Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr6
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: 44797108
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 921406 characters in sequence are not A, C, G, or T
File 97 of 144
Found at i:29644418 original size:50 final size:50
Alignment explanation
Indices: 29644323--29644451 Score: 150
Period size: 50 Copynumber: 2.6 Consensus size: 50
29644313 CATGGTTATG
* *** *
29644323 AGAGGTCCCATGTAAGACCATGACTGGGACATGGCGTTGGCACCGAGATA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCACGGGAACCGAGATA
** * *
29644373 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCACGGGAACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCACGGGAACCGAGATA
** *
29644423 AGAACTCCCATGTAAGACCATATCTGGGA
1 AGAGGTCCCATGTAAGACCATGTCTGGGA
29644452 TATGTCATTG
Statistics
Matches: 65, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 65 1.00
ACGTcount: A:0.29, C:0.24, G:0.29, T:0.18
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCACGGGAACCGAGATA
Found at i:29649178 original size:27 final size:27
Alignment explanation
Indices: 29649103--29649357 Score: 237
Period size: 27 Copynumber: 9.5 Consensus size: 27
29649093 TCGTTAACTA
*
29649103 TACCGAAATACCCCCGAAT-GGTAAAAT
1 TACCAAAATACCCCCG-ATGGGTAAAAT
* * * *
29649130 GACTAAAATACCCCTGA-AGGTAAAAT
1 TACCAAAATACCCCCGATGGGTAAAAT
*
29649156 AACCAAAATACCCCCGATGGGTAAAAT
1 TACCAAAATACCCCCGATGGGTAAAAT
* * *
29649183 TATC-GAATACCCTCGATGGGTAAAAT
1 TACCAAAATACCCCCGATGGGTAAAAT
* * *
29649209 TACAAAAATACCCTCGATAGGTAAAAT
1 TACCAAAATACCCCCGATGGGTAAAAT
* **
29649236 TACTAAAATACCCCTAATGGGTAAAAT
1 TACCAAAATACCCCCGATGGGTAAAAT
* * * *
29649263 TACTAAAATACCCCTGATGCGTAAGAT
1 TACCAAAATACCCCCGATGGGTAAAAT
* * *
29649290 TATCGAAATACCCTCGATGGGTAAAAT
1 TACCAAAATACCCCCGATGGGTAAAAT
* * * *
29649317 TATCGAAATACCCTCGAAGGGTAAAAT
1 TACCAAAATACCCCCGATGGGTAAAAT
*
29649344 GACCAAAATACCCC
1 TACCAAAATACCCC
29649358 TATAGGATAA
Statistics
Matches: 189, Mismatches: 36, Indels: 6
0.82 0.16 0.03
Matches are distributed among these distances:
26 45 0.24
27 144 0.76
ACGTcount: A:0.42, C:0.22, G:0.15, T:0.22
Consensus pattern (27 bp):
TACCAAAATACCCCCGATGGGTAAAAT
Found at i:29657374 original size:40 final size:40
Alignment explanation
Indices: 29657291--29657553 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
29657281 TTGAATGCTG
* * * * * *
29657291 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
29657331 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
29657371 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
29657411 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
29657451 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
29657491 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
29657530 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
29657554 TGAACGAGGA
Statistics
Matches: 201, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.17
40 158 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:29657573 original size:79 final size:80
Alignment explanation
Indices: 29657330--29657588 Score: 256
Period size: 80 Copynumber: 3.3 Consensus size: 80
29657320 AAGTGAATAT
* * * * * *
29657330 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * *
29657394 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
29657410 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
29657475 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * *
29657490 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
29657554 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
29657569 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
29657589 TACGTGATTT
Statistics
Matches: 156, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
78 14 0.09
79 48 0.31
80 94 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:29665325 original size:40 final size:40
Alignment explanation
Indices: 29665242--29665504 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
29665232 TTGAATGCTG
* * * * * *
29665242 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
29665282 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
29665322 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
29665362 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
29665402 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
29665442 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
29665481 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
29665505 TGAACGAGGA
Statistics
Matches: 201, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.17
40 158 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:29665524 original size:79 final size:80
Alignment explanation
Indices: 29665281--29665539 Score: 256
Period size: 80 Copynumber: 3.3 Consensus size: 80
29665271 AAGTGAATAT
* * * * * *
29665281 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * *
29665345 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
29665361 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
29665426 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * *
29665441 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
29665505 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
29665520 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
29665540 TACGTGATTT
Statistics
Matches: 156, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
78 14 0.09
79 48 0.31
80 94 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:29670991 original size:51 final size:50
Alignment explanation
Indices: 29670858--29671050 Score: 244
Period size: 51 Copynumber: 3.8 Consensus size: 50
29670848 ATTATTATCA
* * *
29670858 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAG-TT
1 TTCGGTACACATAGTAGCCTTCACATAGTACTACACACGTGACCAAGATT
*
29670907 TTACGGTCCACATAGTAGCCTTCACATAGTACTACACACGTGACCAAAGATT
1 TT-CGGTACACATAGTAGCCTTCACATAGTACTACACACGTGACC-AAGATT
* * * * **
29670959 TTTGGTACACATAGTAGCCTTCACTTAGTACTAAACATGTGACCATTATT
1 TTCGGTACACATAGTAGCCTTCACATAGTACTACACACGTGACCAAGATT
* *
29671009 TATCGATACACGTAGTAGCCTTCACATAGTACTACACACGTG
1 T-TCGGTACACATAGTAGCCTTCACATAGTACTACACACGTG
29671051 TTCATCAATA
Statistics
Matches: 123, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
49 2 0.02
50 43 0.35
51 74 0.60
52 4 0.03
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (50 bp):
TTCGGTACACATAGTAGCCTTCACATAGTACTACACACGTGACCAAGATT
Found at i:29675002 original size:37 final size:37
Alignment explanation
Indices: 29674952--29675030 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
29674942 TTATTACGAA
* * *
29674952 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
29674989 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
29675026 GTCTT
1 GTCTT
29675031 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:29675206 original size:40 final size:44
Alignment explanation
Indices: 29675152--29675372 Score: 217
Period size: 49 Copynumber: 4.6 Consensus size: 44
29675142 TTCGGGACTT
*
29675152 ATCAGATTCATCACATCGGCCATTAGGCCCTATCACATATATATA
1 ATCACATT-ATCACATCGGCCATTAGGCCCTATCACATATATATA
29675197 CACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATA
1 -A---TCACATT-ATCACATCGGCCATTAGGCCCTATCACATATATATA
* *
29675246 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
1 -A---TCACATT-ATCACATCGGCCATTAGGCCCTATCACATATATATA
* ** *
29675295 CTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATACA
1 --ATCACATT-ATCACATCGGCCATTAGGCCCTATCACATATATATA
*
29675342 CTTTCACATTCATCACATCGGCCATTAGGCC
1 --ATCACATT-ATCACATCGGCCATTAGGCC
29675373 ATACTATCAT
Statistics
Matches: 164, Mismatches: 7, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
46 1 0.01
47 73 0.45
49 90 0.55
ACGTcount: A:0.30, C:0.30, G:0.10, T:0.30
Consensus pattern (44 bp):
ATCACATTATCACATCGGCCATTAGGCCCTATCACATATATATA
Found at i:29675308 original size:47 final size:48
Alignment explanation
Indices: 29675148--29675372 Score: 373
Period size: 47 Copynumber: 4.7 Consensus size: 48
29675138 GCCCTTCGGG
*
29675148 ACTTATCAGATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCCTATCACA-ATATATAC
29675198 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACA-ATATATAC
*
29675247 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC-ATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACAATATATAC
**
29675294 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCAC-ATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACAATATATAC
29675341 ACTTTCACATTCATCACATCGGCCATTAGGCC
1 ACTTTCACATTCATCACATCGGCCATTAGGCC
29675373 ATACTATCAT
Statistics
Matches: 171, Mismatches: 4, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
47 85 0.50
49 82 0.48
50 4 0.02
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.31
Consensus pattern (48 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACAATATATAC
Found at i:29675323 original size:96 final size:95
Alignment explanation
Indices: 29675148--29675372 Score: 371
Period size: 96 Copynumber: 2.3 Consensus size: 95
29675138 GCCCTTCGGG
*
29675148 ACTTATCAGATTCATCACATCGGCCATTAGGCCCTATCACATATATATACACTTTCACATTCATC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCCTATCACA-ATATATACACTTTCACATTCATC
*
29675213 ACATCGGCCATTAGGCCCTATCACATATATATAC
64 ACATCGGCCATTAGGCACTATCAC--ATATATAC
*
29675247 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC-ATATATACACTTTCACATTCATCAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACAATATATACACTTTCACATTCATCAC
*
29675311 ATCGGCCATTAGGCATTATCACATATATAC
66 ATCGGCCATTAGGCACTATCACATATATAC
29675341 ACTTTCACATTCATCACATCGGCCATTAGGCC
1 ACTTTCACATTCATCACATCGGCCATTAGGCC
29675373 ATACTATCAT
Statistics
Matches: 122, Mismatches: 4, Indels: 5
0.93 0.03 0.04
Matches are distributed among these distances:
94 40 0.33
96 45 0.37
98 33 0.27
99 4 0.03
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.31
Consensus pattern (95 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACAATATATACACTTTCACATTCATCAC
ATCGGCCATTAGGCACTATCACATATATAC
Found at i:29675357 original size:25 final size:25
Alignment explanation
Indices: 29675281--29675359 Score: 74
Period size: 25 Copynumber: 3.3 Consensus size: 25
29675271 ATTAGGCCTT
29675281 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
**** ***
29675306 ATCACAT-CGGCCA-TTAGGCATT-
1 ATCACATATATACACTTTCACATTC
29675328 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
29675353 ATCACAT
1 ATCACAT
29675360 CGGCCATTAG
Statistics
Matches: 37, Mismatches: 14, Indels: 6
0.65 0.25 0.11
Matches are distributed among these distances:
22 7 0.19
23 8 0.22
24 8 0.22
25 14 0.38
ACGTcount: A:0.34, C:0.28, G:0.05, T:0.33
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:29682891 original size:24 final size:24
Alignment explanation
Indices: 29682842--29682951 Score: 118
Period size: 24 Copynumber: 4.7 Consensus size: 24
29682832 CGTTATTGGG
* *
29682842 AAAGGATGAATTGA-TAGAAATGT
1 AAAGGATGAATTGACGAAAAATGT
29682865 AAAGGATGAATTGACGAAAAATGT
1 AAAGGATGAATTGACGAAAAATGT
* * * *
29682889 AAAGAAGGAACTGACGGAAAA-GTT
1 AAAGGATGAATTGACGAAAAATG-T
* *
29682913 AAAGTATGAATTGAC-AATAATGT
1 AAAGGATGAATTGACGAAAAATGT
29682936 AAAGGATGAATTGACG
1 AAAGGATGAATTGACG
29682952 GCAAATTGTC
Statistics
Matches: 71, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
23 33 0.46
24 38 0.54
ACGTcount: A:0.48, C:0.05, G:0.25, T:0.22
Consensus pattern (24 bp):
AAAGGATGAATTGACGAAAAATGT
Found at i:29689285 original size:27 final size:28
Alignment explanation
Indices: 29689255--29689658 Score: 100
Period size: 27 Copynumber: 15.0 Consensus size: 28
29689245 TCATCTCCTA
*
29689255 GGGGTAAAAT-AGTCATTTTACCCTGTG
1 GGGGTAAAATCAGTCATTTTACCCTATG
** *
29689282 GGGGT-ATTTCGGTCATTTTACCCTATG
1 GGGGTAAAATCAGTCATTTTACCCTATG
*** * * *
29689309 GGGGTATTTTGA-TCATTTTAACCTATC
1 GGGGTAAAATCAGTCATTTTACCCTATG
** *
29689336 GGGGT-ATTTCAGCCATTTTACCCTAT-
1 GGGGTAAAATCAGTCATTTTACCCTATG
* * * ** * *
29689362 AGAGTTATTTCGGTCATTTTATCCTATG
1 GGGGTAAAATCAGTCATTTTACCCTATG
* ** *
29689390 AGGGT-ATTTCGGTCATTTTACCCTATG
1 GGGGTAAAATCAGTCATTTTACCCTATG
*** * * *
29689417 GGGGTATTTTGA-TCATTTTAACCTATC
1 GGGGTAAAATCAGTCATTTTACCCTATG
** *
29689444 GGGGT-ATTTCAGCCATTTTACCCTAT-
1 GGGGTAAAATCAGTCATTTTACCCTATG
* * * ** * *
29689470 AGAGTTATTTCGGTCATTTTATCCTATG
1 GGGGTAAAATCAGTCATTTTACCCTATG
* ** *
29689498 AGGGT-ATTTCGGTCATTTTACCCTATG
1 GGGGTAAAATCAGTCATTTTACCCTATG
*** * * *
29689525 GGGGTATTTTGA-TCATTTTAACCTATC
1 GGGGTAAAATCAGTCATTTTACCCTATG
** *
29689552 GGGGT-ATTTCAGCCATTTTACCCTAT-
1 GGGGTAAAATCAGTCATTTTACCCTATG
* * * ** * *
29689578 AGAGTTATTTCGGTCATTTTATCCTATG
1 GGGGTAAAATCAGTCATTTTACCCTATG
* ** *
29689606 AGGGT-ATTTCGGTCATTTTACCCTATG
1 GGGGTAAAATCAGTCATTTTACCCTATG
** *
29689633 GGGGT-ATTTCAGTTATTTTACCCTAT
1 GGGGTAAAATCAGTCATTTTACCCTAT
29689659 TTTGGGGTCT
Statistics
Matches: 307, Mismatches: 57, Indels: 26
0.79 0.15 0.07
Matches are distributed among these distances:
26 23 0.07
27 263 0.86
28 21 0.07
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.42
Consensus pattern (28 bp):
GGGGTAAAATCAGTCATTTTACCCTATG
Found at i:29689642 original size:54 final size:53
Alignment explanation
Indices: 29689266--29689658 Score: 462
Period size: 54 Copynumber: 7.3 Consensus size: 53
29689256 GGGTAAAATA
* * *
29689266 GTCATTTTACCCTGTGGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTTG
1 GTCATTTTAACCTAT-GGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCG
* * * * * *
29689320 ATCATTTTAACCTATCGGGGTATTTCAGCCATTTTACCCTATAGAGTTATTTCG
1 GTCATTTTAACCTAT-GGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCG
* *
29689374 GTCATTTTATCCTATGAGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTTG
1 GTCATTTTAACCTATG-GGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCG
* * * * * *
29689428 ATCATTTTAACCTATCGGGGTATTTCAGCCATTTTACCCTATAGAGTTATTTCG
1 GTCATTTTAACCTAT-GGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCG
* *
29689482 GTCATTTTATCCTATGAGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTTG
1 GTCATTTTAACCTATG-GGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCG
* * * * * *
29689536 ATCATTTTAACCTATCGGGGTATTTCAGCCATTTTACCCTATAGAGTTATTTCG
1 GTCATTTTAACCTAT-GGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCG
* *
29689590 GTCATTTTATCCTATGAGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCA
1 GTCATTTTAACCTATG-GGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCG
* *
29689644 GTTATTTTACCCTAT
1 GTCATTTTAACCTAT
29689659 TTTGGGGTCT
Statistics
Matches: 282, Mismatches: 52, Indels: 10
0.82 0.15 0.03
Matches are distributed among these distances:
53 3 0.01
54 277 0.98
55 2 0.01
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.43
Consensus pattern (53 bp):
GTCATTTTAACCTATGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCG
Found at i:29689658 original size:108 final size:108
Alignment explanation
Indices: 29689266--29689641 Score: 725
Period size: 108 Copynumber: 3.5 Consensus size: 108
29689256 GGGTAAAATA
* * *
29689266 GTCATTTTACCCTGTGGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTTGATCATTTTAAC
1 GTCATTTTATCCTATGAGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTTGATCATTTTAAC
29689331 CTATCGGGGTATTTCAGCCATTTTACCCTATAGAGTTATTTCG
66 CTATCGGGGTATTTCAGCCATTTTACCCTATAGAGTTATTTCG
29689374 GTCATTTTATCCTATGAGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTTGATCATTTTAAC
1 GTCATTTTATCCTATGAGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTTGATCATTTTAAC
29689439 CTATCGGGGTATTTCAGCCATTTTACCCTATAGAGTTATTTCG
66 CTATCGGGGTATTTCAGCCATTTTACCCTATAGAGTTATTTCG
29689482 GTCATTTTATCCTATGAGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTTGATCATTTTAAC
1 GTCATTTTATCCTATGAGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTTGATCATTTTAAC
29689547 CTATCGGGGTATTTCAGCCATTTTACCCTATAGAGTTATTTCG
66 CTATCGGGGTATTTCAGCCATTTTACCCTATAGAGTTATTTCG
29689590 GTCATTTTATCCTATGAGGGTATTTCGGTCATTTTACCCTATGGGGGTATTT
1 GTCATTTTATCCTATGAGGGTATTTCGGTCATTTTACCCTATGGGGGTATTT
29689642 CAGTTATTTT
Statistics
Matches: 265, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
108 265 1.00
ACGTcount: A:0.19, C:0.18, G:0.20, T:0.43
Consensus pattern (108 bp):
GTCATTTTATCCTATGAGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTTGATCATTTTAAC
CTATCGGGGTATTTCAGCCATTTTACCCTATAGAGTTATTTCG
Found at i:29693478 original size:24 final size:24
Alignment explanation
Indices: 29693391--29693483 Score: 98
Period size: 24 Copynumber: 3.9 Consensus size: 24
29693381 CGTTATTAGG
* *
29693391 AAAGGATGAATTGACAG-ATATGT
1 AAAGGATGAATTGACGGAAAATGT
* * *
29693414 AAAGGATCAATTGATGAAAAATGT
1 AAAGGATGAATTGACGGAAAATGT
* * *
29693438 AAAGGAGGAACTAACGGAAAATGT
1 AAAGGATGAATTGACGGAAAATGT
*
29693462 AAAGGATGAATTGACGGCAAAT
1 AAAGGATGAATTGACGGAAAAT
29693484 TGTCTAGGTA
Statistics
Matches: 54, Mismatches: 15, Indels: 1
0.77 0.21 0.01
Matches are distributed among these distances:
23 13 0.24
24 41 0.76
ACGTcount: A:0.47, C:0.06, G:0.26, T:0.20
Consensus pattern (24 bp):
AAAGGATGAATTGACGGAAAATGT
Found at i:29702330 original size:30 final size:30
Alignment explanation
Indices: 29702282--29702346 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
29702272 AAGTGAACCA
*
29702282 AAATTTTTAAATTCAAAAAGTA-GAGAAATT
1 AAATTTTTAAAATCAAAAAGTATG-GAAATT
*
29702312 AAATTTTTAAAAAT-AAAAAGTATGGAGATT
1 AAATTTTT-AAAATCAAAAAGTATGGAAATT
29702342 AAATT
1 AAATT
29702347 CTAAATATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
30 26 0.84
31 5 0.16
ACGTcount: A:0.54, C:0.02, G:0.11, T:0.34
Consensus pattern (30 bp):
AAATTTTTAAAATCAAAAAGTATGGAAATT
Found at i:29704425 original size:29 final size:28
Alignment explanation
Indices: 29704360--29704425 Score: 69
Period size: 30 Copynumber: 2.3 Consensus size: 28
29704350 TTAATTTAAC
* * * *
29704360 AAATTATATTTTAAATTTAATATTTATT
1 AAATAATATTTTAAAGTTAATATTAAAT
*
29704388 AATAGAATATTTTAAAAGTTAATATTAAAT
1 AA-ATAATATTTT-AAAGTTAATATTAAAT
29704418 AAATAATA
1 AAATAATA
29704426 AGTTCAAGCT
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
28 2 0.07
29 13 0.43
30 15 0.50
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (28 bp):
AAATAATATTTTAAAGTTAATATTAAAT
Found at i:29704670 original size:11 final size:11
Alignment explanation
Indices: 29704651--29704682 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
29704641 TTGGATTTCC
29704651 AAAAA-AAAAA
1 AAAAAGAAAAA
29704661 AAAAAGAAAAA
1 AAAAAGAAAAA
29704672 AAAAAGAAAAA
1 AAAAAGAAAAA
29704683 GAAATTAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.24
11 16 0.76
ACGTcount: A:0.94, C:0.00, G:0.06, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAA
Found at i:29704673 original size:17 final size:17
Alignment explanation
Indices: 29704651--29704686 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
29704641 TTGGATTTCC
29704651 AAAAAAAAAAAAAAAGA
1 AAAAAAAAAAAAAAAGA
*
29704668 AAAAAAAAAGAAAAAGA
1 AAAAAAAAAAAAAAAGA
29704685 AA
1 AA
29704687 TTAATTACAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAAAAAAAGA
Found at i:29705165 original size:6 final size:6
Alignment explanation
Indices: 29705132--29705170 Score: 51
Period size: 6 Copynumber: 6.2 Consensus size: 6
29705122 TTTTATTATA
*
29705132 TTTAAT TTTAAA TTTAAT TCTTATAT TTTAAT TTTAAT T
1 TTTAAT TTTAAT TTTAAT T-TTA-AT TTTAAT TTTAAT T
29705171 ATTTAGTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 20 0.69
7 6 0.21
8 3 0.10
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (6 bp):
TTTAAT
Found at i:29705180 original size:25 final size:26
Alignment explanation
Indices: 29705123--29705187 Score: 73
Period size: 25 Copynumber: 2.5 Consensus size: 26
29705113 TTTTAGTCCT
29705123 TTTATTATA-TTTAATTTTAAATTTA
1 TTTATTATATTTTAATTTTAAATTTA
* *
29705148 ATTCTTATATTTTAATTTT-AA-TTA
1 TTTATTATATTTTAATTTTAAATTTA
29705172 TTTAGTTATACTTTTA
1 TTTA-TTATA-TTTTA
29705188 TAATGTTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
24 5 0.15
25 14 0.42
26 14 0.42
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (26 bp):
TTTATTATATTTTAATTTTAAATTTA
Found at i:29708513 original size:48 final size:47
Alignment explanation
Indices: 29708450--29708540 Score: 137
Period size: 48 Copynumber: 1.9 Consensus size: 47
29708440 AACACACCAT
* *
29708450 TTGTTGACAAGCCACCACATAAATGCCGATAAACGACCACATAACACA
1 TTGTGGACAAACCACCACATAAATGCCGAT-AACGACCACATAACACA
**
29708498 TTGTGGACAAACCACCACATATTTGCCGATAACGACCACATAA
1 TTGTGGACAAACCACCACATAAATGCCGATAACGACCACATAA
29708541 TCGCAAATAA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
47 13 0.33
48 26 0.67
ACGTcount: A:0.40, C:0.29, G:0.13, T:0.19
Consensus pattern (47 bp):
TTGTGGACAAACCACCACATAAATGCCGATAACGACCACATAACACA
Found at i:29708776 original size:15 final size:16
Alignment explanation
Indices: 29708756--29708793 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
29708746 TTTTCACATA
*
29708756 CACATGTTTAAGTC-T
1 CACATGTTTAAATCAT
*
29708771 CACATGCTTAAATCAT
1 CACATGTTTAAATCAT
29708787 CACATGT
1 CACATGT
29708794 ATCACATAAG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 12 0.63
16 7 0.37
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.34
Consensus pattern (16 bp):
CACATGTTTAAATCAT
Found at i:29710823 original size:16 final size:16
Alignment explanation
Indices: 29710802--29710832 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
29710792 CTTGTAGAAA
29710802 AATCCAAAATCAAAAC
1 AATCCAAAATCAAAAC
*
29710818 AATCCAAAGTCAAAA
1 AATCCAAAATCAAAA
29710833 AGAAAATCCC
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:0.61, C:0.23, G:0.03, T:0.13
Consensus pattern (16 bp):
AATCCAAAATCAAAAC
Found at i:29711048 original size:22 final size:22
Alignment explanation
Indices: 29711022--29711066 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
29711012 AGATCAACAC
29711022 AAATAT-AATCACATACATATCA
1 AAATATCAATCACAT-CATATCA
*
29711044 AAATATCAATCTCATCATATCA
1 AAATATCAATCACATCATATCA
29711066 A
1 A
29711067 TCATCATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.51, C:0.20, G:0.00, T:0.29
Consensus pattern (22 bp):
AAATATCAATCACATCATATCA
Found at i:29714003 original size:25 final size:25
Alignment explanation
Indices: 29713975--29714023 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
29713965 AAATGATACG
*
29713975 CCACAAA-AGCTTTTTAGAGAATTTA
1 CCACAAAGA-CTTTCTAGAGAATTTA
29714000 CCACAAAGACTTTCTAGAGAATTT
1 CCACAAAGACTTTCTAGAGAATTT
29714024 TCAAGTTTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.31
Consensus pattern (25 bp):
CCACAAAGACTTTCTAGAGAATTTA
Found at i:29714013 original size:50 final size:50
Alignment explanation
Indices: 29713900--29714013 Score: 122
Period size: 50 Copynumber: 2.3 Consensus size: 50
29713890 ACAAGATTAG
* * **
29713900 CCACAAAGGCTTTTCAAATGATATGCCGTAAAGACTTTCTAGAGAACTCA
1 CCACAAAGGCTTTCCAAATGATACGCCCAAAAGACTTTCTAGAGAACTCA
* * * * *
29713950 CTATAAAGGCTTTCCAAATGATACGCCACAAAAG-CTTTTTAGAGAATTTA
1 CCACAAAGGCTTTCCAAATGATACGCC-CAAAAGACTTTCTAGAGAACTCA
*
29714000 CCACAAAGACTTTC
1 CCACAAAGGCTTTC
29714014 TAGAGAATTT
Statistics
Matches: 51, Mismatches: 12, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
50 47 0.92
51 4 0.08
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.27
Consensus pattern (50 bp):
CCACAAAGGCTTTCCAAATGATACGCCCAAAAGACTTTCTAGAGAACTCA
Found at i:29715622 original size:44 final size:44
Alignment explanation
Indices: 29715566--29715672 Score: 142
Period size: 44 Copynumber: 2.4 Consensus size: 44
29715556 AGGCAACATA
* * * *
29715566 CAAAATAAGCCACAAAGGCTCATAGAATGCCACAAAAGCCAAAT
1 CAAAATACGCCACAAAGGATAACAGAATGCCACAAAAGCCAAAT
* *
29715610 TAAAATACGCCACAAAGGATAACAGAATGCCACAAAGGCCAAAT
1 CAAAATACGCCACAAAGGATAACAGAATGCCACAAAAGCCAAAT
**
29715654 CAAAATACATCACAAAGGA
1 CAAAATACGCCACAAAGGA
29715673 GACACAAGGT
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 54 1.00
ACGTcount: A:0.51, C:0.23, G:0.14, T:0.11
Consensus pattern (44 bp):
CAAAATACGCCACAAAGGATAACAGAATGCCACAAAAGCCAAAT
Found at i:29719805 original size:20 final size:20
Alignment explanation
Indices: 29719782--29719821 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
29719772 GGCTCATCTC
29719782 GACGTTG-TAAGGCTTGTTGA
1 GACGTTGATAA-GCTTGTTGA
29719802 GACGTTGAATAAGCTTGTTG
1 GACGTTG-ATAAGCTTGTTG
29719822 GGACAACATG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 8 0.44
22 3 0.17
ACGTcount: A:0.23, C:0.10, G:0.33, T:0.35
Consensus pattern (20 bp):
GACGTTGATAAGCTTGTTGA
Found at i:29722810 original size:21 final size:22
Alignment explanation
Indices: 29722781--29722822 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
29722771 AATAATAAAC
*
29722781 AAATAAAAAG-TAGCACACTAA
1 AAATAAAAAGTTAGAACACTAA
*
29722802 AAATTAAAAGTTAGAACACTA
1 AAATAAAAAGTTAGAACACTA
29722823 TCTAGCTTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.60, C:0.12, G:0.10, T:0.19
Consensus pattern (22 bp):
AAATAAAAAGTTAGAACACTAA
Found at i:29723194 original size:18 final size:18
Alignment explanation
Indices: 29723171--29723209 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
29723161 AAATTAAAAT
*
29723171 ATTAATTAAACTAATTAA
1 ATTAATTAAACTAATGAA
*
29723189 ATTAATTAACCTAATGAA
1 ATTAATTAAACTAATGAA
29723207 ATT
1 ATT
29723210 TCCTATTCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.51, C:0.08, G:0.03, T:0.38
Consensus pattern (18 bp):
ATTAATTAAACTAATGAA
Found at i:29725789 original size:13 final size:13
Alignment explanation
Indices: 29725769--29725829 Score: 59
Period size: 13 Copynumber: 4.7 Consensus size: 13
29725759 AGTTATTCAT
29725769 TACTTTTGAGAAG
1 TACTTTTGAGAAG
* * *
29725782 TGCTTTTGAAAAA
1 TACTTTTGAGAAG
* *
29725795 TATTTTTAAGAAG
1 TACTTTTGAGAAG
**
29725808 TGTTTTTGAGAAG
1 TACTTTTGAGAAG
29725821 TACTTTTGA
1 TACTTTTGA
29725830 AAAAATTTAG
Statistics
Matches: 36, Mismatches: 12, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
13 36 1.00
ACGTcount: A:0.31, C:0.05, G:0.20, T:0.44
Consensus pattern (13 bp):
TACTTTTGAGAAG
Found at i:29725827 original size:26 final size:26
Alignment explanation
Indices: 29725769--29725827 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 26
29725759 AGTTATTCAT
*
29725769 TACTTTTGAGAAGTGCTTTTGAAAAA
1 TACTTTTAAGAAGTGCTTTTGAAAAA
* * * *
29725795 TATTTTTAAGAAGTGTTTTTGAGAAG
1 TACTTTTAAGAAGTGCTTTTGAAAAA
29725821 TACTTTT
1 TACTTTT
29725828 GAAAAAATTT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.31, C:0.05, G:0.19, T:0.46
Consensus pattern (26 bp):
TACTTTTAAGAAGTGCTTTTGAAAAA
Found at i:29731211 original size:23 final size:23
Alignment explanation
Indices: 29731181--29731226 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
29731171 TAAGGCAGTA
29731181 TAGGCCAAGGCAATTTATACCTG
1 TAGGCCAAGGCAATTTATACCTG
29731204 TAGGCCAAGGCAATTTATACCTG
1 TAGGCCAAGGCAATTTATACCTG
29731227 CAACCCAAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (23 bp):
TAGGCCAAGGCAATTTATACCTG
Found at i:29731234 original size:23 final size:23
Alignment explanation
Indices: 29731185--29731236 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
29731175 GCAGTATAGG
* **
29731185 CCAAGGCAATTTATACCTGTAGG
1 CCAAGGCAATTTATACCTGCAAC
29731208 CCAAGGCAATTTATACCTGCAAC
1 CCAAGGCAATTTATACCTGCAAC
29731231 CCAAGG
1 CCAAGG
29731237 TATAGCTGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.21
Consensus pattern (23 bp):
CCAAGGCAATTTATACCTGCAAC
Found at i:29741270 original size:266 final size:268
Alignment explanation
Indices: 29740835--29741345 Score: 749
Period size: 266 Copynumber: 1.9 Consensus size: 268
29740825 ACGACAACTG
* * * *
29740835 TTATTTCCCTGGCGTTGTAGCGGAGCAGATTGAAGTCACGACGGCGAATCTTATCTCCCTGGCGC
1 TTATTTCCCTGGCGTTGTAGCGGAGCAGATTAAAGCCACAACGGCAAATCTTATCTCCCTGGCGC
* * * * *
29740900 TAAGGCTTGGCTTAGCTGAAGTGGAGTGGATTGAAGCTATGGGCGGCGAATCCTATCTCTTTGGC
66 TAAAGCTTAGATTAGCTGAAGAGGAGTGGATTGAAGCTATGGGCAGCGAATCCTATCTCTTTGGC
* * * * **
29740965 ATTACAGTAGACCAGATTGAAACCACGACGGTGAATCTTACTCCC-TGGTGGTGTAGTGGAACAG
131 ATTACAGTAGAACAAATTGAAACCACAACGGCGAATCTTACTCCCTTGGCAGTGTAGTGGAACAG
* ** * *
29741029 ATTAAAGCTACGACGGTGAGTCTCGTTTCCCCAACATTGCAA-TTTGAAATATTAAAGCCGTAAT
196 ATTAAAGCTACGACAGCAAATCTCGTTTCCCAAACATTGCAATTTTGAAATATTAAAGCCGTAAT
29741093 GGTGAATC
261 GGTGAATC
*
29741101 TTATTTCCCTGGCGTTGTAGCGGAGCAGATTAAAGCCACAACGGCAAATCTTATCTCCCTGGCGT
1 TTATTTCCCTGGCGTTGTAGCGGAGCAGATTAAAGCCACAACGGCAAATCTTATCTCCCTGGCGC
*
29741166 TAAAGCTTAGATTAGCTGAAGAGGAGTGGATTGAAGCTGTGGGCAGCGAATCCTATCTCTTTGGC
66 TAAAGCTTAGATTAGCTGAAGAGGAGTGGATTGAAGCTATGGGCAGCGAATCCTATCTCTTTGGC
* *
29741231 ATTACAGTGGAACAAATT-AAAGCCGCAACGGCGAATCTTACTCCCTTGGCAGTGTAGTGGAACA
131 ATTACAGTAGAACAAATTGAAA-CCACAACGGCGAATCTTACTCCCTTGGCAGTGTAGTGGAACA
* * *
29741295 GATTGAAGCTACGACAGCAAATCTTGTTTCCCAAACATTGTAATTTTGAAA
195 GATTAAAGCTACGACAGCAAATCTCGTTTCCCAAACATTGCAATTTTGAAA
29741346 AAATTGAAGA
Statistics
Matches: 215, Mismatches: 27, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
265 3 0.01
266 154 0.72
267 51 0.24
268 7 0.03
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (268 bp):
TTATTTCCCTGGCGTTGTAGCGGAGCAGATTAAAGCCACAACGGCAAATCTTATCTCCCTGGCGC
TAAAGCTTAGATTAGCTGAAGAGGAGTGGATTGAAGCTATGGGCAGCGAATCCTATCTCTTTGGC
ATTACAGTAGAACAAATTGAAACCACAACGGCGAATCTTACTCCCTTGGCAGTGTAGTGGAACAG
ATTAAAGCTACGACAGCAAATCTCGTTTCCCAAACATTGCAATTTTGAAATATTAAAGCCGTAAT
GGTGAATC
Found at i:29741458 original size:44 final size:44
Alignment explanation
Indices: 29741361--29741527 Score: 117
Period size: 44 Copynumber: 3.8 Consensus size: 44
29741351 GAAGACGACA
*
29741361 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGCCAAT
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACCAAT
* * * * **
29741405 AATCCTATCTCCCTGATGTTGCGGTGGAGTGGATTAAAACCACA-
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACCA-AT
* * * * * * * * * *
29741449 GATCTTATCTCTCTGAAGGTGCAGTAGAGTAGA-TCACATC--G
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACCAAT
**
29741490 GGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTTAA
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGA-TTAA
29741528 GAAAGCAAGT
Statistics
Matches: 94, Mismatches: 25, Indels: 9
0.73 0.20 0.07
Matches are distributed among these distances:
41 27 0.29
43 6 0.06
44 60 0.64
45 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACCAAT
Found at i:29742745 original size:11 final size:11
Alignment explanation
Indices: 29742729--29742762 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
29742719 CGGCGTGGTG
*
29742729 GCCGATGACTA
1 GCCGATGACCA
*
29742740 GCCGATGACCG
1 GCCGATGACCA
29742751 GCCGATGACCA
1 GCCGATGACCA
29742762 G
1 G
29742763 GCCCTGGTCG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.24, C:0.32, G:0.32, T:0.12
Consensus pattern (11 bp):
GCCGATGACCA
Found at i:29751192 original size:12 final size:12
Alignment explanation
Indices: 29751144--29751192 Score: 71
Period size: 12 Copynumber: 4.0 Consensus size: 12
29751134 TAGTAGTTTC
*
29751144 TTCAAAAAAAAT
1 TTCAAAAAAAAA
*
29751156 TTCGAAAAAAAA
1 TTCAAAAAAAAA
29751168 TTCAAAAAAAAAA
1 TTC-AAAAAAAAA
29751181 TTCAAAAAAAAA
1 TTCAAAAAAAAA
29751193 ATTTTGGTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
12 22 0.67
13 11 0.33
ACGTcount: A:0.71, C:0.08, G:0.02, T:0.18
Consensus pattern (12 bp):
TTCAAAAAAAAA
Found at i:29751192 original size:13 final size:13
Alignment explanation
Indices: 29751147--29751195 Score: 73
Period size: 13 Copynumber: 3.8 Consensus size: 13
29751137 TAGTTTCTTC
*
29751147 AAAAAAAATTTC-
1 AAAAAAAAATTCA
*
29751159 GAAAAAAAATTCA
1 AAAAAAAAATTCA
29751172 AAAAAAAAATTCA
1 AAAAAAAAATTCA
29751185 AAAAAAAAATT
1 AAAAAAAAATT
29751196 TTGGTTTCCA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
12 10 0.30
13 23 0.70
ACGTcount: A:0.73, C:0.06, G:0.02, T:0.18
Consensus pattern (13 bp):
AAAAAAAAATTCA
Found at i:29751257 original size:15 final size:15
Alignment explanation
Indices: 29751234--29751290 Score: 78
Period size: 16 Copynumber: 3.7 Consensus size: 15
29751224 GATATCAAGT
*
29751234 TGAAAAAAAATTTTCA
1 TGAAAAAAAA-TTTCG
*
29751250 TGAAAAAAAAATTCG
1 TGAAAAAAAATTTCG
29751265 TGAAAAAAAAATTTCG
1 TG-AAAAAAAATTTCG
29751281 TGAAAAAAAA
1 TGAAAAAAAA
29751291 GAAGAAGCTA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
15 13 0.35
16 24 0.65
ACGTcount: A:0.61, C:0.05, G:0.11, T:0.23
Consensus pattern (15 bp):
TGAAAAAAAATTTCG
Found at i:29763487 original size:24 final size:27
Alignment explanation
Indices: 29763436--29763489 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
29763426 CTTTTTCACG
* *
29763436 TTCTTTTCTTCTTGTTCCATACATTTC
1 TTCTTTTCTTCTTGCTCCACACATTTC
29763463 TTCTTTTCTTCTT-CTCC-CACA-TTC
1 TTCTTTTCTTCTTGCTCCACACATTTC
29763487 TTC
1 TTC
29763490 GTAGCACGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 6 0.24
25 3 0.12
26 3 0.12
27 13 0.52
ACGTcount: A:0.09, C:0.31, G:0.02, T:0.57
Consensus pattern (27 bp):
TTCTTTTCTTCTTGCTCCACACATTTC
Found at i:29763906 original size:12 final size:12
Alignment explanation
Indices: 29763889--29763922 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
29763879 GTTTTGTGAG
29763889 CACACGGGTGGC
1 CACACGGGTGGC
*
29763901 CACACGGGTGGT
1 CACACGGGTGGC
29763913 CACACGGGTG
1 CACACGGGTG
29763923 TGTGAAGTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.18, C:0.29, G:0.41, T:0.12
Consensus pattern (12 bp):
CACACGGGTGGC
Found at i:29764022 original size:15 final size:17
Alignment explanation
Indices: 29763992--29764023 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
29763982 GTTCGCCAAC
29763992 TTTTGTACTGTGTTTGT
1 TTTTGTACTGTGTTTGT
29764009 TTTTG-ACT-TGTTTGT
1 TTTTGTACTGTGTTTGT
29764024 GATCTTGTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.06, C:0.06, G:0.22, T:0.66
Consensus pattern (17 bp):
TTTTGTACTGTGTTTGT
Found at i:29767510 original size:659 final size:658
Alignment explanation
Indices: 29766208--29767513 Score: 2066
Period size: 659 Copynumber: 2.0 Consensus size: 658
29766198 AGCTTGTGTC
* *
29766208 GCTCACCCCCCTCAATTTCCCTTACAGATACATTTTTGAATTCTGACACTGAACTCGATATGCAG
1 GCTCACCCCCCTCAATTTCCCTTACAGATACATTTCTGAATTATGACACTGAACTCGATATGCAG
* * * *
29766273 AGGTCTCGGACAGTCTCGGATAAAAATAAATTAACAGTTCTTCTTTTCAATTTCGATTTTGTTAT
66 AGGTCTCGGACAGTCTCGAATAAAAATAAATTAACAGTTCTTATTTTCAATTTCCATTTTGTAAT
* * * * *
29766338 ATAGTCTTGAACTGTAAGGTTTTATAAAATCTGTGGTACAAGTTCTATTTTTTATTTTTCTCGTA
131 ACAGTCTTGAACTGTAAGGCTTTATAAAATCTATGGTACAAGTTCTATTTTTGATTTTTCTCATA
* *
29766403 AATCTTACTTTGTTCATACATTAAACTTATCTGTTTTATTTTCTGATGAAGATCCAGAGGATTAA
196 AATCTTACTTTATTCATAAATTAAACTTATCTGTTTTATTTTCTGATGAAGATCCAGAGGATTAA
* *
29766468 ATGTTCTTGTTTCGTAAAGTAATAAATATGTATGTAATGAAATTTGAGATAATTTATTTTGTAAA
261 ATGTTCTTGGTTCATAAAGTAATAAATATGTATGTAATGAAATTTGAGATAATTTATTTTGTAAA
*
29766533 AATTTCATTTGATCACATCGATGATCAATATAACCTCCGGTATTCGGTCTAACTTCTAGGTCGGG
326 AATTTCATTCGATCACATCGATGATCAATATAACCTCCGGTATTCGGTCTAACTTCTAGGTCGGG
*
29766598 TTTTGGGGCGTTACATTTAGTGGTAGTAGAGTAGGTTTGCAAAAACTCGGCGTGTATTTTTACGT
391 TTTTGGGGCGTTACATTTAGTGGTAGTAGAGTAGGTTTGCAAAAACTCGACGTGTATTTTTACGT
29766663 ATCCGTGTGCGCGCGTGTTCATTTTAAAAAAAAAGTTTTGAGAAATCGTACCACATTATTTTGAA
456 ATCCGTGTGCGCGCGTGTTCATTTTAAAAAAAAAGTTTTGAGAAATCGTACCACATTATTTTGAA
* *
29766728 ATGATATTTGTGTCACTGATTTTTGAGGAGATAAAATGTCTTAGACTTCGATGCTGGTCCAGGGT
521 ATGATATTTGTGTCACTGATTTTTGAGGAGATAAAATGTCTTAGACTCCGATGCTGGTCCACGGT
* *
29766793 GAAAATTCGTAACTATAAGATTAGATATTTTGATTTTCGTATTTATTTTGTGTTTGTTTTCTNTA
586 GAAAATTCGTAACTATAAGATTAGAAATATTGATTTTCGTATTTATTTTGTGTTTGTTTTCT-TA
29766858 AGCTCGTTA
650 AGCTCGTTA
* * * * ** * * *
29766867 GCTCACCCCCTTCAGTTTCCCTTGCAGGA-ACATTTCTGGATTATGATGCTGGACTCGGTATGCG
1 GCTCACCCCCCTCAATTTCCCTTACA-GATACATTTCTGAATTATGACACTGAACTCGATATGCA
* *
29766931 GAGGTCTCGGGCAGTCTCGAATAAAAATAAATTAACAGTTCTTATTTTCAGTTTCCATTTTGTAA
65 GAGGTCTCGGACAGTCTCGAATAAAAATAAATTAACAGTTCTTATTTTCAATTTCCATTTTGTAA
*
29766996 TACGGTCTT-AGACTGTAAGGCTTTATAAAATCTATGGTACAAGTTCTATTTTTGATTTTTCTCA
130 TACAGTCTTGA-ACTGTAAGGCTTTATAAAATCTATGGTACAAGTTCTATTTTTGATTTTTCTCA
29767060 TAAATCTTACTTTATTCATAAATTAAACTTATCTGTTTTATTTTCTGATTG-AGATCCAGAGGAT
194 TAAATCTTACTTTATTCATAAATTAAACTTATCTGTTTTATTTTCTGA-TGAAGATCCAGAGGAT
*
29767124 TAAATGTTCTTGGTTCATAAAGTAATAAATATGTATGTAATGGAATTTGAGATAATTTATTTTGT
258 TAAATGTTCTTGGTTCATAAAGTAATAAATATGTATGTAATGAAATTTGAGATAATTTATTTTGT
* * * *
29767189 AAAAATTTCCTTCGATCACTTCGGTGATCAATATAACCTCTGGTATTCGGTCTAACTTCTA-GTC
323 AAAAATTTCATTCGATCACATCGATGATCAATATAACCTCCGGTATTCGGTCTAACTTCTAGGTC
* * *
29767253 TGGGTTTTGGGGCGTTACATTTAGTGGTATTAGAGCTAGGTTTGTAAAAACTTGACGTGTATTTT
388 -GGGTTTTGGGGCGTTACATTTAGTGGTAGTAGAG-TAGGTTTGCAAAAACTCGACGTGTATTTT
* * * *
29767318 TACGTATTCGTTTGCGCGCGTGTTCATTTT-TAAAAAAAGTTTTGATAAATCGTACCACATTATT
451 TACGTATCCGTGTGCGCGCGTGTTCATTTTAAAAAAAAAGTTTTGAGAAATCGTACCACATTATT
* *
29767382 TTGAAATGATATTTGTTTCACTGA-TTTTGAGGAGATAAAATGTCTTAGACTCCGATGTTGGTCC
516 TTGAAATGATATTTGTGTCACTGATTTTTGAGGAGATAAAATGTCTTAGACTCCGATGCTGGTCC
* *
29767446 ACGGTGAAAATTCGTAACTGTAAGATTAGAAATATTGATTTTCGTATTTATTTTGGTTTTTGTTT
581 ACGGTGAAAATTCGTAACTATAAGATTAGAAATATTGATTTTCGTATTTATTTT-GTGTTTGTTT
29767511 TCT
645 TCT
29767514 GAAAATGTAG
Statistics
Matches: 592, Mismatches: 49, Indels: 12
0.91 0.08 0.02
Matches are distributed among these distances:
658 92 0.16
659 442 0.75
660 58 0.10
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.40
Consensus pattern (658 bp):
GCTCACCCCCCTCAATTTCCCTTACAGATACATTTCTGAATTATGACACTGAACTCGATATGCAG
AGGTCTCGGACAGTCTCGAATAAAAATAAATTAACAGTTCTTATTTTCAATTTCCATTTTGTAAT
ACAGTCTTGAACTGTAAGGCTTTATAAAATCTATGGTACAAGTTCTATTTTTGATTTTTCTCATA
AATCTTACTTTATTCATAAATTAAACTTATCTGTTTTATTTTCTGATGAAGATCCAGAGGATTAA
ATGTTCTTGGTTCATAAAGTAATAAATATGTATGTAATGAAATTTGAGATAATTTATTTTGTAAA
AATTTCATTCGATCACATCGATGATCAATATAACCTCCGGTATTCGGTCTAACTTCTAGGTCGGG
TTTTGGGGCGTTACATTTAGTGGTAGTAGAGTAGGTTTGCAAAAACTCGACGTGTATTTTTACGT
ATCCGTGTGCGCGCGTGTTCATTTTAAAAAAAAAGTTTTGAGAAATCGTACCACATTATTTTGAA
ATGATATTTGTGTCACTGATTTTTGAGGAGATAAAATGTCTTAGACTCCGATGCTGGTCCACGGT
GAAAATTCGTAACTATAAGATTAGAAATATTGATTTTCGTATTTATTTTGTGTTTGTTTTCTTAA
GCTCGTTA
Found at i:29768619 original size:24 final size:27
Alignment explanation
Indices: 29768568--29768621 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
29768558 CTTTTTCACG
* *
29768568 TTCTTTTCTTCTTGTTCCATACATTTC
1 TTCTTTTCTTCTTGCTCCACACATTTC
29768595 TTCTTTTCTTCTT-CTCC-CACA-TTC
1 TTCTTTTCTTCTTGCTCCACACATTTC
29768619 TTC
1 TTC
29768622 GTAGCACGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 6 0.24
25 3 0.12
26 3 0.12
27 13 0.52
ACGTcount: A:0.09, C:0.31, G:0.02, T:0.57
Consensus pattern (27 bp):
TTCTTTTCTTCTTGCTCCACACATTTC
Found at i:29769038 original size:12 final size:12
Alignment explanation
Indices: 29769021--29769054 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
29769011 GTTTTGTGAG
29769021 CACACGGGTGGC
1 CACACGGGTGGC
*
29769033 CACACGGGTGGT
1 CACACGGGTGGC
29769045 CACACGGGTG
1 CACACGGGTG
29769055 TGTGAAGTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.18, C:0.29, G:0.41, T:0.12
Consensus pattern (12 bp):
CACACGGGTGGC
Found at i:29769154 original size:15 final size:17
Alignment explanation
Indices: 29769124--29769155 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
29769114 GTTCGCCAAC
29769124 TTTTGTACTGTGTTTGT
1 TTTTGTACTGTGTTTGT
29769141 TTTTG-ACT-TGTTTGT
1 TTTTGTACTGTGTTTGT
29769156 GATCTTGTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.06, C:0.06, G:0.22, T:0.66
Consensus pattern (17 bp):
TTTTGTACTGTGTTTGT
Found at i:29776036 original size:24 final size:24
Alignment explanation
Indices: 29776004--29776049 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
29775994 AGATCTTCAA
*
29776004 ACAAAGGTAAAACTTATAACTTTT
1 ACAAAGGTAAAACCTATAACTTTT
29776028 ACAAAGGTAAAACCTATAACTT
1 ACAAAGGTAAAACCTATAACTT
29776050 CACAAGTACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.48, C:0.15, G:0.09, T:0.28
Consensus pattern (24 bp):
ACAAAGGTAAAACCTATAACTTTT
Found at i:29780639 original size:157 final size:156
Alignment explanation
Indices: 29780371--29780683 Score: 482
Period size: 157 Copynumber: 2.0 Consensus size: 156
29780361 ATCACAATAA
* * * * * *
29780371 AGTGTTATATCTTTTTTCCATATCAAGAATGACTTCAAGATTAGTTAAGAACTTTTGAAGCCAAA
1 AGTGTTATACCTTTTTTCCATATCAAGAATGACTTCAAGATCAATTAAGAAATTTCGAAACCAAA
*
29780436 TTGCTTCATTCGTTGTCTCAAAAGCAACCACATACTTGGCCTCCATAGTAGAGTCAATAGTCCAA
66 TTGCTTCATTCGTTGTCTCAAAAACAACCACATACTTGGCCTCCATAGTAGAGTCAATAGTCCAA
29780501 GTTTGTTTTACACTTATCCATACTAT
131 GTTTGTTTTACACTTATCCATACTAT
* * *
29780527 AGTGTTATACCTTTTTTTTCATATCAGGAATGACTTCAATATCAATTAAGAAATTTCGAAACCAA
1 AGTGTTATACC-TTTTTTCCATATCAAGAATGACTTCAAGATCAATTAAGAAATTTCGAAACCAA
* * *
29780592 ATTGCTTCTTTCGTTGTCTCAAAAACAACCACATACTTGGCCTCCATAGTAGAGTCAGTAGTGCA
65 ATTGCTTCATTCGTTGTCTCAAAAACAACCACATACTTGGCCTCCATAGTAGAGTCAATAGTCCA
* *
29780657 AGTTTGTTTTACACTTCTCCATGCTAT
130 AGTTTGTTTTACACTTATCCATACTAT
29780684 GGCTCCGCCA
Statistics
Matches: 141, Mismatches: 15, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
156 10 0.07
157 131 0.93
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.36
Consensus pattern (156 bp):
AGTGTTATACCTTTTTTCCATATCAAGAATGACTTCAAGATCAATTAAGAAATTTCGAAACCAAA
TTGCTTCATTCGTTGTCTCAAAAACAACCACATACTTGGCCTCCATAGTAGAGTCAATAGTCCAA
GTTTGTTTTACACTTATCCATACTAT
Found at i:29782176 original size:51 final size:50
Alignment explanation
Indices: 29782048--29782178 Score: 165
Period size: 50 Copynumber: 2.6 Consensus size: 50
29782038 TGTGTGTAGG
** * *
29782048 CGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGATTGGTCG
1 CGTGTGTAGTACTATGTGCAGGCTACTACGCATACCGGAATGATTGATCA
* * * *
29782098 CATGTGTAGTACTATGTGCAGGCTACTATGCATATCGG-ATAGTTTCGATCA
1 CGTGTGTAGTACTATGTGCAGGCTACTACGCATACCGGAAT-GATT-GATCA
29782149 CGTGTGTAGTACTATGTGCAGGCTACTACG
1 CGTGTGTAGTACTATGTGCAGGCTACTACG
29782179 TGTATCGGAT
Statistics
Matches: 69, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
49 2 0.03
50 36 0.52
51 31 0.45
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.31
Consensus pattern (50 bp):
CGTGTGTAGTACTATGTGCAGGCTACTACGCATACCGGAATGATTGATCA
Found at i:29782206 original size:51 final size:50
Alignment explanation
Indices: 29782050--29782210 Score: 200
Period size: 51 Copynumber: 3.2 Consensus size: 50
29782040 TGTGTAGGCG
* *
29782050 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATG-ATTGGTCGCA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGG-ATGTATTGGTCACA
* ** * *
29782100 TGTGTAGTACTATGTGCAGGCTACTATGCATATCGGATAGT-TTCGATCACG
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGAT-GTATT-GGTCACA
*
29782151 TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGTAATGGTCACA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGAT-GTATTGGTCACA
29782202 TGTGTAGTA
1 TGTGTAGTA
29782211 GCAAGCTACT
Statistics
Matches: 93, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
49 2 0.02
50 35 0.38
51 55 0.59
52 1 0.01
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.32
Consensus pattern (50 bp):
TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGTATTGGTCACA
Found at i:29782301 original size:45 final size:45
Alignment explanation
Indices: 29782232--29782319 Score: 140
Period size: 45 Copynumber: 2.0 Consensus size: 45
29782222 TGTGAACCGA
* * * *
29782232 ACATTATTGATTAGTAAGGTGGTTGCTATGTGTTGATTCCACCAG
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCAG
29782277 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACC
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACC
29782320 GAGTATCTGT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (45 bp):
ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCAG
Found at i:29785342 original size:9 final size:9
Alignment explanation
Indices: 29785319--29785361 Score: 50
Period size: 9 Copynumber: 4.8 Consensus size: 9
29785309 AAGATCATTT
*
29785319 TTAAAATTC
1 TTAAAATTA
*
29785328 TAAAAATTA
1 TTAAAATTA
*
29785337 TTAAAATCA
1 TTAAAATTA
29785346 TTAAAATTA
1 TTAAAATTA
*
29785355 TAAAAAT
1 TTAAAAT
29785362 ATTTTTTTAA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (9 bp):
TTAAAATTA
Found at i:29785612 original size:16 final size:15
Alignment explanation
Indices: 29785588--29785618 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
29785578 TATTTATTTT
29785588 TATTAATATTATATA
1 TATTAATATTATATA
29785603 TATTACATATTATATA
1 TATTA-ATATTATATA
29785619 ATCTAAGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTAATATTATATA
Found at i:29807380 original size:27 final size:27
Alignment explanation
Indices: 29807342--29807397 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
29807332 AACCGACTAT
29807342 TAGGGATTTTGAATCATTTGAATAAAA
1 TAGGGATTTTGAATCATTTGAATAAAA
29807369 TAGGGATTTTGAATCATTTGAATAAAA
1 TAGGGATTTTGAATCATTTGAATAAAA
29807396 TA
1 TA
29807398 ATCTTATATC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.41, C:0.04, G:0.18, T:0.38
Consensus pattern (27 bp):
TAGGGATTTTGAATCATTTGAATAAAA
Found at i:29809911 original size:51 final size:51
Alignment explanation
Indices: 29809789--29809981 Score: 219
Period size: 51 Copynumber: 3.8 Consensus size: 51
29809779 ATTATTATCA
* * * *
29809789 TTCGATACACGTAATAGCCTTCACATAGTACCACACACGTGATC-AAGTTT
1 TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGTTT
* * * *
29809839 TACGGTCCATGTAGTAACCTTCACATAGTACTACACACGTGACCAAAGTTT
1 TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGTTT
* * * * *
29809890 TTCGGTATACATAGTAGCCTTCACTTAGTACTACACATGTGACCATTA-TTT
1 TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCA-AAGTTT
* **
29809941 ATCAATACACGTAGTAGCCTTCACATAGTACTACACACGTG
1 TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTG
29809982 TTCATCGATA
Statistics
Matches: 117, Mismatches: 24, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
50 36 0.31
51 80 0.68
52 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.30
Consensus pattern (51 bp):
TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGTTT
Found at i:29812218 original size:49 final size:50
Alignment explanation
Indices: 29812154--29812432 Score: 166
Period size: 50 Copynumber: 5.5 Consensus size: 50
29812144 CAAAGCTATG
* * * * *
29812154 TCCCAAATATAGTCTTACATGGGATGTT-TCTTGTA-CTGCCAATGTCATA
1 TCCCAGATATGGTCTTACATGGGA-GTTCTCATATAGCTGCCAATGCCATA
* * * *
29812203 TCCCAGATATGGTCTTAAATGGGAGTTCTCATATAGGTGCCCATGCCATG
1 TCCCAGATATGGTCTTACATGGGAGTTCTCATATAGCTGCCAATGCCATA
* * ** * * * * *
29812253 TCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGGTGCCAACGCCATG
1 TCCCAGATATGGTCTTACATGGGAGTTCTCATATAGCTGCCAATGCCATA
* * ** * * * * *
29812303 TCCCAGACATGGTCTTACACGGGACCTCTCATCTTGGTGCCAACGCCATG
1 TCCCAGATATGGTCTTACATGGGAGTTCTCATATAGCTGCCAATGCCATA
* * ** * *
29812353 TCCTAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGATGCCAATGCCATG
1 TCCCAGATATGGTCTTACATGGGAGTTCTCAT-A--T--A-GCTGCCAATGCCATA
* *
29812409 TCCCAAACATGGTCTTACATGGGA
1 TCCCAGATATGGTCTTACATGGGA
29812433 TCTCATCCTC
Statistics
Matches: 194, Mismatches: 28, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
48 3 0.02
49 26 0.13
50 129 0.66
53 1 0.01
56 35 0.18
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (50 bp):
TCCCAGATATGGTCTTACATGGGAGTTCTCATATAGCTGCCAATGCCATA
Found at i:29812265 original size:50 final size:50
Alignment explanation
Indices: 29812203--29812432 Score: 262
Period size: 50 Copynumber: 4.5 Consensus size: 50
29812193 CAATGTCATA
* * ** * *
29812203 TCCCAGATATGGTCTTAAATGGGAGTTCTCATATAGGTGCCCATGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATATAGGTGCCAACGCCATG
* * *
29812253 TCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGGTGCCAACGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATATAGGTGCCAACGCCATG
* * *
29812303 TCCCAGACATGGTCTTACACGGGACCTCTCATCTTGGTGCCAACGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATATAGGTGCCAACGCCATG
* * *
29812353 TCCTAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGATGCCAATGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCAT-A--T--A-GGTGCCAACGCCATG
*
29812409 TCCCAAACATGGTCTTACATGGGA
1 TCCCAGACATGGTCTTACATGGGA
29812433 TCTCATCCTC
Statistics
Matches: 155, Mismatches: 19, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
50 119 0.77
53 1 0.01
56 35 0.23
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.26
Consensus pattern (50 bp):
TCCCAGACATGGTCTTACATGGGACCTCTCATATAGGTGCCAACGCCATG
Found at i:29812810 original size:30 final size:30
Alignment explanation
Indices: 29812776--29812833 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
29812766 CCTCGACTCT
29812776 AACTTTGACAAAATTACAATTTTGCCCCTA
1 AACTTTGACAAAATTACAATTTTGCCCCTA
* * * *
29812806 AACTTTTACATAATTACACTTTTTCCCC
1 AACTTTGACAAAATTACAATTTTGCCCC
29812834 AAAGCTCGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.33, C:0.26, G:0.03, T:0.38
Consensus pattern (30 bp):
AACTTTGACAAAATTACAATTTTGCCCCTA
Found at i:29817973 original size:23 final size:23
Alignment explanation
Indices: 29817942--29817992 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
29817932 ACCTACTTTC
* *
29817942 TTACTGTAGTAATTTTCGGGGTA
1 TTACAGTAGTAATTTTCGGGATA
29817965 TTACAGTAGTAATTTTCGGGATA
1 TTACAGTAGTAATTTTCGGGATA
29817988 TTACA
1 TTACA
29817993 ACTTCGTCAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.27, C:0.10, G:0.22, T:0.41
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:29821837 original size:51 final size:52
Alignment explanation
Indices: 29821761--29821981 Score: 240
Period size: 51 Copynumber: 4.3 Consensus size: 52
29821751 TATGAACACG
*
29821761 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATC-GATAGATAATGGTCACA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGATAATGGTCACA
* * * *
29821812 TGTGTAGTACTATGTGCAGGCTACTAAGTGTACCGGATGGCCT--TGGTCACA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAG-ATAATGGTCACA
* * * *
29821863 TGTGTAGTACTATGTGCAGGCTACTATGTGAATCGGA-A-A-ACTTGATCACA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGATA-ATGGTCACA
* * *
29821913 TGTGTAGTACTATGTGTAGGCTACTACGTGTATCAGAT-GACAATGGTCACA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGATAATGGTCACA
* * *
29821964 TGGGTGGTACCATGTGCA
1 TGTGTAGTACTATGTGCA
29821982 AACCACCGAA
Statistics
Matches: 141, Mismatches: 21, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
50 40 0.28
51 95 0.67
52 5 0.04
53 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (52 bp):
TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGATAATGGTCACA
Found at i:29821937 original size:101 final size:102
Alignment explanation
Indices: 29821761--29821981 Score: 268
Period size: 101 Copynumber: 2.2 Consensus size: 102
29821751 TATGAACACG
* * *
29821761 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGATAGATAATGGTCACATGTGTAGTACTATG
1 TGTGTAGTACTATGTGCAGGCTACTACGTGAATCGATAGATAATGATCACATGTGTAGTACTATG
* * **
29821826 TGCAGGCTACTAAGTGTACCGGATGGCCTTGGTCACA
66 TGCAGGCTACTAAGTGTACCAGATGACAATGGTCACA
* *
29821863 TGTGTAGTACTATGTGCAGGCTACTATGTGAATCGGA-A-A-ACTTGATCACATGTGTAGTACTA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGAATC-GATAGATA-ATGATCACATGTGTAGTACTA
* * *
29821925 TGTGTAGGCTACTACGTGTATCAGATGACAATGGTCACA
64 TGTGCAGGCTACTAAGTGTACCAGATGACAATGGTCACA
* * *
29821964 TGGGTGGTACCATGTGCA
1 TGTGTAGTACTATGTGCA
29821982 AACCACCGAA
Statistics
Matches: 102, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
100 1 0.01
101 67 0.66
102 32 0.31
103 2 0.02
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (102 bp):
TGTGTAGTACTATGTGCAGGCTACTACGTGAATCGATAGATAATGATCACATGTGTAGTACTATG
TGCAGGCTACTAAGTGTACCAGATGACAATGGTCACA
Found at i:29823501 original size:14 final size:14
Alignment explanation
Indices: 29823478--29823507 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
29823468 AAATATGGAC
29823478 ATCCACATTTATAT
1 ATCCACATTTATAT
*
29823492 ATCCATATTTATAT
1 ATCCACATTTATAT
29823506 AT
1 AT
29823508 TTGTAACATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.17, G:0.00, T:0.47
Consensus pattern (14 bp):
ATCCACATTTATAT
Found at i:29829776 original size:21 final size:21
Alignment explanation
Indices: 29829752--29829857 Score: 95
Period size: 21 Copynumber: 5.0 Consensus size: 21
29829742 CCATAAAGGT
*
29829752 TGAATGGAAGCTCATAAGAGC
1 TGAACGGAAGCTCATAAGAGC
* * * * *
29829773 TGAACTGAAACCCATAAGGGT
1 TGAACGGAAGCTCATAAGAGC
* *
29829794 TAAACGGAAGCTCAAAAGAGC
1 TGAACGGAAGCTCATAAGAGC
* * *
29829815 TGAACGGAAACTCATATGAGT
1 TGAACGGAAGCTCATAAGAGC
* *
29829836 TGAACAGAAGCTCGTAAGAGC
1 TGAACGGAAGCTCATAAGAGC
29829857 T
1 T
29829858 AAACAAAAAG
Statistics
Matches: 62, Mismatches: 23, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
21 62 1.00
ACGTcount: A:0.40, C:0.17, G:0.25, T:0.18
Consensus pattern (21 bp):
TGAACGGAAGCTCATAAGAGC
Found at i:29829787 original size:42 final size:42
Alignment explanation
Indices: 29829722--29829862 Score: 140
Period size: 42 Copynumber: 3.4 Consensus size: 42
29829712 AACAAAAGTA
* * * *
29829722 CATAAGTGCTAAACAGAATCCCATAAAGGTTGAATGGAAGCT
1 CATAAGAGCTGAACAGAAACCCATAAAGGTTGAACGGAAGCT
* * *
29829764 CATAAGAGCTGAACTGAAACCCATAAGGGTTAAACGGAAGCT
1 CATAAGAGCTGAACAGAAACCCATAAAGGTTGAACGGAAGCT
* * * * *
29829806 CAAAAGAGCTGAACGGAAACTCAT-ATGAGTTGAACAGAAGCT
1 CATAAGAGCTGAACAGAAACCCATAAAG-GTTGAACGGAAGCT
* *
29829848 CGTAAGAGCTAAACA
1 CATAAGAGCTGAACA
29829863 AAAAGTAAAC
Statistics
Matches: 81, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
41 2 0.02
42 79 0.98
ACGTcount: A:0.42, C:0.18, G:0.23, T:0.18
Consensus pattern (42 bp):
CATAAGAGCTGAACAGAAACCCATAAAGGTTGAACGGAAGCT
Found at i:29835917 original size:39 final size:40
Alignment explanation
Indices: 29835872--29836043 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
29835862 GCTCCTCGTT
* * *
29835872 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
29835912 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
29835951 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
29835991 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
29836031 CAAATGCCTTCGG
1 CAAATGCCTTCGG
29836044 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.29
40 80 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:29835972 original size:40 final size:39
Alignment explanation
Indices: 29835874--29836096 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
29835864 TCCTCGTTCA
* * * *
29835874 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
29835913 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
29835952 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
29835992 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
29836032 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
29836073 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
29836097 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 40 0.25
40 105 0.67
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:29836056 original size:80 final size:79
Alignment explanation
Indices: 29835872--29836096 Score: 240
Period size: 80 Copynumber: 2.8 Consensus size: 79
29835862 GCTCCTCGTT
* * * * *
29835872 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
29835936 ATTTAATAACTCGCA
65 ATTTAATAACTCGCA
* * *
29835951 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
29836016 AATTT-GTATCTCGCA
64 AATTTAATAACTCGCA
* * * * *
29836031 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
29836095 GA
63 GA
29836097 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 39 0.32
80 69 0.57
81 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAATAACTCGCA
Found at i:29836105 original size:41 final size:41
Alignment explanation
Indices: 29836028--29836105 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
29836018 TTTGTATCTC
* * *
29836028 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
29836069 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
29836106 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:29840632 original size:21 final size:21
Alignment explanation
Indices: 29840594--29840633 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
29840584 AAGCTTGAAC
*
29840594 GCTAAACAGAAGCACATAACT
1 GCTAAACAGAAACACATAACT
*
29840615 GCTAAACAGAAACCCATAA
1 GCTAAACAGAAACACATAA
29840634 GGGTTGAATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.50, C:0.25, G:0.12, T:0.12
Consensus pattern (21 bp):
GCTAAACAGAAACACATAACT
Found at i:29840670 original size:42 final size:41
Alignment explanation
Indices: 29840623--29840745 Score: 131
Period size: 42 Copynumber: 3.0 Consensus size: 41
29840613 CTGCTAAACA
*
29840623 GAAACCCATAAGGGTTGAATGGAAGCTAATAAGAGCTGAACG
1 GAAACCCATAAGGGTTGAATAGAAGCTAATAAGAGCT-AACG
* *
29840665 GAAACCCATAAGGGTTAAACAGAAGCTCAA-AAGAGCTAGACG
1 GAAACCCATAAGGGTTGAATAGAAGCT-AATAAGAGCTA-ACG
* * ** * *
29840707 AAAACTCATTTGAGTTGAATAGAAGCTCATAAGAGCTAA
1 GAAACCCATAAGGGTTGAATAGAAGCTAATAAGAGCTAA
29840746 ACTGAAAGTA
Statistics
Matches: 67, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
41 3 0.04
42 62 0.93
43 2 0.03
ACGTcount: A:0.43, C:0.15, G:0.24, T:0.18
Consensus pattern (41 bp):
GAAACCCATAAGGGTTGAATAGAAGCTAATAAGAGCTAACG
Found at i:29840675 original size:21 final size:21
Alignment explanation
Indices: 29840623--29840676 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 21
29840613 CTGCTAAACA
* * *
29840623 GAAACCCATAAGGGTTGAATG
1 GAAACCCATAAGAGCTGAACG
* **
29840644 GAAGCTAATAAGAGCTGAACG
1 GAAACCCATAAGAGCTGAACG
29840665 GAAACCCATAAG
1 GAAACCCATAAG
29840677 GGTTAAACAG
Statistics
Matches: 24, Mismatches: 9, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.43, C:0.17, G:0.26, T:0.15
Consensus pattern (21 bp):
GAAACCCATAAGAGCTGAACG
Found at i:29845063 original size:18 final size:18
Alignment explanation
Indices: 29845040--29845092 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
29845030 TATTTAATAG
* *
29845040 AACCAAATGGACCGATCA
1 AACCAATTGAACCGATCA
* *
29845058 AACCAATTGTACCAATCA
1 AACCAATTGAACCGATCA
*
29845076 AACTAATTGAACCGATC
1 AACCAATTGAACCGATC
29845093 GAATCGATTA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.43, C:0.26, G:0.11, T:0.19
Consensus pattern (18 bp):
AACCAATTGAACCGATCA
Found at i:29846535 original size:21 final size:21
Alignment explanation
Indices: 29846510--29846551 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
29846500 GATACCTGGT
*
29846510 AAAAGGTATTATTACTTTTTG
1 AAAAGGTATTAGTACTTTTTG
*
29846531 AAAAGGTATTGGTACTTTTTG
1 AAAAGGTATTAGTACTTTTTG
29846552 TAATTGATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.31, C:0.05, G:0.19, T:0.45
Consensus pattern (21 bp):
AAAAGGTATTAGTACTTTTTG
Found at i:29846691 original size:19 final size:19
Alignment explanation
Indices: 29846644--29846695 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
29846634 AAAAGTATAA
29846644 AATCAAGTTAAAATGATTTC
1 AATCAAGTTAAAAT-ATTTC
**
29846664 AATTGAGTTAAACAT-TTTC
1 AATCAAGTTAAA-ATATTTC
29846683 AATCAAGTTAAAA
1 AATCAAGTTAAAA
29846696 CTGTTTTAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
18 1 0.04
19 14 0.52
20 10 0.37
21 2 0.07
ACGTcount: A:0.46, C:0.10, G:0.10, T:0.35
Consensus pattern (19 bp):
AATCAAGTTAAAATATTTC
Found at i:29847826 original size:31 final size:31
Alignment explanation
Indices: 29847751--29847816 Score: 107
Period size: 31 Copynumber: 2.2 Consensus size: 31
29847741 AACAACATAT
* *
29847751 TAATTTAAAT-AAAATTTTTAAATAATTTAA
1 TAATTTAAATAAAAATTTTCAAATAATTCAA
29847781 TAATTTAAATAAAAATTTTCAAATAATTCAA
1 TAATTTAAATAAAAATTTTCAAATAATTCAA
29847812 TAATT
1 TAATT
29847817 ATTTAAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
30 10 0.30
31 23 0.70
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (31 bp):
TAATTTAAATAAAAATTTTCAAATAATTCAA
Found at i:29851247 original size:20 final size:20
Alignment explanation
Indices: 29851222--29851267 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
29851212 TAAATCGATT
*
29851222 CAATATCTTTATTACTGATA
1 CAATATCTCTATTACTGATA
29851242 CAATATCTCTATTACTGATA
1 CAATATCTCTATTACTGATA
*
29851262 TAATAT
1 CAATAT
29851268 TAATATTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.37, C:0.15, G:0.04, T:0.43
Consensus pattern (20 bp):
CAATATCTCTATTACTGATA
Found at i:29853957 original size:43 final size:43
Alignment explanation
Indices: 29853854--29854137 Score: 237
Period size: 43 Copynumber: 6.7 Consensus size: 43
29853844 TCCGTTACTC
* * ** *
29853854 GGTGGATTCAGCACTTAGCAACCA-CTATA-AATTCAGCGATAC
1 GGTGGAATCAGCACTTAGCAACCACCTTTACAATT-AAAGATAT
* * *
29853896 GG-GGAATCAGCACATAGCAACC-CCTTTCACAATTAAGGATTT
1 GGTGGAATCAGCACTTAGCAACCACCTTT-ACAATTAAAGATAT
* * ** *
29853938 GGTGGAATCAGTACTTAGCAACCACCTTTA-TATTCAGTGATAC
1 GGTGGAATCAGCACTTAGCAACCACCTTTACAATT-AAAGATAT
* * *
29853981 GG-GGAATCAACACTTAGCAACC-CCATTCACAATTAAAAATAT
1 GGTGGAATCAGCACTTAGCAACCACC-TTTACAATTAAAGATAT
* * * * *
29854023 GGTGGATTCAGCACATAGCAACCACCTTTA-TATTCAATGATAC
1 GGTGGAATCAGCACTTAGCAACCACCTTTACAATT-AAAGATAT
*
29854066 GG-GGAATCAGCACTTAGCAACC-CCTTTTACAATTAAAAATAT
1 GGTGGAATCAGCACTTAGCAACCACC-TTTACAATTAAAGATAT
*
29854108 GGTGGGATCAGCACTTAGCAACCACCTTTA
1 GGTGGAATCAGCACTTAGCAACCACCTTTA
29854138 GAGTCAATAA
Statistics
Matches: 190, Mismatches: 37, Indels: 29
0.74 0.14 0.11
Matches are distributed among these distances:
41 25 0.13
42 71 0.37
43 85 0.45
44 9 0.05
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.25
Consensus pattern (43 bp):
GGTGGAATCAGCACTTAGCAACCACCTTTACAATTAAAGATAT
Found at i:29853996 original size:42 final size:41
Alignment explanation
Indices: 29853861--29854175 Score: 222
Period size: 43 Copynumber: 7.5 Consensus size: 41
29853851 CTCGGTGGAT
* * *
29853861 TCAGCACTTAGCAACCACTATAAATTCAGCGATACGGGGAA
1 TCAGCACTTAGCAACCCCTTTAAATTCAGTGATACGGGGAA
* * **
29853902 TCAGCACATAGCAACCCCTTTCACAATTAAG-GATTTGGTGGAA
1 TCAGCACTTAGCAACCCCTTT-A-AATTCAGTGATACGG-GGAA
* *
29853945 TCAGTACTTAGCAACCACCTTTATATTCAGTGATACGGGGAA
1 TCAGCACTTAGCAACC-CCTTTAAATTCAGTGATACGGGGAA
* * *** * *
29853987 TCAACACTTAGCAACCCCATTCACAATT-AAAAATATGGTGGAT
1 TCAGCACTTAGCAACCCC-TTTA-AATTCAGTGATACGG-GGAA
* * *
29854030 TCAGCACATAGCAACCACCTTTATATTCAATGATACGGGGAA
1 TCAGCACTTAGCAACC-CCTTTAAATTCAGTGATACGGGGAA
*** * *
29854072 TCAGCACTTAGCAACCCCTTTTACAATT-AAAAATATGGTGGGA
1 TCAGCACTTAGCAACCCC-TTTA-AATTCAGTGATACGG-GGAA
* * * * * *
29854115 TCAGCACTTAGCAACCACCTTTAGAGTCAATAATTCAGGGAA
1 TCAGCACTTAGCAACC-CCTTTAAATTCAGTGATACGGGGAA
*
29854157 TCAGCACTTAGAAACCCCT
1 TCAGCACTTAGCAACCCCT
29854176 CGGGCAATCA
Statistics
Matches: 216, Mismatches: 43, Indels: 30
0.75 0.15 0.10
Matches are distributed among these distances:
41 25 0.12
42 90 0.42
43 92 0.43
44 9 0.04
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.25
Consensus pattern (41 bp):
TCAGCACTTAGCAACCCCTTTAAATTCAGTGATACGGGGAA
Found at i:29853999 original size:85 final size:85
Alignment explanation
Indices: 29853854--29854175 Score: 430
Period size: 85 Copynumber: 3.8 Consensus size: 85
29853844 TCCGTTACTC
* * * ** *
29853854 GGTGGATTCAGCACTTAGCAACCA-CTATAAATTCAGCGATACGGGGAATCAGCACATAGCAACC
1 GGTGGAATCAGCACTTAGCAACCACCTTTATATTCAATGATACGGGGAATCAGCACTTAGCAACC
** *
29853918 CCTTTCACAATTAAGGATTT
66 CCTTTCACAATTAAAAATAT
* * *
29853938 GGTGGAATCAGTACTTAGCAACCACCTTTATATTCAGTGATACGGGGAATCAACACTTAGCAACC
1 GGTGGAATCAGCACTTAGCAACCACCTTTATATTCAATGATACGGGGAATCAGCACTTAGCAACC
*
29854003 CCATTCACAATTAAAAATAT
66 CCTTTCACAATTAAAAATAT
* *
29854023 GGTGGATTCAGCACATAGCAACCACCTTTATATTCAATGATACGGGGAATCAGCACTTAGCAACC
1 GGTGGAATCAGCACTTAGCAACCACCTTTATATTCAATGATACGGGGAATCAGCACTTAGCAACC
*
29854088 CCTTTTACAATTAAAAATAT
66 CCTTTCACAATTAAAAATAT
* * * * * * *
29854108 GGTGGGATCAGCACTTAGCAACCACCTTTAGAGTCAATAATTCAGGGAATCAGCACTTAGAAACC
1 GGTGGAATCAGCACTTAGCAACCACCTTTATATTCAATGATACGGGGAATCAGCACTTAGCAACC
29854173 CCT
66 CCT
29854176 CGGGCAATCA
Statistics
Matches: 210, Mismatches: 27, Indels: 1
0.88 0.11 0.00
Matches are distributed among these distances:
84 22 0.10
85 188 0.90
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.25
Consensus pattern (85 bp):
GGTGGAATCAGCACTTAGCAACCACCTTTATATTCAATGATACGGGGAATCAGCACTTAGCAACC
CCTTTCACAATTAAAAATAT
Found at i:29859083 original size:8 final size:8
Alignment explanation
Indices: 29859070--29859111 Score: 52
Period size: 8 Copynumber: 5.5 Consensus size: 8
29859060 TGAAAGTTAG
29859070 TTATCCAA
1 TTATCCAA
29859078 TTATCCAA
1 TTATCCAA
*
29859086 TTAT--AT
1 TTATCCAA
29859092 TTATCCAA
1 TTATCCAA
*
29859100 TTATTCAA
1 TTATCCAA
29859108 TTAT
1 TTAT
29859112 ATAATTAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
6 5 0.17
8 24 0.83
ACGTcount: A:0.36, C:0.17, G:0.00, T:0.48
Consensus pattern (8 bp):
TTATCCAA
Found at i:29859098 original size:22 final size:22
Alignment explanation
Indices: 29859070--29859113 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
29859060 TGAAAGTTAG
29859070 TTATCCAATTATCCAATTATAT
1 TTATCCAATTATCCAATTATAT
*
29859092 TTATCCAATTATTCAATTATAT
1 TTATCCAATTATCCAATTATAT
29859114 AATTAATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.36, C:0.16, G:0.00, T:0.48
Consensus pattern (22 bp):
TTATCCAATTATCCAATTATAT
Found at i:29865028 original size:19 final size:19
Alignment explanation
Indices: 29865003--29865045 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
29864993 TATAGTTCTC
*
29865003 AAATAATAGG-AATTATAA
1 AAATAATAGGTAAATATAA
29865021 ATAATAATAGGTAAATATAA
1 A-AATAATAGGTAAATATAA
29865041 AAATA
1 AAATA
29865046 TTAATAAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 1 0.05
19 13 0.59
20 8 0.36
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.28
Consensus pattern (19 bp):
AAATAATAGGTAAATATAA
Found at i:29865044 original size:22 final size:19
Alignment explanation
Indices: 29865004--29865051 Score: 51
Period size: 22 Copynumber: 2.4 Consensus size: 19
29864994 ATAGTTCTCA
*
29865004 AATAATAGGAATTATAAAT
1 AATAATAGGAATTAAAAAT
29865023 AATAATAGGTAAATATAAAAAT
1 AATAATAGG--AAT-TAAAAAT
*
29865045 ATTAATA
1 AATAATA
29865052 AAACTTTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 9 0.38
21 3 0.12
22 12 0.50
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.31
Consensus pattern (19 bp):
AATAATAGGAATTAAAAAT
Found at i:29870822 original size:29 final size:27
Alignment explanation
Indices: 29870769--29870843 Score: 87
Period size: 27 Copynumber: 2.7 Consensus size: 27
29870759 TATACTTACC
*
29870769 ATTCCTTCAGAGTTTGCCATATATATACT
1 ATTCCTTCAGAGTTCGCC--ATATATACT
* *
29870798 ATTCCTTCAGAGTTCGGCATGTATACT
1 ATTCCTTCAGAGTTCGCCATATATACT
* *
29870825 ACTCCTTCATAGTTCGCCA
1 ATTCCTTCAGAGTTCGCCA
29870844 AGAATACCAC
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
27 24 0.60
29 16 0.40
ACGTcount: A:0.24, C:0.25, G:0.13, T:0.37
Consensus pattern (27 bp):
ATTCCTTCAGAGTTCGCCATATATACT
Found at i:29871005 original size:27 final size:27
Alignment explanation
Indices: 29870958--29871024 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
29870948 TTCACCATAG
* * *
29870958 AGGCTTCTATTATAATAGATTTCCACAA
1 AGGCTTCCATT-TAATAGATTGCCAAAA
*
29870986 AGGCTTCCATTTCATAGATTGCCAAAA
1 AGGCTTCCATTTAATAGATTGCCAAAA
*
29871013 AGGTTTCCATTT
1 AGGCTTCCATTT
29871025 TCTAGTGTGC
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 24 0.71
28 10 0.29
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.36
Consensus pattern (27 bp):
AGGCTTCCATTTAATAGATTGCCAAAA
Found at i:29871587 original size:14 final size:15
Alignment explanation
Indices: 29871570--29871599 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
29871560 TTTTTATTAG
29871570 AATATTAAAA-TAAA
1 AATATTAAAAGTAAA
29871584 AATATTAAAAGTAAA
1 AATATTAAAAGTAAA
29871599 A
1 A
29871600 CATAATTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (15 bp):
AATATTAAAAGTAAA
Found at i:29871876 original size:13 final size:13
Alignment explanation
Indices: 29871858--29871882 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
29871848 AATTGAAAAA
29871858 AAGGTAAAAGTGC
1 AAGGTAAAAGTGC
29871871 AAGGTAAAAGTG
1 AAGGTAAAAGTG
29871883 TAAAATATCG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.04, G:0.32, T:0.16
Consensus pattern (13 bp):
AAGGTAAAAGTGC
Found at i:29872692 original size:13 final size:13
Alignment explanation
Indices: 29872656--29872807 Score: 96
Period size: 13 Copynumber: 11.5 Consensus size: 13
29872646 TGTAATTTTT
29872656 TTATATGAAATGG
1 TTATATGAAATGG
29872669 TTAT-TCGAAATGG
1 TTATAT-GAAATGG
* *
29872682 TTATATAAAATGA
1 TTATATGAAATGG
* *
29872695 ATATATGAATTGG
1 TTATATGAAATGG
*
29872708 TTATATGAATTGG
1 TTATATGAAATGG
**
29872721 TTATATTGAAATAT
1 TTATA-TGAAATGG
*
29872735 TTATACTG-AATGA
1 TTATA-TGAAATGG
*
29872748 TTATATG-AATCAG
1 TTATATGAAAT-GG
**
29872761 TTATATGGAAATAA
1 TTATAT-GAAATGG
*
29872775 TTATAT-AAAGTGT
1 TTATATGAAA-TGG
* *
29872788 TTATACGAAATGT
1 TTATATGAAATGG
29872801 TTATATG
1 TTATATG
29872808 GATAATTATG
Statistics
Matches: 111, Mismatches: 20, Indels: 16
0.76 0.14 0.11
Matches are distributed among these distances:
12 9 0.08
13 75 0.68
14 24 0.22
15 3 0.03
ACGTcount: A:0.39, C:0.03, G:0.16, T:0.41
Consensus pattern (13 bp):
TTATATGAAATGG
Found at i:29872753 original size:53 final size:52
Alignment explanation
Indices: 29872656--29872772 Score: 128
Period size: 53 Copynumber: 2.2 Consensus size: 52
29872646 TGTAATTTTT
* **
29872656 TTATATGAAATGGTTATTCGAAATGGTTATATAAAATGAATATATGAATTGG
1 TTATATGAAATGGTTATTCGAAATAGTTATATAAAATGAATATATGAATCAG
* * * * *
29872708 TTATATGAATTGGTTATATTGAAATATTTATACT-GAATGATTATATGAATCAG
1 TTATATGAAATGGTTAT-TCGAAATAGTTATA-TAAAATGAATATATGAATCAG
29872761 TTATATGGAAAT
1 TTATAT-GAAAT
29872773 AATTATATAA
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
52 16 0.30
53 32 0.60
54 5 0.09
ACGTcount: A:0.39, C:0.03, G:0.17, T:0.41
Consensus pattern (52 bp):
TTATATGAAATGGTTATTCGAAATAGTTATATAAAATGAATATATGAATCAG
Found at i:29872792 original size:40 final size:40
Alignment explanation
Indices: 29872708--29872792 Score: 100
Period size: 40 Copynumber: 2.1 Consensus size: 40
29872698 TATGAATTGG
** * * *
29872708 TTATATGAATTGGTTATATTGAAATATTTATACTGAATGA
1 TTATATGAATCAGTTATATGGAAATAATTATACTAAATGA
*
29872748 TTATATGAATCAGTTATATGGAAATAATTATA-TAAAGTGT
1 TTATATGAATCAGTTATATGGAAATAATTATACTAAA-TGA
29872788 TTATA
1 TTATA
29872793 CGAAATGTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.08
40 35 0.92
ACGTcount: A:0.40, C:0.02, G:0.14, T:0.44
Consensus pattern (40 bp):
TTATATGAATCAGTTATATGGAAATAATTATACTAAATGA
Found at i:29879193 original size:26 final size:26
Alignment explanation
Indices: 29879161--29879226 Score: 96
Period size: 26 Copynumber: 2.5 Consensus size: 26
29879151 CATCCCAACC
*
29879161 CACAGCTCGTGTGAGTATACCCATTT
1 CACAGCTCGTGTGAGTAGACCCATTT
* *
29879187 CATAGCTCGTGTGAGTAGGCCCATTT
1 CACAGCTCGTGTGAGTAGACCCATTT
*
29879213 CACAGATCGTGTGA
1 CACAGCTCGTGTGA
29879227 AATGTATAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.23, C:0.24, G:0.24, T:0.29
Consensus pattern (26 bp):
CACAGCTCGTGTGAGTAGACCCATTT
Found at i:29882908 original size:23 final size:23
Alignment explanation
Indices: 29882882--29882927 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
29882872 ATACGCATAA
29882882 GAATGAAATGCATGGAATTCCTC
1 GAATGAAATGCATGGAATTCCTC
29882905 GAATGAAATGCATGGAATTCCTC
1 GAATGAAATGCATGGAATTCCTC
29882928 AAACGATCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.26
Consensus pattern (23 bp):
GAATGAAATGCATGGAATTCCTC
Found at i:29887073 original size:20 final size:21
Alignment explanation
Indices: 29887028--29887107 Score: 82
Period size: 18 Copynumber: 4.1 Consensus size: 21
29887018 CCTCCATAAC
*
29887028 AAACAGAAGCT--TGAAAGCT
1 AAACAGAAGCTCGTGAGAGCT
29887047 -AACAGAAGCTCGTGAGAGCT
1 AAACAGAAGCTCGTGAGAGCT
* *
29887067 GAA-AGAAGCTC--GAAAGCT
1 AAACAGAAGCTCGTGAGAGCT
*
29887085 AAACAGAAGCTCGTAAGAGCT
1 AAACAGAAGCTCGTGAGAGCT
29887106 AA
1 AA
29887108 TCCACCCAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
18 18 0.36
19 8 0.16
20 15 0.30
21 9 0.18
ACGTcount: A:0.44, C:0.17, G:0.25, T:0.14
Consensus pattern (21 bp):
AAACAGAAGCTCGTGAGAGCT
Found at i:29887074 original size:38 final size:39
Alignment explanation
Indices: 29887032--29887105 Score: 123
Period size: 39 Copynumber: 1.9 Consensus size: 39
29887022 CATAACAAAC
* *
29887032 AGAAGCTTGAAAGCT-AACAGAAGCTCGTGAGAGCTGAA
1 AGAAGCTCGAAAGCTAAACAGAAGCTCGTAAGAGCTGAA
29887070 AGAAGCTCGAAAGCTAAACAGAAGCTCGTAAGAGCT
1 AGAAGCTCGAAAGCTAAACAGAAGCTCGTAAGAGCT
29887106 AATCCACCCA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
38 14 0.42
39 19 0.58
ACGTcount: A:0.41, C:0.18, G:0.27, T:0.15
Consensus pattern (39 bp):
AGAAGCTCGAAAGCTAAACAGAAGCTCGTAAGAGCTGAA
Found at i:29899126 original size:126 final size:126
Alignment explanation
Indices: 29898973--29899227 Score: 474
Period size: 126 Copynumber: 2.0 Consensus size: 126
29898963 GAAAAACCTC
* *
29898973 TTGTTCATGAAGAAGAAGCTTACTGATATTGAAACTATTGCACTCACAGAAGGCTGTAGTGCTGT
1 TTGTCCATGAAGAAGAAGCTTACTGATATTGAAACTATCGCACTCACAGAAGGCTGTAGTGCTGT
29899038 TTTGACAAACAAGTTGCCCCGAAATTAAAAGATCCTAGGAGCTTTACCATCCCATGTTCAA
66 TTTGACAAACAAGTTGCCCCGAAATTAAAAGATCCTAGGAGCTTTACCATCCCATGTTCAA
* *
29899099 TTGTCCATGAAGAAGAAGCTTACTGATATTGAAACTATCGCACTCACAGAAGGCTGTAGTGTTTT
1 TTGTCCATGAAGAAGAAGCTTACTGATATTGAAACTATCGCACTCACAGAAGGCTGTAGTGCTGT
29899164 TTTGACAAACAAGTTGCCCCGAAATTAAAAGATCCTAGGAGCTTTACCATCCCATGTTCAA
66 TTTGACAAACAAGTTGCCCCGAAATTAAAAGATCCTAGGAGCTTTACCATCCCATGTTCAA
29899225 TTG
1 TTG
29899228 ACAATCATTA
Statistics
Matches: 125, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
126 125 1.00
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (126 bp):
TTGTCCATGAAGAAGAAGCTTACTGATATTGAAACTATCGCACTCACAGAAGGCTGTAGTGCTGT
TTTGACAAACAAGTTGCCCCGAAATTAAAAGATCCTAGGAGCTTTACCATCCCATGTTCAA
Found at i:29934252 original size:67 final size:68
Alignment explanation
Indices: 29934175--29934314 Score: 237
Period size: 68 Copynumber: 2.1 Consensus size: 68
29934165 TGTGTGTTCT
29934175 ATTTTTCTTTC-TTTTCTTTGTGATATATTATCATTAACAACATTCTATTTTTAACAATTATTGA
1 ATTTTTCTTTCTTTTTCTTTGTGATATATTATCATTAACAACATTCTATTTTTAACAATTATTGA
29934239 CAA
66 CAA
* * * *
29934242 ATTTTTCTTTCTTTTTCTTTGTGATATATTGTCATTATCATCCTTCTATTTTTAACAATTATTGA
1 ATTTTTCTTTCTTTTTCTTTGTGATATATTATCATTAACAACATTCTATTTTTAACAATTATTGA
29934307 CAA
66 CAA
29934310 ATTTT
1 ATTTT
29934315 GTTTTACTTC
Statistics
Matches: 68, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
67 11 0.16
68 57 0.84
ACGTcount: A:0.26, C:0.14, G:0.05, T:0.55
Consensus pattern (68 bp):
ATTTTTCTTTCTTTTTCTTTGTGATATATTATCATTAACAACATTCTATTTTTAACAATTATTGA
CAA
Found at i:29937936 original size:16 final size:16
Alignment explanation
Indices: 29937917--29937947 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
29937907 GTTAAAAATA
29937917 ATATAAAATTTATAAT
1 ATATAAAATTTATAAT
*
29937933 ATATAACATTTATAA
1 ATATAAAATTTATAA
29937948 AAAAAGTATT
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:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
ATATAAAATTTATAAT
Found at i:29939213 original size:11 final size:11
Alignment explanation
Indices: 29939187--29939244 Score: 62
Period size: 11 Copynumber: 5.2 Consensus size: 11
29939177 AACTAATCCT
*
29939187 CTCTCAAATTTT
1 CTCTC-AATTTC
29939199 CTCTCAATTTC
1 CTCTCAATTTC
*
29939210 CTCTCAGTTTC
1 CTCTCAATTTC
* *
29939221 CTCTCAAATTG
1 CTCTCAATTTC
*
29939232 CTCTCAAATTC
1 CTCTCAATTTC
29939243 CT
1 CT
29939245 TCCAAATTTC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
11 35 0.88
12 5 0.12
ACGTcount: A:0.21, C:0.33, G:0.03, T:0.43
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:29939243 original size:22 final size:22
Alignment explanation
Indices: 29939187--29939262 Score: 64
Period size: 22 Copynumber: 3.4 Consensus size: 22
29939177 AACTAATCCT
* *
29939187 CTCTCAAATTTTCTCTCAATTTC
1 CTCTCAAA-TTCCTCTCAAATTC
** *
29939210 CTCTCAGTTTCCTCTCAAATTG
1 CTCTCAAATTCCTCTCAAATTC
*
29939232 CTCTCAAATTCCT-TCCAAATTT
1 CTCTCAAATTCCTCT-CAAATTC
*
29939254 CACTCAAAT
1 CTCTCAAAT
29939263 CCATATTTAA
Statistics
Matches: 43, Mismatches: 9, Indels: 3
0.78 0.16 0.05
Matches are distributed among these distances:
21 1 0.02
22 36 0.84
23 6 0.14
ACGTcount: A:0.25, C:0.32, G:0.03, T:0.41
Consensus pattern (22 bp):
CTCTCAAATTCCTCTCAAATTC
Found at i:29939287 original size:51 final size:51
Alignment explanation
Indices: 29939222--29939321 Score: 121
Period size: 51 Copynumber: 2.0 Consensus size: 51
29939212 CTCAGTTTCC
*
29939222 TCTCAAATTGCTCTCAAATTCCT-TCCAAATTTCACTCAAATCCATATTTAA
1 TCTCAAATTACTCTCAAATTCCTCT-CAAATTTCACTCAAATCCATATTTAA
* * * * * *
29939273 TCTCAATTTACTCTCAAGTTCCTCTTAAATTTCTCTTAAATCCCTATTT
1 TCTCAAATTACTCTCAAATTCCTCTCAAATTTCACTCAAATCCATATTT
29939322 TTAAATATTT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
51 40 0.98
52 1 0.02
ACGTcount: A:0.29, C:0.27, G:0.02, T:0.42
Consensus pattern (51 bp):
TCTCAAATTACTCTCAAATTCCTCTCAAATTTCACTCAAATCCATATTTAA
Found at i:29942768 original size:127 final size:125
Alignment explanation
Indices: 29942504--29942927 Score: 566
Period size: 127 Copynumber: 3.4 Consensus size: 125
29942494 TAAAAGCACA
* * *
29942504 TCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTAGAAGCGATTTT-ATACT
1 TCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTTGAAGCGTTTTTAATACT
* * * * *
29942568 GTTTGCTCAGAAACGTCAAGTCAAAATTATTTTTCCAGGACCTACTGTAGCAAAAGCGCA
66 ATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGACCTACTGTAGCAAAAGTGCG
*
29942628 TCCACGAGGGCGCGATTTCACAAATTCTTCTCA-AATAGCATCCTGCTTGCAGCGTTGTTTAATA
1 TCCACGAGGGCGCGATTTCACAAATTCTTCTCATAA-AGCATCCTGCTTGAAGCGTT-TTTAATA
* *
29942692 CTATTTGCTCAGAAACATCAACTCGAAATTATTTCTTCCAGGACCAACTGTAGCAAAAGTGCG
64 CTATTTGCTCAGAAACGTCAACTCGAAATTATTT-TTCCAGGACCTACTGTAGCAAAAGTGCG
* *
29942755 TCCACGAGGGCGCGATTTCAAAAATTCTTCTCATAAAGCATCCTGCTTGAAGCATTTTTTAA-AC
1 TCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTTGAAGC-GTTTTTAATAC
* * * *
29942819 TATTTGCTTAAAAATGTCAACTCGAAATTATTTTTCTAGGACCTACTGTAGCAAAAGTGCG
65 TATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGACCTACTGTAGCAAAAGTGCG
* * * * * * * *
29942880 TACACGTGGGCGCGACTTAAAAAATCCTTCTGATAAATCATCCTGCTT
1 TCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTT
29942928 TGATTTTATC
Statistics
Matches: 267, Mismatches: 27, Indels: 11
0.88 0.09 0.04
Matches are distributed among these distances:
123 2 0.01
124 49 0.18
125 70 0.26
126 64 0.24
127 78 0.29
128 4 0.01
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (125 bp):
TCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTTGAAGCGTTTTTAATACT
ATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGACCTACTGTAGCAAAAGTGCG
Found at i:29943740 original size:21 final size:21
Alignment explanation
Indices: 29943716--29943758 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
29943706 TAAAAAAATA
* *
29943716 TTATTAAGTAAATGGAATTTT
1 TTATGAAGTAAATGGAAATTT
*
29943737 TTATGAATTAAATGGAAATTT
1 TTATGAAGTAAATGGAAATTT
29943758 T
1 T
29943759 AAATGTAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.47
Consensus pattern (21 bp):
TTATGAAGTAAATGGAAATTT
Found at i:29947660 original size:6 final size:6
Alignment explanation
Indices: 29947649--29947684 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
29947639 TAGGTTTCTA
* *
29947649 GAAATG GAAATG GAAATG AAAATG AAAATG GAAATG
1 GAAATG GAAATG GAAATG GAAATG GAAATG GAAATG
29947685 AAAAACTTGC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.56, C:0.00, G:0.28, T:0.17
Consensus pattern (6 bp):
GAAATG
Found at i:29947677 original size:18 final size:18
Alignment explanation
Indices: 29947650--29947688 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
29947640 AGGTTTCTAG
*
29947650 AAATGGAAATGGAAATGA
1 AAATGAAAATGGAAATGA
29947668 AAATGAAAATGGAAATGA
1 AAATGAAAATGGAAATGA
29947686 AAA
1 AAA
29947689 ACTTGCAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.62, C:0.00, G:0.23, T:0.15
Consensus pattern (18 bp):
AAATGAAAATGGAAATGA
Found at i:29947685 original size:12 final size:12
Alignment explanation
Indices: 29947650--29947688 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
29947640 AGGTTTCTAG
*
29947650 AAATGGAAATGG
1 AAATGGAAATGA
*
29947662 AAATGAAAATGA
1 AAATGGAAATGA
29947674 AAATGGAAATGA
1 AAATGGAAATGA
29947686 AAA
1 AAA
29947689 ACTTGCAATC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.62, C:0.00, G:0.23, T:0.15
Consensus pattern (12 bp):
AAATGGAAATGA
Found at i:29948627 original size:38 final size:39
Alignment explanation
Indices: 29948552--29948629 Score: 122
Period size: 40 Copynumber: 2.0 Consensus size: 39
29948542 CCGCTATGTA
* *
29948552 AGAAAATCATTTTCAAACAAAGTTTTTTTTCAACAATTGG
1 AGAAAATAATTTTCAAACAAAG-ATTTTTTCAACAATTGG
29948592 AGAAAATAATTTTCAAACAAA-ATTTTTTCAACAATTGG
1 AGAAAATAATTTTCAAACAAAGATTTTTTCAACAATTGG
29948630 TATAAGAGCC
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
38 16 0.44
40 20 0.56
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.36
Consensus pattern (39 bp):
AGAAAATAATTTTCAAACAAAGATTTTTTCAACAATTGG
Found at i:29954470 original size:82 final size:83
Alignment explanation
Indices: 29954300--29954476 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 83
29954290 AATTTAACAT
*
29954300 ATTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACGTAGCCTGCTAG
1 ATTCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGATCACCGGCACGTAGCCTGCTAG
**
29954365 GTTTATAACCTGATTCAG
66 ACTTATAACCTGATTCAG
* * * *
29954383 A-TCACCAGCACTTAGCCTGCTAGG-TTCATAACCTGGTTTAGATCACCGGCACTTAGCCTGCTA
1 ATTCACCGGCACTTAGCCTGCTAGGCTT-ATAACCTGATTCAGATCACCGGCACGTAGCCTGCTA
*
29954446 GACTTA-AAGTCTGAATT-A-
65 GACTTATAA-CCTG-ATTCAG
29954464 ATTCACCGGCACT
1 ATTCACCGGCACT
29954477 ACATCTGCTA
Statistics
Matches: 81, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
81 5 0.06
82 72 0.89
83 4 0.05
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.28
Consensus pattern (83 bp):
ATTCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGATCACCGGCACGTAGCCTGCTAG
ACTTATAACCTGATTCAG
Found at i:29954476 original size:41 final size:41
Alignment explanation
Indices: 29954302--29954451 Score: 221
Period size: 41 Copynumber: 3.7 Consensus size: 41
29954292 TTTAACATAT
*
29954302 TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
* *
29954343 TCACCGGCACGTAGCCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
* * *
29954384 TCACCAGCACTTAGCCTGCTAGG-TTCATAACCTGGTTTAGA
1 TCACCGGCACTTAGCCTGCTAGGCTT-ATAACCTGATTCAGA
*
29954425 TCACCGGCACTTAGCCTGCTAGACTTA
1 TCACCGGCACTTAGCCTGCTAGGCTTA
29954452 AAGTCTGAAT
Statistics
Matches: 98, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
40 2 0.02
41 94 0.96
42 2 0.02
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (41 bp):
TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
Found at i:29956525 original size:13 final size:13
Alignment explanation
Indices: 29956507--29956531 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
29956497 CAATCAAATG
29956507 CACACAAAATAAA
1 CACACAAAATAAA
29956520 CACACAAAATAA
1 CACACAAAATAA
29956532 TATTAAAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (13 bp):
CACACAAAATAAA
Found at i:29964089 original size:19 final size:20
Alignment explanation
Indices: 29964065--29964103 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
29964055 TTTGTGTACG
29964065 CTATTT-TTCTGTGG-TTTTT
1 CTATTTGTTC-GTGGCTTTTT
29964084 CTATTTGTTCGTGGCTTTTT
1 CTATTTGTTCGTGGCTTTTT
29964104 TTTTTCTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.05, C:0.13, G:0.18, T:0.64
Consensus pattern (20 bp):
CTATTTGTTCGTGGCTTTTT
Found at i:29965369 original size:15 final size:15
Alignment explanation
Indices: 29965349--29965380 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
29965339 CTACTTACTT
29965349 TTAATATTTTAATAA
1 TTAATATTTTAATAA
*
29965364 TTAATATTTTTATAA
1 TTAATATTTTAATAA
29965379 TT
1 TT
29965381 TTTAAAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TTAATATTTTAATAA
Found at i:29970951 original size:36 final size:36
Alignment explanation
Indices: 29970908--29970979 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
29970898 AGCTGAGAGA
29970908 ATGAATAAAACCTTACTTGACATGGTTCGTTCAATG
1 ATGAATAAAACCTTACTTGACATGGTTCGTTCAATG
*
29970944 ATGAATAAAACCTTTCTTGACATGGTTCGTTCAATG
1 ATGAATAAAACCTTACTTGACATGGTTCGTTCAATG
29970980 TTAAGTTATT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.35
Consensus pattern (36 bp):
ATGAATAAAACCTTACTTGACATGGTTCGTTCAATG
Found at i:29973719 original size:25 final size:25
Alignment explanation
Indices: 29973691--29973747 Score: 114
Period size: 25 Copynumber: 2.3 Consensus size: 25
29973681 ACTAGGCTTA
29973691 TAGCCTGATTCAGTTCACCGGCACT
1 TAGCCTGATTCAGTTCACCGGCACT
29973716 TAGCCTGATTCAGTTCACCGGCACT
1 TAGCCTGATTCAGTTCACCGGCACT
29973741 TAGCCTG
1 TAGCCTG
29973748 CTAGGCACTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.19, C:0.32, G:0.21, T:0.28
Consensus pattern (25 bp):
TAGCCTGATTCAGTTCACCGGCACT
Found at i:29973756 original size:16 final size:16
Alignment explanation
Indices: 29973735--29973779 Score: 72
Period size: 16 Copynumber: 2.8 Consensus size: 16
29973725 TCAGTTCACC
29973735 GGCACTTAGCCTGCTA
1 GGCACTTAGCCTGCTA
29973751 GGCACTTAGCCTGCTA
1 GGCACTTAGCCTGCTA
**
29973767 GGCTTTTAGCCTG
1 GGCACTTAGCCTG
29973780 ATTCAGTTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.16, C:0.29, G:0.27, T:0.29
Consensus pattern (16 bp):
GGCACTTAGCCTGCTA
Found at i:29973796 original size:41 final size:41
Alignment explanation
Indices: 29973751--29973849 Score: 180
Period size: 41 Copynumber: 2.4 Consensus size: 41
29973741 TAGCCTGCTA
* *
29973751 GGCACTTAGCCTGCTAGGCTTTTAGCCTGATTCAGTTCACC
1 GGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACC
29973792 GGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACC
1 GGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACC
29973833 GGCACTTAGCCTGCTAG
1 GGCACTTAGCCTGCTAG
29973850 ACGTAAAGTC
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 56 1.00
ACGTcount: A:0.19, C:0.29, G:0.23, T:0.28
Consensus pattern (41 bp):
GGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACC
Found at i:29973873 original size:41 final size:41
Alignment explanation
Indices: 29973751--29973877 Score: 121
Period size: 41 Copynumber: 3.1 Consensus size: 41
29973741 TAGCCTGCTA
* * ** **
29973751 GGCACTTAGCCTGCTAGGCTTTTAGCCTGATTCAGTTCACC
1 GGCACTTAGCCTGCTAGACGTAAAGCCTGAAACAGTTCACC
* * * ** *
29973792 GGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACC
1 GGCACTTAGCCTGCTAGACGTAAAGCCTGAAACAGTTCACC
*
29973833 GGCACTTAGCCTGCTAGACGTAAAGTCC-GAAACATTTCACC
1 GGCACTTAGCCTGCTAGACGTAAAG-CCTGAAACAGTTCACC
29973874 GGCA
1 GGCA
29973878 ATTTATCTGA
Statistics
Matches: 76, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
41 74 0.97
42 2 0.03
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.26
Consensus pattern (41 bp):
GGCACTTAGCCTGCTAGACGTAAAGCCTGAAACAGTTCACC
Done.