCATAAGATTGTCACAAC
131 GTGAAGCATAAGATTGTCACAAC
38317955 TTACCATCCA
Statistics
Matches: 308, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
155 308 1.00
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.35
Consensus pattern (155 bp):
AATGGTCATGATGAGAATCGAATTCATAGCAATTGTTTCATTTTCATATGTATATCTTCATGGTT
TAATCCGTAATTCACAAGTAAGTAGAGTTTCTTTTGGGTTGAAATGGTTGCTCAACAAACATGAA
GTGAAGCATAAGATTGTCACAACCT
Found at i:38320382 original size:27 final size:25
Alignment explanation
Indices: 38320333--38320382 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
38320323 ATTTATTTCT
*
38320333 TTTATCATTATATTTATTAATTAAA
1 TTTATCATTATATTTATAAATTAAA
*
38320358 TTTATCATTTTATATTATAACATTA
1 TTTATCATTATAT-TTATAA-ATTA
38320383 GGAAACAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 12 0.57
26 5 0.24
27 4 0.19
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (25 bp):
TTTATCATTATATTTATAAATTAAA
Found at i:38324477 original size:48 final size:48
Alignment explanation
Indices: 38324418--38324735 Score: 248
Period size: 48 Copynumber: 6.6 Consensus size: 48
38324408 AGTTGAACCT
* * *
38324418 AGTGTAAGACCATATCTGAGACATGGCGTCAGCAACAATATGAGAGCC
1 AGTGTAAGACCATGTCTGAGACATGGCATCAGCAACGATATGAGAGCC
* * * * *
38324466 AGTGTAAGACCATGTTTG-GAACATGGCATCAGCAATGTTGTGAGAGTC
1 AGTGTAAGACCATGTCTGAG-ACATGGCATCAGCAACGATATGAGAGCC
* * ** * * *
38324514 AGTGTAAGACCATGTCT-AGGACATGACATCGGCGTCGATATGTGTGCT
1 AGTGTAAGACCATGTCTGA-GACATGGCATCAGCAACGATATGAGAGCC
* * * *
38324562 AGTGTAAGACCATGTTTGAGACATGGCATCGGCCAC-ATTATAAGAGCC
1 AGTGTAAGACCATGTCTGAGACATGGCATCAGCAACGA-TATGAGAGCC
* * * * * * * * *
38324610 AGTGTAAGACCATATTTGGGACATGGTATC-GAAATTGAGACGAGAGCT
1 AGTGTAAGACCATGTCTGAGACATGGCATCAGCAA-CGATATGAGAGCC
* * ** * *
38324658 AGTGTAAGACCATGTCTGGGACACGGCATCAGCCTCGACATGTGAGCC
1 AGTGTAAGACCATGTCTGAGACATGGCATCAGCAACGATATGAGAGCC
* *
38324706 AGTGTAAGACCATATCTGGGACATGGCATC
1 AGTGTAAGACCATGTCTGAGACATGGCATC
38324736 GGTAATTCAC
Statistics
Matches: 210, Mismatches: 52, Indels: 16
0.76 0.19 0.06
Matches are distributed among these distances:
47 4 0.02
48 202 0.96
49 4 0.02
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGAGACATGGCATCAGCAACGATATGAGAGCC
Found at i:38324632 original size:96 final size:95
Alignment explanation
Indices: 38324418--38324737 Score: 293
Period size: 96 Copynumber: 3.3 Consensus size: 95
38324408 AGTTGAACCT
* * * * * * *
38324418 AGTGTAAGACCATATCTGAGACATGGCGTCAGCAA-CAATATGAGAGCCAGTGTAAGACCATGTT
1 AGTGTAAGACCATATCTGGGACATGGCATC-GGAATCGAGACGAGAGCTAGTGTAAGACCATGTT
* ** * *
38324482 TGGAACATGGCATCAGCAATGTTGTGAGAGTC
65 TGG-ACATGGCATCAGCCACATTATGAGAGCC
* * * ** * * * *
38324514 AGTGTAAGACCATGTCTAGGACATGACATCGGCGTCGATATGTGTGCTAGTGTAAGACCATGTTT
1 AGTGTAAGACCATATCTGGGACATGGCATCGGAATCGAGACGAGAGCTAGTGTAAGACCATGTTT
* *
38324579 GAGACATGGCATCGGCCACATTATAAGAGCC
66 G-GACATGGCATCAGCCACATTATGAGAGCC
* * * *
38324610 AGTGTAAGACCATATTTGGGACATGGTATCGAAATTGAGACGAGAGCTAGTGTAAGACCATGTCT
1 AGTGTAAGACCATATCTGGGACATGGCATCGGAATCGAGACGAGAGCTAGTGTAAGACCATGT-T
* * * * *
38324675 GGGACACGGCATCAGCCTCGA-CATGTGAGCC
65 TGGACATGGCATCAGCCAC-ATTATGAGAGCC
38324706 AGTGTAAGACCATATCTGGGACATGGCATCGG
1 AGTGTAAGACCATATCTGGGACATGGCATCGG
38324738 TAATTCACCC
Statistics
Matches: 178, Mismatches: 42, Indels: 8
0.78 0.18 0.04
Matches are distributed among these distances:
95 1 0.01
96 173 0.97
97 4 0.02
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (95 bp):
AGTGTAAGACCATATCTGGGACATGGCATCGGAATCGAGACGAGAGCTAGTGTAAGACCATGTTT
GGACATGGCATCAGCCACATTATGAGAGCC
Found at i:38324680 original size:144 final size:144
Alignment explanation
Indices: 38324416--38324737 Score: 398
Period size: 144 Copynumber: 2.2 Consensus size: 144
38324406 CCAGTTGAAC
* * * *
38324416 CTAGTGTAAGACCATATCTGAGACATGGCGTCAGCAACAATATGAGAGCCAGTGTAAGACCATGT
1 CTAGTGTAAGACCATATCTGAGACATGGCATCGGCAACAATATAAGAGCCAGTGTAAGACCATAT
* * * * *
38324481 TTGGAACATGGCATCAGCAATGTTGTGAGAGTCAGTGTAAGACCATGTCTAGGACATGACATCGG
66 TTGGAACATGGCATCAGAAATGTAGCGAGAGTCAGTGTAAGACCATGTCTAGGACACGACATCAG
* * *
38324546 CGTCGATATGTGTG
131 CCTCGACATGTGAG
* * * *
38324560 CTAGTGTAAGACCATGTTTGAGACATGGCATCGGCCACATTATAAGAGCCAGTGTAAGACCATAT
1 CTAGTGTAAGACCATATCTGAGACATGGCATCGGCAACAATATAAGAGCCAGTGTAAGACCATAT
* * * *
38324625 TTGGGACATGGTATC-GAAAT-TGAGACGAGAG-CTAGTGTAAGACCATGTCTGGGACACGGCAT
66 TTGGAACATGGCATCAGAAATGT-AG-CGAGAGTC-AGTGTAAGACCATGTCTAGGACACGACAT
38324687 CAGCCTCGACATGTGAG
128 CAGCCTCGACATGTGAG
* *
38324704 CCAGTGTAAGACCATATCTGGGACATGGCATCGG
1 CTAGTGTAAGACCATATCTGAGACATGGCATCGG
38324738 TAATTCACCC
Statistics
Matches: 151, Mismatches: 24, Indels: 6
0.83 0.13 0.03
Matches are distributed among these distances:
142 1 0.01
143 6 0.04
144 144 0.95
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (144 bp):
CTAGTGTAAGACCATATCTGAGACATGGCATCGGCAACAATATAAGAGCCAGTGTAAGACCATAT
TTGGAACATGGCATCAGAAATGTAGCGAGAGTCAGTGTAAGACCATGTCTAGGACACGACATCAG
CCTCGACATGTGAG
Found at i:38330473 original size:30 final size:30
Alignment explanation
Indices: 38330437--38330496 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
38330427 CCCGAAGAAG
38330437 AAAGTCCTCAGATTCGGTAAGAAAGGAAAA
1 AAAGTCCTCAGATTCGGTAAGAAAGGAAAA
38330467 AAAGTCCTCAGATTCGGTAAGAAAGGAAAA
1 AAAGTCCTCAGATTCGGTAAGAAAGGAAAA
38330497 TTAAGTCCAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.47, C:0.13, G:0.23, T:0.17
Consensus pattern (30 bp):
AAAGTCCTCAGATTCGGTAAGAAAGGAAAA
Found at i:38332138 original size:48 final size:48
Alignment explanation
Indices: 38332084--38332308 Score: 191
Period size: 48 Copynumber: 4.7 Consensus size: 48
38332074 TATATGCGCT
* * * *
38332084 AGTGTAAAACCATGTCTAGGACATGACACCGGCTACAATATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGACATCAGCTACAATATGAGAGCC
* * * * * * * *** *
38332132 AGTGTAAGACCATATTTGGAAAATGGCATCAACAATGTTGTGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGACATCAGCTACAATATGAGAGCC
* * * * * *
38332180 AGTGTAAGATCATATCTGGGACATGACATTAGCGT-CAATATGTGTGCT
1 AGTGTAAGACCATGTCTGGGACATGACATCAGC-TACAATATGAGAGCC
* * * * *
38332228 AGTGTAAGACCATGTCTGCGACATGACGTCGGCCACATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGACATCAGCTACAATATGAGAGCC
*
38332276 AGTGTAAGACCATGTCTGGGACATGGCATCAGC
1 AGTGTAAGACCATGTCTGGGACATGACATCAGC
38332309 ATTGAGATGA
Statistics
Matches: 130, Mismatches: 45, Indels: 4
0.73 0.25 0.02
Matches are distributed among these distances:
48 130 1.00
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGACATCAGCTACAATATGAGAGCC
Found at i:38332319 original size:48 final size:48
Alignment explanation
Indices: 38332123--38332401 Score: 163
Period size: 48 Copynumber: 5.8 Consensus size: 48
38332113 CGGCTACAAT
* * * * * * *
38332123 ATGAGAGCCAGTGTAAGACCATATTTGGAAAATGGCATCAACAATGTTG
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTG-AG
* * * * * ** *
38332172 -TGAGAGCCAGTGTAAGATCATATCTGGGACATGACATTAGCGTCAAT
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGAG
* * * * * * *
38332219 ATGTGTGCTAGTGTAAGACCATGTCTGCGACATGACGTCGGCCACATT---
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAG---CATTGAG
38332267 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGAG
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGAG
* * * ** * ** * *
38332315 ATGAGAGCTAGCGTAAGACCATGTTTAAGACACGGCATTGGGC-TCGAC
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCA-TCAGCATTGAG
* * *
38332363 ATGTGAGCCAGTTTAAGACCATGTCTGAGACATGGCATC
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC
38332402 GGCAATTCAC
Statistics
Matches: 173, Mismatches: 49, Indels: 18
0.72 0.20 0.08
Matches are distributed among these distances:
45 4 0.02
47 1 0.01
48 163 0.94
49 3 0.02
51 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (48 bp):
ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGAG
Found at i:38332367 original size:144 final size:143
Alignment explanation
Indices: 38332081--38332396 Score: 330
Period size: 144 Copynumber: 2.2 Consensus size: 143
38332071 TGATATATGC
* *
38332081 GCTAGTGTAAAACCATGTCTAGGACATGACACCGGCTACAATATGAGAGCCAGTGTAAGACCATA
1 GCTAGTGTAAGACCATGTCT-GGACATGACACCGGCCACAATATGAGAGCCAGTGTAAGACCATA
* * * * ** *
38332146 TTTGGAAAATGGCATCAACAATGTTGTGAGAGCCAGTGTAAGATCATATCTGGGACATGACATTA
65 TCTGGAAAATGGCATCAACAATGTAGTGAGAGCCAGCGTAAGACCATATCTAAGACACGACATTA
* *
38332211 GCGTCAATATGTGT
130 GCGTCAACATGTGA
** * *
38332225 GCTAGTGTAAGACCATGTCTGCGACATGACGTCGGCCACATTATGAGAGCCAGTGTAAGACCATG
1 GCTAGTGTAAGACCATGTCTG-GACATGACACCGGCCACAATATGAGAGCCAGTGTAAGACCATA
* * * * * * * *
38332290 TCTGGGACATGGCATCAGCATTG-AGATGAGAGCTAGCGTAAGACCATGTTTAAGACACGGCATT
65 TCTGGAAAATGGCATCAACAATGTAG-TGAGAGCCAGCGTAAGACCATATCTAAGACACGACATT
* *
38332354 -GGGCTCGACATGTGA
129 AGCG-TCAACATGTGA
* *
38332369 GCCAGTTTAAGACCATGTCTGAGACATG
1 GCTAGTGTAAGACCATGTCTG-GACATG
38332397 GCATCGGCAA
Statistics
Matches: 141, Mismatches: 28, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
143 4 0.03
144 137 0.97
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (143 bp):
GCTAGTGTAAGACCATGTCTGGACATGACACCGGCCACAATATGAGAGCCAGTGTAAGACCATAT
CTGGAAAATGGCATCAACAATGTAGTGAGAGCCAGCGTAAGACCATATCTAAGACACGACATTAG
CGTCAACATGTGA
Found at i:38339799 original size:45 final size:45
Alignment explanation
Indices: 38339735--38339834 Score: 173
Period size: 45 Copynumber: 2.2 Consensus size: 45
38339725 TTCGTAGTGG
*
38339735 TTACAGACTTCTTGTTTCTTCAGGTTACACAATGATTCCAGACTC
1 TTACAGACTTCTTGTTTCTTCAGGTTACACAATGATTCCAAACTC
* *
38339780 TTACAGACTTCTTGTTTCTTCGGGTTACACGATGATTCCAAACTC
1 TTACAGACTTCTTGTTTCTTCAGGTTACACAATGATTCCAAACTC
38339825 TTACAGACTT
1 TTACAGACTT
38339835 TTCTATACTA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 52 1.00
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.38
Consensus pattern (45 bp):
TTACAGACTTCTTGTTTCTTCAGGTTACACAATGATTCCAAACTC
Found at i:38340638 original size:21 final size:21
Alignment explanation
Indices: 38340614--38340662 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
38340604 AAAACAAGGC
*
38340614 ACACACCCGTGTAAGAGGGCA
1 ACACACCCGTGTAAAAGGGCA
*
38340635 ACACGCCCGTGTAAAAGGGCA
1 ACACACCCGTGTAAAAGGGCA
38340656 ACACACC
1 ACACACC
38340663 GGTATGGAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.35, C:0.33, G:0.24, T:0.08
Consensus pattern (21 bp):
ACACACCCGTGTAAAAGGGCA
Found at i:38342057 original size:46 final size:48
Alignment explanation
Indices: 38341813--38342128 Score: 226
Period size: 47 Copynumber: 6.6 Consensus size: 48
38341803 GGTATAATGT
* * * *
38341813 CGATGCCAT-TCCCAGACATGGTCTTACATTGGCTCATCCATCA-A-GT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTC-TCTATCACATGC
* * ** * * *
38341859 CGATGCCATTTTCTTGACATGGTCTTACACTAACTAT-TGA-CATCGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCT-ATCA-C-ATGC
* **
38341908 CGACGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATC-TGTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCT--C-TATCACATGC
* * * *
38341958 CGATGCCATGTCCCAGACATGGCCTTACACTGGCACCTCTAT-ACGTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGC-TCTCTATCACATGC
*
38342006 CGATG-CATGTCCTAGACAT-GTCTTACACTAGCTCTCGTATCA-ATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTC-TATCACATGC
* * * * *
38342052 TGATGCCATCTCCCAGACATGGTCTTACACTGGCTCTC-ATAATATGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCTATCACAT-GC
*
38342100 CGATG-CATGTCCTAGACAT-GTCTTACACT
1 CGATGCCATGTCCCAGACATGGTCTTACACT
38342129 GGTACACAAA
Statistics
Matches: 214, Mismatches: 37, Indels: 38
0.74 0.13 0.13
Matches are distributed among these distances:
45 5 0.02
46 45 0.21
47 59 0.28
48 35 0.16
49 32 0.15
50 33 0.15
51 2 0.01
52 1 0.00
53 2 0.01
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.28
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCTATCACATGC
Found at i:38342070 original size:94 final size:95
Alignment explanation
Indices: 38341905--38342128 Score: 292
Period size: 94 Copynumber: 2.3 Consensus size: 95
38341895 TTGACATCGA
* * ** *
38341905 GGCCGACGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCTGTGCCGATGCCATGTC
1 GGCCGATG-CATGTCCTAGACAT-GTCTTACACTAGCTCT-ACATATCAATGCCGATGCCATCTC
38341970 CCAGACATGGCCTTACACTGGCACCTC-T-ATAC
63 CCAGACATGGCCTTACACTGGC-CCTCATAATAC
* *
38342002 GTGCCGATGCATGTCCTAGACATGTCTTACACTAGCTCT-CGTATCAATGCTGATGCCATCTCCC
1 G-GCCGATGCATGTCCTAGACATGTCTTACACTAGCTCTACATATCAATGCCGATGCCATCTCCC
* * *
38342066 AGACATGGTCTTACACTGGCTCTCATAATAT
65 AGACATGGCCTTACACTGGCCCTCATAATAC
38342097 GGCCGATGCATGTCCTAGACATGTCTTACACT
1 GGCCGATGCATGTCCTAGACATGTCTTACACT
38342129 GGTACACAAA
Statistics
Matches: 114, Mismatches: 10, Indels: 9
0.86 0.08 0.07
Matches are distributed among these distances:
93 3 0.03
94 71 0.62
95 4 0.04
96 16 0.14
97 14 0.12
98 6 0.05
ACGTcount: A:0.22, C:0.31, G:0.19, T:0.27
Consensus pattern (95 bp):
GGCCGATGCATGTCCTAGACATGTCTTACACTAGCTCTACATATCAATGCCGATGCCATCTCCCA
GACATGGCCTTACACTGGCCCTCATAATAC
Found at i:38349441 original size:22 final size:22
Alignment explanation
Indices: 38349416--38349476 Score: 53
Period size: 19 Copynumber: 3.0 Consensus size: 22
38349406 TAATTAGTAC
38349416 TAACCTTAATACTAAATAAACT
1 TAACCTTAATACTAAATAAACT
* *
38349438 TAA-C--AAAAATAAAT--AC-
1 TAACCTTAATACTAAATAAACT
*
38349454 TAACCTTAATACAAAATAAACT
1 TAACCTTAATACTAAATAAACT
38349476 T
1 T
38349477 TTAACATAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 12
0.62 0.11 0.27
Matches are distributed among these distances:
16 3 0.11
17 3 0.11
19 15 0.54
21 3 0.11
22 4 0.14
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (22 bp):
TAACCTTAATACTAAATAAACT
Found at i:38349457 original size:38 final size:40
Alignment explanation
Indices: 38349413--38349496 Score: 127
Period size: 38 Copynumber: 2.1 Consensus size: 40
38349403 AAATAATTAG
*
38349413 TACTAACCTTAATACTAAATAAAC-TTAACAAAAATAAA-
1 TACTAACCTTAATACAAAATAAACTTTAACAAAAATAAAC
*
38349451 TACTAACCTTAATACAAAATAAACTTTTAACATAAATAAAC
1 TACTAACCTTAATACAAAATAAAC-TTTAACAAAAATAAAC
38349492 TACTA
1 TACTA
38349497 CTAAAATATA
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
38 23 0.56
40 13 0.32
41 5 0.12
ACGTcount: A:0.55, C:0.17, G:0.00, T:0.29
Consensus pattern (40 bp):
TACTAACCTTAATACAAAATAAACTTTAACAAAAATAAAC
Found at i:38350966 original size:15 final size:16
Alignment explanation
Indices: 38350948--38350977 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
38350938 TTTTTAACTT
38350948 CTTTTTTT-TTCTTTC
1 CTTTTTTTATTCTTTC
38350963 CTTTTTTTATTCTTT
1 CTTTTTTTATTCTTT
38350978 TTAGTGATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (16 bp):
CTTTTTTTATTCTTTC
Found at i:38351161 original size:19 final size:19
Alignment explanation
Indices: 38351137--38351174 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
38351127 ATACTCCAAT
38351137 GTTGAATCCATGAAAGTAA
1 GTTGAATCCATGAAAGTAA
38351156 GTTGAATCCATGAAAGTAA
1 GTTGAATCCATGAAAGTAA
38351175 CTGAAGAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.11, G:0.21, T:0.26
Consensus pattern (19 bp):
GTTGAATCCATGAAAGTAA
Found at i:38356093 original size:17 final size:18
Alignment explanation
Indices: 38356052--38356093 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
38356042 TTGATTTAAT
* *
38356052 TATATACATTTAAATAAA
1 TATATACATTAAAAAAAA
*
38356070 TAAATACATTAAAAAAAA
1 TATATACATTAAAAAAAA
38356088 T-TATAC
1 TATATAC
38356094 TGAATAATTA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (18 bp):
TATATACATTAAAAAAAA
Found at i:38362742 original size:23 final size:24
Alignment explanation
Indices: 38362716--38362762 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
38362706 AAGATAACAT
38362716 AACAACA-AGAAGAA-AAAAGCAAA
1 AACAACATAGAA-AACAAAAGCAAA
38362739 AACAACATAGAAAACAAAAGCAAA
1 AACAACATAGAAAACAAAAGCAAA
38362763 CCCAGAAGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 9 0.41
24 13 0.59
ACGTcount: A:0.72, C:0.15, G:0.11, T:0.02
Consensus pattern (24 bp):
AACAACATAGAAAACAAAAGCAAA
Found at i:38362930 original size:2 final size:2
Alignment explanation
Indices: 38362923--38362952 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
38362913 AGAGAAAGTC
*
38362923 AG AG AG AG AG AG AA AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
38362953 GGAACAAAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:38362936 original size:18 final size:16
Alignment explanation
Indices: 38362913--38362951 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 16
38362903 GGGAGGAAAA
38362913 AGAGAAAGTCAGAGAGAG
1 AGAGAAAG--AGAGAGAG
38362931 AGAGAAAGAGAGAGAG
1 AGAGAAAGAGAGAGAG
38362947 AGAGA
1 AGAGA
38362952 GGGAACAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 13 0.62
18 8 0.38
ACGTcount: A:0.54, C:0.03, G:0.41, T:0.03
Consensus pattern (16 bp):
AGAGAAAGAGAGAGAG
Found at i:38362952 original size:18 final size:18
Alignment explanation
Indices: 38362913--38362952 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
38362903 GGGAGGAAAA
*
38362913 AGAGAAAGTCAGAGAGAG
1 AGAGAAAGACAGAGAGAG
*
38362931 AGAGAAAGAGAGAGAGAG
1 AGAGAAAGACAGAGAGAG
38362949 AGAG
1 AGAG
38362953 GGAACAAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.53, C:0.03, G:0.42, T:0.03
Consensus pattern (18 bp):
AGAGAAAGACAGAGAGAG
Found at i:38365248 original size:26 final size:26
Alignment explanation
Indices: 38365200--38365250 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
38365190 TTCGCCCGTA
* * * *
38365200 TAAATTTTTTTACTATTTTTTATTTT
1 TAAATTTTTTAAATATATATTATTTT
38365226 TAAATTTTTTAAATATATATTATTT
1 TAAATTTTTTAAATATATATTATTT
38365251 GTTTTTTGTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (26 bp):
TAAATTTTTTAAATATATATTATTTT
Found at i:38366177 original size:30 final size:29
Alignment explanation
Indices: 38366112--38366170 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
38366102 AAAATTTAAA
* *
38366112 TTAATAATAATAAAATTGTATTTTATCTCC
1 TTAAAAATAATAAAATTGTATTTAATCT-C
*
38366142 TTAAAAATAATAAAATTTTGATTTAATCT
1 TTAAAAATAATAAAATTGT-ATTTAATCT
38366171 TGTAAAAGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 17 0.68
31 8 0.32
ACGTcount: A:0.44, C:0.07, G:0.03, T:0.46
Consensus pattern (29 bp):
TTAAAAATAATAAAATTGTATTTAATCTC
Found at i:38376452 original size:17 final size:19
Alignment explanation
Indices: 38376411--38376452 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
38376401 CTAGTAATGT
38376411 TAAA-ATATATATAATATA
1 TAAATATATATATAATATA
*
38376429 TACATATATATATAA-A-A
1 TAAATATATATATAATATA
38376446 TAAATAT
1 TAAATAT
38376453 TGAAAAATGT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 7 0.33
18 4 0.19
19 10 0.48
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (19 bp):
TAAATATATATATAATATA
Found at i:38376801 original size:3 final size:3
Alignment explanation
Indices: 38376759--38376792 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
38376749 TATAAATATA
*
38376759 AAT AAT AAT AAT AAT AAT AAT AAT AAC AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
38376793 GCAATAATAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:38376889 original size:18 final size:17
Alignment explanation
Indices: 38376846--38376891 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
38376836 AGGTAAGGAA
38376846 AATA-AAATA-AAATAT
1 AATAGAAATATAAATAT
* *
38376861 ATTAGATATATAAATAT
1 AATAGAAATATAAATAT
38376878 AATAGTAAATATAA
1 AATAG-AAATATAA
38376892 TAATGTTCGA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
15 3 0.12
16 4 0.17
17 10 0.42
18 7 0.29
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (17 bp):
AATAGAAATATAAATAT
Found at i:38377120 original size:16 final size:16
Alignment explanation
Indices: 38377087--38377119 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
38377077 AGGTAAACAT
*
38377087 AATATAATAATATTAA
1 AATAAAATAATATTAA
38377103 AATAAAATAAT-TTAA
1 AATAAAATAATATTAA
38377118 AA
1 AA
38377120 AATACTATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AATAAAATAATATTAA
Found at i:38379070 original size:73 final size:74
Alignment explanation
Indices: 38378980--38379196 Score: 262
Period size: 73 Copynumber: 3.0 Consensus size: 74
38378970 AATTGGAAAG
* * * *
38378980 CAGAAATTAAAAATACCTCAACGTGCCCTGACGCTCAACTCACCTCTCGCAATATGAGTT-AATT
1 CAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATT
38379044 TTTGAAAAA
66 TTTGAAAAA
* * *
38379053 CAGAAATTGAAATTACCTCAGCGCGTCCTGAGGCTCAACTCACCTCTCGC-A-ATGAGTTGATTT
1 CAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-AT
*
38379116 TTTTGAAAGA
65 TTTTGAAAAA
* * * * * **
38379126 TAAAAATTGAAAATACCTTAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA-T
1 CAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATT
38379190 TTTGAAA
66 TTTGAAA
38379197 CATAAATTAA
Statistics
Matches: 122, Mismatches: 18, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
71 7 0.06
72 2 0.02
73 103 0.84
74 1 0.01
75 9 0.07
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (74 bp):
CAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATT
TTTGAAAAA
Found at i:38379270 original size:85 final size:85
Alignment explanation
Indices: 38379155--38380185 Score: 1281
Period size: 85 Copynumber: 12.6 Consensus size: 85
38379145 AGCATGTCTT
**
38379155 GAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAACATAAATTAAGAAACAAAAATTG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAACATAAATTAAGAAACAAAAATTG
38379220 CCAATACCTCAGCGTGCCCC
66 CCAATACCTCAGCGTGCCCC
38379240 GAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAACATAAATTAAGAAACAAAAATTG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAACATAAATTAAGAAACAAAAATTG
38379305 CCAATACCTCAGCGTGCCCC
66 CCAATACCTCAGCGTGCCCC
38379325 GAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAACATAAATTAAGAAACAAAAATTG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAACATAAATTAAGAAACAAAAATTG
38379390 CCAATACCTCAGCGTGCCCC
66 CCAATACCTCAGCGTGCCCC
38379410 GAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAACATAAATTAAGAAACAAAAATTG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAACATAAATTAAGAAACAAAAATTG
38379475 CCAATACCTCAGCGTGCCCC
66 CCAATACCTCAGCGTGCCCC
38379495 GAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAACATAAATTAAGAAACAAAAATTG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAACATAAATTAAGAAACAAAAATTG
38379560 CCAATACCTCAGCGTGCCCC
66 CCAATACCTCAGCGTGCCCC
38379580 GAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAACATAAATTAAGAAACAAAAATTG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAACATAAATTAAGAAACAAAAATTG
38379645 CCAATACCTCAGCGTGCCCC
66 CCAATACCTCAGCGTGCCCC
**
38379665 GAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAACATAAATTAAGAAACAAAAATTG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAACATAAATTAAGAAACAAAAATTG
38379730 CCAATACCTCAGCGTGCCCC
66 CCAATACCTCAGCGTGCCCC
*
38379750 GAGGCTCAACTCACCTCTCGC-A-ATGAGTTG-ATTTT------T---TTGAA-AGACAAAAATT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAACATAAATT-AAGAAACAAAAATT
** * * **
38379802 GAAAATACCTCAGCATGTCTT
65 GCCAATACCTCAGCGTGCCCC
** *
38379823 GAGGCTCAACTCATTTCTCGCAATATGAGTTG-ATTTT------T---TTGAA-AGACAAAAATT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAACATAAATT-AAGAAACAAAAATT
** * * **
38379877 GAAAATACCTCAGCATGTCTT
65 GCCAATACCTCAGCGTGCCCC
** *
38379898 GAGGCTCAACTCATTTCTCGCAATATGAGTTG-ATTTT------T---TTGAA-AGACAAAAATT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAACATAAATT-AAGAAACAAAAATT
** * * **
38379952 GAAAATACCTCAGCATGTCTT
65 GCCAATACCTCAGCGTGCCCC
** *
38379973 GAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAACATAAATTAAGAAACAAAAATTT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAACATAAATTAAGAAACAAAAATTG
*
38380038 CCAATACCTCAGTGTGCCCC
66 CCAATACCTCAGCGTGCCCC
* * * * * *
38380058 GAAGCTCAACTCACTTCTCGCATTATGAGTTG-ATTTT------T---TTGAA-AGATAGAAATT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAACATAAATT-AAGAAACAAAAATT
** **
38380112 GAAAATACCTCAGCATGTGAACC
65 GCCAATACCTCAGC--GTGCCCC
*
38380135 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACATAAATT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTG-AAACATAAATT
38380186 GAAAATACCT
Statistics
Matches: 878, Mismatches: 40, Indels: 53
0.90 0.04 0.05
Matches are distributed among these distances:
73 46 0.05
74 3 0.00
75 178 0.20
76 8 0.01
77 34 0.04
78 5 0.01
82 6 0.01
83 8 0.01
84 8 0.01
85 580 0.66
88 2 0.00
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.27
Consensus pattern (85 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAACATAAATTAAGAAACAAAAATTG
CCAATACCTCAGCGTGCCCC
Found at i:38379861 original size:75 final size:75
Alignment explanation
Indices: 38379720--38380389 Score: 700
Period size: 75 Copynumber: 8.9 Consensus size: 75
38379710 AAATTAAGAA
** * * ** **
38379720 ACAAAAATTGCCAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGC-A-ATGAGTTGATT
1 ACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATT
38379783 TTTTTGAAAG
66 TTTTTGAAAG
38379793 ACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATT
1 ACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATT
38379858 TTTTTGAAAG
66 TTTTTGAAAG
38379868 ACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATT
1 ACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATT
38379933 TTTTTGAAAG
66 TTTTTGAAAG
38379943 ACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
1 ACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG-AT
*
38380008 TTTGAAACATAAATT-AAGAA
65 TTT------T---TTGAA-AG
*** ** * ** * * *
38380028 ACAAAAATTTCCAATACCTCAGTGTGCCCCGAAGCTCAACTCACTTCTCGCATTATGAGTTGATT
1 ACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATT
38380093 TTTTTGAAAG
66 TTTTTGAAAG
* * * **
38380103 ATAGAAATTGAAAATACCTCAGCATGTGAAC-CGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 ACAAAAATTGAAAATACCTCAGCATGT---CTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
38380167 A--TTTTTGAAA-
63 ATTTTTTTGAAAG
* * * * * *
38380177 ACATAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCATTACTCACAATATGAGTTGA--
1 ACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATT
*
38380240 ATTTTGAAA-
66 TTTTTGAAAG
* * * * ** * *
38380249 ACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCACAATATGAGTCGA-T
1 ACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATT
38380313 TTTTTGAAA-
66 TTTTTGAAAG
* * * * * *
38380322 ATAGAAA-TAAAAATTACCTCAACATGTCTTGAGGCTCAACTCATTTCTCGTAATATGAGTTGAA
1 ACAAAAATTGAAAA-TACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAT
38380386 TTTT
65 TTTT
38380390 GAAAATAGAA
Statistics
Matches: 512, Mismatches: 64, Indels: 41
0.83 0.10 0.07
Matches are distributed among these distances:
71 1 0.00
72 94 0.18
73 98 0.19
74 28 0.05
75 189 0.37
76 7 0.01
77 31 0.06
78 2 0.00
82 1 0.00
84 7 0.01
85 54 0.11
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.31
Consensus pattern (75 bp):
ACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATT
TTTTTGAAAG
Found at i:38380235 original size:72 final size:72
Alignment explanation
Indices: 38380061--38380401 Score: 373
Period size: 72 Copynumber: 4.7 Consensus size: 72
38380051 GTGCCCCGAA
* *
38380061 GCTCAACTCACTTCTCGCATTATGAGTTGATTTTTTTGAAAGATAGAAATTGAAAATACCTCAGC
1 GCTCAACTCACTTCTCGCAATATGAGTTGA--TTTTTGAAA-ACAGAAATTGAAAATACCTCA--
* * *
38380126 ATGTGAAC-CGAG
61 ACGTG-TCTTGAG
* *
38380138 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACATAAATTGAAAATACCTCAACGTG
1 GCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAAATACCTCAACGTG
38380203 TCTTGAG
66 TCTTGAG
* * * * *
38380210 GTTCAACTCA-TTACTCACAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGT
1 GCTCAACTCACTT-CTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAAATACCTCAACGT
*
38380274 GTCCTGAG
65 GTCTTGAG
* * * * * *
38380282 GCTCAACTCACCTCTCACAATATGAGTCGATTTTTTGAAAATAGAAA-TAAAAATTACCTCAACA
1 GCTCAACTCACTTCTCGCAATATGAGTTGA-TTTTTGAAAACAGAAATTGAAAA-TACCTCAACG
38380346 TGTCTTGAG
64 TGTCTTGAG
* * * *
38380355 GCTCAACTCATTTCTCGTAATATGAGTTGAATTTTGAAAATAGAAAT
1 GCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAACAGAAAT
38380402 AAAAATATCA
Statistics
Matches: 227, Mismatches: 31, Indels: 16
0.83 0.11 0.06
Matches are distributed among these distances:
71 2 0.01
72 113 0.50
73 56 0.25
74 19 0.08
75 9 0.04
77 28 0.12
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (72 bp):
GCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAAATACCTCAACGTG
TCTTGAG
Found at i:38399362 original size:55 final size:55
Alignment explanation
Indices: 38399279--38399386 Score: 198
Period size: 55 Copynumber: 2.0 Consensus size: 55
38399269 TTAAAATAAA
*
38399279 CTTCATAACAGTGTTTTATAAGAATGCTATATTCCATAAAGCACAATCCAAAATT
1 CTTCATAACAGTGTTTTATAAGAATGCTATATTCCAAAAAGCACAATCCAAAATT
*
38399334 CTTCATAACAGTGTTTTATAAGATTGCTATATTCCAAAAAGCACAATCCAAAA
1 CTTCATAACAGTGTTTTATAAGAATGCTATATTCCAAAAAGCACAATCCAAAA
38399387 CTTCATTCTT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 51 1.00
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (55 bp):
CTTCATAACAGTGTTTTATAAGAATGCTATATTCCAAAAAGCACAATCCAAAATT
Found at i:38403923 original size:16 final size:17
Alignment explanation
Indices: 38403899--38403934 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
38403889 TTAAAATAAT
38403899 TTTAAAAAAATTAAA-A
1 TTTAAAAAAATTAAATA
*
38403915 TTTATAAAAATTAAATA
1 TTTAAAAAAATTAAATA
38403932 TTT
1 TTT
38403935 TTTATATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
TTTAAAAAAATTAAATA
Found at i:38403940 original size:20 final size:19
Alignment explanation
Indices: 38403872--38403940 Score: 63
Period size: 20 Copynumber: 3.6 Consensus size: 19
38403862 ATTAATTTTT
*
38403872 AAATTTTTTTTAAAAATTTA
1 AAATTTTTTATAAAAA-TTA
* *
38403892 AAATAATTTTAAAAAAATTA
1 AAAT-TTTTTATAAAAATTA
38403912 AAA---TTTATAAAAATTA
1 AAATTTTTTATAAAAATTA
38403928 AATATTTTTTATA
1 AA-ATTTTTTATA
38403941 TATTTAAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
16 14 0.35
17 1 0.03
20 16 0.40
21 9 0.22
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
AAATTTTTTATAAAAATTA
Done.