Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007999.1 Hibiscus syriacus cultivar Beakdansim tig00110450_pilon, whole genome shotgun sequence
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: 11700749
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 50
Found at i:272378 original size:40 final size:40
Alignment explanation
Indices: 272323--272444 Score: 244
Period size: 40 Copynumber: 3.0 Consensus size: 40
272313 TACAGGTTTA
272323 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
272363 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
272403 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
272443 TA
1 TA
272445 GCACTACGGT
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 82 1.00
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (40 bp):
TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
Found at i:272649 original size:47 final size:45
Alignment explanation
Indices: 272549--272674 Score: 157
Period size: 47 Copynumber: 2.8 Consensus size: 45
272539 GTAAGCATAC
* **
272549 AAATAAGCTTACGAGCTTTTGGAAT-AATGACAAGTATATATGAA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATATGAA
* *
272593 AAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTAT-TTTGGTA
1 AAATAAGCTTACGAGCTTATGGAA--TAAATGGTAAGTATATAT-GAA
*
272640 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAG
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAG
272675 AGATTTTATA
Statistics
Matches: 72, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
44 23 0.32
45 11 0.15
46 3 0.04
47 35 0.49
ACGTcount: A:0.40, C:0.08, G:0.21, T:0.31
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATATGAA
Found at i:275582 original size:45 final size:45
Alignment explanation
Indices: 275501--275859 Score: 463
Period size: 45 Copynumber: 8.0 Consensus size: 45
275491 ATTTGCATAT
* *
275501 CCAATAT-TTTACCATTTATTAACCATAAGCTTGTAAGCTTATTTTA
1 CCAATATACTTACCATTTATT--CCATAAGCTCGTAAGCTTATTTTA
* * *
275547 CCAAAATACTTACCATTTATCCCATAAGCTCGTAAGCTTATCTTA
1 CCAATATACTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTA
* * *
275592 CCATTATACTTACCATTTGTTCCATAAGCTCATAAGCTTATTTTA
1 CCAATATACTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTA
* *
275637 CCAATATACTTACCATTTA-TCCTATAAGCTCGTCAGCTTATCTTA
1 CCAATATACTTACCATTTATTCC-ATAAGCTCGTAAGCTTATTTTA
* * *
275682 CCATTATACTTACCATTTGTTCCATAAGCTCATAAGCTTATTTTA
1 CCAATATACTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTA
* ** * *
275727 CCAATATACTTACCATTTATCCCATAAGCTCGCCAGCATATCTTA
1 CCAATATACTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTA
* * * *
275772 CCATTATACTTACCATTTGTTCCATAAGCTCATAAGCATATTTTA
1 CCAATATACTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTA
*
275817 CCAATATACTTGCCA-TTATTCCATAAGCTCGTAAGCTTATTTT
1 CCAATATACTTACCATTTATTCCATAAGCTCGTAAGCTTATTTT
275860 CCAGTTTAAC
Statistics
Matches: 269, Mismatches: 41, Indels: 8
0.85 0.13 0.03
Matches are distributed among these distances:
44 28 0.10
45 221 0.82
46 9 0.03
47 11 0.04
ACGTcount: A:0.30, C:0.24, G:0.07, T:0.39
Consensus pattern (45 bp):
CCAATATACTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTA
Found at i:275629 original size:90 final size:90
Alignment explanation
Indices: 275509--275856 Score: 563
Period size: 90 Copynumber: 3.9 Consensus size: 90
275499 ATCCAATATT
* ** *
275509 TTACCATTTATTAACCATAAGCTTGTAAGCTTATTTTACCAAAATACTTACCATTTATCCCATAA
1 TTACCATTTGTT--CCATAAGCTCATAAGCTTATTTTACCAATATACTTACCATTTATCCCATAA
275574 GCTCGTAAGCTTATCTTACCATTATAC
64 GCTCGTAAGCTTATCTTACCATTATAC
*
275601 TTACCATTTGTTCCATAAGCTCATAAGCTTATTTTACCAATATACTTACCATTTATCCTATAAGC
1 TTACCATTTGTTCCATAAGCTCATAAGCTTATTTTACCAATATACTTACCATTTATCCCATAAGC
*
275666 TCGTCAGCTTATCTTACCATTATAC
66 TCGTAAGCTTATCTTACCATTATAC
275691 TTACCATTTGTTCCATAAGCTCATAAGCTTATTTTACCAATATACTTACCATTTATCCCATAAGC
1 TTACCATTTGTTCCATAAGCTCATAAGCTTATTTTACCAATATACTTACCATTTATCCCATAAGC
** *
275756 TCGCCAGCATATCTTACCATTATAC
66 TCGTAAGCTTATCTTACCATTATAC
* * *
275781 TTACCATTTGTTCCATAAGCTCATAAGCATATTTTACCAATATACTTGCCA-TTATTCCATAAGC
1 TTACCATTTGTTCCATAAGCTCATAAGCTTATTTTACCAATATACTTACCATTTATCCCATAAGC
275845 TCGTAAGCTTAT
66 TCGTAAGCTTAT
275857 TTTCCAGTTT
Statistics
Matches: 241, Mismatches: 15, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
89 21 0.09
90 209 0.87
92 11 0.05
ACGTcount: A:0.30, C:0.24, G:0.07, T:0.38
Consensus pattern (90 bp):
TTACCATTTGTTCCATAAGCTCATAAGCTTATTTTACCAATATACTTACCATTTATCCCATAAGC
TCGTAAGCTTATCTTACCATTATAC
Found at i:276089 original size:61 final size:61
Alignment explanation
Indices: 275968--276089 Score: 156
Period size: 61 Copynumber: 2.0 Consensus size: 61
275958 GTAGTGTTAA
* * *
275968 ACCTGCACTAAGCTTACGCCATAGTGCTAATCCAGACAATACACATAAGGTCGTGCCCACC
1 ACCTACACTAAGCTTACGCCATAGTGCTAATCCAGACAATACACATAAGGTAGTACCCACC
* * * * *
276029 ACCTACACTAAGCTTACTCTATAGTGCTAATCCGGAC-ATGATACATAAGGTAGTATCCACC
1 ACCTACACTAAGCTTACGCCATAGTGCTAATCCAGACAAT-ACACATAAGGTAGTACCCACC
276090 TTTCCCGCAC
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
60 2 0.04
61 50 0.96
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.23
Consensus pattern (61 bp):
ACCTACACTAAGCTTACGCCATAGTGCTAATCCAGACAATACACATAAGGTAGTACCCACC
Found at i:282029 original size:38 final size:38
Alignment explanation
Indices: 281947--282033 Score: 124
Period size: 38 Copynumber: 2.3 Consensus size: 38
281937 TTTTGTTTGG
* *
281947 GTCGGGTCGGG-TTTTTTATGTGTGATATTCGGGTCGA
1 GTCGGGTCGGGTTTTTTTAAGTGTGATATTCGGGGCGA
281984 GTCGGGTCGGGTTTTTTTAAGTGTGATATTCGGGGCG-
1 GTCGGGTCGGGTTTTTTTAAGTGTGATATTCGGGGCGA
*
282021 GATTGGGTCGGGT
1 G-TCGGGTCGGGT
282034 CGGGTTCAGG
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
37 12 0.27
38 33 0.73
ACGTcount: A:0.10, C:0.10, G:0.41, T:0.38
Consensus pattern (38 bp):
GTCGGGTCGGGTTTTTTTAAGTGTGATATTCGGGGCGA
Found at i:282199 original size:270 final size:267
Alignment explanation
Indices: 281714--282309 Score: 900
Period size: 270 Copynumber: 2.2 Consensus size: 267
281704 ACTTTATTTT
* * *
281714 GGTCGAGTCGGATCGGGTTTTTTTAAGTGTGATATT---TG-GG-TCGGGTCGGGTCGGGTTCGG
1 GGTCGAGTCGGGTCGGGTTTTTTTAAGTGTGATATTCGGGGCGGATCGGGTCGGGTCGGGTTCAG
*
281774 GTTTAGGGTGAAAAAAACCGGACCGACCCGAAAATATATAGAATTCAGGTCGGGTCAGATTAAGT
66 GTTTAGGGTGAAAAAAACCGGACCGACCCGAAAATATATAGAATTCAGGTAGGGTCAGATTAAGT
* *
281839 CACTGTTTTTATTAAATAAAAATAATTTTTTATTATTTCGGGTCGGGTCGGGTTGGATTTCTAAT
131 CACTGTTTTTATTAAAT--AAATAATTTTTTATTATTTCGGGTCAGGTCGGGTCGGATTTCTAAT
* ** * *
281904 TCATATATTCGGGTCGGGTCGGATGAAACTTTATTTTGTTTGGGTCGGGTCGGGTTTTTTATGTG
194 TCATATATTCGGGTCGGGTCGGATGAAACTTTATTTTATTCAGATCGGGTCGGGTTTTTTAAGTG
*
281969 TGATATTCG
259 TGACATTCG
*
281978 GGTCGAGTCGGGTCGGGTTTTTTTAAGTGTGATATTCGGGGCGGATTGGGTCGGGTCGGGTTCAG
1 GGTCGAGTCGGGTCGGGTTTTTTTAAGTGTGATATTCGGGGCGGATCGGGTCGGGTCGGGTTCAG
* * *
282043 GTTTAGGGTGAAAAAAACCGGACCGACTCGAAAATATATATAATTCGAGTCGGGTAGGGTCGGAT
66 GTTTAGGGTGAAAAAAACCGGACCGACCCGAAAATATATAGAATTC-A----GGTAGGGTCAGAT
*
282108 TAAGTCACTGTTTTTATTAAAT-AAT-TTTTTTTATTATTTCGGGTCAGGTCGGGTCGGATTTCT
126 TAAGTCACTGTTTTTATTAAATAAATAATTTTTTATTATTTCGGGTCAGGTCGGGTCGGATTTCT
*
282171 AATTTATATATTCGGGTCGGGTCGGATGAAACTTTATTTTATTCAGATCGGGTCGGGTTTTTTAA
191 AATTCATATATTCGGGTCGGGTCGGATGAAACTTTATTTTATTCAGATCGGGTCGGGTTTTTTAA
282236 GTGTGACATTCG
256 GTGTGACATTCG
* *
282248 GGTCGAGTCGGGTCGGGTTTTTTTAAGTGTGATATTCGGGTCAGATCGGGTCGGGTCGGGTT
1 GGTCGAGTCGGGTCGGGTTTTTTTAAGTGTGATATTCGGGGCGGATCGGGTCGGGTCGGGTT
282310 TTTTTAAGTG
Statistics
Matches: 301, Mismatches: 21, Indels: 14
0.90 0.06 0.04
Matches are distributed among these distances:
264 35 0.12
267 1 0.00
268 2 0.01
269 62 0.21
270 165 0.55
271 3 0.01
274 33 0.11
ACGTcount: A:0.21, C:0.12, G:0.31, T:0.36
Consensus pattern (267 bp):
GGTCGAGTCGGGTCGGGTTTTTTTAAGTGTGATATTCGGGGCGGATCGGGTCGGGTCGGGTTCAG
GTTTAGGGTGAAAAAAACCGGACCGACCCGAAAATATATAGAATTCAGGTAGGGTCAGATTAAGT
CACTGTTTTTATTAAATAAATAATTTTTTATTATTTCGGGTCAGGTCGGGTCGGATTTCTAATTC
ATATATTCGGGTCGGGTCGGATGAAACTTTATTTTATTCAGATCGGGTCGGGTTTTTTAAGTGTG
ACATTCG
Found at i:282302 original size:43 final size:43
Alignment explanation
Indices: 282218--282354 Score: 214
Period size: 43 Copynumber: 3.3 Consensus size: 43
282208 TTTATTCAGA
*
282218 TCGGGTCGGG-TTTTTTAAGTGTGACATTCGGGTC-GA----G
1 TCGGGTCGGGTTTTTTTAAGTGTGATATTCGGGTCAGATCGGG
282255 TCGGGTCGGGTTTTTTTAAGTGTGATATTCGGGTCAGATCGGG
1 TCGGGTCGGGTTTTTTTAAGTGTGATATTCGGGTCAGATCGGG
282298 TCGGGTCGGGTTTTTTTAAGTGTGATATTCGGGTCAGATCGGG
1 TCGGGTCGGGTTTTTTTAAGTGTGATATTCGGGTCAGATCGGG
282341 TCGGGTTCGGGTTT
1 TCGGG-TCGGGTTT
282355 AGGGTGAAAA
Statistics
Matches: 92, Mismatches: 1, Indels: 7
0.92 0.01 0.07
Matches are distributed among these distances:
37 10 0.11
38 23 0.25
39 2 0.02
43 49 0.53
44 8 0.09
ACGTcount: A:0.12, C:0.12, G:0.38, T:0.37
Consensus pattern (43 bp):
TCGGGTCGGGTTTTTTTAAGTGTGATATTCGGGTCAGATCGGG
Found at i:282911 original size:44 final size:44
Alignment explanation
Indices: 282848--282931 Score: 159
Period size: 44 Copynumber: 1.9 Consensus size: 44
282838 ATCTGACATG
*
282848 TCTGCGAACCAAACAGAATATGGAATTGGATTCCAATTCCATTT
1 TCTGCCAACCAAACAGAATATGGAATTGGATTCCAATTCCATTT
282892 TCTGCCAACCAAACAGAATATGGAATTGGATTCCAATTCC
1 TCTGCCAACCAAACAGAATATGGAATTGGATTCCAATTCC
282932 TACAGATTCC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (44 bp):
TCTGCCAACCAAACAGAATATGGAATTGGATTCCAATTCCATTT
Found at i:282941 original size:16 final size:18
Alignment explanation
Indices: 282920--282964 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
282910 TATGGAATTG
282920 GATTCCAATTCC-T-ACA
1 GATTCCAATTCCTTCACA
282936 GATTCCAATTCCTTCACA
1 GATTCCAATTCCTTCACA
*
282954 GATTTCAATTC
1 GATTCCAATTC
282965 TCTCATAAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 12 0.46
17 1 0.04
18 13 0.50
ACGTcount: A:0.29, C:0.29, G:0.07, T:0.36
Consensus pattern (18 bp):
GATTCCAATTCCTTCACA
Found at i:293696 original size:18 final size:18
Alignment explanation
Indices: 293673--293708 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
293663 TTAAAGAAGC
*
293673 CGGCCCATGTTTTATTAA
1 CGGCCCAGGTTTTATTAA
293691 CGGCCCAGGTTTTATTAA
1 CGGCCCAGGTTTTATTAA
293709 TAGCCCAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.36
Consensus pattern (18 bp):
CGGCCCAGGTTTTATTAA
Found at i:293714 original size:18 final size:18
Alignment explanation
Indices: 293675--293715 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
293665 AAAGAAGCCG
* *
293675 GCCCATGTTTTATTAACG
1 GCCCAGGTTTTATTAACA
*
293693 GCCCAGGTTTTATTAATA
1 GCCCAGGTTTTATTAACA
293711 GCCCA
1 GCCCA
293716 ACAAAAGATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.34
Consensus pattern (18 bp):
GCCCAGGTTTTATTAACA
Found at i:296761 original size:156 final size:160
Alignment explanation
Indices: 296520--296860 Score: 496
Period size: 156 Copynumber: 2.1 Consensus size: 160
296510 TTAAGTTCAT
* * *
296520 TTTTTGTACCAAATTTGAATCACATGCTCTTAAACCATAGTAGAATACATGTGTACTTTCAATTC
1 TTTTT-TACCAAATTTGAACCACATACTCCTAAACCATAGTAGAATACATGTGTACTTTCAATTC
* *
296585 CTCTCTTTTATAA-CAATTTTTTACTTTTCAATTTAGTCCTTCAATTTTTCATAATCTCCTTATT
65 CTCTCTTTTATAATCAATTTTTTACTTTTCAATTTAGTCCATCAATTTTTCATAATATCCTTATT
296649 -TCTTCAATTT-TCATTTATTTTAACTC-C-C
130 CT-TTCAATTTGTCATTTATTTTAACTCACTC
*
296677 TTTTTTACCAAATTTGAGCCACATACTCCTAAACCATAGTAGAATACATGTGTACTTTCAATTCC
1 TTTTTTACCAAATTTGAACCACATACTCCTAAACCATAGTAGAATACATGTGTACTTTCAATTCC
*** *
296742 TCT-TTTTGATAATTTTTTTTTTATTTTTCAATTTAGTCCATCAATTTTTCATAATATCCTTATT
66 TCTCTTTT-ATAATCAATTTTTTACTTTTCAATTTAGTCCATCAATTTTTCATAATATCCTTATT
* * *
296806 CTTTCAATTTGTGATTTATTTTAAGTCACTT
130 CTTTCAATTTGTCATTTATTTTAACTCACTC
296837 TTTTTTACCAAATTTGAACCACAT
1 TTTTTTACCAAATTTGAACCACAT
296861 GCTGATATAC
Statistics
Matches: 164, Mismatches: 14, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
155 4 0.02
156 63 0.38
157 58 0.35
158 15 0.09
159 1 0.01
160 23 0.14
ACGTcount: A:0.27, C:0.19, G:0.06, T:0.48
Consensus pattern (160 bp):
TTTTTTACCAAATTTGAACCACATACTCCTAAACCATAGTAGAATACATGTGTACTTTCAATTCC
TCTCTTTTATAATCAATTTTTTACTTTTCAATTTAGTCCATCAATTTTTCATAATATCCTTATTC
TTTCAATTTGTCATTTATTTTAACTCACTC
Found at i:304529 original size:20 final size:19
Alignment explanation
Indices: 304506--304557 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 19
304496 TGATTCAATC
* *
304506 AGTATCGATATCGAAAGGGG
1 AGTATCGATACCG-AAGGGA
304526 AGTATCGATACCGAAGGGA
1 AGTATCGATACCGAAGGGA
304545 AGGTATCGATACC
1 A-GTATCGATACC
304558 ATTCAAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 6 0.21
20 23 0.79
ACGTcount: A:0.35, C:0.15, G:0.31, T:0.19
Consensus pattern (19 bp):
AGTATCGATACCGAAGGGA
Found at i:305119 original size:55 final size:55
Alignment explanation
Indices: 304990--305140 Score: 162
Period size: 55 Copynumber: 2.7 Consensus size: 55
304980 TAAGTGTGCA
* * *
304990 AAAAATTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGAGCACTATATGTG
1 AAAAACTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGAGCACTACAGGTG
* ** * *
305045 TAAAGTTAAGAAATTCATACTAAGTGGATGAATTTCTGT-TGGGCACTACAGGTG
1 AAAAACTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGAGCACTACAGGTG
* * * *
305099 CAAAAACT-AGTAAATGCATACTAAGTGTATAAATTTTCGTAT
1 -AAAAACTAAG-AAATTCATACTAAGTGGATGAATTTCCGTAT
305141 TGGTAGTGGG
Statistics
Matches: 79, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
54 14 0.18
55 64 0.81
56 1 0.01
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.32
Consensus pattern (55 bp):
AAAAACTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGAGCACTACAGGTG
Found at i:311217 original size:46 final size:46
Alignment explanation
Indices: 311167--311301 Score: 189
Period size: 46 Copynumber: 2.9 Consensus size: 46
311157 TTTTCACGCA
* * * * * * * *
311167 TTAATACATCCATTGATGCAATTTAACTATAGTATCCTTTCATGAT
1 TTAATGCATCCTTTCATGCATTTTAATTATGGCATCCTTTCATGAC
*
311213 TTAATGCATCCTTTCATGCATTTTAATTATGGCATCCTTTCATGCC
1 TTAATGCATCCTTTCATGCATTTTAATTATGGCATCCTTTCATGAC
311259 TTAATGCATCCTTTCATGCATTTTAATTATGGCATCCTTTCAT
1 TTAATGCATCCTTTCATGCATTTTAATTATGGCATCCTTTCAT
311302 CAAATCATCA
Statistics
Matches: 80, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 80 1.00
ACGTcount: A:0.26, C:0.21, G:0.10, T:0.44
Consensus pattern (46 bp):
TTAATGCATCCTTTCATGCATTTTAATTATGGCATCCTTTCATGAC
Found at i:311225 original size:20 final size:21
Alignment explanation
Indices: 311200--311281 Score: 96
Period size: 20 Copynumber: 3.8 Consensus size: 21
311190 TAACTATAGT
311200 ATCCTTTCATG-ATTTAATGC
1 ATCCTTTCATGCATTTAATGC
311220 ATCCTTTCATGCATTTTAATTATGGC
1 ATCCTTTCATGCA-TTT-A--AT-GC
*
311246 ATCCTTTCATGC-CTTAATGC
1 ATCCTTTCATGCATTTAATGC
311266 ATCCTTTCATGCATTT
1 ATCCTTTCATGCATTT
311282 TAATTATGGC
Statistics
Matches: 53, Mismatches: 2, Indels: 13
0.78 0.03 0.19
Matches are distributed among these distances:
20 25 0.47
21 5 0.09
22 3 0.06
23 2 0.04
24 2 0.04
25 2 0.04
26 14 0.26
ACGTcount: A:0.22, C:0.23, G:0.10, T:0.45
Consensus pattern (21 bp):
ATCCTTTCATGCATTTAATGC
Found at i:311254 original size:26 final size:26
Alignment explanation
Indices: 311218--311301 Score: 117
Period size: 26 Copynumber: 3.5 Consensus size: 26
311208 ATGATTTAAT
311218 GCATCCTTTCATGCATTTTAATTATG
1 GCATCCTTTCATGCATTTTAATTATG
*
311244 GCATCCTTTCATGC--CTT-A--AT-
1 GCATCCTTTCATGCATTTTAATTATG
311264 GCATCCTTTCATGCATTTTAATTATG
1 GCATCCTTTCATGCATTTTAATTATG
311290 GCATCCTTTCAT
1 GCATCCTTTCAT
311302 CAAATCATCA
Statistics
Matches: 50, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
20 14 0.28
21 2 0.04
22 2 0.04
23 2 0.04
24 2 0.04
25 2 0.04
26 26 0.52
ACGTcount: A:0.21, C:0.24, G:0.11, T:0.44
Consensus pattern (26 bp):
GCATCCTTTCATGCATTTTAATTATG
Found at i:320660 original size:33 final size:35
Alignment explanation
Indices: 320623--320687 Score: 107
Period size: 35 Copynumber: 1.9 Consensus size: 35
320613 CAAGTGGGAG
320623 ATTGTTGA-AAATGCATG-GCTTCTAGATGGCAGC
1 ATTGTTGACAAATGCATGTGCTTCTAGATGGCAGC
*
320656 ATTGTTGACAATTGCATGTGCTTCTAGATGGC
1 ATTGTTGACAAATGCATGTGCTTCTAGATGGC
320688 TTTTGGTTGC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 8 0.28
34 8 0.28
35 13 0.45
ACGTcount: A:0.25, C:0.15, G:0.26, T:0.34
Consensus pattern (35 bp):
ATTGTTGACAAATGCATGTGCTTCTAGATGGCAGC
Found at i:322335 original size:21 final size:21
Alignment explanation
Indices: 322309--322360 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
322299 GTGGGGTTGG
*
322309 GTTGTAAGGTAGATCAGCTTC
1 GTTGTAAAGTAGATCAGCTTC
*
322330 GTTGTAAAGTAGATCAGGTTC
1 GTTGTAAAGTAGATCAGCTTC
322351 GTTGTAAAGT
1 GTTGTAAAGT
322361 TCCACTGTCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.27, C:0.10, G:0.29, T:0.35
Consensus pattern (21 bp):
GTTGTAAAGTAGATCAGCTTC
Found at i:322842 original size:21 final size:22
Alignment explanation
Indices: 322812--322862 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
322802 ATTATGACTA
322812 TCGCAATGCGATTTT-CCAATT
1 TCGCAATGCGATTTTCCCAATT
*
322833 TCGCATTGCGATTTTCCCAA-T
1 TCGCAATGCGATTTTCCCAATT
*
322854 TCACAATGC
1 TCGCAATGC
322863 AAATAAGTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 22 0.85
22 4 0.15
ACGTcount: A:0.24, C:0.27, G:0.14, T:0.35
Consensus pattern (22 bp):
TCGCAATGCGATTTTCCCAATT
Found at i:322920 original size:20 final size:20
Alignment explanation
Indices: 322895--322960 Score: 78
Period size: 20 Copynumber: 3.3 Consensus size: 20
322885 ATTTGGAAAA
322895 TCGCAACGCGATACTGACTT
1 TCGCAACGCGATACTGACTT
* * *
322915 TCGCAACTCGATACTTAATT
1 TCGCAACGCGATACTGACTT
* **
322935 TTGCAACGTAATACTGACTT
1 TCGCAACGCGATACTGACTT
322955 TCGCAA
1 TCGCAA
322961 TGAGATAATA
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (20 bp):
TCGCAACGCGATACTGACTT
Found at i:323176 original size:21 final size:22
Alignment explanation
Indices: 323150--323192 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
323140 CACTCTCTCA
323150 CCCATCTCC-ACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
323171 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
323193 TATCTCCATC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.21, C:0.47, G:0.14, T:0.19
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:323199 original size:20 final size:21
Alignment explanation
Indices: 323150--323192 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
323140 CACTCTCTCA
*
323150 CCCATCTCC-ACGAAATCCGT
1 CCCATCTCCGGCGAAATCCGT
323170 CCCCATCTCCGGCGAAATCCGT
1 -CCCATCTCCGGCGAAATCCGT
323192 C
1 C
323193 TATCTCCATC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.21, C:0.47, G:0.14, T:0.19
Consensus pattern (21 bp):
CCCATCTCCGGCGAAATCCGT
Found at i:323513 original size:20 final size:20
Alignment explanation
Indices: 323456--323514 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 20
323446 TTTATTCTCT
* **
323456 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATTGTCATTTTCG
*
323476 CGTTGCGATTGTCTTTTTCG
1 CGTTGCGATTGTCATTTTCG
* *
323496 TGTTGCGATTTTCATTTTC
1 CGTTGCGATTGTCATTTTC
323515 AGAAAACTAT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.14, C:0.19, G:0.22, T:0.46
Consensus pattern (20 bp):
CGTTGCGATTGTCATTTTCG
Found at i:324835 original size:18 final size:18
Alignment explanation
Indices: 324814--324861 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
324804 TCCACTTCGG
324814 GAGCCATCACCTCACCCA
1 GAGCCATCACCTCACCCA
*
324832 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
324850 GAGCCATCACCT
1 GAGCCATCACCT
324862 GATCGACCCG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.27, C:0.46, G:0.12, T:0.15
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:325456 original size:19 final size:20
Alignment explanation
Indices: 325402--325468 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
325392 TAGTTTACTT
* *
325402 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
325422 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
325442 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
325461 TCGCAACG
1 TCGCAACG
325469 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:325495 original size:19 final size:19
Alignment explanation
Indices: 325402--325504 Score: 72
Period size: 19 Copynumber: 5.6 Consensus size: 19
325392 TAGTTTACTT
* **
325402 TCGCAACACGAAAATGACTA
1 TCGCAACGCG-AAATGAAAA
***
325422 TCGCAACGCGGAAATGGCTA
1 TCGCAACGC-GAAATGAAAA
*
325442 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
325461 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAATGAAAA
325475 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
325494 TCGCAATGCGA
1 TCGCAACGCGA
325505 TTTACTTATT
Statistics
Matches: 68, Mismatches: 9, Indels: 13
0.76 0.10 0.14
Matches are distributed among these distances:
14 10 0.15
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 27 0.40
20 24 0.35
21 1 0.01
ACGTcount: A:0.42, C:0.23, G:0.21, T:0.14
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:325538 original size:14 final size:14
Alignment explanation
Indices: 325519--325575 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
325509 CTTATTCGCA
325519 TTGCGATTTTGTCG
1 TTGCGATTTTGTCG
*
325533 TTGCGATTTTCATTTCG
1 TTGCGA-TTT--TGTCG
325550 CATTGCGATTTTGTCG
1 --TTGCGATTTTGTCG
325566 TTGCGATTTT
1 TTGCGATTTT
325576 CATTTCACAT
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 16 0.44
15 3 0.08
16 4 0.11
17 4 0.11
18 3 0.08
19 6 0.17
ACGTcount: A:0.11, C:0.16, G:0.23, T:0.51
Consensus pattern (14 bp):
TTGCGATTTTGTCG
Found at i:325553 original size:33 final size:33
Alignment explanation
Indices: 325513--325591 Score: 149
Period size: 33 Copynumber: 2.4 Consensus size: 33
325503 GATTTACTTA
325513 TTCGCATTGCGATTTTGTCGTTGCGATTTTCAT
1 TTCGCATTGCGATTTTGTCGTTGCGATTTTCAT
325546 TTCGCATTGCGATTTTGTCGTTGCGATTTTCAT
1 TTCGCATTGCGATTTTGTCGTTGCGATTTTCAT
*
325579 TTCACATTGCGAT
1 TTCGCATTGCGAT
325592 AGCGATTTCC
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.14, C:0.19, G:0.20, T:0.47
Consensus pattern (33 bp):
TTCGCATTGCGATTTTGTCGTTGCGATTTTCAT
Found at i:325557 original size:19 final size:19
Alignment explanation
Indices: 325533--325629 Score: 71
Period size: 19 Copynumber: 5.3 Consensus size: 19
325523 GATTTTGTCG
325533 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
325552 TTGCGA-TTT--TGTCG--
1 TTGCGATTTTCATTTCGCA
*
325566 TTGCGATTTTCATTTCACA
1 TTGCGATTTTCATTTCGCA
**
325585 TTGCGA-TAGCGATTTCCGCA
1 TTGCGATTTTC-ATTT-CGCA
** *
325605 TTGCGATAGTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
325624 TTGCGA
1 TTGCGA
325630 AAGTCATTTT
Statistics
Matches: 60, Mismatches: 10, Indels: 16
0.70 0.12 0.19
Matches are distributed among these distances:
14 6 0.10
15 3 0.05
16 4 0.07
17 3 0.05
18 5 0.08
19 25 0.42
20 13 0.22
21 1 0.02
ACGTcount: A:0.16, C:0.21, G:0.22, T:0.41
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:325608 original size:20 final size:20
Alignment explanation
Indices: 325578--325673 Score: 115
Period size: 20 Copynumber: 4.8 Consensus size: 20
325568 GCGATTTTCA
* *
325578 TTTCACATTGCGATAG-CGAT
1 TTTCGCATTGCGAAAGTC-AT
* *
325598 TTCCGCATTGCGATAGTCA-
1 TTTCGCATTGCGAAAGTCAT
*
325617 TTTCGCGTTGCGAAAGTCAT
1 TTTCGCATTGCGAAAGTCAT
*
325637 TTTCGCGTTGCGAAAGTCAT
1 TTTCGCATTGCGAAAGTCAT
325657 TTTCGCATTGCGAAAGT
1 TTTCGCATTGCGAAAGT
325674 AAACTATTCT
Statistics
Matches: 68, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
19 16 0.24
20 51 0.75
21 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.23, T:0.34
Consensus pattern (20 bp):
TTTCGCATTGCGAAAGTCAT
Found at i:325648 original size:39 final size:40
Alignment explanation
Indices: 325564--325673 Score: 125
Period size: 39 Copynumber: 2.8 Consensus size: 40
325554 GCGATTTTGT
** * *
325564 CGTTGCGATTTTCATTTCACATTGCGATAG-CGATTTCCG
1 CGTTGCGATAGTCATTTCGCATTGCGAAAGTCGATTTCCG
* * *
325603 CATTGCGATAGTCATTTCGCGTTGCGAAAGTC-ATTTTCG
1 CGTTGCGATAGTCATTTCGCATTGCGAAAGTCGATTTCCG
*
325642 CGTTGCGAAAGTCATTTTCGCATTGCGAAAGT
1 CGTTGCGATAGTCA-TTTCGCATTGCGAAAGT
325674 AAACTATTCT
Statistics
Matches: 59, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
39 42 0.71
40 17 0.29
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.35
Consensus pattern (40 bp):
CGTTGCGATAGTCATTTCGCATTGCGAAAGTCGATTTCCG
Found at i:327679 original size:19 final size:19
Alignment explanation
Indices: 327652--327719 Score: 92
Period size: 19 Copynumber: 3.8 Consensus size: 19
327642 ATCGCAACGA
327652 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
*
327671 GATAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
327690 GAAAATCGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
327704 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
327720 TTTTCATTTC
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
14 11 0.25
15 1 0.02
16 2 0.05
17 2 0.05
19 28 0.64
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.15
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:327763 original size:20 final size:20
Alignment explanation
Indices: 327746--327793 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
327736 CGATTTTCTA
327746 GTTGCGATAGCCATTTTCGC
1 GTTGCGATAGCCATTTTCGC
327766 GTTGCGATAGCCATTTTCGC
1 GTTGCGATAGCCATTTTCGC
327786 GTTGCGAT
1 GTTGCGAT
327794 TTCCCCGTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.15, C:0.23, G:0.27, T:0.35
Consensus pattern (20 bp):
GTTGCGATAGCCATTTTCGC
Found at i:328121 original size:20 final size:21
Alignment explanation
Indices: 328077--328128 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
328067 GCGATAGTCA
*
328077 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTACAAAT
**
328098 TCGCATTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTACAAAT
328118 TCGCATTGCGA
1 TCGCATTGCGA
328129 ATTGGGAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTACAAAT
Found at i:328919 original size:24 final size:24
Alignment explanation
Indices: 328892--328945 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
328882 GTATTCGAAA
*
328892 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACCCGGAC
* *
328916 TTTGATATTGGTCAATACTCGGAT
1 TTTGATATTGGTCAATACCCGGAC
328940 TTTGAT
1 TTTGAT
328946 GATTTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATATTGGTCAATACCCGGAC
Found at i:331757 original size:21 final size:21
Alignment explanation
Indices: 331691--331757 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
331681 GTGAATCGGG
*
331691 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
331711 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
331733 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
331754 CTCT
1 CTCT
331758 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:331776 original size:42 final size:41
Alignment explanation
Indices: 331691--331813 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
331681 GTGAATCGGG
* * * * *
331691 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGATAGGGGC
331733 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGATAGGGGC
* * * * *
331775 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGATAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGATAGG
331814 CGAGTCGGGC
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
41 4 0.06
42 58 0.85
43 6 0.09
ACGTcount: A:0.23, C:0.18, G:0.37, T:0.23
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGATAGGGGC
Found at i:332137 original size:91 final size:87
Alignment explanation
Indices: 332030--332208 Score: 254
Period size: 93 Copynumber: 2.0 Consensus size: 87
332020 ATTTCAAACT
332030 TTCAACCAAAAGAC-AAAC-AAAGACAAATACTAACTTCACAGTGTTAAAGAAACACAGTTTAGC
1 TTCAACCAAAAGACAAAACAAAAGACAAATACTAACTTCACAGTGTT--A-AAA-ACA-TTTAGC
*
332093 AGAATTGGAAGCAACCGAATAAATTTAC
61 AGAACTGGAAGCAACCGAA-AAATTTAC
* *
332121 TTCAACCAAAAGACAAAACAAAAGACAAATACTAACTTCACAGTGTTATAAACATTTAGCAGTAC
1 TTCAACCAAAAGACAAAACAAAAGACAAATACTAACTTCACAGTGTTAAAAACATTTAGCAGAAC
*
332186 TGGCAGCAACCGAAAAATTTAC
66 TGGAAGCAACCGAAAAATTTAC
332208 T
1 T
332209 AAGCAATCTA
Statistics
Matches: 82, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
87 9 0.11
88 22 0.27
89 3 0.04
90 2 0.02
91 15 0.18
92 4 0.05
93 27 0.33
ACGTcount: A:0.47, C:0.20, G:0.12, T:0.21
Consensus pattern (87 bp):
TTCAACCAAAAGACAAAACAAAAGACAAATACTAACTTCACAGTGTTAAAAACATTTAGCAGAAC
TGGAAGCAACCGAAAAATTTAC
Found at i:333875 original size:20 final size:19
Alignment explanation
Indices: 333850--333963 Score: 68
Period size: 20 Copynumber: 6.4 Consensus size: 19
333840 GGTTGAAATG
333850 AATCGCAACGAGATAATGAA
1 AATCGCAACGAGA-AATGAA
* *
333870 AATCGCAACGCGGAAATGAC
1 AATCGCAACG-AGAAATGAA
*
333890 TATCGCAACGAG--A-G--
1 AATCGCAACGAGAAATGAA
* * *
333904 AATCGCAATGCGAAATGAC
1 AATCGCAACGAGAAATGAA
*
333923 TATCGCAACGAG--A-G--
1 AATCGCAACGAGAAATGAA
*
333937 AATCGCAACGCGAAATGAA
1 AATCGCAACGAGAAATGAA
333956 AATCGCAA
1 AATCGCAA
333964 TGCGATTTTG
Statistics
Matches: 71, Mismatches: 12, Indels: 23
0.67 0.11 0.22
Matches are distributed among these distances:
14 19 0.27
16 4 0.06
17 4 0.06
19 18 0.25
20 24 0.34
21 2 0.03
ACGTcount: A:0.43, C:0.21, G:0.23, T:0.13
Consensus pattern (19 bp):
AATCGCAACGAGAAATGAA
Found at i:333910 original size:14 final size:14
Alignment explanation
Indices: 333891--333946 Score: 58
Period size: 14 Copynumber: 3.6 Consensus size: 14
333881 GGAAATGACT
333891 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
*
333905 ATCGCAATGCGAAATGA
1 ATCGCAA--CGAGA-GA
333922 CTATCGCAACGAGAGA
1 --ATCGCAACGAGAGA
333938 ATCGCAACG
1 ATCGCAACG
333947 CGAAATGAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 16 0.46
16 6 0.17
17 6 0.17
19 7 0.20
ACGTcount: A:0.39, C:0.23, G:0.25, T:0.12
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:333922 original size:33 final size:33
Alignment explanation
Indices: 333870--333963 Score: 152
Period size: 33 Copynumber: 2.8 Consensus size: 33
333860 AGATAATGAA
333870 AATCGCAACGCGGAAATGACTATCGCAACGAGAG
1 AATCGCAACGC-GAAATGACTATCGCAACGAGAG
*
333904 AATCGCAATGCGAAATGACTATCGCAACGAGAG
1 AATCGCAACGCGAAATGACTATCGCAACGAGAG
**
333937 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGACTATCGCAA
333964 TGCGATTTTG
Statistics
Matches: 56, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
33 46 0.82
34 10 0.18
ACGTcount: A:0.41, C:0.22, G:0.23, T:0.13
Consensus pattern (33 bp):
AATCGCAACGCGAAATGACTATCGCAACGAGAG
Found at i:334035 original size:33 final size:32
Alignment explanation
Indices: 333981--334072 Score: 116
Period size: 33 Copynumber: 2.8 Consensus size: 32
333971 TTGGTTTCGA
333981 TTGCGATTTTCA-TTCGCGTTGCGATTATCTCG
1 TTGCGA-TTTCATTTCGCGTTGCGATTATCTCG
*
334013 TTGCGAGTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGA-TTTCATTTCGCGTTGCGATTATCTCG
*
334046 TTGCGATAGTT-ATTCCGCGTTGCGATT
1 TTGCGAT--TTCATTTCGCGTTGCGATT
334073 TCATTCTCGA
Statistics
Matches: 54, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
32 12 0.22
33 40 0.74
34 2 0.04
ACGTcount: A:0.12, C:0.22, G:0.24, T:0.42
Consensus pattern (32 bp):
TTGCGATTTCATTTCGCGTTGCGATTATCTCG
Found at i:334610 original size:20 final size:20
Alignment explanation
Indices: 334585--334696 Score: 82
Period size: 20 Copynumber: 5.5 Consensus size: 20
334575 GCTATGTAAA
334585 TCGCATTGCGATAGTAAG-AT
1 TCGCATTGCGAT-GTAAGTAT
* *
334605 TCGCATTGCGATTTACGTAT
1 TCGCATTGCGATGTAAGTAT
* ***
334625 TCGCATTGCGATTTTCCTAAT
1 TCGCATTGCGATGTAAGT-AT
* ** *
334646 TCGCATTGCGATTTACTTAA
1 TCGCATTGCGATGTAAGTAT
* * *
334666 TCGCGTTGCGATTTACGTAT
1 TCGCATTGCGATGTAAGTAT
334686 TCGCATTGCGA
1 TCGCATTGCGA
334697 ATTATGAAAA
Statistics
Matches: 79, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
19 3 0.04
20 58 0.73
21 18 0.23
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (20 bp):
TCGCATTGCGATGTAAGTAT
Found at i:334655 original size:41 final size:40
Alignment explanation
Indices: 334603--334696 Score: 134
Period size: 41 Copynumber: 2.3 Consensus size: 40
334593 CGATAGTAAG
* *
334603 ATTCGCATTGCGATTTACGTATTCGCATTGCGATTTTCCT
1 ATTCGCATTGCGATTTACGTAATCGCATTGCGATTTACCT
* * *
334643 AATTCGCATTGCGATTTACTTAATCGCGTTGCGATTTACGT
1 -ATTCGCATTGCGATTTACGTAATCGCATTGCGATTTACCT
334684 ATTCGCATTGCGA
1 ATTCGCATTGCGA
334697 ATTATGAAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
40 13 0.27
41 35 0.73
ACGTcount: A:0.20, C:0.21, G:0.19, T:0.39
Consensus pattern (40 bp):
ATTCGCATTGCGATTTACGTAATCGCATTGCGATTTACCT
Found at i:334709 original size:41 final size:40
Alignment explanation
Indices: 334577--334711 Score: 121
Period size: 41 Copynumber: 3.3 Consensus size: 40
334567 CGAATGGCGC
* *
334577 TATGTAAATCGCATTGCGATAGTAAG-ATTCGCATTGCGATT
1 TATG-AAATCGCATTGCGAT-TTACGTATTCGCATTGCGATT
* * * * *
334618 TACGTATTCGCATTGCGATTTTCCTAATTCGCATTGCGATT
1 TATGAAATCGCATTGCGATTTACGT-ATTCGCATTGCGATT
* * *
334659 TACT-TAATCGCGTTGCGATTTACGTATTCGCATTGCGAAT
1 TA-TGAAATCGCATTGCGATTTACGTATTCGCATTGCGATT
334699 TATGAAAATCGCA
1 TATG-AAATCGCA
334712 ACGCGAATAC
Statistics
Matches: 74, Mismatches: 15, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
39 2 0.03
40 29 0.39
41 43 0.58
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (40 bp):
TATGAAATCGCATTGCGATTTACGTATTCGCATTGCGATT
Found at i:334717 original size:21 final size:21
Alignment explanation
Indices: 334693--334748 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
334683 TATTCGCATT
*
334693 GCGAATTATGAAAATCGCAAC
1 GCGAATTACGAAAATCGCAAC
* *
334714 GCGAA-TACGTAAATCGCAAT
1 GCGAATTACGAAAATCGCAAC
*
334734 GCGAATTAGGAAAAT
1 GCGAATTACGAAAAT
334749 TCATTGCGAT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.43, C:0.16, G:0.21, T:0.20
Consensus pattern (21 bp):
GCGAATTACGAAAATCGCAAC
Found at i:334729 original size:61 final size:61
Alignment explanation
Indices: 334605--334737 Score: 144
Period size: 61 Copynumber: 2.2 Consensus size: 61
334595 ATAGTAAGAT
* * * ** * *
334605 TCGCATTGCGATTTACGTATTCGCATTGCGATTTTCCTAATTCGCATTGCGATTTACTTAA
1 TCGCATTGCGATTTACGTATTCGCATTGCGATTATCCAAAATCGCAACGCGATATACTAAA
* *
334666 TCGCGTTGCGATTTACGTATTCGCATTGCGAATTAT-GAAAATCGCAACGCGA-ATACGTAAA
1 TCGCATTGCGATTTACGTATTCGCATTGCG-ATTATCCAAAATCGCAACGCGATATAC-TAAA
*
334727 TCGCAATGCGA
1 TCGCATTGCGA
334738 ATTAGGAAAA
Statistics
Matches: 59, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
60 3 0.05
61 52 0.88
62 4 0.07
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (61 bp):
TCGCATTGCGATTTACGTATTCGCATTGCGATTATCCAAAATCGCAACGCGATATACTAAA
Found at i:334807 original size:21 final size:21
Alignment explanation
Indices: 334767--334809 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
334757 ATAGTCAGTA
*
334767 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTGCCAAAT
334788 TCGCATTGCGA-TTGCGCAAAT
1 TCGCATTGCGATTTGC-CAAAT
334809 T
1 T
334810 GGGAAAATCG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 3 0.15
21 17 0.85
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (21 bp):
TCGCATTGCGATTTGCCAAAT
Found at i:334848 original size:21 final size:22
Alignment explanation
Indices: 334798--334848 Score: 68
Period size: 21 Copynumber: 2.3 Consensus size: 22
334788 TCGCATTGCG
334798 ATTGCGCAAATTGGGAAAATCGC
1 ATTGCG-AAATTGGGAAAATCGC
**
334821 AACGCGAAATT-GGAAAATCGC
1 ATTGCGAAATTGGGAAAATCGC
334842 ATTGCGA
1 ATTGCGA
334849 TAGTCATAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 15 0.62
22 5 0.21
23 4 0.17
ACGTcount: A:0.37, C:0.18, G:0.25, T:0.20
Consensus pattern (22 bp):
ATTGCGAAATTGGGAAAATCGC
Found at i:335155 original size:30 final size:30
Alignment explanation
Indices: 335119--335176 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
335109 ATGGAATGCG
*
335119 ATGATTGATGAATAGTTGAATGACTTTTGT
1 ATGATTGATGAATAGTTGAATAACTTTTGT
335149 ATGATTGATGAATAGTTGAATAACTTTT
1 ATGATTGATGAATAGTTGAATAACTTTT
335177 TTTTTCTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.33, C:0.03, G:0.21, T:0.43
Consensus pattern (30 bp):
ATGATTGATGAATAGTTGAATAACTTTTGT
Found at i:335335 original size:46 final size:47
Alignment explanation
Indices: 335254--335342 Score: 162
Period size: 46 Copynumber: 1.9 Consensus size: 47
335244 AAGTTAATCG
335254 ATTGTCCATCATCTTCTTTTACGGGTTATGAAAGAAGAAGAAGATCA
1 ATTGTCCATCATCTTCTTTTACGGGTTATGAAAGAAGAAGAAGATCA
*
335301 ATTGTCCATCATCTTC-TTTACGGGTTATGAAAGAAGGAGAAG
1 ATTGTCCATCATCTTCTTTTACGGGTTATGAAAGAAGAAGAAG
335343 GAAGAAGGAG
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
46 25 0.61
47 16 0.39
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (47 bp):
ATTGTCCATCATCTTCTTTTACGGGTTATGAAAGAAGAAGAAGATCA
Found at i:335349 original size:13 final size:14
Alignment explanation
Indices: 335331--335360 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
335321 CGGGTTATGA
335331 AAGAAGGAGAAG-G
1 AAGAAGGAGAAGAG
335344 AAGAAGGAGAAGAG
1 AAGAAGGAGAAGAG
335358 AAG
1 AAG
335361 GAAAAAAGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.57, C:0.00, G:0.43, T:0.00
Consensus pattern (14 bp):
AAGAAGGAGAAGAG
Found at i:335551 original size:21 final size:21
Alignment explanation
Indices: 335527--335574 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
335517 ATGATTTATG
335527 TTAGGGATAACAAACTTAAAC
1 TTAGGGATAACAAACTTAAAC
*
335548 TTAGGGATGACAAACTTAAAC
1 TTAGGGATAACAAACTTAAAC
335569 TTAGGG
1 TTAGGG
335575 GAGGGCGAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.42, C:0.12, G:0.21, T:0.25
Consensus pattern (21 bp):
TTAGGGATAACAAACTTAAAC
Found at i:342601 original size:3 final size:3
Alignment explanation
Indices: 342585--342643 Score: 66
Period size: 3 Copynumber: 19.7 Consensus size: 3
342575 CCATATTGAT
* * * *
342585 TTA TTA TGA TTTA TTA TT- TTT TTA TTA TTA TTA TTA TTA TCA TCA
1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
342630 TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TT
342644 TAAATATATT
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
2 2 0.04
3 45 0.92
4 2 0.04
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:342602 original size:21 final size:20
Alignment explanation
Indices: 342578--342622 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
342568 TTTTTACCCA
342578 TATTGATTTATTATGATTTAT
1 TATTGATTTATTATGA-TTAT
** *
342599 TATTTTTTTATTATTATTAT
1 TATTGATTTATTATGATTAT
342619 TATT
1 TATT
342623 ATCATCATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (20 bp):
TATTGATTTATTATGATTAT
Found at i:344866 original size:22 final size:22
Alignment explanation
Indices: 344838--344889 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
344828 TGGATGAAAG
344838 CATGAAATAGAAAATTGTTCTA
1 CATGAAATAGAAAATTGTTCTA
*
344860 CATGAAATAGAAAATTGTTTTA
1 CATGAAATAGAAAATTGTTCTA
344882 CATGAAAT
1 CATGAAAT
344890 TCTCTATTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.46, C:0.08, G:0.13, T:0.33
Consensus pattern (22 bp):
CATGAAATAGAAAATTGTTCTA
Found at i:345189 original size:23 final size:22
Alignment explanation
Indices: 345147--345189 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
345137 TGATGTTTAT
**
345147 AAGTTGAATTCATGTTTAAATC
1 AAGTTGAATTCATGCCTAAATC
345169 AAGTTGAAATTCATGCCTAAA
1 AAGTTG-AATTCATGCCTAAA
345190 GTACCCTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.35
Consensus pattern (22 bp):
AAGTTGAATTCATGCCTAAATC
Found at i:347481 original size:11 final size:11
Alignment explanation
Indices: 347465--347503 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
347455 TGAAAATTAA
*
347465 AGAAATGAAAT
1 AGAAATGGAAT
347476 AGAAATGGAAT
1 AGAAATGGAAT
*
347487 TGAAATGGAA-
1 AGAAATGGAAT
347497 AGAAATG
1 AGAAATG
347504 TTATAAAAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
10 6 0.24
11 19 0.76
ACGTcount: A:0.56, C:0.00, G:0.26, T:0.18
Consensus pattern (11 bp):
AGAAATGGAAT
Found at i:349321 original size:26 final size:26
Alignment explanation
Indices: 349292--349357 Score: 105
Period size: 26 Copynumber: 2.5 Consensus size: 26
349282 AATGGTTAGG
*
349292 GATATAAATGGTTATGATAGGGGTAA
1 GATAGAAATGGTTATGATAGGGGTAA
*
349318 GATAGAAATGGTTATGATAGGGGTAT
1 GATAGAAATGGTTATGATAGGGGTAA
*
349344 GATAGAAAAGGTTA
1 GATAGAAATGGTTA
349358 AGAAATGGAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.39, C:0.00, G:0.32, T:0.29
Consensus pattern (26 bp):
GATAGAAATGGTTATGATAGGGGTAA
Found at i:350129 original size:36 final size:35
Alignment explanation
Indices: 350036--350149 Score: 138
Period size: 35 Copynumber: 3.2 Consensus size: 35
350026 CTGATTGGTG
* * * *
350036 GTTATAGGCGTGAAATAGTGATAGAAGTTGATGAT
1 GTTATAGGCGTGAAATGGTGATGGAAGATGGTGAT
** *
350071 AATATAGGCGTGCAATGGTGATGGAAGATGGTGAT
1 GTTATAGGCGTGAAATGGTGATGGAAGATGGTGAT
* *
350106 GTTATAGGCGTGAAAATGGTGATGAAAGATGGCGAT
1 GTTATAGGCGTG-AAATGGTGATGGAAGATGGTGAT
350142 GTTATAGG
1 GTTATAGG
350150 TAGTATCTTA
Statistics
Matches: 66, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
35 38 0.58
36 28 0.42
ACGTcount: A:0.32, C:0.04, G:0.35, T:0.28
Consensus pattern (35 bp):
GTTATAGGCGTGAAATGGTGATGGAAGATGGTGAT
Found at i:352300 original size:15 final size:15
Alignment explanation
Indices: 352282--352310 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
352272 AGAAATGATA
352282 GAAATGGAAAGAATT
1 GAAATGGAAAGAATT
352297 GAAATGGAAAGAAT
1 GAAATGGAAAGAAT
352311 GTTATAAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.28, T:0.17
Consensus pattern (15 bp):
GAAATGGAAAGAATT
Found at i:354187 original size:26 final size:26
Alignment explanation
Indices: 354158--354222 Score: 114
Period size: 26 Copynumber: 2.5 Consensus size: 26
354148 AATGGTTAGG
354158 GATAGAAATGGTTATGATAGGGGTAA
1 GATAGAAATGGTTATGATAGGGGTAA
*
354184 GATAGAAATGGTTATGATAGGGGTAT
1 GATAGAAATGGTTATGATAGGGGTAA
354210 GATAGAAA-GGTTA
1 GATAGAAATGGTTA
354223 AGAAATGGAT
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
25 5 0.13
26 33 0.87
ACGTcount: A:0.38, C:0.00, G:0.34, T:0.28
Consensus pattern (26 bp):
GATAGAAATGGTTATGATAGGGGTAA
Found at i:354967 original size:35 final size:35
Alignment explanation
Indices: 354928--355002 Score: 107
Period size: 36 Copynumber: 2.1 Consensus size: 35
354918 GTTGATGATA
* * *
354928 ATAGGCGTG-CAATGGTGATGGAAGATGGTGATGTT
1 ATAGGCGTGAAAATGGTGATGAAAGATGGCGATG-T
354963 ATAGGCGTGAAAATGGTGATGAAAGATGGCGATGT
1 ATAGGCGTGAAAATGGTGATGAAAGATGGCGATGT
354998 ATAGG
1 ATAGG
355003 TAGTATCTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
35 15 0.42
36 21 0.58
ACGTcount: A:0.31, C:0.05, G:0.39, T:0.25
Consensus pattern (35 bp):
ATAGGCGTGAAAATGGTGATGAAAGATGGCGATGT
Found at i:357410 original size:35 final size:34
Alignment explanation
Indices: 357323--357432 Score: 130
Period size: 34 Copynumber: 3.2 Consensus size: 34
357313 TTGGTGGTTA
* * * * *
357323 TATAGGCGTGAAATAGTGATAGAAGTTGATGATA
1 TATAGGCGTGAAATGGTGATGGAAGATGGTGATG
* *
357357 TATGGGCGTGCAATGGTGATGGAAGATGGTGATG
1 TATAGGCGTGAAATGGTGATGGAAGATGGTGATG
*
357391 TATAGGCGTGAAAATGGTGATGAAAGATGGTGATG
1 TATAGGCGTG-AAATGGTGATGGAAGATGGTGATG
357426 TTATAGG
1 -TATAGG
357433 TAGTATCTTA
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
34 36 0.56
35 22 0.34
36 6 0.09
ACGTcount: A:0.32, C:0.04, G:0.36, T:0.28
Consensus pattern (34 bp):
TATAGGCGTGAAATGGTGATGGAAGATGGTGATG
Found at i:357420 original size:13 final size:13
Alignment explanation
Indices: 357369--357425 Score: 50
Period size: 13 Copynumber: 4.7 Consensus size: 13
357359 TGGGCGTGCA
*
357369 ATGGTGATGGAAG
1 ATGGTGATGAAAG
* *
357382 ATGGTGATG-TAT
1 ATGGTGATGAAAG
*
357394 A-GGCG-TGAAA-
1 ATGGTGATGAAAG
357404 ATGGTGATGAAAG
1 ATGGTGATGAAAG
357417 ATGGTGATG
1 ATGGTGATG
357426 TTATAGGTAG
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
10 3 0.09
11 7 0.20
12 7 0.20
13 18 0.51
ACGTcount: A:0.32, C:0.02, G:0.40, T:0.26
Consensus pattern (13 bp):
ATGGTGATGAAAG
Found at i:362741 original size:33 final size:33
Alignment explanation
Indices: 362701--362821 Score: 102
Period size: 33 Copynumber: 3.5 Consensus size: 33
362691 TTCATGCCAA
362701 TGCACCCATATGCATTATTCTTTATGCCGATAC
1 TGCACCCATATGCATTATTCTTTATGCCGATAC
* * *
362734 TGCACCCATAT-CATCAGCTATGGCATCCTTCATGCCAATAA
1 TGCACCCATATGCAT----TAT----T-CTTTATGCCGATAC
* *
362775 TGCACCCATATGCATTATTTTTTATGTCGATAC
1 TGCACCCATATGCATTATTCTTTATGCCGATAC
362808 TGC-CCCATATGCAT
1 TGCACCCATATGCAT
362822 ATCGGCTATG
Statistics
Matches: 70, Mismatches: 8, Indels: 21
0.71 0.08 0.21
Matches are distributed among these distances:
32 14 0.20
33 23 0.33
34 1 0.01
36 3 0.04
38 3 0.04
40 1 0.01
41 22 0.31
42 3 0.04
ACGTcount: A:0.26, C:0.28, G:0.12, T:0.34
Consensus pattern (33 bp):
TGCACCCATATGCATTATTCTTTATGCCGATAC
Found at i:362880 original size:34 final size:34
Alignment explanation
Indices: 362837--362953 Score: 108
Period size: 34 Copynumber: 3.1 Consensus size: 34
362827 CTATGGCATC
362837 CTTTCATGCCAATAATGCACCCATATGCATTATT
1 CTTTCATGCCAATAATGCACCCATATGCATTATT
* * *
362871 CTTTTATGCCGATACTGCACCCATATGCATATCAACTAT
1 CTTTCATGCCAATAATGCACCCATATGCAT-T--A-T-T
362910 GGCATCCCTTCATGCCAATAATGCACCCATATGCATTATT
1 --C-T---TTCATGCCAATAATGCACCCATATGCATTATT
362950 CTTT
1 CTTT
362954 TATTAATTTG
Statistics
Matches: 66, Mismatches: 6, Indels: 22
0.70 0.06 0.23
Matches are distributed among these distances:
34 29 0.44
35 1 0.02
37 2 0.03
38 2 0.03
39 1 0.02
40 1 0.02
41 2 0.03
42 2 0.03
44 1 0.02
45 25 0.38
ACGTcount: A:0.27, C:0.28, G:0.10, T:0.34
Consensus pattern (34 bp):
CTTTCATGCCAATAATGCACCCATATGCATTATT
Found at i:362924 original size:79 final size:79
Alignment explanation
Indices: 362646--362956 Score: 455
Period size: 79 Copynumber: 4.1 Consensus size: 79
362636 GTCTTATATA
* * ***
362646 TTTATGCC-AGTAATGCACCCATATGCATTTCAGCTATGGCATATTTTCATGCC---AATGCACC
1 TTTATGCCGA-TACTGCACCCATATGCATATCAGCTATGGCATCCCTTCATGCCAATAATGCACC
362707 CATATGCATTATTC-
65 CATATGCATTATTCT
362721 TTTATGCCGATACTGCACCCATAT-C--ATCAGCTATGGCAT-CCTTCATGCCAATAATGCACCC
1 TTTATGCCGATACTGCACCCATATGCATATCAGCTATGGCATCCCTTCATGCCAATAATGCACCC
362782 ATATGCATTATT-T
66 ATATGCATTATTCT
* * *
362795 TTTATGTCGATACTGC-CCCATATGCATATCGGCTATGGCATCCTTTCATGCCAATAATGCACCC
1 TTTATGCCGATACTGCACCCATATGCATATCAGCTATGGCATCCCTTCATGCCAATAATGCACCC
362859 ATATGCATTATTCT
66 ATATGCATTATTCT
*
362873 TTTATGCCGATACTGCACCCATATGCATATCAACTATGGCATCCCTTCATGCCAATAATGCACCC
1 TTTATGCCGATACTGCACCCATATGCATATCAGCTATGGCATCCCTTCATGCCAATAATGCACCC
362938 ATATGCATTATTCT
66 ATATGCATTATTCT
362952 TTTAT
1 TTTAT
362957 TAATTTGTTT
Statistics
Matches: 214, Mismatches: 11, Indels: 18
0.88 0.05 0.07
Matches are distributed among these distances:
71 8 0.04
72 13 0.06
73 7 0.03
74 38 0.18
75 21 0.10
76 14 0.07
77 33 0.15
78 16 0.07
79 64 0.30
ACGTcount: A:0.26, C:0.27, G:0.13, T:0.34
Consensus pattern (79 bp):
TTTATGCCGATACTGCACCCATATGCATATCAGCTATGGCATCCCTTCATGCCAATAATGCACCC
ATATGCATTATTCT
Found at i:362948 original size:156 final size:149
Alignment explanation
Indices: 362663--362956 Score: 464
Period size: 156 Copynumber: 1.9 Consensus size: 149
362653 CAGTAATGCA
* *
362663 CCCATATGCATTTCAGCTATGGCATATTTTCATGCCAATGCACCCATATGCATTATTCTTTATGC
1 CCCATATGCATATCAGCTATGGCATACTTTCATGCCAATGCACCCATATGCATTATTCTTTATGC
*
362728 CGATACTGCACCCATATCATCAGCTATGGCATCCTTCATGCCAATAATGCACCCATATGCATTAT
66 CGATACTGCACCCATATCATCAACTATGGCATCCTTCATGCCAATAATGCACCCATATGCATTAT
362793 T-TTTTATGTCGATACTGC
131 TCTTTTATGTCGATACTGC
* *
362811 CCCATATGCATATCGGCTATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTT
1 CCCATATGCATATCAGCTATGGCATACTTTCATGCC---AATGCACCCATATGCATTATTC-TTT
362876 ATGCCGATACTGCACCCATATGCATATCAACTATGGCATCCCTTCATGCCAATAATGCACCCATA
62 ATGCCGATACTGCACCCATAT-C--ATCAACTATGGCAT-CCTTCATGCCAATAATGCACCCATA
362941 TGCATTATTCTTTTAT
123 TGCATTATTCTTTTAT
362957 TAATTTGTTT
Statistics
Matches: 132, Mismatches: 5, Indels: 9
0.90 0.03 0.06
Matches are distributed among these distances:
148 32 0.24
151 22 0.17
152 24 0.18
153 1 0.01
155 13 0.10
156 34 0.26
157 6 0.05
ACGTcount: A:0.26, C:0.28, G:0.12, T:0.34
Consensus pattern (149 bp):
CCCATATGCATATCAGCTATGGCATACTTTCATGCCAATGCACCCATATGCATTATTCTTTATGC
CGATACTGCACCCATATCATCAACTATGGCATCCTTCATGCCAATAATGCACCCATATGCATTAT
TCTTTTATGTCGATACTGC
Found at i:363410 original size:20 final size:22
Alignment explanation
Indices: 363367--363413 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
363357 CTACTACCAG
*
363367 GTATCGATACTTCAATATTATT
1 GTATCGATACTTCAATACTATT
363389 GTATCGATACTTC-A-ACTATT
1 GTATCGATACTTCAATACTATT
363409 GTATC
1 GTATC
363414 TACTTCCTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 10 0.42
21 1 0.04
22 13 0.54
ACGTcount: A:0.30, C:0.17, G:0.11, T:0.43
Consensus pattern (22 bp):
GTATCGATACTTCAATACTATT
Found at i:366063 original size:15 final size:16
Alignment explanation
Indices: 366043--366072 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
366033 TGTTACGTTT
366043 TTATTTTA-TTATTTG
1 TTATTTTATTTATTTG
366058 TTATTTTATTTATTT
1 TTATTTTATTTATTT
366073 AAATTTATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.77
Consensus pattern (16 bp):
TTATTTTATTTATTTG
Found at i:372688 original size:32 final size:32
Alignment explanation
Indices: 372642--372703 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
372632 CGACGTTCCT
*
372642 ATGCATTATTTGAATGCAACACTAACTCTGCC
1 ATGCATTATCTGAATGCAACACTAACTCTGCC
* * *
372674 ATGCATTATCTGAATGGAATACTGACTCTG
1 ATGCATTATCTGAATGCAACACTAACTCTG
372704 TTGTGACTCA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Consensus pattern (32 bp):
ATGCATTATCTGAATGCAACACTAACTCTGCC
Found at i:378859 original size:16 final size:16
Alignment explanation
Indices: 378840--378871 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
378830 TGATGACATC
*
378840 CTAGTTGTTACTGTTT
1 CTAGATGTTACTGTTT
378856 CTAGATGTTACTGTTT
1 CTAGATGTTACTGTTT
378872 TATTATTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.16, C:0.12, G:0.19, T:0.53
Consensus pattern (16 bp):
CTAGATGTTACTGTTT
Found at i:380800 original size:17 final size:17
Alignment explanation
Indices: 380780--380813 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
380770 AAGGGAAGTT
*
380780 GTTAACCAGCTGTTATA
1 GTTAACCAGCTGATATA
*
380797 GTTAATCAGCTGATATA
1 GTTAACCAGCTGATATA
380814 AATGAGCTAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (17 bp):
GTTAACCAGCTGATATA
Found at i:381074 original size:14 final size:14
Alignment explanation
Indices: 381057--381120 Score: 58
Period size: 15 Copynumber: 4.3 Consensus size: 14
381047 CCGGTTCTTT
381057 TATTTTTATTTATC
1 TATTTTTATTTATC
381071 TATTTTATTTTATTTATC
1 TA---T-TTTTATTTATC
* *
381089 TATTTTGATTTAATT
1 TATTTTTATTT-ATC
381104 TATTTTTATTTAT-
1 TATTTTTATTTATC
381117 TATT
1 TATT
381121 ATTAATATTA
Statistics
Matches: 42, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
13 4 0.10
14 11 0.26
15 13 0.31
17 1 0.02
18 13 0.31
ACGTcount: A:0.23, C:0.03, G:0.02, T:0.72
Consensus pattern (14 bp):
TATTTTTATTTATC
Found at i:381081 original size:18 final size:18
Alignment explanation
Indices: 381054--381106 Score: 79
Period size: 18 Copynumber: 2.8 Consensus size: 18
381044 TACCCGGTTC
381054 TTTTATTTTTATTTATCTA
1 TTTTA-TTTTATTTATCTA
381073 TTTTATTTTATTTATCTA
1 TTTTATTTTATTTATCTA
*
381091 TTTTGATTTAATTTAT
1 TTTT-ATTTTATTTAT
381107 TTTTATTTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
18 17 0.53
19 15 0.47
ACGTcount: A:0.23, C:0.04, G:0.02, T:0.72
Consensus pattern (18 bp):
TTTTATTTTATTTATCTA
Found at i:394345 original size:47 final size:49
Alignment explanation
Indices: 394235--394351 Score: 143
Period size: 47 Copynumber: 2.4 Consensus size: 49
394225 CCTTTTATCT
394235 CATAAGCTCATAAGCTTA--TTTTTACCAAAATACTTACCATTTAAAATTC
1 CATAAGCTCATAAGCTTATTTTTTTACCAAAATACTTACCATTT--AATTC
* * * *
394284 CATAAGCTCGTAAGCTTATTTTTTTTCCAATATACTTGCCA-TT-ATTC
1 CATAAGCTCATAAGCTTATTTTTTTACCAAAATACTTACCATTTAATTC
*
394331 CGTAAGCTCATAAGCTTATTT
1 CATAAGCTCATAAGCTTATTT
394352 GCATGTTTAC
Statistics
Matches: 60, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
47 23 0.38
49 17 0.28
50 2 0.03
51 18 0.30
ACGTcount: A:0.32, C:0.21, G:0.08, T:0.40
Consensus pattern (49 bp):
CATAAGCTCATAAGCTTATTTTTTTACCAAAATACTTACCATTTAATTC
Found at i:399284 original size:541 final size:541
Alignment explanation
Indices: 394647--399648 Score: 8528
Period size: 540 Copynumber: 9.3 Consensus size: 541
394637 ATGGCATGCC
* * * * * *
394647 AACTATTCAGTTACAAGATAAAAATTATTTTTTGGAAAATAGCATTTTGGTCCCTAAACATTTCC
1 AACTATTCAATTACAAGATAAAATTTCTTTTTGGGAAAATAGCATTTTGGTCCTTAAACTTTTCC
* * * * * * **
394712 TCATTTTATACTTTGGCCACTAAACTTTTAATTTATTCATTTTGGTCACTAGCATTTGTCATCTT
66 TAAGTTTATACTTTGGCCACTAAACTTTCAATATATTTATTTGGGTCACTAAAATTTGTCATCTT
* *
394777 TTTCTTAAAATGAATTAAAAATTCATTTTAATGCTAAATGACCATGTTTCCCTTGTAATCACATG
131 TTTATTAAAATGAATTAAAAATTCATTTTAATGCTAAATGACCATGTTTGCCTTGTAATCACATG
* * * *
394842 CTTCATAACTTGCCACATGTCAATTTGTTCATTCAAAAGTAAAAAACGAACCAACAAATTGATAA
196 CTTCATAACTTTCCACATGTCAATTTGTTCATCCAAAAGTAAAAAATGAACCAACAAATTGATAG
* * * *
394907 TTACCAGTTTCTTCCTTGTAATTTTCCAGAATTAAAATCTTGTCATTTTTCATCCAACGACATAT
261 TTACCAGTTTCTTCCATGTAATTTTCCAAAATTATAATCTTGTCATTTTTCATCCAACGACCTAT
* *
394972 ATTTAACATGGAAAATTACCTTAAATCCAATAGTCCATGTTAAATTCTACCATTTTAAATCATGG
326 ATTTAACATGGAAAATCAACTTAAATCCAATAGTCCATGTTAAATTCTACCATTTTAAATCATGG
*
395037 AAATGACATTATTAGCATTGCCTTATCATCCTTAAAAATATCTCAAAAATC-----TGATTTGAT
391 AAATGACATTATTAGCATTGCCTTATCATCCTTCAAAATATCTCAAAAATCTGATTTGATTTGAT
* * *
395097 TATCCAAATTTTTATTAAATTTTATAGCTTTATAGCCACTAATACAAGTATGAAAAATCCAATTG
456 TATCCGAATTTTTCTTAAATTTTATAGCTTTATAGCCACTAATACAAGTATGAAAAATCAAATTG
395162 ACTTGAAAATTCTTGGTGGCA
521 ACTTGAAAATTCTTGGTGGCA
395183 AACTATTCAATTACAAGATAAAATTTCTTTTTGGGAAAATAGCATTTTGGTCCTTAAACTTTTCC
1 AACTATTCAATTACAAGATAAAATTTCTTTTTGGGAAAATAGCATTTTGGTCCTTAAACTTTTCC
*
395248 TAAGTTTATACTTTGGACACTAAACTTTCAATATATTTATTTGGGTCACTAAAATTTGTCATCTT
66 TAAGTTTATACTTTGGCCACTAAACTTTCAATATATTTATTTGGGTCACTAAAATTTGTCATCTT
395313 TTTATTAAAATGAATTAAAAATTCATTTTAATGCTAAATGACCATGTTTGCCTTGTAATCACATG
131 TTTATTAAAATGAATTAAAAATTCATTTTAATGCTAAATGACCATGTTTGCCTTGTAATCACATG
*
395378 CTTCATAACTTTCCACATGTCAATTTGTTCATCCAAAAGTAAAAAATGAACCAAAAAATTGATAG
196 CTTCATAACTTTCCACATGTCAATTTGTTCATCCAAAAGTAAAAAATGAACCAACAAATTGATAG
* * *
395443 TTACCAGTTTCTTCCATGTAATTTTCCAAAATTATAATCTTCTCATTTTTCATCCAATGAGCTAT
261 TTACCAGTTTCTTCCATGTAATTTTCCAAAATTATAATCTTGTCATTTTTCATCCAACGACCTAT
*
395508 ATTTAACATGGAAAATCAACTTAAATCCAATAGTCCATGCTAAATTCTACCATTTTAAATCATGG
326 ATTTAACATGGAAAATCAACTTAAATCCAATAGTCCATGTTAAATTCTACCATTTTAAATCATGG
*
395573 AAATGACATTACTAGCATTGCCTTATCATCCTTCAAAATATCTCAAAAATCTGATTTGATTTGAT
391 AAATGACATTATTAGCATTGCCTTATCATCCTTCAAAATATCTCAAAAATCTGATTTGATTTGAT
395638 TATCCGAATTTTTCTTAAATTTTATAGCTTTATAGCCACTAATACAAGTATGAAAAA--AAATTT
456 TATCCGAATTTTTCTTAAATTTTATAGCTTTATAGCCACTAATACAAGTATGAAAAATCAAA-TT
*
395701 GACATGAAAATTCTTGGTGGCA
520 GACTTGAAAATTCTTGGTGGCA
* *
395723 AACTATTCAATTACAAGATATAATTTCTTTTTGAGAAAATAGCATTTTGGTCCTTAAACTTTTCC
1 AACTATTCAATTACAAGATAAAATTTCTTTTTGGGAAAATAGCATTTTGGTCCTTAAACTTTTCC
395788 TAAGTTTATACTTTGGCCACTAAACTTTCAATATATTTATTTGGGTCACTAAAATTTGTCATCTT
66 TAAGTTTATACTTTGGCCACTAAACTTTCAATATATTTATTTGGGTCACTAAAATTTGTCATCTT
*
395853 TTTGTTAAAATGAATTAAAAATTCATTTTAATGCTAAATGACCATGTTTGCCTTGTAATCACATG
131 TTTATTAAAATGAATTAAAAATTCATTTTAATGCTAAATGACCATGTTTGCCTTGTAATCACATG
395918 CTTCATAACTTTCCACATGTCAATTTGTTCATCCAAAAGTAAAAAATGAACCAACAAATTGATAG
196 CTTCATAACTTTCCACATGTCAATTTGTTCATCCAAAAGTAAAAAATGAACCAACAAATTGATAG
395983 TTACCAGTTTCTTCCATGTAATTTTCCAAAATTATAATCTTGTCATTTTTCATCCAACGACCTAT
261 TTACCAGTTTCTTCCATGTAATTTTCCAAAATTATAATCTTGTCATTTTTCATCCAACGACCTAT
396048 ATTTAACATGGAAAATCAACTTAAATCCAATAGTCCATGTTAAATTCTACCATTTTAAATCATGG
326 ATTTAACATGGAAAATCAACTTAAATCCAATAGTCCATGTTAAATTCTACCATTTTAAATCATGG
*
396113 AAATGACATTATTAGCATTGCCTTATCATCCTTCAAAATATCTAAAAAATCTGATTTGATTTGAT
391 AAATGACATTATTAGCATTGCCTTATCATCCTTCAAAATATCTCAAAAATCTGATTTGATTTGAT
*
396178 TATCCGAATTTTTATTAAATTTTATAGCTTTATAGCCACTAATACAAGTATGAAAAATCAAATTG
456 TATCCGAATTTTTCTTAAATTTTATAGCTTTATAGCCACTAATACAAGTATGAAAAATCAAATTG
* *
396243 AATTGAATATTCTTGGTGGCA
521 ACTTGAAAATTCTTGGTGGCA
*
396264 AACTATTCAATTACAAGATAAAATTTCTTTTTTGAGAAAATAGCATTTTGGTCCTTAAACTTTTC
1 AACTATTCAATTACAAGATAAAATTTC-TTTTTGGGAAAATAGCATTTTGGTCCTTAAACTTTTC
*
396329 CTAAGTTTATACTTTGGACACTAAACTTTCAATATATTTATTTGGGTCACTAAAATTTGTCATCT
65 CTAAGTTTATACTTTGGCCACTAAACTTTCAATATATTTATTTGGGTCACTAAAATTTGTCATCT
396394 TTTTATTAAAA-GAATTAAAAATTCA-TTTAATGCTAAATGACCATGTTTGCCTTGTAATCACAT
130 TTTTATTAAAATGAATTAAAAATTCATTTTAATGCTAAATGACCATGTTTGCCTTGTAATCACAT
*
396457 GCTTCATAACTTTCCACATGTCAATTTGTTCATCCAAAAGTAAAAAAAGAACCAACAAATTGATA
195 GCTTCATAACTTTCCACATGTCAATTTGTTCATCCAAAAGTAAAAAATGAACCAACAAATTGATA
396522 GTTACCAGTTTCTTCCATGTAATTTTCCAAAATTATAATCTTGTCATTTTTCATCCAACGACCTA
260 GTTACCAGTTTCTTCCATGTAATTTTCCAAAATTATAATCTTGTCATTTTTCATCCAACGACCTA
*
396587 TATTTAACATGGAAAATCAACTTAAATCCAATAGTCCATGCTAAATTCTACCATTTTAAATCATG
325 TATTTAACATGGAAAATCAACTTAAATCCAATAGTCCATGTTAAATTCTACCATTTTAAATCATG
*
396652 GAAATGACATTATTAGCATTGCCTTATCATCCTTCAAAATATCTCAAAAATCTGATTTGATTTAA
390 GAAATGACATTATTAGCATTGCCTTATCATCCTTCAAAATATCTCAAAAATCTGATTTGATTTGA
*
396717 TTATCCGAATTTTTCTTAAATTTTATAGCTTTATAGCCACTAATACAAGTATGAAAAAATAAAAT
455 TTATCCGAATTTTTCTTAAATTTTATAGCTTTATAGCCACTAATACAAGTATG-AAAAATCAAAT
*
396782 TGACATGAAAATTCTTGGTGGCA
519 TGACTTGAAAATTCTTGGTGGCA
*
396805 AACTATTCAATTACAAGATAAAATTTCTTTTAGGGAAAATAGCATTTTGGTCCTTAAACTTTTCC
1 AACTATTCAATTACAAGATAAAATTTCTTTTTGGGAAAATAGCATTTTGGTCCTTAAACTTTTCC
396870 TAAGTTTATACTTTGGCCACTAAACTTTCAATATATTTATTTGGGTCACTAAAATTTGTCATCTT
66 TAAGTTTATACTTTGGCCACTAAACTTTCAATATATTTATTTGGGTCACTAAAATTTGTCATCTT
* * *
396935 TTTGTTAAAATGAATTAAAAATTCATTTTAATGGTAAATGACCATGTTTTCCTTGTAATCACATG
131 TTTATTAAAATGAATTAAAAATTCATTTTAATGCTAAATGACCATGTTTGCCTTGTAATCACATG
*
397000 CTTTATAACTTTCCACATGTCAATTTGTTCATCCAAAAGTAAAAAATGAACCAACAAATTGATAG
196 CTTCATAACTTTCCACATGTCAATTTGTTCATCCAAAAGTAAAAAATGAACCAACAAATTGATAG
* *
397065 TTACCAGTTTCTTCCATGTAATTTTCCAAAATTATAATCTTGTCAATTTTCATCCAATGACCTAT
261 TTACCAGTTTCTTCCATGTAATTTTCCAAAATTATAATCTTGTCATTTTTCATCCAACGACCTAT
397130 ATTTAACATGGAAAATCAACTTAAATCCAATAGTCCATGTTAAATTCTACCATTTTAAATCATGG
326 ATTTAACATGGAAAATCAACTTAAATCCAATAGTCCATGTTAAATTCTACCATTTTAAATCATGG
397195 AAATGACATTATTAGCATTGCCTTATCATCCTTCAAAATATCTCAAAAATCTGATTTGATTTGAT
391 AAATGACATTATTAGCATTGCCTTATCATCCTTCAAAATATCTCAAAAATCTGATTTGATTTGAT
* * *
397260 TATCCGAATTTTTATTAAATTTTATAGCTTTATAGCCACTAATACAAGTATGAAAATTCCAATTG
456 TATCCGAATTTTTCTTAAATTTTATAGCTTTATAGCCACTAATACAAGTATGAAAAATCAAATTG
397325 ACTTGAAAATTCTTGGTGGCA
521 ACTTGAAAATTCTTGGTGGCA
397346 AACTATTCAATTACAAGATAAAATTTC-TTTTGGGAAAATAGCATTTTGGTCCTTAAACTTTTCC
1 AACTATTCAATTACAAGATAAAATTTCTTTTTGGGAAAATAGCATTTTGGTCCTTAAACTTTTCC
*
397410 TAAGTTTATACTTTGGACACTAAACTTTCAATATATTTATTTGGGTCACTAAAATTTGTCATCTT
66 TAAGTTTATACTTTGGCCACTAAACTTTCAATATATTTATTTGGGTCACTAAAATTTGTCATCTT
* *
397475 TTTATTAAAATGAATTAAAAATTCATTTTAATGCTAAACGACCATGTTTGGCTTGTAATCACATG
131 TTTATTAAAATGAATTAAAAATTCATTTTAATGCTAAATGACCATGTTTGCCTTGTAATCACATG
*
397540 CTTCATAACTTTCCACATGTCAATTTGTTCATCCAAAAGTAAAAAATGAACCAACAAATTAATAG
196 CTTCATAACTTTCCACATGTCAATTTGTTCATCCAAAAGTAAAAAATGAACCAACAAATTGATAG
* *
397605 TTACCAGTTTCTTCCATGTAATTTTCAAAAATTATAATCTTGTGA-TTTTCATCCAACGACCTAT
261 TTACCAGTTTCTTCCATGTAATTTTCCAAAATTATAATCTTGTCATTTTTCATCCAACGACCTAT
* *
397669 ATTTAACATGGAAAATCAACTTAAATCCAATATTCCATGCTAAATTCTACCATTTTAAATCATGG
326 ATTTAACATGGAAAATCAACTTAAATCCAATAGTCCATGTTAAATTCTACCATTTTAAATCATGG
** * *
397734 AAATGACAAAATTAGCATTGCCTTATCATCCTTCAAAATATCTCAAAAATATGATTTGATTGGAT
391 AAATGACATTATTAGCATTGCCTTATCATCCTTCAAAATATCTCAAAAATCTGATTTGATTTGAT
*
397799 TATCCGAATTTTTCTTAAATTTTATAGCTTTATAGCCACTAATACAAGTATGAAAAATAAAATTG
456 TATCCGAATTTTTCTTAAATTTTATAGCTTTATAGCCACTAATACAAGTATGAAAAATCAAATTG
*
397864 ACATGAAAATTCTTGGTGGCA
521 ACTTGAAAATTCTTGGTGGCA
* * *
397885 AACTATTCAAGTACAAGATAAAATTTCTTTTTGGGAAAATAGCATTTTGTTCCTTAAACGTTTCC
1 AACTATTCAATTACAAGATAAAATTTCTTTTTGGGAAAATAGCATTTTGGTCCTTAAACTTTTCC
* *
397950 TAAGTTTATACTTTGGCCATTAAACTTTCAATTTATTTATTTGGGTCACTAAAATTTGTCATCTT
66 TAAGTTTATACTTTGGCCACTAAACTTTCAATATATTTATTTGGGTCACTAAAATTTGTCATCTT
*
398015 TTTATTAAAATGAATTAAAAATTCATTTTAATGCTAAATGACCATGTTTGGCTTGTAATCACATG
131 TTTATTAAAATGAATTAAAAATTCATTTTAATGCTAAATGACCATGTTTGCCTTGTAATCACATG
* *
398080 CTTCATAACTTTCCACATGTCAATTTGTTCATCCAAAAGTAAAAAATGAAACAACAAATTAATAG
196 CTTCATAACTTTCCACATGTCAATTTGTTCATCCAAAAGTAAAAAATGAACCAACAAATTGATAG
398145 TTACCAGTTTCTTCCATGTAATTTTCCAAAATTATAATCTTGTCATTTTTCATCCAACGACCTAT
261 TTACCAGTTTCTTCCATGTAATTTTCCAAAATTATAATCTTGTCATTTTTCATCCAACGACCTAT
* * *
398210 ATTTAACAAGGAAAATCAACTTAAATCCAATAGACCAGGTTAAATTCTACCATTTTAAATCATGG
326 ATTTAACATGGAAAATCAACTTAAATCCAATAGTCCATGTTAAATTCTACCATTTTAAATCATGG
* * * *
398275 AAATGACATTATTAGCATTG-CTTATAATACTTCAAAATATCTCAAAAATTTTATTTGATTTGAT
391 AAATGACATTATTAGCATTGCCTTATCATCCTTCAAAATATCTCAAAAATCTGATTTGATTTGAT
* * * *
398339 TATTCGAATTTTTCTTAAATTTTATAGCTTTATAGCCATTAATACAAGTATGAAAAATCCAACTG
456 TATCCGAATTTTTCTTAAATTTTATAGCTTTATAGCCACTAATACAAGTATGAAAAATCAAATTG
* * *
398404 GCTTAAAAATTCTTGGTGGGA
521 ACTTGAAAATTCTTGGTGGCA
*
398425 AACTATTCAATTACAAGATAAAATTTGTTTTTGGGAAAATAGCATTTTGGTCCTTAAACGTTTTC
1 AACTATTCAATTACAAGATAAAATTTCTTTTTGGGAAAATAGCATTTTGGTCCTTAAAC-TTTTC
398490 CTAAGTTTATACTTTGGCCACTAAACTTTCAATATATTTATTTGGGTCACTAAAA-TT-TCATCT
65 CTAAGTTTATACTTTGGCCACTAAACTTTCAATATATTTATTTGGGTCACTAAAATTTGTCATCT
* * * *
398553 TTTTATTAAAATGATTTAAATATTCATTTTAATGCTAAATGACCATGTTTCCCTTTTAATCACAT
130 TTTTATTAAAATGAATTAAAAATTCATTTTAATGCTAAATGACCATGTTTGCCTTGTAATCACAT
* * * *
398618 GCTTCATAACTTGCCACATGTCAATTTCTTCATTCAAAAGTAAAAAATGAATCAACAAATTGATA
195 GCTTCATAACTTTCCACATGTCAATTTGTTCATCCAAAAGTAAAAAATGAACCAACAAATTGATA
* * * *
398683 GTTACCAGTTTCTTCCTTGTAATTTTCCAGAATTACAATCTTGTCATTTTTCAGCCAACGACCTA
260 GTTACCAGTTTCTTCCATGTAATTTTCCAAAATTATAATCTTGTCATTTTTCATCCAACGACCTA
* *
398748 TACTTAACATGGAAAATCAACTTAAATCCAATAGTCCACGTTAAATTCTACCATTTTAAATCATG
325 TATTTAACATGGAAAATCAACTTAAATCCAATAGTCCATGTTAAATTCTACCATTTTAAATCATG
* *
398813 GAAATGACATTATTAGCATTGCATTATCATCCTTCAAAATATCT-AAGAAATTTGATTTGATTTG
390 GAAATGACATTATTAGCATTGCCTTATCATCCTTCAAAATATCTCAA-AAATCTGATTTGATTTG
* * *
398877 ATTATCCGAATTTTTCTTAACTTTTATAGCTTTATAGCCACTAATACAAGTATGAAAAATCCAAC
454 ATTATCCGAATTTTTCTTAAATTTTATAGCTTTATAGCCACTAATACAAGTATGAAAAATCAAAT
398942 TGACTTGAAAATTCTTGGTGGCA
519 TGACTTGAAAATTCTTGGTGGCA
* *
398965 AACTATTTAATTACAAGATAAAATTTCTTTTTGGGAAAATAGCATTTTGGTCCTTCAACTTTTCC
1 AACTATTCAATTACAAGATAAAATTTCTTTTTGGGAAAATAGCATTTTGGTCCTTAAACTTTTCC
*
399030 TAAGTTTATACTTTAGCCACTAAACTTTCAATATATTTATTTGGGTCACTAAAATTTGTCATCTT
66 TAAGTTTATACTTTGGCCACTAAACTTTCAATATATTTATTTGGGTCACTAAAATTTGTCATCTT
*
399095 TTTATTAGAATGAATTAAAAATTCATTTTAATGCTAAATGACCATGTTTGCCTTGTAATCACATG
131 TTTATTAAAATGAATTAAAAATTCATTTTAATGCTAAATGACCATGTTTGCCTTGTAATCACATG
*
399160 CTTAATAACTTTCCACATGTCAATTTGTTCATCCAAAAGTAAAAAATGAACCAACAAATTGATAG
196 CTTCATAACTTTCCACATGTCAATTTGTTCATCCAAAAGTAAAAAATGAACCAACAAATTGATAG
399225 TTACCAGTTTCTTCCATGTAATTTTCCAAAATTATAATCTTGTCATTTTTCATCCAACGACCTAT
261 TTACCAGTTTCTTCCATGTAATTTTCCAAAATTATAATCTTGTCATTTTTCATCCAACGACCTAT
**
399290 ATTTAACATGGAAAATCAACTTAAATATAATAGTCCATGTTAAATTCTACCATTTTAAATCATGG
326 ATTTAACATGGAAAATCAACTTAAATCCAATAGTCCATGTTAAATTCTACCATTTTAAATCATGG
* *
399355 AAATAACATTATTAGCGTTGCCTTATCATCCTTCAAAATATCTCAAAAATCTGATTTGATTTGAT
391 AAATGACATTATTAGCATTGCCTTATCATCCTTCAAAATATCTCAAAAATCTGATTTGATTTGAT
* * *
399420 TATCCAAATTTTTCTTAAATTTTATAGCTTTATAGCCAATAATACAAGTATG-AAAATCGAATTG
456 TATCCGAATTTTTCTTAAATTTTATAGCTTTATAGCCACTAATACAAGTATGAAAAATCAAATTG
*
399484 ACTTGAAGAATT-TTGGTGGTA
521 ACTTGAA-AATTCTTGGTGGCA
* * * * * * *
399505 AATTATACAATTACAGGTTAAAATTTATTTTTTGAGAAAATAGCATTTTGGTCAC-TAAACGTTT
1 AACTATTCAATTACAAGATAAAATTT-CTTTTTGGGAAAATAGCATTTTGGTC-CTTAAACTTTT
* * **
399569 CCTAAGTTTATACTTTGGCCACTAAACTTTCAATTTATTTATTTTGGTCACTAGCATTTGTCATC
64 CCTAAGTTTATACTTTGGCCACTAAACTTTCAATATATTTATTTGGGTCACTAAAATTTGTCATC
399634 TTTTTATTAAAATGA
129 TTTTTATTAAAATGA
399649 CCATGATTCC
Statistics
Matches: 4226, Mismatches: 217, Indels: 41
0.94 0.05 0.01
Matches are distributed among these distances:
536 407 0.10
539 581 0.14
540 1907 0.45
541 872 0.21
542 459 0.11
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.38
Consensus pattern (541 bp):
AACTATTCAATTACAAGATAAAATTTCTTTTTGGGAAAATAGCATTTTGGTCCTTAAACTTTTCC
TAAGTTTATACTTTGGCCACTAAACTTTCAATATATTTATTTGGGTCACTAAAATTTGTCATCTT
TTTATTAAAATGAATTAAAAATTCATTTTAATGCTAAATGACCATGTTTGCCTTGTAATCACATG
CTTCATAACTTTCCACATGTCAATTTGTTCATCCAAAAGTAAAAAATGAACCAACAAATTGATAG
TTACCAGTTTCTTCCATGTAATTTTCCAAAATTATAATCTTGTCATTTTTCATCCAACGACCTAT
ATTTAACATGGAAAATCAACTTAAATCCAATAGTCCATGTTAAATTCTACCATTTTAAATCATGG
AAATGACATTATTAGCATTGCCTTATCATCCTTCAAAATATCTCAAAAATCTGATTTGATTTGAT
TATCCGAATTTTTCTTAAATTTTATAGCTTTATAGCCACTAATACAAGTATGAAAAATCAAATTG
ACTTGAAAATTCTTGGTGGCA
Found at i:402150 original size:538 final size:541
Alignment explanation
Indices: 399643--405985 Score: 9729
Period size: 541 Copynumber: 11.9 Consensus size: 541
399633 CTTTTTATTA
* *
399643 AAATGACCATGATTCCCTT-TCAATCACATGCTTAATAACTTTCCACATGTCAATTTGTTCATCC
1 AAATGACCATGTTTCCCTTGT-AATCACATGCTTCATAACTTTCCACATGTCAATTTGTTCATCC
* * * *
399707 AAAAGTAAAAAATGAACCAACAAATTGATAGTTAGCAATTTCTTCCTTGTAATTTTCAAAAATTA
65 AAAAGTAAAAAATGAACCAACAAATTGATAATTACCAGTTTCTTCCTTGTAATTTTCCAAAATTA
399772 CAATCTTGTCATTTTTCATCCAACGACCTATATTTAACATGGAAAATCAACTTAAATCCAATAGT
130 CAATCTTGTCATTTTTCATCCAACGACCTATATTTAACATGGAAAATCAACTTAAATCCAATAGT
* * *
399837 CCATGTTAAATTCTACCATTTTAAATCATGGAAATTATATTGTTAGCATTGCCTTATCATCCTTC
195 CCATGTTAAATTCTACCATTTTAAATCATGGAAATGACATTATTAGCATTGCCTTATCATCCTTC
*
399902 AAAATATATCAAAAATCTGATTTGATTTGATTATCCGAATTTTTCTTAAATTTTATAGCTTTATA
260 AAAATATCTCAAAAATCTGATTTGATTTGATTATCCGAATTTTTCTTAAATTTTATAGCTTTATA
* * * * *
399967 TCTATTAATACAAGTATAGAAAATCTAAGTGACTTGAAAACTCTTGGTGGTAAACTATTCAGTTA
325 GCCATTAATACAAGTAT-GAAAATCCAACTGACTTGAAAACTCTTGGTGGTAAACTATTCAATTA
* ** * *
400032 CA-GTATAAAATTT-CTTTTTGGGAAAATAGCATTTTGGTCCCTAAACAGTTCCTCATTTTATAC
389 CATG-ATAAAATTTATTTTTTGGGAAAATAGCATTTTGGTCCCTAAACTTTTCCTAAGTTTATAC
* * * *
400095 TTTGGCCACTAAACTTTTAATTTATTCATTTTGGTCAGTAGCATTTGTCATCTTTTTCTTAAAAT
453 TTTGGCCACTAAACTTTCAATTTATTTATTTTGGTCACTAGCATTTGTCATCTTTTTATTAAAAT
400160 GAATTAAAAATTCA-TTTAATGCT
518 GAATTAAAAATTCATTTTAATGCT
* * *
400183 AAATGAACATGTTTCCCTTGTAATCACATGCTTCATAACTTGCCACATGTCAATTTGTTCATTCA
1 AAATGACCATGTTTCCCTTGTAATCACATGCTTCATAACTTTCCACATGTCAATTTGTTCATCCA
** *
400248 AAAGTAAAAAACAAACCAACAAATTGATAATTACCAGTTTCTTCCTTGTAATTTTCCAGAATTAC
66 AAAGTAAAAAATGAACCAACAAATTGATAATTACCAGTTTCTTCCTTGTAATTTTCCAAAATTAC
* * *
400313 AATATTTTCATTTTTCATCCAACGACCTATATTTAACATGGAAAATCAACTTAAATCTAATAGTC
131 AATCTTGTCATTTTTCATCCAACGACCTATATTTAACATGGAAAATCAACTTAAATCCAATAGTC
* * * *
400378 CATGTTAAATTCTACCATTTTAAATCGTGGAAATAACATTATTAGCACTGCCTTATCATCCTTTA
196 CATGTTAAATTCTACCATTTTAAATCATGGAAATGACATTATTAGCATTGCCTTATCATCCTTCA
*
400443 AAATATCTCAAAAATCTGATTTGATTTGATTATCCGATTTTTTTCTTAAATTTTATAGCTTTATA
261 AAATATCTCAAAAATCTGATTTGATTTGATTATCCGA-ATTTTTCTTAAATTTTATAGCTTTATA
* * *
400508 GCCAATAATACAAGTATGAAAATCCAACTGGCTTGAAAACTCTTGGTGGTAAACTATTCAATTAT
325 GCCATTAATACAAGTATGAAAATCCAACTGACTTGAAAACTCTTGGTGGTAAACTATTCAATTAC
* * *
400573 AGGATAAAATTTATTTTTTGGGAAAATAACATTTTGGTCCTTAAACTTTTCCTAAGTTTATA-TT
390 ATGATAAAATTTATTTTTTGGGAAAATAGCATTTTGGTCCCTAAACTTTTCCTAAGTTTATACTT
* * *
400637 ATTGCCACTAAACTTTCAATTTATTTATTTTGGTCACTAGTATTTCTCATCTTTTTATTAAAATG
455 -TGGCCACTAAACTTTCAATTTATTTATTTTGGTCACTAGCATTTGTCATCTTTTTATTAAAATG
*
400702 AATTAAAAATTGATTTTAATGCT
519 AATTAAAAATTCATTTTAATGCT
* *
400725 AAATGACCATGTTTCCCTTGTAATCACATGCTTCATAACTTGCCACATGTCAATTTGTTCATTCA
1 AAATGACCATGTTTCCCTTGTAATCACATGCTTCATAACTTTCCACATGTCAATTTGTTCATCCA
* *
400790 AAAGTAAAAAACGAACCAACAAATTGATAATTACCAGTTTCTTCCTTGTAATTTTCCAGAATTAC
66 AAAGTAAAAAATGAACCAACAAATTGATAATTACCAGTTTCTTCCTTGTAATTTTCCAAAATTAC
400855 AATCTTGTCATTTTTCATCCAACGACCTATATTTAACATGGAAAATCAACTTAAATCCAATAGTC
131 AATCTTGTCATTTTTCATCCAACGACCTATATTTAACATGGAAAATCAACTTAAATCCAATAGTC
400920 CATGTTAAATTCTACCATTTTAAATCATGGAAATGACATTATTAGCATTGCCTTATCATCCTTCA
196 CATGTTAAATTCTACCATTTTAAATCATGGAAATGACATTATTAGCATTGCCTTATCATCCTTCA
* *
400985 AAATATCTCAAAATTTTGATTTGATTTGATTATCCGAATTTTTCTTAAATTTTATAGCTTTATAG
261 AAATATCTCAAAAATCTGATTTGATTTGATTATCCGAATTTTTCTTAAATTTTATAGCTTTATAG
* * * * *
401050 CCACTAATACAAGTATGAAAAAATCCAACTGACTTTAAAATTC-TGGTGGCATACTATTCAATTA
326 CCATTAATACAAGTATG--AAAATCCAACTGACTTGAAAACTCTTGGTGGTAAACTATTCAATTA
* * * * *
401114 AAAGATAAAATTT-CTTTTTGGGAAAATAGCATTTTGGTCCTTAAACATTTCCTAAGTTTATACT
389 CATGATAAAATTTATTTTTTGGGAAAATAGCATTTTGGTCCCTAAACTTTTCCTAAGTTTATACT
* * **
401178 TTGGCCACTAAACTTTCAATATATTTATTTGGGTCACTAAAATTTGTCATCTTTTTATTAAAATG
454 TTGGCCACTAAACTTTCAATTTATTTATTTTGGTCACTAGCATTTGTCATCTTTTTATTAAAATG
401243 AATTAAAAATTCATTTTAATGCT
519 AATTAAAAATTCATTTTAATGCT
* * * *
401266 AAATGACCATGTTTGCCTTGTAATTACATGCTTAATAACTTTCCACATTTCAATTTGTTCATCCA
1 AAATGACCATGTTTCCCTTGTAATCACATGCTTCATAACTTTCCACATGTCAATTTGTTCATCCA
* * *
401331 AAAGTAAAAAAATGAACCAACAAATTGATAGTTACCAGTTTCTTCCATGTAATTTTACAAAATTA
66 AAAGT-AAAAAATGAACCAACAAATTGATAATTACCAGTTTCTTCCTTGTAATTTTCCAAAATTA
* * * *
401396 TAATCTTTTCAATTTTCATCCAACGACCTATATTTAACATGGAAAATCAACTTAAATCTAATAGT
130 CAATCTTGTCATTTTTCATCCAACGACCTATATTTAACATGGAAAATCAACTTAAATCCAATAGT
* * *
401461 CCATGTTAAATTCTACCATTTTAAATCATGGAAATAACATTATTAGCACTGCCTTATCATCCTTT
195 CCATGTTAAATTCTACCATTTTAAATCATGGAAATGACATTATTAGCATTGCCTTATCATCCTTC
401526 AAAATATCTCAAAAATCTGATTTGATTTGATTATCCGAATTTTTCTTAAATTTTATAGCTTTATA
260 AAAATATCTCAAAAATCTGATTTGATTTGATTATCCGAATTTTTCTTAAATTTTATAGCTTTATA
* * *
401591 GCCAATAATACAACTATGAAAATCCAACTCACTTGAAAACTCTTGGTGGTAAACTATTCAATTAC
325 GCCATTAATACAAGTATGAAAATCCAACTGACTTGAAAACTCTTGGTGGTAAACTATTCAATTAC
* *
401656 AGGATAAAATTTATTTTTTTGGAAAATAGCATTTTGGTCCCTAAACTTTTCCTAAGTTTATACTT
390 ATGATAAAATTTATTTTTTGGGAAAATAGCATTTTGGTCCCTAAACTTTTCCTAAGTTTATACTT
* *
401721 TGGCCACTAAACTTTTAATTTATTTATTTTGGTCACTAGCATTTGTCATCTTTTTATTAAAATAA
455 TGGCCACTAAACTTTCAATTTATTTATTTTGGTCACTAGCATTTGTCATCTTTTTATTAAAATGA
*
401786 ATTAAAAATTCACTTTAATGCT
520 ATTAAAAATTCATTTTAATGCT
401808 AAATGACCATGTTTCCCTTGTAATCACATGCTTCATAACTTTCCACATGTCAATTTGTTCATCCA
1 AAATGACCATGTTTCCCTTGTAATCACATGCTTCATAACTTTCCACATGTCAATTTGTTCATCCA
* * *
401873 AAA-TTAAAAATGAACCAACAAA-TGATAATTACTAGTTTCTTCCTTGTAATTTTCCAGAATTAC
66 AAAGTAAAAAATGAACCAACAAATTGATAATTACCAGTTTCTTCCTTGTAATTTTCCAAAATTAC
* * *
401936 AATCTTGTTA-TTTTCATCCAACGACCTATATTTAACTTGGAAAATCAACTTAAATCCAATTGTC
131 AATCTTGTCATTTTTCATCCAACGACCTATATTTAACATGGAAAATCAACTTAAATCCAATAGTC
* *
402000 CATGTTAAATTCTACCATTTTAAATCATGGAAATGATATTATTTGCATTGCCTTATCATCCTTCA
196 CATGTTAAATTCTACCATTTTAAATCATGGAAATGACATTATTAGCATTGCCTTATCATCCTTCA
*
402065 AAATATCTCAAAAATCTGATTTGATTTGATTATCCGAATTTTTCTTAAATTTTATAGCTTTATAC
261 AAATATCTCAAAAATCTGATTTGATTTGATTATCCGAATTTTTCTTAAATTTTATAGCTTTATAG
* *
402130 CCATTAATACAAGTATGAAAATCCAAGTGACTTGAAAACTCTGGGTGGTAAACTATTCAATTACA
326 CCATTAATACAAGTATGAAAATCCAACTGACTTGAAAACTCTTGGTGGTAAACTATTCAATTACA
402195 TGATAAAATTTATTTTTTGGGAAAATAGCATTTTGGTCCCTAAACTTTTCCTAAGTTTATACTTT
391 TGATAAAATTTATTTTTTGGGAAAATAGCATTTTGGTCCCTAAACTTTTCCTAAGTTTATACTTT
*
402260 GGCCACTAAACTTTTAATTTATTTATTTTGGTCACTAGCATTTGTCATCTTTTTATTAAAATGAA
456 GGCCACTAAACTTTCAATTTATTTATTTTGGTCACTAGCATTTGTCATCTTTTTATTAAAATGAA
402325 TTAAAAATTCATTTTAATGCT
521 TTAAAAATTCATTTTAATGCT
* * *
402346 AAATGACCATGTTTGCCTTGTAATCACATGCTTAATAACTTTCTACATGTCAATTTGTTCATCCA
1 AAATGACCATGTTTCCCTTGTAATCACATGCTTCATAACTTTCCACATGTCAATTTGTTCATCCA
* * * * *
402411 AAAGTAAAAAATGAACCAACAAATTGATAGTTATCAATTTCTTCCATGTAATTTTCCAAAATTAT
66 AAAGTAAAAAATGAACCAACAAATTGATAATTACCAGTTTCTTCCTTGTAATTTTCCAAAATTAC
*
402476 AATCTTGTCATTTTTCATCCAACGACCTATATTTAACATGGAAAATCAACTTAAATCTAATAGTC
131 AATCTTGTCATTTTTCATCCAACGACCTATATTTAACATGGAAAATCAACTTAAATCCAATAGTC
*
402541 CATGTTAAATTCTACCATTTTAAATCATGGAAATAACATTATTAGCATTGCCTTATCATCCTTCA
196 CATGTTAAATTCTACCATTTTAAATCATGGAAATGACATTATTAGCATTGCCTTATCATCCTTCA
*
402606 AAATATCTCAAAAATCTGATTTGATTTGATTATCCGAATTTTTCTTAAATTTTATAGCTTTATAA
261 AAATATCTCAAAAATCTGATTTGATTTGATTATCCGAATTTTTCTTAAATTTTATAGCTTTATAG
* * *
402671 CCAATAATACAACTATGAAAATCCAACTCACTTGAAAACTCTTGGTGGTAAACTATTCAATTACA
326 CCATTAATACAAGTATGAAAATCCAACTGACTTGAAAACTCTTGGTGGTAAACTATTCAATTACA
*
402736 GGATAAAATTTATTTTTTGGGAAAATAGCATTTTGGTCCCTAAACTTTTCCTAAGTTTATACTTT
391 TGATAAAATTTATTTTTTGGGAAAATAGCATTTTGGTCCCTAAACTTTTCCTAAGTTTATACTTT
* *
402801 GGCCACTAAACTTTTAATTTATTTATTTTGGTCACTAGCATTTGTCATCTTTTTATTAAAATAAA
456 GGCCACTAAACTTTCAATTTATTTATTTTGGTCACTAGCATTTGTCATCTTTTTATTAAAATGAA
* *
402866 TTAAAAATTTACTTTAATGCT
521 TTAAAAATTCATTTTAATGCT
* *
402887 AAATGACCATGTTTCCCTTGTAATCACATGCTTCATAACTTTCCACATGTAAATTTGTTTATCCA
1 AAATGACCATGTTTCCCTTGTAATCACATGCTTCATAACTTTCCACATGTCAATTTGTTCATCCA
* * *
402952 AAATTAAAAAATGAACCAACAAATTGATAAGTA-C---TTCTTCCTTGTAATTTTCCAGAATTAC
66 AAAGTAAAAAATGAACCAACAAATTGATAATTACCAGTTTCTTCCTTGTAATTTTCCAAAATTAC
* * *
403013 AATCTTGTTATTTTTCATCCAACGACCTATATTTAACCTGGAAAATCAACTTAAATCCAATTGTC
131 AATCTTGTCATTTTTCATCCAACGACCTATATTTAACATGGAAAATCAACTTAAATCCAATAGTC
* *
403078 CATGTTAAATTCTACCATTTTAAATCATGGAAATGATATTATTTGCATTGCCTTATCATCCTTCA
196 CATGTTAAATTCTACCATTTTAAATCATGGAAATGACATTATTAGCATTGCCTTATCATCCTTCA
*
403143 AAATATCTCAAAAATCTGATTTGATTTGATTATCCGAATTTTTCTTAAATTTTATAGCTTTATAC
261 AAATATCTCAAAAATCTGATTTGATTTGATTATCCGAATTTTTCTTAAATTTTATAGCTTTATAG
* *
403208 CCATTAATACAAGTATGAAAAATCCAAGTGACTTGAAAACTCTCGGTGGTAAACTATTCAATTAC
326 CCATTAATACAAGTATG-AAAATCCAACTGACTTGAAAACTCTTGGTGGTAAACTATTCAATTAC
* *
403273 ATGATAAAATTTCTTTTTTGGGAAAATAGAATTTTGGTCCCTAAACTTTTCCTAAGTTTATACTT
390 ATGATAAAATTTATTTTTTGGGAAAATAGCATTTTGGTCCCTAAACTTTTCCTAAGTTTATACTT
* *
403338 TGGCAACTAAACTTTTAATTTATTTATTTTGGTCACTAGCATTTGTCATCTTTTTATTAAAATGA
455 TGGCCACTAAACTTTCAATTTATTTATTTTGGTCACTAGCATTTGTCATCTTTTTATTAAAATGA
403403 ATTAAAAATTCATTTTAATGCT
520 ATTAAAAATTCATTTTAATGCT
* * *
403425 AAATGACCATGTTTGCCTTGTAATCACATGCTTAATAACTTTCTACATGTCAATTTGTTCATCCA
1 AAATGACCATGTTTCCCTTGTAATCACATGCTTCATAACTTTCCACATGTCAATTTGTTCATCCA
* *
403490 AAAGTAAAAAATGAA-C--C------------A--A-TTTCTTCCATGTAATTTTCCAAAATTAT
66 AAAGTAAAAAATGAACCAACAAATTGATAATTACCAGTTTCTTCCTTGTAATTTTCCAAAATTAC
*
403537 AATCTTGTCATTTTTCATCCAACGACCTATATTTAACATGGAAAATCAACTTAAATCTAATAGTC
131 AATCTTGTCATTTTTCATCCAACGACCTATATTTAACATGGAAAATCAACTTAAATCCAATAGTC
* * *
403602 CATGTTAAATTCTACCATTTTAAATCATGCAAATAACATTATTAGCATTGGCTTATCATCCTTCA
196 CATGTTAAATTCTACCATTTTAAATCATGGAAATGACATTATTAGCATTGCCTTATCATCCTTCA
403667 AAATATCTCAAAAATCTGATTTGATTTGATTATCCGAATTTTTCTTAAATTTTATAGCTTTATAG
261 AAATATCTCAAAAATCTGATTTGATTTGATTATCCGAATTTTTCTTAAATTTTATAGCTTTATAG
*
403732 CCAATAATACAAGTATGAAAATCCAACTGACTTGAAAACTCTTGGTGGTAAACTATTCAATTACA
326 CCATTAATACAAGTATGAAAATCCAACTGACTTGAAAACTCTTGGTGGTAAACTATTCAATTACA
* * *
403797 TGATAAAATTAATTTTTTGGGAAAATAGAATTTTGGTCCCTAAACTTTTCCTAAGTTTATATTTT
391 TGATAAAATTTATTTTTTGGGAAAATAGCATTTTGGTCCCTAAACTTTTCCTAAGTTTATACTTT
*
403862 GGCCACTAAACTTTCAATTTATTT-TTTTGGTCACTAGCATTTGTCATCTTTTTATTAAAATAAA
456 GGCCACTAAACTTTCAATTTATTTATTTTGGTCACTAGCATTTGTCATCTTTTTATTAAAATGAA
* *
403926 TTAAAAATTTACTTTAATGCT
521 TTAAAAATTCATTTTAATGCT
* *
403947 AAATGACCATGTTTCCCTTGTAATCACATGCTTCATAACTTTCCACATGTAAATTTGTTTATCCA
1 AAATGACCATGTTTCCCTTGTAATCACATGCTTCATAACTTTCCACATGTCAATTTGTTCATCCA
* * *
404012 AAATTAAAAAATGAACCAACAAATTGATAATTACTAGTTTCTTCCTTGTAATTTTCCAGAATTAC
66 AAAGTAAAAAATGAACCAACAAATTGATAATTACCAGTTTCTTCCTTGTAATTTTCCAAAATTAC
* * *
404077 AATCTTGTTATTTTTCATCCAACGACCTATATTTAACCTGGAAAATCAACTTAAATCCAATTGTC
131 AATCTTGTCATTTTTCATCCAACGACCTATATTTAACATGGAAAATCAACTTAAATCCAATAGTC
* *
404142 CATGTTAAATTCTACCATTTTAAATCATGGAAATGATATTATTTGCATTGCCTTATCATCCTTCA
196 CATGTTAAATTCTACCATTTTAAATCATGGAAATGACATTATTAGCATTGCCTTATCATCCTTCA
*
404207 AAATATCTCAAAAATCTGATTTGATTTGATTATCCGAATTTTTCTTAAATTTTATAGCTTTATAC
261 AAATATCTCAAAAATCTGATTTGATTTGATTATCCGAATTTTTCTTAAATTTTATAGCTTTATAG
* *
404272 CCATTAATACAAGTATGAAAAATCCAAGTGACTTGAAAACTCTGGGTGGTAAACTATTCAATTAC
326 CCATTAATACAAGTATG-AAAATCCAACTGACTTGAAAACTCTTGGTGGTAAACTATTCAATTAC
* **
404337 ATGATAAAATTTCTTTTTTGGGAAAATAAAATTTTGGTCCCTAAACTTTTCCTAAGTTTATACTT
390 ATGATAAAATTTATTTTTTGGGAAAATAGCATTTTGGTCCCTAAACTTTTCCTAAGTTTATACTT
* * *
404402 TGGCAACTAAATTTTTAATTTATTTATTTTGGTCACTAGCATTTGTCATCTTTTTATTAAAATGA
455 TGGCCACTAAACTTTCAATTTATTTATTTTGGTCACTAGCATTTGTCATCTTTTTATTAAAATGA
404467 ATTAAAAATTCATTTTAATGCT
520 ATTAAAAATTCATTTTAATGCT
* * *
404489 AAATGACCATGTTTGCCTTGTAATCACATGCTTAATAACTTTCTACATGTCAATTTGTTCATCCA
1 AAATGACCATGTTTCCCTTGTAATCACATGCTTCATAACTTTCCACATGTCAATTTGTTCATCCA
* *
404554 AAAGTAAAAAATGAA-C--C------------A--A-TTTCTTCCATGTAATTTTCCAAAATTAT
66 AAAGTAAAAAATGAACCAACAAATTGATAATTACCAGTTTCTTCCTTGTAATTTTCCAAAATTAC
* *
404601 AATCTTGTCATTTTTCATCCAACGACCTATATTTAAAATGGAAAATCAACTTAAATCTAATAGTC
131 AATCTTGTCATTTTTCATCCAACGACCTATATTTAACATGGAAAATCAACTTAAATCCAATAGTC
* * * * *
404666 CATGTTAAATTCTAACATTTCAAATCATGCAAATAACATTATTAGCATTGGCTTATCATCCTTCA
196 CATGTTAAATTCTACCATTTTAAATCATGGAAATGACATTATTAGCATTGCCTTATCATCCTTCA
404731 AAATATCTCAAAAATCTGATTTGATTTGATTATCCGAATTTTTCTTAAATTTTATAGCTTTATAG
261 AAATATCTCAAAAATCTGATTTGATTTGATTATCCGAATTTTTCTTAAATTTTATAGCTTTATAG
*
404796 CCAATAATACAAGTATGAAAATCCAACTGACTTGAAAACTCTTGGTGGTAAACTATTCAATTACA
326 CCATTAATACAAGTATGAAAATCCAACTGACTTGAAAACTCTTGGTGGTAAACTATTCAATTACA
* * *
404861 TGATAAAATTAATTTTTTGGGAAAATAGCA-TTTGGTCCCTAAACATTTCCTAAGTTTATATTTT
391 TGATAAAATTTATTTTTTGGGAAAATAGCATTTTGGTCCCTAAACTTTTCCTAAGTTTATACTTT
404925 GGCCACTAAACTTTCAA-TTATTT-TTTTGGTCACTAGCATTTG---TC-----ATT----T---
456 GGCCACTAAACTTTCAATTTATTTATTTTGGTCACTAGCATTTGTCATCTTTTTATTAAAATGAA
404973 TT----ATT-A----AAT--T
521 TTAAAAATTCATTTTAATGCT
* * * *
404983 --A--ACCATGTTTCCCTTTTAATCACATGATTCATAACTTGCCACATGGCAATTTGTTCATCCA
1 AAATGACCATGTTTCCCTTGTAATCACATGCTTCATAACTTTCCACATGTCAATTTGTTCATCCA
* *
405044 AAAGTAAAAAATGAACCAACAAATTGATAGTTACCAATTTCTTCCTTGTAATTTTCCAAAATTAC
66 AAAGTAAAAAATGAACCAACAAATTGATAATTACCAGTTTCTTCCTTGTAATTTTCCAAAATTAC
*
405109 AATCTTGTCATTTTTCATCCAATGACCTATATTTAACATGGAAAATCAACTTAAATCCAATAGTC
131 AATCTTGTCATTTTTCATCCAACGACCTATATTTAACATGGAAAATCAACTTAAATCCAATAGTC
* *
405174 CATGTTAAATTCTACCATTTTTAATCATGGAAATGATATTATTAGCATTGCCTTATCATCCTTCA
196 CATGTTAAATTCTACCATTTTAAATCATGGAAATGACATTATTAGCATTGCCTTATCATCCTTCA
* * * *
405239 AAATATCTCAAAAATCTAATTTGATTTTATTATCCGAAATTTTCTTAAATTTTATAGCTTTGTAG
261 AAATATCTCAAAAATCTGATTTGATTTGATTATCCGAATTTTTCTTAAATTTTATAGCTTTATAG
* * *
405304 CCATTAATATAAGTATAGAAAATCTAAGTGACTTGAAAACTCTTGGTGGTAAACTATTCAATTAC
326 CCATTAATACAAGTAT-GAAAATCCAACTGACTTGAAAACTCTTGGTGGTAAACTATTCAATTAC
* * * * *
405369 AAGATAAAA-TT-TCTTTTGGGAAAATATCA-TTTGGTCCCTAAACATTTCCTAAATTTATACTT
390 ATGATAAAATTTATTTTTTGGGAAAATAGCATTTTGGTCCCTAAACTTTTCCTAAGTTTATACTT
* *
405431 TGGCCCCTAAACTTTCAATTTATTCATTTTGGTCACTAGCATTT-T--TC-----A-T---AT--
455 TGGCCACTAAACTTTCAATTTATTTATTTTGGTCACTAGCATTTGTCATCTTTTTATTAAAATGA
405482 -TT-----TTC---TTAATGCT
520 ATTAAAAATTCATTTTAATGCT
* * * *
405495 AAATGACCTTGTTTCCCTTGTAATCACATGCTTCATAACTTGCCACGTGTCAATTTGTTCATTCA
1 AAATGACCATGTTTCCCTTGTAATCACATGCTTCATAACTTTCCACATGTCAATTTGTTCATCCA
* * * *
405560 AAAGTAAAAAATGAACCAACAAATTGATAGTTACCAATTTCTTCCTTATAATTTTCAAAAATTAC
66 AAAGTAAAAAATGAACCAACAAATTGATAATTACCAGTTTCTTCCTTGTAATTTTCCAAAATTAC
*
405625 AATCTTGTCATTTTTCATCCAACGACCTATATTTAACTTGGAAAATCAACTTAAATCCAATAGTC
131 AATCTTGTCATTTTTCATCCAACGACCTATATTTAACATGGAAAATCAACTTAAATCCAATAGTC
*
405690 CATGTTAAATTCTACCATTTTAAATCATGGAAATGACATTATTAGCATTGCCTTATCATTCTTCA
196 CATGTTAAATTCTACCATTTTAAATCATGGAAATGACATTATTAGCATTGCCTTATCATCCTTCA
* *
405755 AAATATCTAAAAAATCTGATTTGATTTGATTATCCGATTTTTTCTTAAATTTTATAGCTTTATAG
261 AAATATCTCAAAAATCTGATTTGATTTGATTATCCGAATTTTTCTTAAATTTTATAGCTTTATAG
* *
405820 CCATTAATACAAGTATGAAAAATCCAAGTGACTTGAAAACTCTTGGTGGTAAACTATTAAATTAC
326 CCATTAATACAAGTATG-AAAATCCAACTGACTTGAAAACTCTTGGTGGTAAACTATTCAATTAC
* * *
405885 ATGATAAAATTTCTTTTTTGAGAAAATAGCAATTTGGTCCCTAAACTTTTCCTAAGTTTATACTT
390 ATGATAAAATTTATTTTTTGGGAAAATAGCATTTTGGTCCCTAAACTTTTCCTAAGTTTATACTT
* *
405950 TAGCTACTAAACTTTCAATTTATTTATTTTGGTCAC
455 TGGCCACTAAACTTTCAATTTATTTATTTTGGTCAC
405986 AAGCCAATTT
Statistics
Matches: 5360, Mismatches: 369, Indels: 169
0.91 0.06 0.03
Matches are distributed among these distances:
490 68 0.01
491 1 0.00
492 1 0.00
493 1 0.00
494 1 0.00
496 3 0.00
500 1 0.00
501 3 0.00
505 3 0.00
507 65 0.01
508 231 0.04
509 78 0.01
510 3 0.00
512 4 0.00
514 1 0.00
515 1 0.00
516 369 0.07
517 4 0.00
518 15 0.00
519 63 0.01
520 19 0.00
521 6 0.00
522 178 0.03
523 204 0.04
524 448 0.08
525 2 0.00
527 1 0.00
535 1 0.00
537 228 0.04
538 710 0.13
539 63 0.01
540 636 0.12
541 1020 0.19
542 907 0.17
543 21 0.00
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.39
Consensus pattern (541 bp):
AAATGACCATGTTTCCCTTGTAATCACATGCTTCATAACTTTCCACATGTCAATTTGTTCATCCA
AAAGTAAAAAATGAACCAACAAATTGATAATTACCAGTTTCTTCCTTGTAATTTTCCAAAATTAC
AATCTTGTCATTTTTCATCCAACGACCTATATTTAACATGGAAAATCAACTTAAATCCAATAGTC
CATGTTAAATTCTACCATTTTAAATCATGGAAATGACATTATTAGCATTGCCTTATCATCCTTCA
AAATATCTCAAAAATCTGATTTGATTTGATTATCCGAATTTTTCTTAAATTTTATAGCTTTATAG
CCATTAATACAAGTATGAAAATCCAACTGACTTGAAAACTCTTGGTGGTAAACTATTCAATTACA
TGATAAAATTTATTTTTTGGGAAAATAGCATTTTGGTCCCTAAACTTTTCCTAAGTTTATACTTT
GGCCACTAAACTTTCAATTTATTTATTTTGGTCACTAGCATTTGTCATCTTTTTATTAAAATGAA
TTAAAAATTCATTTTAATGCT
Found at i:405654 original size:516 final size:517
Alignment explanation
Indices: 403939--405985 Score: 2961
Period size: 516 Copynumber: 4.0 Consensus size: 517
403929 AAAATTTACT
* *
403939 TTAATGCTAAATGACCATGTTTCCCTTGTAATCACATGCTTCATAACTTTCCACATGTAAATTTG
1 TTAATGCTAAATGACCATGTTTCCCTTGTAATCACATGCTTCATAACTTGCCACATGTCAATTTG
* * * * *
404004 TTTATCCAAAATTAAAAAATGAACCAACAAATTGATAATTACTAGTTTCTTCCTTGTAATTTTCC
66 TTCATCCAAAAGTAAAAAATGAACCAACAAATTGATAGTTACCAATTTCTTCCTTGTAATTTTCC
* * *
404069 AGAATTACAATCTTGTTATTTTTCATCCAACGACCTATATTTAACCTGGAAAATCAACTTAAATC
131 AAAATTACAATCTTGTCATTTTTCATCCAACGACCTATATTTAACATGGAAAATCAACTTAAATC
* * *
404134 CAATTGTCCATGTTAAATTCTACCATTTTAAATCATGGAAATGATATTATTTGCATTGCCTTATC
196 CAATAGTCCATGTTAAATTCTACCATTTTAAATCATGGAAATGACATTATTAGCATTGCCTTATC
404199 ATCCTTCAAAATATCTCAAAAATCTGATTTGATTTGATTATCCGAATTTTTCTTAAATTTTATAG
261 ATCCTTCAAAATATCTCAAAAATCTGATTTGATTTGATTATCCGAATTTTTCTTAAATTTTATAG
* *
404264 CTTTATACCCATTAATACAAGTATGAAAAATCCAAGTGACTTGAAAACTCTGGGTGGTAAACTAT
326 CTTTATAGCCATTAATACAAGTATGAAAAATCCAAGTGACTTGAAAACTCTTGGTGGTAAACTAT
** *
404329 TCAATTACATGATAAAATTTCTTTTTTGGGAAAATAAAATTTTGGTCCCTAAACTTTTCCTAAGT
391 TCAATTACATGATAAAATTTC-TTTTTGGGAAAATAGCA-TTTGGTCCCTAAACATTTCCTAAGT
* * *
404394 TTATACTTTGGCAACTAAATTTTTAATTTATTTATTTTGGTCACTAGCATTTGTCATCTTTTTAT
454 TTATACTTTGGCCACTAAACTTTCAATTTATTTATTTTGGTCACTAGCATTT-T--TC-----A-
404459 TAAAATGAATTAAAAATTC
510 T---AT---TT-----TTC
* * * *
404478 ATTTTAATGCTAAATGACCATGTTTGCCTTGTAATCACATGCTTAATAACTTTCTACATGTCAAT
1 ---TTAATGCTAAATGACCATGTTTCCCTTGTAATCACATGCTTCATAACTTGCCACATGTCAAT
*
404543 TTGTTCATCCAAAAG-------T--A--AA-AAA-TG--A---ACCAATTTCTTCCATGTAATTT
63 TTGTTCATCCAAAAGTAAAAAATGAACCAACAAATTGATAGTTACCAATTTCTTCCTTGTAATTT
* *
404590 TCCAAAATTATAATCTTGTCATTTTTCATCCAACGACCTATATTTAAAATGGAAAATCAACTTAA
128 TCCAAAATTACAATCTTGTCATTTTTCATCCAACGACCTATATTTAACATGGAAAATCAACTTAA
* * * * * *
404655 ATCTAATAGTCCATGTTAAATTCTAACATTTCAAATCATGCAAATAACATTATTAGCATTGGCTT
193 ATCCAATAGTCCATGTTAAATTCTACCATTTTAAATCATGGAAATGACATTATTAGCATTGCCTT
404720 ATCATCCTTCAAAATATCTCAAAAATCTGATTTGATTTGATTATCCGAATTTTTCTTAAATTTTA
258 ATCATCCTTCAAAATATCTCAAAAATCTGATTTGATTTGATTATCCGAATTTTTCTTAAATTTTA
* *
404785 TAGCTTTATAGCCAATAATACAAGTATG-AAAATCCAACTGACTTGAAAACTCTTGGTGGTAAAC
323 TAGCTTTATAGCCATTAATACAAGTATGAAAAATCCAAGTGACTTGAAAACTCTTGGTGGTAAAC
404849 TATTCAATTACATGATAAAATTAAT-TTTTTGGGAAAATAGCATTTGGTCCCTAAACATTTCCTA
388 TATTCAATTACATGATAAAATT--TCTTTTTGGGAAAATAGCATTTGGTCCCTAAACATTTCCTA
* *
404913 AGTTTATATTTTGGCCACTAAACTTTCAA-TTATTT-TTTTGGTCACTAGCATTTGTC--A--TT
451 AGTTTATACTTTGGCCACTAAACTTTCAATTTATTTATTTTGGTCACTAGCATTTTTCATATTTT
404972 T-
516 TC
* * * *
404973 TT-AT--TAAATTAACCATGTTTCCCTTTTAATCACATGATTCATAACTTGCCACATGGCAATTT
1 TTAATGCTAAA-TGACCATGTTTCCCTTGTAATCACATGCTTCATAACTTGCCACATGTCAATTT
405035 GTTCATCCAAAAGTAAAAAATGAACCAACAAATTGATAGTTACCAATTTCTTCCTTGTAATTTTC
65 GTTCATCCAAAAGTAAAAAATGAACCAACAAATTGATAGTTACCAATTTCTTCCTTGTAATTTTC
*
405100 CAAAATTACAATCTTGTCATTTTTCATCCAATGACCTATATTTAACATGGAAAATCAACTTAAAT
130 CAAAATTACAATCTTGTCATTTTTCATCCAACGACCTATATTTAACATGGAAAATCAACTTAAAT
* *
405165 CCAATAGTCCATGTTAAATTCTACCATTTTTAATCATGGAAATGATATTATTAGCATTGCCTTAT
195 CCAATAGTCCATGTTAAATTCTACCATTTTAAATCATGGAAATGACATTATTAGCATTGCCTTAT
* * *
405230 CATCCTTCAAAATATCTCAAAAATCTAATTTGATTTTATTATCCGAAATTTTCTTAAATTTTATA
260 CATCCTTCAAAATATCTCAAAAATCTGATTTGATTTGATTATCCGAATTTTTCTTAAATTTTATA
* * *
405295 GCTTTGTAGCCATTAATATAAGTAT-AGAAAATCTAAGTGACTTGAAAACTCTTGGTGGTAAACT
325 GCTTTATAGCCATTAATACAAGTATGA-AAAATCCAAGTGACTTGAAAACTCTTGGTGGTAAACT
* * *
405359 ATTCAATTACAAGATAAAATTTC-TTTTGGGAAAATATCATTTGGTCCCTAAACATTTCCTAAAT
389 ATTCAATTACATGATAAAATTTCTTTTTGGGAAAATAGCATTTGGTCCCTAAACATTTCCTAAGT
* *
405423 TTATACTTTGGCCCCTAAACTTTCAATTTATTCATTTTGGTCACTAGCATTTTTCATATTTTTC
454 TTATACTTTGGCCACTAAACTTTCAATTTATTTATTTTGGTCACTAGCATTTTTCATATTTTTC
* *
405487 TTAATGCTAAATGACCTTGTTTCCCTTGTAATCACATGCTTCATAACTTGCCACGTGTCAATTTG
1 TTAATGCTAAATGACCATGTTTCCCTTGTAATCACATGCTTCATAACTTGCCACATGTCAATTTG
* * *
405552 TTCATTCAAAAGTAAAAAATGAACCAACAAATTGATAGTTACCAATTTCTTCCTTATAATTTTCA
66 TTCATCCAAAAGTAAAAAATGAACCAACAAATTGATAGTTACCAATTTCTTCCTTGTAATTTTCC
*
405617 AAAATTACAATCTTGTCATTTTTCATCCAACGACCTATATTTAACTTGGAAAATCAACTTAAATC
131 AAAATTACAATCTTGTCATTTTTCATCCAACGACCTATATTTAACATGGAAAATCAACTTAAATC
405682 CAATAGTCCATGTTAAATTCTACCATTTTAAATCATGGAAATGACATTATTAGCATTGCCTTATC
196 CAATAGTCCATGTTAAATTCTACCATTTTAAATCATGGAAATGACATTATTAGCATTGCCTTATC
* * *
405747 ATTCTTCAAAATATCTAAAAAATCTGATTTGATTTGATTATCCGATTTTTTCTTAAATTTTATAG
261 ATCCTTCAAAATATCTCAAAAATCTGATTTGATTTGATTATCCGAATTTTTCTTAAATTTTATAG
405812 CTTTATAGCCATTAATACAAGTATGAAAAATCCAAGTGACTTGAAAACTCTTGGTGGTAAACTAT
326 CTTTATAGCCATTAATACAAGTATGAAAAATCCAAGTGACTTGAAAACTCTTGGTGGTAAACTAT
* * *
405877 TAAATTACATGATAAAATTTCTTTTTTGAGAAAATAGCAATTTGGTCCCTAAACTTTTCCTAAGT
391 TCAATTACATGATAAAATTTC-TTTTTGGGAAAATAGC-ATTTGGTCCCTAAACATTTCCTAAGT
* *
405942 TTATACTTTAGCTACTAAACTTTCAATTTATTTATTTTGGTCAC
454 TTATACTTTGGCCACTAAACTTTCAATTTATTTATTTTGGTCAC
405986 AAGCCAATTT
Statistics
Matches: 1365, Mismatches: 102, Indels: 99
0.87 0.07 0.06
Matches are distributed among these distances:
489 4 0.00
490 58 0.04
491 2 0.00
492 2 0.00
496 2 0.00
497 1 0.00
499 1 0.00
501 3 0.00
502 3 0.00
503 2 0.00
505 1 0.00
506 1 0.00
507 64 0.05
508 231 0.17
509 75 0.05
511 1 0.00
513 3 0.00
514 2 0.00
515 2 0.00
516 374 0.27
517 7 0.01
518 13 0.01
519 64 0.05
520 18 0.01
521 6 0.00
522 46 0.03
523 71 0.05
524 226 0.17
525 1 0.00
527 1 0.00
529 2 0.00
530 3 0.00
531 2 0.00
533 1 0.00
535 1 0.00
542 71 0.05
ACGTcount: A:0.34, C:0.17, G:0.10, T:0.39
Consensus pattern (517 bp):
TTAATGCTAAATGACCATGTTTCCCTTGTAATCACATGCTTCATAACTTGCCACATGTCAATTTG
TTCATCCAAAAGTAAAAAATGAACCAACAAATTGATAGTTACCAATTTCTTCCTTGTAATTTTCC
AAAATTACAATCTTGTCATTTTTCATCCAACGACCTATATTTAACATGGAAAATCAACTTAAATC
CAATAGTCCATGTTAAATTCTACCATTTTAAATCATGGAAATGACATTATTAGCATTGCCTTATC
ATCCTTCAAAATATCTCAAAAATCTGATTTGATTTGATTATCCGAATTTTTCTTAAATTTTATAG
CTTTATAGCCATTAATACAAGTATGAAAAATCCAAGTGACTTGAAAACTCTTGGTGGTAAACTAT
TCAATTACATGATAAAATTTCTTTTTGGGAAAATAGCATTTGGTCCCTAAACATTTCCTAAGTTT
ATACTTTGGCCACTAAACTTTCAATTTATTTATTTTGGTCACTAGCATTTTTCATATTTTTC
Found at i:408568 original size:20 final size:19
Alignment explanation
Indices: 408528--408567 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 19
408518 TGGTCTAATT
408528 TCAACATTATAACTTCAAAA
1 TCAACATTATAACTT-AAAA
408548 TCAACATTATTAACATTAAA
1 TCAACATTA-TAAC-TTAAA
408568 TTCCAACATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 9 0.50
21 7 0.39
22 2 0.11
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (19 bp):
TCAACATTATAACTTAAAA
Found at i:412671 original size:29 final size:31
Alignment explanation
Indices: 412606--412662 Score: 82
Period size: 29 Copynumber: 1.9 Consensus size: 31
412596 TTTTGGTCCC
* *
412606 CTAAACTTTTACAAAGTTTATATTTTGGCTA
1 CTAAACTTTTACAAAATTTACATTTTGGCTA
412637 CTAAAC-TTT-CAAAATTTACATTTTGG
1 CTAAACTTTTACAAAATTTACATTTTGG
412663 TCATTAAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 15 0.62
30 3 0.12
31 6 0.25
ACGTcount: A:0.33, C:0.14, G:0.09, T:0.44
Consensus pattern (31 bp):
CTAAACTTTTACAAAATTTACATTTTGGCTA
Found at i:418807 original size:20 final size:21
Alignment explanation
Indices: 418782--418837 Score: 62
Period size: 22 Copynumber: 2.7 Consensus size: 21
418772 TTGTACTTAA
418782 TGCATCGATACACC-T-AACAG
1 TGCATCGATACACCTTGAA-AG
* *
418802 TGCATCGATGCATCCTTGAATG
1 TGCATCGATACA-CCTTGAAAG
418824 TGCATCGATACACC
1 TGCATCGATACACC
418838 ATAAGGTACA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 11 0.37
21 4 0.13
22 13 0.43
23 2 0.07
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.25
Consensus pattern (21 bp):
TGCATCGATACACCTTGAAAG
Found at i:418829 original size:22 final size:22
Alignment explanation
Indices: 418801--418878 Score: 70
Period size: 22 Copynumber: 3.6 Consensus size: 22
418791 ACACCTAACA
418801 GTGCATCGATGCATCCTTGAAT
1 GTGCATCGATGCATCCTTGAAT
* * *
418823 GTGCATCGATACA-CCAT-AAG
1 GTGCATCGATGCATCCTTGAAT
* * *
418843 GTACACCGATGTATGCCTTGAAT
1 GTGCATCGATGCAT-CCTTGAAT
*
418866 GTCCATCGATGCA
1 GTGCATCGATGCA
418879 CAAGGTCATG
Statistics
Matches: 41, Mismatches: 12, Indels: 5
0.71 0.21 0.09
Matches are distributed among these distances:
20 11 0.27
21 3 0.07
22 15 0.37
23 12 0.29
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (22 bp):
GTGCATCGATGCATCCTTGAAT
Found at i:418853 original size:42 final size:43
Alignment explanation
Indices: 418782--418875 Score: 120
Period size: 42 Copynumber: 2.2 Consensus size: 43
418772 TTGTACTTAA
* *
418782 TGCATCGATACACCTAACAGTGCATCGATGCAT-CCTTGAATG
1 TGCATCGATACACCTAACAGTACACCGATGCATGCCTTGAATG
* *
418824 TGCATCGATACACCATAA-GGTACACCGATGTATGCCTTGAATG
1 TGCATCGATACACC-TAACAGTACACCGATGCATGCCTTGAATG
*
418867 TCCATCGAT
1 TGCATCGAT
418876 GCACAAGGTC
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
42 25 0.56
43 20 0.44
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.27
Consensus pattern (43 bp):
TGCATCGATACACCTAACAGTACACCGATGCATGCCTTGAATG
Found at i:418896 original size:43 final size:43
Alignment explanation
Indices: 418802--418901 Score: 109
Period size: 43 Copynumber: 2.3 Consensus size: 43
418792 CACCTAACAG
*
418802 TGCATCGATGCATCCTTGAATGTGCATCGATACACCATAAGGTA
1 TGCATCGATGCATCCTTGAATGTCCATCGATACACCA-AAGGTA
* * *
418846 --CACCGATGTATGCCTTGAATGTCCATCGATGCA-C-AAGGTCA
1 TGCATCGATGCAT-CCTTGAATGTCCATCGATACACCAAAGGT-A
418887 TGCATCGATGCATCC
1 TGCATCGATGCATCC
418902 GTCGGGTTTT
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
40 5 0.11
41 1 0.02
42 12 0.26
43 28 0.61
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (43 bp):
TGCATCGATGCATCCTTGAATGTCCATCGATACACCAAAGGTA
Found at i:420477 original size:21 final size:21
Alignment explanation
Indices: 420435--420478 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
420425 ACTCTGGGAG
* *
420435 CTAGTTCTTCACGAGCTGCTC
1 CTAGCTCTTCACGAGCTCCTC
* *
420456 CTAGCTCTTCTCGTGCTCCTC
1 CTAGCTCTTCACGAGCTCCTC
420477 CT
1 CT
420479 CCACCGGCTG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.09, C:0.39, G:0.16, T:0.36
Consensus pattern (21 bp):
CTAGCTCTTCACGAGCTCCTC
Found at i:421157 original size:33 final size:33
Alignment explanation
Indices: 421118--421191 Score: 99
Period size: 26 Copynumber: 2.5 Consensus size: 33
421108 TAACAAAAAG
421118 GGGGAGAAGTGTTAAGTGTTAAAATGTTTTAAA
1 GGGGAGAAGTGTTAAGTGTTAAAATGTTTTAAA
421151 -GGG-G-A--G--AAGTGTTAAAATGTTTTAAA
1 GGGGAGAAGTGTTAAGTGTTAAAATGTTTTAAA
421177 GGGGAGAAGTGTTAA
1 GGGGAGAAGTGTTAA
421192 AGTAAGGGGG
Statistics
Matches: 34, Mismatches: 0, Indels: 14
0.71 0.00 0.29
Matches are distributed among these distances:
26 20 0.59
27 3 0.09
28 2 0.06
29 1 0.03
30 1 0.03
31 2 0.06
32 3 0.09
33 2 0.06
ACGTcount: A:0.36, C:0.00, G:0.34, T:0.30
Consensus pattern (33 bp):
GGGGAGAAGTGTTAAGTGTTAAAATGTTTTAAA
Found at i:421160 original size:26 final size:26
Alignment explanation
Indices: 421131--421192 Score: 124
Period size: 26 Copynumber: 2.4 Consensus size: 26
421121 GAGAAGTGTT
421131 AAGTGTTAAAATGTTTTAAAGGGGAG
1 AAGTGTTAAAATGTTTTAAAGGGGAG
421157 AAGTGTTAAAATGTTTTAAAGGGGAG
1 AAGTGTTAAAATGTTTTAAAGGGGAG
421183 AAGTGTTAAA
1 AAGTGTTAAA
421193 GTAAGGGGGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.40, C:0.00, G:0.29, T:0.31
Consensus pattern (26 bp):
AAGTGTTAAAATGTTTTAAAGGGGAG
Found at i:421749 original size:64 final size:66
Alignment explanation
Indices: 421590--421749 Score: 211
Period size: 65 Copynumber: 2.5 Consensus size: 66
421580 AAATAAATTG
* * * *
421590 AACATCAAATGCATTTCATGCATCGATGCA-CATACCATTCATCGATGCACTGAGGATTTTATGA
1 AACATCGAATGCATTTGATGCATCGATGCACCATACCATGCATCGATGCACTCAGGATTTTATGA
421654 A
66 A
* * *
421655 AACATCGAATGCATTTGATGCATCGATGCACCA-GCCATGCATCGATGCACTCTGGCTATTT-TG
1 AACATCGAATGCATTTGATGCATCGATGCACCATACCATGCATCGATGCACTCAGGAT-TTTATG
421718 -A
65 AA
*
421719 AACATCGAATGCACTTGATGCATCGATGCAC
1 AACATCGAATGCATTTGATGCATCGATGCAC
421750 TCTTAGTGTA
Statistics
Matches: 85, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
64 31 0.36
65 49 0.58
66 5 0.06
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.28
Consensus pattern (66 bp):
AACATCGAATGCATTTGATGCATCGATGCACCATACCATGCATCGATGCACTCAGGATTTTATGA
A
Found at i:428660 original size:3 final size:3
Alignment explanation
Indices: 428652--428718 Score: 66
Period size: 3 Copynumber: 22.3 Consensus size: 3
428642 TATGTAACAT
* * * *
428652 TAA TAA TAA TAA TAA TAA TAA TTAA TTTA TTA TAA T-A TAA TAG TTA
1 TAA TAA TAA TAA TAA TAA TAA -TAA -TAA TAA TAA TAA TAA TAA TAA
428698 TAA TAA TAA TAA TAA T-A TAA T
1 TAA TAA TAA TAA TAA TAA TAA T
428719 TTTAATATAA
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
2 4 0.07
3 45 0.82
4 6 0.11
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (3 bp):
TAA
Found at i:428698 original size:14 final size:13
Alignment explanation
Indices: 428679--428737 Score: 63
Period size: 11 Copynumber: 4.6 Consensus size: 13
428669 ATAATTAATT
428679 TATTATAATATAA
1 TATTATAATATAA
428692 TAGTTATAATAATAA
1 TA-TTATAAT-ATAA
428707 TA--ATAATATAA
1 TATTATAATATAA
428718 T-TT-TAATATAA
1 TATTATAATATAA
428729 TATTTATAA
1 TA-TTATAA
428738 CACAGACAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
11 14 0.36
12 5 0.13
13 4 0.10
14 10 0.26
15 6 0.15
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.46
Consensus pattern (13 bp):
TATTATAATATAA
Found at i:428702 original size:37 final size:37
Alignment explanation
Indices: 428660--428737 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
428650 ATTAATAATA
*
428660 ATAATAATAATAATTAAT-TTATTATAATATAATAGTT
1 ATAATAATAATAA-TAATATAATTATAATATAATAGTT
* *
428697 ATAATAATAATAATAATATAATTTTAATATAATATTT
1 ATAATAATAATAATAATATAATTATAATATAATAGTT
428734 ATAA
1 ATAA
428738 CACAGACAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
36 4 0.11
37 33 0.89
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (37 bp):
ATAATAATAATAATAATATAATTATAATATAATAGTT
Found at i:429068 original size:54 final size:54
Alignment explanation
Indices: 428889--429973 Score: 1636
Period size: 54 Copynumber: 20.1 Consensus size: 54
428879 TCTTTGAATA
* * *
428889 AATCTTCTACCTACGGGTTCGCTCCCTATTGCTTCAGGGAGT-AGAACTCGAAT
1 AATCTTCTGCCTACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAAGAACTCGAAC
* *
428942 AATCTTCTGCCTACGAGTTCACTCCCTCTTGCTTCAGGGAGT-AGAACTCGAAC
1 AATCTTCTGCCTACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAAGAACTCGAAC
* * * *
428995 AATCTTCTACCTACGGGTTCACTCCCTCTTGCTTCAAGGAGTAAGAACTCGAAA
1 AATCTTCTGCCTACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAAGAACTCGAAC
* * * *
429049 AATCTTATGCCTACAGGTTCGCTTCCTCTTGCTTCAGGGAGTAAGAACTTGAAC
1 AATCTTCTGCCTACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAAGAACTCGAAC
* * * *
429103 AATATTCTGCCTACGGGTTCCCTCCCTCTTGCTTCAGGGAATAACAACTCGAAC
1 AATCTTCTGCCTACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAAGAACTCGAAC
** * *
429157 AATCTTCTTTCTACGGGTTCTCTCCCTCTTGCTTCAAGGAGTAAGAACTCGAAC
1 AATCTTCTGCCTACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAAGAACTCGAAC
*
429211 AATCTTCTGCCTACGGGTTCGCTCCCTCTTGCATCAGGGAGTAAGAACTCGAAC
1 AATCTTCTGCCTACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAAGAACTCGAAC
429265 AATCTTCTGCCTACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAAGAACTCGAAC
1 AATCTTCTGCCTACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAAGAACTCGAAC
* * *
429319 AATCTTCTGCCTACGGGTTCCCTCCCT-TTGTTTCAGGGAGTAATAACTCGAAC
1 AATCTTCTGCCTACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAAGAACTCGAAC
* * * *
429372 AATCTTCTTCCAACGGGTTCGCTCCCTCTTGCTTCAAGGAGTAACAACTCGAAC
1 AATCTTCTGCCTACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAAGAACTCGAAC
*
429426 AATCTTCTGCCTACGGGTTCGCTCCCTCTTGCATCAGGGAGTAAGAACTCGAAC
1 AATCTTCTGCCTACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAAGAACTCGAAC
*
429480 AATCTTCTGCCTACGGGTTCGCTCCCTCTTGCTTCAGAGAGTAAGAACTCGAAC
1 AATCTTCTGCCTACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAAGAACTCGAAC
* *
429534 AATCTTCTGCCTATGGGTTTGCTCCCTCTTGCTTCAGGGAGTAAGAACTCGAAC
1 AATCTTCTGCCTACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAAGAACTCGAAC
429588 AATCTTCTGCCTACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAAGAACTCGAAC
1 AATCTTCTGCCTACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAAGAACTCGAAC
* * *
429642 AATCTTCTGCCTACGGGTTCGTTCCCTCTTGCTTTAGTGAGTAAGAACTCGAAC
1 AATCTTCTGCCTACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAAGAACTCGAAC
* * ** * * *
429696 AATCTTATTCCTACGGGTTTTCTCCCTCTTGCTTTATGGAGTAAGAACTTGAAC
1 AATCTTCTGCCTACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAAGAACTCGAAC
* * ** *
429750 CATCTTCTGCATACGGGTTTTCTCCCTCTTGCTTCAGGGAGTAAGAACTCAAAC
1 AATCTTCTGCCTACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAAGAACTCGAAC
* **
429804 AATATTCTTTCTACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAAGAACTCGAAC
1 AATCTTCTGCCTACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAAGAACTCGAAC
* * * *
429858 AATCTTGTACCTATGGGTTCGCTCCCTCTTGCTTCAGAGAGTAAGAACTCGAAC
1 AATCTTCTGCCTACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAAGAACTCGAAC
* *
429912 AATCTTCTGCCTACGAGTTCGTTCCCTCTTGCTTCAGGGAGTAAGAACTCGAAC
1 AATCTTCTGCCTACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAAGAACTCGAAC
429966 AATCTTCT
1 AATCTTCT
429974 TTTGCTTCAC
Statistics
Matches: 932, Mismatches: 98, Indels: 3
0.90 0.09 0.00
Matches are distributed among these distances:
53 135 0.14
54 797 0.86
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (54 bp):
AATCTTCTGCCTACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAAGAACTCGAAC
Found at i:430035 original size:37 final size:36
Alignment explanation
Indices: 429974--430055 Score: 94
Period size: 37 Copynumber: 2.2 Consensus size: 36
429964 ACAATCTTCT
* **
429974 TTTGCTTCACAACTTTTTTGTGAAGGCTTCTAG-ATGA
1 TTTGCTTCACAACTCTTTCATGAAGG-TT-TAGTATGA
* *
430011 TTTGCTTCACTACTCTTTCATGAAGGTTTAGTTTGA
1 TTTGCTTCACAACTCTTTCATGAAGGTTTAGTATGA
430047 TTTGCTTCA
1 TTTGCTTCA
430056 ACGGTCGAAC
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
35 3 0.08
36 14 0.36
37 22 0.56
ACGTcount: A:0.20, C:0.17, G:0.17, T:0.46
Consensus pattern (36 bp):
TTTGCTTCACAACTCTTTCATGAAGGTTTAGTATGA
Found at i:441582 original size:26 final size:27
Alignment explanation
Indices: 441545--441602 Score: 100
Period size: 26 Copynumber: 2.2 Consensus size: 27
441535 TCCTCTAGTT
441545 TATTTTGCTGTTTTGATTTT-AAAAAA
1 TATTTTGCTGTTTTGATTTTAAAAAAA
*
441571 TATTTTGTTGTTTTGATTTTAAAAAAA
1 TATTTTGCTGTTTTGATTTTAAAAAAA
441598 TATTT
1 TATTT
441603 ACTAACTTCA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 19 0.63
27 11 0.37
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (27 bp):
TATTTTGCTGTTTTGATTTTAAAAAAA
Found at i:442332 original size:3 final size:3
Alignment explanation
Indices: 442324--442385 Score: 63
Period size: 3 Copynumber: 20.7 Consensus size: 3
442314 TATGTAACAT
* * * *
442324 TAA TAA TAA TAA TAA TAC TAA TAA TAA TGTA TTA TAA T-A TAA TAG
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA
*
442369 TTA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TA
442386 TTATTATTAT
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
2 2 0.04
3 45 0.92
4 2 0.04
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:442374 original size:14 final size:13
Alignment explanation
Indices: 442353--442425 Score: 71
Period size: 14 Copynumber: 5.6 Consensus size: 13
442343 AATAATAATG
442353 TATTATAATATAA
1 TATTATAATATAA
442366 TAGTTATAATAATAA
1 TA-TTATAAT-ATAA
* * *
442381 TAATATTAT-TAT
1 TATTATAATATAA
442393 TATTATAATATAA
1 TATTATAATATAA
442406 T-TT-TAATATAA
1 TATTATAATATAA
442417 TATTTATAA
1 TA-TTATAA
442426 CCCTGACAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
11 9 0.19
12 11 0.23
13 7 0.15
14 15 0.31
15 6 0.12
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (13 bp):
TATTATAATATAA
Found at i:442413 original size:51 final size:48
Alignment explanation
Indices: 442324--442425 Score: 123
Period size: 51 Copynumber: 2.1 Consensus size: 48
442314 TATGTAACAT
*
442324 TAATAATAATAATAATACTAATAATAATGTATTATAATATAATAGTTA
1 TAATAATAATAATAATACTAATAATAATATATTATAATATAATAGTTA
* * * * *
442372 TAATAATAATAATATTATTATTATTATAATATAATTTTAATATAATATTTA
1 TAATAATAATAATAATACTA--ATAATAATAT-ATTATAATATAATAGTTA
442423 TAA
1 TAA
442426 CCCTGACAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
48 18 0.40
50 8 0.18
51 19 0.42
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.45
Consensus pattern (48 bp):
TAATAATAATAATAATACTAATAATAATATATTATAATATAATAGTTA
Found at i:443148 original size:85 final size:84
Alignment explanation
Indices: 442867--443272 Score: 389
Period size: 85 Copynumber: 4.8 Consensus size: 84
442857 TCCCAGCCTA
* **
442867 TTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACCAAA-ACCTTCGAGTTTGATTACATT
1 TTACAGCA-AACTCAAGGCGAGAAGGATTATCTG-CAACCAAAGACCTTCGAGTTTGATTACATT
442931 CAGCTCAAAGGCATATCAAAT
64 CAGCTCAAAGGCATATCAAAT
* * * * * *
442952 TTACGGCATAGCTCAAGGCGAAAAGGGATATATAT-CAACAAAAGACCTTCGAGTTCGATTACAT
1 TTACAGCA-AACTCAAGGCGAGAA-GGAT-TATCTGCAACCAAAGACCTTCGAGTTTGATTACAT
*
443016 TCAGCTCAAAGGCATATCAAAC
63 TCAGCTCAAAGGCATATCAAAT
* * *
443038 TTACAGCATAACTCAAAGCGAGAAGGATTATCTGCAACCAAAGGCCTTCGAGTTTGATTACATTT
1 TTACAGCA-AACTCAAGGCGAGAAGGATTATCTGCAACCAAAGACCTTCGAGTTTGATTACATTC
* *
443103 AGTTCAAAGGCACATCAAAT
65 AGCTCAAAGGCATATCAAAT
* * * * * *
443123 TTATAGCAAACCTCAAGGCGGGAAGGGTTATATGTC-A--AAA-ACCTTCGAGTTCGATTCCATT
1 TTACAGCAAA-CTCAAGGCGAGAAGGATTATCTG-CAACCAAAGACCTTCGAGTTTGATTACATT
* *
443184 CAGCTCAGAGGCATGTCAAAT
64 CAGCTCAAAGGCATATCAAAT
* * * ** *
443205 TTACATCATAGCTCAAGGCAAGAAGGGCTATCTGTCAA-CAAA-A-CTGTCGAGTTTGATTTCAT
1 TTACAGCA-AACTCAAGGCGAGAAGGATTATCTG-CAACCAAAGACCT-TCGAGTTTGATTACAT
443267 TCAGCT
63 TCAGCT
443273 TGATGACATA
Statistics
Matches: 269, Mismatches: 42, Indels: 21
0.81 0.13 0.06
Matches are distributed among these distances:
82 61 0.23
83 7 0.03
84 30 0.11
85 104 0.39
86 63 0.23
87 4 0.01
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.25
Consensus pattern (84 bp):
TTACAGCAAACTCAAGGCGAGAAGGATTATCTGCAACCAAAGACCTTCGAGTTTGATTACATTCA
GCTCAAAGGCATATCAAAT
Found at i:443955 original size:2 final size:2
Alignment explanation
Indices: 443944--443979 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
443934 CTTACACATT
443944 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
443980 TATTTGGTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:445025 original size:8 final size:7
Alignment explanation
Indices: 445011--445121 Score: 51
Period size: 8 Copynumber: 13.9 Consensus size: 7
445001 TATACATATA
445011 TATTTTT
1 TATTTTT
445018 TATGTTTT
1 TAT-TTTT
445026 TATTTTTAT
1 TA-TTTT-T
445035 TATTTTT
1 TATTTTT
*
445042 ACTCTTTTT
1 --TATTTTT
445051 TCATTTTT
1 T-ATTTTT
**
445059 GGTTTTAT
1 TATTTT-T
*
445067 TATTATAT
1 TATT-TTT
445075 TATTATTAT
1 TATT-TT-T
445084 TATTATTAT
1 TATT-TT-T
445093 TATTATTT
1 TATT-TTT
445101 TATTATTT
1 TATT-TTT
445109 TATTTTT
1 TATTTTT
*
445116 TCTTTT
1 TATTTT
445122 GTTTTTCCTA
Statistics
Matches: 86, Mismatches: 9, Indels: 18
0.76 0.08 0.16
Matches are distributed among these distances:
7 17 0.20
8 41 0.48
9 28 0.33
ACGTcount: A:0.20, C:0.04, G:0.03, T:0.74
Consensus pattern (7 bp):
TATTTTT
Found at i:445037 original size:9 final size:9
Alignment explanation
Indices: 445013--445109 Score: 62
Period size: 9 Copynumber: 11.3 Consensus size: 9
445003 TACATATATA
445013 TTTT-TTAT
1 TTTTATTAT
*
445021 GTTT-TTAT
1 TTTTATTAT
445029 TTTTATTAT
1 TTTTATTAT
* *
445038 TTTTACTCT
1 TTTTATTAT
*
445047 TTTT-TCAT
1 TTTTATTAT
*
445055 TTTTGGTT-T
1 TTTT-ATTAT
*
445064 TATTATTA-
1 TTTTATTAT
*
445072 TATTATTAT
1 TTTTATTAT
*
445081 TATTATTAT
1 TTTTATTAT
*
445090 TATTATTA-
1 TTTTATTAT
445098 TTTTATTAT
1 TTTTATTAT
445107 TTT
1 TTT
445110 ATTTTTTCTT
Statistics
Matches: 72, Mismatches: 11, Indels: 11
0.77 0.12 0.12
Matches are distributed among these distances:
8 32 0.44
9 39 0.54
10 1 0.01
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.73
Consensus pattern (9 bp):
TTTTATTAT
Found at i:445071 original size:3 final size:3
Alignment explanation
Indices: 445063--445112 Score: 79
Period size: 3 Copynumber: 17.7 Consensus size: 3
445053 ATTTTTGGTT
445063 TTA TTA TTA -TA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA TTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
445108 TTA TT
1 TTA TT
445113 TTTTCTTTTG
Statistics
Matches: 44, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
2 6 0.14
3 38 0.86
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:445098 original size:26 final size:25
Alignment explanation
Indices: 445063--445112 Score: 82
Period size: 26 Copynumber: 2.0 Consensus size: 25
445053 ATTTTTGGTT
445063 TTATTATTATATTATTATTATTATTA
1 TTATTATTATATTATTATT-TTATTA
*
445089 TTATTATTATTTTATTATTTTATT
1 TTATTATTATATTATTATTTTATT
445113 TTTTCTTTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 5 0.22
26 18 0.78
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (25 bp):
TTATTATTATATTATTATTTTATTA
Found at i:445481 original size:19 final size:19
Alignment explanation
Indices: 445459--445604 Score: 61
Period size: 19 Copynumber: 7.6 Consensus size: 19
445449 ATTATTATCA
445459 TTTTTTTAGTTTTT-TTTTC
1 TTTTTTTA-TTTTTATTTTC
445478 TTTTTTTATTTTTATTTT-
1 TTTTTTTATTTTTATTTTC
* ** * **
445496 TTATCATA-TTTTACTCAC
1 TTTTTTTATTTTTATTTTC
* *
445514 TTTTTCTATCTTTACTTTTC
1 TTTTTTTATTTTTA-TTTTC
*
445534 TCTTTATT-TTTTTATTTTC
1 T-TTTTTTATTTTTATTTTC
* *
445553 TTTATCTCATTTTCT-TTAATTC
1 TTT-TTTTATTTT-TATT--TTC
* *
445575 ATTTGTT-TTTTTATTTTC
1 TTTTTTTATTTTTATTTTC
445593 TTTATTTTATTT
1 TTT-TTTTATTT
445605 ATTTTCATTA
Statistics
Matches: 91, Mismatches: 23, Indels: 25
0.65 0.17 0.18
Matches are distributed among these distances:
17 6 0.07
18 22 0.24
19 28 0.31
20 23 0.25
21 7 0.08
22 5 0.05
ACGTcount: A:0.14, C:0.11, G:0.01, T:0.74
Consensus pattern (19 bp):
TTTTTTTATTTTTATTTTC
Found at i:445598 original size:9 final size:9
Alignment explanation
Indices: 445534--445610 Score: 60
Period size: 9 Copynumber: 9.2 Consensus size: 9
445524 TTTACTTTTC
445534 TCTTTATTT
1 TCTTTATTT
445543 T-TTTATTT
1 TCTTTATTT
445551 TCTTTA---
1 TCTTTATTT
*
445557 TC-TCATTT
1 TCTTTATTT
*
445565 TCTTTA-AT
1 TCTTTATTT
*
445573 TCATTTGTTT
1 TC-TTTATTT
445583 T-TTTATTT
1 TCTTTATTT
445591 TCTTTATTT
1 TCTTTATTT
*
445600 TATTTATTT
1 TCTTTATTT
445609 TC
1 TC
445611 ATTAATTTTT
Statistics
Matches: 52, Mismatches: 8, Indels: 16
0.68 0.11 0.21
Matches are distributed among these distances:
5 2 0.04
6 2 0.04
8 20 0.38
9 26 0.50
10 2 0.04
ACGTcount: A:0.14, C:0.10, G:0.01, T:0.74
Consensus pattern (9 bp):
TCTTTATTT
Found at i:445602 original size:14 final size:14
Alignment explanation
Indices: 445543--445604 Score: 65
Period size: 14 Copynumber: 4.6 Consensus size: 14
445533 CTCTTTATTT
445543 TTTTATTTTCTTTA
1 TTTTATTTTCTTTA
* *
445557 TCTCATTTTCTTTA
1 TTTTATTTTCTTTA
* * *
445571 ATTCA-TTTGTTT-
1 TTTTATTTTCTTTA
445583 TTTTATTTTCTTTA
1 TTTTATTTTCTTTA
445597 TTTTATTT
1 TTTTATTT
445605 ATTTTCATTA
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
12 3 0.08
13 12 0.32
14 23 0.61
ACGTcount: A:0.15, C:0.10, G:0.02, T:0.74
Consensus pattern (14 bp):
TTTTATTTTCTTTA
Found at i:446258 original size:31 final size:31
Alignment explanation
Indices: 446154--446250 Score: 151
Period size: 31 Copynumber: 3.1 Consensus size: 31
446144 CAGTTACGTT
* *
446154 GGGACCATATTGCAAACGGACTAAATGTTGG
1 GGGACCATATTGAAAACGAACTAAATGTTGG
*
446185 GAGACCATATTGAAAAC-ATACTAAATGTTGG
1 GGGACCATATTGAAAACGA-ACTAAATGTTGG
446216 GGGACCATATTGAAAACGAACTAAATGTTGG
1 GGGACCATATTGAAAACGAACTAAATGTTGG
446247 GGGA
1 GGGA
446251 TTGTATTGTA
Statistics
Matches: 60, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
31 59 0.98
32 1 0.02
ACGTcount: A:0.37, C:0.13, G:0.27, T:0.23
Consensus pattern (31 bp):
GGGACCATATTGAAAACGAACTAAATGTTGG
Found at i:447220 original size:30 final size:31
Alignment explanation
Indices: 447143--447217 Score: 123
Period size: 31 Copynumber: 2.4 Consensus size: 31
447133 TTAAAACATA
* *
447143 CAATATAGTCCCCCAACATTTAGTCCATTTT
1 CAATATGGTCCCCCAACATTTAGTCCATTTG
*
447174 CAATATGGTCCCCCAACATTTAGTCCGTTTG
1 CAATATGGTCCCCCAACATTTAGTCCATTTG
447205 CAATATGGTCCCC
1 CAATATGGTCCCC
447218 AACGTAATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.25, C:0.31, G:0.12, T:0.32
Consensus pattern (31 bp):
CAATATGGTCCCCCAACATTTAGTCCATTTG
Found at i:447303 original size:30 final size:31
Alignment explanation
Indices: 447226--447303 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
447216 CCAACGTAAT
*
447226 TATTAGGGGACCATATTGCAAATGGACTAAA
1 TATTAGGGGACCATATTGCAAACGGACTAAA
447257 TATTAGGGGACCATATTGCAAACGGACTAAA
1 TATTAGGGGACCATATTGCAAACGGACTAAA
*
447288 TATTA-GGGACTATATT
1 TATTAGGGGACCATATT
447304 ATAAGTTTTA
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
30 10 0.22
31 35 0.78
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.28
Consensus pattern (31 bp):
TATTAGGGGACCATATTGCAAACGGACTAAA
Found at i:448377 original size:3 final size:3
Alignment explanation
Indices: 448369--448445 Score: 145
Period size: 3 Copynumber: 25.7 Consensus size: 3
448359 TTTTTATCCA
448369 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
448417 TAT TAT TAT CAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
448446 AATACATATT
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 72 1.00
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:449833 original size:20 final size:21
Alignment explanation
Indices: 449794--449834 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
449784 GTATATTTTC
* *
449794 TTTTATTATATTGATTAATAT
1 TTTTATTATATTCATAAATAT
449815 TTTTA-TATATTCATAAATAT
1 TTTTATTATATTCATAAATAT
449835 ATATAATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (21 bp):
TTTTATTATATTCATAAATAT
Found at i:457644 original size:12 final size:13
Alignment explanation
Indices: 457620--457644 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
457610 GCAATCATTC
457620 TTTACATTTTTTT
1 TTTACATTTTTTT
457633 TTTACATTTTTT
1 TTTACATTTTTT
457645 ACATTTATTT
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:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTACATTTTTTT
Found at i:459062 original size:83 final size:83
Alignment explanation
Indices: 458923--459941 Score: 1835
Period size: 83 Copynumber: 12.4 Consensus size: 83
458913 TTATTAAGTA
458923 TGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAATTTAGAAGATGAA
1 TGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAATTTAGAAGATGAA
458988 TTTGCCAATAGCATCTTC
66 TTTGCCAATAGCATCTTC
* *
459006 TGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAAAACCAATCATTGAGTTTAGAAGATGAA
1 TGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAATTTAGAAGATGAA
*
459071 TTTGCCAATAGTATCTTC
66 TTTGCCAATAGCATCTTC
459089 TGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA-CAATCATTGAATTTAGAAGATGAA
1 TGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAATTTAGAAGATGAA
*
459153 TGTGCTC-ATAGCATCTTC
66 TTTGC-CAATAGCATCTTC
459171 TGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAATTTAGAAGATGAA
1 TGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAATTTAGAAGATGAA
459236 TTTGCC-AT---ATCTT-
66 TTTGCCAATAGCATCTTC
459249 TGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA-CAATCATTGAATTTAGAAGATGAA
1 TGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAATTTAGAAGATGAA
*
459313 TGTGCCAATAGCATCTTC
66 TTTGCCAATAGCATCTTC
459331 TGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAATTTAGAAGATGAA
1 TGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAATTTAGAAGATGAA
*
459396 TTTGCCAATAGTATCTTC
66 TTTGCCAATAGCATCTTC
*
459414 TGGAAGTGTTCTTTGAGTTATCTGATCTAGTTGGACAGAA-CAATCATTGAATTTAGAAGATGAA
1 TGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAATTTAGAAGATGAA
*
459478 TGTGCTC-ATAGCATCTTC
66 TTTGC-CAATAGCATCTTC
459496 TGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA-CAATCATTGAATTTAGAAGATGAA
1 TGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAATTTAGAAGATGAA
459560 TTTGCCAATAGCATCTTC
66 TTTGCCAATAGCATCTTC
459578 TGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAATTTAGAAGATGAA
1 TGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAATTTAGAAGATGAA
459643 TTTGCCAATAGCATCTTC
66 TTTGCCAATAGCATCTTC
459661 TGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAATTTAGAAGATGAA
1 TGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAATTTAGAAGATGAA
459726 TTTGCCAATAGCATCTTC
66 TTTGCCAATAGCATCTTC
459744 TGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAATTTAGAAGATGAA
1 TGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAATTTAGAAGATGAA
459809 TTTGCCAATAGCATCTTC
66 TTTGCCAATAGCATCTTC
* *
459827 TGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAAAACCAATCATTGAGTTTAGAAGATGAA
1 TGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAATTTAGAAGATGAA
*
459892 TTTACCAATAGCATCTTC
66 TTTGCCAATAGCATCTTC
*
459910 TGGAATTGTTCTTTGAGTTATCTGATCTGGTT
1 TGGAAGTGTTCTTTGAGTTATCTGATCTGGTT
459942 TGGTAAGAAC
Statistics
Matches: 905, Mismatches: 20, Indels: 22
0.96 0.02 0.02
Matches are distributed among these distances:
77 29 0.03
78 42 0.05
79 5 0.01
81 6 0.01
82 276 0.30
83 547 0.60
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.36
Consensus pattern (83 bp):
TGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAATTTAGAAGATGAA
TTTGCCAATAGCATCTTC
Found at i:459168 original size:165 final size:166
Alignment explanation
Indices: 458923--459941 Score: 1835
Period size: 165 Copynumber: 6.2 Consensus size: 166
458913 TTATTAAGTA
458923 TGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAATTTAGAAGATGAA
1 TGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAATTTAGAAGATGAA
* *
458988 TTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAAAACCAATCA
66 TGTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCA
* *
459053 TTGAGTTTAGAAGATGAATTTGCCAATAGTATCTTC
131 TTGAATTTAGAAGATGAATTTGCCAATAGCATCTTC
459089 TGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA-CAATCATTGAATTTAGAAGATGAA
1 TGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAATTTAGAAGATGAA
459153 TGTGCTC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATC
66 TGTGC-CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATC
459217 ATTGAATTTAGAAGATGAATTTGCC-AT---ATCTT-
130 ATTGAATTTAGAAGATGAATTTGCCAATAGCATCTTC
459249 TGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA-CAATCATTGAATTTAGAAGATGAA
1 TGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAATTTAGAAGATGAA
459313 TGTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCA
66 TGTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCA
*
459378 TTGAATTTAGAAGATGAATTTGCCAATAGTATCTTC
131 TTGAATTTAGAAGATGAATTTGCCAATAGCATCTTC
*
459414 TGGAAGTGTTCTTTGAGTTATCTGATCTAGTTGGACAGAA-CAATCATTGAATTTAGAAGATGAA
1 TGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAATTTAGAAGATGAA
459478 TGTGCTC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA-CAATC
66 TGTGC-CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATC
459541 ATTGAATTTAGAAGATGAATTTGCCAATAGCATCTTC
130 ATTGAATTTAGAAGATGAATTTGCCAATAGCATCTTC
459578 TGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAATTTAGAAGATGAA
1 TGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAATTTAGAAGATGAA
*
459643 TTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCA
66 TGTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCA
459708 TTGAATTTAGAAGATGAATTTGCCAATAGCATCTTC
131 TTGAATTTAGAAGATGAATTTGCCAATAGCATCTTC
459744 TGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAATTTAGAAGATGAA
1 TGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAATTTAGAAGATGAA
* *
459809 TTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAAAACCAATCA
66 TGTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCA
* *
459874 TTGAGTTTAGAAGATGAATTTACCAATAGCATCTTC
131 TTGAATTTAGAAGATGAATTTGCCAATAGCATCTTC
*
459910 TGGAATTGTTCTTTGAGTTATCTGATCTGGTT
1 TGGAAGTGTTCTTTGAGTTATCTGATCTGGTT
459942 TGGTAAGAAC
Statistics
Matches: 831, Mismatches: 11, Indels: 22
0.96 0.01 0.03
Matches are distributed among these distances:
159 1 0.00
160 151 0.18
161 7 0.01
164 88 0.11
165 306 0.37
166 278 0.33
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.36
Consensus pattern (166 bp):
TGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAATTTAGAAGATGAA
TGTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCA
TTGAATTTAGAAGATGAATTTGCCAATAGCATCTTC
Found at i:460852 original size:113 final size:113
Alignment explanation
Indices: 460638--460935 Score: 481
Period size: 113 Copynumber: 2.6 Consensus size: 113
460628 GATTCAAATC
** **
460638 CATCACTTGATGGAGCAGCTTTGCCAG-GAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGA
1 CATCACTTGATGGATTATTTTTGCCAGAGAAG-GTTCATAATGAGAAGAA--C-TCATCTGAAGA
*
460702 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATT
62 AGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATT
460754 CATCACTTGATGGATTATTTTTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCACTTGATGGATTATTTTTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
460819 AGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATT
66 AGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATT
* * *
460867 CATCAATTGATGGATTATTTTTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTAAAGAAAGA
1 CATCACTTGATGGATTATTTTTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
460932 AGAA
66 AGAA
460936 TTTGTTCAAC
Statistics
Matches: 173, Mismatches: 8, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
113 128 0.74
114 1 0.01
116 40 0.23
117 4 0.02
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.28
Consensus pattern (113 bp):
CATCACTTGATGGATTATTTTTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
AGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATT
Found at i:460975 original size:93 final size:93
Alignment explanation
Indices: 460836--461027 Score: 357
Period size: 93 Copynumber: 2.1 Consensus size: 93
460826 ATTCATAATG
460836 AGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAATTGATGGATTATTTTTGCCAGAGAAGGT
1 AGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAATTGATGGATTATTTTTGCCAGAGAAGGT
460901 TCATAATGAGAAGAACTCATCTAAAGAA
66 TCATAATGAGAAGAACTCATCTAAAGAA
*
460929 AGAAGAATTTGTTCAACCTTTTACCTGAATTCATCACTTGATGGATTATTTTTGCCAGAGAAGGT
1 AGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAATTGATGGATTATTTTTGCCAGAGAAGGT
*
460994 TCATAATGAGAAGAACTCATCTGAAGAA
66 TCATAATGAGAAGAACTCATCTAAAGAA
*
461022 GGAAGA
1 AGAAGA
461028 GAAATTCATA
Statistics
Matches: 96, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 96 1.00
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.31
Consensus pattern (93 bp):
AGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAATTGATGGATTATTTTTGCCAGAGAAGGT
TCATAATGAGAAGAACTCATCTAAAGAA
Done.