Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10
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: 48586650
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2183483 characters in sequence are not A, C, G, or T
File 14 of 145
Found at i:4713865 original size:47 final size:48
Alignment explanation
Indices: 4713751--4713884 Score: 139
Period size: 47 Copynumber: 2.8 Consensus size: 48
4713741 AACAAGAGGA
* *
4713751 GAACATTCTTAATCAGTTGGCAACTAATTTATGAACATGAGGATAAGG
1 GAACATTATTAATCAGTTGGCAACTAATTTATGAACATGAAGATAAGG
* * * * *
4713799 GAACATCACTAATCGGTTGGCAACTAATTT-TGAGCTTGAA-AGT-AGG
1 GAACATTATTAATCAGTTGGCAACTAATTTATGAACATGAAGA-TAAGG
* * *
4713845 GAAACATTGTTAATCAGTTGGAAACTAATTTAGGAACATG
1 G-AACATTATTAATCAGTTGGCAACTAATTTATGAACATG
4713885 TGACATATCT
Statistics
Matches: 68, Mismatches: 15, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
46 5 0.07
47 32 0.47
48 31 0.46
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.29
Consensus pattern (48 bp):
GAACATTATTAATCAGTTGGCAACTAATTTATGAACATGAAGATAAGG
Found at i:4733410 original size:31 final size:29
Alignment explanation
Indices: 4733342--4733418 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
4733332 CTTTTCAAGT
* *
4733342 GTGCTCAAATAAGGGTTAAATCTTTCAAA
1 GTGCTCAAATAAGAGTAAAATCTTTCAAA
* * *
4733371 ATGGTCAAATAAGAGTAAAACTTCTTTGAAA
1 GTGCTCAAATAAGAGTAAAA--TCTTTCAAA
4733402 GTGCTCAAATAAAGAGT
1 GTGCTCAAAT-AAGAGT
4733419 TTTCACATAC
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
29 16 0.42
31 16 0.42
32 6 0.16
ACGTcount: A:0.42, C:0.12, G:0.18, T:0.29
Consensus pattern (29 bp):
GTGCTCAAATAAGAGTAAAATCTTTCAAA
Found at i:4735487 original size:2 final size:2
Alignment explanation
Indices: 4735480--4735509 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4735470 GCTTTATCTT
4735480 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
4735510 CCTTATTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:4735550 original size:5 final size:5
Alignment explanation
Indices: 4735512--4735543 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
4735502 TCTCTCTCCC
4735512 TTATT TTATT TTATT TTATT TTATT TTATT TT
1 TTATT TTATT TTATT TTATT TTATT TTATT TT
4735544 TTATTTTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:4736890 original size:32 final size:33
Alignment explanation
Indices: 4736854--4736919 Score: 107
Period size: 32 Copynumber: 2.0 Consensus size: 33
4736844 CCTTCACTCC
*
4736854 TTAGCCTTTTCTTTTCC-CTTTCTTCAATTAGG
1 TTAGCCTTCTCTTTTCCTCTTTCTTCAATTAGG
*
4736886 TTAGCCTTCTCTTTTCCTTTTTCTTCAATTAGG
1 TTAGCCTTCTCTTTTCCTCTTTCTTCAATTAGG
4736919 T
1 T
4736920 CCTCTCCTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 16 0.52
33 15 0.48
ACGTcount: A:0.12, C:0.24, G:0.09, T:0.55
Consensus pattern (33 bp):
TTAGCCTTCTCTTTTCCTCTTTCTTCAATTAGG
Found at i:4736933 original size:28 final size:32
Alignment explanation
Indices: 4736872--4736934 Score: 80
Period size: 33 Copynumber: 2.1 Consensus size: 32
4736862 TTCTTTTCCC
*
4736872 TTTCTTCAATTAGGTTAGCCTTCTCTTTTCCTT
1 TTTCTTCAATTAGGTTA-CCTTCTCCTTTCCTT
4736905 TTTCTTCAATTAGG-T-CC-TCTCCTTT-CTT
1 TTTCTTCAATTAGGTTACCTTCTCCTTTCCTT
4736933 TT
1 TT
4736935 ATTTCTCTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
28 5 0.17
29 7 0.24
30 2 0.07
32 1 0.03
33 14 0.48
ACGTcount: A:0.11, C:0.25, G:0.08, T:0.56
Consensus pattern (32 bp):
TTTCTTCAATTAGGTTACCTTCTCCTTTCCTT
Found at i:4739262 original size:22 final size:22
Alignment explanation
Indices: 4739201--4739264 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 22
4739191 TGCTGATCAA
* **
4739201 AGAGCATCAAAGTGCTAAGTAG
1 AGAGCACCAAAGTGCTAAACAG
*
4739223 AGAGCACCAAAGTACTAAACAG
1 AGAGCACCAAAGTGCTAAACAG
* *
4739245 AGAGCACCGAGGTGCTAAAC
1 AGAGCACCAAAGTGCTAAAC
4739265 CCGTACAAGT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.42, C:0.20, G:0.25, T:0.12
Consensus pattern (22 bp):
AGAGCACCAAAGTGCTAAACAG
Found at i:4739843 original size:19 final size:19
Alignment explanation
Indices: 4739782--4739846 Score: 60
Period size: 19 Copynumber: 3.2 Consensus size: 19
4739772 ATTAAATAAA
* *
4739782 TATTAGTTTATTAATATTT
1 TATTATTTTATTAGTATTT
4739801 TAATTTAATTTTAATT-GATATTT
1 T-A-TT-ATTTT-ATTAG-TATTT
4739824 TATTATTTTATTAGTATTT
1 TATTATTTTATTAGTATTT
4739843 TATT
1 TATT
4739847 TAGTATATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
19 13 0.34
20 7 0.18
21 4 0.11
22 5 0.13
23 9 0.24
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.65
Consensus pattern (19 bp):
TATTATTTTATTAGTATTT
Found at i:4740664 original size:25 final size:25
Alignment explanation
Indices: 4740636--4740687 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
4740626 CAAATTGGTA
4740636 AGACATTTTCCATTCT-TCTCTAAGC
1 AGACATTTTCCATTCTCT-TCTAAGC
4740661 AGACATTTTCCATTCTCTTCTAAGC
1 AGACATTTTCCATTCTCTTCTAAGC
4740686 AG
1 AG
4740688 CAGACATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 25 0.96
26 1 0.04
ACGTcount: A:0.25, C:0.27, G:0.10, T:0.38
Consensus pattern (25 bp):
AGACATTTTCCATTCTCTTCTAAGC
Found at i:4750819 original size:275 final size:269
Alignment explanation
Indices: 4750186--4750961 Score: 837
Period size: 275 Copynumber: 2.8 Consensus size: 269
4750176 TTCATGTGAG
* * *
4750186 CCATCAACTCATTC-TCACACTAGTAGTAAACATTATTTTCAGCTATCATTTTCGAAAC-GCTCG
1 CCATCAACTCATTCACCATAC-AGTAGTTAACATTATTTTCAGCTATCATTTTCGAAACAGCTC-
* * * * ** *
4750249 GA-TCCCAAACCAAACCACTTCTTGCTGACATCGTATCCTTTATTCCCCATCC-CAATAACTAAA
64 CACCCCCAAACCAAACCACTTCTAGCTGATATTATATCC-TTATTTCCCATCCTCAATAACT-AA
* * * *
4750312 AC-TAAATCTTACTTTTCCACAAACAATTACTTTTGATTGCCAAAAGGAAGTCCTAAAATAAACC
127 ACTTAAATCTTCCTTTTCCACAAACAATCACTTTTGATTGCCAAAA-TAAGTCTTAAAATAAA-C
* * * * *
4750376 CCATTCGAATACCCCAATAATACAATTATCAGTCATTACCACTCTTTCAACAAGTCACATCTTCC
190 CCATTCAAACACCCCAATAATACAATTATCAGTCATTACCACTCTTCCAACAAGTCACATCTACA
4750441 ATGTGTTCTATGTAA
255 ATGTGTTCTATGTAA
* * * * *
4750456 -GATCAATTCATTCACCATACCAGTAGTTAACATTATTGTCGGCTATCATTTTCGAAACAACTCC
1 CCATCAACTCATTCACCATA-CAGTAGTTAACATTATTTTCAGCTATCATTTTCGAAACAGCTCC
* *
4750520 ACCCCCAAACCAAACCATTTCTAGCTGATATTATATCCTTACTTTCCCATCCTCAATAACTGAAC
65 ACCCCCAAACCAAACCACTTCTAGCTGATATTATATCCTTA-TTTCCCATCCTCAATAACTAAAC
* * * *
4750585 TTAAATCTTCCTTTTCCACAGACAATGACTTTTGGTTGCCAAATTATAGTCTTAAAATAAACCCA
129 TTAAATCTTCCTTTTCCACAAACAATCACTTTTGATTGCCAAAATA-AGTCTTAAAATAAACCCA
* * * *
4750650 TTCAAACGCCCCAATAATAGAATTATCACAGTCATTATCACTCTTCCAACAAG-CTGCATCTACA
193 TTCAAACACCCCAATAATACAATTAT--CAGTCATTACCACTCTTCCAACAAGTC-ACATCTACA
*
4750714 ATGTGTTCTTTGTAA
255 ATGTGTTCTATGTAA
* * *
4750729 TCCATCAACTCATTCACCATATCAGTAGTTAACTTTCTTTTCAGCTATCATTTTTGAAACAGCTC
1 -CCATCAACTCATTCACCATA-CAGTAGTTAACATTATTTTCAGCTATCATTTTCGAAACAGCTC
* *
4750794 CACCCCCAAACCTAACCACTTCTAGCTGATATTATATGATTATATCCTTATTTTTCCATCCTCAA
64 CACCCCCAAACCAAACCACTTCTAGCTG-------AT-ATTATATCCTTA-TTTCCCATCCTCAA
* * * * *
4750859 TAACTAAAATTAGATCTTCCCTTTCCACAAACAACCACTTTTGATTGCCAAAATACAGTTCTAAA
120 TAACTAAACTTAAATCTTCCTTTTCCACAAACAATCACTTTTGATTGCCAAAATA-AG-TCTTAA
* * * *
4750924 AATAAACCCATTCAAAAACCCTAATGATACAATCATCA
183 AATAAACCCATTCAAACACCCCAATAATACAATTATCA
4750962 CAATCATTAG
Statistics
Matches: 420, Mismatches: 64, Indels: 32
0.81 0.12 0.06
Matches are distributed among these distances:
269 11 0.03
270 41 0.10
271 73 0.17
272 60 0.14
273 43 0.10
275 80 0.19
282 4 0.01
283 73 0.17
284 35 0.08
ACGTcount: A:0.34, C:0.27, G:0.07, T:0.32
Consensus pattern (269 bp):
CCATCAACTCATTCACCATACAGTAGTTAACATTATTTTCAGCTATCATTTTCGAAACAGCTCCA
CCCCCAAACCAAACCACTTCTAGCTGATATTATATCCTTATTTCCCATCCTCAATAACTAAACTT
AAATCTTCCTTTTCCACAAACAATCACTTTTGATTGCCAAAATAAGTCTTAAAATAAACCCATTC
AAACACCCCAATAATACAATTATCAGTCATTACCACTCTTCCAACAAGTCACATCTACAATGTGT
TCTATGTAA
Found at i:4752619 original size:32 final size:29
Alignment explanation
Indices: 4752583--4752647 Score: 76
Period size: 29 Copynumber: 2.1 Consensus size: 29
4752573 TTAATAAATG
*
4752583 AATATACATAATTATTAAATATTAAATTAAAA
1 AATATAAAT-ATTATTAAA-A-TAAATTAAAA
* *
4752615 AATATAAATATTTTTAAAATAAATTTAAA
1 AATATAAATATTATTAAAATAAATTAAAA
4752644 AATA
1 AATA
4752648 ATATGAGTGG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 13 0.43
30 1 0.03
31 8 0.27
32 8 0.27
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (29 bp):
AATATAAATATTATTAAAATAAATTAAAA
Found at i:4752651 original size:32 final size:34
Alignment explanation
Indices: 4752565--4752651 Score: 85
Period size: 32 Copynumber: 2.6 Consensus size: 34
4752555 TTATTTATTT
* *
4752565 ATATAATTTTAATAAATGAATATACATAATTATTAA
1 ATATAAATTTAA-AAAT-AATATAAATAATTATTAA
*
4752601 ATATTAAA-TT-AAAA-AATATAAAT-ATTTTTAA
1 ATA-TAAATTTAAAAATAATATAAATAATTATTAA
4752632 A-ATAAATTTAAAAATAATAT
1 ATATAAATTTAAAAATAATAT
4752652 GAGTGGACTT
Statistics
Matches: 44, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
29 4 0.09
30 3 0.07
31 12 0.27
32 13 0.30
34 3 0.07
35 1 0.02
36 5 0.11
37 3 0.07
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (34 bp):
ATATAAATTTAAAAATAATATAAATAATTATTAA
Found at i:4763196 original size:10 final size:10
Alignment explanation
Indices: 4763181--4763232 Score: 52
Period size: 10 Copynumber: 5.0 Consensus size: 10
4763171 CATTAATTTG
4763181 TATTTTAAAT
1 TATTTTAAAT
*
4763191 TATTTTTTATAT
1 TA--TTTTAAAT
4763203 GTATTTTAAAT
1 -TATTTTAAAT
*
4763214 TATTTT-TAT
1 TATTTTAAAT
4763223 TATTTTAAAT
1 TATTTTAAAT
4763233 ATAAAATATT
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
9 8 0.24
10 10 0.29
11 7 0.21
12 7 0.21
13 2 0.06
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (10 bp):
TATTTTAAAT
Found at i:4763259 original size:21 final size:21
Alignment explanation
Indices: 4763225--4763266 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
4763215 ATTTTTATTA
* *
4763225 TTTTAAATATAAAATATTTAT
1 TTTTAAATAAAAAATAGTTAT
*
4763246 TTTTACATAAAAAATAGTTAT
1 TTTTAAATAAAAAATAGTTAT
4763267 AAAAACTATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (21 bp):
TTTTAAATAAAAAATAGTTAT
Found at i:4772346 original size:26 final size:26
Alignment explanation
Indices: 4772310--4772361 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
4772300 ATAGATTATG
4772310 GTGCATTGTAATGAGCTAGCGGCACT
1 GTGCATTGTAATGAGCTAGCGGCACT
4772336 GTGCATTGTAATGAGCTAGCGGCACT
1 GTGCATTGTAATGAGCTAGCGGCACT
4772362 CTCTTAAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (26 bp):
GTGCATTGTAATGAGCTAGCGGCACT
Found at i:4777720 original size:16 final size:17
Alignment explanation
Indices: 4777699--4777731 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
4777689 GACTCGAGTA
4777699 ATTTTAAATTT-AAATT
1 ATTTTAAATTTGAAATT
*
4777715 ATTTTAAGTTTGAAATT
1 ATTTTAAATTTGAAATT
4777732 TAAGTTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (17 bp):
ATTTTAAATTTGAAATT
Found at i:4790975 original size:27 final size:27
Alignment explanation
Indices: 4790923--4790975 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 27
4790913 ATTTAGGTCT
* * *
4790923 ATTTATGATTTTAGTCCCTCTATTAAA
1 ATTTAAGATTTTAATCCCTCCATTAAA
4790950 ATTTAAGA-TTTAATCCCTCCACTTAA
1 ATTTAAGATTTTAATCCCTCCA-TTAA
4790976 TTTGATCATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 11 0.50
27 11 0.50
ACGTcount: A:0.32, C:0.19, G:0.06, T:0.43
Consensus pattern (27 bp):
ATTTAAGATTTTAATCCCTCCATTAAA
Found at i:4796575 original size:12 final size:12
Alignment explanation
Indices: 4796558--4796587 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
4796548 TATTTTATAT
4796558 AAATTCTTTAAA
1 AAATTCTTTAAA
4796570 AAATTCTTTAAA
1 AAATTCTTTAAA
4796582 AAATTC
1 AAATTC
4796588 ATGTCATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (12 bp):
AAATTCTTTAAA
Found at i:4799555 original size:46 final size:46
Alignment explanation
Indices: 4799489--4799664 Score: 275
Period size: 46 Copynumber: 3.9 Consensus size: 46
4799479 NNNNNNNNNT
* * * *
4799489 TTAGCTACATTTATCTGATCAAGTGACAAAGTGATAAGTGTTAACT
1 TTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCC
4799535 TTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCC
1 TTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCC
*
4799581 TTAGCTACACTTATCTAATCAAGTGACAAAGTGATAAGTGGTAGCC
1 TTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCC
* *
4799627 TTAGCTACACTTATTTGATC-AGGGAC-AAGTGATAAGTG
1 TTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTG
4799665 ATCATACGTA
Statistics
Matches: 122, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
44 12 0.10
45 5 0.04
46 105 0.86
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (46 bp):
TTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCC
Found at i:4800283 original size:14 final size:15
Alignment explanation
Indices: 4800264--4800300 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
4800254 GGGGTGTTAC
4800264 AAAATTTAACA-GAT
1 AAAATTTAACAGGAT
4800278 AAAATTTAACAGTGAT
1 AAAATTTAACAG-GAT
4800294 AAAATTT
1 AAAATTT
4800301 GACTTTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 11 0.52
16 10 0.48
ACGTcount: A:0.54, C:0.05, G:0.08, T:0.32
Consensus pattern (15 bp):
AAAATTTAACAGGAT
Found at i:4801342 original size:17 final size:17
Alignment explanation
Indices: 4801320--4801353 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
4801310 CGTAAACCAA
*
4801320 ACCATGTCAGATTAAAG
1 ACCATGTCAAATTAAAG
4801337 ACCATGTCAAATTAAAG
1 ACCATGTCAAATTAAAG
4801354 TATAGATATT
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:0.18, G:0.15, T:0.24
Consensus pattern (17 bp):
ACCATGTCAAATTAAAG
Found at i:4802923 original size:158 final size:159
Alignment explanation
Indices: 4802625--4802940 Score: 625
Period size: 158 Copynumber: 2.0 Consensus size: 159
4802615 TTAGATACTG
4802625 TAGCGATAATGTAGCGTGAGACAAAAAGTAAGCTAAACGCAAAATATTAAAAAAAAGAGAAACTT
1 TAGCGATAATGTAGCGTGAGACAAAAAGTAAGCTAAACGCAAAATATTAAAAAAAAGAGAAACTT
4802690 ATACAACAAATAAAGGGGGAAAAAAACAAAATCTTAAAAACTTAAACTTCATTTCAGCCCAGTTT
66 ATACAACAAATAAAGGGGGAAAAAAACAAAATCTTAAAAACTTAAACTTCATTTCAGCCCAGTTT
4802755 GTTTAATATATGTGATTATTATATATATT
131 GTTTAATATATGTGATTATTATATATATT
4802784 TAGCGATAA-GTAGCGTGAGACAAAAAGTAAGCTAAACGCAAAATATTAAAAAAAAGAGAAACTT
1 TAGCGATAATGTAGCGTGAGACAAAAAGTAAGCTAAACGCAAAATATTAAAAAAAAGAGAAACTT
4802848 ATACAACAAATAAAGGGGGAAAAAAACAAAATCTTAAAAACTTAAACTTCATTTCAGCCCAGTTT
66 ATACAACAAATAAAGGGGGAAAAAAACAAAATCTTAAAAACTTAAACTTCATTTCAGCCCAGTTT
4802913 GTTTAATATATGTGATTATTATATATAT
131 GTTTAATATATGTGATTATTATATATAT
4802941 ACACTAAATA
Statistics
Matches: 157, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
158 148 0.94
159 9 0.06
ACGTcount: A:0.48, C:0.11, G:0.14, T:0.27
Consensus pattern (159 bp):
TAGCGATAATGTAGCGTGAGACAAAAAGTAAGCTAAACGCAAAATATTAAAAAAAAGAGAAACTT
ATACAACAAATAAAGGGGGAAAAAAACAAAATCTTAAAAACTTAAACTTCATTTCAGCCCAGTTT
GTTTAATATATGTGATTATTATATATATT
Found at i:4807816 original size:28 final size:28
Alignment explanation
Indices: 4807774--4807835 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
4807764 GAAGTCGTTA
4807774 TATTTTTCATATTTAAAAATTAATTTTTT
1 TATTTTTCATATTTAAAAATTAA-TTTTT
* * *
4807803 TATTTTT-ATTTTTAAGAATTTATTTTT
1 TATTTTTCATATTTAAAAATTAATTTTT
4807830 TATTTT
1 TATTTT
4807836 AAAATTTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
27 11 0.37
28 12 0.40
29 7 0.23
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.68
Consensus pattern (28 bp):
TATTTTTCATATTTAAAAATTAATTTTT
Found at i:4807844 original size:20 final size:21
Alignment explanation
Indices: 4807800--4807844 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 21
4807790 AAATTAATTT
4807800 TTTTATTTTTATTTTTAAGAA
1 TTTTATTTTTATTTTTAAGAA
4807821 -TTTATTTTT-TATTTTAA-AA
1 TTTTATTTTTAT-TTTTAAGAA
4807840 TTTTA
1 TTTTA
4807845 AAATGTAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
19 3 0.14
20 19 0.86
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (21 bp):
TTTTATTTTTATTTTTAAGAA
Found at i:4808020 original size:23 final size:21
Alignment explanation
Indices: 4807979--4808026 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
4807969 TTTAAATTTA
4807979 AAAATTTAAAAATAAAATAACT
1 AAAATTTAAAAATAAAATAA-T
* *
4808001 AAAATTTAAAAGTATTAATAAT
1 AAAATTTAAAAATA-AAATAAT
4808023 AAAA
1 AAAA
4808027 GAATTTAGAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (21 bp):
AAAATTTAAAAATAAAATAAT
Found at i:4809196 original size:21 final size:21
Alignment explanation
Indices: 4809156--4809195 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
4809146 AATTAAATTA
*
4809156 TACAAATAGAAACTTTAAAAT
1 TACAAAAAGAAACTTTAAAAT
4809177 TACAAAAAGAAA-TTTAAAA
1 TACAAAAAGAAACTTTAAAA
4809196 AATATATCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.62, C:0.07, G:0.05, T:0.25
Consensus pattern (21 bp):
TACAAAAAGAAACTTTAAAAT
Found at i:4812629 original size:21 final size:20
Alignment explanation
Indices: 4812591--4812632 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
4812581 AATAATGTTC
4812591 AAAAAATATATTACTAATAT
1 AAAAAATATATTACTAATAT
4812611 AAAAAATACTATATA-TAATAT
1 AAAAAATA-TAT-TACTAATAT
4812632 A
1 A
4812633 TATTATTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 8 0.40
21 10 0.50
22 2 0.10
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAAAATATATTACTAATAT
Found at i:4816292 original size:32 final size:32
Alignment explanation
Indices: 4816254--4816315 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
4816244 CCCGTTTTTT
* *
4816254 AAATAAATACCAAAAAATTATTTTAAAAATTA
1 AAATAAAAACCAAAAAAGTATTTTAAAAATTA
**
4816286 AAATAAAAATTAAAAAAGTATTTTAAAAAT
1 AAATAAAAACCAAAAAAGTATTTTAAAAAT
4816316 ATTTTAAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.31
Consensus pattern (32 bp):
AAATAAAAACCAAAAAAGTATTTTAAAAATTA
Found at i:4816318 original size:11 final size:11
Alignment explanation
Indices: 4816295--4816375 Score: 57
Period size: 11 Copynumber: 7.5 Consensus size: 11
4816285 AAAATAAAAA
4816295 TTAAAAAAGTATT
1 TTAAAAAA--ATT
*
4816308 TTAAAAATATT
1 TTAAAAAAATT
4816319 TT---AAAA-T
1 TTAAAAAAATT
4816326 T-AAAAAAA-T
1 TTAAAAAAATT
*
4816335 TAAAAAAAGTATT
1 TTAAAAAA--ATT
4816348 TTAAAAAAATT
1 TTAAAAAAATT
*
4816359 TCAAAAAAATT
1 TTAAAAAAATT
4816370 TTAAAA
1 TTAAAA
4816376 TTAAAAAAAT
Statistics
Matches: 56, Mismatches: 5, Indels: 16
0.73 0.06 0.21
Matches are distributed among these distances:
7 2 0.04
8 3 0.05
9 6 0.11
10 6 0.11
11 23 0.41
12 1 0.02
13 15 0.27
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.35
Consensus pattern (11 bp):
TTAAAAAAATT
Found at i:4816339 original size:8 final size:9
Alignment explanation
Indices: 4816321--4816393 Score: 58
Period size: 9 Copynumber: 7.4 Consensus size: 9
4816311 AAAATATTTT
4816321 AAAATTAAA
1 AAAATTAAA
4816330 AAAATTAAAA
1 AAAATT-AAA
4816340 AAAGTATTTTAAA
1 AAA--A--TTAAA
4816353 AAAATTTCAAA
1 AAAA-TT-AAA
**
4816364 AAAATT-TT
1 AAAATTAAA
4816372 AAAATTAAA
1 AAAATTAAA
4816381 AAAATTAAA
1 AAAATTAAA
4816390 AAAA
1 AAAA
4816394 AGTATTTTAA
Statistics
Matches: 53, Mismatches: 4, Indels: 14
0.75 0.06 0.20
Matches are distributed among these distances:
8 6 0.11
9 19 0.36
10 11 0.21
11 8 0.15
12 1 0.02
13 6 0.11
14 2 0.04
ACGTcount: A:0.70, C:0.01, G:0.01, T:0.27
Consensus pattern (9 bp):
AAAATTAAA
Found at i:4816353 original size:12 final size:11
Alignment explanation
Indices: 4816325--4816375 Score: 59
Period size: 11 Copynumber: 4.5 Consensus size: 11
4816315 TATTTTAAAA
4816325 TTAAAAAAA-T
1 TTAAAAAAATT
*
4816335 TAAAAAAAGTATT
1 TTAAAAAA--ATT
4816348 TTAAAAAAATT
1 TTAAAAAAATT
*
4816359 TCAAAAAAATT
1 TTAAAAAAATT
4816370 TTAAAA
1 TTAAAA
4816376 TTAAAAAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
10 7 0.21
11 18 0.53
12 1 0.03
13 8 0.24
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (11 bp):
TTAAAAAAATT
Found at i:4816354 original size:23 final size:22
Alignment explanation
Indices: 4816325--4816375 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
4816315 TATTTTAAAA
4816325 TTAAAAAAA-TTAAAAAAAGTATT
1 TTAAAAAAATTTAAAAAAA--ATT
*
4816348 TTAAAAAAATTTCAAAAAAATT
1 TTAAAAAAATTTAAAAAAAATT
4816370 TTAAAA
1 TTAAAA
4816376 TTAAAAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 9 0.35
23 9 0.35
24 8 0.31
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (22 bp):
TTAAAAAAATTTAAAAAAAATT
Found at i:4816382 original size:40 final size:38
Alignment explanation
Indices: 4816290--4816364 Score: 114
Period size: 40 Copynumber: 1.9 Consensus size: 38
4816280 AAATTAAAAT
* *
4816290 AAAAATTAAAAAAGTATTTTAAAAATATTTTAAAATTAA
1 AAAAATTAAAAAAGTATTTTAAAAAAATTTCAAAA-TAA
4816329 AAAAATTAAAAAAAGTATTTTAAAAAAATTTCAAAA
1 AAAAATT-AAAAAAGTATTTTAAAAAAATTTCAAAA
4816365 AAATTTTAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
39 7 0.21
40 26 0.79
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (38 bp):
AAAAATTAAAAAAGTATTTTAAAAAAATTTCAAAATAA
Found at i:4816384 original size:52 final size:53
Alignment explanation
Indices: 4816295--4816404 Score: 179
Period size: 51 Copynumber: 2.1 Consensus size: 53
4816285 AAAATAAAAA
* *
4816295 TTAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAATT-AAAAAAAGTATT
1 TTAAAAAAG-ATTTCAAAAAAATTTTAAAATTAAAAAAATTAAAAAAAAGTATT
4816348 TTAAAAAA-ATTTCAAAAAAATTTTAAAATTAAAAAAATTAAAAAAAAGTATT
1 TTAAAAAAGATTTCAAAAAAATTTTAAAATTAAAAAAATTAAAAAAAAGTATT
4816400 TTAAA
1 TTAAA
4816405 GTTAAAAATA
Statistics
Matches: 54, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
51 29 0.54
52 17 0.31
53 8 0.15
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.34
Consensus pattern (53 bp):
TTAAAAAAGATTTCAAAAAAATTTTAAAATTAAAAAAATTAAAAAAAAGTATT
Found at i:4816420 original size:7 final size:7
Alignment explanation
Indices: 4816408--4816432 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
4816398 TTTTAAAGTT
4816408 AAAAATA
1 AAAAATA
4816415 AAAAATA
1 AAAAATA
4816422 AAAAATA
1 AAAAATA
4816429 AAAA
1 AAAA
4816433 TATTTATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAATA
Found at i:4816427 original size:51 final size:50
Alignment explanation
Indices: 4816321--4816432 Score: 124
Period size: 52 Copynumber: 2.2 Consensus size: 50
4816311 AAAATATTTT
* **
4816321 AAAATTAAAAAAATTAAAAAAAGTATTTTAAAAAAATTTCAAAAAAATTTT
1 AAAATTAAAAAAATTAAAAAAAGTATTTTAAAAAAATAT-AAAAAAATTAA
4816372 AAAATTAAAAAAATTAAAAAAAAGTATTTTAAAGTTAAAA-AT-AAAAAA-TAA
1 AAAATTAAAAAAATT-AAAAAAAGTATTTTAAA---AAAATATAAAAAAATTAA
4816423 AAAA-TAAAAA
1 AAAATTAAAAA
4816433 TATTTATTAT
Statistics
Matches: 54, Mismatches: 3, Indels: 9
0.82 0.05 0.14
Matches are distributed among these distances:
50 6 0.11
51 20 0.37
52 23 0.43
54 1 0.02
55 4 0.07
ACGTcount: A:0.70, C:0.01, G:0.03, T:0.27
Consensus pattern (50 bp):
AAAATTAAAAAAATTAAAAAAAGTATTTTAAAAAAATATAAAAAAATTAA
Found at i:4831868 original size:381 final size:381
Alignment explanation
Indices: 4831165--4832053 Score: 1679
Period size: 381 Copynumber: 2.3 Consensus size: 381
4831155 AGAAAGCTTG
*
4831165 AGGACAGAATGAAGATGGCTGAAGATGACCTGAGAAATGCATCTACTTGTGCATCTGTTGCTTTT
1 AGGACAGAATGAAGATGGCTGAAGATGACCTGAGAAATGCATCTACTTGTGCAACTGTTGCTTTT
4831230 GTACTTGTGAATAGATTATCAGAGGCAAACCATAATCATCTCAATGCATTGAAGGGTAAGGACGA
66 GTACTTGTGAATAGATTATCAGAGGCAAACCATAATCATCTCAATGCATTGAAGGGTAAGGACGA
4831295 ACAACTTGCAGAATCAGCAGAGGCGATCTTGAGTAAGGATGCTCTTTTGATCAACCAAGCTACCA
131 ACAACTTGCAGAATCAGCAGAGGCGATCTTGAGTAAGGATGCTCTTTTGATCAACCAAGCTACCA
4831360 TGATTGAAGAAGCAGAAACACGTATTCATTCCCTTGAAACTGAAGTTGAAAAGTCAGAGGAAGCT
196 TGATTGAAGAAGCAGAAACACGTATTCATTCCCTTGAAACTGAAGTTGAAAAGTCAGAGGAAGCT
*
4831425 TGCACTGAACTTAGCCAGAGGCTTCTGGAGGAGGAGCAGCGTGCTGCTGCTATTGAACAAAAGCT
261 TGCACTGAACTTAGCAAGAGGCTTCTGGAGGAGGAGCAGCGTGCTGCTGCTATTGAACAAAAGCT
* * *
4831490 TGAAGATATGGTGGAGAATGACATTTTGAAGACACAGGAGGAGCTGTCTAATCTTA
326 TGAAGATATGGTGGAGAATAACATTTTGAACACACAGGAGGAGCTGTCTAAACTTA
*
4831546 AGGACAGAATGAAGATGGCTGAAGATGACCTGAGAAATGCATCTACTTGTGCAACCGTTGCTTTT
1 AGGACAGAATGAAGATGGCTGAAGATGACCTGAGAAATGCATCTACTTGTGCAACTGTTGCTTTT
4831611 GTACTTGTGAATAGATTATCAGAGGCAAACCATAATCATCTCAATGCATTGAAGGGTAAGGACGA
66 GTACTTGTGAATAGATTATCAGAGGCAAACCATAATCATCTCAATGCATTGAAGGGTAAGGACGA
4831676 ACAACTTGCAGAATCAGCAGAGGCGATCTTGAGTAAGGATGCTCTTTTGATCAACCAAGCTACCA
131 ACAACTTGCAGAATCAGCAGAGGCGATCTTGAGTAAGGATGCTCTTTTGATCAACCAAGCTACCA
4831741 TGATTGAAGAAGCAGAAACACGTATTCATTCCCTTGAAACTGAAGTTGAAAAGTCAGAGGAAGCT
196 TGATTGAAGAAGCAGAAACACGTATTCATTCCCTTGAAACTGAAGTTGAAAAGTCAGAGGAAGCT
* *
4831806 TGCACTGAACTTCGCAAGAGGCTTCTGGAGGAGGAGCAGTGTGCTGCTGCTATTGAACAAAAGCT
261 TGCACTGAACTTAGCAAGAGGCTTCTGGAGGAGGAGCAGCGTGCTGCTGCTATTGAACAAAAGCT
* *
4831871 TGAAGATATGGTGGAGAATAACTTTTTGAACACACAGGAGGAGCTGTCTAAACTTG
326 TGAAGATATGGTGGAGAATAACATTTTGAACACACAGGAGGAGCTGTCTAAACTTA
*
4831927 AGGACAGAATGAAGATGGCTGAAGATGACCTAAGAAATGCATCTACTTGTGCAACTGTTGCTTTT
1 AGGACAGAATGAAGATGGCTGAAGATGACCTGAGAAATGCATCTACTTGTGCAACTGTTGCTTTT
4831992 GTACTTGTGAATAGATTATCAGAGGCAAACCATAATCATCTCAATGCATTGAAGGGTAAGGA
66 GTACTTGTGAATAGATTATCAGAGGCAAACCATAATCATCTCAATGCATTGAAGGGTAAGGA
4832054 TGCTCTTCTA
Statistics
Matches: 496, Mismatches: 12, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
381 496 1.00
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (381 bp):
AGGACAGAATGAAGATGGCTGAAGATGACCTGAGAAATGCATCTACTTGTGCAACTGTTGCTTTT
GTACTTGTGAATAGATTATCAGAGGCAAACCATAATCATCTCAATGCATTGAAGGGTAAGGACGA
ACAACTTGCAGAATCAGCAGAGGCGATCTTGAGTAAGGATGCTCTTTTGATCAACCAAGCTACCA
TGATTGAAGAAGCAGAAACACGTATTCATTCCCTTGAAACTGAAGTTGAAAAGTCAGAGGAAGCT
TGCACTGAACTTAGCAAGAGGCTTCTGGAGGAGGAGCAGCGTGCTGCTGCTATTGAACAAAAGCT
TGAAGATATGGTGGAGAATAACATTTTGAACACACAGGAGGAGCTGTCTAAACTTA
Found at i:4834638 original size:222 final size:222
Alignment explanation
Indices: 4834352--4834915 Score: 844
Period size: 222 Copynumber: 2.5 Consensus size: 222
4834342 TTGTCCACTT
* *
4834352 AGCTGACTCTGGGAAAAAGCTTACCAATGCTTATGCTGTC-CTTGATGGTTTAAAGAAGGAAATG
1 AGCTGACTCTGGAAAAAAGCTTACCAATGCTTATGCTGTCAC-TGATGGTTTAAAGAAAGAAATG
* * *
4834416 ACTTTTACAAAATTAGATGCATGTTTGAAAGAGCAGCTATTGGTGGAGCGGGAAAGTGAGTTGTC
65 ATTTTTGCAAAATTAGATGCATGTTTGAAAGAGCAGCTATTGGTGGAGCAGGAAAGTGAGTTGTC
* * * * * *
4834481 TTTTCTCCAAGAAAAAGTTGAAGAAGCACAGATTGAGTTAAGAATGTTGAAGAAAGAGAACTGTC
130 TTTTCTACAAGAAAAAGTTGAAGAAGCACAAATTGAGGTAAGAAAGATGAAGAAAGAAAACTGTC
* * *
4834546 TACTTCTCCAGGATTTGGAGGAGCAGAA
195 TACTTCTCCAGAATTTGGACGAGAAGAA
* *
4834574 AGCTGACTCTGGAAAAAAGCTTGCCAATGCTTATTCTGTCACTGATGGTTTAAAGAAAGAAATGA
1 AGCTGACTCTGGAAAAAAGCTTACCAATGCTTATGCTGTCACTGATGGTTTAAAGAAAGAAATGA
* *
4834639 TTTTTGCAAAATTAGATGCATGCTTGAAAGGGCAGCTATTGGTGGAGCAGGACAA-TGAGTTGTC
66 TTTTTGCAAAATTAGATGCATGTTTGAAAGAGCAGCTATTGGTGGAGCAGGA-AAGTGAGTTGTC
*
4834703 TTTTCTACAAGAAAAAGTTGAAGAAGCACAAATTGAGGTAAGAAAGATGCAGAAAGAAAACTGTC
130 TTTTCTACAAGAAAAAGTTGAAGAAGCACAAATTGAGGTAAGAAAGATGAAGAAAGAAAACTGTC
* *
4834768 TGCTTCTCCAGAATTTGGACGAGAAGGA
195 TACTTCTCCAGAATTTGGACGAGAAGAA
* * * * *
4834796 AGCAGACACCGGAAAAAAGCTTACCAATGCTTATGCTGTCATTGATGGTTTAAAGAAAGAAATAA
1 AGCTGACTCTGGAAAAAAGCTTACCAATGCTTATGCTGTCACTGATGGTTTAAAGAAAGAAATGA
* *
4834861 TTTTTGCAAAAGTAGATGCATGTTTGAAAGAGCAACTATTGGTGGAGCAGGAAAG
66 TTTTTGCAAAATTAGATGCATGTTTGAAAGAGCAGCTATTGGTGGAGCAGGAAAG
4834916 GATATCAAAG
Statistics
Matches: 307, Mismatches: 32, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
221 2 0.01
222 302 0.98
223 3 0.01
ACGTcount: A:0.36, C:0.13, G:0.25, T:0.26
Consensus pattern (222 bp):
AGCTGACTCTGGAAAAAAGCTTACCAATGCTTATGCTGTCACTGATGGTTTAAAGAAAGAAATGA
TTTTTGCAAAATTAGATGCATGTTTGAAAGAGCAGCTATTGGTGGAGCAGGAAAGTGAGTTGTCT
TTTCTACAAGAAAAAGTTGAAGAAGCACAAATTGAGGTAAGAAAGATGAAGAAAGAAAACTGTCT
ACTTCTCCAGAATTTGGACGAGAAGAA
Found at i:4839117 original size:15 final size:15
Alignment explanation
Indices: 4839097--4839144 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
4839087 GTCCGATATG
4839097 TACATGCAAGTTTCA
1 TACATGCAAGTTTCA
4839112 TACATGC-A---T-A
1 TACATGCAAGTTTCA
*
4839122 CACATGCAAGTTTCA
1 TACATGCAAGTTTCA
4839137 TACATGCA
1 TACATGCA
4839145 TACACATGCA
Statistics
Matches: 26, Mismatches: 2, Indels: 10
0.68 0.05 0.26
Matches are distributed among these distances:
10 7 0.27
11 2 0.08
14 2 0.08
15 15 0.58
ACGTcount: A:0.35, C:0.23, G:0.12, T:0.29
Consensus pattern (15 bp):
TACATGCAAGTTTCA
Found at i:4839126 original size:25 final size:25
Alignment explanation
Indices: 4839098--4839154 Score: 114
Period size: 25 Copynumber: 2.3 Consensus size: 25
4839088 TCCGATATGT
4839098 ACATGCAAGTTTCATACATGCATAC
1 ACATGCAAGTTTCATACATGCATAC
4839123 ACATGCAAGTTTCATACATGCATAC
1 ACATGCAAGTTTCATACATGCATAC
4839148 ACATGCA
1 ACATGCA
4839155 TATGTACATG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.37, C:0.25, G:0.12, T:0.26
Consensus pattern (25 bp):
ACATGCAAGTTTCATACATGCATAC
Found at i:4846128 original size:42 final size:42
Alignment explanation
Indices: 4846065--4846148 Score: 143
Period size: 42 Copynumber: 2.0 Consensus size: 42
4846055 AAGTTAAACC
*
4846065 GATTTATCAGTTTTT-AGTTTTTTACACTTTTTATGAATTTTT
1 GATTTATCAGTTTTTAATTTTTTTACA-TTTTTATGAATTTTT
4846107 GATTTATCAGTTTTTAATTTTTTTACATTTTTATGAATTTTT
1 GATTTATCAGTTTTTAATTTTTTTACATTTTTATGAATTTTT
4846149 AAGTATTTAT
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
42 30 0.75
43 10 0.25
ACGTcount: A:0.23, C:0.06, G:0.08, T:0.63
Consensus pattern (42 bp):
GATTTATCAGTTTTTAATTTTTTTACATTTTTATGAATTTTT
Found at i:4848141 original size:27 final size:27
Alignment explanation
Indices: 4848109--4848200 Score: 78
Period size: 27 Copynumber: 3.2 Consensus size: 27
4848099 ATTTGATCCT
4848109 AAAAAAAAGCTTAGGTACCAAATTAGG
1 AAAAAAAAGCTTAGGTACCAAATTAGG
* *
4848136 AAAAAAAAGGTCAAGTTCAAGTACCAAATTGAGC
1 AAAAAAAA-G-C---TT-AGGTACCAAATT-AGG
* *
4848170 TAAAAAAA-TTTAGGTACCAAATTAGG
1 AAAAAAAAGCTTAGGTACCAAATTAGG
4848196 AAAAA
1 AAAAA
4848201 GTGTCAAGTT
Statistics
Matches: 51, Mismatches: 7, Indels: 15
0.70 0.10 0.21
Matches are distributed among these distances:
26 6 0.12
27 19 0.37
28 3 0.06
29 1 0.02
32 2 0.04
33 11 0.22
34 9 0.18
ACGTcount: A:0.53, C:0.11, G:0.16, T:0.20
Consensus pattern (27 bp):
AAAAAAAAGCTTAGGTACCAAATTAGG
Found at i:4848190 original size:60 final size:61
Alignment explanation
Indices: 4848110--4848283 Score: 191
Period size: 60 Copynumber: 2.9 Consensus size: 61
4848100 TTTGATCCTA
* *
4848110 AAAAAAAGCTTAGGTACCAAATTAGGAAAAAAAAGGTCAAGTTCAAGTACCAAATTGAGCT
1 AAAAAAAGTTTAGGTACCAAATTAGGAAAAAAAAGGTCAAGTTCAAGTACCAAATTGAGCC
* * *
4848171 AAAAAAA-TTTAGGTACCAAATTAGG---AAAAAGTGTCAAGTTCAGGTACCAATTTGGGCC
1 AAAAAAAGTTTAGGTACCAAATTAGGAAAAAAAAG-GTCAAGTTCAAGTACCAAATTGAGCC
* * *
4848229 AAATAAAAGTTCATGTACCAAAATA-GAAAAAAAA--TACAAAGTTCAAGTACCAAAT
1 AAA-AAAAGTTTAGGTACCAAATTAGGAAAAAAAAGGT-C-AAGTTCAAGTACCAAAT
4848284 GTTATATTAA
Statistics
Matches: 95, Mismatches: 10, Indels: 16
0.79 0.08 0.13
Matches are distributed among these distances:
57 6 0.06
58 25 0.26
59 6 0.06
60 31 0.33
61 22 0.23
62 5 0.05
ACGTcount: A:0.49, C:0.13, G:0.16, T:0.21
Consensus pattern (61 bp):
AAAAAAAGTTTAGGTACCAAATTAGGAAAAAAAAGGTCAAGTTCAAGTACCAAATTGAGCC
Found at i:4853384 original size:66 final size:66
Alignment explanation
Indices: 4853278--4853470 Score: 241
Period size: 66 Copynumber: 3.0 Consensus size: 66
4853268 TGAAGACAAC
* *
4853278 GATGATTCTGCATCCATGAATGCTGAAAGTGCGAAGGGAGAAGTGAAAGAAGAGGAAAAGG-AGA
1 GATGATTCTGAATCCATGAATGCTGAAAGTGCGAAGGGAGAAGAGAAAGAAGAGGAAAAGGAAG-
4853342 AA
65 AA
* * *
4853344 GATGATTCTGTATCCATGAATGCTGAAAGTGCGAAGGGAGAAGAGAACGAAGAGGGAAAGGAAGA
1 GATGATTCTGAATCCATGAATGCTGAAAGTGCGAAGGGAGAAGAGAAAGAAGAGGAAAAGGAAGA
4853409 A
66 A
* ** * * * *
4853410 GATGACTCTGAATCTTTAAATGCTGAAAATTC-AA--AAGAAGAGAAAGAAGAGGAAAAGGAAG
1 GATGATTCTGAATCCATGAATGCTGAAAGTGCGAAGGGAGAAGAGAAAGAAGAGGAAAAGGAAG
4853471 GGGAGCAGGA
Statistics
Matches: 112, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
63 24 0.21
65 2 0.02
66 84 0.75
67 2 0.02
ACGTcount: A:0.44, C:0.09, G:0.31, T:0.16
Consensus pattern (66 bp):
GATGATTCTGAATCCATGAATGCTGAAAGTGCGAAGGGAGAAGAGAAAGAAGAGGAAAAGGAAGA
A
Found at i:4858317 original size:16 final size:16
Alignment explanation
Indices: 4858296--4858326 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
4858286 AAATATTAAA
4858296 TTTATCAAGATATTTT
1 TTTATCAAGATATTTT
4858312 TTTATCAAGATATTT
1 TTTATCAAGATATTT
4858327 GTATGTTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.06, G:0.06, T:0.55
Consensus pattern (16 bp):
TTTATCAAGATATTTT
Found at i:4860578 original size:13 final size:13
Alignment explanation
Indices: 4860556--4860588 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
4860546 TATAAATATG
4860556 GTAC-AATTATCC
1 GTACAAATTATCC
4860568 GTACAAATTATCC
1 GTACAAATTATCC
4860581 GTACAAAT
1 GTACAAAT
4860589 ATATGCTCGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.20
13 16 0.80
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.30
Consensus pattern (13 bp):
GTACAAATTATCC
Found at i:4861440 original size:6 final size:6
Alignment explanation
Indices: 4861431--4861464 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
4861421 GTTGTAGTAG
* *
4861431 TGGTAA TGGTAA TGGTAA TGGCAA TGGCAA TGGT
1 TGGTAA TGGTAA TGGTAA TGGTAA TGGTAA TGGT
4861465 GTGACGTTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.29, C:0.06, G:0.35, T:0.29
Consensus pattern (6 bp):
TGGTAA
Found at i:4866318 original size:19 final size:18
Alignment explanation
Indices: 4866296--4866337 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
4866286 AAATTACAAA
*
4866296 AAAAATCAAAATAATTTTT
1 AAAAATCAAAAT-ATTTAT
*
4866315 AAAATTCAAAATATTTAT
1 AAAAATCAAAATATTTAT
4866333 AAAAA
1 AAAAA
4866338 ATTTAAATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (18 bp):
AAAAATCAAAATATTTAT
Found at i:4871236 original size:29 final size:30
Alignment explanation
Indices: 4871188--4871246 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
4871178 GAACTGGATC
* *
4871188 AAATAAAAATTTTATGTATAAAATTGTATA
1 AAATAAAAATTATATGTATAAAAGTGTATA
*
4871218 AAATCAAAATTAT-TGTATAAAAGTGTATA
1 AAATAAAAATTATATGTATAAAAGTGTATA
4871247 TTAGACCAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 15 0.58
30 11 0.42
ACGTcount: A:0.53, C:0.02, G:0.08, T:0.37
Consensus pattern (30 bp):
AAATAAAAATTATATGTATAAAAGTGTATA
Found at i:4877317 original size:30 final size:30
Alignment explanation
Indices: 4877261--4877317 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
4877251 ACGATTTAAT
*
4877261 TTGAATTTTAAAAACTAAAAAGTAGAGGGA
1 TTGAATTTTAAAAACTAAAAAATAGAGGGA
4877291 TTGAATTTT-AAAACTAAAAATATAGAG
1 TTGAATTTTAAAAACTAAAAA-ATAGAG
4877318 ACTAAATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
29 11 0.44
30 14 0.56
ACGTcount: A:0.51, C:0.04, G:0.16, T:0.30
Consensus pattern (30 bp):
TTGAATTTTAAAAACTAAAAAATAGAGGGA
Found at i:4877326 original size:28 final size:29
Alignment explanation
Indices: 4877264--4877331 Score: 84
Period size: 28 Copynumber: 2.3 Consensus size: 29
4877254 ATTTAATTTG
* * *
4877264 AATTTTAAAAACTAAAAAGTAGAGGGATTG
1 AATTTT-AAAACTAAAAAGTAGAGAGACTA
*
4877294 AATTTTAAAACTAAAAA-TATAGAGACTA
1 AATTTTAAAACTAAAAAGTAGAGAGACTA
4877322 AATTTTAAAA
1 AATTTTAAAA
4877332 TTAAGAAAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 17 0.50
29 11 0.32
30 6 0.18
ACGTcount: A:0.54, C:0.04, G:0.12, T:0.29
Consensus pattern (29 bp):
AATTTTAAAACTAAAAAGTAGAGAGACTA
Found at i:4886146 original size:17 final size:19
Alignment explanation
Indices: 4886120--4886158 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
4886110 CCCGACCTTT
4886120 AAATAAATTT-AATTAA-A
1 AAATAAATTTAAATTAAGA
*
4886137 AAATATATTTAAATTAAGA
1 AAATAAATTTAAATTAAGA
4886156 AAA
1 AAA
4886159 CAATAAGGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 9 0.47
18 6 0.32
19 4 0.21
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (19 bp):
AAATAAATTTAAATTAAGA
Found at i:4888294 original size:3 final size:3
Alignment explanation
Indices: 4888286--4888324 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
4888276 CTTTCTTTCT
** *
4888286 TTC TTC TTC TTC TTC TTC TTC TAG ATC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
4888325 CTTTACAATG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.05, C:0.31, G:0.03, T:0.62
Consensus pattern (3 bp):
TTC
Found at i:4889808 original size:204 final size:205
Alignment explanation
Indices: 4889457--4889979 Score: 766
Period size: 204 Copynumber: 2.6 Consensus size: 205
4889447 GCTCAGCCGA
* *
4889457 AAAAAAAAAACAAATGGTTTGTGTTGTAGTTGATTGCAAACCATTATCCGGGTTTGGTACCATTC
1 AAAAAAAAAACAAATGGTTTGTGTTGTAGTTGATTGCAAATCGTTATCCGGGTTTGGTACCATTC
* * * *
4889522 ATTCGTATGATAAAAGCG--TGTGTTTTTGGTTGTCGAGGTGTCCGTTTATTCTAGGAAATCAAC
66 ATTCATATGATAAAAGTGTTTGTGTTTTTGGTAGTCGAGGTGTCCGTTTATTCTAGGAAATAAAC
*
4889585 GACGTTGTTGTGATAATTATAGCCTGTTAACCAATACGGTGTTTTCTTTTACCAGCTTGT-CCT-
131 GACGTTATTGTGATAATTATAGCCTGTTAACCAATACGGTGTTTTCTTTTACCAGCTTGTACCTA
* *
4889648 TGGCTTCACCC
196 TGCCTT-AACC
*** *
4889659 CCCAAAAAAACAAATGGTTTGTGTTGTAGTTGATTGCAAATCGTTATCCGGGTTTGGTACCGTTC
1 AAAAAAAAAACAAATGGTTTGTGTTGTAGTTGATTGCAAATCGTTATCCGGGTTTGGTACCATTC
* *
4889724 ATTCATATGATAAAAGTGTTTGTGTTTTTGGTAGTCGAGGTGTCGGTTTATTCTAGGAAATAAAG
66 ATTCATATGATAAAAGTGTTTGTGTTTTTGGTAGTCGAGGTGTCCGTTTATTCTAGGAAATAAAC
* * * *
4889789 GGCGTTATTGTGATAATTATAGCCTGTTAACTAATACGGTGTTTTCTTTTACCGGCTTGTACTTA
131 GACGTTATTGTGATAATTATAGCCTGTTAACCAATACGGTGTTTTCTTTTACCAGCTTGTACCTA
4889854 TGCCTTAACC
196 TGCCTTAACC
* * *
4889864 AAAAAAAAAAGAAATGGTTTGTGTTGTAGTTGATTGCAAATTGTTATCCGGGTTTGGTACCAATC
1 AAAAAAAAAACAAATGGTTTGTGTTGTAGTTGATTGCAAATCGTTATCCGGGTTTGGTACCATTC
* * * *
4889929 ATTCACATGATAAAAGTGTTTGTGTTTTTTGCTAGTCGAGGTATCCATTTA
66 ATTCATATGATAAAAGTGTTTGTG-TTTTTGGTAGTCGAGGTGTCCGTTTA
4889980 GGAAATAAAG
Statistics
Matches: 285, Mismatches: 31, Indels: 6
0.89 0.10 0.02
Matches are distributed among these distances:
202 75 0.26
204 97 0.34
205 86 0.30
206 27 0.09
ACGTcount: A:0.26, C:0.14, G:0.22, T:0.38
Consensus pattern (205 bp):
AAAAAAAAAACAAATGGTTTGTGTTGTAGTTGATTGCAAATCGTTATCCGGGTTTGGTACCATTC
ATTCATATGATAAAAGTGTTTGTGTTTTTGGTAGTCGAGGTGTCCGTTTATTCTAGGAAATAAAC
GACGTTATTGTGATAATTATAGCCTGTTAACCAATACGGTGTTTTCTTTTACCAGCTTGTACCTA
TGCCTTAACC
Found at i:4893338 original size:31 final size:31
Alignment explanation
Indices: 4893280--4893339 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
4893270 CTTATTTTAA
* * *
4893280 GCTTCAATGGTTAATTTGGTACTTGAGTTCG
1 GCTTCAATGGTTAATTCGATACATGAGTTCG
* *
4893311 GCTTCAATGTTTAGTTCGATACATGAGTT
1 GCTTCAATGGTTAATTCGATACATGAGTT
4893340 TTTTTAAATT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.22, C:0.13, G:0.23, T:0.42
Consensus pattern (31 bp):
GCTTCAATGGTTAATTCGATACATGAGTTCG
Found at i:4899191 original size:22 final size:24
Alignment explanation
Indices: 4899144--4899204 Score: 65
Period size: 22 Copynumber: 2.7 Consensus size: 24
4899134 GTAGCGAGGA
*
4899144 AAGAA-AGGAGAGAAGCGAGAGTG
1 AAGAAGAGGAGAGAAGCGAGAGCG
*
4899167 AAGAAGAGGAGAGGAGC-AG-GCG
1 AAGAAGAGGAGAGAAGCGAGAGCG
* *
4899189 AAGAAGATGAAAGAAG
1 AAGAAGAGGAGAGAAG
4899205 AGAAGATGGA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
22 15 0.47
23 7 0.22
24 10 0.31
ACGTcount: A:0.49, C:0.05, G:0.43, T:0.03
Consensus pattern (24 bp):
AAGAAGAGGAGAGAAGCGAGAGCG
Found at i:4905379 original size:19 final size:19
Alignment explanation
Indices: 4905330--4905379 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
4905320 ATATATAAAC
*
4905330 AAAACATGAAAAATAGTTT
1 AAAACATGAAAAATAGTTA
* *
4905349 AAAGCATTAAAAATA-TATA
1 AAAACATGAAAAATAGT-TA
4905368 AAAACATGAAAA
1 AAAACATGAAAA
4905380 TCTCTTTCAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
18 1 0.04
19 24 0.96
ACGTcount: A:0.64, C:0.06, G:0.08, T:0.22
Consensus pattern (19 bp):
AAAACATGAAAAATAGTTA
Found at i:4906701 original size:96 final size:96
Alignment explanation
Indices: 4906522--4906720 Score: 263
Period size: 96 Copynumber: 2.1 Consensus size: 96
4906512 CCTCGAATTA
* * * * * * *
4906522 GAAACTGAACTGATACTCTCAGTAGACCGGAAGCTTGCATTTTTCACATCCTCCGATTCTTTCCT
1 GAAACCGAACCGATACTCTCAGTAGACCGAAAACTTGCACTCTGCACATCCTCCGATTCTTTCCT
*
4906587 AGACAAAACGGCACAATTCAACTCGTGAACC
66 AGACAAAACAGCACAATTCAACTCGTGAACC
* *
4906618 GAAACCGAACCGATACTCTCGGTAGACCGAAAACTTGCACTCTGCACATCCTCCGGTTCTTTCCT
1 GAAACCGAACCGATACTCTCAGTAGACCGAAAACTTGCACTCTGCACATCCTCCGATTCTTTCCT
* * * * *
4906683 ATACAGAACATCATAATTCAACTCGTGAGCC
66 AGACAAAACAGCACAATTCAACTCGTGAACC
4906714 GAAACCG
1 GAAACCG
4906721 GTCTTCTCCT
Statistics
Matches: 88, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
96 88 1.00
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.24
Consensus pattern (96 bp):
GAAACCGAACCGATACTCTCAGTAGACCGAAAACTTGCACTCTGCACATCCTCCGATTCTTTCCT
AGACAAAACAGCACAATTCAACTCGTGAACC
Found at i:4906933 original size:120 final size:123
Alignment explanation
Indices: 4906618--4907012 Score: 575
Period size: 123 Copynumber: 3.2 Consensus size: 123
4906608 CTCGTGAACC
* * *
4906618 GAAACCGAACCGATACTCTCGGTAGACCGAAAACTTGCACTCTGCACATCCTCCGGTTCTTTCCT
1 GAAACCGAACCGATACTCTCAGTAGACCGAAAACTTGCATTCTTCACATCCTCCGGTTCTTTCCT
*
4906683 ATACAGAACATCATAATTCAACTCGTGAGCCGAAACCGGTCTTCTCCTCCTCGAGT-TA
66 ATACAAAACATCATAATTCAACTCGTGAGCCGAAACCGGTC-TCTCCTCCTCGAGTCTA
* * * * * * *
4906741 GACACCAAACCGATACTCTCACTAGACCGAAAGCTTACATTTTTTACATCCTCCGGTTCTTTCCT
1 GAAACCGAACCGATACTCTCAGTAGACCGAAAACTTGCATTCTTCACATCCTCCGGTTCTTTCCT
* * *
4906806 ATACAAAACAGCACAATTCAACTCGTGAGCCGAATCCGGTC-CT-CTCCTC-AGTCTA
66 ATACAAAACATCATAATTCAACTCGTGAGCCGAAACCGGTCTCTCCTCCTCGAGTCTA
*
4906861 GAAACCGAACCGATACTCTCAGTAGACCGAAAACTTGCATTCTTCACATCCTCCGGTTCTTTCCC
1 GAAACCGAACCGATACTCTCAGTAGACCGAAAACTTGCATTCTTCACATCCTCCGGTTCTTTCCT
* *
4906926 ATACAAAACATCATGATTCAACTCGTGAGCCGAAACCGGTCCTCTCCTCCTCGAG-CTC
66 ATACAAAACATCATAATTCAACTCGTGAGCCGAAACCGGT-CTCTCCTCCTCGAGTCTA
*
4906984 GAAACCGAACCGATACTCTCAGTGGACCG
1 GAAACCGAACCGATACTCTCAGTAGACCG
4907013 GAAGCTTACA
Statistics
Matches: 239, Mismatches: 28, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
119 3 0.01
120 101 0.42
121 3 0.01
122 2 0.01
123 128 0.54
124 2 0.01
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.25
Consensus pattern (123 bp):
GAAACCGAACCGATACTCTCAGTAGACCGAAAACTTGCATTCTTCACATCCTCCGGTTCTTTCCT
ATACAAAACATCATAATTCAACTCGTGAGCCGAAACCGGTCTCTCCTCCTCGAGTCTA
Found at i:4907931 original size:22 final size:22
Alignment explanation
Indices: 4907903--4907949 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
4907893 AATTTATCCA
4907903 TTTATACTGTTAAAAATTAGCT
1 TTTATACTGTTAAAAATTAGCT
*
4907925 TTTATACTGTTAAAACTTAGCT
1 TTTATACTGTTAAAAATTAGCT
4907947 TTT
1 TTT
4907950 GTATGCTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.32, C:0.11, G:0.09, T:0.49
Consensus pattern (22 bp):
TTTATACTGTTAAAAATTAGCT
Found at i:4916148 original size:90 final size:88
Alignment explanation
Indices: 4915924--4916236 Score: 312
Period size: 91 Copynumber: 3.5 Consensus size: 88
4915914 TTACACCACA
* * * *
4915924 ATACTCAAGCTCAAGTGCCCCAGAAATGAAATATAATAAATAACAAAATTTATAATTATCTCGAA
1 ATACTCAAGCTCAAGTGCCCCA-AAATGAAATATAATAAATAA-TAATTTTATAGTTATCCCGAA
* * *
4915989 AAAATTTAAAAAAAATTGCATCATC
64 AAAATTCAAAAAAAATTGCAGCACC
*
4916014 ATACTCAAAGCTCAAGTGCTCCAAAAGTGAAATATAATAAATAATAATTTTAATAGTTATCCCGA
1 ATACTC-AAGCTCAAGTGCCCCAAAA-TGAAATATAATAAATAATAATTTT-ATAGTTATCCCGA
** *
4916079 AAGTATTCAAAAAAAATTTG-GGCACC
63 AAAAATTCAAAAAAAA-TTGCAGCACC
* * *
4916105 ATACTCAAGCCCAAGTACCCCGAAAATGAAATATAATAAATAATAATTTTTATAGTTATCCTG--
1 ATACTCAAGCTCAAGTGCCCC-AAAATGAAATATAATAAATAATAA-TTTTATAGTTATCCCGAA
* *
4916168 AAAATT-AAAAAAACA-AGCATCACC
64 AAAATTCAAAAAAA-ATTGCAGCACC
* * * *
4916192 GTACTCAAGCCCAAGTGCCTCAAAAAATGAAATGTAATAAATAAT
1 ATACTCAAGCTCAAGTGCC-C-CAAAATGAAATATAATAAATAAT
4916237 TTTAGCACCA
Statistics
Matches: 189, Mismatches: 24, Indels: 22
0.80 0.10 0.09
Matches are distributed among these distances:
86 1 0.01
87 28 0.15
88 27 0.14
90 57 0.30
91 73 0.39
92 3 0.02
ACGTcount: A:0.48, C:0.17, G:0.10, T:0.26
Consensus pattern (88 bp):
ATACTCAAGCTCAAGTGCCCCAAAATGAAATATAATAAATAATAATTTTATAGTTATCCCGAAAA
AATTCAAAAAAAATTGCAGCACC
Found at i:4916459 original size:140 final size:139
Alignment explanation
Indices: 4916100--4916459 Score: 368
Period size: 140 Copynumber: 2.6 Consensus size: 139
4916090 AAAAATTTGG
* * *
4916100 GCACCATACTCAAGCCCAAGTACCCCGAAAATGAAATATAATAAATAATAATTTTTATAGTTATC
1 GCACCATACTAAAACCCAAGTGCCCCG-AAATGAAATATAATAAATAATAA-TTTTATA-TTATC
** ** * * * *
4916165 -CTGAAAATTAAAAAAACAAGCATCACCGTACTCAAGCCCAAGTGCCTCAAAAAATGAAATGTAA
63 TCAAAAAATTAAAAAAACAAGCAGAACCATACTCAAACCCAAATGCCTCAAAAAATGAAATATAA
4916229 TAAATAATTTTA
128 TAAATAATTTTA
* * ** * * *
4916241 GCACCATACTCAAGCATAAGTGCCCCCGAAATAAAATATAATACATAATAATTTTACAATTATCT
1 GCACCATACTAAAACCCAAGTG-CCCCGAAATGAAATATAATAAATAATAATTTTA-TATTATC-
** * *** * **
4916306 TGGAAAAATAAAAAAAATTTG-AGAACCATACTCAAACTCAAATGCC-CTGAAAATGAAATATAA
63 TCAAAAAATTAAAAAAACAAGCAGAACCATACTCAAACCCAAATGCCTCAAAAAATGAAATATAA
4916369 TAAATAATTGTTA
128 TAAATAATT-TTA
*
4916382 -CACCGTACTAAAACCCAAGTGCCCCGAAATTGAAATATAATAAATAATAATTTTATATTATCTC
1 GCACCATACTAAAACCCAAGTGCCCCGAAA-TGAAATATAATAAATAATAATTTTATATTATCTC
4916446 AAAAAATTAAAAAA
65 AAAAAATTAAAAAA
4916460 TATTTTTGCA
Statistics
Matches: 180, Mismatches: 33, Indels: 15
0.79 0.14 0.07
Matches are distributed among these distances:
138 13 0.07
139 14 0.08
140 72 0.40
141 63 0.35
142 18 0.10
ACGTcount: A:0.48, C:0.17, G:0.09, T:0.26
Consensus pattern (139 bp):
GCACCATACTAAAACCCAAGTGCCCCGAAATGAAATATAATAAATAATAATTTTATATTATCTCA
AAAAATTAAAAAAACAAGCAGAACCATACTCAAACCCAAATGCCTCAAAAAATGAAATATAATAA
ATAATTTTA
Found at i:4916858 original size:184 final size:186
Alignment explanation
Indices: 4916382--4916889 Score: 516
Period size: 184 Copynumber: 2.7 Consensus size: 186
4916372 ATAATTGTTA
* * ** *
4916382 CACCGTACTAAAACCCAAGTGCCCCGAAATTGAAATATAATAAATAATAA-TTTTATA-TTATCT
1 CACCATACTAAAGCCCAAGTGCCCAAAAATTGAAATATAATAAATAATAATTTTTATAGTTATCC
* * * * * *
4916445 CAAAAAATTAAAAAATATTTTTGCACCACCATAATTAAGCCCAAATACCTCGAAAATGAGATATA
66 CAGAAAATTAAAAAATATTTTTGCACCACCATACTAAAGCTCAAATGCCT-GAAAATGAAATATA
* ** *
4916510 ATAAATAATATTTTTTACAGTTATCCCGGAAAATTAAAATATATATATTTTTTGGTG
130 ATAAATAATATTTTTCACAGTTATCCCAAAAAATTAAAATATATATATTTTTTGATG
* * *
4916567 CACCATACTAAAGCCCAAGTGCCCAAAAATTG-AATATAATAAATCATATTTTTTACAGTTAT-C
1 CACCATACTAAAGCCCAAGTGCCCAAAAATTGAAATATAATAAATAATAATTTTTATAGTTATCC
* *** * *
4916630 CTGAAAATATAAAAAATATTTTTGGTGCACCATAC-ACTAGCTCAAAATGCCATGAACATGAAAT
66 CAGAAAAT-TAAAAAATATTTTTGCACCACCATACTA-AAGCTC-AAATGCC-TGAAAATGAAAT
** * *
4916694 ATAATAAATAATATTTTTCGTAGTTGTCTCAAAAAATTAAAATA-A-ATA-TTTTTGCAT-
127 ATAATAAATAATATTTTTCACAGTTATCCCAAAAAATTAAAATATATATATTTTTTG-ATG
* * * *
4916751 CACCATACTCAATCCTATA-TGCCCAAAAA-TGAAATATAAAAAATAATAATTTTTATAGTTATC
1 CACCATACTAAAGCCCA-AGTGCCCAAAAATTGAAATATAATAAATAATAATTTTTATAGTTATC
* ** * * **
4916814 CCGGAAAATTAAATCATATTTTTGCACCACCGTACTAAAGCTCAATTGTTTTGAAAATGAAATAT
65 CCAGAAAATTAAAAAATATTTTTGCACCACCATACTAAAGCTCAAATG-CCTGAAAATGAAATAT
4916879 AATAAATAATA
129 AATAAATAATA
4916890 ATNNNNNNNN
Statistics
Matches: 264, Mismatches: 47, Indels: 26
0.78 0.14 0.08
Matches are distributed among these distances:
183 30 0.11
184 96 0.36
185 54 0.20
186 31 0.12
187 52 0.20
188 1 0.00
ACGTcount: A:0.44, C:0.15, G:0.09, T:0.32
Consensus pattern (186 bp):
CACCATACTAAAGCCCAAGTGCCCAAAAATTGAAATATAATAAATAATAATTTTTATAGTTATCC
CAGAAAATTAAAAAATATTTTTGCACCACCATACTAAAGCTCAAATGCCTGAAAATGAAATATAA
TAAATAATATTTTTCACAGTTATCCCAAAAAATTAAAATATATATATTTTTTGATG
Found at i:4916889 original size:91 final size:90
Alignment explanation
Indices: 4916382--4916891 Score: 384
Period size: 92 Copynumber: 5.6 Consensus size: 90
4916372 ATAATTGTTA
* * * * *
4916382 CACCGTACTAAAACCCAAGTGCCCCGAAATTGAAATATAATAAATAATAA-TTTTATA-TTATCT
1 CACCATACTAAAGCCCAAATG-CCCGAAAATGAAATATAATAAATAATAATTTTTATAGTTATCC
* *
4916445 CAAAAAATTAAAAAATATTTTTGCAC
65 CAGAAAATTAAATAATATTTTTGCAC
* * * * * *
4916471 CACCATAATTAAGCCCAAATACCTCGAAAATGAGATATAATAAATAATATTTTTTACAGTTATCC
1 CACCATACTAAAGCCCAAATGCC-CGAAAATGAAATATAATAAATAATAATTTTTATAGTTATCC
* ***
4916536 CGGAAAATTAAAATATATATATTTTTTGGTG
65 CAGAAAATT--AA-ATA-ATA-TTTTTGCAC
* * * * *
4916567 CACCATACTAAAGCCCAAGTGCCCAAAAATTG-AATATAATAAATCATATTTTTTACAGTTAT-C
1 CACCATACTAAAGCCCAAATGCCCGAAAA-TGAAATATAATAAATAATAATTTTTATAGTTATCC
* * ***
4916630 CTGAAAATATAAAAAATATTTTTGGTG
65 CAGAAAAT-TAAATAATATTTTTGCAC
* * * * * *
4916657 CACCATAC-ACTAGCTCAAAATGCCATGAACATGAAATATAATAAATAAT-ATTTTTCGTAGTTG
1 CACCATACTA-AAGC-CCAAATGCC-CGAAAATGAAATATAATAAATAATAATTTTT-ATAGTTA
* * *
4916720 TCTCAAAAAATTAAAATAAATATTTTTGCAT
62 TCCCAGAAAATT-AAAT-AATATTTTTGCAC
* * * * * *
4916751 CACCATACTCAATCCTATATGCCCAAAAATGAAATATAAAAAATAATAATTTTTATAGTTATCCC
1 CACCATACTAAAGCCCAAATGCCCGAAAATGAAATATAATAAATAATAATTTTTATAGTTATCCC
* *
4916816 GGAAAATTAAATCATATTTTTGCAC
66 AGAAAATTAAATAATATTTTTGCAC
* * * ***
4916841 CACCGTACTAAAGCTCAATTGTTTTGAAAATGAAATATAATAAATAATAAT
1 CACCATACTAAAGCCCAAATG-CCCGAAAATGAAATATAATAAATAATAAT
4916892 NNNNNNNNNN
Statistics
Matches: 328, Mismatches: 72, Indels: 40
0.75 0.16 0.09
Matches are distributed among these distances:
88 2 0.01
89 39 0.12
90 51 0.16
91 57 0.17
92 59 0.18
93 26 0.08
94 30 0.09
95 37 0.11
96 27 0.08
ACGTcount: A:0.44, C:0.15, G:0.09, T:0.32
Consensus pattern (90 bp):
CACCATACTAAAGCCCAAATGCCCGAAAATGAAATATAATAAATAATAATTTTTATAGTTATCCC
AGAAAATTAAATAATATTTTTGCAC
Found at i:4917518 original size:91 final size:91
Alignment explanation
Indices: 4917423--4917655 Score: 217
Period size: 91 Copynumber: 2.5 Consensus size: 91
4917413 TTTACAACAT
* * * *
4917423 TATACTCAAGACAAAATGCACCAAAAATGAAGTATTATTAATAAATAATTTGTACATTTATCCC-
1 TATACTCAA-ACAAAGTGC-CCAAAAATGAAATATTATTAATAAATAATTTGTACAGTTAACCCA
* * * *
4917487 GAAATTTTAAGAAATATTTTTGA-GCAC
64 AAAAATTAAAAAAATATTTTTGACGCAC
* * * * * *
4917514 TATACT-AAATTCCAAGTGCTCCAAAAATGAAATATAATAAAT-AATATTTTTTATAGTTAACCC
1 TATACTCAAA--CAAAGTGC-CCAAAAATGAAATATTATTAATAAATAATTTGTACAGTTAACCC
*
4917577 AAAAAATTAAAAAAATATTTTTGACGCGC
63 AAAAAATTAAAAAAATATTTTTGACGCAC
4917606 TATACTCAAACACAAGTGCCCTAAAAATGAAATA-TATTAA-ATAATAATTT
1 TATACTCAAACA-AAGTGCCC-AAAAATGAAATATTATTAATA-AATAATTT
4917656 TTATAATTAT
Statistics
Matches: 113, Mismatches: 20, Indels: 17
0.75 0.13 0.11
Matches are distributed among these distances:
89 1 0.01
90 18 0.16
91 57 0.50
92 34 0.30
93 3 0.03
ACGTcount: A:0.46, C:0.13, G:0.08, T:0.32
Consensus pattern (91 bp):
TATACTCAAACAAAGTGCCCAAAAATGAAATATTATTAATAAATAATTTGTACAGTTAACCCAAA
AAATTAAAAAAATATTTTTGACGCAC
Found at i:4917683 original size:92 final size:90
Alignment explanation
Indices: 4917423--4917683 Score: 246
Period size: 92 Copynumber: 2.9 Consensus size: 90
4917413 TTTACAACAT
* * * * *
4917423 TATACTCAAGACA-AAATGCACCAAAAATGAAGTATTATT-AATAAATAATTTGTACATTTATCC
1 TATACTCAA-ACACAAGTGCACCAAAAATGAAATA-TATTAAAT-AATAATTTTTATAATTATCC
4917486 CG-AAATTTTAAGAAATATTTTTGAGCAC
63 CGAAAATTTTAA-AAATATTTTTGAGCAC
* * * * *
4917514 TATACT-AAATTC-CAAGTGCTCCAAAAATGAAATATAATAAATAATATTTTTTATAGTTAACCC
1 TATACTCAAA--CACAAGTGCACCAAAAATGAAATATATTAAATAATAATTTTTATAATTATCCC
* ** *
4917577 AAAAAATTAAAAAAATATTTTTGACGCGC
64 -GAAAATTTTAAAAATATTTTTGA-GCAC
**
4917606 TATACTCAAACACAAGTGC-CCTAAAAATGAAATATATTAAATAATAATTTTTATAATTATCTTG
1 TATACTCAAACACAAGTGCACC-AAAAATGAAATATATTAAATAATAATTTTTATAATTATCCCG
4917670 AAAATTTTTAAAAA
65 AAAA-TTTTAAAAA
4917684 AATATTATTG
Statistics
Matches: 137, Mismatches: 22, Indels: 21
0.76 0.12 0.12
Matches are distributed among these distances:
89 1 0.01
90 21 0.15
91 47 0.34
92 65 0.47
93 3 0.02
ACGTcount: A:0.46, C:0.12, G:0.08, T:0.34
Consensus pattern (90 bp):
TATACTCAAACACAAGTGCACCAAAAATGAAATATATTAAATAATAATTTTTATAATTATCCCGA
AAATTTTAAAAATATTTTTGAGCAC
Found at i:4918163 original size:92 final size:91
Alignment explanation
Indices: 4917954--4918304 Score: 274
Period size: 91 Copynumber: 3.9 Consensus size: 91
4917944 TTTGGGGACC
* * * * * * *
4917954 ATACTCAAGCTCAAGTG-TTCGAAAATAAAATATAATAAA-AATAATTTTTATAGTTATCTCGGA
1 ATACTCAAACCCAAGTGCCTCGAAAATGAAATATAATAAATAATATTTTTTAAAGTTATCT--TA
* * * * *
4918017 AAATTTAAAAAAA-A-ATTAG-GC-ACT
64 AAATATAAAAAAATATTTTTGCACAACA
* * *
4918041 ATACGCAAGCCCAAGTGCCTCAAAAATGAAATATTAA-AAATAAT-TTTTTTAAAGTTATCTTAG
1 ATACTCAAACCCAAGTGCCTCGAAAATGAAATA-TAATAAATAATATTTTTTAAAGTTATCTTA-
4918104 AATATATAAAAAAATATTTTTGCAGCAAC-
64 AA-ATATAAAAAAATATTTTTGCA-CAACA
* ** * *
4918133 ATACTCAAATCCAAGTG-CTCCGAAAATGAAATATAATAAATAATAAATTTTACAGTTATCTCAA
1 ATACTCAAACCCAAGTGCCT-CGAAAATGAAATATAATAAATAATATTTTTTAAAGTTATCTTAA
* ** *
4918197 AAAATTGAAAAATATTTTTGCACGACA
65 AATATAAAAAAATATTTTTGCACAACA
* ***
4918224 ATTCTCTTGCCCAAGTGCCTCGAAAATGAAATATAATAAATAATATTTTTTACAA-TTATCCTTA
1 ATACTCAAACCCAAGTGCCTCGAAAATGAAATATAATAAATAATATTTTTTA-AAGTTAT-CTTA
*
4918288 AAAAATTAAAAAAATAT
64 AAATA-TAAAAAAATAT
4918305 CACCACCACA
Statistics
Matches: 211, Mismatches: 35, Indels: 30
0.76 0.13 0.11
Matches are distributed among these distances:
86 1 0.00
87 17 0.08
88 39 0.18
89 7 0.03
90 6 0.03
91 69 0.33
92 47 0.22
93 25 0.12
ACGTcount: A:0.47, C:0.13, G:0.09, T:0.32
Consensus pattern (91 bp):
ATACTCAAACCCAAGTGCCTCGAAAATGAAATATAATAAATAATATTTTTTAAAGTTATCTTAAA
ATATAAAAAAATATTTTTGCACAACA
Found at i:4918248 original size:91 final size:91
Alignment explanation
Indices: 4917886--4918356 Score: 335
Period size: 88 Copynumber: 5.3 Consensus size: 91
4917876 AAGTGACCAA
* * * * * * * *
4917886 AAAATAAAATGTAATAAATAATA-ATTTTACAGCTATCCTAAAAATTTTAAGAAATATTTTTG-G
1 AAAATGAAATATAATAAATAATATTTTTTACAGTTATCTTAAAAA-ATTAAAAAATATTTTTGCA
* * * *
4917949 GGACCATACTCAAGCTCAAGTG-TTCG
65 GCAACATACTCAAGCCCAAGTGCCTCG
* * * ** * ** *
4917975 AAAATAAAATATAATAAA-AATAATTTTTATAGTTATCTCGGAAAATTTAAAAAA-AAATTAG--
1 AAAATGAAATATAATAAATAATATTTTTTACAGTTATCT-TAAAAAATTAAAAAATATTTTTGCA
* *
4918036 GC-ACTATACGCAAGCCCAAGTGCCTCA
65 GCAAC-ATACTCAAGCCCAAGTGCCTCG
* * *
4918063 AAAATGAAATATTAA-AAATAAT-TTTTTTAAAGTTATCTTAGAATATATAAAAAAATATTTTTG
1 AAAATGAAATA-TAATAAATAATATTTTTTACAGTTATCTTA-AA-AAATTAAAAAATATTTTTG
**
4918126 CAGCAACATACTCAAATCCAAGTG-CTCCG
63 CAGCAACATACTCAAGCCCAAGTGCCT-CG
** * *
4918155 AAAATGAAATATAATAAATAATAAATTTTACAGTTATCTCAAAAAATTGAAAAATATTTTTGCA-
1 AAAATGAAATATAATAAATAATATTTTTTACAGTTATCTTAAAAAATTAAAAAATATTTTTGCAG
* * **
4918219 CGACAATTCTCTTGCCCAAGTGCCTCG
66 CAAC-ATACTCAAGCCCAAGTGCCTCG
* *
4918246 AAAATGAAATATAATAAATAATATTTTTTACAATTATCCTTAAAAAATTAAAAAA-A--TAT-CA
1 AAAATGAAATATAATAAATAATATTTTTTACAGTTAT-CTTAAAAAATTAAAAAATATTTTTGCA
* * * * * **
4918307 CCACCACACTCAAGCCTAACTATCTCG
65 GCAACATACTCAAGCCCAAGTGCCTCG
*
4918334 AAAATGAAATATAACAAATAATA
1 AAAATGAAATATAATAAATAATA
4918357 ATTAGTACAA
Statistics
Matches: 301, Mismatches: 62, Indels: 39
0.75 0.15 0.10
Matches are distributed among these distances:
86 1 0.00
87 16 0.05
88 77 0.26
89 54 0.18
90 11 0.04
91 72 0.24
92 54 0.18
93 16 0.05
ACGTcount: A:0.47, C:0.14, G:0.09, T:0.31
Consensus pattern (91 bp):
AAAATGAAATATAATAAATAATATTTTTTACAGTTATCTTAAAAAATTAAAAAATATTTTTGCAG
CAACATACTCAAGCCCAAGTGCCTCG
Found at i:4919920 original size:13 final size:13
Alignment explanation
Indices: 4919904--4919954 Score: 50
Period size: 13 Copynumber: 3.9 Consensus size: 13
4919894 TTTAAACCAG
4919904 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
*
4919917 ACTTTTCCACAA-C
1 ACTTTT-CAAAAGC
* * *
4919930 ATTTTTTAAAAAC
1 ACTTTTCAAAAGC
4919943 ACTTTTCAAAAG
1 ACTTTTCAAAAG
4919955 TATTACTAAA
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
12 3 0.10
13 22 0.76
14 4 0.14
ACGTcount: A:0.39, C:0.22, G:0.04, T:0.35
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:4920800 original size:2 final size:2
Alignment explanation
Indices: 4920795--4920827 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
4920785 TCTGTTTTAT
4920795 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
4920828 TTTAATTACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:4924213 original size:46 final size:46
Alignment explanation
Indices: 4924160--4924382 Score: 374
Period size: 46 Copynumber: 4.8 Consensus size: 46
4924150 ACATTGCTAT
* *
4924160 AACTCAGTATGGTTTTCTTCACGGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
*
4924206 AACTCAGTATGGTTTTCTTCATTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
*
4924252 AACTCAGTATGGTTTTCTTTACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
* * *
4924298 AACTCAGTATGGTTTTCTTTACTGAAACACCATATCTACTTTTGAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
*
4924344 AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTAC
4924383 GTCAATTCAT
Statistics
Matches: 167, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 167 1.00
ACGTcount: A:0.29, C:0.25, G:0.10, T:0.36
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
Found at i:4925622 original size:16 final size:17
Alignment explanation
Indices: 4925576--4925622 Score: 69
Period size: 17 Copynumber: 2.8 Consensus size: 17
4925566 AAATTCTTTT
4925576 TAAATCACAAAATTCAA
1 TAAATCACAAAATTCAA
*
4925593 TAAATCACAAAATTCAC
1 TAAATCACAAAATTCAA
*
4925610 TAATTCA-AAAATT
1 TAAATCACAAAATT
4925623 ATTCTAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
16 6 0.21
17 22 0.79
ACGTcount: A:0.55, C:0.17, G:0.00, T:0.28
Consensus pattern (17 bp):
TAAATCACAAAATTCAA
Found at i:4926693 original size:33 final size:33
Alignment explanation
Indices: 4926643--4926717 Score: 98
Period size: 34 Copynumber: 2.2 Consensus size: 33
4926633 AAACTAATCA
* *
4926643 TCTCTCAAATTTCCTCTC-AATTTCTTCTAAATT
1 TCTCTC-AATTTCCTCTCAAATTCCTTCAAAATT
*
4926676 TCCTCTCAATTTGCTCTCAAATTCCTTCAAAATT
1 T-CTCTCAATTTCCTCTCAAATTCCTTCAAAATT
4926710 TCTCTCAA
1 TCTCTCAA
4926718 ATCCATATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
33 18 0.49
34 19 0.51
ACGTcount: A:0.25, C:0.29, G:0.01, T:0.44
Consensus pattern (33 bp):
TCTCTCAATTTCCTCTCAAATTCCTTCAAAATT
Found at i:4926700 original size:22 final size:22
Alignment explanation
Indices: 4926643--4926719 Score: 97
Period size: 22 Copynumber: 3.5 Consensus size: 22
4926633 AAACTAATCA
4926643 TCTCTCAAATTTCCTCTCAATT
1 TCTCTCAAATTTCCTCTCAATT
4926665 TCT-TCTAAATTTCCTCTCAATT
1 TCTCTC-AAATTTCCTCTCAATT
4926687 TGCTCTCAAA-TTCCT-TCAAAATT
1 T-CTCTCAAATTTCCTCTC--AATT
4926710 TCTCTCAAAT
1 TCTCTCAAAT
4926720 CCATATTTAT
Statistics
Matches: 49, Mismatches: 0, Indels: 11
0.82 0.00 0.18
Matches are distributed among these distances:
21 4 0.08
22 33 0.67
23 10 0.20
24 2 0.04
ACGTcount: A:0.26, C:0.29, G:0.01, T:0.44
Consensus pattern (22 bp):
TCTCTCAAATTTCCTCTCAATT
Found at i:4926719 original size:11 final size:11
Alignment explanation
Indices: 4926643--4926719 Score: 72
Period size: 11 Copynumber: 6.9 Consensus size: 11
4926633 AAACTAATCA
4926643 TCTCTCAAATT
1 TCTCTCAAATT
4926654 TCCTCTC-AATT
1 T-CTCTCAAATT
4926665 TCT-TCTAAATT
1 TCTCTC-AAATT
4926676 TCCTCTC-AATT
1 T-CTCTCAAATT
4926687 TGCTCTCAAATT
1 T-CTCTCAAATT
*
4926699 CCT-TCAAAATT
1 TCTCTC-AAATT
4926710 TCTCTCAAAT
1 TCTCTCAAAT
4926720 CCATATTTAT
Statistics
Matches: 55, Mismatches: 3, Indels: 16
0.74 0.04 0.22
Matches are distributed among these distances:
9 2 0.04
10 4 0.07
11 34 0.62
12 13 0.24
13 2 0.04
ACGTcount: A:0.26, C:0.29, G:0.01, T:0.44
Consensus pattern (11 bp):
TCTCTCAAATT
Found at i:4937884 original size:40 final size:40
Alignment explanation
Indices: 4937821--4938040 Score: 160
Period size: 40 Copynumber: 5.5 Consensus size: 40
4937811 AGCTTTACTG
* * *
4937821 GCATTAGCGACGCTTTTTAAAAAATGCCACAATAGATCGA
1 GCATTAGCGGCGCTATTTGAAAAATGCCACAATAGATCGA
* ** ** *
4937861 GCATTAGTGGCGCTATTTGAAAAACACCACTTTAGATTGA
1 GCATTAGCGGCGCTATTTGAAAAATGCCACAATAGATCGA
* * * * * *
4937901 GCATTAGCGACGCT-TTTCAGAAAACGCTGCAAAAAATTTGAGC-A
1 GCATTAGCGGCGCTATTT--GAAAA--ATGC-CACAA-TAGATCGA
*
4937945 GCATTAGCGGCGCT-TTTTAAAAATGCCACAATAGATCGA
1 GCATTAGCGGCGCTATTTGAAAAATGCCACAATAGATCGA
* * * * * *
4937984 GTATTAGTGGTGCTATGTGAAAAACGCCACTATAGATCGA
1 GCATTAGCGGCGCTATTTGAAAAATGCCACAATAGATCGA
4938024 GCATTAGCGGCGC-ATTT
1 GCATTAGCGGCGCTATTT
4938041 CGGAAAACGC
Statistics
Matches: 133, Mismatches: 39, Indels: 17
0.70 0.21 0.09
Matches are distributed among these distances:
38 4 0.03
39 21 0.16
40 77 0.58
41 5 0.04
42 4 0.03
43 1 0.01
44 18 0.14
45 3 0.02
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.26
Consensus pattern (40 bp):
GCATTAGCGGCGCTATTTGAAAAATGCCACAATAGATCGA
Found at i:4938047 original size:123 final size:124
Alignment explanation
Indices: 4937821--4938064 Score: 382
Period size: 123 Copynumber: 2.0 Consensus size: 124
4937811 AGCTTTACTG
*
4937821 GCATTAGCGACGCTTTTTAAAAAATGCCACAATAGATCGAGCATTAGTGGCGCTATTTGAAAAAC
1 GCATTAGCGACGCTTTTTAAAAAATGCCACAATAGATCGAGCATTAGTGGCGCTATGTGAAAAAC
* * * *
4937886 ACCACTTTAGATTGAGCATTAGCGACGCTTTTCAGAAAACGCTGCAAAAAATTTGAGCA
66 ACCACTATAGATCGAGCATTAGCGACGCATTTCAGAAAACGCTACAAAAAATTTGAGCA
* * *
4937945 GCATTAGCGGCGCTTTTT-AAAAATGCCACAATAGATCGAGTATTAGTGGTGCTATGTGAAAAAC
1 GCATTAGCGACGCTTTTTAAAAAATGCCACAATAGATCGAGCATTAGTGGCGCTATGTGAAAAAC
* * *
4938009 GCCACTATAGATCGAGCATTAGCGGCGCATTTCGGAAAACGCTACAAAAAATTTGA
66 ACCACTATAGATCGAGCATTAGCGACGCATTTCAGAAAACGCTACAAAAAATTTGA
4938065 AGGACTTTTA
Statistics
Matches: 109, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
123 92 0.84
124 17 0.16
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (124 bp):
GCATTAGCGACGCTTTTTAAAAAATGCCACAATAGATCGAGCATTAGTGGCGCTATGTGAAAAAC
ACCACTATAGATCGAGCATTAGCGACGCATTTCAGAAAACGCTACAAAAAATTTGAGCA
Found at i:4938923 original size:104 final size:104
Alignment explanation
Indices: 4938756--4939702 Score: 1894
Period size: 104 Copynumber: 9.1 Consensus size: 104
4938746 AAATCGAAAA
4938756 AATTCGGTTAACCGACCGAATTAATCGAAAAAATTTCGGTTCGGTTAATTTTTTTGAAAAAAATT
1 AATTCGGTTAACCGACCGAATTAATCGAAAAAATTTCGGTTCGGTTAATTTTTTTGAAAAAAATT
4938821 TCGGTTCAGTTAACAGTTAAAGATTTTAAAATTTCGGTT
66 TCGGTTCAGTTAACAGTTAAAGATTTTAAAATTTCGGTT
4938860 AATTCGGTTAACCGACCGAATTAATCGAAAAAATTTCGGTTCGGTTAATTTTTTTGAAAAAAATT
1 AATTCGGTTAACCGACCGAATTAATCGAAAAAATTTCGGTTCGGTTAATTTTTTTGAAAAAAATT
4938925 TCGGTTCAGTTAACAGTTAAAGATTTTAAAATTTCGGTT
66 TCGGTTCAGTTAACAGTTAAAGATTTTAAAATTTCGGTT
4938964 AATTCGGTTAACCGACCGAATTAATCGAAAAAATTTCGGTTCGGTTAATTTTTTTGAAAAAAATT
1 AATTCGGTTAACCGACCGAATTAATCGAAAAAATTTCGGTTCGGTTAATTTTTTTGAAAAAAATT
4939029 TCGGTTCAGTTAACAGTTAAAGATTTTAAAATTTCGGTT
66 TCGGTTCAGTTAACAGTTAAAGATTTTAAAATTTCGGTT
4939068 AATTCGGTTAACCGACCGAATTAATCGAAAAAATTTCGGTTCGGTTAATTTTTTTGAAAAAAATT
1 AATTCGGTTAACCGACCGAATTAATCGAAAAAATTTCGGTTCGGTTAATTTTTTTGAAAAAAATT
4939133 TCGGTTCAGTTAACAGTTAAAGATTTTAAAATTTCGGTT
66 TCGGTTCAGTTAACAGTTAAAGATTTTAAAATTTCGGTT
4939172 AATTCGGTTAACCGACCGAATTAATCGAAAAAATTTCGGTTCGGTTAATTTTTTTGAAAAAAATT
1 AATTCGGTTAACCGACCGAATTAATCGAAAAAATTTCGGTTCGGTTAATTTTTTTGAAAAAAATT
4939237 TCGGTTCAGTTAACAGTTAAAGATTTTAAAATTTCGGTT
66 TCGGTTCAGTTAACAGTTAAAGATTTTAAAATTTCGGTT
4939276 AATTCGGTTAACCGACCGAATTAATCGAAAAAATTTCGGTTCGGTTAATTTTTTTGAAAAAAATT
1 AATTCGGTTAACCGACCGAATTAATCGAAAAAATTTCGGTTCGGTTAATTTTTTTGAAAAAAATT
4939341 TCGGTTCAGTTAACAGTTAAAGATTTTAAAATTTCGGTT
66 TCGGTTCAGTTAACAGTTAAAGATTTTAAAATTTCGGTT
4939380 AATTCGGTTAACCGACCGAATTAATCGAAAAAATTTCGGTTCGGTTAATTTTTTTGAAAAAAATT
1 AATTCGGTTAACCGACCGAATTAATCGAAAAAATTTCGGTTCGGTTAATTTTTTTGAAAAAAATT
4939445 TCGGTTCAGTTAACAGTTAAAGATTTTAAAATTTCGGTT
66 TCGGTTCAGTTAACAGTTAAAGATTTTAAAATTTCGGTT
4939484 AATTCGGTTAACCGACCGAATTAATCGAAAAAATTTCGGTTCGGTTAATTTTTTTGAAAAAAATT
1 AATTCGGTTAACCGACCGAATTAATCGAAAAAATTTCGGTTCGGTTAATTTTTTTGAAAAAAATT
4939549 TCGGTTCAGTTAACAGTTAAAGATTTTAAAATTTCGGTT
66 TCGGTTCAGTTAACAGTTAAAGATTTTAAAATTTCGGTT
4939588 AATTCGGTTAACCGACCGAATTAATCGAAAAAATTTCGGTTCGGTTAATTTTTTTGAAAAAAATT
1 AATTCGGTTAACCGACCGAATTAATCGAAAAAATTTCGGTTCGGTTAATTTTTTTGAAAAAAATT
4939653 TCGGTTCAGTTAACAGTTAAAGATTTTAAAATTTCGGTT
66 TCGGTTCAGTTAACAGTTAAAGATTTTAAAATTTCGGTT
4939692 AATTCGGTTAA
1 AATTCGGTTAA
4939703 TGTTATTTCG
Statistics
Matches: 843, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
104 843 1.00
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (104 bp):
AATTCGGTTAACCGACCGAATTAATCGAAAAAATTTCGGTTCGGTTAATTTTTTTGAAAAAAATT
TCGGTTCAGTTAACAGTTAAAGATTTTAAAATTTCGGTT
Found at i:4942862 original size:13 final size:13
Alignment explanation
Indices: 4942844--4942869 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4942834 CCAAAACACT
4942844 AAATATTGAACTC
1 AAATATTGAACTC
4942857 AAATATTGAACTC
1 AAATATTGAACTC
4942870 TAAACCCCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (13 bp):
AAATATTGAACTC
Found at i:4948692 original size:20 final size:20
Alignment explanation
Indices: 4948667--4948713 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
4948657 ACCCAAATTA
4948667 TTACAAACCCAAAACCTCGC
1 TTACAAACCCAAAACCTCGC
4948687 TTACAAACCCAAAACCTCGC
1 TTACAAACCCAAAACCTCGC
4948707 TTACAAA
1 TTACAAA
4948714 TCACAATAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.43, C:0.36, G:0.04, T:0.17
Consensus pattern (20 bp):
TTACAAACCCAAAACCTCGC
Found at i:4949426 original size:36 final size:36
Alignment explanation
Indices: 4949386--4949457 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
4949376 GTGGAAATCA
4949386 ATTTCTCTATTTTAGTGTTGAAACTTGTTGAATTGG
1 ATTTCTCTATTTTAGTGTTGAAACTTGTTGAATTGG
4949422 ATTTCTCTATTTTAGTGTTGAAACTTGTTGAATTGG
1 ATTTCTCTATTTTAGTGTTGAAACTTGTTGAATTGG
4949458 TTAAAGGGTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.22, C:0.08, G:0.19, T:0.50
Consensus pattern (36 bp):
ATTTCTCTATTTTAGTGTTGAAACTTGTTGAATTGG
Found at i:4951070 original size:30 final size:30
Alignment explanation
Indices: 4951013--4951085 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
4951003 TAACTTTTAT
**
4951013 AAATTACAATTTGACCCCCACAATTTCTCA
1 AAATTACAATTTGACCCAAACAATTTCTCA
* * * *
4951043 AAATTACATTTTGACCCAAATATTTTCTCT
1 AAATTACAATTTGACCCAAACAATTTCTCA
*
4951073 AAATTACACTTTG
1 AAATTACAATTTG
4951086 GCCCCAAAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.36, C:0.23, G:0.04, T:0.37
Consensus pattern (30 bp):
AAATTACAATTTGACCCAAACAATTTCTCA
Found at i:4951612 original size:16 final size:16
Alignment explanation
Indices: 4951591--4951644 Score: 63
Period size: 16 Copynumber: 3.2 Consensus size: 16
4951581 GAGGGGAACG
*
4951591 AAAAGAGAAAGAAGAA
1 AAAAGAGAAAAAAGAA
*
4951607 AAAAGAAAAAAAACGAA
1 AAAAGAGAAAAAA-GAA
*
4951624 AAAGAAAGAAAAAAGAA
1 AAA-AGAGAAAAAAGAA
4951641 AAAA
1 AAAA
4951645 ATCTAAAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
16 12 0.38
17 12 0.38
18 8 0.25
ACGTcount: A:0.81, C:0.02, G:0.17, T:0.00
Consensus pattern (16 bp):
AAAAGAGAAAAAAGAA
Found at i:4951642 original size:7 final size:7
Alignment explanation
Indices: 4951590--4951644 Score: 51
Period size: 7 Copynumber: 8.0 Consensus size: 7
4951580 GGAGGGGAAC
*
4951590 GAAAAGA
1 GAAAAAA
*
4951597 GAAAGAA
1 GAAAAAA
4951604 GAAAAAA
1 GAAAAAA
4951611 GAAAAAA
1 GAAAAAA
*
4951618 -AACGAAA
1 GAA-AAAA
*
4951625 -AAGAAA
1 GAAAAAA
4951631 GAAAAAA
1 GAAAAAA
4951638 GAAAAAA
1 GAAAAAA
4951645 ATCTAAAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
6 6 0.15
7 35 0.85
ACGTcount: A:0.80, C:0.02, G:0.18, T:0.00
Consensus pattern (7 bp):
GAAAAAA
Found at i:4951955 original size:11 final size:11
Alignment explanation
Indices: 4951917--4951969 Score: 56
Period size: 11 Copynumber: 4.7 Consensus size: 11
4951907 CAGCAGAGAG
*
4951917 GAAAAAAA-AG
1 GAAAAAAAGAA
4951927 GAAAAGAAAGAA
1 GAAAA-AAAGAA
4951939 -AAAAAAGACGAA
1 GAAAAAA-A-GAA
4951951 GAAAAAAAGAA
1 GAAAAAAAGAA
4951962 GAAAAAAA
1 GAAAAAAA
4951970 AAAAAGTTCA
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
10 7 0.19
11 19 0.51
12 5 0.14
13 6 0.16
ACGTcount: A:0.79, C:0.02, G:0.19, T:0.00
Consensus pattern (11 bp):
GAAAAAAAGAA
Found at i:4951957 original size:14 final size:13
Alignment explanation
Indices: 4951928--4951971 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
4951918 AAAAAAAAGG
4951928 AAAAGAA-AGAAAA
1 AAAAGAAGA-AAAA
*
4951941 AAAAGACGAAGAAA
1 AAAAGAAGAA-AAA
4951955 AAAAGAAGAAAAA
1 AAAAGAAGAAAAA
4951968 AAAA
1 AAAA
4951972 AAAGTTCAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 14 0.52
14 13 0.48
ACGTcount: A:0.82, C:0.02, G:0.16, T:0.00
Consensus pattern (13 bp):
AAAAGAAGAAAAA
Found at i:4951972 original size:14 final size:14
Alignment explanation
Indices: 4951928--4951972 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
4951918 AAAAAAAAGG
*
4951928 AAAAGAA-AGAAAA
1 AAAAGAAGAAAAAA
* *
4951941 AAAAGACGAAGAAA
1 AAAAGAAGAAAAAA
4951955 AAAAGAAGAAAAAA
1 AAAAGAAGAAAAAA
4951969 AAAA
1 AAAA
4951973 AAGTTCAATT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
13 6 0.23
14 20 0.77
ACGTcount: A:0.82, C:0.02, G:0.16, T:0.00
Consensus pattern (14 bp):
AAAAGAAGAAAAAA
Found at i:4951973 original size:15 final size:15
Alignment explanation
Indices: 4951917--4951973 Score: 55
Period size: 15 Copynumber: 3.8 Consensus size: 15
4951907 CAGCAGAGAG
*
4951917 GAAAAAAAAGGAA-AA
1 GAAAAAAAA-AAAGAA
*
4951932 GAAAGAAAAAAAAGAC
1 GAAA-AAAAAAAAGAA
*
4951948 G-AAGAAAAAAAGAA
1 GAAAAAAAAAAAGAA
4951962 GAAAAAAAAAAA
1 GAAAAAAAAAAA
4951974 AGTTCAATTT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
14 10 0.29
15 17 0.50
16 7 0.21
ACGTcount: A:0.81, C:0.02, G:0.18, T:0.00
Consensus pattern (15 bp):
GAAAAAAAAAAAGAA
Found at i:4952305 original size:21 final size:21
Alignment explanation
Indices: 4952280--4952345 Score: 61
Period size: 22 Copynumber: 3.3 Consensus size: 21
4952270 GAAAATATTC
4952280 AAAAATTTTCGTGTCTTCGAAA
1 AAAAATTTTCGTGTCTTCG-AA
*
4952302 AAAAAATTTCGTGT-TTCG--
1 AAAAATTTTCGTGTCTTCGAA
* *
4952320 --AAATTTTCTTGTCTTCAAA
1 AAAAATTTTCGTGTCTTCGAA
4952339 AAAAATT
1 AAAAATT
4952346 CGTGCTTTCA
Statistics
Matches: 35, Mismatches: 4, Indels: 11
0.70 0.08 0.22
Matches are distributed among these distances:
16 10 0.29
17 3 0.09
21 9 0.26
22 13 0.37
ACGTcount: A:0.38, C:0.12, G:0.11, T:0.39
Consensus pattern (21 bp):
AAAAATTTTCGTGTCTTCGAA
Found at i:4952306 original size:22 final size:21
Alignment explanation
Indices: 4952280--4952322 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
4952270 GAAAATATTC
*
4952280 AAAAATTTTCGTGTCTTCGAAA
1 AAAAAATTTCGTGT-TTCGAAA
4952302 AAAAAATTTCGTGTTTCGAAA
1 AAAAAATTTCGTGTTTCGAAA
4952323 TTTTCTTGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.35
Consensus pattern (21 bp):
AAAAAATTTCGTGTTTCGAAA
Found at i:4952324 original size:38 final size:37
Alignment explanation
Indices: 4952277--4952379 Score: 120
Period size: 37 Copynumber: 2.8 Consensus size: 37
4952267 ATCGAAAATA
4952277 TTCAAAAATTTTCGTGTCTTCGAAAAAAAAATTTCGTG-T
1 TTCAAAAATTTTCGTGTCTTC--AAAAAAAA-TTCGTGCT
* *
4952316 TTC-GAAATTTTCTTGTCTTCAAAAAAAATTCGTGCT
1 TTCAAAAATTTTCGTGTCTTCAAAAAAAATTCGTGCT
* * *
4952352 TTCAAAAATATTCGTGTTTTTAAAAAAA
1 TTCAAAAATTTTCGTGTCTTCAAAAAAA
4952380 TAAGGCTACA
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
35 6 0.11
36 12 0.22
37 19 0.35
38 15 0.27
39 3 0.05
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.40
Consensus pattern (37 bp):
TTCAAAAATTTTCGTGTCTTCAAAAAAAATTCGTGCT
Found at i:4952364 original size:18 final size:18
Alignment explanation
Indices: 4952337--4952380 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
4952327 CTTGTCTTCA
4952337 AAAAAAATTCGTGCTTTC
1 AAAAAAATTCGTGCTTTC
* * *
4952355 AAAAATATTCGTGTTTTT
1 AAAAAAATTCGTGCTTTC
4952373 AAAAAAAT
1 AAAAAAAT
4952381 AAGGCTACAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.36
Consensus pattern (18 bp):
AAAAAAATTCGTGCTTTC
Found at i:4952542 original size:20 final size:20
Alignment explanation
Indices: 4952482--4952584 Score: 69
Period size: 20 Copynumber: 5.4 Consensus size: 20
4952472 ATATAAAAAT
4952482 AAAAAAAATTT-GTG-TTTC
1 AAAAAAAATTTCGTGTTTTC
*
4952500 ---AAAAATTCCAGTG-TTTC
1 AAAAAAAATTTC-GTGTTTTC
*
4952517 -AAAAAATTTTCGTGTTTTC
1 AAAAAAAATTTCGTGTTTTC
* *
4952536 AAAAAAAATTCCCT-TGTTTC
1 AAAAAAAATTTCGTGT-TTTC
* *
4952556 AAAAAAAATCTCGCGTTTTC
1 AAAAAAAATTTCGTGTTTTC
4952576 AAAACAAAA
1 AAAA-AAAA
4952585 ATTCTCATGT
Statistics
Matches: 66, Mismatches: 10, Indels: 15
0.73 0.11 0.16
Matches are distributed among these distances:
15 7 0.11
17 7 0.11
18 3 0.05
19 12 0.18
20 32 0.48
21 5 0.08
ACGTcount: A:0.43, C:0.15, G:0.09, T:0.34
Consensus pattern (20 bp):
AAAAAAAATTTCGTGTTTTC
Found at i:4952543 original size:21 final size:21
Alignment explanation
Indices: 4952517--4952596 Score: 83
Period size: 20 Copynumber: 3.8 Consensus size: 21
4952507 CCAGTGTTTC
*
4952517 AAAAAATTTTCGTGTTTTCAA
1 AAAAAATTCTCGTGTTTTCAA
* *
4952538 AAAAAATTCCCTTG-TTTCAA
1 AAAAAATTCTCGTGTTTTCAA
*
4952558 AAAAAA-TCTCGCGTTTTCAAA
1 AAAAAATTCTCGTGTTTTC-AA
*
4952579 ACAAAAATTCTCATGTTT
1 A-AAAAATTCTCGTGTTT
4952597 CAATCGGATC
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
19 4 0.09
20 16 0.34
21 14 0.30
22 5 0.11
23 8 0.17
ACGTcount: A:0.40, C:0.16, G:0.07, T:0.36
Consensus pattern (21 bp):
AAAAAATTCTCGTGTTTTCAA
Found at i:4954395 original size:9 final size:9
Alignment explanation
Indices: 4954381--4954473 Score: 134
Period size: 9 Copynumber: 10.4 Consensus size: 9
4954371 GTAGTGCTTC
4954381 AATTCGGTT
1 AATTCGGTT
*
4954390 AATTCGGGT
1 AATTCGGTT
4954399 AATTCGGTT
1 AATTCGGTT
*
4954408 AATTCGGGT
1 AATTCGGTT
*
4954417 AATCCGGTT
1 AATTCGGTT
4954426 AATTC-GTT
1 AATTCGGTT
*
4954434 AATTCGGGT
1 AATTCGGTT
4954443 AATTCGGTT
1 AATTCGGTT
*
4954452 AATTCGGGT
1 AATTCGGTT
4954461 AATTCGGTT
1 AATTCGGTT
4954470 AATT
1 AATT
4954474 TTTAACCAAA
Statistics
Matches: 73, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
8 8 0.11
9 65 0.89
ACGTcount: A:0.24, C:0.12, G:0.25, T:0.40
Consensus pattern (9 bp):
AATTCGGTT
Found at i:4954436 original size:44 final size:45
Alignment explanation
Indices: 4954381--4954473 Score: 170
Period size: 44 Copynumber: 2.1 Consensus size: 45
4954371 GTAGTGCTTC
4954381 AATTCGGTTAATTCGGGTAATTCGGTTAATTCGGGTAATCCGGTT
1 AATTCGGTTAATTCGGGTAATTCGGTTAATTCGGGTAATCCGGTT
*
4954426 AATTC-GTTAATTCGGGTAATTCGGTTAATTCGGGTAATTCGGTT
1 AATTCGGTTAATTCGGGTAATTCGGTTAATTCGGGTAATCCGGTT
4954470 AATT
1 AATT
4954474 TTTAACCAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
44 42 0.89
45 5 0.11
ACGTcount: A:0.24, C:0.12, G:0.25, T:0.40
Consensus pattern (45 bp):
AATTCGGTTAATTCGGGTAATTCGGTTAATTCGGGTAATCCGGTT
Found at i:4956026 original size:2 final size:2
Alignment explanation
Indices: 4956019--4956052 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
4956009 CAAATACATC
* *
4956019 AT AT AT AT AT AT AT AT AT AT AT AT TT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4956053 TACAAATACG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4961894 original size:5 final size:5
Alignment explanation
Indices: 4961884--4961914 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
4961874 TGAGTATTCG
*
4961884 ATCGA ATCGA ATCGA ATCGA ATCAA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA A
4961915 AATTTTCGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.45, C:0.19, G:0.16, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:4963996 original size:16 final size:16
Alignment explanation
Indices: 4963960--4963998 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
4963950 CTTTAATTTA
4963960 TATATATACATACTTT
1 TATATATACATACTTT
* **
4963976 CATATATACATGTTTT
1 TATATATACATACTTT
4963992 TATATAT
1 TATATAT
4963999 TTCCATTATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.36, C:0.10, G:0.03, T:0.51
Consensus pattern (16 bp):
TATATATACATACTTT
Found at i:4964947 original size:41 final size:41
Alignment explanation
Indices: 4964886--4964970 Score: 134
Period size: 41 Copynumber: 2.1 Consensus size: 41
4964876 CCTCGTGCGT
*
4964886 AACCGACTCCCGAACTCATTTTCCTGAATTTCATGGACCAA
1 AACCGACTCCCGAACCCATTTTCCTGAATTTCATGGACCAA
* * *
4964927 AACCGTCTCCCGAACCCATTTTTCTGAATTTCGTGGACCAA
1 AACCGACTCCCGAACCCATTTTCCTGAATTTCATGGACCAA
4964968 AAC
1 AAC
4964971 TGTTGTTTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.28, C:0.32, G:0.13, T:0.27
Consensus pattern (41 bp):
AACCGACTCCCGAACCCATTTTCCTGAATTTCATGGACCAA
Found at i:4971309 original size:474 final size:476
Alignment explanation
Indices: 4970303--4971314 Score: 1814
Period size: 477 Copynumber: 2.1 Consensus size: 476
4970293 GTACTGAGGA
** *
4970303 AAAACTTAAATGATGCAGGAAGTAATTCAAGAGAAGAATGATCTTGCTAAAAAGCTGAGGACCAC
1 AAAACTTAAATGATGCAGGAAGTAGCTCAAGAGAAGAATGATCTTGCTAAAAAGCTGAGGAACAC
* *
4970368 CGAAGCTGATAAGAACAGCCTCGTTGAAGAATTGAGAACAGAAGTTGAAGCTCAAAACGCAGAAC
66 CGAAGCTGATAAGAACAGACTCGTTGAAGAATTGAGAACAGAAGTTGAAGCTCAAAAAGCAGAAC
*
4970433 AACAGTCACTTTCAAATGAAGTCCAGATGTTGAAGCAAGAACTTAAGCAGATCAAAAGAGAGAAA
131 AACAGTCACTTTCAAATGAAGTCCAGACGTTGAAGCAAGAACTTAAGCAGATCAAAAGAGAGAAA
*
4970498 CAGGAGAAGGAAGAGGAAATTGGACGCTGTAAGAACTATAATGATGAGCTGGAAGTGAAGTTAAA
196 CAGGAGAAGGAAGAGGAAATTGGACGCTGTAAGAACTATAATAATGAGCTGGAAGTGAAGTTAAA
*
4970563 TAGTTTGCAGGTTTGTTTCTTCTTACTTTCTCTGGGTCCTAGTTATGTTAATGGTTCTTTCTACC
261 TAGTTTGCAGGTTTG-TTCTTCTTACTTTCTCTGGGTCCTAGTTATGATAATGGTTCTTTCTACC
*
4970628 GTAAATCTAAAACTTCACATTCAGTTCAATTTTGTTTTGCATCTGACCTGGTTGTCCTTGCTAGA
325 ATAAATCTAAAACTTCACATTCAGTTCAATTTTGTTTTGCATCTGACCTGGTTGTCCTTGCTAGA
*
4970693 TTATCCTCGCAGAAGGACAAAAGCCTCTATTGGCTGTAAAATGTTTCCAAGTGCCCTTTGCCTTT
390 GTATCCTCGCAGAAGGACAAAAGCCTCTATTGGCTGTAAAATGTTTCCAAGTGCCCTTTGCCTTT
4970758 GAGGAGTCATCTTACTGTGGTG
455 GAGGAGTCATCTTACTGTGGTG
*
4970780 AAAACTTAAATGATGCAGGAAGTAGCTCAAGAGAAGAATGATCTTGCTAAAAAGCTGAGGAAGAC
1 AAAACTTAAATGATGCAGGAAGTAGCTCAAGAGAAGAATGATCTTGCTAAAAAGCTGAGGAACAC
* * *
4970845 TGAAGCTGATAAGAACAGATTCGTTGAAGAATTGAGAACAGAAGTTGGAGCTCAAAAAGCAGAAC
66 CGAAGCTGATAAGAACAGACTCGTTGAAGAATTGAGAACAGAAGTTGAAGCTCAAAAAGCAGAAC
*
4970910 AACAGTCACTTTCAAATGAAGTCCAGACGTTGAAGCAAGAACTTAGGCAGATCAAAAGAGAGAAA
131 AACAGTCACTTTCAAATGAAGTCCAGACGTTGAAGCAAGAACTTAAGCAGATCAAAAGAGAGAAA
*
4970975 CAGGAGAAGGAAGAGGAAATTGGACGCTGTAAGAACTATAATAATGAGCTGGAAGTGAAGTTGAA
196 CAGGAGAAGGAAGAGGAAATTGGACGCTGTAAGAACTATAATAATGAGCTGGAAGTGAAGTTAAA
4971040 TAGTTTGCAGGTTTG-TC-TCTTACTTTCTCTGGGT-CTCAGTTATGATAATGGTTCTTTCTACC
261 TAGTTTGCAGGTTTGTTCTTCTTACTTTCTCTGGGTCCT-AGTTATGATAATGGTTCTTTCTACC
4971102 ATAAATCTAAAACTTCACATTCAGTTCAATTTTGTTTTGCATCTGACCTGGTTGTCCTTGCTAGA
325 ATAAATCTAAAACTTCACATTCAGTTCAATTTTGTTTTGCATCTGACCTGGTTGTCCTTGCTAGA
*
4971167 GTATCTTCGCAGAAGGACAAAAGCCTCTATTGGCTGTAAAATGTTTCCAAGTGCCCTTTGCCTTT
390 GTATCCTCGCAGAAGGACAAAAGCCTCTATTGGCTGTAAAATGTTTCCAAGTGCCCTTTGCCTTT
4971232 GAGGAGTCATCTTACTGTGGTG
455 GAGGAGTCATCTTACTGTGGTG
* *
4971254 AAAACTTAAATGATGCAGGCAGTAGCTCAAGAGAAGAATGATCTTGCTGAAAAGCTGAGGA
1 AAAACTTAAATGATGCAGGAAGTAGCTCAAGAGAAGAATGATCTTGCTAAAAAGCTGAGGA
4971315 CTGCAGAAGC
Statistics
Matches: 515, Mismatches: 19, Indels: 5
0.96 0.04 0.01
Matches are distributed among these distances:
473 2 0.00
474 249 0.48
475 2 0.00
477 262 0.51
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (476 bp):
AAAACTTAAATGATGCAGGAAGTAGCTCAAGAGAAGAATGATCTTGCTAAAAAGCTGAGGAACAC
CGAAGCTGATAAGAACAGACTCGTTGAAGAATTGAGAACAGAAGTTGAAGCTCAAAAAGCAGAAC
AACAGTCACTTTCAAATGAAGTCCAGACGTTGAAGCAAGAACTTAAGCAGATCAAAAGAGAGAAA
CAGGAGAAGGAAGAGGAAATTGGACGCTGTAAGAACTATAATAATGAGCTGGAAGTGAAGTTAAA
TAGTTTGCAGGTTTGTTCTTCTTACTTTCTCTGGGTCCTAGTTATGATAATGGTTCTTTCTACCA
TAAATCTAAAACTTCACATTCAGTTCAATTTTGTTTTGCATCTGACCTGGTTGTCCTTGCTAGAG
TATCCTCGCAGAAGGACAAAAGCCTCTATTGGCTGTAAAATGTTTCCAAGTGCCCTTTGCCTTTG
AGGAGTCATCTTACTGTGGTG
Found at i:4971326 original size:474 final size:476
Alignment explanation
Indices: 4970303--4971333 Score: 1811
Period size: 474 Copynumber: 2.2 Consensus size: 476
4970293 GTACTGAGGA
**
4970303 AAAACTTAAATGATGCAGGAAGTAATTCAAGAGAAGAATGATCTTGCTAAAAAGCTGAGGACCA-
1 AAAACTTAAATGATGCAGGAAGTAGCTCAAGAGAAGAATGATCTTGCTAAAAAGCTGAGGA-CAG
* * *
4970367 CCGAAGCTGATAAGAACAGCCTCGTTGAAGAATTGAGAACAGAAGTTGAAGCTCAAAACGCAGAA
65 CAGAAGCTGATAAGAACAGACTCGTTGAAGAATTGAGAACAGAAGTTGAAGCTCAAAAAGCAGAA
*
4970432 CAACAGTCACTTTCAAATGAAGTCCAGATGTTGAAGCAAGAACTTAAGCAGATCAAAAGAGAGAA
130 CAACAGTCACTTTCAAATGAAGTCCAGACGTTGAAGCAAGAACTTAAGCAGATCAAAAGAGAGAA
*
4970497 ACAGGAGAAGGAAGAGGAAATTGGACGCTGTAAGAACTATAATGATGAGCTGGAAGTGAAGTTAA
195 ACAGGAGAAGGAAGAGGAAATTGGACGCTGTAAGAACTATAATAATGAGCTGGAAGTGAAGTTAA
*
4970562 ATAGTTTGCAGGTTTGTTTCTTCTTACTTTCTCTGGGTCCTAGTTATGTTAATGGTTCTTTCTAC
260 ATAGTTTGCAGGTTTG-TTCTTCTTACTTTCTCTGGGTCCTAGTTATGATAATGGTTCTTTCTAC
*
4970627 CGTAAATCTAAAACTTCACATTCAGTTCAATTTTGTTTTGCATCTGACCTGGTTGTCCTTGCTAG
324 CATAAATCTAAAACTTCACATTCAGTTCAATTTTGTTTTGCATCTGACCTGGTTGTCCTTGCTAG
*
4970692 ATTATCCTCGCAGAAGGACAAAAGCCTCTATTGGCTGTAAAATGTTTCCAAGTGCCCTTTGCCTT
389 AGTATCCTCGCAGAAGGACAAAAGCCTCTATTGGCTGTAAAATGTTTCCAAGTGCCCTTTGCCTT
4970757 TGAGGAGTCATCTTACTGTGGTG
454 TGAGGAGTCATCTTACTGTGGTG
4970780 AAAACTTAAATGATGCAGGAAGTAGCTCAAGAGAAGAATGATCTTGCTAAAAAGCTGAGGA-AGA
1 AAAACTTAAATGATGCAGGAAGTAGCTCAAGAGAAGAATGATCTTGCTAAAAAGCTGAGGACAG-
* * *
4970844 CTGAAGCTGATAAGAACAGATTCGTTGAAGAATTGAGAACAGAAGTTGGAGCTCAAAAAGCAGAA
65 CAGAAGCTGATAAGAACAGACTCGTTGAAGAATTGAGAACAGAAGTTGAAGCTCAAAAAGCAGAA
*
4970909 CAACAGTCACTTTCAAATGAAGTCCAGACGTTGAAGCAAGAACTTAGGCAGATCAAAAGAGAGAA
130 CAACAGTCACTTTCAAATGAAGTCCAGACGTTGAAGCAAGAACTTAAGCAGATCAAAAGAGAGAA
*
4970974 ACAGGAGAAGGAAGAGGAAATTGGACGCTGTAAGAACTATAATAATGAGCTGGAAGTGAAGTTGA
195 ACAGGAGAAGGAAGAGGAAATTGGACGCTGTAAGAACTATAATAATGAGCTGGAAGTGAAGTTAA
4971039 ATAGTTTGCAGGTTTG-TC-TCTTACTTTCTCTGGGT-CTCAGTTATGATAATGGTTCTTTCTAC
260 ATAGTTTGCAGGTTTGTTCTTCTTACTTTCTCTGGGTCCT-AGTTATGATAATGGTTCTTTCTAC
4971101 CATAAATCTAAAACTTCACATTCAGTTCAATTTTGTTTTGCATCTGACCTGGTTGTCCTTGCTAG
324 CATAAATCTAAAACTTCACATTCAGTTCAATTTTGTTTTGCATCTGACCTGGTTGTCCTTGCTAG
*
4971166 AGTATCTTCGCAGAAGGACAAAAGCCTCTATTGGCTGTAAAATGTTTCCAAGTGCCCTTTGCCTT
389 AGTATCCTCGCAGAAGGACAAAAGCCTCTATTGGCTGTAAAATGTTTCCAAGTGCCCTTTGCCTT
4971231 TGAGGAGTCATCTTACTGTGGTG
454 TGAGGAGTCATCTTACTGTGGTG
* * *
4971254 AAAACTTAAATGATGCAGGCAGTAGCTCAAGAGAAGAATGATCTTGCTGAAAAGCTGAGGACTGC
1 AAAACTTAAATGATGCAGGAAGTAGCTCAAGAGAAGAATGATCTTGCTAAAAAGCTGAGGACAGC
*
4971319 AGAAGCTGAGAAGAA
66 AGAAGCTGATAAGAA
4971334 AAACTTGGCC
Statistics
Matches: 530, Mismatches: 20, Indels: 11
0.94 0.04 0.02
Matches are distributed among these distances:
473 2 0.00
474 263 0.50
475 4 0.01
477 261 0.49
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (476 bp):
AAAACTTAAATGATGCAGGAAGTAGCTCAAGAGAAGAATGATCTTGCTAAAAAGCTGAGGACAGC
AGAAGCTGATAAGAACAGACTCGTTGAAGAATTGAGAACAGAAGTTGAAGCTCAAAAAGCAGAAC
AACAGTCACTTTCAAATGAAGTCCAGACGTTGAAGCAAGAACTTAAGCAGATCAAAAGAGAGAAA
CAGGAGAAGGAAGAGGAAATTGGACGCTGTAAGAACTATAATAATGAGCTGGAAGTGAAGTTAAA
TAGTTTGCAGGTTTGTTCTTCTTACTTTCTCTGGGTCCTAGTTATGATAATGGTTCTTTCTACCA
TAAATCTAAAACTTCACATTCAGTTCAATTTTGTTTTGCATCTGACCTGGTTGTCCTTGCTAGAG
TATCCTCGCAGAAGGACAAAAGCCTCTATTGGCTGTAAAATGTTTCCAAGTGCCCTTTGCCTTTG
AGGAGTCATCTTACTGTGGTG
Found at i:4992060 original size:15 final size:15
Alignment explanation
Indices: 4992040--4992085 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 15
4992030 TTACTTCATA
4992040 TTATATTTTAGTTAT
1 TTATATTTTAGTTAT
* **
4992055 TTATA-TTAAAATA-
1 TTATATTTTAGTTAT
4992068 TTATATTTTAGTTAT
1 TTATATTTTAGTTAT
4992083 TTA
1 TTA
4992086 CGTTAATATA
Statistics
Matches: 23, Mismatches: 6, Indels: 4
0.70 0.18 0.12
Matches are distributed among these distances:
13 5 0.22
14 10 0.43
15 8 0.35
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (15 bp):
TTATATTTTAGTTAT
Found at i:4992091 original size:28 final size:28
Alignment explanation
Indices: 4992037--4992097 Score: 95
Period size: 28 Copynumber: 2.2 Consensus size: 28
4992027 TTTTTACTTC
*
4992037 ATATTATATTTTAGTTATTTATATTAAA
1 ATATTATATTTTAGTTATTTACATTAAA
* *
4992065 ATATTATATTTTAGTTATTTACGTTAAT
1 ATATTATATTTTAGTTATTTACATTAAA
4992093 ATATT
1 ATATT
4992098 GTAACATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (28 bp):
ATATTATATTTTAGTTATTTACATTAAA
Found at i:5001235 original size:46 final size:45
Alignment explanation
Indices: 5001071--5001235 Score: 165
Period size: 46 Copynumber: 3.6 Consensus size: 45
5001061 CAGGTCTTAA
*
5001071 TATTCCTGTATTCTCGAGTCCACAACATATGCATGAGCTAGAAACC
1 TATT-CTGTATTCTCGAGTCCACAACATATGCAGGAGCTAGAAACC
* * * *
5001117 TAAATT-TGTATTATCGAGTCCACAACATATACAGGA-CTCGAAACT
1 T--ATTCTGTATTCTCGAGTCCACAACATATGCAGGAGCTAGAAACC
* * * **
5001162 TATTCTCATATTCTCAAGTTCGTAACATATGCAGGAGCTTAG-AACC
1 TATTCT-GTATTCTCGAGTCCACAACATATGCAGGAGC-TAGAAACC
5001208 TATTCCTGTATTCTCGAGTCCACAACAT
1 TATT-CTGTATTCTCGAGTCCACAACAT
5001236 TGTAGAAGCT
Statistics
Matches: 93, Mismatches: 19, Indels: 14
0.74 0.15 0.11
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 30 0.32
46 52 0.56
47 4 0.04
48 3 0.03
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.31
Consensus pattern (45 bp):
TATTCTGTATTCTCGAGTCCACAACATATGCAGGAGCTAGAAACC
Found at i:5007214 original size:22 final size:22
Alignment explanation
Indices: 5007185--5007239 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
5007175 TGCACTAATG
5007185 AACAGAGAGCACTAAAT-TGCTA
1 AACAGAGAGCAC-AAATGTGCTA
* *
5007207 TACAGAGAGCACATATGTGCTA
1 AACAGAGAGCACAAATGTGCTA
5007229 AACAGAGAGCA
1 AACAGAGAGCA
5007240 ATGATGTGCT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 3 0.10
22 26 0.90
ACGTcount: A:0.44, C:0.18, G:0.22, T:0.16
Consensus pattern (22 bp):
AACAGAGAGCACAAATGTGCTA
Found at i:5007246 original size:22 final size:21
Alignment explanation
Indices: 5007185--5007251 Score: 73
Period size: 22 Copynumber: 3.0 Consensus size: 21
5007175 TGCACTAATG
*
5007185 AACAGAGAGCACTAAAT-TGCTA
1 AACAGAGAGCA--ATATGTGCTA
*
5007207 TACAGAGAGCACATATGTGCTA
1 AACAGAGAGCA-ATATGTGCTA
5007229 AACAGAGAGCAATGATGTGCTA
1 AACAGAGAGCAAT-ATGTGCTA
5007251 A
1 A
5007252 TAATCAGAGA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
21 5 0.13
22 34 0.87
ACGTcount: A:0.42, C:0.16, G:0.22, T:0.19
Consensus pattern (21 bp):
AACAGAGAGCAATATGTGCTA
Found at i:5007575 original size:16 final size:15
Alignment explanation
Indices: 5007549--5007587 Score: 62
Period size: 16 Copynumber: 2.6 Consensus size: 15
5007539 TCATAGTTCC
5007549 ATAATATTTTATTTT
1 ATAATATTTTATTTT
5007564 ATAATGATTTTATTTT
1 ATAAT-ATTTTATTTT
5007580 ATAA-ATTT
1 ATAATATTT
5007588 AAATATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 4 0.17
15 5 0.22
16 14 0.61
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (15 bp):
ATAATATTTTATTTT
Found at i:5011458 original size:20 final size:19
Alignment explanation
Indices: 5011400--5011456 Score: 73
Period size: 19 Copynumber: 3.1 Consensus size: 19
5011390 TTACAAAAAA
5011400 AAAAATTCAAAATAATTT-T
1 AAAAATTCAAAAT-ATTTAT
*
5011419 TAAAATTCAAAATATTTAT
1 AAAAATTCAAAATATTTAT
*
5011438 AAAAATTCCAAA-ATTTAT
1 AAAAATTCAAAATATTTAT
5011456 A
1 A
5011457 TATTTTTTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
18 11 0.32
19 23 0.68
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (19 bp):
AAAAATTCAAAATATTTAT
Found at i:5011462 original size:44 final size:44
Alignment explanation
Indices: 5011415--5011502 Score: 106
Period size: 44 Copynumber: 2.0 Consensus size: 44
5011405 TTCAAAATAA
* * *
5011415 TTTTTAAAATTCA-AAATATTTATAAAAATTCCAAAATTTATATAT
1 TTTTTAAAATT-ATAAA-ATTTAAAAAAAATCCAAAATATATATAT
* *
5011460 TTTTTTAAATTATAAAATTTAAAAAAAATCTAAAATATATATA
1 TTTTTAAAATTATAAAATTTAAAAAAAATCCAAAATATATATA
5011503 ATTAAAAAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
44 24 0.65
45 13 0.35
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (44 bp):
TTTTTAAAATTATAAAATTTAAAAAAAATCCAAAATATATATAT
Found at i:5012096 original size:60 final size:61
Alignment explanation
Indices: 5012025--5012140 Score: 164
Period size: 60 Copynumber: 1.9 Consensus size: 61
5012015 TGAGTTAAAT
*
5012025 CACATTTGAGGCCTGAA-TTTTTTATTAGTCCAAGTTAGGCTCTAAACTTGACAATTATTTC
1 CACATTTGAGGCCTGAACTTTTTT-TTAGTCCAAGTTAGGCCCTAAACTTGACAATTATTTC
* * * *
5012086 CACA-TTGAGGCTTGAACTTTTTTTTAGTCCAGGTTAGGCCCTGAACTTGGCAATT
1 CACATTTGAGGCCTGAACTTTTTTTTAGTCCAAGTTAGGCCCTAAACTTGACAATT
5012141 GTCCTTACAT
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
60 39 0.80
61 10 0.20
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (61 bp):
CACATTTGAGGCCTGAACTTTTTTTTAGTCCAAGTTAGGCCCTAAACTTGACAATTATTTC
Found at i:5012151 original size:60 final size:59
Alignment explanation
Indices: 5012024--5012176 Score: 161
Period size: 60 Copynumber: 2.6 Consensus size: 59
5012014 CTGAGTTAAA
* *
5012024 TCACATTTGAGGCCTGAA-TTTTTTATTAGTCCAAGTTAGGCTCTAAACTTGACAATTATT
1 TCACA-TTGAGGCTTGAACTTTTTT-TTAGTCCAAGTTAGGCCCTAAACTTGACAATTATT
* * * *
5012084 TCCACATTGAGGCTTGAACTTTTTTTTAGTCCAGGTTAGGCCCTGAACTTGGCAATTGTCCT
1 T-CACATTGAGGCTTGAACTTTTTTTTAGTCCAAGTTAGGCCCTAAACTTGACAATTAT--T
* *
5012146 T-ACATTAAGGTTTGAAC-TTTTTTT-GTCCAAG
1 TCACATTGAGGCTTGAACTTTTTTTTAGTCCAAG
5012177 ATATTCCTTG
Statistics
Matches: 80, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
58 6 0.08
59 7 0.09
60 55 0.69
61 10 0.12
62 2 0.03
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.40
Consensus pattern (59 bp):
TCACATTGAGGCTTGAACTTTTTTTTAGTCCAAGTTAGGCCCTAAACTTGACAATTATT
Found at i:5021704 original size:20 final size:19
Alignment explanation
Indices: 5021646--5021702 Score: 73
Period size: 19 Copynumber: 3.1 Consensus size: 19
5021636 TTACAAAAAA
5021646 AAAAATTCAAAATAATTT-T
1 AAAAATTCAAAAT-ATTTAT
*
5021665 TAAAATTCAAAATATTTAT
1 AAAAATTCAAAATATTTAT
*
5021684 AAAAATTCCAAA-ATTTAT
1 AAAAATTCAAAATATTTAT
5021702 A
1 A
5021703 TATTTTTTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
18 11 0.32
19 23 0.68
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (19 bp):
AAAAATTCAAAATATTTAT
Found at i:5021708 original size:44 final size:44
Alignment explanation
Indices: 5021661--5021748 Score: 106
Period size: 44 Copynumber: 2.0 Consensus size: 44
5021651 TTCAAAATAA
* * *
5021661 TTTTTAAAATTCA-AAATATTTATAAAAATTCCAAAATTTATATAT
1 TTTTTAAAATT-ATAAA-ATTTAAAAAAAATCCAAAATATATATAT
* *
5021706 TTTTTTAAATTATAAAATTTAAAAAAAATCTAAAATATATATA
1 TTTTTAAAATTATAAAATTTAAAAAAAATCCAAAATATATATA
5021749 ATTAAAAAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
44 24 0.65
45 13 0.35
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (44 bp):
TTTTTAAAATTATAAAATTTAAAAAAAATCCAAAATATATATAT
Found at i:5023814 original size:25 final size:25
Alignment explanation
Indices: 5023785--5023837 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
5023775 AACATACCAC
5023785 AACAGGAATGCCTACATATTCACTA
1 AACAGGAATGCCTACATATTCACTA
5023810 AACAGGAATGCCTACATATTCACTA
1 AACAGGAATGCCTACATATTCACTA
5023835 AAC
1 AAC
5023838 CAACATCATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.42, C:0.25, G:0.11, T:0.23
Consensus pattern (25 bp):
AACAGGAATGCCTACATATTCACTA
Found at i:5028118 original size:40 final size:40
Alignment explanation
Indices: 5028072--5028240 Score: 329
Period size: 40 Copynumber: 4.2 Consensus size: 40
5028062 TTAATCACAC
5028072 TCAATTCATATGTGTAATAACCGATTTCACATTTAATCTT
1 TCAATTCATATGTGTAATAACCGATTTCACATTTAATCTT
5028112 TCAATTCATATGTGTAATAACCGATTTCACATTTAATCTT
1 TCAATTCATATGTGTAATAACCGATTTCACATTTAATCTT
5028152 TCAATTCATATGTGTAATAACCGATTTCACATTTAATCTT
1 TCAATTCATATGTGTAATAACCGATTTCACATTTAATCTT
5028192 TCAATTCATATGTGTAATAACCGATTTCACATTTAATCTT
1 TCAATTCATATGTGTAATAACCGATTTCACATTTAATCTT
*
5028232 TCTATTCAT
1 TCAATTCAT
5028241 TTTGAATTCA
Statistics
Matches: 128, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 128 1.00
ACGTcount: A:0.32, C:0.18, G:0.07, T:0.43
Consensus pattern (40 bp):
TCAATTCATATGTGTAATAACCGATTTCACATTTAATCTT
Found at i:5033582 original size:50 final size:50
Alignment explanation
Indices: 5033515--5033657 Score: 169
Period size: 50 Copynumber: 2.9 Consensus size: 50
5033505 CAATGCTATA
* ** * *
5033515 TCCCAGATATGGTCTTACATGAGAGTTCTCATATAGGTGCCCATGCCATG
1 TCCCAGACATGGTCTTACATGAGACCTCTCATATAGGTGCCAACGCCATG
* ** * * *
5033565 TCTCAGACATGGTCTTACGGGGGACCTCTCATCTTGGTGCCAACGCCATG
1 TCCCAGACATGGTCTTACATGAGACCTCTCATATAGGTGCCAACGCCATG
* *
5033615 TCCCAGACATGGTCTTACATGAGACCTCTCATCTCGGTGCCAA
1 TCCCAGACATGGTCTTACATGAGACCTCTCATATAGGTGCCAA
5033658 ATATGATCAA
Statistics
Matches: 77, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 77 1.00
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (50 bp):
TCCCAGACATGGTCTTACATGAGACCTCTCATATAGGTGCCAACGCCATG
Found at i:5036275 original size:21 final size:21
Alignment explanation
Indices: 5036246--5036287 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
5036236 TATGGTAGTG
5036246 TTAAAGTTTCGACAGTAAATT
1 TTAAAGTTTCGACAGTAAATT
* * *
5036267 TTAACGTTTCGGCAGTCAATT
1 TTAAAGTTTCGACAGTAAATT
5036288 AATTAAAAAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.38
Consensus pattern (21 bp):
TTAAAGTTTCGACAGTAAATT
Found at i:5037813 original size:2 final size:2
Alignment explanation
Indices: 5037808--5037845 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
5037798 TATATATATA
*
5037808 TG TG TG TG TG TG TG TG TC TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
5037846 GTAATTTTGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.03, G:0.47, T:0.50
Consensus pattern (2 bp):
TG
Found at i:5038053 original size:120 final size:120
Alignment explanation
Indices: 5037902--5038145 Score: 443
Period size: 120 Copynumber: 2.0 Consensus size: 120
5037892 GATAAAGGTT
* * * *
5037902 AGGTATATTTGGTCTATTAAGTGACATAATTGAGAAGTATGATAGGTGGGTCATTTTATGTGTGA
1 AGGTATATTTGGTCTATTAAGTGAAATAATTGAGAAGTATGATAGGTGAGACATTCTATGTGTGA
5037967 GATGATGGTATAATTTGGCTTGGTTAAGTAAGTTAAAAGGATGATTATACCATTG
66 GATGATGGTATAATTTGGCTTGGTTAAGTAAGTTAAAAGGATGATTATACCATTG
5038022 AGGTATATTTGGTCTATTAAGTGAAATAATTGAGAAGTATGATAGGTGAGACATTCTATGTGTGA
1 AGGTATATTTGGTCTATTAAGTGAAATAATTGAGAAGTATGATAGGTGAGACATTCTATGTGTGA
*
5038087 GATGATGGTATAATTTGTCTTGGTTAAGTAAGTTAAAAGGATGATTATACCATTG
66 GATGATGGTATAATTTGGCTTGGTTAAGTAAGTTAAAAGGATGATTATACCATTG
5038142 AGGT
1 AGGT
5038146 TGCACTGATT
Statistics
Matches: 119, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
120 119 1.00
ACGTcount: A:0.32, C:0.05, G:0.26, T:0.37
Consensus pattern (120 bp):
AGGTATATTTGGTCTATTAAGTGAAATAATTGAGAAGTATGATAGGTGAGACATTCTATGTGTGA
GATGATGGTATAATTTGGCTTGGTTAAGTAAGTTAAAAGGATGATTATACCATTG
Done.