Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold513
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: 613464
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
File 3 of 5
Found at i:267322 original size:15 final size:15
Alignment explanation
Indices: 267302--267340 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
267292 TAAAGATGTC
*
267302 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
267317 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
*
267332 CCAAATGAA
1 CAAAATGAA
267341 ATTGATGTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.51, C:0.15, G:0.21, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:269425 original size:20 final size:21
Alignment explanation
Indices: 269346--269424 Score: 72
Period size: 20 Copynumber: 3.7 Consensus size: 21
269336 AATGTCCAAA
*
269346 ATGTATCGATACATGTTTT-T
1 ATGTATCGATACATCTTTTCT
* *
269366 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACATCT----TTTCT
269391 ATGTATCGATACAT-TTTTCT
1 ATGTATCGATACATCTTTTCT
*
269411 TTGTATCGATACAT
1 ATGTATCGATACAT
269425 TGTATCGATA
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
20 31 0.65
24 3 0.06
25 14 0.29
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.44
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTCT
Found at i:269429 original size:13 final size:13
Alignment explanation
Indices: 269411--269449 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
269401 ACATTTTTCT
269411 TTGTATCGATACA
1 TTGTATCGATACA
269424 TTGTATCGATACA
1 TTGTATCGATACA
*
269437 CTGTATCGATACA
1 TTGTATCGATACA
269450 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:271909 original size:20 final size:20
Alignment explanation
Indices: 271886--271958 Score: 92
Period size: 20 Copynumber: 3.6 Consensus size: 20
271876 ACAATTCAAA
271886 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
*****
271906 GTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCA-AT
271927 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
271947 GTATCGATACAT
1 GTATCGATACAT
271959 AAAAAAGATG
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
20 27 0.64
21 15 0.36
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:271930 original size:21 final size:21
Alignment explanation
Indices: 271904--271979 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
271894 ACATGTTGCA
271904 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATAAAAAAG
*****
271925 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATAAAAAAG
271945 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATAAAAAAG
271966 ATGTATCGATACAT
1 ATGTATCGATACAT
271980 TTCTTGGCAG
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.43, C:0.12, G:0.16, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATAAAAAAG
Found at i:271937 original size:41 final size:41
Alignment explanation
Indices: 271886--271979 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
271876 ACAATTCAAA
271886 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
271927 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
271968 GTATCGATACAT
1 GTATCGATACAT
271980 TTCTTGGCAG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:272036 original size:13 final size:13
Alignment explanation
Indices: 272018--272043 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
272008 TACAGCAAGT
272018 ATGTATCGATACA
1 ATGTATCGATACA
272031 ATGTATCGATACA
1 ATGTATCGATACA
272044 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:273980 original size:409 final size:410
Alignment explanation
Indices: 273220--274039 Score: 1394
Period size: 409 Copynumber: 2.0 Consensus size: 410
273210 AGTGTATGCC
* * * * *
273220 TATGTGCCTGTTTTTAATCCGCACCTAGGGAGTCTCATTTACTTGCCGTAAAAAGAATTTTTAGA
1 TATGTGCCCGTTTTCAATCCGCACCTAAGCAGTCTCATTTACATGCCGTAAAAAGAATTTTTAGA
*
273285 TATTTACGAGACACTCCAAACCTAGGTTTATGGTACCCTAAGGAATCCTCCCTAGCTTTACATGC
66 TATTTACGAGACACTCCAAACCTAGGTTTATGGTACCCTAAGGAATCCTCCCTAGCCTTACATGC
* * *
273350 TTACTCGGATGCAGATTTTGGTGGTTGTAAAATAGATAGAAAAAGCACTTCCGGGCACTTGTCAA
131 TTACTCCGATGCAGATTTCGGTGGTTGTAAAATAGATAGAAAAAACACTTCCGGGCACTTGTCAA
273415 TTTCTGGGAAATATGCTCATATCATGGTTTTCCAAGAAACAAAATAGTGTTGCTCTATCCACAAC
196 TTTCTGGGAAATATGCTCATATCATGGTTTTCCAAGAAACAAAATAGTGTTGCTCTATCCACAAC
*
273480 CAAAGCGGAGTATATTTCCGTAGGAAGTTGTTGTGCACAAATATTGTGGATAAAACAACAATTAG
261 CAAAGCGGAGTATATATCCGTAGGAAGTTGTTGTGCACAAATATTGTGGATAAAACAACAATTAG
273545 AGGATTTTGGCATTACCATGGATCATATTCCCATAAAATGTGACAATGCTAGTGCAATTTGTTTA
326 AGGATTTTGGCATTACCATGGATCATATTCCCATAAAATGTGACAATGCTAGTGCAATTTGTTTA
273610 ACCAAAAATCCGGTACAACA
391 ACCAAAAATCCGGTACAACA
* *
273630 TATGTGCCCGTTTTCAATCTGCACCTAAGCAGTCTCATTTGCATGCCGTAAAAAGAATTTTTA-A
1 TATGTGCCCGTTTTCAATCCGCACCTAAGCAGTCTCATTTACATGCCGTAAAAAGAATTTTTAGA
* * * *
273694 GTATTTGCGAGATACTCTAAATCTAGGTCTT-TGGTACCCTAAGGAATCCTCCCTAGCCTTACAT
66 -TATTTACGAGACACTCCAAACCTAGGT-TTATGGTACCCTAAGGAATCCTCCCTAGCCTTACAT
* *
273758 GCTTACTCCGATGCGGATTTCGGTGGTTGTAAAATAGATAGAAAAAACACTTCC-GGTACTTGTC
129 GCTTACTCCGATGCAGATTTCGGTGGTTGTAAAATAGATAGAAAAAACACTTCCGGGCACTTGTC
* *
273822 AATTTCTTGGTAATATGCTCATATCATGGTTTTCCAAGAAACAAAATAGTGTTGCTCTATCCACA
194 AATTTCTGGGAAATATGCTCATATCATGGTTTTCCAAGAAACAAAATAGTGTTGCTCTATCCACA
* *
273887 ACCGAAGTGGAGTATATATCCGTAGGAAGTTGTTGTGCACAAATATTGTGGATAAAACAACAATT
259 ACCAAAGCGGAGTATATATCCGTAGGAAGTTGTTGTGCACAAATATTGTGGATAAAACAACAATT
*
273952 AGAGGATTTTGGCATTACCATGGATCATATTCCCATAAAATGTGACAATGCTAGTGTAATTTGTT
324 AGAGGATTTTGGCATTACCATGGATCATATTCCCATAAAATGTGACAATGCTAGTGCAATTTGTT
274017 TAACCAAAAATCCGGTACAACA
389 TAACCAAAAATCCGGTACAACA
274039 T
1 T
274040 TCTAGGACTA
Statistics
Matches: 385, Mismatches: 23, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
409 222 0.58
410 161 0.42
411 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (410 bp):
TATGTGCCCGTTTTCAATCCGCACCTAAGCAGTCTCATTTACATGCCGTAAAAAGAATTTTTAGA
TATTTACGAGACACTCCAAACCTAGGTTTATGGTACCCTAAGGAATCCTCCCTAGCCTTACATGC
TTACTCCGATGCAGATTTCGGTGGTTGTAAAATAGATAGAAAAAACACTTCCGGGCACTTGTCAA
TTTCTGGGAAATATGCTCATATCATGGTTTTCCAAGAAACAAAATAGTGTTGCTCTATCCACAAC
CAAAGCGGAGTATATATCCGTAGGAAGTTGTTGTGCACAAATATTGTGGATAAAACAACAATTAG
AGGATTTTGGCATTACCATGGATCATATTCCCATAAAATGTGACAATGCTAGTGCAATTTGTTTA
ACCAAAAATCCGGTACAACA
Found at i:274623 original size:13 final size:13
Alignment explanation
Indices: 274602--274663 Score: 79
Period size: 13 Copynumber: 4.8 Consensus size: 13
274592 TTTTTCTTTC
*
274602 TATCAATACAATG
1 TATCGATACAATG
*
274615 TATCGATACACTG
1 TATCGATACAATG
274628 TATCGATACAATG
1 TATCGATACAATG
* * *
274641 TATTGATGCACTG
1 TATCGATACAATG
274654 TATCGATACA
1 TATCGATACA
274664 GGGGGATTAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 41 1.00
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (13 bp):
TATCGATACAATG
Found at i:274636 original size:26 final size:26
Alignment explanation
Indices: 274602--274663 Score: 97
Period size: 26 Copynumber: 2.4 Consensus size: 26
274592 TTTTTCTTTC
*
274602 TATCAATACAATGTATCGATACACTG
1 TATCGATACAATGTATCGATACACTG
* *
274628 TATCGATACAATGTATTGATGCACTG
1 TATCGATACAATGTATCGATACACTG
274654 TATCGATACA
1 TATCGATACA
274664 GGGGGATTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (26 bp):
TATCGATACAATGTATCGATACACTG
Found at i:274818 original size:20 final size:20
Alignment explanation
Indices: 274775--274820 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
274765 AAATCTTTTG
274775 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
274796 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
274816 CAAAA
1 CAAAA
274821 CCAGCATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:275118 original size:20 final size:21
Alignment explanation
Indices: 275095--275137 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
275085 GGCAGCACCA
* *
275095 CCAGGTCACGA-CTGGCACTC
1 CCAGGTCACAACCGGGCACTC
275115 CCAGGTCACAACCGGGCACTC
1 CCAGGTCACAACCGGGCACTC
275136 CC
1 CC
275138 CACACTAGTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.21, C:0.44, G:0.23, T:0.12
Consensus pattern (21 bp):
CCAGGTCACAACCGGGCACTC
Found at i:276490 original size:45 final size:45
Alignment explanation
Indices: 276426--276533 Score: 207
Period size: 45 Copynumber: 2.4 Consensus size: 45
276416 AAAGGGGGAG
*
276426 AGAATAGATGTATGTATGTGCAAATAAATTTTTGATATTACCTTA
1 AGAATAGATGTATGTATGTGCAAATAAATTTTTGAAATTACCTTA
276471 AGAATAGATGTATGTATGTGCAAATAAATTTTTGAAATTACCTTA
1 AGAATAGATGTATGTATGTGCAAATAAATTTTTGAAATTACCTTA
276516 AGAATAGATGTATGTATG
1 AGAATAGATGTATGTATG
276534 ATATTACCTT
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 62 1.00
ACGTcount: A:0.39, C:0.06, G:0.18, T:0.38
Consensus pattern (45 bp):
AGAATAGATGTATGTATGTGCAAATAAATTTTTGAAATTACCTTA
Found at i:276549 original size:29 final size:29
Alignment explanation
Indices: 276507--276562 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
276497 AATTTTTGAA
*
276507 ATTACCTTAAGAATAGATGTATGTATGAT
1 ATTACCTTAAGAATAAATGTATGTATGAT
276536 ATTACCTTAAGAATAAATGTATGTATG
1 ATTACCTTAAGAATAAATGTATGTATG
276563 TGCAAATAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.39, C:0.07, G:0.16, T:0.38
Consensus pattern (29 bp):
ATTACCTTAAGAATAAATGTATGTATGAT
Found at i:277348 original size:13 final size:13
Alignment explanation
Indices: 277330--277355 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
277320 TACACAAAGT
277330 ATGTATCGATACA
1 ATGTATCGATACA
277343 ATGTATCGATACA
1 ATGTATCGATACA
277356 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:277353 original size:32 final size:33
Alignment explanation
Indices: 277312--277375 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
277302 TAGCCAAACT
**
277312 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
277344 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
277376 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:283155 original size:51 final size:53
Alignment explanation
Indices: 283091--283484 Score: 197
Period size: 52 Copynumber: 7.5 Consensus size: 53
283081 AGTTTCTCAA
* * *
283091 TTCTCCACAATCGGGGATATTCCAACTCCGATTTTATTTTC-AAAACACTAA-
1 TTCTTCACAATCGGGGATATTCCAACTCCGATTTTATTTCCAAAAACACCAAT
*
283142 TT-TTCTATAATCGGGGATATTCCAACTCCGATTTTATTTCCAAAAAACACCAAT
1 TTCTTC-ACAATCGGGGATATTCCAACTCCGATTTTATTTCC-AAAAACACCAAT
* * * * *** * * *
283196 TTCTTCACAATCGGGGATACTCCAACCCCG--TTAATCATCGGGGATACTCCAAC
1 TTCTTCACAATCGGGGATATTCCAACTCCGATTTTAT-TTC-CAAAAACACCAAT
** *** * * * ***
283249 CCCGTT-ATTTTCGAGGGGATACTCCAAC-CCTGACTTTATTTCC-AAAATATTGAT
1 TTC-TTCACAATC--GGGGATATTCCAACTCC-GATTTTATTTCCAAAAACACCAAT
* * * * * * * *
283303 TT-TTCATAATCGGGGATACTCCAGCCCCGGTTTTA-TTGCTAAAACACTAAT
1 TTCTTCACAATCGGGGATATTCCAACTCCGATTTTATTTCCAAAAACACCAAT
* * * * *
283354 TT-TTCCACAATCAGGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAAT
1 TTCTT-CACAATCGGGGATATTCCAACTCCGATTTTATTTCCAAAAACACCAAT
* *
283406 TT-TTC-CTTTAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAAT
1 TTCTTCAC---AATCGGGGATATTCCAACTCCGATTTTATTTCCAAAAACACCAAT
* *
283460 TT-TTCACAATCGAGGATACTCCAAC
1 TTCTTCACAATCGGGGATATTCCAAC
283485 CTCGTTATAT
Statistics
Matches: 267, Mismatches: 53, Indels: 45
0.73 0.15 0.12
Matches are distributed among these distances:
50 6 0.02
51 66 0.25
52 67 0.25
53 58 0.22
54 45 0.17
55 19 0.07
56 2 0.01
57 4 0.01
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.32
Consensus pattern (53 bp):
TTCTTCACAATCGGGGATATTCCAACTCCGATTTTATTTCCAAAAACACCAAT
Found at i:283275 original size:28 final size:27
Alignment explanation
Indices: 283205--283278 Score: 105
Period size: 27 Copynumber: 2.7 Consensus size: 27
283195 TTTCTTCACA
283205 ATCGGGGATACTCCAACCCCGTTAATC
1 ATCGGGGATACTCCAACCCCGTTAATC
*
283232 ATCGGGGATACTCCAACCCCGTT-ATT
1 ATCGGGGATACTCCAACCCCGTTAATC
*
283258 TTCGAGGGGATACTCCAACCC
1 ATC--GGGGATACTCCAACCC
283279 TGACTTTATT
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
26 4 0.09
27 23 0.53
28 16 0.37
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.23
Consensus pattern (27 bp):
ATCGGGGATACTCCAACCCCGTTAATC
Found at i:283399 original size:52 final size:52
Alignment explanation
Indices: 283263--283485 Score: 220
Period size: 52 Copynumber: 4.3 Consensus size: 52
283253 TTATTTTCGA
* * * *** *
283263 GGGGATACTCCAACCCTGACTTTATTTCC-AAAATATTGATTTTTCATAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTTCACAATC
* * * * *
283314 GGGGATACTCCAGCCCCGGTTTTA-TTGCTAAAACACTAATTTTTCCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTT-CACAATC
* * *
283366 AGGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAATTTTTC-CTTTAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTTCAC---AATC
* *
283419 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTTCACAATC
*
283471 GAGGATACTCCAACC
1 GGGGATACTCCAACC
283486 TCGTTATATC
Statistics
Matches: 144, Mismatches: 20, Indels: 15
0.80 0.11 0.08
Matches are distributed among these distances:
50 4 0.03
51 33 0.23
52 59 0.41
53 32 0.22
54 15 0.10
55 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.33
Consensus pattern (52 bp):
GGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTTCACAATC
Found at i:283504 original size:28 final size:28
Alignment explanation
Indices: 283468--283544 Score: 95
Period size: 28 Copynumber: 2.8 Consensus size: 28
283458 ATTTTTCACA
* *
283468 ATCGAGGATACTCCAACCTCGTTA-TATC
1 ATCGGGGATACTCCAACCCCGTTACT-TC
283496 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
*
283524 -TGAGGGGATACTCCAACCCCG
1 AT-CGGGGATACTCCAACCCCG
283545 GCTTTATTCC
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
27 1 0.02
28 42 0.95
29 1 0.02
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.23
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:283563 original size:264 final size:263
Alignment explanation
Indices: 283094--283595 Score: 794
Period size: 264 Copynumber: 1.9 Consensus size: 263
283084 TTCTCAATTC
* * * *
283094 TCCACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGA
1 TCCACAATCAGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
* *
283159 TATTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAACCC
66 TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCC
* *
283224 CGTTAATCATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCTGACTTTATT
131 CGTTAATCATCGGGGATACTCCAACCCCGTTATTCTCGAGGGGATACTCCAACCCCGACTTTATT
* * *
283289 TCCAAAATATTGATTTTTCATAATCGGGGATACTCCAGCCCCGGTTTTATTGCTAAAACACTAAT
196 CCCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAAT
283354 TTT
261 TTT
* *
283357 TCCACAATCAGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTTCCTTTAATCGGG
1 TCCACAATCAGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAA-TTTT-CTATAATCGGG
*
283422 GATACTCCAACTCCGATTTTATTTCC-AAAAATACCAATTT-TTCACAATCGAGGATACTCCAAC
64 GATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAAC
* *
283485 CTCGTTATATCATCGGGGATACTCCAACCCCGTTACTTCT-GAGGGGATACTCCAACCCCGGCTT
129 CCCGTTA-ATCATCGGGGATACTCCAACCCCGTTA-TTCTCGAGGGGATACTCCAACCCCGACTT
*
283549 TATTCCCAAAATATTGATTTCTCATAATTGGGGATACTCCAACCCCG
192 TATTCCCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCG
283596 TTATTTTCGA
Statistics
Matches: 218, Mismatches: 17, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
263 71 0.33
264 109 0.50
265 38 0.17
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.31
Consensus pattern (263 bp):
TCCACAATCAGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCC
CGTTAATCATCGGGGATACTCCAACCCCGTTATTCTCGAGGGGATACTCCAACCCCGACTTTATT
CCCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAAT
TTT
Found at i:283677 original size:77 final size:78
Alignment explanation
Indices: 283498--283700 Score: 225
Period size: 77 Copynumber: 2.6 Consensus size: 78
283488 GTTATATCAT
* * *
283498 CGGGGATACTCCAACCCCGTTA-CTTCTGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATA
1 CGGGGATACTCCAACCCCGTTATTTTC-GAAGGGATACTCCAACCCC-GATTTATTCCCAAAATA
* * *
283562 TTGATTTCTCATAAT
64 TCGATTTCTCACAAC
* * ** **
283577 TGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAATCCCGATTT-TTTTC-TGATCAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGATTTATTCCCAAAAT-AT
283640 CGATTTCTCACAAC
65 CGATTTCTCACAAC
*
283654 CGGGGATACTCCAACCCCGTTATTTTC-AAGGGAACACTCCAACCCCG
1 CGGGGATACTCCAACCCCGTTATTTTCGAAGGG-ATACTCCAACCCCG
283701 TTATTATCTC
Statistics
Matches: 106, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
76 7 0.07
77 54 0.51
78 4 0.04
79 38 0.36
80 3 0.03
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.29
Consensus pattern (78 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGATTTATTCCCAAAATATC
GATTTCTCACAAC
Found at i:285587 original size:20 final size:20
Alignment explanation
Indices: 285558--285652 Score: 109
Period size: 20 Copynumber: 4.6 Consensus size: 20
285548 TTTTAACTAG
*
285558 ATGTATCGATACATTGAACA
1 ATGTATCGATACATTGAAGA
* *
285578 ATGTACCGATACATCTACGTAGA
1 ATGTATCGATACAT-T--GAAGA
285601 ATGTATCGATACATTGAAGA
1 ATGTATCGATACATTGAAGA
* * *
285621 ATATATCGATACGTTGAAAA
1 ATGTATCGATACATTGAAGA
285641 ATGTATCGATAC
1 ATGTATCGATAC
285653 CTTTGGGTAA
Statistics
Matches: 63, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
20 45 0.71
21 1 0.02
22 1 0.02
23 16 0.25
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (20 bp):
ATGTATCGATACATTGAAGA
Found at i:285694 original size:51 final size:51
Alignment explanation
Indices: 285618--285715 Score: 151
Period size: 51 Copynumber: 1.9 Consensus size: 51
285608 GATACATTGA
* * * *
285618 AGAATATATCGATACGTTGAAAAATGTATCGATACCTTTGGGTAAAAGGAC
1 AGAATATATCGATACATTAAAAAATGTATCGATACATCTGGGTAAAAGGAC
*
285669 AGAATGTATCGATACATTAAAAAATGTATCGATACATCTGGGTAAAA
1 AGAATATATCGATACATTAAAAAATGTATCGATACATCTGGGTAAAA
285716 ATGTGACTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 42 1.00
ACGTcount: A:0.42, C:0.11, G:0.19, T:0.28
Consensus pattern (51 bp):
AGAATATATCGATACATTAAAAAATGTATCGATACATCTGGGTAAAAGGAC
Found at i:288193 original size:15 final size:16
Alignment explanation
Indices: 288173--288207 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
288163 TCCTTCGTAC
*
288173 AAAACAAA-AACCAAA
1 AAAACAAACAAACAAA
288188 AAAACAAACAAACAAA
1 AAAACAAACAAACAAA
288204 AAAA
1 AAAA
288208 AAAGAAGGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (16 bp):
AAAACAAACAAACAAA
Found at i:289465 original size:28 final size:28
Alignment explanation
Indices: 289422--289965 Score: 707
Period size: 28 Copynumber: 19.5 Consensus size: 28
289412 TGTTCATCTC
* *
289422 TTCAAAGCCTATAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
289450 TTCAAAGCCCACAAGTTAGTGGCA-TCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
289477 CTTAAAAGCCCACAAGTCAGTGGCATCCT
1 -TTCAAAGCCCACAAGTCAGTGGCACCCT
*
289506 TTCAAAGCCCACAAGTTAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
289534 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * * * * *
289562 TTTAAAGCCCATAAGACAATGGTAGCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
289590 TTCAAAGCCCACACGTCAGTGGCA-TCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
289617 TGTCAAAGCCCATAAGTCAGTGGCACCTT
1 T-TCAAAGCCCACAAGTCAGTGGCACCCT
* * *
289646 TTCAAAGCCCTCAAGTCAGTGGCATCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
289674 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
289702 TTCAAAGCCCACAAGTTAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
289730 TTCAAAGCCCACAAGACAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
289758 TTCAAAGCCCACATGTCAGTGGCACCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
289786 TTCAAAGCCCATAAGTCAGTGGCACCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
289814 TTCAAAGCCCTCAAGTCAGTGGCATCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
289842 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
289870 TTCAAAGCCCACAAGTTAGTGGCCCCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
289898 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
289926 TTCAAAGCCCACAAGT-TGTAGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
289953 TTCAAAGCCCACA
1 TTCAAAGCCCACA
289966 CAAGTCGATG
Statistics
Matches: 455, Mismatches: 57, Indels: 9
0.87 0.11 0.02
Matches are distributed among these distances:
27 27 0.06
28 424 0.93
29 4 0.01
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.23
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCACCCT
Found at i:295249 original size:13 final size:13
Alignment explanation
Indices: 295231--295258 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
295221 ATAGCCTGCA
295231 TGTATCAATCCAT
1 TGTATCAATCCAT
295244 TGTATCAATCCAT
1 TGTATCAATCCAT
295257 TG
1 TG
295259 GAGAATGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.21, G:0.11, T:0.39
Consensus pattern (13 bp):
TGTATCAATCCAT
Found at i:295440 original size:20 final size:20
Alignment explanation
Indices: 295415--295453 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
295405 ATATTTGAGA
*
295415 TATGTATCGATACATTCACT
1 TATGTATCAATACATTCACT
295435 TATGTATCAATACATTCAC
1 TATGTATCAATACATTCAC
295454 CAATTTTATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.21, G:0.08, T:0.38
Consensus pattern (20 bp):
TATGTATCAATACATTCACT
Found at i:296137 original size:31 final size:31
Alignment explanation
Indices: 296040--296146 Score: 81
Period size: 31 Copynumber: 3.5 Consensus size: 31
296030 CCACCAGCTT
* * ** *
296040 GTGTGGGCTTTGACTGAGGTGCCGCCAAATC
1 GTGTGAGCTTTGACTAAGGTGCTACCAACTC
* ** * * *
296071 GTGCTG-GCTTAGACTCGGGTGCTGCCAGCTT
1 GTG-TGAGCTTTGACTAAGGTGCTACCAACTC
*
296102 GTGTGAGTTTTGACTAAGGTGCTACCAACTC
1 GTGTGAGCTTTGACTAAGGTGCTACCAACTC
*
296133 GTGTGGGCTTTGAC
1 GTGTGAGCTTTGAC
296147 ATTCTAAGGC
Statistics
Matches: 58, Mismatches: 16, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
30 2 0.03
31 54 0.93
32 2 0.03
ACGTcount: A:0.15, C:0.21, G:0.34, T:0.30
Consensus pattern (31 bp):
GTGTGAGCTTTGACTAAGGTGCTACCAACTC
Found at i:296472 original size:37 final size:36
Alignment explanation
Indices: 296431--296528 Score: 121
Period size: 37 Copynumber: 2.8 Consensus size: 36
296421 AAAGAATGCG
*
296431 TCCTGCTCTTTGAAGAAAAAGGGAAAAA-GAGTAGGCT
1 TCCTGCTCTTTGAAGACAAAGGGAAAAATGAGTA-G-T
* *
296468 TCCTGCTCTTTTATGACAAA-GGAAAAATGAGTAGT
1 TCCTGCTCTTTGAAGACAAAGGGAAAAATGAGTAGT
*
296503 T-CTGCTCTTTGAGGACAAAGGGAAAA
1 TCCTGCTCTTTGAAGACAAAGGGAAAA
296529 GAAGAATGTA
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
34 16 0.30
35 8 0.15
36 8 0.15
37 22 0.41
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.26
Consensus pattern (36 bp):
TCCTGCTCTTTGAAGACAAAGGGAAAAATGAGTAGT
Found at i:296520 original size:34 final size:36
Alignment explanation
Indices: 296431--296530 Score: 116
Period size: 34 Copynumber: 2.8 Consensus size: 36
296421 AAAGAATGCG
*
296431 TCCTGCTCTTTGAAGAAAAAGGGAAAAAGAGTAGGCT
1 TCCTGCTCTTTGAAGACAAA-GGAAAAAGAGTAGGCT
* *
296468 TCCTGCTCTTTTATGACAAAGGAAAAATGAGTA-G-T
1 TCCTGCTCTTTGAAGACAAAGGAAAAA-GAGTAGGCT
* *
296503 T-CTGCTCTTTGAGGACAAAGGGAAAAGA
1 TCCTGCTCTTTGAAGACAAAGGAAAAAGA
296531 AGAATGTAAT
Statistics
Matches: 56, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
33 2 0.04
34 22 0.39
35 2 0.04
36 8 0.14
37 22 0.39
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (36 bp):
TCCTGCTCTTTGAAGACAAAGGAAAAAGAGTAGGCT
Found at i:296645 original size:155 final size:153
Alignment explanation
Indices: 296335--296641 Score: 334
Period size: 155 Copynumber: 1.9 Consensus size: 153
296325 AAAAGAAATG
* * *
296335 AAAATGAGTATGTCCTGCTCTTTGAGGATAAAAGGAAAAGAATAATGAAATGGGTCCTACTCCTT
1 AAAATGAGTATGTCCTGCTCTTTGAGGACAAAAGGAAAAGAAGAATGAAATAGGTCCTACTCCTT
* * *
296400 GAGGACAAAGGAAAAAGAAAAAAAGAATGCGTCCTGCTCTTTGAAGAAAAAGGGAAAAAGAGTAG
66 AAGGACAAAAGAAAAAGAAAAAAAGAATGCGTCCTGCTCTTTGAAGAAAAAGAGAAAAAGAGTAG
*
296465 GCTTCCTGCTCTTTTATGACAAAGGA-
131 GCGTCCTGCTC-TTTAT---AAAGGAT
* * * *
296491 AAAATGAGTA-GTTCTGCTCTTTGAGGACAAAGGGAAAAGAAGAATGTAATAGGTCCTACTTCTT
1 AAAATGAGTATGTCCTGCTCTTTGAGGACAAAAGGAAAAGAAGAATGAAATAGGTCCTACTCCTT
* *
296555 AAGGACAAAAGAAAAAGGAAAAAGGAAAAAGAAATGTGTCCTGCTCTTTGAGGACAAAA-AG-AA
66 AAGGACAAAAGAAAAA-G---AA--AAAAAG-AATGCGTCCTGCTCTTTGAAGA-AAAAGAGAAA
* *
296618 AAGAAGTGGGCGTCTTGCTCTTTA
123 AAG-AGTAGGCGTCCTGCTCTTTA
296642 AGGATAAAAG
Statistics
Matches: 127, Mismatches: 15, Indels: 13
0.82 0.10 0.08
Matches are distributed among these distances:
155 61 0.48
156 11 0.09
159 2 0.02
161 15 0.12
162 34 0.27
163 4 0.03
ACGTcount: A:0.41, C:0.13, G:0.24, T:0.22
Consensus pattern (153 bp):
AAAATGAGTATGTCCTGCTCTTTGAGGACAAAAGGAAAAGAAGAATGAAATAGGTCCTACTCCTT
AAGGACAAAAGAAAAAGAAAAAAAGAATGCGTCCTGCTCTTTGAAGAAAAAGAGAAAAAGAGTAG
GCGTCCTGCTCTTTATAAAGGAT
Found at i:298010 original size:100 final size:100
Alignment explanation
Indices: 297893--298086 Score: 370
Period size: 100 Copynumber: 1.9 Consensus size: 100
297883 TGGTGTTTCT
* *
297893 TGATTGATTCTCTTGAAGTTCAGCTGTTGGGAACTCAAATTTATAGGCTTGAATGTGGACATACT
1 TGATTGATTCTCTTGAAGTTAAGCTATTGGGAACTCAAATTTATAGGCTTGAATGTGGACATACT
297958 TGTTGGAGGTTGAATGATTGTGTTTCTAGTCATTG
66 TGTTGGAGGTTGAATGATTGTGTTTCTAGTCATTG
297993 TGATTGATTCTCTTGAAGTTAAGCTATTGGGAACTCAAATTTATAGGCTTGAATGTGGACATACT
1 TGATTGATTCTCTTGAAGTTAAGCTATTGGGAACTCAAATTTATAGGCTTGAATGTGGACATACT
298058 TGTTGGAGGTTGAATGATTGTGTTTCTAG
66 TGTTGGAGGTTGAATGATTGTGTTTCTAG
298087 CCGTTGTTGA
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
100 92 1.00
ACGTcount: A:0.24, C:0.10, G:0.26, T:0.40
Consensus pattern (100 bp):
TGATTGATTCTCTTGAAGTTAAGCTATTGGGAACTCAAATTTATAGGCTTGAATGTGGACATACT
TGTTGGAGGTTGAATGATTGTGTTTCTAGTCATTG
Found at i:308667 original size:123 final size:123
Alignment explanation
Indices: 308448--308701 Score: 490
Period size: 123 Copynumber: 2.1 Consensus size: 123
308438 AGCTGTCTGA
308448 GTTATGGTATTGAGGGGAAATGGTTTGGAGCTATGTGTGAGCTAAGGAGAAAGTGTTTTGAGGTG
1 GTTATGGTATTGAGGGGAAATGGTTTGGAGCTATGTGTGAGCTAAGGAGAAAGTGTTTTGAGGTG
308513 TTTTTGTGGGAAGGAAGGAGGAGCTACGGGATGGACATTTTGGCTAAGTGGTTTTGTT
66 TTTTTGTGGGAAGGAAGGAGGAGCTACGGGATGGACATTTTGGCTAAGTGGTTTTGTT
308571 GTTATGGTATTGAGGGGAAATGGTTTGGAGCTATGTGTGAGCTAAGGAGAAAGTGTTTTGAGGTG
1 GTTATGGTATTGAGGGGAAATGGTTTGGAGCTATGTGTGAGCTAAGGAGAAAGTGTTTTGAGGTG
*
308636 TTTTTTTGGGAAGGAAGGAGGAGCTACGGGATGGACATTTTGGCTAAGTGGTTTTGTT
66 TTTTTGTGGGAAGGAAGGAGGAGCTACGGGATGGACATTTTGGCTAAGTGGTTTTGTT
308694 GTTGATGG
1 GTT-ATGG
308702 AAGGTTGCTG
Statistics
Matches: 129, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
123 125 0.97
124 4 0.03
ACGTcount: A:0.22, C:0.05, G:0.39, T:0.34
Consensus pattern (123 bp):
GTTATGGTATTGAGGGGAAATGGTTTGGAGCTATGTGTGAGCTAAGGAGAAAGTGTTTTGAGGTG
TTTTTGTGGGAAGGAAGGAGGAGCTACGGGATGGACATTTTGGCTAAGTGGTTTTGTT
Found at i:325998 original size:79 final size:79
Alignment explanation
Indices: 325914--326067 Score: 191
Period size: 79 Copynumber: 1.9 Consensus size: 79
325904 AAATAAAATT
* * * * *
325914 GGGGTTAGAGTATCTCATCAAAAATAAAAGGATTGGAGTATCCCCGATTGTGGAAAATTGATGCT
1 GGGGTTAGAGTATCTCAGCAAAAATAAAAGGATTAGAGTATCCCCAATTGTGAAAAATTGATGAT
325979 TTAGAAATAAGGCC
66 TTAGAAATAAGGCC
* * * ** * * *
325993 GGGGTTGGAGTATCTCCGCGAAAATAACGGGGTTAGAGTATCCTCAATTGTGAAAAATTGGTGAT
1 GGGGTTAGAGTATCTCAGCAAAAATAAAAGGATTAGAGTATCCCCAATTGTGAAAAATTGATGAT
326058 TTAGAAATAA
66 TTAGAAATAA
326068 AATCAGAGTT
Statistics
Matches: 62, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
79 62 1.00
ACGTcount: A:0.34, C:0.12, G:0.27, T:0.27
Consensus pattern (79 bp):
GGGGTTAGAGTATCTCAGCAAAAATAAAAGGATTAGAGTATCCCCAATTGTGAAAAATTGATGAT
TTAGAAATAAGGCC
Found at i:337557 original size:20 final size:20
Alignment explanation
Indices: 337504--337578 Score: 71
Period size: 20 Copynumber: 3.7 Consensus size: 20
337494 ACCAATGACT
*
337504 TGTATCGATAC-TTTCACATGA
1 TGTATCGATACATTGCA-A-GA
* * *
337525 TGAATCAATACATTGCAAGG
1 TGTATCGATACATTGCAAGA
* *
337545 TGTATTGATACATTGCAATA
1 TGTATCGATACATTGCAAGA
337565 TGTATCGATACATT
1 TGTATCGATACATT
337579 TTCATGTGTA
Statistics
Matches: 43, Mismatches: 10, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
20 29 0.67
21 10 0.23
22 4 0.09
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (20 bp):
TGTATCGATACATTGCAAGA
Found at i:342138 original size:17 final size:17
Alignment explanation
Indices: 342118--342151 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
342108 CTTCAATCAC
342118 TAAGATTCTCTTATTAA
1 TAAGATTCTCTTATTAA
*
342135 TAAGGTTCTCTTATTAA
1 TAAGATTCTCTTATTAA
342152 CGACTCTATA
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:0.32, C:0.12, G:0.09, T:0.47
Consensus pattern (17 bp):
TAAGATTCTCTTATTAA
Found at i:346360 original size:13 final size:13
Alignment explanation
Indices: 346342--346367 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
346332 ATATTTTTTG
346342 TGTATCGATACAT
1 TGTATCGATACAT
346355 TGTATCGATACAT
1 TGTATCGATACAT
346368 ATTTTGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:346378 original size:32 final size:33
Alignment explanation
Indices: 346321--346385 Score: 114
Period size: 32 Copynumber: 2.0 Consensus size: 33
346311 TACAAGCCAA
346321 TGTATCGATACATATTTTTTGTGTATCGATACAT
1 TGTATCGATACATA-TTTTTGTGTATCGATACAT
346355 TGTATCGATACATA-TTTTGTGTATCGATACA
1 TGTATCGATACATATTTTTGTGTATCGATACA
346386 AGTTTGGCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 17 0.55
34 14 0.45
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (33 bp):
TGTATCGATACATATTTTTGTGTATCGATACAT
Found at i:346379 original size:19 final size:19
Alignment explanation
Indices: 346321--346385 Score: 70
Period size: 19 Copynumber: 3.6 Consensus size: 19
346311 TACAAGCCAA
346321 TGTATCGATACATATTTTTTG
1 TGTATCGATACATA--TTTTG
346342 TGTATCGATAC--A---T-
1 TGTATCGATACATATTTTG
346355 TGTATCGATACATATTTTG
1 TGTATCGATACATATTTTG
346374 TGTATCGATACA
1 TGTATCGATACA
346386 AGTTTGGCTA
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 11 0.29
14 1 0.03
15 1 0.03
18 1 0.03
19 13 0.34
21 11 0.29
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (19 bp):
TGTATCGATACATATTTTG
Found at i:346490 original size:20 final size:20
Alignment explanation
Indices: 346439--346492 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
346429 ATCTTTTTCA
*
346439 TGTATCGATACATTGCAACT
1 TGTATCGATACTTTGCAACT
*
346459 TGTATCGATACTTTG-AATT
1 TGTATCGATACTTTGCAACT
346478 GTGTATCGATACTTT
1 -TGTATCGATACTTT
346493 TAAGGGTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 3 0.10
20 28 0.90
ACGTcount: A:0.26, C:0.15, G:0.17, T:0.43
Consensus pattern (20 bp):
TGTATCGATACTTTGCAACT
Found at i:348471 original size:21 final size:20
Alignment explanation
Indices: 348442--348484 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
348432 GACTAGTGTG
*
348442 GGGACTGCCCGGTTGCGACCT
1 GGGACTG-CCGGTCGCGACCT
*
348463 GGGAGTGCCGGTCGCGACCT
1 GGGACTGCCGGTCGCGACCT
348483 GG
1 GG
348485 TGGTGCTACC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.09, C:0.30, G:0.44, T:0.16
Consensus pattern (20 bp):
GGGACTGCCGGTCGCGACCT
Found at i:348934 original size:13 final size:13
Alignment explanation
Indices: 348916--348953 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
348906 ATAATCCCCC
348916 TGTATCGATACAG
1 TGTATCGATACAG
*
348929 TGTATCGATACAT
1 TGTATCGATACAG
348942 TGTATCGATACA
1 TGTATCGATACA
348954 AAGAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:355089 original size:13 final size:13
Alignment explanation
Indices: 355071--355096 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
355061 ATATTTTTTG
355071 TGTATCGATACAT
1 TGTATCGATACAT
355084 TGTATCGATACAT
1 TGTATCGATACAT
355097 ATTTTGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:355107 original size:32 final size:33
Alignment explanation
Indices: 355050--355114 Score: 114
Period size: 32 Copynumber: 2.0 Consensus size: 33
355040 TACAAGCCAA
355050 TGTATCGATACATATTTTTTGTGTATCGATACAT
1 TGTATCGATACATA-TTTTTGTGTATCGATACAT
355084 TGTATCGATACATA-TTTTGTGTATCGATACA
1 TGTATCGATACATATTTTTGTGTATCGATACA
355115 AGTTTGGCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 17 0.55
34 14 0.45
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (33 bp):
TGTATCGATACATATTTTTGTGTATCGATACAT
Found at i:355108 original size:19 final size:19
Alignment explanation
Indices: 355050--355114 Score: 70
Period size: 19 Copynumber: 3.6 Consensus size: 19
355040 TACAAGCCAA
355050 TGTATCGATACATATTTTTTG
1 TGTATCGATACATA--TTTTG
355071 TGTATCGATAC--A---T-
1 TGTATCGATACATATTTTG
355084 TGTATCGATACATATTTTG
1 TGTATCGATACATATTTTG
355103 TGTATCGATACA
1 TGTATCGATACA
355115 AGTTTGGCTA
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 11 0.29
14 1 0.03
15 1 0.03
18 1 0.03
19 13 0.34
21 11 0.29
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (19 bp):
TGTATCGATACATATTTTG
Found at i:355671 original size:20 final size:22
Alignment explanation
Indices: 355639--355694 Score: 82
Period size: 20 Copynumber: 2.7 Consensus size: 22
355629 CCATTGGGCT
355639 AATTGTATCGATACAATTTTGG
1 AATTGTATCGATACAATTTTGG
*
355661 -A-TGTATTGATAC-ATTTTGG
1 AATTGTATCGATACAATTTTGG
355680 AATTGTATCGATACA
1 AATTGTATCGATACA
355695 TTCCTATATG
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
19 7 0.24
20 11 0.38
21 11 0.38
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (22 bp):
AATTGTATCGATACAATTTTGG
Found at i:355692 original size:21 final size:21
Alignment explanation
Indices: 355639--355696 Score: 84
Period size: 21 Copynumber: 2.8 Consensus size: 21
355629 CCATTGGGCT
355639 AATTGTATCGATACAATTTTGG
1 AATTGTATCGATAC-ATTTTGG
*
355661 -A-TGTATTGATACATTTTGG
1 AATTGTATCGATACATTTTGG
355680 AATTGTATCGATACATT
1 AATTGTATCGATACATT
355697 CCTATATGTG
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
19 7 0.22
20 11 0.34
21 14 0.44
ACGTcount: A:0.31, C:0.09, G:0.17, T:0.43
Consensus pattern (21 bp):
AATTGTATCGATACATTTTGG
Found at i:355789 original size:41 final size:41
Alignment explanation
Indices: 355744--355869 Score: 115
Period size: 41 Copynumber: 3.3 Consensus size: 41
355734 ACCAATGACT
* *
355744 TGTATCGATACTTTCACATGATGTATCGATACAGTACAAGG
1 TGTATCGATACTTTCACATGATGTATCGATACATTGCAAGG
* * **
355785 TGTATC-A-A--TACA-AT-A-G-ATGGATACATTGCAATA
1 TGTATCGATACTTTCACATGATGTATCGATACATTGCAAGG
* *
355818 AGTATCGATACTTTCACATGATGTATTGATACATTGCAAGG
1 TGTATCGATACTTTCACATGATGTATCGATACATTGCAAGG
*
355859 TGTATCAATAC
1 TGTATCGATAC
355870 AATGTATCAA
Statistics
Matches: 64, Mismatches: 13, Indels: 16
0.69 0.14 0.17
Matches are distributed among these distances:
33 17 0.27
34 2 0.03
35 2 0.03
36 2 0.03
37 6 0.09
38 2 0.03
39 2 0.03
40 2 0.03
41 29 0.45
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (41 bp):
TGTATCGATACTTTCACATGATGTATCGATACATTGCAAGG
Found at i:355833 original size:74 final size:74
Alignment explanation
Indices: 355745--355921 Score: 243
Period size: 74 Copynumber: 2.4 Consensus size: 74
355735 CCAATGACTT
**
355745 GTATCGATACTTTCACATGATGTATCGATACAGTACAAGGTGTATCAATACAATAG-ATGGATAC
1 GTATCGATACTTTCACATGATGTATCGATACAGTACAAGGTGTATCAATACAAT-GTATCAATAC
355809 ATTGCAATAA
65 ATTGCAATAA
* * *
355819 GTATCGATACTTTCACATGATGTATTGATACATTGCAAGGTGTATCAATACAATGTATCAATACA
1 GTATCGATACTTTCACATGATGTATCGATACAGTACAAGGTGTATCAATACAATGTATCAATACA
*
355884 TTGCAATAT
66 TTGCAATAA
* *
355893 GTATCGATGCATTT-TCATG-TGTATCGATA
1 GTATCGATAC-TTTCACATGATGTATCGATA
355922 GTAATGAGGG
Statistics
Matches: 92, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
73 10 0.11
74 79 0.86
75 3 0.03
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (74 bp):
GTATCGATACTTTCACATGATGTATCGATACAGTACAAGGTGTATCAATACAATGTATCAATACA
TTGCAATAA
Found at i:355877 original size:13 final size:13
Alignment explanation
Indices: 355859--355883 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
355849 CATTGCAAGG
355859 TGTATCAATACAA
1 TGTATCAATACAA
355872 TGTATCAATACA
1 TGTATCAATACA
355884 TTGCAATATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (13 bp):
TGTATCAATACAA
Found at i:360137 original size:571 final size:570
Alignment explanation
Indices: 359108--360230 Score: 1586
Period size: 571 Copynumber: 2.0 Consensus size: 570
359098 ATTTTGGTTG
* * *
359108 TTTTTAAGTATCAGAAACAAGGCAAAGACAAATAGACAACATTCTGTCCAGGGTAGGACAATGCT
1 TTTTTAAGTATCAAAAACAAGGAAAAGACAAATAGACAACATTCTGTCCAGGGCAGGACAATGCT
** * * * *
359173 TAGCTAGATACATGGAAAAGGATGGCATTTGATTTTTTTTATATGGGTTTTTCCTTCTTACTTGA
66 TAGCTAGATACATGGAAAAGGACAGAATTTGATTTTTTTTATATGGGTTTATCCTTCCTACTAGA
* * * * *
359238 TTACTAGAATCTTTAAGGCTTGTCCTCTTTAGATAGGTGTTATCTAAAATGGGTTTTGGTTTTCT
131 TTACCAAAATCTCTAAGGCTTGTCCTCTTTAGATAGATGTTATCTAAAATGGGTTTTAGTTTTCT
* * * *
359303 AAGGCTTGGCCTCCTTAGATAGGTGCCAACTAATATGGACTTCACTTGGACTTAGGTACCACTAA
196 AAGGCTTGACCTCCTTAGACAGGTGCCAACTAATATGGACTTCACTTGAACTTAGGTACCACCAA
* * *
359368 CTTCTGTGTGCTTTGACTCAGGTGCCGCCATCTTGTGCGGGCTTTGACTCAGACTTAGGTGCCAC
261 CTTCTATGGGCTTTGACTCAGGTGCCGCCAGCTTGTGCGGGCTTTGACTCAGACTTAGGTGCCAC
* * * *
359433 CAGCTCGTATGGGCTTTAACATTCTAAGGCTTGACCTCCTTAGACAGGTGCTAAGTAATTTGGAC
326 CAGCTCATATAGGCTTTAACATTCTAAGGCTTGACCTCCTTAGACAGGTGCCAACTAATTTGGAC
*
359498 TTGACTCGAACTTAGGTGCCACCAGCTTGTGTGGGCTTTGACTTAGACAAATTTGGGCATTGCTC
391 TTGACTCGAACTTAGGTGCCACCAGCTTGTGTGGGCTTTGACTTAGACAAATTTGGGCATCGCTC
*
359563 CCACACATCTTCGTTTACCCCTATATATCAACCCTACCACCTTTCTGAATATGCCTTAGGTTGCC
456 CCACACATCTTCGTTTACCCCTATATATCAACCCTA-CACATTTCTGAATATGCCTTAGGTTGCC
* * *
359628 ATAAATTAGTCTAGACAGAATGAGGTTTCTACAGTTGCCCCTCTTTAATCA
520 ATAAATTAGCCCAGACAGAATGAGGTGTCTACAGTTGCCCCTCTTTAATCA
* * ** * *
359679 TTTTTGAGTATCAAAAATAAGGAAAAGACAAATAGGTACCATTCTGTCCAGGGCAGGACGATGCT
1 TTTTTAAGTATCAAAAACAAGGAAAAGACAAATAGACAACATTCTGTCCAGGGCAGGACAATGCT
* *
359744 TAGCTAGATGCATGTAAAAGGACAGAATTTGATTTTTTTT-TATGTAGGTTTATCCTTCCTACTA
66 TAGCTAGATACATGGAAAAGGACAGAATTTGATTTTTTTTATATG--GGTTTATCCTTCCTACTA
*
359808 GGTTACCAAAATCTCTAAGGCTTG-CCTTCTTTAGATAGATGTTATCTAAAATGGGTTTTAGTTT
129 GATTACCAAAATCTCTAAGGCTTGTCC-TCTTTAGATAGATGTTATCTAAAATGGGTTTTAGTTT
* * * *
359872 TCTAAGGCTTGACCTCCTTAGACAGGTGCCAACTAATGTGGGCTTGACTTGAACTTAGGTCCCAC
193 TCTAAGGCTTGACCTCCTTAGACAGGTGCCAACTAATATGGACTTCACTTGAACTTAGGTACCAC
* * ** ** *
359937 CAGCTTTTATGGGCTTTGACTTGGGT-CCGTTAGCTTGTGCGGGCTTTGACTTAGACTTAGGTGC
258 CAACTTCTATGGGCTTTGACTCAGGTGCCGCCAGCTTGTGCGGGCTTTGACTCAGACTTAGGTGC
* * * * *
360001 CACTAGTTCATCTAGGCTTTGACATTTTAAGGCTTGACCTCCTTAGACAGGTGCCAACTAATTTG
323 CACCAGCTCATATAGGCTTTAACATTCTAAGGCTTGACCTCCTTAGACAGGTGCCAACTAATTTG
** * * * **
360066 GACTTGACTCGAACTTAGGTGCCATTAGCTTGTGTTGGCTTTGGCTTAGACTAATTTGGGTGTCG
388 GACTTGACTCGAACTTAGGTGCCACCAGCTTGTGTGGGCTTTGACTTAGACAAATTTGGGCATCG
* * * *
360131 CTCCCACACATCTTCGTTTACCCCTATATATCGACCCTACACATTTTTTAGTATGCCTTAGGTTG
453 CTCCCACACATCTTCGTTTACCCCTATATATCAACCCTACACATTTCTGAATATGCCTTAGGTTG
*
360196 CCATAAGTTAGCCCAGACAGAATGAGGTGTCTACA
518 CCATAAATTAGCCCAGACAGAATGAGGTGTCTACA
360231 ATTAAAATGG
Statistics
Matches: 482, Mismatches: 67, Indels: 7
0.87 0.12 0.01
Matches are distributed among these distances:
570 57 0.12
571 278 0.58
572 147 0.30
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (570 bp):
TTTTTAAGTATCAAAAACAAGGAAAAGACAAATAGACAACATTCTGTCCAGGGCAGGACAATGCT
TAGCTAGATACATGGAAAAGGACAGAATTTGATTTTTTTTATATGGGTTTATCCTTCCTACTAGA
TTACCAAAATCTCTAAGGCTTGTCCTCTTTAGATAGATGTTATCTAAAATGGGTTTTAGTTTTCT
AAGGCTTGACCTCCTTAGACAGGTGCCAACTAATATGGACTTCACTTGAACTTAGGTACCACCAA
CTTCTATGGGCTTTGACTCAGGTGCCGCCAGCTTGTGCGGGCTTTGACTCAGACTTAGGTGCCAC
CAGCTCATATAGGCTTTAACATTCTAAGGCTTGACCTCCTTAGACAGGTGCCAACTAATTTGGAC
TTGACTCGAACTTAGGTGCCACCAGCTTGTGTGGGCTTTGACTTAGACAAATTTGGGCATCGCTC
CCACACATCTTCGTTTACCCCTATATATCAACCCTACACATTTCTGAATATGCCTTAGGTTGCCA
TAAATTAGCCCAGACAGAATGAGGTGTCTACAGTTGCCCCTCTTTAATCA
Found at i:361793 original size:6 final size:6
Alignment explanation
Indices: 361752--361814 Score: 51
Period size: 6 Copynumber: 10.7 Consensus size: 6
361742 TGCAACTAGT
* * * *
361752 TTAAAA ATAAAA -TAAAA -TAAAA TAACAAA TCCAAAA TTAAAA -GAAAA
1 TTAAAA TTAAAA TTAAAA TTAAAA TTA-AAA T-TAAAA TTAAAA TTAAAA
361799 TTAAAA TTAAAA TTAA
1 TTAAAA TTAAAA TTAA
361815 TCATCATAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
5 14 0.30
6 24 0.51
7 8 0.17
8 1 0.02
ACGTcount: A:0.70, C:0.05, G:0.02, T:0.24
Consensus pattern (6 bp):
TTAAAA
Found at i:362692 original size:13 final size:13
Alignment explanation
Indices: 362674--362699 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
362664 CAATTTTTTG
362674 TGTATCGATACAT
1 TGTATCGATACAT
362687 TGTATCGATACAT
1 TGTATCGATACAT
362700 ACTTGCTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:362764 original size:21 final size:21
Alignment explanation
Indices: 362738--362813 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
362728 CTGCCAAGAA
362738 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTT
*****
362759 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTT
362779 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTT
362800 ATGTATCGATACAT
1 ATGTATCGATACAT
362814 TGCAACATGT
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.29, C:0.16, G:0.12, T:0.43
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTT
Found at i:362784 original size:20 final size:20
Alignment explanation
Indices: 362759--362831 Score: 92
Period size: 20 Copynumber: 3.6 Consensus size: 20
362749 CATCTTTTTT
362759 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
*****
362779 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACAT-TGCAAC
362800 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
362820 ATGTATCGATAC
1 ATGTATCGATAC
362832 TTTGAATTGT
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
20 27 0.64
21 15 0.36
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:362795 original size:41 final size:41
Alignment explanation
Indices: 362738--362831 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
362728 CTGCCAAGAA
362738 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
362779 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
362820 ATGTATCGATAC
1 ATGTATCGATAC
362832 TTTGAATTGT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
Found at i:365287 original size:13 final size:13
Alignment explanation
Indices: 365269--365307 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
365259 ATAATCACCC
*
365269 TGTATCGATACAG
1 TGTATCGATACAA
365282 TGTATCGATACAA
1 TGTATCGATACAA
365295 TGTATCGATACAA
1 TGTATCGATACAA
365308 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:365318 original size:20 final size:20
Alignment explanation
Indices: 365293--365371 Score: 70
Period size: 20 Copynumber: 3.7 Consensus size: 20
365283 GTATCGATAC
365293 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
365313 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
*
365338 GATGTATCGATACACAA-AAA
1 AATGTATCGATACA-AAGAAA
*
365358 CATGTATCGATACA
1 AATGTATCGATACA
365372 TTTTGGACAT
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
20 32 0.65
25 16 0.33
26 1 0.02
ACGTcount: A:0.46, C:0.15, G:0.14, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:369473 original size:21 final size:22
Alignment explanation
Indices: 369431--369473 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
369421 TTTTCAATTT
* *
369431 ATTGTCTTCTTTTAGTTTAATG
1 ATTGTCTTCTTATAGCTTAATG
369453 ATTGTCTTCTTAT-GCTTAATG
1 ATTGTCTTCTTATAGCTTAATG
369474 TTCATGGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.19, C:0.12, G:0.14, T:0.56
Consensus pattern (22 bp):
ATTGTCTTCTTATAGCTTAATG
Found at i:371496 original size:13 final size:13
Alignment explanation
Indices: 371478--371503 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
371468 CAATTTTTTG
371478 TGTATCGATACAT
1 TGTATCGATACAT
371491 TGTATCGATACAT
1 TGTATCGATACAT
371504 ACTTGCTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:371568 original size:21 final size:21
Alignment explanation
Indices: 371542--371617 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
371532 CTGCCAAGAA
371542 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTT
*****
371563 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTT
371583 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTT
371604 ATGTATCGATACAT
1 ATGTATCGATACAT
371618 TGCAACATGT
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.29, C:0.16, G:0.12, T:0.43
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTT
Found at i:371588 original size:20 final size:20
Alignment explanation
Indices: 371563--371635 Score: 92
Period size: 20 Copynumber: 3.6 Consensus size: 20
371553 CATCTTTTTT
371563 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
*****
371583 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACAT-TGCAAC
371604 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
371624 ATGTATCGATAC
1 ATGTATCGATAC
371636 TTTGAATTGT
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
20 27 0.64
21 15 0.36
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:371599 original size:41 final size:41
Alignment explanation
Indices: 371542--371635 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
371532 CTGCCAAGAA
371542 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
371583 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
371624 ATGTATCGATAC
1 ATGTATCGATAC
371636 TTTGAATTGT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
Found at i:373173 original size:21 final size:21
Alignment explanation
Indices: 373148--373190 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
373138 TATAACTTCA
*
373148 AGAGAATTTTTTTGTTCATAG
1 AGAGAATTTTTGTGTTCATAG
*
373169 AGAGAGTTTTTGTGTTCATAG
1 AGAGAATTTTTGTGTTCATAG
373190 A
1 A
373191 AATCAAATCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.28, C:0.05, G:0.23, T:0.44
Consensus pattern (21 bp):
AGAGAATTTTTGTGTTCATAG
Found at i:374693 original size:13 final size:13
Alignment explanation
Indices: 374675--374700 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
374665 AACCCTTGAA
374675 TGTATCGATACAT
1 TGTATCGATACAT
374688 TGTATCGATACAT
1 TGTATCGATACAT
374701 GTTCATTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:376846 original size:20 final size:20
Alignment explanation
Indices: 376821--376874 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
376811 CTACTACTGT
* *
376821 TTGTATCGATACATGGTACA
1 TTGTATCGATACATAGTAAA
376841 TTGTATCGATACATAGTAAA
1 TTGTATCGATACATAGTAAA
**
376861 AAGTATCGATACAT
1 TTGTATCGATACAT
376875 TGTGTCTAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (20 bp):
TTGTATCGATACATAGTAAA
Found at i:378921 original size:20 final size:20
Alignment explanation
Indices: 378896--378944 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
378886 AGAAGCAATG
*
378896 TCGATACAAT-TCATCATGTA
1 TCGATACAATGT-ACCATGTA
378916 TCGATACAATGTACCATGTA
1 TCGATACAATGTACCATGTA
378936 TCGATACAA
1 TCGATACAA
378945 ACAGTGGTAG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 26 0.96
21 1 0.04
ACGTcount: A:0.37, C:0.20, G:0.12, T:0.31
Consensus pattern (20 bp):
TCGATACAATGTACCATGTA
Found at i:379017 original size:19 final size:20
Alignment explanation
Indices: 378973--379026 Score: 83
Period size: 19 Copynumber: 2.8 Consensus size: 20
378963 CTGCCAGTTT
**
378973 CATGTATCGATACAATTGTC
1 CATGTATCGATACAATTGAA
378993 CATGTATCGATACAA-TGAA
1 CATGTATCGATACAATTGAA
379012 CATGTATCGATACAA
1 CATGTATCGATACAA
379027 AGCATAATGT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.30
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:379038 original size:20 final size:19
Alignment explanation
Indices: 378973--379043 Score: 72
Period size: 20 Copynumber: 3.6 Consensus size: 19
378963 CTGCCAGTTT
* **
378973 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-AGAA
*
378993 CATGTATCGATACAATGAA
1 CATGTATCGATACAAAGAA
379012 CATGTATCGATACAAAGCATA
1 CATGTATCGATACAAAG-A-A
379033 -ATGTATCGATA
1 CATGTATCGATA
379044 TATCTGGGTG
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
19 18 0.39
20 27 0.59
21 1 0.02
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAAAGAA
Found at i:379652 original size:3 final size:3
Alignment explanation
Indices: 379633--379676 Score: 70
Period size: 3 Copynumber: 14.7 Consensus size: 3
379623 AACCATCAAA
* *
379633 GAT GAT GAA GAT AAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
379677 AGTTGACTCG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.39, C:0.00, G:0.32, T:0.30
Consensus pattern (3 bp):
GAT
Found at i:382041 original size:20 final size:19
Alignment explanation
Indices: 381979--382052 Score: 76
Period size: 20 Copynumber: 3.8 Consensus size: 19
381969 CACATCCAGA
* **
381979 TGTATCGATACATTATGCTT
1 TGTATCGATACATGAT-AAT
* *
381999 TGTATCGATACATGTTCAT
1 TGTATCGATACATGATAAT
*
382018 TGTATCGATATATGGATAAT
1 TGTATCGATACAT-GATAAT
382038 TGTATCGATACATGA
1 TGTATCGATACATGA
382053 AACTGGCATT
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
19 16 0.35
20 30 0.65
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.41
Consensus pattern (19 bp):
TGTATCGATACATGATAAT
Found at i:382105 original size:20 final size:19
Alignment explanation
Indices: 382080--382166 Score: 78
Period size: 20 Copynumber: 4.7 Consensus size: 19
382070 CTACCACTCT
*
382080 TTGTATAGATACATGGTACA
1 TTGTATCGATACATGGTA-A
382100 TTGTATCGATAC-----AA
1 TTGTATCGATACATGGTAA
382114 -TGTATCGATACATGGTACA
1 TTGTATCGATACATGGTA-A
* *
382133 TTGTATTGATACATGATGAA
1 TTGTATCGATACATGGT-AA
382153 TTGTATCGATACAT
1 TTGTATCGATACAT
382167 TACTTATAAC
Statistics
Matches: 55, Mismatches: 4, Indels: 16
0.73 0.05 0.21
Matches are distributed among these distances:
13 11 0.20
14 1 0.02
15 1 0.02
18 1 0.02
19 1 0.02
20 39 0.71
21 1 0.02
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.37
Consensus pattern (19 bp):
TTGTATCGATACATGGTAA
Found at i:382117 original size:13 final size:13
Alignment explanation
Indices: 382096--382125 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
382086 AGATACATGG
*
382096 TACATTGTATCGA
1 TACAATGTATCGA
382109 TACAATGTATCGA
1 TACAATGTATCGA
382122 TACA
1 TACA
382126 TGGTACATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
TACAATGTATCGA
Found at i:382124 original size:33 final size:33
Alignment explanation
Indices: 382081--382145 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
382071 TACCACTCTT
382081 TGTATAGATACATGGTACATTGTATCGATACAA
1 TGTATAGATACATGGTACATTGTATCGATACAA
* *
382114 TGTATCGATACATGGTACATTGTATTGATACA
1 TGTATAGATACATGGTACATTGTATCGATACA
382146 TGATGAATTG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.35
Consensus pattern (33 bp):
TGTATAGATACATGGTACATTGTATCGATACAA
Found at i:390725 original size:26 final size:26
Alignment explanation
Indices: 390696--390773 Score: 96
Period size: 26 Copynumber: 3.2 Consensus size: 26
390686 AAAATAAATT
390696 TGAAAAAAGGGGAGAAATTATTTTTA
1 TGAAAAAAGGGGAGAAATTATTTTTA
*
390722 TGAAAAATGGGGAGAAATTA-TTTTA
1 TGAAAAAAGGGGAGAAATTATTTTTA
390747 T---AAAA--GGAGAAATTATTTTTA
1 TGAAAAAAGGGGAGAAATTATTTTTA
*
390768 AGAAAA
1 TGAAAA
390774 GGGGAACTGT
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
20 10 0.22
21 5 0.11
22 3 0.07
24 2 0.04
25 6 0.13
26 19 0.42
ACGTcount: A:0.49, C:0.00, G:0.21, T:0.31
Consensus pattern (26 bp):
TGAAAAAAGGGGAGAAATTATTTTTA
Found at i:391127 original size:20 final size:20
Alignment explanation
Indices: 391074--391128 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
391064 AAATTCCTAG
**
391074 ATGTATCGATACAAAGATCA
1 ATGTATCGATACATTGATCA
391094 ATGTATCGATACATTGAAT-A
1 ATGTATCGATACATTG-ATCA
391114 ATGTATCGATACATT
1 ATGTATCGATACATT
391129 TCCTTGGCAG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 30 0.94
21 2 0.06
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACATTGATCA
Found at i:391876 original size:19 final size:20
Alignment explanation
Indices: 391839--391878 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
391829 TCCCGTGTGA
391839 ATGTATCGATACAATTTTTG
1 ATGTATCGATACAATTTTTG
391859 ATGTATCGATAC-ATTTTTG
1 ATGTATCGATACAATTTTTG
391878 A
1 A
391879 AAATATAGCC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.30, C:0.10, G:0.15, T:0.45
Consensus pattern (20 bp):
ATGTATCGATACAATTTTTG
Found at i:391949 original size:13 final size:13
Alignment explanation
Indices: 391931--391957 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
391921 CAATTTTTTG
391931 TGTATCGATACAT
1 TGTATCGATACAT
391944 TGTATCGATACAT
1 TGTATCGATACAT
391957 T
1 T
391958 CTTTGTGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:391968 original size:19 final size:18
Alignment explanation
Indices: 391911--391974 Score: 66
Period size: 19 Copynumber: 3.7 Consensus size: 18
391901 TACAAGCCAA
391911 TGTATCGATACAATTTTTTG
1 TGTATCGATAC-A-TTTTTG
391931 TGTATCGATACA----T-
1 TGTATCGATACATTTTTG
391944 TGTATCGATACATTCTTTG
1 TGTATCGATACATT-TTTG
391963 TGTATCGATACA
1 TGTATCGATACA
391975 AGTTTGGCTA
Statistics
Matches: 38, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
13 12 0.32
14 1 0.03
18 1 0.03
19 13 0.34
20 11 0.29
ACGTcount: A:0.27, C:0.14, G:0.16, T:0.44
Consensus pattern (18 bp):
TGTATCGATACATTTTTG
Found at i:391968 original size:32 final size:33
Alignment explanation
Indices: 391911--391974 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 33
391901 TACAAGCCAA
*
391911 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATTCTTTGTGTATCGATACAT
391944 TGTATCGATAC-ATTCTTTGTGTATCGATACA
1 TGTATCGATACAATTCTTTGTGTATCGATACA
391975 AGTTTGGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 19 0.63
33 11 0.37
ACGTcount: A:0.27, C:0.14, G:0.16, T:0.44
Consensus pattern (33 bp):
TGTATCGATACAATTCTTTGTGTATCGATACAT
Found at i:392079 original size:20 final size:20
Alignment explanation
Indices: 392026--392081 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
392016 ACATCTTTTT
*
392026 CATGTATCGATACATTGCAA
1 CATGTATCGATACTTTGCAA
392046 CATGTATCGATACTTTG-AA
1 CATGTATCGATACTTTGCAA
*
392065 CTGTGTATCGATACTTT
1 C-ATGTATCGATACTTT
392082 TAAGGGTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 3 0.09
20 30 0.91
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.38
Consensus pattern (20 bp):
CATGTATCGATACTTTGCAA
Found at i:394059 original size:21 final size:20
Alignment explanation
Indices: 394030--394072 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
394020 GACTAGTGTG
* *
394030 GGGACTGCCCGGTTGTGACCT
1 GGGACTG-CCGGTCGCGACCT
*
394051 GGGAGTGCCGGTCGCGACCT
1 GGGACTGCCGGTCGCGACCT
394071 GG
1 GG
394073 TGGTGCTGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.09, C:0.28, G:0.44, T:0.19
Consensus pattern (20 bp):
GGGACTGCCGGTCGCGACCT
Found at i:396630 original size:15 final size:15
Alignment explanation
Indices: 396610--396640 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
396600 ATTTCGTTTG
*
396610 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
396625 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
396640 G
1 G
396641 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:400744 original size:32 final size:33
Alignment explanation
Indices: 400685--400748 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
400675 TACAAGCCAA
**
400685 TGTATCGATACAATTTTTTGTGCATCGATACAT
1 TGTATCGATACAATACTTTGTGCATCGATACAT
*
400718 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGCATCGATACA
400749 GTTTGGCTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGCATCGATACAT
Found at i:400874 original size:20 final size:20
Alignment explanation
Indices: 400799--400871 Score: 112
Period size: 20 Copynumber: 3.6 Consensus size: 20
400789 ACATCTTTTT
400799 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
400819 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
*
400839 CATGTATCGATACTTTG-AA
1 CATGTATCGATACATTGCAA
*
400858 CTGTGTATCGATAC
1 C-ATGTATCGATAC
400872 TTTTAAGGGT
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
19 3 0.06
20 47 0.94
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (20 bp):
CATGTATCGATACATTGCAA
Found at i:402107 original size:49 final size:49
Alignment explanation
Indices: 401950--402696 Score: 472
Period size: 49 Copynumber: 15.9 Consensus size: 49
401940 CGAAGAATGA
* ** * *
401950 CAATGTGCTGATT-AATGGCCAGCGACATTAGACTTGAAGAAGAA--TGC
1 CAATATGCTGATTCAA-GGCCAGCGACATCGGACTTAAAGATGAAGGTGC
* ** * ** * * *
401997 CAATGTGCTGAGACAAGGCCAGCGACATTGGGTTTAGGAATGTTAAAGATGC
1 CAATATGCTGATTCAAGGCCAGCGACATCGGACTTA--AA-GATGAAGGTGC
* *
402049 CAATATGCTGATTGAAGGCC-GACGATATCGGACTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAG-CGACATCGGACTTAAAGATGAAGGTGC
* * * *
402098 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATCGGACTTAAAGATGAAGGTGC
* * * * *
402147 TAATATGCTGATTCGAGGCCAGTGATATCGGACTTAAAGATGAAGATGC
1 CAATATGCTGATTCAAGGCCAGCGACATCGGACTTAAAGATGAAGGTGC
* *
402196 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGGTTAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATCGGACTTAAAGAT-G--AAGGTGC
* * * * *
402248 CAATGTGCTGATTCAAGGCCAACGACACCGGTCTTAAAGATGAAGGTGG
1 CAATATGCTGATTCAAGGCCAGCGACATCGGACTTAAAGATGAAGGTGC
* * *
402297 CAATATGCTGATTCAAGGCCAGCGATATTGGGC-T-----T----GTGC
1 CAATATGCTGATTCAAGGCCAGCGACATCGGACTTAAAGATGAAGGTGC
* ** * * *
402336 CAATGTGCTGATTCAAGGCCAGCGACATTAGTCTGAAAGA-CAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATCGGACTTAAAGATGAAGGTGC
* * * * * *
402384 CAATATGTTAATTCAAGGACAGCGATATTGGGC-T-----T--A--TGC
1 CAATATGCTGATTCAAGGCCAGCGACATCGGACTTAAAGATGAAGGTGC
* * ** * * *
402423 CAATGTGCTGATTCAAGGCCAACGACATTAGTCTTAGAGA-CAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATCGGACTTAAAGATGAAGGTGC
* * * *
402471 CAATATGCTAATTCAAGGCCAGCGATATTGGGC-T-----TGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATCGGACTTAAAGATGAAGGTGC
* * * * *
402514 CAATGTGCTGATTCAAGGCCAGTGACATTGGTCTTAAAGATAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATCGGACTTAAAGATGAAGGTGC
* * * *
402563 CAATATGCTGATTCAAGGCTAGCGATATTGTACTT----A--AAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATCGGACTTAAAGATGAAGGTGC
* * * * * * *
402606 TAATGTGCTAATTCAAGGCTAGCGACATTGGTCTTAAAGATAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATCGGACTTAAAGATGAAGGTGC
* *
402655 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
1 CAATATGCTGATTCAAGGCCAGCGACATCGGACTTAAAGATG
402697 CCACGAAGTT
Statistics
Matches: 548, Mismatches: 107, Indels: 88
0.74 0.14 0.12
Matches are distributed among these distances:
39 60 0.11
40 1 0.00
41 1 0.00
43 72 0.13
44 1 0.00
45 1 0.00
46 1 0.00
47 29 0.05
48 63 0.11
49 238 0.43
50 7 0.01
51 2 0.00
52 72 0.13
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (49 bp):
CAATATGCTGATTCAAGGCCAGCGACATCGGACTTAAAGATGAAGGTGC
Found at i:402120 original size:101 final size:98
Alignment explanation
Indices: 401994--402328 Score: 399
Period size: 101 Copynumber: 3.4 Consensus size: 98
401984 TGAAGAAGAA
** *
401994 TGCCAATGTGCTGAGACAAGGCCAGCGACATTGGGTTTAGGAATGTTAAAGATGCCAATATGCTG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGTTTA--AATGTTAAAGGTGCCAATATGCTG
402059 ATTGAAGGCCGACGATATCGGACTTAAAGATGAAGG
64 ATTGAAGGCC-ACGATATCGGACTTAAAGATGAAGG
* *
402095 TGCCAATGTGCTGATTCAAGGCCAGCGACATT-GGTCTTAAA-GATAAAGGTGCTAATATGCTGA
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGT-TTAAATGTTAAAGGTGCCAATATGCTGA
* *
402158 TTCG-AGGCCAGTGATATCGGACTTAAAGATGAAGA
65 TT-GAAGGCCA-CGATATCGGACTTAAAGATGAAGG
* * *
402193 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGGTT-AAGGTGCCAATGTGCT
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGG-GTTTAA-AT-GTTAAAGGTGCCAATATGCT
* * * *
402257 GATTCAAGGCCAACGACACCGGTCTTAAAGATGAAGG
63 GATTGAAGGCC-ACGATATCGGACTTAAAGATGAAGG
* * *
402294 TGGCAATATGCTGATTCAAGGCCAGCGATATTGGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGG
402329 CTTGTGCCAA
Statistics
Matches: 202, Mismatches: 22, Indels: 21
0.82 0.09 0.09
Matches are distributed among these distances:
97 1 0.00
98 80 0.40
99 7 0.03
100 5 0.02
101 106 0.52
102 3 0.01
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.24
Consensus pattern (98 bp):
TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGTTTAAATGTTAAAGGTGCCAATATGCTGAT
TGAAGGCCACGATATCGGACTTAAAGATGAAGG
Found at i:402356 original size:39 final size:39
Alignment explanation
Indices: 402297--402544 Score: 145
Period size: 48 Copynumber: 5.8 Consensus size: 39
402287 ATGAAGGTGG
402297 CAATATGCTGATTCAAGGCCAGCGATATTGGGCTTGTGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGGCTTGTGC
* * **
402336 CAATGTGCTGATTCAAGGCCAGCGACATTAGTCTGAAAGACAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCG--A-TA-T-TG---GGC-TTGTGC
* * * *
402384 CAATATGTTAATTCAAGGACAGCGATATTGGGCTTATGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGGCTTGTGC
* * * **
402423 CAATGTGCTGATTCAAGGCCAACGACATTAGTCTTAGAGACAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCG--A-TA---TT-G-GGC-TTGTGC
*
402471 CAATATGCTAATTCAAGGCCAGCGATATTGGGCTTGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGGCTT----GTGC
* * *
402514 CAATGTGCTGATTCAAGGCCAGTGACATTGG
1 CAATATGCTGATTCAAGGCCAGCGATATTGG
402545 TCTTAAAGAT
Statistics
Matches: 156, Mismatches: 31, Indels: 40
0.69 0.14 0.18
Matches are distributed among these distances:
39 45 0.29
40 4 0.03
41 3 0.02
42 6 0.04
43 34 0.22
44 3 0.02
45 6 0.04
46 3 0.02
47 4 0.03
48 48 0.31
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (39 bp):
CAATATGCTGATTCAAGGCCAGCGATATTGGGCTTGTGC
Found at i:402528 original size:43 final size:43
Alignment explanation
Indices: 402288--402699 Score: 293
Period size: 43 Copynumber: 9.3 Consensus size: 43
402278 GTCTTAAAGA
* *
402288 TGAAGGTGGCAATATGCTGATTCAAGGCCAGCGATATTGGGCT
1 TGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCT
* * *
402331 T----GTGCCAATGTGCTGATTCAAGGCCAGCGACATTAGTCT
1 TGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCT
* * * * *
402370 GAAAGACAAGGTGCCAATATGTTAATTCAAGGACAGCGATATTGGGCT
1 ---TG--AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCT
* * * *
402418 T--A--TGCCAATGTGCTGATTCAAGGCCAACGACATTAGTCT
1 TGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCT
* *
402457 TAGAGACAAGGTGCCAATATGCTAATTCAAGGCCAGCGATATTGGGCT
1 T---G--AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCT
* * *
402505 TGAAGGTGCCAATGTGCTGATTCAAGGCCAGTGACATTGGTCT
1 TGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCT
*
402548 TAAAGATAAAGGTGCCAATATGCTGATTCAAGGCTAGCGATATT-GTACT
1 T---G---AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGT-CT
* * * * * *
402597 TAAAGGTGCTAATGTGCTAATTCAAGGCTAGCGACATTGGTCT
1 TGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCT
*
402640 TAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACT
1 T---G---AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCT
* *
402689 TAAAGATGCCA
1 TGAAGGTGCCA
402700 CGAAGTTGTG
Statistics
Matches: 286, Mismatches: 51, Indels: 64
0.71 0.13 0.16
Matches are distributed among these distances:
39 63 0.22
41 1 0.00
43 81 0.28
44 2 0.01
45 1 0.00
46 2 0.01
48 65 0.23
49 71 0.25
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (43 bp):
TGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCT
Found at i:402693 original size:92 final size:91
Alignment explanation
Indices: 402239--402691 Score: 616
Period size: 92 Copynumber: 5.0 Consensus size: 91
402229 TTAAAGATGG
* ** * *
402239 TTAAGGTGCCAATGTGCTGATTCAAGGCCAACGACACCGGTCTTAAAGATGAAGGTGGCAATATG
1 TTAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATG
402304 CTGATTCAAGGCCAGCGATATTGGGC
66 CTGATTCAAGGCCAGCGATATTGGGC
* * *
402330 TT---GTGCCAATGTGCTGATTCAAGGCCAGCGACATTAGTCTGAAAGA-CAAGGTGCCAATATG
1 TTAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATG
* * *
402391 TTAATTCAAGGACAGCGATATTGGGC
66 CTGATTCAAGGCCAGCGATATTGGGC
* * * *
402417 TT-A--TGCCAATGTGCTGATTCAAGGCCAACGACATTAGTCTTAGAGA-CAAGGTGCCAATATG
1 TTAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATG
*
402478 CTAATTCAAGGCCAGCGATATTGGGC
66 CTGATTCAAGGCCAGCGATATTGGGC
*
402504 TTGAAGGTGCCAATGTGCTGATTCAAGGCCAGTGACATTGGTCTTAAAGATAAAGGTGCCAATAT
1 TT-AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATAT
* **
402569 GCTGATTCAAGGCTAGCGATATTGTAC
65 GCTGATTCAAGGCCAGCGATATTGGGC
* * *
402596 TTAAAGGTGCTAATGTGCTAATTCAAGGCTAGCGACATTGGTCTTAAAGATAAAGGTGCCAATAT
1 TT-AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATAT
*
402661 GCTGATTCAAGGCCAGCGATATTGGAC
65 GCTGATTCAAGGCCAGCGATATTGGGC
402688 TTAA
1 TTAA
402692 AGATGCCACG
Statistics
Matches: 325, Mismatches: 31, Indels: 12
0.88 0.08 0.03
Matches are distributed among these distances:
87 119 0.37
88 39 0.12
89 1 0.00
91 43 0.13
92 123 0.38
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (91 bp):
TTAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATG
CTGATTCAAGGCCAGCGATATTGGGC
Found at i:402837 original size:33 final size:32
Alignment explanation
Indices: 402740--403100 Score: 298
Period size: 33 Copynumber: 11.3 Consensus size: 32
402730 GCCATGGAAG
* *
402740 TGTGGGCTTAAAAGGGAAAAGGATGCCACGGAGT
1 TGTGGACTTAAAA-GGAAAAGG-TGCCACAGAGT
** * *
402774 CATGGACTTAAAAAGAAAAGCTGCCACAGAGT
1 TGTGGACTTAAAAGGAAAAGGTGCCACAGAGT
402806 TGTGGACTTAAAAGGAACAAGGTGCCACAGAGT
1 TGTGGACTTAAAAGGAA-AAGGTGCCACAGAGT
* * * *
402839 TATGGACGTAAAAGGAAAAAGATGCCACGGAGT
1 TGTGGACTTAAAAGG-AAAAGGTGCCACAGAGT
*
402872 TGTGGACATAAAA-G----GGTGCCACAGAGT
1 TGTGGACTTAAAAGGAAAAGGTGCCACAGAGT
*
402899 TGTGGACTTAAAAAGAAAAAGAGTGCCACAGAGT
1 TGTGGACTT-AAAAGGAAAAG-GTGCCACAGAGT
* *
402933 TGTGGGCTTTCAAAA--AAAAGGTGCCACGGAGT
1 TGTGGAC-TT-AAAAGGAAAAGGTGCCACAGAGT
* * *
402965 TGTGGACTTAAAAGGAAAAAAGTGCCACGGTGT
1 TGTGGACTTAAAAGG-AAAAGGTGCCACAGAGT
* *
402998 TATGGACTTAAAA-G----GGTGCCATAGAGT
1 TGTGGACTTAAAAGGAAAAGGTGCCACAGAGT
*
403025 TGTGGACTTAAAAGGAAAAAGAGTGCCACGGAG-
1 TGTGGACTTAAAAGG-AAAAG-GTGCCACAGAGT
* * *
403058 TGTGGGCTTTAAAAAGAATAAGGTGCCATAGAGT
1 TGTGGAC-TTAAAAGGAA-AAGGTGCCACAGAGT
*
403092 CGTGGACTT
1 TGTGGACTT
403101 TGGGAAGAGA
Statistics
Matches: 264, Mismatches: 40, Indels: 47
0.75 0.11 0.13
Matches are distributed among these distances:
27 40 0.15
28 5 0.02
30 4 0.02
31 2 0.01
32 43 0.16
33 110 0.42
34 54 0.20
35 6 0.02
ACGTcount: A:0.37, C:0.13, G:0.30, T:0.20
Consensus pattern (32 bp):
TGTGGACTTAAAAGGAAAAGGTGCCACAGAGT
Found at i:402905 original size:60 final size:61
Alignment explanation
Indices: 402756--403062 Score: 300
Period size: 60 Copynumber: 4.9 Consensus size: 61
402746 CTTAAAAGGG
* * ** * * * *
402756 AAAAGGATGCCACGGAGTCATGGACTTAAAAAG-AAAAG-CTGCCACAGAGTTGTGGACTT
1 AAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGACAT
* *
402815 AAAAGGAACAAGGTGCCACAGAGTTATGGACGTAAAAGGAAAAAGA-TGCCACGGAGTTGTGGAC
1 AAAA-G-----GGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGAC
402879 AT
60 AT
* * *
402881 AAAAGGGTGCCACAGAGTTGTGGACTTAAAAAGAAAAAGAGTGCCACAGAGTTGTGGGCTTTCAA
1 AAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGT-GG---AC-A
*
402946 A
61 T
* * * * *
402947 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAA-AGTGCCACGGTGTTATGGACTT
1 AAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGACAT
*
403007 AAAAGGGTGCCATAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAG-TGTGG
1 AAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGG
403063 GCTTTAAAAA
Statistics
Matches: 206, Mismatches: 27, Indels: 29
0.79 0.10 0.11
Matches are distributed among these distances:
59 4 0.02
60 72 0.35
61 25 0.12
62 2 0.01
64 2 0.01
65 38 0.18
66 63 0.31
ACGTcount: A:0.37, C:0.14, G:0.30, T:0.19
Consensus pattern (61 bp):
AAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGACAT
Found at i:402951 original size:93 final size:92
Alignment explanation
Indices: 402795--402979 Score: 264
Period size: 93 Copynumber: 2.0 Consensus size: 92
402785 AAAGAAAAGC
* *
402795 TGCCACAGAGTTGTGGACTTAAAAGGAACAAGGTGCCACAGAGTTATGGACGTAAAAGGAAAAAG
1 TGCCACAGAGTTGTGGACTTAAAAAGAAAAAGGTGCCACAGAGTTATGGACGTAAAA-GAAAAAG
402860 ATGCCACGGAGTTGTGGACATAAAAGGG
65 ATGCCACGGAGTTGTGGACATAAAAGGG
* * * *
402888 TGCCACAGAGTTGTGGACTTAAAAAGAAAAAGAGTGCCACAGAGTTGTGGGCTTTCAAA-AAAAA
1 TGCCACAGAGTTGTGGACTTAAAAAGAAAAAG-GTGCCACAGAGTTATGGAC-GTAAAAGAAAAA
* *
402952 GGTGCCACGGAGTTGTGGACTTAAAAGG
64 GATGCCACGGAGTTGTGGACATAAAAGG
402980 AAAAAAGTGC
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
93 61 0.74
94 17 0.21
95 4 0.05
ACGTcount: A:0.37, C:0.14, G:0.30, T:0.19
Consensus pattern (92 bp):
TGCCACAGAGTTGTGGACTTAAAAAGAAAAAGGTGCCACAGAGTTATGGACGTAAAAGAAAAAGA
TGCCACGGAGTTGTGGACATAAAAGGG
Found at i:402977 original size:126 final size:127
Alignment explanation
Indices: 402756--403100 Score: 443
Period size: 126 Copynumber: 2.7 Consensus size: 127
402746 CTTAAAAGGG
* * ** * *
402756 AAAAGGATGCCACGGAGTCATGGACTTAAAAAG-AAAAG-CTGCCACAGAGTTGTGGAC-TTAAA
1 AAAAGGGTGCCACAGAGTTGTGGACTTAAAAAGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAA
* * *
402818 AGGAACAAGGTGCCACAGAGTTATGGACGTAAAAGG-AAAAAGATGCCACGGAGTTGTGGACAT
66 A-GAACAAGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAAG-TGCCACGGAGTTATGGACAT
402881 AAAAGGGTGCCACAGAGTTGTGGACTTAAAAAGAAAAAGAGTGCCACAGAGTTGTGGGCTTTCAA
1 AAAAGGGTGCCACAGAGTTGTGGACTTAAAAAGAAAAAGAGTGCCACAGAGTTGTGGGCTTT-AA
* * *
402946 AA-AA-AAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAAGTGCCACGGTGTTATGGACTT
65 AAGAACAAGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAAGTGCCACGGAGTTATGGACAT
* * *
403007 AAAAGGGTGCCATAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAG-TGTGGGCTTTAAA
1 AAAAGGGTGCCACAGAGTTGTGGACTTAAAAAGAAAAAGAGTGCCACAGAGTTGTGGGCTTT-AA
* * *
403071 AAGAATAAGGTGCCATAGAGTCGTGGACTT
65 AAGAACAAGGTGCCACAGAGTTGTGGACTT
403101 TGGGAAGAGA
Statistics
Matches: 194, Mismatches: 19, Indels: 12
0.86 0.08 0.05
Matches are distributed among these distances:
125 43 0.22
126 99 0.51
127 46 0.24
128 2 0.01
129 4 0.02
ACGTcount: A:0.37, C:0.14, G:0.30, T:0.19
Consensus pattern (127 bp):
AAAAGGGTGCCACAGAGTTGTGGACTTAAAAAGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAA
AGAACAAGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAAGTGCCACGGAGTTATGGACAT
Found at i:403018 original size:27 final size:27
Alignment explanation
Indices: 402986--403039 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
402976 AAGGAAAAAA
* *
402986 GTGCCACGGTGTTATGGACTTAAAAGG
1 GTGCCACAGAGTTATGGACTTAAAAGG
* *
403013 GTGCCATAGAGTTGTGGACTTAAAAGG
1 GTGCCACAGAGTTATGGACTTAAAAGG
403040 AAAAAGAGTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.28, C:0.13, G:0.33, T:0.26
Consensus pattern (27 bp):
GTGCCACAGAGTTATGGACTTAAAAGG
Found at i:403051 original size:34 final size:33
Alignment explanation
Indices: 403007--403100 Score: 100
Period size: 34 Copynumber: 2.8 Consensus size: 33
402997 TTATGGACTT
* *
403007 AAAAGGGTGCCATAGAGTTGTGGACTTAAAAGG
1 AAAAAGGTGCCATAGAGTTGTGGACTTAAAAAG
** *
403040 AAAAAGAGTGCCACGGAG-TGTGGGCTTTAAAAAG
1 AAAAAG-GTGCCATAGAGTTGTGGAC-TTAAAAAG
* *
403074 AATAAGGTGCCATAGAGTCGTGGACTT
1 AAAAAGGTGCCATAGAGTTGTGGACTT
403101 TGGGAAGAGA
Statistics
Matches: 48, Mismatches: 10, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
33 22 0.46
34 26 0.54
ACGTcount: A:0.35, C:0.12, G:0.32, T:0.21
Consensus pattern (33 bp):
AAAAAGGTGCCATAGAGTTGTGGACTTAAAAAG
Found at i:403062 original size:159 final size:161
Alignment explanation
Indices: 402692--403101 Score: 423
Period size: 159 Copynumber: 2.6 Consensus size: 161
402682 TTGGACTTAA
* * *
402692 AGATGCCAC-GAAGTTGTGGACTT-ATAGGAAAAAGAGATGCCATGGAAGTGTGGGCTTAAAAGG
1 AGATGCCACAG-AGTTGTGGACTTAAAAGGAAAAAGAG-TGCCACGG-AGTGTGGGCTTAAAAAG
* * *
402755 GAAAAGGATGCCACGGAGTCATGGAC-TTAAAAAGAAAAGCTGCCACAGAGTTGTGGACTTAAAA
63 AAAAAGG-TGCCACAGAGTCGTGGACTTTAAAAAGAAAAGCTGCCACAGAGTTGTGGACTTAAAA
* *
402819 GGAACAAGGTGCCACAGAGTTATGGACGTAAAAGG
127 GGAAAAAAGTGCCACAGAGTTATGGACGTAAAAGG
* * * *
402854 AAAAAGATGCCACGGAGTTGTGGACATAAAA-G-----G-GTGCCACAGAGTTGTGGACTTAAAA
1 ----AGATGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAG-TGTGGGCTTAAAA
* * * * *
402912 AGAAAAAGAGTGCCACAGAGTTGTGGGCTTTCAAAA-AAAAGGTGCCACGGAGTTGTGGACTTAA
61 AGAAAAAG-GTGCCACAGAGTCGTGGACTTTAAAAAGAAAAGCTGCCACAGAGTTGTGGACTTAA
* * *
402976 AAGGAAAAAAGTGCCACGGTGTTATGGACTTAAAAGG
125 AAGGAAAAAAGTGCCACAGAGTTATGGACGTAAAAGG
*
403013 -G-TGCCATAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTGTGGGCTTTAAAAAGAA
1 AGATGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTGTGGGC-TTAAAAAGAA
* *
403076 TAAGGTGCCATAGAGTCGTGGACTTT
65 AAAGGTGCCACAGAGTCGTGGACTTT
403102 GGGAAGAGAT
Statistics
Matches: 203, Mismatches: 28, Indels: 33
0.77 0.11 0.12
Matches are distributed among these distances:
153 21 0.10
154 2 0.01
158 2 0.01
159 122 0.60
160 31 0.15
161 1 0.00
166 21 0.10
167 3 0.01
ACGTcount: A:0.37, C:0.13, G:0.30, T:0.20
Consensus pattern (161 bp):
AGATGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTGTGGGCTTAAAAAGAAA
AAGGTGCCACAGAGTCGTGGACTTTAAAAAGAAAAGCTGCCACAGAGTTGTGGACTTAAAAGGAA
AAAAGTGCCACAGAGTTATGGACGTAAAAGG
Found at i:403070 original size:94 final size:92
Alignment explanation
Indices: 402915--403085 Score: 220
Period size: 94 Copynumber: 1.8 Consensus size: 92
402905 CTTAAAAAGA
* * *
402915 AAAAGAGTGCCACAGAGTTGTGGGCTTTCAAAAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
1 AAAAGAGTGCCACAGAGTTGTGGACTTTAAAAAAAAAGGTGCCACGGAGTTGTGGACTTAAAAAG
402980 AAAAAAGTGCCACGGTGTTATGGACTT
66 AAAAAAGTGCCACGGTGTTATGGACTT
* * *
403007 AAAAGGGTGCCATAGAGTTGTGGAC-TTAAAAGGAAAAAGAGTGCCACGGAG-TGTGGGCTTTAA
1 AAAAGAGTGCCACAGAGTTGTGGACTTTAAAA--AAAAAG-GTGCCACGGAGTTGTGGAC-TTAA
* *
403070 AAAGAATAAGGTGCCA
62 AAAGAAAAAAGTGCCA
403086 TAGAGTCGTG
Statistics
Matches: 67, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
91 5 0.07
92 22 0.33
93 12 0.18
94 28 0.42
ACGTcount: A:0.36, C:0.13, G:0.30, T:0.20
Consensus pattern (92 bp):
AAAAGAGTGCCACAGAGTTGTGGACTTTAAAAAAAAAGGTGCCACGGAGTTGTGGACTTAAAAAG
AAAAAAGTGCCACGGTGTTATGGACTT
Found at i:403245 original size:33 final size:32
Alignment explanation
Indices: 403021--403856 Score: 764
Period size: 30 Copynumber: 26.6 Consensus size: 32
403011 GGGTGCCATA
* ** *
403021 GAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACG
1 GAGTCGTGGACTTTGAA-GAAAAAGA-TGCCACT
* * * *
403055 GAGT-GTGGGCTTTAAAAAGAATAAGGTGCCA-T
1 GAGTCGTGGACTTT--GAAGAAAAAGATGCCACT
* *
403087 AGAGTCGTGGACTTTG--GGAAGAGATGCCACT
1 -GAGTCGTGGACTTTGAAGAAAAAGATGCCACT
*
403118 GAGTCGTGGAC-TTG-AG-AAGAGATTGCCACT
1 GAGTCGTGGACTTTGAAGAAAAAGA-TGCCACT
* *
403148 GAGTCGAGGACTTTGAAG-AAAAGATGGCACT
1 GAGTCGTGGACTTTGAAGAAAAAGATGCCACT
* * * * *
403179 AAGTCGTGAACTTTG--GGAAGAGATGCCATT
1 GAGTCGTGGACTTTGAAGAAAAAGATGCCACT
403209 GAGTCGTGGACTTTGAAGAAAAAAGATGCCACT
1 GAGTCGTGGACTTTGAAG-AAAAAGATGCCACT
403242 GAGTCGTGGACTTTGAAGAAAAAAGATGCCACT
1 GAGTCGTGGACTTTGAAG-AAAAAGATGCCACT
* *
403275 GAGTCGTGGACTTAGAAGAAAAGGATGCCACT
1 GAGTCGTGGACTTTGAAGAAAAAGATGCCACT
* * * *
403307 GAGTCATGGAC-TT--AGAAAAGTGATACCATT
1 GAGTCGTGGACTTTGAAGAAAA-AGATGCCACT
*
403337 GAGTTGTGGACTTTGAAGAAAAAAGATGCCACT
1 GAGTCGTGGACTTTGAAG-AAAAAGATGCCACT
* * * * *
403370 AAGTCATGGACTTAGAAGAAAAGGATGCCATT
1 GAGTCGTGGACTTTGAAGAAAAAGATGCCACT
* *
403402 GAGTTGTGCACTTTGAAG-AAAAGATGCCACT
1 GAGTCGTGGACTTTGAAGAAAAAGATGCCACT
403433 GAGTCGTGGACTTTGAAGAAAAAAGATGCCACT
1 GAGTCGTGGACTTTGAAG-AAAAAGATGCCACT
* * *
403466 AAGTCGTGGACTTTG-AG-AAGAGACTGCCATT
1 GAGTCGTGGACTTTGAAGAAAAAGA-TGCCACT
*
403497 GAGTCATGGACTTTGAAG-AAAAGATGCCACT
1 GAGTCGTGGACTTTGAAGAAAAAGATGCCACT
* * *
403528 AAGTCGTGGACTTTG--GGAAGAGATGCCACT
1 GAGTCGTGGACTTTGAAGAAAAAGATGCCACT
403558 GAGTCGTGGAC-TT--AGAAAAGAGATGCCACT
1 GAGTCGTGGACTTTGAAGAAAA-AGATGCCACT
*
403588 GAGTTGTGGACTTTGAAG-AAAAGATGCCACT
1 GAGTCGTGGACTTTGAAGAAAAAGATGCCACT
* *
403619 GAGTCATGGACTTTGAAGAAAATAGATGGCACT
1 GAGTCGTGGACTTTGAAGAAAA-AGATGCCACT
**
403652 GAGTCGTGGACTTT-AAG-AAGCGATTGCCACT
1 GAGTCGTGGACTTTGAAGAAAAAGA-TGCCACT
* * * *
403683 GAGTGGGGGACTTTG--GGAAGAGATGCCACT
1 GAGTCGTGGACTTTGAAGAAAAAGATGCCACT
*
403713 GAGTCATGGACTTTGAAGAAAAAGGATGCCACT
1 GAGTCGTGGACTTTGAAGAAAAA-GATGCCACT
* * *
403746 GAGTCGTGAACTTGGAAGAAAAGGATGCCACT
1 GAGTCGTGGACTTTGAAGAAAAAGATGCCACT
* * * *
403778 AAGTCATGGACTTAG-A-AAAAAGACGCCACT
1 GAGTCGTGGACTTTGAAGAAAAAGATGCCACT
* *
403808 GAGTTGTGGACTTTG-AG-AAGAGATGCCACT
1 GAGTCGTGGACTTTGAAGAAAAAGATGCCACT
* *
403838 TAGTCATGGACTTT-AAGAA
1 GAGTCGTGGACTTTGAAGAA
403857 GAGAGATTTG
Statistics
Matches: 663, Mismatches: 100, Indels: 81
0.79 0.12 0.10
Matches are distributed among these distances:
29 22 0.03
30 194 0.29
31 145 0.22
32 98 0.15
33 179 0.27
34 22 0.03
35 3 0.00
ACGTcount: A:0.33, C:0.15, G:0.29, T:0.23
Consensus pattern (32 bp):
GAGTCGTGGACTTTGAAGAAAAAGATGCCACT
Found at i:403350 original size:95 final size:94
Alignment explanation
Indices: 403040--403850 Score: 801
Period size: 95 Copynumber: 8.6 Consensus size: 94
403030 ACTTAAAAGG
* * * * *
403040 AAAAAGAGTGCCACGGAGT-GTGGGCTTT-AAAAAGAATAAGGTGCCA-TAGAGTCGTGGACTTT
1 AAAAAGA-TGCCACTGAGTCGTGGACTTTGAAGAA-AA-AAGATGCCACT-GAGTCGTGGACTTA
* *
403102 G-GGAAGAGATGCCACTGAGTCGTGGAC-TTGA
62 GAAGAAAAGATGCCACTGAGTCGTGGACTTTGA
* * * * * * * *
403133 GAAGAGATTGCCACTGAGTCGAGGACTTTGAAG--AAAAGATGGCACTAAGTCGTGAACTTTG-G
1 AAAAAGA-TGCCACTGAGTCGTGGACTTTGAAGAAAAAAGATGCCACTGAGTCGTGGACTTAGAA
* *
403195 GAAGAGATGCCATTGAGTCGTGGACTTTGAAGA
65 GAAAAGATGCCACTGAGTCGTGGACTTT---GA
403228 AAAAAGATGCCACTGAGTCGTGGACTTTGAAGAAAAAAGATGCCACTGAGTCGTGGACTTAGAAG
1 AAAAAGATGCCACTGAGTCGTGGACTTTGAAGAAAAAAGATGCCACTGAGTCGTGGACTTAGAAG
* *
403293 AAAAGGATGCCACTGAGTCATGGACTTAGA
66 AAAA-GATGCCACTGAGTCGTGGACTTTGA
** * * * * *
403323 AAAGTGATACCATTGAGTTGTGGACTTTGAAGAAAAAAGATGCCACTAAGTCATGGACTTAGAAG
1 AAAAAGATGCCACTGAGTCGTGGACTTTGAAGAAAAAAGATGCCACTGAGTCGTGGACTTAGAAG
* * *
403388 AAAAGGATGCCATTGAGTTGTGCACTTTGA
66 AAAA-GATGCCACTGAGTCGTGGACTTTGA
* *
403418 AGAAAAGATGCCACTGAGTCGTGGACTTTGAAGAAAAAAGATGCCACTAAGTCGTGGACTTTG-A
1 A-AAAAGATGCCACTGAGTCGTGGACTTTGAAGAAAAAAGATGCCACTGAGTCGTGGACTTAGAA
* * *
403482 GAAGAGACTGCCATTGAGTCATGGACTTTGA
65 GAAAAGA-TGCCACTGAGTCGTGGACTTTGA
* * *
403513 AGAAAAGATGCCACTAAGTCGTGGACTTTG--G-GAAGAGATGCCACTGAGTCGTGGACTTAGAA
1 A-AAAAGATGCCACTGAGTCGTGGACTTTGAAGAAAAAAGATGCCACTGAGTCGTGGACTTAGAA
* *
403575 -AAGAGATGCCACTGAGTTGTGGACTTTGA
65 GAAAAGATGCCACTGAGTCGTGGACTTTGA
* * * *
403604 AGAAAAGATGCCACTGAGTCATGGACTTTGAAGAAAATAGATGGCACTGAGTCGTGGACTT-TAA
1 A-AAAAGATGCCACTGAGTCGTGGACTTTGAAGAAAAAAGATGCCACTGAGTCGTGGACTTAGAA
** * * *
403668 GAAGCGATTGCCACTGAGTGGGGGACTTTGG
65 GAAAAGA-TGCCACTGAGTCGTGGACTTTGA
* * * * * *
403699 GAAGAGATGCCACTGAGTCATGGACTTTGAAGAAAAAGGATGCCACTGAGTCGTGAACTTGGAAG
1 AAAAAGATGCCACTGAGTCGTGGACTTTGAAGAAAAAAGATGCCACTGAGTCGTGGACTTAGAAG
* * *
403764 AAAAGGATGCCACTAAGTCATGGACTTAGA
66 AAAA-GATGCCACTGAGTCGTGGACTTTGA
* * * * *
403794 AAAAAGACGCCACTGAGTTGTGGACTTTG-AG--AAGAGATGCCACTTAGTCATGGACTT
1 AAAAAGATGCCACTGAGTCGTGGACTTTGAAGAAAAAAGATGCCACTGAGTCGTGGACTT
403851 TAAGAAGAGA
Statistics
Matches: 607, Mismatches: 90, Indels: 43
0.82 0.12 0.06
Matches are distributed among these distances:
91 93 0.15
92 57 0.09
93 20 0.03
94 118 0.19
95 215 0.35
96 80 0.13
97 4 0.01
98 20 0.03
ACGTcount: A:0.33, C:0.15, G:0.29, T:0.23
Consensus pattern (94 bp):
AAAAAGATGCCACTGAGTCGTGGACTTTGAAGAAAAAAGATGCCACTGAGTCGTGGACTTAGAAG
AAAAGATGCCACTGAGTCGTGGACTTTGA
Found at i:403981 original size:8 final size:8
Alignment explanation
Indices: 403958--403987 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
403948 GATGCAAATA
403958 ATGATGTT
1 ATGATGTT
403966 ATTGATGTT
1 A-TGATGTT
403975 ATGATGTT
1 ATGATGTT
403983 ATGAT
1 ATGAT
403988 TACAGCACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (8 bp):
ATGATGTT
Found at i:410125 original size:52 final size:52
Alignment explanation
Indices: 410046--410377 Score: 302
Period size: 52 Copynumber: 6.5 Consensus size: 52
410036 TAAAGAATGT
* ** * **
410046 CAATGTGCTGATTCACGATCAACGACATTAGACTTGAAGATGA-GAATAATGC
1 CAATGTGCTGATTCAAGGCCAACGACATTAGACTTAAAGATGACGAA-GGTGC
* ** *
410098 CAATGTGCTGATTCAAGGCCAATGACATTAGGTTTTAAAGATGACGAAGGCGC
1 CAATGTGCTGATTCAAGGCCAACGACATTA-GACTTAAAGATGACGAAGGTGC
* * * *
410151 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT---GAAGGTGC
1 CAATGTGCTGATTCAAGGCCAACGACATTAGACTTAAAGATGACGAAGGTGC
** * *
410200 CAATGTGCTGATTCAAGGCCAGTGACATTGGACTTAAAGATGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAACGACATTAGACTTAAAGATGACGAAGGTGC
* * * * * * **
410252 CAATATGCTAATTCAAGGCCAGCGATATTGGGCTTAAAGATGGTTG-AGGTGC
1 CAATGTGCTGATTCAAGGCCAACGACATTAGACTTAAAGAT-GACGAAGGTGC
* ** *
410304 CGATGTGCTGATTCAAGGCCAACGACATCGGTCTTAAAGAT-A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAACGACATTAGACTTAAAGATGACGAAGGTGC
*
410353 CAATATGCTGATTCAAGGCCAACGA
1 CAATGTGCTGATTCAAGGCCAACGA
410378 TACAGGGCTT
Statistics
Matches: 236, Mismatches: 37, Indels: 17
0.81 0.13 0.06
Matches are distributed among these distances:
49 74 0.31
52 119 0.50
53 40 0.17
54 3 0.01
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.24
Consensus pattern (52 bp):
CAATGTGCTGATTCAAGGCCAACGACATTAGACTTAAAGATGACGAAGGTGC
Found at i:410266 original size:101 final size:93
Alignment explanation
Indices: 410095--410706 Score: 611
Period size: 87 Copynumber: 6.6 Consensus size: 93
410085 ATGAGAATAA
* * *
410095 TGCCAATGTGCTGATTCAAGGCCAATGACATTAGGTTTTAAAGATGACGAAGGCGCCAATATGCT
1 TGCCAATGTGCTGATTCAAGGCCAACGACATT-GGTCTT-AAGATGAC-AAGGTGCCAATATGCT
*
410160 GATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
63 GATTCAAGGCCAGCGATATTGGGCTT----AT--AGG
** * * *
410197 TGCCAATGTGCTGATTCAAGGCCAGTGACATTGGACTTAAAGATGATGAAGGTGCCAATATGCTA
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTT-AAGATGA-CAAGGTGCCAATATGCTG
410262 ATTCAAGGCCAGCGATATTGGGCTTAAAGATGGTTGAGG
64 ATTCAAGGCCAGCGATATTGGGCTT----A----T-AGG
* *
410301 TGCCGATGTGCTGATTCAAGGCCAACGACATCGGTCTTAAAGAT-A-AAGGTGCCAATATGCTGA
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTT-AAGATGACAAGGTGCCAATATGCTGA
* **
410364 TTCAAGGCCAACGATACAGGGC-T-T--G
65 TTCAAGGCCAGCGATATTGGGCTTATAGG
*
410389 TGCCAATATGCTGATTCAAGGCCAACGACATTGGTCTTAA-A-GACAAGGTGCCAATATGCTGAT
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAGATGACAAGGTGCCAATATGCTGAT
* *
410452 TCAAGGCTAGTGATATTGGGC-T-TA--
66 TCAAGGCCAGCGATATTGGGCTTATAGG
* * *
410476 TGCTAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAG--GACAAGGTGCCAATATGCTGAT
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAGATGACAAGGTGCCAATATGCTGAT
* * *
410539 TCAAAGCCAGCGATATTGGACTTAAAGG
66 TCAAGGCCAGCGATATTGGGCTTATAGG
* *
410567 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTT-A-ATGACAAGGTGCCAATATGTTGAT
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAGATGACAAGGTGCCAATATGCTGAT
* * *
410630 TCAAGGCCAACGGTATTAGGC-T-T--G
66 TCAAGGCCAGCGATATTGGGCTTATAGG
* *
410654 TGCCAATGTGCTCATTCAAGGCCAGCGACATTGGTCTT-AGA-GACAAGGTGCCA
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAGATGACAAGGTGCCA
410707 CGGAGTTGTG
Statistics
Matches: 452, Mismatches: 42, Indels: 47
0.84 0.08 0.09
Matches are distributed among these distances:
86 2 0.00
87 167 0.37
88 38 0.08
89 1 0.00
90 2 0.00
91 74 0.16
100 1 0.00
101 92 0.20
102 31 0.07
103 1 0.00
104 42 0.09
105 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (93 bp):
TGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAGATGACAAGGTGCCAATATGCTGAT
TCAAGGCCAGCGATATTGGGCTTATAGG
Found at i:410470 original size:48 final size:47
Alignment explanation
Indices: 410388--410706 Score: 309
Period size: 48 Copynumber: 7.1 Consensus size: 47
410378 TACAGGGCTT
*
410388 GTGCCAATATGCTGATTCAAGGCCAACGACATTGGTCTTAAAGACAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTT-AAGACAAG
* * * *
410436 GTGCCAATATGCTGATTCAAGGCTAGTGATATTGGGCTT------A-
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAGACAAG
*
410476 -TGCTAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAGGACAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAA-GACAAG
* * *
410523 GTGCCAATATGCTGATTCAAAGCCAGCGATATTGGACTT---A-AAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAGACAAG
*
410566 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAATGACAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAA-GACAAG
* * * **
410614 GTGCCAATATGTTGATTCAAGGCCA---AC---GGTATT-AGGC-TT
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAGACAAG
* *
410653 GTGCCAATGTGCTCATTCAAGGCCAGCGACATTGGTCTTAGAGACAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTA-AGACAAG
410701 GTGCCA
1 GTGCCA
410707 CGGAGTTGTG
Statistics
Matches: 217, Mismatches: 31, Indels: 46
0.74 0.11 0.16
Matches are distributed among these distances:
39 55 0.25
40 2 0.01
41 2 0.01
42 7 0.03
43 38 0.18
44 1 0.00
45 7 0.03
46 1 0.00
47 4 0.02
48 100 0.46
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.26
Consensus pattern (47 bp):
GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAGACAAG
Found at i:410605 original size:178 final size:174
Alignment explanation
Indices: 410309--410706 Score: 537
Period size: 178 Copynumber: 2.3 Consensus size: 174
410299 GGTGCCGATG
* * * * *
410309 TGCTGATTCAAGGCCAACGACATCGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCA
1 TGCTGATTCAAGGCCAGCGACATTGGTCTTAAGGA-CAAGGTGCCAATATGCTGATTCAAAGCCA
*
410374 ACGATACAGGGCTTGTGCCAATATGCTGATTCAAGGCCAACGACATTGGTCTTAAAGACAAGGTG
65 ACGATACAGGACTTGTGCCAATATGCTGATTCAAGGCCAACGACATTGGTCTTAAAGACAAGGTG
* ** * *
410439 CCAATATGCTGATTCAAGGCTAGTGATATTGGGCTTATGCTAATA
130 CCAATATGCTGATTCAAGGCCAACGATATTAGGCTTATGCCAATA
*
410484 TGCTGATTCAAGGCCAGCGACATTGGTCTTAAGGACAAGGTGCCAATATGCTGATTCAAAGCCAG
1 TGCTGATTCAAGGCCAGCGACATTGGTCTTAAGGACAAGGTGCCAATATGCTGATTCAAAGCCAA
** * * *
410549 CGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAATGACAAG
66 CGATACAGGACTT----GTGCCAATATGCTGATTCAAGGCCAACGACATTGGTCTTAAAGACAAG
* * * *
410614 GTGCCAATATGTTGATTCAAGGCCAACGGTATTAGGCTTGTGCCAATG
127 GTGCCAATATGCTGATTCAAGGCCAACGATATTAGGCTTATGCCAATA
*
410662 TGCTCATTCAAGGCCAGCGACATTGGTCTT-AGAGACAAGGTGCCA
1 TGCTGATTCAAGGCCAGCGACATTGGTCTTAAG-GACAAGGTGCCA
410707 CGGAGTTGTG
Statistics
Matches: 196, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
174 37 0.19
175 32 0.16
177 2 0.01
178 125 0.64
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.25
Consensus pattern (174 bp):
TGCTGATTCAAGGCCAGCGACATTGGTCTTAAGGACAAGGTGCCAATATGCTGATTCAAAGCCAA
CGATACAGGACTTGTGCCAATATGCTGATTCAAGGCCAACGACATTGGTCTTAAAGACAAGGTGC
CAATATGCTGATTCAAGGCCAACGATATTAGGCTTATGCCAATA
Found at i:410828 original size:25 final size:25
Alignment explanation
Indices: 410799--410877 Score: 95
Period size: 25 Copynumber: 3.1 Consensus size: 25
410789 TAAAAGGGAA
*
410799 AAGGGTGTCACGAAGTTATGGACTT
1 AAGGGTGCCACGAAGTTATGGACTT
*
410824 AAGGGTGCCACGAAGTTGTGGACTT
1 AAGGGTGCCACGAAGTTATGGACTT
* * *
410849 AAAAGGGTGCCACGGAGTTCTGCACTT
1 --AAGGGTGCCACGAAGTTATGGACTT
410876 AA
1 AA
410878 AAGGAAAAAG
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
25 25 0.53
27 22 0.47
ACGTcount: A:0.28, C:0.16, G:0.32, T:0.24
Consensus pattern (25 bp):
AAGGGTGCCACGAAGTTATGGACTT
Found at i:410862 original size:27 final size:27
Alignment explanation
Indices: 410797--410881 Score: 111
Period size: 27 Copynumber: 3.2 Consensus size: 27
410787 CTTAAAAGGG
*
410797 AAAAGGGTGTCACGAAGTTATGGACTT
1 AAAAGGGTGCCACGAAGTTATGGACTT
*
410824 --AAGGGTGCCACGAAGTTGTGGACTT
1 AAAAGGGTGCCACGAAGTTATGGACTT
* * *
410849 AAAAGGGTGCCACGGAGTTCTGCACTT
1 AAAAGGGTGCCACGAAGTTATGGACTT
410876 AAAAGG
1 AAAAGG
410882 AAAAAGAGTG
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
25 23 0.45
27 28 0.55
ACGTcount: A:0.31, C:0.15, G:0.32, T:0.22
Consensus pattern (27 bp):
AAAAGGGTGCCACGAAGTTATGGACTT
Found at i:410893 original size:34 final size:34
Alignment explanation
Indices: 410849--411627 Score: 586
Period size: 34 Copynumber: 23.8 Consensus size: 34
410839 TTGTGGACTT
* * *
410849 AAAAGGGTGCCACGGAGTTCTGCACTTAAAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGA
** * *
410883 AAAAGAGTGCCATAGAGTTGTGGGCTTTAAAAAGA
1 AAAAGAGTGCCACGGAGTTGTGGAC-TTAAAAGGA
* *
410918 AAAAG-GTGCCACGGGGATGTGGACTTAAAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGA
410951 AAAAGA-TGCCACGGAGTTGTGGACTTAAAA-G-
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGA
* *
410982 ----G-GTGCCACGGAGTTGTGGATTTCAAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGA
* * *
411011 AAAAGAGTGCCACAGAGTTGTGGGCTTAAAACGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGA
* * *
411045 AACAGAGTGCCACAGAGTTGTGGGCTTAAAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGA
* * ** * *
411079 AACAGAGTACCATAGAGTTATGGGCTTTAAAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGAC-TTAAAAGGA
* * *
411114 AAAAG-GTGCCACGTAGTGGTGGACTTAAAAAG-
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGA
*
411146 AAAAG-GTGCCACGGAGTTGTGGACAT-AAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGA
* **
411178 AAAAG-GTGCCACGGAGTTGCGGACTTTGAA-G-
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGA
* *
411209 AAAAGA-TGCCACTGAGTTATGGACTTACAAA--A
1 AAAAGAGTGCCACGGAGTTGTGGACTTA-AAAGGA
* **
411241 AAAAGGGATGCCACGGAAG-TGTGGGTTTAAAATGG-
1 AAAAGAG-TGCCACGG-AGTTGTGGACTTAAAA-GGA
* ** *
411276 AAAAGGGTGCCACGGAGTCATGGACTTAAAAAGAAA
1 AAAAGAGTGCCACGGAGTTGTGGACTT-AAAAG-GA
* * *
411312 AGGATGAAGAGTGCCAAGGAGTTGTGGGCTTTAAA-G-
1 A--A--AAGAGTGCCACGGAGTTGTGGACTTAAAAGGA
* *
411348 ----G-GTGCCATGGAGTTGTAGACTTAAAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGA
* * *
411377 AAAAGAGTGCCACAGAGTTATGGGCTTAAAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGA
411411 AAAAGA-TGCCACGGAGTTGTGGACTT------A
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGA
*
411438 AAAAG-GTGCGACGGAGTTGTGGACTTAAAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGA
* *
411471 AAAAGAGTGCCACGGAGTTGTGGGATTTAAAAAGA
1 AAAAGAGTGCCACGGAGTTGT-GGACTTAAAAGGA
* *
411506 AAAA-TGTGCCACGGAGTTGTGGACATAAAA-G-
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGA
*
411537 ----G-GTGCCACGGAGTTCTGGACTTAAAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGA
* *
411566 AAAAGAGTGCCATGGAGTTGTGGGCTTTTAAAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGAC--TTAAAAGGA
* **
411602 AAAAGA-TGCCATGGAGTCATGGACTT
1 AAAAGAGTGCCACGGAGTTGTGGACTT
411628 TGAAGAAAAA
Statistics
Matches: 597, Mismatches: 92, Indels: 113
0.74 0.11 0.14
Matches are distributed among these distances:
27 92 0.15
28 4 0.01
31 26 0.04
32 57 0.10
33 85 0.14
34 224 0.38
35 69 0.12
36 16 0.03
38 1 0.00
39 3 0.01
40 20 0.03
ACGTcount: A:0.36, C:0.12, G:0.32, T:0.20
Consensus pattern (34 bp):
AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGA
Found at i:410920 original size:120 final size:122
Alignment explanation
Indices: 410753--411057 Score: 355
Period size: 128 Copynumber: 2.5 Consensus size: 122
410743 GAGGTGTGAG
* * * * * * *
410753 CTTAAAAGGGAAAAGGGTGCCACAGAGGTGTGGGCTTAAAAGGGAAAAGGGTGTCACGAAGTTAT
1 CTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTAAAA-AGAAAAAGGTGCCACGAAGATAT
410818 GGACTT-AAGG-G-TGCCACGAAGTTGTGGACTTAAAAGGGTGCCACGGAGTTCTGCA
65 GGACTTAAAGGAGATGCCACGAAGTTGTGGACTTAAAAGGGTGCCACGGAGTTCTGCA
* ** *
410873 CTTAAAAGGAAAAAGAGTGCCATAGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGGGATGT
1 CTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGC-TTAAAAAGAAAAAGGTGCCACGAAGATAT
* * *
410938 GGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGA
65 GGACTT-AAAGG----AGATGCCACGAAGTTGTGGACTTAAAAGGGTGCCACGGAGTTCTGCA
* * * *
411001 TTTCAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTAAAACGAAACAGAGTGCCAC
1 CTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTAAAAAGAAAAAG-GTGCCAC
411058 AGAGTTGTGG
Statistics
Matches: 156, Mismatches: 19, Indels: 12
0.83 0.10 0.06
Matches are distributed among these distances:
120 53 0.34
121 6 0.04
122 4 0.03
127 13 0.08
128 80 0.51
ACGTcount: A:0.34, C:0.14, G:0.32, T:0.19
Consensus pattern (122 bp):
CTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTAAAAAGAAAAAGGTGCCACGAAGATATG
GACTTAAAGGAGATGCCACGAAGTTGTGGACTTAAAAGGGTGCCACGGAGTTCTGCA
Found at i:410946 original size:95 final size:95
Alignment explanation
Indices: 410827--411627 Score: 655
Period size: 95 Copynumber: 8.2 Consensus size: 95
410817 TGGACTTAAG
* * *
410827 GGTGCCACGAAGTTGTGGACTTAAAAGGGTGCCACGGAGTTCTGCACTTAAAAGGAAAAAGAGTG
1 GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTG
**
410892 CCATAGAGTTGTGGGCTTTAAAAAGAAAAA
66 CCACGGAGTTGTGGGCTTTAAAAAGAAAAA
* *
410922 GGTGCCACGGGGATGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAA-G----
1 GGTGCCACGGAGTTGTGGACTTAAAAGG-----G-TGCCACGGAGTTGTGGACTTAAAAGGAAAA
* * *
410982 -G-GTGCCACGGAGTTGT-GGATTTCAAAGGAAAAA
60 AGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAA
* * * *
411015 GAGTGCCACAGAGTTGTGGGCTTAAAACGAAACAGAGTGCCACAGAGTTGTGGGCTTAAAAGGAA
1 G-GTGCCACGGAGTTGTGGACTTAAAA-G-----G-GTGCCACGGAGTTGTGGACTTAAAAGGAA
* * ** * *
411080 ACAGAGTACCATAGAGTTATGGGCTTTAAAAGGAAAAA
58 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAA
* * *
411118 GGTGCCACGTAGTGGTGGACTTAAAAAGAAAAGGTGCCACGGAGTTGTGGACAT-AAAGGAAAAA
1 GGTGCCACGGAGTTGTGGACTT-AAAAG----GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAA
* * *
411182 G-GTGCCACGGAGTTGCGGACTTT--GAAG-AAAA
61 GAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAA
* * * **
411213 GATGCCACTGAGTTATGGACTTACAAAAAAAAGGGATGCCACGGAAG-TGTGGGTTTAAAATGG-
1 GGTGCCACGGAGTTGTGGACTT------AAAAGGG-TGCCACGG-AGTTGTGGACTTAAAA-GGA
* ** *
411276 AAAAGGGTGCCACGGAGTCATGGAC-TTAAAAAGAAAAGGATGAA
57 AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAG--AA--A--AA
* * * * *
411320 GAGTGCCAAGGAGTTGTGGGCTTTAAAGGGTGCCATGGAGTTGTAGACTTAAAAGGAAAAAGAGT
1 G-GTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGT
* * *
411385 GCCACAGAGTTATGGGC-TTAAAAGGAAAAA
65 GCCACGGAGTTGTGGGCTTTAAAAAGAAAAA
* * *
411415 GATGCCACGGAGTTGTGGACTTAAAAAGGTGCGACGGAGTTGTGGACTTAAAAGGAAAAAGAGTG
1 GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTG
*
411480 CCACGGAGTTGTGGGATTTAAAAAGAAAAA
66 CCACGGAGTTGTGGGCTTTAAAAAGAAAAA
* * *
411510 TGTGCCACGGAGTTGTGGACATAAAAGGGTGCCACGGAGTTCTGGACTTAAAAGGAAAAAGAGTG
1 GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTG
* *
411575 CCATGGAGTTGTGGGCTTTTAAAAGGAAAAA
66 CCACGGAGTTGTGGGC-TTTAAAAAGAAAAA
* * **
411606 GATGCCATGGAGTCATGGACTT
1 GGTGCCACGGAGTTGTGGACTT
411628 TGAAGAAAAA
Statistics
Matches: 567, Mismatches: 93, Indels: 91
0.75 0.12 0.12
Matches are distributed among these distances:
93 15 0.03
94 103 0.18
95 158 0.28
96 36 0.06
97 15 0.03
98 28 0.05
99 30 0.05
100 34 0.06
101 72 0.13
102 35 0.06
103 21 0.04
105 1 0.00
107 3 0.01
108 16 0.03
ACGTcount: A:0.36, C:0.13, G:0.32, T:0.20
Consensus pattern (95 bp):
GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTG
CCACGGAGTTGTGGGCTTTAAAAAGAAAAA
Found at i:410988 original size:27 final size:27
Alignment explanation
Indices: 410957--411009 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
410947 AGGAAAAAGA
410957 TGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
* *
410984 TGCCACGGAGTTGTGGATTTCAAAGG
1 TGCCACGGAGTTGTGGACTTAAAAGG
411010 AAAAAGAGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.25, C:0.15, G:0.36, T:0.25
Consensus pattern (27 bp):
TGCCACGGAGTTGTGGACTTAAAAGGG
Found at i:410994 original size:128 final size:128
Alignment explanation
Indices: 410829--411080 Score: 380
Period size: 128 Copynumber: 2.0 Consensus size: 128
410819 GACTTAAGGG
410829 TGCCACGAAGTTGTGGACTTAAAAGGGTGCCACGGAGTTCTGCACTTAAAAGGAAAAAGAGTGCC
1 TGCCACGAAGTTGTGGACTTAAAAGGGTGCCACGGAGTTCTGCACTTAAAAGGAAAAAGAGTGCC
* * *
410894 ATAGAGTTGTGGGCTTTAAAAAGAAAAAG-GTGCCACGGGGATGTGGACTTAAAAGGAAAAAGA
66 ACAGAGTTGTGGGC-TTAAAAAGAAAAAGAGTGCCACAGAGATGTGGACTTAAAAGGAAAAAGA
* * * * *
410957 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGATTTCAAAGGAAAAAGAGTGCC
1 TGCCACGAAGTTGTGGACTTAAAAGGGTGCCACGGAGTTCTGCACTTAAAAGGAAAAAGAGTGCC
* * * *
411022 ACAGAGTTGTGGGCTTAAAACGAAACAGAGTGCCACAGAGTTGTGGGCTTAAAAGGAAA
66 ACAGAGTTGTGGGCTTAAAAAGAAAAAGAGTGCCACAGAGATGTGGACTTAAAAGGAAA
411081 CAGAGTACCA
Statistics
Matches: 111, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
127 12 0.11
128 99 0.89
ACGTcount: A:0.35, C:0.14, G:0.31, T:0.20
Consensus pattern (128 bp):
TGCCACGAAGTTGTGGACTTAAAAGGGTGCCACGGAGTTCTGCACTTAAAAGGAAAAAGAGTGCC
ACAGAGTTGTGGGCTTAAAAAGAAAAAGAGTGCCACAGAGATGTGGACTTAAAAGGAAAAAGA
Found at i:411021 original size:94 final size:95
Alignment explanation
Indices: 410883--411174 Score: 254
Period size: 94 Copynumber: 3.0 Consensus size: 95
410873 CTTAAAAGGA
* * * * *
410883 AAAAGAGTGCCATAGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGGGATGTGGACTTAAAA
1 AAAAGGGTGCCACAGAGTTGTGGGATTTAAAAAGAAAAAGGTGCCACAGAGATGTGGACTTAAAA
* *
410948 GGAAAAAGA-TGCCACGGAGTTGTGGACTT
66 CGAAAAAGAGTGCCACAGAGTTGTGGACTT
* * * * *
410977 AAAAGGGTGCCACGGAGTTGT-GGATTTCAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTAAA
1 AAAAGGGTGCCACAGAGTTGTGGGATTTAAAAAGAAAAAG-GTGCCACAGAGATGTGGACTTAAA
* *
411041 ACGAAACAGAGTGCCACAGAGTTGTGGGCTT
65 ACGAAAAAGAGTGCCACAGAGTTGTGGACTT
* * * * *
411072 AAAAGGAAACAGAGTACCATAGAGTTATGGGCTTTAAAAGGAAAAAGGTGCCAC-GTAG-TGGTG
1 AAAA-G-----G-GTGCCACAGAGTTGTGGGATTTAAAAAGAAAAAGGTGCCACAG-AGAT-GTG
* * *
411135 GACTTAAAAAG-AAAAG-GTGCCACGGAGTTGTGGACAT
57 GACTTAAAACGAAAAAGAGTGCCACAGAGTTGTGGACTT
411172 AAA
1 AAA
411175 GGAAAAAGGT
Statistics
Matches: 160, Mismatches: 26, Indels: 18
0.78 0.13 0.09
Matches are distributed among these distances:
93 15 0.09
94 46 0.29
95 22 0.14
96 1 0.01
100 21 0.13
101 7 0.04
102 32 0.20
103 16 0.10
ACGTcount: A:0.37, C:0.13, G:0.31, T:0.20
Consensus pattern (95 bp):
AAAAGGGTGCCACAGAGTTGTGGGATTTAAAAAGAAAAAGGTGCCACAGAGATGTGGACTTAAAA
CGAAAAAGAGTGCCACAGAGTTGTGGACTT
Found at i:411219 original size:31 final size:30
Alignment explanation
Indices: 411114--411226 Score: 100
Period size: 32 Copynumber: 3.6 Consensus size: 30
411104 TTTAAAAGGA
* * * *
411114 AAAAGGTGCCACGTAGTGGTGGACTTAAAAAG
1 AAAAGGTGCCACGGAGTTGCGGAC--ATAAAG
*
411146 AAAAGGTGCCACGGAGTTGTGGACATAAAGG
1 AAAAGGTGCCACGGAGTTGCGGACATAAA-G
* *
411177 AAAAAGGTGCCACGGAGTTGCGGACTTTGAAG
1 -AAAAGGTGCCACGGAGTTGCGGAC-ATAAAG
* *
411209 AAAAGATGCCACTGAGTT
1 AAAAGGTGCCACGGAGTT
411227 ATGGACTTAC
Statistics
Matches: 70, Mismatches: 8, Indels: 7
0.82 0.09 0.08
Matches are distributed among these distances:
30 4 0.06
31 17 0.24
32 46 0.66
33 3 0.04
ACGTcount: A:0.35, C:0.14, G:0.32, T:0.19
Consensus pattern (30 bp):
AAAAGGTGCCACGGAGTTGCGGACATAAAG
Found at i:411233 original size:31 final size:31
Alignment explanation
Indices: 410698--411677 Score: 352
Period size: 34 Copynumber: 30.3 Consensus size: 31
410688 TCTTAGAGAC
410698 AAGGTGCCACGGAGTTGTGGACTTATAGGAA-AA
1 AAGGTGCCACGGAGTTGTGGACTT-TA--AAGAA
* * * *
410731 AGGGATGCCATGGAGGTGT-GAGCTTAAAAGGGAA
1 AAGG-TGCCACGGAGTTGTGGA-CTTTAAA--GAA
* * * *
410765 AAGGGTGCCACAGAGGTGTGGGCTTAAAAGGGAA
1 AA-GGTGCCACGGAGTTGTGGACTTTAAA--GAA
* * *
410799 AAGGGTGTCACGAAGTTATGGAC-TT-AAG--
1 AA-GGTGCCACGGAGTTGTGGACTTTAAAGAA
*
410827 --GGTGCCACGAAGTTGTGGAC-TT--A-AA
1 AAGGTGCCACGGAGTTGTGGACTTTAAAGAA
* * * *
410852 AGGGTGCCACGGAGTTCTGCACTTAAAAGGAAA
1 AAGGTGCCACGGAGTTGTGGACTTTAAA-G-AA
** *
410885 AAGAGTGCCATAGAGTTGTGGGCTTTAAAAAGAAA
1 AAG-GTGCCACGGAGTTGTGGACTTT--AAAG-AA
* * *
410920 AAGGTGCCACGGGGATGTGGACTTAAAAGGAAA
1 AAGGTGCCACGGAGTTGTGGACTTTAAA-G-AA
*
410953 AAGATGCCACGGAGTTGTGGAC-TT--A-AA
1 AAGGTGCCACGGAGTTGTGGACTTTAAAGAA
*
410980 AGGGTGCCACGGAGTTGTGGA-TTTCAAAGGAAA
1 AAGGTGCCACGGAGTTGTGGACTTT-AAA-G-AA
* * *
411013 AAGAGTGCCACAGAGTTGTGGGCTTAAAACGAA
1 AAG-GTGCCACGGAGTTGTGGACTTTAAA-GAA
* * *
411046 ACAGAGTGCCACAGAGTTGTGGGCTTAAAAGGAA
1 A-AG-GTGCCACGGAGTTGTGGACTTTAAA-GAA
* ** * *
411080 ACAGAGTACCATAGAGTTATGGGCTTTAAAAGGAAA
1 A-AG-GTGCCACGGAGTTGTGGACTTT-AAA-G-AA
* * *
411116 AAGGTGCCACGTAGTGGTGGACTTAAAAAGAA
1 AAGGTGCCACGGAGTTGTGGACTT-TAAAGAA
*
411148 AAGGTGCCACGGAGTTGTGGAC-ATAAAGGAAA
1 AAGGTGCCACGGAGTTGTGGACTTTAAA-G-AA
* *
411180 AAGGTGCCACGGAGTTGCGGACTTTGAAGAA
1 AAGGTGCCACGGAGTTGTGGACTTTAAAGAA
* * * * *
411211 AAGATGCCACTGAGTTATGGACTTACAAAAAA
1 AAGGTGCCACGGAGTTGTGGACTT-TAAAGAA
*
411243 AAGGGATGCCACGGAAG-TGTGG-GTTTAAAATGGAA
1 AA-GG-TGCCACGG-AGTTGTGGACTTT-AAA--GAA
** *
411278 AAGGGTGCCACGGAGTCATGGACTTAAAAAGAAAAGGA
1 AA-GGTGCCACGGAGTTGTGGACTT-TAAAG---A--A
* *
411316 TGAAGAGTGCCAAGGAGTTGTGGGCTTTAAAG--
1 --AAG-GTGCCACGGAGTTGTGGACTTTAAAGAA
* * *
411348 --GGTGCCATGGAGTTGTAGACTTAAAAGGAAA
1 AAGGTGCCACGGAGTTGTGGACTTTAAA-G-AA
* * * *
411379 AAGAGTGCCACAGAGTTATGGGCTTAAAAGGAAA
1 AAG-GTGCCACGGAGTTGTGGACTTTAAA-G-AA
*
411413 AAGATGCCACGGAGTTGTGGAC-TT--A-AA
1 AAGGTGCCACGGAGTTGTGGACTTTAAAGAA
* *
411440 AAGGTGCGACGGAGTTGTGGACTTAAAAGGAAA
1 AAGGTGCCACGGAGTTGTGGACTTTAAA-G-AA
411473 AAGAGTGCCACGGAGTTGTGGGA-TTTAAAAAGAAA
1 AAG-GTGCCACGGAGTTGT-GGACTTT--AAAG-AA
* *
411508 AATGTGCCACGGAGTTGTGGAC---ATA-AA
1 AAGGTGCCACGGAGTTGTGGACTTTAAAGAA
* * *
411535 AGGGTGCCACGGAGTTCTGGACTTAAAAGGAAA
1 AAGGTGCCACGGAGTTGTGGACTTTAAA-G-AA
* *
411568 AAGAGTGCCATGGAGTTGTGGGCTTTTAAAAGGAAA
1 AAG-GTGCCACGGAGTTGTGGAC-TTT-AAA-G-AA
* * ** *
411604 AAGATGCCATGGAGTCATGGACTTTGAAGAAA
1 AAGGTGCCACGGAGTTGTGGACTTTAAAG-AA
* ** * *
411636 AAGGATGCCACTGAGTCATGGGCTTTGAAGAA
1 AAGG-TGCCACGGAGTTGTGGACTTTAAAGAA
*
411668 AAGATGCCAC
1 AAGGTGCCAC
411678 TAAGTCGTGG
Statistics
Matches: 737, Mismatches: 127, Indels: 168
0.71 0.12 0.16
Matches are distributed among these distances:
24 1 0.00
25 20 0.03
27 104 0.14
28 4 0.01
29 2 0.00
30 11 0.01
31 31 0.04
32 71 0.10
33 106 0.14
34 282 0.38
35 59 0.08
36 21 0.03
38 1 0.00
39 5 0.01
40 19 0.03
ACGTcount: A:0.35, C:0.13, G:0.32, T:0.20
Consensus pattern (31 bp):
AAGGTGCCACGGAGTTGTGGACTTTAAAGAA
Found at i:411374 original size:27 final size:27
Alignment explanation
Indices: 411322--411375 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
411312 AGGATGAAGA
* * *
411322 GTGCCAAGGAGTTGTGGGCTTTAAAGG
1 GTGCCAAGGAGTTGTAGACTTAAAAGG
*
411349 GTGCCATGGAGTTGTAGACTTAAAAGG
1 GTGCCAAGGAGTTGTAGACTTAAAAGG
411376 AAAAAGAGTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.26, C:0.11, G:0.37, T:0.26
Consensus pattern (27 bp):
GTGCCAAGGAGTTGTAGACTTAAAAGG
Found at i:411387 original size:61 final size:62
Alignment explanation
Indices: 411309--411601 Score: 221
Period size: 61 Copynumber: 4.7 Consensus size: 62
411299 ACTTAAAAAG
** * * *
411309 AAAAGGATGAAGAGTGCCAAGGAGTTGTGGGCTTTAAAGG-GTGCCATGGAGTTGTAGACTT
1 AAAAGGAAAAAGAGTGCCAAGGAGTTGTGGGCTTAAAAGGAGTGCCACGGAGTTGTGGACTT
*
411370 AAAAGGAAAAAGAGTGCCACA-GAGTTATGGGCTTAAAAGGAAAAAGATGCCACGGAGTTGTGGA
1 AAAAGGAAAAAGAGTGCCA-AGGAGTTGTGGGCTTAAAAGG----AG-TGCCACGGAGTTGTGGA
411434 CTT
60 CTT
* * *
411437 ------AAAAAG-GTGCGACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGG
1 AAAAGGAAAAAGAGTGCCAAGGAGTTGTGGGCTTAAAA-G-----GAGTGCCACGGAGTTGT-GG
*
411495 ATTT
59 ACTT
* * * * * *
411499 AAAAAGAAAAA-TGTGCCACGGAGTTGTGGACATAAAAGG-GTGCCACGGAGTTCTGGACTT
1 AAAAGGAAAAAGAGTGCCAAGGAGTTGTGGGCTTAAAAGGAGTGCCACGGAGTTGTGGACTT
*
411559 AAAAGGAAAAAGAGTGCCATGGAGTTGTGGGCTTTTAAAAGGA
1 AAAAGGAAAAAGAGTGCCAAGGAGTTGTGGGC--TTAAAAGGA
411602 AAAAGATGCC
Statistics
Matches: 186, Mismatches: 20, Indels: 49
0.73 0.08 0.19
Matches are distributed among these distances:
60 35 0.19
61 86 0.46
62 9 0.05
63 7 0.04
66 2 0.01
67 19 0.10
68 28 0.15
ACGTcount: A:0.35, C:0.11, G:0.33, T:0.21
Consensus pattern (62 bp):
AAAAGGAAAAAGAGTGCCAAGGAGTTGTGGGCTTAAAAGGAGTGCCACGGAGTTGTGGACTT
Found at i:411451 original size:27 final size:27
Alignment explanation
Indices: 411410--411562 Score: 126
Period size: 27 Copynumber: 5.1 Consensus size: 27
411400 GCTTAAAAGG
*
411410 AAAAAGATGCCACGGAGTTGTGGACTT
1 AAAAAGGTGCCACGGAGTTGTGGACTT
*
411437 AAAAAGGTGCGACGGAGTTGTGGACTT
1 AAAAAGGTGCCACGGAGTTGTGGACTT
*
411464 AAAAGGAAAAAGAGTGCCACGGAGTTGTGGGATTT
1 ------AAAAAG-GTGCCACGGAGTTGT-GGACTT
*
411499 AAAAAGAAAAATGTGCCACGGAGTTGTGGACAT
1 AAAAAG------GTGCCACGGAGTTGTGGACTT
* *
411532 AAAAGGGTGCCACGGAGTTCTGGACTT
1 AAAAAGGTGCCACGGAGTTGTGGACTT
411559 AAAA
1 AAAA
411563 GGAAAAAGAG
Statistics
Matches: 103, Mismatches: 10, Indels: 26
0.74 0.07 0.19
Matches are distributed among these distances:
27 48 0.47
29 6 0.06
33 15 0.15
34 29 0.28
35 5 0.05
ACGTcount: A:0.36, C:0.12, G:0.31, T:0.20
Consensus pattern (27 bp):
AAAAAGGTGCCACGGAGTTGTGGACTT
Found at i:411465 original size:60 final size:63
Alignment explanation
Indices: 411376--411505 Score: 194
Period size: 60 Copynumber: 2.1 Consensus size: 63
411366 ACTTAAAAGG
*
411376 AAAAAGAGTGCCACAGAGTTATGGGCTTAAAAGGAAAAAGA-TGCCACGGAGTTGT-GGACTT
1 AAAAAGAGTGCCACAGAGTTATGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGACTT
* * * *
411437 AAAAAG-GTGCGACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGATTT
1 AAAAAGAGTGCCACAGAGTTATGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGACTT
411499 AAAAAGA
1 AAAAAGA
411506 AAAATGTGCC
Statistics
Matches: 61, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
60 30 0.49
61 20 0.33
62 11 0.18
ACGTcount: A:0.38, C:0.11, G:0.32, T:0.19
Consensus pattern (63 bp):
AAAAAGAGTGCCACAGAGTTATGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGACTT
Done.