Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold279
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: 1516008
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32
File 4 of 10
Found at i:561820 original size:91 final size:91
Alignment explanation
Indices: 561665--561861 Score: 385
Period size: 91 Copynumber: 2.2 Consensus size: 91
561655 TAAAAAACAA
561665 AATGTATCGATACATGTACTGTTCATATCGATACAAATTGTGAAAATTTAAGATTTTCGATCGTT
1 AATGTATCGATACATGTACTGTTCATATCGATACAAATTGTGAAAATTTAAGATTTTCGATCGTT
561730 AGGACCTTGTATCGATACATTTCTTG
66 AGGACCTTGTATCGATACATTTCTTG
*
561756 AATGTATCGATACATGTACTGTTCATATCGATACAAATTGTGGAAATTTAAGATTTTCGATCGTT
1 AATGTATCGATACATGTACTGTTCATATCGATACAAATTGTGAAAATTTAAGATTTTCGATCGTT
561821 AGGACCTTGTATCGATACATTTCTTG
66 AGGACCTTGTATCGATACATTTCTTG
561847 AATGTATCGATACAT
1 AATGTATCGATACAT
561862 CTGGACAAAA
Statistics
Matches: 105, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
91 105 1.00
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.38
Consensus pattern (91 bp):
AATGTATCGATACATGTACTGTTCATATCGATACAAATTGTGAAAATTTAAGATTTTCGATCGTT
AGGACCTTGTATCGATACATTTCTTG
Found at i:565103 original size:2 final size:2
Alignment explanation
Indices: 565096--565121 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
565086 GTTTATCATG
565096 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
565122 TATTTTTTGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:566283 original size:21 final size:21
Alignment explanation
Indices: 566242--566283 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
566232 TGCCAAAATT
* *
566242 TATCGATACATGCCCTTAATG
1 TATCGATACAGGCCCTCAATG
566263 TATCGATACAAGGCCC-CAATG
1 TATCGATAC-AGGCCCTCAATG
566284 GTCAAAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (21 bp):
TATCGATACAGGCCCTCAATG
Found at i:566343 original size:13 final size:13
Alignment explanation
Indices: 566327--566356 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
566317 ATACATTGTT
*
566327 CATTGTATCGATA
1 CATTGAATCGATA
566340 CATTGAATCGATA
1 CATTGAATCGATA
566353 CATT
1 CATT
566357 CTGGGTTTAC
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:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (13 bp):
CATTGAATCGATA
Found at i:566397 original size:20 final size:20
Alignment explanation
Indices: 566372--566435 Score: 94
Period size: 20 Copynumber: 3.2 Consensus size: 20
566362 TTTACCCAGA
*
566372 TGTATCGATACATT-TTGCAT
1 TGTATCGATACATTGCT-CAT
566392 TGTATCGATACATTGCTCAT
1 TGTATCGATACATTGCTCAT
*
566412 TGTATCGATACAGTGCTCAT
1 TGTATCGATACATTGCTCAT
566432 TGTA
1 TGTA
566436 AAATGTATCG
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
20 40 0.98
21 1 0.02
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.41
Consensus pattern (20 bp):
TGTATCGATACATTGCTCAT
Found at i:568833 original size:51 final size:50
Alignment explanation
Indices: 568778--568925 Score: 172
Period size: 51 Copynumber: 2.9 Consensus size: 50
568768 TCCCGGTTCC
**
568778 ATTTCCAAAACATCAATTTTTCTTAATCAGGGATACTCCAACTCTGATTTT
1 ATTTCCAAAACATCAATTTTTCACAATC-GGGATACTCCAACTCTGATTTT
* * * * * *
568829 ATTTCTAAAGCATCGATTTTCCGCAATCGGAGATACTCCAACTCCGATTTT
1 ATTTCCAAAACATCAATTTTTCACAATCGG-GATACTCCAACTCTGATTTT
*
568880 ATTTCCAAAACA-CTAATTTTTCACAATTGGGGATACTCCAACTCTG
1 ATTTCCAAAACATC-AATTTTTCACAA-TCGGGATACTCCAACTCTG
568926 TTATTTCATC
Statistics
Matches: 80, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
50 3 0.04
51 74 0.93
52 3 0.04
ACGTcount: A:0.30, C:0.24, G:0.11, T:0.35
Consensus pattern (50 bp):
ATTTCCAAAACATCAATTTTTCACAATCGGGATACTCCAACTCTGATTTT
Found at i:568941 original size:28 final size:27
Alignment explanation
Indices: 568908--568978 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 27
568898 TTTCACAATT
568908 GGGGATACTCCAA-CTCTGTTA-TTTCA
1 GGGGATACTCCAACCTC-GTTATTTTCA
568934 TCGGGGATACTCCAACCTCGTTATTTTCGA
1 --GGGGATACTCCAACCTCGTTATTTTC-A
568964 GGGGATACTCCAACC
1 GGGGATACTCCAACC
568979 CCGATTTCAT
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
28 32 0.80
29 7 0.17
30 1 0.03
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.30
Consensus pattern (27 bp):
GGGGATACTCCAACCTCGTTATTTTCA
Found at i:569048 original size:106 final size:106
Alignment explanation
Indices: 568860--569056 Score: 263
Period size: 106 Copynumber: 1.8 Consensus size: 106
568850 CGCAATCGGA
* * * ** *
568860 GATACTCCAACTCCGATTTTATTTCCAAAACACTAATTTTTCACAATTGGGGATACTCCAACTCT
1 GATACTCCAACCCCGATTTCATTTCCAAAACACCAATTTTTCACAATCAGGGATACTCCAACCCT
568925 GTTATTTCATCGGGGATACTCCAACCTCGTTATTTTCGAGGG
66 GTTATTTCATC-GGGATACTCCAACCTCGTTATTTTCGAGGG
* * * *
568967 GATACTCCAACCCCGATTTCATTTTCAAAATACCGATTTTT-ATAATCAGGGATACTCCAACCCT
1 GATACTCCAACCCCGATTTCATTTCCAAAACACCAATTTTTCACAATCAGGGATACTCCAACCCT
569031 GTTATTTCCGAT-GGGATACTCCAACC
66 GTTATTT-C-ATCGGGATACTCCAACC
569057 CCAATTTTAT
Statistics
Matches: 78, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
106 40 0.51
107 36 0.46
108 2 0.03
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (106 bp):
GATACTCCAACCCCGATTTCATTTCCAAAACACCAATTTTTCACAATCAGGGATACTCCAACCCT
GTTATTTCATCGGGATACTCCAACCTCGTTATTTTCGAGGG
Found at i:569084 original size:78 final size:79
Alignment explanation
Indices: 568937--569104 Score: 207
Period size: 78 Copynumber: 2.1 Consensus size: 79
568927 TATTTCATCG
* * * *
568937 GGGATACTCCAACCTCGTTATTTTCGAGGGGATACTCCAACCCCGATTTCATTTTCAAAATACCG
1 GGGATACTCCAACCTCGTTATTTCCGAGGGGATACTCCAACCCCAATTTCATTTTCAAAACACCA
*
569002 ATTTT-TATAATCA
66 ATTTTCCATAATCA
* * **
569015 GGGATACTCCAACC-CTGTTATTTCCGATGGGATACTCCAACCCCAATTTTA-TTTCTGGAACAC
1 GGGATACTCCAACCTC-GTTATTTCCGAGGGGATACTCCAACCCCAATTTCATTTTC-AAAACAC
*
569078 CAATTTTCCATAATCG
64 CAATTTTCCATAATCA
569094 GGGATACTCCA
1 GGGATACTCCA
569105 GCCCCGTTGT
Statistics
Matches: 77, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
77 5 0.06
78 55 0.71
79 17 0.22
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.32
Consensus pattern (79 bp):
GGGATACTCCAACCTCGTTATTTCCGAGGGGATACTCCAACCCCAATTTCATTTTCAAAACACCA
ATTTTCCATAATCA
Found at i:573444 original size:15 final size:16
Alignment explanation
Indices: 573415--573450 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
573405 TTAATAAGAA
573415 TATTT-ATTC-ATTTT
1 TATTTAATTCAATTTT
573429 TATTTAATTCAATTTT
1 TATTTAATTCAATTTT
573445 TATTTA
1 TATTTA
573451 CTTTGTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 5 0.25
15 4 0.20
16 11 0.55
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.67
Consensus pattern (16 bp):
TATTTAATTCAATTTT
Found at i:574547 original size:15 final size:15
Alignment explanation
Indices: 574523--574561 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
574513 TTTCACCCTA
*
574523 TTTC-TTTCTTTTTC
1 TTTCTTTTCTTTCTC
574537 TTTCTTTTCTTTCTC
1 TTTCTTTTCTTTCTC
*
574552 TTTTTTTTCT
1 TTTCTTTTCT
574562 CTCTTTTTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 4 0.18
15 18 0.82
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTCTTTTCTTTCTC
Found at i:574566 original size:19 final size:19
Alignment explanation
Indices: 574525--574567 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
574515 TCACCCTATT
*
574525 TCTTTCTTTTTCTTTCTTT
1 TCTTTCTTTTTCTTTCTTC
*
574544 TCTTTCTCTTTTTTTTC-TC
1 TCTTTCT-TTTTCTTTCTTC
574563 TCTTT
1 TCTTT
574568 TTTCATCTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (19 bp):
TCTTTCTTTTTCTTTCTTC
Found at i:575166 original size:95 final size:95
Alignment explanation
Indices: 575061--575246 Score: 221
Period size: 95 Copynumber: 2.0 Consensus size: 95
575051 CCAAAATTGA
* * * * * ** * *
575061 TTTAATATGAATTTAATGACAATATTAGATGAATTTTAAAAATTTTAAATCGAGAAAAAT-CCCC
1 TTTAATATGAAATAAATAACAACATTAGATAAATTTTAAAAATTAAAAACCAAGAAAAATGCCCC
** * *
575125 TTGAAAACATTTACAGAGTAGAAAACTAAAT
66 -CAAAAAAATTTACAAAGTAGAAAACTAAAT
* *
575156 TTTAATATGAAATAAATAATAACATTTGATAAATTTTAAAAATTAAAAACCAAGAAAAATGCCCC
1 TTTAATATGAAATAAATAACAACATTAGATAAATTTTAAAAATTAAAAACCAAGAAAAATGCCCC
575221 CAAAAAAATTTACAAAGTAGAAAACT
66 CAAAAAAATTTACAAAGTAGAAAACT
575247 TTATATTTCG
Statistics
Matches: 75, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
95 71 0.95
96 4 0.05
ACGTcount: A:0.52, C:0.10, G:0.09, T:0.30
Consensus pattern (95 bp):
TTTAATATGAAATAAATAACAACATTAGATAAATTTTAAAAATTAAAAACCAAGAAAAATGCCCC
CAAAAAAATTTACAAAGTAGAAAACTAAAT
Found at i:575350 original size:165 final size:165
Alignment explanation
Indices: 575156--575495 Score: 495
Period size: 166 Copynumber: 2.0 Consensus size: 165
575146 AAAACTAAAT
575156 TTTAATATGAAATAAATAATAACATTTGATAAATTTT-AAAAATTAAAAACCAAGAAAAATGCCC
1 TTTAATATGAAATAAATAATAACATTTGATAAATTTTAAAAAATTAAAAACCAAGAAAAATGCCC
** *
575220 CCAAAAAAATTTACAAAGTAGAAAACTTTATATTTCGAG-AATAGGAAAATTTCAAGGAAAAAAT
66 CCAAAAAAATTTACAAAGTAGAAAACTCCATATTTCG-GTAATAGAAAAATTTCAAGGAAAAAAT
* *
575284 GAAAAACTTATGAAAATAAATGAAATTTGAAAAGTGA
130 AAAAAACTCATGAAAATAAAT-AAATTTGAAAAGTGA
* * * * * *
575321 TTTACTATGAAATAAATAGTAATATTTGATGAATTTTAAAAAATTGAAAACCAAGAAAAATTCCC
1 TTTAATATGAAATAAATAATAACATTTGATAAATTTTAAAAAATTAAAAACCAAGAAAAATGCCC
* *
575386 TCAAAAAAATTTACAGAGTAGAAAACTCCATATTTCGGTAATAGAAAAATTTCAAGGAAAAAATA
66 CCAAAAAAATTTACAAAGTAGAAAACTCCATATTTCGGTAATAGAAAAATTTCAAGGAAAAAATA
* *
575451 AAAAACTCATGAAAATAAATAAATTTTTGAAAATTAA
131 AAAAACTCATGAAAATAAATAAA--TTTGAAAAGTGA
575488 TTTAATAT
1 TTTAATAT
575496 AATTGAATTT
Statistics
Matches: 155, Mismatches: 16, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
165 37 0.24
166 101 0.65
167 17 0.11
ACGTcount: A:0.53, C:0.08, G:0.10, T:0.29
Consensus pattern (165 bp):
TTTAATATGAAATAAATAATAACATTTGATAAATTTTAAAAAATTAAAAACCAAGAAAAATGCCC
CCAAAAAAATTTACAAAGTAGAAAACTCCATATTTCGGTAATAGAAAAATTTCAAGGAAAAAATA
AAAAACTCATGAAAATAAATAAATTTGAAAAGTGA
Found at i:577000 original size:44 final size:43
Alignment explanation
Indices: 576917--577025 Score: 114
Period size: 44 Copynumber: 2.5 Consensus size: 43
576907 ATCTGACCAA
* * *
576917 GGTGGTAATCATATGTCAGACTGGAAGGAGAGGAGTTTGACTAG
1 GGTGGTAATCATATGTCA-AATGAAAGGAGAGGAGTTTGACAAG
* *
576961 GGTGGTAATCATATGTCAAATAGAAAGGTG-GTAGATTTGACAAG
1 GGTGGTAATCATATGTCAAAT-GAAAGGAGAGGAG-TTTGACAAG
*
577005 GGTGGTAA-CTGTATGTCAAAT
1 GGTGGTAATC-ATATGTCAAAT
577026 CAGACTAAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
43 6 0.11
44 50 0.89
ACGTcount: A:0.32, C:0.08, G:0.32, T:0.28
Consensus pattern (43 bp):
GGTGGTAATCATATGTCAAATGAAAGGAGAGGAGTTTGACAAG
Found at i:577023 original size:132 final size:130
Alignment explanation
Indices: 576824--577171 Score: 333
Period size: 132 Copynumber: 2.6 Consensus size: 130
576814 AAATCATTTG
* * * * ** *
576824 ACCAGGGTGGCAACCATACGTCAAACATG-AAAGAGGAAGATTACACTAGGGTGGTAA-TTATGC
1 ACCAGGGTGGTAACCATATGTCAAATA-GAAAAGAGGCAGATTTGACAAGGGTGGTAACTTAT--
* * *
576887 GTCAAATCAAAATGAAAAGAATCTGACCAAGGTGGTAATCATATGTCAGACTGGAAGGAGAGGAG
63 GTCAAATCAAAATGAAAAGAATCTGACCAAGGTGGTAACCATATGTCAGACCGAAAGGAGAGGAG
*
576952 TTTG
128 -TTA
* * * * *
576956 ACTAGGGTGGTAATCATATGTCAAATAGAAAGGTGGTAGATTTGACAAGGGTGGTAACTGTATGT
1 ACCAGGGTGGTAACCATATGTCAAATAGAAAAGAGGCAGATTTGACAAGGGTGGTAACT-TATGT
* * * * * **
577021 CAAATCAGACT-AAAATGAATCTGGCTAGGGTGGTAACCATATGTCAGACCGAAATTAGAGGAGT
65 CAAATCAAAATGAAAA-GAATCTGACCAAGGTGGTAACCATATGTCAGACCGAAAGGAGAGGAGT
577085 TA
129 TA
* * * ** **
577087 ACCAGGGTGGTAACCATATGTCAAATAGAAAAGAGGCAGATTTTACCAGGGAGGTAACCACACAT
1 ACCAGGGTGGTAACCATATGTCAAATAGAAAAGAGGCAGATTTGACAAGGGTGGTAA-CTTATGT
*
577152 CAAATCAAAATGAAAGGAAT
65 CAAATCAAAATGAAAAGAAT
577172 TTAACTACGA
Statistics
Matches: 173, Mismatches: 37, Indels: 13
0.78 0.17 0.06
Matches are distributed among these distances:
131 71 0.41
132 98 0.57
133 1 0.01
134 3 0.02
ACGTcount: A:0.38, C:0.14, G:0.26, T:0.22
Consensus pattern (130 bp):
ACCAGGGTGGTAACCATATGTCAAATAGAAAAGAGGCAGATTTGACAAGGGTGGTAACTTATGTC
AAATCAAAATGAAAAGAATCTGACCAAGGTGGTAACCATATGTCAGACCGAAAGGAGAGGAGTTA
Found at i:577156 original size:131 final size:132
Alignment explanation
Indices: 576917--577158 Score: 306
Period size: 131 Copynumber: 1.8 Consensus size: 132
576907 ATCTGACCAA
* * * * * *
576917 GGTGGTAATCATATGTCAGACTGGAAGGAGAGGAGTTTGACTAGGGTGGTAATCATATGTCAAAT
1 GGTGGTAACCATATGTCAGACCGAAAGGAGAGGAGTTTAACCAGGGTGGTAACCATATGTCAAAT
* * * * *** **
576982 AGAAAGGTGGTAGATTTGACAAGGGTGGTAACTGTATGTCAAATCAGACTAAAATGAATCTGGCT
66 AGAAAAGAGGCAGATTTGACAAGGGAGGTAACCACACATCAAATCAGACTAAAATGAATCTGGCT
577047 AG
131 AG
**
577049 GGTGGTAACCATATGTCAGACCGAAATTAGAGGAG-TTAACCAGGGTGGTAACCATATGTCAAAT
1 GGTGGTAACCATATGTCAGACCGAAAGGAGAGGAGTTTAACCAGGGTGGTAACCATATGTCAAAT
* *
577113 AGAAAAGAGGCAGATTTTACCAGGGAGGTAACCACACATCAAATCA
66 AGAAAAGAGGCAGATTTGACAAGGGAGGTAACCACACATCAAATCA
577159 AAATGAAAGG
Statistics
Matches: 91, Mismatches: 19, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
131 61 0.67
132 30 0.33
ACGTcount: A:0.36, C:0.13, G:0.28, T:0.24
Consensus pattern (132 bp):
GGTGGTAACCATATGTCAGACCGAAAGGAGAGGAGTTTAACCAGGGTGGTAACCATATGTCAAAT
AGAAAAGAGGCAGATTTGACAAGGGAGGTAACCACACATCAAATCAGACTAAAATGAATCTGGCT
AG
Found at i:577307 original size:44 final size:44
Alignment explanation
Indices: 577245--577343 Score: 110
Period size: 44 Copynumber: 2.2 Consensus size: 44
577235 AAGAAAGTAG
* * *
577245 ATTTAACCAAGGTAGTAACCATACATCAAATC-AGAATGAAATGA
1 ATTTGACCAGGGTAGTAACCATACATCAAATCGA-AATGAAAGGA
* * * *
577289 ATTTGACCAGGGTGGTAACCATACGTCAGATCGAAATGAGAGGA
1 ATTTGACCAGGGTAGTAACCATACATCAAATCGAAATGAAAGGA
*
577333 GTTTGACCAGG
1 ATTTGACCAGG
577344 TCTCAACACC
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
44 45 0.98
45 1 0.02
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.22
Consensus pattern (44 bp):
ATTTGACCAGGGTAGTAACCATACATCAAATCGAAATGAAAGGA
Found at i:577818 original size:94 final size:91
Alignment explanation
Indices: 577606--577915 Score: 244
Period size: 89 Copynumber: 3.4 Consensus size: 91
577596 GTCATCTAGC
* * * * * *
577606 GGTTGGACGAAGAGGATAGGAAT-GGAATGTAT--GGTTGGGATGTCCCTGTCACTAGGAAATTC
1 GGTTGGATGAAGGGGATATGAATGGGAATGT-TGGGGTTGGGATGTCCTTG-CCCTAGGAAATTA
* * *
577668 GGGTTT-TGATGCATCAGTACCATTTAGT
64 GGCTTTGTGATGCATCAATACCACTT-GT
* *
577696 GGTTAAGGA--AAAGGGATATGAATAGGAATGTGTGGGGTTGGGATGTCCTTGCCCCTAGGAAAT
1 GGTT--GGATGAAGGGGATATGAATGGGAATGT-TGGGGTTGGGATGTCCTTG-CCCTAGGAAAT
*
577759 TTGGCTTTGTGATGCATCAATACCACCTTGT
62 TAGGCTTTGTGATGCATCAATACCA-CTTGT
* * * * ** *
577790 GGTTGGATGAAGGGGATACGACTGGGAATGTTTGGGCT---A-CACCTTGCCTTATGGAAATTAG
1 GGTTGGATGAAGGGGATATGAATGGGAATGTTGGGGTTGGGATGTCCTTGCCCTA-GGAAATTAG
*
577851 GCTTTGTGATGCATCAATACCATCTAGT
65 GCTTTGTGATGCATCAATACCA-CTTGT
* *
577879 GGTTGGAATGAAGGGGATATGATTGGAAATGTATGGG
1 GGTTGG-ATGAAGGGGATATGAATGGGAATGT-TGGG
577916 CCGCACCCTT
Statistics
Matches: 181, Mismatches: 27, Indels: 23
0.78 0.12 0.10
Matches are distributed among these distances:
88 4 0.02
89 45 0.25
90 38 0.21
91 11 0.06
92 6 0.03
93 36 0.20
94 39 0.22
95 2 0.01
ACGTcount: A:0.26, C:0.12, G:0.32, T:0.30
Consensus pattern (91 bp):
GGTTGGATGAAGGGGATATGAATGGGAATGTTGGGGTTGGGATGTCCTTGCCCTAGGAAATTAGG
CTTTGTGATGCATCAATACCACTTGT
Found at i:577869 original size:89 final size:90
Alignment explanation
Indices: 577753--577916 Score: 258
Period size: 89 Copynumber: 1.8 Consensus size: 90
577743 CTTGCCCCTA
* * *
577753 GGAAATTTGGCTTTGTGATGCATCAATACCACCTTGTGGTTGG-ATGAAGGGGATACGACTGGGA
1 GGAAATTAGGCTTTGTGATGCATCAATACCACCTAGTGGTTGGAATGAAGGGGATACGACTGGAA
*
577817 ATGTTTGGGCTACACCTTGCCTTAT
66 ATGTATGGGCTACACCTTGCCTTAT
* * *
577842 GGAAATTAGGCTTTGTGATGCATCAATACCATCTAGTGGTTGGAATGAAGGGGATATGATTGGAA
1 GGAAATTAGGCTTTGTGATGCATCAATACCACCTAGTGGTTGGAATGAAGGGGATACGACTGGAA
577907 ATGTATGGGC
66 ATGTATGGGC
577917 CGCACCCTTG
Statistics
Matches: 67, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
89 40 0.60
90 27 0.40
ACGTcount: A:0.26, C:0.13, G:0.30, T:0.30
Consensus pattern (90 bp):
GGAAATTAGGCTTTGTGATGCATCAATACCACCTAGTGGTTGGAATGAAGGGGATACGACTGGAA
ATGTATGGGCTACACCTTGCCTTAT
Found at i:577966 original size:91 final size:89
Alignment explanation
Indices: 577742--577967 Score: 218
Period size: 89 Copynumber: 2.5 Consensus size: 89
577732 GTTGGGATGT
* ** * * * * *
577742 CCTTGCCCCTAGGAAATTTGGCTTTGTGATGCATCAATACCACCTTGTGGTTGGATGAAGGGGAT
1 CCTTGCCCCAAGGAAATCAGGCTTTGTAATGCATCAACAACATCTAGTGGTTGGATGAAGGGGAT
* * *
577807 ACGACTGGGAATGTTTGGGCTACA
66 ACGACTGGAAATGTATGGGCCACA
** * * * * *
577831 CCTTGCCTTATGGAAATTAGGCTTTGTGATGCATCAATACCATCTAGTGGTTGGAATGAAGGGGA
1 CCTTGCCCCAAGGAAATCAGGCTTTGTAATGCATCAACAACATCTAGTGGTTGG-ATGAAGGGGA
* * *
577896 TATGATTGGAAATGTATGGGCCGCA
65 TACGACTGGAAATGTATGGGCCACA
* * *
577921 CCCTTGCCCCAAGGAGATCAGGTTTTGTAATGCATCTACAACATCTA
1 -CCTTGCCCCAAGGAAATCAGGCTTTGTAATGCATCAACAACATCTA
577968 AGAGTTTAGA
Statistics
Matches: 112, Mismatches: 23, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
89 47 0.42
90 29 0.26
91 36 0.32
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (89 bp):
CCTTGCCCCAAGGAAATCAGGCTTTGTAATGCATCAACAACATCTAGTGGTTGGATGAAGGGGAT
ACGACTGGAAATGTATGGGCCACA
Found at i:581090 original size:167 final size:168
Alignment explanation
Indices: 580791--581094 Score: 404
Period size: 167 Copynumber: 1.8 Consensus size: 168
580781 GTTTAGGAGG
* * * * *
580791 TTTTTTCTTAGTTTTTAAGTTTTAAAATTCATTAAATATTATTATTTAATTCATATTAAATCATT
1 TTTTTTCTCAGTTTTAAAGTTTTAAAATTCATCAAATATTATTATTTAATCCATATTAAATAATT
* * *
580856 CTTCAAAAATTCATTCATTTTCACAAATTTTTGAATTTTTTTCTTGAAATGCCATTTTTTTCAAA
66 CTTCAAAAATTCATTCATTTTCACAAATTTTTGAATTTTTTCCTTAAAATGCCATTTTTTCCAAA
580921 ATACAAAATTGTCTACTCCGTAAATGTTTTCAAAAGGA
131 ATACAAAATTGTCTACTCCGTAAATGTTTTCAAAAGGA
*
580959 TTTTTT-TCAGTTTTAAATTTTTAAAATTCATCAAATATTATTATTTAACTCCA-ATTAAATTAA
1 TTTTTTCTCAGTTTTAAAGTTTTAAAATTCATCAAATATTATTATTTAA-TCCATATTAAA-TAA
* * * *
581022 TT-TTCAAAAATTTATTCATCTTT-ATAAGTTTTTGAATTTTTTCCTTAAAAT-TC-TTCTGTTT
64 TTCTTCAAAAATTCATTCAT-TTTCACAAATTTTTGAATTTTTTCCTTAAAATGCCATT-T-TTT
581083 CCAAAATACAAA
126 CCAAAATACAAA
581095 GTTTCCTTAA
Statistics
Matches: 118, Mismatches: 13, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
165 2 0.02
166 2 0.02
167 98 0.83
168 16 0.14
ACGTcount: A:0.35, C:0.12, G:0.05, T:0.49
Consensus pattern (168 bp):
TTTTTTCTCAGTTTTAAAGTTTTAAAATTCATCAAATATTATTATTTAATCCATATTAAATAATT
CTTCAAAAATTCATTCATTTTCACAAATTTTTGAATTTTTTCCTTAAAATGCCATTTTTTCCAAA
ATACAAAATTGTCTACTCCGTAAATGTTTTCAAAAGGA
Found at i:581183 original size:22 final size:22
Alignment explanation
Indices: 581158--581229 Score: 60
Period size: 22 Copynumber: 3.2 Consensus size: 22
581148 TATAAAGTAT
581158 TATTGTTTGATTCATATTAAAA
1 TATTGTTTGATTCATATTAAAA
* *
581180 TATTTTTTAAAATT--TA-TAAAGTA
1 TATTGTTT--GATTCATATTAAA--A
581203 TTATTGTTTGATTCATATTAAAA
1 -TATTGTTTGATTCATATTAAAA
581226 TATT
1 TATT
581230 TTTTAAAATT
Statistics
Matches: 38, Mismatches: 4, Indels: 16
0.66 0.07 0.28
Matches are distributed among these distances:
21 4 0.11
22 16 0.42
23 2 0.05
24 12 0.32
25 4 0.11
ACGTcount: A:0.38, C:0.03, G:0.07, T:0.53
Consensus pattern (22 bp):
TATTGTTTGATTCATATTAAAA
Found at i:581194 original size:46 final size:46
Alignment explanation
Indices: 581137--581241 Score: 210
Period size: 46 Copynumber: 2.3 Consensus size: 46
581127 TAGTTTTTAA
581137 TTTTTAAAATTTATAAAGTATTATTGTTTGATTCATATTAAAATAT
1 TTTTTAAAATTTATAAAGTATTATTGTTTGATTCATATTAAAATAT
581183 TTTTTAAAATTTATAAAGTATTATTGTTTGATTCATATTAAAATAT
1 TTTTTAAAATTTATAAAGTATTATTGTTTGATTCATATTAAAATAT
581229 TTTTTAAAATTTA
1 TTTTTAAAATTTA
581242 ATTCATTTTC
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 59 1.00
ACGTcount: A:0.39, C:0.02, G:0.06, T:0.53
Consensus pattern (46 bp):
TTTTTAAAATTTATAAAGTATTATTGTTTGATTCATATTAAAATAT
Found at i:581486 original size:164 final size:166
Alignment explanation
Indices: 581229--581556 Score: 480
Period size: 165 Copynumber: 2.0 Consensus size: 166
581219 ATTAAAATAT
* * * *
581229 TTTTTAAAATTTAATTCATTTTCATTAGTTTTGGATTTTTTTCTTTAAAATCCCTATTTTCCCCA
1 TTTTAAAAATTTAATTCATTTTCATGAGTTTTAGATTTTTTTCTTTAAAATCCCTATTTTCCCAA
** * *
581294 AAAATTGAGTTTTCTATTCCATAAATATTTTCGAG-GGATTTTCTTTGGTCTAACATTTTTAAAA
66 AAAATCAAATTTTCTATTCCATAAATATTTTCGAGAGGATTTTCTTTGGTCTAAAATTTTTAAAA
*
581358 TGTGTCTAATAATGTCATGGAATTCCCATTAAATTG
131 TGTATCTAATAATGTCATGGAATTCCCATTAAATTG
* * * * *
581394 TTTTAAAAATTTAGTTCATTTTCATGAGTTTTAGA-TTTTTTCTTTGAAATCTCTTTTTTCCTAA
1 TTTTAAAAATTTAATTCATTTTCATGAGTTTTAGATTTTTTTCTTTAAAATCCCTATTTTCCCAA
* * *
581458 AAAATCAAATTTTTTATTCTATAAATATTTTCGGGAGGATTTTCTTTGGTCTAAAATTTTTAAAA
66 AAAATCAAATTTTCTATTCCATAAATATTTTCGAGAGGATTTTCTTTGGTCTAAAATTTTTAAAA
*
581523 TGTATCTAATAATGTCATGGAATTTCCATTAAAT
131 TGTATCTAATAATGTCATGGAATTCCCATTAAAT
581557 CATTTTTGAA
Statistics
Matches: 144, Mismatches: 18, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
164 53 0.37
165 91 0.63
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.48
Consensus pattern (166 bp):
TTTTAAAAATTTAATTCATTTTCATGAGTTTTAGATTTTTTTCTTTAAAATCCCTATTTTCCCAA
AAAATCAAATTTTCTATTCCATAAATATTTTCGAGAGGATTTTCTTTGGTCTAAAATTTTTAAAA
TGTATCTAATAATGTCATGGAATTCCCATTAAATTG
Found at i:581580 original size:71 final size:72
Alignment explanation
Indices: 581496--581643 Score: 262
Period size: 71 Copynumber: 2.1 Consensus size: 72
581486 TTTCGGGAGG
**
581496 ATTTTCTTTGGTCTAAAATTTTTAAAATGTATCTAATAATGTCATGGAATTTCCATTAAATCATT
1 ATTTTCTTTGGTCTAAAATTTTTAAAATGTATCTAATAATGTCATGGAATTTCCATTAAATCAAA
581561 TTTG-AA
66 TTTGAAA
*
581567 ATTTTCTTTGGTCTAAAATTTTTAAAATGTATCTAATCATGTCATGGAATTTCCATTAAATCAAA
1 ATTTTCTTTGGTCTAAAATTTTTAAAATGTATCTAATAATGTCATGGAATTTCCATTAAATCAAA
581632 TTTGAAA
66 TTTGAAA
581639 ATTTT
1 ATTTT
581644 ATTCATTTTC
Statistics
Matches: 73, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
71 66 0.90
72 7 0.10
ACGTcount: A:0.34, C:0.10, G:0.09, T:0.46
Consensus pattern (72 bp):
ATTTTCTTTGGTCTAAAATTTTTAAAATGTATCTAATAATGTCATGGAATTTCCATTAAATCAAA
TTTGAAA
Found at i:581771 original size:239 final size:236
Alignment explanation
Indices: 581331--581793 Score: 664
Period size: 239 Copynumber: 1.9 Consensus size: 236
581321 TTTTCGAGGG
* * **
581331 ATTTTCTTTGGTCTAACATTTTTAAAATGTGTCTAATAATGTCATGGAATTCCCATTAAATTGTT
1 ATTTTCTTTGGTCTAAAATTTTTAAAATGTATCTAATAATGTCATGGAATTCCCATTAAATAATT
* * * *
581396 TTAAAAATTTAGTTCATTTTCATGAGTTTTAGATTTTTTCTTTGAAATCTCTTTTTTCCTAAAAA
66 TGAAAAATTTAGTTCATTTTCATGAGTTTTAGATTTTTTCTTTAAAATCCCTTTTTTCCCAAAAA
* **
581461 ATCAAATTTTTTATTCTATAAATATTTTCGGGAGGATTTTCTTTGGTCTAAAATTTTTAAAATGT
131 ATCAAATTTTCTATTCTATAAATATTTTCGGGAGGATTTTCTTTGGTCTAAAATTTTTAAAATAC
*
581526 ATCTAATAATGTCATGGAATTTCCATTAAATCATTTTTGAA
196 ATCTAATAATGTCATGGAACTTCCATTAAATCATTTTTGAA
* *
581567 ATTTTCTTTGGTCTAAAATTTTTAAAATGTATCTAATCATGTCATGGAATTTCCATTAAATCAAA
1 ATTTTCTTTGGTCTAAAATTTTTAAAATGTATCTAATAATGTCATGGAATTCCCATTAAAT--AA
* *
581632 TTTGAAAATTTTA-TTCATTTTCATGAGTTTTGGATTTTTTTCTTTAAAATCCCTTTTTTTCCCA
64 TTTGAAAAATTTAGTTCATTTTCATGAGTTTTAGA-TTTTTTCTTTAAAATCCC-TTTTTTCCCA
* *
581696 AAAAATCGAGTTTTCTATT-TCATAAATATTTTCAGGGA-GATTTT-TCTTGGTCTAAAATTTTT
127 AAAAATCAAATTTTCTATTCT-ATAAATATTTTC-GGGAGGATTTTCT-TTGGTCTAAAATTTTT
*
581758 AAAATACATCTAATAATGTCATTGAACTTCCATTAA
189 AAAATACATCTAATAATGTCATGGAACTTCCATTAA
581794 TTTAACTTTG
Statistics
Matches: 201, Mismatches: 19, Indels: 11
0.87 0.08 0.05
Matches are distributed among these distances:
236 57 0.28
237 20 0.10
238 29 0.14
239 91 0.45
240 4 0.02
ACGTcount: A:0.31, C:0.12, G:0.10, T:0.47
Consensus pattern (236 bp):
ATTTTCTTTGGTCTAAAATTTTTAAAATGTATCTAATAATGTCATGGAATTCCCATTAAATAATT
TGAAAAATTTAGTTCATTTTCATGAGTTTTAGATTTTTTCTTTAAAATCCCTTTTTTCCCAAAAA
ATCAAATTTTCTATTCTATAAATATTTTCGGGAGGATTTTCTTTGGTCTAAAATTTTTAAAATAC
ATCTAATAATGTCATGGAACTTCCATTAAATCATTTTTGAA
Found at i:596077 original size:20 final size:20
Alignment explanation
Indices: 596050--596122 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
596040 CTTTTACCCA
*
596050 AATGTATCGATACATTTTTC
1 AATGTATCGATACATTTTTG
* * *
596070 ACTGTATCGATACATGTATG
1 AATGTATCGATACATTTTTG
596090 AATGTATCGATACATTTTTG
1 AATGTATCGATACATTTTTG
*
596110 AATATATCGATAC
1 AATGTATCGATAC
596123 CTTCTATCTT
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.40
Consensus pattern (20 bp):
AATGTATCGATACATTTTTG
Found at i:596167 original size:91 final size:90
Alignment explanation
Indices: 596007--596175 Score: 266
Period size: 91 Copynumber: 1.9 Consensus size: 90
595997 CCAGATATAC
* * *
596007 CGATACATTTTTCAATGTATCGATACATTTTATCTTTTACCCAAATGTATCGATACATTTTTCAC
1 CGATACATTTTTCAATATATCGATACATTCTATCTTTTACCCAAATGTATCGATACATTTTTCAA
596072 TGTATCGATACATGTATGAATGTAT
66 TGTATCGATACATGTATGAATGTAT
* * **
596097 CGATACATTTTTGAATATATCGATACCTTCTATCTTTTTACCCGGATGTATCGATACATTTTTCA
1 CGATACATTTTTCAATATATCGATACATTCTATC-TTTTACCCAAATGTATCGATACATTTTTCA
596162 ATGTATCGATACAT
65 ATGTATCGATACAT
596176 CTAGTTAAAA
Statistics
Matches: 71, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
90 30 0.42
91 41 0.58
ACGTcount: A:0.29, C:0.18, G:0.11, T:0.42
Consensus pattern (90 bp):
CGATACATTTTTCAATATATCGATACATTCTATCTTTTACCCAAATGTATCGATACATTTTTCAA
TGTATCGATACATGTATGAATGTAT
Found at i:606589 original size:14 final size:16
Alignment explanation
Indices: 606559--606595 Score: 53
Period size: 14 Copynumber: 2.5 Consensus size: 16
606549 TTTTCATCCT
606559 CTTTATCCTTATTACC
1 CTTTATCCTTATTACC
606575 CTTT-TCCTT-TTACC
1 CTTTATCCTTATTACC
606589 C-TTATCC
1 CTTTATCC
606596 AAACCTTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 2 0.10
14 9 0.45
15 5 0.25
16 4 0.20
ACGTcount: A:0.14, C:0.35, G:0.00, T:0.51
Consensus pattern (16 bp):
CTTTATCCTTATTACC
Found at i:611185 original size:26 final size:26
Alignment explanation
Indices: 611138--611194 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
611128 TAGACTTTGT
* * **
611138 ATCATGCAACCATGATAGCATTCCAC
1 ATCATGCAACCATAATACCATTAAAC
**
611164 ATCATGCATTCATAATACCATTAAAC
1 ATCATGCAACCATAATACCATTAAAC
611190 ATCAT
1 ATCAT
611195 TATTTTTATA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.39, C:0.26, G:0.07, T:0.28
Consensus pattern (26 bp):
ATCATGCAACCATAATACCATTAAAC
Found at i:611439 original size:26 final size:26
Alignment explanation
Indices: 611368--611440 Score: 69
Period size: 26 Copynumber: 2.8 Consensus size: 26
611358 TAAGAAATTG
* * * *
611368 TTGTCAAAAAATTATCATCAAGAACT
1 TTGTCAAGAAATTTTCGTCAAAAACT
*
611394 TCTGTCGAG-AATGTTT-GTCAAAAACT
1 T-TGTCAAGAAAT-TTTCGTCAAAAACT
611420 TTGTCAAGAAATTTTCGTCAA
1 TTGTCAAGAAATTTTCGTCAA
611441 TATGACCCTT
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
25 9 0.24
26 21 0.57
27 7 0.19
ACGTcount: A:0.37, C:0.15, G:0.14, T:0.34
Consensus pattern (26 bp):
TTGTCAAGAAATTTTCGTCAAAAACT
Found at i:611523 original size:28 final size:28
Alignment explanation
Indices: 611448--612090 Score: 641
Period size: 28 Copynumber: 22.6 Consensus size: 28
611438 CAATATGACC
611448 CTTTTCAAAGCCCACAAGTCAGTGGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
*
611476 CCTTCTCAAAGCCCACAAGTCAGTGGCAT
1 -CTTTTCAAAGCCCACAAGTCAGTGGCAT
* *
611505 CTTTTCAAAGCCCATAAGTCAGTGACAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
* *
611533 CTTTTCAAAGCCTACAAGTTAGTGGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
611561 CTTTTCAAAGCCCACAAGTCAGTGGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
*
611589 CCTTTCAAAGCCCACAAGTCAGTGGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
* *
611617 CCTTTCAAAGCCCACAAGTTAGTGGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
* * * *
611645 CCTTCTCAAAGCCCACGAGTTAGTGGCAC
1 -CTTTTCAAAGCCCACAAGTCAGTGGCAT
* *
611674 CCTTCCAAAG-CC-CAAGTCAGTGGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
* * *
611700 CCTTTCAAAATCCCACAAATCAGTGGCAT
1 CTTTTC-AAAGCCCACAAGTCAGTGGCAT
* *
611729 CCTATTCAAAGCCCATAAGTCAGTGGCAT
1 -CTTTTCAAAGCCCACAAGTCAGTGGCAT
* * *
611758 CCTTCTCAAAGCCCACGAGTTAGTGGCA-
1 -CTTTTCAAAGCCCACAAGTCAGTGGCAT
** *
611786 CCCTTCTAAAG-CC-CAAGTCAATGGCAT
1 CTTTTC-AAAGCCCACAAGTCAGTGGCAT
* * *
611813 CCTTTCAAAATCCCATAAGTCAGTGGCAT
1 CTTTTC-AAAGCCCACAAGTCAGTGGCAT
* * *
611842 CCTTCTCAAAGCCCATAAGTCAGTGGCAC
1 -CTTTTCAAAGCCCACAAGTCAGTGGCAT
* * * *
611871 CCTTTCAATGCCCACAAGTTAGTGGCACC
1 CTTTTCAAAGCCCACAAGTCAGTGGCA-T
*
611900 CTTTTCAAAGCCCACAAGTCAGTGGTAACT
1 CTTTTCAAAGCCCACAAGTCAGTGG-CA-T
* * * * *
611930 CTTTTCAAAGTCCACAGAAGTTATTGGAAC
1 CTTTTCAAAG-CC-CACAAGTCAGTGGCAT
* * *
611960 CTTTTCAAAGGCCACAAGTTAGTGGCAC
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
* * *
611988 CATTTCGAAGCCCACAAGTCAGTGGCAC
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
* * *
612016 CCTTTCAAAGCCCAAAAGTCAGTGGCACC
1 CTTTTCAAAGCCCACAAGTCAGTGGCA-T
*
612045 CTTTT-AAAGCCCACAAGTCGGTGGCAACT
1 CTTTTCAAAGCCCACAAGTCAGTGGC-A-T
612074 CTTTTCAAAGCCCACAA
1 CTTTTCAAAGCCCACAA
612091 AAGCTAGTGG
Statistics
Matches: 518, Mismatches: 79, Indels: 33
0.82 0.13 0.05
Matches are distributed among these distances:
26 26 0.05
27 18 0.03
28 245 0.47
29 174 0.34
30 41 0.08
31 4 0.01
32 10 0.02
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (28 bp):
CTTTTCAAAGCCCACAAGTCAGTGGCAT
Found at i:611654 original size:113 final size:112
Alignment explanation
Indices: 611445--612090 Score: 766
Period size: 113 Copynumber: 5.7 Consensus size: 112
611435 CGTCAATATG
*
611445 ACCCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACAAGTCAGTGGCATCTTTT
1 ACCC-TTTCAAAGCCCACAAGTCAGTGGCATCCTT-TCAAAGCCCACAAGTCAGTGGCATCCTTT
* * * *
611510 CAAAGCCCATAAGTCAGTGACATCTTTTCAAAGCCTACAAGTTAGTGGC
64 CAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGC
* *
611559 ATCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCA
1 ACCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCA
* *
611624 AAGCCCACAAGTTAGTGGCATCCTTCTCAAAGCCCACGAGTTAGTGGC
66 AAGCCCACAAGTCAGTGGCATCCTT-TCAAAGCCCACAAGTTAGTGGC
* * *
611672 ACCCTTCCAAAG-CC-CAAGTCAGTGGCATCCTTTCAAAATCCCACAAATCAGTGGCATCCTATT
1 ACCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTC-AAAGCCCACAAGTCAGTGGCATCCT-TT
* *
611735 CAAAGCCCATAAGTCAGTGGCATCCTTCTCAAAGCCCACGAGTTAGTGGC
64 CAAAGCCCACAAGTCAGTGGCATCCTT-TCAAAGCCCACAAGTTAGTGGC
* * *
611785 ACCC-TTCTAAAG-CC-CAAGTCAATGGCATCCTTTCAAAATCCCATAAGTCAGTGGCATCCTTC
1 ACCCTTTC-AAAGCCCACAAGTCAGTGGCATCCTTTC-AAAGCCCACAAGTCAGTGGCATCCTT-
* * *
611847 TCAAAGCCCATAAGTCAGTGGCACCCTTTCAATGCCCACAAGTTAGTGGC
63 TCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGC
* * * * * *
611897 ACCCTTTTCAAAGCCCACAAGTCAGTGGTAACTCTTTTCAAAGTCCACAGAAGTTATTGG-AACC
1 ACCC-TTTCAAAGCCCACAAGTCAGTGG-CA-TCCTTTCAAAG-CC-CACAAGTCAGTGGCATCC
* * * *
611961 TTTTCAAAGGCCACAAGTTAGTGGCA-CCATTTCGAAGCCCACAAGTCAGTGGC
61 -TTTCAAAGCCCACAAGTCAGTGGCATCC-TTTCAAAGCCCACAAGTTAGTGGC
* * * * *
612014 ACCCTTTCAAAGCCCAAAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCGGTGGCAACTCTTTT
1 ACCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGC-A-TCCTTT
612079 CAAAGCCCACAA
64 CAAAGCCCACAA
612091 AAGCTAGTGG
Statistics
Matches: 465, Mismatches: 49, Indels: 36
0.85 0.09 0.07
Matches are distributed among these distances:
111 20 0.04
112 112 0.24
113 195 0.42
114 30 0.06
115 12 0.03
116 28 0.06
117 56 0.12
118 12 0.03
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (112 bp):
ACCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCA
AAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGC
Found at i:612235 original size:45 final size:46
Alignment explanation
Indices: 612171--612299 Score: 134
Period size: 49 Copynumber: 2.8 Consensus size: 46
612161 ATCTTAAAGT
* * *
612171 CCAATATCGCTGGCATTGAATTAGCATATTGGCACCTTT-ATTAGC
1 CCAATGTCGCTGGCCTTGAATTAGCACATTGGCACCTTTCATTAGC
* ** *
612216 CCAATGTCGCTGGCCTTGAATCAGCACATTGGTCCATTTTTCCCTTAGC
1 CCAATGTCGCTGGCCTTGAATTAGCACATTGG--CACCTTT-CATTAGC
* * *
612265 CCAATGTCCCTGGTCTTGAATTGGCACATTGGCAC
1 CCAATGTCGCTGGCCTTGAATTAGCACATTGGCAC
612300 TCCTCTCATC
Statistics
Matches: 68, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
45 28 0.41
47 7 0.10
49 33 0.49
ACGTcount: A:0.22, C:0.27, G:0.19, T:0.32
Consensus pattern (46 bp):
CCAATGTCGCTGGCCTTGAATTAGCACATTGGCACCTTTCATTAGC
Found at i:613042 original size:20 final size:20
Alignment explanation
Indices: 613017--613141 Score: 72
Period size: 20 Copynumber: 5.8 Consensus size: 20
613007 TTTTACCCAG
613017 ATGTATCGATACATTATTCA
1 ATGTATCGATACATTATTCA
613037 ATGTATCGATACATTCTATCTTTTACCCA
1 ATGTATCGATACA-T-TA----TT---CA
* *
613066 GATGTATCGATACATTTTTGA
1 -ATGTATCGATACATTATTCA
*
613087 ATGTATCGATACATGTA-TGA
1 ATGTATCGATACAT-TATTCA
* * * * *
613107 TTGTAACAATACATTCTTTA
1 ATGTATCGATACATTATTCA
613127 ATGTATCGATACATT
1 ATGTATCGATACATT
613142 CTGTCTTTTT
Statistics
Matches: 82, Mismatches: 11, Indels: 24
0.70 0.09 0.21
Matches are distributed among these distances:
19 1 0.01
20 55 0.67
21 3 0.04
22 2 0.02
24 2 0.02
26 2 0.02
28 1 0.01
29 3 0.04
30 13 0.16
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTATTCA
Found at i:613143 original size:20 final size:19
Alignment explanation
Indices: 613067--613141 Score: 78
Period size: 20 Copynumber: 3.8 Consensus size: 19
613057 TTTTACCCAG
613067 ATGTATCGATACATTTTTGA
1 ATGTATCGATACATTTTT-A
* *
613087 ATGTATCGATACATGTATGA
1 ATGTATCGATACAT-TTTTA
* * *
613107 TTGTAACAATACATTCTTTA
1 ATGTATCGATACATT-TTTA
613127 ATGTATCGATACATT
1 ATGTATCGATACATT
613142 CTGTCTTTTT
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
19 1 0.02
20 40 0.93
21 2 0.05
ACGTcount: A:0.33, C:0.12, G:0.13, T:0.41
Consensus pattern (19 bp):
ATGTATCGATACATTTTTA
Found at i:613181 original size:91 final size:90
Alignment explanation
Indices: 613025--613191 Score: 280
Period size: 91 Copynumber: 1.8 Consensus size: 90
613015 AGATGTATCG
*
613025 ATACATTATTCAATGTATCGATACATTCTATCTTTTACCCAGATGTATCGATACATTTTTGAATG
1 ATACATTATTCAATGTATCGATACATTCTATCTTTTACCCAGATGTATCGATACATTTTTCAATG
613090 TATCGATACATGTATGATTGTAACA
66 TATCGATACATGTATGATTGTAACA
* * * *
613115 ATACATTCTTTAATGTATCGATACATTCTGTCTTTTTACCTAGATGTATCGATACATTTTTCAAT
1 ATACATTATTCAATGTATCGATACATTCTATC-TTTTACCCAGATGTATCGATACATTTTTCAAT
613180 GTATCGATACAT
65 GTATCGATACAT
613192 CTAGTTAAAA
Statistics
Matches: 71, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
90 29 0.41
91 42 0.59
ACGTcount: A:0.31, C:0.16, G:0.11, T:0.42
Consensus pattern (90 bp):
ATACATTATTCAATGTATCGATACATTCTATCTTTTACCCAGATGTATCGATACATTTTTCAATG
TATCGATACATGTATGATTGTAACA
Found at i:614090 original size:21 final size:22
Alignment explanation
Indices: 614049--614090 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
614039 TAGCCTTTGA
* *
614049 CCATGCATTTTTTTACTATGTT
1 CCATGCAGTTTTTAACTATGTT
614071 CCATGCAGTTTTTAAC-ATGT
1 CCATGCAGTTTTTAACTATGT
614091 CTAGCATCTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.21, C:0.19, G:0.12, T:0.48
Consensus pattern (22 bp):
CCATGCAGTTTTTAACTATGTT
Found at i:618273 original size:15 final size:15
Alignment explanation
Indices: 618237--618267 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
618227 AATAAAATAT
*
618237 ACAAATACAAAAAAA
1 ACAAAAACAAAAAAA
618252 ACAAAAACAAAAAAA
1 ACAAAAACAAAAAAA
618267 A
1 A
618268 GGAAAAGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.84, C:0.13, G:0.00, T:0.03
Consensus pattern (15 bp):
ACAAAAACAAAAAAA
Found at i:619647 original size:24 final size:24
Alignment explanation
Indices: 619620--619677 Score: 116
Period size: 24 Copynumber: 2.4 Consensus size: 24
619610 ATTGATGCTT
619620 GCATTTGCATTTTAGATAATATTG
1 GCATTTGCATTTTAGATAATATTG
619644 GCATTTGCATTTTAGATAATATTG
1 GCATTTGCATTTTAGATAATATTG
619668 GCATTTGCAT
1 GCATTTGCAT
619678 CATTTCATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.28, C:0.10, G:0.17, T:0.45
Consensus pattern (24 bp):
GCATTTGCATTTTAGATAATATTG
Found at i:619717 original size:40 final size:44
Alignment explanation
Indices: 619654--619784 Score: 112
Period size: 44 Copynumber: 3.1 Consensus size: 44
619644 GCATTTGCAT
* * *
619654 TTTAGATAATATTGGCATTTGCATCATTTCATATGCATTTTCCA
1 TTTAGATGACATTGGTATTTGCATCATTTCATATGCATTTTCCA
** * *
619698 TTT-GATG-C-TT-GTATTTGCATTGTTT-A-ATGCACATTTGCA
1 TTTAGATGACATTGGTATTTGCATCATTTCATATGCA-TTTTCCA
* * *
619737 TTTTATATGACATTGGTATTTGCATCATTCCATATTCATTTTCCA
1 -TTTAGATGACATTGGTATTTGCATCATTTCATATGCATTTTCCA
619782 TTT
1 TTT
619785 TATTAATGCT
Statistics
Matches: 65, Mismatches: 14, Indels: 16
0.68 0.15 0.17
Matches are distributed among these distances:
38 5 0.08
39 6 0.09
40 15 0.23
41 5 0.08
42 1 0.02
43 5 0.08
44 18 0.28
45 6 0.09
46 4 0.06
ACGTcount: A:0.24, C:0.15, G:0.12, T:0.49
Consensus pattern (44 bp):
TTTAGATGACATTGGTATTTGCATCATTTCATATGCATTTTCCA
Found at i:620513 original size:36 final size:35
Alignment explanation
Indices: 620473--620543 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 35
620463 TTTCTCTCTT
*
620473 GTTTGACTGTATCTGGTCAAACTCATTCCCACCATC
1 GTTTGACTGAATCTGGTCAAACTC-TTCCCACCATC
* *
620509 GTTTGACTGAATTTGGTCAAACTCTTTCCACCATC
1 GTTTGACTGAATCTGGTCAAACTCTTCCCACCATC
620544 TTCCATGATC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 10 0.31
36 22 0.69
ACGTcount: A:0.23, C:0.28, G:0.14, T:0.35
Consensus pattern (35 bp):
GTTTGACTGAATCTGGTCAAACTCTTCCCACCATC
Found at i:620623 original size:48 final size:47
Alignment explanation
Indices: 620567--620769 Score: 216
Period size: 48 Copynumber: 4.2 Consensus size: 47
620557 TGGGTTGTAT
* *
620567 CTAGTCAAACTTTTTCCATTCTTTGTTTGATTGCATTGGTGTTAGGGC
1 CTAGTCAAACTTTTTCCA-TCTTTGTTTGACTGCATTGGTGTTAAGGC
* *
620615 CTAGTCAAACTCTTTCCATCCTTTGTTTGACTGTATTGGTGTTAAGGC
1 CTAGTCAAACTTTTTCCAT-CTTTGTTTGACTGCATTGGTGTTAAGGC
*
620663 CTAGTCAAACTCTTTT-CATCTTTCATTTGACTGCATTGGTGTTAAGGC
1 CTAGTCAAACT-TTTTCCATCTTT-GTTTGACTGCATTGGTGTTAAGGC
* * * *
620711 AC-GGTTAAA-TTCTTTCCATCTTCTGTTTGACGGCATTAGTGTT-AGGAC
1 -CTAGTCAAACTT-TTTCCATCTT-TGTTTGACTGCATTGGTGTTAAGG-C
*
620759 CTGGTCAAACT
1 CTAGTCAAACT
620770 CTTCTCATCC
Statistics
Matches: 132, Mismatches: 13, Indels: 19
0.80 0.08 0.12
Matches are distributed among these distances:
46 1 0.01
47 13 0.10
48 112 0.85
49 6 0.05
ACGTcount: A:0.20, C:0.20, G:0.19, T:0.41
Consensus pattern (47 bp):
CTAGTCAAACTTTTTCCATCTTTGTTTGACTGCATTGGTGTTAAGGC
Found at i:620692 original size:96 final size:95
Alignment explanation
Indices: 620567--620884 Score: 265
Period size: 96 Copynumber: 3.3 Consensus size: 95
620557 TGGGTTGTAT
* *
620567 CTAGTCAAACT-TTTTCCATTCTTTGTTTGATTGCATTGGTGTTAGGGCCTAGTCAAACTCTTTC
1 CTAGTCAAACTCTTTT-CA-TCTTTATTTGACTGCATTGGTGTTAGGGCCTAGTCAAACTCTTTC
620631 CATCCTTTGTTTGACTGTATTGGTGTTAAGGC
64 CATCCTTTGTTTGACTGTATTGGTGTTAAGGC
* * * *
620663 CTAGTCAAACTCTTTTCATCTTTCATTTGACTGCATTGGTGTTAAGGCAC-GGTTAAATTCTTTC
1 CTAGTCAAACTCTTTTCATCTTT-ATTTGACTGCATTGGTGTTAGGGC-CTAGTCAAACTCTTTC
* * *
620727 CAT-CTTCTGTTTGACGGCATTAGTGTT-AGGAC
64 CATCCTT-TGTTTGACTGTATTGGTGTTAAGG-C
* * * * ** **
620759 CTGGTCAAACTCTTCTCATCCCTTATTGGACTATATTGGCATTAGGGCCTAG-CTAAACTCTTTC
1 CTAGTCAAACTCTTTTCAT-CTTTATTTGACTGCATTGGTGTTAGGGCCTAGTC-AAACTCTTTC
* * * * ** * *
620823 TA-CCCTCGTTTAACTGTATTGGCATTATGAC
64 CATCCTTTGTTTGACTGTATTGGTGTTAAGGC
*
620854 CTGGTCAAACTCTTTTC--CTTTCATTTGACTG
1 CTAGTCAAACTCTTTTCATCTTT-ATTTGACTG
620885 TATTAGCATT
Statistics
Matches: 175, Mismatches: 36, Indels: 25
0.74 0.15 0.11
Matches are distributed among these distances:
92 3 0.02
93 7 0.04
95 42 0.24
96 115 0.66
97 8 0.05
ACGTcount: A:0.20, C:0.22, G:0.18, T:0.41
Consensus pattern (95 bp):
CTAGTCAAACTCTTTTCATCTTTATTTGACTGCATTGGTGTTAGGGCCTAGTCAAACTCTTTCCA
TCCTTTGTTTGACTGTATTGGTGTTAAGGC
Found at i:620952 original size:47 final size:47
Alignment explanation
Indices: 620752--620958 Score: 161
Period size: 47 Copynumber: 4.4 Consensus size: 47
620742 GGCATTAGTG
* ** * * *
620752 TTAGGACCTGGTCAAACTC-TTCTCATCCCTTATTGGACTATATTGGCA
1 TTAGGACTTGGTCAAACTCTTTCT-A-CCCTCGTTTGACTGTATTAGCA
* * * * *
620800 TTAGGGCCTAG-CTAAACTCTTTCTACCCTCGTTTAACTGTATTGGCA
1 TTAGGACTTGGTC-AAACTCTTTCTACCCTCGTTTGACTGTATTAGCA
* * * *
620847 TTATGACCTGGTCAAACTCTTT-T-CCTTTCATTTGACTGTATTAGCA
1 TTAGGACTTGGTCAAACTCTTTCTACC-CTCGTTTGACTGTATTAGCA
* * ** **
620893 TTAGAAGTTGGTCAAACTCTTTCTACCCTCGTTTGGTTGTATTAGTG
1 TTAGGACTTGGTCAAACTCTTTCTACCCTCGTTTGACTGTATTAGCA
620940 TTAGGACTTGGTCAAACTC
1 TTAGGACTTGGTCAAACTC
620959 CTTTTCATTC
Statistics
Matches: 127, Mismatches: 26, Indels: 13
0.77 0.16 0.08
Matches are distributed among these distances:
45 2 0.02
46 35 0.28
47 67 0.53
48 19 0.15
49 4 0.03
ACGTcount: A:0.22, C:0.22, G:0.17, T:0.39
Consensus pattern (47 bp):
TTAGGACTTGGTCAAACTCTTTCTACCCTCGTTTGACTGTATTAGCA
Found at i:621381 original size:43 final size:44
Alignment explanation
Indices: 621303--621437 Score: 116
Period size: 43 Copynumber: 3.2 Consensus size: 44
621293 CCTTCATTCA
* * * * * * *
621303 TTGTCTACCCATTAGCTCAAACCTGAAAG-ACTTCTTTTATCAT
1 TTGTCTACCCATCAACTCAGACCCGAGAGAATTTCTTTTATCTT
*
621346 TTGTCTACCCATCAACTTAGACCCGAGAG-ATTTC-TTTATCTT
1 TTGTCTACCCATCAACTCAGACCCGAGAGAATTTCTTTTATCTT
* * ** * *
621388 TTGTCTGCCTATCGGCTCAGGCCTGAGAGAATTT-TTTTATCTT
1 TTGTCTACCCATCAACTCAGACCCGAGAGAATTTCTTTTATCTT
621431 TTGTCTA
1 TTGTCTA
621438 TTTATCAGTT
Statistics
Matches: 74, Mismatches: 16, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
42 29 0.39
43 45 0.61
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.40
Consensus pattern (44 bp):
TTGTCTACCCATCAACTCAGACCCGAGAGAATTTCTTTTATCTT
Found at i:621764 original size:43 final size:43
Alignment explanation
Indices: 621541--621816 Score: 208
Period size: 42 Copynumber: 6.5 Consensus size: 43
621531 TCAAGCCCGA
* *
621541 GAGACTTCTTCATCTTTTTGT-TCGCCCGTTAGCTTAGACTCG-G
1 GAGACTTCTTTATC-TTTTGTCT-GCCCGTTGGCTTAGACTCGAG
* * * * ** *
621584 GAAACTTCTTTATCTTTTATCTGGCCATCAGCTCAGAC-CTG-G
1 GAGACTTCTTTATCTTTTGTCTGCCCGTTGGCTTAGACTC-GAG
* * ** * *
621626 GAGACTTCTTTATCTTTTTTCTACATGTTAGCTTAGACTCTA-
1 GAGACTTCTTTATCTTTTGTCTGCCCGTTGGCTTAGACTCGAG
* * * *
621668 GAGACTTTCCTTATCTTTTGTCTGCCCGTCGGCTCAGA-TCGGG
1 GAGAC-TTCTTTATCTTTTGTCTGCCCGTTGGCTTAGACTCGAG
* * * *
621711 GATACTTCTTTATTTTTTGTTTGTCCGTTGGCTTAGACTC-AG
1 GAGACTTCTTTATCTTTTGTCTGCCCGTTGGCTTAGACTCGAG
* * *
621753 GAGACTTTCTTTATCCTTTGTCTGCCCGTTGGCTTAAACTCG-C
1 GAGAC-TTCTTTATCTTTTGTCTGCCCGTTGGCTTAGACTCGAG
*
621796 GAGACTTCTTTATCCTTTGTC
1 GAGACTTCTTTATCTTTTGTC
621817 GGCCAGTCAG
Statistics
Matches: 182, Mismatches: 42, Indels: 19
0.75 0.17 0.08
Matches are distributed among these distances:
41 1 0.01
42 102 0.56
43 79 0.43
ACGTcount: A:0.16, C:0.24, G:0.18, T:0.42
Consensus pattern (43 bp):
GAGACTTCTTTATCTTTTGTCTGCCCGTTGGCTTAGACTCGAG
Found at i:621780 original size:85 final size:86
Alignment explanation
Indices: 621541--621809 Score: 271
Period size: 85 Copynumber: 3.2 Consensus size: 86
621531 TCAAGCCCGA
* * * * * *
621541 GAGACTTCTTCATCTTTTTGTTCGCCCGTTAGCTTAGACTCGGGAAAC-TTCTTTATCTTTTATC
1 GAGACTTCTTTATCTTTTTGTTTGACCGTTAGCTTAGACTCAGGAGACTTTCTTTATCTTTTGTC
* * * *
621605 TGGCCATCAGCTCAGACCTGG
66 TGCCCGTCGGCTCAGACCGGG
* * *
621626 GAGACTTCTTTATCTTTTT-TCT-ACATGTTAGCTTAGACTCTA-GAGACTTTCCTTATCTTTTG
1 GAGACTTCTTTATCTTTTTGTTTGAC-CGTTAGCTTAGACTC-AGGAGACTTTCTTTATCTTTTG
*
621688 TCTGCCCGTCGGCTCAGATCGGG
64 TCTGCCCGTCGGCTCAGACCGGG
* * * *
621711 GATACTTCTTTAT-TTTTTGTTTGTCCGTTGGCTTAGACTCAGGAGACTTTCTTTATCCTTTGTC
1 GAGACTTCTTTATCTTTTTGTTTGACCGTTAGCTTAGACTCAGGAGACTTTCTTTATCTTTTGTC
* * * *
621775 TGCCCGTTGGCTTAAACTC-GC
66 TGCCCGTCGGCTCAGAC-CGGG
621796 GAGACTTCTTTATC
1 GAGACTTCTTTATC
621810 CTTTGTCGGC
Statistics
Matches: 149, Mismatches: 27, Indels: 15
0.78 0.14 0.08
Matches are distributed among these distances:
83 1 0.01
84 25 0.17
85 121 0.81
86 2 0.01
ACGTcount: A:0.16, C:0.24, G:0.19, T:0.41
Consensus pattern (86 bp):
GAGACTTCTTTATCTTTTTGTTTGACCGTTAGCTTAGACTCAGGAGACTTTCTTTATCTTTTGTC
TGCCCGTCGGCTCAGACCGGG
Found at i:622418 original size:43 final size:42
Alignment explanation
Indices: 622338--622587 Score: 170
Period size: 42 Copynumber: 5.9 Consensus size: 42
622328 ACTCAGACTT
* * *
622338 GGGAGACTTCGTT-ATCCTTTATCTACCTATCGACTCAAGCTA
1 GGGAGACTTC-TTAATCTTTTGTCTACCCATCGACTCAAGCTA
* *
622380 GGGAGACTTCTTAATCTCTTTGTCTACCCATCGGCTCAAACCTA
1 GGGAGACTTCTTAATCT-TTTGTCTACCCATCGACTC-AAGCTA
* * * * * *
622424 -AGAGAC-TCCTATATCTTTTATCTGCCCGTCGACTCAAGCTC
1 GGGAGACTTCTTA-ATCTTTTGTCTACCCATCGACTCAAGCTA
* * * *
622465 GAGAGACTTCTTTATTTTTTTGTCTACCCATCGACTCAAACCT-
1 GGGAGACTTC-TTAATCTTTTGTCTACCCATCGACTC-AAGCTA
* * * *
622508 GTGAGA-TTTTTATATCTTTTGTCTA-CCATCGGCTCAAGCTC
1 GGGAGACTTCTTA-ATCTTTTGTCTACCCATCGACTCAAGCTA
* * * * *
622549 GGGAGACTTTTTCATCTTTTTGTCTGCCTATTGACTCAA
1 GGGAGACTTCTTAATC-TTTTGTCTACCCATCGACTCAA
622588 ATCGGAGAAA
Statistics
Matches: 163, Mismatches: 32, Indels: 25
0.74 0.15 0.11
Matches are distributed among these distances:
40 4 0.02
41 26 0.16
42 63 0.39
43 59 0.36
44 11 0.07
ACGTcount: A:0.22, C:0.26, G:0.16, T:0.37
Consensus pattern (42 bp):
GGGAGACTTCTTAATCTTTTGTCTACCCATCGACTCAAGCTA
Found at i:622429 original size:85 final size:86
Alignment explanation
Indices: 622340--622656 Score: 270
Period size: 85 Copynumber: 3.7 Consensus size: 86
622330 TCAGACTTGG
* * *
622340 GAGACTTCGT-TATCCTTTATCTACCTATCGACTCAAGCTAGGGAGACTTCTTAATCTCTTTGTC
1 GAGACTTCTTATATCCTTTATCTACCTATCGACTCAAGCTAGAGAGACTTCTTCATCTCTTTGTC
* *
622404 TACCCATCGGCTCAAACCTAA
66 TACCCATCGACTCAAACCTGA
* * * ** * * * *
622425 GAGAC-TCCTATATCTTTTATCTGCCCGTCGACTCAAGCTCGAGAGACTTCTTTATTTTTTTGTC
1 GAGACTTCTTATATCCTTTATCTACCTATCGACTCAAGCTAGAGAGACTTCTTCATCTCTTTGTC
*
622489 TACCCATCGACTCAAACCTGT
66 TACCCATCGACTCAAACCTGA
* * * * * * * *
622510 GAGA-TTTTTATATCTTTTGTCTACC-ATCGGCTCAAGCTCGGGAGACTTTTTCATCTTTTTGTC
1 GAGACTTCTTATATCCTTTATCTACCTATCGACTCAAGCTAGAGAGACTTCTTCATCTCTTTGTC
* * * * *
622573 TGCCTATTGACTCAAATCGGA
66 TACCCATCGACTCAAACCTGA
* * * * *
622594 GAAACTTATT-TATCCTTTGTCTGCCTATCGGCT-AAGGCTCA-AGAGACTTCTTCATCTCTTTG
1 GAGACTTCTTATATCCTTTATCTACCTATCGACTCAA-GCT-AGAGAGACTTCTTCATCTCTTTG
622656 T
64 T
622657 TAACCCGTCG
Statistics
Matches: 189, Mismatches: 37, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
84 68 0.36
85 121 0.64
ACGTcount: A:0.22, C:0.26, G:0.15, T:0.37
Consensus pattern (86 bp):
GAGACTTCTTATATCCTTTATCTACCTATCGACTCAAGCTAGAGAGACTTCTTCATCTCTTTGTC
TACCCATCGACTCAAACCTGA
Found at i:622560 original size:42 final size:42
Alignment explanation
Indices: 622350--622587 Score: 148
Period size: 43 Copynumber: 5.6 Consensus size: 42
622340 GAGACTTCGT
* * * * *
622350 TATCCTTTATCTACCTATCGACTCAAGCTAGGGAGACTTCTTA
1 TATCTTTTGTCTACC-ATCGACTCAAGCTCGAGAGACTTTTTA
* * * **
622393 -ATCTCTTTGTCTACCCATCGGCTCAAAC-CTAAGAGAC-TCCTA
1 TATCT-TTTGTCTA-CCATCGACTCAAGCTC-GAGAGACTTTTTA
* * *
622435 TATCTTTTATCTGCCCGTCGACTCAAGCTCGAGAGACTTCTTTA
1 TATCTTTTGTCT-ACCATCGACTCAAGCTCGAGAGACTT-TTTA
* * *
622479 T-TTTTTTGTCTACCCATCGACTCAAAC-CTGTGAGA-TTTTTA
1 TATCTTTTGTCTA-CCATCGACTCAAGCTC-GAGAGACTTTTTA
* *
622520 TATCTTTTGTCTACCATCGGCTCAAGCTCGGGAGACTTTTT-
1 TATCTTTTGTCTACCATCGACTCAAGCTCGAGAGACTTTTTA
* * *
622561 CATCTTTTTGTCTGCCTATTGACTCAA
1 TATC-TTTTGTCTACC-ATCGACTCAA
622588 ATCGGAGAAA
Statistics
Matches: 150, Mismatches: 30, Indels: 30
0.71 0.14 0.14
Matches are distributed among these distances:
41 25 0.17
42 59 0.39
43 61 0.41
44 5 0.03
ACGTcount: A:0.22, C:0.26, G:0.14, T:0.37
Consensus pattern (42 bp):
TATCTTTTGTCTACCATCGACTCAAGCTCGAGAGACTTTTTA
Found at i:623005 original size:43 final size:43
Alignment explanation
Indices: 622935--623210 Score: 240
Period size: 43 Copynumber: 6.5 Consensus size: 43
622925 TCATACTTGG
* * * * *
622935 GAGACTTATTTATC-CTTTGTTTACCCATCGAGTCAAGCTCGA
1 GAGACTTCTTCATCTCTTTGTCTGCCCATCGACTCAAGCTCGA
* *
622977 GAGACTTCTTCATCTTTTTGTCTGCCCATCGACTTAAGCTCGA
1 GAGACTTCTTCATCTCTTTGTCTGCCCATCGACTCAAGCTCGA
* * * * *
623020 AAGACTTCTTCATTTTTTTTGTCTGCCCATCGACTCAGACCT-GT
1 GAGACTTCTTCA-TCTCTTTGTCTGCCCATCGACTCA-AGCTCGA
* * *
623064 GAGACTTTTTTATC-CTTTGTCT-ACCATCGACTCAAGCTCGA
1 GAGACTTCTTCATCTCTTTGTCTGCCCATCGACTCAAGCTCGA
* * * *
623105 AAGACTTCTTCATCTTTTTGTCTGCCCATCGACTTAAAC-CGGA
1 GAGACTTCTTCATCTCTTTGTCTGCCCATCGACTCAAGCTC-GA
* * * * * * * *
623148 GAAACTTATTTATC-CTTTGTCTGCCCGTCGGCTTAGGCTCGG
1 GAGACTTCTTCATCTCTTTGTCTGCCCATCGACTCAAGCTCGA
623190 GAGACTTCTTCATCTCTTTGT
1 GAGACTTCTTCATCTCTTTGT
623211 TAGCCCGTCA
Statistics
Matches: 185, Mismatches: 40, Indels: 17
0.76 0.17 0.07
Matches are distributed among these distances:
40 3 0.02
41 23 0.12
42 58 0.31
43 66 0.36
44 32 0.17
45 3 0.02
ACGTcount: A:0.20, C:0.26, G:0.16, T:0.38
Consensus pattern (43 bp):
GAGACTTCTTCATCTCTTTGTCTGCCCATCGACTCAAGCTCGA
Found at i:623092 original size:554 final size:550
Alignment explanation
Indices: 622340--623511 Score: 1530
Period size: 554 Copynumber: 2.1 Consensus size: 550
622330 TCAGACTTGG
* * * * * * *
622340 GAGACTTCGTTATCCTTTATCTACCTATCGACTCAAGCTAGGGAGACTTCTTAATCTCTTTGTCT
1 GAGACTTCTTTATCTTTTATTTACCTGTCGGCTCAA-CTTGGGAGACTTCTTTATC-CTTTGTCT
* *
622405 ACCCATCGGCTCAAACCTAAGAGACTCCTATATCTTTTATCTGCCCGTCGACTCAAGCTCGAGAG
64 ACCCATCGGCTCAAACCTAAGAGACTCCTATATCTTTTATCTGCCCATCGACTCAAGCTCGAAAG
* *
622470 ACTTCTTTATTTTTTTGTCTACCCATCGACTCAAACCTGTGAGATTTTTATATCTTTTGTCTACC
129 ACTTCTTCATTTTTTTGTCTACCCATCGACTCAAACCTGTGAGATTTTTATATCCTTTGTCTACC
* ** * * * *
622535 ATCGGCTCAAGCTCGGGAGACTTTTTCATCTTTTTGTCTGCCTATTGACTCAAATCGGAGAAACT
194 ATCGACTCAAGCTCGAAAGACTTCTTCATCTTTTTGTCTGCCCATCGACTCAAACCGGAGAAACT
*
622600 TATTTATCCTTTGTCTGCCTATCGGCTAAGGCTCAAGAGACTTCTTCATCTCTTTGTTAACCCGT
259 TATTTATCCTTTGTCTGCCCATCGGCTAAGGCTCAAGAGACTTCTTCATCTCTTTGTTAACCCGT
* * * * *
622665 CGGCTCAGTCCTAGGAAACAACCTTCTTCTTATTGTTTACCTATCGGCTCTATCCCTGGTAAACC
324 CAGCTCAGTCCTAGGAAAAAACCTTCATCTCATTGTTTACCTATCGGCTCTATCCCCGGTAAACC
* * * * *
622730 CCTTATCTCCTCTG-TGACTTGTCAATTTAGTCCTTGATTAACCCCTT-ATCTTTTGTTTCTCGT
389 CCTTATCTCCTC-GATGACTTATCAACTTAGTCCTCGATCAA-CCCTTCATCTTTTGTTTCCCGT
* * * *
622793 TGACTCAAACCCGAGAAACTT-TTTCATCTTTTTGTCTGCTTATTGGCTTAGACCTGGTAGGCAT
452 TGACTCAAACCCGAGAAACTTCTTT-ATCTTTTTGTCTACTCATTGGCTTAGACCCGGTAGACAT
* *
622857 ATTTATCCTTTGTTTGCCCCTCTATTAAAGCCCGA
516 ATTTATCCTTTGTTTGCCCATCTACTAAAGCCCGA
* *
622892 GAGACTTCTTTATCTTTTTATTTACCTGTCGGCTCATACTTGGGAGACTTATTTATCCTTTGTTT
1 GAGACTTCTTTATC-TTTTATTTACCTGTCGGCTCA-ACTTGGGAGACTTCTTTATCCTTTGTCT
* * * * *
622957 ACCCATCGAG-TC-AAGCTCGAGAGACTTCT-TCATCTTTTTGTCTGCCCATCGACTTAAGCTCG
64 ACCCATCG-GCTCAAACCT-AAGAGACTCCTAT-ATC-TTTTATCTGCCCATCGACTCAAGCTCG
* *
623019 AAAGACTTCTTCATTTTTTTTGTCTGCCCATCGACTCAGACCTGTGAGACTTTTT-TATCCTTTG
125 AAAGACTTCTTCA-TTTTTTTGTCTACCCATCGACTCAAACCTGTGAGA-TTTTTATATCCTTTG
*
623083 TCTACCATCGACTCAAGCTCGAAAGACTTCTTCATCTTTTTGTCTGCCCATCGACTTAAACCGGA
188 TCTACCATCGACTCAAGCTCGAAAGACTTCTTCATCTTTTTGTCTGCCCATCGACTCAAACCGGA
* * **
623148 GAAACTTATTTATCCTTTGTCTGCCCGTCGGCTTAGGCTCGGGAGACTTCTTCATCTCTTTGTTA
253 GAAACTTATTTATCCTTTGTCTGCCCATCGGCTAAGGCTCAAGAGACTTCTTCATCTCTTTGTTA
* * * *
623213 GCCCGTCAGCTCAGTCCTTGGAAAAAACCTTCATCTCATTGTTTACTTGTCGGCTCTATCCCCGG
318 ACCCGTCAGCTCAGTCCTAGGAAAAAACCTTCATCTCATTGTTTACCTATCGGCTCTATCCCCGG
*
623278 TAAACCCCTTATCTCCTCGATGACTTATCAACTTAGTCGTCGATCAACCCTTCATCTTTTGTTTC
383 TAAACCCCTTATCTCCTCGATGACTTATCAACTTAGTCCTCGATCAACCCTTCATCTTTTGTTTC
* * * *
623343 CCGTTGACTTAGACCTGAGAAACTTCTTTATCTTTTTGTCTACTCGTTGGCTTAGACCCGGTAGA
448 CCGTTGACTCAAACCCGAGAAACTTCTTTATCTTTTTGTCTACTCATTGGCTTAGACCCGGTAGA
* * * ***
623408 CTTCTTTATCCTTTGTTTGCCCATCTACTCAAGCTTTA
513 CATATTTATCCTTTGTTTGCCCATCTACTAAAGCCCGA
** * * *
623446 GAGACTTCTTCGTCAGTTTTGTTTACCCGTCTGCTCAAACTTGGGAGACTTCTTTATCCTTTGTC
1 GAGACTTCTTTATC--TTTTATTTACCTGTCGGCTC-AACTTGGGAGACTTCTTTATCCTTTGTC
623511 T
63 T
623512 GCCTGTCGGC
Statistics
Matches: 535, Mismatches: 72, Indels: 23
0.85 0.11 0.04
Matches are distributed among these distances:
551 5 0.01
552 42 0.08
553 75 0.14
554 361 0.67
555 51 0.10
556 1 0.00
ACGTcount: A:0.20, C:0.26, G:0.15, T:0.38
Consensus pattern (550 bp):
GAGACTTCTTTATCTTTTATTTACCTGTCGGCTCAACTTGGGAGACTTCTTTATCCTTTGTCTAC
CCATCGGCTCAAACCTAAGAGACTCCTATATCTTTTATCTGCCCATCGACTCAAGCTCGAAAGAC
TTCTTCATTTTTTTGTCTACCCATCGACTCAAACCTGTGAGATTTTTATATCCTTTGTCTACCAT
CGACTCAAGCTCGAAAGACTTCTTCATCTTTTTGTCTGCCCATCGACTCAAACCGGAGAAACTTA
TTTATCCTTTGTCTGCCCATCGGCTAAGGCTCAAGAGACTTCTTCATCTCTTTGTTAACCCGTCA
GCTCAGTCCTAGGAAAAAACCTTCATCTCATTGTTTACCTATCGGCTCTATCCCCGGTAAACCCC
TTATCTCCTCGATGACTTATCAACTTAGTCCTCGATCAACCCTTCATCTTTTGTTTCCCGTTGAC
TCAAACCCGAGAAACTTCTTTATCTTTTTGTCTACTCATTGGCTTAGACCCGGTAGACATATTTA
TCCTTTGTTTGCCCATCTACTAAAGCCCGA
Found at i:623101 original size:85 final size:85
Alignment explanation
Indices: 622993--623210 Score: 267
Period size: 85 Copynumber: 2.6 Consensus size: 85
622983 TCTTCATCTT
* * * *
622993 TTTGTCTGCCCATCGACTTAAGCTCGAAAGACTTCTTCATTTTTTTTGTCTGCCCATCGACTCAG
1 TTTGTCTGACCATCGACTCAAGCTCGAAAGACTTCTTCA-TCTTTTTGTCTGCCCATCGACTCAA
* * * *
623058 ACCTGTGAGACTTTTTTATCC
65 ACCGGAGAAACTTATTTATCC
*
623079 TTTGTCT-ACCATCGACTCAAGCTCGAAAGACTTCTTCATCTTTTTGTCTGCCCATCGACTTAAA
1 TTTGTCTGACCATCGACTCAAGCTCGAAAGACTTCTTCATCTTTTTGTCTGCCCATCGACTCAAA
623143 CCGGAGAAACTTATTTATCC
66 CCGGAGAAACTTATTTATCC
* * * * * ** *
623163 TTTGTCTGCCCGTCGGCTTAGGCTCGGGAGACTTCTTCATCTCTTTGT
1 TTTGTCTGACCATCGACTCAAGCTCGAAAGACTTCTTCATCTTTTTGT
623211 TAGCCCGTCA
Statistics
Matches: 114, Mismatches: 17, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
84 46 0.40
85 61 0.54
86 7 0.06
ACGTcount: A:0.19, C:0.27, G:0.17, T:0.38
Consensus pattern (85 bp):
TTTGTCTGACCATCGACTCAAGCTCGAAAGACTTCTTCATCTTTTTGTCTGCCCATCGACTCAAA
CCGGAGAAACTTATTTATCC
Found at i:623452 original size:42 final size:42
Alignment explanation
Indices: 623405--623514 Score: 112
Period size: 44 Copynumber: 2.6 Consensus size: 42
623395 TAGACCCGGT
* *
623405 AGACTTCTTTATCCTTTGTTTGCCCATCTACTCAAGCTTTAG
1 AGACTTCTTTATCCTTTGTTTGCCCATCTACTCAAACTTGAG
** * * * * *
623447 AGACTTCTTCGTCAGTTTTGTTTACCCGTCTGCTCAAACTTGGG
1 AGACTTCTTTATC--CTTTGTTTGCCCATCTACTCAAACTTGAG
*
623491 AGACTTCTTTATCCTTTGTCTGCC
1 AGACTTCTTTATCCTTTGTTTGCC
623515 TGTCGGCTCA
Statistics
Matches: 52, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
42 19 0.37
44 33 0.63
ACGTcount: A:0.16, C:0.26, G:0.15, T:0.42
Consensus pattern (42 bp):
AGACTTCTTTATCCTTTGTTTGCCCATCTACTCAAACTTGAG
Found at i:623590 original size:85 final size:84
Alignment explanation
Indices: 623364--623803 Score: 323
Period size: 85 Copynumber: 5.2 Consensus size: 84
623354 GACCTGAGAA
* * * * * * * *
623364 ACTTCTTTATCTTTTTGTCTACTCGTTGGCTTAGACCCGGTAGACTTCTTTATCCTTTGTTTGCC
1 ACTTCTTCATCTTTTTGTCTA-TCATCGACTCAGACCTGGGAGACTTCTTTATCCTTTGTCTGCC
** ** * * *
623429 CATCTACTCAAGCTTTAGAG
65 TGTCGGCTCAAGCCTCAAAG
* * * * * * *
623449 ACTTCTTCGTCAGTTTTGTTTACCCGTCTG-CTCAAACTTGGGAGACTTCTTTATCCTTTGTCTG
1 ACTTCTTCATC-TTTTTGTCTA-TCATC-GACTCAGACCTGGGAGACTTCTTTATCCTTTGTCTG
* *
623513 CCTGTCGGCTCAGGCCTCAAAA
63 CCTGTCGGCTCAAGCCTCAAAG
* * * *
623535 ACTTCTTCATCTCTTTGTCTATGCATCAACTCAGACTTGGGAGACTTCTTTATCCTTTGTCTACC
1 ACTTCTTCATCTTTTTGTCTAT-CATCGACTCAGACCTGGGAGACTTCTTTATCCTTTGTCTGCC
** *
623600 TGTTTGCTCAAGCC-CTAGAG
65 TGTCGGCTCAAGCCTC-AAAG
* * * * *
623620 ACTTCTTCATCTTTTTGTCTATCTATTGGCTCAGACCTGCGAGACTTCTATATCTTTTGTCTGCC
1 ACTTCTTCATCTTTTTGTCTATC-ATCGACTCAGACCTGGGAGACTTCTTTATCCTTTGTCTGCC
**
623685 -GTCAACTCAAGCCT-AAGAG
65 TGTCGGCTCAAGCCTCAA-AG
* *** *
623704 ACTTCTTCATCTTTTTGTCTATCCGTCGACTCAGACCCAAGAGAC-TCTTATATCCTTTGTCTTC
1 ACTTCTTCATCTTTTTGTCTAT-CATCGACTCAGACCTGGGAGACTTCTT-TATCCTTTGTCTGC
** * *
623768 CTGTCGGCTCAAGTTTTAGAG
64 CTGTCGGCTCAAGCCTCAAAG
*
623789 ACTTCTTAATCTTTT
1 ACTTCTTCATCTTTT
623804 CATCTACCTG
Statistics
Matches: 280, Mismatches: 63, Indels: 24
0.76 0.17 0.07
Matches are distributed among these distances:
83 4 0.01
84 64 0.23
85 147 0.52
86 64 0.23
87 1 0.00
ACGTcount: A:0.18, C:0.26, G:0.15, T:0.40
Consensus pattern (84 bp):
ACTTCTTCATCTTTTTGTCTATCATCGACTCAGACCTGGGAGACTTCTTTATCCTTTGTCTGCCT
GTCGGCTCAAGCCTCAAAG
Found at i:623639 original size:554 final size:553
Alignment explanation
Indices: 622455--623640 Score: 1395
Period size: 554 Copynumber: 2.1 Consensus size: 553
622445 CTGCCCGTCG
* ** * * *
622455 ACTCAAGCTCGAGAGACTTCTT-TATTTTTTTGTCTACCCATCGACTCAAACCTGTGAGA-TTTT
1 ACTCAAGCTCGAAAGACTTCTTATA-TCCTTTGTCTACCCATCGACTCAGACCTGAGAGACTTCT
* * ** * * *
622518 TATATCTTTTGTCTACCATCGGCTCAAGCTCGGGAGACTTTTTCATCTTTTTGTCTGCCTATTGA
65 T-CATCTTTTGTCTACCATCGACTCAAGCTCGAAAGACTTCTTCATCTTTTTGTCTGCCCATCGA
* *
622583 CTCAAATCGGAGAAACTTATTTATCCTTTGTCTGCCTATCGGCTAAGGCTCAAGAGACTTCTTCA
129 CTCAAACCGGAGAAACTTATTTATCCTTTGTCTGCCCATCGGCTAAGGCTCAAGAGACTTCTTCA
* * * *
622648 TCTCTTTGTTAACCCGTCGGCTCAGTCCTAGGAAACAACCTTCTTCTTATTGTTTACCTATCGGC
194 TCTCTTTGTTAACCCGTCAGCTCAGTCCTAGGAAAAAACCTTCATCTCATTGTTTACCTATCGGC
* * * * *
622713 TCTATCCCTGGTAAACCCCTTATCTCCTCTGTGACTTGTCAATTTAGTCCTTGATTAACCCCTTA
259 TCTATCCCCGGTAAACCCCTTATCTCCTCTGTGACTTATCAACTTAGTCCTCGATCAACCCCTTA
* * *
622778 TCTTTTGTTTCTCGTTGACTCAAACCCGAGAAACTTTTTCATCTTTTTGTCTGCTTATTGGCTTA
324 TCTTTTGTTTCCCGTTGACTCAAACCCGAGAAACTTTTTCATCTTTTTGTCTACTCATTGGCTTA
* * * * * *
622843 GACCTGGTAGGCATATTTATCCTTTGTTTGCCCCTCTATTAAAGCCCGAGAGACTTCTTTATCTT
389 GACCCGGTAGACATATTTATCCTTTGTTTGCCCATCTACTAAAGCCCGAGAGACTTCTTCATCGT
* * *
622908 TTTATTTACCTGTCGGCTCATACTTGGGAGACTTATTTATCCTTTGTTTACCCATCGAGTCAAGC
454 TTTATTTACCCGTCGGCTCAAACTTGGGAGACTTATTTATCCTTTGTCTACCCATCGAGTCAAGC
* * * * *
622973 TCGAGAGACTTCTTCATCTTTTTGTCTGCCCATCG
519 TCGAAAAACTTCTTCATCTCTTTGTCTACCCATCA
* * ** * * *
623008 ACTTAAGCTCGAAAGACTTCTTCATTTTTTTTGTCTGCCCATCGACTCAGACCTGTGAGACTTTT
1 ACTCAAGCTCGAAAGACTTCTT-ATATCCTTTGTCTACCCATCGACTCAGACCTGAGAGACTTCT
* *
623073 TTATCCTTTGTCTACCATCGACTCAAGCTCGAAAGACTTCTTCATCTTTTTGTCTGCCCATCGAC
65 TCATCTTTTGTCTACCATCGACTCAAGCTCGAAAGACTTCTTCATCTTTTTGTCTGCCCATCGAC
* * * **
623138 TTAAACCGGAGAAACTTATTTATCCTTTGTCTGCCCGTCGGCTTAGGCTCGGGAGACTTCTTCAT
130 TCAAACCGGAGAAACTTATTTATCCTTTGTCTGCCCATCGGCTAAGGCTCAAGAGACTTCTTCAT
* * * *
623203 CTCTTTGTTAGCCCGTCAGCTCAGTCCTTGGAAAAAACCTTCATCTCATTGTTTACTTGTCGGCT
195 CTCTTTGTTAACCCGTCAGCTCAGTCCTAGGAAAAAACCTTCATCTCATTGTTTACCTATCGGCT
*
623268 CTATCCCCGGTAAACCCCTTATCTCCTC-GATGACTTATCAACTTAGTCGTCGATCAA-CCCTTC
260 CTATCCCCGGTAAACCCCTTATCTCCTCTG-TGACTTATCAACTTAGTCCTCGATCAACCCCTT-
* * * *
623331 ATCTTTTGTTTCCCGTTGACTTAGACCTGAGAAACTTCTTT-ATCTTTTTGTCTACTCGTTGGCT
323 ATCTTTTGTTTCCCGTTGACTCAAACCCGAGAAACTT-TTTCATCTTTTTGTCTACTCATTGGCT
* * * *** *
623395 TAGACCCGGTAGACTTCTTTATCCTTTGTTTGCCCATCTACTCAAGCTTTAGAGACTTCTTCGTC
387 TAGACCCGGTAGACATATTTATCCTTTGTTTGCCCATCTACTAAAGCCCGAGAGACTTCTTCATC
* * * * **
623460 AGTTTTGTTTACCCGTCTGCTCAAACTTGGGAGACTTCTTTATCCTTTGTCTGCCTGTCG-GCTC
452 -GTTTTATTTACCCGTCGGCTCAAACTTGGGAGACTTATTTATCCTTTGTCTACCCATCGAG-TC
* **
623524 AGGCCTC-AAAAACTTCTTCATCTCTTTGTCTATGCATCA
515 AAG-CTCGAAAAACTTCTTCATCTCTTTGTCTACCCATCA
* ** ** * *
623563 ACTC-AGACTTGGGAGACTTCTT-TATCCTTTGTCTACCTGTTTG-CTCAAGCCCT-AGAGACTT
1 ACTCAAG-CTCGAAAGACTTCTTATATCCTTTGTCTACC-CATCGACTC-AGACCTGAGAGACTT
623624 CTTCATCTTTTTGTCTA
63 CTTCATC-TTTTGTCTA
623641 TCTATTGGCT
Statistics
Matches: 534, Mismatches: 86, Indels: 25
0.83 0.13 0.04
Matches are distributed among these distances:
553 52 0.10
554 377 0.71
555 102 0.19
556 3 0.01
ACGTcount: A:0.19, C:0.26, G:0.16, T:0.39
Consensus pattern (553 bp):
ACTCAAGCTCGAAAGACTTCTTATATCCTTTGTCTACCCATCGACTCAGACCTGAGAGACTTCTT
CATCTTTTGTCTACCATCGACTCAAGCTCGAAAGACTTCTTCATCTTTTTGTCTGCCCATCGACT
CAAACCGGAGAAACTTATTTATCCTTTGTCTGCCCATCGGCTAAGGCTCAAGAGACTTCTTCATC
TCTTTGTTAACCCGTCAGCTCAGTCCTAGGAAAAAACCTTCATCTCATTGTTTACCTATCGGCTC
TATCCCCGGTAAACCCCTTATCTCCTCTGTGACTTATCAACTTAGTCCTCGATCAACCCCTTATC
TTTTGTTTCCCGTTGACTCAAACCCGAGAAACTTTTTCATCTTTTTGTCTACTCATTGGCTTAGA
CCCGGTAGACATATTTATCCTTTGTTTGCCCATCTACTAAAGCCCGAGAGACTTCTTCATCGTTT
TATTTACCCGTCGGCTCAAACTTGGGAGACTTATTTATCCTTTGTCTACCCATCGAGTCAAGCTC
GAAAAACTTCTTCATCTCTTTGTCTACCCATCA
Found at i:623652 original size:43 final size:42
Alignment explanation
Indices: 623575--623726 Score: 123
Period size: 42 Copynumber: 3.6 Consensus size: 42
623565 TCAGACTTGG
* * * *
623575 GAGACTTCTTTATCCTTTGTCTACCTGTTTGCTCAAGCCCT-A
1 GAGACTTCTTCATCTTTTGTCTATCTGTTAGCTCAAG-CCTAA
* * **
623617 GAGACTTCTTCATCTTTTTGTCTATCTATTGGCTC-AGACCTGC
1 GAGACTTCTTCATC-TTTTGTCTATCTGTTAGCTCAAG-CCTAA
* * * *
623660 GAGACTTCTAT-ATCTTTTGTCT-GCCGTCAACTCAAGCCTAA
1 GAGACTTCT-TCATCTTTTGTCTATCTGTTAGCTCAAGCCTAA
623701 GAGACTTCTTCATCTTTTTGTCTATC
1 GAGACTTCTTCATC-TTTTGTCTATC
623727 CGTCGACTCA
Statistics
Matches: 87, Mismatches: 16, Indels: 13
0.75 0.14 0.11
Matches are distributed among these distances:
40 1 0.01
41 20 0.23
42 36 0.41
43 29 0.33
44 1 0.01
ACGTcount: A:0.18, C:0.26, G:0.14, T:0.41
Consensus pattern (42 bp):
GAGACTTCTTCATCTTTTGTCTATCTGTTAGCTCAAGCCTAA
Found at i:623746 original size:43 final size:43
Alignment explanation
Indices: 623535--623749 Score: 149
Period size: 43 Copynumber: 5.1 Consensus size: 43
623525 GGCCTCAAAA
* * * * * **
623535 ACTTCTTCATCTCTTTGTCTATGCATCAACTCAGACTTGGGAG
1 ACTTCTTCATCTTTTTGTCTATCCGTCGACTCAGACCTAAGAG
* * * *
623578 ACTTCTTTATC-CTTTGTCTA-CCTGTTTG-CTCAAGCCCT-AGAG
1 ACTTCTTCATCTTTTTGTCTATCC-G-TCGACTC-AGACCTAAGAG
** * * **
623620 ACTTCTTCATCTTTTTGTCTATCTATTGGCTCAGACCTGCGAG
1 ACTTCTTCATCTTTTTGTCTATCCGTCGACTCAGACCTAAGAG
* *
623663 ACTTCTAT-ATC-TTTTGTCT-GCCGTCAACTCA-AGCCTAAGAG
1 ACTTCT-TCATCTTTTTGTCTATCCGTCGACTCAGA-CCTAAGAG
*
623704 ACTTCTTCATCTTTTTGTCTATCCGTCGACTCAGACCCAAGAG
1 ACTTCTTCATCTTTTTGTCTATCCGTCGACTCAGACCTAAGAG
623747 ACT
1 ACT
623750 CTTATATCCT
Statistics
Matches: 134, Mismatches: 25, Indels: 26
0.72 0.14 0.14
Matches are distributed among these distances:
40 2 0.01
41 22 0.16
42 49 0.37
43 58 0.43
44 3 0.02
ACGTcount: A:0.20, C:0.27, G:0.15, T:0.38
Consensus pattern (43 bp):
ACTTCTTCATCTTTTTGTCTATCCGTCGACTCAGACCTAAGAG
Found at i:623763 original size:169 final size:170
Alignment explanation
Indices: 623490--623846 Score: 407
Period size: 169 Copynumber: 2.1 Consensus size: 170
623480 TCAAACTTGG
* ** *
623490 GAGACTTCTTTATCCTTTGTCTGCCTGTCGGCTCAGGCCTCAAAAACTTCTTCATCTCTTTGTCT
1 GAGACTTCTATATCCTTTGTCTGCCTGTCAACTCAAGCCTCAAAAACTTCTTCATCTCTTTGTCT
* **** **
623555 ATGCATCAACTCAGACTTGGGAGACTTCTTTATCCTTTGTCTACCTGTTTGCTCAAGCCCTAGAG
66 ATCCATCAACTCAGACCCAAGAGACTTCTTTATCCTTTGTCTACCTGTCGGCTCAAGCCCTAGAG
* ** *
623620 ACTTCTTCATCTTTTTGTCTATCTATTGGCTCAGACCTGC
131 ACTTCTTAATCTTTTCATCTACCTATTGGCTCAGACCTGC
* * *
623660 GAGACTTCTATATCTTTTGTCTGCC-GTCAACTCAAGCCT-AAGAGACTTCTTCATCTTTTTGTC
1 GAGACTTCTATATCCTTTGTCTGCCTGTCAACTCAAGCCTCAA-AAACTTCTTCATCTCTTTGTC
* * * ***
623723 TATCCGTCGACTCAGACCCAAGAGAC-TCTTATATCCTTTGTCTTCCTGTCGGCTCAAGTTTTAG
65 TATCCATCAACTCAGACCCAAGAGACTTCTT-TATCCTTTGTCTACCTGTCGGCTCAAGCCCTAG
* *
623787 AGACTTCTTAATCTTTTCATCTACCTGTTGGCTCAGACTCAG-
129 AGACTTCTTAATCTTTTCATCTACCTATTGGCTCAGAC-CTGC
* *
623829 GAGACTTTTTTATCCTTT
1 GAGACTTCTATATCCTTT
623847 ATCTACCCAA
Statistics
Matches: 155, Mismatches: 29, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
168 6 0.04
169 124 0.80
170 25 0.16
ACGTcount: A:0.19, C:0.27, G:0.15, T:0.39
Consensus pattern (170 bp):
GAGACTTCTATATCCTTTGTCTGCCTGTCAACTCAAGCCTCAAAAACTTCTTCATCTCTTTGTCT
ATCCATCAACTCAGACCCAAGAGACTTCTTTATCCTTTGTCTACCTGTCGGCTCAAGCCCTAGAG
ACTTCTTAATCTTTTCATCTACCTATTGGCTCAGACCTGC
Found at i:623822 original size:85 final size:85
Alignment explanation
Indices: 623364--623853 Score: 275
Period size: 85 Copynumber: 5.8 Consensus size: 85
623354 GACCTGAGAA
* * * *
623364 ACTTCTTTATCTTTTTGTCTA-CTCGTTGGCTTAGACCC-GGTAGACTTCTT-TATCCTTTGTTT
1 ACTTCTTCATCTTTTTGTCTACCT-GTTGGCTCAGACCCAAG-AGAC-TCTTATATCCTTTGTCT
* ** *
623426 GCCCATCTA-CTCAAGCTTTAGAG
63 ACCTGTC-AGCTCAAGCCTTAGAG
* * * * * ****
623449 ACTTCTTCGTCAGTTTTGTTTACCCGTCT-GCTCAAACTTGGGAGACTTCTT-TATCCTTTGTCT
1 ACTTCTTCATC-TTTTTGTCTACCTGT-TGGCTCAGACCCAAGAGAC-TCTTATATCCTTTGTCT
* * * * * *
623512 GCCTGTCGGCTCAGGCCTCAAAA
63 ACCTGTCAGCTCAAGCCTTAGAG
* *** ****
623535 ACTTCTTCATCTCTTTGTCTA--TGCATCAACTCAGACTTGGGAGACTTCTT-TATCCTTTGTCT
1 ACTTCTTCATCTTTTTGTCTACCTG--TTGGCTCAGACCCAAGAGAC-TCTTATATCCTTTGTCT
** *
623597 ACCTGTTTGCTCAAGCCCTAGAG
63 ACCTGTCAGCTCAAGCCTTAGAG
* * *** * *
623620 ACTTCTTCATCTTTTTGTCTATCTATTGGCTCAGACCTGCGAGACT-TCTATATCTTTTGTCTGC
1 ACTTCTTCATCTTTTTGTCTACCTGTTGGCTCAGACCCAAGAGACTCT-TATATCCTTTGTCTAC
* *
623684 C-GTCAACTCAAGCCTAAGAG
65 CTGTCAGCTCAAGCCTTAGAG
* * *
623704 ACTTCTTCATCTTTTTGTCTATCC-GTCGACTCAGACCCAAGAGACTCTTATATCCTTTGTCTTC
1 ACTTCTTCATCTTTTTGTCTA-CCTGTTGGCTCAGACCCAAGAGACTCTTATATCCTTTGTCTAC
* **
623768 CTGTCGGCTCAAGTTTTAGAG
65 CTGTCAGCTCAAGCCTTAGAG
* ** * * * * *
623789 ACTTCTTAATCTTTTCATCTACCTGTTGGCTCAGACTCAGGAGACTTTTTTATCCTTTATCTACC
1 ACTTCTTCATCTTTTTGTCTACCTGTTGGCTCAGACCCAAGAGACTCTTATATCCTTTGTCTACC
623854 CAACTTCATT
Statistics
Matches: 316, Mismatches: 73, Indels: 32
0.75 0.17 0.08
Matches are distributed among these distances:
83 2 0.01
84 70 0.22
85 179 0.57
86 60 0.19
87 5 0.02
ACGTcount: A:0.18, C:0.27, G:0.15, T:0.40
Consensus pattern (85 bp):
ACTTCTTCATCTTTTTGTCTACCTGTTGGCTCAGACCCAAGAGACTCTTATATCCTTTGTCTACC
TGTCAGCTCAAGCCTTAGAG
Found at i:626001 original size:148 final size:150
Alignment explanation
Indices: 625826--626096 Score: 404
Period size: 148 Copynumber: 1.8 Consensus size: 150
625816 GGGTTATTTT
* * *
625826 GTCTAAAATTGTTAAAATATATCTAATAATGTCATGGAATTCCCATTATATTATTTTTGAAAATT
1 GTCTAAAATTGTTAAAATATATCTAATAATGTCATGGAATTCCCATTAAATCAGTTTTGAAAATT
* * ** * *
625891 TAATTCATTTTCTTTAGTTTT-GGA-TTTTTCTTTGAAATCTCC-CTTTTCTCGAAAAACTAATA
66 TAATTCATTTTCATGAGTTTTAAAATTTTTTCTTTAAAATC-CCTCTCTTCTCGAAAAACTAATA
625953 TTTTTGGGAGGATTTTCTTCG
130 TTTTTGGGAGGATTTTCTTCG
* * *
625974 GTCTAAAATTTTTAAAATGTGTCTAATAATGTCATGGAATTCCCATTAAATCAGTTTTGAAAATT
1 GTCTAAAATTGTTAAAATATATCTAATAATGTCATGGAATTCCCATTAAATCAGTTTTGAAAATT
626039 TAATTCATTTTCATGAGTTTTAAAATTTTTTCTTTAAAATCCCTCTCTTCTCGAAAAA
66 TAATTCATTTTCATGAGTTTTAAAATTTTTTCTTTAAAATCCCTCTCTTCTCGAAAAA
626097 TTGAGTTTTA
Statistics
Matches: 108, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
148 78 0.72
149 3 0.03
150 27 0.25
ACGTcount: A:0.31, C:0.13, G:0.10, T:0.45
Consensus pattern (150 bp):
GTCTAAAATTGTTAAAATATATCTAATAATGTCATGGAATTCCCATTAAATCAGTTTTGAAAATT
TAATTCATTTTCATGAGTTTTAAAATTTTTTCTTTAAAATCCCTCTCTTCTCGAAAAACTAATAT
TTTTGGGAGGATTTTCTTCG
Found at i:626136 original size:167 final size:167
Alignment explanation
Indices: 625949--626318 Score: 510
Period size: 167 Copynumber: 2.2 Consensus size: 167
625939 TCGAAAAACT
* *
625949 AATATTTTTGGGAGGATTTTCTTCGGTCTAAAATTTTTAAAATGTGTCTAATAATGTCATGGAAT
1 AATATTTTTGGGAGGATTTTCTTCGGTCTAAAATTTTTAAAATGTATCTAATAATATCATGGAAT
* * * *
626014 TCCCATTAAATCAGTTTTGAAAATTTAATTCATTTTCATGAGTTTTAAAATTTTTTCTTTAAAAT
66 TCCCAATAAATCAGTTTTAAAAATTTAATTCATTTTCATAAATTTTAAAATTTTTTCTTTAAAAT
* *
626079 CCCTCTCTTCTCGAAAAA-TTGAGTTTTATATTCCATA
131 CCCTCTCTTCCCGAAAAACTT-AGTTTTATATTCCAAA
* * * *
626116 AATATTTTCGGG-GAGATTTTCTTTGGTCTAAAATTTTTAAAATGTATCTAATGATATCGTGGAA
1 AATATTTTTGGGAG-GATTTTCTTCGGTCTAAAATTTTTAAAATGTATCTAATAATATCATGGAA
* * * *
626180 TTCTCAATAAATCAGTTTTAAAAATTTAATTCATTTTCATAAATTTTAGATTTTTTTCTTTGAAA
65 TTCCCAATAAATCAGTTTTAAAAATTTAATTCATTTTCATAAATTTTAAAATTTTTTCTTTAAAA
* * * *
626245 TCTCTTTTTTCCCGAAAAACTTAGTTTTCTATTCCAAA
130 TCCCTCTCTTCCCGAAAAACTTAGTTTTATATTCCAAA
* *
626283 AATATTTTTAGGAGGATTTTCTTGGGTCTAAAATTT
1 AATATTTTTGGGAGGATTTTCTTCGGTCTAAAATTT
626319 ATCTAATATT
Statistics
Matches: 177, Mismatches: 23, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
166 1 0.01
167 173 0.98
168 3 0.02
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.46
Consensus pattern (167 bp):
AATATTTTTGGGAGGATTTTCTTCGGTCTAAAATTTTTAAAATGTATCTAATAATATCATGGAAT
TCCCAATAAATCAGTTTTAAAAATTTAATTCATTTTCATAAATTTTAAAATTTTTTCTTTAAAAT
CCCTCTCTTCCCGAAAAACTTAGTTTTATATTCCAAA
Found at i:633709 original size:79 final size:79
Alignment explanation
Indices: 633595--634040 Score: 371
Period size: 79 Copynumber: 5.7 Consensus size: 79
633585 CAAGACACCG
* * ** ** *
633595 ATTTTTCACCATCGGGGATACTCTGACCCTGTTATTTCTAAGGGGATACTTCAACCCCGGCTTTA
1 ATTTTTCACAATCAGGGATACTCCAACCCCATTATTTCTAAGGGGATACTCCAACCCCGGCTTTA
*
633660 TTTCTAAAATATCA
66 TTTCTAAAACATCA
** * *
633674 ATTTTTCACAATCAGAAATACTCCAACACCATTATTTCTAAGGGGATACTCCAACCCCGGCCTTA
1 ATTTTTCACAATCAGGGATACTCCAACCCCATTATTTCTAAGGGGATACTCCAACCCCGGCTTTA
*
633739 TTTCTAAAACATCG
66 TTTCTAAAACATCA
* * * ** * * **
633753 ATTTTCCATAATCGGGGATACTTTAACCCCGTTATTTCTGAGGGGATACTCCAACCCCGATTTTA
1 ATTTTTCACAATCAGGGATACTCCAACCCCATTATTTCTAAGGGGATACTCCAACCCCGGCTTTA
* * *
633818 TTTCCAAAACACCC
66 TTTCTAAAACATCA
* * * * * *
633832 ATATTTCACCATCAGGGATA-TCCAACCCCATTATTTTCGAA-GGGATAATCTAACCCTGGCTTT
1 ATTTTTCACAATCAGGGATACTCCAACCCCATTA-TTTCTAAGGGGATACTCCAACCCCGGCTTT
633895 ATTTCTAAAACATCA
65 ATTTCTAAAACATCA
* * * * * * ** * ****
633910 ATTTTCCATAATCGGGGATACTCTAACCTCGTTATTTCCGAGAGGATACTCCTAACCCTAATTTT
1 ATTTTTCACAATCAGGGATACTCCAACCCCATTATTTCTAAGGGGATACTCC-AACCCCGGCTTT
**
633975 ATTTCTAAAACATTG
65 ATTTCTAAAACATCA
* * * *
633990 ATTTTTCACCAT--TGGATAACTCCAACCTCGTTATTTCTGAAGGGG-TACTCC
1 ATTTTTCACAATCAGGGAT-ACTCCAACCCCATTATTTCT-AAGGGGATACTCC
634041 GACTCCATTT
Statistics
Matches: 288, Mismatches: 73, Indels: 12
0.77 0.20 0.03
Matches are distributed among these distances:
78 63 0.22
79 190 0.66
80 35 0.12
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.33
Consensus pattern (79 bp):
ATTTTTCACAATCAGGGATACTCCAACCCCATTATTTCTAAGGGGATACTCCAACCCCGGCTTTA
TTTCTAAAACATCA
Found at i:633819 original size:158 final size:157
Alignment explanation
Indices: 633605--634040 Score: 502
Period size: 158 Copynumber: 2.8 Consensus size: 157
633595 ATTTTTCACC
* * * * ** *
633605 ATCGGGGATACTCTGACCCTGTTATTTCTAAGGGGATACTTCAACCCCGGCTTTATTTCTAAAAT
1 ATCGGGGATACTCTAACCCCGTTATTTCTGAGGGGATACTCCAACCCCGATTTTATTTCTAAAAC
*
633670 ATCAATTTTTCACAATCAGAAATACTCCAACACCATTATTTCTAAGGGGATACTCCAACCCCGGC
66 ATCAATTTTTCACCATCAGAAATACTCCAAC-CCATTATTTCTAAGGGGATACTCCAACCCCGGC
*
633735 CTTATTTCTAAAACATCGATTTTCCATA
130 CTTATTTCTAAAACATCAATTTTCCATA
* *
633763 ATCGGGGATACTTTAACCCCGTTATTTCTGAGGGGATACTCCAACCCCGATTTTATTTCCAAAAC
1 ATCGGGGATACTCTAACCCCGTTATTTCTGAGGGGATACTCCAACCCCGATTTTATTTCTAAAAC
* * * ** * * * *
633828 ACCCATATTTCACCATCAGGGATA-TCCAACCCCATTATTTTCGAA-GGGATAATCTAACCCTGG
66 ATCAATTTTTCACCATCAGAAATACTCCAA-CCCATTA-TTTCTAAGGGGATACTCCAACCCCGG
*
633891 CTTTATTTCTAAAACATCAATTTTCCATA
129 CCTTATTTCTAAAACATCAATTTTCCATA
* * * **
633920 ATCGGGGATACTCTAACCTCGTTATTTCCGAGAGGATACTCCTAACCCTAATTTTATTTCTAAAA
1 ATCGGGGATACTCTAACCCCGTTATTTCTGAGGGGATACTCC-AACCCCGATTTTATTTCTAAAA
** ** * *
633985 CATTGATTTTTCACCATTGGATA-ACTCCAACCTCGTTATTTCTGAAGGGG-TACTCC
65 CATCAATTTTTCACCATCAGAAATACTCCAACC-CATTATTTCT-AAGGGGATACTCC
634041 GACTCCATTT
Statistics
Matches: 231, Mismatches: 40, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
157 98 0.42
158 130 0.56
159 3 0.01
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (157 bp):
ATCGGGGATACTCTAACCCCGTTATTTCTGAGGGGATACTCCAACCCCGATTTTATTTCTAAAAC
ATCAATTTTTCACCATCAGAAATACTCCAACCCATTATTTCTAAGGGGATACTCCAACCCCGGCC
TTATTTCTAAAACATCAATTTTCCATA
Found at i:640824 original size:33 final size:33
Alignment explanation
Indices: 640787--640853 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
640777 TTCAACGATT
640787 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
640820 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
640853 T
1 T
640854 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:640825 original size:13 final size:13
Alignment explanation
Indices: 640807--640831 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
640797 CATAAAATGT
640807 TGTATCGATACAA
1 TGTATCGATACAA
640820 TGTATCGATACA
1 TGTATCGATACA
640832 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:640912 original size:13 final size:13
Alignment explanation
Indices: 640894--640918 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
640884 ATTACTCAAA
640894 TGTATCGATACAT
1 TGTATCGATACAT
640907 TGTATCGATACA
1 TGTATCGATACA
640919 CCGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:640970 original size:52 final size:53
Alignment explanation
Indices: 640907--641046 Score: 169
Period size: 52 Copynumber: 2.7 Consensus size: 53
640897 ATCGATACAT
*** * * *
640907 TGTATCGATACACCGAT-CTTTGTATTGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACCGATAAAATGTATCGATACATGCAGGAAAATCTGCCCAGA
**
640959 TGTATCGATACA-TTATAAAATGTATCGATACATGCAGGAAAATCTGCCCAGA
1 TGTATCGATACACCGATAAAATGTATCGATACATGCAGGAAAATCTGCCCAGA
* *
641011 TGTATCGATACA-CTATTAAATGTATCGATACATGCA
1 TGTATCGATACACCGATAAAATGTATCGATACATGCA
641047 AGTAACTTTT
Statistics
Matches: 77, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
51 2 0.03
52 75 0.97
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (53 bp):
TGTATCGATACACCGATAAAATGTATCGATACATGCAGGAAAATCTGCCCAGA
Found at i:646845 original size:52 final size:52
Alignment explanation
Indices: 646645--646825 Score: 335
Period size: 52 Copynumber: 3.5 Consensus size: 52
646635 CGAAATATGA
* *
646645 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTAGGC
646697 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTAGGC
646749 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTAGGC
*
646801 AAATTTGCCTCCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
646826 AAGATCAGTG
Statistics
Matches: 126, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 126 1.00
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTAGGC
Found at i:646949 original size:32 final size:33
Alignment explanation
Indices: 646903--646964 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
646893 ACTTACATTG
* *
646903 TATCGATACAACAC-TTATGTATCGCTACACTA
1 TATCAATACAACACTTTATGTATCGATACACTA
646935 TATCAATACAACACTTTATGTATCGATACA
1 TATCAATACAACACTTTATGTATCGATACA
646965 AATCGTTGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 13 0.48
33 14 0.52
ACGTcount: A:0.37, C:0.23, G:0.08, T:0.32
Consensus pattern (33 bp):
TATCAATACAACACTTTATGTATCGATACACTA
Found at i:648743 original size:21 final size:21
Alignment explanation
Indices: 648719--648758 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
648709 ATACTAAAAC
648719 ATTTTATAAA-AATTTTTTAGT
1 ATTTTA-AAAGAATTTTTTAGT
*
648740 ATTTTAAAAGGATTTTTTA
1 ATTTTAAAAGAATTTTTTA
648759 ACATGCAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (21 bp):
ATTTTAAAAGAATTTTTTAGT
Found at i:650232 original size:52 final size:51
Alignment explanation
Indices: 650145--650268 Score: 187
Period size: 52 Copynumber: 2.4 Consensus size: 51
650135 ATATGAAAAG
* * *
650145 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTAGGCAAA
1 TTGCCTGCATGTATCGATACATTTAATAATATATCGATACATCTAGGCAAA
*
650196 TTTGCCTGCATGTATCGATACATTTTAA-AATATATCGATACATCTGGGCAAA
1 -TTGCCTGCATGTATCGATACA-TTTAATAATATATCGATACATCTAGGCAAA
650248 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
650269 AAGATCAATG
Statistics
Matches: 67, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
51 21 0.31
52 41 0.61
53 5 0.07
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.35
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTTAATAATATATCGATACATCTAGGCAAA
Found at i:650281 original size:20 final size:20
Alignment explanation
Indices: 650256--650322 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 20
650246 AATTGCCTGC
650256 ATGTATCGATACAAAGATCA
1 ATGTATCGATACAAAGATCA
650276 ATGTATCGAT------A-CA
1 ATGTATCGATACAAAGATCA
650289 ATGTATCGATACAAAGATCA
1 ATGTATCGATACAAAGATCA
*
650309 GTGTATCGATACAA
1 ATGTATCGATACAA
650323 TGTATCGATA
Statistics
Matches: 39, Mismatches: 1, Indels: 14
0.72 0.02 0.26
Matches are distributed among these distances:
13 12 0.31
14 1 0.03
19 1 0.03
20 25 0.64
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.27
Consensus pattern (20 bp):
ATGTATCGATACAAAGATCA
Found at i:650283 original size:51 final size:52
Alignment explanation
Indices: 650145--650288 Score: 159
Period size: 52 Copynumber: 2.8 Consensus size: 52
650135 ATATGAAAAG
* ** *
650145 TTGCTTGCATGTATCGATAC-ATTTAATAGTGTATCGATACATCTAGGCAAAT
1 TTGCCTGCATGTATCGATACAAGATAA-AATGTATCGATACATCTAGGCAAAT
*** * *
650197 TTGCCTGCATGTATCGATACATTTTAAAATATATCGATACATCTGGGCAAA-
1 TTGCCTGCATGTATCGATACAAGATAAAATGTATCGATACATCTAGGCAAAT
*
650248 TTGCCTGCATGTATCGATACAAAGAT-CAATGTATCGATACA
1 TTGCCTGCATGTATCGATAC-AAGATAAAATGTATCGATACA
650289 ATGTATCGAT
Statistics
Matches: 80, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
51 33 0.41
52 42 0.52
53 5 0.06
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACAAGATAAAATGTATCGATACATCTAGGCAAAT
Found at i:650292 original size:13 final size:13
Alignment explanation
Indices: 650274--650334 Score: 71
Period size: 13 Copynumber: 5.2 Consensus size: 13
650264 ATACAAAGAT
650274 CAATGTATCGATA
1 CAATGTATCGATA
650287 CAATGTATCGATA
1 CAATGTATCGATA
650300 CAA---A--GAT-
1 CAATGTATCGATA
*
650307 CAGTGTATCGATA
1 CAATGTATCGATA
650320 CAATGTATCGATA
1 CAATGTATCGATA
650333 CA
1 CA
650335 TTTGAGTAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
7 2 0.05
8 3 0.08
10 2 0.05
12 3 0.08
13 30 0.75
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.28
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:650298 original size:33 final size:33
Alignment explanation
Indices: 650256--650334 Score: 149
Period size: 33 Copynumber: 2.4 Consensus size: 33
650246 AATTGCCTGC
650256 ATGTATCGATACAAAGATCAATGTATCGATACA
1 ATGTATCGATACAAAGATCAATGTATCGATACA
*
650289 ATGTATCGATACAAAGATCAGTGTATCGATACA
1 ATGTATCGATACAAAGATCAATGTATCGATACA
650322 ATGTATCGATACA
1 ATGTATCGATACA
650335 TTTGAGTAAT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.28
Consensus pattern (33 bp):
ATGTATCGATACAAAGATCAATGTATCGATACA
Found at i:650412 original size:33 final size:33
Alignment explanation
Indices: 650375--650441 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
650365 AGTAGCTTAA
650375 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
650408 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
650441 A
1 A
650442 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:650415 original size:13 final size:13
Alignment explanation
Indices: 650397--650421 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
650387 CAAAAAAATA
650397 TGTATCGATACAT
1 TGTATCGATACAT
650410 TGTATCGATACA
1 TGTATCGATACA
650422 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:651312 original size:56 final size:52
Alignment explanation
Indices: 651236--651471 Score: 199
Period size: 49 Copynumber: 4.7 Consensus size: 52
651226 ATAAAGATGC
* * * * * * *
651236 CAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGATGAAAAAGGATGT
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG--G-AAAAGG-CGA
* * *
651292 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGCGA
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGAAAAGGCGA
* *
651344 CGATATGCTGATTCAAGGCCAGCTATATTGGACTT-AA-A-GG----TGC--
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGAAAAGGCGA
* * * *
651387 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-GAAGATGC--
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGAAAAGGCGA
*
651436 CAATATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTA
651472 GAAGGGTTGC
Statistics
Matches: 152, Mismatches: 21, Indels: 21
0.78 0.11 0.11
Matches are distributed among these distances:
43 32 0.21
44 2 0.01
45 4 0.03
49 38 0.25
50 1 0.01
51 2 0.01
52 32 0.21
53 6 0.04
54 1 0.01
56 34 0.22
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.26
Consensus pattern (52 bp):
CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGAAAAGGCGA
Found at i:651456 original size:49 final size:49
Alignment explanation
Indices: 651287--651471 Score: 211
Period size: 49 Copynumber: 3.8 Consensus size: 49
651277 GATGAAAAAG
* * *
651287 GATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAA
1 GATGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-GAA
* * * *
651337 AAGGCGACGATATGCTGATTCAAGGCCAGCTATATTGGACTT-AA-A-G--
1 GATGC--CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAA
*
651383 G-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAA
1 GATGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAA
* *
651431 GATGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 GATGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTA
651472 GAAGGGTTGC
Statistics
Matches: 112, Mismatches: 15, Indels: 17
0.78 0.10 0.12
Matches are distributed among these distances:
43 32 0.29
44 2 0.02
45 3 0.03
46 1 0.01
48 2 0.02
49 36 0.32
50 3 0.03
51 2 0.02
52 31 0.28
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (49 bp):
GATGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAA
Found at i:651483 original size:95 final size:94
Alignment explanation
Indices: 651283--651476 Score: 293
Period size: 95 Copynumber: 2.1 Consensus size: 94
651273 AGATGATGAA
* *
651283 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGCGACGAT
1 AAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGC-ACAAT
651348 ATGCTGATTCAAGGCCAGCTATATTGGACTT
64 ATGCTGATTCAAGGCCAGCTATATTGGACTT
* * *
651379 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-GAAGATGC-CAATAT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGCACAATAT
*
651442 GCTGATTCAAGGCCAGCTATATTGGGCTT
66 GCTGATTCAAGGCCAGCTATATTGGACTT
651471 AGAAGG
1 A-AAGG
651477 GTTGCCACCG
Statistics
Matches: 91, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
92 34 0.37
93 4 0.04
94 6 0.07
95 42 0.46
96 5 0.05
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.25
Consensus pattern (94 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGCACAATAT
GCTGATTCAAGGCCAGCTATATTGGACTT
Found at i:651515 original size:33 final size:35
Alignment explanation
Indices: 651471--651540 Score: 117
Period size: 33 Copynumber: 2.1 Consensus size: 35
651461 TATTGGGCTT
651471 AGAAGGGTTGCCACCGACTTGTGTGGGCTTT-GGA
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGGA
*
651505 AGAA-GGTTGCCATCGACTTGTGTGGGCTTTAGGA
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGGA
651539 AG
1 AG
651541 GGAGAAAGAT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
33 25 0.74
34 9 0.26
ACGTcount: A:0.20, C:0.16, G:0.37, T:0.27
Consensus pattern (35 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGGA
Found at i:651724 original size:32 final size:31
Alignment explanation
Indices: 651545--651867 Score: 281
Period size: 34 Copynumber: 9.9 Consensus size: 31
651535 AGGAAGGGAG
* * *
651545 AAAGATGCCACGGAGTTGTGGACTTAAAAGGGAA
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAA--G-A
651579 AAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGA
1 AAAG-GTGCCACGGAGTTGTGGGCTTT--AAAGA
*
651613 AGGAGGTGCCACGGAGTTGTGGGCTTTGAAAAGA
1 A-AAGGTGCCACGGAGTTGTGGGCTTT--AAAGA
651647 AGAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGA
1 A-AAGGTGCCACGGAGTTGTGGGCTTT--AAAGA
*
651681 AGAAGGTGCCACAGAGTTGTGGGCTTTAAAGGA
1 A-AAGGTGCCACGGAGTTGTGGGCTTTAAA-GA
*
651714 AAAGGTGCCACGGAGTTGTGGGCTTTGAAGA
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAAGA
** * * * *
651745 AAAAATGCCACTGAGTCGTGGACTTT-GAGA
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAAGA
* * * *
651775 CAAA-ATGCCACTGAGTCGTGGACTTTAAAGA
1 -AAAGGTGCCACGGAGTTGTGGGCTTTAAAGA
* * *
651806 AAAGGATGCCACTGAGTCGTGGACTTTAAAGA
1 AAAGG-TGCCACGGAGTTGTGGGCTTTAAAGA
* * *
651838 AAAGGATGCCACTGAGTCGTGGACTTTAAA
1 AAAGG-TGCCACGGAGTTGTGGGCTTTAAA
651868 AAGGTATTTG
Statistics
Matches: 264, Mismatches: 16, Indels: 20
0.88 0.05 0.07
Matches are distributed among these distances:
30 28 0.11
31 29 0.11
32 85 0.32
33 3 0.01
34 94 0.36
35 22 0.08
37 3 0.01
ACGTcount: A:0.32, C:0.14, G:0.33, T:0.21
Consensus pattern (31 bp):
AAAGGTGCCACGGAGTTGTGGGCTTTAAAGA
Found at i:651840 original size:93 final size:94
Alignment explanation
Indices: 651616--651864 Score: 261
Period size: 93 Copynumber: 2.6 Consensus size: 94
651606 GAAAAGAAGG
* * * * * * * *
651616 AGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAG-GTGCCACGGAGTTGTGGGCTTTGAAAAG
1 AGGTGCCACGGAGTCGTGGACTTT--AAAGAA-AAGAATGCCACTGAGTCGTGGACTTTG-AGAC
* *
651680 AAGAAGGTGCCACAGAGTTGTGGGCTTTAAAGGAAA
62 AA-AA--TGCCACAGAGTCGTGGACTTTAAAGGAAA
* * *
651716 AGGTGCCACGGAGTTGTGGGCTTTGAAGAAAA-AATGCCACTGAGTCGTGGACTTTGAGACAAAA
1 AGGTGCCACGGAGTCGTGGACTTTAAAGAAAAGAATGCCACTGAGTCGTGGACTTTGAGACAAAA
*
651780 TGCCACTGAGTCGTGGACTTTAAA-GAAA
66 TGCCACAGAGTCGTGGACTTTAAAGGAAA
* *
651808 AGGATGCCACTGAGTCGTGGACTTTAAAGAAAAGGATGCCACTGAGTCGTGGACTTT
1 AGG-TGCCACGGAGTCGTGGACTTTAAAGAAAAGAATGCCACTGAGTCGTGGACTTT
651865 AAAAAGGTAT
Statistics
Matches: 131, Mismatches: 15, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
92 7 0.05
93 46 0.35
94 22 0.17
95 2 0.02
96 4 0.03
97 21 0.16
98 5 0.04
100 24 0.18
ACGTcount: A:0.30, C:0.15, G:0.33, T:0.22
Consensus pattern (94 bp):
AGGTGCCACGGAGTCGTGGACTTTAAAGAAAAGAATGCCACTGAGTCGTGGACTTTGAGACAAAA
TGCCACAGAGTCGTGGACTTTAAAGGAAA
Found at i:653361 original size:20 final size:20
Alignment explanation
Indices: 653338--653410 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
653328 ACAATTCAAA
653338 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
653358 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
653379 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
653399 GTATCGATACAT
1 GTATCGATACAT
653411 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:653382 original size:21 final size:21
Alignment explanation
Indices: 653356--653431 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
653346 ACATGTTGCA
653356 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
653377 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
653397 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
653418 ATGTATCGATACAT
1 ATGTATCGATACAT
653432 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:653389 original size:41 final size:41
Alignment explanation
Indices: 653338--653431 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
653328 ACAATTCAAA
*
653338 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
653379 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
653420 GTATCGATACAT
1 GTATCGATACAT
653432 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:653488 original size:13 final size:13
Alignment explanation
Indices: 653470--653495 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
653460 TACAGCAAGT
653470 ATGTATCGATACA
1 ATGTATCGATACA
653483 ATGTATCGATACA
1 ATGTATCGATACA
653496 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:657578 original size:15 final size:15
Alignment explanation
Indices: 657558--657588 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
657548 TAAAAATGAC
*
657558 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
657573 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
657588 C
1 C
657589 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:659681 original size:20 final size:21
Alignment explanation
Indices: 659602--659680 Score: 72
Period size: 20 Copynumber: 3.7 Consensus size: 21
659592 AATGTCCAAA
*
659602 ATGTATCGATACATGTTTT-T
1 ATGTATCGATACATCTTTTCT
* *
659622 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACATCT----TTTCT
659647 ATGTATCGATACAT-TTTTCT
1 ATGTATCGATACATCTTTTCT
*
659667 TTGTATCGATACAT
1 ATGTATCGATACAT
659681 TGTATCGATA
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
20 31 0.65
24 3 0.06
25 14 0.29
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.44
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTCT
Found at i:659685 original size:13 final size:13
Alignment explanation
Indices: 659667--659705 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
659657 ACATTTTTCT
659667 TTGTATCGATACA
1 TTGTATCGATACA
659680 TTGTATCGATACA
1 TTGTATCGATACA
*
659693 CTGTATCGATACA
1 TTGTATCGATACA
659706 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:662197 original size:20 final size:20
Alignment explanation
Indices: 662174--662246 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
662164 ACAATTCAAA
662174 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
662194 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
662215 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
662235 GTATCGATACAT
1 GTATCGATACAT
662247 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:662218 original size:21 final size:21
Alignment explanation
Indices: 662192--662267 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
662182 ACATGTTGCA
662192 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
662213 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
662233 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
662254 ATGTATCGATACAT
1 ATGTATCGATACAT
662268 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:662225 original size:41 final size:41
Alignment explanation
Indices: 662174--662267 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
662164 ACAATTCAAA
*
662174 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
662215 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
662256 GTATCGATACAT
1 GTATCGATACAT
662268 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:662324 original size:13 final size:13
Alignment explanation
Indices: 662306--662331 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
662296 TACAGCAAGT
662306 ATGTATCGATACA
1 ATGTATCGATACA
662319 ATGTATCGATACA
1 ATGTATCGATACA
662332 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:663555 original size:61 final size:61
Alignment explanation
Indices: 663455--663886 Score: 801
Period size: 61 Copynumber: 7.1 Consensus size: 61
663445 CTTTAAAAAG
* *
663455 AAAAAGGTGCCACGGAGTTGGGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
663516 AAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
*
663577 AAAAGGGTGCCACAGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
*
663638 AAAAGGGTGCCACGAAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
* *
663699 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGATT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
663760 AAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
663821 AAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGC-TT
663883 AAAA
1 AAAA
663887 AGAAAAAGGT
Statistics
Matches: 360, Mismatches: 10, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
61 354 0.98
62 6 0.02
ACGTcount: A:0.31, C:0.13, G:0.37, T:0.19
Consensus pattern (61 bp):
AAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
Found at i:663641 original size:122 final size:122
Alignment explanation
Indices: 663387--663886 Score: 856
Period size: 122 Copynumber: 4.0 Consensus size: 122
663377 TTAAAAGGGG
* * *
663387 AAAAGAGTGCCATGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGACTTGTGGGCTTTAAA
1 AAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGC-TT-AA
*
663452 AAGAAAAAGGTGCCACGGAGTTGGGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
64 AAG-----GGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
663516 AAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAA
1 AAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAA
*
663581 GGGTGCCACAGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
66 GGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
*
663638 AAAAGGGTGCCACGAAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAA
1 AAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAA
* *
663703 GGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGATT
66 GGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
663760 AAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAA
1 AAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAA
663825 GGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT
66 GGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGC-TT
663883 AAAA
1 AAAA
663887 AGAAAAAGGT
Statistics
Matches: 358, Mismatches: 12, Indels: 8
0.95 0.03 0.02
Matches are distributed among these distances:
122 289 0.81
123 6 0.02
127 5 0.01
128 2 0.01
129 56 0.16
ACGTcount: A:0.32, C:0.13, G:0.36, T:0.20
Consensus pattern (122 bp):
AAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAA
GGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
Found at i:663716 original size:183 final size:184
Alignment explanation
Indices: 663284--663886 Score: 908
Period size: 183 Copynumber: 3.2 Consensus size: 184
663274 TTTTTTTAAG
*
663284 GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTAAAA
1 GGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAAG--GGTGCCACGGAGTTGTGGACTTAAAA
* * *
663349 GGAACAAG-GTGCCAC-GAGGTTGTGGACTTTAAAAGGGGAAAAGAGTGCCATGGAGTTGTGGAC
63 GGAAAAAGAGTGCCACGGA-GTTGTGGGC-TTAAAA---G----G-GTGCCACGGAGTTGTGGAC
* *
663412 TTAGAAGGAAAAAGAGTGCCACGGACTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGGG
118 TTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGC-TT-AAAAG-----GGTGCCACGGAGTTGTG
663477 GACTTAGAA
176 GACTTAGAA
*
663486 GGAAAAAGAGTGCCACGGAGTTGTGGGC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGA
1 GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGA
*
663550 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACAGAGTTGTGGACTTAGAAGGAAAAA
66 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAA
*
663615 GAGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACGAAGTTGTGGACTTAGAA
131 GAGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTGTGGACTTAGAA
663669 GGAAAAAGAGTGCCACGGAGTTGTGGGC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGA
1 GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGA
*
663733 AAAAGAGTGCCACGGAGTTGTGGGATTAAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAA
66 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAA
663798 GAGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTGTGGACTTAGAA
131 GAGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTGTGGACTTAGAA
663852 GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAA
1 GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAA
663887 AGAAAAAGGT
Statistics
Matches: 385, Mismatches: 13, Indels: 24
0.91 0.03 0.06
Matches are distributed among these distances:
183 231 0.60
184 6 0.02
188 5 0.01
189 2 0.01
190 50 0.13
191 1 0.00
195 1 0.00
198 37 0.10
199 15 0.04
200 7 0.02
201 2 0.01
202 28 0.07
ACGTcount: A:0.32, C:0.13, G:0.36, T:0.19
Consensus pattern (184 bp):
GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGA
AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAA
GAGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTGTGGACTTAGAA
Found at i:663959 original size:30 final size:31
Alignment explanation
Indices: 663828--663998 Score: 139
Period size: 34 Copynumber: 5.3 Consensus size: 31
663818 CTTAAAAGGG
* * *
663828 TGCCACGGAGTTGTGGACTTAGAAGGAAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAA-GAAAAA-A
* * * * *
663861 GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGG
1 -TGCCACTGAGTCGTGGACTTT--GAAGAAAAA-A
* *
663896 TGCCACGGAGTTGTAGG-CTTTGAAGAAAAAA
1 TGCCACTGAGTCGT-GGACTTTGAAGAAAAAA
*
663927 TGCCACTGAGTCGTGGACTTTG-AGACAAAA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAA
* *
663957 TGCCACTGAGTCGTGGACTTTAAAGAAAAGGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAA-AA
663989 TGCCACTGAG
1 TGCCACTGAG
663999 CTATATTGGA
Statistics
Matches: 119, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
30 30 0.25
31 22 0.18
32 19 0.16
34 37 0.31
35 9 0.08
36 2 0.02
ACGTcount: A:0.33, C:0.15, G:0.30, T:0.21
Consensus pattern (31 bp):
TGCCACTGAGTCGTGGACTTTGAAGAAAAAA
Found at i:663961 original size:95 final size:96
Alignment explanation
Indices: 663760--663980 Score: 238
Period size: 95 Copynumber: 2.3 Consensus size: 96
663750 TTGTGGGATT
* * * *
663760 AAAAGGGTGCCACGGAGTTGTGGAC-TTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAA
1 AAAAGAGTGCCACGGAGTTGTGGACTTTAAAAAGAAAAAGAGTGCCACGGAGTTGTAGGCTTAAA
*** *
663824 AGGGTGCCACGGAGTTGTGGACTTAGAAGGA
66 AAAATGCCACGGAGTCGTGGACTTAGAAGGA
*
663855 AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAG-GTGCCACGGAGTTGTAGGCTTTGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTTAAAAAGAAAAAGAGTGCCACGGAGTTGTAGGC-TT--
* *
663919 AGAAAAAATGCCACTGAGTCGTGGACTTTG-A-GA
63 A-AAAAAATGCCACGGAGTCGTGGACTTAGAAGGA
* * *
663952 CAAA-A-TGCCACTGAGTCGTGGACTTTAAA
1 AAAAGAGTGCCACGGAGTTGTGGACTTTAAA
663981 GAAAAGGATG
Statistics
Matches: 106, Mismatches: 15, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
95 62 0.58
96 15 0.14
97 5 0.05
98 2 0.02
99 22 0.21
ACGTcount: A:0.33, C:0.14, G:0.33, T:0.21
Consensus pattern (96 bp):
AAAAGAGTGCCACGGAGTTGTGGACTTTAAAAAGAAAAAGAGTGCCACGGAGTTGTAGGCTTAAA
AAAATGCCACGGAGTCGTGGACTTAGAAGGA
Found at i:672386 original size:52 final size:52
Alignment explanation
Indices: 672188--672368 Score: 344
Period size: 52 Copynumber: 3.5 Consensus size: 52
672178 CGAAATATGA
* *
672188 AAATTTGCCTGCATGTATTGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
672240 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
672292 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
672344 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
672369 AAGATCAGTG
Statistics
Matches: 127, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 127 1.00
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
Found at i:676329 original size:20 final size:20
Alignment explanation
Indices: 676304--676369 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
676294 TTTCAACGAT
676304 TTGTATCGATACATAAAATG
1 TTGTATCGATACATAAAATG
676324 TTGTATCGATAC----AA--
1 TTGTATCGATACATAAAATG
676338 -TGTATCGATACATAAAATG
1 TTGTATCGATACATAAAATG
676357 TTGTATCGATACA
1 TTGTATCGATACA
676370 ATGTATCGAT
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 11 0.28
16 2 0.05
17 2 0.05
20 24 0.62
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (20 bp):
TTGTATCGATACATAAAATG
Found at i:676342 original size:33 final size:33
Alignment explanation
Indices: 676305--676404 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
676295 TTCAACGATT
676305 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
676338 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
676371 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
676404 T
1 T
676405 TCAAGCTACT
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 63 1.00
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:676343 original size:13 final size:13
Alignment explanation
Indices: 676325--676382 Score: 53
Period size: 13 Copynumber: 3.9 Consensus size: 13
676315 CATAAAATGT
676325 TGTATCGATACAA
1 TGTATCGATACAA
676338 TGTATCGATACATAAAA
1 TGTATCGATAC----AA
676355 TGTTGTATCGATACAA
1 ---TGTATCGATACAA
676371 TGTATCGATACA
1 TGTATCGATACA
676383 TATTTTTTTG
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 23 0.61
16 2 0.05
17 2 0.05
20 11 0.29
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:676463 original size:13 final size:13
Alignment explanation
Indices: 676445--676469 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
676435 ATCACTTAAA
676445 TGTATCGATACAT
1 TGTATCGATACAT
676458 TGTATCGATACA
1 TGTATCGATACA
676470 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:676520 original size:52 final size:52
Alignment explanation
Indices: 676458--676606 Score: 228
Period size: 52 Copynumber: 2.9 Consensus size: 52
676448 ATCGATACAT
** *
676458 TGTATCGATACACTGAT-CTTTGTATCGATACATGTAGGCAAATTTGCCCAGA
1 TGTATCGATACACT-ATACAATGTATCGATACATGCAGGCAAATTTGCCCAGA
* *
676510 TGTATCGATACATTATAAAATGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACTATACAATGTATCGATACATGCAGGCAAATTTGCCCAGA
*
676562 TGTATCGATACACTATGCAATGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACACTATACAATGTATCGATACATGCAGGCAAATTT
676607 TCATATTTCG
Statistics
Matches: 88, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
51 2 0.02
52 86 0.98
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (52 bp):
TGTATCGATACACTATACAATGTATCGATACATGCAGGCAAATTTGCCCAGA
Found at i:683609 original size:9 final size:9
Alignment explanation
Indices: 683595--683619 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
683585 TCCAAACACA
683595 AAAAAAAAG
1 AAAAAAAAG
683604 AAAAAAAAG
1 AAAAAAAAG
683613 AAAAAAA
1 AAAAAAA
683620 CAAAACAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:684674 original size:31 final size:31
Alignment explanation
Indices: 684639--685100 Score: 206
Period size: 27 Copynumber: 14.8 Consensus size: 31
684629 CAATCTCTGC
* *
684639 TCAAAGTCCACGACTCCGTGGCACTTTCCTT
1 TCAAAGCCCACAACTCCGTGGCACTTTCCTT
684670 TCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTT
1 TCAAAGCCCACAACTCCGTGGCA--C--TTT-CC-TT
*
684707 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTT
1 TCAAAGCCCACAACTCCGTGGCA-C--TTTCCTT
*
684741 TCAAAGCCCACAACTCCATGGCAC---CCTT
1 TCAAAGCCCACAACTCCGTGGCACTTTCCTT
*
684769 T-TAAGCCCACAACTCCGTGGCACTTT--TT
1 TCAAAGCCCACAACTCCGTGGCACTTTCCTT
* * * *
684797 TCATCTTTAAGTCCACAACTCAGTGGCACCTTTTC-A
1 TCA-----AAGCCCACAACTCCGTGGCA-CTTTCCTT
684833 TCAAAGCCCACAACTCCGTGGCACTCTTTTCCCGTT
1 TCAAAGCCCACAACTCCGTGGCA--C-TTT-CC-TT
684869 T--AAGCCCACAACTCCGTGGCAC---CCTT
1 TCAAAGCCCACAACTCCGTGGCACTTTCCTT
* * * * *
684895 T-TAAGTCCACAACTCAGTGGCACCTT-CTCA
1 TCAAAGCCCACAACTCCGTGGCACTTTCCT-T
* *
684925 TCAAAGTCCACAACTTCGTGGCAC---CCTT
1 TCAAAGCCCACAACTCCGTGGCACTTTCCTT
* **
684953 TTAAAGCCCACAACTTTGTGGCACTCGTTTTCC-T
1 TCAAAGCCCACAACTCCGTGGCA--C--TTTCCTT
* * *
684987 TCTAAGTCCAAAACTCCGTGGCAC---CCGTT
1 TCAAAGCCCACAACTCCGTGGCACTTTCC-TT
685016 T--AAGCCCACAACTCCGTGGCAC---CCTT
1 TCAAAGCCCACAACTCCGTGGCACTTTCCTT
* * *
685042 T-TAAGTCCACGACTCCGTGGCACCCTTTTTTCCTT
1 TCAAAGCCCACAACTCCGTGGCA--C---TTTCCTT
* *
685077 T-AAATCCCACAACTACGTGGCACT
1 TCAAAGCCCACAACTCCGTGGCACT
685101 CTTTTCCTTT
Statistics
Matches: 341, Mismatches: 42, Indels: 97
0.71 0.09 0.20
Matches are distributed among these distances:
26 6 0.02
27 82 0.24
28 27 0.08
29 7 0.02
30 3 0.01
31 58 0.17
32 3 0.01
33 6 0.02
34 81 0.24
35 31 0.09
36 12 0.04
37 25 0.07
ACGTcount: A:0.23, C:0.36, G:0.14, T:0.28
Consensus pattern (31 bp):
TCAAAGCCCACAACTCCGTGGCACTTTCCTT
Found at i:684746 original size:34 final size:32
Alignment explanation
Indices: 684641--685151 Score: 296
Period size: 34 Copynumber: 16.3 Consensus size: 32
684631 ATCTCTGCTC
* * * *
684641 AAAGTCCACGACTCCGTGGCA-CTTTCCTTTC
1 AAAGCCCACAACTCCGTGGCACCTTTTCTTTT
684672 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCAC-C-TTTT--CTTTT
684708 CAAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
1 -AAAGCCCACAACTCCGTGGCACC-TTTTCTTTT
*
684742 CAAAGCCCACAACTCCATGGCACC----CTTTT
1 -AAAGCCCACAACTCCGTGGCACCTTTTCTTTT
*
684771 -AAGCCCACAACTCCGTGGCACTTTTTTCATCTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTC-T-TTT
* * * *
684805 -AAGTCCACAACTCAGTGGCACCTTTTC-ATC
1 AAAGCCCACAACTCCGTGGCACCTTTTCTTTT
*
684835 AAAGCCCACAACTCCGTGGCACTCTTTTCCCGTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTT--CTTTT
684870 -AAGCCCACAACTCCGTGGCACC----CTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTCTTTT
* * * * *
684897 -AAGTCCACAACTCAGTGGCACCTTCTC-ATC
1 AAAGCCCACAACTCCGTGGCACCTTTTCTTTT
* *
684927 AAAGTCCACAACTTCGTGGCACC----CTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTCTTTT
** *
684955 AAAGCCCACAACTTTGTGGCACTCGTTTTCCTTCT
1 AAAGCCCACAACTCCGTGGCAC-C-TTTT-CTTTT
* * *
684990 -AAGTCCAAAACTCCGTGGCACC----CGTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTCTTTT
685017 -AAGCCCACAACTCCGTGGCACC----CTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTCTTTT
* * *
685044 -AAGTCCACGACTCCGTGGCACCCTTTTTTCCTTT
1 AAAGCCCACAACTCCGTGGCA-CC--TTTTCTTTT
* *
685078 AAATCCCACAACTACGTGGCACTCTTTTCCTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTT-CTTTT
* * * *
685112 -AAGTCCACAAGTCAGTGGCAACC--TTCTTCT
1 AAAGCCCACAACTCCGTGGC-ACCTTTTCTTTT
685142 AAAGCCCACA
1 AAAGCCCACA
685152 CAAGTCGATG
Statistics
Matches: 385, Mismatches: 52, Indels: 86
0.74 0.10 0.16
Matches are distributed among these distances:
27 90 0.23
28 23 0.06
29 6 0.02
30 6 0.02
31 69 0.18
32 6 0.02
33 28 0.07
34 103 0.27
35 22 0.06
36 10 0.03
37 22 0.06
ACGTcount: A:0.23, C:0.35, G:0.14, T:0.28
Consensus pattern (32 bp):
AAAGCCCACAACTCCGTGGCACCTTTTCTTTT
Found at i:684777 original size:27 final size:27
Alignment explanation
Indices: 684701--685070 Score: 211
Period size: 27 Copynumber: 12.3 Consensus size: 27
684691 CACTCTTTTT
684701 CCCTTTTCAAAGCCCACAACTCCGTGGCA
1 CCCTTTT--AAGCCCACAACTCCGTGGCA
*
684730 CCTTTTTCTTTTCAAAGCCCACAACTCCATGGCA
1 CC-----CTTTT--AAGCCCACAACTCCGTGGCA
684764 CCCTTTTAAGCCCACAACTCCGTGGCA
1 CCCTTTTAAGCCCACAACTCCGTGGCA
* * *
684791 CTTTTTTCATCTTTAAGTCCACAACTCAGTGGCA
1 C------CCT-TTTAAGCCCACAACTCCGTGGCA
*
684825 CCTTTTCATCAAAGCCCACAACTCCGTGGCA
1 CCCTTT--T--AAGCCCACAACTCCGTGGCA
*
684856 CTCTTTTCCCGTTTAAGCCCACAACTCCGTGGCA
1 -------CCCTTTTAAGCCCACAACTCCGTGGCA
* *
684890 CCCTTTTAAGTCCACAACTCAGTGGCA
1 CCCTTTTAAGCCCACAACTCCGTGGCA
* *
684917 -CCTTCTCATCAAAGTCCACAACTTCGTGGCA
1 CCCTT-T--T--AAGCCCACAACTCCGTGGCA
**
684948 CCCTTTTAAAGCCCACAACTTTGTGGCA
1 CCCTTTT-AAGCCCACAACTCCGTGGCA
* * *
684976 CTCGTTTTCCTTCTAAGTCCAAAACTCCGTGGCA
1 --C-----CCTTTTAAGCCCACAACTCCGTGGCA
*
685010 CCCGTTTAAGCCCACAACTCCGTGGCA
1 CCCTTTTAAGCCCACAACTCCGTGGCA
* *
685037 CCCTTTTAAGTCCACGACTCCGTGGCA
1 CCCTTTTAAGCCCACAACTCCGTGGCA
685064 CCCTTTT
1 CCCTTTT
685071 TTCCTTTAAA
Statistics
Matches: 276, Mismatches: 29, Indels: 74
0.73 0.08 0.20
Matches are distributed among these distances:
26 4 0.01
27 100 0.36
28 21 0.08
29 10 0.04
30 1 0.00
31 37 0.13
32 5 0.02
33 2 0.01
34 86 0.31
35 5 0.02
36 1 0.00
38 4 0.01
ACGTcount: A:0.22, C:0.36, G:0.14, T:0.28
Consensus pattern (27 bp):
CCCTTTTAAGCCCACAACTCCGTGGCA
Found at i:684778 original size:61 final size:61
Alignment explanation
Indices: 684701--685151 Score: 349
Period size: 61 Copynumber: 7.3 Consensus size: 61
684691 CACTCTTTTT
* *
684701 CCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTCAAAGCCCACAACTCCATGGCA
1 CCCTTTT-AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTC-AAGTCCACAACTCCGTGGCA
* *
684764 CCCTTTT-AAGCCCACAACTCCGTGGCACTTTTTTCATCTTT-AAGTCCACAACTCAGTGGCA
1 CCCTTTTAAAGCCCACAACTCCGTGGCACCTTTTTC-T-TTTCAAGTCCACAACTCCGTGGCA
* * * *
684825 CCTTTTCATCAAAGCCCACAACTCCGTGGCACTCTTTTCCCGTTT-AAGCCCACAACTCCGTGGC
1 CCCTTT--T-AAAGCCCACAACTCCGTGGCAC-CTTTT-TCTTTTCAAGTCCACAACTCCGTGGC
684889 A
61 A
* * ** *
684890 CCCTTTT-AAGTCCACAACTCAGTGGCACC---TTCTCATCAAAGTCCACAACTTCGTGGCA
1 CCCTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTC-AAGTCCACAACTCCGTGGCA
** * * *
684948 CCCTTTTAAAGCCCACAACTTTGTGGCACTCGTTTTC-CTTCTAAGTCCAAAACTCCGTGGCA
1 CCCTTTTAAAGCCCACAACTCCGTGGCAC-CTTTTTCTTTTC-AAGTCCACAACTCCGTGGCA
* *
685010 CCCGTTT-AAGCCCACAACTCCGTGGCACC-----CTTTT-AAGTCCACGACTCCGTGGCA
1 CCCTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTCAAGTCCACAACTCCGTGGCA
* * * * *
685064 CCCTTTTTTCCTTTAAATCCCACAACTACGTGGCACTCTTTTCCTTTT-AAGTCCACAAGTCAGT
1 CCC-----T--TTTAAAGCCCACAACTCCGTGGCAC-CTTTTTCTTTTCAAGTCCACAACTCCGT
685128 GGCAA
58 GGC-A
*
685133 CCTTCTTCTAAAGCCCACA
1 CC--CTTTTAAAGCCCACA
685152 CAAGTCGATG
Statistics
Matches: 315, Mismatches: 40, Indels: 65
0.75 0.10 0.15
Matches are distributed among these distances:
54 21 0.07
55 1 0.00
56 4 0.01
57 1 0.00
58 25 0.08
59 18 0.06
60 3 0.01
61 90 0.29
62 47 0.15
63 16 0.05
64 11 0.03
65 47 0.15
66 5 0.02
67 1 0.00
68 21 0.07
69 3 0.01
71 1 0.00
ACGTcount: A:0.23, C:0.35, G:0.13, T:0.28
Consensus pattern (61 bp):
CCCTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTCAAGTCCACAACTCCGTGGCA
Found at i:685073 original size:89 final size:89
Alignment explanation
Indices: 684932--685099 Score: 214
Period size: 89 Copynumber: 1.9 Consensus size: 89
684922 TCATCAAAGT
* ** * *
684932 CCACAACTTCGTGGCACCCTTTTAAAGCCCACAACTTTGTGGCACTCGTTTTCCTTCTAAGT-CC
1 CCACAACTCCGTGGCACCCTTTTAAAGCCCACAACTCCGTGGCACCCGTTTTCCTT-TAAATCCC
*
684996 AAAACTCCGTGGCACCCGTTTAAGC
65 AAAACTACGTGGCACCCGTTTAAGC
* * *
685021 CCACAACTCCGTGGCACCCTTTT-AAGTCCACGACTCCGTGGCACCCTTTTTTCCTTTAAATCCC
1 CCACAACTCCGTGGCACCCTTTTAAAGCCCACAACTCCGTGGCACCC-GTTTTCCTTTAAATCCC
*
685085 ACAACTACGTGGCAC
65 AAAACTACGTGGCAC
685100 TCTTTTCCTT
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
88 22 0.33
89 45 0.67
ACGTcount: A:0.22, C:0.36, G:0.15, T:0.27
Consensus pattern (89 bp):
CCACAACTCCGTGGCACCCTTTTAAAGCCCACAACTCCGTGGCACCCGTTTTCCTTTAAATCCCA
AAACTACGTGGCACCCGTTTAAGC
Found at i:685130 original size:33 final size:34
Alignment explanation
Indices: 685038--685131 Score: 95
Period size: 33 Copynumber: 2.8 Consensus size: 34
685028 TCCGTGGCAC
* * *
685038 CCTTTTAAGTCCACGACTCCGTGGCACCCTTTTTT
1 CCTTTTAAGTCCACAACTCAGTGGCA-CCTCTTTT
*
685073 CC-TTTAAATCCCACAACT-ACGTGGCA-CTCTTTT
1 CCTTTTAAGT-CCACAACTCA-GTGGCACCTCTTTT
*
685106 CCTTTTAAGTCCACAAGTCAGTGGCA
1 CCTTTTAAGTCCACAACTCAGTGGCA
685132 ACCTTCTTCT
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
33 21 0.43
34 13 0.27
35 15 0.31
ACGTcount: A:0.21, C:0.32, G:0.14, T:0.33
Consensus pattern (34 bp):
CCTTTTAAGTCCACAACTCAGTGGCACCTCTTTT
Found at i:685154 original size:33 final size:33
Alignment explanation
Indices: 685117--685237 Score: 176
Period size: 33 Copynumber: 3.7 Consensus size: 33
685107 CTTTTAAGTC
*
685117 CACAAGTCAGTGGCAACCTTCTTCTAAAGCCCA
1 CACAAGTCGGTGGCAACCTTCTTCTAAAGCCCA
*
685150 CACAAGTCGATGGCAACC--CTTCTCAAAGCCCA
1 CACAAGTCGGTGGCAACCTTCTTCT-AAAGCCCA
685182 CACAAGTCGGTGGCAACCATTCTT-TAAAGCCCA
1 CACAAGTCGGTGGCAACC-TTCTTCTAAAGCCCA
685215 CACAAGTCGGTGGCAACCCTTCT
1 CACAAGTCGGTGGCAA-CCTTCT
685238 AACCCCAATA
Statistics
Matches: 80, Mismatches: 3, Indels: 10
0.86 0.03 0.11
Matches are distributed among these distances:
31 5 0.06
32 25 0.31
33 44 0.55
34 3 0.04
35 3 0.04
ACGTcount: A:0.29, C:0.34, G:0.17, T:0.20
Consensus pattern (33 bp):
CACAAGTCGGTGGCAACCTTCTTCTAAAGCCCA
Found at i:685295 original size:49 final size:49
Alignment explanation
Indices: 685242--686307 Score: 1420
Period size: 49 Copynumber: 22.5 Consensus size: 49
685232 CCTTCTAACC
*
685242 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGT
1 CCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
* * *
685291 CCAATGTAGTTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGC
1 CCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
* *
685334 CCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTCATCTTTAAGT
1 CCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
*
685383 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGT
1 CCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
* *
685426 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGT
1 CCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
* *
685475 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGT
1 CCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
* * * *
685524 CCAATGTAGCTAGCCTTGACTCAGCACATTGGCACCTTC-TCCATTAAGT
1 CCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCAT-CTTTAAGT
*
685573 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTAT-ATCTTTAAGT
1 CCAATATAGCTGGCCTTGAATCAGCACATTGGCACCT-TCATCTTTAAGT
*
685622 CCAATATAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGT
1 CCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
* *
685671 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCACCTTTAAGT
1 CCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
* * *
685719 CCAATGTTGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGC
1 CCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
* *
685762 CCAATATAGCTGGCCATGAATCAGCATATTGGCACCTTCATCTTTAAGT
1 CCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
* * * *
685811 CCAATGTAGCTGGCCTTGAATCAGCACATT---A--GT-ACCTTTAAGC
1 CCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
*
685854 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGT
1 CCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
* *
685903 CCAATGTAGCTGGCCTTGAATCAGCATATTGGCA----C--CTTTAAGT
1 CCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
* *
685946 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGT
1 CCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
* * *
685995 CCAATATAGCTAGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGT
1 CCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
* * * *
686044 CCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGT
1 CCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
* *
686093 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGT
1 CCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
* *
686142 CCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGT
1 CCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
*
686191 CCAATATAGCTGGCCTTGAATCAGCACATTGGCACC-TCACCTTTAAGT
1 CCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
*
686239 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGT
1 CCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
686282 CCAATATAGCTGGCCTTGAATCAGCA
1 CCAATATAGCTGGCCTTGAATCAGCA
686308 AATAGCTGGC
Statistics
Matches: 904, Mismatches: 79, Indels: 74
0.86 0.07 0.07
Matches are distributed among these distances:
43 222 0.25
44 1 0.00
45 5 0.01
46 2 0.00
47 4 0.00
48 91 0.10
49 577 0.64
50 2 0.00
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (49 bp):
CCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
Found at i:685398 original size:92 final size:94
Alignment explanation
Indices: 685242--686307 Score: 1293
Period size: 92 Copynumber: 11.3 Consensus size: 94
685232 CCTTCTAACC
*
685242 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGTTGGCCT
1 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCT
*
685307 TGAATCAGCACATTGGCA-C-CTTTAAGC
66 TGAATCAGCACATTGGCACCTCTTTAAGT
*
685334 CCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCT
1 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCT
685399 TGAATCAGCACATTGGCA-C-CTTTAAGT
66 TGAATCAGCACATTGGCACCTCTTTAAGT
* *
685426 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCT
1 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCT
*
685491 TGAATCAGCATATTGGCACCTTTATCTTTAAGT
66 TGAATCAGCACATTGGCACC----TCTTTAAGT
* * * * * *
685524 CCAATGTAGCTAGCCTTGACTCAGCACATTGGCACCTTC-TCCATTAAGTCCAATATAGCTGGCC
1 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCAT-CTTTAAGTCCAATGTAGCTGGCC
*
685588 TTGAATCAGCATATTGGCACCTATATCTTTAAGT
65 TTGAATCAGCACATTGGCACC----TCTTTAAGT
* *
685622 CCAATATAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCT
1 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCT
685687 TGAATCAGCACATTGGCACCTCACCTTTAAGT
66 TGAATCAGCACATTGGCACCT---CTTTAAGT
* * * * * *
685719 CCAATGTTGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGCCCAATATAGCTGGCCA
1 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCT
*
685778 TGAATCAGCATATTGGCACCTTCATCTTTAAGT
66 TGAATCAGCACATTGGCA-C--C-TCTTTAAGT
* * * * * *
685811 CCAATGTAGCTGGCCTTGAATCAGCACATT---A--GT-ACCTTTAAGCCCAATATAGCTGGCCT
1 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCT
*
685870 TGAATCAGCATATTGGCACCTTCATCTTTAAGT
66 TGAATCAGCACATTGGCA-C--C-TCTTTAAGT
* * *
685903 CCAATGTAGCTGGCCTTGAATCAGCATATTGGCA----C--CTTTAAGTCCAATATCGCTGGCCT
1 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCT
*
685962 TGAATCAGCATATTGGCACCTTCATCTTTAAGT
66 TGAATCAGCACATTGGCA-C--C-TCTTTAAGT
* *
685995 CCAATATAGCTAGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCT
1 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCT
* *
686060 TGACTCAGCACATTGGCACCTTCACCATTAAGT
66 TGAATCAGCACATTGGCACC-T---CTTTAAGT
*
686093 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCT
1 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCT
*
686158 TGACTCAGCACATTGGCACCTTCATCTTTAAGT
66 TGAATCAGCACATTGGCA-C--C-TCTTTAAGT
* *
686191 CCAATATAGCTGGCCTTGAATCAGCACATTGGCACC-TCACCTTTAAGTCCAATGTAGCTGGCCT
1 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCT
686255 TGAATCAGCACATTGGCA-C-CTTTAAGT
66 TGAATCAGCACATTGGCACCTCTTTAAGT
686282 CCAATATAGCTGGCCTTGAATCAGCA
1 CCAATATAGCTGGCCTTGAATCAGCA
686308 AATAGCTGGC
Statistics
Matches: 892, Mismatches: 47, Indels: 71
0.88 0.05 0.07
Matches are distributed among these distances:
89 1 0.00
91 72 0.08
92 378 0.42
93 3 0.00
94 2 0.00
95 4 0.00
97 84 0.09
98 344 0.39
99 2 0.00
101 2 0.00
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (94 bp):
CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCT
TGAATCAGCACATTGGCACCTCTTTAAGT
Found at i:685940 original size:21 final size:21
Alignment explanation
Indices: 685916--685983 Score: 54
Period size: 21 Copynumber: 3.2 Consensus size: 21
685906 ATGTAGCTGG
685916 CCTTGAATCAGCATATTGGCA
1 CCTTGAATCAGCATATTGGCA
*
685937 CCTTTAAGTC--CAATATCGCTGG--
1 CCTTGAA-TCAGC-ATAT---TGGCA
685959 CCTTGAATCAGCATATTGGCA
1 CCTTGAATCAGCATATTGGCA
685980 CCTT
1 CCTT
685984 CATCTTTAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 18
0.64 0.04 0.32
Matches are distributed among these distances:
19 3 0.08
20 1 0.03
21 16 0.44
22 12 0.33
23 1 0.03
24 3 0.08
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (21 bp):
CCTTGAATCAGCATATTGGCA
Found at i:686222 original size:520 final size:520
Alignment explanation
Indices: 685232--686307 Score: 2008
Period size: 520 Copynumber: 2.1 Consensus size: 520
685222 CGGTGGCAAC
*
685232 CCTTCTAACCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATG
1 CCTT-TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATG
* *
685297 TAGTTGGCCTTGAATCAGCACATTGGCACCTTTAAGCCCAATATAGCTGGCCTTGAATCAGCATA
65 TAGCTGGCCTTGAATCAGCACATTAGCACCTTTAAGCCCAATATAGCTGGCCTTGAATCAGCATA
685362 TCGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTC
130 TCGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTC
*
685427 CAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTT
195 CAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATATAGCTAGCCTT
685492 GAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTAGCCTTGACTCAGCACATTGGC
260 GAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTAGCCTTGACTCAGCACATTGGC
*
685557 ACCTTCTCCATTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTATATCTTTAAGT
325 ACCTTCACCATTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTATATCTTTAAGT
*
685622 CCAATATAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCT
390 CCAATATAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCT
*
685687 TGAATCAGCACATTGGCACCTCACCTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGC
455 TGAATCAGCACATTGGCACCTCACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGC
685752 A
520 A
*
685753 CCTTTAAGCCCAATATAGCTGGCCATGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
1 CCTTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
*
685818 AGCTGGCCTTGAATCAGCACATTAGTACCTTTAAGCCCAATATAGCTGGCCTTGAATCAGCATAT
66 AGCTGGCCTTGAATCAGCACATTAGCACCTTTAAGCCCAATATAGCTGGCCTTGAATCAGCATAT
* *
685883 TGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCC
131 CGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCC
685948 AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATATAGCTAGCCTTG
196 AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATATAGCTAGCCTTG
*
686013 AATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA
261 AATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTAGCCTTGACTCAGCACATTGGCA
*
686078 CCTTCACCATTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTC
326 CCTTCACCATTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTATATCTTTAAGTC
*
686143 CAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTT
391 CAATATAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTT
686208 GAATCAGCACATTGGCACCTCACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
456 GAATCAGCACATTGGCACCTCACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
*
686273 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCA
1 CCTTTAAGCCCAATATAGCTGGCCTTGAATCAGCA
686308 AATAGCTGGC
Statistics
Matches: 539, Mismatches: 16, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
520 535 0.99
521 4 0.01
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.30
Consensus pattern (520 bp):
CCTTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
AGCTGGCCTTGAATCAGCACATTAGCACCTTTAAGCCCAATATAGCTGGCCTTGAATCAGCATAT
CGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCC
AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATATAGCTAGCCTTG
AATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTAGCCTTGACTCAGCACATTGGCA
CCTTCACCATTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTATATCTTTAAGTC
CAATATAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTT
GAATCAGCACATTGGCACCTCACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
Done.