Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 96 of 255
Found at i:29715588 original size:37 final size:37
Alignment explanation
Indices: 29715538--29715689 Score: 241
Period size: 37 Copynumber: 4.1 Consensus size: 37
29715528 ACCTTTAGCT
* * *
29715538 CGGACGAAATCTCCACACGAAGTTATCGGGTCTTACC
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
29715575 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
* * *
29715612 CGGACATAATCTCCACACGTAGCCATCGGGTCTTATC
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
*
29715649 CGGACATAATCTCCACACGTAGTCATCGGGTCTTACC
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
29715686 CGGA
1 CGGA
29715690 ATATATTTCC
Statistics
Matches: 107, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 107 1.00
ACGTcount: A:0.26, C:0.32, G:0.20, T:0.22
Consensus pattern (37 bp):
CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
Found at i:29715960 original size:47 final size:47
Alignment explanation
Indices: 29715900--29716827 Score: 1174
Period size: 47 Copynumber: 19.1 Consensus size: 47
29715890 ACACGTTTAG
* * **
29715900 CATTAGCCATTCGGCCTTACCACATC-TATTCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACA-CATACGCATGTTCACATTCATCA
* * *
29715947 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*
29715994 CATTGGCCATCCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
29716041 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* ** *
29716088 CATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCA--C----ACATACGCATGTTCACATTCATCA
29716141 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
***
29716188 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCAT----GTTCACATTCATCA
*
29716239 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*
29716286 CAGTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
***
29716333 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCAT----GTTCACATTCATCA
*
29716384 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* ***
29716431 CAGTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCAT----GTTCACATTCATCA
* *
29716482 CATTGGCCGTTCAGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* ** *
29716529 CATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCA--C----ACATACGCATGTTCACATTCATCA
29716582 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* *** *
29716629 CATTGGCCATTCGGCCTTATCACATATATATATATGGGTTCACATTGATCA
1 CATTGGCCATTCGGCCTTATCAC--ACATACGCAT--GTTCACATTCATCA
29716680 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
** **
29716727 CATTGGCCATTCGGCCTTATCACACACATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTAT--CACAC--ATACGCATGTTCACATTCATCA
* *
29716778 CATTAGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
29716825 CAT
1 CAT
29716828 AAAATCCTAA
Statistics
Matches: 772, Mismatches: 76, Indels: 66
0.84 0.08 0.07
Matches are distributed among these distances:
47 461 0.60
49 24 0.03
51 203 0.26
53 84 0.11
ACGTcount: A:0.26, C:0.30, G:0.13, T:0.30
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
Found at i:29716285 original size:98 final size:94
Alignment explanation
Indices: 29715900--29716827 Score: 1210
Period size: 98 Copynumber: 9.5 Consensus size: 94
29715890 ACACGTTTAG
* * **
29715900 CATTAGCCATTCGGCCTTACCACATC-TATTCATGTTCACATTCATCACATTGGCCATTCGGCCT
1 CATTGGCCATTCGGCCTTATCACA-CATACGCATGTTCACATTCATCACATTGGCCATTCGGCCT
* * *
29715964 TATCTCATATATGCATGTTCACATTCATCA
65 TATCACACATATACATGTTCACATTCATCA
*
29715994 CATTGGCCATCCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
**
29716059 ATCACACATACGCATGTTCACATTCATCA
66 ATCACACATATACATGTTCACATTCATCA
* ** *
29716088 CATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCACATTGGCCATTC
1 CATTGGCCATTCGGCCTTATCA--C----ACATACGCATGTTCACATTCATCACATTGGCCATTC
**
29716153 GGCCTTATCACACATACGCATGTTCACATTCATCA
60 GGCCTTATCACACATATACATGTTCACATTCATCA
***
29716188 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCACATTGGCCATTCGG
1 CATTGGCCATTCGGCCTTATCACACATACGCAT----GTTCACATTCATCACATTGGCCATTCGG
** *
29716253 CCTTATCACACATACGCATGTTCACATCCATCA
62 CCTTATCACACATATACATGTTCACATTCATCA
*
29716286 CAGTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
*
29716351 ATCACACATATATATACGGGTTCACATTCATCA
66 ATCACACATATACAT----GTTCACATTCATCA
* *
29716384 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCACAGTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
*
29716449 ATCACACATATATATACGGGTTCACATTCATCA
66 ATCACACATATACAT----GTTCACATTCATCA
* *
29716482 CATTGGCCGTTCAGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
* *
29716547 ATCACGCATATATATATACAGGTTCACATTCATCA
66 ATCA--C----ACATATACATGTTCACATTCATCA
29716582 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
* * *
29716647 ATCACATATATATATATGGGTTCACATTGATCA
66 ATCAC--ACATATACAT--GTTCACATTCATCA
29716680 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
**
29716745 ATCACACACATATATACGGGTTCACATTCATCA
66 AT--CACAC--ATATACATGTTCACATTCATCA
* *
29716778 CATTAGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCACAT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACAT
29716828 AAAATCCTAA
Statistics
Matches: 760, Mismatches: 47, Indels: 50
0.89 0.05 0.06
Matches are distributed among these distances:
93 1 0.00
94 156 0.21
96 11 0.01
98 406 0.53
100 179 0.24
104 7 0.01
ACGTcount: A:0.26, C:0.30, G:0.13, T:0.30
Consensus pattern (94 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
ATCACACATATACATGTTCACATTCATCA
Found at i:29716556 original size:441 final size:437
Alignment explanation
Indices: 29715900--29716805 Score: 1496
Period size: 441 Copynumber: 2.1 Consensus size: 437
29715890 ACACGTTTAG
* *
29715900 CATTAGCCATTCGGCCTTA-C-CACATCTATTCATGTTCACATTCATCACATTGGCCATTCGGCC
1 CATTAGCCATTCGGCCTTATCACACATATATTCAGGTTCACATTCATCACATTGGCCATTCGGCC
* * * * * *
29715963 TTATCTCATATATGCATGTTCACATTCATCACATTGGCCATCCGGCCTTATCACACATACGCATG
66 TTATCACACATACGCATGTTCACATCCATCACAGTGGCCATCCGGCCTTATCACACATACACATG
*
29716028 TTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTG
131 TTCACATTCATCACATTGGCCATTCAGCCTTATCACACATACGCATGTTCACATTCATCACATTG
29716093 GCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCT
196 GCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCT
29716158 TATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATATATAC
261 TATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATATATAC
29716223 GGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCACA
326 GGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCACA
* *
29716288 GTGGCCATTCGGCCTTAT-CACAC-ATACGCATGTTCACATTCATCA
391 GTGGCCATTCGGCCTTATACACACAATACACAGGTTCACATTCATCA
* *
29716333 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCACATTGGCCATTCGG
1 CATTAGCCATTCGGCCTTATCACACATATAT-T-CAGGTTCACATTCATCACATTGGCCATTCGG
* * *
29716398 CCTTATCACACATACGCATGTTCACATCCATCACAGTGGCCATTCGGCCTTATCACACATATATA
64 CCTTATCACACATACGCATGTTCACATCCATCACAGTGGCCATCCGGCCTTATCACACATACACA
*
29716463 TACGGGTTCACATTCATCACATTGGCCGTTCAGCCTTATCACACATACGCATGTTCACATTCATC
129 T----GTTCACATTCATCACATTGGCCATTCAGCCTTATCACACATACGCATGTTCACATTCATC
29716528 ACATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCACATTGGCCATT
190 ACATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCACATTGGCCATT
*
29716593 CGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAT
255 CGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATAT
* * *
29716658 ATATATGGGTTCACATTGATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTC
320 ATATACGGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCC
* * *
29716723 ATCACATTGGCCATTCGGCCTTATCACACACATATATACGGGTTCACATTCATCA
385 ATCACAGTGGCCATTCGGCCTTAT-ACACACA-ATACACAGGTTCACATTCATCA
29716778 CATTAGCCATTCGGCCTTATCACACATA
1 CATTAGCCATTCGGCCTTATCACACATA
29716806 CGCATGTTCA
Statistics
Matches: 436, Mismatches: 25, Indels: 12
0.92 0.05 0.03
Matches are distributed among these distances:
433 18 0.04
434 1 0.00
435 8 0.02
436 1 0.00
437 86 0.20
441 272 0.62
443 5 0.01
445 45 0.10
ACGTcount: A:0.26, C:0.30, G:0.13, T:0.31
Consensus pattern (437 bp):
CATTAGCCATTCGGCCTTATCACACATATATTCAGGTTCACATTCATCACATTGGCCATTCGGCC
TTATCACACATACGCATGTTCACATCCATCACAGTGGCCATCCGGCCTTATCACACATACACATG
TTCACATTCATCACATTGGCCATTCAGCCTTATCACACATACGCATGTTCACATTCATCACATTG
GCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCT
TATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATATATAC
GGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCACA
GTGGCCATTCGGCCTTATACACACAATACACAGGTTCACATTCATCA
Found at i:29719136 original size:85 final size:85
Alignment explanation
Indices: 29719007--29719185 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
29718997 TATTTTATTG
*
29719007 CCCATGCCCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
29719072 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
29719092 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
29719157 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
29719177 CCCATGCTC
1 CCCATGCTC
29719186 ATGGCCGGCC
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.26, C:0.28, G:0.08, T:0.37
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:29723510 original size:26 final size:26
Alignment explanation
Indices: 29723481--29723540 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 26
29723471 TCCCTTTGAA
* * *
29723481 TCATTCGATATTTTGCACACTAAGTG
1 TCATTCAATATCTCGCACACTAAGTG
29723507 TCATTCTCAATATCTCGCACACTAAGTG
1 TCA-T-TCAATATCTCGCACACTAAGTG
*
29723535 CCATTC
1 TCATTC
29723541 TCAATATTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 5 0.18
27 2 0.07
28 21 0.75
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.35
Consensus pattern (26 bp):
TCATTCAATATCTCGCACACTAAGTG
Found at i:29723526 original size:28 final size:28
Alignment explanation
Indices: 29723495--29723566 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
29723485 TCGATATTTT
*
29723495 GCACACTAAGTGTCATTCTCAATATCTC
1 GCACACTAAGTGCCATTCTCAATATCTC
*
29723523 GCACACTAAGTGCCATTCTCAATATTTC
1 GCACACTAAGTGCCATTCTCAATATCTC
* * *
29723551 GTACACTGAGTACCAT
1 GCACACTAAGTGCCAT
29723567 ATTTGATTGC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.31
Consensus pattern (28 bp):
GCACACTAAGTGCCATTCTCAATATCTC
Found at i:29725498 original size:48 final size:47
Alignment explanation
Indices: 29725427--29725736 Score: 271
Period size: 48 Copynumber: 6.5 Consensus size: 47
29725417 GTGAATTGAT
* * * * *
29725427 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATGTAGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATA-AGGCC
* * *
29725475 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTCAATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAT-AAGGCC
* * * * *
29725523 GATGCCATGTCCTAGACATGGTCTTACACTGGCTCTTATAATATGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAT-ATAAGGCC
* * * ** *
29725571 GATGCCATGTCCCAAACATGGTCTTACACTAGCACACATATCAATACT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAT-AAGGCC
* * * * *
29725619 GATGTCATGTCCTAGACATGGTCTTACACTAGCTCTCACA-ACATCGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATA-A-GGCC
* * * * ** *
29725667 GATTCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATTGTGGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATA-TAAGGCC
29725715 GATGCCATGTCCCAGACATGGT
1 GATGCCATGTCCCAGACATGGT
29725737 ACTAAACTGG
Statistics
Matches: 208, Mismatches: 47, Indels: 14
0.77 0.17 0.05
Matches are distributed among these distances:
46 1 0.00
47 3 0.01
48 202 0.97
49 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.29
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAAGGCC
Found at i:29725591 original size:96 final size:96
Alignment explanation
Indices: 29725427--29725707 Score: 341
Period size: 96 Copynumber: 2.9 Consensus size: 96
29725417 GTGAATTGAT
* * * * * *
29725427 GATGCCATGTTCC-AAACATGGTCTTACACTGGCTCACAT-GTAGAGGCCGATGCCATGTCCCAG
1 GATGCCATG-TCCTAGACATGGTCTTACACTGGCTCTCATAATA-TGGCTGATGCCATGTCCCAA
* * *
29725490 ACATGGTCTTACACTAGCTCTCGTCTCAATGCC
64 ACATGGTCTTACACTAGCTCTCATATCAATACC
*
29725523 GATGCCATGTCCTAGACATGGTCTTACACTGGCTCTTATAATATGGCTGATGCCATGTCCCAAAC
1 GATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATAATATGGCTGATGCCATGTCCCAAAC
* * *
29725588 ATGGTCTTACACTAGCACACATATCAATACT
66 ATGGTCTTACACTAGCTCTCATATCAATACC
* * * * * * *
29725619 GATGTCATGTCCTAGACATGGTCTTACACTAGCTCTCACAACATCGCTGATTCCATGTTCCAAAC
1 GATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATAATATGGCTGATGCCATGTCCCAAAC
*
29725684 ATGGTCTTACACTGGCTCTCATAT
66 ATGGTCTTACACTAGCTCTCATAT
29725708 TGTGGTCGAT
Statistics
Matches: 159, Mismatches: 24, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
95 3 0.02
96 154 0.97
97 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (96 bp):
GATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATAATATGGCTGATGCCATGTCCCAAAC
ATGGTCTTACACTAGCTCTCATATCAATACC
Found at i:29725686 original size:144 final size:143
Alignment explanation
Indices: 29725426--29725736 Score: 378
Period size: 144 Copynumber: 2.2 Consensus size: 143
29725416 GGTGAATTGA
* * * * *
29725426 TGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATGTAGAGGCCGATGCCATGTCCCAGA
1 TGATGCCATGTCCCAAACATGGTCTTACACTAGCACACATATAGAGACCGATGCCATGTCCCAGA
* * *
29725491 CATGGTCTTACACTAGCTCTCGTCTCAATGCCGATGCCATGTCCTAGACATGGTCTTACACTGGC
66 CATGGTCTTACACTAGCTCTCGACACAATGCCGATGCCATGTCCTAAACATGGTCTTACACTGGC
*
29725556 TCTTATAATATGG
131 TCTCATAATATGG
* * * *
29725569 CTGATGCCATGTCCCAAACATGGTCTTACACTAGCACACATATCA-ATACTGATGTCATGTCCTA
1 -TGATGCCATGTCCCAAACATGGTCTTACACTAGCACACATAT-AGAGACCGATGCCATGTCCCA
* *
29725633 GACATGGTCTTACACTAGCTCTC-ACA-ACATCGCTGATTCCATGTTCC-AAACATGGTCTTACA
64 GACATGGTCTTACACTAGCTCTCGACACA-AT-GCCGATGCCATG-TCCTAAACATGGTCTTACA
* *
29725695 CTGGCTCTCATATTGTGG
126 CTGGCTCTCATAATATGG
*
29725713 TCGATGCCATGTCCCAGACATGGT
1 T-GATGCCATGTCCCAAACATGGT
29725737 ACTAAACTGG
Statistics
Matches: 144, Mismatches: 18, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
142 1 0.01
143 4 0.03
144 135 0.94
145 4 0.03
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (143 bp):
TGATGCCATGTCCCAAACATGGTCTTACACTAGCACACATATAGAGACCGATGCCATGTCCCAGA
CATGGTCTTACACTAGCTCTCGACACAATGCCGATGCCATGTCCTAAACATGGTCTTACACTGGC
TCTCATAATATGG
Found at i:29725724 original size:96 final size:97
Alignment explanation
Indices: 29725475--29725736 Score: 305
Period size: 96 Copynumber: 2.7 Consensus size: 97
29725465 TGTAGAGGCC
* * * * * *
29725475 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTCAATGC-CGATGCCATGTCCTAGA
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCACACATATCAATACTCGATGCCATGTCCTAGA
* * * * *
29725539 CATGGTCTTACACTGGCTCTTATAATATGGCT
66 CATGGTCTTACACTAGCTCTCACAACATCGCT
*
29725571 GATGCCATGTCCCAAACATGGTCTTACACTAGCACACATATCAATACT-GATGTCATGTCCTAGA
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCACACATATCAATACTCGATGCCATGTCCTAGA
29725635 CATGGTCTTACACTAGCTCTCACAACATCGCT
66 CATGGTCTTACACTAGCTCTCACAACATCGCT
* * * * * ** ** *
29725667 GATTCCATGTTCCAAACATGGTCTTACACTGGCTCTCATAT-TGTGGTCGATGCCATGTCCCAGA
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCACACATATCAATACTCGATGCCATGTCCTAGA
29725731 CATGGT
66 CATGGT
29725737 ACTAAACTGG
Statistics
Matches: 141, Mismatches: 23, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
95 2 0.01
96 139 0.99
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.29
Consensus pattern (97 bp):
GATGCCATGTCCCAAACATGGTCTTACACTAGCACACATATCAATACTCGATGCCATGTCCTAGA
CATGGTCTTACACTAGCTCTCACAACATCGCT
Found at i:29731882 original size:47 final size:46
Alignment explanation
Indices: 29731770--29732033 Score: 211
Period size: 46 Copynumber: 5.7 Consensus size: 46
29731760 GGTAAGATGT
* * *
29731770 CGATGCCATGTCCCAGACACAGTCTTACACGGGC-TCATATC-TCAAGT
1 CGATGCCATGTCCCAGACA-TGTCTTACACTGGCTTCATATCGT--AGC
* * *
29731817 CGATGCCATGTCCTAGACACGGTCTTACACTGACTATCATATCGTAGC
1 CGATGCCATGTCCCAGACA-TGTCTTACACTGGCT-TCATATCGTAGC
* *
29731865 CGATG-CATATCCCAGACATGTCTTACACTGGCTTACGTATCG-AGGC
1 CGATGCCATGTCCCAGACATGTCTTACACTGGCTT-CATATCGTA-GC
* * * *
29731911 CGATG-CATGTCCCAGACATGTCTTACACTAGCTTTCGTCTC-AATGC
1 CGATGCCATGTCCCAGACATGTCTTACACTGGC-TTCATATCGTA-GC
* * * *
29731957 CGATACCATGTCCCAGACATGGTCTTACACTAGCTCTCATAAT-GTGGT
1 CGATGCCATGTCCCAGACAT-GTCTTACACTGGCT-TCAT-ATCGTAGC
*
29732005 CGATG-CATGTCCCAAACATGTCTTACACT
1 CGATGCCATGTCCCAGACATGTCTTACACT
29732034 AGCTCACAAA
Statistics
Matches: 183, Mismatches: 22, Indels: 25
0.80 0.10 0.11
Matches are distributed among these distances:
45 2 0.01
46 73 0.40
47 71 0.39
48 28 0.15
49 8 0.04
50 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.27
Consensus pattern (46 bp):
CGATGCCATGTCCCAGACATGTCTTACACTGGCTTCATATCGTAGC
Found at i:29738115 original size:29 final size:29
Alignment explanation
Indices: 29738081--29738166 Score: 78
Period size: 23 Copynumber: 3.2 Consensus size: 29
29738071 TCGTTTTATT
*
29738081 TTACCCTAACCTCTTTAATTCTTTTACAA
1 TTACCCTAACATCTTTAATTCTTTTACAA
* **
29738110 TTACCCTAA-AT-TTT--CT-TTTTA-TT
1 TTACCCTAACATCTTTAATTCTTTTACAA
*
29738133 TTACCCTAACTTCTTTAATTC-TTTACAA
1 TTACCCTAACATCTTTAATTCTTTTACAA
29738161 TTACCC
1 TTACCC
29738167 AAAATTTTCT
Statistics
Matches: 43, Mismatches: 8, Indels: 13
0.67 0.12 0.20
Matches are distributed among these distances:
23 9 0.21
24 6 0.14
25 4 0.09
27 8 0.19
28 7 0.16
29 9 0.21
ACGTcount: A:0.26, C:0.26, G:0.00, T:0.49
Consensus pattern (29 bp):
TTACCCTAACATCTTTAATTCTTTTACAA
Found at i:29738131 original size:52 final size:51
Alignment explanation
Indices: 29738074--29738178 Score: 183
Period size: 52 Copynumber: 2.0 Consensus size: 51
29738064 TATGTCATCG
*
29738074 TTTTATTTTACCCTAACCTCTTTAATTCTTTTACAATTACCCTAAATTTTCT
1 TTTTATTTTACCCTAACCTCTTTAATTC-TTTACAATTACCCAAAATTTTCT
*
29738126 TTTTATTTTACCCTAACTTCTTTAATTCTTTACAATTACCCAAAATTTTCT
1 TTTTATTTTACCCTAACCTCTTTAATTCTTTACAATTACCCAAAATTTTCT
29738177 TT
1 TT
29738179 CTCTCCACTT
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
51 24 0.47
52 27 0.53
ACGTcount: A:0.26, C:0.22, G:0.00, T:0.52
Consensus pattern (51 bp):
TTTTATTTTACCCTAACCTCTTTAATTCTTTACAATTACCCAAAATTTTCT
Found at i:29740102 original size:42 final size:43
Alignment explanation
Indices: 29740002--29740161 Score: 162
Period size: 43 Copynumber: 3.7 Consensus size: 43
29739992 CAATGCTAAC
* * * * * *
29740002 GTCCCAAACGTGGTCTTACATGTAATCAAATATCGATGCCACT
1 GTCCCAGACATGGTCTTACACGAAATCACATATCGATGCCAAT
* * *
29740045 GTCCTAGACAGGGTCTTACACGAAATCACATA-CGAAGCCAAT
1 GTCCCAGACATGGTCTTACACGAAATCACATATCGATGCCAAT
* * *
29740087 GTCCCAGACATGGTCTTACACGTAAATCTCAAATCGATGCCAAC
1 GTCCCAGACATGGTCTTACACG-AAATCACATATCGATGCCAAT
* *
29740131 GTCCCA-AAAGTGGTCTTACACGATATCACAT
1 GTCCCAGACA-TGGTCTTACACGAAATCACAT
29740162 CTCAAAATCA
Statistics
Matches: 95, Mismatches: 19, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
42 28 0.29
43 41 0.43
44 26 0.27
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.24
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACACGAAATCACATATCGATGCCAAT
Found at i:29742693 original size:50 final size:49
Alignment explanation
Indices: 29742517--29742746 Score: 230
Period size: 50 Copynumber: 4.6 Consensus size: 49
29742507 ATTGTGAATA
* * * * *
29742517 CACGTGTATAGTACTAAGTGCAGGCTACTACGTGTACCATACTGTTAAGT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TGTGAGGT
* * * * ** *
29742567 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCA-ATGACTTCGAT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-TCAGATG--TGAGGT
*
29742618 CACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGATGAGGT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATG-TGAGGT
* *
29742668 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGGAT-TGTTGGT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGTG-AGGT
* * *
29742717 CGCATGTGTAGTACTAAGTACAGGCTACTA
1 CACGTGTGTAGTACTAAGTGCAGGCTACTA
29742747 TTCGTATCAA
Statistics
Matches: 151, Mismatches: 24, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
48 2 0.01
49 32 0.21
50 78 0.52
51 39 0.26
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (49 bp):
CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGTGAGGT
Found at i:29750066 original size:50 final size:49
Alignment explanation
Indices: 29749991--29750218 Score: 221
Period size: 50 Copynumber: 4.6 Consensus size: 49
29749981 TGTGAATACA
* * * *
29749991 CATGTATACTACTAAGTGCAAGCTACTACGTGTACCATACTGTTAAGTCG
1 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TGTTAAGTCG
* * *
29750041 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCA-ATG--AATTCG
1 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-CAGATGTTAAGTCG
* * * *
29750088 ATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTGAGGTCA
1 --CA--TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-GTTAAGTCG
* * * *
29750142 CGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGGATTGTT-GGTCG
1 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TGTTAAGTCG
29750191 CATGTGTAGTACTAAGTGCAGGCTACTA
1 CATGTGTAGTACTAAGTGCAGGCTACTA
29750219 TGCGTATCAG
Statistics
Matches: 151, Mismatches: 17, Indels: 21
0.80 0.09 0.11
Matches are distributed among these distances:
47 5 0.03
49 35 0.23
50 71 0.47
51 35 0.23
52 2 0.01
54 3 0.02
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (49 bp):
CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGTTAAGTCG
Found at i:29750348 original size:27 final size:26
Alignment explanation
Indices: 29750318--29750369 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
29750308 GGGAAAATCG
29750318 ATAAAGTGGTAATATGTG-AAAGTTATT
1 ATAAAGTGG--ATATGTGCAAAGTTATT
* *
29750345 ATAAGGTGGATATGTGCAAATTTAT
1 ATAAAGTGGATATGTGCAAAGTTAT
29750370 GTTTTTGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 7 0.32
26 7 0.32
27 8 0.36
ACGTcount: A:0.38, C:0.02, G:0.23, T:0.37
Consensus pattern (26 bp):
ATAAAGTGGATATGTGCAAAGTTATT
Found at i:29758280 original size:42 final size:42
Alignment explanation
Indices: 29758223--29758388 Score: 174
Period size: 42 Copynumber: 3.9 Consensus size: 42
29758213 TAGGGTTATG
*
29758223 TGTGATTTCGTGTAAGACCATATCTGGGATATGGCATCGATA
1 TGTGATTTCGTGTAAGACCATATCTAGGATATGGCATCGATA
* * *
29758265 TGTGATTTCGTGTAAGACCATGTCTAGGACATGGTATCGATA
1 TGTGATTTCGTGTAAGACCATATCTAGGATATGGCATCGATA
* * * * *
29758307 TGGGACATT-GTGTAAGCCCATATCTGGGCTATCGGCATCGATATA
1 TGTGA-TTTCGTGTAAGACCATATCTAGGATAT-GGCATCG--ATA
* *
29758352 TGTGA-TCCTATGTAAGACCATATCTAGGATATGGCAT
1 TGTGATTTC-GTGTAAGACCATATCTAGGATATGGCAT
29758389 TGGCATCTTA
Statistics
Matches: 100, Mismatches: 18, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
42 60 0.60
43 9 0.09
44 5 0.05
45 26 0.26
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (42 bp):
TGTGATTTCGTGTAAGACCATATCTAGGATATGGCATCGATA
Found at i:29759774 original size:49 final size:49
Alignment explanation
Indices: 29759649--29759791 Score: 198
Period size: 49 Copynumber: 2.9 Consensus size: 49
29759639 ACTCATTTTG
* * *
29759649 CCAAATATGCAA-GATCAAATATATCATCACATAAATACTTACCCATATGT
1 CCAAATATACAAGGATC-AATATATCATCACATAAATACTTA-CCTTATGA
* *
29759699 CCAAATATACGAGGTTCAATATATCATCACATAAATACTTACCTTATGA
1 CCAAATATACAAGGATCAATATATCATCACATAAATACTTACCTTATGA
* *
29759748 CCGAATATACAAGGATCAATATATCATCACATAAATACCTACCT
1 CCAAATATACAAGGATCAATATATCATCACATAAATACTTACCT
29759792 ACATAGCCAA
Statistics
Matches: 83, Mismatches: 9, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
49 46 0.55
50 34 0.41
51 3 0.04
ACGTcount: A:0.43, C:0.22, G:0.07, T:0.28
Consensus pattern (49 bp):
CCAAATATACAAGGATCAATATATCATCACATAAATACTTACCTTATGA
Found at i:29759874 original size:49 final size:50
Alignment explanation
Indices: 29759693--29759898 Score: 127
Period size: 49 Copynumber: 4.2 Consensus size: 50
29759683 ATACTTACCC
* * * * ** * *
29759693 ATATGTCCAAATATACGAGGTTCAATA-TATCATCACATAAATACTTACCT
1 ATATGGCCAAAAATACAAGATTCAATAGTA-CATCACATATGTACCTAACT
* * * ** *
29759743 -TATGACCGAATATACAAGGA-TCAATA-TATCATCACATAAATACCTACCT
1 ATATGGCCAAAAATACAA-GATTCAATAGTA-CATCACATATGTACCTAACT
* * * *
29759792 ACATAGCCAAAAATACAAGATTCAATAGTACATCATATATGTACGTAACT
1 ATATGGCCAAAAATACAAGATTCAATAGTACATCACATATGTACCTAACT
* * * * *
29759842 ATGTGGCCAAACATTCAAG-TTCAATA-TAACATCACATTTGTACCTACCT
1 ATATGGCCAAAAATACAAGATTCAATAGT-ACATCACATATGTACCTAACT
29759891 ATATGGCC
1 ATATGGCC
29759899 GATTATACAA
Statistics
Matches: 126, Mismatches: 25, Indels: 11
0.78 0.15 0.07
Matches are distributed among these distances:
48 1 0.01
49 75 0.60
50 48 0.38
51 2 0.02
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (50 bp):
ATATGGCCAAAAATACAAGATTCAATAGTACATCACATATGTACCTAACT
Found at i:29760802 original size:30 final size:31
Alignment explanation
Indices: 29760727--29760811 Score: 129
Period size: 31 Copynumber: 2.8 Consensus size: 31
29760717 TCAATCTCAA
*
29760727 CATAT-ACTAGGCCGAAGCCTTTACATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
* *
29760757 CATGTCACTGGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
29760788 CATATCAC-GGGCCGAAGCCTTTAC
1 CATATCACTGGGCCGAAGCCTTTAC
29760812 TGTAAACGAT
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
30 19 0.39
31 30 0.61
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.31
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTACATTATT
Found at i:29761065 original size:25 final size:25
Alignment explanation
Indices: 29761030--29761099 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
29761020 CTCTTTTAAT
**
29761030 AACTGGGGCAAAGCCCTTTTTGGTA
1 AACTGGGGCAAAGCCCTTTTCAGTA
*
29761055 AACTGGAGCAAAGCCCTTTTCAGTA
1 AACTGGGGCAAAGCCCTTTTCAGTA
* *
29761080 AACTGGGGTAAAGTCCTTTT
1 AACTGGGGCAAAGCCCTTTT
29761100 GCACTTCCTC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCAGTA
Found at i:29761172 original size:20 final size:20
Alignment explanation
Indices: 29761147--29761254 Score: 189
Period size: 20 Copynumber: 5.4 Consensus size: 20
29761137 TATATGAATT
29761147 TATCATGTGCATATCATACA
1 TATCATGTGCATATCATACA
29761167 TATCATGTGCATATCATACA
1 TATCATGTGCATATCATACA
* *
29761187 TATCATATACATATCATACA
1 TATCATGTGCATATCATACA
*
29761207 TATCATGTGCATATCATACG
1 TATCATGTGCATATCATACA
29761227 TATCATGTGCATATCATACA
1 TATCATGTGCATATCATACA
29761247 TATCATGT
1 TATCATGT
29761255 ATATCAAAAT
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 82 1.00
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.36
Consensus pattern (20 bp):
TATCATGTGCATATCATACA
Found at i:29765518 original size:30 final size:31
Alignment explanation
Indices: 29765443--29765525 Score: 116
Period size: 31 Copynumber: 2.7 Consensus size: 31
29765433 TCAATCTCAG
**
29765443 CATAT-ACTGGGCTAAAGCCTTTGCATTATT
1 CATATCACTGGGCCGAAGCCTTTGCATTATT
* *
29765473 CATGTCACTGGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTGCATTATT
29765504 CATATCAC-GGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
29765526 ACTGTAAACG
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
30 18 0.38
31 29 0.62
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTGCATTATT
Found at i:29765779 original size:25 final size:25
Alignment explanation
Indices: 29765746--29765840 Score: 129
Period size: 25 Copynumber: 3.8 Consensus size: 25
29765736 CTCTTTTAAT
* *
29765746 AACTCGGGCAAAGCCCGTTTCGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
29765771 AACTGGGGCAAAGCCCTTTTC-AGTA
1 AACTGGGGCAAAGCCCTTTTCGA-TA
*
29765796 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
29765821 AACTGGAGCAAAGCTCTTTT
1 AACTGGGGCAAAGCCCTTTT
29765841 GCACTTCCTC
Statistics
Matches: 63, Mismatches: 5, Indels: 4
0.88 0.07 0.06
Matches are distributed among these distances:
24 1 0.02
25 62 0.98
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.24
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:29765811 original size:50 final size:50
Alignment explanation
Indices: 29765746--29765840 Score: 145
Period size: 50 Copynumber: 1.9 Consensus size: 50
29765736 CTCTTTTAAT
*
29765746 AACTCGGGCAAAGCCCGTTTCGATAAACTGGGGCAAAGCCCTTTTCAGTA
1 AACTCGGGCAAAGCCCGTTTCGATAAACTGGAGCAAAGCCCTTTTCAGTA
* * * *
29765796 AACTGGGGCAAAGCCCTTTTCGGTAAACTGGAGCAAAGCTCTTTT
1 AACTCGGGCAAAGCCCGTTTCGATAAACTGGAGCAAAGCCCTTTT
29765841 GCACTTCCTC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 40 1.00
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.24
Consensus pattern (50 bp):
AACTCGGGCAAAGCCCGTTTCGATAAACTGGAGCAAAGCCCTTTTCAGTA
Found at i:29765902 original size:11 final size:11
Alignment explanation
Indices: 29765888--29765924 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
29765878 TATATGTATT
29765888 TATCATGTGCA
1 TATCATGTGCA
*
29765899 TATCA--TACA
1 TATCATGTGCA
29765908 TATCATGTGCA
1 TATCATGTGCA
29765919 TATCAT
1 TATCAT
29765925 ACGTAACATG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
9 8 0.36
11 14 0.64
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (11 bp):
TATCATGTGCA
Found at i:29765913 original size:20 final size:20
Alignment explanation
Indices: 29765888--29765944 Score: 87
Period size: 20 Copynumber: 2.9 Consensus size: 20
29765878 TATATGTATT
29765888 TATCATGTGCATATCATACA
1 TATCATGTGCATATCATACA
*
29765908 TATCATGTGCATATCATACG
1 TATCATGTGCATATCATACA
* *
29765928 TAACATGTGCTTATCAT
1 TATCATGTGCATATCAT
29765945 GTCAAATCAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.37
Consensus pattern (20 bp):
TATCATGTGCATATCATACA
Found at i:29768932 original size:40 final size:40
Alignment explanation
Indices: 29768888--29769075 Score: 292
Period size: 40 Copynumber: 4.7 Consensus size: 40
29768878 GCTACTTGCT
29768888 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACA
*
29768928 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACA
*
29768968 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACA
* * *
29769008 CAAATGCCTTCAGG-CTTAGCCCGG-AATTAGTCACT-AGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCA-CA
29769047 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
29769076 CATCCGAATA
Statistics
Matches: 136, Mismatches: 8, Indels: 8
0.89 0.05 0.05
Matches are distributed among these distances:
38 2 0.01
39 32 0.24
40 101 0.74
41 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACA
Found at i:29797680 original size:55 final size:53
Alignment explanation
Indices: 29797592--29797845 Score: 234
Period size: 55 Copynumber: 4.8 Consensus size: 53
29797582 ATTAAGGTTT
* * *
29797592 AAGGATACCATGTAAGAACATGCCAAGGCATGGCAATTGGTAAGGTTTCTCAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGC-ATTGGTAA-GTTTCTAAGGC
* * * * * *
29797647 AAGGAAATCATGTATGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT--TCTAAGGC
* *
29797702 AAAGG-TCCCATGTAAGACCATGCCAAGGA-ATGGCATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAA-GACATGGCATTGGTAAGTTTC-TAAGGC
* *
29797755 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCTAAGGC
* * * * *
29797804 AAGGATACCACGTAAGACCATGACAAGTCATGGTAATGGTAA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAA
29797846 AGTACCCGGG
Statistics
Matches: 166, Mismatches: 25, Indels: 22
0.78 0.12 0.10
Matches are distributed among these distances:
49 38 0.23
52 9 0.05
53 40 0.24
54 11 0.07
55 62 0.37
56 6 0.04
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCTAAGGC
Found at i:29797798 original size:108 final size:110
Alignment explanation
Indices: 29797599--29797799 Score: 291
Period size: 108 Copynumber: 1.8 Consensus size: 110
29797589 TTTAAGGATA
* * * *
29797599 CCATGTAAGAACATGCCAAGGCATGGCAATTGGTAAGGTTTCTCAGGCAAGGAAATCATGTATGA
1 CCATGTAAGAACATGCCAAGGAATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
*
29797664 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* * *
29797709 CCATGTAAGACCATGCCAAGGAATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGAACATGCCAAGGAATGGCAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
*
29797771 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
29797800 TCAAAAGGAT
Statistics
Matches: 81, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
107 3 0.04
108 46 0.57
109 7 0.09
110 25 0.31
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.23
Consensus pattern (110 bp):
CCATGTAAGAACATGCCAAGGAATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:29797941 original size:23 final size:24
Alignment explanation
Indices: 29797915--29797959 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
29797905 AAGGTAAGAT
*
29797915 AAGGTAAGACGAGTT-ATGCTAAA
1 AAGGTAAGACAAGTTCATGCTAAA
29797938 AAGGTAAGACAAGTTCATGCTA
1 AAGGTAAGACAAGTTCATGCTA
29797960 GAAGAGCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.42, C:0.11, G:0.24, T:0.22
Consensus pattern (24 bp):
AAGGTAAGACAAGTTCATGCTAAA
Found at i:29798059 original size:16 final size:16
Alignment explanation
Indices: 29798038--29798068 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
29798028 ATAAATTTGA
29798038 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
29798054 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
29798069 AGTGAAGAAG
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:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:29810028 original size:43 final size:43
Alignment explanation
Indices: 29809973--29810059 Score: 117
Period size: 43 Copynumber: 2.0 Consensus size: 43
29809963 ATATCGTACA
*
29809973 ATGCCAACGTCCCAGAC-GTGGTCTTACAT-GTAACCACATATCG
1 ATGCCAACGTCCCAGACAG-GGTCTTAC-TCGTAAACACATATCG
29810016 ATGCC-ACTGTCCCAGACAGGGTCTTACTCGTAAACACATATCG
1 ATGCCAAC-GTCCCAGACAGGGTCTTACTCGTAAACACATATCG
29810059 A
1 A
29810060 AATCACATAT
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
42 3 0.08
43 36 0.90
44 1 0.03
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.23
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACAGGGTCTTACTCGTAAACACATATCG
Found at i:29816879 original size:42 final size:42
Alignment explanation
Indices: 29816822--29816986 Score: 170
Period size: 42 Copynumber: 3.9 Consensus size: 42
29816812 TAGCGTTATG
* *
29816822 TGTGATTTTGTGTAAGACCATATCTGGGATATGGCATCGATA
1 TGTGATCTCGTGTAAGACCATATCTGGGATATGGCATCGATA
* * * ** *
29816864 TGTGATTTCGTGTAAGACCATGTTTGATACATGGCATCGATA
1 TGTGATCTCGTGTAAGACCATATCTGGGATATGGCATCGATA
* * * *
29816906 TGAGA-CACGTGTAAGACCATAGCTGGGCTATTGGCATCGATATA
1 TGTGATCTCGTGTAAGACCATATCTGGGATA-TGGCATCG--ATA
* *
29816950 TGTGATCCCATGTAAGACCATATCTGGGATATGGCAT
1 TGTGATCTCGTGTAAGACCATATCTGGGATATGGCAT
29816987 TGGCATCTTA
Statistics
Matches: 98, Mismatches: 21, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
41 16 0.16
42 48 0.49
44 13 0.13
45 21 0.21
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (42 bp):
TGTGATCTCGTGTAAGACCATATCTGGGATATGGCATCGATA
Found at i:29816984 original size:86 final size:83
Alignment explanation
Indices: 29816831--29816986 Score: 195
Period size: 86 Copynumber: 1.8 Consensus size: 83
29816821 GTGTGATTTT
* ** * * * *
29816831 GTGTAAGACCATATCTGGGATATGGCATCGATATGTGATTTCGTGTAAGACCATGTTTGATACAT
1 GTGTAAGACCATAGCTGGGATATGGCATCGATATGTGATCCCATGTAAGACCATATCTGAGACAT
29816896 GGCATCGATATGAGACAC
66 GGCATCGATATGAGACAC
* *
29816914 GTGTAAGACCATAGCTGGGCTATTGGCATCGATATATGTGATCCCATGTAAGACCATATCTGGGA
1 GTGTAAGACCATAGCTGGGATA-TGGCATCG--ATATGTGATCCCATGTAAGACCATATCTGAGA
*
29816979 TATGGCAT
63 CATGGCAT
29816987 TGGCATCTTA
Statistics
Matches: 60, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
83 20 0.33
84 8 0.13
86 32 0.53
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (83 bp):
GTGTAAGACCATAGCTGGGATATGGCATCGATATGTGATCCCATGTAAGACCATATCTGAGACAT
GGCATCGATATGAGACAC
Found at i:29817159 original size:16 final size:17
Alignment explanation
Indices: 29817138--29817169 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
29817128 AAGCATTGGC
29817138 TTCATGAT-ATTATGAG
1 TTCATGATCATTATGAG
29817154 TTCATGATCATTATGA
1 TTCATGATCATTATGA
29817170 AAGTGCCTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.31, C:0.09, G:0.16, T:0.44
Consensus pattern (17 bp):
TTCATGATCATTATGAG
Found at i:29826289 original size:47 final size:47
Alignment explanation
Indices: 29826211--29826808 Score: 935
Period size: 47 Copynumber: 12.6 Consensus size: 47
29826201 CCCTTCGGGA
* * ** * * *
29826211 CTTATCACATTTATACACTTTCACATCCATCATGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
29826258 CCTGTCACATATATACACTTTCATATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* **
29826305 CTCATCACATATATACACTTTCACATTCATCACATCGGCTTTTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29826352 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
29826399 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29826448 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29826495 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
29826542 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29826591 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29826638 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
29826687 CTTATCACATATGTATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATA--TATACACTTTCACATTCATCACATCGGCCATTAGGC
*
29826736 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
29826783 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
29826809 CACAATTATC
Statistics
Matches: 513, Mismatches: 30, Indels: 16
0.92 0.05 0.03
Matches are distributed among these distances:
47 330 0.64
49 183 0.36
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:29826449 original size:96 final size:96
Alignment explanation
Indices: 29826211--29826808 Score: 919
Period size: 96 Copynumber: 6.3 Consensus size: 96
29826201 CCCTTCGGGA
* ** * * * * *
29826211 CTTATCACAT-T-TATACACTTTCACATCCATCATGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
29826274 ACTTTCATATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* **
29826305 CTCATCAC--ATATATACACTTTCACATTCATCACATCGGCTTTTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
29826368 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
29826399 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
29826464 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
29826495 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
*
29826558 ACACTTTCACATTCATCACATCGGCTATTAGGC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
29826591 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
29826654 ACACTTTCACATTCATCACATCGGCCATTAGGC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
29826687 CTTATCACATATGTATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
29826752 ACTTTCACATTCATCACATTGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
29826783 CTTATCACATATATATACA--TTCACAT
1 CTTATCACATATATATACACTTTCACAT
29826809 CACAATTATC
Statistics
Matches: 470, Mismatches: 26, Indels: 16
0.92 0.05 0.03
Matches are distributed among these distances:
93 1 0.00
94 138 0.29
96 287 0.61
98 44 0.09
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:29826467 original size:143 final size:143
Alignment explanation
Indices: 29826211--29826808 Score: 966
Period size: 143 Copynumber: 4.2 Consensus size: 143
29826201 CCCTTCGGGA
* * ** * * * * *
29826211 CTTATCACATTTATACACTTTCACATCCATCATGTTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
* *
29826274 ACTTTCATATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
**
29826339 TCGGCTTTTAGGC
131 TCGGCCATTAGGC
29826352 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
* *
29826417 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
29826482 TCGGCCATTAGGC
131 TCGGCCATTAGGC
29826495 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
29826560 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
29826625 TCGGCCATTAGGC
131 TCGGCCATTAGGC
*
29826638 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATGTAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
* *
29826703 ACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCA
64 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
*
29826768 CATTGGCCATTAGGC
129 CATCGGCCATTAGGC
* *
29826783 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
29826809 CACAATTATC
Statistics
Matches: 428, Mismatches: 25, Indels: 6
0.93 0.05 0.01
Matches are distributed among these distances:
141 46 0.11
143 244 0.57
145 138 0.32
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (143 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGC
Found at i:29830479 original size:40 final size:40
Alignment explanation
Indices: 29830422--29830605 Score: 282
Period size: 40 Copynumber: 4.6 Consensus size: 40
29830412 GGATTGATAC
*
29830422 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAA
* * *
29830461 TCTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAA
*
29830502 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTG-CTATCA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGACTATAA
*
29830542 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAA
29830582 CCGGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTT
29830606 AAGCTAGTAG
Statistics
Matches: 131, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
39 1 0.01
40 128 0.98
41 2 0.02
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAA
Found at i:29830619 original size:80 final size:80
Alignment explanation
Indices: 29830422--29830629 Score: 307
Period size: 80 Copynumber: 2.6 Consensus size: 80
29830412 GGATTGATAC
*
29830422 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-AATCTGGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTG-CTATAATCCGGGCTAAGTCCCGAAGGCATTT
*
29830486 GTGCGAGTTACTATAT
65 GTGCGAGTTACTATAA
* *
29830502 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATCA-CCGGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGCTATAATCCGGGCTAAGTCCCGAAGGCATTT
29830566 GTGCGAGTTACTATAA
65 GTGCGAGTTACTATAA
**
29830582 CCGGGCTAAGTCCCGAAGGCATTTAAGCTAGTAGCTAT-ATCC-GGCTAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGT-GCTATAATCCGGGCTAA
29830630 ACTCCGAAGG
Statistics
Matches: 117, Mismatches: 7, Indels: 9
0.88 0.05 0.07
Matches are distributed among these distances:
79 8 0.07
80 106 0.91
81 3 0.03
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGCTATAATCCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGTTACTATAA
Found at i:29830620 original size:40 final size:40
Alignment explanation
Indices: 29830422--29830629 Score: 264
Period size: 40 Copynumber: 5.2 Consensus size: 40
29830412 GGATTGATAC
*
29830422 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGT-GACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAG-CTATAA
* *
29830461 TCTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TAGCTATAA
* *
29830502 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATCA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATAA
29830542 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TAGCTATAA
** * *
29830582 CCGGGCTAAGTCCCGAAGGCATTTAAGCTAGTAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATAA
29830622 CC-GGCTAA
1 CCGGGCTAA
29830630 ACTCCGAAGG
Statistics
Matches: 149, Mismatches: 13, Indels: 13
0.85 0.07 0.07
Matches are distributed among these distances:
39 9 0.06
40 137 0.92
41 3 0.02
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATAA
Found at i:29833526 original size:42 final size:42
Alignment explanation
Indices: 29833373--29833539 Score: 140
Period size: 42 Copynumber: 4.0 Consensus size: 42
29833363 AATCACACCA
* ** * *
29833373 ATGCCATATCCCAGATATGGTCTTACATGGGATCTCATATCA
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATAACG
* * * * * **
29833415 ATGCCAATAGCCCTGCTATGGTCTTACACG-ATTCTTATATTG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAATCTCATAACG
* * * *
29833457 ATGCCATGTCCCAAACATGGTCCTACACGAAATCTCATAACG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATAACG
* *
29833499 ATGTCATATCCCAGATATAGTCTTACACGTAAA-CTCATAAC
1 ATGCCATATCCCAGATATGGTCTTACACG-AAATCTCATAAC
29833540 CCTAATGTCA
Statistics
Matches: 96, Mismatches: 26, Indels: 6
0.75 0.20 0.05
Matches are distributed among these distances:
41 17 0.18
42 56 0.58
43 23 0.24
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATAACG
Found at i:29835621 original size:5 final size:5
Alignment explanation
Indices: 29835608--29835648 Score: 55
Period size: 5 Copynumber: 7.8 Consensus size: 5
29835598 ACTCTATTCT
*
29835608 AAAGAA AAAGA AAAGA AATAGA AAGGA AAAGA AAAGA AAAG
1 AAAG-A AAAGA AAAGA AA-AGA AAAGA AAAGA AAAGA AAAG
29835649 CATAAAACTA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
5 23 0.72
6 9 0.28
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (5 bp):
AAAGA
Found at i:29835624 original size:11 final size:11
Alignment explanation
Indices: 29835608--29835647 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
29835598 ACTCTATTCT
29835608 AAAGAAAAAGA
1 AAAGAAAAAGA
*
29835619 AAAGAAATAG-
1 AAAGAAAAAGA
*
29835629 AAAGGAAAAGA
1 AAAGAAAAAGA
29835640 AAAGAAAA
1 AAAGAAAA
29835648 GCATAAAACT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
10 8 0.33
11 16 0.67
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.03
Consensus pattern (11 bp):
AAAGAAAAAGA
Found at i:29837737 original size:25 final size:25
Alignment explanation
Indices: 29837709--29837790 Score: 67
Period size: 25 Copynumber: 3.2 Consensus size: 25
29837699 TAATATGAAG
29837709 TATAACTATGTTAAATTTAATTGAC
1 TATAACTATGTTAAATTTAATTGAC
* ** ** *
29837734 TATATAATA-AATACAATATATAAAAGGC
1 TATA-ACTATGTTA-AAT-T-TAATTGAC
29837762 TATAACTATGTTAAATTTAATTGAC
1 TATAACTATGTTAAATTTAATTGAC
29837787 TATA
1 TATA
29837791 TAATAAATAC
Statistics
Matches: 40, Mismatches: 12, Indels: 10
0.65 0.19 0.16
Matches are distributed among these distances:
25 15 0.38
26 7 0.17
27 7 0.17
28 11 0.28
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.39
Consensus pattern (25 bp):
TATAACTATGTTAAATTTAATTGAC
Found at i:29837739 original size:27 final size:27
Alignment explanation
Indices: 29837709--29837793 Score: 70
Period size: 27 Copynumber: 3.2 Consensus size: 27
29837699 TAATATGAAG
29837709 TATAACTATGTTAAATTTAATTGACTA
1 TATAACTATGTTAAATTTAATTGACTA
** ** *
29837736 TATAA-TA-AATACAATATATAAAAGGC--
1 TATAACTATGTTA-AAT-T-TAATTGACTA
29837762 TATAACTATGTTAAATTTAATTGACTA
1 TATAACTATGTTAAATTTAATTGACTA
29837789 TATAA
1 TATAA
29837794 TAAATACAAT
Statistics
Matches: 41, Mismatches: 10, Indels: 14
0.63 0.15 0.22
Matches are distributed among these distances:
25 7 0.17
26 11 0.27
27 16 0.39
28 7 0.17
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.39
Consensus pattern (27 bp):
TATAACTATGTTAAATTTAATTGACTA
Found at i:29837766 original size:53 final size:53
Alignment explanation
Indices: 29837709--29837810 Score: 204
Period size: 53 Copynumber: 1.9 Consensus size: 53
29837699 TAATATGAAG
29837709 TATAACTATGTTAAATTTAATTGACTATATAATAAATACAATATATAAAAGGC
1 TATAACTATGTTAAATTTAATTGACTATATAATAAATACAATATATAAAAGGC
29837762 TATAACTATGTTAAATTTAATTGACTATATAATAAATACAATATATAAA
1 TATAACTATGTTAAATTTAATTGACTATATAATAAATACAATATATAAA
29837811 TGGTTTAATT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 49 1.00
ACGTcount: A:0.50, C:0.07, G:0.06, T:0.37
Consensus pattern (53 bp):
TATAACTATGTTAAATTTAATTGACTATATAATAAATACAATATATAAAAGGC
Found at i:29837989 original size:30 final size:30
Alignment explanation
Indices: 29837948--29838009 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
29837938 ATTTAAAAGA
*
29837948 AAACTCATATATGGCACTTCAACCTTTAGT
1 AAACTCATATATGGCACCTCAACCTTTAGT
*
29837978 AAACTCGTATATGGCACCTCAACCTTTAGT
1 AAACTCATATATGGCACCTCAACCTTTAGT
29838008 AA
1 AA
29838010 CAAGGCCTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (30 bp):
AAACTCATATATGGCACCTCAACCTTTAGT
Found at i:29841318 original size:26 final size:26
Alignment explanation
Indices: 29841279--29841386 Score: 162
Period size: 26 Copynumber: 4.2 Consensus size: 26
29841269 TGGTACAAAT
29841279 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * * *
29841305 TAATAATGGATTAGGTAAATATCCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
29841331 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
29841357 TGATAATGGTTTACGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
29841383 TGAT
1 TGAT
29841387 GGACATTTCA
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 72 1.00
ACGTcount: A:0.33, C:0.09, G:0.22, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:29842906 original size:26 final size:26
Alignment explanation
Indices: 29842877--29842929 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
29842867 TTTACAGTTT
29842877 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
29842903 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
29842929 T
1 T
29842930 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:29845103 original size:40 final size:40
Alignment explanation
Indices: 29845029--29845274 Score: 345
Period size: 40 Copynumber: 6.2 Consensus size: 40
29845019 AACCCAAGTA
* * *
29845029 CCTTCGGGATTTAG-CCAGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
29845068 CCTTTGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
29845108 CCTTCGAGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
29845148 CCTTCGAGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* * *
29845188 CCTTC-GGATCTTAGTCCGGTTATAGTAACTAGCACAAATG
1 CCTTCGGGA-CTTAGCCCGGATATAGTCACTAGCACAAATG
* *
29845228 CCTTTGGGACTTAGCCCGGATATAGTCATTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
29845268 CCTTCGG
1 CCTTCGG
29845275 ATCTTAGTCC
Statistics
Matches: 185, Mismatches: 18, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 14 0.08
40 167 0.90
41 4 0.02
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:29845287 original size:80 final size:80
Alignment explanation
Indices: 29845048--29845290 Score: 407
Period size: 80 Copynumber: 3.0 Consensus size: 80
29845038 TTTAGCCAGA
* *
29845048 TATAGCAACTCGCACAAATGCCTTTGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTC
1 TATAGTAACTAGCACAAATGCCTTTGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTC
* *
29845113 GAGA-CTTAGCCCGGA
66 G-GATCTTAGTCCGGT
* *
29845128 TATAGTAACTAGCACAAATGCCTTCGAGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTC
1 TATAGTAACTAGCACAAATGCCTTTGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTC
29845193 GGATCTTAGTCCGGT
66 GGATCTTAGTCCGGT
*
29845208 TATAGTAACTAGCACAAATGCCTTTGGGACTTAGCCCGGATATAGTCATTAGCACAAATGCCTTC
1 TATAGTAACTAGCACAAATGCCTTTGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTC
29845273 GGATCTTAGTCCGGT
66 GGATCTTAGTCCGGT
29845288 TAT
1 TAT
29845291 CATTCGAATA
Statistics
Matches: 153, Mismatches: 9, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
79 2 0.01
80 151 0.99
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (80 bp):
TATAGTAACTAGCACAAATGCCTTTGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTC
GGATCTTAGTCCGGT
Found at i:29845837 original size:13 final size:13
Alignment explanation
Indices: 29845821--29845848 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
29845811 TTTATTATTT
29845821 TTAACACAAAATA
1 TTAACACAAAATA
29845834 TTAACACAAAATA
1 TTAACACAAAATA
29845847 TT
1 TT
29845849 TATAATATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (13 bp):
TTAACACAAAATA
Found at i:29852516 original size:80 final size:80
Alignment explanation
Indices: 29852380--29852663 Score: 430
Period size: 80 Copynumber: 3.5 Consensus size: 80
29852370 CGGGATTTAA
* * *
29852380 CCGGATATAG-CAACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGATATAATCACTAGCACAAA
1 CCGGATATAGTC-ACTAGCACAAATGCCTTC-GGATCTTAGCCCGGATATAGTAACTAGCACAAA
29852443 TGCCTTTGGGACTTAGC
64 TGCCTTTGGGACTTAGC
*
29852460 CCGGATATAGTCACTAGCACAAATGCCTTCGAGA-CTTAGCCCAGATATAGTAACTAGCACAAAT
1 CCGGATATAGTCACTAGCACAAATGCCTTCG-GATCTTAGCCCGGATATAGTAACTAGCACAAAT
* *
29852524 GCCTTCGAGACTTAGC
65 GCCTTTGGGACTTAGC
* *
29852540 CCGGATATAGTCACTAGCACAAATGCCTTCGGATCTTAGTCCGGTTATAGTAACTAGCACAAATG
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGATCTTAGCCCGGATATAGTAACTAGCACAAATG
29852605 CCTTTGGGACTTAGC
66 CCTTTGGGACTTAGC
* *
29852620 CCGGATATAGTCATTAGCACAAATGCCTTCGGATCTTAGTCCGG
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGATCTTAGCCCGG
29852664 TTATCATTCG
Statistics
Matches: 189, Mismatches: 12, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
79 3 0.02
80 185 0.98
81 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.25
Consensus pattern (80 bp):
CCGGATATAGTCACTAGCACAAATGCCTTCGGATCTTAGCCCGGATATAGTAACTAGCACAAATG
CCTTTGGGACTTAGC
Found at i:29852658 original size:40 final size:39
Alignment explanation
Indices: 29852380--29852663 Score: 390
Period size: 40 Copynumber: 7.1 Consensus size: 39
29852370 CGGGATTTAA
*
29852380 CCGGATATAG-CAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTC-ACTAGCACAAATGCCTTC-GGACTTAGC
* *
29852420 CCGGATATAATCACTAGCACAAATGCCTTTGGGACTTAGC
1 CCGGATATAGTCACTAGCACAAATGCC-TTCGGACTTAGC
29852460 CCGGATATAGTCACTAGCACAAATGCCTTCGAGACTTAGC
1 CCGGATATAGTCACTAGCACAAATGCCTTCG-GACTTAGC
* *
29852500 CCAGATATAGTAACTAGCACAAATGCCTTCGAGACTTAGC
1 CCGGATATAGTCACTAGCACAAATGCCTTCG-GACTTAGC
*
29852540 CCGGATATAGTCACTAGCACAAATGCCTTCGGATCTTAGT
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGA-CTTAGC
* * *
29852580 CCGGTTATAGTAACTAGCACAAATGCCTTTGGGACTTAGC
1 CCGGATATAGTCACTAGCACAAATGCC-TTCGGACTTAGC
* *
29852620 CCGGATATAGTCATTAGCACAAATGCCTTCGGATCTTAGT
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGA-CTTAGC
29852660 CCGG
1 CCGG
29852664 TTATCATTCG
Statistics
Matches: 219, Mismatches: 19, Indels: 12
0.88 0.08 0.05
Matches are distributed among these distances:
39 10 0.05
40 201 0.92
41 8 0.04
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.25
Consensus pattern (39 bp):
CCGGATATAGTCACTAGCACAAATGCCTTCGGACTTAGC
Found at i:29853213 original size:13 final size:13
Alignment explanation
Indices: 29853197--29853224 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
29853187 TTTATTATTT
29853197 TTAACACAAAATA
1 TTAACACAAAATA
29853210 TTAACACAAAATA
1 TTAACACAAAATA
29853223 TT
1 TT
29853225 TATAATATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (13 bp):
TTAACACAAAATA
Found at i:29856309 original size:41 final size:41
Alignment explanation
Indices: 29856181--29856414 Score: 384
Period size: 41 Copynumber: 5.8 Consensus size: 41
29856171 GGATATAGCT
* * * *
29856181 ACTCGCTC-AATGCCTTCGGGACATAGCCCGG-ATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATGTAATA
*
29856220 ACTCACACAAATGCCTTCGGGACTTAGCCCGG-ATGTAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATGTAATA
29856260 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATGTAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATGTAATA
*
29856301 ACTCGCACAAATGCCTCCGGGACTTAGCCCGGAATGTAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATGTAATA
*
29856342 ACTCGCACAAATGCCTCCGGGACTTAGCCCGGAATGTAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATGTAATA
29856383 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
29856415 TTATCATCCA
Statistics
Matches: 185, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
39 6 0.03
40 59 0.32
41 120 0.65
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (41 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATGTAATA
Found at i:29859016 original size:27 final size:27
Alignment explanation
Indices: 29858986--29859048 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
29858976 TGCCAGAAAT
* *
29858986 AGTAAATGTGGCAAAGCCACCTGTATC
1 AGTAAATGTGGCAAAGCCACCAGTAAC
* * *
29859013 AGTAATTGAGGCATAGCCACCAGTAAC
1 AGTAAATGTGGCAAAGCCACCAGTAAC
*
29859040 AGTGAATGT
1 AGTAAATGT
29859049 CATATAGTCA
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.22
Consensus pattern (27 bp):
AGTAAATGTGGCAAAGCCACCAGTAAC
Found at i:29859235 original size:27 final size:27
Alignment explanation
Indices: 29859205--29859295 Score: 119
Period size: 27 Copynumber: 3.4 Consensus size: 27
29859195 GGGCATAATT
29859205 GTCATTTTACCATACAGGGGTATTACA
1 GTCATTTTACCATACAGGGGTATTACA
* *
29859232 GTCATTTTACCCTACAGGGGCATTACA
1 GTCATTTTACCATACAGGGGTATTACA
* * * **
29859259 GTCAATTTACCTTATAGGGGTATTATG
1 GTCATTTTACCATACAGGGGTATTACA
29859286 GTCATTTTAC
1 GTCATTTTAC
29859296 TTTTTTGGGG
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACA
Found at i:29863364 original size:27 final size:28
Alignment explanation
Indices: 29863334--29863398 Score: 87
Period size: 28 Copynumber: 2.4 Consensus size: 28
29863324 GGGCATAATC
*
29863334 GTCATTTTACCATAC-AGGGGTACTACG
1 GTCATTTTACCATACAAGGGGCACTACG
* *
29863361 GTCATTTTACCCTACAAGGGGCATTACG
1 GTCATTTTACCATACAAGGGGCACTACG
*
29863389 GTTATTTTAC
1 GTCATTTTAC
29863399 TTATTTTGGG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
27 14 0.42
28 19 0.58
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.34
Consensus pattern (28 bp):
GTCATTTTACCATACAAGGGGCACTACG
Found at i:29866630 original size:18 final size:18
Alignment explanation
Indices: 29866599--29866649 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
29866589 TTATCGTTGT
* *
29866599 AATGCTTAATTTGTGAAA
1 AATGCTAAAGTTGTGAAA
*
29866617 AATGACTAAA-TTGTGTAA
1 AATG-CTAAAGTTGTGAAA
*
29866635 AGTGCTAAAGTTGTG
1 AATGCTAAAGTTGTG
29866650 TTCTATTAGC
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
17 5 0.18
18 19 0.68
19 4 0.14
ACGTcount: A:0.37, C:0.06, G:0.22, T:0.35
Consensus pattern (18 bp):
AATGCTAAAGTTGTGAAA
Found at i:29876198 original size:46 final size:45
Alignment explanation
Indices: 29876146--29876312 Score: 128
Period size: 46 Copynumber: 3.6 Consensus size: 45
29876136 TGTGTGAACT
29876146 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTA-GAGAGCC
* * *
29876192 AGTGTAAGACCATGT-TGGGGCATGGCATC-G--GCATTGAGATGAGTTCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCACATT-AGA-GAG--CC
* * * ***
29876239 AATGTAAGACATGTCTAGGACATGCATCAGCCTCGGGACGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTA-G-AGAGCC
*
29876285 AGTATAAGACATGTCTGGGACATGCATC
1 AGTGTAAGACATGTCTGGGACATGCATC
29876313 GGCTACGAGA
Statistics
Matches: 95, Mismatches: 14, Indels: 24
0.71 0.11 0.18
Matches are distributed among these distances:
44 6 0.06
45 4 0.04
46 53 0.56
47 26 0.27
48 3 0.03
49 2 0.02
50 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTAGAGAGCC
Found at i:29881493 original size:43 final size:41
Alignment explanation
Indices: 29881432--29881600 Score: 153
Period size: 43 Copynumber: 4.0 Consensus size: 41
29881422 TAGGATTTCT
*
29881432 GATATGTGATCTCGTGTAACACTACATCTGGGACATTGGCATC
1 GATATGTGAT-TCGTGTAAGAC-ACATCTGGGACATTGGCATC
*
29881475 GATATGTGATTACGTGTAAGAC-CAGGTCTGGGGCATTGGCATC
1 GATATGTGATT-CGTGTAAGACACA--TCTGGGACATTGGCATC
* * * * *
29881518 G-TATTTGGTTCGTGTAAGACCCTATCTGGGACAGTGGCATT
1 GATATGTGATTCGTGTAAGACAC-ATCTGGGACATTGGCATC
* * * *
29881559 GATATGTGATTACATGTAAGAACACGTCTGAGACGTTGGCAT
1 GATATGTGATT-CGTGTAAG-ACACATCTGGGACATTGGCAT
29881601 TGTACGATAT
Statistics
Matches: 103, Mismatches: 15, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
41 27 0.26
42 16 0.16
43 57 0.55
44 3 0.03
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (41 bp):
GATATGTGATTCGTGTAAGACACATCTGGGACATTGGCATC
Found at i:29881546 original size:41 final size:43
Alignment explanation
Indices: 29881432--29881579 Score: 158
Period size: 43 Copynumber: 3.5 Consensus size: 43
29881422 TAGGATTTCT
* * *
29881432 GATATGTGATCT-CGTGTAACACTACATCTGGGACATTGGCATC
1 GATATGTGAT-TACGTGTAAGACCAGATCTGGGACATTGGCATC
* *
29881475 GATATGTGATTACGTGTAAGACCAGGTCTGGGGCATTGGCATC
1 GATATGTGATTACGTGTAAGACCAGATCTGGGACATTGGCATC
* * ** * *
29881518 G-TATTTGGTT-CGTGTAAGACCCTATCTGGGACAGTGGCATT
1 GATATGTGATTACGTGTAAGACCAGATCTGGGACATTGGCATC
*
29881559 GATATGTGATTACATGTAAGA
1 GATATGTGATTACGTGTAAGA
29881580 ACACGTCTGA
Statistics
Matches: 86, Mismatches: 16, Indels: 6
0.80 0.15 0.06
Matches are distributed among these distances:
41 26 0.30
42 15 0.17
43 45 0.52
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (43 bp):
GATATGTGATTACGTGTAAGACCAGATCTGGGACATTGGCATC
Found at i:29888586 original size:417 final size:416
Alignment explanation
Indices: 29887767--29888598 Score: 1502
Period size: 417 Copynumber: 2.0 Consensus size: 416
29887757 ATAAATATAG
29887767 TTTACCAAAATCTTTATTATAATCAATGTAATTATAATTTTCGGTAAAACATTATTATATTTATT
1 TTTACCAAAATCTTTATTATAATCAATGTAATTATAATTTTCGGTAAAACATTATTATATTTATT
* *
29887832 TATTTTAATTATGATTATTATGTTCGGATTAAAATTTAATAAATTAAGAATTTGTTATATACATA
66 TATTTTAATTATGATTATTATGTTCAGATTAAAATTTAATAAATTAAGAATTCGTTATATACATA
*
29887897 CCAACTATAAGGGCAGTTATATATGGAAAGGGAGGAAAACCCTAAAAAGGGAATATATATACAAA
131 CCAACTATAAGGGCAGTTATATATAGAAAGGGAGGAAAACCCTAAAAAGGGAATATATATACAAA
*
29887962 CCCGAAGCTTTCCTACTAGGTCTGGCAGCCGTCAGGAAAAATATCTCTGAAAATAGTTTTGGGGA
196 CCCGAAGCTTTCCTACTAGGTCTGGCAGCCGTCAAGAAAAATATCTCTGAAAATAGTTTTGGGGA
*
29888027 TTTCTTTCGTTCATTGTCAACTAGATGGATTACGAAGAGGTTGGGATCATAAAGATTGCGGCTTG
261 TTTCTTTCGTTCATTGTCAACTAGATGGATTACGAAGAGGTCGGGATCATAAAGATTGCGGCTTG
29888092 GATTCGAAAGCAAAACAGTATTCTCATTGCCGAGGCTTCATTGTCTATTCAGATTGAAGTTTGGG
326 GATTCGAAAGCAAAACAGTATTCTCATTGCCGAGGCTTCATTGTCTATTCAGATTGAAGTTTGGG
29888157 TAATTCTGAAACCTTTTTCACCCCAT
391 TAATTCTGAAACCTTTTTCACCCCAT
*
29888183 TTTACCAAAATCTTTATTATAATTAATGTAATTATAATTTTCGGTTAAAACATTATTATATTTAT
1 TTTACCAAAATCTTTATTATAATCAATGTAATTATAATTTTCGG-TAAAACATTATTATATTTAT
29888248 TTATTTTAATTATGATTATTATGTTCAGATTAAAATTTAATAAATTAAGAATTCGTTATATACAT
65 TTATTTTAATTATGATTATTATGTTCAGATTAAAATTTAATAAATTAAGAATTCGTTATATACAT
29888313 ACCAACTATAAGGGCAGTTATATATAGAAAGGGAGGAAAACCCTAAAAAGGGAATATATATACAA
130 ACCAACTATAAGGGCAGTTATATATAGAAAGGGAGGAAAACCCTAAAAAGGGAATATATATACAA
* * * *
29888378 ACCCGAAGCTTTGCTACTAGGTCTGGTAGCTGTCAAGCAAAATATCTCTGAAAATAGTTTTGGGG
195 ACCCGAAGCTTTCCTACTAGGTCTGGCAGCCGTCAAGAAAAATATCTCTGAAAATAGTTTTGGGG
* * * *
29888443 ATTTCTTTCGTTCATTGTCAACTGGGTGGATTACGTAGAGGTCGGGATCATAAATATTGCGGCTT
260 ATTTCTTTCGTTCATTGTCAACTAGATGGATTACGAAGAGGTCGGGATCATAAAGATTGCGGCTT
* *
29888508 GGATTTGAAAGCAAAATAGTATTCTCATTGCCGAGGCTTCATTGTCTATTCAGATTGAAGTTTGG
325 GGATTCGAAAGCAAAACAGTATTCTCATTGCCGAGGCTTCATTGTCTATTCAGATTGAAGTTTGG
*
29888573 GTAATTTTGAAACCTTTTTCACCCCA
390 GTAATTCTGAAACCTTTTTCACCCCA
29888599 GTTCGTTCCT
Statistics
Matches: 398, Mismatches: 17, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
416 43 0.11
417 355 0.89
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.36
Consensus pattern (416 bp):
TTTACCAAAATCTTTATTATAATCAATGTAATTATAATTTTCGGTAAAACATTATTATATTTATT
TATTTTAATTATGATTATTATGTTCAGATTAAAATTTAATAAATTAAGAATTCGTTATATACATA
CCAACTATAAGGGCAGTTATATATAGAAAGGGAGGAAAACCCTAAAAAGGGAATATATATACAAA
CCCGAAGCTTTCCTACTAGGTCTGGCAGCCGTCAAGAAAAATATCTCTGAAAATAGTTTTGGGGA
TTTCTTTCGTTCATTGTCAACTAGATGGATTACGAAGAGGTCGGGATCATAAAGATTGCGGCTTG
GATTCGAAAGCAAAACAGTATTCTCATTGCCGAGGCTTCATTGTCTATTCAGATTGAAGTTTGGG
TAATTCTGAAACCTTTTTCACCCCAT
Found at i:29899668 original size:55 final size:55
Alignment explanation
Indices: 29899603--29899754 Score: 259
Period size: 55 Copynumber: 2.8 Consensus size: 55
29899593 TAAATTGTGC
*
29899603 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* *
29899658 AGCACTAAGTGTGCGAGTTGGCTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* *
29899713 AGCACTAAGTGTGCGAGTTGATTATATAGCACTAAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
29899755 GACTTAATAT
Statistics
Matches: 91, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 91 1.00
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:29899767 original size:27 final size:27
Alignment explanation
Indices: 29899603--29899754 Score: 241
Period size: 27 Copynumber: 5.6 Consensus size: 27
29899593 TAAATTGTGC
*
29899603 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
29899630 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
*
29899658 AGCACTAAGTGTGCGAGTTGGCTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
29899685 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
* *
29899713 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
29899740 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
29899755 GACTTAATAT
Statistics
Matches: 118, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
27 66 0.56
28 52 0.44
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:29907656 original size:28 final size:27
Alignment explanation
Indices: 29907599--29907750 Score: 241
Period size: 27 Copynumber: 5.6 Consensus size: 27
29907589 TAAATTGTGC
*
29907599 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
29907626 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
29907654 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
29907681 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
* *
29907709 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
29907736 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
29907751 GACTTAATAT
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 66 0.55
28 53 0.45
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:29907664 original size:55 final size:55
Alignment explanation
Indices: 29907599--29907750 Score: 259
Period size: 55 Copynumber: 2.8 Consensus size: 55
29907589 TAAATTGTGC
*
29907599 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
*
29907654 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* * *
29907709 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
29907751 GACTTAATAT
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 92 1.00
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:29927772 original size:28 final size:27
Alignment explanation
Indices: 29927715--29927866 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
29927705 TAAATTGTGC
*
29927715 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
29927742 AGCACTAAGTGTGCGAGTTTGACTATAT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
29927770 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
29927797 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
* *
29927825 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
29927852 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
29927867 GACTTAATAT
Statistics
Matches: 117, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
27 65 0.56
28 52 0.44
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:29927780 original size:55 final size:55
Alignment explanation
Indices: 29927715--29927866 Score: 250
Period size: 55 Copynumber: 2.8 Consensus size: 55
29927705 TAAATTGTGC
*
29927715 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATAT
* *
29927770 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATAT
* * *
29927825 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
29927867 GACTTAATAT
Statistics
Matches: 91, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 91 1.00
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATAT
Found at i:29934588 original size:79 final size:80
Alignment explanation
Indices: 29934490--29934672 Score: 230
Period size: 79 Copynumber: 2.3 Consensus size: 80
29934480 TACTCGTTCA
* *
29934490 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGAGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCG-GATCTTAACCCGG
* *
29934553 ATTTAGTAAC-TCGCACC
64 ATATAGTAACTTAGCA-C
**
29934570 AATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
* *
29934634 ATGGTCACTTAGCAC
66 ATAGTAACTTAGCAC
*
29934649 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
29934673 CATCATTCGA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 2 0.02
79 60 0.67
80 28 0.31
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:29934672 original size:40 final size:40
Alignment explanation
Indices: 29934488--29934672 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
29934478 GCTACTCGTT
* *
29934488 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
29934528 CAAATGCCTTCGAGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
29934568 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
29934607 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
29934648 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
29934673 CATCATTCGA
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 78 0.63
41 12 0.10
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:29939812 original size:41 final size:42
Alignment explanation
Indices: 29939765--29939882 Score: 132
Period size: 43 Copynumber: 2.8 Consensus size: 42
29939755 TATGTGGTCT
* * *
29939765 CATGTAAGACCACATCTGGGACATTGGCATTGTATTTGATT-
1 CATGTAAGACCACGTCTGGGATATTGGCATTGTATGTGATTG
* * * *
29939806 CGTGTAAGACC-CTGTCTAGGATAGTGGCATCGATATGTGATTG
1 CATGTAAGACCAC-GTCTGGGATATTGGCATTG-TATGTGATTG
*
29939849 CATGTAAGACCACGTCTGGGATGTTGGCATTGTA
1 CATGTAAGACCACGTCTGGGATATTGGCATTGTA
29939883 CGTTATGCGT
Statistics
Matches: 61, Mismatches: 12, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
40 1 0.02
41 24 0.39
42 10 0.16
43 25 0.41
44 1 0.02
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (42 bp):
CATGTAAGACCACGTCTGGGATATTGGCATTGTATGTGATTG
Found at i:29939877 original size:43 final size:41
Alignment explanation
Indices: 29939755--29939878 Score: 117
Period size: 41 Copynumber: 3.0 Consensus size: 41
29939745 GGATTTTTGA
* * ** *
29939755 TATGTGGTCTCATGTAAGACCACATCTGGGACATTGGCATTG
1 TATGTGAT-TCATGTAAGACCACGTCTGGGATGTTGGCATCG
* * *
29939797 TATTTGATTCGTGTAAGACC-CTGTCTAGGATAG-TGGCATCG
1 TATGTGATTCATGTAAGACCAC-GTCTGGGAT-GTTGGCATCG
29939838 ATATGTGATTGCATGTAAGACCACGTCTGGGATGTTGGCAT
1 -TATGTGATT-CATGTAAGACCACGTCTGGGATGTTGGCAT
29939879 TGTACGTTAT
Statistics
Matches: 65, Mismatches: 11, Indels: 11
0.75 0.13 0.13
Matches are distributed among these distances:
40 1 0.02
41 24 0.37
42 15 0.23
43 24 0.37
44 1 0.02
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.32
Consensus pattern (41 bp):
TATGTGATTCATGTAAGACCACGTCTGGGATGTTGGCATCG
Found at i:29970721 original size:46 final size:46
Alignment explanation
Indices: 29970671--29970799 Score: 213
Period size: 46 Copynumber: 2.8 Consensus size: 46
29970661 TGGTTGAGCA
*
29970671 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
*
29970717 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
29970763 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
29970800 GCGGGTTACA
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 77 1.00
ACGTcount: A:0.19, C:0.21, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:29973171 original size:27 final size:27
Alignment explanation
Indices: 29973140--29973479 Score: 301
Period size: 27 Copynumber: 12.6 Consensus size: 27
29973130 TTAGTTTACC
** * *
29973140 AAATTACTGAAATACCCTCAAATTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
29973167 AAATTACCAAAGTACCCTCGATTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
* *** *
29973194 GAATTACCATTTTACCCTCGATTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
* ***** **
29973221 GAATTACTGTTTTACCCTCGATTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
* **
29973248 AAATTACTAAAATACCCTCGATTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
**
29973275 AAATTACCAAAATACCCTCGATCAGTA
1 AAATTACCAAAATACCCTCGATTTGTA
*
29973302 AAATTACCAAAATACCCTAG-TTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * * *
29973328 AAATTGCTAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
*
29973355 AAATTA-CAGAAATACCCTCAATTTGTA
1 AAATTACCA-AAATACCCTCGATTTGTA
*
29973382 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
* * *
29973409 AAATTACCAAAATGCCACT-GGTTTGTG
1 AAATTACCAAAATACC-CTCGATTTGTA
* *
29973436 AAATTACCGAAATACCCTCAATTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
29973463 AAATTACCAAAATACCC
1 AAATTACCAAAATACCC
29973480 CTGATTTACA
Statistics
Matches: 261, Mismatches: 45, Indels: 14
0.82 0.14 0.04
Matches are distributed among these distances:
26 26 0.10
27 232 0.89
28 3 0.01
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:29973318 original size:81 final size:79
Alignment explanation
Indices: 29973233--29973507 Score: 286
Period size: 81 Copynumber: 3.4 Consensus size: 79
29973223 ATTACTGTTT
* ** * *
29973233 TACCCTCGATTTACAAAATTACTAAAATACCCTCGATTTACAAAATTACCAAAATACCCTCGATC
1 TACCC-CGATTTACAAAATTACTAAAATACCCT-GGTTTGTAAAATTACCAAAATACCCTCAATT
*
29973298 AGTAAAATTACCAAAA
64 TGTAAAATTACCAAAA
* ** *
29973314 TA-CCCTAGTTTGTAAAATTGCTAAAATACCCTTGGTTTGTAAAATTA-CAGAAATACCCTCAAT
1 TACCCCGA-TTTACAAAATTACTAAAATACCC-TGGTTTGTAAAATTACCA-AAATACCCTCAAT
29973377 TTGTAAAATTACCAAAA
63 TTGTAAAATTACCAAAA
* ** * * * *
29973394 TACCCCTAGTTTGTAAAATTACCAAAATGCCACTGGTTTGTGAAATTACCGAAATACCCTCAATT
1 TACCCCGA-TTTACAAAATTACTAAAATACC-CTGGTTTGTAAAATTACCAAAATACCCTCAATT
29973459 TGTAAAATTACCAAAA
64 TGTAAAATTACCAAAA
*
29973475 TACCCCTGATTTACAAAGTTAC-AGAAATACCCT
1 TACCCC-GATTTACAAAATTACTA-AAATACCCT
29973508 TGACTTTCTA
Statistics
Matches: 166, Mismatches: 20, Indels: 17
0.82 0.10 0.08
Matches are distributed among these distances:
79 4 0.02
80 65 0.39
81 94 0.57
82 3 0.02
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.29
Consensus pattern (79 bp):
TACCCCGATTTACAAAATTACTAAAATACCCTGGTTTGTAAAATTACCAAAATACCCTCAATTTG
TAAAATTACCAAAA
Found at i:29973557 original size:27 final size:27
Alignment explanation
Indices: 29973518--29973569 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
29973508 TGACTTTCTA
29973518 AAAATTATGGAAATACCATTGGTTTAC
1 AAAATTATGGAAATACCATTGGTTTAC
*
29973545 AAAATTACT-GAAATACCTTTGGTTT
1 AAAATTA-TGGAAATACCATTGGTTT
29973570 GTAGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.37
Consensus pattern (27 bp):
AAAATTATGGAAATACCATTGGTTTAC
Found at i:29973661 original size:27 final size:26
Alignment explanation
Indices: 29973586--29973687 Score: 80
Period size: 27 Copynumber: 3.8 Consensus size: 26
29973576 TTACCAAAAC
* * * *
29973586 ACCCTTATAGGATGAAATGACTAAAAT
1 ACCCCTATAGG-TAAAATGACCATAAT
*
29973613 ACCCCTATTAGGTAAAAAGACCATAA-
1 ACCCCTA-TAGGTAAAATGACCATAAT
* *
29973639 AGCCCCTATAGGGTAAAGTGACCGTAAT
1 A-CCCCTATA-GGTAAAATGACCATAAT
*
29973667 ACCCCTGTATGGTAAAATGAC
1 ACCCCTATA-GGTAAAATGAC
29973688 GAATATGCCC
Statistics
Matches: 60, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
26 3 0.05
27 52 0.87
28 5 0.08
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.23
Consensus pattern (26 bp):
ACCCCTATAGGTAAAATGACCATAAT
Found at i:29975213 original size:40 final size:40
Alignment explanation
Indices: 29975166--29975310 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
29975156 CTCACACAAG
* * * * *
29975166 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
29975206 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * * *
29975246 GCCTTC-GGATCTTAGTCCGAATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
29975287 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
29975311 CATTCGAGTA
Statistics
Matches: 90, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
39 3 0.03
40 58 0.64
41 26 0.29
42 3 0.03
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:29976540 original size:38 final size:38
Alignment explanation
Indices: 29976498--29976573 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
29976488 CAAGAACTCC
29976498 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
29976536 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
29976574 AAAGGATGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.32
Consensus pattern (38 bp):
TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
Found at i:29977700 original size:16 final size:16
Alignment explanation
Indices: 29977679--29977709 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
29977669 CAAATATGGG
29977679 CATGACATTCTGCATA
1 CATGACATTCTGCATA
*
29977695 CATGACATTTTGCAT
1 CATGACATTCTGCAT
29977710 TGGGTTGGGT
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:0.29, C:0.23, G:0.13, T:0.35
Consensus pattern (16 bp):
CATGACATTCTGCATA
Found at i:29977825 original size:52 final size:51
Alignment explanation
Indices: 29977743--29977899 Score: 232
Period size: 52 Copynumber: 3.1 Consensus size: 51
29977733 GAGGAAGTGC
*
29977743 AAAAGGGCTTATGCCCCAGTTTACCTAAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCC-AGTTTATTG
*
29977795 AAAAGGGCTTATGCCCCGGTTTACCGAAAAGGGCTTATGCGCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGC-CCAGTTTATTG
*
29977847 AAAAGGGCTT-TGCCCTAGTTTACCGAAAAGGGCTT-TGCCCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATG-CCCAGTTTATTG
29977895 AAAAG
1 AAAAG
29977900 AGGTTAGGCC
Statistics
Matches: 99, Mismatches: 4, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
48 5 0.05
49 5 0.05
50 6 0.06
51 24 0.24
52 57 0.58
53 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCAGTTTATTG
Found at i:29977874 original size:25 final size:26
Alignment explanation
Indices: 29977743--29977891 Score: 203
Period size: 26 Copynumber: 5.8 Consensus size: 26
29977733 GAGGAAGTGC
*
29977743 AAAAGGGCTTATGCCCCAGTTTACCT
1 AAAAGGGCTTATGCCCCAGTTTACCG
* **
29977769 AAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
29977795 AAAAGGGCTTATGCCCCGGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
* **
29977821 AAAAGGGCTTATGCGCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
29977847 AAAAGGGCTT-TGCCCTAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
29977872 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
29977892 ATTAAAAGAG
Statistics
Matches: 106, Mismatches: 17, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
25 30 0.28
26 76 0.72
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:29978186 original size:31 final size:31
Alignment explanation
Indices: 29978109--29978187 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
29978099 CCGTTACAAT
*
29978109 AAAGGCTTCGGCCCAATGATATAATTTATGA
1 AAAGGCTTCGGCCCAGTGATATAATTTATGA
*
29978140 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATAATTTATGA
*
29978171 AAAGGCTTCAGCCCAGT
1 AAAGGCTTCGGCCCAGT
29978188 AACCGTTAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATAATTTATGA
Found at i:29978520 original size:19 final size:21
Alignment explanation
Indices: 29978496--29978534 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
29978486 ATAAGGCCAT
29978496 TTTAAT-TATTT-TTAATAAC
1 TTTAATCTATTTGTTAATAAC
*
29978515 TTTAATCTGTTTGTTAATAA
1 TTTAATCTATTTGTTAATAA
29978535 ATGGGCTAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 4 0.24
21 7 0.41
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.56
Consensus pattern (21 bp):
TTTAATCTATTTGTTAATAAC
Found at i:29981151 original size:30 final size:32
Alignment explanation
Indices: 29981117--29981189 Score: 96
Period size: 30 Copynumber: 2.3 Consensus size: 32
29981107 TACTCAATTG
*
29981117 AATTTTCATACATACTTGTA-CC-ATCGTACC
1 AATTTTCATACATACATGTACCCTATCGTACC
* *
29981147 AATTTCCATACATACATGTACCCTCTCGTACC
1 AATTTTCATACATACATGTACCCTATCGTACC
*
29981179 AATTCTCATAC
1 AATTTTCATAC
29981190 TCAATCATAT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
30 18 0.50
31 2 0.06
32 16 0.44
ACGTcount: A:0.30, C:0.30, G:0.05, T:0.34
Consensus pattern (32 bp):
AATTTTCATACATACATGTACCCTATCGTACC
Found at i:29981189 original size:32 final size:29
Alignment explanation
Indices: 29981120--29981189 Score: 86
Period size: 32 Copynumber: 2.3 Consensus size: 29
29981110 TCAATTGAAT
*
29981120 TTTCATACATACTTGTACCATCGTACCAA
1 TTTCATACATACATGTACCATCGTACCAA
*
29981149 TTTCCATACATACATGTACCCTCTCGTACCAA
1 TTT-CATACATACATGTA-CC-ATCGTACCAA
29981181 TTCTCATAC
1 TT-TCATAC
29981190 TCAATCATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
29 3 0.09
30 13 0.37
31 2 0.06
32 16 0.46
33 1 0.03
ACGTcount: A:0.29, C:0.31, G:0.06, T:0.34
Consensus pattern (29 bp):
TTTCATACATACATGTACCATCGTACCAA
Found at i:29981293 original size:28 final size:28
Alignment explanation
Indices: 29981262--29981357 Score: 102
Period size: 28 Copynumber: 3.4 Consensus size: 28
29981252 GATACCTCAC
*
29981262 ACACTAAGTGTCGTTCTGGATGTTTCGT
1 ACACTAAGTGCCGTTCTGGATGTTTCGT
* * * ** *
29981290 ACACTAAGTGCCGTCCTCGTTACTTCGC
1 ACACTAAGTGCCGTTCTGGATGTTTCGT
* *
29981318 ACACTAAGTGCCATTCTGGATGTATCGT
1 ACACTAAGTGCCGTTCTGGATGTTTCGT
*
29981346 ACACAAAGTGCC
1 ACACTAAGTGCC
29981358 ATCCCCGATA
Statistics
Matches: 52, Mismatches: 16, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
28 52 1.00
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.30
Consensus pattern (28 bp):
ACACTAAGTGCCGTTCTGGATGTTTCGT
Found at i:29981386 original size:56 final size:56
Alignment explanation
Indices: 29981249--29981370 Score: 163
Period size: 56 Copynumber: 2.2 Consensus size: 56
29981239 AGATGCCAAA
* * * * * * *
29981249 CCCGATACCTCACACACTAAGTGTCGTTCTGGATGTTTCGTACACTAAGTGCCGTC
1 CCCGATACTTCGCACACTAAGTGCCATTCTGGATGTATCGTACACAAAGTGCCATC
* *
29981305 CTCGTTACTTCGCACACTAAGTGCCATTCTGGATGTATCGTACACAAAGTGCCATC
1 CCCGATACTTCGCACACTAAGTGCCATTCTGGATGTATCGTACACAAAGTGCCATC
29981361 CCCGATACTT
1 CCCGATACTT
29981371 TGTACGTTAA
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.29
Consensus pattern (56 bp):
CCCGATACTTCGCACACTAAGTGCCATTCTGGATGTATCGTACACAAAGTGCCATC
Found at i:29993937 original size:307 final size:307
Alignment explanation
Indices: 29993383--29994614 Score: 2428
Period size: 307 Copynumber: 4.0 Consensus size: 307
29993373 TCCCGAGCTA
29993383 AAATATTAATCGGTTCTTCATTGTAAGTCATACCGGTTGTAGCTCAATTTTCGTCAGTGAAAATA
1 AAATATTAATCGGTTCTTCATTGTAAGTCATACCGGTTGTAGCTCAATTTTCGTCAGTGAAAATA
29993448 CACGTGAAGGATCCGAACGATGCCAACGTAACATAGATACGTGGAACACATCATGAATCTTCTCT
66 CACGTGAAGGATCCGAACGATGCCAACGTAACATAGATACGTGGAACACATCATGAATCTTCTCT
29993513 AATTCAGGTGGTAATGCTAACCGATATGCTACTGGTCCAACTCTTTCAATTATCTCATACGGTCC
131 AATTCAGGTGGTAATGCTAACCGATATGCTACTGGTCCAACTCTTTCAATTATCTCATACGGTCC
*
29993578 GATAAAACGCGGACTCAACTTGCCTTTCTGACCAAATCTAAGAACTTTCTTCCATGGAGACACTT
196 GATAAAACGCGGACTCAACTTGCCTTTCCGACCAAATCTAAGAACTTTCTTCCATGGAGACACTT
29993643 TTAAAAATACCTTATCGCCGACTTGAAACTCGATTTCTTTTCGTTTC
261 TTAAAAATACCTTATCGCCGACTTGAAACTCGATTTCTTTTCGTTTC
29993690 AAATATTAATCGGTTCTTCATTGTAAGTCATACCGGTTGTAGCTCAATTTTCGTCAGTGAAAATA
1 AAATATTAATCGGTTCTTCATTGTAAGTCATACCGGTTGTAGCTCAATTTTCGTCAGTGAAAATA
*
29993755 CACGTGAAGGATCCGAACGATGCCAACGTAACATAGATACGTGGAACATATCATGAATCTTCTCT
66 CACGTGAAGGATCCGAACGATGCCAACGTAACATAGATACGTGGAACACATCATGAATCTTCTCT
*
29993820 AATTCAGGTGGTAATGCTAATCGATATGCTACTGGTCCAACTCTTTCAATTATCTCATACGGTCC
131 AATTCAGGTGGTAATGCTAACCGATATGCTACTGGTCCAACTCTTTCAATTATCTCATACGGTCC
29993885 GATAAAACGCGGACTCAACTTGCCTTTCCGACCAAATCTAAGAACTTTCTTCCATGGAGACACTT
196 GATAAAACGCGGACTCAACTTGCCTTTCCGACCAAATCTAAGAACTTTCTTCCATGGAGACACTT
29993950 TTAAAAATACCTTATCGCCGACTTGAAACTCGATTTCTTTTCGTTTC
261 TTAAAAATACCTTATCGCCGACTTGAAACTCGATTTCTTTTCGTTTC
29993997 AAATATTAATCGGTTCTTCATTGTAAGTCATACCGGTTGTAGCTCAATTTTCGTCAGTGAAAATA
1 AAATATTAATCGGTTCTTCATTGTAAGTCATACCGGTTGTAGCTCAATTTTCGTCAGTGAAAATA
29994062 CACGTGAAGGATCCGAACGATGCCAACGTAACATAGATACGTGGAACACATCATGAATCTTCTCT
66 CACGTGAAGGATCCGAACGATGCCAACGTAACATAGATACGTGGAACACATCATGAATCTTCTCT
29994127 AATTCAGGTGGTAATGCTAACCGATATGCTACTGGTCCAACTCTTTCAATTATCTCATACGGTCC
131 AATTCAGGTGGTAATGCTAACCGATATGCTACTGGTCCAACTCTTTCAATTATCTCATACGGTCC
*
29994192 GATAAAACGCGGACTCAACTTGCCTTTCTGACCAAATCTAAGAACTTTCTTCCATGGAGACACTT
196 GATAAAACGCGGACTCAACTTGCCTTTCCGACCAAATCTAAGAACTTTCTTCCATGGAGACACTT
29994257 TTAAAAATACCTTATCGCCGACTTGAAACTCGATTTCTTTTCGTTTC
261 TTAAAAATACCTTATCGCCGACTTGAAACTCGATTTCTTTTCGTTTC
29994304 AAATATTAATCGGTTCTTCATTGTAAGTCATACCGGTTGTAGCTCAATTTTCGTCAGTGAAAATA
1 AAATATTAATCGGTTCTTCATTGTAAGTCATACCGGTTGTAGCTCAATTTTCGTCAGTGAAAATA
29994369 CACGTGAAGGATCCGAACGATGCCAACGTAACATAGATACGTGGAACACATCATGAATCTTCTCT
66 CACGTGAAGGATCCGAACGATGCCAACGTAACATAGATACGTGGAACACATCATGAATCTTCTCT
29994434 AATTCAGGTGGTAATGCTAACCGATATGCTACTGGTCCAACTCTTTCAATTATCTCATACGGTCC
131 AATTCAGGTGGTAATGCTAACCGATATGCTACTGGTCCAACTCTTTCAATTATCTCATACGGTCC
29994499 GATAAAACGCGGACTCAACTTGCCTTTCCGACCAAATCTAAGAACTTTCTTCCATGGAGACACTT
196 GATAAAACGCGGACTCAACTTGCCTTTCCGACCAAATCTAAGAACTTTCTTCCATGGAGACACTT
29994564 TTAAAAATACCTTATCGCCGACTTGAAACTCGATTTCTTTTCGTTTC
261 TTAAAAATACCTTATCGCCGACTTGAAACTCGATTTCTTTTCGTTTC
29994611 AAAT
1 AAAT
29994615 TCGCGTAGGA
Statistics
Matches: 918, Mismatches: 7, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
307 918 1.00
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (307 bp):
AAATATTAATCGGTTCTTCATTGTAAGTCATACCGGTTGTAGCTCAATTTTCGTCAGTGAAAATA
CACGTGAAGGATCCGAACGATGCCAACGTAACATAGATACGTGGAACACATCATGAATCTTCTCT
AATTCAGGTGGTAATGCTAACCGATATGCTACTGGTCCAACTCTTTCAATTATCTCATACGGTCC
GATAAAACGCGGACTCAACTTGCCTTTCCGACCAAATCTAAGAACTTTCTTCCATGGAGACACTT
TTAAAAATACCTTATCGCCGACTTGAAACTCGATTTCTTTTCGTTTC
Found at i:29998676 original size:40 final size:40
Alignment explanation
Indices: 29998586--29998846 Score: 366
Period size: 40 Copynumber: 6.6 Consensus size: 40
29998576 TATTCGAATG
* * *
29998586 ATATCCGGGTTAAGTCCCGAAGGCATTTAT-CTAGTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGATT
29998625 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGATT
*
29998665 ATATCCAGGCTAAGTCCCGAAGGCATTTGTGCTATTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGATT
* *
29998705 ATATCCGGGCTAAGTCCCAAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGATT
* * *
29998745 ATATCTGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGATT
* * * *
29998785 ATATCCGGGCTAAGACCCGAAGGCATTTGCGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-TTGATT
*
29998825 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
29998847 TACTTGGGTT
Statistics
Matches: 201, Mismatches: 19, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 42 0.21
40 156 0.78
41 3 0.01
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGATT
Found at i:30006724 original size:79 final size:81
Alignment explanation
Indices: 30006613--30006796 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
30006603 GCTACTCGTT
* * *
30006613 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCG-ACAAATGCCTTC-GGATCTTAACCC
* *
30006676 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
* **
30006693 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGACAAATGCCTTCGGATCTTAACCCGG
* *
30006756 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
30006772 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
30006797 CATCATTCAA
Statistics
Matches: 90, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
77 3 0.03
78 35 0.39
79 37 0.41
80 15 0.17
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:30006796 original size:40 final size:40
Alignment explanation
Indices: 30006594--30006796 Score: 220
Period size: 40 Copynumber: 5.1 Consensus size: 40
30006584 CGGAATTTAA
** *
30006594 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
30006634 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
30006674 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
30006713 CCGGA-ATTAGTATCTCG-ACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
30006752 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
30006792 CCGGA
1 CCGGA
30006797 CATCATTCAA
Statistics
Matches: 137, Mismatches: 18, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
37 2 0.01
38 12 0.09
39 34 0.25
40 81 0.59
41 8 0.06
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:30014676 original size:79 final size:82
Alignment explanation
Indices: 30014565--30014749 Score: 220
Period size: 79 Copynumber: 2.3 Consensus size: 82
30014555 GCTACTCGTT
* * *
30014565 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
30014628 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* * **
30014645 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGTACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
30014708 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
30014725 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
30014750 CATCATTCAA
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 53 0.59
80 34 0.38
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:30014749 original size:40 final size:40
Alignment explanation
Indices: 30014546--30014749 Score: 220
Period size: 40 Copynumber: 5.1 Consensus size: 40
30014536 CGGAATTTAA
** *
30014546 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
30014586 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
30014626 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
30014665 CCGGA-ATTAGTATCTCGTACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
30014705 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
30014745 CCGGA
1 CCGGA
30014750 CATCATTCAA
Statistics
Matches: 137, Mismatches: 20, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 92 0.67
41 11 0.08
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:30018133 original size:47 final size:49
Alignment explanation
Indices: 30018082--30018185 Score: 131
Period size: 51 Copynumber: 2.1 Consensus size: 49
30018072 TTAGGATTTT
* * *
30018082 ATGTGATGGATGTGAA-C-ATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACCGATACATATGTGTGATAAGGCCGAATGGCCA
* *
30018129 ATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAA-CCG-ATACATATGTGTGATAAGGCCGAATGGCCA
30018180 ATGTGA
1 ATGTGA
30018186 AATATATGTG
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
47 15 0.31
49 1 0.02
51 32 0.67
ACGTcount: A:0.30, C:0.12, G:0.31, T:0.28
Consensus pattern (49 bp):
ATGTGATGAATGTGAACCGATACATATGTGTGATAAGGCCGAATGGCCA
Found at i:30018231 original size:48 final size:48
Alignment explanation
Indices: 30018153--30018425 Score: 420
Period size: 48 Copynumber: 5.6 Consensus size: 48
30018143 AACCCGTATA
*
30018153 TATATGTGTGATAAGGCCGAATGGCTAATGTGAAATATATGTGTGATATG
1 TATATGTG-G-TAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATG
* * * *
30018203 TATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATG
30018251 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATG
* * * *
30018299 TATATGTGGTAAAGCCGAATGGCAAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATG
*
30018347 TATATGTGGTAAAGTCGAATGGCTAATGTGAAATATATGTGTGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATG
* *
30018395 TATTTGTGGTAAAGCCGAATGGCCAATGTGA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGA
30018426 TAAATGTGAG
Statistics
Matches: 202, Mismatches: 21, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
48 193 0.96
49 1 0.00
50 8 0.04
ACGTcount: A:0.34, C:0.07, G:0.28, T:0.32
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATG
Found at i:30018280 original size:96 final size:96
Alignment explanation
Indices: 30018153--30018471 Score: 484
Period size: 96 Copynumber: 3.3 Consensus size: 96
30018143 AACCCGTATA
*
30018153 TATATGTGTGATAAGGCCGAATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGC
1 TATATGTG-G-TAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGC
*
30018218 CGAATGGCGAATGTGAAATATGTATGAGATATG
64 CGAATGGCAAATGTGAAATATGTATGAGATATG
30018251 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCG
30018316 AATGGCAAATGTGAAATATGTATGAGATATG
66 AATGGCAAATGTGAAATATGTATGAGATATG
* *
30018347 TATATGTGGTAAAGTCGAATGGCTAATGTGAAATATATGTGTGATATGTATTTGTGGTAAAGCCG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCG
* *
30018412 AATGGCCAATGTGATAA-ATG--TGAG-CATG
66 AATGGCAAATGTGA-AATATGTATGAGATATG
* * *
30018440 CATATATGTGATAAGGCCGAATGGCCAATGTG
1 --TATATGTGGTAAAGCCGAATGGCTAATGTG
30018472 GTGAATATGA
Statistics
Matches: 208, Mismatches: 10, Indels: 9
0.92 0.04 0.04
Matches are distributed among these distances:
93 3 0.01
94 4 0.02
95 26 0.12
96 164 0.79
97 3 0.01
98 8 0.04
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.31
Consensus pattern (96 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCG
AATGGCAAATGTGAAATATGTATGAGATATG
Found at i:30018329 original size:144 final size:146
Alignment explanation
Indices: 30018153--30018471 Score: 432
Period size: 144 Copynumber: 2.2 Consensus size: 146
30018143 AACCCGTATA
* * * *
30018153 TATATGTGTGATAAGGCCGAATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGC
1 TATATGTGTGATAAAGCCGAATGGCAAATGTGAAATATATATGAGATATGTATATGTGGTAAAGC
* *
30018218 CGAATGGCGAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
66 CGAATGGCGAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCCAATGTGAA
30018283 ATATATGTGTGATATG
131 ATATATGTGTGATATG
* *
30018299 TATATGTG-G-TAAAGCCGAATGGCAAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGT
1 TATATGTGTGATAAAGCCGAATGGCAAATGTGAAATATATATGAGATATGTATATGTGGTAAAGC
* * * *
30018362 CGAATGGCTAATGTGAAATATATGTGTGATATGTATTTGTGGTAAAGCCGAATGGCCAATGTG--
66 CGAATGGCGAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCCAATGTGAA
* * *
30018425 ATAAATGTGAG-CATG
131 ATATATGTGTGATATG
* * * *
30018440 CATATATGTGATAAGGCCGAATGGCCAATGTG
1 TATATGTGTGATAAAGCCGAATGGCAAATGTG
30018472 GTGAATATGA
Statistics
Matches: 152, Mismatches: 19, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
141 9 0.06
142 10 0.07
143 19 0.12
144 105 0.69
145 1 0.01
146 8 0.05
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.31
Consensus pattern (146 bp):
TATATGTGTGATAAAGCCGAATGGCAAATGTGAAATATATATGAGATATGTATATGTGGTAAAGC
CGAATGGCGAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCCAATGTGAA
ATATATGTGTGATATG
Found at i:30018724 original size:37 final size:37
Alignment explanation
Indices: 30018674--30018788 Score: 167
Period size: 37 Copynumber: 3.1 Consensus size: 37
30018664 GGAAATATAT
*
30018674 TCCGGGTGAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
30018711 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
** * * *
30018748 TCCGGGTAAGACCCGACAACTTCGTGCGGAGATTACG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
30018785 TCCG
1 TCCG
30018789 AGCTAAAGGT
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 70 1.00
ACGTcount: A:0.22, C:0.23, G:0.32, T:0.23
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:30020352 original size:20 final size:19
Alignment explanation
Indices: 30020327--30020375 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 19
30020317 ATTTCATGTT
30020327 TGAATTTTGTTAATTGTAAG
1 TGAATTTT-TTAATTGTAAG
30020347 TGAA--TTTT-ATTGTAAG
1 TGAATTTTTTAATTGTAAG
30020363 TGAATTTTATTAA
1 TGAATTTT-TTAA
30020376 ATAGGACTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
16 12 0.48
17 2 0.08
18 4 0.16
19 2 0.08
20 5 0.20
ACGTcount: A:0.33, C:0.00, G:0.16, T:0.51
Consensus pattern (19 bp):
TGAATTTTTTAATTGTAAG
Found at i:30020360 original size:16 final size:16
Alignment explanation
Indices: 30020339--30020373 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
30020329 AATTTTGTTA
30020339 ATTGTAAGTGAATTTT
1 ATTGTAAGTGAATTTT
30020355 ATTGTAAGTGAATTTT
1 ATTGTAAGTGAATTTT
30020371 ATT
1 ATT
30020374 AAATAGGACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.17, T:0.51
Consensus pattern (16 bp):
ATTGTAAGTGAATTTT
Found at i:30022337 original size:40 final size:40
Alignment explanation
Indices: 30022282--30022543 Score: 366
Period size: 40 Copynumber: 6.6 Consensus size: 40
30022272 TATTCGAATG
* *
30022282 ATATCCGGGTTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
*
30022322 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
*
30022362 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
*
30022402 ATATCCGGGCTAAGTCCCAAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
* * * *
30022442 ATATCTGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
* * * * *
30022482 ATATCCGGACTAAGACCCAAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGATT
*
30022522 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
30022544 TACTTGGGTT
Statistics
Matches: 200, Mismatches: 21, Indels: 3
0.89 0.09 0.01
Matches are distributed among these distances:
39 12 0.06
40 186 0.93
41 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
Found at i:30035949 original size:44 final size:44
Alignment explanation
Indices: 30035881--30036026 Score: 153
Period size: 44 Copynumber: 3.4 Consensus size: 44
30035871 TATGTGTTAT
* *
30035881 CGTGTAAGACCACATCTACA-ACGTTGGCATCGACT-TATGATTTA
1 CGTGTAAGACCACGTCTA-AGACGTTGGCATCGA-TATTTGATTTA
*
30035925 CGTGTAAGACCACGTCTAAGACGTTGGCATC-ATATTTTATTT-
1 CGTGTAAGACCACGTCTAAGACGTTGGCATCGATATTTGATTTA
**
30035967 CGTGTAAGA-CACTGTCTGGGACAG-TGGCATCGATATTTGA-TTA
1 CGTGTAAGACCAC-GTCTAAGAC-GTTGGCATCGATATTTGATTTA
*
30036010 CTTGTAAGACCACGTCT
1 CGTGTAAGACCACGTCT
30036027 GGGACATTGG
Statistics
Matches: 88, Mismatches: 7, Indels: 15
0.80 0.06 0.14
Matches are distributed among these distances:
41 3 0.03
42 26 0.30
43 28 0.32
44 31 0.35
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.32
Consensus pattern (44 bp):
CGTGTAAGACCACGTCTAAGACGTTGGCATCGATATTTGATTTA
Found at i:30035995 original size:42 final size:43
Alignment explanation
Indices: 30035905--30036039 Score: 143
Period size: 43 Copynumber: 3.1 Consensus size: 43
30035895 TCTACAACGT
* **
30035905 TGGCATCGACT-TATGATTTACGTGTAAGACCACGTCTAAGAC-G
1 TGGCATCGA-TATTTGA-TTACGTGTAAGACCACGTCTGGGACAG
* *
30035948 TTGGCATC-ATATTTTATTTCGTGTAAGA-CACTGTCTGGGACAG
1 -TGGCATCGATATTTGATTACGTGTAAGACCAC-GTCTGGGACAG
* *
30035991 TGGCATCGATATTTGATTACTTGTAAGACCACGTCTGGGACAT
1 TGGCATCGATATTTGATTACGTGTAAGACCACGTCTGGGACAG
30036034 TGGCAT
1 TGGCAT
30036040 TGTACGAGCT
Statistics
Matches: 77, Mismatches: 9, Indels: 11
0.79 0.09 0.11
Matches are distributed among these distances:
41 3 0.04
42 26 0.34
43 38 0.49
44 10 0.13
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.33
Consensus pattern (43 bp):
TGGCATCGATATTTGATTACGTGTAAGACCACGTCTGGGACAG
Found at i:30041143 original size:47 final size:46
Alignment explanation
Indices: 30040952--30041208 Score: 170
Period size: 47 Copynumber: 5.5 Consensus size: 46
30040942 TTGTTGATGC
* * *
30040952 CATGTCCCAGACATGGTCTTACACTGGCTCTCATATATACGT-GCTGATG
1 CATGTCCCAGACAT-GTCTTACACTGGCACTCATA-AT--GTGGCCGAAG
* * * * * * *
30041001 CATGTCCGAGACAAGTCTTACACTAGCA--CA-ACTCTTAGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCACTCATAAT-GTGGCCGAAG
* * * * * *
30041045 CGTGTCCCAAACACGTCTTACAATGGCTATCTC-T-ATCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGC-A-CTCATAAT-GTGGCCGAAG
* * *
30041092 CATGTCCCAGACATGTCTTACTCTGGCACTCATCTATGT-G-CTAATG
1 CATGTCCCAGACATGTCTTACACTGGCACTCAT-AATGTGGCCGAA-G
*
30041138 CCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGAAG
1 -CATGTCCCAGACAT-GTCTTACACTGGCACTCATAATGTGGCCGAAG
30041186 CATGTCCCAGACATGTCTTACAC
1 CATGTCCCAGACATGTCTTACAC
30041209 AGGCGCACAA
Statistics
Matches: 165, Mismatches: 29, Indels: 31
0.73 0.13 0.14
Matches are distributed among these distances:
43 2 0.01
44 28 0.17
45 7 0.04
46 15 0.09
47 64 0.39
48 34 0.21
49 15 0.09
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.27
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGGCACTCATAATGTGGCCGAAG
Found at i:30041189 original size:94 final size:93
Alignment explanation
Indices: 30040948--30041208 Score: 275
Period size: 94 Copynumber: 2.8 Consensus size: 93
30040938 TAAATTGTTG
* *
30040948 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATACGT-GCTGATGCATGTCCGAGA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-AT-CGTGGCCGATGCATGTCCCAGA
* *
30041012 CAAGTCTTACACTAGCACAACTCTTAGCCG
64 CATGTCTTACACTAGCACAACTCTTAGCCA
* * * * *
30041042 ATG-CGTGTCCCAAACA-CGTCTTACAATGGCTATCTC-T-ATCGAGGCCGATGCATGTCCCAGA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGC--TCTCATAATCGTGGCCGATGCATGTCCCAGA
* * * * *
30041103 CATGTCTTACTCTGGCAC-TCATCTATGTGCTA
64 CATGTCTTACACTAGCACAAC-TCT-T-AGCCA
*
30041135 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCCGAAGCATGTCCCAGACA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATCGTGGCCGATGCATGTCCCAGACA
30041199 TGTCTTACAC
66 TGTCTTACAC
30041209 AGGCGCACAA
Statistics
Matches: 136, Mismatches: 21, Indels: 20
0.77 0.12 0.11
Matches are distributed among these distances:
90 3 0.02
91 36 0.26
92 13 0.10
93 21 0.15
94 49 0.36
95 14 0.10
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (93 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATCGTGGCCGATGCATGTCCCAGACA
TGTCTTACACTAGCACAACTCTTAGCCA
Found at i:30045842 original size:18 final size:18
Alignment explanation
Indices: 30045819--30045862 Score: 88
Period size: 18 Copynumber: 2.4 Consensus size: 18
30045809 GATAGGACTC
30045819 ATGTGATAAGACTTGAAA
1 ATGTGATAAGACTTGAAA
30045837 ATGTGATAAGACTTGAAA
1 ATGTGATAAGACTTGAAA
30045855 ATGTGATA
1 ATGTGATA
30045863 GGTAAATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.43, C:0.05, G:0.23, T:0.30
Consensus pattern (18 bp):
ATGTGATAAGACTTGAAA
Found at i:30047652 original size:40 final size:40
Alignment explanation
Indices: 30047579--30047679 Score: 127
Period size: 40 Copynumber: 2.5 Consensus size: 40
30047569 AATTGTACCT
*
30047579 GGGCTTAAAGACCCGCAGGCTATATGCTGGAATG-TCATCC
1 GGGCTTAAAGACCCGCAGGCTATATGCTAGAATGCT-ATCC
*
30047619 GGGCTTAAAGACCCGCAGGCT-TCGTGCTAGAATGCTATCC
1 GGGCTTAAAGACCCGCAGGCTAT-ATGCTAGAATGCTATCC
* *
30047659 GAGC-TAGAGACCCGCAGGCTA
1 GGGCTTAAAGACCCGCAGGCTA
30047680 CGAGATGGTA
Statistics
Matches: 54, Mismatches: 4, Indels: 6
0.84 0.06 0.09
Matches are distributed among these distances:
39 16 0.30
40 37 0.69
41 1 0.02
ACGTcount: A:0.25, C:0.27, G:0.29, T:0.20
Consensus pattern (40 bp):
GGGCTTAAAGACCCGCAGGCTATATGCTAGAATGCTATCC
Found at i:30052878 original size:28 final size:28
Alignment explanation
Indices: 30052846--30052914 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
30052836 AATGAGATTG
30052846 GCACTAAGTGTGCGAGTTT-AAT-TGTATA
1 GCACTAAGTGTGCGAGTTTGAATAT-TA-A
*
30052874 GCACTAAGTGTGCGAGTTTGACTATTAA
1 GCACTAAGTGTGCGAGTTTGAATATTAA
30052902 GCACTAAGTGTGC
1 GCACTAAGTGTGC
30052915 AGACTTACTA
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
28 33 0.87
29 4 0.11
30 1 0.03
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGAATATTAA
Found at i:30058222 original size:40 final size:41
Alignment explanation
Indices: 30058185--30058290 Score: 137
Period size: 40 Copynumber: 2.7 Consensus size: 41
30058175 TGAGGAATTG
*
30058185 TATCCGGGCTTAAAGACCCGCAGGCTAT-ATGCTGGAATGT
1 TATCCGGGCTTAAAGACCCGCAGGCTATCATGCTGGAATGC
* * *
30058225 TATCCGGGCTTAAAGACCCGCAAGCT-TCGTGCTCGAATGC
1 TATCCGGGCTTAAAGACCCGCAGGCTATCATGCTGGAATGC
* *
30058265 TATCCGGGC-TAGAGACCCACAGGCTA
1 TATCCGGGCTTAAAGACCCGCAGGCTA
30058291 CGAGCTAGTA
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
39 14 0.25
40 43 0.75
ACGTcount: A:0.25, C:0.27, G:0.26, T:0.22
Consensus pattern (41 bp):
TATCCGGGCTTAAAGACCCGCAGGCTATCATGCTGGAATGC
Found at i:30063495 original size:27 final size:26
Alignment explanation
Indices: 30063437--30063543 Score: 115
Period size: 27 Copynumber: 4.0 Consensus size: 26
30063427 AGCATGGCTG
* *
30063437 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
* *
30063463 CCAGAATAGATAATCGTGGTAGAGCCA
1 CCAGAACAGATAAT-GTGGCAGAGCCA
* *
30063490 CTAGAACAGATATATGTGGCAGAGCTA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
30063517 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
30063544 ACCCATGTCC
Statistics
Matches: 66, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
26 14 0.21
27 50 0.76
28 2 0.03
ACGTcount: A:0.37, C:0.19, G:0.24, T:0.20
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:30063543 original size:54 final size:53
Alignment explanation
Indices: 30063439--30063543 Score: 133
Period size: 54 Copynumber: 2.0 Consensus size: 53
30063429 CATGGCTGCC
*
30063439 AGAACAGATAATGTGACAGAGTCACCAGAATAGATAATCGTGGTAGAGCCACT
1 AGAACAGATAATGTGACAGAGTCACCAGAATAGATAATCGTGGCAGAGCCACT
* * *
30063492 AGAACAGATATATGTGGCAGAG-CTACCAG-ATCAGATAATTGTGGCATAGCCA
1 AGAACAGATA-ATGTGACAGAGTC-ACCAGAAT-AGATAATCGTGGCAGAGCCA
30063544 ACCCATGTCC
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
53 13 0.29
54 32 0.71
ACGTcount: A:0.38, C:0.17, G:0.25, T:0.20
Consensus pattern (53 bp):
AGAACAGATAATGTGACAGAGTCACCAGAATAGATAATCGTGGCAGAGCCACT
Found at i:30064987 original size:24 final size:24
Alignment explanation
Indices: 30064952--30065004 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
30064942 CCAACACCGT
30064952 TCTCCCTAATCAGCTCCTAAATCC
1 TCTCCCTAATCAGCTCCTAAATCC
* *
30064976 TCTCCCTTATCAGCTCCTAAATCT
1 TCTCCCTAATCAGCTCCTAAATCC
30065000 TCTCC
1 TCTCC
30065005 TGATAGCCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.21, C:0.42, G:0.04, T:0.34
Consensus pattern (24 bp):
TCTCCCTAATCAGCTCCTAAATCC
Found at i:30071564 original size:46 final size:47
Alignment explanation
Indices: 30071514--30071640 Score: 143
Period size: 47 Copynumber: 2.7 Consensus size: 47
30071504 TCTGTCGAGG
* *
30071514 CCGATGCATGTCCCAGACATGTCTTACTCTGGCA-CTCATCTATGT-A
1 CCGATGCATGTCCCAGACATGTCTTACACTGGCATCTCAT-AATGTGA
* *
30071560 CCGATGCAATGTCCCATACATGGTCTTACACTGG-ATCTCATAATGTGG
1 CCGATGC-ATGTCCCAGACAT-GTCTTACACTGGCATCTCATAATGTGA
* * *
30071608 CTGAAGCATGTCCTAGACATGTCTTACACTGGC
1 CCGATGCATGTCCCAGACATGTCTTACACTGGC
30071641 GTACAAATCA
Statistics
Matches: 68, Mismatches: 8, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
46 19 0.28
47 28 0.41
48 21 0.31
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.29
Consensus pattern (47 bp):
CCGATGCATGTCCCAGACATGTCTTACACTGGCATCTCATAATGTGA
Done.