Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 27 of 255
Found at i:7291571 original size:43 final size:42
Alignment explanation
Indices: 7291526--7292190 Score: 399
Period size: 43 Copynumber: 15.2 Consensus size: 42
7291516 ATCGAAAATT
* * *
7291526 TCAGCGTGGCATTCCTCAGTTTGCAGGAAGCAGGTTGAAGATT
1 TCAGCATGGC-TTCCTGAGTTTGCAGGAAGCAGGTTGAAGATA
* * * *
7291569 TCAACATGGCGTCCTTGAGTTTGCAAGG-AGCAGGTCGAAGAAA
1 TCAGCATGGCTTCC-TGAGTTTGC-AGGAAGCAGGTTGAAGATA
* * * * * * * **
7291612 GCAGATCTTGACTTTCTGAGTTCGCAGTAAAGCAGATCAAAGATA
1 TCAG--CATGGCTTCCTGAGTTTGCAG-GAAGCAGGTTGAAGATA
* * * *
7291657 TCAGCATGACATTTCTGAATTTGCAAGAAGCAGGTTGAAGATA
1 TCAGCATGGC-TTCCTGAGTTTGCAGGAAGCAGGTTGAAGATA
* *
7291700 TCAGCATGGCATCCTTGAGTTTGCAAGG-AGCAGGTTGAAGAAA
1 TCAGCATGGCTTCC-TGAGTTTGC-AGGAAGCAGGTTGAAGATA
* * * * * ** * *
7291743 GCAGATCTTGACTTCCTGAGTTTGCAGTGAAGTAGATCAAAAATT
1 TCAG--CATGGCTTCCTGAGTTTGCAG-GAAGCAGGTTGAAGATA
* * *
7291788 TCAGTATGGCGTCCCTGAGTTTGCAGGAAGCAGGTTGAAGATT
1 TCAGCATGGC-TTCCTGAGTTTGCAGGAAGCAGGTTGAAGATA
* *
7291831 TCAGCATGGCGTCCTTGAGTTTGCAAGG-AGCAGGTTGAAGAAA
1 TCAGCATGGCTTCC-TGAGTTTGC-AGGAAGCAGGTTGAAGATA
* * * ** * * *
7291874 GCAGATCTTGACTTCCTGAGTTCACAGTAAAGCAGATCGAAGATA
1 TCAG--CATGGCTTCCTGAGTTTGCAG-GAAGCAGGTTGAAGATA
*
7291919 TCAGCATGGCGTTCCTGAGTTTGCAGGAAGCAGGTTGAAGATT
1 TCAGCATGGC-TTCCTGAGTTTGCAGGAAGCAGGTTGAAGATA
* * *
7291962 TCAGCATGGCGTCCTTGAGTTTGCAAGG-GGCAGGTTGAAGAAA
1 TCAGCATGGCTTCC-TGAGTTTGC-AGGAAGCAGGTTGAAGATA
* * * *
7292005 GCAG-ATTTTGACTTCCTGAGTTCGCAGTGAAGCAGGTCGAAGATA
1 TCAGCA---TGGCTTCCTGAGTTTGCAG-GAAGCAGGTTGAAGATA
* * * *
7292050 TTAGCATGGCGTTCCTGAGTTTGCAGGGAGCAGGTTAAAGATT
1 TCAGCATGGC-TTCCTGAGTTTGCAGGAAGCAGGTTGAAGATA
* * *
7292093 TCATCATGGCGTCCTTGAGTTTGCAAGG-AGCAGGGTGAAGA-A
1 TCAGCATGGCTTCC-TGAGTTTGC-AGGAAGCAGGTTGAAGATA
* * * * * * *
7292135 TGCAGATCTTGACTTCCTGAGTTTGTAGTGAAGCAGATCGAAAATT
1 T-CAG--CATGGCTTCCTGAGTTTGCAG-GAAGCAGGTTGAAGATA
7292181 TCAGCATGGC
1 TCAGCATGGC
7292191 ATCCCTGTGC
Statistics
Matches: 469, Mismatches: 115, Indels: 76
0.71 0.17 0.12
Matches are distributed among these distances:
42 15 0.03
43 242 0.52
44 110 0.23
45 100 0.21
46 2 0.00
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.26
Consensus pattern (42 bp):
TCAGCATGGCTTCCTGAGTTTGCAGGAAGCAGGTTGAAGATA
Found at i:7291907 original size:88 final size:86
Alignment explanation
Indices: 7291553--7292157 Score: 265
Period size: 88 Copynumber: 6.9 Consensus size: 86
7291543 AGTTTGCAGG
* * *
7291553 AAGCAGGTTGAAGATTTCAACATGGCGTCCTTGAGTTTGCAAGGAGCAGGTCGAAGAAAGCAGAT
1 AAGCAGGTTGAAGATATCAGCATGGCGTCCTTGAGTTTGCAAGGAGCAGGTTGAAGAAAGCAG-T
* * *
7291618 CTTGACTTTCTGAGTTCGCAGTA
65 CATGACTTCCTGAGTTCACAG-A
* ** * * * * * * *
7291641 AAGCAGATCAAAGATATCAGCATGACAT-TTCTGAATTTGCAAGAAGCAGGTTGAAGATATCAG-
1 AAGCAGGTTGAAGATATCAGCATGGCGTCCT-TGAGTTTGCAAGGAGCAGGTTGAAGAAAGCAGT
* *
7291704 CATGGCATCCTTGAGTTTGCA-AG-
65 CATGACTTCC-TGAG-TT-CACAGA
* * * * * * * * *
7291727 GAGCAGGTTGAAGAAAGCAGATCTTGACTTCC-TGAGTTTGC-AGTGAAGTA-GATCAA-AAATT
1 AAGCAGGTTGAAGATATCAG--CATGGCGTCCTTGAGTTTGCAAG-G-AGCAGGTTGAAGAAA--
* * * ** *
7291788 TCAGT-ATGGCGTCCCTGAGTTTGCAGG
60 GCAGTCATGAC-TTCCTGAGTTCACAGA
*
7291815 AAGCAGGTTGAAGATTTCAGCATGGCGTCCTTGAGTTTGCAAGGAGCAGGTTGAAGAAAGCAGAT
1 AAGCAGGTTGAAGATATCAGCATGGCGTCCTTGAGTTTGCAAGGAGCAGGTTGAAGAAAGCAG-T
*
7291880 CTTGACTTCCTGAGTTCACAGTA
65 CATGACTTCCTGAGTTCACAG-A
* * ***
7291903 AAGCAGATCGAAGATATCAGCATGGCGTTCC-TGAGTTTGC-AGGAAGCAGGTTGAAGATTTCAG
1 AAGCAGGTTGAAGATATCAGCATGGCG-TCCTTGAGTTTGCAAGG-AGCAGGTTGAAGAAAGCAG
* *
7291966 -CATGGCGTCCTTGAGTTTGCA-AG-
64 TCATGACTTCC-TGAG-TT-CACAGA
** * * * * * * * *
7291989 GGGCAGGTTGAAGAAAGCAG-ATTTTGACTTCC-TGAGTTCGC-AGTGAAGCAGGTCGAAGATAT
1 AAGCAGGTTGAAGATATCAGCA---TGGCGTCCTTGAGTTTGCAAG-G-AGCAGGTTGAAGAAAG
* * ** *
7292051 TAG-CATGGCGTTCCTGAGTTTGCAGG
61 CAGTCATGAC-TTCCTGAGTTCACAGA
* * * * * *
7292077 GAGCAGGTTAAAGATTTCATCATGGCGTCCTTGAGTTTGCAAGGAGCAGGGTGAAGAATGCAGAT
1 AAGCAGGTTGAAGATATCAGCATGGCGTCCTTGAGTTTGCAAGGAGCAGGTTGAAGAAAGCAG-T
*
7292142 CTTGACTTCCTGAGTT
65 CATGACTTCCTGAGTT
7292158 TGTAGTGAAG
Statistics
Matches: 383, Mismatches: 95, Indels: 79
0.69 0.17 0.14
Matches are distributed among these distances:
85 1 0.00
86 77 0.20
87 91 0.24
88 202 0.53
89 12 0.03
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.26
Consensus pattern (86 bp):
AAGCAGGTTGAAGATATCAGCATGGCGTCCTTGAGTTTGCAAGGAGCAGGTTGAAGAAAGCAGTC
ATGACTTCCTGAGTTCACAGA
Found at i:7292222 original size:131 final size:131
Alignment explanation
Indices: 7291514--7292197 Score: 1003
Period size: 131 Copynumber: 5.2 Consensus size: 131
7291504 GGGACAATGT
* * *
7291514 AGATCGAAAATTTCAGCGTGGCATTCCTCAGTTTGCAGGAAGCAGGTTGAAGATTTCAACATGGC
1 AGATCGAAAATTTCAGCATGGCATTCCTGAGTTTGCAGGAAGCAGGTTGAAGATTTCAGCATGGC
* * *
7291579 GTCCTTGAGTTTGCAAGGAGCAGGTCGAAGAAAGCAGATCTTGACTTTCTGAGTTCGCAGTAAAG
66 GTCCTTGAGTTTGCAAGGAGCAGGTTGAAGAAAGCAGATCTTGACTTCCTGAGTTCGCAGTGAAG
7291644 C
131 C
* * * * * *
7291645 AGATC-AAAGATATCAGCATGACATTTCTGAATTTGCAAGAAGCAGGTTGAAGATATCAGCATGG
1 AGATCGAAA-ATTTCAGCATGGCATTCCTGAGTTTGCAGGAAGCAGGTTGAAGATTTCAGCATGG
* *
7291709 CATCCTTGAGTTTGCAAGGAGCAGGTTGAAGAAAGCAGATCTTGACTTCCTGAGTTTGCAGTGAA
65 CGTCCTTGAGTTTGCAAGGAGCAGGTTGAAGAAAGCAGATCTTGACTTCCTGAGTTCGCAGTGAA
*
7291774 GT
130 GC
* * * *
7291776 AGATCAAAAATTTCAGTATGGCGTCCCTGAGTTTGCAGGAAGCAGGTTGAAGATTTCAGCATGGC
1 AGATCGAAAATTTCAGCATGGCATTCCTGAGTTTGCAGGAAGCAGGTTGAAGATTTCAGCATGGC
* *
7291841 GTCCTTGAGTTTGCAAGGAGCAGGTTGAAGAAAGCAGATCTTGACTTCCTGAGTTCACAGTAAAG
66 GTCCTTGAGTTTGCAAGGAGCAGGTTGAAGAAAGCAGATCTTGACTTCCTGAGTTCGCAGTGAAG
7291906 C
131 C
* * *
7291907 AGATCGAAGATATCAGCATGGCGTTCCTGAGTTTGCAGGAAGCAGGTTGAAGATTTCAGCATGGC
1 AGATCGAAAATTTCAGCATGGCATTCCTGAGTTTGCAGGAAGCAGGTTGAAGATTTCAGCATGGC
* *
7291972 GTCCTTGAGTTTGCAAGGGGCAGGTTGAAGAAAGCAGATTTTGACTTCCTGAGTTCGCAGTGAAG
66 GTCCTTGAGTTTGCAAGGAGCAGGTTGAAGAAAGCAGATCTTGACTTCCTGAGTTCGCAGTGAAG
7292037 C
131 C
* * * * * *
7292038 AGGTCGAAGATATT-AGCATGGCGTTCCTGAGTTTGCAGGGAGCAGGTTAAAGATTTCATCATGG
1 AGATCGAAAAT-TTCAGCATGGCATTCCTGAGTTTGCAGGAAGCAGGTTGAAGATTTCAGCATGG
* * * *
7292102 CGTCCTTGAGTTTGCAAGGAGCAGGGTGAAGAATGCAGATCTTGACTTCCTGAGTTTGTAGTGAA
65 CGTCCTTGAGTTTGCAAGGAGCAGGTTGAAGAAAGCAGATCTTGACTTCCTGAGTTCGCAGTGAA
7292167 GC
130 GC
*
7292169 AGATCGAAAATTTCAGCATGGCATCCCTG
1 AGATCGAAAATTTCAGCATGGCATTCCTG
7292198 TGCTTACAGG
Statistics
Matches: 496, Mismatches: 53, Indels: 8
0.89 0.10 0.01
Matches are distributed among these distances:
130 5 0.01
131 487 0.98
132 4 0.01
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.26
Consensus pattern (131 bp):
AGATCGAAAATTTCAGCATGGCATTCCTGAGTTTGCAGGAAGCAGGTTGAAGATTTCAGCATGGC
GTCCTTGAGTTTGCAAGGAGCAGGTTGAAGAAAGCAGATCTTGACTTCCTGAGTTCGCAGTGAAG
C
Found at i:7292737 original size:17 final size:18
Alignment explanation
Indices: 7292715--7292837 Score: 89
Period size: 17 Copynumber: 6.9 Consensus size: 18
7292705 ATGGAAATAT
7292715 AATCTTCA-ATGATATGC
1 AATCTTCATATGATATGC
* *
7292732 AATCTTAGATGTGATATGC
1 AATCTT-CATATGATATGC
*
7292751 AATCTTAGATATGATAT--
1 AATCTT-CATATGATATGC
7292768 AATCTTCGATATGAT-TGC
1 AATCTTC-ATATGATATGC
*
7292786 AATCTTAGATATGATA--C
1 AATCTT-CATATGATATGC
*
7292803 AATCTTAGATATGAT-TGC
1 AATCTT-CATATGATATGC
*
7292821 AATCTTAGATATGATAT
1 AATCTT-CATATGATAT
7292838 ATAATCTTAG
Statistics
Matches: 91, Mismatches: 5, Indels: 18
0.80 0.04 0.16
Matches are distributed among these distances:
16 1 0.01
17 35 0.38
18 30 0.33
19 25 0.27
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.38
Consensus pattern (18 bp):
AATCTTCATATGATATGC
Found at i:7292791 original size:18 final size:19
Alignment explanation
Indices: 7292723--7292848 Score: 174
Period size: 19 Copynumber: 6.9 Consensus size: 19
7292713 ATAATCTTCA
7292723 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
7292742 GTGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
7292761 ATGATAT--AATCTTCGAT
1 ATGATATGCAATCTTAGAT
7292778 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
7292796 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
7292813 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
**
7292831 ATGATATATAATCTTAGA
1 ATGATATGCAATCTTAGA
7292849 AGATATGATT
Statistics
Matches: 95, Mismatches: 6, Indels: 12
0.84 0.05 0.11
Matches are distributed among these distances:
16 1 0.01
17 30 0.32
18 30 0.32
19 34 0.36
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.38
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:7292792 original size:35 final size:35
Alignment explanation
Indices: 7292723--7292848 Score: 180
Period size: 35 Copynumber: 3.5 Consensus size: 35
7292713 ATAATCTTCA
*
7292723 ATGATATGCAATCTTAGATGTGATATGCAATCTTAGAT
1 ATGATAT--AATCTTAGATATGAT-TGCAATCTTAGAT
*
7292761 ATGATATAATCTTCGATATGATTGCAATCTTAGAT
1 ATGATATAATCTTAGATATGATTGCAATCTTAGAT
*
7292796 ATGATACAATCTTAGATATGATTGCAATCTTAGAT
1 ATGATATAATCTTAGATATGATTGCAATCTTAGAT
7292831 ATGATATATAATCTTAGA
1 ATG--ATATAATCTTAGA
7292849 AGATATGATT
Statistics
Matches: 81, Mismatches: 5, Indels: 5
0.89 0.05 0.05
Matches are distributed among these distances:
35 49 0.60
36 13 0.16
37 12 0.15
38 7 0.09
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.38
Consensus pattern (35 bp):
ATGATATAATCTTAGATATGATTGCAATCTTAGAT
Found at i:7296372 original size:18 final size:18
Alignment explanation
Indices: 7296318--7296372 Score: 56
Period size: 23 Copynumber: 2.8 Consensus size: 18
7296308 GACATCATAT
7296318 AAACTTATAAATCAAGAG
1 AAACTTATAAATCAAGAG
*
7296336 AAATGCTTGTGACAAATCAAGAG
1 AAA--C-T-T-ATAAATCAAGAG
7296359 AAACTTATAAATCA
1 AAACTTATAAATCA
7296373 GTTATAGTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
18 10 0.33
19 1 0.03
20 2 0.07
21 2 0.07
22 1 0.03
23 14 0.47
ACGTcount: A:0.51, C:0.13, G:0.13, T:0.24
Consensus pattern (18 bp):
AAACTTATAAATCAAGAG
Found at i:7302581 original size:39 final size:39
Alignment explanation
Indices: 7302532--7302608 Score: 136
Period size: 39 Copynumber: 2.0 Consensus size: 39
7302522 ACAGGTATCA
*
7302532 TGTGACCAGGCTGGGTCAAATTTGTCTGGTTCAAATTCT
1 TGTGAACAGGCTGGGTCAAATTTGTCTGGTTCAAATTCT
*
7302571 TGTGAACAGGCTGGGTCAAGTTTGTCTGGTTCAAATTC
1 TGTGAACAGGCTGGGTCAAATTTGTCTGGTTCAAATTC
7302609 ATCCAGCTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.21, C:0.17, G:0.27, T:0.35
Consensus pattern (39 bp):
TGTGAACAGGCTGGGTCAAATTTGTCTGGTTCAAATTCT
Found at i:7313932 original size:15 final size:15
Alignment explanation
Indices: 7313912--7313946 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
7313902 ATTTTTTTTT
7313912 TGAAAACATTGGTGA
1 TGAAAACATTGGTGA
7313927 TGAAAACATTGGTGA
1 TGAAAACATTGGTGA
*
7313942 CGAAA
1 TGAAA
7313947 TTGTGACTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.43, C:0.09, G:0.26, T:0.23
Consensus pattern (15 bp):
TGAAAACATTGGTGA
Found at i:7314907 original size:26 final size:28
Alignment explanation
Indices: 7314869--7314921 Score: 83
Period size: 26 Copynumber: 2.0 Consensus size: 28
7314859 GGTAATTTTC
7314869 TTTCATTTCCTTCATTCATGAC-ATGCT
1 TTTCATTTCCTTCATTCATGACTATGCT
*
7314896 TTTC-TTTGCTTCATTCATGACTATGC
1 TTTCATTTCCTTCATTCATGACTATGC
7314922 AATGATTGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 16 0.67
27 8 0.33
ACGTcount: A:0.17, C:0.25, G:0.09, T:0.49
Consensus pattern (28 bp):
TTTCATTTCCTTCATTCATGACTATGCT
Found at i:7324066 original size:15 final size:15
Alignment explanation
Indices: 7324046--7324075 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
7324036 CATTAAAAAC
*
7324046 AAAAAAAAGTAAAGT
1 AAAAAAAACTAAAGT
7324061 AAAAAAAACTAAAGT
1 AAAAAAAACTAAAGT
7324076 TACCTAAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.73, C:0.03, G:0.10, T:0.13
Consensus pattern (15 bp):
AAAAAAAACTAAAGT
Found at i:7333712 original size:88 final size:87
Alignment explanation
Indices: 7333532--7333714 Score: 201
Period size: 88 Copynumber: 2.1 Consensus size: 87
7333522 ACACCTATAC
* * * *
7333532 TTTTTTTTATATTTAAATAAAAATTCTATCACATGCGTATGAAAGATCATAGCTAGAGGTTAGTA
1 TTTTTTTTATATTTAAATAAAAATTCTATCACACGCATATGAAAGA-CATAGCTAGAGGCTAGCA
* ** *
7333597 AAGGTCCTGAGTCCCTAGCTATA
65 AAGGTCCGGAGTCCCTAAATAAA
* * * *
7333620 TTTTTTTTATGTTTAACTAAAAATTCTATCACACGCATATGTAAG-CATAGCTCA-AGGCTGGCA
1 TTTTTTTTATATTTAAATAAAAATTCTATCACACGCATATGAAAGACATAGCT-AGAGGCTAGCA
7333683 AAGGTCTCGGA-TCCCTAAAATAAA
65 AAGGTC-CGGAGTCCCT-AAATAAA
7333707 TTTTTTTT
1 TTTTTTTT
7333715 CATTTAAGTC
Statistics
Matches: 80, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
86 24 0.30
87 16 0.20
88 40 0.50
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (87 bp):
TTTTTTTTATATTTAAATAAAAATTCTATCACACGCATATGAAAGACATAGCTAGAGGCTAGCAA
AGGTCCGGAGTCCCTAAATAAA
Found at i:7344079 original size:105 final size:105
Alignment explanation
Indices: 7343890--7344098 Score: 276
Period size: 105 Copynumber: 2.0 Consensus size: 105
7343880 TATTGTCACG
* *
7343890 TATAATATATTGATCGATGCACTTTGCAAGGAAGGAACGATTTCTAAAGCTATAGAGATCGTTGA
1 TATAATATATTGATCGATGCACATTGCAAGGAAGGAACGATCTCTAAAGCTATAGAGATCGTTGA
7343955 CACAATGAGAAAGCAAGGCATTGAGCCCAATGTTGTTACA
66 CACAATGAGAAAGCAAGGCATTGAGCCCAATGTTGTTACA
* * * * * * * *
7343995 TATAGTATATTGGTTGATGCACATTGCAAGGAAGGAATGGTCTCTGAAGCTGA-GGATATCGTTG
1 TATAATATATTGATCGATGCACATTGCAAGGAAGGAACGATCTCTAAAGCT-ATAGAGATCGTTG
* * * *
7344059 ACGCAATGATAAAGCGAGGCATTGAGCCTAATGTTGTTAC
65 ACACAATGAGAAAGCAAGGCATTGAGCCCAATGTTGTTAC
7344099 CCATAATGCA
Statistics
Matches: 89, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
105 88 0.99
106 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (105 bp):
TATAATATATTGATCGATGCACATTGCAAGGAAGGAACGATCTCTAAAGCTATAGAGATCGTTGA
CACAATGAGAAAGCAAGGCATTGAGCCCAATGTTGTTACA
Found at i:7346601 original size:46 final size:46
Alignment explanation
Indices: 7346549--7346859 Score: 417
Period size: 46 Copynumber: 6.7 Consensus size: 46
7346539 TTCCATAGTG
* * * *
7346549 TCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGTCATGGTA
1 TCTTTCAACCATGGTCTTACTCA-TTTCATATCAGGTTGCCATGGTA
* *** *
7346595 TCTTTCAACCATGGTCTTATTCATTTTCCCGTCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCA-TTTCATATCAGGTTGCCATGGTA
* * * * *
7346642 TCTTTCAACCATGGTTTTATTCATTTCATGTCACGTTGTCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATGGTA
*
7346688 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATGGTA
* * *
7346734 TCTTTCAACCATAGTTTTACTCATTTCATATCAGGTTGTCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATGGTA
*
7346780 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATGGTA
*
7346826 TCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TCTTTCAACCATGGTCTTACTCATTTCATATCAG
7346860 AGAGTACACT
Statistics
Matches: 241, Mismatches: 23, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
46 204 0.85
47 37 0.15
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.41
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATGGTA
Found at i:7348650 original size:8 final size:8
Alignment explanation
Indices: 7348637--7348661 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
7348627 ATATAGGCTA
7348637 AATAAAAT
1 AATAAAAT
7348645 AATAAAAT
1 AATAAAAT
7348653 AATAAAAT
1 AATAAAAT
7348661 A
1 A
7348662 TATTATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:7348706 original size:8 final size:8
Alignment explanation
Indices: 7348675--7348716 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
7348665 TATTAAAATG
7348675 TTAAATAA
1 TTAAATAA
*
7348683 AT-AATAA
1 TTAAATAA
**
7348690 TTATCTAA
1 TTAAATAA
7348698 TTAAATAA
1 TTAAATAA
7348706 TTAAATAA
1 TTAAATAA
7348714 TTA
1 TTA
7348717 TAAAATATCA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
7 6 0.22
8 21 0.78
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (8 bp):
TTAAATAA
Found at i:7354972 original size:22 final size:22
Alignment explanation
Indices: 7354947--7354988 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
7354937 CAATAACAAC
*
7354947 AAAATAGTAGCAATATAATAGT
1 AAAATAGTAGCAAAATAATAGT
*
7354969 AAAATGGTAGCAAAATAATA
1 AAAATAGTAGCAAAATAATA
7354989 TTTTTTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.57, C:0.05, G:0.14, T:0.24
Consensus pattern (22 bp):
AAAATAGTAGCAAAATAATAGT
Found at i:7355225 original size:43 final size:43
Alignment explanation
Indices: 7355172--7355263 Score: 175
Period size: 43 Copynumber: 2.1 Consensus size: 43
7355162 GGATAGGTCT
*
7355172 ATCTTGAAATTGTTTTCTATTGCATAGAATCAATTGAAAATTA
1 ATCTAGAAATTGTTTTCTATTGCATAGAATCAATTGAAAATTA
7355215 ATCTAGAAATTGTTTTCTATTGCATAGAATCAATTGAAAATTA
1 ATCTAGAAATTGTTTTCTATTGCATAGAATCAATTGAAAATTA
7355258 ATCTAG
1 ATCTAG
7355264 TTATGGCTCA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.38, C:0.10, G:0.12, T:0.40
Consensus pattern (43 bp):
ATCTAGAAATTGTTTTCTATTGCATAGAATCAATTGAAAATTA
Found at i:7356426 original size:23 final size:25
Alignment explanation
Indices: 7356399--7356452 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 25
7356389 TAAGGTTGCC
7356399 AATATTTTTTA-AAATTTTTAAAT-
1 AATATTTTTTATAAATTTTTAAATA
* * *
7356422 AATA-TGTTTATATATTTTTAATTA
1 AATATTTTTTATAAATTTTTAAATA
7356446 AATATTT
1 AATATTT
7356453 AATAATTTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
22 5 0.21
23 14 0.58
24 4 0.17
25 1 0.04
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (25 bp):
AATATTTTTTATAAATTTTTAAATA
Found at i:7356453 original size:22 final size:22
Alignment explanation
Indices: 7356406--7356462 Score: 62
Period size: 23 Copynumber: 2.6 Consensus size: 22
7356396 GCCAATATTT
* *
7356406 TTTAAAATTTTTAAATAATATG
1 TTTAATATTTTTAAATAATATA
*
7356428 TTTATATATTTTTAATTAA-ATA
1 TTTA-ATATTTTTAAATAATATA
*
7356450 TTTAATAATTTTA
1 TTTAATATTTTTA
7356463 TATATTTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
21 8 0.27
22 10 0.33
23 12 0.40
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (22 bp):
TTTAATATTTTTAAATAATATA
Found at i:7359399 original size:18 final size:18
Alignment explanation
Indices: 7359366--7359400 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
7359356 TTTGGGTGTG
**
7359366 TATATATATATTTAAATA
1 TATATATATAAGTAAATA
7359384 TATATATATAAGTAAAT
1 TATATATATAAGTAAAT
7359401 GATTTAAATG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (18 bp):
TATATATATAAGTAAATA
Found at i:7361088 original size:29 final size:30
Alignment explanation
Indices: 7361023--7361081 Score: 84
Period size: 31 Copynumber: 2.0 Consensus size: 30
7361013 TTAACAACTT
*
7361023 AATGAATTAAATAAAAACTTTTGAATAGTTC
1 AATGACTTAAATAAAAAC-TTTGAATAGTTC
*
7361054 AATGACTTAAATGAAAAC-TTGAATAGTT
1 AATGACTTAAATAAAAACTTTGAATAGTT
7361082 TAGTGACAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 10 0.38
31 16 0.62
ACGTcount: A:0.47, C:0.07, G:0.12, T:0.34
Consensus pattern (30 bp):
AATGACTTAAATAAAAACTTTGAATAGTTC
Found at i:7364072 original size:25 final size:25
Alignment explanation
Indices: 7364044--7364094 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
7364034 AAGAAGGTGT
*
7364044 ATGTTTTTAAATTATACTTATGGAA
1 ATGTTTTTAAATAATACTTATGGAA
*
7364069 ATGTTTTTAAGTAATACTTATGGAA
1 ATGTTTTTAAATAATACTTATGGAA
7364094 A
1 A
7364095 AAAAAAGGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.37, C:0.04, G:0.14, T:0.45
Consensus pattern (25 bp):
ATGTTTTTAAATAATACTTATGGAA
Found at i:7372318 original size:40 final size:39
Alignment explanation
Indices: 7372274--7372466 Score: 219
Period size: 40 Copynumber: 4.8 Consensus size: 39
7372264 AATTATACAT
*
7372274 TAGCGGCGTTTGATT-AAAAACGCCGCTAAAAACAGAGCAA
1 TAGCGGCGTTT--TTGACAAACGCCGCTAAAAACAGAGCAA
*
7372314 TAGCGGCGTTTTTGGTCAAACGCCGCTAAAAACAGAGCAA
1 TAGCGGCGTTTTT-GACAAACGCCGCTAAAAACAGAGCAA
* *
7372354 TAGCGGCGTTTTTGGCCAAACGCCGCTAAAAACAGGGCAA
1 TAGCGGCGTTTTT-GACAAACGCCGCTAAAAACAGAGCAA
* * * *
7372394 TAGCGGCATTTTTGGCCAAATGCCGCTAAAAAACTGAGCAA
1 TAGCGGCGTTTTT-GACAAACGCCGCT-AAAAACAGAGCAA
*
7372435 TAGCGGCGTTTTTGCTCAAAACGCCGC-AAAAA
1 TAGCGGCGTTTTTG-AC-AAACGCCGCTAAAAA
7372467 GTCATATAAC
Statistics
Matches: 137, Mismatches: 11, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
38 2 0.01
40 103 0.75
41 24 0.18
42 8 0.06
ACGTcount: A:0.34, C:0.23, G:0.24, T:0.20
Consensus pattern (39 bp):
TAGCGGCGTTTTTGACAAACGCCGCTAAAAACAGAGCAA
Found at i:7372375 original size:80 final size:82
Alignment explanation
Indices: 7372290--7372466 Score: 272
Period size: 80 Copynumber: 2.2 Consensus size: 82
7372280 CGTTTGATTA
* *
7372290 AAAACGCCGCTAAAAACAGAGCAATAGCGGCGTTTTTGGTCAAACGCCGCT-AAAAACAGAGCAA
1 AAAACGCCGCTAAAAACAGAGCAATAGCGGCATTTTTGGCCAAACGCCGCTAAAAAACAGAGCAA
7372354 TAGCGGCGTTTTTGGC-C
66 TAGCGGCGTTTTT-GCTC
* * *
7372371 -AAACGCCGCTAAAAACAGGGCAATAGCGGCATTTTTGGCCAAATGCCGCTAAAAAACTGAGCAA
1 AAAACGCCGCTAAAAACAGAGCAATAGCGGCATTTTTGGCCAAACGCCGCTAAAAAACAGAGCAA
7372435 TAGCGGCGTTTTTGCTC
66 TAGCGGCGTTTTTGCTC
7372452 AAAACGCCGC-AAAAA
1 AAAACGCCGCTAAAAA
7372467 GTCATATAAC
Statistics
Matches: 88, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
80 48 0.55
81 31 0.35
82 9 0.10
ACGTcount: A:0.35, C:0.24, G:0.23, T:0.18
Consensus pattern (82 bp):
AAAACGCCGCTAAAAACAGAGCAATAGCGGCATTTTTGGCCAAACGCCGCTAAAAAACAGAGCAA
TAGCGGCGTTTTTGCTC
Found at i:7372524 original size:46 final size:46
Alignment explanation
Indices: 7372471--7372597 Score: 157
Period size: 47 Copynumber: 2.7 Consensus size: 46
7372461 CAAAAAGTCA
7372471 TATAACCCCTAAAATCCTAAACCCAAAAAAATCA-TAAACACTAATC
1 TATAACCCCTAAAATCCTAAACCCAAAAAAA-CACTAAACACTAATC
* **
7372517 TATAACCCCTAAAATCCCTAACCCCTTAAAAACACTAAACACTAATC
1 TATAACCCCTAAAAT-CCTAAACCCAAAAAAACACTAAACACTAATC
*** * *
7372564 TATAACTTTTAAAACCCTAAACCCCAAAAAACAC
1 TATAACCCCTAAAATCCTAAACCCAAAAAAACAC
7372598 CATATGGATG
Statistics
Matches: 69, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
46 33 0.48
47 36 0.52
ACGTcount: A:0.49, C:0.31, G:0.00, T:0.20
Consensus pattern (46 bp):
TATAACCCCTAAAATCCTAAACCCAAAAAAACACTAAACACTAATC
Found at i:7372753 original size:15 final size:15
Alignment explanation
Indices: 7372733--7372767 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
7372723 GATTAAGGTC
*
7372733 TATGGTTTAGGGTTT
1 TATGGTTTAAGGTTT
7372748 TATGGTTTAAGGTTT
1 TATGGTTTAAGGTTT
*
7372763 AATGG
1 TATGG
7372768 CCATGGGTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.20, C:0.00, G:0.31, T:0.49
Consensus pattern (15 bp):
TATGGTTTAAGGTTT
Found at i:7372909 original size:37 final size:37
Alignment explanation
Indices: 7372859--7372952 Score: 152
Period size: 37 Copynumber: 2.5 Consensus size: 37
7372849 TTTTCGTTTG
*
7372859 TCGCCTTCGCCCCGTGCATCGCAACCCATCCCCTCTA
1 TCGCCTTCGCCCCGTGCATCGCAACCCATCCCCTCCA
* *
7372896 TCGCCTTCGCCCCGTGCGTCGCAACCCATCTCCTCCA
1 TCGCCTTCGCCCCGTGCATCGCAACCCATCCCCTCCA
*
7372933 TCGCCTTCGCCCTGTGCATC
1 TCGCCTTCGCCCCGTGCATC
7372953 TGCTGCATAG
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 52 1.00
ACGTcount: A:0.11, C:0.50, G:0.16, T:0.23
Consensus pattern (37 bp):
TCGCCTTCGCCCCGTGCATCGCAACCCATCCCCTCCA
Found at i:7373278 original size:7 final size:7
Alignment explanation
Indices: 7373266--7373316 Score: 84
Period size: 7 Copynumber: 7.0 Consensus size: 7
7373256 AATCTTCAAA
7373266 AAAAATT
1 AAAAATT
7373273 AAAAATT
1 AAAAATT
7373280 AAAAATT
1 AAAAATT
7373287 AAAAATT
1 AAAAATT
7373294 AAAAATT
1 AAAAATT
7373301 AAAAAACTT
1 -AAAAA-TT
7373310 AAAAATT
1 AAAAATT
7373317 TAATATTTTA
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
7 30 0.71
8 10 0.24
9 2 0.05
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (7 bp):
AAAAATT
Found at i:7376387 original size:12 final size:12
Alignment explanation
Indices: 7376370--7376394 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7376360 TCAGTTCAAA
7376370 TTAGTGTTAAAT
1 TTAGTGTTAAAT
7376382 TTAGTGTTAAAT
1 TTAGTGTTAAAT
7376394 T
1 T
7376395 GTTATTTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (12 bp):
TTAGTGTTAAAT
Found at i:7378052 original size:31 final size:31
Alignment explanation
Indices: 7378014--7378094 Score: 98
Period size: 31 Copynumber: 2.6 Consensus size: 31
7378004 GACTTGTATT
7378014 TTATTTATATTTATATTTAATCTA-ATTTTTA
1 TTATTTAT-TTTATATTTAATCTATATTTTTA
*
7378045 TTATTTATTTTAGT-TTTGATTCTATATTTTTA
1 TTATTTATTTTA-TATTT-AATCTATATTTTTA
7378077 TT-TTTATTTT-TATTTAAT
1 TTATTTATTTTATATTTAAT
7378095 AATGAATTTT
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
29 3 0.07
30 10 0.23
31 22 0.50
32 9 0.20
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.69
Consensus pattern (31 bp):
TTATTTATTTTATATTTAATCTATATTTTTA
Found at i:7378208 original size:11 final size:11
Alignment explanation
Indices: 7378192--7378216 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
7378182 TTTTCATGAC
7378192 TTTATAATATT
1 TTTATAATATT
7378203 TTTATAATATT
1 TTTATAATATT
7378214 TTT
1 TTT
7378217 TTTTAAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TTTATAATATT
Found at i:7383409 original size:17 final size:17
Alignment explanation
Indices: 7383387--7383424 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
7383377 CGAAATACAT
*
7383387 AATATACAATAATTTAA
1 AATATAAAATAATTTAA
*
7383404 AATATAAAATAATTTGA
1 AATATAAAATAATTTAA
7383421 AATA
1 AATA
7383425 AATATATAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.34
Consensus pattern (17 bp):
AATATAAAATAATTTAA
Found at i:7386757 original size:5 final size:5
Alignment explanation
Indices: 7386747--7386773 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
7386737 AAAACTTAAT
7386747 TCGAC TCGAC TCGAC TCGAC TCGAC TC
1 TCGAC TCGAC TCGAC TCGAC TCGAC TC
7386774 AATCAAATAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.41, G:0.19, T:0.22
Consensus pattern (5 bp):
TCGAC
Found at i:7386893 original size:3 final size:3
Alignment explanation
Indices: 7386887--7386911 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
7386877 AATATAAGCT
7386887 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
7386912 AGAAATTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:7387878 original size:19 final size:19
Alignment explanation
Indices: 7387851--7387894 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
7387841 AAAACATTGA
*
7387851 TTTTAATAT-TTTTAGTATT
1 TTTTAATATATTATA-TATT
*
7387870 TTTTGATATATTATATATT
1 TTTTAATATATTATATATT
7387889 TTTTAA
1 TTTTAA
7387895 AAACTTATAC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.66
Consensus pattern (19 bp):
TTTTAATATATTATATATT
Found at i:7389527 original size:210 final size:210
Alignment explanation
Indices: 7389226--7389647 Score: 601
Period size: 210 Copynumber: 2.0 Consensus size: 210
7389216 TGTTGTCAGG
* * * ** * *
7389226 TATAATACACTGGTTGATGCGCTTTGCAAGGAAGGGATGGTCTCTGAAGCTGAGGGTTTTGTTGA
1 TATAATACACTGGTTGATGCACATTGCAAGCAAGGGATGGTCTCTGAAGCCAAGGATATTGTTGA
* * *
7389291 CGCAATGATAAAGCGAGGCATTGAGCCTAATGTTGTTACCCATAATGCATTAATCAACGGCCATT
66 CGCAATGAGAAAGAGAGGCATTGAGCCTAATGTTGTTACCCATAATGCATTAATCAACGGCCACT
*
7389356 GCTTGCAGAACGAAATGGATAAAGCTAGAAGAGTTTTCAACTTGATGATTGAGAAGGGTTGTGCA
131 GCTTACAGAACGAAATGGATAAAGCTAGAAGAGTTTTCAACTTGATGATTGAGAAGGGTTGTGCA
*
7389421 CCTGATATAGTTACT
196 CCTAATATAGTTACT
* * *
7389436 TATAATATATTGGTTGATGCACATTGCAAGCAAGGGATGGTCTTTGAAGCCAAGGATATTGTTGA
1 TATAATACACTGGTTGATGCACATTGCAAGCAAGGGATGGTCTCTGAAGCCAAGGATATTGTTGA
* * * ** * * * *
7389501 CTCAATGAGAAAGAGAGGCATTGAGCCTAATGTTGTTACCTATAGTGTGTTAGTTAATGGTCACT
66 CGCAATGAGAAAGAGAGGCATTGAGCCTAATGTTGTTACCCATAATGCATTAATCAACGGCCACT
* * *
7389566 GCTTACAGAATGAAATGGATAAAGCTAGAAGGGTTTTCAGCTTGATGATTGAGAAGGGTTGTGCA
131 GCTTACAGAACGAAATGGATAAAGCTAGAAGAGTTTTCAACTTGATGATTGAGAAGGGTTGTGCA
7389631 CCTAATATAGTTACT
196 CCTAATATAGTTACT
7389646 TA
1 TA
7389648 CAACACCATG
Statistics
Matches: 185, Mismatches: 27, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
210 185 1.00
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (210 bp):
TATAATACACTGGTTGATGCACATTGCAAGCAAGGGATGGTCTCTGAAGCCAAGGATATTGTTGA
CGCAATGAGAAAGAGAGGCATTGAGCCTAATGTTGTTACCCATAATGCATTAATCAACGGCCACT
GCTTACAGAACGAAATGGATAAAGCTAGAAGAGTTTTCAACTTGATGATTGAGAAGGGTTGTGCA
CCTAATATAGTTACT
Found at i:7395433 original size:17 final size:18
Alignment explanation
Indices: 7395405--7395457 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
7395395 TAAACATTTA
*
7395405 TTTTAATGTTATTA-GTAT
1 TTTTAAT-TTATTATATAT
*
7395423 TTTTGATTTATTATATAT
1 TTTTAATTTATTATATAT
*
7395441 TTTTAATTTTTTATATA
1 TTTTAATTTATTATATA
7395458 AAAATTTTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
17 6 0.20
18 24 0.80
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (18 bp):
TTTTAATTTATTATATAT
Found at i:7397456 original size:8 final size:9
Alignment explanation
Indices: 7397441--7397502 Score: 54
Period size: 9 Copynumber: 6.8 Consensus size: 9
7397431 TTAGGGTTAG
7397441 AGAAAAAGA
1 AGAAAAAGA
7397450 A-AAAAAGA
1 AGAAAAAGA
7397458 AGAAAAAGA
1 AGAAAAAGA
*
7397467 AGAAGAGAAGG
1 AGAA-A-AAGA
*
7397478 AGAAGAAGA
1 AGAAAAAGA
* *
7397487 AGGAGAAGA
1 AGAAAAAGA
*
7397496 GGAAAAA
1 AGAAAAA
7397503 TAGAGATGCC
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
8 8 0.19
9 27 0.63
10 1 0.02
11 7 0.16
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (9 bp):
AGAAAAAGA
Found at i:7397460 original size:3 final size:3
Alignment explanation
Indices: 7397441--7397495 Score: 51
Period size: 3 Copynumber: 19.0 Consensus size: 3
7397431 TTAGGGTTAG
* * * *
7397441 AGA AAA AGA A-A AAA AGA AGA AAA AGA AGA AG- AGA AGG AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
*
7397487 AGG AGA AGA
1 AGA AGA AGA
7397496 GGAAAAATAG
Statistics
Matches: 41, Mismatches: 9, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
2 4 0.10
3 37 0.90
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:7397475 original size:17 final size:17
Alignment explanation
Indices: 7397441--7397495 Score: 65
Period size: 17 Copynumber: 3.2 Consensus size: 17
7397431 TTAGGGTTAG
* *
7397441 AGAAAAAGAAAAAAAGA
1 AGAAAAAGAAGAAGAGA
7397458 AGAAAAAGAAGAAGAGA
1 AGAAAAAGAAGAAGAGA
* *
7397475 AGGAGAAGAAGAAGGAGA
1 AGAAAAAGAAGAA-GAGA
7397493 AGA
1 AGA
7397496 GGAAAAATAG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
17 26 0.81
18 6 0.19
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (17 bp):
AGAAAAAGAAGAAGAGA
Found at i:7398177 original size:23 final size:23
Alignment explanation
Indices: 7398142--7398191 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
7398132 AAGAGATAAT
* *
7398142 AGTTCGTAGACAAATTGCTTAAC
1 AGTTAGTAGACAAAATGCTTAAC
*
7398165 AGTTAGTATACAAAATGCTTAAC
1 AGTTAGTAGACAAAATGCTTAAC
7398188 AGTT
1 AGTT
7398192 GCTTAACTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (23 bp):
AGTTAGTAGACAAAATGCTTAAC
Found at i:7398676 original size:21 final size:21
Alignment explanation
Indices: 7398646--7398696 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
7398636 GGCGGCCTGT
7398646 TGAGTTGGGGTA-CCATCTTGC
1 TGAGTTGGGGTAGCC-TCTTGC
* *
7398667 TGATTTGGGGTAGCCTGTTGC
1 TGAGTTGGGGTAGCCTCTTGC
7398688 TGAGTTGGG
1 TGAGTTGGG
7398697 ACACCAACTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 24 0.92
22 2 0.08
ACGTcount: A:0.12, C:0.14, G:0.39, T:0.35
Consensus pattern (21 bp):
TGAGTTGGGGTAGCCTCTTGC
Found at i:7399664 original size:48 final size:48
Alignment explanation
Indices: 7399608--7399732 Score: 187
Period size: 48 Copynumber: 2.6 Consensus size: 48
7399598 TTGGATATAA
* * * *
7399608 ACAATGGCAGATATACAGAATAAACATCAGTTTGATAATGGCATTTAT
1 ACAATGGCAGATATACACAATAAACATCAATTTGATAAGGGCATTCAT
*
7399656 ACAATGGCAGATATACATAATAAACATCAATTTGATAAGGGCATTCAT
1 ACAATGGCAGATATACACAATAAACATCAATTTGATAAGGGCATTCAT
* *
7399704 ACAATGACAGATATAAACAATAAACATCA
1 ACAATGGCAGATATACACAATAAACATCA
7399733 TACAAACAAA
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 70 1.00
ACGTcount: A:0.46, C:0.14, G:0.14, T:0.26
Consensus pattern (48 bp):
ACAATGGCAGATATACACAATAAACATCAATTTGATAAGGGCATTCAT
Found at i:7399776 original size:6 final size:6
Alignment explanation
Indices: 7399767--7399851 Score: 53
Period size: 6 Copynumber: 14.2 Consensus size: 6
7399757 AAATAATCCT
* * * * * * **
7399767 AAATCG AAATCT AAATCC AAATCA AAATTA AATTCT AAATCA AAATTG
1 AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA
* * ** *
7399815 AGATCG AAATTG AAATCA AAATCA AAATCA GAATCA A
1 AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA A
7399852 TGAGTGTTTC
Statistics
Matches: 60, Mismatches: 19, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
6 60 1.00
ACGTcount: A:0.55, C:0.14, G:0.07, T:0.24
Consensus pattern (6 bp):
AAATCA
Found at i:7399794 original size:18 final size:17
Alignment explanation
Indices: 7399761--7399813 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 17
7399751 AAATCGAAAT
*
7399761 AATCCTAAATCGAAATCTA
1 AATCC-AAATCAAAAT-TA
7399780 AATCCAAATCAAAATTA
1 AATCCAAATCAAAATTA
*
7399797 AATTCTAAATCAAAATT
1 AA-TCCAAATCAAAATT
7399814 GAGATCGAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
17 4 0.13
18 22 0.71
19 5 0.16
ACGTcount: A:0.53, C:0.17, G:0.02, T:0.28
Consensus pattern (17 bp):
AATCCAAATCAAAATTA
Found at i:7399902 original size:18 final size:18
Alignment explanation
Indices: 7399868--7399903 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
7399858 TTTCAGAATT
**
7399868 GAAATCAAAATTGAAATA
1 GAAATCAAAATAAAAATA
7399886 GAAATCAAAATAAAAATA
1 GAAATCAAAATAAAAATA
7399904 AAAAAATTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.67, C:0.06, G:0.08, T:0.19
Consensus pattern (18 bp):
GAAATCAAAATAAAAATA
Found at i:7402248 original size:14 final size:13
Alignment explanation
Indices: 7402210--7402248 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
7402200 TTGTTTCATT
7402210 GAAAATGACTTTCG
1 GAAAATGA-TTTCG
*
7402224 GAAAATAATTTCTG
1 GAAAATGATTTC-G
7402238 GAAAATGATTT
1 GAAAATGATTT
7402249 ACTTTTCTGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 4 0.18
14 18 0.82
ACGTcount: A:0.41, C:0.08, G:0.18, T:0.33
Consensus pattern (13 bp):
GAAAATGATTTCG
Found at i:7402794 original size:16 final size:17
Alignment explanation
Indices: 7402753--7402794 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
7402743 ATAATATGTG
7402753 AATAATATTATTTAAAAT
1 AATAA-ATTATTTAAAAT
* *
7402771 TATTAATTA-TTAAAAT
1 AATAAATTATTTAAAAT
7402787 AATAAATT
1 AATAAATT
7402795 GTTTTTATTA
Statistics
Matches: 20, Mismatches: 4, Indels: 2
0.77 0.15 0.08
Matches are distributed among these distances:
16 13 0.65
17 4 0.20
18 3 0.15
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
AATAAATTATTTAAAAT
Found at i:7402831 original size:17 final size:17
Alignment explanation
Indices: 7402798--7402832 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
7402788 ATAAATTGTT
*
7402798 TTTATTATATTAATAAA
1 TTTATTATATGAATAAA
*
7402815 TTTATTATATGACTAAA
1 TTTATTATATGAATAAA
7402832 T
1 T
7402833 ATAAATAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (17 bp):
TTTATTATATGAATAAA
Found at i:7407050 original size:48 final size:48
Alignment explanation
Indices: 7406997--7407105 Score: 191
Period size: 48 Copynumber: 2.3 Consensus size: 48
7406987 TTGGATACAA
* *
7406997 ACAATGGCAGATATACAGAATAAACATCAGTTTGATAATGGCATTTAT
1 ACAATGGCAGATATACAGAATAAACATCAATTTGATAATGGCATTCAT
*
7407045 ACAATGGCAGATATACATAATAAACATCAATTTGATAATGGCATTCAT
1 ACAATGGCAGATATACAGAATAAACATCAATTTGATAATGGCATTCAT
7407093 ACAATGGCAGATA
1 ACAATGGCAGATA
7407106 CAAACAATTA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 58 1.00
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.28
Consensus pattern (48 bp):
ACAATGGCAGATATACAGAATAAACATCAATTTGATAATGGCATTCAT
Found at i:7408798 original size:24 final size:22
Alignment explanation
Indices: 7408771--7408843 Score: 64
Period size: 19 Copynumber: 3.3 Consensus size: 22
7408761 AATACTACAC
*
7408771 AAATATATACATATATTTTAAAAT
1 AAATATATA-ATA-ATATTAAAAT
*
7408795 AAATATATAATAATATTAGAAT
1 AAATATATAATAATATTAAAAT
7408817 -AA-A-ATAATAAGTA-TAATAAT
1 AAATATATAATAA-TATTAA-AAT
7408837 AAATATA
1 AAATATA
7408844 AGGACATATA
Statistics
Matches: 41, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
19 9 0.22
20 6 0.15
21 4 0.10
22 9 0.22
23 4 0.10
24 9 0.22
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.36
Consensus pattern (22 bp):
AAATATATAATAATATTAAAAT
Found at i:7409153 original size:27 final size:27
Alignment explanation
Indices: 7409101--7409155 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
7409091 TACACACAAT
*
7409101 ATATATATATATATATAAAATTTTAAA
1 ATATATATATATATATAAAATATTAAA
* *
7409128 ATATTTATATAGTATAT-ACATATTAAA
1 ATATATATATA-TATATAAAATATTAAA
7409155 A
1 A
7409156 AATGTCTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 19 0.79
28 5 0.21
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (27 bp):
ATATATATATATATATAAAATATTAAA
Found at i:7410437 original size:3 final size:3
Alignment explanation
Indices: 7410429--7410472 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
7410419 ATAAAACATT
7410429 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
7410473 TTGGAATGCA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:7413976 original size:8 final size:9
Alignment explanation
Indices: 7413949--7413975 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
7413939 ACCAATTATA
7413949 TGCTATTTT
1 TGCTATTTT
7413958 TGCTATTTT
1 TGCTATTTT
7413967 TGCTATTTT
1 TGCTATTTT
7413976 GGTACACTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.11, C:0.11, G:0.11, T:0.67
Consensus pattern (9 bp):
TGCTATTTT
Found at i:7414926 original size:15 final size:15
Alignment explanation
Indices: 7414906--7414936 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
7414896 CATTTTAATA
7414906 GTTAATGGATGATGG
1 GTTAATGGATGATGG
7414921 GTTAATGGATGATGG
1 GTTAATGGATGATGG
7414936 G
1 G
7414937 CATTAGCATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.42, T:0.32
Consensus pattern (15 bp):
GTTAATGGATGATGG
Found at i:7416489 original size:26 final size:26
Alignment explanation
Indices: 7416460--7416509 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
7416450 ACAGTTTTAT
7416460 CCCTAGGAGATAAATT-ACCGAAATAC
1 CCCTAGG-GATAAATTGACCGAAATAC
* *
7416486 CCCTAGGGTTAAATTGACCTAAAT
1 CCCTAGGGATAAATTGACCGAAAT
7416510 GCATGTTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.38, C:0.22, G:0.16, T:0.24
Consensus pattern (26 bp):
CCCTAGGGATAAATTGACCGAAATAC
Found at i:7418748 original size:20 final size:20
Alignment explanation
Indices: 7418725--7418767 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
7418715 TTTTTATAAA
**
7418725 ATTTAATTTCTATTAAAATT
1 ATTTAATTTAAATTAAAATT
*
7418745 ATTTAATTTAAATTAAATTT
1 ATTTAATTTAAATTAAAATT
7418765 ATT
1 ATT
7418768 CAATATATGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (20 bp):
ATTTAATTTAAATTAAAATT
Found at i:7419074 original size:17 final size:16
Alignment explanation
Indices: 7419052--7419083 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
7419042 AACACTTTTG
7419052 TAGAATATTTATAAAAA
1 TAGAATATTT-TAAAAA
7419069 TAGAATATTTTAAAA
1 TAGAATATTTTAAAA
7419084 TTTTAATCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (16 bp):
TAGAATATTTTAAAAA
Found at i:7423270 original size:13 final size:13
Alignment explanation
Indices: 7423252--7423283 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
7423242 CAGAGTTAAG
7423252 AAAAAGAAAAGAA
1 AAAAAGAAAAGAA
*
7423265 AAAAAGAGAAGAA
1 AAAAAGAAAAGAA
7423278 AAAAAG
1 AAAAAG
7423284 GGACAAAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (13 bp):
AAAAAGAAAAGAA
Found at i:7426173 original size:20 final size:20
Alignment explanation
Indices: 7426150--7426201 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 20
7426140 AAATCTAAAT
7426150 TAAAATACTGAAATTCAGGA
1 TAAAATACTGAAATTCAGGA
* *
7426170 TAAAATCCTAAAATTCAGGA
1 TAAAATACTGAAATTCAGGA
7426190 TAAAAATACTGA
1 T-AAAATACTGA
7426202 TATGGCATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 19 0.70
21 8 0.30
ACGTcount: A:0.52, C:0.12, G:0.12, T:0.25
Consensus pattern (20 bp):
TAAAATACTGAAATTCAGGA
Found at i:7430942 original size:11 final size:11
Alignment explanation
Indices: 7430936--7430975 Score: 71
Period size: 11 Copynumber: 3.6 Consensus size: 11
7430926 TGAAATTTTC
7430936 TCAAAATTCTA
1 TCAAAATTCTA
*
7430947 TCAAATTTCTA
1 TCAAAATTCTA
7430958 TCAAAATTCTA
1 TCAAAATTCTA
7430969 TCAAAAT
1 TCAAAAT
7430976 CATTTGTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.45, C:0.17, G:0.00, T:0.38
Consensus pattern (11 bp):
TCAAAATTCTA
Found at i:7430961 original size:22 final size:22
Alignment explanation
Indices: 7430911--7430973 Score: 76
Period size: 22 Copynumber: 2.9 Consensus size: 22
7430901 CCTTAAAAAA
* *
7430911 TCTATCAAATTTC-ATTGAAATT
1 TCTATCAAAATTCTA-TCAAATT
*
7430933 T-TCTCAAAATTCTATCAAATT
1 TCTATCAAAATTCTATCAAATT
7430954 TCTATCAAAATTCTATCAAA
1 TCTATCAAAATTCTATCAAA
7430974 ATCATTTGTT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
21 16 0.46
22 19 0.54
ACGTcount: A:0.40, C:0.17, G:0.02, T:0.41
Consensus pattern (22 bp):
TCTATCAAAATTCTATCAAATT
Found at i:7431174 original size:48 final size:47
Alignment explanation
Indices: 7431115--7431245 Score: 155
Period size: 47 Copynumber: 2.8 Consensus size: 47
7431105 TGATAATTTT
7431115 AAATTTTCAATACTATTTGATATTTTTTTCATTTATGCAAATT-TAAT-
1 AAATTTTCAATA-TATTTGATATTTTTTTCATTTATGC-AATTATAATC
* *
7431162 TAATTTTGCAATATTATTTTATA-TTTTTTCATTTATGCAATTATAATC
1 AAATTTT-CAATA-TATTTGATATTTTTTTCATTTATGCAATTATAATC
7431210 AAATTTTCAAT-TATGCTTGAT-TTTTTTTCATTTATG
1 AAATTTTCAATATAT--TTGATATTTTTTTCATTTATG
7431246 ATGTTTGCAT
Statistics
Matches: 73, Mismatches: 5, Indels: 12
0.81 0.06 0.13
Matches are distributed among these distances:
45 3 0.04
46 4 0.05
47 47 0.64
48 19 0.26
ACGTcount: A:0.31, C:0.08, G:0.05, T:0.56
Consensus pattern (47 bp):
AAATTTTCAATATATTTGATATTTTTTTCATTTATGCAATTATAATC
Found at i:7445956 original size:93 final size:93
Alignment explanation
Indices: 7445841--7446011 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
7445831 GCCCATAAGT
* * *
7445841 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCGTCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
7445906 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
7445934 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
7445999 TGAGTTCGGATGC
66 CGAGTTCGGATGC
7446012 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:7446008 original size:46 final size:46
Alignment explanation
Indices: 7445833--7446008 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
7445823 TGTAACCCGC
* * * *
7445833 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCGT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
7445879 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* * *
7445929 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
7445972 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
7446009 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 63 0.58
47 29 0.27
48 2 0.02
49 1 0.01
50 2 0.02
51 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:7448514 original size:3 final size:3
Alignment explanation
Indices: 7448506--7448532 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
7448496 TAAAAGGAAG
7448506 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
7448533 TGAATATTGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:7450955 original size:19 final size:18
Alignment explanation
Indices: 7450926--7450963 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
7450916 ACATTTTCCG
7450926 ATAATTGATTTTTGGAAA
1 ATAATTGATTTTTGGAAA
*
7450944 ATAATATGATTTTTTGAAA
1 ATAAT-TGATTTTTGGAAA
7450963 A
1 A
7450964 ATGTAATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.45
Consensus pattern (18 bp):
ATAATTGATTTTTGGAAA
Found at i:7450959 original size:20 final size:18
Alignment explanation
Indices: 7450926--7450965 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 18
7450916 ACATTTTCCG
*
7450926 ATAATTGATTTTTGGAAA
1 ATAATTGATTTTTGAAAA
7450944 ATAATATGATTTTTTGAAAA
1 ATAAT-TGA-TTTTTGAAAA
7450964 AT
1 AT
7450966 GTAATATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.26
19 3 0.16
20 11 0.58
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.45
Consensus pattern (18 bp):
ATAATTGATTTTTGAAAA
Found at i:7454280 original size:75 final size:75
Alignment explanation
Indices: 7454157--7454307 Score: 302
Period size: 75 Copynumber: 2.0 Consensus size: 75
7454147 TTGTGTAAAG
7454157 ATCATCACTTGCAATGTGAAACAGTTTATCACCATTGTACAGTGATAAAAGATTCTGGAAACTTG
1 ATCATCACTTGCAATGTGAAACAGTTTATCACCATTGTACAGTGATAAAAGATTCTGGAAACTTG
7454222 AATGAGGTTT
66 AATGAGGTTT
7454232 ATCATCACTTGCAATGTGAAACAGTTTATCACCATTGTACAGTGATAAAAGATTCTGGAAACTTG
1 ATCATCACTTGCAATGTGAAACAGTTTATCACCATTGTACAGTGATAAAAGATTCTGGAAACTTG
7454297 AATGAGGTTT
66 AATGAGGTTT
7454307 A
1 A
7454308 GTGTATATTT
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 76 1.00
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.32
Consensus pattern (75 bp):
ATCATCACTTGCAATGTGAAACAGTTTATCACCATTGTACAGTGATAAAAGATTCTGGAAACTTG
AATGAGGTTT
Found at i:7466351 original size:27 final size:27
Alignment explanation
Indices: 7466321--7466390 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
7466311 AATAATCAAT
*
7466321 TCAATATCCAACAATGTTAAAACATA-A
1 TCAATATCCAACAAT-TCAAAACATATA
* *
7466348 TCAATATCTAACAAATTCAAGACATATA
1 TCAATATCCAAC-AATTCAAAACATATA
*
7466376 TCAAAATCCAACAAT
1 TCAATATCCAACAAT
7466391 CTAAAATTTC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
27 22 0.61
28 14 0.39
ACGTcount: A:0.51, C:0.20, G:0.03, T:0.26
Consensus pattern (27 bp):
TCAATATCCAACAATTCAAAACATATA
Found at i:7469976 original size:17 final size:18
Alignment explanation
Indices: 7469954--7469990 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
7469944 TGGAATAAAC
7469954 TTAGTTAA-TTAAATAAG
1 TTAGTTAATTTAAATAAG
*
7469971 TTAGTTAATTTAATTAAG
1 TTAGTTAATTTAAATAAG
7469989 TT
1 TT
7469991 CAGCTCAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.49
Consensus pattern (18 bp):
TTAGTTAATTTAAATAAG
Found at i:7472777 original size:18 final size:18
Alignment explanation
Indices: 7472721--7472780 Score: 66
Period size: 18 Copynumber: 3.2 Consensus size: 18
7472711 AGTGCGAGCG
7472721 AGAAAAAGAAATCAAAAGAAA
1 AGAAAAAGAAATC--AA-AAA
* **
7472742 AGAAAAAGAGATTGAAAA
1 AGAAAAAGAAATCAAAAA
7472760 AGAAAAAGAAATCAAAAA
1 AGAAAAAGAAATCAAAAA
7472778 AGA
1 AGA
7472781 GAGTGAGGTC
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
18 21 0.64
19 1 0.03
21 11 0.33
ACGTcount: A:0.73, C:0.03, G:0.17, T:0.07
Consensus pattern (18 bp):
AGAAAAAGAAATCAAAAA
Found at i:7474611 original size:17 final size:18
Alignment explanation
Indices: 7474589--7474625 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
7474579 TGGAATAAAC
7474589 TTAGTTAA-TTAAATAAG
1 TTAGTTAATTTAAATAAG
*
7474606 TTAGTTAATTTAATTAAG
1 TTAGTTAATTTAAATAAG
7474624 TT
1 TT
7474626 CAGCTCAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.49
Consensus pattern (18 bp):
TTAGTTAATTTAAATAAG
Found at i:7476547 original size:24 final size:24
Alignment explanation
Indices: 7476520--7476592 Score: 119
Period size: 24 Copynumber: 3.0 Consensus size: 24
7476510 TGCAATCGAT
*
7476520 AGGGTGAATAGAGGAGCTGTGGAA
1 AGGGTGAAGAGAGGAGCTGTGGAA
* *
7476544 AGGGTGAAGAGAGGAACAGTGGAA
1 AGGGTGAAGAGAGGAGCTGTGGAA
7476568 AGGGTGAAGAGAGGAGCTGTGGAA
1 AGGGTGAAGAGAGGAGCTGTGGAA
7476592 A
1 A
7476593 ATGTCTTACC
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.37, C:0.04, G:0.47, T:0.12
Consensus pattern (24 bp):
AGGGTGAAGAGAGGAGCTGTGGAA
Found at i:7478470 original size:25 final size:26
Alignment explanation
Indices: 7478424--7478501 Score: 74
Period size: 25 Copynumber: 3.1 Consensus size: 26
7478414 ATATTTAATC
** *
7478424 ATATAATAAGTTATTAAT-ATAATTT
1 ATATAATATTTTAATAATAATAATTT
7478449 ATATAAT-TTATTAA-AATAATAATTT
1 ATATAATATT-TTAATAATAATAATTT
*
7478474 ATTTAATATTTTAATAATAA-ATATTT
1 ATATAATATTTTAATAATAATA-ATTT
7478500 AT
1 AT
7478502 TACAATTATA
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
24 3 0.07
25 28 0.64
26 13 0.30
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (26 bp):
ATATAATATTTTAATAATAATAATTT
Found at i:7478496 original size:15 final size:15
Alignment explanation
Indices: 7478478--7478534 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
7478468 TAATTTATTT
7478478 AATATTTTAATAATA
1 AATATTTTAATAATA
*
7478493 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
* *
7478512 AATATATTAATAACA
1 AATATTTTAATAATA
7478527 AATATTTT
1 AATATTTT
7478535 TTTAGTATAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.46
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:7478967 original size:9 final size:9
Alignment explanation
Indices: 7478938--7479015 Score: 50
Period size: 10 Copynumber: 8.0 Consensus size: 9
7478928 TTCTCTTTTA
7478938 TTTTTTACTT
1 TTTTTTA-TT
* *
7478948 TTGTTTCTT
1 TTTTTTATT
7478957 TTTTTTATT
1 TTTTTTATT
7478966 TTTTATGT-TT
1 TTTT-T-TATT
7478976 TGTCTTTTATT
1 T-T-TTTTATT
*
7478987 TTTATTCATT
1 TTT-TTTATT
7478997 TTATTTTATT
1 TT-TTTTATT
*
7479007 TTATTTATT
1 TTTTTTATT
7479016 ATTATTAACT
Statistics
Matches: 54, Mismatches: 7, Indels: 15
0.71 0.09 0.20
Matches are distributed among these distances:
9 20 0.37
10 25 0.46
11 7 0.13
12 2 0.04
ACGTcount: A:0.13, C:0.05, G:0.04, T:0.78
Consensus pattern (9 bp):
TTTTTTATT
Found at i:7478969 original size:26 final size:27
Alignment explanation
Indices: 7478933--7478992 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
7478923 TCAGTTTCTC
*
7478933 TTTTATTTTTTA-CTTTTGT-TTCTTTT
1 TTTTATTTTTTATCTTTTGTCTT-TTAT
*
7478959 TTTTATTTTTTATGTTTTGTCTTTTAT
1 TTTTATTTTTTATCTTTTGTCTTTTAT
7478986 TTTTATT
1 TTTTATT
7478993 CATTTTATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
26 12 0.40
27 16 0.53
28 2 0.07
ACGTcount: A:0.10, C:0.05, G:0.05, T:0.80
Consensus pattern (27 bp):
TTTTATTTTTTATCTTTTGTCTTTTAT
Found at i:7479003 original size:20 final size:20
Alignment explanation
Indices: 7478980--7479021 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
7478970 ATGTTTTGTC
7478980 TTTTATTTTTATTCATT-TTA
1 TTTTA-TTTTATTCATTATTA
*
7479000 TTTTATTTTATTTATTATTA
1 TTTTATTTTATTCATTATTA
7479020 TT
1 TT
7479022 AACTTTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.76
Consensus pattern (20 bp):
TTTTATTTTATTCATTATTA
Found at i:7479052 original size:22 final size:22
Alignment explanation
Indices: 7479025--7479096 Score: 72
Period size: 22 Copynumber: 3.1 Consensus size: 22
7479015 TATTATTAAC
*
7479025 TTTAAAAAATTTGAAATATATA
1 TTTAAAAAATTTTAAATATATA
*
7479047 TTTAAAATATTTTATTAATATATA
1 TTTAAAAAATTTTA--AATATATA
***
7479071 TATTTTTAAATTTTAAATATATA
1 T-TTAAAAAATTTTAAATATATA
7479094 TTT
1 TTT
7479097 TGAAATTACT
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
22 14 0.34
23 9 0.22
24 9 0.22
25 9 0.22
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (22 bp):
TTTAAAAAATTTTAAATATATA
Found at i:7479092 original size:21 final size:22
Alignment explanation
Indices: 7479061--7479103 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
7479051 AAATATTTTA
*
7479061 TTAATATATATATTTTTAAATT
1 TTAATATATATATTTTGAAATT
7479083 TTAA-ATATATATTTTGAAATT
1 TTAATATATATATTTTGAAATT
7479104 ACTGTTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (22 bp):
TTAATATATATATTTTGAAATT
Found at i:7479117 original size:21 final size:19
Alignment explanation
Indices: 7479093--7479172 Score: 56
Period size: 21 Copynumber: 3.8 Consensus size: 19
7479083 TTAAATATAT
7479093 ATTTTGAAATTACTGTTTT-AA
1 ATTTT-AAATTA-T-TTTTAAA
7479114 ATTTTAAATATTATTTTTAAA
1 ATTTT-AA-ATTATTTTTAAA
7479135 ATTTTAAATATTATTTTCT-AA
1 ATTTT-AA-ATTATTTT-TAAA
*
7479156 ATATTAAATATATTTTT
1 ATTTTAAAT-TATTTTT
7479173 TAATACTATA
Statistics
Matches: 53, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
19 3 0.06
20 12 0.23
21 33 0.62
22 5 0.09
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.56
Consensus pattern (19 bp):
ATTTTAAATTATTTTTAAA
Found at i:7479184 original size:21 final size:20
Alignment explanation
Indices: 7479111--7479171 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 20
7479101 ATTACTGTTT
*
7479111 TAAATTTTAAATATTATTTT-
1 TAAATATTAAATA-TATTTTC
*
7479131 TAAAATTTTAAATATTATTTTC
1 T-AAATATTAAATA-TATTTTC
7479153 TAAATATTAAATATATTTT
1 TAAATATTAAATATATTTT
7479172 TTAATACTAT
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
20 7 0.18
21 30 0.79
22 1 0.03
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (20 bp):
TAAATATTAAATATATTTTC
Found at i:7479186 original size:22 final size:20
Alignment explanation
Indices: 7479140--7479188 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 20
7479130 TTAAAATTTT
*
7479140 AAATATTATTTTCTAAATATT
1 AAATA-TATTTTCTAAATATA
*
7479161 AAATATATTTTTTAATACTATA
1 AAATATATTTTCTAA-A-TATA
7479183 AAATAT
1 AAATAT
7479189 TTAAATATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 9 0.38
21 6 0.25
22 9 0.38
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (20 bp):
AAATATATTTTCTAAATATA
Found at i:7479346 original size:25 final size:25
Alignment explanation
Indices: 7479290--7479347 Score: 84
Period size: 23 Copynumber: 2.4 Consensus size: 25
7479280 TGCATATTTA
*
7479290 AAATATTTTATAATATATATTTTTT
1 AAATATTTTATAATATATAATTTTT
7479315 AAA-ATTTTA-AATATATAATTTTT
1 AAATATTTTATAATATATAATTTTT
7479338 AAATTATTTT
1 AAA-TATTTT
7479348 TCTAAATTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
23 16 0.53
24 6 0.20
25 8 0.27
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (25 bp):
AAATATTTTATAATATATAATTTTT
Found at i:7479348 original size:34 final size:34
Alignment explanation
Indices: 7479306--7479396 Score: 123
Period size: 35 Copynumber: 2.7 Consensus size: 34
7479296 TTTATAATAT
7479306 ATATTTTTTAAAATTTTAAATATATAATTTTTAA
1 ATATTTTTTAAAATTTTAAATATATAATTTTTAA
* *
7479340 ATTATTTTTCT-AAATTTTAAAT-TATTATTTTTTA
1 A-TATTTTT-TAAAATTTTAAATATATAATTTTTAA
*
7479374 ATATTTTTTAAAATATTAAATAT
1 ATATTTTTTAAAATTTTAAATAT
7479397 TAAATATATT
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
32 1 0.02
33 17 0.34
34 13 0.26
35 18 0.36
36 1 0.02
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (34 bp):
ATATTTTTTAAAATTTTAAATATATAATTTTTAA
Found at i:7479441 original size:236 final size:237
Alignment explanation
Indices: 7479002--7479505 Score: 729
Period size: 236 Copynumber: 2.1 Consensus size: 237
7478992 TCATTTTATT
* * * * *
7479002 TTATTTTATTTATTATTATTA-ACTTTAAAAAATTTGAAATATATATTTAAAATATTTTATTAAT
1 TTATTTAATTTATT-TTATAATATTTTAAAAAACTTGAAATACATATTTAAAATATTTTATTAAT
7479066 ATATATATTTTTAAATTTTAAATATATATTTTGAAATTACTGTTTTAAATTTTAAATATTATTTT
65 ATATATATTTTTAAATTTTAAATATATATTTTGAAATTACTGTTTTAAATTTTAAATATTATTTT
*
7479131 TAAAATTTTAAATATTATTTTCTAAATATTAAATATATTTTTTAATACTATAAAATATTTAAATA
130 TAAAATTTTAAATATTA--TTCTAAATATTAAATATATTTTTTAATAATATAAAATATTTAAATA
7479196 TTTTAAACTTTCAAATTTGTTACTAGTTTTATAATATTTTAAATA
193 TTTTAAACTTTCAAATTTGTTACTAGTTTTATAATATTTTAAATA
* *
7479241 TTATTTAATTTGTTTTATAATATTTTAAAAAACTTGAAATGCATATTTAAAATATTTTA-TAATA
1 TTATTTAATTTATTTTATAATATTTTAAAAAACTTGAAATACATATTTAAAATATTTTATTAATA
* *
7479305 TATAT-TTTTTAAAATTTTAAATATATAATTTTTAAATTA-TTTTTCTAAATTTTAAATTATTAT
66 TATATATTTTT-AAATTTTAAATATAT-ATTTTGAAATTACTGTTT-TAAATTTTAAA-TATTA-
*
7479368 TTTTTAATATTTTTTAAA-A-TA-T-TAAATATTAAATATA-TTTTTAATAATATAAAATATTTA
126 TTTTTAA-A-ATTTTAAATATTATTCTAAATATTAAATATATTTTTTAATAATATAAAATATTTA
* * *
7479428 AGTATTTTAAACTTTCAAATTTGTTATTAGTTTTATAATATTTTAGATA
189 AATATTTTAAACTTTCAAATTTGTTACTAGTTTTATAATATTTTAAATA
7479477 TTATTTAATTTATTTTATAATATTTTAAA
1 TTATTTAATTTATTTTATAATATTTTAAA
7479506 TTATGAATTT
Statistics
Matches: 242, Mismatches: 15, Indels: 19
0.88 0.05 0.07
Matches are distributed among these distances:
236 96 0.40
237 20 0.08
238 35 0.14
239 68 0.28
240 5 0.02
241 9 0.04
242 2 0.01
243 7 0.03
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (237 bp):
TTATTTAATTTATTTTATAATATTTTAAAAAACTTGAAATACATATTTAAAATATTTTATTAATA
TATATATTTTTAAATTTTAAATATATATTTTGAAATTACTGTTTTAAATTTTAAATATTATTTTT
AAAATTTTAAATATTATTCTAAATATTAAATATATTTTTTAATAATATAAAATATTTAAATATTT
TAAACTTTCAAATTTGTTACTAGTTTTATAATATTTTAAATA
Found at i:7479493 original size:31 final size:28
Alignment explanation
Indices: 7479458--7479519 Score: 88
Period size: 31 Copynumber: 2.1 Consensus size: 28
7479448 TTGTTATTAG
*
7479458 TTTTATAATATTTTAGATATTATTTAATTTA
1 TTTTATAATATTTTA-A-ATTA-TGAATTTA
7479489 TTTTATAATATTTTAAATTATGAATTTA
1 TTTTATAATATTTTAAATTATGAATTTA
7479517 TTT
1 TTT
7479520 AAAAAATAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 10 0.33
29 4 0.13
30 1 0.03
31 15 0.50
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.61
Consensus pattern (28 bp):
TTTTATAATATTTTAAATTATGAATTTA
Found at i:7479507 original size:21 final size:21
Alignment explanation
Indices: 7479466--7479507 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
7479456 AGTTTTATAA
* *
7479466 TATTTTAGATATTATTTAATT
1 TATTTTAAATATTATTAAATT
7479487 TATTTTATAATATT-TTAAATT
1 TATTTTA-AATATTATTAAATT
7479508 ATGAATTTAT
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:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (21 bp):
TATTTTAAATATTATTAAATT
Found at i:7479853 original size:15 final size:15
Alignment explanation
Indices: 7479833--7479863 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
7479823 TAAGTAAACT
7479833 TAAGATACCCATGTC
1 TAAGATACCCATGTC
7479848 TAAGATACCCATGTC
1 TAAGATACCCATGTC
7479863 T
1 T
7479864 GTTAGAGGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.26, G:0.13, T:0.29
Consensus pattern (15 bp):
TAAGATACCCATGTC
Found at i:7486207 original size:105 final size:105
Alignment explanation
Indices: 7486016--7486229 Score: 259
Period size: 105 Copynumber: 2.0 Consensus size: 105
7486006 TCACTTGATA
* * *
7486016 TTGTCACATATAATATATTGATTGATGCACTTTGCAAGGAAGGAACGATTTCTAAAGCTGTAGAG
1 TTGTCACATATAATACATTGATTGATGCACATTGCAAGGAAGGAACGATCTCTAAAGCTGTAGAG
7486081 ATCGTTGACACAATGAGAAAGCAAGGCATTGAACCTAATG
66 ATCGTTGACACAATGAGAAAGCAAGGCATTGAACCTAATG
* * * * * * *
7486121 TTGTCACGTATAATACATTGGTTGATGCGCATTGCAAGGAAGGGATGGTCTCTGAAGCTG-AGGA
1 TTGTCACATATAATACATTGATTGATGCACATTGCAAGGAAGGAACGATCTCTAAAGCTGTA-GA
* * * * * * *
7486185 TATTGTTGACGCAATTATAAAGCGAGGCATTGAGCCTAATG
65 GATCGTTGACACAATGAGAAAGCAAGGCATTGAACCTAATG
7486226 TTGT
1 TTGT
7486230 TACCCATAAT
Statistics
Matches: 91, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
104 1 0.01
105 90 0.99
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (105 bp):
TTGTCACATATAATACATTGATTGATGCACATTGCAAGGAAGGAACGATCTCTAAAGCTGTAGAG
ATCGTTGACACAATGAGAAAGCAAGGCATTGAACCTAATG
Found at i:7489370 original size:21 final size:20
Alignment explanation
Indices: 7489346--7489398 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 20
7489336 TGTAGGAGTC
7489346 ACACGCCCGTGTGGA-AAGGGG
1 ACACGCCCGTGT-GACAA-GGG
* *
7489367 ACACACCTGTGTGACTAAGGG
1 ACACGCCCGTGTGAC-AAGGG
7489388 ACACGCCCGTG
1 ACACGCCCGTG
7489399 CTACAAGCCG
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
20 2 0.08
21 22 0.85
22 2 0.08
ACGTcount: A:0.25, C:0.28, G:0.34, T:0.13
Consensus pattern (20 bp):
ACACGCCCGTGTGACAAGGG
Found at i:7490894 original size:3 final size:3
Alignment explanation
Indices: 7490873--7490915 Score: 61
Period size: 3 Copynumber: 14.3 Consensus size: 3
7490863 AATGCCATTT
*
7490873 TTA TTA CTA TT- TCTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
7490916 ATATATACAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
2 1 0.03
3 34 0.94
4 1 0.03
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:7491151 original size:3 final size:3
Alignment explanation
Indices: 7491007--7491140 Score: 87
Period size: 3 Copynumber: 45.3 Consensus size: 3
7490997 TAATTTAATG
* * * *
7491007 TAT TAT TAT TAT TAC TCT TAT T-T TCAT TAT TAT TAT TAT TAC TAG
1 TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT
* * * * **
7491052 TAT T-T T-T TAT TAT CAT TGT TAT TAT TTT TAT TTT TAT TGC TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
7491098 TTT TAT TAT TAA TAT TAC TAT TGT TA- TATT TAG TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT T
7491141 GCTTTTATTA
Statistics
Matches: 97, Mismatches: 29, Indels: 10
0.71 0.21 0.07
Matches are distributed among these distances:
2 8 0.08
3 85 0.88
4 4 0.04
ACGTcount: A:0.27, C:0.05, G:0.04, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:7491329 original size:6 final size:6
Alignment explanation
Indices: 7491318--7491345 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
7491308 ATATAATACC
7491318 TATTTA TATTTA TATTTA TATTTA TATT
1 TATTTA TATTTA TATTTA TATTTA TATT
7491346 ATTATTGTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TATTTA
Found at i:7491567 original size:21 final size:20
Alignment explanation
Indices: 7491542--7491599 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 20
7491532 ATTTTCTTTG
7491542 TTATTTCATTTATCATTGTAT
1 TTATTTCATTT-TCATTGTAT
* * *
7491563 TTATTTCATTTTTATTTTTT
1 TTATTTCATTTTCATTGTAT
7491583 TTATTCTCATTTTCATT
1 TTATT-TCATTTTCATT
7491600 ATCTTATTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.34
21 21 0.66
ACGTcount: A:0.19, C:0.10, G:0.02, T:0.69
Consensus pattern (20 bp):
TTATTTCATTTTCATTGTAT
Found at i:7493881 original size:25 final size:25
Alignment explanation
Indices: 7493847--7493933 Score: 97
Period size: 25 Copynumber: 3.5 Consensus size: 25
7493837 GAGCGATAAA
7493847 CGGTAAGCTCATCCGAGCTGAATAT
1 CGGTAAGCTCATCCGAGCTGAATAT
** *
7493872 CGGTAAGCTCATATGAGCTGAGTAT
1 CGGTAAGCTCATCCGAGCTGAATAT
* *
7493897 CGGTAAGCTC-TCACGAGCT-ACAAAC
1 CGGTAAGCTCATC-CGAGCTGA-ATAT
7493922 CGGTAAGCTCAT
1 CGGTAAGCTCAT
7493934 AAGAGCTGTG
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
24 2 0.04
25 48 0.94
26 1 0.02
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.23
Consensus pattern (25 bp):
CGGTAAGCTCATCCGAGCTGAATAT
Found at i:7493905 original size:50 final size:50
Alignment explanation
Indices: 7493847--7493941 Score: 131
Period size: 50 Copynumber: 1.9 Consensus size: 50
7493837 GAGCGATAAA
* * *
7493847 CGGTAAGCTCATC-CGAGCTGA-ATATCGGTAAGCTCATATGAGCTGAGTAT
1 CGGTAAGCTC-TCACGAGCT-ACAAACCGGTAAGCTCATAAGAGCTGAGTAT
7493897 CGGTAAGCTCTCACGAGCTACAAACCGGTAAGCTCATAAGAGCTG
1 CGGTAAGCTCTCACGAGCTACAAACCGGTAAGCTCATAAGAGCTG
7493942 TGGTGAGTCC
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
49 3 0.08
50 37 0.93
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.22
Consensus pattern (50 bp):
CGGTAAGCTCTCACGAGCTACAAACCGGTAAGCTCATAAGAGCTGAGTAT
Found at i:7496529 original size:25 final size:26
Alignment explanation
Indices: 7496487--7496535 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
7496477 ATTATTATTA
*
7496487 AAAGTAAAGTAAATAG-AAAGAAAAT
1 AAAGTAAAGTAAAAAGAAAAGAAAAT
7496512 AAAGTAAAG-AACAAAGAAAAGAAA
1 AAAGTAAAGTAA-AAAGAAAAGAAA
7496536 CAGAATAGGC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 2 0.10
25 12 0.57
26 7 0.33
ACGTcount: A:0.71, C:0.02, G:0.16, T:0.10
Consensus pattern (26 bp):
AAAGTAAAGTAAAAAGAAAAGAAAAT
Found at i:7498255 original size:23 final size:23
Alignment explanation
Indices: 7498225--7498311 Score: 83
Period size: 21 Copynumber: 4.0 Consensus size: 23
7498215 GCTTTATCGA
* *
7498225 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTCATGTGTCGTATT
*
7498248 TCAGGCACCTCGTGTGTCGTA--
1 TCAGGCACCTCATGTGTCGTATT
* *
7498269 TCAGGCACCTCGTGTGTCG-CTT
1 TCAGGCACCTCATGTGTCGTATT
* *
7498291 T-AGGCACTTTATGTGTCGTAT
1 TCAGGCACCTCATGTGTCGTAT
7498312 ACTGATCAGG
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
21 33 0.62
22 2 0.04
23 18 0.34
ACGTcount: A:0.15, C:0.23, G:0.25, T:0.37
Consensus pattern (23 bp):
TCAGGCACCTCATGTGTCGTATT
Found at i:7498272 original size:21 final size:22
Alignment explanation
Indices: 7498237--7498287 Score: 86
Period size: 21 Copynumber: 2.3 Consensus size: 22
7498227 AGGCACTTTA
7498237 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTA-TTCAGGCACCTCG
7498260 TGTGTCGTA-TCAGGCACCTCG
1 TGTGTCGTATTCAGGCACCTCG
7498281 TGTGTCG
1 TGTGTCG
7498288 CTTTAGGCAC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 19 0.68
23 9 0.32
ACGTcount: A:0.12, C:0.25, G:0.29, T:0.33
Consensus pattern (22 bp):
TGTGTCGTATTCAGGCACCTCG
Found at i:7503678 original size:21 final size:22
Alignment explanation
Indices: 7503646--7503703 Score: 54
Period size: 21 Copynumber: 2.8 Consensus size: 22
7503636 GAAAACCAAA
7503646 TGTT-AATT-CATATATAACAT
1 TGTTCAATTACATATATAACAT
*
7503666 T-TTCAATTACATACAT-ACAT
1 TGTTCAATTACATATATAACAT
*
7503686 TGTTGAATTATCA-ATATA
1 TGTTCAATTA-CATATATA
7503704 GGCTTATACC
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
19 2 0.07
20 10 0.33
21 16 0.53
22 2 0.07
ACGTcount: A:0.40, C:0.12, G:0.05, T:0.43
Consensus pattern (22 bp):
TGTTCAATTACATATATAACAT
Found at i:7506441 original size:105 final size:105
Alignment explanation
Indices: 7506258--7506462 Score: 270
Period size: 105 Copynumber: 2.0 Consensus size: 105
7506248 TATTGTTACA
* * *
7506258 TATAATATATTGATTGATGCACTTTGCAAGGAAGGAACGATTTCTAAAGCTGTAGAGATTGTTGA
1 TATAATAAATTGATTGATGCACATTGCAAGGAAGGAACGATCTCTAAAGCTGTAGAGATTGTTGA
7506323 CACAATGAGAAAGCAAGGCATTGAACCTAATGTTGCCACG
66 CACAATGAGAAAGCAAGGCATTGAACCTAATGTTGCCACG
* * * * *
7506363 TATAATAAATTGGTTGATGCACATTGCAAGGAAGGGATGGTCTCTGAAGCTG-AG-GATATCGTT
1 TATAATAAATTGATTGATGCACATTGCAAGGAAGGAACGATCTCTAAAGCTGTAGAGAT-T-GTT
* * * *
7506426 GACGCAATGATAAAGCGAGGCATTGAGCCTAATGTTG
64 GACACAATGAGAAAGCAAGGCATTGAACCTAATGTTG
7506463 TTACCCATAA
Statistics
Matches: 86, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
103 3 0.03
104 3 0.03
105 80 0.93
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (105 bp):
TATAATAAATTGATTGATGCACATTGCAAGGAAGGAACGATCTCTAAAGCTGTAGAGATTGTTGA
CACAATGAGAAAGCAAGGCATTGAACCTAATGTTGCCACG
Found at i:7507002 original size:378 final size:378
Alignment explanation
Indices: 7506307--7507064 Score: 1329
Period size: 378 Copynumber: 2.0 Consensus size: 378
7506297 ATTTCTAAAG
**
7506307 CTGTAGAGATTGTTGACACAATGAGAAAGCAAGGCATTGAACCTAATGTTGCCACGTATAATAAA
1 CTGTAGAGACCGTTGACACAATGAGAAAGCAAGGCATTGAACCTAATGTTGCCACGTATAATAAA
7506372 TTGGTTGATGCACATTGCAAGGAAGGGATGGTCTCTGAAGCTGAGGATATCGTTGACGCAATGAT
66 TTGGTTGATGCACATTGCAAGGAAGGGATGGTCTCTGAAGCTGAGGATATCGTTGACGCAATGAT
7506437 AAAGCGAGGCATTGAGCCTAATGTTGTTACCCATAATGCATTAATCAACGGCCATTGCTTGCAGA
131 AAAGCGAGGCATTGAGCCTAATGTTGTTACCCATAATGCATTAATCAACGGCCATTGCTTGCAGA
* *
7506502 ACGAAATGGATAAAGCTGGAAGACTTTTCAACTTGATGATTGAGAAGGGTTGTGCACCTAATATA
196 ACAAAATGGATAAAGCTAGAAGACTTTTCAACTTGATGATTGAGAAGGGTTGTGCACCTAATATA
* * *
7506567 GTTACTTACAGCACCATGATCAATGGATATTACAAAGCGAAGAGGTTAGACGAAGCAATGGAACT
261 GTTACTTACAACACCATGATAAATGGATATTACAAAGCGAAAAGGTTAGACGAAGCAATGGAACT
*
7506632 CTTTCATGAAATATCTCAAAAGGGACCAATCCCGAATACTGTCACATACAGCA
326 CTTTCATGAAATATCTCAAAAGGGACCAATCCCGAATACTGTCACATACAACA
* * *
7506685 CTGTAGAGACCGTTGACACAATGAGAAAGCAAGGCATTGAACCTAATGTTGTCACGTATAGTACA
1 CTGTAGAGACCGTTGACACAATGAGAAAGCAAGGCATTGAACCTAATGTTGCCACGTATAATAAA
* *
7506750 TTGGTTGATGCGCATTGCAAGGAAGGGATGGTCTCTGAAGCTGAGGATATCGTTGTCGCAATGAT
66 TTGGTTGATGCACATTGCAAGGAAGGGATGGTCTCTGAAGCTGAGGATATCGTTGACGCAATGAT
*
7506815 AAAGCGAGGCATTGAGCCTAATGTTGTTACCCTTAATGCATTAATCAACGGCCATTGCTTGCAGA
131 AAAGCGAGGCATTGAGCCTAATGTTGTTACCCATAATGCATTAATCAACGGCCATTGCTTGCAGA
* *
7506880 ACAAAATGGATAAAGCTAGAAGACTTTTCAACTTGATGATTGAGAAGGGTTGTGCACGTGATATA
196 ACAAAATGGATAAAGCTAGAAGACTTTTCAACTTGATGATTGAGAAGGGTTGTGCACCTAATATA
*
7506945 GTTACTTACAACACCATGATAAATGGATATTGCAAAG-GTAAAAGGTTAGACGAAGCAATGGAAC
261 GTTACTTACAACACCATGATAAATGGATATTACAAAGCG-AAAAGGTTAGACGAAGCAATGGAAC
* *
7507009 TCTTTCATGAAATATCTCGAAAGGGACCAATCCCGGATACTGTCACATACAACA
325 TCTTTCATGAAATATCTCAAAAGGGACCAATCCCGAATACTGTCACATACAACA
7507063 CT
1 CT
7507065 CTTATGCAAG
Statistics
Matches: 360, Mismatches: 19, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
377 1 0.00
378 359 1.00
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.25
Consensus pattern (378 bp):
CTGTAGAGACCGTTGACACAATGAGAAAGCAAGGCATTGAACCTAATGTTGCCACGTATAATAAA
TTGGTTGATGCACATTGCAAGGAAGGGATGGTCTCTGAAGCTGAGGATATCGTTGACGCAATGAT
AAAGCGAGGCATTGAGCCTAATGTTGTTACCCATAATGCATTAATCAACGGCCATTGCTTGCAGA
ACAAAATGGATAAAGCTAGAAGACTTTTCAACTTGATGATTGAGAAGGGTTGTGCACCTAATATA
GTTACTTACAACACCATGATAAATGGATATTACAAAGCGAAAAGGTTAGACGAAGCAATGGAACT
CTTTCATGAAATATCTCAAAAGGGACCAATCCCGAATACTGTCACATACAACA
Found at i:7509725 original size:21 final size:22
Alignment explanation
Indices: 7509693--7509750 Score: 54
Period size: 21 Copynumber: 2.8 Consensus size: 22
7509683 GAAAACCAAA
7509693 TGTT-AATT-CATATATAACAT
1 TGTTCAATTACATATATAACAT
*
7509713 T-TTCAATTACATACAT-ACAT
1 TGTTCAATTACATATATAACAT
*
7509733 TGTTGAATTATCA-ATATA
1 TGTTCAATTA-CATATATA
7509751 GGCTTATACC
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
19 2 0.07
20 10 0.33
21 16 0.53
22 2 0.07
ACGTcount: A:0.40, C:0.12, G:0.05, T:0.43
Consensus pattern (22 bp):
TGTTCAATTACATATATAACAT
Found at i:7511593 original size:16 final size:19
Alignment explanation
Indices: 7511572--7511617 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 19
7511562 TGAGCATGGA
7511572 ACAATAATAC-A-TGAAT-
1 ACAATAATACAAGTGAATG
7511588 ACAATATTATACAAGTGAATG
1 ACAATA--ATACAAGTGAATG
7511609 ACAATAATA
1 ACAATAATA
7511618 AGAAAATACG
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
16 6 0.24
18 4 0.16
19 4 0.16
20 5 0.20
21 6 0.24
ACGTcount: A:0.54, C:0.11, G:0.09, T:0.26
Consensus pattern (19 bp):
ACAATAATACAAGTGAATG
Found at i:7511803 original size:26 final size:25
Alignment explanation
Indices: 7511711--7511911 Score: 111
Period size: 23 Copynumber: 8.2 Consensus size: 25
7511701 CAAAAGAATG
* *
7511711 AAATAAATAACAT-CAAACAATTTA
1 AAATAAATAATATAAAAACAATTTA
* *
7511735 AAATAAAT-A-AT-GAGACAATTTTA
1 AAATAAATAATATAAAAACAA-TTTA
* *
7511758 AAATAATTAATACATAAAAAATAAGTTTA
1 AAATAAATAAT--AT-AAAAACAA-TTTA
*
7511787 AAATAAATATTATAAAAAGCAATTTA
1 AAATAAATAATATAAAAA-CAATTTA
* * * *
7511813 GAGTGAATAGTAT--AAACAATTTA
1 AAATAAATAATATAAAAACAATTTA
* *
7511836 AAATAATTAATATACAAAATAATTTA
1 AAATAAATAATATA-AAAACAATTTA
* *
7511862 AAAT--A-AA-AT-AACACAACTTA
1 AAATAAATAATATAAAAACAATTTA
*
7511882 AAATAAATAATAT-ATAACAATTTA
1 AAATAAATAATATAAAAACAATTTA
7511906 AAATAA
1 AAATAA
7511912 CATATAGAAA
Statistics
Matches: 135, Mismatches: 27, Indels: 30
0.70 0.14 0.16
Matches are distributed among these distances:
20 12 0.09
22 10 0.07
23 31 0.23
24 28 0.21
26 31 0.23
27 6 0.04
29 17 0.13
ACGTcount: A:0.61, C:0.06, G:0.04, T:0.29
Consensus pattern (25 bp):
AAATAAATAATATAAAAACAATTTA
Found at i:7511893 original size:46 final size:43
Alignment explanation
Indices: 7511824--7511937 Score: 113
Period size: 46 Copynumber: 2.5 Consensus size: 43
7511814 AGTGAATAGT
* * *
7511824 ATAAACAATTTAAAATAATTAATATACAAAATAATTTAAAATAAA
1 ATAAACAACTTAAAATAAATAATAT--AAAACAATTTAAAATAAA
*
7511869 ATAACACAACTTAAAATAAATAATATATAACAATTTAAAATAACA
1 ATAA-ACAACTTAAAATAAATAATATAAAACAATTTAAAATAA-A
* *
7511914 TATAGA-AAGTCTAAAATAAATAAT
1 -ATAAACAACT-TAAAATAAATAAT
7511938 TTGTAAGAAG
Statistics
Matches: 59, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
44 18 0.31
45 19 0.32
46 22 0.37
ACGTcount: A:0.62, C:0.07, G:0.02, T:0.29
Consensus pattern (43 bp):
ATAAACAACTTAAAATAAATAATATAAAACAATTTAAAATAAA
Found at i:7511991 original size:35 final size:35
Alignment explanation
Indices: 7511951--7512038 Score: 90
Period size: 33 Copynumber: 2.6 Consensus size: 35
7511941 TAAGAAGAAA
* *
7511951 TTTAAAATAAATAATATACATAAAATAAAAAATAG
1 TTTAAAATAAATAATATAAATAAAATAAAAAAGAG
* ** *
7511986 TTT-AAA-AAATAAAATAAATAATGTATAAAAGAG
1 TTTAAAATAAATAATATAAATAAAATAAAAAAGAG
* *
7512019 TTTAAGATAAACAATATAAA
1 TTTAAAATAAATAATATAAA
7512039 ATTTTGAAAA
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
33 24 0.57
34 5 0.12
35 13 0.31
ACGTcount: A:0.64, C:0.02, G:0.06, T:0.28
Consensus pattern (35 bp):
TTTAAAATAAATAATATAAATAAAATAAAAAAGAG
Found at i:7512021 original size:33 final size:34
Alignment explanation
Indices: 7511925--7512038 Score: 86
Period size: 33 Copynumber: 3.3 Consensus size: 34
7511915 ATAGAAAGTC
* * *
7511925 TAAAATAAATAATTTGTAAGAAGAAATTTAAAATAAA
1 TAAAATAAATAATATATAA-AAG-AGTTT-AAATAAA
* * * * *
7511962 TAATATACATAAAATAAAAAATAGTTTAAA-AAA
1 TAAAATAAATAATATATAAAAGAGTTTAAATAAA
*
7511995 TAAAATAAATAATGTATAAAAGAGTTTAAGATAAA
1 TAAAATAAATAATATATAAAAGAGTTTAA-ATAAA
* *
7512030 CAATATAAA
1 TAAAATAAA
7512039 ATTTTGAAAA
Statistics
Matches: 59, Mismatches: 16, Indels: 6
0.73 0.20 0.07
Matches are distributed among these distances:
33 26 0.44
34 4 0.07
35 14 0.24
36 2 0.03
37 13 0.22
ACGTcount: A:0.63, C:0.02, G:0.07, T:0.28
Consensus pattern (34 bp):
TAAAATAAATAATATATAAAAGAGTTTAAATAAA
Found at i:7512268 original size:26 final size:26
Alignment explanation
Indices: 7512211--7512268 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 26
7512201 GTATCAGAAC
*
7512211 AGTTTAAAATGAATACTATATAAAGA
1 AGTTTAAAACGAATACTATATAAAGA
*
7512237 AATTTAAAACGAATAAC-ATATAAA-A
1 AGTTTAAAACGAAT-ACTATATAAAGA
7512262 TAGTTTA
1 -AGTTTA
7512269 TAAAAGCTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
25 1 0.04
26 24 0.89
27 2 0.07
ACGTcount: A:0.55, C:0.05, G:0.09, T:0.31
Consensus pattern (26 bp):
AGTTTAAAACGAATACTATATAAAGA
Found at i:7516507 original size:46 final size:48
Alignment explanation
Indices: 7516435--7516537 Score: 147
Period size: 46 Copynumber: 2.2 Consensus size: 48
7516425 GACAGGACAG
* * * *
7516435 GACAGAAATGAGCCATGTAAGTCCATATCA-GT-TATATGGCTTTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATCATATATATATGGCATTGGA
*
7516481 GACAGGAATGAGCCATGTAAGCCCATATTATATATATATGGCATTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATCATATATATATGGCATTGGA
7516529 GACAGGAAT
1 GACAGGAAT
7516538 AATTCATGTA
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
46 27 0.54
47 1 0.02
48 22 0.44
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (48 bp):
GACAGGAATGAGCCATGTAAGCCCATATCATATATATATGGCATTGGA
Found at i:7521127 original size:26 final size:26
Alignment explanation
Indices: 7521086--7521135 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
7521076 TTCAATCACT
**
7521086 TGTTGAAACCTGAAAACCTGAAAACC
1 TGTTGAAACCAAAAAACCTGAAAACC
7521112 TGTTGAAACCAAAAAACCTGAAAA
1 TGTTGAAACCAAAAAACCTGAAAA
7521136 ATTACGAAGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.48, C:0.20, G:0.14, T:0.18
Consensus pattern (26 bp):
TGTTGAAACCAAAAAACCTGAAAACC
Found at i:7532531 original size:14 final size:14
Alignment explanation
Indices: 7532512--7532538 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
7532502 TTTTTCAAAA
7532512 AAAAATTATTTTCC
1 AAAAATTATTTTCC
7532526 AAAAATTATTTTC
1 AAAAATTATTTTC
7532539 TATAAGTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.44
Consensus pattern (14 bp):
AAAAATTATTTTCC
Found at i:7540541 original size:28 final size:28
Alignment explanation
Indices: 7540496--7540625 Score: 147
Period size: 28 Copynumber: 4.6 Consensus size: 28
7540486 CAAAAATCCA
*
7540496 CATGGACTATCTTTCAAGT-AGAAGTTCG
1 CATGGACTATCTTTCAAGTAAG-AGTCCG
* *
7540524 TATGAACTATCTTTCAAGTAAGAGTCCG
1 CATGGACTATCTTTCAAGTAAGAGTCCG
* * *
7540552 TC-TGGTCTATCTTTCAAGTACGAGTCCA
1 -CATGGACTATCTTTCAAGTAAGAGTCCG
* **
7540580 CATGGACTATCTTTCAAGCAAGAGTTTG
1 CATGGACTATCTTTCAAGTAAGAGTCCG
7540608 CATGGACTATCTTTCAAG
1 CATGGACTATCTTTCAAG
7540626 CAAAAGTCAG
Statistics
Matches: 85, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
27 1 0.01
28 82 0.96
29 2 0.02
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (28 bp):
CATGGACTATCTTTCAAGTAAGAGTCCG
Found at i:7540761 original size:28 final size:28
Alignment explanation
Indices: 7540730--7540813 Score: 87
Period size: 28 Copynumber: 3.0 Consensus size: 28
7540720 TCGCATGCAC
* *
7540730 GAATTTGCATCTATGAATCTGCATGTAT
1 GAATTTGTATCTATGAATCTACATGTAT
*** * *
7540758 GAATCCATATCTATGATTCCACATGTAT
1 GAATTTGTATCTATGAATCTACATGTAT
* *
7540786 GAATTTGTATCTATAAATCTACACGTAT
1 GAATTTGTATCTATGAATCTACATGTAT
7540814 AAAATTGTGA
Statistics
Matches: 42, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (28 bp):
GAATTTGTATCTATGAATCTACATGTAT
Found at i:7540772 original size:14 final size:14
Alignment explanation
Indices: 7540737--7540789 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 14
7540727 CACGAATTTG
**
7540737 CATCTATGAATCTG
1 CATCTATGAATCCA
*
7540751 CATGTATGAATCCA
1 CATCTATGAATCCA
* *
7540765 TATCTATGATTCCA
1 CATCTATGAATCCA
*
7540779 CATGTATGAAT
1 CATCTATGAAT
7540790 TTGTATCTAT
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.36
Consensus pattern (14 bp):
CATCTATGAATCCA
Found at i:7543867 original size:23 final size:23
Alignment explanation
Indices: 7543841--7543891 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
7543831 ACAGGTCAAG
* *
7543841 TTTTAAATATTATTATAACACTA
1 TTTTAAATATTATTATAAAAATA
7543864 TTTTAAATATTATTATAAAAATA
1 TTTTAAATATTATTATAAAAATA
7543887 TTTTA
1 TTTTA
7543892 TTATTTAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (23 bp):
TTTTAAATATTATTATAAAAATA
Found at i:7546536 original size:28 final size:28
Alignment explanation
Indices: 7546495--7546657 Score: 193
Period size: 28 Copynumber: 5.8 Consensus size: 28
7546485 TGAAGCAAAT
7546495 GTCCACATCG-ACTATCTTTCAAGTAGGA
1 GTCCACAT-GAACTATCTTTCAAGTAGGA
*
7546523 GTCCACATGAACTATCTTTCAAATAGGA
1 GTCCACATGAACTATCTTTCAAGTAGGA
*
7546551 GTCCATATGAACTATCTTTCAAGTAGGA
1 GTCCACATGAACTATCTTTCAAGTAGGA
* * * * *
7546579 GTTCGCTTGGACTATCTTTCAAGTATGA
1 GTCCACATGAACTATCTTTCAAGTAGGA
* *
7546607 GTCCACATGAACTATCTTTCAAGCAAGA
1 GTCCACATGAACTATCTTTCAAGTAGGA
*** *
7546635 GTCTGTATGGACTATCTTTCAAG
1 GTCCACATGAACTATCTTTCAAG
7546658 CAAAAGTCTG
Statistics
Matches: 115, Mismatches: 19, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
27 1 0.01
28 114 0.99
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (28 bp):
GTCCACATGAACTATCTTTCAAGTAGGA
Done.