Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 185 of 240
Found at i:57032417 original size:21 final size:20
Alignment explanation
Indices: 57032357--57032417 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 20
57032347 ATTAACAATA
* *
57032357 TTTTATAATATTTAATACTTT
1 TTTTATAAT-TTTAAAATTTT
* *
57032378 TTTTATAATTCT-AAGTTTT
1 TTTTATAATTTTAAAATTTT
57032397 TTTTATAATTTATAAAATTTT
1 TTTTATAATTT-TAAAATTTT
57032418 ATAATGGTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
19 14 0.44
20 3 0.09
21 15 0.47
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (20 bp):
TTTTATAATTTTAAAATTTT
Found at i:57032459 original size:20 final size:20
Alignment explanation
Indices: 57032425--57032462 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
57032415 TTTATAATGG
57032425 TTTTCGTAATATTAATAACA
1 TTTTCGTAATATTAATAACA
57032445 TTTT-GTAATATTTAATAA
1 TTTTCGTAATA-TTAATAA
57032463 TTTTAGCGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.39, C:0.05, G:0.05, T:0.50
Consensus pattern (20 bp):
TTTTCGTAATATTAATAACA
Found at i:57033129 original size:62 final size:60
Alignment explanation
Indices: 57033005--57033134 Score: 154
Period size: 61 Copynumber: 2.1 Consensus size: 60
57032995 TTATCTTAAA
* * * * *
57033005 TCTAAAAAATTCAACAAATTTAACCCTCAATATTTACAAAATTCGTCATTTTAGTTCTAAT
1 TCTAAAAAAATCAACAAATTTAACCCTAAACATTTACAAAATTCG-CAATTTAGTTCAAAT
* *
57033066 TCTAAAAAAATCAATAAATTTAACTCTAAACATTTACAAAAAATTAC-CAATTTAGTTCAAAT
1 TCTAAAAAAATCAACAAATTTAACCCTAAACATTTAC--AAAATT-CGCAATTTAGTTCAAAT
57033128 TCTAAAA
1 TCTAAAA
57033135 GTTTAAAAAA
Statistics
Matches: 59, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
61 32 0.54
62 20 0.34
63 6 0.10
64 1 0.02
ACGTcount: A:0.47, C:0.16, G:0.02, T:0.35
Consensus pattern (60 bp):
TCTAAAAAAATCAACAAATTTAACCCTAAACATTTACAAAATTCGCAATTTAGTTCAAAT
Found at i:57033396 original size:19 final size:19
Alignment explanation
Indices: 57033372--57033413 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
57033362 AAAATATAAA
*
57033372 AAAAATC-TATAAAAATTAT
1 AAAAATCGTA-AAAAAATAT
57033391 AAAAATCGTAAAAAAATAT
1 AAAAATCGTAAAAAAATAT
57033410 AAAA
1 AAAA
57033414 TGTATCAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 19 0.90
20 2 0.10
ACGTcount: A:0.69, C:0.05, G:0.02, T:0.24
Consensus pattern (19 bp):
AAAAATCGTAAAAAAATAT
Found at i:57040975 original size:22 final size:23
Alignment explanation
Indices: 57040943--57040987 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
57040933 TTGTTTTGGA
57040943 GGAGGT-TTTTTTTTTGTTTTTT
1 GGAGGTGTTTTTTTTTGTTTTTT
57040965 GGAGGTGTTTTTTTTTGTTTTTT
1 GGAGGTGTTTTTTTTTGTTTTTT
57040988 TGGAAAAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 6 0.27
23 16 0.73
ACGTcount: A:0.04, C:0.00, G:0.24, T:0.71
Consensus pattern (23 bp):
GGAGGTGTTTTTTTTTGTTTTTT
Found at i:57040988 original size:25 final size:25
Alignment explanation
Indices: 57040936--57040987 Score: 81
Period size: 23 Copynumber: 2.2 Consensus size: 25
57040926 TTGTTCTTTG
57040936 TTTTGGAGGAGGTTTTTTTTTTGTT
1 TTTTGGAGGAGGTTTTTTTTTTGTT
*
57040961 TTTTGGAGG-TG-TTTTTTTTTGTT
1 TTTTGGAGGAGGTTTTTTTTTTGTT
57040984 TTTT
1 TTTT
57040988 TGGAAAAAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 16 0.62
24 1 0.04
25 9 0.35
ACGTcount: A:0.06, C:0.00, G:0.25, T:0.69
Consensus pattern (25 bp):
TTTTGGAGGAGGTTTTTTTTTTGTT
Found at i:57047204 original size:104 final size:105
Alignment explanation
Indices: 57047040--57047231 Score: 251
Period size: 104 Copynumber: 1.8 Consensus size: 105
57047030 TTTGTATTCT
* * ** *
57047040 AGCAACATTTGCTATCTTGATTAATTTGTTCATTTAGAGCTTTGCTCTCAGTAAATTTTCATCTT
1 AGCAAAATTTGCTATCTTG---AATTTGTTCATTTAGAGCTCTGCTCTCAACAAAATTTCATCTT
*
57047105 ATCCGTTGTGATAATCTTTTTCATCTTATTCATCTCGTATCTC
63 ATCCATTGTGATAATCTTTTTCATCTTATTCATCTCGTATCTC
** * *
57047148 AGCAAAATTTGCTATCTTG-ATTTGTTTGTTTAGAGCTCTGCTCTCAACAAAATTTCATTTTGTC
1 AGCAAAATTTGCTATCTTGAATTTGTTCATTTAGAGCTCTGCTCTCAACAAAATTTCATCTTATC
*
57047212 CATTTTGATAATCTTTTTCA
66 CATTGTGATAATCTTTTTCA
57047232 AGCATTTTTC
Statistics
Matches: 73, Mismatches: 11, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
104 55 0.75
108 18 0.25
ACGTcount: A:0.23, C:0.18, G:0.11, T:0.47
Consensus pattern (105 bp):
AGCAAAATTTGCTATCTTGAATTTGTTCATTTAGAGCTCTGCTCTCAACAAAATTTCATCTTATC
CATTGTGATAATCTTTTTCATCTTATTCATCTCGTATCTC
Found at i:57047781 original size:44 final size:44
Alignment explanation
Indices: 57047705--57048851 Score: 1076
Period size: 44 Copynumber: 26.2 Consensus size: 44
57047695 AAGTCATTAA
* * * * *
57047705 AGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTGGATCAAAGAT
1 AGCAGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATCGAAGAT
* * * *
57047749 AGTAGGTCTTGTCTTCCTATATTGGTAGGAAGTGGATCGACGAT
1 AGCAGATCTTGTCTTCCTATATTGGTAGGAAGTAGATCGAAGAT
* * * *
57047793 -GCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAA
1 AGCAGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATCGAAGAT
* * * *
57047837 AGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCAAAGAT
1 AGCAGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATCGAAGAT
* * * * *
57047881 AACAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGACGAT
1 AGCAGATCTTGTCTTCCTATATTGGTAGGAAGTAGATCGAAGAT
* * * *
57047925 -GCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAA
1 AGCAGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATCGAAGAT
* * * * *
57047969 ATCAAATCTTGTCTTCATGTATTAGCGT--GAAGTAGATCAAAGAT
1 AGCAGATCTTGTCTTCCTATATT-G-GTAGGAAGTAGATCGAAGAT
* * * * * *
57048013 AACAGGTCCTGTCCTCCTATATTGGTAGGAAGTGGATCGACGAT
1 AGCAGATCTTGTCTTCCTATATTGGTAGGAAGTAGATCGAAGAT
*
57048057 -GCAGAT-TCTGTCTTCCTATATTGGTAGGAAGTAGATCGAAGAA
1 AGCAGATCT-TGTCTTCCTATATTGGTAGGAAGTAGATCGAAGAT
* * * *
57048100 AGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCAAAGAT
1 AGCAGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATCGAAGAT
* * * *
57048144 AACAG-TCCTGTCTTCCTATATTGGTAGGAAGTGGATCGACGAT
1 AGCAGATCTTGTCTTCCTATATTGGTAGGAAGTAGATCGAAGAT
*
57048187 -GCAGATCTTGTCTTCCTATATTGGTAGGAAGTAGATCGAAGAA
1 AGCAGATCTTGTCTTCCTATATTGGTAGGAAGTAGATCGAAGAT
* * * *
57048230 AGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCAAAGAT
1 AGCAGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATCGAAGAT
* * * * *
57048274 AACAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGACGAT
1 AGCAGATCTTGTCTTCCTATATTGGTAGGAAGTAGATCGAAGAT
*
57048318 -GCAGATCTTGTCTTCCTATATTGGTAGGAAGTAGATCGAAGAA
1 AGCAGATCTTGTCTTCCTATATTGGTAGGAAGTAGATCGAAGAT
* * * *
57048361 AGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCAAAGAT
1 AGCAGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATCGAAGAT
* * * * *
57048405 AACAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGACGAT
1 AGCAGATCTTGTCTTCCTATATTGGTAGGAAGTAGATCGAAGAT
*
57048449 -GCAGAT-TCTGTCTTCCTATATTGGTAGGAAGTAGATCGAAGAA
1 AGCAGATCT-TGTCTTCCTATATTGGTAGGAAGTAGATCGAAGAT
* * * *
57048492 AGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCAAAGAT
1 AGCAGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATCGAAGAT
* * * * * *
57048536 AACAGGTCCTATCTTCCTATATTGGTAGGAAGTGGATCGACGAT
1 AGCAGATCTTGTCTTCCTATATTGGTAGGAAGTAGATCGAAGAT
*
57048580 -GCAGATCTTGTCTTCCTATATTGGTAGGAAGTAGATCGAAGAA
1 AGCAGATCTTGTCTTCCTATATTGGTAGGAAGTAGATCGAAGAT
* * * *
57048623 AGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCAAAGAT
1 AGCAGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATCGAAGAT
* * * * *
57048667 AACAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGACGAT
1 AGCAGATCTTGTCTTCCTATATTGGTAGGAAGTAGATCGAAGAT
* * * * *
57048711 -GCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGACCGAAGAA
1 AGCAGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATCGAAGAT
* * * *
57048755 AGCAGATCTTATCTTCATGTATTGG-CGTGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATCGAAGAT
* * * * *
57048799 TGCAGATCTTGCCTTCCTGTATTTGGCAGAGAAGCAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTATA-TTGGTAG-GAAGTAGATCGAAGAT
*
57048845 GGCAGAT
1 AGCAGAT
57048852 TTTACCTCCC
Statistics
Matches: 882, Mismatches: 187, Indels: 66
0.78 0.16 0.06
Matches are distributed among these distances:
42 5 0.01
43 279 0.32
44 504 0.57
45 69 0.08
46 23 0.03
47 2 0.00
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (44 bp):
AGCAGATCTTGTCTTCCTATATTGGTAGGAAGTAGATCGAAGAT
Found at i:57048362 original size:131 final size:131
Alignment explanation
Indices: 57047703--57048798 Score: 1937
Period size: 131 Copynumber: 8.4 Consensus size: 131
57047693 TGAAGTCATT
* ** *
57047703 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTGGATCAAAGATAGTAGGTCTTGTCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAACAGGTCCTGTCTTCCTA
* * *
57047768 TATTGGTAGGAAGTGGATCGACGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGC
66 TATTGGTAGGAAGTGGATCGACGATGCAGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATCGA
57047833 AG
130 AG
57047835 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAACAGGTCCTGTCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAACAGGTCCTGTCTTCCTA
* * *
57047900 TATTGGTAGGAAGTGGATCGACGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGC
66 TATTGGTAGGAAGTGGATCGACGATGCAGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATCGA
57047965 AG
130 AG
* * * *
57047967 AAATCAAATCTTGTCTTCATGTATTAGCGTGAAGTAGATCAAAGATAACAGGTCCTGTCCTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAACAGGTCCTGTCTTCCTA
57048032 TATTGGTAGGAAGTGGATCGACGATGCAGAT-TCTGTCTTCCTATATTGGTAGGAAGTAGATCGA
66 TATTGGTAGGAAGTGGATCGACGATGCAGATCT-TGTCTTCCTATATTGGTAGGAAGTAGATCGA
57048096 AG
130 AG
57048098 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAACA-GTCCTGTCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAACAGGTCCTGTCTTCCTA
57048162 TATTGGTAGGAAGTGGATCGACGATGCAGATCTTGTCTTCCTATATTGGTAGGAAGTAGATCGAA
66 TATTGGTAGGAAGTGGATCGACGATGCAGATCTTGTCTTCCTATATTGGTAGGAAGTAGATCGAA
57048227 G
131 G
57048228 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAACAGGTCCTGTCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAACAGGTCCTGTCTTCCTA
57048293 TATTGGTAGGAAGTGGATCGACGATGCAGATCTTGTCTTCCTATATTGGTAGGAAGTAGATCGAA
66 TATTGGTAGGAAGTGGATCGACGATGCAGATCTTGTCTTCCTATATTGGTAGGAAGTAGATCGAA
57048358 G
131 G
57048359 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAACAGGTCCTGTCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAACAGGTCCTGTCTTCCTA
57048424 TATTGGTAGGAAGTGGATCGACGATGCAGAT-TCTGTCTTCCTATATTGGTAGGAAGTAGATCGA
66 TATTGGTAGGAAGTGGATCGACGATGCAGATCT-TGTCTTCCTATATTGGTAGGAAGTAGATCGA
57048488 AG
130 AG
*
57048490 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAACAGGTCCTATCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAACAGGTCCTGTCTTCCTA
57048555 TATTGGTAGGAAGTGGATCGACGATGCAGATCTTGTCTTCCTATATTGGTAGGAAGTAGATCGAA
66 TATTGGTAGGAAGTGGATCGACGATGCAGATCTTGTCTTCCTATATTGGTAGGAAGTAGATCGAA
57048620 G
131 G
57048621 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAACAGGTCCTGTCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAACAGGTCCTGTCTTCCTA
* * * *
57048686 TATTGGTAGGAAGTGGATCGACGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGACCGA
66 TATTGGTAGGAAGTGGATCGACGATGCAGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATCGA
57048751 AG
130 AG
* *
57048753 AAAGCAGATCTTATCTTCATGTATTGGCGTGAAGTAGATCGAAGAT
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGAT
57048799 TGCAGATCTT
Statistics
Matches: 935, Mismatches: 23, Indels: 12
0.96 0.02 0.01
Matches are distributed among these distances:
130 128 0.14
131 512 0.55
132 295 0.32
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (131 bp):
AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAACAGGTCCTGTCTTCCTA
TATTGGTAGGAAGTGGATCGACGATGCAGATCTTGTCTTCCTATATTGGTAGGAAGTAGATCGAA
G
Found at i:57048998 original size:97 final size:95
Alignment explanation
Indices: 57048834--57049029 Score: 338
Period size: 97 Copynumber: 2.0 Consensus size: 95
57048824 GCAGAGAAGC
*
57048834 AGATCGAAGATGGCAGATTTTACCTCCCTGACTACAATGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAATGGAGTACATTGAAGCCGATAACTCTAT
*
57048899 CTCCCTGTATTTGTCAGTGGAATAGATTGA
66 CTCCCTGTATTTGGCAGTGGAATAGATTGA
* *
57048929 AGATCAAAGATGGCAGATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
1 AGATCAAAGATGGCAGATTTTACCTCC--CTGACTACAATGGAGTACATTGAAGCCGATAACTCT
57048994 ATCTCCCTGTATTTGGCAGTGGAATAGATTGA
64 ATCTCCCTGTATTTGGCAGTGGAATAGATTGA
57049026 AGAT
1 AGAT
57049030 TGCAGATCTT
Statistics
Matches: 95, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
95 26 0.27
97 69 0.73
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (95 bp):
AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAATGGAGTACATTGAAGCCGATAACTCTAT
CTCCCTGTATTTGGCAGTGGAATAGATTGA
Found at i:57049058 original size:46 final size:46
Alignment explanation
Indices: 57048999--57049194 Score: 154
Period size: 46 Copynumber: 4.3 Consensus size: 46
57048989 ACTCTATCTC
*
57048999 CCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTT
1 CCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTACCTT
* * *
57049045 CCTGTATTTGGCAGT-GAAGCAGATCGAAGA-TGACAGATTTTACC-T
1 CCTGTATTTGGCAGTGGAA-TAGATTGAAGATTG-CAGATCTTACCTT
* * * * ** * * * *
57049090 CCATGTGA-CT-ACAGTGGAGTACATTGAAG-CCG-ATAACTCTATCTC
1 CC-TGT-ATTTGGCAGTGGAATAGATTGAAGATTGCAGATCT-TACCTT
*
57049135 CCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTT
1 CCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTACCTT
*
57049181 CCTATATTTGGCAG
1 CCTGTATTTGGCAG
57049195 CAAAGCAGGT
Statistics
Matches: 110, Mismatches: 28, Indels: 24
0.68 0.17 0.15
Matches are distributed among these distances:
43 4 0.04
44 7 0.06
45 38 0.35
46 56 0.51
47 5 0.05
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (46 bp):
CCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTACCTT
Found at i:57049153 original size:136 final size:136
Alignment explanation
Indices: 57048929--57049253 Score: 537
Period size: 136 Copynumber: 2.4 Consensus size: 136
57048919 AATAGATTGA
*
57048929 AGATCAAAGATGGCAGATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
1 AGATCGAAGATGGCAGATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
*
57048994 ATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAG
66 ATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTATATTTGGCAG
**
57049059 TGAAGC
131 CAAAGC
*
57049065 AGATCGAAGATGACAGATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
1 AGATCGAAGATGGCAGATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
57049130 ATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTATATTTGGCAG
66 ATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTATATTTGGCAG
57049195 CAAAGC
131 CAAAGC
* * * * * *
57049201 AGGTTGAAGACGGCGGATTTTACCTCC--CTGATTACAGTGGAGTACATTGAAGC
1 AGATCGAAGATGGCAGATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGC
57049254 TGGTAGTTCT
Statistics
Matches: 177, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
134 24 0.14
136 153 0.86
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (136 bp):
AGATCGAAGATGGCAGATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
ATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTATATTTGGCAG
CAAAGC
Found at i:57049356 original size:40 final size:40
Alignment explanation
Indices: 57049303--57049454 Score: 171
Period size: 40 Copynumber: 3.8 Consensus size: 40
57049293 AAGATTACAA
* *
57049303 TCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGCATTAAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAG
* * *
57049343 TCTTATCTCCCTAAGCAGTAGCGGAGCAGA-CGAAACCATAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG-CATCA-AG
* * * * *
57049384 ATATTATCTCCCTAAGTAGTAGTGGAACAGATCACATCCAG
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAG
*
57049425 TCTTATCTCCCTAAGTAGTAGTGGAGCAGA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA
57049455 CTAAAAACAC
Statistics
Matches: 93, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
39 2 0.02
40 58 0.62
41 4 0.04
42 28 0.30
43 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.26
Consensus pattern (40 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAG
Found at i:57049408 original size:82 final size:82
Alignment explanation
Indices: 57049305--57049455 Score: 230
Period size: 82 Copynumber: 1.8 Consensus size: 82
57049295 GATTACAATC
** * *
57049305 TTATCTCCCTAAGCAGTAGTGGAGTAGATCGCATTAAGTCTTATCTCCCTAAGCAGTAGCGGAGC
1 TTATCTCCCTAAGCAGTAGTGGAACAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGCGGAGC
57049370 AGACGAAACCATAGATA
66 AGACGAAACCATAGATA
* * * *
57049387 TTATCTCCCTAAGTAGTAGTGGAACAGATCACATCCAGTCTTATCTCCCTAAGTAGTAGTGGAGC
1 TTATCTCCCTAAGCAGTAGTGGAACAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGCGGAGC
57049452 AGAC
66 AGAC
57049456 TAAAAACACA
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
82 61 1.00
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (82 bp):
TTATCTCCCTAAGCAGTAGTGGAACAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGCGGAGC
AGACGAAACCATAGATA
Found at i:57050381 original size:11 final size:11
Alignment explanation
Indices: 57050365--57050397 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
57050355 TTCCCCCCTC
57050365 CCTTCTCTCTT
1 CCTTCTCTCTT
57050376 CCTTCTCTCTT
1 CCTTCTCTCTT
*
57050387 CCCTCTCTCTT
1 CCTTCTCTCTT
57050398 TTTTTTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (11 bp):
CCTTCTCTCTT
Found at i:57050882 original size:3 final size:3
Alignment explanation
Indices: 57050858--57050928 Score: 54
Period size: 3 Copynumber: 23.3 Consensus size: 3
57050848 AATATCCTTG
* * * **
57050858 TTA TTT TTA -TA TTA TTA GTA TTA TTA GTA TTA CCA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
57050905 TGTA TTA GTA TATA TTT TTA TTA T
1 T-TA TTA TTA T-TA TTA TTA TTA T
57050929 GTACGTGTAT
Statistics
Matches: 51, Mismatches: 14, Indels: 6
0.72 0.20 0.08
Matches are distributed among these distances:
2 2 0.04
3 43 0.84
4 6 0.12
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:57050925 original size:23 final size:22
Alignment explanation
Indices: 57050871--57050931 Score: 70
Period size: 23 Copynumber: 2.8 Consensus size: 22
57050861 TTTTTATATT
*
57050871 ATTAGTATTATTA-GTATTACC
1 ATTATTATTATTATGTATTACC
**
57050892 ATTATTATTATTATGTATTAGT
1 ATTATTATTATTATGTATTACC
*
57050914 ATATATTTTTATTATGTA
1 AT-TATTATTATTATGTA
57050932 CGTGTATACC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.35
22 8 0.24
23 14 0.41
ACGTcount: A:0.33, C:0.03, G:0.08, T:0.56
Consensus pattern (22 bp):
ATTATTATTATTATGTATTACC
Found at i:57050938 original size:23 final size:23
Alignment explanation
Indices: 57050894--57050939 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
57050884 GTATTACCAT
*
57050894 TATTATTATTATGTATTAGTATA
1 TATTATTATTATGTAGTAGTATA
*
57050917 TATTTTTATTATGTACGT-GTATA
1 TATTATTATTATGTA-GTAGTATA
57050940 CCTATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 19 0.95
24 1 0.05
ACGTcount: A:0.30, C:0.02, G:0.11, T:0.57
Consensus pattern (23 bp):
TATTATTATTATGTAGTAGTATA
Found at i:57051206 original size:19 final size:19
Alignment explanation
Indices: 57051171--57051207 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
57051161 ATATATTACC
**
57051171 TAAATATTTTAGTATTATG
1 TAAATATTTTAACATTATG
57051190 TAAATATTTTAACATTAT
1 TAAATATTTTAACATTAT
57051208 ATTATATATG
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:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (19 bp):
TAAATATTTTAACATTATG
Found at i:57053644 original size:43 final size:43
Alignment explanation
Indices: 57053596--57053691 Score: 167
Period size: 43 Copynumber: 2.3 Consensus size: 43
57053586 TAATATTTAT
57053596 TGTTATTAATTTCAGTTAATTGGTTAATTAAACATTTTCGAAA
1 TGTTATTAATTTCAGTTAATTGGTTAATTAAACATTTTCGAAA
*
57053639 TGTTATTAATTTCAGTTAATTGGTTAATTAAATATTTTCGAAA
1 TGTTATTAATTTCAGTTAATTGGTTAATTAAACATTTTCGAAA
*
57053682 TG-AATTAATT
1 TGTTATTAATT
57053692 GATAATAAAC
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
42 7 0.14
43 44 0.86
ACGTcount: A:0.35, C:0.05, G:0.11, T:0.48
Consensus pattern (43 bp):
TGTTATTAATTTCAGTTAATTGGTTAATTAAACATTTTCGAAA
Found at i:57063489 original size:17 final size:19
Alignment explanation
Indices: 57063467--57063503 Score: 60
Period size: 17 Copynumber: 2.1 Consensus size: 19
57063457 CTTATTTGTT
57063467 TTATTATATT-T-TATTTA
1 TTATTATATTATATATTTA
57063484 TTATTATATTATATATTTA
1 TTATTATATTATATATTTA
57063503 T
1 T
57063504 ATATATACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 10 0.56
18 1 0.06
19 7 0.39
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
TTATTATATTATATATTTA
Found at i:57064514 original size:46 final size:46
Alignment explanation
Indices: 57064461--57064548 Score: 115
Period size: 46 Copynumber: 1.9 Consensus size: 46
57064451 AAAAGTGTAG
* *
57064461 TGTGGGCCTTAGCCCATTACAGT-ATCAGAATCAAAAATAGAATACA
1 TGTGGGCCTAAGCCCAATACAGTGA-CAGAATCAAAAATAGAATACA
* **
57064507 TGTGGGCCTAAGCCTAATACAGTGACAGAATCAGTAATAGAA
1 TGTGGGCCTAAGCCCAATACAGTGACAGAATCAAAAATAGAA
57064549 ATGCAGCAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
46 35 0.97
47 1 0.03
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.23
Consensus pattern (46 bp):
TGTGGGCCTAAGCCCAATACAGTGACAGAATCAAAAATAGAATACA
Found at i:57064767 original size:22 final size:21
Alignment explanation
Indices: 57064708--57064772 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 21
57064698 TGCCAGTAAC
*
57064708 CAGAATGACTAAGAGCTGTAAA
1 CAGAATGACTAA-AGCTATAAA
*
57064730 CAGGAT-AGCTATAAGCTATAAA
1 CAGAATGA-CTA-AAGCTATAAA
*
57064752 CAGAATGACTACAAGCCATAA
1 CAGAATGACTA-AAGCTATAA
57064773 GTATAGTAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
21 1 0.03
22 32 0.91
23 2 0.06
ACGTcount: A:0.46, C:0.17, G:0.18, T:0.18
Consensus pattern (21 bp):
CAGAATGACTAAAGCTATAAA
Found at i:57064902 original size:26 final size:26
Alignment explanation
Indices: 57064873--57064926 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
57064863 TATCAGTAGC
*
57064873 ATTGCAGCAAAGCTGCTAGCAATAGT
1 ATTGCAGCAAAGCTGCCAGCAATAGT
*
57064899 ATTGCAGCAAAGCTGCCAGTAATAGT
1 ATTGCAGCAAAGCTGCCAGCAATAGT
57064925 AT
1 AT
57064927 ATGTGGCCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.24
Consensus pattern (26 bp):
ATTGCAGCAAAGCTGCCAGCAATAGT
Found at i:57065069 original size:24 final size:24
Alignment explanation
Indices: 57065042--57065123 Score: 101
Period size: 24 Copynumber: 3.4 Consensus size: 24
57065032 CCATGCTCAG
*
57065042 AATCAGTAATACAAATCACAGACA
1 AATCAGTCATACAAATCACAGACA
* *
57065066 AATCAATCATACCAATCACAGACA
1 AATCAGTCATACAAATCACAGACA
* ** *
57065090 AATTAGTCATTTAAATCACAAACA
1 AATCAGTCATACAAATCACAGACA
57065114 AATCAGTCAT
1 AATCAGTCAT
57065124 TTACATCATG
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 48 1.00
ACGTcount: A:0.50, C:0.22, G:0.06, T:0.22
Consensus pattern (24 bp):
AATCAGTCATACAAATCACAGACA
Found at i:57065141 original size:23 final size:24
Alignment explanation
Indices: 57065054--57065151 Score: 108
Period size: 24 Copynumber: 4.1 Consensus size: 24
57065044 TCAGTAATAC
* **
57065054 AAATCACAGACAAATCAATCATAC
1 AAATCACAGACAAATCAGTCATTT
* *
57065078 CAATCACAGACAAATTAGTCATTT
1 AAATCACAGACAAATCAGTCATTT
*
57065102 AAATCACAAACAAATCAGTCATTT
1 AAATCACAGACAAATCAGTCATTT
* * *
57065126 ACATCA-TGACAAATCAATCATTT
1 AAATCACAGACAAATCAGTCATTT
57065149 AAA
1 AAA
57065152 CTCGAGGGGT
Statistics
Matches: 61, Mismatches: 13, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
23 16 0.26
24 45 0.74
ACGTcount: A:0.49, C:0.21, G:0.05, T:0.24
Consensus pattern (24 bp):
AAATCACAGACAAATCAGTCATTT
Found at i:57065321 original size:79 final size:79
Alignment explanation
Indices: 57065171--57065326 Score: 199
Period size: 79 Copynumber: 2.0 Consensus size: 79
57065161 TAAAATAGTC
** *
57065171 ATTTACCCTCTAGGGCATTACGATCATTTTACCTTACAGGGGTATTTCGGCCATTTAATCCTATA
1 ATTTACCCTAGAGGGCATTACGATCATTTTACCTTACAGGGGTATTTCGGCCATTTAATCCTACA
57065236 AGGGTATTACGACT
66 AGGGTATTACGACT
* ** * * *
57065250 ATTTACCCTAGAGGGCATTACGGTCATTTTACCTTATGGGGGTTTTTCGGTCATTTTA-CACTAC
1 ATTTACCCTAGAGGGCATTACGATCATTTTACCTTACAGGGGTATTTCGGCCATTTAATC-CTAC
57065314 -AGAGGTATTACGA
65 AAG-GGTATTACGA
57065327 TTGTTTTATC
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
78 3 0.05
79 63 0.95
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (79 bp):
ATTTACCCTAGAGGGCATTACGATCATTTTACCTTACAGGGGTATTTCGGCCATTTAATCCTACA
AGGGTATTACGACT
Found at i:57065404 original size:27 final size:27
Alignment explanation
Indices: 57065172--57065416 Score: 117
Period size: 27 Copynumber: 9.2 Consensus size: 27
57065162 AAAATAGTCA
* *
57065172 TTTACCCT-CTAGGGCATTACGATCAT
1 TTTACCCTACAAGGGTATTACGATCAT
* * * **
57065198 TTTACCTTACAGGGGTATTTCGGCCAT
1 TTTACCCTACAAGGGTATTACGATCAT
* * *
57065225 TTAATCCTATAAGGGTATTACGA-C-T
1 TTTACCCTACAAGGGTATTACGATCAT
* * *
57065250 ATTTACCCTA-GAGGGCATTACGGTCAT
1 -TTTACCCTACAAGGGTATTACGATCAT
* *** * * *
57065277 TTTACCTTATGGGGGTTTTTCGGTCAT
1 TTTACCCTACAAGGGTATTACGATCAT
* **
57065304 TTTACACTAC-AGAGGTATTACGATTGT
1 TTTACCCTACAAG-GGTATTACGATCAT
* * ** *
57065331 TTTATCTTA-TTGGGACATTAC-AGTCAT
1 TTTACCCTACAAGGG-TATTACGA-TCAT
* ** *
57065358 TTTATCCTACGGGGGCATTACGATCAT
1 TTTACCCTACAAGGGTATTACGATCAT
57065385 TTTACCCTACAAGGGTATTACGATCAT
1 TTTACCCTACAAGGGTATTACGATCAT
57065412 TTTAC
1 TTTAC
57065417 AAATATTGGG
Statistics
Matches: 161, Mismatches: 47, Indels: 21
0.70 0.21 0.09
Matches are distributed among these distances:
25 11 0.07
26 28 0.17
27 118 0.73
28 4 0.02
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.38
Consensus pattern (27 bp):
TTTACCCTACAAGGGTATTACGATCAT
Found at i:57065415 original size:81 final size:81
Alignment explanation
Indices: 57065265--57065415 Score: 189
Period size: 81 Copynumber: 1.9 Consensus size: 81
57065255 CCCTAGAGGG
* * ** * * **
57065265 CATTACGGTCATTTTACCTTATGGGGGTTTTTCGGTCATTTTACACTACAGAGGTATTACGATTG
1 CATTACAGTCATTTTACCTTACGGGGGCATTACGATCATTTTACACTACAGAGGTATTACGATCA
57065330 TTTTATCTTATTGGGA
66 TTTTATCTTATTGGGA
*
57065346 CATTACAGTCATTTTATCC-TACGGGGGCATTACGATCATTTTACCCTACA-AGGGTATTACGAT
1 CATTACAGTCATTTTA-CCTTACGGGGGCATTACGATCATTTTACACTACAGA-GGTATTACGAT
57065409 CATTTTA
64 CATTTTA
57065416 CAAATATTGG
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
80 1 0.02
81 56 0.95
82 2 0.03
ACGTcount: A:0.24, C:0.18, G:0.19, T:0.40
Consensus pattern (81 bp):
CATTACAGTCATTTTACCTTACGGGGGCATTACGATCATTTTACACTACAGAGGTATTACGATCA
TTTTATCTTATTGGGA
Found at i:57079435 original size:43 final size:43
Alignment explanation
Indices: 57079387--57079482 Score: 167
Period size: 43 Copynumber: 2.3 Consensus size: 43
57079377 TAATATTTAT
57079387 TGTTATTAATTTCAGTTAATTGGTTAATTAAACATTTTCGAAA
1 TGTTATTAATTTCAGTTAATTGGTTAATTAAACATTTTCGAAA
*
57079430 TGTTATTAATTTCAGTTAATTGGTTAATTAAATATTTTCGAAA
1 TGTTATTAATTTCAGTTAATTGGTTAATTAAACATTTTCGAAA
*
57079473 TG-AATTAATT
1 TGTTATTAATT
57079483 GATAATAAAC
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
42 7 0.14
43 44 0.86
ACGTcount: A:0.35, C:0.05, G:0.11, T:0.48
Consensus pattern (43 bp):
TGTTATTAATTTCAGTTAATTGGTTAATTAAACATTTTCGAAA
Found at i:57089276 original size:17 final size:19
Alignment explanation
Indices: 57089254--57089290 Score: 60
Period size: 17 Copynumber: 2.1 Consensus size: 19
57089244 CTTATTTGTT
57089254 TTATTATATT-T-TATTTA
1 TTATTATATTATATATTTA
57089271 TTATTATATTATATATTTA
1 TTATTATATTATATATTTA
57089290 T
1 T
57089291 ATATATACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 10 0.56
18 1 0.06
19 7 0.39
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
TTATTATATTATATATTTA
Found at i:57090304 original size:46 final size:46
Alignment explanation
Indices: 57090251--57090338 Score: 115
Period size: 46 Copynumber: 1.9 Consensus size: 46
57090241 AAAAGTGTAG
* *
57090251 TGTGGGCCTTAGCCCATTACAGT-ATCAGAATCAAAAATAGAATACA
1 TGTGGGCCTAAGCCCAATACAGTGA-CAGAATCAAAAATAGAATACA
* **
57090297 TGTGGGCCTAAGCCTAATACAGTGACAGAATCAGTAATAGAA
1 TGTGGGCCTAAGCCCAATACAGTGACAGAATCAAAAATAGAA
57090339 ATGCAGCAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
46 35 0.97
47 1 0.03
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.23
Consensus pattern (46 bp):
TGTGGGCCTAAGCCCAATACAGTGACAGAATCAAAAATAGAATACA
Found at i:57090557 original size:22 final size:21
Alignment explanation
Indices: 57090498--57090562 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 21
57090488 TGCCAGTAAC
*
57090498 CAGAATGACTAAGAGCTGTAAA
1 CAGAATGACTAA-AGCTATAAA
*
57090520 CAGGAT-AGCTATAAGCTATAAA
1 CAGAATGA-CTA-AAGCTATAAA
*
57090542 CAGAATGACTACAAGCCATAA
1 CAGAATGACTA-AAGCTATAA
57090563 GTATAGTAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
21 1 0.03
22 32 0.91
23 2 0.06
ACGTcount: A:0.46, C:0.17, G:0.18, T:0.18
Consensus pattern (21 bp):
CAGAATGACTAAAGCTATAAA
Found at i:57090692 original size:26 final size:26
Alignment explanation
Indices: 57090663--57090716 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
57090653 TATCAGTAGC
*
57090663 ATTGCAGCAAAGCTGCTAGCAATAGT
1 ATTGCAGCAAAGCTGCCAGCAATAGT
*
57090689 ATTGCAGCAAAGCTGCCAGTAATAGT
1 ATTGCAGCAAAGCTGCCAGCAATAGT
57090715 AT
1 AT
57090717 ATGTGGCCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.24
Consensus pattern (26 bp):
ATTGCAGCAAAGCTGCCAGCAATAGT
Found at i:57090859 original size:24 final size:24
Alignment explanation
Indices: 57090832--57090913 Score: 101
Period size: 24 Copynumber: 3.4 Consensus size: 24
57090822 CCATGCTCAG
*
57090832 AATCAGTAATACAAATCACAGACA
1 AATCAGTCATACAAATCACAGACA
* *
57090856 AATCAATCATACCAATCACAGACA
1 AATCAGTCATACAAATCACAGACA
* ** *
57090880 AATTAGTCATTTAAATCACAAACA
1 AATCAGTCATACAAATCACAGACA
57090904 AATCAGTCAT
1 AATCAGTCAT
57090914 TTACATCATG
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 48 1.00
ACGTcount: A:0.50, C:0.22, G:0.06, T:0.22
Consensus pattern (24 bp):
AATCAGTCATACAAATCACAGACA
Found at i:57090914 original size:24 final size:24
Alignment explanation
Indices: 57090844--57090942 Score: 108
Period size: 24 Copynumber: 4.1 Consensus size: 24
57090834 TCAGTAATAC
**
57090844 AAATCACAGACAAATCAATCATAC
1 AAATCACAGACAAATCAATCATTT
* * *
57090868 CAATCACAGACAAATTAGTCATTT
1 AAATCACAGACAAATCAATCATTT
* *
57090892 AAATCACAAACAAATCAGTCATTT
1 AAATCACAGACAAATCAATCATTT
* **
57090916 ACATCATGGACAAATCAATCATTT
1 AAATCACAGACAAATCAATCATTT
57090940 AAA
1 AAA
57090943 CTCGAGGGGT
Statistics
Matches: 61, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 61 1.00
ACGTcount: A:0.48, C:0.21, G:0.06, T:0.24
Consensus pattern (24 bp):
AAATCACAGACAAATCAATCATTT
Found at i:57091003 original size:27 final size:27
Alignment explanation
Indices: 57090973--57091210 Score: 146
Period size: 27 Copynumber: 8.8 Consensus size: 27
57090963 TTTACCCTCT
*
57090973 AGGGGCATTACGATCATTTTACCTTAC
1 AGGGGTATTACGATCATTTTACCTTAC
* ** *
57091000 AGGGGTATTTCGGCCATTTAATCCTATA-
1 AGGGGTATTACGATCATTTTA-CCT-TAC
* *
57091028 A-GGGTATTACGA-CTATTTTACCCTAG
1 AGGGGTATTACGATC-ATTTTACCTTAC
* * *
57091054 AGGGGCATTACGGTCATTTTACCTTAT
1 AGGGGTATTACGATCATTTTACCTTAC
* * * *
57091081 GGGGGTTTTTCGGTCATTTTACAC-TAC
1 AGGGGTATTACGATCATTTTAC-CTTAC
* ** * *
57091108 AGAGGTATTACGATTGTTTTATCTTAT
1 AGGGGTATTACGATCATTTTACCTTAC
* **
57091135 TGGGACATTAC-AGTCATTTTATCC-TAC
1 AGGGGTATTACGA-TCATTTTA-CCTTAC
* * *
57091162 GGGGGCATTACGATCATTTTACCCTAC
1 AGGGGTATTACGATCATTTTACCTTAC
*
57091189 AAGGGTATTACGATCATTTTAC
1 AGGGGTATTACGATCATTTTAC
57091211 AAATATTGGG
Statistics
Matches: 159, Mismatches: 40, Indels: 24
0.71 0.18 0.11
Matches are distributed among these distances:
25 2 0.01
26 8 0.05
27 139 0.87
28 8 0.05
29 2 0.01
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.37
Consensus pattern (27 bp):
AGGGGTATTACGATCATTTTACCTTAC
Found at i:57091115 original size:81 final size:79
Alignment explanation
Indices: 57090963--57091210 Score: 248
Period size: 81 Copynumber: 3.1 Consensus size: 79
57090953 AAAATAGTCA
* * * * * *
57090963 TTTACCCTCTAGGGGCATTACGATCATTTTACCTTACAGGGGTATTTCGGCCATTTAATCCTATA
1 TTTACCCTATAGGGGCATTACGGTCATTTTACCTTACGGGGGTATTTCGGTCATTTTA-CCTACA
57091028 AGGGTATTACGACTAT
65 AGGGTATTACGA-TAT
* * *
57091044 TTTACCCTAGAGGGGCATTACGGTCATTTTACCTTATGGGGGTTTTTCGGTCATTTTACACTAC-
1 TTTACCCTATAGGGGCATTACGGTCATTTTACCTTACGGGGGTATTTCGGTCATTTTAC-CTACA
*
57091108 AGAGGTATTACGATTGT
65 AG-GGTATTACGA-TAT
* * * * * * * *
57091125 TTTATCTTATTGGGACATTACAGTCATTTTATCC-TACGGGGGCATTACGATCATTTTACCCTAC
1 TTTACCCTATAGGGGCATTACGGTCATTTTA-CCTTACGGGGGTATTTCGGTCATTTTA-CCTAC
57091189 AAGGGTATTACGATCAT
64 AAGGGTATTACGAT-AT
57091206 TTTAC
1 TTTAC
57091211 AAATATTGGG
Statistics
Matches: 137, Mismatches: 24, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
80 4 0.03
81 128 0.93
82 5 0.04
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.38
Consensus pattern (79 bp):
TTTACCCTATAGGGGCATTACGGTCATTTTACCTTACGGGGGTATTTCGGTCATTTTACCTACAA
GGGTATTACGATAT
Found at i:57096313 original size:18 final size:18
Alignment explanation
Indices: 57096286--57096320 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
57096276 ACATACAGAG
*
57096286 CCACCGTTCACCATGCTA
1 CCACCATTCACCATGCTA
57096304 CCACCATTCACCATGCT
1 CCACCATTCACCATGCT
57096321 GCCATTGCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.23, C:0.46, G:0.09, T:0.23
Consensus pattern (18 bp):
CCACCATTCACCATGCTA
Found at i:57097750 original size:34 final size:33
Alignment explanation
Indices: 57097711--57097785 Score: 89
Period size: 34 Copynumber: 2.2 Consensus size: 33
57097701 AACTTTCAAT
*
57097711 AAATAA-AAAATATATAAAATTTTATTAAATATTA
1 AAATAATAAAATATA-AAAATTTTATTAAATA-AA
* * *
57097745 AAATAATATAATATAAATATTTTTTTAAATAAA
1 AAATAATAAAATATAAAAATTTTATTAAATAAA
57097778 AAATAATA
1 AAATAATA
57097786 TGAGCGGGTT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
33 9 0.25
34 20 0.56
35 7 0.19
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (33 bp):
AAATAATAAAATATAAAAATTTTATTAAATAAA
Found at i:57097760 original size:33 final size:33
Alignment explanation
Indices: 57097722--57097786 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
57097712 AATAAAAAAT
*
57097722 ATATAAA-ATTTTATTAAATATTAAAATAATATA
1 ATATAAATATTTTATTAAATA-AAAAATAATATA
*
57097755 ATATAAATATTTTTTTAAATAAAAAATAATAT
1 ATATAAATATTTTATTAAATAAAAAATAATAT
57097787 GAGCGGGTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 17 0.59
34 12 0.41
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (33 bp):
ATATAAATATTTTATTAAATAAAAAATAATATA
Found at i:57103205 original size:15 final size:15
Alignment explanation
Indices: 57103187--57103255 Score: 75
Period size: 15 Copynumber: 4.6 Consensus size: 15
57103177 ATCTTGGGTT
*
57103187 TCTTTATCCTGGATC
1 TCTTTATTCTGGATC
*
57103202 TCTTTATTCTGGATT
1 TCTTTATTCTGGATC
* *
57103217 TCTTTATTCTGGGTT
1 TCTTTATTCTGGATC
* * *
57103232 TCTCTATTTTGGATT
1 TCTTTATTCTGGATC
57103247 TCTTTATTC
1 TCTTTATTC
57103256 GGTTTTCTTT
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 46 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TCTTTATTCTGGATC
Found at i:57103245 original size:45 final size:44
Alignment explanation
Indices: 57103181--57103265 Score: 116
Period size: 45 Copynumber: 1.9 Consensus size: 44
57103171 TATCGTATCT
*
57103181 TGGGTTTCTTTATCCTGGATCTCTTTATTCTGGATTTCTTTATTC
1 TGGGTTTCTCTATCCTGGATCTCTTTATTC-GGATTTCTTTATTC
** * *
57103226 TGGGTTTCTCTATTTTGGATTTCTTTATTCGGTTTTCTTT
1 TGGGTTTCTCTATCCTGGATCTCTTTATTCGGATTTCTTT
57103266 TTATCTTTGC
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
44 9 0.26
45 26 0.74
ACGTcount: A:0.09, C:0.15, G:0.16, T:0.59
Consensus pattern (44 bp):
TGGGTTTCTCTATCCTGGATCTCTTTATTCGGATTTCTTTATTC
Found at i:57103254 original size:30 final size:30
Alignment explanation
Indices: 57103180--57103263 Score: 98
Period size: 30 Copynumber: 2.8 Consensus size: 30
57103170 GTATCGTATC
* * * *
57103180 TTGGGTTTCTTTATCCTGGATCTCTTTATT
1 TTGGATTTCTTTATTCTGGATTTCTCTATT
* *
57103210 CTGGATTTCTTTATTCTGGGTTTCTCTATT
1 TTGGATTTCTTTATTCTGGATTTCTCTATT
*
57103240 TTGGATTTCTTTATTC-GGTTTTCT
1 TTGGATTTCTTTATTCTGGATTTCT
57103264 TTTTATCTTT
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
29 7 0.15
30 39 0.85
ACGTcount: A:0.10, C:0.15, G:0.17, T:0.58
Consensus pattern (30 bp):
TTGGATTTCTTTATTCTGGATTTCTCTATT
Found at i:57106054 original size:17 final size:18
Alignment explanation
Indices: 57106021--57106070 Score: 59
Period size: 17 Copynumber: 2.8 Consensus size: 18
57106011 AATATTACCG
57106021 TATTATTATCAGT-TTAT-
1 TATTATTATCA-TATTATA
57106038 TATTATTATCATATTATA
1 TATTATTATCATATTATA
* *
57106056 TAGTATTATTATATT
1 TATTATTATCATATT
57106071 TATTTATATG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 1 0.03
17 15 0.52
18 13 0.45
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.58
Consensus pattern (18 bp):
TATTATTATCATATTATA
Found at i:57109156 original size:16 final size:15
Alignment explanation
Indices: 57109124--57109159 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
57109114 AAATTAAAAG
*
57109124 AATAATTAATGATTA
1 AATAATTAATGAATA
57109139 AATAATTAAATGAATA
1 AATAATT-AATGAATA
57109155 AATAA
1 AATAA
57109160 AAATGTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (15 bp):
AATAATTAATGAATA
Found at i:57113183 original size:21 final size:21
Alignment explanation
Indices: 57113149--57113189 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
57113139 AACTTCTCTC
*
57113149 CTAAACATATTATTTACATAA
1 CTAAACATAGTATTTACATAA
*
57113170 CTAAATATAGTATTTACATA
1 CTAAACATAGTATTTACATA
57113190 TTTAACAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.46, C:0.12, G:0.02, T:0.39
Consensus pattern (21 bp):
CTAAACATAGTATTTACATAA
Found at i:57119572 original size:21 final size:21
Alignment explanation
Indices: 57119546--57119586 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
57119536 AACTTCTATC
*
57119546 CTAAATATGTTATTTACATAA
1 CTAAATATATTATTTACATAA
57119567 CTAAATATATTATTTACATA
1 CTAAATATATTATTTACATA
57119587 TTGAACAGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.44, C:0.10, G:0.02, T:0.44
Consensus pattern (21 bp):
CTAAATATATTATTTACATAA
Found at i:57122354 original size:28 final size:28
Alignment explanation
Indices: 57122320--57122387 Score: 77
Period size: 30 Copynumber: 2.4 Consensus size: 28
57122310 TTAAATTAGT
57122320 AATAATAAAA-TTACATTTTAA-CTTTAAA
1 AATAATAAAATTTA-A-TTTAATCTTTAAA
57122348 AATAATAATAATTTAATTTAATTCTTTAAA
1 AATAATAA-AATTTAATTTAA-TCTTTAAA
*
57122378 AATTATAAAA
1 AATAATAAAA
57122388 ATATAAACTG
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
28 13 0.37
29 5 0.14
30 17 0.49
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.41
Consensus pattern (28 bp):
AATAATAAAATTTAATTTAATCTTTAAA
Found at i:57125670 original size:16 final size:14
Alignment explanation
Indices: 57125647--57125682 Score: 54
Period size: 16 Copynumber: 2.4 Consensus size: 14
57125637 CGTTATCATC
57125647 TTTTAAACGATTATT
1 TTTTAAACGATT-TT
57125662 TTGTTAAACGATTTT
1 TT-TTAAACGATTTT
57125677 TTTTAA
1 TTTTAA
57125683 TGAGTAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 4 0.20
15 6 0.30
16 10 0.50
ACGTcount: A:0.31, C:0.06, G:0.08, T:0.56
Consensus pattern (14 bp):
TTTTAAACGATTTT
Found at i:57126258 original size:14 final size:14
Alignment explanation
Indices: 57126239--57126267 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
57126229 ATCCAAACAA
57126239 TAACAACATAATAG
1 TAACAACATAATAG
57126253 TAACAACATAATAG
1 TAACAACATAATAG
57126267 T
1 T
57126268 GAAATGGTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.55, C:0.14, G:0.07, T:0.24
Consensus pattern (14 bp):
TAACAACATAATAG
Found at i:57131523 original size:32 final size:32
Alignment explanation
Indices: 57131482--57131578 Score: 142
Period size: 32 Copynumber: 3.0 Consensus size: 32
57131472 AATAATTAAA
57131482 ATTTAAAAATATTATGAAAGAATAAATAATATT
1 ATTTAAAAAT-TTATGAAAGAATAAATAATATT
57131515 A-TTAAAAATTTTATGAAAGAATAAATAATATT
1 ATTTAAAAA-TTTATGAAAGAATAAATAATATT
* * *
57131547 ATTTAAAAGTTTATGAATGGATAAATAATATT
1 ATTTAAAAATTTATGAAAGAATAAATAATATT
57131579 TTATCCTTAA
Statistics
Matches: 59, Mismatches: 3, Indels: 5
0.88 0.04 0.07
Matches are distributed among these distances:
32 51 0.86
33 8 0.14
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (32 bp):
ATTTAAAAATTTATGAAAGAATAAATAATATT
Found at i:57132382 original size:29 final size:29
Alignment explanation
Indices: 57132350--57132406 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
57132340 TTATTAAAAC
57132350 TTTTT-AA-TTTTATGAAAGAATAAATAATA
1 TTTTTAAATTTTTATGAAA-AAT-AATAATA
57132379 TTTTTAAATTTTTATGAAAAATAATAAT
1 TTTTTAAATTTTTATGAAAAATAATAAT
57132407 TATCCTTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
29 11 0.42
30 5 0.19
31 10 0.38
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (29 bp):
TTTTTAAATTTTTATGAAAAATAATAATA
Found at i:57132416 original size:30 final size:31
Alignment explanation
Indices: 57132357--57132419 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 31
57132347 AACTTTTTAA
**
57132357 TTTTATGAAAGAATAAATAATATTTTTAAAT
1 TTTTATGAAAGAATAAATAATATCCTTAAAT
57132388 TTTTATGAAA-AAT-AATAATTATCCTTAAAT
1 TTTTATGAAAGAATAAATAA-TATCCTTAAAT
57132418 TT
1 TT
57132420 ATAACAGTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 5 0.17
30 14 0.48
31 10 0.34
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (31 bp):
TTTTATGAAAGAATAAATAATATCCTTAAAT
Found at i:57132443 original size:43 final size:43
Alignment explanation
Indices: 57132395--57132552 Score: 153
Period size: 43 Copynumber: 3.6 Consensus size: 43
57132385 AATTTTTATG
57132395 AAAAATAATAATTATCCTTAA-ATTTATAACAGTCAAAATATCT
1 AAAAATAATAATTATCCTTAATATTTATAACAGTCAAAATAT-T
* * * * *
57132438 AAAAATATTATTTATCCTTAATATTTA-AACAATTAAAATTTT
1 AAAAATAATAATTATCCTTAATATTTATAACAGTCAAAATATT
*
57132480 ATGAAAGGATAA-ATATTATCCTTAA-ATTTATAAGAGTCAAAATATT
1 A--AAA--ATAATA-ATTATCCTTAATATTTATAACAGTCAAAATATT
* * *
57132526 TAAAATATTATTTATCCTTAATATTTA
1 AAAAATAATAATTATCCTTAATATTTA
57132553 AGCAATTAAA
Statistics
Matches: 92, Mismatches: 14, Indels: 18
0.74 0.11 0.15
Matches are distributed among these distances:
42 15 0.16
43 36 0.39
44 11 0.12
45 6 0.07
46 24 0.26
ACGTcount: A:0.47, C:0.08, G:0.04, T:0.41
Consensus pattern (43 bp):
AAAAATAATAATTATCCTTAATATTTATAACAGTCAAAATATT
Found at i:57132522 original size:46 final size:44
Alignment explanation
Indices: 57132384--57132573 Score: 146
Period size: 43 Copynumber: 4.3 Consensus size: 44
57132374 TAATATTTTT
*
57132384 AAATTTTTATGAAAAATAATAATTATCCTTAAATTTATAACAGTCA
1 AAATATTTATG-AAAATAAT-ATTATCCTTAAATTTATAACAGTCA
* * * *
57132430 AAATATCTA--AAAATATTATTTATCCTTAATATTTA-AACAATTA
1 AAATATTTATGAAAATAATA-TTATCCTTAA-ATTTATAACAGTCA
*
57132473 AAAT-TTTATGAAAGGATAAATATTATCCTTAAATTTATAAGAGTCA
1 AAATATTTATGAAA--AT-AATATTATCCTTAAATTTATAACAGTCA
* * * *
57132519 AAATA-TT-T-AAAATATTATTTATCCTTAATATTTA-AGCAATTA
1 AAATATTTATGAAAATAATA-TTATCCTTAA-ATTTATAACAGTCA
57132561 AAAT-TTTATGAAA
1 AAATATTTATGAAA
57132574 GAATAAATAA
Statistics
Matches: 115, Mismatches: 15, Indels: 30
0.72 0.09 0.19
Matches are distributed among these distances:
41 3 0.03
42 26 0.23
43 33 0.29
44 14 0.12
45 6 0.05
46 30 0.26
47 3 0.03
ACGTcount: A:0.47, C:0.07, G:0.05, T:0.41
Consensus pattern (44 bp):
AAATATTTATGAAAATAATATTATCCTTAAATTTATAACAGTCA
Found at i:57132544 original size:88 final size:89
Alignment explanation
Indices: 57132382--57132582 Score: 327
Period size: 88 Copynumber: 2.3 Consensus size: 89
57132372 AATAATATTT
*
57132382 TTAAATTTTTATGAAA-AAT-AATAATTATCCTTAAATTTATAACAGTCAAAATATCTAAAAATA
1 TTAAAATTTTATGAAAGAATAAAT-ATTATCCTTAAATTTATAACAGTCAAAATATCTAAAAATA
57132445 TTATTTATCCTTAATATTTAAACAA
65 TTATTTATCCTTAATATTTAAACAA
* * *
57132470 TTAAAATTTTATGAAAGGATAAATATTATCCTTAAATTTATAAGAGTCAAAATAT-TTAAAATAT
1 TTAAAATTTTATGAAAGAATAAATATTATCCTTAAATTTATAACAGTCAAAATATCTAAAAATAT
*
57132534 TATTTATCCTTAATATTTAAGCAA
66 TATTTATCCTTAATATTTAAACAA
57132558 TTAAAATTTTATGAAAGAATAAATA
1 TTAAAATTTTATGAAAGAATAAATA
57132583 ATATTTTTTA
Statistics
Matches: 105, Mismatches: 6, Indels: 4
0.91 0.05 0.03
Matches are distributed among these distances:
88 70 0.67
89 32 0.30
90 3 0.03
ACGTcount: A:0.48, C:0.07, G:0.05, T:0.40
Consensus pattern (89 bp):
TTAAAATTTTATGAAAGAATAAATATTATCCTTAAATTTATAACAGTCAAAATATCTAAAAATAT
TATTTATCCTTAATATTTAAACAA
Found at i:57132596 original size:32 final size:32
Alignment explanation
Indices: 57132558--57132652 Score: 165
Period size: 32 Copynumber: 3.0 Consensus size: 32
57132548 ATTTAAGCAA
*
57132558 TTAAAATTTTATGAAAGAATAAATAATATTTT
1 TTAAAATTTTATGAAAGGATAAATAATATTTT
57132590 TTAAAATTTTATGAAAGGATAAATAATA-TTT
1 TTAAAATTTTATGAAAGGATAAATAATATTTT
57132621 TTAAAATTTTTATGAAAGGATAAATAATATTT
1 TTAAAA-TTTTATGAAAGGATAAATAATATTT
57132653 GATTTTTAAA
Statistics
Matches: 60, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
31 9 0.15
32 49 0.82
33 2 0.03
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.43
Consensus pattern (32 bp):
TTAAAATTTTATGAAAGGATAAATAATATTTT
Found at i:57133423 original size:33 final size:33
Alignment explanation
Indices: 57133381--57133656 Score: 291
Period size: 33 Copynumber: 8.0 Consensus size: 33
57133371 GGCATCATCC
57133381 CCTGCTACCTCTCCTCCGGAAAAAGAAACGACT
1 CCTGCTACCTCTCCTCCGGAAAAAGAAACGACT
*
57133414 CCTGCTACCTTTCCTCCGGAAAAAGAAACGACT
1 CCTGCTACCTCTCCTCCGGAAAAAGAAACGACT
*
57133447 CCTGCTACCTTTCCTCCGGAAAAAGAAACGACT
1 CCTGCTACCTCTCCTCCGGAAAAAGAAACGACT
* * * *
57133480 CCTGTTACCTTTCCTCCGGAAAAGGTAACGACT
1 CCTGCTACCTCTCCTCCGGAAAAAGAAACGACT
* * * *
57133513 TCTTCTACCTCTCCTCTGGAAAAAGTAACGACTCCT
1 CCTGCTACCTCTCCTCCGGAAAAAGAAACGA---CT
*
57133549 GCTACTGCTACCTCTCCTCCGGAAAAAGTAACGACTCTT
1 -C--CTGCTACCTCTCCTCCGGAAAAAGAAACGA--C-T
* *
57133588 GCTACTGCCACCTCTCCTCCGGCAAAAGAAACGACT
1 -C--CTGCTACCTCTCCTCCGGAAAAAGAAACGACT
* * * *
57133624 CCTTCTACTTCTCCTTCGGAAAAAGTAACGACT
1 CCTGCTACCTCTCCTCCGGAAAAAGAAACGACT
57133657 TCTGAAAAAG
Statistics
Matches: 212, Mismatches: 24, Indels: 14
0.85 0.10 0.06
Matches are distributed among these distances:
33 146 0.69
35 1 0.00
36 3 0.01
37 1 0.00
38 1 0.00
39 60 0.28
ACGTcount: A:0.28, C:0.34, G:0.15, T:0.24
Consensus pattern (33 bp):
CCTGCTACCTCTCCTCCGGAAAAAGAAACGACT
Found at i:57134436 original size:45 final size:45
Alignment explanation
Indices: 57134372--57134460 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
57134362 TCTTATATTC
*
57134372 TACCATTAAACCATCATCCTTTCATTTCACCAGCTGGGGGAGTCG
1 TACCATTAAACCATCATCCTTTCATTTCACCAGCTGGGAGAGTCG
*
57134417 TACCATTAAACCATCATCCTTTGATTTCACCAGCTGGGAGAGTC
1 TACCATTAAACCATCATCCTTTCATTTCACCAGCTGGGAGAGTC
57134461 AGTGATCATG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.29
Consensus pattern (45 bp):
TACCATTAAACCATCATCCTTTCATTTCACCAGCTGGGAGAGTCG
Found at i:57138653 original size:6 final size:6
Alignment explanation
Indices: 57138642--57138670 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
57138632 TAATCACAAT
57138642 TTGAAA TTGAAA TTGAAA TTGAAA TTGAA
1 TTGAAA TTGAAA TTGAAA TTGAAA TTGAA
57138671 GTAGAAAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.17, T:0.34
Consensus pattern (6 bp):
TTGAAA
Found at i:57138677 original size:18 final size:18
Alignment explanation
Indices: 57138642--57138677 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
57138632 TAATCACAAT
*
57138642 TTGAAATTGAAATTGAAA
1 TTGAAATTGAAATAGAAA
*
57138660 TTGAAATTGAAGTAGAAA
1 TTGAAATTGAAATAGAAA
57138678 AAGATAGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.19, T:0.31
Consensus pattern (18 bp):
TTGAAATTGAAATAGAAA
Found at i:57139580 original size:3 final size:3
Alignment explanation
Indices: 57139572--57139615 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
57139562 TCGTTAATAT
57139572 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
57139616 TTCATTTTCT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:57152052 original size:13 final size:13
Alignment explanation
Indices: 57152034--57152063 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
57152024 GTAAAATAAT
*
57152034 AAAAAAATAGTAA
1 AAAAAAAGAGTAA
57152047 AAAAAAAGAGTAA
1 AAAAAAAGAGTAA
57152060 AAAA
1 AAAA
57152064 CAGCAACAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.80, C:0.00, G:0.10, T:0.10
Consensus pattern (13 bp):
AAAAAAAGAGTAA
Found at i:57154816 original size:9 final size:9
Alignment explanation
Indices: 57154804--57154838 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
57154794 ACCCAATTTT
*
57154804 TTATTTGAG
1 TTATTCGAG
*
57154813 TTATTCGAA
1 TTATTCGAG
57154822 TTATTCGAG
1 TTATTCGAG
57154831 TTATTCGA
1 TTATTCGA
57154839 ATTTAAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.26, C:0.09, G:0.17, T:0.49
Consensus pattern (9 bp):
TTATTCGAG
Found at i:57154831 original size:18 final size:18
Alignment explanation
Indices: 57154804--57154841 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
57154794 ACCCAATTTT
*
57154804 TTATTTGAGTTATTCGAA
1 TTATTCGAGTTATTCGAA
57154822 TTATTCGAGTTATTCGAA
1 TTATTCGAGTTATTCGAA
57154840 TT
1 TT
57154842 TAAAATTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.26, C:0.08, G:0.16, T:0.50
Consensus pattern (18 bp):
TTATTCGAGTTATTCGAA
Found at i:57154925 original size:32 final size:33
Alignment explanation
Indices: 57154866--57154932 Score: 93
Period size: 32 Copynumber: 2.1 Consensus size: 33
57154856 ACTCGAATAC
* *
57154866 AAAACTCGAATTACTTATTTGAGTTAACTCGAA
1 AAAACTCGAATAACTTATTTGAGTTAACTCCAA
57154899 AAAAC-CGAATAACTTCATTTGA-TTAACTCCAA
1 AAAACTCGAATAACTT-ATTTGAGTTAACTCCAA
57154931 AA
1 AA
57154933 TTAAAAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
32 20 0.65
33 11 0.35
ACGTcount: A:0.43, C:0.18, G:0.09, T:0.30
Consensus pattern (33 bp):
AAAACTCGAATAACTTATTTGAGTTAACTCCAA
Found at i:57157004 original size:41 final size:41
Alignment explanation
Indices: 57156952--57157087 Score: 179
Period size: 41 Copynumber: 3.3 Consensus size: 41
57156942 TGCCAATCAT
57156952 ATAGCCAAAGCTATTATAATTCCGCACACTAAGTGCCTTAC
1 ATAGCCAAAGCTATTATAATTCCGCACACTAAGTGCCTTAC
* *
57156993 ATAGCCGAAGCTATTACAATTCCGCACACTAAGTGCCTTAC
1 ATAGCCAAAGCTATTATAATTCCGCACACTAAGTGCCTTAC
* *
57157034 ATAGCCAAAGCCATT-TCAAAT-CGCACACTAAGTGCCATTA-
1 ATAGCCAAAGCTATTAT-AATTCCGCACACTAAGTGCC-TTAC
* *
57157074 ATAACCGAAGCTAT
1 ATAGCCAAAGCTAT
57157088 CTCGAATTTC
Statistics
Matches: 84, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
40 26 0.31
41 58 0.69
ACGTcount: A:0.35, C:0.27, G:0.13, T:0.24
Consensus pattern (41 bp):
ATAGCCAAAGCTATTATAATTCCGCACACTAAGTGCCTTAC
Found at i:57161575 original size:43 final size:43
Alignment explanation
Indices: 57161511--57161720 Score: 228
Period size: 43 Copynumber: 4.9 Consensus size: 43
57161501 TTTTAGAAAT
* * *
57161511 AAACGCCGCTAAAGACCATGACCTTTAGCGGCACTTCTCCGAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
* *
57161554 AAACGCCGCTAAAGACAATGACCTTTAGCGGCGC-TTTCCAAAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCC-CAC
* * *
57161597 AAACACCGCTAAAGACTC-TGATCTTTAGCGGTGCTTTTCCCAC
1 AAACGCCGCTAAAGAC-CATGACCTTTAGCGGCGCTTTTCCCAC
* * * ** *
57161640 AAACGCCGGTAAAGACCCTGATCTTTAGCTACGCTTTTCCCAA
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
* *
57161683 AAACGCCGC-AAATGACCATGACCTTTAGTGGCGTTTTT
1 AAACGCCGCTAAA-GACCATGACCTTTAGCGGCGCTTTT
57161721 TTAAAAAACG
Statistics
Matches: 140, Mismatches: 22, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
42 8 0.06
43 127 0.91
44 5 0.04
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
Found at i:57162087 original size:21 final size:21
Alignment explanation
Indices: 57162058--57162117 Score: 84
Period size: 21 Copynumber: 2.9 Consensus size: 21
57162048 TTCTACGCTG
* *
57162058 CTCTGCTTCCCTCACTGCAGC
1 CTCTGCTTCCCTCGCTGCAAC
*
57162079 CTCTACTTCCCTCGCTGCAAC
1 CTCTGCTTCCCTCGCTGCAAC
*
57162100 CTCTGCTTCTCTCGCTGC
1 CTCTGCTTCCCTCGCTGC
57162118 CGTATCTGCT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.08, C:0.47, G:0.13, T:0.32
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAAC
Found at i:57162174 original size:66 final size:66
Alignment explanation
Indices: 57162097--57162245 Score: 212
Period size: 66 Copynumber: 2.3 Consensus size: 66
57162087 CCCTCGCTGC
* *
57162097 AACCTCTGCTTCTCTCGCTGCCGTATCTGCTTTAAGCTGC-AGCTGGAGTTCTTCATA-CTTTCG
1 AACCTCAGCTTCTCTCGCTGCCGCATCTGCTTTAAG-TGCTAGCTGGAGTTCTTCATATCTTT-G
57162160 TTG
64 TTG
* * *
57162163 AACCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGTTCTAGCTGGAGTTCTTCATATCTTTTTT
1 AACCTCAGCTTCTCTCGCTGCCGCATCTGCTTTAAGTGCTAGCTGGAGTTCTTCATATCTTTGTT
57162228 G
66 G
*
57162229 AACCTCAACTTCTCTCG
1 AACCTCAGCTTCTCTCG
57162246 ATGCTGCCTC
Statistics
Matches: 75, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
65 2 0.03
66 69 0.92
67 4 0.05
ACGTcount: A:0.15, C:0.29, G:0.17, T:0.39
Consensus pattern (66 bp):
AACCTCAGCTTCTCTCGCTGCCGCATCTGCTTTAAGTGCTAGCTGGAGTTCTTCATATCTTTGTT
G
Found at i:57162251 original size:66 final size:65
Alignment explanation
Indices: 57162105--57162266 Score: 209
Period size: 66 Copynumber: 2.5 Consensus size: 65
57162095 GCAACCTCTG
* * *
57162105 CTTCTCTCGCTGCCGTATCTGCTTTAAGCTGCAGCTGGAGTTCTTCATACTTTCGTTGAACCTCA
1 CTTCTCTCGCTGCTGCATCTGCTTTAAG-TTCAGCTGGAGTTCTTCATACTTTCGTTGAACCTCA
*
57162170 G
65 A
*
57162171 CTTCTCTCGCTGCTGCATCTGCTTTAAGTTCTAGCTGGAGTTCTTCATATCTTT-TTTGAACCTC
1 CTTCTCTCGCTGCTGCATCTGCTTTAAGTTC-AGCTGGAGTTCTTCATA-CTTTCGTTGAACCTC
57162235 AA
64 AA
* * * *
57162237 CTTCTCTCGATGCTGCCTCCGTTTTAAGTT
1 CTTCTCTCGCTGCTGCATCTGCTTTAAGTT
57162267 GTGTAATTTG
Statistics
Matches: 85, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
65 2 0.02
66 79 0.93
67 4 0.05
ACGTcount: A:0.15, C:0.28, G:0.17, T:0.40
Consensus pattern (65 bp):
CTTCTCTCGCTGCTGCATCTGCTTTAAGTTCAGCTGGAGTTCTTCATACTTTCGTTGAACCTCAA
Found at i:57167731 original size:9 final size:9
Alignment explanation
Indices: 57167717--57168208 Score: 160
Period size: 9 Copynumber: 57.3 Consensus size: 9
57167707 AAATTAAATG
57167717 AGTTATGTA
1 AGTTATGTA
57167726 AGTTATGATA
1 AGTTATG-TA
* * *
57167736 TGATATAT-
1 AGTTATGTA
*
57167744 ATTTATGT-
1 AGTTATGTA
*
57167752 A-TTAAGTA
1 AGTTATGTA
*
57167760 AATTATGTA
1 AGTTATGTA
57167769 AGTTATGT-
1 AGTTATGTA
*
57167777 A-TTATATA
1 AGTTATGTA
*
57167785 AGTTATTTA
1 AGTTATGTA
57167794 AGTTATGT-
1 AGTTATGTA
57167802 A-TTATGTA
1 AGTTATGTA
***
57167810 ACCAATGTA
1 AGTTATGTA
57167819 AGTTATGTA
1 AGTTATGTA
**
57167828 AGTGCTGT-
1 AGTTATGTA
57167836 A-TTATGTA
1 AGTTATGTA
**
57167844 AGGCAAAT-TA
1 A-G-TTATGTA
57167854 AGTTATGTA
1 AGTTATGTA
* *
57167863 GGCTATGT-
1 AGTTATGTA
*
57167871 A-TTATGCA
1 AGTTATGTA
*
57167879 AGTTATTTA
1 AGTTATGTA
*
57167888 AGTTGTGTA
1 AGTTATGTA
57167897 AGTGT-TGT-
1 AGT-TATGTA
57167905 A-TTATGTA
1 AGTTATGTA
**
57167913 AGGCAAAT-TA
1 A-G-TTATGTA
57167923 AGTTATGT-
1 AGTTATGTA
57167931 AGTCTATGT-
1 AGT-TATGTA
*
57167940 A-TTATGCA
1 AGTTATGTA
*
57167948 AGTTATTTA
1 AGTTATGTA
*
57167957 AGTTGTGTA
1 AGTTATGTA
57167966 AGTGT-TGTA
1 AGT-TATGTA
*
57167975 TTA-TGTAAGTA
1 --AGT-TATGTA
57167986 AGTTATGT-
1 AGTTATGTA
57167994 A-TTATGTA
1 AGTTATGTA
57168002 AGTTTTATGTA
1 AG--TTATGTA
**
57168013 AAATATGT-
1 AGTTATGTA
*
57168021 AGGT-TGTA
1 AGTTATGTA
** *
57168029 TTTTATGAA
1 AGTTATGTA
*
57168038 AGTTATATA
1 AGTTATGTA
57168047 AGTTATGTA
1 AGTTATGTA
* *
57168056 GGCTATGT-
1 AGTTATGTA
* *
57168064 -TTTATGCA
1 AGTTATGTA
*
57168072 AGTTATTTA
1 AGTTATGTA
* *
57168081 ATTTTTGTA
1 AGTTATGTA
57168090 AGTGT-TGT-
1 AGT-TATGTA
*
57168098 A-TTATATA
1 AGTTATGTA
57168106 AGTTATGT-
1 AGTTATGTA
57168114 A-TTATGTA
1 AGTTATGTA
*
57168122 AGATATGTA
1 AGTTATGTA
57168131 AG-T-TGTA
1 AGTTATGTA
**
57168138 TTTTATGTA
1 AGTTATGTA
57168147 AGTTATGT-
1 AGTTATGTA
57168155 A-TTATGTA
1 AGTTATGTA
*
57168163 TGTTATGTA
1 AGTTATGTA
*
57168172 AGTAATG--
1 AGTTATGTA
57168179 AGTTATGTA
1 AGTTATGTA
*
57168188 AGCTATGTA
1 AGTTATGTA
*
57168197 AGTTATTTA
1 AGTTATGTA
57168206 AGT
1 AGT
57168209 GGTGTATTAA
Statistics
Matches: 349, Mismatches: 85, Indels: 98
0.66 0.16 0.18
Matches are distributed among these distances:
6 2 0.01
7 70 0.20
8 36 0.10
9 206 0.59
10 19 0.05
11 16 0.05
ACGTcount: A:0.32, C:0.02, G:0.20, T:0.46
Consensus pattern (9 bp):
AGTTATGTA
Found at i:57167777 original size:25 final size:25
Alignment explanation
Indices: 57167746--57167827 Score: 94
Period size: 25 Copynumber: 3.3 Consensus size: 25
57167736 TGATATATAT
57167746 TTATGTATTAAGTAAATTATGTAAG
1 TTATGTATTAAGTAAATTATGTAAG
* *
57167771 TTATGTATTATA-TAAGTTATTTAAG
1 TTATGTATTA-AGTAAATTATGTAAG
* ***
57167796 TTATGTATTATGTAACCAATGTAAG
1 TTATGTATTAAGTAAATTATGTAAG
57167821 TTATGTA
1 TTATGTA
57167828 AGTGCTGTAT
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
25 47 0.98
26 1 0.02
ACGTcount: A:0.37, C:0.02, G:0.15, T:0.46
Consensus pattern (25 bp):
TTATGTATTAAGTAAATTATGTAAG
Found at i:57167821 original size:34 final size:34
Alignment explanation
Indices: 57167783--57167983 Score: 176
Period size: 34 Copynumber: 5.9 Consensus size: 34
57167773 ATGTATTATA
* *
57167783 TAAGTTATTTAAGTTATGTATTATGTAA-CCAAT
1 TAAGTTATGTAAGTTATGTATTATGTAAGCAAAT
**
57167816 GTAAGTTATGTAAGTGCTGTATTATGTAAGGCAAAT
1 -TAAGTTATGTAAGTTATGTATTATGTAA-GCAAAT
* * * ** *
57167852 TAAGTTATGTAGGCTATGTATTATGCAAGTTATT
1 TAAGTTATGTAAGTTATGTATTATGTAAGCAAAT
*
57167886 TAAGTTGTGTAAGTGT-TGTATTATGTAAGGCAAAT
1 TAAGTTATGTAAGT-TATGTATTATGTAA-GCAAAT
* ** *
57167921 TAAGTTATGT-AGTCTATGTATTATGCAAGTTATT
1 TAAGTTATGTAAGT-TATGTATTATGTAAGCAAAT
*
57167955 TAAGTTGTGTAAGTGT-TGTATTATGTAAG
1 TAAGTTATGTAAGT-TATGTATTATGTAAG
57167984 TAAGTTATGT
Statistics
Matches: 133, Mismatches: 28, Indels: 12
0.77 0.16 0.07
Matches are distributed among these distances:
34 78 0.59
35 51 0.38
36 4 0.03
ACGTcount: A:0.31, C:0.04, G:0.21, T:0.43
Consensus pattern (34 bp):
TAAGTTATGTAAGTTATGTATTATGTAAGCAAAT
Found at i:57167890 original size:69 final size:69
Alignment explanation
Indices: 57167817--57167983 Score: 307
Period size: 69 Copynumber: 2.4 Consensus size: 69
57167807 GTAACCAATG
* *
57167817 TAAGTTATGTAAGTGCTGTATTATGTAAGGCAAATTAAGTTATGTAGGCTATGTATTATGCAAGT
1 TAAGTTGTGTAAGTGTTGTATTATGTAAGGCAAATTAAGTTATGTAGGCTATGTATTATGCAAGT
57167882 TATT
66 TATT
*
57167886 TAAGTTGTGTAAGTGTTGTATTATGTAAGGCAAATTAAGTTATGTAGTCTATGTATTATGCAAGT
1 TAAGTTGTGTAAGTGTTGTATTATGTAAGGCAAATTAAGTTATGTAGGCTATGTATTATGCAAGT
57167951 TATT
66 TATT
57167955 TAAGTTGTGTAAGTGTTGTATTATGTAAG
1 TAAGTTGTGTAAGTGTTGTATTATGTAAG
57167984 TAAGTTATGT
Statistics
Matches: 95, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
69 95 1.00
ACGTcount: A:0.31, C:0.04, G:0.23, T:0.43
Consensus pattern (69 bp):
TAAGTTGTGTAAGTGTTGTATTATGTAAGGCAAATTAAGTTATGTAGGCTATGTATTATGCAAGT
TATT
Found at i:57168054 original size:34 final size:34
Alignment explanation
Indices: 57168016--57168100 Score: 89
Period size: 34 Copynumber: 2.4 Consensus size: 34
57168006 TTATGTAAAA
57168016 TATGTAGGTTGTATTTTATGAAAGTTATATAAGT
1 TATGTAGGTTGTATTTTATGAAAGTTATATAAGT
* * * * * *
57168050 TATGTAGGCTATGTTTTATGCAAGTTATTTAATT
1 TATGTAGGTTGTATTTTATGAAAGTTATATAAGT
*
57168084 TTTGTAAGTGTTGTATT
1 TATGT-AG-GTTGTATT
57168101 ATATAAGTTA
Statistics
Matches: 39, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
34 32 0.82
35 2 0.05
36 5 0.13
ACGTcount: A:0.27, C:0.02, G:0.20, T:0.51
Consensus pattern (34 bp):
TATGTAGGTTGTATTTTATGAAAGTTATATAAGT
Found at i:57168132 original size:25 final size:25
Alignment explanation
Indices: 57168104--57168173 Score: 72
Period size: 25 Copynumber: 2.8 Consensus size: 25
57168094 TTGTATTATA
57168104 TAAGTTATGTATTATGTAAGATATG
1 TAAGTTATGTATTATGTAAGATATG
* * * *
57168129 TAAGTTGTATTTTATGTAAGTTATG
1 TAAGTTATGTATTATGTAAGATATG
57168154 T-A-TTATGTATGTTATGTAAG
1 TAAGTTATGTA--TTATGTAAG
57168174 TAATGAGTTA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
23 4 0.11
24 1 0.03
25 31 0.86
ACGTcount: A:0.31, C:0.00, G:0.20, T:0.49
Consensus pattern (25 bp):
TAAGTTATGTATTATGTAAGATATG
Found at i:57168184 original size:25 final size:25
Alignment explanation
Indices: 57168134--57168199 Score: 80
Period size: 25 Copynumber: 2.6 Consensus size: 25
57168124 ATATGTAAGT
* *
57168134 TGTATTTTATGTAAGTTATGTATTA
1 TGTATGTTATGTAAGTAATGTATTA
57168159 TGTATGTTATGTAAGTAATG-AGTTA
1 TGTATGTTATGTAAGTAATGTA-TTA
* *
57168184 TGTAAGCTATGTAAGT
1 TGTATGTTATGTAAGT
57168200 TATTTAAGTG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
24 1 0.03
25 35 0.97
ACGTcount: A:0.30, C:0.02, G:0.21, T:0.47
Consensus pattern (25 bp):
TGTATGTTATGTAAGTAATGTATTA
Found at i:57168185 original size:41 final size:41
Alignment explanation
Indices: 57168099--57168196 Score: 119
Period size: 41 Copynumber: 2.4 Consensus size: 41
57168089 AAGTGTTGTA
* *
57168099 TTATATAAGTTATGTATTATGTAAGATATGTAAGTTGTATT
1 TTATGTAAGTTATGTATTATGTAAGATATGTAAGTTGTATG
* *
57168140 TTATGTAAGTTATGTATTATGTATGTTATGTAAGTAATG-A-G
1 TTATGTAAGTTATGTATTATGTAAGATATGTAAGT--TGTATG
*
57168181 TTATGTAAGCTATGTA
1 TTATGTAAGTTATGTA
57168197 AGTTATTTAA
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
41 47 0.94
42 1 0.02
43 2 0.04
ACGTcount: A:0.33, C:0.01, G:0.19, T:0.47
Consensus pattern (41 bp):
TTATGTAAGTTATGTATTATGTAAGATATGTAAGTTGTATG
Found at i:57168240 original size:21 final size:21
Alignment explanation
Indices: 57168154--57168301 Score: 79
Period size: 21 Copynumber: 7.4 Consensus size: 21
57168144 GTAAGTTATG
*
57168154 TATTATGTATGTTATGTAAG-
1 TATTATGTAAGTTATGTAAGT
57168174 TA--ATG--AGTTATGTAAG-
1 TATTATGTAAGTTATGTAAGT
* *
57168190 --CTATGTAAGTTATTTAAGT
1 TATTATGTAAGTTATGTAAGT
** *
57168209 GGTGTAT-TAAGTTATGGAAGT
1 TAT-TATGTAAGTTATGTAAGT
57168230 TATTATGTAAGTTATGCT-AGCT
1 TATTATGTAAGTTATG-TAAG-T
*
57168252 TA-TATATAAGTTATGTATTATGT
1 TATTATGTAAGTTATGTA--A-GT
*
57168275 TATTATGT-A-TTATGTAATT
1 TATTATGTAAGTTATGTAAGT
57168294 TATTATGT
1 TATTATGT
57168302 TATTATATAT
Statistics
Matches: 101, Mismatches: 11, Indels: 33
0.70 0.08 0.23
Matches are distributed among these distances:
16 13 0.13
18 13 0.13
19 9 0.09
20 7 0.07
21 36 0.36
22 13 0.13
23 5 0.05
24 5 0.05
ACGTcount: A:0.31, C:0.02, G:0.19, T:0.48
Consensus pattern (21 bp):
TATTATGTAAGTTATGTAAGT
Found at i:57168280 original size:8 final size:7
Alignment explanation
Indices: 57168262--57168307 Score: 51
Period size: 7 Copynumber: 6.6 Consensus size: 7
57168252 TATATATAAG
57168262 TTATGTA
1 TTATGTA
57168269 TTATGTTA
1 TTATG-TA
57168277 TTATGTA
1 TTATGTA
57168284 TTATGTA
1 TTATGTA
*
57168291 --ATTTA
1 TTATGTA
57168296 TTATGTTA
1 TTATG-TA
57168304 TTAT
1 TTAT
57168308 ATATAAGTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
5 4 0.12
7 16 0.48
8 13 0.39
ACGTcount: A:0.28, C:0.00, G:0.11, T:0.61
Consensus pattern (7 bp):
TTATGTA
Found at i:57168282 original size:15 final size:15
Alignment explanation
Indices: 57168262--57168384 Score: 65
Period size: 15 Copynumber: 7.9 Consensus size: 15
57168252 TATATATAAG
57168262 TTATGTATTATGTTA
1 TTATGTATTATGTTA
57168277 TTATGTATTATG-TA
1 TTATGTATTATGTTA
*
57168291 --ATTTATTATGTTA
1 TTATGTATTATGTTA
* *
57168304 TTATATA-TAAGTTA
1 TTATGTATTATGTTA
* * *
57168318 TGGAAGTTATTATGTAA
1 T-TATG-TATTATGTTA
* *
57168335 GTTATGCAAGCTTATATATAA
1 -TTATG-TA--TTATGT-T-A
57168356 GTTATGTATTATGTTA
1 -TTATGTATTATGTTA
57168372 TTATGTATTATGT
1 TTATGTATTATGT
57168385 AAGCAAATGA
Statistics
Matches: 81, Mismatches: 16, Indels: 22
0.68 0.13 0.18
Matches are distributed among these distances:
12 9 0.11
13 2 0.02
14 9 0.11
15 30 0.37
16 3 0.04
17 9 0.11
18 6 0.07
19 5 0.06
20 1 0.01
21 7 0.09
ACGTcount: A:0.32, C:0.02, G:0.15, T:0.52
Consensus pattern (15 bp):
TTATGTATTATGTTA
Found at i:57168337 original size:21 final size:21
Alignment explanation
Indices: 57168304--57168361 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
57168294 TATTATGTTA
*
57168304 TTATATATAAGTTATGGAAG-
1 TTATATATAAGTTATGCAAGC
*
57168324 TTATTATGTAAGTTATGCAAGC
1 TTA-TATATAAGTTATGCAAGC
57168346 TTATATATAAGTTATG
1 TTATATATAAGTTATG
57168362 TATTATGTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 3 0.09
21 27 0.82
22 3 0.09
ACGTcount: A:0.36, C:0.03, G:0.17, T:0.43
Consensus pattern (21 bp):
TTATATATAAGTTATGCAAGC
Found at i:57168600 original size:61 final size:62
Alignment explanation
Indices: 57168530--57168674 Score: 211
Period size: 61 Copynumber: 2.4 Consensus size: 62
57168520 AAAAATATAT
* * * *
57168530 AATTATTTAGAAAACTTATAAAATTGATACTTATAAATTTTATTAATAATAAATTTAG-AAC
1 AATTATTTAGAAAACTTATAAAATTAATACTAATAAATTTTAATAATAATAAATTTAGAAAA
* * * *
57168591 ACTTTTTTAGAAAACTTATAAATTTAATACTAATAAATTTTAATACTAATAAATTTAGAAAA
1 AATTATTTAGAAAACTTATAAAATTAATACTAATAAATTTTAATAATAATAAATTTAGAAAA
57168653 AATTATTTAGAAAACTTATAAA
1 AATTATTTAGAAAACTTATAAA
57168675 TTTAGAAAAC
Statistics
Matches: 73, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
61 51 0.70
62 22 0.30
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.40
Consensus pattern (62 bp):
AATTATTTAGAAAACTTATAAAATTAATACTAATAAATTTTAATAATAATAAATTTAGAAAA
Found at i:57168634 original size:16 final size:16
Alignment explanation
Indices: 57168608--57168646 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
57168598 TAGAAAACTT
57168608 ATAAA-TTTAATACTA
1 ATAAATTTTAATACTA
57168623 ATAAATTTTAATACTA
1 ATAAATTTTAATACTA
57168639 ATAAATTT
1 ATAAATTT
57168647 AGAAAAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 5 0.22
16 18 0.78
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (16 bp):
ATAAATTTTAATACTA
Found at i:57168674 original size:31 final size:30
Alignment explanation
Indices: 57168578--57168696 Score: 98
Period size: 31 Copynumber: 3.9 Consensus size: 30
57168568 TTTATTAATA
* * *
57168578 ATAAATTTAGAACACTTTTTTAGAAAACTT
1 ATAAATTTAGAAAAATTATTTAGAAAACTT
* * * * *
57168608 ATAAATTTA-ATACTAATAAATTT-TAATACTA
1 ATAAATTTAGA-A-AAAT-TATTTAGAAAACTT
57168639 ATAAATTTAGAAAAAATTATTTAGAAAACTT
1 ATAAATTTAG-AAAAATTATTTAGAAAACTT
* *
57168670 ATAAATTTAGAAAACTTATATAGAAAA
1 ATAAATTTAGAAAAATTATTTAGAAAA
57168697 TAAAAAAATA
Statistics
Matches: 69, Mismatches: 14, Indels: 12
0.73 0.15 0.13
Matches are distributed among these distances:
29 1 0.01
30 29 0.42
31 34 0.49
32 4 0.06
33 1 0.01
ACGTcount: A:0.52, C:0.06, G:0.05, T:0.37
Consensus pattern (30 bp):
ATAAATTTAGAAAAATTATTTAGAAAACTT
Found at i:57173764 original size:317 final size:309
Alignment explanation
Indices: 57173016--57173778 Score: 1199
Period size: 308 Copynumber: 2.4 Consensus size: 309
57173006 TGCAAGTTGA
* * * *
57173016 AAAAAAGTTAGTAAAAAACTCTTACTTCGGCCATTTGTTCGTATTTTTTTCTCCGCATTTTTTTA
1 AAAAAATTTAGTAAAACACTCTTACTTCGGTCATTTGTTCGTATTTTTTTCTCCGCATTTTATTA
*
57173081 CTTTAAAAAATATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATTATGTTTGAAA
66 TTTTAAAAAATATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATTATGTTTGAAA
* *
57173146 TTTATTAATTTAGTGAGTTTTTTAAATCAATTTAGTGTAAAAAAACCCTTATTCTTGCCCTTTGC
131 TTTATTAATTTAGTGAGTTTTTTAAATCAATTTAGTGTAAAAAAAACCTTATTCCTGCCCTTTGC
* *
57173211 TCGTATTATTTTCCCAAATTTTTTTTCTTTCAATAAAAATATATTATTTTCGTATTTTATATTAT
196 TCGTATTATTTTCCCAAATTTTATTACTTTCAATAAAAATATATTATTTTCGTATTTTATATTAT
*
57173276 TTCAGTACATTTTGTTTCAAATATTTGTATTAATTATTTCTAAATTTTT
261 TTCAGTACATTTTGTTTCAAATATTTGTATTAATCATTTCTAAATTTTT
*
57173325 AAAAAATTTAGT-AAACACTCTTACTTCGGTCATTTGTTCGTATTTTTTTCTCCGTATTTTATTA
1 AAAAAATTTAGTAAAACACTCTTACTTCGGTCATTTGTTCGTATTTTTTTCTCCGCATTTTATTA
* *
57173389 TTTTAAAAAATATCATAATTTCTAATTTTATAATTTTACTTTATCTT-AGTGCATTATGTTTAAA
66 TTTTAAAAAATATCATAATTTCTAATTTTATAATTTTACATTAT-TTCAGTGCATTATGTTTGAA
* *
57173453 ATTTATTAATTTAGTGTG-TTTTTAAATTAATTTAGTGTAAAAAAAAACCTTATTCCTGCCCTTT
130 ATTTATTAATTTAGTGAGTTTTTTAAATCAATTTAGTGT-AAAAAAAACCTTATTCCTGCCCTTT
* *
57173517 GCTCGTATTATTTTCCCGAATTTTATTACTTTGAATAAAAATATATTATTTTCGTATTTTATTAT
194 GCTCGTATTATTTTCCCAAATTTTATTACTTTCAATAAAAATATATTATTTTCG--------TAT
* *
57173582 TTTATATTATTTCAGTACATTTTGTTTGAAATATTTGTATTAATCATTTCTGAATTTTT
251 TTTATATTATTTCAGTACATTTTGTTTCAAATATTTGTATTAATCATTTCTAAATTTTT
* *
57173641 AAAAAATTTAGTAAAACACTCTTACTTCGGTCATTTGTTCGTAATTTTTTCTCAGCATTTTATTA
1 AAAAAATTTAGTAAAACACTCTTACTTCGGTCATTTGTTCGTATTTTTTTCTCCGCATTTTATTA
* **
57173706 TTTTAAAAAATATCATAATTTCTAATTTTATAGTTTTACATTATTTCAGTATATTATGTTTGAAA
66 TTTTAAAAAATATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATTATGTTTGAAA
57173771 TTTATTAA
131 TTTATTAA
57173779 ATATACCATT
Statistics
Matches: 415, Mismatches: 27, Indels: 16
0.91 0.06 0.03
Matches are distributed among these distances:
307 19 0.05
308 196 0.47
309 13 0.03
316 73 0.18
317 114 0.27
ACGTcount: A:0.31, C:0.11, G:0.08, T:0.50
Consensus pattern (309 bp):
AAAAAATTTAGTAAAACACTCTTACTTCGGTCATTTGTTCGTATTTTTTTCTCCGCATTTTATTA
TTTTAAAAAATATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATTATGTTTGAAA
TTTATTAATTTAGTGAGTTTTTTAAATCAATTTAGTGTAAAAAAAACCTTATTCCTGCCCTTTGC
TCGTATTATTTTCCCAAATTTTATTACTTTCAATAAAAATATATTATTTTCGTATTTTATATTAT
TTCAGTACATTTTGTTTCAAATATTTGTATTAATCATTTCTAAATTTTT
Found at i:57174131 original size:10 final size:10
Alignment explanation
Indices: 57174103--57174150 Score: 55
Period size: 10 Copynumber: 4.9 Consensus size: 10
57174093 AATTACCGTT
*
57174103 TTTTCTTTCA
1 TTTTCTTTCC
57174113 TTTTCCTTTCC
1 TTTT-CTTTCC
57174124 TTTTCTTTCC
1 TTTTCTTTCC
57174134 TTTT-TTT-C
1 TTTTCTTTCC
*
57174142 TTTTTTTTC
1 TTTTCTTTC
57174151 TTAAATTAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
8 5 0.15
9 6 0.18
10 14 0.41
11 9 0.26
ACGTcount: A:0.02, C:0.23, G:0.00, T:0.75
Consensus pattern (10 bp):
TTTTCTTTCC
Found at i:57174558 original size:158 final size:151
Alignment explanation
Indices: 57174389--57175150 Score: 549
Period size: 158 Copynumber: 4.9 Consensus size: 151
57174379 AATGATATAT
* * *
57174389 TTAATAA-ATTTCAAACATAATACACTGAAATAATGTAAAATTATAAAATTAAAAATTATGATGT
1 TTAATAATATTTCAAACATAATGCACTGAAATAATATAAAATAATAAAATTAAAAATTATGAT-T
* * *
57174453 TTTTTAAAATAATAAAATGCAGATAAAAAATTACGAACAAATGACCAAAGTAAGAGTGTTTTACT
65 TTTTTAAAGTAATAAAATGCAGA-AAAAAA-TACGAACAAATGGCCAAAGTAAGAGTTTTTTACT
57174518 AAATTTTTTAAAAATTCAGAAAT-AA
128 AAATTTTTTAAAAA-TCA-AAATAAA
* * *
57174543 TTAATACAAATATTTCAAACAAAATGTACTGAAATAATATAAAATAATAAAA-TACGAAAATAAT
1 TTAAT---AATATTTCAAACATAATGCACTGAAATAATATAAAATAATAAAATTA--AAAATTAT
* * * * * * *
57174607 ACATTTTCATTCAAAGTAATAAAATTCGAGAAAATAATACGAGCAAA-GGGCATGAA-TAAGGGA
61 -GATTTT--TTTAAAGTAATAAAATGC-AGAAAAAAATACGAACAAATGGCCA--AAGTAAGAG-
* * * *
57174670 TTTTTTACACTAAATTAATTTAAAAAACACACTAAA
119 TTTTTT--ACTAAATT-TTTTAAAAATCAAAATAAA
* * * *
57174706 TTAAT-ATATTTCAAACATAATGCACTG-----AGAT--AA-AGTAAAATTAGAAATTATGATAT
1 TTAATAATATTTCAAACATAATGCACTGAAATAATATAAAATAATAAAATTAAAAATTATGATTT
* * * * *
57174762 TTTTAAAATAATAAAATACAGAGAAAAAAATACGAATAAATGGCCGAAGTAAGAGTGTTTTACTA
66 TTTTAAAGTAATAAAATGC--AGAAAAAAATACGAACAAATGGCCAAAGTAAGAGTTTTTTACTA
*
57174827 AATTTTTTAAAAATTTAGAAAT-AA
129 AATTTTTTAAAAA-TCA-AAATAAA
* *
57174851 TTAATACAAATATTTCAAACAAAATGTACTGAAATAATATAAAATAATAAAA-TACGAAAATAAT
1 TTAAT---AATATTTCAAACATAATGCACTGAAATAATATAAAATAATAAAATTA--AAAAT--T
* * * ** * * *
57174915 AT-ATTTTTATTGAAAGTAAAAAAATTCGGGAAAGTAATACGAGCAAA-GGGCAAGAATAAG-GA
59 ATGATTTTT-TT-AAAGTAATAAAATGC-AGAAAAAAATACGAACAAATGGCCAA-AGTAAGAG-
* *
57174977 TTTTTTACACTAAATTAATTTTAAAAA-CACACTAAA
119 TTTTTT--ACTAAATT--TTTTAAAAATCAAAATAAA
* * *
57175013 TTAATAA-ATTTCAAACATAATGCACTGAAATAATGTAAAATTATAAAATTAAAAATTATAATAT
1 TTAATAATATTTCAAACATAATGCACTGAAATAATATAAAATAATAAAATTAAAAATTATGAT-T
* * *
57175077 TTTGTAAAGTAATAAAATGCAGAGAAAAAAATACGAACAAATGGTCGAAGTAAGAGTTTTTTACT
65 TTTTTAAAGTAATAAAATGC--AGAAAAAAATACGAACAAATGGCCAAAGTAAGAGTTTTTTACT
*
57175142 AACTTTTTT
128 AAATTTTTT
57175151 TTCAACTTGC
Statistics
Matches: 475, Mismatches: 79, Indels: 110
0.72 0.12 0.17
Matches are distributed among these distances:
144 8 0.02
145 16 0.03
146 2 0.00
147 22 0.05
148 22 0.05
149 27 0.06
150 6 0.01
151 6 0.01
152 8 0.02
154 18 0.04
155 16 0.03
156 34 0.07
157 24 0.05
158 77 0.16
159 47 0.10
160 46 0.10
161 41 0.09
162 21 0.04
163 17 0.04
164 17 0.04
ACGTcount: A:0.51, C:0.08, G:0.10, T:0.31
Consensus pattern (151 bp):
TTAATAATATTTCAAACATAATGCACTGAAATAATATAAAATAATAAAATTAAAAATTATGATTT
TTTTAAAGTAATAAAATGCAGAAAAAAATACGAACAAATGGCCAAAGTAAGAGTTTTTTACTAAA
TTTTTTAAAAATCAAAATAAA
Found at i:57174833 original size:308 final size:312
Alignment explanation
Indices: 57174389--57175150 Score: 1174
Period size: 308 Copynumber: 2.4 Consensus size: 312
57174379 AATGATATAT
* *
57174389 TTAATAAATTTCAAACATAATACACTGAAATAATGTAAAATTATAAAATTAAAAATTATGATGTT
1 TTAATAAATTTCAAACATAATGCACTG-AATAA-GTAAAA-TATAAAATTAAAAATTATGAT-AT
* * * *
57174454 TTTTAAAATAATAAAATGCAGATAAAAAATTACGAACAAATGACCAAAGTAAGAGTGTTTTACTA
62 TTTTAAAATAATAAAATGCAGAGAAAAAAATACGAACAAATGGCCGAAGTAAGAGTGTTTTACTA
57174519 AATTTTTTAAAAATTCAGAAATAATTAATACAAATATTTCAAACAAAATGTACTGAAATAATATA
127 AATTTTTTAAAAATTCAGAAATAATTAATACAAATATTTCAAACAAAATGTACTGAAATAATATA
*
57174584 AAATAATAAAATACGAAAATAATACATTTTCATTCAAAGTAATAAAATTCGAGAAAATAATACGA
192 AAATAATAAAATACGAAAATAATACATTTTCATTCAAAGTAAAAAAATTCGAGAAAATAATACGA
*
57174649 GCAAAGGGCATGAATAAGGGATTTTTTACACTAAATTAATTTAAAAAACACACTAAA
257 GCAAAGGGCAAGAATAA-GGATTTTTTACACTAAATTAATTTAAAAAACACACTAAA
* * * *
57174706 TTAATATATTTCAAACATAATGCACTG-A-GA-T-AAA-GTAAAATTAGAAATTATGATATTTTT
1 TTAATAAATTTCAAACATAATGCACTGAATAAGTAAAATATAAAATTAAAAATTATGATATTTTT
* *
57174766 AAAATAATAAAATACAGAGAAAAAAATACGAATAAATGGCCGAAGTAAGAGTGTTTTACTAAATT
66 AAAATAATAAAATGCAGAGAAAAAAATACGAACAAATGGCCGAAGTAAGAGTGTTTTACTAAATT
*
57174831 TTTTAAAAATTTAGAAATAATTAATACAAATATTTCAAACAAAATGTACTGAAATAATATAAAAT
131 TTTTAAAAATTCAGAAATAATTAATACAAATATTTCAAACAAAATGTACTGAAATAATATAAAAT
* * * * *
57174896 AATAAAATACGAAAATAATATATTTTTATTGAAAGTAAAAAAATTCGGGAAAGTAATACGAGCAA
196 AATAAAATACGAAAATAATACATTTTCATTCAAAGTAAAAAAATTCGAGAAAATAATACGAGCAA
*
57174961 AGGGCAAGAATAAGGATTTTTTACACTAAATTAATTTTAAAAACACACTAAA
261 AGGGCAAGAATAAGGATTTTTTACACTAAATTAATTTAAAAAACACACTAAA
*
57175013 TTAATAAATTTCAAACATAATGCACTGAAATAATGTAAAATTATAAAATTAAAAATTATAATATT
1 TTAATAAATTTCAAACATAATGCACTG-AATAA-GTAAAA-TATAAAATTAAAAATTATGATATT
* * *
57175078 TTGTAAAGTAATAAAATGCAGAGAAAAAAATACGAACAAATGGTCGAAGTAAGAGTTTTTTACTA
63 TT-TAAAATAATAAAATGCAGAGAAAAAAATACGAACAAATGGCCGAAGTAAGAGTGTTTTACTA
*
57175143 ACTTTTTT
127 AATTTTTT
57175151 TTCAACTTGC
Statistics
Matches: 404, Mismatches: 32, Indels: 19
0.89 0.07 0.04
Matches are distributed among these distances:
307 64 0.16
308 199 0.49
309 19 0.05
310 1 0.00
311 3 0.01
312 2 0.00
313 3 0.01
314 1 0.00
315 23 0.06
316 64 0.16
317 25 0.06
ACGTcount: A:0.51, C:0.08, G:0.10, T:0.31
Consensus pattern (312 bp):
TTAATAAATTTCAAACATAATGCACTGAATAAGTAAAATATAAAATTAAAAATTATGATATTTTT
AAAATAATAAAATGCAGAGAAAAAAATACGAACAAATGGCCGAAGTAAGAGTGTTTTACTAAATT
TTTTAAAAATTCAGAAATAATTAATACAAATATTTCAAACAAAATGTACTGAAATAATATAAAAT
AATAAAATACGAAAATAATACATTTTCATTCAAAGTAAAAAAATTCGAGAAAATAATACGAGCAA
AGGGCAAGAATAAGGATTTTTTACACTAAATTAATTTAAAAAACACACTAAA
Found at i:57174982 original size:149 final size:148
Alignment explanation
Indices: 57174521--57174982 Score: 378
Period size: 149 Copynumber: 3.0 Consensus size: 148
57174511 TTTTACTAAA
*
57174521 TTTTTTAAAAATTCAGAAATAATTAATACAAATATTTCAAACAAAATGTACTGAAATAATATAAA
1 TTTTTTAAAAATTTAGAAATAATTAATACAAATATTTCAAACAAAATGTACTGAAATAATATAAA
* *
57174586 ATAATAAAATACGAAAATAATACATTTTCATTCAAAGTAATAAAATTCGAGAAAATAATACGAGC
66 ATAATAAAATACGAAAATAATATATTTTTATT-AAAGTAATAAAATTCGAGAAAATAATACGAGC
*
57174651 AAAGGGCATGAATAAGGGAT
130 AAAGGGCAAGAATAA-GGAT
* * * * * * *
57174671 TTTTTACACTAAATTAATTTAAAAAACACACTAAATTA-ATATATTTCAAACATAATGCACTGAG
1 TTTTT----TAAA--AATTT-AGAAATA-A-TTAA-TACAAATATTTCAAACAAAATGTACTGAA
* *
57174735 ATAA-AGT--AA-AAT----TA-G-AAATTATGATATTTTTA--AAA-TAATAAAATACAGAGAA
56 ATAATA-TAAAATAATAAAATACGAAAATAAT-ATATTTTTATTAAAGTAATAAAATTC-GAGAA
* ** * *
57174787 AAAAATACGAATAAATGGCCGAAGTAA-GAGTGTTTTACT
118 AATAATACGAGCAAA-GGGC-AAG-AATAAG-G----A-T
57174826 AAATTTTTTAAAAATTTAGAAATAATTAATACAAATATTTCAAACAAAATGTACTGAAATAATAT
1 ---TTTTTTAAAAATTTAGAAATAATTAATACAAATATTTCAAACAAAATGTACTGAAATAATAT
* * *
57174891 AAAATAATAAAATACGAAAATAATATATTTTTATTGAAAGTAAAAAAATTCGGGAAAGTAATACG
63 AAAATAATAAAATACGAAAATAATATATTTTTATT-AAAGTAATAAAATTCGAGAAAATAATACG
57174956 AGCAAAGGGCAAGAATAAGGAT
127 AGCAAAGGGCAAGAATAAGGAT
57174978 TTTTT
1 TTTTT
57174983 ACACTAAATT
Statistics
Matches: 236, Mismatches: 35, Indels: 83
0.67 0.10 0.23
Matches are distributed among these distances:
147 10 0.04
148 22 0.09
149 39 0.17
150 17 0.07
151 17 0.07
152 11 0.05
153 1 0.00
154 9 0.04
155 1 0.00
156 9 0.04
157 20 0.08
158 18 0.08
159 33 0.14
160 20 0.08
161 9 0.04
ACGTcount: A:0.52, C:0.08, G:0.11, T:0.30
Consensus pattern (148 bp):
TTTTTTAAAAATTTAGAAATAATTAATACAAATATTTCAAACAAAATGTACTGAAATAATATAAA
ATAATAAAATACGAAAATAATATATTTTTATTAAAGTAATAAAATTCGAGAAAATAATACGAGCA
AAGGGCAAGAATAAGGAT
Found at i:57176397 original size:25 final size:28
Alignment explanation
Indices: 57176369--57176420 Score: 83
Period size: 25 Copynumber: 2.0 Consensus size: 28
57176359 TATATTAGTA
57176369 AAGGTTAATATA-GTA-AAT-TAACAAT
1 AAGGTTAATATATGTATAATATAACAAT
57176394 AAGGTTAATATATGTATAATATAACAA
1 AAGGTTAATATATGTATAATATAACAA
57176421 ATTAAAATGC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
25 12 0.50
26 3 0.12
27 3 0.12
28 6 0.25
ACGTcount: A:0.52, C:0.04, G:0.12, T:0.33
Consensus pattern (28 bp):
AAGGTTAATATATGTATAATATAACAAT
Found at i:57178368 original size:41 final size:41
Alignment explanation
Indices: 57178323--57178467 Score: 218
Period size: 41 Copynumber: 3.5 Consensus size: 41
57178313 GACTTTAAGT
*
57178323 CTAGCAGGCTACGTGCCGGTGATCTGAATTAGGTTATAAAC
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
** *
57178364 CTAGCAGGCTGTGTGCCAGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
* * *
57178405 CTAGCAGGCTACGTGTCGGTGATCTGAATCAGGCTATAAGC
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
*
57178446 CTAGCAGGCTAAGTGCCGGTGA
1 CTAGCAGGCTACGTGCCGGTGA
57178468 ATATGTTAAA
Statistics
Matches: 92, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 92 1.00
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.25
Consensus pattern (41 bp):
CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
Found at i:57183781 original size:10 final size:10
Alignment explanation
Indices: 57183755--57183791 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
57183745 AAAATACTTT
*
57183755 TTTTTCTCTT
1 TTTTTCTCTC
57183765 TTCTTTCTCTC
1 TT-TTTCTCTC
57183776 TTTTTCTCTC
1 TTTTTCTCTC
57183786 TTTTTC
1 TTTTTC
57183792 CGGCACCACC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 16 0.64
11 9 0.36
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (10 bp):
TTTTTCTCTC
Found at i:57183931 original size:27 final size:27
Alignment explanation
Indices: 57183874--57183970 Score: 99
Period size: 27 Copynumber: 3.6 Consensus size: 27
57183864 TAACACAAGT
** * *
57183874 GGTGCCGCCTATGATAAA-AGCACCTTG
1 GGTGCCGCCTATGGGAAAGA-CACATTC
57183901 GGTGCCGCCTATGGGAAAGACAC-TATC
1 GGTGCCGCCTATGGGAAAGACACAT-TC
* *
57183928 GGTGCCGCCTATGGGAAAGGCACATTT
1 GGTGCCGCCTATGGGAAAGACACATTC
*
57183955 GGTGCCGCCCATGGGA
1 GGTGCCGCCTATGGGA
57183971 TACCCTCCTC
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
26 1 0.02
27 58 0.95
28 2 0.03
ACGTcount: A:0.23, C:0.26, G:0.32, T:0.20
Consensus pattern (27 bp):
GGTGCCGCCTATGGGAAAGACACATTC
Found at i:57184373 original size:30 final size:30
Alignment explanation
Indices: 57184307--57184378 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 30
57184297 AATTATGCAT
* *
57184307 AAACTTTGATTTAATACGTAATTTTATATAG
1 AAACTTTAATTTAATACG-AATTATATATAG
57184338 AAACTTTAATTTAATAC-AATTATATACGT-G
1 AAACTTTAATTTAATACGAATTATATA--TAG
57184368 AAACTTTAATT
1 AAACTTTAATT
57184379 ATGGTTCAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
29 8 0.22
30 12 0.32
31 17 0.46
ACGTcount: A:0.42, C:0.08, G:0.07, T:0.43
Consensus pattern (30 bp):
AAACTTTAATTTAATACGAATTATATATAG
Found at i:57184594 original size:29 final size:30
Alignment explanation
Indices: 57184552--57184610 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
57184542 GAATTTGATC
*
57184552 AAATCAAAATTTCATGTACAAAATTGCACA
1 AAATCAAAAGTTCATGTACAAAATTGCACA
*
57184582 AAATC-AAAGTTCATGTATAAAATTGCACA
1 AAATCAAAAGTTCATGTACAAAATTGCACA
57184611 TTAAACCATA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 22 0.81
30 5 0.19
ACGTcount: A:0.49, C:0.15, G:0.08, T:0.27
Consensus pattern (30 bp):
AAATCAAAAGTTCATGTACAAAATTGCACA
Found at i:57184784 original size:26 final size:27
Alignment explanation
Indices: 57184733--57184810 Score: 90
Period size: 26 Copynumber: 3.0 Consensus size: 27
57184723 AAATAGGGGT
*
57184733 TTATT-ATATTATTAATTTTATCATTTA
1 TTATTAATATTATTCATTTTAT-ATTTA
* * *
57184760 TTTTTTAT-TTTTTCATTTTATATTTA
1 TTATTAATATTATTCATTTTATATTTA
57184786 TTATTAATATTATTC-TTTTATATTT
1 TTATTAATATTATTCATTTTATATTT
57184811 TAAATATGTT
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
26 21 0.49
27 20 0.47
28 2 0.05
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (27 bp):
TTATTAATATTATTCATTTTATATTTA
Found at i:57186673 original size:222 final size:222
Alignment explanation
Indices: 57186287--57186731 Score: 863
Period size: 222 Copynumber: 2.0 Consensus size: 222
57186277 ACAATTCTCC
57186287 TCTAAATATGCATTGTAGCACTTCGCAAATGAACAAGTGTTGGGATTTAGTGCCCTTTATATAGT
1 TCTAAATATGCATTGTAGCACTTCGCAAATGAACAAGTGTTGGGATTTAGTGCCCTTTATATAGT
57186352 AATTTCGTCTATGTAATTTTTCAAACAAATTTGTTTAGATAAAATCTCATCATTATCATTAATAT
66 AATTTCGTCTATGTAATTTTTCAAACAAATTTGTTTAGATAAAATCTCATCATTATCATTAATAT
57186417 TTTTTGTATAATGCCCTCTACAAGTTTTACACGAAAAGCAAAATGAAAGTAAATATTAACTCACT
131 TTTTTGTATAATGCCCTCTACAAGTTTTACACGAAAAGCAAAATGAAAGTAAATATTAACTCACT
*
57186482 AATTATCCAAACGTTGAACTAATATTA
196 AATTATCCAAACATTGAACTAATATTA
* *
57186509 TCTAAATATGCATTGTAGCACTTTGCAAATGAGCAAGTGTTGGGATTTAGTGCCCTTTATATAGT
1 TCTAAATATGCATTGTAGCACTTCGCAAATGAACAAGTGTTGGGATTTAGTGCCCTTTATATAGT
57186574 AATTTCGTCTATGTAATTTTTCAAACAAATTTGTTTAGATAAAATCTCATCATTATCATTAATAT
66 AATTTCGTCTATGTAATTTTTCAAACAAATTTGTTTAGATAAAATCTCATCATTATCATTAATAT
57186639 TTTTTGTATAATGCCCTCTACAAGTTTTACACGAAAAGCAAAATGAAAGTAAATATTAACTCACT
131 TTTTTGTATAATGCCCTCTACAAGTTTTACACGAAAAGCAAAATGAAAGTAAATATTAACTCACT
57186704 AATTATCCAAACATTGAACTAATATTA
196 AATTATCCAAACATTGAACTAATATTA
57186731 T
1 T
57186732 GTGGCATTAT
Statistics
Matches: 220, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
222 220 1.00
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (222 bp):
TCTAAATATGCATTGTAGCACTTCGCAAATGAACAAGTGTTGGGATTTAGTGCCCTTTATATAGT
AATTTCGTCTATGTAATTTTTCAAACAAATTTGTTTAGATAAAATCTCATCATTATCATTAATAT
TTTTTGTATAATGCCCTCTACAAGTTTTACACGAAAAGCAAAATGAAAGTAAATATTAACTCACT
AATTATCCAAACATTGAACTAATATTA
Found at i:57191260 original size:33 final size:33
Alignment explanation
Indices: 57191218--57191283 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
57191208 GCAGAGACTA
* *
57191218 CAGCGAGAGAAGCAGATGCCGCAGTGAGAGAAG
1 CAGCGAGAGAAGCAGAGGCCGCAGCGAGAGAAG
57191251 CAGCGAGAGAAGCAGAGGCCGCAGCGAGAGAAG
1 CAGCGAGAGAAGCAGAGGCCGCAGCGAGAGAAG
57191284 AAGAGTTCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.36, C:0.20, G:0.41, T:0.03
Consensus pattern (33 bp):
CAGCGAGAGAAGCAGAGGCCGCAGCGAGAGAAG
Found at i:57191769 original size:42 final size:43
Alignment explanation
Indices: 57191697--57191813 Score: 139
Period size: 42 Copynumber: 2.7 Consensus size: 43
57191687 TCAAAACAGT
* * *
57191697 GGCGTTTGTGAAATAAGCGCCGCTAAAGAACACTACTTTTAGC
1 GGCGTTTTTGAAAGAAGCGCCGCTAAAGAACACTACTTTTAGA
* *
57191740 GGCGTTTTTG-AAGAAGCGCCGCTATAGAACATTACTTTTAGA
1 GGCGTTTTTGAAAGAAGCGCCGCTAAAGAACACTACTTTTAGA
***
57191782 GGCGTTTTCTTCCA-AAGCGCCGCTAAAGAACA
1 GGCGTTTT-TGAAAGAAGCGCCGCTAAAGAACA
57191814 TGAGCTTTAG
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
42 36 0.56
43 27 0.42
44 1 0.02
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.26
Consensus pattern (43 bp):
GGCGTTTTTGAAAGAAGCGCCGCTAAAGAACACTACTTTTAGA
Found at i:57191853 original size:41 final size:42
Alignment explanation
Indices: 57191710--57192020 Score: 353
Period size: 42 Copynumber: 7.4 Consensus size: 42
57191700 GTTTGTGAAA
***
57191710 TAAGCGCCGCTAAAGAACACT-A-CTTTTAGCGGCGTTTTTGAA
1 TAAGCGCCGCTAAAGAACA-TGATC-TTTAGCGGCGTTTTTTTC
* * * * *
57191752 GAAGCGCCGCTATAGAACATTA-CTTTTAGAGGCGTTTTCTTCC
1 TAAGCGCCGCTAAAGAACATGATC-TTTAGCGGCGTTTT-TTTC
* * * *
57191795 AAAGCGCCGCTAAAGAACATGAGCTTTAGCAGCGTTTATTT-
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
*
57191836 TAAGCGCTGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTTTC
*
57191879 TAAGCGCCGCTAAAGAACATGATCTTTAGGGGCGTTTTTTT-
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
*
57191920 TAAGCGCCGCTAAAGAACATGATCTTTAGGGGCGTTTTTTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
* * *
57191962 TAAGCGCCTCTAAAGAACATGATCTTTAGTGGCGTTTCTTTATG
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTT-TTT-TC
*
57192006 TAAGCGCCGCAAAAG
1 TAAGCGCCGCTAAAG
57192021 TTAGCGACAT
Statistics
Matches: 236, Mismatches: 25, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
41 72 0.31
42 83 0.35
43 66 0.28
44 15 0.06
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (42 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
Found at i:57192877 original size:39 final size:40
Alignment explanation
Indices: 57192769--57192877 Score: 150
Period size: 40 Copynumber: 2.8 Consensus size: 40
57192759 CGTCTGGAAA
*
57192769 AAAACGCCGCTAAAAATCAAGCATTAGCGGCGCTTTACAC
1 AAAACGCCGCTAAAAATCAAGCATTAGCGCCGCTTTACAC
* **
57192809 AAAACGCCGCTAAAGATCAAGCATTAGCGCCGCATTTA-GG
1 AAAACGCCGCTAAAAATCAAGCATTAGCGCCGC-TTTACAC
*
57192849 AAAGCGCCGCTAAAAAT-AAGCATTAGCGC
1 AAAACGCCGCTAAAAATCAAGCATTAGCGC
57192878 AAAAAAACCT
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
39 12 0.19
40 46 0.74
41 4 0.06
ACGTcount: A:0.38, C:0.26, G:0.20, T:0.17
Consensus pattern (40 bp):
AAAACGCCGCTAAAAATCAAGCATTAGCGCCGCTTTACAC
Found at i:57192978 original size:41 final size:40
Alignment explanation
Indices: 57192916--57193073 Score: 199
Period size: 41 Copynumber: 3.9 Consensus size: 40
57192906 TTTTGACCTA
* *
57192916 TCAGGTCTTTAGCGGCGTTTTTAAAAAAGTGCCGCTAATGC
1 TCAGATCTTTAGCGGCGTTTTT-AAAAAGCGCCGCTAATGC
* *
57192957 TCAGATCTTTAGCGGCGTTTTTGAAAAAGCACTGCTAATGC
1 TCAGATCTTTAGCGGCGTTTTT-AAAAAGCGCCGCTAATGC
* *
57192998 TCAGATCTTTACCGGCGCTTTTTCAAAAGCGCCGCTAATGC
1 TCAGATCTTTAGCGGCG-TTTTTAAAAAGCGCCGCTAATGC
* * *
57193039 TTAGAGCTTTAGCGGCGTTTTTGAGAAAGCGCCGC
1 TCAGATCTTTAGCGGCGTTTTT-AAAAAGCGCCGC
57193074 AAAAATATTT
Statistics
Matches: 101, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
40 5 0.05
41 91 0.90
42 5 0.05
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.30
Consensus pattern (40 bp):
TCAGATCTTTAGCGGCGTTTTTAAAAAGCGCCGCTAATGC
Found at i:57193058 original size:82 final size:82
Alignment explanation
Indices: 57192916--57193068 Score: 227
Period size: 82 Copynumber: 1.9 Consensus size: 82
57192906 TTTTGACCTA
* * * *
57192916 TCAGGTCTTTAGCGGCGTTTTTAAAAAAGTGCCGCTAATGCTCAGATCTTTAGCGGCGTTTTTGA
1 TCAGATCTTTACCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCAGAGCTTTAGCGGCGTTTTTGA
57192981 AAAAGCACTGCTAATGC
66 AAAAGCACTGCTAATGC
* *
57192998 TCAGATCTTTACCGGCGCTTTTT-CAAAAGCGCCGCTAATGCTTAGAGCTTTAGCGGCGTTTTTG
1 TCAGATCTTTACCGGCG-TTTTTAAAAAAGCGCCGCTAATGCTCAGAGCTTTAGCGGCGTTTTTG
*
57193062 AGAAAGC
65 AAAAAGC
57193069 GCCGCAAAAA
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
82 58 0.92
83 5 0.08
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.31
Consensus pattern (82 bp):
TCAGATCTTTACCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCAGAGCTTTAGCGGCGTTTTTGA
AAAAGCACTGCTAATGC
Found at i:57193212 original size:26 final size:26
Alignment explanation
Indices: 57193167--57193217 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
57193157 TAAATGGATA
** *
57193167 AATTTGAAATAATGACACATAGAAAT
1 AATTTGAAATAAAAAAACATAGAAAT
57193193 AATTTGAAATAAAAAAACATAGAAA
1 AATTTGAAATAAAAAAACATAGAAA
57193218 AATATTTGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.61, C:0.06, G:0.10, T:0.24
Consensus pattern (26 bp):
AATTTGAAATAAAAAAACATAGAAAT
Found at i:57193698 original size:70 final size:69
Alignment explanation
Indices: 57193568--57193700 Score: 169
Period size: 70 Copynumber: 1.9 Consensus size: 69
57193558 AGGCTTTAGG
* * * *
57193568 GTTTAGATTAATTAGTGTGTTTTAATTTTTTATGAAATAAGGTTCAGGGGTTAGGGGTTAGGGAT
1 GTTTAGATTAATTAATATGTTTTAATTTTATATGAAATAAGGTTCAGGGGTTAGGAGTTAGGGAT
57193633 TCGA
66 TCGA
* * * *
57193637 GTTTAGATTAATTAATAT-TTTTGAATTTATATATTAGATAAGGTTTAGGGGTTAGTAGTTAGGG
1 GTTTAGATTAATTAATATGTTTT-AATTT-TATATGAAATAAGGTTCAGGGGTTAGGAGTTAGGG
57193701 GTTAGGGGTT
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
68 4 0.07
69 21 0.39
70 29 0.54
ACGTcount: A:0.29, C:0.02, G:0.26, T:0.44
Consensus pattern (69 bp):
GTTTAGATTAATTAATATGTTTTAATTTTATATGAAATAAGGTTCAGGGGTTAGGAGTTAGGGAT
TCGA
Found at i:57193719 original size:20 final size:20
Alignment explanation
Indices: 57193681--57193724 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 20
57193671 TAGATAAGGT
57193681 TTAGGGGTTAGTAGTTAGGGG
1 TTAGGGGTTAG-AGTTAGGGG
57193702 TTAGGGGTTTAG-GTTAGGGG
1 TTAGGGG-TTAGAGTTAGGGG
57193722 TTA
1 TTA
57193725 AAAGTTAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 11 0.50
21 7 0.32
22 4 0.18
ACGTcount: A:0.18, C:0.00, G:0.45, T:0.36
Consensus pattern (20 bp):
TTAGGGGTTAGAGTTAGGGG
Found at i:57193739 original size:34 final size:34
Alignment explanation
Indices: 57193681--57193748 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 34
57193671 TAGATAAGGT
** * * *
57193681 TTAGGGGTTAGTAGTTAGGGGTTAGGGGTTTAGG
1 TTAGGGGTTAAAAGTTAAGAGTTAGGGATTTAGG
*
57193715 TTAGGGGTTAAAAGTTAAGAGTTAGTGATTTAGG
1 TTAGGGGTTAAAAGTTAAGAGTTAGGGATTTAGG
57193749 GTTTAGAAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.25, C:0.00, G:0.40, T:0.35
Consensus pattern (34 bp):
TTAGGGGTTAAAAGTTAAGAGTTAGGGATTTAGG
Found at i:57193892 original size:21 final size:20
Alignment explanation
Indices: 57193847--57193893 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 20
57193837 GTAAAAGAGG
*
57193847 GGTTAGAGGTTAGGAATTAAG
1 GGTTAGAGGTTAGG-ATTAAA
57193868 GGTTAGAGGTTAAAGG-TTAAA
1 GGTTAGAGGTT--AGGATTAAA
57193889 GGTTA
1 GGTTA
57193894 ATTGCTTGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
21 20 0.87
23 3 0.13
ACGTcount: A:0.34, C:0.00, G:0.36, T:0.30
Consensus pattern (20 bp):
GGTTAGAGGTTAGGATTAAA
Found at i:57199078 original size:42 final size:42
Alignment explanation
Indices: 57199019--57199217 Score: 177
Period size: 43 Copynumber: 4.7 Consensus size: 42
57199009 AAATATTTTT
* *
57199019 TAAAGGTTATGTTTTTAGCGGCGTTT-TTGCTAGAAGCGTCGC
1 TAAAGGTTATGTCTTTAGCGGCGTTTGTGGCTA-AAGCGTCGC
*
57199061 TAAAGGTTTAT-TCTTTAGCGGCGTTTGTGGCTAAAGTGTCGC
1 TAAAGG-TTATGTCTTTAGCGGCGTTTGTGGCTAAAGCGTCGC
* * * * * ** *
57199103 TAAAGCTCACGACCTTTAGCGACGTTTGTATCTAAAGCGCCGC
1 TAAAGGTTATG-TCTTTAGCGGCGTTTGTGGCTAAAGCGTCGC
* * * * *
57199146 TAAAGATCACGATCTTTAGCGGCGTTTGTGGCTGAAGCGCCGC
1 TAAAGGTTATG-TCTTTAGCGGCGTTTGTGGCTAAAGCGTCGC
* *
57199189 TAAAGGTCACGATCTTTAGCGGCGTTTGT
1 TAAAGGTTATG-TCTTTAGCGGCGTTTGT
57199218 TATAAAAGCG
Statistics
Matches: 134, Mismatches: 19, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
41 2 0.01
42 33 0.25
43 99 0.74
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.32
Consensus pattern (42 bp):
TAAAGGTTATGTCTTTAGCGGCGTTTGTGGCTAAAGCGTCGC
Found at i:57199129 original size:43 final size:43
Alignment explanation
Indices: 57199072--57199236 Score: 215
Period size: 43 Copynumber: 3.8 Consensus size: 43
57199062 AAAGGTTTAT
* * *
57199072 TCTTTAGCGGCGTTTGTGGCTAAAGTGTCGCTAAAGCTCACGA
1 TCTTTAGCGGCGTTTGTGGCTAAAGCGCCGCTAAAGATCACGA
* * **
57199115 CCTTTAGCGACGTTTGTATCTAAAGCGCCGCTAAAGATCACGA
1 TCTTTAGCGGCGTTTGTGGCTAAAGCGCCGCTAAAGATCACGA
* *
57199158 TCTTTAGCGGCGTTTGTGGCTGAAGCGCCGCTAAAGGTCACGA
1 TCTTTAGCGGCGTTTGTGGCTAAAGCGCCGCTAAAGATCACGA
**
57199201 TCTTTAGCGGCGTTTGT-TATAAAAGCGCCGCTAAAG
1 TCTTTAGCGGCGTTTGTGGCT-AAAGCGCCGCTAAAG
57199237 GTCCGCTAAA
Statistics
Matches: 105, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
42 1 0.01
43 104 0.99
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (43 bp):
TCTTTAGCGGCGTTTGTGGCTAAAGCGCCGCTAAAGATCACGA
Found at i:57199190 original size:86 final size:86
Alignment explanation
Indices: 57199072--57199236 Score: 251
Period size: 86 Copynumber: 1.9 Consensus size: 86
57199062 AAAGGTTTAT
* * *
57199072 TCTTTAGCGGCGTTTGTGGCTAAAGTGTCGCTAAAGCTCACGACCTTTAGCGACGTTTG-TATCT
1 TCTTTAGCGGCGTTTGTGGCTAAAGCGCCGCTAAAGCTCACGACCTTTAGCGACGTTTGTTAT-A
57199136 AAAGCGCCGCTAAAGATCACGA
65 AAAGCGCCGCTAAAGATCACGA
* * * *
57199158 TCTTTAGCGGCGTTTGTGGCTGAAGCGCCGCTAAAGGTCACGATCTTTAGCGGCGTTTGTTATAA
1 TCTTTAGCGGCGTTTGTGGCTAAAGCGCCGCTAAAGCTCACGACCTTTAGCGACGTTTGTTATAA
57199223 AAGCGCCGCTAAAG
66 AAGCGCCGCTAAAG
57199237 GTCCGCTAAA
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
86 68 0.96
87 3 0.04
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (86 bp):
TCTTTAGCGGCGTTTGTGGCTAAAGCGCCGCTAAAGCTCACGACCTTTAGCGACGTTTGTTATAA
AAGCGCCGCTAAAGATCACGA
Found at i:57199267 original size:54 final size:54
Alignment explanation
Indices: 57199185--57199290 Score: 162
Period size: 54 Copynumber: 2.0 Consensus size: 54
57199175 GGCTGAAGCG
*
57199185 CCGCTAAAGGTCACGATCTTTAGCGGCGTTTGTT-ATA-AAAGCGCCGCTAAAGGT
1 CCGCTAAAGGTCACGATCTTTAGCGGCGTTT-TTCACATAAA-CGCCGCTAAAGGT
*
57199239 CCGCTAAAGGTCATGATCTTTAGCGGCGTTTTTCACATAAACGCCGCTAAAG
1 CCGCTAAAGGTCACGATCTTTAGCGGCGTTTTTCACATAAACGCCGCTAAAG
57199291 TTAGCGGCGT
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
53 2 0.04
54 43 0.90
55 3 0.06
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (54 bp):
CCGCTAAAGGTCACGATCTTTAGCGGCGTTTTTCACATAAACGCCGCTAAAGGT
Found at i:57199328 original size:12 final size:12
Alignment explanation
Indices: 57199309--57199341 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
57199299 GTTGTCAATA
57199309 GCGGCGCTTTTT
1 GCGGCGCTTTTT
*
57199321 GTGGCGCTTTTT
1 GCGGCGCTTTTT
57199333 GCGGCGCTT
1 GCGGCGCTT
57199342 GTAAAAGCGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.00, C:0.24, G:0.36, T:0.39
Consensus pattern (12 bp):
GCGGCGCTTTTT
Found at i:57201425 original size:47 final size:50
Alignment explanation
Indices: 57201341--57201443 Score: 124
Period size: 47 Copynumber: 2.1 Consensus size: 50
57201331 TGCACATCGT
*
57201341 CACATATCACACACTGAAGCCATAGCCCAGCAGTGGTCTTTCAC-GAAAA
1 CACATATCACACACTGAAGCCATAGCCCAGCAGTGGTCTTACACGGAAAA
* * * *
57201390 CACATATCACAC-C-GATGCCATATCCTAGACA-TGGTCTTACACGGAAAT
1 CACATATCACACACTGAAGCCATAGCCCAG-CAGTGGTCTTACACGGAAAA
57201438 CACATA
1 CACATA
57201444 ATCATATTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
47 22 0.47
48 13 0.28
49 12 0.26
ACGTcount: A:0.35, C:0.30, G:0.15, T:0.20
Consensus pattern (50 bp):
CACATATCACACACTGAAGCCATAGCCCAGCAGTGGTCTTACACGGAAAA
Found at i:57206369 original size:66 final size:65
Alignment explanation
Indices: 57206291--57206475 Score: 237
Period size: 66 Copynumber: 2.8 Consensus size: 65
57206281 GTCAGTAGGC
** *
57206291 TCACATGACCTAGC-CTATGGGCGTGTGGCTTGGTTGTGTGTCCCAAGTCAGTATACCCACCATT
1 TCACATG-CCTAGCAC-ATGGGCGTGTGGCTTGGCCGTGTGTCCCAAGTCAGTATACCCAACATT
*
57206355 TT
64 GT
* * * *
57206357 TCACATAGCCTAGCACACGGGCATGTGGCTTGGCCGTGTGTCACAAGTCAGTATACTCAACATTG
1 TCACAT-GCCTAGCACATGGGCGTGTGGCTTGGCCGTGTGTCCCAAGTCAGTATACCCAACATTG
57206422 T
65 T
* *
57206423 TCACACGGCCTAGCACATGGGCGTGTGGCTTGGCCGTGTGACCCAAGTCAGTA
1 TCACA-TGCCTAGCACATGGGCGTGTGGCTTGGCCGTGTGTCCCAAGTCAGTA
57206476 AGCTCACTAG
Statistics
Matches: 103, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
66 101 0.98
67 2 0.02
ACGTcount: A:0.21, C:0.26, G:0.26, T:0.26
Consensus pattern (65 bp):
TCACATGCCTAGCACATGGGCGTGTGGCTTGGCCGTGTGTCCCAAGTCAGTATACCCAACATTGT
Found at i:57217953 original size:34 final size:33
Alignment explanation
Indices: 57217850--57217962 Score: 118
Period size: 34 Copynumber: 3.4 Consensus size: 33
57217840 GGTTTTATTT
* *
57217850 AATTAGGGTTTAAAAATTTTAAAAAATAAATTA
1 AATTAGGGTTTAGAGATTTTAAAAAATAAATTA
* * * *
57217883 AATTAGGTTTTAGGGGTTTTAAATAAATAAACTA
1 AATTAGGGTTTAGAGATTTTAAA-AAATAAATTA
* * **
57217917 AATTAGGATTTAGAGTTTTTAATAAAATTTATTA
1 AATTAGGGTTTAGAGATTTTAA-AAAATAAATTA
57217951 AATTAGGGTTTA
1 AATTAGGGTTTA
57217963 TTTTTTAAAA
Statistics
Matches: 65, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
33 18 0.28
34 46 0.71
35 1 0.02
ACGTcount: A:0.44, C:0.01, G:0.14, T:0.41
Consensus pattern (33 bp):
AATTAGGGTTTAGAGATTTTAAAAAATAAATTA
Found at i:57219050 original size:16 final size:17
Alignment explanation
Indices: 57219029--57219063 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
57219019 TAATGTATAG
57219029 GAAAATT-ATTAATTGA
1 GAAAATTAATTAATTGA
57219045 GAAAATTAGATTAATTGA
1 GAAAATTA-ATTAATTGA
57219063 G
1 G
57219064 GGGTTAATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
18 10 0.59
ACGTcount: A:0.49, C:0.00, G:0.17, T:0.34
Consensus pattern (17 bp):
GAAAATTAATTAATTGA
Done.