Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 3 of 207
Found at i:811500 original size:219 final size:220
Alignment explanation
Indices: 811114--811579 Score: 830
Period size: 219 Copynumber: 2.1 Consensus size: 220
811104 TTATAAGAGA
*
811114 CTCAATA--ATTTTGTAAGAAATTTAGTAATTTAAAGGAAACATTACACTATTAGAACAAATTCG
1 CTCAATAGTATTTTGTAAGAAATTTAGTAATTTAAAGGAAACATTACACTATTAGAACAAATTCC
*
811177 GTAATTTTAGTAATTCTAGTATTATCTTCATGCTTGGAGAGGTTGGTTGTTAACATATTGAACTA
66 GTAATTTTAGTAATTCTAGTATTATCTTCATGCTTGGAGAGCTTGGTTGTTAACATATTGAACTA
* *
811242 GCTGTCTTTTCGAGGAATTTGCAGTTTTGTTTTCAATACATGTTTGTGGAAAATTCTACAAAATG
131 GCCGTCTTTTCGAGGAATTTGCAGTATTGTTTTCAATACATGTTTGTGGAAAATTCTACAAAATG
*
811307 TACCTTAAAATGAGTTTCTTACGAG
196 CACCTTAAAATGAGTTTCTTACGAG
*
811332 -TCAATAGTATTTTGTAAGAAATTTAGTAATTTAATGGAAACATTACACTATTAGAACAAATTCC
1 CTCAATAGTATTTTGTAAGAAATTTAGTAATTTAAAGGAAACATTACACTATTAGAACAAATTCC
811396 GTAATTTTAGTAATTCTAGTATTATCTTCATGCTTGGAGAGCTTGGTTGTTAACATATTGAACTA
66 GTAATTTTAGTAATTCTAGTATTATCTTCATGCTTGGAGAGCTTGGTTGTTAACATATTGAACTA
811461 GCCGTCTTTTCGAGGAATTTGCAGTATTGTTTTCAATACATGTTTGTGGAAAATTCTACAAAATG
131 GCCGTCTTTTCGAGGAATTTGCAGTATTGTTTTCAATACATGTTTGTGGAAAATTCTACAAAATG
*
811526 CACCTTAAAATTAGTTTCTTACGAG
196 CACCTTAAAATGAGTTTCTTACGAG
* *
811551 CTCAATAGTATTTTGTAAGAGATTCAGTA
1 CTCAATAGTATTTTGTAAGAAATTTAGTA
811580 GTTTTGCAAG
Statistics
Matches: 236, Mismatches: 9, Indels: 4
0.95 0.04 0.02
Matches are distributed among these distances:
217 6 0.03
219 204 0.86
220 26 0.11
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.39
Consensus pattern (220 bp):
CTCAATAGTATTTTGTAAGAAATTTAGTAATTTAAAGGAAACATTACACTATTAGAACAAATTCC
GTAATTTTAGTAATTCTAGTATTATCTTCATGCTTGGAGAGCTTGGTTGTTAACATATTGAACTA
GCCGTCTTTTCGAGGAATTTGCAGTATTGTTTTCAATACATGTTTGTGGAAAATTCTACAAAATG
CACCTTAAAATGAGTTTCTTACGAG
Found at i:817980 original size:207 final size:206
Alignment explanation
Indices: 817555--818041 Score: 551
Period size: 207 Copynumber: 2.4 Consensus size: 206
817545 TGCTCAGATT
* * * *
817555 CTTCATTCTTTTTGAAGTA-CCCGTCTGACATTAGTGCTTGGTACATGGATATGGAGACACGACC
1 CTTCATTCTTTTTGAAGTACCCCGTCTGACATTAGTGTTTGATACACGGATATGGAGACATGACC
* * *
817619 TTCAAAGATCCCTTAATATATGGAAAAACTTGACAAAGTCTAATCATACCCACGTCGGGGATATT
66 TCCAAAGATCCCTTAATATATGG----ACTTGACAAAATCTAATCATACCCACGTCGGGGATACT
* * *
817684 CACACCTGAGTCGAGTAACATATGAACAATGCCGGTGCAACGAAGAACTAAAATGAAAAACCATC
127 CAAACCCGAGTCGAGTAACATATGAACAATGCCGGTGCAACCAAGAACTAAAATGAAAAACCATC
817749 TACCCCAATTGTTGG
192 TACCCCAATTGTTGG
* *
817764 CTTCATTCTTCTTGAAGTACCCCTGTCCGACATTAGTGTTTGATACACGGATATGGAGACATGAC
1 CTTCATTCTTTTTGAAGTACCCC-GTCTGACATTAGTGTTTGATACACGGATATGGAGACATGAC
* * * * **
817829 CCCCAAAGATCCCTTAATATATGG-TTTTA-AAACATCTAATCATACTCGTGTCGGGGACT-CTC
65 CTCCAAAGATCCCTTAATATATGGACTTGACAAA-ATCTAATCATACCCACGTCGGGGA-TACTC
* * * * *
817891 AAACCCGAGTCTAGGTAAACCTATG-ACAATGCCGGTGTAACCAAGAACTTACAA-GAAAAACTA
128 AAACCCGAGTCGA-GT-AACATATGAACAATGCCGGTGCAACCAAGAAC-TAAAATGAAAAACCA
817954 TCTACTCCC-ATTGTTGG
190 TCTAC-CCCAATTGTTGG
* ** * * *
817971 CTTCATTCTTTTTGAAGCACCCC--CTGACATTAGTGTCCGATACACAGATATCGATACATGACC
1 CTTCATTCTTTTTGAAGTACCCCGTCTGACATTAGTGTTTGATACACGGATATGGAGACATGACC
818034 TCCAAAGA
66 TCCAAAGA
818042 ACCCCAATGT
Statistics
Matches: 238, Mismatches: 32, Indels: 21
0.82 0.11 0.07
Matches are distributed among these distances:
204 41 0.17
205 3 0.01
206 35 0.15
207 66 0.28
208 14 0.06
209 18 0.08
210 3 0.01
211 58 0.24
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (206 bp):
CTTCATTCTTTTTGAAGTACCCCGTCTGACATTAGTGTTTGATACACGGATATGGAGACATGACC
TCCAAAGATCCCTTAATATATGGACTTGACAAAATCTAATCATACCCACGTCGGGGATACTCAAA
CCCGAGTCGAGTAACATATGAACAATGCCGGTGCAACCAAGAACTAAAATGAAAAACCATCTACC
CCAATTGTTGG
Found at i:818965 original size:59 final size:60
Alignment explanation
Indices: 818902--819032 Score: 178
Period size: 59 Copynumber: 2.2 Consensus size: 60
818892 TACACTGATA
* * * *
818902 GTCACCCAACTATGATTTTTTT-CTTTTTTGGTCACTCAACTATGAATAGTTACAACAT-G
1 GTCACCCAACTATGATTTTTTTCCTTTTTTAGTCAC-CAACCATGAAAAGTTACAAAATAG
*
818961 GTCACCCAACTATGGTTTTTTTCCTTTTTTAGTCACCAACCATGAAAAGTTACAAAATAG
1 GTCACCCAACTATGATTTTTTTCCTTTTTTAGTCACCAACCATGAAAAGTTACAAAATAG
*
819021 G-CACTCAACTAT
1 GTCACCCAACTAT
819033 TCAATTTTTT
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
59 50 0.78
60 14 0.22
ACGTcount: A:0.30, C:0.22, G:0.11, T:0.37
Consensus pattern (60 bp):
GTCACCCAACTATGATTTTTTTCCTTTTTTAGTCACCAACCATGAAAAGTTACAAAATAG
Found at i:823940 original size:183 final size:173
Alignment explanation
Indices: 823561--824049 Score: 672
Period size: 183 Copynumber: 2.8 Consensus size: 173
823551 TAAAACTAGA
*
823561 GTAAACCATAAAATACCAGGAAAAAGCTTCTGCATTCATAAAAAAAAATCTCTAGAACTAGGCTT
1 GTAAACCATAAAATACCAGGAAAAAGCTTCTGCATTCATAAAAAAAAATCTCTAGAACTAGGCTG
* *
823626 TAAAAATTCAGT-AAAAGTCATTCAACATGAAAATATGAT---AAAATAAAAAGGGTATTCTAAG
66 TAAAAATTCAGTAAAAAGTCATTCAACATGTAAATATGATAAAAAAATAAAAAGGGTATTCAAAG
*
823687 AATTAAGCTTTATTTTTAACGAAAATACATAGAATTAAGCTGG
131 AATTAAGCTTTATTTTTAACGAAAATACAGAGAATTAAGCTGG
*
823730 GTAAACCATAAAATACCAGGAAAAAGCTTCTGCATTCATAAAAAAGAAAAATCTATAGAACTTAG
1 GTAAACCATAAAATACCAGGAAAAAGCTTCTGCATTCAT--AAAA-AAAAATCTCTAGAAC-TAG
*
823795 GCTGTAAAAATTCAGTAAAAAGTCATTCGACATGTAAATATGATAAAACAAACTACAAAAAAAGG
62 GCTGTAAAAATTCAGTAAAAAGTCATTCAACATGTAAATATGATAAAA-AAA-T----AAAAAGG
*
823860 GTATTCAAAGAATTAAGCTTTAATTTTT-ATGAAAATACAGAGAATTAAGCTCGG
121 GTATTCAAAGAATTAAGCTTT-ATTTTTAACGAAAATACAGAGAATTAAGCT-GG
*
823914 GTAAACCATAAAATACCAGG-AAAAGCTTCTGCATTCAT--GAAAAAATCTCTAGAACTAGGCTG
1 GTAAACCATAAAATACCAGGAAAAAGCTTCTGCATTCATAAAAAAAAATCTCTAGAACTAGGCTG
* * * * * *
823976 TAAAAGATTCGGTAAAAA-TCATCCAACATGTAAATATGATCAAAAAACAGACAGGGTATTCAAA
66 TAAAA-ATTCAGTAAAAAGTCATTCAACATGTAAATATGATAAAAAAATAAAAAGGGTATTCAAA
824040 GAATTAAGCT
130 GAATTAAGCT
824050 CGGGTAAACC
Statistics
Matches: 287, Mismatches: 16, Indels: 32
0.86 0.05 0.10
Matches are distributed among these distances:
169 39 0.14
171 28 0.10
172 14 0.05
173 18 0.06
174 25 0.09
176 3 0.01
177 36 0.13
178 28 0.10
179 2 0.01
183 66 0.23
184 28 0.10
ACGTcount: A:0.47, C:0.13, G:0.14, T:0.25
Consensus pattern (173 bp):
GTAAACCATAAAATACCAGGAAAAAGCTTCTGCATTCATAAAAAAAAATCTCTAGAACTAGGCTG
TAAAAATTCAGTAAAAAGTCATTCAACATGTAAATATGATAAAAAAATAAAAAGGGTATTCAAAG
AATTAAGCTTTATTTTTAACGAAAATACAGAGAATTAAGCTGG
Found at i:824061 original size:139 final size:140
Alignment explanation
Indices: 823900--824173 Score: 439
Period size: 140 Copynumber: 2.0 Consensus size: 140
823890 GAAAATACAG
* *
823900 AGAATTAAGCTCGGGTAAACCATAAAATACCAGGAAAAGCTTCTGCATTCATGAAAAA-ATCTCT
1 AGAATTAAGCTCGGGTAAACCATAAAATACCAAGAAAAGCTTCTGCATTCATAAAAAAGATCTCT
* * *
823964 AGAACTAGGCTGTAAA-AGATTCGGTAAAAATCA-TCCAACATGTAAATATGATCAAA-AAACAG
66 AGAACTAGGCTGTAAATA-ATTCAGTAAAAACCACT-CAACATGTAAATATGAT-AAAGAAACAA
*
824026 ACAGGGTATTCAA
128 AAAGGGTATTCAA
824039 AGAATTAAGCTCGGGTAAACCATAAAATACCAAGAAAAGCTTCTGCATTCATAAAAAAGATCTCT
1 AGAATTAAGCTCGGGTAAACCATAAAATACCAAGAAAAGCTTCTGCATTCATAAAAAAGATCTCT
824104 AGAACTAGGCTGTAAATAATTCAGTAAAAACCACTCAACATGTAAATATGATAAAGAAACAAAAA
66 AGAACTAGGCTGTAAATAATTCAGTAAAAACCACTCAACATGTAAATATGATAAAGAAACAAAAA
824169 GGGTA
131 GGGTA
824174 GAGTGGAGAT
Statistics
Matches: 125, Mismatches: 6, Indels: 7
0.91 0.04 0.05
Matches are distributed among these distances:
139 59 0.47
140 64 0.51
141 2 0.02
ACGTcount: A:0.46, C:0.16, G:0.16, T:0.22
Consensus pattern (140 bp):
AGAATTAAGCTCGGGTAAACCATAAAATACCAAGAAAAGCTTCTGCATTCATAAAAAAGATCTCT
AGAACTAGGCTGTAAATAATTCAGTAAAAACCACTCAACATGTAAATATGATAAAGAAACAAAAA
GGGTATTCAA
Found at i:827979 original size:30 final size:29
Alignment explanation
Indices: 827947--828002 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
827937 AAATCAATTT
* *
827947 TTTTTTA-AATTTATCGAAATGGGCCCAG
1 TTTTTTATTATTTACCGAAATGGGCCCAG
*
827975 TTTTTTATTATTTACCGGAATGGGCCCA
1 TTTTTTATTATTTACCGAAATGGGCCCA
828003 TTTCCCCTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 7 0.29
29 17 0.71
ACGTcount: A:0.25, C:0.16, G:0.18, T:0.41
Consensus pattern (29 bp):
TTTTTTATTATTTACCGAAATGGGCCCAG
Found at i:828782 original size:125 final size:124
Alignment explanation
Indices: 828362--828796 Score: 588
Period size: 126 Copynumber: 3.5 Consensus size: 124
828352 ATAAAATCAA
* * * * * * * *
828362 AGCAGGATG-ATTATCAGAAGGATTTTTGCAGTCGCGCCCGCATGTACGCGCTTTTGCTACAGTA
1 AGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACATGGACGCGCTTTTGCTACAGTA
* *
828426 GGTCCTG-GAAAATAATTTCGAGTTGACATTTCTGAGCAAATAGTATAAAATCGCTTCT
66 GGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCT
* * *
828484 ACCAGGATGTTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTA
1 AGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACATGGACGCGCTTTTGCTACAGTA
* * * * *
828549 GATCCTGAAAAAATTATTTTGAGTTGACGTTTCTGAGCAAATAGTATAAAAAAACGCTTCA
66 GGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTAT--AAAATCGCTTCT
* * *
828610 AGCAGGATGCTATT-TGAGAAGAATTTTTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
1 AGCAGGATGCT-TTATGAGAAGAATTTGTGAAATCGCGCCCACATGGACGCGCTTTTGCTACAGT
* * *
828674 TGGTCCTGAAAGAAATAATTTCGAGTTGACGTTTCTAAGCAAATAGTATAAAATCACTTCT
65 AGGTCCTGAAA-AAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCT
*
828735 AGCAGGATGCTTTATGAGAAGAATTTGTGAAATTGCGCCCACATGGACGCGCTTTTGCTACA
1 AGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACATGGACGCGCTTTTGCTACA
828797 ATAGCATGTT
Statistics
Matches: 273, Mismatches: 33, Indels: 11
0.86 0.10 0.03
Matches are distributed among these distances:
122 8 0.03
123 52 0.19
124 37 0.14
125 64 0.23
126 76 0.28
127 36 0.13
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.30
Consensus pattern (124 bp):
AGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACATGGACGCGCTTTTGCTACAGTA
GGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCT
Found at i:829031 original size:51 final size:51
Alignment explanation
Indices: 828971--829103 Score: 223
Period size: 51 Copynumber: 2.6 Consensus size: 51
828961 AAAAATAGGG
*
828971 ATTTAAGAGAAATTTAAAAGGAAATTGAGAGCTAATTGAGATTAAATATAA
1 ATTTGAGAGAAATTTAAAAGGAAATTGAGAGCTAATTGAGATTAAATATAA
* *
829022 ATTTGAGAGAAATTTAGAAGAAAATTGAGAGCTAATTGAGATTAAATATAA
1 ATTTGAGAGAAATTTAAAAGGAAATTGAGAGCTAATTGAGATTAAATATAA
829073 ATTTGAGAGAAATTTAGAAA-GAAATTGAGAG
1 ATTTGAGAGAAATTTA-AAAGGAAATTGAGAG
829104 GAAATTTGAG
Statistics
Matches: 76, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
51 74 0.97
52 2 0.03
ACGTcount: A:0.50, C:0.02, G:0.20, T:0.29
Consensus pattern (51 bp):
ATTTGAGAGAAATTTAAAAGGAAATTGAGAGCTAATTGAGATTAAATATAA
Found at i:829113 original size:12 final size:12
Alignment explanation
Indices: 829071--829115 Score: 51
Period size: 11 Copynumber: 3.9 Consensus size: 12
829061 GATTAAATAT
829071 AAATTTGAGA-G
1 AAATTTGAGAGG
*
829082 AAATTT-AGAAAG
1 AAATTTGAG-AGG
829094 AAA-TTGAGAGG
1 AAATTTGAGAGG
829105 AAATTTGAGAG
1 AAATTTGAGAG
829116 AGGATTTGGT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
10 2 0.07
11 14 0.48
12 13 0.45
ACGTcount: A:0.49, C:0.00, G:0.27, T:0.24
Consensus pattern (12 bp):
AAATTTGAGAGG
Found at i:837346 original size:31 final size:31
Alignment explanation
Indices: 837298--837383 Score: 84
Period size: 31 Copynumber: 2.7 Consensus size: 31
837288 GGGGCCTTGG
* * *
837298 TCCCCAAAGTTTTTGAAAATTTTAGTTA-TA
1 TCCCTAAAATTTTTGAAAATTTTAATTAGTA
* * * *
837328 TCCTTAAATTTTTCTGAAATTTTTAATTAGGTC
1 TCCCTAAAATTTT-TGAAAATTTTAATTA-GTA
837361 TCCCTAAAATTTTTGAAAATTTT
1 TCCCTAAAATTTTTGAAAATTTT
837384 TAAATATTTC
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
30 10 0.23
31 13 0.30
32 9 0.20
33 12 0.27
ACGTcount: A:0.31, C:0.13, G:0.08, T:0.48
Consensus pattern (31 bp):
TCCCTAAAATTTTTGAAAATTTTAATTAGTA
Found at i:837384 original size:33 final size:31
Alignment explanation
Indices: 837298--837386 Score: 83
Period size: 33 Copynumber: 2.8 Consensus size: 31
837288 GGGGCCTTGG
* * *
837298 TCCCCAAAGTTTTTGAAAA-TTTTAGTTATA
1 TCCCTAAAATTTTTGAAAATTTTTAATTATA
* * *
837328 TCCTTAAATTTTTCTG-AAATTTTTAATTAGGTC
1 TCCCTAAAATTTT-TGAAAATTTTTAATTA--TA
837361 TCCCTAAAATTTTTGAAAATTTTTAA
1 TCCCTAAAATTTTTGAAAATTTTTAA
837387 ATATTTCAAT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
30 13 0.28
31 10 0.21
32 2 0.04
33 22 0.47
ACGTcount: A:0.33, C:0.12, G:0.08, T:0.47
Consensus pattern (31 bp):
TCCCTAAAATTTTTGAAAATTTTTAATTATA
Found at i:838829 original size:18 final size:20
Alignment explanation
Indices: 838793--838830 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
838783 ATTTTACTAT
*
838793 TTTTTCTATTTTAATAAATA
1 TTTTTCTATTTGAATAAATA
838813 TTTTTCT-TTTGAA-AAATA
1 TTTTTCTATTTGAATAAATA
838831 ACTTGATATC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 5 0.29
20 7 0.41
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.58
Consensus pattern (20 bp):
TTTTTCTATTTGAATAAATA
Found at i:838968 original size:3 final size:3
Alignment explanation
Indices: 838960--839002 Score: 77
Period size: 3 Copynumber: 14.0 Consensus size: 3
838950 AATTAATTAC
838960 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATAT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT
839003 TTACATTATT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 36 0.92
4 3 0.08
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:840299 original size:18 final size:18
Alignment explanation
Indices: 840258--840308 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
840248 AATTAATCTT
*
840258 ATTTATATTATTTGATAAA
1 ATTTATA-TATTTTATAAA
*
840277 ATTTATATATTTTATATA
1 ATTTATATATTTTATAAA
* *
840295 TTTTATATTTTTTA
1 ATTTATATATTTTA
840309 ATTTATATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
18 21 0.75
19 7 0.25
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (18 bp):
ATTTATATATTTTATAAA
Found at i:840705 original size:30 final size:28
Alignment explanation
Indices: 840671--840741 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 28
840661 ACGATTGAAC
*
840671 TTAAATTTTAAAATATTAAAAATA-AAGAGA
1 TTAAATTCTAAAA-A-TAAAAATATAAGA-A
*
840701 TTAAATTCTAAGAAATAAAAGTATAAGAA
1 TTAAATTCTAA-AAATAAAAATATAAGAA
840730 TTAAATTCTAAA
1 TTAAATTCTAAA
840742 TTTGTGAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
28 1 0.03
29 19 0.51
30 15 0.41
31 2 0.05
ACGTcount: A:0.58, C:0.03, G:0.07, T:0.32
Consensus pattern (28 bp):
TTAAATTCTAAAAATAAAAATATAAGAA
Found at i:846460 original size:28 final size:27
Alignment explanation
Indices: 846422--846486 Score: 107
Period size: 27 Copynumber: 2.4 Consensus size: 27
846412 TTAATAAATA
846422 TTTTTA-TTTTTT-ATTTTAAAATACTT
1 TTTTTATTTTTTTAATTTTAAAATAC-T
846448 TTTTTATTTTTTTAATTTTAAAATACT
1 TTTTTATTTTTTTAATTTTAAAATACT
846475 TTTTTATTTTTT
1 TTTTTATTTTTT
846487 AAAATTTTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 3
0.93 0.00 0.08
Matches are distributed among these distances:
26 6 0.16
27 19 0.51
28 12 0.32
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (27 bp):
TTTTTATTTTTTTAATTTTAAAATACT
Found at i:846494 original size:28 final size:27
Alignment explanation
Indices: 846422--846488 Score: 111
Period size: 26 Copynumber: 2.5 Consensus size: 27
846412 TTAATAAATA
846422 TTTTTATTTTTT-ATTTTAAAATACTT
1 TTTTTATTTTTTAATTTTAAAATACTT
846448 TTTTTATTTTTTTAATTTTAAAATAC-T
1 TTTTTA-TTTTTTAATTTTAAAATACTT
846475 TTTTTATTTTTTAA
1 TTTTTATTTTTTAA
846489 AATTTTTTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
26 14 0.36
27 13 0.33
28 12 0.31
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (27 bp):
TTTTTATTTTTTAATTTTAAAATACTT
Found at i:846497 original size:20 final size:19
Alignment explanation
Indices: 846452--846498 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
846442 ATACTTTTTT
846452 TATTTTTTTAATTTTAAAA
1 TATTTTTTTAATTTTAAAA
* *
846471 TACTTTTTTATTTTTTAAAA
1 TATTTTTTTA-ATTTTAAAA
846491 T-TTTTTTT
1 TATTTTTTT
846499 GGTGTTTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 15 0.62
20 9 0.38
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (19 bp):
TATTTTTTTAATTTTAAAA
Found at i:847481 original size:28 final size:29
Alignment explanation
Indices: 847450--847504 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 29
847440 TTGAATGAAA
*
847450 ATTTAACT-TTTAAGAT-ATAAAAATAAAT
1 ATTTAA-TATTTAAAATAATAAAAATAAAT
*
847478 ATTTTATATTTAAAATAATAAAAATAA
1 ATTTAATATTTAAAATAATAAAAATAA
847505 TTTAATTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 1 0.04
28 12 0.52
29 10 0.43
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (29 bp):
ATTTAATATTTAAAATAATAAAAATAAAT
Found at i:853973 original size:17 final size:17
Alignment explanation
Indices: 853951--853991 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
853941 CCGGTTCTCA
853951 ATTCGACTAGTTTAACT
1 ATTCGACTAGTTTAACT
853968 ATTCGACTAGTTTAACT
1 ATTCGACTAGTTTAACT
853985 AGTTCGA
1 A-TTCGA
853992 TAGCCAGACT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 18 0.78
18 5 0.22
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.39
Consensus pattern (17 bp):
ATTCGACTAGTTTAACT
Found at i:854630 original size:123 final size:123
Alignment explanation
Indices: 854434--854674 Score: 455
Period size: 123 Copynumber: 2.0 Consensus size: 123
854424 GTTTAATATT
*
854434 TTTATCCAAAAAATTTAAAATATTATATAGGTTTCTGAGTTTGGGTGAGAAACCTGACCTTTGTA
1 TTTATCCAAAAAATTTAAAATATTATATAGGTTTCCGAGTTTGGGTGAGAAACCTGACCTTTGTA
854499 TATGTATAAGTATAAGCCAGACATTTTTGTGCTCGTAGACTACTAAAATTCAAAAATA
66 TATGTATAAGTATAAGCCAGACATTTTTGTGCTCGTAGACTACTAAAATTCAAAAATA
*
854557 TTTATCCAAAAATTTTAAAATATTATATAGGTTTCCGAGTTTGGGTGAGAAACCTGACCTTTGTA
1 TTTATCCAAAAAATTTAAAATATTATATAGGTTTCCGAGTTTGGGTGAGAAACCTGACCTTTGTA
*
854622 TATGTATAAGTATAAGCGAGACATTTTTGTGCTCGTAGACTACTAAAATTCAA
66 TATGTATAAGTATAAGCCAGACATTTTTGTGCTCGTAGACTACTAAAATTCAA
854675 TTTGAAAAAA
Statistics
Matches: 115, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
123 115 1.00
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.36
Consensus pattern (123 bp):
TTTATCCAAAAAATTTAAAATATTATATAGGTTTCCGAGTTTGGGTGAGAAACCTGACCTTTGTA
TATGTATAAGTATAAGCCAGACATTTTTGTGCTCGTAGACTACTAAAATTCAAAAATA
Found at i:856868 original size:20 final size:20
Alignment explanation
Indices: 856843--856882 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
856833 CGTAAAATGA
*
856843 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
856863 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
856883 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:856872 original size:34 final size:35
Alignment explanation
Indices: 856828--856894 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
856818 CAGTAAAATA
*
856828 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
856862 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
856895 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:856898 original size:14 final size:15
Alignment explanation
Indices: 856822--856898 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
856812 GATTGCCAGT
* *
856822 AAAAT-ATTTTCCGT
1 AAAATGATTTTCTGG
856836 AAAATGA-TTTCTGG
1 AAAATGATTTTCTGG
*
856850 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
856870 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
856885 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
856899 TGTTTGATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 24 0.48
15 12 0.24
16 1 0.02
18 1 0.02
20 12 0.24
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.43
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:857757 original size:19 final size:20
Alignment explanation
Indices: 857730--857771 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
857720 TTGCTATTTG
* *
857730 AAAATTTTTATTAAGCTCCA
1 AAAATTTTAATTAAGCCCCA
857750 AAAATTTTAATTAAGCCCCA
1 AAAATTTTAATTAAGCCCCA
857770 AA
1 AA
857772 TGTTTTTGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.17, G:0.05, T:0.33
Consensus pattern (20 bp):
AAAATTTTAATTAAGCCCCA
Found at i:857787 original size:30 final size:30
Alignment explanation
Indices: 857750--857822 Score: 87
Period size: 30 Copynumber: 2.4 Consensus size: 30
857740 TTAAGCTCCA
857750 AAAATTTTAATTAAGCC-CCA-AATGTTTTTG
1 AAAATTTTAATTAAGCCTCCAGAA--TTTTTG
* * *
857780 GAAATTTTCATTAAGCCTCTAGAATTTTTG
1 AAAATTTTAATTAAGCCTCCAGAATTTTTG
857810 AAAATTTTAATTA
1 AAAATTTTAATTA
857823 CCCCCTCCCC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
30 32 0.89
31 2 0.06
32 2 0.06
ACGTcount: A:0.37, C:0.11, G:0.10, T:0.42
Consensus pattern (30 bp):
AAAATTTTAATTAAGCCTCCAGAATTTTTG
Found at i:858713 original size:82 final size:82
Alignment explanation
Indices: 858576--858745 Score: 333
Period size: 82 Copynumber: 2.1 Consensus size: 82
858566 GTCTGTATCG
858576 ATTGCATCGGCTTGTTCTGTCCAGTTCGTTTGCATTGGCTAAGGCATTGTGTATTGACTGGTTCA
1 ATTGCATCGGCTTGTTCTGTCCAGTTCGTTTGCATTGGCTAAGGCATTGTGTATTGACTGGTTCA
858641 TGTAAAATAGTTTGTGT
66 TGTAAAATAGTTTGTGT
858658 ATTGCATCGGCTTGTTCTGTCCAGTTCGTTTGCATTGGCTAAGGCATTGTGTATTGACTGGTTCA
1 ATTGCATCGGCTTGTTCTGTCCAGTTCGTTTGCATTGGCTAAGGCATTGTGTATTGACTGGTTCA
858723 TGTAAAATAGTTTGTGT
66 TGTAAAATAGTTTGTGT
858740 A-TGCAT
1 ATTGCAT
858746 ATTTTATATT
Statistics
Matches: 88, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
81 5 0.06
82 83 0.94
ACGTcount: A:0.19, C:0.15, G:0.25, T:0.41
Consensus pattern (82 bp):
ATTGCATCGGCTTGTTCTGTCCAGTTCGTTTGCATTGGCTAAGGCATTGTGTATTGACTGGTTCA
TGTAAAATAGTTTGTGT
Found at i:859201 original size:13 final size:14
Alignment explanation
Indices: 859173--859207 Score: 54
Period size: 13 Copynumber: 2.5 Consensus size: 14
859163 TAATATAAAC
859173 ATAAATATTCATTTT
1 ATAAAT-TTCATTTT
859188 ATAAATTT-ATTTT
1 ATAAATTTCATTTT
859201 ATAAATT
1 ATAAATT
859208 ATAATAACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 12 0.60
14 2 0.10
15 6 0.30
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (14 bp):
ATAAATTTCATTTT
Found at i:859852 original size:20 final size:19
Alignment explanation
Indices: 859768--859852 Score: 55
Period size: 20 Copynumber: 4.2 Consensus size: 19
859758 TAAGTCTTTG
859768 AATTTTATTTTTATTTATTA
1 AATTTTATTTTTATTT-TTA
* *
859788 AATTATT-TGTTTAGACTTTTA
1 AATT-TTAT-TTT-TATTTTTA
* * * *
859809 GACTTTAGTTTTAGTTTTA
1 AATTTTATTTTTATTTTTA
859828 GAATTTTATTTTTATTTATTA
1 -AATTTTATTTTTATTT-TTA
859849 AATT
1 AATT
859853 ATTTATAATT
Statistics
Matches: 48, Mismatches: 11, Indels: 12
0.68 0.15 0.17
Matches are distributed among these distances:
19 6 0.12
20 26 0.54
21 13 0.27
22 3 0.06
ACGTcount: A:0.28, C:0.02, G:0.07, T:0.62
Consensus pattern (19 bp):
AATTTTATTTTTATTTTTA
Found at i:869709 original size:33 final size:32
Alignment explanation
Indices: 869672--869733 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
869662 TGAAATTGTC
869672 ATTAATCTCACAATTTTTTTTAAAAAAATTAAT
1 ATTAATC-CACAATTTTTTTTAAAAAAATTAAT
* *
869705 ATTAATCCCCAGTTTTTTTTAAAAAAATT
1 ATTAATCCACAATTTTTTTTAAAAAAATT
869734 CACGTTAAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 20 0.74
33 7 0.26
ACGTcount: A:0.42, C:0.11, G:0.02, T:0.45
Consensus pattern (32 bp):
ATTAATCCACAATTTTTTTTAAAAAAATTAAT
Found at i:869943 original size:15 final size:14
Alignment explanation
Indices: 869918--869948 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
869908 ATTAAAACTA
869918 TAAAAATAATTAAT
1 TAAAAATAATTAAT
869932 TAAAAATAAATTAAT
1 TAAAAAT-AATTAAT
869947 TA
1 TA
869949 GTAAATTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (14 bp):
TAAAAATAATTAAT
Found at i:870067 original size:14 final size:14
Alignment explanation
Indices: 870048--870074 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
870038 TAATTCAAAA
870048 ATAAAAATATTAAT
1 ATAAAAATATTAAT
870062 ATAAAAATATTAA
1 ATAAAAATATTAA
870075 AATTTTAATG
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:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
ATAAAAATATTAAT
Found at i:870138 original size:16 final size:17
Alignment explanation
Indices: 870117--870154 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
870107 CGTATAATTC
870117 AAAAAT-AA-AAATATTT
1 AAAAATAAACAAAT-TTT
870133 AAAAATAAACAAATTTT
1 AAAAATAAACAAATTTT
870150 AAAAA
1 AAAAA
870155 AAGTTTATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 6 0.30
17 10 0.50
18 4 0.20
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (17 bp):
AAAAATAAACAAATTTT
Found at i:870150 original size:17 final size:16
Alignment explanation
Indices: 870117--870154 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 16
870107 CGTATAATTC
870117 AAAAATAAAAATATTT
1 AAAAATAAAAATATTT
870133 AAAAATAAACAA-ATTTT
1 AAAAATAAA-AATA-TTT
870150 AAAAA
1 AAAAA
870155 AAGTTTATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (16 bp):
AAAAATAAAAATATTT
Found at i:873848 original size:3 final size:3
Alignment explanation
Indices: 873842--873870 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
873832 CTTATGATGA
873842 TGG TGG TGG TGG TGG TGG TGG TGG TGG TG
1 TGG TGG TGG TGG TGG TGG TGG TGG TGG TG
873871 TTTGTTGTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.66, T:0.34
Consensus pattern (3 bp):
TGG
Found at i:876500 original size:15 final size:15
Alignment explanation
Indices: 876482--876517 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
876472 TATTTTTAAA
*
876482 ATTTTTAAAAAAATT
1 ATTTTTAAAAAAATG
876497 A-TTTTAAAAAAATG
1 ATTTTTAAAAAAATG
876511 ATTTTTA
1 ATTTTTA
876518 TAGACATCCG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 13 0.68
15 6 0.32
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (15 bp):
ATTTTTAAAAAAATG
Found at i:881063 original size:24 final size:24
Alignment explanation
Indices: 881028--881076 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
881018 TATATATATG
881028 AAACTTTAATTTTGATTCAATTGT
1 AAACTTTAATTTTGATTCAATTGT
* *
881052 AAACTTTGATTTTGATTTAATTGT
1 AAACTTTAATTTTGATTCAATTGT
881076 A
1 A
881077 TACATTTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.33, C:0.06, G:0.10, T:0.51
Consensus pattern (24 bp):
AAACTTTAATTTTGATTCAATTGT
Found at i:885334 original size:24 final size:24
Alignment explanation
Indices: 885306--885356 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
885296 GTTAGATCGG
885306 AAATTGGTT-AAAAATATCATTTTT
1 AAATTGGTTAAAAAATAT-ATTTTT
**
885330 AAATTTTTTAAAAAATATATTTTT
1 AAATTGGTTAAAAAATATATTTTT
885354 AAA
1 AAA
885357 AAATAATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 16 0.67
25 8 0.33
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (24 bp):
AAATTGGTTAAAAAATATATTTTT
Found at i:885354 original size:15 final size:14
Alignment explanation
Indices: 885334--885368 Score: 61
Period size: 15 Copynumber: 2.4 Consensus size: 14
885324 ATTTTTAAAT
885334 TTTTTAAAAAATATA
1 TTTTTAAAAAATA-A
885349 TTTTTAAAAAATAA
1 TTTTTAAAAAATAA
885363 TTTTTA
1 TTTTTA
885369 TAGATATCCG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
TTTTTAAAAAATAA
Found at i:895520 original size:24 final size:23
Alignment explanation
Indices: 895487--895531 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
895477 TTAAAATGAA
*
895487 AAAAAAATACATTTTAACTTTCAT
1 AAAAAAATACAATTTAA-TTTCAT
*
895511 AAAAATATACAATTTAATTTC
1 AAAAAAATACAATTTAATTTC
895532 GACTCTTCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (23 bp):
AAAAAAATACAATTTAATTTCAT
Found at i:895892 original size:13 final size:13
Alignment explanation
Indices: 895868--895902 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
895858 TATTATTTTT
895868 AAAATT-TTTAAA
1 AAAATTATTTAAA
895880 AAAATTATTTAAA
1 AAAATTATTTAAA
*
895893 AAAATGATTT
1 AAAATTATTT
895903 TTATAGATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (13 bp):
AAAATTATTTAAA
Found at i:901723 original size:30 final size:30
Alignment explanation
Indices: 901688--901751 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 30
901678 ATATACCCGA
* *
901688 TCCTCCACTCCTTAGCTCCTTTGTTAGTTC
1 TCCTCCACGCCTTAGCTCCTTTGTTACTTC
901718 TCCTCCACGCCTTAGCTCCTTTGTTACTTC
1 TCCTCCACGCCTTAGCTCCTTTGTTACTTC
901748 TCCT
1 TCCT
901752 TAGATCATGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.09, C:0.39, G:0.09, T:0.42
Consensus pattern (30 bp):
TCCTCCACGCCTTAGCTCCTTTGTTACTTC
Found at i:902151 original size:5 final size:5
Alignment explanation
Indices: 902141--902171 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
902131 TTAACTAAGA
902141 TGGGT TGGGT TGGGT TGGGT TGGGT TGGGT T
1 TGGGT TGGGT TGGGT TGGGT TGGGT TGGGT T
902172 CTATTGGGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.58, T:0.42
Consensus pattern (5 bp):
TGGGT
Found at i:904193 original size:14 final size:14
Alignment explanation
Indices: 904151--904193 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
904141 AAAATAGAGT
904151 AATTAAATTACTAAA
1 AATTAAATT-CTAAA
* * *
904166 AATAAAAATATAAA
1 AATTAAATTCTAAA
904180 AATTAAATTCTAAA
1 AATTAAATTCTAAA
904194 TTTAAAAAGG
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
14 15 0.68
15 7 0.32
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (14 bp):
AATTAAATTCTAAA
Found at i:904201 original size:29 final size:30
Alignment explanation
Indices: 904136--904201 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 30
904126 TTTTAAAAAT
**
904136 TTTAAAAAATAGAGTAATTAAATTACTAAA
1 TTTAAAAAATAGAAAAATTAAATTACTAAA
** *
904166 AAT-AAAAATATAAAAATTAAATT-CTAAA
1 TTTAAAAAATAGAAAAATTAAATTACTAAA
904194 TTTAAAAA
1 TTTAAAAA
904202 GGTACAGGAC
Statistics
Matches: 28, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
28 6 0.21
29 21 0.75
30 1 0.04
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (30 bp):
TTTAAAAAATAGAAAAATTAAATTACTAAA
Found at i:904467 original size:41 final size:40
Alignment explanation
Indices: 904408--904504 Score: 160
Period size: 41 Copynumber: 2.4 Consensus size: 40
904398 TAAATATATT
904408 TATTTTTTTTAA-TTTTTTAATTTTAAAATACTTTTAAAA
1 TATTTTTTTTAATTTTTTTAATTTTAAAATACTTTTAAAA
* *
904447 TACTTTTTTTAAATTTTTTTAATTTTAAAATATTTTTAAAA
1 TA-TTTTTTTTAATTTTTTTAATTTTAAAATACTTTTAAAA
904488 TATTTTTTTTAATTTTT
1 TATTTTTTTTAATTTTT
904505 AAAATATTTT
Statistics
Matches: 53, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
39 2 0.04
40 23 0.43
41 28 0.53
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (40 bp):
TATTTTTTTTAATTTTTTTAATTTTAAAATACTTTTAAAA
Found at i:904477 original size:17 final size:17
Alignment explanation
Indices: 904452--904485 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
904442 TAAAATACTT
* *
904452 TTTTTAAATTTTTTTAA
1 TTTTAAAATATTTTTAA
904469 TTTTAAAATATTTTTAA
1 TTTTAAAATATTTTTAA
904486 AATATTTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTAAAATATTTTTAA
Found at i:904483 original size:11 final size:11
Alignment explanation
Indices: 904428--904515 Score: 62
Period size: 11 Copynumber: 8.4 Consensus size: 11
904418 AATTTTTTAA
*
904428 TTTTAAAATAC
1 TTTTAAAATAT
904439 TTTTAAAATACTT
1 TTTTAAAATA--T
*
904452 TTTTTAAAT-T
1 TTTTAAAATAT
*
904462 TTTT----TAA
1 TTTTAAAATAT
904469 TTTTAAAATAT
1 TTTTAAAATAT
904480 TTTTAAAATAT
1 TTTTAAAATAT
***
904491 TTTTTTTA-AT
1 TTTTAAAATAT
904501 TTTTAAAATAT
1 TTTTAAAATAT
904512 TTTT
1 TTTT
904516 TTGTATTTAT
Statistics
Matches: 59, Mismatches: 10, Indels: 16
0.69 0.12 0.19
Matches are distributed among these distances:
6 1 0.02
7 4 0.07
10 12 0.20
11 34 0.58
13 8 0.14
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:904502 original size:21 final size:21
Alignment explanation
Indices: 904478--904517 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
904468 ATTTTAAAAT
904478 ATTTTTAAAATATTTTTTTTA
1 ATTTTTAAAATATTTTTTTTA
904499 ATTTTTAAAATATTTTTTT
1 ATTTTTAAAATATTTTTTT
904518 GTATTTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (21 bp):
ATTTTTAAAATATTTTTTTTA
Found at i:904523 original size:21 final size:20
Alignment explanation
Indices: 904477--904523 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 20
904467 AATTTTAAAA
904477 TATTTTTAAAATATTTTTTT
1 TATTTTTAAAATATTTTTTT
904497 TAATTTTTAAAATATTTTTTT
1 T-ATTTTTAAAATATTTTTTT
904518 GTATTT
1 -TATTT
904524 ATTTTAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 1 0.04
21 23 0.92
22 1 0.04
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (20 bp):
TATTTTTAAAATATTTTTTT
Found at i:904523 original size:31 final size:29
Alignment explanation
Indices: 904439--904530 Score: 94
Period size: 31 Copynumber: 3.0 Consensus size: 29
904429 TTTAAAATAC
* *
904439 TTTTAAAATACTTTTTTTAAATTTTTTTAA
1 TTTTAAAATA-TTTTTTTTATTTTTTTTAA
**
904469 TTTTAAAATATTTTTAAAATATTTTTTTTAA
1 TTTTAAAATATTTTT--TTTATTTTTTTTAA
*
904500 TTTTTAAAATATTTTTTTGTATTTATTTTAA
1 -TTTTAAAATATTTTTTT-TATTTTTTTTAA
904531 AAAAGGACCG
Statistics
Matches: 51, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
29 5 0.10
30 10 0.20
31 21 0.41
32 15 0.29
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.64
Consensus pattern (29 bp):
TTTTAAAATATTTTTTTTATTTTTTTTAA
Found at i:905456 original size:23 final size:21
Alignment explanation
Indices: 905410--905458 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
905400 CTCTCTGAAT
*
905410 AAAAATTAAATAAATCCCCAA
1 AAAAATTAAATAAATACCCAA
*
905431 AAAAATTAAAAATAAA-ACCCAG
1 AAAAATT--AAATAAATACCCAA
905453 AAAAAT
1 AAAAAT
905459 AGTAGCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 7 0.29
22 10 0.42
23 7 0.29
ACGTcount: A:0.67, C:0.14, G:0.02, T:0.16
Consensus pattern (21 bp):
AAAAATTAAATAAATACCCAA
Found at i:906466 original size:215 final size:215
Alignment explanation
Indices: 906086--906588 Score: 718
Period size: 215 Copynumber: 2.3 Consensus size: 215
906076 CGAACATAGG
* * * *
906086 TACTACAAGAAAAATGAAGAGTCTGAGCATCATAGCTTAGCATGAACTAAAACTAGGTAATGGCA
1 TACTTCAAGAAAAATGAAGAGTCCGAGCATCATAGCTTAGCACGAACTAAAACTAGGTAATGGTA
* * *
906151 GTGATAAAATCTTGATCTCTTAGTTGGAATTTTACTTAGCACCTATGTTACTCCGATTTGGGTGT
66 GTGATAAAATCGTGATCTCTTAGTTGGAAATTTACTTAGCACCTATATTACTCCGATTTGGGTGT
** * * * ***
906216 AGTTGTCCAATACTGGTAGTGTCTGATATGAGTTTAGAGGTTGTATCTCTGTATTTGTGTGTCGG
131 AGTTGTCCAATACTAATAGTGTCGGACACGAGTTTAGAGGTTGTATCTCTGTATTACAGTGTCGG
906281 ACATGAGGGTCAGACACAGA
196 ACATGAGGGTCAGACACAGA
* *
906301 TACTTCAAGAAAAATGAAGAGTCCGAGCATCATAGTTTAGCACGAACCAAAACTAGGTAATGGTA
1 TACTTCAAGAAAAATGAAGAGTCCGAGCATCATAGCTTAGCACGAACTAAAACTAGGTAATGGTA
* * * * *
906366 GTGATAAAATCGTGTTTTCTTATTTGGAAATTTACTTAGCACCTGTATTACTCGGATTTGGGTGT
66 GTGATAAAATCGTGATCTCTTAGTTGGAAATTTACTTAGCACCTATATTACTCCGATTTGGGTGT
** *
906431 AGTTGTCTGATACTAATAGTGTCGGACACGAGTTTAGAGGTTGTATCTCTGTATTACAGTGTTGG
131 AGTTGTCCAATACTAATAGTGTCGGACACGAGTTTAGAGGTTGTATCTCTGTATTACAGTGTCGG
* *
906496 ACATGAGTGTCAGGCACAGA
196 ACATGAGGGTCAGACACAGA
* * * * *
906516 TACTTAAAGAAAAATGAAGAGTTCGAGCATCATAGCTTAGGACAAACTAAAACTATGTAATGGTA
1 TACTTCAAGAAAAATGAAGAGTCCGAGCATCATAGCTTAGCACGAACTAAAACTAGGTAATGGTA
906581 GTGATAAA
66 GTGATAAA
906589 GTCTTGGAAC
Statistics
Matches: 254, Mismatches: 34, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
215 254 1.00
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.31
Consensus pattern (215 bp):
TACTTCAAGAAAAATGAAGAGTCCGAGCATCATAGCTTAGCACGAACTAAAACTAGGTAATGGTA
GTGATAAAATCGTGATCTCTTAGTTGGAAATTTACTTAGCACCTATATTACTCCGATTTGGGTGT
AGTTGTCCAATACTAATAGTGTCGGACACGAGTTTAGAGGTTGTATCTCTGTATTACAGTGTCGG
ACATGAGGGTCAGACACAGA
Found at i:910097 original size:1 final size:1
Alignment explanation
Indices: 910091--910135 Score: 63
Period size: 1 Copynumber: 45.0 Consensus size: 1
910081 CCCCAAATTA
* **
910091 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTGTTTTCGTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
910136 ATGCTTTAGG
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
1 39 1.00
ACGTcount: A:0.00, C:0.02, G:0.04, T:0.93
Consensus pattern (1 bp):
T
Found at i:911150 original size:12 final size:12
Alignment explanation
Indices: 911133--911197 Score: 66
Period size: 12 Copynumber: 5.5 Consensus size: 12
911123 CCAAATAAGT
911133 AATAAATAATAA
1 AATAAATAATAA
911145 AATAAAGTAAT-A
1 AATAAA-TAATAA
*
911157 AATAAAGTAA-AG
1 AATAAA-TAATAA
911169 AA-AAATAATAA
1 AATAAATAATAA
911180 AA-AAATAATAA
1 AATAAATAATAA
911191 TAATAAA
1 -AATAAA
911198 AATTGGGTTG
Statistics
Matches: 46, Mismatches: 2, Indels: 9
0.81 0.04 0.16
Matches are distributed among these distances:
10 3 0.07
11 15 0.33
12 21 0.46
13 7 0.15
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.22
Consensus pattern (12 bp):
AATAAATAATAA
Found at i:911154 original size:20 final size:19
Alignment explanation
Indices: 911125--911198 Score: 79
Period size: 17 Copynumber: 4.2 Consensus size: 19
911115 ATTAATATCC
911125 AAAT-AAGTAATAAATAATA
1 AAATAAAGTAAT-AATAATA
911144 AAATAAAGTAAT-A-AATA
1 AAATAAAGTAATAATAATA
* *
911161 AAGTAAAG-AAAAATAATA
1 AAATAAAGTAATAATAATA
911179 AAA-AAA-TAATAATAATA
1 AAATAAAGTAATAATAATA
911196 AAA
1 AAA
911199 ATTGGGTTGC
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
16 2 0.04
17 27 0.57
18 7 0.15
19 4 0.09
20 7 0.15
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.22
Consensus pattern (19 bp):
AAATAAAGTAATAATAATA
Found at i:920323 original size:31 final size:31
Alignment explanation
Indices: 920254--920323 Score: 95
Period size: 31 Copynumber: 2.3 Consensus size: 31
920244 ATTAACAGTC
* *
920254 CAGTGGCTTAAATAAAAATTTTCAAATAGTT
1 CAGTGACTTAAATAAAAATTTTCAAATAATT
* *
920285 CAATGACTTAAATGAAAATTTTCAAATAATT
1 CAGTGACTTAAATAAAAATTTTCAAATAATT
*
920316 TAGTGACT
1 CAGTGACT
920324 ATTTTGTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.43, C:0.10, G:0.11, T:0.36
Consensus pattern (31 bp):
CAGTGACTTAAATAAAAATTTTCAAATAATT
Found at i:923324 original size:17 final size:18
Alignment explanation
Indices: 923297--923330 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
923287 TTTATATATT
*
923297 AAATTGCATATTAAAATA
1 AAATTGCATATAAAAATA
923315 AAATTG-ATATAAAAAT
1 AAATTGCATATAAAAAT
923331 TTGTTATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.59, C:0.03, G:0.06, T:0.32
Consensus pattern (18 bp):
AAATTGCATATAAAAATA
Found at i:929064 original size:31 final size:31
Alignment explanation
Indices: 929002--929065 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
928992 AAAATAGCAG
* * * *
929002 TTCGACTTTTTTTGAAAGGTTGATGATCAAA
1 TTCGACTCTTTTTAAAAGATTGATGACCAAA
929033 TTCGACTCTTTTTAAAAGATTGA-GAGCCAAA
1 TTCGACTCTTTTTAAAAGATTGATGA-CCAAA
929064 TT
1 TT
929066 TAGCTTAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 2 0.07
31 26 0.93
ACGTcount: A:0.31, C:0.12, G:0.17, T:0.39
Consensus pattern (31 bp):
TTCGACTCTTTTTAAAAGATTGATGACCAAA
Found at i:930380 original size:17 final size:17
Alignment explanation
Indices: 930358--930390 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
930348 AAGCAAATAA
930358 TAATAAA-AGAAGTAAAC
1 TAATAAATAGAA-TAAAC
930375 TAATAAATAGAATAAA
1 TAATAAATAGAATAAA
930391 GGGTAAACTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.67, C:0.03, G:0.09, T:0.21
Consensus pattern (17 bp):
TAATAAATAGAATAAAC
Found at i:934505 original size:41 final size:40
Alignment explanation
Indices: 934412--934509 Score: 153
Period size: 40 Copynumber: 2.4 Consensus size: 40
934402 ATGCATGCAT
* *
934412 GCATACATGCATACATATTAAGACAAATGTAAAAAGAGTG
1 GCATGCATGCATACATATTAAGAAAAATGTAAAAAGAGTG
934452 GCATGCATGCATACATATTAAGAAAAAAATGTAAAAA-AGTG
1 GCATGCATGCATACATATTAAG--AAAAATGTAAAAAGAGTG
934493 GCATGCATGCATACATA
1 GCATGCATGCATACATA
934510 CATATATACA
Statistics
Matches: 54, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
40 21 0.39
41 21 0.39
42 12 0.22
ACGTcount: A:0.47, C:0.13, G:0.17, T:0.22
Consensus pattern (40 bp):
GCATGCATGCATACATATTAAGAAAAATGTAAAAAGAGTG
Found at i:938585 original size:31 final size:31
Alignment explanation
Indices: 938549--938609 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
938539 ACAACCCAAT
938549 GATTTAAAT-AAAA-ATTTACGAATAGTTCAAC
1 GATTTAAATCAAAACATTTA--AATAGTTCAAC
*
938580 GATTTAAATCAAAACTTTTAAATAGTTCAA
1 GATTTAAATCAAAACATTTAAATAGTTCAA
938610 TAATCATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
31 19 0.70
32 4 0.15
33 4 0.15
ACGTcount: A:0.48, C:0.10, G:0.08, T:0.34
Consensus pattern (31 bp):
GATTTAAATCAAAACATTTAAATAGTTCAAC
Found at i:946722 original size:50 final size:48
Alignment explanation
Indices: 946642--946740 Score: 171
Period size: 50 Copynumber: 2.0 Consensus size: 48
946632 GATTCAACTG
*
946642 GTTCTGTCAGTTTTTTCGATTTACTTGATCTTTGGTTTATGGTTATTA
1 GTTCTGTCAGTTTTTTCGATTTACTCGATCTTTGGTTTATGGTTATTA
946690 GTTCTGTCAGTTTTTTTTCGATTTACTCGATCTTTGGTTTATGGTTATTA
1 GTTCTGTCAG--TTTTTTCGATTTACTCGATCTTTGGTTTATGGTTATTA
946740 G
1 G
946741 GTTAAGTTTA
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
48 10 0.21
50 38 0.79
ACGTcount: A:0.14, C:0.11, G:0.19, T:0.56
Consensus pattern (48 bp):
GTTCTGTCAGTTTTTTCGATTTACTCGATCTTTGGTTTATGGTTATTA
Found at i:947739 original size:39 final size:41
Alignment explanation
Indices: 947680--947763 Score: 145
Period size: 39 Copynumber: 2.1 Consensus size: 41
947670 TATGAATCAG
947680 ATTGCATTTTACCTTCTATACT-AAAAAAA-AAAGAAATAA
1 ATTGCATTTTACCTTCTATACTAAAAAAAAGAAAGAAATAA
*
947719 ATTGTATTTTACCTTCTATACTAAAAAAAAGAAAGAAATAA
1 ATTGCATTTTACCTTCTATACTAAAAAAAAGAAAGAAATAA
947760 ATTG
1 ATTG
947764 GTTATTCCTA
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
39 21 0.50
40 7 0.17
41 14 0.33
ACGTcount: A:0.50, C:0.11, G:0.07, T:0.32
Consensus pattern (41 bp):
ATTGCATTTTACCTTCTATACTAAAAAAAAGAAAGAAATAA
Found at i:948273 original size:31 final size:30
Alignment explanation
Indices: 948233--948292 Score: 75
Period size: 31 Copynumber: 2.0 Consensus size: 30
948223 GTAAAAATTA
* *
948233 AAATTATACATAAATTTTGATTCAATATAT
1 AAATTATACATAAACTTTCATTCAATATAT
* *
948263 AAATTGATACATGAACTTTCATTTAATATA
1 AAATT-ATACATAAACTTTCATTCAATATA
948293 ATTATACATG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 5 0.20
31 20 0.80
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.42
Consensus pattern (30 bp):
AAATTATACATAAACTTTCATTCAATATAT
Found at i:948790 original size:33 final size:30
Alignment explanation
Indices: 948753--948824 Score: 81
Period size: 33 Copynumber: 2.3 Consensus size: 30
948743 TATATTGTGA
*
948753 TCACTGAACCATTTGAAAGTTTTCAGTTATAAC
1 TCACTGAACCATTT-AAAATTTTCA-TT-TAAC
* * *
948786 TCACTGAACTATTTAAAATTTTTATTTAAG
1 TCACTGAACCATTTAAAATTTTCATTTAAC
948816 TCACTGAAC
1 TCACTGAAC
948825 TATTAATTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
30 12 0.34
31 2 0.06
32 8 0.23
33 13 0.37
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.39
Consensus pattern (30 bp):
TCACTGAACCATTTAAAATTTTCATTTAAC
Found at i:948822 original size:30 final size:33
Alignment explanation
Indices: 948753--948828 Score: 95
Period size: 30 Copynumber: 2.4 Consensus size: 33
948743 TATATTGTGA
* *
948753 TCACTGAACCATTTGAAAGTTTTCAGTTATAAC
1 TCACTGAACTATTTGAAAATTTTCAGTTATAAC
* *
948786 TCACTGAACTATTT-AAAATTTTTA-TT-TAAG
1 TCACTGAACTATTTGAAAATTTTCAGTTATAAC
948816 TCACTGAACTATT
1 TCACTGAACTATT
948829 AATTTTTTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
30 16 0.41
31 2 0.05
32 8 0.21
33 13 0.33
ACGTcount: A:0.34, C:0.16, G:0.09, T:0.41
Consensus pattern (33 bp):
TCACTGAACTATTTGAAAATTTTCAGTTATAAC
Found at i:951613 original size:29 final size:30
Alignment explanation
Indices: 951554--951614 Score: 72
Period size: 29 Copynumber: 2.0 Consensus size: 30
951544 TAAAAACAAC
*
951554 ATATGAACTTTAGATCGTTGTGTAATATTAT
1 ATATGAACTTTAGATC-TTGTATAATATTAT
*
951585 ATATGAACTTT-GAT-TTCGTATAATTTTAT
1 ATATGAACTTTAGATCTT-GTATAATATTAT
951614 A
1 A
951615 CATAAAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 2 0.07
29 11 0.41
30 3 0.11
31 11 0.41
ACGTcount: A:0.33, C:0.07, G:0.13, T:0.48
Consensus pattern (30 bp):
ATATGAACTTTAGATCTTGTATAATATTAT
Found at i:952382 original size:24 final size:24
Alignment explanation
Indices: 952350--952399 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
952340 ATGCAATTAC
*
952350 ATATTAGACTAAAATTAATGTATA
1 ATATTAGACCAAAATTAATGTATA
*
952374 ATATTAGACCAGAATTAATGTATA
1 ATATTAGACCAAAATTAATGTATA
952398 AT
1 AT
952400 TTATTTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.48, C:0.06, G:0.10, T:0.36
Consensus pattern (24 bp):
ATATTAGACCAAAATTAATGTATA
Found at i:953228 original size:21 final size:21
Alignment explanation
Indices: 953195--953235 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
953185 CTTGATGTGA
953195 ATTAAAAATAATTATTTATTC
1 ATTAAAAATAATTATTTATTC
953216 ATTATAAAA-AATTATTTATT
1 ATTA-AAAATAATTATTTATT
953236 TAGATGTGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (21 bp):
ATTAAAAATAATTATTTATTC
Found at i:976310 original size:31 final size:31
Alignment explanation
Indices: 976267--976326 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
976257 ATGACTTAAA
*
976267 TAAAAAAAAACTTTTAAATAATTCAATGATT
1 TAAAAAAAAACTTTCAAATAATTCAATGATT
* *
976298 TAAATAAAAACTTTCAAATAGTTCAATGA
1 TAAAAAAAAACTTTCAAATAATTCAATGA
976327 CCATTTTGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.53, C:0.08, G:0.05, T:0.33
Consensus pattern (31 bp):
TAAAAAAAAACTTTCAAATAATTCAATGATT
Found at i:977663 original size:32 final size:31
Alignment explanation
Indices: 977627--977689 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
977617 CTTAACAGTC
*
977627 CAATGACTTAAAACAAAAACTTTCAAATAGTT
1 CAATGACCT-AAACAAAAACTTTCAAATAGTT
** *
977659 CAATGACCTAAATGAAAACTTTCGAATAGTT
1 CAATGACCTAAACAAAAACTTTCAAATAGTT
977690 TAGTGATCAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
31 19 0.70
32 8 0.30
ACGTcount: A:0.46, C:0.16, G:0.10, T:0.29
Consensus pattern (31 bp):
CAATGACCTAAACAAAAACTTTCAAATAGTT
Found at i:978983 original size:40 final size:40
Alignment explanation
Indices: 978923--979063 Score: 135
Period size: 40 Copynumber: 3.5 Consensus size: 40
978913 AACACACCAG
* *
978923 TTTGGCACCCAGTGCCTCATCGGATAATTCAAAGTAATAA
1 TTTGACACCCAGTGCCTCATCGGATAATTCGAAGTAATAA
* * **
978963 TTTGACACCCAGTGTCTCATCGGTTAAAACTGAAGT-A-AA
1 TTTGACACCCAGTGCCTCATCGGATAATTC-GAAGTAATAA
* * * *
979002 -TTGGCACCCAGTGCCTCATTGAATTAATTCGAAGTAGTAA
1 TTTGACACCCAGTGCCTCATCGGA-TAATTCGAAGTAATAA
* *
979042 TTTGACACTCAGTGTCTCATCG
1 TTTGACACCCAGTGCCTCATCG
979064 ACTTGAAGTC
Statistics
Matches: 78, Mismatches: 18, Indels: 9
0.74 0.17 0.09
Matches are distributed among these distances:
38 23 0.29
39 6 0.08
40 28 0.36
41 21 0.27
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (40 bp):
TTTGACACCCAGTGCCTCATCGGATAATTCGAAGTAATAA
Found at i:979965 original size:20 final size:19
Alignment explanation
Indices: 979942--979994 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 19
979932 TTTCTCCTTC
979942 CTTTCTTTCCTTTTTCTTTT
1 CTTTCTTT-CTTTTTCTTTT
979962 CTTTCTTTCTTTTTCTTTCT
1 CTTTCTTTCTTTTTCTTT-T
*
979982 GTTTCGTTTCTTT
1 CTTTC-TTTCTTT
979995 CTTTTTATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 10 0.33
20 13 0.43
21 7 0.23
ACGTcount: A:0.00, C:0.23, G:0.04, T:0.74
Consensus pattern (19 bp):
CTTTCTTTCTTTTTCTTTT
Found at i:979991 original size:25 final size:23
Alignment explanation
Indices: 979954--980000 Score: 76
Period size: 25 Copynumber: 2.0 Consensus size: 23
979944 TTCTTTCCTT
979954 TTTCTTTTCTTTCTTTCTTTTTC
1 TTTCTTTTCTTTCTTTCTTTTTC
979977 TTTCTGTTTCGTTTCTTTCTTTTT
1 TTTCT-TTTC-TTTCTTTCTTTTT
980001 ATTTATTCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 5 0.23
24 4 0.18
25 13 0.59
ACGTcount: A:0.00, C:0.19, G:0.04, T:0.77
Consensus pattern (23 bp):
TTTCTTTTCTTTCTTTCTTTTTC
Found at i:980845 original size:2 final size:2
Alignment explanation
Indices: 980838--980862 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
980828 TTGGTGGGGA
980838 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
980863 AAACTTAGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:982789 original size:27 final size:27
Alignment explanation
Indices: 982751--982806 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
982741 TAGGAGTTTG
982751 ACCCAACTCGATTTTGAATTTAGTGGA
1 ACCCAACTCGATTTTGAATTTAGTGGA
982778 ACCCAACTCGATTTTGAATTTAGTGGA
1 ACCCAACTCGATTTTGAATTTAGTGGA
982805 AC
1 AC
982807 TATGAATTGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (27 bp):
ACCCAACTCGATTTTGAATTTAGTGGA
Found at i:982950 original size:31 final size:30
Alignment explanation
Indices: 982910--983013 Score: 86
Period size: 31 Copynumber: 3.4 Consensus size: 30
982900 ATGAGAATAT
*
982910 TAATGAAAATTTTTAAAAATTTTGGAGGACC
1 TAATTAAAATTTTTAAAAATTTTGGAGG-CC
** * *
982941 TAATTAAAA--TTTAAACCTTTTGAAAGGCT
1 TAATTAAAATTTTTAAAAATTTTG-GAGGCC
* * * *
982970 TAATTAGAATTTCTAAAAATTTTGAGGGGTC
1 TAATTAAAATTTTTAAAAATTTTG-GAGGCC
983001 TAATTAAAATTTT
1 TAATTAAAATTTT
983014 AAATTTTTCT
Statistics
Matches: 55, Mismatches: 15, Indels: 6
0.72 0.20 0.08
Matches are distributed among these distances:
29 20 0.36
30 3 0.05
31 32 0.58
ACGTcount: A:0.40, C:0.07, G:0.13, T:0.39
Consensus pattern (30 bp):
TAATTAAAATTTTTAAAAATTTTGGAGGCC
Found at i:982953 original size:29 final size:28
Alignment explanation
Indices: 982921--983021 Score: 76
Period size: 29 Copynumber: 3.4 Consensus size: 28
982911 AATGAAAATT
982921 TTTAAAAATTTTGGAGGACCTAATTAAAA
1 TTTAAAAATTTTGGAGG-CCTAATTAAAA
** * * *
982950 TTTAAACCTTTTGAAAGGCTTAATTAGAAT
1 TTTAAAAATTTTG-GAGGCCTAATTA-AAA
* *
982980 TTCTAAAAATTTTGAGGGGTCTAATTAAAA
1 TT-TAAAAATTTTG-GAGGCCTAATTAAAA
* *
983010 TTTTAAATTTTT
1 TTTAAAAATTTT
983022 CTAAAGCTTT
Statistics
Matches: 55, Mismatches: 14, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
29 26 0.47
30 11 0.20
31 18 0.33
ACGTcount: A:0.39, C:0.07, G:0.13, T:0.42
Consensus pattern (28 bp):
TTTAAAAATTTTGGAGGCCTAATTAAAA
Found at i:988858 original size:3 final size:3
Alignment explanation
Indices: 988850--988878 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
988840 ATGTCTTTAA
988850 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
988879 CAATTAAGTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:991309 original size:16 final size:16
Alignment explanation
Indices: 991284--991314 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
991274 TTTTATCATT
991284 TATTAATATAAAAAGC
1 TATTAATATAAAAAGC
*
991300 TATTATTATAAAAAG
1 TATTAATATAAAAAG
991315 TAAAATTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.35
Consensus pattern (16 bp):
TATTAATATAAAAAGC
Found at i:993725 original size:3 final size:3
Alignment explanation
Indices: 993717--993742 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
993707 GATTTTATGT
993717 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
993743 TGCTATAATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:1003543 original size:124 final size:124
Alignment explanation
Indices: 1003394--1003771 Score: 383
Period size: 124 Copynumber: 3.1 Consensus size: 124
1003384 CATGCATGTA
* * * * *
1003394 AACATACAT-ATATATA-TAGTATTTACAGCATTTAGGTGCAAGCAATCTCATATTCTATCAATT
1 AACATACATAATACAGATTAGTATTTACAGCATTTAGATGCAAGAAAACTCATATTCTATCAATT
** * * *
1003457 GAAAGGCAAATCATACATAAGCAACTATGGGACAACTAATTATTCATTGACATAACTGC
66 CTAAGGCAAATCATAAATAAGCAACTATGGGTCAACTAATCATTCATTGACATAACTGC
*** * * * *
1003516 AGTGTTTACAT-ATAC-G-TCTAGTATTTACAACATGTAGATGCAAGAAACCTCATATTTTATCA
1 A--ACATACATAATACAGAT-TAGTATTTACAGCATTTAGATGCAAGAAAACTCATATTCTATCA
* ** * *
1003578 ATTCTAAGGCAAATCATAAATCAGCAACTA-GGGTCAACTTGTCATTCATTGGCATAACAGC
63 ATTCTAAGGCAAATCATAAATAAGCAACTATGGGTCAACTAATCATTCATTGACATAACTGC
* * * *
1003639 AACATACATACATACAGATT-GTATTTGCAGCATTTAGATGCAATAAAACTCAAATTCTATTAAT
1 AACATACATA-ATACAGATTAGTATTTACAGCATTTAGATGCAAGAAAACTCATATTCTATCAAT
* * * * *
1003703 TCTGAGGCAAATAATAAATAAGCATCTATGGGTCAATTAATCATTCAGTGACATAACTGC
65 TCTAAGGCAAATCATAAATAAGCAACTATGGGTCAACTAATCATTCATTGACATAACTGC
*
1003763 AATATACAT
1 AACATACAT
1003772 GTACAATCAT
Statistics
Matches: 204, Mismatches: 43, Indels: 16
0.78 0.16 0.06
Matches are distributed among these distances:
121 5 0.02
122 1 0.00
123 90 0.44
124 107 0.52
125 1 0.00
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.31
Consensus pattern (124 bp):
AACATACATAATACAGATTAGTATTTACAGCATTTAGATGCAAGAAAACTCATATTCTATCAATT
CTAAGGCAAATCATAAATAAGCAACTATGGGTCAACTAATCATTCATTGACATAACTGC
Found at i:1003913 original size:150 final size:153
Alignment explanation
Indices: 1003640--1004087 Score: 492
Period size: 150 Copynumber: 2.9 Consensus size: 153
1003630 CATAACAGCA
* * * * * * *
1003640 ACATACATACATACAGATTGTATTTGCAGCATTTAGATGCAATAAAACTCAAATTCTATTAATTC
1 ACATACATACATATAAATAGTATTTACAGCATTTAGATGCAAGAAAACTCATATTCTATCAATTC
* * * * *
1003705 TGAGGCAAATAATAAATAAGCATCTATGGGTCAATTAATCATTCAGTGACATAACTGCAATATAC
66 TAAGGCAAATAATAAA-AACCAACTATGGGTCAACTAATCATTCATTGACATAACTGCAATATAC
*
1003770 ATGTACA-AT-CATA-T-ATATAT
130 ATATACACATACATACTAATATAT
* *
1003790 ACATACATACATATAAATAGTATTTACAGCATTTAGATACAAGAAAACTCGTATTCTATCAATTC
1 ACATACATACATATAAATAGTATTTACAGCATTTAGATGCAAGAAAACTCATATTCTATCAATTC
* * *
1003855 TAAGGCAAATTATAGAAAACCAACTATGGGTCAACTAACCATTCATTGACATAGCTGCAATATAC
66 TAAGGCAAATAATA-AAAACCAACTATGGGTCAACTAATCATTCATTGACATAACTGCAATATAC
*
1003920 ATATACATGCATACATATCTACATATCT
130 ATATACA--CATACATA-CTA-ATATAT
* * * * *
1003948 ACATATC-TACATCCATACATATAGTATTTACAGCATTTATATGCGAGAGAACTCATATTTTGTC
1 ACATA-CATACAT--ATA-A-ATAGTATTTACAGCATTTAGATGCAAGAAAACTCATATTCTATC
* * * * *
1004012 AGTTCTAAGGCAAATCATAAAAAACCAACTATGGGTCAACTAGTCATTCATTAACATAATTGCAA
61 AATTCTAAGGCAAATAAT-AAAAACCAACTATGGGTCAACTAATCATTCATTGACATAACTGCAA
1004077 TATACATATAC
125 TATACATATAC
1004088 TATACATGCA
Statistics
Matches: 250, Mismatches: 33, Indels: 18
0.83 0.11 0.06
Matches are distributed among these distances:
150 116 0.46
151 2 0.01
153 2 0.01
154 4 0.02
156 1 0.00
158 15 0.06
159 1 0.00
160 3 0.01
161 1 0.00
162 104 0.42
163 1 0.00
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.31
Consensus pattern (153 bp):
ACATACATACATATAAATAGTATTTACAGCATTTAGATGCAAGAAAACTCATATTCTATCAATTC
TAAGGCAAATAATAAAAACCAACTATGGGTCAACTAATCATTCATTGACATAACTGCAATATACA
TATACACATACATACTAATATAT
Found at i:1003942 original size:8 final size:8
Alignment explanation
Indices: 1003931--1003959 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
1003921 TATACATGCA
1003931 TACATATC
1 TACATATC
1003939 TACATATC
1 TACATATC
1003947 TACATATC
1 TACATATC
1003955 TACAT
1 TACAT
1003960 CCATACATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.38, C:0.24, G:0.00, T:0.38
Consensus pattern (8 bp):
TACATATC
Found at i:1003966 original size:16 final size:16
Alignment explanation
Indices: 1003923--1003969 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
1003913 AATATACATA
*
1003923 TACATGCATACATATC
1 TACATCCATACATATC
*
1003939 TACATATC-TACATATC
1 TACAT-CCATACATATC
1003955 TACATCCATACATAT
1 TACATCCATACATAT
1003970 AGTATTTACA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 1 0.04
16 25 0.93
17 1 0.04
ACGTcount: A:0.38, C:0.26, G:0.02, T:0.34
Consensus pattern (16 bp):
TACATCCATACATATC
Found at i:1003983 original size:162 final size:151
Alignment explanation
Indices: 1003640--1004087 Score: 488
Period size: 162 Copynumber: 2.9 Consensus size: 151
1003630 CATAACAGCA
* * * * *
1003640 ACATACATACATACAGATTGTATTTGCAGCATTTAGATGCAATAAAACTCAAATTCTATTAATTC
1 ACATACAT-CATACA-ATAGTATTTACAGCATTTAGATGCAAGAAAACTCATATTCTATCAATTC
* * * * *
1003705 TGAGGCAAATAATAAATAAGCATCTATGGGTCAATTAATCATTCAGTGACATAACTGCAATATAC
64 TAAGGCAAATAATAAA-AACCAACTATGGGTCAACTAATCATTCATTGACATAACTGCAATATAC
*
1003770 ATGTACAATCATATATATATACAT
128 ATATACAATCATATATATATACAT
* *
1003794 ACATACAT-ATA-AATAGTATTTACAGCATTTAGATACAAGAAAACTCGTATTCTATCAATTCTA
1 ACATACATCATACAATAGTATTTACAGCATTTAGATGCAAGAAAACTCATATTCTATCAATTCTA
* * *
1003857 AGGCAAATTATAGAAAACCAACTATGGGTCAACTAACCATTCATTGACATAGCTGCAATATACAT
66 AGGCAAATAATA-AAAACCAACTATGGGTCAACTAATCATTCATTGACATAACTGCAATATACAT
*
1003922 ATACATGCATACATATCTACATATCTACAT
130 ATACA---AT-CATA--T--ATATATACAT
* * * * * *
1003952 ATC-TACATCCATACATATAGTATTTACAGCATTTATATGCGAGAGAACTCATATTTTGTCAGTT
1 A-CATACAT-CATACA-ATAGTATTTACAGCATTTAGATGCAAGAAAACTCATATTCTATCAATT
* * * *
1004016 CTAAGGCAAATCATAAAAAACCAACTATGGGTCAACTAGTCATTCATTAACATAATTGCAATATA
63 CTAAGGCAAATAAT-AAAAACCAACTATGGGTCAACTAATCATTCATTGACATAACTGCAATATA
1004081 CATATAC
127 CATATAC
1004088 TATACATGCA
Statistics
Matches: 248, Mismatches: 31, Indels: 22
0.82 0.10 0.07
Matches are distributed among these distances:
150 102 0.41
151 3 0.01
152 3 0.01
153 2 0.01
154 12 0.05
156 1 0.00
158 15 0.06
159 1 0.00
160 3 0.01
161 1 0.00
162 104 0.42
163 1 0.00
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.31
Consensus pattern (151 bp):
ACATACATCATACAATAGTATTTACAGCATTTAGATGCAAGAAAACTCATATTCTATCAATTCTA
AGGCAAATAATAAAAACCAACTATGGGTCAACTAATCATTCATTGACATAACTGCAATATACATA
TACAATCATATATATATACAT
Found at i:1004226 original size:119 final size:118
Alignment explanation
Indices: 1004080--1004329 Score: 301
Period size: 119 Copynumber: 2.1 Consensus size: 118
1004070 ATTGCAATAT
* * * * *
1004080 ACAT-ATACTATACATGCATATATAGTATTTACAGCATTTAGATGCAAGAAATCTCATATTCTAT
1 ACATAATAC-ATACATACATATACAGTATTCAAAGCATTTAGATGCAAGAAAACTCATATTCTAT
**
1004144 CAATTCTAAGGC--A-TATATAAAGAAACCAACTATGGGTCAACTAATAATTGATTG
65 CAATTCTAAGGCTAATTAT-TAAA-AAACCAACTAT-GGTCAACTAATAATCAATTG
* * *
1004198 ACATACATACATACATACATATACAGTATTCAAAGTATTTAGATGCAATAAAACTCGTATTCTAT
1 ACATA-ATACATACATACATATACAGTATTCAAAGCATTTAGATGCAAGAAAACTCATATTCTAT
* * *
1004263 CAATTCTAAGGCTAATTATTGAAAAACCAACTATGGTCAAGTAATCATCAATTG
65 CAATTCTAAGGCTAATTATTAAAAAACCAACTATGGTCAACTAATAATCAATTG
1004317 ACATAACTACATA
1 ACATAA-TACATA
1004330 TATAGAGAAT
Statistics
Matches: 113, Mismatches: 13, Indels: 11
0.82 0.09 0.08
Matches are distributed among these distances:
118 5 0.04
119 86 0.76
120 15 0.13
121 4 0.04
122 3 0.03
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.31
Consensus pattern (118 bp):
ACATAATACATACATACATATACAGTATTCAAAGCATTTAGATGCAAGAAAACTCATATTCTATC
AATTCTAAGGCTAATTATTAAAAAACCAACTATGGTCAACTAATAATCAATTG
Found at i:1004541 original size:116 final size:116
Alignment explanation
Indices: 1004337--1004571 Score: 470
Period size: 116 Copynumber: 2.0 Consensus size: 116
1004327 ATATATAGAG
1004337 AATCTACAGCATTTACACCCTGAATTGGTACATTAATTATCATGTTCTTTTAATACATTAAGTGT
1 AATCTACAGCATTTACACCCTGAATTGGTACATTAATTATCATGTTCTTTTAATACATTAAGTGT
1004402 ATTTATTACAAACTATTCCATTTTCATAAAATAAAAATAAAAAACAAAGAA
66 ATTTATTACAAACTATTCCATTTTCATAAAATAAAAATAAAAAACAAAGAA
1004453 AATCTACAGCATTTACACCCTGAATTGGTACATTAATTATCATGTTCTTTTAATACATTAAGTGT
1 AATCTACAGCATTTACACCCTGAATTGGTACATTAATTATCATGTTCTTTTAATACATTAAGTGT
1004518 ATTTATTACAAACTATTCCATTTTCATAAAATAAAAATAAAAAACAAAGAA
66 ATTTATTACAAACTATTCCATTTTCATAAAATAAAAATAAAAAACAAAGAA
1004569 AAT
1 AAT
1004572 TCCAAGAATT
Statistics
Matches: 119, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
116 119 1.00
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.35
Consensus pattern (116 bp):
AATCTACAGCATTTACACCCTGAATTGGTACATTAATTATCATGTTCTTTTAATACATTAAGTGT
ATTTATTACAAACTATTCCATTTTCATAAAATAAAAATAAAAAACAAAGAA
Found at i:1005536 original size:18 final size:20
Alignment explanation
Indices: 1005500--1005536 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1005490 TAAAAATTTA
*
1005500 TATATTATATACATTTATTG
1 TATATTATATACATATATTG
1005520 TATATTATA-A-ATATATT
1 TATATTATATACATATATT
1005537 TTAAAATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 6 0.38
19 1 0.06
20 9 0.56
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (20 bp):
TATATTATATACATATATTG
Found at i:1009179 original size:9 final size:9
Alignment explanation
Indices: 1009165--1009189 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
1009155 AAAATATAAA
1009165 TTTTTAATT
1 TTTTTAATT
1009174 TTTTTAATT
1 TTTTTAATT
1009183 TTTTTAA
1 TTTTTAA
1009190 ATGTATTTAC
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:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTTTAATT
Found at i:1010180 original size:68 final size:67
Alignment explanation
Indices: 1010075--1010312 Score: 176
Period size: 68 Copynumber: 3.4 Consensus size: 67
1010065 TTCTTCTATC
* *
1010075 AATCT-ACCAATTAGTTTATACGAGCTAAATGGTAGTTTAGATACGATATGAAACATATTTTAAA
1 AATCTAACC-ATTAATTTATACGAGTTAAAT-GTAGTTTAGATA-GATATGAAACATATTTTAAA
*
1010139 ATAT-
63 ACATA
* * * * ** * *
1010143 GATTTAACCATTAATTTATACGAGTTAAATATCAGTTTAAAATAGATAAAAAAAACATATCTAAA
1 AATCTAACCATTAATTTATACGAGTTAAATGT-AGTTT-AGATAGAT--ATGAAACATATTTTAA
1010208 ACACATA
62 A-ACATA
* * * * *
1010215 AATCTAACTATTAATTTAGACGAGTTAAATGTAAGATTAGATATGAAATGAAGCATATTTTAAAA
1 AATCTAACCATTAATTTATACGAGTTAAATGT-AGTTTAGATA-GATATGAAACATATTTTAAAA
*
1010280 CA-C
64 CATA
* * * *
1010283 AGTCTAACCATTAGTTTGTACGAGCTAAAT
1 AATCTAACCATTAATTTATACGAGTTAAAT
1010313 ACCAATTCTT
Statistics
Matches: 130, Mismatches: 32, Indels: 16
0.73 0.18 0.09
Matches are distributed among these distances:
67 1 0.01
68 54 0.42
69 10 0.08
70 25 0.19
71 7 0.05
72 33 0.25
ACGTcount: A:0.45, C:0.11, G:0.12, T:0.33
Consensus pattern (67 bp):
AATCTAACCATTAATTTATACGAGTTAAATGTAGTTTAGATAGATATGAAACATATTTTAAAACA
TA
Found at i:1013078 original size:22 final size:20
Alignment explanation
Indices: 1013038--1013078 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
1013028 CAGTTGAACC
*
1013038 GAAATTTTAAATTTTTTTAT
1 GAAATTTTAAATTTATTTAT
1013058 GAAATTTTAATAATTTATTTA
1 GAAATTTT-A-AATTTATTTA
1013079 ATCGAGCCAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 8 0.44
21 1 0.06
22 9 0.50
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (20 bp):
GAAATTTTAAATTTATTTAT
Found at i:1018830 original size:49 final size:49
Alignment explanation
Indices: 1018775--1018874 Score: 191
Period size: 49 Copynumber: 2.0 Consensus size: 49
1018765 TCATTAAATT
1018775 TTTAGGTTATGTTTCTATTAAGGTTAAAATACCCAATAAGTCTTTATAC
1 TTTAGGTTATGTTTCTATTAAGGTTAAAATACCCAATAAGTCTTTATAC
*
1018824 TTTAGGTTATGTTTCTATTAAGGTTAAAATACCCTATAAGTCTTTATAC
1 TTTAGGTTATGTTTCTATTAAGGTTAAAATACCCAATAAGTCTTTATAC
1018873 TT
1 TT
1018875 CATAAATTTG
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.45
Consensus pattern (49 bp):
TTTAGGTTATGTTTCTATTAAGGTTAAAATACCCAATAAGTCTTTATAC
Found at i:1021221 original size:14 final size:14
Alignment explanation
Indices: 1021202--1021231 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
1021192 ATAATTCATG
1021202 TATATGTGTATATA
1 TATATGTGTATATA
1021216 TATATGTGTATATA
1 TATATGTGTATATA
1021230 TA
1 TA
1021232 GAGAATGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (14 bp):
TATATGTGTATATA
Found at i:1025509 original size:21 final size:21
Alignment explanation
Indices: 1025485--1025526 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
1025475 AAATCACTTA
1025485 AACAAGTCTTTGCATAGCAAT
1 AACAAGTCTTTGCATAGCAAT
1025506 AACAAGTCTTTGCATAGCAAT
1 AACAAGTCTTTGCATAGCAAT
1025527 GTGAAAACTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.29
Consensus pattern (21 bp):
AACAAGTCTTTGCATAGCAAT
Found at i:1027580 original size:41 final size:41
Alignment explanation
Indices: 1027523--1027606 Score: 159
Period size: 41 Copynumber: 2.0 Consensus size: 41
1027513 GGATATTCTA
1027523 TAGGGAAAGTTTATTATAAAAATTAGGCATAATGATAAATT
1 TAGGGAAAGTTTATTATAAAAATTAGGCATAATGATAAATT
*
1027564 TAGGGAAAGTTTATTATAAAAATTAGGTATAATGATAAATT
1 TAGGGAAAGTTTATTATAAAAATTAGGCATAATGATAAATT
1027605 TA
1 TA
1027607 ATTCTTAATA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.46, C:0.01, G:0.17, T:0.36
Consensus pattern (41 bp):
TAGGGAAAGTTTATTATAAAAATTAGGCATAATGATAAATT
Found at i:1034767 original size:84 final size:84
Alignment explanation
Indices: 1034607--1034795 Score: 207
Period size: 84 Copynumber: 2.2 Consensus size: 84
1034597 AATTAGCTGT
* * * * * * * *
1034607 CTTTAAGATGTTTGATAAAATGTTTGTGTTGGGCCAAATCGAGTTGTAGAAGAAATATTAGTGAC
1 CTTTAAGATGTTTGATAATATGTTTATGTTAGACCAAATCAAGTTGTAGAAGAAAAATTAATGAA
*
1034672 CCAAAGTCAAATAAGTTGC
66 CCAAAGACAAATAAGTTGC
* * * *
1034691 CTTTGAGATGTTTGATAATATGTTTATGTTAGACTAATTCAAGTTTTAGAAGAAAAATTAATGAA
1 CTTTAAGATGTTTGATAATATGTTTATGTTAGACCAAATCAAGTTGTAGAAGAAAAATTAATGAA
* * * *
1034756 GCAATGACAAATTAGTTGT
66 CCAAAGACAAATAAGTTGC
* *
1034775 CTTTCAGATGTTTGAGAATAT
1 CTTTAAGATGTTTGATAATAT
1034796 ATTTGTGAAG
Statistics
Matches: 86, Mismatches: 19, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
84 86 1.00
ACGTcount: A:0.35, C:0.08, G:0.20, T:0.36
Consensus pattern (84 bp):
CTTTAAGATGTTTGATAATATGTTTATGTTAGACCAAATCAAGTTGTAGAAGAAAAATTAATGAA
CCAAAGACAAATAAGTTGC
Found at i:1063667 original size:15 final size:16
Alignment explanation
Indices: 1063635--1063667 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
1063625 AGTGGGAGAA
1063635 TATTATGGGATTTATTT
1 TATTATGGGA-TTATTT
1063652 TATTATGGGA-TATTT
1 TATTATGGGATTATTT
1063667 T
1 T
1063668 TCCTTAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
17 10 0.62
ACGTcount: A:0.24, C:0.00, G:0.18, T:0.58
Consensus pattern (16 bp):
TATTATGGGATTATTT
Found at i:1067930 original size:52 final size:51
Alignment explanation
Indices: 1067859--1068148 Score: 384
Period size: 52 Copynumber: 5.8 Consensus size: 51
1067849 ATCAAGTGAT
* *
1067859 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT-G
* * *
1067911 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTG---A-T-
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
1067957 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT-G
* *
1068009 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGATAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* * *
1068060 AAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC-----
1 -AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
*
1068107 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAG
1068149 AAACAAAGTG
Statistics
Matches: 215, Mismatches: 16, Indels: 20
0.86 0.06 0.08
Matches are distributed among these distances:
46 80 0.37
48 1 0.00
49 2 0.01
50 1 0.00
51 1 0.00
52 130 0.60
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.29
Consensus pattern (51 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
Found at i:1067965 original size:98 final size:98
Alignment explanation
Indices: 1067845--1068165 Score: 438
Period size: 98 Copynumber: 3.3 Consensus size: 98
1067835 TTTGAGTACT
* *
1067845 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
1067910 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTGATAGCTTCGGCTACACTTA
1067943 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
1068008 GAAAGTGATAAGTGATAGCTTCGGCTACACTTA
66 GAAAGTGATAAGTGATAGCTTCGGCTACACTTA
* * *
1068041 TCTGATCAAGTGATAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGA
1 TCTGATCAAGTG---A-T--AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGA
**
1068106 C------AAAGTGATAAGTGATAGCTTTAGCTACACTTA
60 CAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTA
** *
1068139 TCTGATCAAGAAACAAAGTGATAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTG
1068166 GCTACACTTA
Statistics
Matches: 205, Mismatches: 12, Indels: 18
0.87 0.05 0.08
Matches are distributed among these distances:
92 13 0.06
95 1 0.00
98 146 0.71
101 1 0.00
102 1 0.00
104 43 0.21
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (98 bp):
TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
GAAAGTGATAAGTGATAGCTTCGGCTACACTTA
Found at i:1068060 original size:7 final size:7
Alignment explanation
Indices: 1068043--1068076 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
1068033 TACACTTATC
1068043 TGATCAAG
1 TGAT-AAG
1068051 TGATAAG
1 TGATAAG
*
1068058 TGAAAAG
1 TGATAAG
1068065 TGATAAG
1 TGATAAG
1068072 TGATA
1 TGATA
1068077 GCTTCGGCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
7 20 0.83
8 4 0.17
ACGTcount: A:0.44, C:0.03, G:0.26, T:0.26
Consensus pattern (7 bp):
TGATAAG
Found at i:1068065 original size:150 final size:150
Alignment explanation
Indices: 1067859--1068148 Score: 499
Period size: 150 Copynumber: 1.9 Consensus size: 150
1067849 ATCAAGTGAT
* * *
1067859 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
* *
1067924 ATAGCTTCGGCTATACTTATCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTA
66 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
1067989 TCTGATCAAGTGACAAGTGG
131 TCTGATCAAGTGACAAGTGG
* * *
1068009 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGATAAGTGAAAAGTGATAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
*
1068074 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTA
66 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
1068139 TCTGATCAAG
131 TCTGATCAAG
1068149 AAACAAAGTG
Statistics
Matches: 131, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
150 131 1.00
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.29
Consensus pattern (150 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
TCTGATCAAGTGACAAGTGG
Found at i:1068149 original size:46 final size:46
Alignment explanation
Indices: 1068061--1068198 Score: 177
Period size: 46 Copynumber: 3.2 Consensus size: 46
1068051 TGATAAGTGA
* * *
1068061 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAAAC
*
1068107 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAAAC
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAAAC
1068153 AAAGTGATAA--G-T-G-----GCTACACTTATCTGATCAAGAAAC
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAAAC
1068190 AAAGTGATA
1 AAAGTGATA
1068199 GGTGGCTACA
Statistics
Matches: 88, Mismatches: 4, Indels: 9
0.87 0.04 0.09
Matches are distributed among these distances:
37 33 0.38
42 1 0.01
43 1 0.01
44 1 0.01
46 52 0.59
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.27
Consensus pattern (46 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAAAC
Found at i:1068173 original size:37 final size:37
Alignment explanation
Indices: 1068129--1068237 Score: 177
Period size: 37 Copynumber: 3.0 Consensus size: 37
1068119 GATAGCTTTA
1068129 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
1068166 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
1068203 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1068238 ATCATACGTA
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
35 11 0.16
36 4 0.06
37 53 0.78
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:1070387 original size:6 final size:6
Alignment explanation
Indices: 1070339--1070389 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
1070329 AAAAATTCCC
* *
1070339 TATTAT TATTATT TATTTT TACTATTT TA-TTT TATTTT CATTTT TATTTT
1 TATTTT TATT-TT TATTTT TA-T-TTT TATTTT TATTTT TATTTT TATTTT
1070389 T
1 T
1070390 GCAGGAAAAC
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
5 5 0.13
6 22 0.58
7 6 0.16
8 5 0.13
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.75
Consensus pattern (6 bp):
TATTTT
Found at i:1071572 original size:15 final size:16
Alignment explanation
Indices: 1071540--1071572 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
1071530 AGTGGGAGAA
1071540 TATTATGGGATTTATTT
1 TATTATGGGA-TTATTT
1071557 TATTATGGGA-TATTT
1 TATTATGGGATTATTT
1071572 T
1 T
1071573 TCCTTAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
17 10 0.62
ACGTcount: A:0.24, C:0.00, G:0.18, T:0.58
Consensus pattern (16 bp):
TATTATGGGATTATTT
Found at i:1076491 original size:17 final size:17
Alignment explanation
Indices: 1076469--1076502 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
1076459 ATCCACTAAT
*
1076469 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
1076486 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
1076503 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:1081130 original size:17 final size:17
Alignment explanation
Indices: 1081108--1081141 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
1081098 ATCCACTAAT
*
1081108 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
1081125 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
1081142 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:1089398 original size:17 final size:17
Alignment explanation
Indices: 1089376--1089409 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
1089366 ATCCACTAAT
*
1089376 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
1089393 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
1089410 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:1094037 original size:17 final size:17
Alignment explanation
Indices: 1094015--1094048 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
1094005 ATCCACTAAT
*
1094015 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
1094032 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
1094049 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:1098289 original size:2 final size:2
Alignment explanation
Indices: 1098282--1098310 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1098272 AAGTAGGATA
1098282 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1098311 ATAGGTCAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:1106092 original size:3 final size:3
Alignment explanation
Indices: 1106084--1106111 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
1106074 TTTCTTGTTT
1106084 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1106112 AAAACAAGAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:1109414 original size:29 final size:29
Alignment explanation
Indices: 1109368--1109427 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
1109358 TGTTCATTTC
1109368 TTAAACCCCCCACAAGGTGGGTTTTGGGG
1 TTAAACCCCCCACAAGGTGGGTTTTGGGG
*
1109397 TTAAACCCCCCACGAGGTGGGTTTTGGGG
1 TTAAACCCCCCACAAGGTGGGTTTTGGGG
1109426 TT
1 TT
1109428 TTAGCCCATT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.18, C:0.23, G:0.32, T:0.27
Consensus pattern (29 bp):
TTAAACCCCCCACAAGGTGGGTTTTGGGG
Found at i:1111760 original size:30 final size:30
Alignment explanation
Indices: 1111721--1111796 Score: 107
Period size: 30 Copynumber: 2.5 Consensus size: 30
1111711 GAAGGAATAG
*
1111721 AATATAATTTTATTATTTTTAAAAGATTTA
1 AATATAATTTTATTATTTTTAAAAGATTAA
* * *
1111751 AATACAATTTTTTTATTTTTAAAAGGTTAA
1 AATATAATTTTATTATTTTTAAAAGATTAA
*
1111781 AATGTAATTTTATTAT
1 AATATAATTTTATTAT
1111797 ACATTAATTT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.41, C:0.01, G:0.05, T:0.53
Consensus pattern (30 bp):
AATATAATTTTATTATTTTTAAAAGATTAA
Found at i:1126096 original size:43 final size:42
Alignment explanation
Indices: 1126049--1126146 Score: 142
Period size: 43 Copynumber: 2.3 Consensus size: 42
1126039 TATGAATGAA
**
1126049 ACTAAGTGTGCGAAACTAAAATGACGATGTTGAATAACAGGGC
1 ACTAAGTGTGCGAAAAAAAAATGACGATGTTGAATAAC-GGGC
*
1126092 ACTAAGTGTGCGAAAAAAAAATGGCGATGTTGAATAACGGGC
1 ACTAAGTGTGCGAAAAAAAAATGACGATGTTGAATAACGGGC
* *
1126134 ATTTAGTGTGCGA
1 ACTAAGTGTGCGA
1126147 TACCAAGATC
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
42 15 0.30
43 35 0.70
ACGTcount: A:0.38, C:0.12, G:0.28, T:0.22
Consensus pattern (42 bp):
ACTAAGTGTGCGAAAAAAAAATGACGATGTTGAATAACGGGC
Found at i:1126619 original size:50 final size:48
Alignment explanation
Indices: 1126546--1126726 Score: 231
Period size: 50 Copynumber: 3.7 Consensus size: 48
1126536 GGCAGTGAGT
1126546 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGATCGAGGA
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-GA-CGAGGA
*
1126596 GTGCTAGTGTAAGACCATGTCTGGGATATGGCATCGGCACGGACAGAGGA
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-GAC-GAGGA
* ** * * *
1126646 GAG-TCAGTGTAAGACCATGTCTGAAACATGACATCGGCTCGA-GATGA
1 GTGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGACGAGGA
*
1126693 GTGCCAGTGTAAGACCATGTCTGGGACATGGCAT
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCAT
1126727 TGACACTGAT
Statistics
Matches: 114, Mismatches: 14, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
47 32 0.28
49 4 0.04
50 78 0.68
ACGTcount: A:0.27, C:0.19, G:0.33, T:0.21
Consensus pattern (48 bp):
GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGACGAGGA
Found at i:1130083 original size:3 final size:3
Alignment explanation
Indices: 1130075--1130127 Score: 88
Period size: 3 Copynumber: 17.7 Consensus size: 3
1130065 AATTAAAAAT
* *
1130075 CCG CCG CCG CCG CCG CTG CCG CCG CCG CCG CCG CTG CCG CCG CCG CCG
1 CCG CCG CCG CCG CCG CCG CCG CCG CCG CCG CCG CCG CCG CCG CCG CCG
1130123 CCG CC
1 CCG CC
1130128 TTCTTATCTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.00, C:0.64, G:0.32, T:0.04
Consensus pattern (3 bp):
CCG
Found at i:1130098 original size:18 final size:18
Alignment explanation
Indices: 1130075--1130126 Score: 104
Period size: 18 Copynumber: 2.9 Consensus size: 18
1130065 AATTAAAAAT
1130075 CCGCCGCCGCCGCCGCTG
1 CCGCCGCCGCCGCCGCTG
1130093 CCGCCGCCGCCGCCGCTG
1 CCGCCGCCGCCGCCGCTG
1130111 CCGCCGCCGCCGCCGC
1 CCGCCGCCGCCGCCGC
1130127 CTTCTTATCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.00, C:0.63, G:0.33, T:0.04
Consensus pattern (18 bp):
CCGCCGCCGCCGCCGCTG
Found at i:1141643 original size:7 final size:7
Alignment explanation
Indices: 1141631--1141660 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
1141621 GAATTCAAAA
1141631 AAAAATT
1 AAAAATT
1141638 AAAAATT
1 AAAAATT
1141645 AAAAATT
1 AAAAATT
1141652 AAAAATT
1 AAAAATT
1141659 AA
1 AA
1141661 TTATAAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
AAAAATT
Done.