Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 145 of 325
Found at i:46763470 original size:26 final size:26
Alignment explanation
Indices: 46763393--46763470 Score: 60
Period size: 24 Copynumber: 3.2 Consensus size: 26
46763383 CAGATACAAA
*
46763393 CAATGGCAGATATACACAATAAACAT
1 CAATGGTAGATATACACAATAAACAT
* * *
46763419 CAAT--TTGATA-ATGAC-AT--TCAT
1 CAATGGTAGATATA-CACAATAAACAT
46763440 ACAATGGTAGATATACACAATAAACAT
1 -CAATGGTAGATATACACAATAAACAT
46763467 CAAT
1 CAAT
46763471 TTGATAATGG
Statistics
Matches: 37, Mismatches: 7, Indels: 16
0.62 0.12 0.27
Matches are distributed among these distances:
21 3 0.08
22 4 0.11
23 3 0.08
24 13 0.35
25 3 0.08
26 8 0.22
27 3 0.08
ACGTcount: A:0.47, C:0.17, G:0.10, T:0.26
Consensus pattern (26 bp):
CAATGGTAGATATACACAATAAACAT
Found at i:46763476 original size:24 final size:24
Alignment explanation
Indices: 46763401--46763476 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 24
46763391 AACAATGGCA
46763401 GATATACACAATAAACATCAATTT
1 GATATACACAATAAACATCAATTT
* * *
46763425 GATA-ATGAC-AT--TCATACAATGGTA
1 GATATA-CACAATAAACAT-CAAT--TT
46763449 GATATACACAATAAACATCAATTT
1 GATATACACAATAAACATCAATTT
46763473 GATA
1 GATA
46763477 ATGGCATTCA
Statistics
Matches: 38, Mismatches: 6, Indels: 16
0.63 0.10 0.27
Matches are distributed among these distances:
21 3 0.08
22 4 0.11
23 3 0.08
24 18 0.47
25 3 0.08
26 4 0.11
27 3 0.08
ACGTcount: A:0.47, C:0.14, G:0.09, T:0.29
Consensus pattern (24 bp):
GATATACACAATAAACATCAATTT
Found at i:46763508 original size:48 final size:48
Alignment explanation
Indices: 46763392--46763500 Score: 200
Period size: 48 Copynumber: 2.3 Consensus size: 48
46763382 GCAGATACAA
46763392 ACAATGGCAGATATACACAATAAACATCAATTTGATAATGACATTCAT
1 ACAATGGCAGATATACACAATAAACATCAATTTGATAATGACATTCAT
* *
46763440 ACAATGGTAGATATACACAATAAACATCAATTTGATAATGGCATTCAT
1 ACAATGGCAGATATACACAATAAACATCAATTTGATAATGACATTCAT
46763488 ACAATGGCAGATA
1 ACAATGGCAGATA
46763501 CAAACAATGG
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 58 1.00
ACGTcount: A:0.45, C:0.16, G:0.13, T:0.27
Consensus pattern (48 bp):
ACAATGGCAGATATACACAATAAACATCAATTTGATAATGACATTCAT
Found at i:46763508 original size:64 final size:64
Alignment explanation
Indices: 46763440--46763636 Score: 322
Period size: 64 Copynumber: 3.1 Consensus size: 64
46763430 TGACATTCAT
* * *
46763440 ACAATGGTAGATATACACAATAAACATCAATTTGATAATGGCATTCATACAATGGCAGATACAA
1 ACAATGGCAGATATACACAATAAAAATCAGTTTGATAATGGCATTCATACAATGGCAGATACAA
* * **
46763504 ACAATGGCAGATATATACAATAAAAATTAGTTTGATAATGGCATTCATACAATGATAGATACAA
1 ACAATGGCAGATATACACAATAAAAATCAGTTTGATAATGGCATTCATACAATGGCAGATACAA
*
46763568 ACAATGGCAGATATACACAATAAAGATCAGTTTGATAATGGCATTCATACAATGGCAGATACAA
1 ACAATGGCAGATATACACAATAAAAATCAGTTTGATAATGGCATTCATACAATGGCAGATACAA
46763632 ACAAT
1 ACAAT
46763637 AAACATCAAA
Statistics
Matches: 121, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 121 1.00
ACGTcount: A:0.46, C:0.14, G:0.15, T:0.25
Consensus pattern (64 bp):
ACAATGGCAGATATACACAATAAAAATCAGTTTGATAATGGCATTCATACAATGGCAGATACAA
Found at i:46763523 original size:16 final size:16
Alignment explanation
Indices: 46763485--46763524 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
46763475 TAATGGCATT
46763485 CATACAATGGCAGATA
1 CATACAATGGCAGATA
*
46763501 CAAACAATGGCAGATA
1 CATACAATGGCAGATA
*
46763517 TATACAAT
1 CATACAAT
46763525 AAAAATTAGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.47, C:0.17, G:0.15, T:0.20
Consensus pattern (16 bp):
CATACAATGGCAGATA
Found at i:46763572 original size:112 final size:110
Alignment explanation
Indices: 46763330--46763564 Score: 344
Period size: 112 Copynumber: 2.1 Consensus size: 110
46763320 GCAGATACAA
* * **
46763330 ACAATGGTAGATATACACAATAAACATCAGTTTAATAATGTATAATTTAATGGCAGATACAAACA
1 ACAATGGTAGATATACACAATAAACATCAATTTAATAATGCATAATACAATGGCAGATACAAACA
*
46763395 ATGGCAGATATACACAATAAACATCAATTTGATAATGACATTCAT
66 ATGGCAGATATACACAATAAAAATCAATTTGATAATGACATTCAT
* *
46763440 ACAATGGTAGATATACACAATAAACATCAATTTGATAATGGCATTCATACAATGGCAGATACAAA
1 ACAATGGTAGATATACACAATAAACATCAATTTAATAAT-GCA-TAATACAATGGCAGATACAAA
* * * *
46763505 CAATGGCAGATATATACAATAAAAATTAGTTTGATAATGGCATTCAT
64 CAATGGCAGATATACACAATAAAAATCAATTTGATAATGACATTCAT
*
46763552 ACAATGATAGATA
1 ACAATGGTAGATA
46763565 CAAACAATGG
Statistics
Matches: 111, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
110 37 0.33
111 2 0.02
112 72 0.65
ACGTcount: A:0.46, C:0.13, G:0.13, T:0.28
Consensus pattern (110 bp):
ACAATGGTAGATATACACAATAAACATCAATTTAATAATGCATAATACAATGGCAGATACAAACA
ATGGCAGATATACACAATAAAAATCAATTTGATAATGACATTCAT
Found at i:46763781 original size:6 final size:6
Alignment explanation
Indices: 46763772--46763797 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
46763762 AAATAACCCT
46763772 AAATCA AAATCA AAATCA AAATCA AA
1 AAATCA AAATCA AAATCA AAATCA AA
46763798 TTCTAATCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.69, C:0.15, G:0.00, T:0.15
Consensus pattern (6 bp):
AAATCA
Found at i:46763847 original size:18 final size:18
Alignment explanation
Indices: 46763806--46763847 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
46763796 AATTCTAATC
* *
46763806 CTAAATTGAGATCGAAAT
1 CTAAATTGAAATCAAAAT
46763824 -TGAAATTGAAATCAAAAT
1 CT-AAATTGAAATCAAAAT
46763842 CTAAAT
1 CTAAAT
46763848 CAGAATTAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
17 1 0.05
18 18 0.90
19 1 0.05
ACGTcount: A:0.50, C:0.10, G:0.12, T:0.29
Consensus pattern (18 bp):
CTAAATTGAAATCAAAAT
Found at i:46763889 original size:6 final size:6
Alignment explanation
Indices: 46763875--46763919 Score: 56
Period size: 6 Copynumber: 7.5 Consensus size: 6
46763865 TCAAAATTGT
* *
46763875 AATCAA AATCGA AAT-AGA AATCAA AATCAA AATCAA AATCGA AAT
1 AATCAA AATCAA AATCA-A AATCAA AATCAA AATCAA AATCAA AAT
46763920 TAAATTTGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
6 33 0.97
7 1 0.03
ACGTcount: A:0.62, C:0.13, G:0.07, T:0.18
Consensus pattern (6 bp):
AATCAA
Found at i:46763919 original size:18 final size:18
Alignment explanation
Indices: 46763865--46763907 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
46763855 AGTGAGTGTT
* *
46763865 TCAAAATTGTAATCAAAA
1 TCAAAATAGAAATCAAAA
*
46763883 TCGAAATAGAAATCAAAA
1 TCAAAATAGAAATCAAAA
46763901 TCAAAAT
1 TCAAAAT
46763908 CAAAATCGAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.58, C:0.12, G:0.07, T:0.23
Consensus pattern (18 bp):
TCAAAATAGAAATCAAAA
Found at i:46764455 original size:31 final size:29
Alignment explanation
Indices: 46764416--46764488 Score: 83
Period size: 31 Copynumber: 2.4 Consensus size: 29
46764406 GATAATTGTT
*
46764416 AGTTAGTGACTGTTTTGTCACTTTTTTATA
1 AGTTAGTGACTGTTTTGTCACTTTTTGA-A
** *
46764446 ACGTTAGTGACCATTTTGTTACTTTTTGAA
1 A-GTTAGTGACTGTTTTGTCACTTTTTGAA
46764476 AGTTAAGTGACTG
1 AGTT-AGTGACTG
46764489 AAATAAAACC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
29 3 0.09
30 9 0.26
31 23 0.66
ACGTcount: A:0.23, C:0.11, G:0.19, T:0.47
Consensus pattern (29 bp):
AGTTAGTGACTGTTTTGTCACTTTTTGAA
Found at i:46768334 original size:22 final size:22
Alignment explanation
Indices: 46768309--46768351 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
46768299 GAAAGTAAGG
46768309 AAATAAATA-AAAGAAAAAAATT
1 AAATAAA-ACAAAGAAAAAAATT
*
46768331 AAATAAAACAAATAAAAAAAT
1 AAATAAAACAAAGAAAAAAAT
46768352 GGTAGTAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 1 0.05
22 18 0.95
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.16
Consensus pattern (22 bp):
AAATAAAACAAAGAAAAAAATT
Found at i:46768476 original size:3 final size:3
Alignment explanation
Indices: 46768468--46768494 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
46768458 GTAAAAAATG
46768468 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
46768495 CAAATAAGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:46770261 original size:44 final size:44
Alignment explanation
Indices: 46770211--46770733 Score: 265
Period size: 44 Copynumber: 11.8 Consensus size: 44
46770201 AGGAATTGGT
* * *
46770211 GCTTCGATCCACTCCAATATAATTTCAAGGAGA-AGAGATTTGTA
1 GCTTCGATCTACTCCACTGTAATTTCAAGGAGATA-AGATTTGTA
* *
46770255 GCTTCGATCTACTCCGCTAG-AACTTT-AAGGAGATAAGAATTGGTA
1 GCTTCGATCTACTCCACT-GTAA-TTTCAAGGAGATAAG-ATTTGTA
** * * * * * * *
46770300 ATTTCAACCTGCTCCACTATAACTTCAGGGAGATAAGATTTGTT
1 GCTTCGATCTACTCCACTGTAATTTCAAGGAGATAAGATTTGTA
** * ** * * *
46770344 TATTCGACCCGCTCCAATGTAATTTCAGGGAGAAAAGATTTGTA
1 GCTTCGATCTACTCCACTGTAATTTCAAGGAGATAAGATTTGTA
* * * *
46770388 GCTTCGATCTACTCCACTGGAACTTCCAA-GAGATAAGGTTGGTA
1 GCTTCGATCTACTCCACTGTAA-TTTCAAGGAGATAAGATTTGTA
* * * * * *
46770432 GCTTCAATCTGCTCCAATGTAATTTTAGGGA-AAATAGATTTGTA
1 GCTTCGATCTACTCCACTGTAATTTCAAGGAGATA-AGATTTGTA
* * * * * *
46770476 GCTTCGATCTACTCCCCTGGAACTTCAAGGAGACAAAAATTGGTA
1 GCTTCGATCTACTCCACTGTAATTTCAAGGAGA-TAAGATTTGTA
** * * * *
46770521 ATTTC-AACTTACTCCACTATAACTTCAGGGAGATAA-AGTTTGT-
1 GCTTCGATC-TACTCCACTGTAATTTCAAGGAGATAAGA-TTTGTA
* * *** * *
46770564 GTATTCGACCCGTTCCAATGTAATTTCAGGGAGA-AGAGATTTGTA
1 G-CTTCGATCTACTCCACTGTAATTTCAAGGAGATA-AGATTTGTA
* * * ** * *
46770609 GCTTCGATCTACTCCGCTGGAACTTCAAGGAGATAAGGCTGGTG
1 GCTTCGATCTACTCCACTGTAATTTCAAGGAGATAAGATTTGTA
* * * * * *
46770653 GTTTCAATCTACTCTAATATAATTTCAGGGAGA-AGAGATTTGTA
1 GCTTCGATCTACTCCACTGTAATTTCAAGGAGATA-AGATTTGTA
* * *
46770697 GCTTCAATCTACTCCGCTGGAATTTCAAGGAGATAAG
1 GCTTCGATCTACTCCACTGTAATTTCAAGGAGATAAG
46770734 GCTTAGTAAT
Statistics
Matches: 349, Mismatches: 109, Indels: 42
0.70 0.22 0.08
Matches are distributed among these distances:
43 8 0.02
44 264 0.76
45 75 0.21
46 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.30
Consensus pattern (44 bp):
GCTTCGATCTACTCCACTGTAATTTCAAGGAGATAAGATTTGTA
Found at i:46770534 original size:133 final size:133
Alignment explanation
Indices: 46770397--46770641 Score: 334
Period size: 133 Copynumber: 1.8 Consensus size: 133
46770387 AGCTTCGATC
* * * *
46770397 TACTCCACTGGAACTTCCA-AGAGAT-AAGGTTG-GTAGCTTCAATCTGCTCCAATGTAATTTTA
1 TACTCCACTAGAACTT-CAGAGAGATAAAGGTTGTGTA--TTCAACCCGCTCCAATGTAATTTCA
*
46770459 GGGAAAATAGATTTGTAGCTTCGATCTACTCCCCTGGAACTTCAAGGAGACAAAAATTGGTAATT
63 GGGAAAAGAGATTTGTAGCTTCGATCTACTCCCCTGGAACTTCAAGGAGACAAAAATTGGTAATT
46770524 TCAACT
128 TCAACT
* * * * *
46770530 TACTCCACTATAACTTCAGGGAGATAAAGTTTGTGTATTCGACCCGTTCCAATGTAATTTCAGGG
1 TACTCCACTAGAACTTCAGAGAGATAAAGGTTGTGTATTCAACCCGCTCCAATGTAATTTCAGGG
* *
46770595 AGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGA
66 AAAAGAGATTTGTAGCTTCGATCTACTCCCCTGGAACTTCAAGGAGA
46770642 TAAGGCTGGT
Statistics
Matches: 97, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
132 2 0.02
133 86 0.89
134 6 0.06
135 3 0.03
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (133 bp):
TACTCCACTAGAACTTCAGAGAGATAAAGGTTGTGTATTCAACCCGCTCCAATGTAATTTCAGGG
AAAAGAGATTTGTAGCTTCGATCTACTCCCCTGGAACTTCAAGGAGACAAAAATTGGTAATTTCA
ACT
Found at i:46770571 original size:221 final size:221
Alignment explanation
Indices: 46770207--46770783 Score: 809
Period size: 221 Copynumber: 2.6 Consensus size: 221
46770197 GTATAGGAAT
* * *
46770207 TGGT-GCTTCGATCCACTCCAATATAATTTCAAGGAGAAGAGATTTGTAGCTTCGATCTACTCCG
1 TGGTAGCTTCAATCTACTCCAATATAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCG
* * *
46770271 CTAGAACTTTAAGGAGATAAGAATTGGTAATTTCAACCTGCTCCACTATAACTTCAGGGAGAT-A
66 CTGGAACTTCAAGGAGATAAGAATTGGTAATTTCAACTTGCTCCACTATAACTTCAGGGAGATAA
*
46770335 AGATTTGTTTATTCGACCCGCTCCAATGTAATTTCAGGGAGAAAAGATTTGTAGCTTCGATCTAC
131 AG-TTTGTGTATTCGACCCGCTCCAATGTAATTTCAGGGAGAAAAGATTTGTAGCTTCGATCTAC
*
46770400 TCCACTGGAACTTCCAA-GAGATAAGGT
195 TCCACTGGAACTT-CAAGGAGATAAGGC
* * * * * *
46770427 TGGTAGCTTCAATCTGCTCCAATGTAATTTTAGGGAAAATAGATTTGTAGCTTCGATCTACTCCC
1 TGGTAGCTTCAATCTACTCCAATATAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCG
* * *
46770492 CTGGAACTTCAAGGAGACAAAAATTGGTAATTTCAACTTACTCCACTATAACTTCAGGGAGATAA
66 CTGGAACTTCAAGGAGATAAGAATTGGTAATTTCAACTTGCTCCACTATAACTTCAGGGAGATAA
* *
46770557 AGTTTGTGTATTCGACCCGTTCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACT
131 AGTTTGTGTATTCGACCCGCTCCAATGTAATTTCAGGGAGAAAAGATTTGTAGCTTCGATCTACT
*
46770622 CCGCTGGAACTTCAAGGAGATAAGGC
196 CCACTGGAACTTCAAGGAGATAAGGC
* * * *
46770648 TGGTGGTTTCAATCTACTCTAATATAATTTCAGGGAGAAGAGATTTGTAGCTTCAATCTACTCCG
1 TGGTAGCTTCAATCTACTCCAATATAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCG
* ** * * * * * *
46770713 CTGGAATTTCAAGGAGATAAGGCTTAGTAATTTTAACTTGTTTCACTGTAACTTCAGGAAGATAA
66 CTGGAACTTCAAGGAGATAAGAATTGGTAATTTCAACTTGCTCCACTATAACTTCAGGGAGATAA
*
46770778 GGTTTG
131 AGTTTG
46770784 CTATCTTCAG
Statistics
Matches: 311, Mismatches: 43, Indels: 5
0.87 0.12 0.01
Matches are distributed among these distances:
220 7 0.02
221 301 0.97
222 3 0.01
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (221 bp):
TGGTAGCTTCAATCTACTCCAATATAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCG
CTGGAACTTCAAGGAGATAAGAATTGGTAATTTCAACTTGCTCCACTATAACTTCAGGGAGATAA
AGTTTGTGTATTCGACCCGCTCCAATGTAATTTCAGGGAGAAAAGATTTGTAGCTTCGATCTACT
CCACTGGAACTTCAAGGAGATAAGGC
Found at i:46770819 original size:90 final size:89
Alignment explanation
Indices: 46770610--46770867 Score: 225
Period size: 89 Copynumber: 2.9 Consensus size: 89
46770600 AGATTTGTAG
* * * * ** * * * **
46770610 CTTCGATCTACTCCGCTGGAACTTCAAGGAGATAAGGCTGGTGGTTTCAATCTACTCTAATATAA
1 CTTCAATCTACTCCGCTGCAACTTCAAGGAGATAAGGTTAGTAATTTCAATCTGCTCCACTGCAA
* * * * *
46770675 TTTCAGGGAGA-AGAGATTTG-TAG
66 CTTCAAGAAGATA-AGGTTTGCTAT
* * * * * *
46770698 CTTCAATCTACTCCGCTGGAATTTCAAGGAGATAAGGCTTAGTAATTTTAA-CTTGTTTCACTGT
1 CTTCAATCTACTCCGCTGCAACTTCAAGGAGATAAGG-TTAGTAATTTCAATC-TGCTCCACTGC
*
46770762 AACTTCAGGAAGATAAGGTTTGCTAT
64 AACTTCAAGAAGATAAGGTTTGCTAT
* * * *
46770788 CTTCAGTCTACTCCGCTGCAACTTCAGGGAGATAAGGTTGGTAGTTTCAATCTGCTCCACTGCAA
1 CTTCAATCTACTCCGCTGCAACTTCAAGGAGATAAGGTTAGTAATTTCAATCTGCTCCACTGCAA
46770853 CTTCAAGAAGATAAG
66 CTTCAAGAAGATAAG
46770868 ATCCGCCATA
Statistics
Matches: 137, Mismatches: 28, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
88 36 0.26
89 64 0.47
90 37 0.27
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.31
Consensus pattern (89 bp):
CTTCAATCTACTCCGCTGCAACTTCAAGGAGATAAGGTTAGTAATTTCAATCTGCTCCACTGCAA
CTTCAAGAAGATAAGGTTTGCTAT
Found at i:46770865 original size:44 final size:45
Alignment explanation
Indices: 46770606--46770867 Score: 140
Period size: 44 Copynumber: 5.9 Consensus size: 45
46770596 GAAGAGATTT
* * * * *
46770606 GTAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGATAAGGC-TG
1 GTAGTTTCAATCTACTCCACTGCAACTTCAAGAAGATAAGGCTTG
* * * ** * * * * *
46770650 GTGGTTTCAATCTACTCTAATATAATTTC-AG-GGAGAAGAGATTT
1 GTAGTTTCAATCTACTCCACTGCAACTTCAAGAAGATAAG-GCTTG
* * * * * *
46770694 GTAGCTTCAATCTACTCCGCTGGAATTTCAAGGAGATAAGGCTTA
1 GTAGTTTCAATCTACTCCACTGCAACTTCAAGAAGATAAGGCTTG
* * ** * * * *
46770739 GTAATTTTAA-CTTGTTTCACTGTAACTTCAGGAAGATAAGGTTTG
1 GTAGTTTCAATC-TACTCCACTGCAACTTCAAGAAGATAAGGCTTG
* * * * *
46770784 CTA-TCTTCAGTCTACTCCGCTGCAACTTCAGGGAGATAAGG-TTG
1 GTAGT-TTCAATCTACTCCACTGCAACTTCAAGAAGATAAGGCTTG
*
46770828 GTAGTTTCAATCTGCTCCACTGCAACTTCAAGAAGATAAG
1 GTAGTTTCAATCTACTCCACTGCAACTTCAAGAAGATAAG
46770868 ATCCGCCATA
Statistics
Matches: 158, Mismatches: 52, Indels: 16
0.70 0.23 0.07
Matches are distributed among these distances:
42 5 0.03
43 3 0.02
44 80 0.51
45 64 0.41
46 6 0.04
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (45 bp):
GTAGTTTCAATCTACTCCACTGCAACTTCAAGAAGATAAGGCTTG
Found at i:46771002 original size:44 final size:44
Alignment explanation
Indices: 46770929--46771101 Score: 170
Period size: 44 Copynumber: 3.9 Consensus size: 44
46770919 AAGATTCGCT
* * * * *
46770929 GTCTTCAATCTGCTACGCTGCAACTTCAGGGAGATAAG-GCTAGC
1 GTCTTCAATCTACTCCACTGCAACTTCAGGAAGATAAGATCTA-C
* * *
46770973 GTCTTCAATCTACTCCACTGCGACGTCAGGAAGATAAGATCCACC
1 GTCTTCAATCTACTCCACTGCAACTTCAGGAAGATAAGATCTA-C
* * * *
46771018 ATCTTCGATCTACTCCACTGCAACTTCAATG-AGATAAGATCTAT
1 GTCTTCAATCTACTCCACTGCAACTTC-AGGAAGATAAGATCTAC
* * *
46771062 GACTTCAATCTGCTCCACTGCTACTTCAGGAAGATAAGAT
1 GTCTTCAATCTACTCCACTGCAACTTCAGGAAGATAAGAT
46771102 TTATAGATTT
Statistics
Matches: 104, Mismatches: 22, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
43 2 0.02
44 63 0.61
45 37 0.36
46 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.27
Consensus pattern (44 bp):
GTCTTCAATCTACTCCACTGCAACTTCAGGAAGATAAGATCTAC
Found at i:46776864 original size:4 final size:4
Alignment explanation
Indices: 46776855--46776891 Score: 74
Period size: 4 Copynumber: 9.2 Consensus size: 4
46776845 AAGAAAAACA
46776855 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT A
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT A
46776892 TAAATAGTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:46781356 original size:39 final size:37
Alignment explanation
Indices: 46781277--46781400 Score: 99
Period size: 39 Copynumber: 3.1 Consensus size: 37
46781267 TTTTTTTTTT
* *
46781277 AATTTTATAAAATTAATAAAACATGT-TTAAAATATTTAA
1 AATTTTATAAAAATAATAAAA-AT-TATTAAAA-ATATAA
46781316 AATTTTATAAAAATATATAAAAATTATTAAAAATCATAAA
1 AATTTTATAAAAATA-ATAAAAATTATTAAAAAT-AT-AA
* *
46781356 AAATTCATAAAATATAAAATATAAAA-TATTAAAAATATTAA
1 AATTTTATAAAA-AT--AATA-AAAATTATTAAAAATA-TAA
46781397 AATT
1 AATT
46781401 GACATACATT
Statistics
Matches: 71, Mismatches: 5, Indels: 16
0.77 0.05 0.17
Matches are distributed among these distances:
38 3 0.04
39 23 0.32
40 18 0.25
41 8 0.11
42 14 0.20
43 5 0.07
ACGTcount: A:0.60, C:0.02, G:0.01, T:0.36
Consensus pattern (37 bp):
AATTTTATAAAAATAATAAAAATTATTAAAAATATAA
Found at i:46781455 original size:9 final size:9
Alignment explanation
Indices: 46781281--46781579 Score: 79
Period size: 10 Copynumber: 31.9 Consensus size: 9
46781271 TTTTTTAATT
46781281 TTAT-AAAA
1 TTATAAAAA
46781289 TTAATAAAACA
1 TT-ATAAAA-A
*
46781300 TGTTTAAAATA
1 T-TATAAAA-A
*
46781311 TT-TAAAATT
1 TTATAAAA-A
46781320 TTATAAAAA
1 TTATAAAAA
46781329 TATATAAAAA
1 T-TATAAAAA
46781339 TTATTAAAAA
1 TTA-TAAAAA
*
46781349 TCATAAAAAA
1 TTAT-AAAAA
46781359 TTCAT-AAAA
1 TT-ATAAAAA
46781368 -TAT-AAAA
1 TTATAAAAA
46781375 -TAT-AAAA
1 TTATAAAAA
46781382 -TATTAAAAA
1 TTA-TAAAAA
*
46781391 -TATTAAAA
1 TTATAAAAA
* * *
46781399 TTGACATACAT
1 TT-ATA-AAAA
*
46781410 TTATAGAAA
1 TTATAAAAA
*
46781419 TGATAAAAAAA
1 T--TATAAAAA
46781430 TTATAAAAA
1 TTATAAAAA
*
46781439 CTTTTAAAAA
1 -TTATAAAAA
46781449 TTATAAAAA
1 TTATAAAAA
*
46781458 -AACTAATAAA
1 TTA-TAA-AAA
*
46781468 TTTTAATAAA
1 TTATAA-AAA
*
46781478 TTAT--TAA
1 TTATAAAAA
* *
46781485 GTAT-ATAA
1 TTATAAAAA
46781493 TTAATAAAATA
1 TT-ATAAAA-A
* *
46781504 TATTTAAAATT
1 T-TATAAAA-A
46781515 TTATAAAAA
1 TTATAAAAA
*
46781524 CTTGTAAAAA
1 -TTATAAAAA
46781534 TTCATAAAAA
1 TT-ATAAAAA
46781544 CTTATAAATAA
1 -TTATAAA-AA
46781555 -TATAAAAA
1 TTATAAAAA
*
46781563 TTCTAATAAA
1 TTATAA-AAA
46781573 TTA-AAAA
1 TTATAAAA
46781580 TTTTAAAATT
Statistics
Matches: 224, Mismatches: 36, Indels: 62
0.70 0.11 0.19
Matches are distributed among these distances:
7 20 0.09
8 18 0.08
9 61 0.27
10 88 0.39
11 35 0.16
12 2 0.01
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (9 bp):
TTATAAAAA
Found at i:46782214 original size:9 final size:9
Alignment explanation
Indices: 46782202--46782455 Score: 130
Period size: 9 Copynumber: 27.7 Consensus size: 9
46782192 TTTATGATTT
46782202 TTTTTATAA
1 TTTTTATAA
*
46782211 TTTTTACAA
1 TTTTTATAA
46782220 TTTTATATCAA
1 TTTT-TAT-AA
*
46782231 TTTTAAT-A
1 TTTTTATAA
* *
46782239 TTTTAATTAT
1 TTTTTA-TAA
*
46782249 TTTTTATGA
1 TTTTTATAA
*
46782258 TTTTTA-AG
1 TTTTTATAA
*
46782266 TTTTTAAGAA
1 TTTTT-ATAA
*
46782276 TTTTAATAA
1 TTTTTATAA
46782285 TTTTTTATAAA
1 -TTTTTAT-AA
* *
46782296 ATTTTAAATA
1 TTTTTATA-A
46782306 TGTTTTATTAA
1 T-TTTTA-TAA
*
46782317 -TTTTATAT
1 TTTTTATAA
46782325 TTTTTATAA
1 TTTTTATAA
46782334 TTTTTATAA
1 TTTTTATAA
*
46782343 TTTTTA-GA
1 TTTTTATAA
*
46782351 -TTTTATTAG
1 TTTTTA-TAA
*
46782360 TTTTT-TATG
1 TTTTTATA-A
46782369 TTTTTATAA
1 TTTTTATAA
* *
46782378 TATTTATAG
1 TTTTTATAA
*
46782387 TTTTTATTA
1 TTTTTATAA
*
46782396 -TTTTATTA
1 TTTTTATAA
46782404 TTTTTATAA
1 TTTTTATAA
46782413 TTTTATATCAA
1 TTTT-TAT-AA
*
46782424 TTTTAAT-A
1 TTTTTATAA
*
46782432 -TTTTAAATA
1 TTTTTATA-A
*
46782441 TTTTTAAAA
1 TTTTTATAA
46782450 TTTTTA
1 TTTTTA
46782456 AAATACTTTG
Statistics
Matches: 190, Mismatches: 32, Indels: 46
0.71 0.12 0.17
Matches are distributed among these distances:
7 9 0.05
8 26 0.14
9 90 0.47
10 44 0.23
11 20 0.11
12 1 0.01
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.63
Consensus pattern (9 bp):
TTTTTATAA
Found at i:46782313 original size:58 final size:58
Alignment explanation
Indices: 46782238--46782347 Score: 141
Period size: 58 Copynumber: 1.9 Consensus size: 58
46782228 CAATTTTAAT
* * *
46782238 ATTTTAATTATTTTTTATGATTTTTA-AGTTTTTAAGAATTTTAATAATTTTTTATAAA
1 ATTTTAAATATGTTTTATGAATTTTATA-TTTTTAAGAATTTTAATAATTTTTTATAAA
* * * *
46782296 ATTTTAAATATGTTTTATTAATTTTATATTTTTTATAATTTTTATAATTTTT
1 ATTTTAAATATGTTTTATGAATTTTATATTTTTAAGAATTTTAATAATTTTT
46782348 AGATTTTATT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
58 43 0.98
59 1 0.02
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.64
Consensus pattern (58 bp):
ATTTTAAATATGTTTTATGAATTTTATATTTTTAAGAATTTTAATAATTTTTTATAAA
Found at i:46782457 original size:19 final size:18
Alignment explanation
Indices: 46782402--46782453 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 18
46782392 ATTATTTTAT
* *
46782402 TATTTTTATAATTTTATA
1 TATTTTTAAAATTTTAAA
* *
46782420 TCAATTTTAATATTTTAAA
1 T-ATTTTTAAAATTTTAAA
46782439 TATTTTTAAAATTTT
1 TATTTTTAAAATTTT
46782454 TAAAATACTT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
18 13 0.48
19 14 0.52
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (18 bp):
TATTTTTAAAATTTTAAA
Found at i:46784571 original size:40 final size:40
Alignment explanation
Indices: 46784501--46784634 Score: 169
Period size: 40 Copynumber: 3.4 Consensus size: 40
46784491 CTGTTATTTG
* *
46784501 TGGCACTTAGTGTGCGATACGATATAGCTTCGGCTATATA
1 TGGCACTTAGTGTGCGATTCGACATAGCTTCGGCTATATA
* *
46784541 TGGCACTTAGTGTACGATTCGACATTGCTTCGGCTATATA
1 TGGCACTTAGTGTGCGATTCGACATAGCTTCGGCTATATA
* * * * * *
46784581 TGGAACTTAGTGTGCAATTTGAGATAGCTTCAGCTATGTA
1 TGGCACTTAGTGTGCGATTCGACATAGCTTCGGCTATATA
*
46784621 CGGCACTTAGTGTG
1 TGGCACTTAGTGTG
46784635 TGAGATATTG
Statistics
Matches: 80, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 80 1.00
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.34
Consensus pattern (40 bp):
TGGCACTTAGTGTGCGATTCGACATAGCTTCGGCTATATA
Found at i:46789368 original size:20 final size:20
Alignment explanation
Indices: 46789340--46789378 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
46789330 ACTTCAAAGG
*
46789340 ATAATCGAGTGAACAATATC
1 ATAACCGAGTGAACAATATC
46789360 ATAACCGAGTGAACAATAT
1 ATAACCGAGTGAACAATAT
46789379 TATTAATCCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.46, C:0.15, G:0.15, T:0.23
Consensus pattern (20 bp):
ATAACCGAGTGAACAATATC
Found at i:46789477 original size:45 final size:44
Alignment explanation
Indices: 46789426--46789548 Score: 165
Period size: 45 Copynumber: 2.7 Consensus size: 44
46789416 GAGTCATGGT
* *
46789426 CGGTAAGCTCCTTCGAGCTGAACAGTAAGCTCTATTGAGCTGAAA
1 CGGTAAGCT-CTTCGAGCTGAACAGTAAGCTCCAATGAGCTGAAA
*
46789471 CGGTAAGCTCTATTGAGCTGAACAGTAAGCTCCAATGAGCTGAAA
1 CGGTAAGCTCT-TCGAGCTGAACAGTAAGCTCCAATGAGCTGAAA
* *
46789516 CAGTAAGCTCTTACAAGCTGAATCAGTAAGCTC
1 CGGTAAGCTCTT-CGAGCTGAA-CAGTAAGCTC
46789549 ATACGAGTTG
Statistics
Matches: 69, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
44 3 0.04
45 56 0.81
46 10 0.14
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.24
Consensus pattern (44 bp):
CGGTAAGCTCTTCGAGCTGAACAGTAAGCTCCAATGAGCTGAAA
Found at i:46789480 original size:23 final size:22
Alignment explanation
Indices: 46789440--46789548 Score: 130
Period size: 23 Copynumber: 4.8 Consensus size: 22
46789430 AAGCTCCTTC
46789440 GAGCTGAACAGTAAGCTCTATT
1 GAGCTGAACAGTAAGCTCTATT
*
46789462 GAGCTGAAACGGTAAGCTCTATT
1 GAGCTG-AACAGTAAGCTCTATT
* *
46789485 GAGCTGAACAGTAAGCTCCAAT
1 GAGCTGAACAGTAAGCTCTATT
*
46789507 GAGCTGAAACAGTAAGCTCT-TAC
1 GAGCTG-AACAGTAAGCTCTAT-T
*
46789530 AAGCTGAATCAGTAAGCTC
1 GAGCTGAA-CAGTAAGCTC
46789549 ATACGAGTTG
Statistics
Matches: 75, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
22 27 0.36
23 48 0.64
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.23
Consensus pattern (22 bp):
GAGCTGAACAGTAAGCTCTATT
Found at i:46791425 original size:20 final size:20
Alignment explanation
Indices: 46791384--46791425 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
46791374 ACCTCCTACA
* *
46791384 AGCTCATTTAGCTCGTTCCT
1 AGCTCATTGAGCTCATTCCT
*
46791404 AGCTCATTGAGCTCATTTCT
1 AGCTCATTGAGCTCATTCCT
46791424 AG
1 AG
46791426 TCGTTTAACT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.19, C:0.26, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCATTGAGCTCATTCCT
Found at i:46791658 original size:20 final size:21
Alignment explanation
Indices: 46791635--46791676 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 21
46791625 AAATTTTTCT
46791635 TAGCT-GAATTTAAGTTGTCC
1 TAGCTCGAATTTAAGTTGTCC
46791655 TAGCTGCCGAATTTAAGTTGTC
1 TAGCT--CGAATTTAAGTTGTC
46791677 TTTAAGTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.26
23 14 0.74
ACGTcount: A:0.24, C:0.17, G:0.21, T:0.38
Consensus pattern (21 bp):
TAGCTCGAATTTAAGTTGTCC
Found at i:46793632 original size:35 final size:35
Alignment explanation
Indices: 46793593--46793706 Score: 106
Period size: 35 Copynumber: 3.3 Consensus size: 35
46793583 GTCATCCTCA
*
46793593 TATTTATGGTTGGGTCGCCACACCCATAGTCCTTG
1 TATTTTTGGTTGGGTCGCCACACCCATAGTCCTTG
* ** * ** *
46793628 TATTTTTGG-TCGACCGCAACAATCATCA-TTCTTG
1 TATTTTTGGTTGGGTCGCCACACCCAT-AGTCCTTG
* *
46793662 TATTTTTGATTGGGTTGCCACACCCATAGTCCTTG
1 TATTTTTGGTTGGGTCGCCACACCCATAGTCCTTG
*
46793697 TGTTTTTGGT
1 TATTTTTGGT
46793707 CGACCGCAAC
Statistics
Matches: 57, Mismatches: 19, Indels: 6
0.70 0.23 0.07
Matches are distributed among these distances:
34 25 0.44
35 32 0.56
ACGTcount: A:0.18, C:0.22, G:0.20, T:0.40
Consensus pattern (35 bp):
TATTTTTGGTTGGGTCGCCACACCCATAGTCCTTG
Found at i:46793662 original size:34 final size:34
Alignment explanation
Indices: 46793624--46793738 Score: 115
Period size: 34 Copynumber: 3.4 Consensus size: 34
46793614 ACCCATAGTC
46793624 CTTGTATTTTTGGTCGACCGCAACAATCATCATT
1 CTTGTATTTTTGGTCGACCGCAACAATCATCATT
* * *** * ** *
46793658 CTTGTATTTTTGATTGGGTTGCCACACCCAT-AGTC
1 CTTGTATTTTTG-GTCGACCGCAACAATCATCA-TT
*
46793693 CTTGTGTTTTTGGTCGACCGCAACAATCATCATT
1 CTTGTATTTTTGGTCGACCGCAACAATCATCATT
46793727 CTTGTATTTTTG
1 CTTGTATTTTTG
46793739 ATTGGGTTGC
Statistics
Matches: 58, Mismatches: 20, Indels: 6
0.69 0.24 0.07
Matches are distributed among these distances:
34 35 0.60
35 23 0.40
ACGTcount: A:0.19, C:0.22, G:0.17, T:0.42
Consensus pattern (34 bp):
CTTGTATTTTTGGTCGACCGCAACAATCATCATT
Found at i:46793770 original size:69 final size:69
Alignment explanation
Indices: 46793593--46793755 Score: 281
Period size: 69 Copynumber: 2.4 Consensus size: 69
46793583 GTCATCCTCA
* * * *
46793593 TATTTATGGTTGGGTCGCCACACCCATAGTCCTTGTATTTTTGGTCGACCGCAACAATCATCATT
1 TATTTTTGATTGGGTTGCCACACCCATAGTCCTTGTGTTTTTGGTCGACCGCAACAATCATCATT
46793658 CTTG
66 CTTG
46793662 TATTTTTGATTGGGTTGCCACACCCATAGTCCTTGTGTTTTTGGTCGACCGCAACAATCATCATT
1 TATTTTTGATTGGGTTGCCACACCCATAGTCCTTGTGTTTTTGGTCGACCGCAACAATCATCATT
46793727 CTTG
66 CTTG
*
46793731 TATTTTTGATTGGGTTGCTACACCC
1 TATTTTTGATTGGGTTGCCACACCC
46793756 GTCATCTTCG
Statistics
Matches: 89, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
69 89 1.00
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.39
Consensus pattern (69 bp):
TATTTTTGATTGGGTTGCCACACCCATAGTCCTTGTGTTTTTGGTCGACCGCAACAATCATCATT
CTTG
Found at i:46793971 original size:26 final size:27
Alignment explanation
Indices: 46793941--46793994 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
46793931 CAAATTCATT
* *
46793941 GCAAGTT-GTGTTTGATAGTTGGTTTG
1 GCAAGTTGGGGTTCGATAGTTGGTTTG
*
46793967 GCAAGTTGGGGTTCGCTAGTTGGTTTG
1 GCAAGTTGGGGTTCGATAGTTGGTTTG
46793994 G
1 G
46793995 AAAACTAGGG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 7 0.29
27 17 0.71
ACGTcount: A:0.13, C:0.07, G:0.39, T:0.41
Consensus pattern (27 bp):
GCAAGTTGGGGTTCGATAGTTGGTTTG
Found at i:46794005 original size:27 final size:27
Alignment explanation
Indices: 46793956--46794007 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
46793946 TTGTGTTTGA
* ** *
46793956 TAGTTGGTTTGGCAAGTTGGGGTTCGC
1 TAGTTGGTTTGGAAAACTAGGGTTCGC
46793983 TAGTTGGTTTGGAAAACTAGGGTTC
1 TAGTTGGTTTGGAAAACTAGGGTTC
46794008 TCCAGTCAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.17, C:0.10, G:0.37, T:0.37
Consensus pattern (27 bp):
TAGTTGGTTTGGAAAACTAGGGTTCGC
Found at i:46800377 original size:12 final size:12
Alignment explanation
Indices: 46800360--46800384 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
46800350 GCATCACATT
46800360 TTCAGAAAAATC
1 TTCAGAAAAATC
46800372 TTCAGAAAAATC
1 TTCAGAAAAATC
46800384 T
1 T
46800385 GATATCTCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.16, G:0.08, T:0.28
Consensus pattern (12 bp):
TTCAGAAAAATC
Found at i:46811540 original size:34 final size:34
Alignment explanation
Indices: 46811502--46811567 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
46811492 CAAAAAAGCC
* *
46811502 CTAAACCCTACTTTAAATAAACAAAACACTAACA
1 CTAAACCATAATTTAAATAAACAAAACACTAACA
* *
46811536 CTAAACCATAATTTAAATAAACTAAACCCTAA
1 CTAAACCATAATTTAAATAAACAAAACACTAA
46811568 GACTTAAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.53, C:0.24, G:0.00, T:0.23
Consensus pattern (34 bp):
CTAAACCATAATTTAAATAAACAAAACACTAACA
Found at i:46816634 original size:29 final size:29
Alignment explanation
Indices: 46816543--46816634 Score: 109
Period size: 29 Copynumber: 3.2 Consensus size: 29
46816533 GAAAGCATGT
*
46816543 ATATGAATGTA-ATTTGGGTCTAATGGGCC
1 ATATGAATG-AGATTTGGGCCTAATGGGCC
*
46816572 ATACT-AA-CATGATTTGGGCCTAATGGGCC
1 ATA-TGAATGA-GATTTGGGCCTAATGGGCC
*
46816601 ATATGAATGAGATTTGGGCCTAGTGGGCC
1 ATATGAATGAGATTTGGGCCTAATGGGCC
46816630 ATATG
1 ATATG
46816635 CATTATGTAG
Statistics
Matches: 54, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
27 1 0.02
28 1 0.02
29 50 0.93
30 2 0.04
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.30
Consensus pattern (29 bp):
ATATGAATGAGATTTGGGCCTAATGGGCC
Found at i:46822482 original size:23 final size:23
Alignment explanation
Indices: 46822456--46822501 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
46822446 GGGAAAATTT
46822456 ATGGATCTTAATTTAGAGTTCTG
1 ATGGATCTTAATTTAGAGTTCTG
*
46822479 ATGGATCTTAATTTGGAGTTCTG
1 ATGGATCTTAATTTAGAGTTCTG
46822502 TAGCTCAAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.24, C:0.09, G:0.24, T:0.43
Consensus pattern (23 bp):
ATGGATCTTAATTTAGAGTTCTG
Found at i:46823128 original size:31 final size:31
Alignment explanation
Indices: 46823090--46823176 Score: 147
Period size: 31 Copynumber: 2.8 Consensus size: 31
46823080 ACAAATAACA
*
46823090 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
46823121 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
46823152 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
46823177 AAGTGACAAG
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 52 1.00
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:46823305 original size:46 final size:46
Alignment explanation
Indices: 46823203--46823322 Score: 145
Period size: 46 Copynumber: 2.6 Consensus size: 46
46823193 GTGATTTCCA
* *
46823203 TATAAGACCATATCTGGGATATGGCATCGGTGTGAATATGCTACTG
1 TATAAGACCATATCTGGGATATGGCATCAGTGAGAATATGCTACTG
* *
46823249 TATAATACCATATCTGGGATATGGCATCAGTGAG-ATATG-TGATTCG
1 TATAAGACCATATCTGGGATATGGCATCAGTGAGAATATGCT-ACT-G
* * *
46823295 TGTAAGACCATAGCTGGGCTATGGCATC
1 TATAAGACCATATCTGGGATATGGCATC
46823323 GATATATGAA
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
44 1 0.02
45 7 0.11
46 56 0.88
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (46 bp):
TATAAGACCATATCTGGGATATGGCATCAGTGAGAATATGCTACTG
Found at i:46823357 original size:42 final size:42
Alignment explanation
Indices: 46823294--46823391 Score: 153
Period size: 42 Copynumber: 2.3 Consensus size: 42
46823284 TATGTGATTC
* *
46823294 GTGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAATAT
1 GTGTAAGACCATAGCTAGGCTATGGCATC-ATTATATGAAGAT
*
46823336 GTGTAAGACCATAGCTAGGCTATGGCATCATTATGTGAAGAT
1 GTGTAAGACCATAGCTAGGCTATGGCATCATTATATGAAGAT
46823378 GTGTAAGACCATAG
1 GTGTAAGACCATAG
46823392 TTGAACTATG
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
41 1 0.02
42 51 0.98
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.28
Consensus pattern (42 bp):
GTGTAAGACCATAGCTAGGCTATGGCATCATTATATGAAGAT
Found at i:46823401 original size:42 final size:42
Alignment explanation
Indices: 46823294--46823405 Score: 147
Period size: 42 Copynumber: 2.7 Consensus size: 42
46823284 TATGTGATTC
* *
46823294 GTGTAAGACCATAGCTGGGCTATGGCATCGATATATGAATAT
1 GTGTAAGACCATAGCTGAGCTATGGCATCGATATATGAAGAT
*
46823336 GTGTAAGACCATAGCT-AGGCTATGGCATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGCTGA-GCTATGGCATCGA-TATATGAAGAT
* *
46823378 GTGTAAGACCATAGTTGAACTATGGCAT
1 GTGTAAGACCATAGCTGAGCTATGGCAT
46823406 TGAGAAAATG
Statistics
Matches: 62, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
41 1 0.02
42 60 0.97
43 1 0.02
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (42 bp):
GTGTAAGACCATAGCTGAGCTATGGCATCGATATATGAAGAT
Found at i:46832464 original size:30 final size:31
Alignment explanation
Indices: 46832428--46832490 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
46832418 ACTTATTTTA
46832428 TTATTAA-TTTTGTTATTATTTTAAAGGCAT
1 TTATTAATTTTTGTTATTATTTTAAAGGCAT
* *
46832458 TTATTAATTTTTTTTATTATTTTAGAGGCAT
1 TTATTAATTTTTGTTATTATTTTAAAGGCAT
46832489 TT
1 TT
46832491 GCTTGTTAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 7 0.23
31 23 0.77
ACGTcount: A:0.27, C:0.03, G:0.10, T:0.60
Consensus pattern (31 bp):
TTATTAATTTTTGTTATTATTTTAAAGGCAT
Found at i:46832631 original size:11 final size:12
Alignment explanation
Indices: 46832615--46832647 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
46832605 TATATATTTT
46832615 AAAATAATA-TA
1 AAAATAATATTA
46832626 AAAATAATATTA
1 AAAATAATATTA
46832638 AAAATTAATA
1 AAAA-TAATA
46832648 CGGGCAGGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.45
12 6 0.30
13 5 0.25
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (12 bp):
AAAATAATATTA
Found at i:46834312 original size:20 final size:22
Alignment explanation
Indices: 46834273--46834312 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
46834263 TATCATGGTC
*
46834273 TAAGCTTAATATCTATCAATGT
1 TAAGCCTAATATCTATCAATGT
46834295 TAAGCCTAAT-TC-ATCAAT
1 TAAGCCTAATATCTATCAAT
46834313 TTCTTTACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 2 0.12
22 9 0.53
ACGTcount: A:0.38, C:0.17, G:0.07, T:0.38
Consensus pattern (22 bp):
TAAGCCTAATATCTATCAATGT
Found at i:46846998 original size:26 final size:27
Alignment explanation
Indices: 46846969--46847021 Score: 81
Period size: 28 Copynumber: 2.0 Consensus size: 27
46846959 GAACTATTGC
46846969 AATATAACA-CATTAAGCGTTGGATCA
1 AATATAACAGCATTAAGCGTTGGATCA
*
46846995 AATATAACATGCATTAAGTGTTGGATC
1 AATATAACA-GCATTAAGCGTTGGATC
46847022 TCCCACTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 9 0.38
28 15 0.62
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (27 bp):
AATATAACAGCATTAAGCGTTGGATCA
Found at i:46848277 original size:12 final size:14
Alignment explanation
Indices: 46848260--46848291 Score: 50
Period size: 12 Copynumber: 2.4 Consensus size: 14
46848250 GTTGATGTAG
46848260 AATTAAAAT-ATT-
1 AATTAAAATAATTA
46848272 AATTAAAATAATTA
1 AATTAAAATAATTA
46848286 AATTAA
1 AATTAA
46848292 TTAACCTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 9 0.50
13 3 0.17
14 6 0.33
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
AATTAAAATAATTA
Found at i:46852361 original size:14 final size:15
Alignment explanation
Indices: 46852330--46852362 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
46852320 CACAATTATG
46852330 TCATCTTGTTTAAAA
1 TCATCTTGTTTAAAA
*
46852345 TCATCTT-TTTGAAA
1 TCATCTTGTTTAAAA
46852359 TCAT
1 TCAT
46852363 GTATAGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.30, C:0.15, G:0.06, T:0.48
Consensus pattern (15 bp):
TCATCTTGTTTAAAA
Found at i:46855844 original size:21 final size:21
Alignment explanation
Indices: 46855820--46855872 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
46855810 TATTATTTTC
46855820 TGAACTAGAGGCCATTCCTAT
1 TGAACTAGAGGCCATTCCTAT
*
46855841 TGAACTAGAGGCCGTTCCTAT
1 TGAACTAGAGGCCATTCCTAT
46855862 TGAACTAGAGG
1 TGAACTAGAGG
46855873 GGAGTGGTTC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (21 bp):
TGAACTAGAGGCCATTCCTAT
Found at i:46858713 original size:36 final size:36
Alignment explanation
Indices: 46858666--46858735 Score: 131
Period size: 36 Copynumber: 1.9 Consensus size: 36
46858656 GGCTCTGAGT
*
46858666 TTTATTTATGATTGTTCGAGCCCATACTCCAAGCGG
1 TTTATTTATGATTGTTCGAGCCCATACTCAAAGCGG
46858702 TTTATTTATGATTGTTCGAGCCCATACTCAAAGC
1 TTTATTTATGATTGTTCGAGCCCATACTCAAAGC
46858736 TATTTGTGGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.37
Consensus pattern (36 bp):
TTTATTTATGATTGTTCGAGCCCATACTCAAAGCGG
Found at i:46862399 original size:13 final size:13
Alignment explanation
Indices: 46862381--46862406 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
46862371 GGCGAAATTA
46862381 AGCACACGGGCGT
1 AGCACACGGGCGT
46862394 AGCACACGGGCGT
1 AGCACACGGGCGT
46862407 GTGTGTAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.31, G:0.38, T:0.08
Consensus pattern (13 bp):
AGCACACGGGCGT
Found at i:46864796 original size:19 final size:19
Alignment explanation
Indices: 46864749--46864828 Score: 128
Period size: 19 Copynumber: 4.3 Consensus size: 19
46864739 CATATCATAT
*
46864749 CATATCATATCTAAAATTG
1 CATATCATATCTAAGATTG
46864768 --TATCATATCTAAGATTG
1 CATATCATATCTAAGATTG
*
46864785 CATATCACATCTAAGATTG
1 CATATCATATCTAAGATTG
46864804 CATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG
46864823 CATATC
1 CATATC
46864829 CTTAAAGATT
Statistics
Matches: 56, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
17 16 0.29
19 40 0.71
ACGTcount: A:0.38, C:0.17, G:0.09, T:0.36
Consensus pattern (19 bp):
CATATCATATCTAAGATTG
Found at i:46865392 original size:87 final size:86
Alignment explanation
Indices: 46865301--46865573 Score: 211
Period size: 87 Copynumber: 3.1 Consensus size: 86
46865291 AGAAAGCCAA
46865301 ATCTGCTATGTCTTCGATTTTCTCCTTGTGAACACAAAGGTGCCAAATCATCTTGGATCTGCTTT
1 ATCTGCTATGTCTTCGATTTTCTCCTTGTGAACAC-AAGGTGCCAAATCATCTTGGATCTGCTTT
46865366 AGTAAAATCATCTAAAGGTTAG
65 AGTAAAATCATCTAAAGGTTAG
* * ** ** * * *
46865388 ATCTGCCATGT-ATC--TGCTCTCC--GTCGAA-ATGGAGATGCTAGATCTGTTATCTTGGATCT
1 ATCTGCTATGTCTTCGATTTTCTCCTTGT-GAACA-CAAGGTGCCAAATC----ATCTTGGATCT
* * * * *
46865447 GCTTTGGTGTGAGAA-CATCCGAAA-GTCAA
60 GCTTT--AGT-AAAATCAT-CTAAAGGTTAG
* * * *
46865476 ATCTGCTATGTCTTCGATTTGCTCATTGTGAACACAAGGAAGCCAAATCATCTTGGATCTGCTTC
1 ATCTGCTATGTCTTCGATTTTCTCCTTGTGAACACAAGG-TGCCAAATCATCTTGGATCTGCTTT
*
46865541 AGTAAAATCATCTGAAGGTTAG
65 AGTAAAATCATCTAAAGGTTAG
46865563 ATCTGCTATGT
1 ATCTGCTATGT
46865574 ATCTGCTCTC
Statistics
Matches: 134, Mismatches: 33, Indels: 38
0.65 0.16 0.19
Matches are distributed among these distances:
82 12 0.09
83 3 0.02
84 6 0.04
86 24 0.18
87 29 0.22
88 18 0.13
89 24 0.18
91 4 0.03
92 5 0.04
93 9 0.07
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (86 bp):
ATCTGCTATGTCTTCGATTTTCTCCTTGTGAACACAAGGTGCCAAATCATCTTGGATCTGCTTTA
GTAAAATCATCTAAAGGTTAG
Found at i:46865595 original size:175 final size:175
Alignment explanation
Indices: 46865292--46865625 Score: 571
Period size: 175 Copynumber: 1.9 Consensus size: 175
46865282 GTAAACACGA
* * *
46865292 GAAAGCCAAATCTGCTATGTCTTCGATTTTCTCCTTGTGAACACAAAGGTGCCAAATCATCTTGG
1 GAAAGCCAAATCTGCTATGTCTTCGATTTGCTCATTGTGAACACAAAGGAGCCAAATCATCTTGG
* *
46865357 ATCTGCTTTAGTAAAATCATCTAAAGGTTAGATCTGCCATGTATCTGCTCTCCGTCGAAATGGAG
66 ATCTGCTTCAGTAAAATCATCTAAAGGTTAGATCTGCCATGTATCTGCTCTCCGTCAAAATGGAG
*
46865422 ATGCTAGATCTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCC
131 ATGCCAGATCTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCC
*
46865467 GAAAGTCAAATCTGCTATGTCTTCGATTTGCTCATTGTGAACAC-AAGGAAGCCAAATCATCTTG
1 GAAAGCCAAATCTGCTATGTCTTCGATTTGCTCATTGTGAACACAAAGG-AGCCAAATCATCTTG
* *
46865531 GATCTGCTTCAGTAAAATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCAAAATGGA
65 GATCTGCTTCAGTAAAATCATCTAAAGGTTAGATCTGCCATGTATCTGCTCTCCGTCAAAATGGA
46865596 GATGCCAGATCTGTTATCTTGGATCTGCTT
130 GATGCCAGATCTGTTATCTTGGATCTGCTT
46865626 CAGTGTAAAC
Statistics
Matches: 149, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
174 4 0.03
175 145 0.97
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.33
Consensus pattern (175 bp):
GAAAGCCAAATCTGCTATGTCTTCGATTTGCTCATTGTGAACACAAAGGAGCCAAATCATCTTGG
ATCTGCTTCAGTAAAATCATCTAAAGGTTAGATCTGCCATGTATCTGCTCTCCGTCAAAATGGAG
ATGCCAGATCTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCC
Found at i:46865627 original size:86 final size:86
Alignment explanation
Indices: 46865350--46865629 Score: 252
Period size: 86 Copynumber: 3.2 Consensus size: 86
46865340 GTGCCAAATC
* * * *
46865350 ATCTTGGATCTGCTTTAGTAAAATCATCTAAAGGTTAGATCTGCCATGTATCTGCTCTCCGTCGA
1 ATCTTGGATCTGCTTCAGTAAAATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCAA
*
46865415 AATGGAGATGCTAGATCTGTT
66 AATGGAGATGCCAGATCTGTT
** * * * * * *
46865436 ATCTTGGATCTGCTTTGGTGTGAGAA-CATCCGAAAGTCAAATCTGCTATGTCTTCGATTTGCTC
1 ATCTTGGATCTGC-TT-CAGT-AAAATCATCTGAAGGTTAGATCTGCTATG---T--ATCTGCTC
* * * *
46865500 AT-TGTGAACACAAGGA-A-GCCAAATC----
58 -TCCGTCAA-A-ATGGAGATGCCAGATCTGTT
46865525 ATCTTGGATCTGCTTCAGTAAAATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCAA
1 ATCTTGGATCTGCTTCAGTAAAATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCAA
46865590 AATGGAGATGCCAGATCTGTT
66 AATGGAGATGCCAGATCTGTT
46865611 ATCTTGGATCTGCTTCAGT
1 ATCTTGGATCTGCTTCAGT
46865630 GTAAACACGT
Statistics
Matches: 147, Mismatches: 28, Indels: 38
0.69 0.13 0.18
Matches are distributed among these distances:
80 4 0.03
81 3 0.02
82 18 0.12
84 1 0.01
86 35 0.24
87 24 0.16
88 22 0.15
89 16 0.11
91 1 0.01
93 16 0.11
94 3 0.02
95 4 0.03
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.34
Consensus pattern (86 bp):
ATCTTGGATCTGCTTCAGTAAAATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCAA
AATGGAGATGCCAGATCTGTT
Found at i:46865765 original size:84 final size:84
Alignment explanation
Indices: 46865669--46865865 Score: 274
Period size: 84 Copynumber: 2.3 Consensus size: 84
46865659 CTTTGGTCTA
* ** *
46865669 TTACCCTACTGCTTAGGGG-TTAAGGTGCATCATCTTCGATCTGCTCTGCTACTGTTTA-GG-GA
1 TTACCCTACTGCTTAGGGGATTAAGGCGCAT-A--TTCGATCTGCTCCACTACTGCTTAGGGAGA
46865731 TAAGATCTACAAATTTAACCTG
63 TAAGATCTACAAATTTAACCTG
**
46865753 TTACCCTACTGCTTAGGGGATTAAGGCGGGTATTCGATCTGCTCCACTACTGCTTAGGGAGATAA
1 TTACCCTACTGCTTAGGGGATTAAGGCGCATATTCGATCTGCTCCACTACTGCTTAGGGAGATAA
*
46865818 GATCTGCAAATTTAACCTG
66 GATCTACAAATTTAACCTG
*
46865837 TTACCCTACTTCTTAGGGGATTAAGGCGC
1 TTACCCTACTGCTTAGGGGATTAAGGCGC
46865866 TAAATTTTGT
Statistics
Matches: 101, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
82 21 0.21
83 2 0.02
84 70 0.69
85 8 0.08
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.32
Consensus pattern (84 bp):
TTACCCTACTGCTTAGGGGATTAAGGCGCATATTCGATCTGCTCCACTACTGCTTAGGGAGATAA
GATCTACAAATTTAACCTG
Found at i:46865769 original size:41 final size:42
Alignment explanation
Indices: 46865717--46865857 Score: 128
Period size: 41 Copynumber: 3.4 Consensus size: 42
46865707 ATCTGCTCTG
* *
46865717 CTACTGTTTA-GGGATAAGATCTACAAATTTAACCTGTTACC
1 CTACTGCTTAGGGGATAAGATCTGCAAATTTAACCTGTTACC
* *** ** * *
46865758 CTACTGCTTAGGGGATTAAG-GC-GGGTATTCGATCTGCT-CC
1 CTACTGCTTAGGGGA-TAAGATCTGCAAATTTAACCTGTTACC
46865798 ACTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACC
1 -CTACTGCTTAGGG-GATAAGATCTGCAAATTTAACCTGTTACC
*
46865842 CTACTTCTTAGGGGAT
1 CTACTGCTTAGGGGAT
46865858 TAAGGCGCTA
Statistics
Matches: 74, Mismatches: 19, Indels: 13
0.70 0.18 0.12
Matches are distributed among these distances:
40 2 0.03
41 34 0.46
42 11 0.15
43 25 0.34
44 2 0.03
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (42 bp):
CTACTGCTTAGGGGATAAGATCTGCAAATTTAACCTGTTACC
Found at i:46866754 original size:8 final size:8
Alignment explanation
Indices: 46866736--46866765 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
46866726 GGCCTCTCCA
46866736 TTTTTCT-
1 TTTTTCTC
46866743 TTTTTCTC
1 TTTTTCTC
46866751 TTTTTCTC
1 TTTTTCTC
46866759 TTTTTCT
1 TTTTTCT
46866766 TTTCTTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 7 0.32
8 15 0.68
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (8 bp):
TTTTTCTC
Found at i:46866762 original size:16 final size:15
Alignment explanation
Indices: 46866736--46866775 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
46866726 GGCCTCTCCA
46866736 TTTTTCTTTTTTCTC
1 TTTTTCTTTTTTCTC
*
46866751 TTTTTCTCTTTT-TC
1 TTTTTCTTTTTTCTC
46866765 -TTTTCTTTTTT
1 TTTTTCTTTTTT
46866776 TTTACTTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 10 0.43
14 2 0.09
15 11 0.48
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTTCTTTTTTCTC
Found at i:46867183 original size:43 final size:44
Alignment explanation
Indices: 46867061--46867184 Score: 132
Period size: 43 Copynumber: 2.9 Consensus size: 44
46867051 AAAGCTAGTA
**
46867061 CAATGCCAAC-ATCCCAGATGTGGTCTTACATGT-AATCAAATAT
1 CAATGCC-ACTATCCCAGACATGGTCTTACATGTAAATCAAATAT
*
46867104 CAATGCCACTATCCCAGACAGGGTCTTACATG-AAATCAAATAT
1 CAATGCCACTATCCCAGACATGGTCTTACATGTAAATCAAATAT
* * * *
46867147 -GATTCCGA-TGTCCCAGACATGGTCTTACACGTAAATCA
1 CAATGCC-ACTATCCCAGACATGGTCTTACATGTAAATCA
46867185 TAAGTCGATG
Statistics
Matches: 69, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
42 26 0.38
43 43 0.62
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.26
Consensus pattern (44 bp):
CAATGCCACTATCCCAGACATGGTCTTACATGTAAATCAAATAT
Found at i:46872141 original size:46 final size:46
Alignment explanation
Indices: 46872091--46872263 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
46872081 TGGTTGAGCA
*
46872091 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
46872137 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
46872184 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
46872230 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
46872264 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:46872247 original size:93 final size:93
Alignment explanation
Indices: 46872088--46872258 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
46872078 GGATGGTTGA
* *
46872088 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
46872153 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
46872181 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
46872246 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
46872259 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:46879556 original size:46 final size:46
Alignment explanation
Indices: 46879506--46879678 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
46879496 TGGTTGAGCA
*
46879506 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
46879552 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
46879599 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
46879645 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
46879679 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:46879662 original size:93 final size:93
Alignment explanation
Indices: 46879503--46879673 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
46879493 GGATGGTTGA
* *
46879503 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
46879568 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
46879596 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
46879661 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
46879674 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:46887369 original size:7 final size:6
Alignment explanation
Indices: 46887350--46887379 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
46887340 TAAACTCATA
*
46887350 TTATTT TTATTT TTACTT TTATTT TTATTT
1 TTATTT TTATTT TTATTT TTATTT TTATTT
46887380 ATTTTTGAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (6 bp):
TTATTT
Found at i:46890156 original size:24 final size:24
Alignment explanation
Indices: 46890120--46890193 Score: 112
Period size: 24 Copynumber: 3.1 Consensus size: 24
46890110 GGGTCAACAT
*
46890120 TGGCACTAAGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
* *
46890144 TGGCACTATGTGTGCGAAATTGAA
1 TGGCACTATGTGTGCGGATTTGAA
*
46890168 TGGCACTATGTGTGCTGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
46890192 TG
1 TG
46890194 TCAATACACG
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.24, C:0.12, G:0.31, T:0.32
Consensus pattern (24 bp):
TGGCACTATGTGTGCGGATTTGAA
Found at i:46891920 original size:27 final size:27
Alignment explanation
Indices: 46891882--46891938 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
46891872 TGAGGGGAGA
*
46891882 AACCTATGTTTTTGTGATAAAATGCTC
1 AACCTATGTTTTCGTGATAAAATGCTC
46891909 AACCTATGTTTTCGTGATAAAATGCTC
1 AACCTATGTTTTCGTGATAAAATGCTC
46891936 AAC
1 AAC
46891939 TTGGAATGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.37
Consensus pattern (27 bp):
AACCTATGTTTTCGTGATAAAATGCTC
Found at i:46897004 original size:46 final size:45
Alignment explanation
Indices: 46896954--46897180 Score: 292
Period size: 46 Copynumber: 4.9 Consensus size: 45
46896944 TTTCTGAAAT
*
46896954 GAAATGTGTAAGACTATGGTTGAAAGATACCATGGCAACATGATA
1 GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATA
46896999 TGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATA
1 -GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATA
* * *
46897045 GAAAATGTGTAAGACCATGGTTGAAAGGTACCATGGAAACATGACGA
1 G-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGA-TA
** * *
46897092 GGAAATGAATAAGACCATGGTTGAAAGATACTATGGCAACATGACA
1 -GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATA
* * * * *
46897138 GAAAACGAGTAAGACCATAGTTGAAAGATACTATGGCATCATG
1 G-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
46897181 TCGAAGATAA
Statistics
Matches: 163, Mismatches: 14, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
45 2 0.01
46 122 0.75
47 38 0.23
48 1 0.01
ACGTcount: A:0.41, C:0.13, G:0.25, T:0.22
Consensus pattern (45 bp):
GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATA
Found at i:46897134 original size:93 final size:92
Alignment explanation
Indices: 46896955--46897173 Score: 312
Period size: 93 Copynumber: 2.4 Consensus size: 92
46896945 TTCTGAAATG
* * * * **
46896955 AAATGTGTAAGACTATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGT
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGAAACATGAGAGGAAATGAATAAGACCATGGT
*
46897020 TGAAAGATACCATGGCAACATGATAGA
66 TGAAAGATACCATGGCAACATGACAGA
*
46897047 AAATGTGTAAGACCATGGTTGAAAGGTACCATGGAAACATGACGAGGAAATGAATAAGACCATGG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGAAACATGA-GAGGAAATGAATAAGACCATGG
*
46897112 TTGAAAGATACTATGGCAACATGACAGA
65 TTGAAAGATACCATGGCAACATGACAGA
* * * *
46897140 AAACGAGTAAGACCATAGTTGAAAGATACTATGG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGG
46897174 CATCATGTCG
Statistics
Matches: 112, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
92 39 0.35
93 73 0.65
ACGTcount: A:0.42, C:0.12, G:0.25, T:0.21
Consensus pattern (92 bp):
AAATGTGTAAGACCATGGTTGAAAGATACCATGGAAACATGAGAGGAAATGAATAAGACCATGGT
TGAAAGATACCATGGCAACATGACAGA
Found at i:46902046 original size:25 final size:26
Alignment explanation
Indices: 46901997--46902056 Score: 79
Period size: 25 Copynumber: 2.3 Consensus size: 26
46901987 GATGATGACG
46901997 AAAACAATAATAATAGCAATAGTA-T
1 AAAACAATAATAATAGCAATAGTATT
*
46902022 AAAACAATAATAATA-CATATGGTATT
1 AAAACAATAATAATAGCA-ATAGTATT
*
46902048 AAAATAATA
1 AAAACAATA
46902057 GAAACAAAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
24 2 0.06
25 20 0.65
26 9 0.29
ACGTcount: A:0.60, C:0.07, G:0.07, T:0.27
Consensus pattern (26 bp):
AAAACAATAATAATAGCAATAGTATT
Found at i:46902072 original size:9 final size:9
Alignment explanation
Indices: 46902058--46902083 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
46902048 AAAATAATAG
46902058 AAACAAAAC
1 AAACAAAAC
46902067 AAACAAAAC
1 AAACAAAAC
46902076 AAACAAAA
1 AAACAAAA
46902084 AAATATGATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.81, C:0.19, G:0.00, T:0.00
Consensus pattern (9 bp):
AAACAAAAC
Found at i:46902196 original size:31 final size:33
Alignment explanation
Indices: 46902161--46902222 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
46902151 ACATAATAGA
*
46902161 ATGTACA-AACA-ATATGATATTTACAATATAT
1 ATGTACATAACATATATGATATGTACAATATAT
* *
46902192 ATGTACATAATATATATGATATGTATAATAT
1 ATGTACATAACATATATGATATGTACAATAT
46902223 TAATATACAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 7 0.27
32 3 0.12
33 16 0.62
ACGTcount: A:0.47, C:0.06, G:0.08, T:0.39
Consensus pattern (33 bp):
ATGTACATAACATATATGATATGTACAATATAT
Found at i:46903682 original size:23 final size:23
Alignment explanation
Indices: 46903654--46903707 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
46903644 TTGGGTTAGT
46903654 GTTTTGGGTAAATTAGGTTAGGG
1 GTTTTGGGTAAATTAGGTTAGGG
* *
46903677 GTTTTGGATAAATTGGGTTAGGG
1 GTTTTGGGTAAATTAGGTTAGGG
46903700 GTTTTGGG
1 GTTTTGGG
46903708 CCCAAAATTG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.19, C:0.00, G:0.41, T:0.41
Consensus pattern (23 bp):
GTTTTGGGTAAATTAGGTTAGGG
Found at i:46904685 original size:43 final size:43
Alignment explanation
Indices: 46904579--46904711 Score: 126
Period size: 43 Copynumber: 3.1 Consensus size: 43
46904569 AAACACATAT
* * * *
46904579 ATCACATA-CAATG-CCATATCCCAGATATGGTCTTACAAGTT
1 ATCACATATCAATGACAATGTCCCAGATATGGTCTTACACGTA
* ** *
46904620 ATCACATATCAATTACTCTGTCCCAGATAGGGTCTTACACGTA
1 ATCACATATCAATGACAATGTCCCAGATATGGTCTTACACGTA
* * * * * *
46904663 ATCTCATATCGATGGCAATGTCCCAGACATGGTCATACACGAA
1 ATCACATATCAATGACAATGTCCCAGATATGGTCTTACACGTA
46904706 ATCACA
1 ATCACA
46904712 CCACGGAAGT
Statistics
Matches: 72, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
41 8 0.11
42 4 0.06
43 60 0.83
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (43 bp):
ATCACATATCAATGACAATGTCCCAGATATGGTCTTACACGTA
Found at i:46905897 original size:55 final size:55
Alignment explanation
Indices: 46905813--46905920 Score: 216
Period size: 55 Copynumber: 2.0 Consensus size: 55
46905803 CGTCAACTTT
46905813 AAGGATAAGATCAAGTAGTTTGTGTTTGAATTTCAAATTTCAAATACAAGGCTTC
1 AAGGATAAGATCAAGTAGTTTGTGTTTGAATTTCAAATTTCAAATACAAGGCTTC
46905868 AAGGATAAGATCAAGTAGTTTGTGTTTGAATTTCAAATTTCAAATACAAGGCT
1 AAGGATAAGATCAAGTAGTTTGTGTTTGAATTTCAAATTTCAAATACAAGGCT
46905921 GCCATACAAT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.37, C:0.10, G:0.19, T:0.34
Consensus pattern (55 bp):
AAGGATAAGATCAAGTAGTTTGTGTTTGAATTTCAAATTTCAAATACAAGGCTTC
Found at i:46919066 original size:21 final size:21
Alignment explanation
Indices: 46919040--46919080 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
46919030 GCTACGAAGG
46919040 ACTCAAAAGTGGCCATACAAA
1 ACTCAAAAGTGGCCATACAAA
46919061 ACTCAAAAGTGGCCATACAA
1 ACTCAAAAGTGGCCATACAA
46919081 CTACACATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.46, C:0.24, G:0.15, T:0.15
Consensus pattern (21 bp):
ACTCAAAAGTGGCCATACAAA
Found at i:46927420 original size:20 final size:20
Alignment explanation
Indices: 46927395--46927439 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
46927385 AGGGGGAAGT
46927395 GTGTTAGAATAGAAGTTGGC
1 GTGTTAGAATAGAAGTTGGC
*
46927415 GTGTTAGAATAGATGTTGGC
1 GTGTTAGAATAGAAGTTGGC
46927435 GTGTT
1 GTGTT
46927440 GGACTCAAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.24, C:0.04, G:0.36, T:0.36
Consensus pattern (20 bp):
GTGTTAGAATAGAAGTTGGC
Found at i:46937538 original size:12 final size:13
Alignment explanation
Indices: 46937511--46937539 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
46937501 AATTTAATAA
46937511 ATATATTTGTTAT
1 ATATATTTGTTAT
46937524 ATATATTTG-TAT
1 ATATATTTGTTAT
46937536 ATAT
1 ATAT
46937540 TTGCGTATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (13 bp):
ATATATTTGTTAT
Found at i:46937658 original size:18 final size:18
Alignment explanation
Indices: 46937635--46937672 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
46937625 TATTTACTGC
46937635 ATGTTATTTTCAAACACT
1 ATGTTATTTTCAAACACT
46937653 ATGTTATTTTCAAACACT
1 ATGTTATTTTCAAACACT
46937671 AT
1 AT
46937673 CTTTGTAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.34, C:0.16, G:0.05, T:0.45
Consensus pattern (18 bp):
ATGTTATTTTCAAACACT
Found at i:46937792 original size:7 final size:7
Alignment explanation
Indices: 46937780--46937817 Score: 76
Period size: 7 Copynumber: 5.4 Consensus size: 7
46937770 TAATTTGGAA
46937780 AATATTT
1 AATATTT
46937787 AATATTT
1 AATATTT
46937794 AATATTT
1 AATATTT
46937801 AATATTT
1 AATATTT
46937808 AATATTT
1 AATATTT
46937815 AAT
1 AAT
46937818 GTTAAAGTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (7 bp):
AATATTT
Found at i:46938754 original size:14 final size:14
Alignment explanation
Indices: 46938735--46938772 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
46938725 GTTTGCGAGT
*
46938735 AAAATGTTTTCTGA
1 AAAATGATTTCTGA
*
46938749 AAAATGATTTCTGG
1 AAAATGATTTCTGA
46938763 AAAATGATTT
1 AAAATGATTT
46938773 ATTTTTTTGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.39, C:0.05, G:0.16, T:0.39
Consensus pattern (14 bp):
AAAATGATTTCTGA
Found at i:46938791 original size:19 final size:19
Alignment explanation
Indices: 46938764--46938800 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
46938754 GATTTCTGGA
* *
46938764 AAATGATTTATTTTTTTGG
1 AAATAATTTACTTTTTTGG
46938783 AAATAATTTACTTTTTTG
1 AAATAATTTACTTTTTTG
46938801 ATGTTTGGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.30, C:0.03, G:0.11, T:0.57
Consensus pattern (19 bp):
AAATAATTTACTTTTTTGG
Found at i:46938900 original size:18 final size:18
Alignment explanation
Indices: 46938874--46938916 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
46938864 AAAAGTTATT
*
46938874 TTTACATATATTAATAAA
1 TTTATATATATTAATAAA
46938892 TTTATATATATTAATAAA
1 TTTATATATATTAATAAA
46938910 TTTATAT
1 TTTATAT
46938917 TTTAAATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTATATATATTAATAAA
Found at i:46938976 original size:54 final size:54
Alignment explanation
Indices: 46938869--46938977 Score: 125
Period size: 54 Copynumber: 2.0 Consensus size: 54
46938859 TTCGGAAAAG
* ** **
46938869 TTATTTTTACATATATTAATAAATTTATATATATTAATAAATTTATATTTTAAA
1 TTATTTTTACATATATTAATAAATTTATATATATAAATAAATAAATAAATTAAA
46938923 TTATTTTTACATATATT-ATAATGATTTAT-T-TATAAATAAATAAATCAAATTAAA
1 TTATTTTTACATATATTAATAA--ATTTATATATATAAATAAATAAAT-AAATTAAA
46938977 T
1 T
46938978 ATATAATAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
53 16 0.34
54 25 0.53
55 6 0.13
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.50
Consensus pattern (54 bp):
TTATTTTTACATATATTAATAAATTTATATATATAAATAAATAAATAAATTAAA
Found at i:46939122 original size:25 final size:25
Alignment explanation
Indices: 46939094--46939172 Score: 67
Period size: 25 Copynumber: 3.3 Consensus size: 25
46939084 TAATATTAGA
46939094 AATTAATAATATTATCCAAATGCAT
1 AATTAATAATATTATCCAAATGCAT
* * *
46939119 AATTAGTAGTA-TA-CCACATG-AT
1 AATTAATAATATTATCCAAATGCAT
* * * *
46939141 AA-CAATAACATTGTCCAAGTGCAT
1 AATTAATAATATTATCCAAATGCAT
46939165 AATTAATA
1 AATTAATA
46939173 TTATACCACA
Statistics
Matches: 39, Mismatches: 11, Indels: 8
0.67 0.19 0.14
Matches are distributed among these distances:
21 4 0.10
22 5 0.13
23 11 0.28
24 6 0.15
25 13 0.33
ACGTcount: A:0.46, C:0.14, G:0.09, T:0.32
Consensus pattern (25 bp):
AATTAATAATATTATCCAAATGCAT
Found at i:46944641 original size:38 final size:38
Alignment explanation
Indices: 46944589--46944828 Score: 237
Period size: 38 Copynumber: 5.8 Consensus size: 38
46944579 TTAACATGTA
*
46944589 TAACCGTGGCATATCCACTTAGCACCACGTTACATATT
1 TAACCGTGGTATATCCACTTAGCACCACGTTACATATT
* *
46944627 TAATCGTGGTATATCCACTTAGCACCACGTTACATGTT
1 TAACCGTGGTATATCCACTTAGCACCACGTTACATATT
*
46944665 TAACCGTGGTATATCCACTTAACACCACGTTAATCAATCAATATAT
1 TAACCGTGGTATATCCACTTAGCACCACG-T--T--A-C-ATAT-T
*
46944711 GTAACCGTGGCATATCCACTTAGCACCACGTTACATGTATCAATATGT
1 -TAACCGTGGTATATCCACTTAGCACCACG-----T-TA-C-ATAT-T
* * *
46944759 GTAATCGTGGTATATCCACTTAGCACCACGTTACACATA
1 -TAACCGTGGTATATCCACTTAGCACCACGTTACATATT
46944798 TAACCGTGGTATATCCACTTAGCACCACGTT
1 TAACCGTGGTATATCCACTTAGCACCACGTT
46944829 TTTCCATTCC
Statistics
Matches: 173, Mismatches: 16, Indels: 26
0.80 0.07 0.12
Matches are distributed among these distances:
38 92 0.53
39 1 0.01
40 3 0.02
41 2 0.01
42 2 0.01
43 2 0.01
44 1 0.01
45 3 0.02
46 1 0.01
47 27 0.16
48 37 0.21
50 1 0.01
51 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (38 bp):
TAACCGTGGTATATCCACTTAGCACCACGTTACATATT
Found at i:46944774 original size:48 final size:48
Alignment explanation
Indices: 46944660--46944828 Score: 198
Period size: 48 Copynumber: 3.8 Consensus size: 48
46944650 ACCACGTTAC
* *
46944660 ATGTTTAACCGTGGTATATCCACTTAACACCACGTTA-ATCAATCAAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATCAATCAAT
* * **
46944707 ATATGTAACCGTGGCATATCCACTTAGCACCACGTTACATGTATCAAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATCAATCAAT
*
46944755 ATGTGTAATCGTGGTATATCCACTTAGCACCACGTT--A-C-A-C-AT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATCAATCAAT
46944797 A----TAACCGTGGTATATCCACTTAGCACCACGTT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTT
46944829 TTTCCATTCC
Statistics
Matches: 110, Mismatches: 11, Indels: 11
0.83 0.08 0.08
Matches are distributed among these distances:
38 30 0.27
42 3 0.03
43 1 0.01
44 1 0.01
46 1 0.01
47 33 0.30
48 41 0.37
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (48 bp):
ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATCAATCAAT
Found at i:46949026 original size:24 final size:25
Alignment explanation
Indices: 46948984--46949032 Score: 91
Period size: 24 Copynumber: 2.0 Consensus size: 25
46948974 CCTGAACACA
46948984 GAAAACGGTAAAAAAAATAGATTCT
1 GAAAACGGTAAAAAAAATAGATTCT
46949009 GAAAACGGT-AAAAAAATAGATTCT
1 GAAAACGGTAAAAAAAATAGATTCT
46949033 TTCTCTAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 15 0.62
25 9 0.38
ACGTcount: A:0.55, C:0.08, G:0.16, T:0.20
Consensus pattern (25 bp):
GAAAACGGTAAAAAAAATAGATTCT
Found at i:46952093 original size:17 final size:17
Alignment explanation
Indices: 46952058--46952089 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
46952048 TTTATTAATT
46952058 AATTTAATTAATTTTTC
1 AATTTAATTAATTTTTC
46952075 AATTTAA-TAATTTTT
1 AATTTAATTAATTTTT
46952090 TCAACTCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (17 bp):
AATTTAATTAATTTTTC
Found at i:46955888 original size:46 final size:47
Alignment explanation
Indices: 46955802--46956018 Score: 209
Period size: 46 Copynumber: 4.7 Consensus size: 47
46955792 CTCTATACGT
* * *
46955802 GCCGATGCCATGTTCCGGACATGGTCTTACACTGA--CACATCTCGTA-
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGACTCTCATCTCGTAG
* *
46955848 GCCGATGCATGTCCCAAACATGTCTTACACTGGCT-TACATCTCG-AG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGACTCT-CATCTCGTAG
* * * * *
46955894 GCCAATGCATGTCCTAGACATGTCTTACACT-AGCTCTCGTCTC-AAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTGA-CTCTCATCTCGTAG
*
46955940 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATAAT-GT-G
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGACTCTCAT-CTCGTAG
46955988 GCCGATGCATGTCCCAGACATGTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
46956019 AGCGCACAAA
Statistics
Matches: 142, Mismatches: 17, Indels: 24
0.78 0.09 0.13
Matches are distributed among these distances:
44 11 0.08
45 12 0.08
46 66 0.46
47 28 0.20
48 23 0.16
49 2 0.01
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.27
Consensus pattern (47 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGACTCTCATCTCGTAG
Found at i:46955979 original size:48 final size:47
Alignment explanation
Indices: 46955652--46956018 Score: 199
Period size: 46 Copynumber: 7.8 Consensus size: 47
46955642 CATAGGGTGT
* * * **
46955652 AATGCCGATGCCACGTCCCAGACATGGTTTTACACTGACTATCAAAATC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTC--TCTC
* * * * * * *
46955701 GAGGCCGACGCCATATCCCAAACATGGTCTTACACT-AGCTTTTACATATC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGA-C-TCT-C-TCTC
** ** * * *
46955751 CGTGCCGATGCCATGTTTCGGACATGGTCTTACATTGACAC-CTCT-
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCTCTC
* * *
46955796 ATACGTGCCGATGCCATGTTCCGGACATGGTCTTACACTGACACATCTCGT-
1 A-A--TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTC-TCTC-TC
* *
46955847 -A-GCCGATG-CATGTCCCAAACAT-GTCTTACACTGGCT-TACATCTC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCT-C-TCTC
* * * *
46955891 GAGGCCAATG-CATGTCCTAGACAT-GTCTTACACT-AGCTCTCGTCTC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGA-CTCTC-TCTC
*
46955937 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTC-AT-
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCTCTC
46955982 AATGTGGCCGATG-CATGTCCCAGACAT-GTCTTACACT
1 AA--T-GCCGATGCCATGTCCCAGACATGGTCTTACACT
46956019 AGCGCACAAA
Statistics
Matches: 254, Mismatches: 41, Indels: 49
0.74 0.12 0.14
Matches are distributed among these distances:
42 1 0.00
43 2 0.01
44 14 0.06
45 14 0.06
46 62 0.24
47 30 0.12
48 60 0.24
49 32 0.13
50 36 0.14
51 3 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (47 bp):
AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCTCTC
Found at i:46955996 original size:94 final size:97
Alignment explanation
Indices: 46955652--46956021 Score: 320
Period size: 94 Copynumber: 3.9 Consensus size: 97
46955642 CATAGGGTGT
* * * * * *
46955652 AATGCCGATGCCACGTCCCAGACATGGTTTTACACTGACTATCAAAATCGAGGCCGACGCCATAT
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATAATCGAGGCCGATGCCATGT
* * *
46955717 CCCAAACATGGTCTTACACTAGCTTTTACATATC
66 CCCAGACATGGTCTTACACTAGC-TCT-CATCTC
** ** * * * *
46955751 CGTGCCGATGCCATGTTTCGGACATGGTCTTACATTGACACCTC-T-ATACG-TGCCGATGCCAT
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGAC-TCTCATAAT-CGAGGCCGATGCCAT
* * * *
46955813 GTTCCGGACATGGTCTTACACT-G-ACACATCTC
64 GTCCCAGACATGGTCTTACACTAGCTCTCATCTC
* * * * *
46955845 -GTAGCCGATG-CATGTCCCAAACAT-GTCTTACACTGGCT-TACAT-CTCGAGGCCAATG-CAT
1 AAT-GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCT-CATAATCGAGGCCGATGCCAT
* *
46955904 GTCCTAGACAT-GTCTTACACTAGCTCTCGTCTC
64 GTCCCAGACATGGTCTTACACTAGCTCTCATCTC
*
46955937 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATAAT-GTGGCCGATG-CATGT
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATAATCGAGGCCGATGCCATGT
46956000 CCCAGACAT-GTCTTACACTAGC
66 CCCAGACATGGTCTTACACTAGC
46956022 GCACAAATGA
Statistics
Matches: 214, Mismatches: 44, Indels: 31
0.74 0.15 0.11
Matches are distributed among these distances:
90 11 0.05
91 15 0.07
92 32 0.15
93 26 0.12
94 62 0.29
95 2 0.01
97 1 0.00
98 30 0.14
99 33 0.15
100 2 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (97 bp):
AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATAATCGAGGCCGATGCCATGT
CCCAGACATGGTCTTACACTAGCTCTCATCTC
Found at i:46964019 original size:58 final size:57
Alignment explanation
Indices: 46963869--46964020 Score: 139
Period size: 57 Copynumber: 2.6 Consensus size: 57
46963859 TATCGTATAA
* *
46963869 CAGGATTACCAGTCCAAGCTAAATCCTTTATATAACATAAGCTCAGAGGAGCTCAAT
1 CAGGATTACCAGTCCAAGCTAAATCCTTTCTATAACATAAGCTCAGAGGAGATCAAT
* * * * * * * *
46963926 TAGGATTACCAATCC-AGACTAAACCCTAATC-ATAACGTATGCTC-GAGGGGTATTATAT
1 CAGGATTACCAGTCCAAG-CTAAATCCT-TTCTATAACATAAGCTCAGAGGAG-ATCA-AT
* *
46963984 CGGGATTACCCGTCCAAGCTAAATCCTTTCTATAACA
1 CAGGATTACCAGTCCAAGCTAAATCCTTTCTATAACA
46964021 AGGTCAATGG
Statistics
Matches: 72, Mismatches: 17, Indels: 11
0.72 0.17 0.11
Matches are distributed among these distances:
56 7 0.10
57 36 0.50
58 27 0.38
59 2 0.03
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (57 bp):
CAGGATTACCAGTCCAAGCTAAATCCTTTCTATAACATAAGCTCAGAGGAGATCAAT
Found at i:46964048 original size:44 final size:44
Alignment explanation
Indices: 46963985--46964081 Score: 167
Period size: 44 Copynumber: 2.2 Consensus size: 44
46963975 GTATTATATC
*
46963985 GGGATTACCCGTCCAAGCTAAATCCTTTCTATAACAAGGTCAAT
1 GGGATTACTCGTCCAAGCTAAATCCTTTCTATAACAAGGTCAAT
* *
46964029 GGGATTACTCGTTCGAGCTAAATCCTTTCTATAACAAGGTCAAT
1 GGGATTACTCGTCCAAGCTAAATCCTTTCTATAACAAGGTCAAT
46964073 GGGATTACT
1 GGGATTACT
46964082 TCATGCAATC
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 50 1.00
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.30
Consensus pattern (44 bp):
GGGATTACTCGTCCAAGCTAAATCCTTTCTATAACAAGGTCAAT
Found at i:46968839 original size:28 final size:27
Alignment explanation
Indices: 46968776--46968927 Score: 241
Period size: 27 Copynumber: 5.6 Consensus size: 27
46968766 ATATTAAGTC
* * *
46968776 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
46968803 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
46968831 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
46968858 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
46968886 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
46968913 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
46968928 GCACAATTTA
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 66 0.55
28 53 0.45
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:46968860 original size:55 final size:55
Alignment explanation
Indices: 46968776--46968927 Score: 259
Period size: 55 Copynumber: 2.8 Consensus size: 55
46968766 ATATTAAGTC
* * *
46968776 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
46968831 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
46968886 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT
46968928 GCACAATTTA
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 92 1.00
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:46976846 original size:28 final size:27
Alignment explanation
Indices: 46976783--46976934 Score: 241
Period size: 27 Copynumber: 5.6 Consensus size: 27
46976773 ATATTAAGTC
* * *
46976783 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
46976810 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
46976838 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
46976865 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
46976893 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
46976920 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
46976935 GCACAATTTA
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 66 0.55
28 53 0.45
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:46976867 original size:55 final size:55
Alignment explanation
Indices: 46976783--46976934 Score: 259
Period size: 55 Copynumber: 2.8 Consensus size: 55
46976773 ATATTAAGTC
* * *
46976783 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
46976838 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
46976893 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT
46976935 GCACAATTTA
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 92 1.00
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:46981722 original size:55 final size:53
Alignment explanation
Indices: 46981635--46981843 Score: 222
Period size: 55 Copynumber: 3.9 Consensus size: 53
46981625 ATTAGGGTTT
* * *
46981635 AAGGATACCATATAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTATAAGGC
1 AAGGAAACCATGTAAGACCATGCCAAGACATGGC-ATTGGTAA-GTTTATAAGGC
* * * *
46981690 AAGGAAATCATGTAAGACCATGTCAATACATGGCATTGATAAGTTACTATAAGGC
1 AAGGAAACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT--TATAAGGC
** * * * *
46981745 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGT
1 -AAGGAAACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTATAAGGC
* * *
46981798 AAGGACACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTT
1 AAGGAAACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTT
46981844 CAAAAGGATA
Statistics
Matches: 126, Mismatches: 24, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
52 4 0.03
53 43 0.34
54 7 0.06
55 68 0.54
56 4 0.03
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.23
Consensus pattern (53 bp):
AAGGAAACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTATAAGGC
Found at i:46981841 original size:108 final size:110
Alignment explanation
Indices: 46981642--46981842 Score: 307
Period size: 108 Copynumber: 1.8 Consensus size: 110
46981632 TTTAAGGATA
* *
46981642 CCATATAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTATAAGGCAAGGAAATCATGTAAGA
1 CCATATAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTCATAAGGCAAGGAAACCATGTAAGA
* *
46981707 CCATGTCAATACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* * * *
46981752 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-GTTCATAAGGTAAGGACACCATGTAAGA
1 CCATATAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTCATAAGGCAAGGAAACCATGTAAGA
*
46981815 CCATGTCAAGACATGGCAATGGTAAGTT
66 CCATGTCAAGACATGGCAATGATAAGTT
46981843 TCAAAAGGAT
Statistics
Matches: 82, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
108 49 0.60
109 7 0.09
110 26 0.32
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.23
Consensus pattern (110 bp):
CCATATAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTCATAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:46981984 original size:23 final size:24
Alignment explanation
Indices: 46981958--46982002 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
46981948 AAGGTAAGGT
*
46981958 AAGGTAAGACGAGTT-ATGCTAAA
1 AAGGTAAGACAAGTTCATGCTAAA
46981981 AAGGTAAGACAAGTTCATGCTA
1 AAGGTAAGACAAGTTCATGCTA
46982003 GAAGAGCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.42, C:0.11, G:0.24, T:0.22
Consensus pattern (24 bp):
AAGGTAAGACAAGTTCATGCTAAA
Found at i:46982102 original size:16 final size:16
Alignment explanation
Indices: 46982081--46982111 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
46982071 ATAAATTTGA
46982081 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
46982097 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
46982112 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:46983525 original size:20 final size:20
Alignment explanation
Indices: 46983496--46983540 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
46983486 AGCACATGTA
* *
46983496 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAACTT
*
46983516 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAACTT
46983536 TTCAT
1 TTCAT
46983541 TTTAGTCCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.02, T:0.49
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:46988969 original size:53 final size:54
Alignment explanation
Indices: 46988901--46989107 Score: 209
Period size: 53 Copynumber: 3.8 Consensus size: 54
46988891 TTCCTTTTTA
* * *
46988901 AACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-G
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * * * *
46988954 AACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATCG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
** * * * * * * *
46989008 TAGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTACCTTGTAA
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * *
46989063 AACTTACCAATGTCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
46989108 AAACCCTAAT
Statistics
Matches: 122, Mismatches: 30, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
53 46 0.38
54 37 0.30
55 39 0.32
ACGTcount: A:0.20, C:0.24, G:0.18, T:0.38
Consensus pattern (54 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:46992681 original size:46 final size:45
Alignment explanation
Indices: 46992622--46992788 Score: 178
Period size: 46 Copynumber: 3.6 Consensus size: 45
46992612 GCCCATAAAC
*
46992622 GAACTCGGACTCAACTCAATGAGCTCGGGCGTTTGCATCCATAAGT
1 GAACTCGGACTCAACTCAATGAGTTCGGGCGTTT-CATCCATAAGT
* * *
46992668 GAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTTACAT--TTCA-T
1 GAACTCGGACTCAACTCAATGAGTTCGG--G-C--GTTTCATCCATAAGT
* *
46992715 GAACTCGGACTCAACTCAACGAGTTCGGACGTTCTCATCCATAAGT
1 GAACTCGGACTCAACTCAATGAGTTCGGGCGTT-TCATCCATAAGT
* *
46992761 GAACTCGGACTCAACTCAACGACTTCGG
1 GAACTCGGACTCAACTCAATGAGTTCGG
46992789 ATGCCCAAAT
Statistics
Matches: 102, Mismatches: 10, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
42 3 0.03
43 3 0.03
44 1 0.01
45 2 0.02
46 55 0.54
47 28 0.27
48 3 0.03
49 1 0.01
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.25
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAATGAGTTCGGGCGTTTCATCCATAAGT
Found at i:46992730 original size:93 final size:93
Alignment explanation
Indices: 46992622--46992793 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
46992612 GCCCATAAAC
* *
46992622 GAACTCGGACTCAACTCAATGAGCTCGGGCGTT-TGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGTTCT-CATCCATAAGTGAACTCGGACTCAACTCA
* *
46992686 ATGAGTTCGGATGCCTAGTTACATTTCAT
65 ACGACTTCGGATGCCTAGTTACATTTCAT
*
46992715 GAACTCGGACTCAACTCAACGAGTTCGGACGTTCTCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGTTCTCATCCATAAGTGAACTCGGACTCAACTCAA
46992780 CGACTTCGGATGCC
66 CGACTTCGGATGCC
46992794 CAAATATCCG
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
93 72 0.99
94 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGTTCTCATCCATAAGTGAACTCGGACTCAACTCAA
CGACTTCGGATGCCTAGTTACATTTCAT
Found at i:46997650 original size:28 final size:27
Alignment explanation
Indices: 46997605--46997710 Score: 112
Period size: 28 Copynumber: 3.9 Consensus size: 27
46997595 CATTAAGCAT
46997605 AAAGTGCAAAT-A--ACGATAAGCACC
1 AAAGTGCAAATAATTACGATAAGCACC
46997629 AAAGTGCAAAATAATTACGATAAGCACC
1 AAAGTGC-AAATAATTACGATAAGCACC
* *
46997657 AAAGTGCATAT-TTTACAATGATAAGCACC
1 AAAGTGCAAATAATTAC---GATAAGCACC
*
46997686 GAAGTGCGAAATAATTACGATAAGC
1 AAAGTGC-AAATAATTACGATAAGC
46997711 GCGCTAATTT
Statistics
Matches: 68, Mismatches: 5, Indels: 14
0.78 0.06 0.16
Matches are distributed among these distances:
24 7 0.10
25 4 0.06
26 5 0.07
27 3 0.04
28 26 0.38
29 16 0.24
30 3 0.04
31 4 0.06
ACGTcount: A:0.46, C:0.17, G:0.17, T:0.20
Consensus pattern (27 bp):
AAAGTGCAAATAATTACGATAAGCACC
Found at i:47004936 original size:34 final size:34
Alignment explanation
Indices: 47004884--47004959 Score: 107
Period size: 34 Copynumber: 2.2 Consensus size: 34
47004874 CCCATTTCAA
* *
47004884 TAACAGTAGCAGTCTGGGCCTAATCCCACTACAG
1 TAACAGTAGAAGTCTGGGCCTAAGCCCACTACAG
* * *
47004918 TAACAGTAGAAGTTTGGGCCTGAGCCCATTACAG
1 TAACAGTAGAAGTCTGGGCCTAAGCCCACTACAG
47004952 TAACAGTA
1 TAACAGTA
47004960 TGCAAACAGA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.32, C:0.24, G:0.22, T:0.22
Consensus pattern (34 bp):
TAACAGTAGAAGTCTGGGCCTAAGCCCACTACAG
Found at i:47014945 original size:24 final size:27
Alignment explanation
Indices: 47014913--47014970 Score: 86
Period size: 28 Copynumber: 2.2 Consensus size: 27
47014903 TCATTAGGAA
47014913 CAAAGTGC-AAAT-A-ACGATAAGCAC
1 CAAAGTGCAAAATAATACGATAAGCAC
47014937 CAAAGTGCAAAATAATTACGATAAGCAC
1 CAAAGTGCAAAATAA-TACGATAAGCAC
47014965 CAAAGT
1 CAAAGT
47014971 ACTTATTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
24 8 0.27
25 4 0.13
26 1 0.03
28 17 0.57
ACGTcount: A:0.50, C:0.19, G:0.16, T:0.16
Consensus pattern (27 bp):
CAAAGTGCAAAATAATACGATAAGCAC
Found at i:47020092 original size:20 final size:20
Alignment explanation
Indices: 47020067--47020133 Score: 118
Period size: 20 Copynumber: 3.4 Consensus size: 20
47020057 TTATGAATAC
47020067 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
47020087 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
47020107 ATCATGTGCATATCATATCA-
1 ATCATGTGCATATCATA-CAT
47020127 ATCATGT
1 ATCATGT
47020134 ATATCAAAAT
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
20 44 0.96
21 2 0.04
ACGTcount: A:0.34, C:0.19, G:0.10, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:47020098 original size:11 final size:11
Alignment explanation
Indices: 47020067--47020122 Score: 66
Period size: 11 Copynumber: 5.5 Consensus size: 11
47020057 TTATGAATAC
47020067 ATCATGTGCAT
1 ATCATGTGCAT
*
47020078 ATCA--TACAT
1 ATCATGTGCAT
47020087 ATCATGTGCAT
1 ATCATGTGCAT
*
47020098 ATCA--TACAT
1 ATCATGTGCAT
47020107 ATCATGTGCAT
1 ATCATGTGCAT
47020118 ATCAT
1 ATCAT
47020123 ATCAATCATG
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 16 0.43
11 21 0.57
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:47020139 original size:9 final size:10
Alignment explanation
Indices: 47020067--47020139 Score: 64
Period size: 9 Copynumber: 7.4 Consensus size: 10
47020057 TTATGAATAC
47020067 ATCATGTGCAT
1 ATCATGT-CAT
*
47020078 ATCAT-ACAT
1 ATCATGTCAT
47020087 ATCATGTGCAT
1 ATCATGT-CAT
*
47020098 ATCAT-ACAT
1 ATCATGTCAT
47020107 ATCATGTGCAT
1 ATCATGT-CAT
*
47020118 ATCATATCA-
1 ATCATGTCAT
47020127 ATCATGT-AT
1 ATCATGTCAT
47020136 ATCA
1 ATCA
47020140 AAATCCAATG
Statistics
Matches: 51, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
8 1 0.02
9 26 0.51
10 2 0.04
11 22 0.43
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.36
Consensus pattern (10 bp):
ATCATGTCAT
Found at i:47023066 original size:46 final size:50
Alignment explanation
Indices: 47023016--47023128 Score: 135
Period size: 53 Copynumber: 2.3 Consensus size: 50
47023006 TAGCCCTACC
* *
47023016 ATGGTCTTACACGG-ATCACA-TA-ACAT-ACCGATGCCATATCCCAGAT
1 ATGGTCTTATACGGAATCACATTACACATCACCGATGCCATAGCCCAGAT
*
47023062 ATGGTCTTATACGGAATCACATTATCACATCACACCGATGCCATAGCCCAGCT
1 ATGGTCTTATACGGAATCACATTA-CACAT--CACCGATGCCATAGCCCAGAT
*
47023115 ACGGTCTTATACGG
1 ATGGTCTTATACGG
47023129 GAACTCGAAT
Statistics
Matches: 56, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
46 13 0.23
47 6 0.11
48 2 0.04
50 4 0.07
53 31 0.55
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (50 bp):
ATGGTCTTATACGGAATCACATTACACATCACCGATGCCATAGCCCAGAT
Found at i:47023193 original size:52 final size:51
Alignment explanation
Indices: 47023042--47023196 Score: 145
Period size: 52 Copynumber: 3.0 Consensus size: 51
47023032 CACATAACAT
*
47023042 ACCGATGCCATATCCCAGA-TATGGTCTTATACGGAATCACATTATCACATCAC
1 ACCGATGCCATAGCCCA-ACTATGGTCTTATACGGAAT-ACA-TATCACATCAC
* * ***
47023095 ACCGATGCCATAGCCCAGCTACGGTCTTATACGGGAACT-CGA-ATCACATTGT
1 ACCGATGCCATAGCCCAACTATGGTCTTATAC-GGAA-TAC-ATATCACATCAC
* **
47023147 TCCGATGCCATAGCCCAACTATTATCTTATACGGAAGTACATATCACATC
1 ACCGATGCCATAGCCCAACTATGGTCTTATACGGAA-TACATATCACATC
47023197 TTTTTCGTCA
Statistics
Matches: 83, Mismatches: 13, Indels: 13
0.76 0.12 0.12
Matches are distributed among these distances:
51 6 0.07
52 42 0.51
53 29 0.35
54 5 0.06
55 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.26
Consensus pattern (51 bp):
ACCGATGCCATAGCCCAACTATGGTCTTATACGGAATACATATCACATCAC
Found at i:47024642 original size:43 final size:43
Alignment explanation
Indices: 47024534--47024643 Score: 125
Period size: 43 Copynumber: 2.6 Consensus size: 43
47024524 GGGCCATTAC
* * ** * *
47024534 AGACCATGTCTTGGACATCAGCATCGTATTTGATTTTCGTGTA
1 AGACCACGTCTAGGACATTGGCATCGTATTTGATTTACATGTA
*
47024577 AGACC-CTGTCTAGGACAGTGGCATCGATATTTGA-TTACATGTA
1 AGACCAC-GTCTAGGACATTGGCATCG-TATTTGATTTACATGTA
47024620 AGACCACGTCTAGGACATTGGCAT
1 AGACCACGTCTAGGACATTGGCAT
47024644 TGTACGAGCT
Statistics
Matches: 56, Mismatches: 8, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
43 48 0.86
44 8 0.14
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (43 bp):
AGACCACGTCTAGGACATTGGCATCGTATTTGATTTACATGTA
Found at i:47026110 original size:46 final size:45
Alignment explanation
Indices: 47026060--47026231 Score: 170
Period size: 46 Copynumber: 3.7 Consensus size: 45
47026050 GGTTGAGGTC
* *
47026060 CCGAACTTGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATGT
* * * *
47026106 CCGAACTCGTTGAGTTAAGTCCGAGTTC-GTGA--GATGTAACTAGGCAT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAA-T--G--T
* *
47026153 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATGT
* *
47026199 CCGAGCTCGTTGAGTTGAGTCCGAGTTAACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
47026232 GGGGCGGGTT
Statistics
Matches: 103, Mismatches: 14, Indels: 18
0.76 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 56 0.54
47 28 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (45 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATGT
Found at i:47044926 original size:5 final size:5
Alignment explanation
Indices: 47044916--47044947 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
47044906 ATATCTGTGA
47044916 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
47044948 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:47044941 original size:9 final size:9
Alignment explanation
Indices: 47044917--47044947 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
47044907 TATCTGTGAA
47044917 AAATAAAAT
1 AAATAAAAT
47044926 AAAATAAAAT
1 -AAATAAAAT
47044936 AAATAAAAT
1 AAATAAAAT
47044945 AAA
1 AAA
47044948 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Done.