Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold72
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: 5928628
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 261288 characters in sequence are not A, C, G, or T
File 11 of 39
Found at i:1402021 original size:13 final size:13
Alignment explanation
Indices: 1402003--1402028 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1401993 CAATTTTTTG
1402003 TGTATCGATACAT
1 TGTATCGATACAT
1402016 TGTATCGATACAT
1 TGTATCGATACAT
1402029 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1402040 original size:32 final size:33
Alignment explanation
Indices: 1401983--1402046 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
1401973 TACAAGCCAA
**
1401983 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
1402016 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
1402047 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:1408357 original size:89 final size:89
Alignment explanation
Indices: 1407737--1408356 Score: 774
Period size: 89 Copynumber: 7.0 Consensus size: 89
1407727 TATGTGGTAT
* * * *
1407737 CATTAGTCAAATATTTTTCATTGTGTTAGAAGGAATCTGATACCCGCATACATCCGTCACATCTT
1 CATTAGTCAAATATTTTTCATTGTGTCAGAAGGAATCTGATACCCACATGCATCTGTCACATCTT
* *
1407802 TCGAGTTTCAAGAAATTTATTAGG
66 TCGGGTTTCAAGAATTTTATTAGG
** * * * * *
1407826 CATTAGTCAAATATTTTTTGTTGTGTCAGAAAGAATCTGATACCCAAATGTATTTGTCACATCCT
1 CATTAGTCAAATATTTTTCATTGTGTCAGAAGGAATCTGATACCCACATGCATCTGTCACATCTT
** * *
1407891 TCAAGTTTTAAGAAATTTATTAGG
66 TCGGGTTTCAAGAATTTTATTAGG
* ** * * * * * *
1407915 CATTAATCAAATATTTTTCATCATTTAAGAAGGAATCTGACACTCATATGCATCTGTCAAATCTT
1 CATTAGTCAAATATTTTTCATTGTGTCAGAAGGAATCTGATACCCACATGCATCTGTCACATCTT
* *
1407980 TCGGGTTCCAAGAAATTTATTAGG
66 TCGGGTTTCAAGAATTTTATTAGG
* *
1408004 CATTAGTCAAATATTTTTCGTTATGTCAGAAGGAATCTGATACCCACATGCATCTGTCACATCTT
1 CATTAGTCAAATATTTTTCATTGTGTCAGAAGGAATCTGATACCCACATGCATCTGTCACATCTT
*
1408069 TCGGGTTCCAAGAATTTTATTAGG
66 TCGGGTTTCAAGAATTTTATTAGG
* * * * * *
1408093 TATTAGTTAAATATTTTTC-TTCGTGTTAGAAGGAATCTGATACTCATATGCATCTTTCACATCT
1 CATTAGTCAAATATTTTTCATT-GTGTCAGAAGGAATCTGATACCCACATGCATCTGTCACATCT
* *
1408157 TTTGGGTTTTAAGAATTTTATTAGG
65 TTCGGGTTTCAAGAATTTTATTAGG
* * *
1408182 CATTAGTCAAATATTTTTCATTGTGTTAGAAGGAATCTAATACCCACATGCATTTGTCACATCTT
1 CATTAGTCAAATATTTTTCATTGTGTCAGAAGGAATCTGATACCCACATGCATCTGTCACATCTT
* *
1408247 TCGGGTTTCAAGAATTTTATTTGA
66 TCGGGTTTCAAGAATTTTATTAGG
* * *
1408271 TATTAGTTAAATATTTTTCATCGTGTCAGAAGGAATCTGATACCCACATGCATCTGTCACATCTT
1 CATTAGTCAAATATTTTTCATTGTGTCAGAAGGAATCTGATACCCACATGCATCTGTCACATCTT
* * *
1408336 TTGAGTTCCAAGAATTTTATT
66 TCGGGTTTCAAGAATTTTATT
1408357 TTATTAGAAC
Statistics
Matches: 457, Mismatches: 72, Indels: 4
0.86 0.14 0.01
Matches are distributed among these distances:
88 2 0.00
89 453 0.99
90 2 0.00
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.39
Consensus pattern (89 bp):
CATTAGTCAAATATTTTTCATTGTGTCAGAAGGAATCTGATACCCACATGCATCTGTCACATCTT
TCGGGTTTCAAGAATTTTATTAGG
Found at i:1408505 original size:19 final size:19
Alignment explanation
Indices: 1408481--1408545 Score: 53
Period size: 19 Copynumber: 3.4 Consensus size: 19
1408471 TAAATAAATT
1408481 ATAAATTGAAAAGTTTTAA
1 ATAAATTGAAAAGTTTTAA
* ** *
1408500 ATAAATTATAAAAAATTGAA
1 ATAAATT-GAAAAGTTTTAA
1408520 A-AAA-TGAAAAAAGTTTTAA
1 ATAAATTG--AAAAGTTTTAA
1408539 ATAAATT
1 ATAAATT
1408546 ATAAAAAAAT
Statistics
Matches: 33, Mismatches: 8, Indels: 8
0.67 0.16 0.16
Matches are distributed among these distances:
18 1 0.03
19 19 0.58
20 12 0.36
21 1 0.03
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (19 bp):
ATAAATTGAAAAGTTTTAA
Found at i:1409167 original size:13 final size:13
Alignment explanation
Indices: 1409145--1409196 Score: 53
Period size: 13 Copynumber: 4.5 Consensus size: 13
1409135 GATACATGGC
1409145 ACATTGTATCGAT
1 ACATTGTATCGAT
*
1409158 ACATTTTATCGAT
1 ACATTGTATCGAT
1409171 ACA-TG-AT-G--
1 ACATTGTATCGAT
1409179 A-ATTGTATCGAT
1 ACATTGTATCGAT
1409191 ACATTG
1 ACATTG
1409197 CTTCAAACGG
Statistics
Matches: 31, Mismatches: 2, Indels: 12
0.69 0.04 0.27
Matches are distributed among these distances:
7 1 0.03
8 3 0.10
9 2 0.06
10 2 0.06
11 2 0.06
12 2 0.06
13 19 0.61
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.38
Consensus pattern (13 bp):
ACATTGTATCGAT
Found at i:1409173 original size:33 final size:32
Alignment explanation
Indices: 1409131--1409195 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 32
1409121 TCACTGTTTC
1409131 TATCGATACATG-GCACATTGTATCGATACATTT
1 TATCGATACATGAG-A-ATTGTATCGATACATTT
1409164 TATCGATACATGATGAATTGTATCGATACATT
1 TATCGATACATGA-GAATTGTATCGATACATT
1409196 GCTTCAAACG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
33 28 0.93
34 1 0.03
35 1 0.03
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.37
Consensus pattern (32 bp):
TATCGATACATGAGAATTGTATCGATACATTT
Found at i:1417882 original size:13 final size:13
Alignment explanation
Indices: 1417864--1417890 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1417854 ACATTATGCT
1417864 TTGTATCGATACA
1 TTGTATCGATACA
1417877 TTGTATCGATACA
1 TTGTATCGATACA
1417890 T
1 T
1417891 ATTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1417899 original size:19 final size:19
Alignment explanation
Indices: 1417874--1417928 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
1417864 TTGTATCGAT
*
1417874 ACATTGTATCGATACATAT
1 ACATTGTATCGATACATAG
* * *
1417893 TCATTGTA-CGACACATGG
1 ACATTGTATCGATACATAG
1417911 ACAATTGTATCGATACAT
1 AC-ATTGTATCGATACAT
1417929 GAAACTTGCA
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
18 8 0.29
19 13 0.46
20 7 0.25
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.33
Consensus pattern (19 bp):
ACATTGTATCGATACATAG
Found at i:1417997 original size:13 final size:13
Alignment explanation
Indices: 1417975--1418004 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
1417965 GATACATGGC
1417975 ACATTGTATCGAT
1 ACATTGTATCGAT
*
1417988 ACATTTTATCGAT
1 ACATTGTATCGAT
1418001 ACAT
1 ACAT
1418005 GATGAATTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.40
Consensus pattern (13 bp):
ACATTGTATCGAT
Found at i:1419633 original size:20 final size:19
Alignment explanation
Indices: 1419605--1419648 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
1419595 CAACTATTAG
*
1419605 TTTTTTCTTTTTTATAATC
1 TTTTTTCTTTATTATAATC
*
1419624 TTTTTATCTTTATTATAATG
1 TTTTT-TCTTTATTATAATC
1419644 TTTTT
1 TTTTT
1419649 GATGATGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.18, C:0.07, G:0.02, T:0.73
Consensus pattern (19 bp):
TTTTTTCTTTATTATAATC
Found at i:1420988 original size:21 final size:20
Alignment explanation
Indices: 1420954--1420993 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
1420944 TTAAAATTAT
1420954 TATTATTATAAAGATATTTTC
1 TATTATTATAAAGA-ATTTTC
1420975 TATTATTA-ATAAGAATTTT
1 TATTATTATA-AAGAATTTT
1420994 AGTAATTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.53
Consensus pattern (20 bp):
TATTATTATAAAGAATTTTC
Found at i:1422443 original size:17 final size:17
Alignment explanation
Indices: 1422421--1422475 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 17
1422411 TTACTACTAT
1422421 AATATATATATTGAAAA
1 AATATATATATTGAAAA
* *
1422438 AATATATTTATTTATAAA
1 AATATATATATTGA-AAA
* *
1422456 ATTTTATATATTGAATAA
1 AATATATATATTGAA-AA
1422474 AA
1 AA
1422476 AATTACACAT
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
17 13 0.45
18 16 0.55
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.44
Consensus pattern (17 bp):
AATATATATATTGAAAA
Found at i:1428169 original size:20 final size:20
Alignment explanation
Indices: 1428146--1428194 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
1428136 TTTAAGTGAA
1428146 TTAAATATATTTTATTA-TTT
1 TTAAATATATTTT-TTATTTT
1428166 TTAAAT-TAATTTTTTATTTT
1 TTAAATAT-ATTTTTTATTTT
1428186 TTAAATATA
1 TTAAATATA
1428195 CCGAATATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
19 4 0.15
20 21 0.81
21 1 0.04
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
TTAAATATATTTTTTATTTT
Found at i:1432310 original size:21 final size:22
Alignment explanation
Indices: 1432277--1432321 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
1432267 TATTTTATGA
** *
1432277 AAAATTACTTTTAA-AAATATT
1 AAAATTAAATTTAATAAAAATT
1432298 AAAATTAAATTTAATAAAAATT
1 AAAATTAAATTTAATAAAAATT
1432320 AA
1 AA
1432322 TTTTTTTGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (22 bp):
AAAATTAAATTTAATAAAAATT
Found at i:1434109 original size:69 final size:68
Alignment explanation
Indices: 1433998--1434134 Score: 229
Period size: 69 Copynumber: 2.0 Consensus size: 68
1433988 GAAATGTGAG
* *
1433998 CACTTCAAATAGTATATGGCCTATAATTCTTGTGTTATAGTATCTTTTACTTTGGAGTTAAATGA
1 CACTTCAAATAGCATATGGCCTATAATTCTTGTGTTATAGTATCTTTTACTTTAGAGTTAAAT-A
1434063 AAAA
65 AAAA
* *
1434067 CACTTCAAATAGCATATGGCTTATAATTCTTGTGTTATAGTATCTTTTACTTTAGAGTTATATAA
1 CACTTCAAATAGCATATGGCCTATAATTCTTGTGTTATAGTATCTTTTACTTTAGAGTTAAATAA
1434132 AAA
66 AAA
1434135 GCCTTCTTAA
Statistics
Matches: 64, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
68 5 0.08
69 59 0.92
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.42
Consensus pattern (68 bp):
CACTTCAAATAGCATATGGCCTATAATTCTTGTGTTATAGTATCTTTTACTTTAGAGTTAAATAA
AAA
Found at i:1439328 original size:31 final size:32
Alignment explanation
Indices: 1439261--1439361 Score: 107
Period size: 32 Copynumber: 3.2 Consensus size: 32
1439251 TAAAAAAAGA
* *
1439261 TGACTAGGGCAAAACTTATTGGTCAAAAGGAT-
1 TGACTAGGGCAAAACCTATTGGTCAAGA-GATG
1439293 TGACTAGGGCAAAACCTATT-GTCAAGAGATG
1 TGACTAGGGCAAAACCTATTGGTCAAGAGATG
* *** * *
1439324 TGACTAAGATGAAACCTATTGGTCAAGAAAGG
1 TGACTAGGGCAAAACCTATTGGTCAAGAGATG
1439356 TGACTA
1 TGACTA
1439362 AAGCAAAATC
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
30 3 0.05
31 22 0.37
32 34 0.58
ACGTcount: A:0.38, C:0.14, G:0.25, T:0.24
Consensus pattern (32 bp):
TGACTAGGGCAAAACCTATTGGTCAAGAGATG
Found at i:1439732 original size:31 final size:31
Alignment explanation
Indices: 1439618--1439742 Score: 92
Period size: 31 Copynumber: 3.9 Consensus size: 31
1439608 AATGATTAGG
* *
1439618 GCGAAACCTATTAGTTAAAGAAGATGACT-AC
1 GCGAAACCTATTAG-TCAAGAAAATGACTAAC
* * * *
1439649 AACAAAACCTATTAGTCGAGAAAATGACTAAG
1 -GCGAAACCTATTAGTCAAGAAAATGACTAAC
* * *
1439681 GCG-AACCTATTAACTAAAGAACATGACTAAC
1 GCGAAACCTATT-AGTCAAGAAAATGACTAAC
* *
1439712 GTGAAACCAATTAGTCAAGAAGAATTGACTA
1 GCGAAACCTATTAGTCAAGAA-AA-TGACTA
1439743 TGGTAAAACC
Statistics
Matches: 70, Mismatches: 18, Indels: 9
0.72 0.19 0.09
Matches are distributed among these distances:
30 8 0.11
31 35 0.50
32 21 0.30
33 6 0.09
ACGTcount: A:0.46, C:0.17, G:0.17, T:0.21
Consensus pattern (31 bp):
GCGAAACCTATTAGTCAAGAAAATGACTAAC
Found at i:1439752 original size:33 final size:31
Alignment explanation
Indices: 1439715--1439828 Score: 115
Period size: 33 Copynumber: 3.6 Consensus size: 31
1439705 GACTAACGTG
* *
1439715 AAACCAATTAGTCAAGAAGAATTGACTATGGTA
1 AAACCTATTAGTCAA-AAGAATTGACTA-GGCA
* * *
1439748 AAACCTATTAGT-AAAA-AAATAATTAGGCA
1 AAACCTATTAGTCAAAAGAATTGACTAGGCA
* *
1439777 AAACCTATTAGTTGAGAAGAATTGACTAGGACA
1 AAACCTATTAG-TCAAAAGAATTGACTAGG-CA
1439810 AAACCTATTAGTCAAAAGA
1 AAACCTATTAGTCAAAAGA
1439829 TCATGGGGTA
Statistics
Matches: 66, Mismatches: 11, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
29 14 0.21
30 7 0.11
31 5 0.08
32 16 0.24
33 24 0.36
ACGTcount: A:0.48, C:0.12, G:0.16, T:0.24
Consensus pattern (31 bp):
AAACCTATTAGTCAAAAGAATTGACTAGGCA
Found at i:1441259 original size:26 final size:26
Alignment explanation
Indices: 1441230--1441281 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
1441220 CAATCTCGAA
*
1441230 GTATTTAAGTTTGTTCAAGACTACTC
1 GTATTTAAGTTTGTTCAAAACTACTC
1441256 GTATTTAAGTTTGTTCAAAACTACTC
1 GTATTTAAGTTTGTTCAAAACTACTC
1441282 TTTTTGAGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.29, C:0.15, G:0.13, T:0.42
Consensus pattern (26 bp):
GTATTTAAGTTTGTTCAAAACTACTC
Found at i:1443548 original size:234 final size:228
Alignment explanation
Indices: 1443108--1443560 Score: 554
Period size: 234 Copynumber: 2.0 Consensus size: 228
1443098 GTCTATTCAT
* * *
1443108 ATGTTAGATTTTAGTTAGAAAAGTTCGCATAAAGGGCCACGAGATATGGGATGAACCTACTGAGG
1 ATGTTAGATTTTAGTTAGAAAAGTTCACATAAAGGGCCACGAAATATGGGATGAACCTACCGAGG
* * * * * * *
1443173 TCGTTAAATGATTAAAGGAGTGATGACTTATTTGAATGGATTTGCTTGCTTTCTTGACTCTCTAT
66 TAGTTAAATGATAAAAGGAGTGAAGACATATTCGAATGGATTTGCGTGCTTTCTTGACTCTCGAT
* * * * * *
1443238 GGTCATGGCTTTCATCGATTATTAGAATTTTGATGGCATTTATTGATAGGATCACTTTTTTGTCC
131 GGTCATGGCTTCCATCGATTAGTAGAATTTTGA-GGCATTTATTGATAGAATCACCTTCTCGTCC
*
1443303 TATATATGCCACCTGAAAAAGCAAGTCTATTTGC
195 TATACATGCCACCTGAAAAAGCAAGTCTATTTGC
* * *
1443337 ATGTTAGAATTTTAAGTTGGAAAAGTTCATATAAAGGGCCACGAAATATAGGGATGGACCTACCG
1 ATGTTAG-ATTTT-AGTTAGAAAAGTTCACATAAAGGGCCACGAAATAT-GGGATGAACCTACCG
*
1443402 AGGTAGTTAAATGATAAAGTTAGAGAGTGAAGACATATTCGAATGGATTTTCGTGCTTTCTTGAC
63 AGGTAGTTAAATGATAAA---AG-GAGTGAAGACATATTCGAATGGATTTGCGTGCTTTCTTGAC
* * *
1443467 TCTTTCGATGGTCTTGGCTTCCGTCGATT-GT-GACTTATT-A-GCATTTATTGATAGAATCACC
124 TC--TCGATGGTCATGGCTTCCATCGATTAGTAGAATT-TTGAGGCATTTATTGATAGAATCACC
*
1443528 TTCTCGTCCTATGCATGCCACCTGAAAAAGCAA
186 TTCTCGTCCTATACATGCCACCTGAAAAAGCAA
1443561 ACAATATGTA
Statistics
Matches: 189, Mismatches: 25, Indels: 15
0.83 0.11 0.07
Matches are distributed among these distances:
229 7 0.04
230 5 0.03
231 31 0.16
232 29 0.15
234 48 0.25
235 2 0.01
236 43 0.23
237 3 0.02
238 21 0.11
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.34
Consensus pattern (228 bp):
ATGTTAGATTTTAGTTAGAAAAGTTCACATAAAGGGCCACGAAATATGGGATGAACCTACCGAGG
TAGTTAAATGATAAAAGGAGTGAAGACATATTCGAATGGATTTGCGTGCTTTCTTGACTCTCGAT
GGTCATGGCTTCCATCGATTAGTAGAATTTTGAGGCATTTATTGATAGAATCACCTTCTCGTCCT
ATACATGCCACCTGAAAAAGCAAGTCTATTTGC
Found at i:1445394 original size:8 final size:8
Alignment explanation
Indices: 1445381--1445427 Score: 67
Period size: 8 Copynumber: 5.9 Consensus size: 8
1445371 ACATGTATGT
1445381 ATAAATGA
1 ATAAATGA
1445389 ATAAATGA
1 ATAAATGA
1445397 ATAAATGA
1 ATAAATGA
*
1445405 ATAATTGA
1 ATAAATGA
* *
1445413 ATAAGTAA
1 ATAAATGA
1445421 ATAAATG
1 ATAAATG
1445428 TGGTAACGTT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
8 34 1.00
ACGTcount: A:0.60, C:0.00, G:0.13, T:0.28
Consensus pattern (8 bp):
ATAAATGA
Found at i:1445524 original size:30 final size:30
Alignment explanation
Indices: 1445490--1445547 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
1445480 AATATTGAAA
**
1445490 AAAATAATTTTGTAAATAGGTTTTTTTTGT
1 AAAATAATTTTCAAAATAGGTTTTTTTTGT
* *
1445520 AAAATATTTTTCAAAATAGTTTTTTTTT
1 AAAATAATTTTCAAAATAGGTTTTTTTT
1445548 ATGAATACGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.34, C:0.02, G:0.09, T:0.55
Consensus pattern (30 bp):
AAAATAATTTTCAAAATAGGTTTTTTTTGT
Found at i:1445782 original size:27 final size:26
Alignment explanation
Indices: 1445715--1445788 Score: 80
Period size: 27 Copynumber: 2.8 Consensus size: 26
1445705 TTTTTTATAA
*
1445715 ATTAATTAAATTTAATAAATAATAATT
1 ATTAATTAATTTTAATAAA-AATAATT
*
1445742 ATTAATTATTTTTTAATAAAAATAA-T
1 ATTAATTA-ATTTTAATAAAAATAATT
1445768 ATTTAATTAACTTTTAA-AAAA
1 A-TTAATTAA-TTTTAATAAAA
1445789 TTTACATTAA
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
26 6 0.15
27 26 0.63
28 9 0.22
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (26 bp):
ATTAATTAATTTTAATAAAAATAATT
Found at i:1445880 original size:21 final size:21
Alignment explanation
Indices: 1445856--1445923 Score: 55
Period size: 23 Copynumber: 3.1 Consensus size: 21
1445846 AGCGTTTATT
1445856 ATTATTTTTTAATAAATTAAA
1 ATTATTTTTTAATAAATTAAA
* * *
1445877 ATTAATATTTAATTAATTTTAAA
1 ATTATTTTTTAA-TAA-ATTAAA
** *
1445900 AAAATTATATTAATAAATTAAA
1 ATTATT-TTTTAATAAATTAAA
1445922 AT
1 AT
1445924 ATTAATTATT
Statistics
Matches: 34, Mismatches: 10, Indels: 5
0.69 0.20 0.10
Matches are distributed among these distances:
21 10 0.29
22 9 0.26
23 11 0.32
24 4 0.12
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
ATTATTTTTTAATAAATTAAA
Found at i:1445916 original size:114 final size:109
Alignment explanation
Indices: 1445740--1445974 Score: 343
Period size: 114 Copynumber: 2.1 Consensus size: 109
1445730 TAAATAATAA
*
1445740 TTATTAATTATTTTTTAATAAAAATAATATTTAATTAACTTTTAAAAAATTTACATTAATAAATT
1 TTATTAATTATTTTTTAATAAAAATAATATTTAATTAACTTTTAAAAAAATTACATTAATAAATT
1445805 AAAATATTAATTATTTTTTAAAATAAAAAATTAAATTAAAAAGCGT
66 AAAATATTAATTATTTTTT-AAATAAAAAATT-AATTAAAAAGCGT
*
1445851 TTATT-ATTATTTTTTAATAAATTAAAATTAATATTTAATTAA-TTTTAAAAAAATTATATTAAT
1 TTATTAATTATTTTTTAAT--A--AAAA-TAATATTTAATTAACTTTTAAAAAAATTACATTAAT
1445914 AAATTAAAATATTAATTATTTTTTAAATAAAAAATTAATT-AAAAG-GAT
61 AAATTAAAATATTAATTATTTTTTAAATAAAAAATTAATTAAAAAGCG-T
1445962 TTATTATATTATT
1 TTATTA-ATTATT
1445975 ATTATTATTA
Statistics
Matches: 114, Mismatches: 2, Indels: 14
0.88 0.02 0.11
Matches are distributed among these distances:
110 14 0.12
111 16 0.14
112 5 0.04
113 18 0.16
114 47 0.41
115 14 0.12
ACGTcount: A:0.50, C:0.01, G:0.02, T:0.47
Consensus pattern (109 bp):
TTATTAATTATTTTTTAATAAAAATAATATTTAATTAACTTTTAAAAAAATTACATTAATAAATT
AAAATATTAATTATTTTTTAAATAAAAAATTAATTAAAAAGCGT
Found at i:1445974 original size:3 final size:3
Alignment explanation
Indices: 1445962--1446001 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
1445952 TTAAAAGGAT
1445962 TTA TTA -TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1446002 TTTAATTTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:1446165 original size:23 final size:23
Alignment explanation
Indices: 1446139--1446216 Score: 79
Period size: 23 Copynumber: 3.3 Consensus size: 23
1446129 TTAATTAAAT
1446139 TTAAAAAAATTTACATTAACAAA
1 TTAAAAAAATTTACATTAACAAA
* **
1446162 TTAAAAAAA-TAACATTTAAGGAA
1 TTAAAAAAATTTACA-TTAACAAA
*
1446185 TTAAAAAAATTTATCATTATTCAAA
1 TTAAAAAAATTTA-CATTA-ACAAA
1446210 -TAAAAAA
1 TTAAAAAA
1446217 CCCTCTATTC
Statistics
Matches: 44, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
22 4 0.09
23 24 0.55
24 12 0.27
25 4 0.09
ACGTcount: A:0.60, C:0.06, G:0.03, T:0.31
Consensus pattern (23 bp):
TTAAAAAAATTTACATTAACAAA
Found at i:1446678 original size:123 final size:122
Alignment explanation
Indices: 1446506--1446857 Score: 413
Period size: 123 Copynumber: 2.9 Consensus size: 122
1446496 TAAAAAACTT
**
1446506 TTTTTAATTAATTTTTTTA--AAAAAAACATAATAATTAATATTTTAATTTGTTAATGCAAATTT
1 TTTTTAA-TAATTTTTTTATTTTAAAAACAT-ATAATTAATATTTTAATTTGTTAAT--AAATTT
* *
1446569 TTTAAACTTAATTAAATATTATATTTATTTTATTAAAAATTATAATA-AAAAACTTTTTTA
62 TTTAAACTTAATTAAATATTATATTTATTTTATTAAAAATAATAATATAAAAACCTTTTTA
1446629 -TTTTAA-AATTTTTATT-TTTATAAAAACATAGTAATTAATATTTTAATTTGTTAATATAATTT
1 TTTTTAATAATTTTT-TTATTT-TAAAAACATA-TAATTAATATTTTAATTTGTTAATA-AATTT
* * *
1446691 TTTAAACTTAATTAAATATTATTTTTAATTTTATTAAAAAATAATAATATTAAACCCTTTTTA
62 TTTAAACTTAATTAAATATTATATTT-ATTTTATT-AAAAATAATAATATAAAAACCTTTTTA
*
1446754 TTTTTAATTAATTTTTTTATTTTGAAAA-A-ATAATTAATATTTTAATTTGTTAATATAAATTTT
1 TTTTTAA-TAATTTTTTTATTTTAAAAACATATAATTAATATTTTAATTTGTT-A-ATAAATTTT
* *
1446817 TTAAAGTTTATTAAAT-TT-TA-TT-TTTTATTAAAAATAATAAT
63 TTAAACTTAATTAAATATTATATTTATTTTATTAAAAATAATAAT
1446858 TAATACATTA
Statistics
Matches: 203, Mismatches: 11, Indels: 34
0.82 0.04 0.14
Matches are distributed among these distances:
119 12 0.06
120 14 0.07
121 3 0.01
122 39 0.19
123 41 0.20
124 35 0.17
125 32 0.16
126 10 0.05
127 7 0.03
128 10 0.05
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.53
Consensus pattern (122 bp):
TTTTTAATAATTTTTTTATTTTAAAAACATATAATTAATATTTTAATTTGTTAATAAATTTTTTA
AACTTAATTAAATATTATATTTATTTTATTAAAAATAATAATATAAAAACCTTTTTA
Found at i:1446806 original size:124 final size:120
Alignment explanation
Indices: 1446535--1446857 Score: 401
Period size: 124 Copynumber: 2.7 Consensus size: 120
1446525 AAAAAAACAT
*
1446535 AATAATTAATATTTTAATTTGTTAATGCA-AATTTTTTAAACTTAATTAAATATTATATTTATTT
1 AATAATTAATATTTTAATTTGTTAAT--ATAATTTTTTAAACTTAATTAAATATTATTTTTATTT
* *
1446599 TATTAAAAATTATAATAAAAAACTTTTTTATTTTAAAATTTTTATTTTTATAAAAAC
64 TATTAAAAATAATAATAAAAAACCTTTTTATTTTAAAATTTTTATTTTTATAAAAAC
1446656 ATAGTAATTAATATTTTAATTTGTTAATATAATTTTTTAAACTTAATTAAATATTATTTTTAATT
1 A-A-TAATTAATATTTTAATTTGTTAATATAATTTTTTAAACTTAATTAAATATTATTTTT-ATT
* * *
1446721 TTATTAAAAAATAATAATATTAAACCCTTTTTATTTTTAATTAATTTTT-TTATTT-TGAAAA-
63 TTATT-AAAAATAATAATA-AAAAACCTTTTTA-TTTTAA--AATTTTTATT-TTTATAAAAAC
* * *
1446782 AATAATTAATATTTTAATTTGTTAATATAAATTTTTTAAAGTTTATT-AA-ATT-TTATT-TTTT
1 AATAATTAATATTTTAATTTGTTAATAT-AATTTTTTAAACTTAATTAAATATTATTTTTATTTT
1446843 ATTAAAAATAATAAT
65 ATTAAAAATAATAAT
1446858 TAATACATTA
Statistics
Matches: 182, Mismatches: 9, Indels: 24
0.85 0.04 0.11
Matches are distributed among these distances:
119 12 0.07
120 7 0.04
121 2 0.01
122 35 0.19
123 35 0.19
124 40 0.22
125 27 0.15
126 7 0.04
127 7 0.04
128 10 0.05
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (120 bp):
AATAATTAATATTTTAATTTGTTAATATAATTTTTTAAACTTAATTAAATATTATTTTTATTTTA
TTAAAAATAATAATAAAAAACCTTTTTATTTTAAAATTTTTATTTTTATAAAAAC
Found at i:1447246 original size:38 final size:39
Alignment explanation
Indices: 1447152--1447274 Score: 94
Period size: 38 Copynumber: 3.2 Consensus size: 39
1447142 AAGATATGGG
* * * * *
1447152 TAATACATAAAATTTTTATTATATTTTGAAATATATTAG
1 TAATATATAAAATTTTTATTAGAATTTGAAATATATGAC
*
1447191 TAAT-TAT-ATATTATTTATTAGAATTT-AAA-ATAGTGAC
1 TAATATATAAAATT-TTTATTAGAATTTGAAATATA-TGAC
** *
1447228 TAATATATAAAATTTTTATTCA-AATTCAAAAGATATGAC
1 TAATATATAAAATTTTTATT-AGAATTTGAAATATATGAC
*
1447267 TAACATAT
1 TAATATAT
1447275 GAATTTTATT
Statistics
Matches: 68, Mismatches: 9, Indels: 14
0.75 0.10 0.15
Matches are distributed among these distances:
36 3 0.04
37 13 0.19
38 26 0.38
39 23 0.34
40 3 0.04
ACGTcount: A:0.46, C:0.05, G:0.06, T:0.44
Consensus pattern (39 bp):
TAATATATAAAATTTTTATTAGAATTTGAAATATATGAC
Found at i:1449968 original size:107 final size:107
Alignment explanation
Indices: 1449782--1449984 Score: 271
Period size: 107 Copynumber: 1.9 Consensus size: 107
1449772 CTTCTGTTCA
* * * ** * *
1449782 TGCTTGCTGGAGCTGCTGTCGTTGCTGCTGTGGAAACTGCTACTTGTTGGAACTGGTGGTTTCGA
1 TGCTTGCTGAAGCTGCTGTCGTTGCTGCCGTGGAAACTACTACTTGTTGGAACTACTAGTTTCAA
* *
1449847 CTGTTTTGTGGAGCTGCTGTTCGTGCTTGTTATGGAAGCTGC
66 CTGCTTTGTGGAGCTGCTATTCGTGCTTGTTATGGAAGCTGC
* * * **
1449889 TGCTTGTTGAAGCTGCTGTCGTTGCTGCCGTGGAAGCTACTGCTTGTTGGAGTTACTAGTTTCAA
1 TGCTTGCTGAAGCTGCTGTCGTTGCTGCCGTGGAAACTACTACTTGTTGGAACTACTAGTTTCAA
*
1449954 GTGCTTTGTGGAGCTGCTATTCGTGCTTGTT
66 CTGCTTTGTGGAGCTGCTATTCGTGCTTGTT
1449985 GGAGCTTTCG
Statistics
Matches: 81, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
107 81 1.00
ACGTcount: A:0.12, C:0.18, G:0.32, T:0.38
Consensus pattern (107 bp):
TGCTTGCTGAAGCTGCTGTCGTTGCTGCCGTGGAAACTACTACTTGTTGGAACTACTAGTTTCAA
CTGCTTTGTGGAGCTGCTATTCGTGCTTGTTATGGAAGCTGC
Found at i:1451142 original size:52 final size:50
Alignment explanation
Indices: 1451083--1451184 Score: 168
Period size: 52 Copynumber: 2.0 Consensus size: 50
1451073 AAACAGTTGG
*
1451083 GTCGACAAAAGATTAAAATAGCTCGACAAGTAAACAAAAAAAAAGATTCTCT
1 GTCGACAAAAGATTAAAATAGCTAGACAAGT-AA-AAAAAAAAAGATTCTCT
*
1451135 GTCGACAAAAGATTAAAATAGCTAGACAAGTAAATAAAAAAAGATTCTCT
1 GTCGACAAAAGATTAAAATAGCTAGACAAGTAAAAAAAAAAAGATTCTCT
1451185 TGGGTTAAAG
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
50 16 0.33
51 2 0.04
52 30 0.62
ACGTcount: A:0.52, C:0.14, G:0.14, T:0.21
Consensus pattern (50 bp):
GTCGACAAAAGATTAAAATAGCTAGACAAGTAAAAAAAAAAAGATTCTCT
Found at i:1451288 original size:42 final size:42
Alignment explanation
Indices: 1451230--1451953 Score: 501
Period size: 42 Copynumber: 17.4 Consensus size: 42
1451220 AGTCTTCAGA
* *
1451230 GTCAATGCCGGCAGGCAGACTGAGGGTAGAAAAGTCTCCAAG
1 GTCAAAGCCGACAGGCAGACTGAGGGTAGAAAAGTCTCCAAG
*** * * * * *
1451272 GTCAAAAATGATAGGCAGATTAAGGGTAGAAAAGTCTCTAGG
1 GTCAAAGCCGACAGGCAGACTGAGGGTAGAAAAGTCTCCAAG
* * *
1451314 GTTAAAGCCAACAGGCAGACTGAGGGTAGAAAAGTCTCCAGG
1 GTCAAAGCCGACAGGCAGACTGAGGGTAGAAAAGTCTCCAAG
** * * *
1451356 GTCAAAGTTGACAGACAGACTGAAGGTA-AGAAAGTCTCCAAT
1 GTCAAAGCCGACAGGCAGACTGAGGGTAGA-AAAGTCTCCAAG
* * * * ** *
1451398 GTCAAAGCTGATAGGCAAACTTGA-GATAAGGTAA-TCTTCAAG
1 GTCAAAGCCGACAGGCAGAC-TGAGGGT-AGAAAAGTCTCCAAG
* * * *
1451440 GTCAAAGCTGATAGACAGACTGAGGGTAGAAAAGTCTTC-AG
1 GTCAAAGCCGACAGGCAGACTGAGGGTAGAAAAGTCTCCAAG
* * *
1451481 AGTCAAA-CTTGATAGGCAGACTAAGGGTAGAAAAGTCTCC-AG
1 -GTCAAAGC-CGACAGGCAGACTGAGGGTAGAAAAGTCTCCAAG
* * * * * * ** *
1451523 TGTCAAAGCCAACAAGCAAACTAAGGGCAAAAAAGTCTATAGG
1 -GTCAAAGCCGACAGGCAGACTGAGGGTAGAAAAGTCTCCAAG
* * *
1451566 GTCAAAGCTGGCAGGTAGACT-ATGGGTAGAAAAGTCTCCAAG
1 GTCAAAGCCGACAGGCAGACTGA-GGGTAGAAAAGTCTCCAAG
* * *
1451608 GTCAAAGCCAAGAGGCAAACTGAGGGTAGAAAAG--T-----
1 GTCAAAGCCGACAGGCAGACTGAGGGTAGAAAAGTCTCCAAG
* * *
1451643 -TCAAAGCCGACAGGCAGACTAAGGGATAGAAATGTCTCCAGG
1 GTCAAAGCCGACAGGCAGACTGAGGG-TAGAAAAGTCTCCAAG
* ** * *
1451685 GTTAAAGCCGTTAGGTAGACTAAGGGTAGAAAAGTCTCCAAG
1 GTCAAAGCCGACAGGCAGACTGAGGGTAGAAAAGTCTCCAAG
* * * *
1451727 GTCAAAGCCAACTGGCAGACTAAGGGTAGAAAAGTCTCCAGG
1 GTCAAAGCCGACAGGCAGACTGAGGGTAGAAAAGTCTCCAAG
** * * *
1451769 GTCAAAGTTGACAGGCAGTCTGAGAGTAGAAAATTCTCCAAG
1 GTCAAAGCCGACAGGCAGACTGAGGGTAGAAAAGTCTCCAAG
* * * ** * *
1451811 GTCAAAGCCGACAGGCAAACTTTAGACG-AG-GCAGTCTCTAGG
1 GTCAAAGCCGACAGGCAGAC-TGAG-GGTAGAAAAGTCTCCAAG
* * * *
1451853 GTCAAAGCTGACAAGCAGACTGGGGGTAGAAAAGTCTCCAGG
1 GTCAAAGCCGACAGGCAGACTGAGGGTAGAAAAGTCTCCAAG
* * * * *
1451895 GTTAAAGCCGATAGGCAGACTAAGGGTAGAAAAGTCTCTAGG
1 GTCAAAGCCGACAGGCAGACTGAGGGTAGAAAAGTCTCCAAG
* *
1451937 GTCAAAGTCGATAGGCA
1 GTCAAAGCCGACAGGCA
1451954 AACTAAGGTC
Statistics
Matches: 529, Mismatches: 128, Indels: 50
0.75 0.18 0.07
Matches are distributed among these distances:
34 21 0.04
35 7 0.01
37 1 0.00
40 2 0.00
41 16 0.03
42 446 0.84
43 35 0.07
44 1 0.00
ACGTcount: A:0.37, C:0.17, G:0.28, T:0.18
Consensus pattern (42 bp):
GTCAAAGCCGACAGGCAGACTGAGGGTAGAAAAGTCTCCAAG
Found at i:1451361 original size:84 final size:84
Alignment explanation
Indices: 1451220--1451961 Score: 553
Period size: 84 Copynumber: 8.9 Consensus size: 84
1451210 TAGATGAAGG
* * * * * * ** *
1451220 AGTCTTCAGAGTCAATGCCGGCAGGCAGACTGAGGGTAGAAAAGTCTCCAAGGTCAAAAATGATA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGTAGAAAAGTCTCCAGGGTCAAAGCTGACA
*
1451285 GGCAGATTAAGGGTAGAAA
66 GGCAGACTAAGGGTAGAAA
* * * * *
1451304 AGTCTCTAGGGTTAAAGCCAACAGGCAGACTGAGGGTAGAAAAGTCTCCAGGGTCAAAGTTGACA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGTAGAAAAGTCTCCAGGGTCAAAGCTGACA
*
1451369 GACAGACTGAA-GGTA-AGAA
66 GGCAGACT-AAGGGTAGA-AA
** * * * * * ** * *
1451388 AGTCTCCAATGTCAAAGCTGATAGGCAAACT-TGAGATAAGGTAA-TCTTCAAGGTCAAAGCTGA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAG-GGT-AGAAAAGTCTCCAGGGTCAAAGCTGA
* * *
1451451 TAGACAGACTGAGGGTAGAAA
64 CAGGCAGACTAAGGGTAGAAA
* * * * * **
1451472 AGTCTTCAGAGTCAAA-CTTGATAGGCAGACTAAGGGTAGAAAAGTCTCCAGTGTCAAAGCCAAC
1 AGTCTCCAGGGTCAAAGC-CGACAGGCAGACTAAGGGTAGAAAAGTCTCCAGGGTCAAAGCTGAC
* * * *
1451536 AAGCAAACTAAGGGCAAAAA
65 AGGCAGACTAAGGGTAGAAA
** * * * * * ** *
1451556 AGTCTATAGGGTCAAAGCTGGCAGGTAGACTATGGGTAGAAAAGTCTCCAAGGTCAAAGCCAAGA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGTAGAAAAGTCTCCAGGGTCAAAGCTGACA
* *
1451621 GGCAAACTGAGGGTAGAAA
66 GGCAGACTAAGGGTAGAAA
* * * **
1451640 AG--T------TCAAAGCCGACAGGCAGACTAAGGGATAGAAATGTCTCCAGGGTTAAAGCCGTT
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGG-TAGAAAAGTCTCCAGGGTCAAAGCTGAC
*
1451697 AGGTAGACTAAGGGTAGAAA
65 AGGCAGACTAAGGGTAGAAA
* * * *
1451717 AGTCTCCAAGGTCAAAGCCAACTGGCAGACTAAGGGTAGAAAAGTCTCCAGGGTCAAAGTTGACA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGTAGAAAAGTCTCCAGGGTCAAAGCTGACA
* * *
1451782 GGCAGTCTGAGAGTAGAAA
66 GGCAGACTAAGGGTAGAAA
* * * * * ** *
1451801 ATTCTCCAAGGTCAAAGCCGACAGGCAAACTTTAGACG-AG-GCAGTCTCTAGGGTCAAAGCTGA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGAC-TAAG-GGTAGAAAAGTCTCCAGGGTCAAAGCTGA
* **
1451864 CAAGCAGACTGGGGGTAGAAA
64 CAGGCAGACTAAGGGTAGAAA
* * * *
1451885 AGTCTCCAGGGTTAAAGCCGATAGGCAGACTAAGGGTAGAAAAGTCTCTAGGGTCAAAG-TCGAT
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGTAGAAAAGTCTCCAGGGTCAAAGCT-GAC
*
1451949 AGGCAAACTAAGG
65 AGGCAGACTAAGG
1451962 TCAAAGCCAA
Statistics
Matches: 517, Mismatches: 117, Indels: 48
0.76 0.17 0.07
Matches are distributed among these distances:
76 21 0.04
77 41 0.08
79 1 0.00
82 2 0.00
83 14 0.03
84 400 0.77
85 37 0.07
86 1 0.00
ACGTcount: A:0.37, C:0.17, G:0.28, T:0.18
Consensus pattern (84 bp):
AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGTAGAAAAGTCTCCAGGGTCAAAGCTGACA
GGCAGACTAAGGGTAGAAA
Found at i:1451410 original size:126 final size:126
Alignment explanation
Indices: 1451241--1452228 Score: 533
Period size: 126 Copynumber: 8.0 Consensus size: 126
1451231 TCAATGCCGG
* * *** * *
1451241 CAGGCAGACTGAGGGTAGAAAAGTCTCCAAGGTCAAAAATGATAGGCAGATTAAGGGTAGAAAAG
1 CAGGCAGACTGAAGGTAGAAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGTAGAAAAG
* * *
1451306 TCTCTAGGGTTAAAGCCAACAGGCAGACTGAGGGTAGAAAAGTCTCCAGGGTCAAAGTTGA
66 TCTCTAGGGTCAAAGCCGACAGGCAGACTGAGGGTAGAAAAGTCTCCAGGGTCAAAGCTGA
* ** * * * * * **
1451367 CAGACAGACTGAAGGTA-AGAAAGTCTCCAATGTCAAAGCTGATAGGCAAACT-TGAGATAAGGT
1 CAGGCAGACTGAAGGTAGA-AAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAG-GGT-AGAA
* * * * * *
1451430 AA-TCT-TCAAGGTCAAAGCTGATAGACAGACTGAGGGTAGAAAAGTCTTCAGAGTCAAA-CTTG
63 AAGTCTCT-AGGGTCAAAGCCGACAGGCAGACTGAGGGTAGAAAAGTCTCCAGGGTCAAAGC-TG
1451492 A
126 A
* * * * * * *
1451493 TAGGCAGACT-AAGGGTAGAAAAGTCTCCAGTGTCAAAGCCAACAAGCAAACTAAGGGCAAAAAA
1 CAGGCAGACTGAA-GGTAGAAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGTAGAAAA
* * * * * **
1451557 GTCTATAGGGTCAAAGCTGGCAGGTAGACT-ATGGGTAGAAAAGTCTCCAAGGTCAAAGCCAA
65 GTCTCTAGGGTCAAAGCCGACAGGCAGACTGA-GGGTAGAAAAGTCTCCAGGGTCAAAGCTGA
* * * *
1451619 GAGGCAAACTGAGGGTAGAAAAG--T------TCAAAGCCGACAGGCAGACTAAGGGATAGAAAT
1 CAGGCAGACTGAAGGTAGAAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGG-TAGAAAA
* * ** * * * **
1451676 GTCTCCAGGGTTAAAGCCGTTAGGTAGACTAAGGGTAGAAAAGTCTCCAAGGTCAAAGCCAA
65 GTCTCTAGGGTCAAAGCCGACAGGCAGACTGAGGGTAGAAAAGTCTCCAGGGTCAAAGCTGA
* ** * * *
1451738 CTGGCAGACT-AAGGGTAGAAAAGTCTCCAGGGTCAAAGTTGACAGGCAGTCTGAGAGTAGAAAA
1 CAGGCAGACTGAA-GGTAGAAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGTAGAAAA
* * * * * * ** *
1451802 TTCTCCAAGGTCAAAGCCGACAGGCAAACTTTAGACG-AG-GCAGTCTCTAGGGTCAAAGCTGA
65 GTCTCTAGGGTCAAAGCCGACAGGCAGAC-TGAG-GGTAGAAAAGTCTCCAGGGTCAAAGCTGA
* ** * *
1451864 CAAGCAGACTGGGGGTAGAAAAGTCTCCAGGGTTAAAGCCGATAGGCAGACTAAGGGTAGAAAAG
1 CAGGCAGACTGAAGGTAGAAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGTAGAAAAG
* * * * * * ** *
1451929 TCTCTAGGGTCAAAGTCGATAGGCAAACT-AAGGT--CAAAGCCAACA-GGT-AGA-CT-A
66 TCTCTAGGGTCAAAGCCGACAGGCAGACTGAGGGTAGAAAAGTCTCCAGGGTCAAAGCTGA
* * * *
1451983 -AGG--G-C-G-AGGCAG---T--CTCCAGGGTCGAAGCCGACAGGCGGACTAAGGGTAGAAAAG
1 CAGGCAGACTGAAGGTAGAAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGTAGAAAAG
* * * * * * * *
1452037 TCTCCAAGGTCAAAGTCGATAGGTAGACTAAGGGTAAAAAAGTCTCCAAGGTCAAAG-TCGA
66 TCTCTAGGGTCAAAGCCGACAGGCAGACTGAGGGTAGAAAAGTCTCCAGGGTCAAAGCT-GA
* * * * * * * * * * * *
1452098 TAGGTAGACT-AAGGGTAAAAAAGTCTCTAAGATCAAAACCAACAGGTAAACTAAAGGATAGGAA
1 CAGGCAGACTGAA-GGTAGAAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACT-AAGGGTAGAAA
* * * * * * * *
1452162 AGTCTGTAGGGTCAAAACCGACAGACAAACTAAGAGAG-AGGAAAGTCTCTAGGGTCAAAGCCGA
64 AGTCTCTAGGGTCAAAGCCGACAGGCAGACT--GAGGGTAGAAAAGTCTCCAGGGTCAAAGCTGA
1452226 CAG
1 CAG
1452229 ATAGACTTTA
Statistics
Matches: 652, Mismatches: 157, Indels: 104
0.71 0.17 0.11
Matches are distributed among these distances:
108 62 0.10
109 4 0.01
111 7 0.01
112 3 0.00
113 7 0.01
114 1 0.00
115 2 0.00
116 4 0.01
118 26 0.04
119 77 0.12
120 4 0.01
121 6 0.01
122 3 0.00
123 5 0.01
124 2 0.00
125 10 0.02
126 338 0.52
127 65 0.10
128 23 0.04
129 3 0.00
ACGTcount: A:0.38, C:0.17, G:0.28, T:0.17
Consensus pattern (126 bp):
CAGGCAGACTGAAGGTAGAAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGTAGAAAAG
TCTCTAGGGTCAAAGCCGACAGGCAGACTGAGGGTAGAAAAGTCTCCAGGGTCAAAGCTGA
Found at i:1451658 original size:34 final size:35
Alignment explanation
Indices: 1451609--1451674 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 35
1451599 GTCTCCAAGG
* *
1451609 TCAAAGCCAAGAGGCAAACTGAGGG-TAGAAAAGT
1 TCAAAGCCAACAGGCAAACTAAGGGATAGAAAAGT
* *
1451643 TCAAAGCCGACAGGCAGACTAAGGGATAGAAA
1 TCAAAGCCAACAGGCAAACTAAGGGATAGAAA
1451675 TGTCTCCAGG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
34 21 0.78
35 6 0.22
ACGTcount: A:0.44, C:0.17, G:0.29, T:0.11
Consensus pattern (35 bp):
TCAAAGCCAACAGGCAAACTAAGGGATAGAAAAGT
Found at i:1451711 original size:77 final size:76
Alignment explanation
Indices: 1451567--1451775 Score: 193
Period size: 77 Copynumber: 2.6 Consensus size: 76
1451557 GTCTATAGGG
* * * * *
1451567 TCAAAGCTGGCAGGTAGACTATGGGTAGAAAAGTCTCCAAGGTCAAAGCCAAGAGGCAAACTGAG
1 TCAAAGCCGACAGGCAGACTAAGGGTAGAAAAGTCTCCAAGGTCAAAGCCAAGAGGCAAACTAAG
1451632 GGTAGAAAAGT
66 GGTAGAAAAGT
* * * *** * *
1451643 TCAAAGCCGACAGGCAGACTAAGGGATAGAAATGTCTCCAGGGTTAAAGCCGTTAGGTAGACTAA
1 TCAAAGCCGACAGGCAGACTAAGGG-TAGAAAAGTCTCCAAGGTCAAAGCCAAGAGGCAAACTAA
1451708 GGGTAGAAAAGTCT
65 GGGTAGAAAAG--T
* * *
1451722 CCAAGGTCAAAGCCAACTGGCAGACTAAGGGTAGAAAAGTCTCCAGGGTCAAAG
1 ------TCAAAGCCGACAGGCAGACTAAGGGTAGAAAAGTCTCCAAGGTCAAAG
1451776 TTGACAGGCA
Statistics
Matches: 107, Mismatches: 17, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
76 21 0.20
77 41 0.38
79 1 0.01
84 21 0.20
85 23 0.21
ACGTcount: A:0.37, C:0.18, G:0.29, T:0.16
Consensus pattern (76 bp):
TCAAAGCCGACAGGCAGACTAAGGGTAGAAAAGTCTCCAAGGTCAAAGCCAAGAGGCAAACTAAG
GGTAGAAAAGT
Found at i:1452017 original size:42 final size:41
Alignment explanation
Indices: 1451958--1452235 Score: 196
Period size: 42 Copynumber: 6.6 Consensus size: 41
1451948 TAGGCAAACT
* * **
1451958 AAGGTCAAAGCCAACAGGTAGACTAAGGGCGAGGCAGTCTCC
1 AAGGTCAAAGCCGACAGGTAGACTAAGGG-AAGAAAGTCTCC
* * ** *
1452000 AGGGTCGAAGCCGACAGGCGGACTAAGGGTAGAAAAGTCTCC
1 AAGGTCAAAGCCGACAGGTAGACTAAGGGAAG-AAAGTCTCC
* * *
1452042 AAGGTCAAAGTCGATAGGTAGACTAAGGGTAAAAAAGTCTCC
1 AAGGTCAAAGCCGACAGGTAGACTAAGGG-AAGAAAGTCTCC
* * * *
1452084 AAGGTCAAAGTCGATAGGTAGACTAAGGGTAAAAAAGTCTCT
1 AAGGTCAAAGCCGACAGGTAGACTAAGGG-AAGAAAGTCTCC
* * * * * **
1452126 AAGATCAAAACCAACAGGTAAACTAAAGGATAGGAAAGTCTGT
1 AAGGTCAAAGCCGACAGGTAGACTAAGGGA-A-GAAAGTCTCC
* * ** * * *
1452169 AGGGTCAAAACCGACAGACAAACTAAGAGAGAGGAAAGTCTCT
1 AAGGTCAAAGCCGACAGGTAGACTAAG-G-GAAGAAAGTCTCC
* *
1452212 AGGGTCAAAGCCGACAGATAGACT
1 AAGGTCAAAGCCGACAGGTAGACT
1452236 TTAGACAAGG
Statistics
Matches: 193, Mismatches: 37, Indels: 11
0.80 0.15 0.05
Matches are distributed among these distances:
41 3 0.02
42 127 0.66
43 60 0.31
44 1 0.01
45 2 0.01
ACGTcount: A:0.40, C:0.18, G:0.28, T:0.15
Consensus pattern (41 bp):
AAGGTCAAAGCCGACAGGTAGACTAAGGGAAGAAAGTCTCC
Found at i:1452079 original size:150 final size:150
Alignment explanation
Indices: 1451837--1452111 Score: 406
Period size: 150 Copynumber: 1.8 Consensus size: 150
1451827 AAACTTTAGA
* * ** * *
1451837 CGAGGCAGTCTCTAGGGTCAAAGCTGACAAGCAGACTGGGGGTAGAAAAGTCTCCAGGGTTAAAG
1 CGAGGCAGTCTCCAGGGTCAAAGCCGACAAGCAGACTAAGGGTAGAAAAGTCTCCAAGGTCAAAG
* * *
1451902 CCGATAGGCAGACTAAGGGTAGAAAAGTCTCTAGGGTCAAAGTCGATAGGCAAACTAAGGTCAAA
66 CCGATAGGCAGACTAAGGGTAAAAAAGTCTCCAAGGTCAAAGTCGATAGGCAAACTAAGGTCAAA
1451967 GCCAACAGGTAGACTAAGGG
131 GCCAACAGGTAGACTAAGGG
* * *
1451987 CGAGGCAGTCTCCAGGGTCGAAGCCGACAGGCGGACTAAGGGTAGAAAAGTCTCCAAGGTCAAAG
1 CGAGGCAGTCTCCAGGGTCAAAGCCGACAAGCAGACTAAGGGTAGAAAAGTCTCCAAGGTCAAAG
* * * *
1452052 TCGATAGGTAGACTAAGGGTAAAAAAGTCTCCAAGGTCAAAGTCGATAGGTAGACTAAGG
66 CCGATAGGCAGACTAAGGGTAAAAAAGTCTCCAAGGTCAAAGTCGATAGGCAAACTAAGG
1452112 GTAAAAAAGT
Statistics
Matches: 109, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
150 109 1.00
ACGTcount: A:0.35, C:0.18, G:0.31, T:0.16
Consensus pattern (150 bp):
CGAGGCAGTCTCCAGGGTCAAAGCCGACAAGCAGACTAAGGGTAGAAAAGTCTCCAAGGTCAAAG
CCGATAGGCAGACTAAGGGTAAAAAAGTCTCCAAGGTCAAAGTCGATAGGCAAACTAAGGTCAAA
GCCAACAGGTAGACTAAGGG
Found at i:1452145 original size:84 final size:84
Alignment explanation
Indices: 1451956--1452235 Score: 222
Period size: 84 Copynumber: 3.3 Consensus size: 84
1451946 GATAGGCAAA
* *** * * *
1451956 CTAAGGTCAAAGCCAACAGGTAGACTAAGGGCGAGGCAGTCTCCAGGGTCGAAGCCGACAGGCGG
1 CTAAGGTCAAAGCCAACAGGTAGACTAAGGGCAAAAAAGTCTCCAAGGTCAAAGCCGACAGGCAG
*
1452021 ACTAAGGGTAGAAAAGTCT
66 ACTAAGGGTAAAAAAGTCT
* * * * * * * *
1452040 CCAAGGTCAAAGTCGATAGGTAGACTAAGGGTAAAAAAGTCTCCAAGGTCAAAGTCGATAGGTAG
1 CTAAGGTCAAAGCCAACAGGTAGACTAAGGGCAAAAAAGTCTCCAAGGTCAAAGCCGACAGGCAG
1452105 ACTAAGGGTAAAAAAGTCT
66 ACTAAGGGTAAAAAAGTCT
* * * * * ** * * *
1452124 CTAAGATCAAAACCAACAGGTAAACTAAAGG-ATAGGAAAGTCTGTAGGGTCAAAACCGACAGAC
1 CTAAGGTCAAAGCCAACAGGTAGACTAAGGGCA-A-AAAAGTCTCCAAGGTCAAAGCCGACAGGC
* **
1452188 AAACTAAGAGAG-AGGAAAGTCT
64 AGACTAAG-G-GTAAAAAAGTCT
* * *
1452210 CTAGGGTCAAAGCCGACAGATAGACT
1 CTAAGGTCAAAGCCAACAGGTAGACT
1452236 TTAGACAAGG
Statistics
Matches: 150, Mismatches: 42, Indels: 6
0.76 0.21 0.03
Matches are distributed among these distances:
83 1 0.01
84 92 0.61
85 27 0.18
86 29 0.19
87 1 0.01
ACGTcount: A:0.39, C:0.18, G:0.28, T:0.15
Consensus pattern (84 bp):
CTAAGGTCAAAGCCAACAGGTAGACTAAGGGCAAAAAAGTCTCCAAGGTCAAAGCCGACAGGCAG
ACTAAGGGTAAAAAAGTCT
Found at i:1452177 original size:43 final size:43
Alignment explanation
Indices: 1452117--1452229 Score: 129
Period size: 43 Copynumber: 2.6 Consensus size: 43
1452107 TAAGGGTAAA
* * ** *
1452117 AAAGTCTCTAAGATCAAAACCAACAGGTAAACTAA-AGGATAGG
1 AAAGTCTCTAGGGTCAAAACCAACAGACAAACTAAGA-GAGAGG
* *
1452160 AAAGTCTGTAGGGTCAAAACCGACAGACAAACTAAGAGAGAGG
1 AAAGTCTCTAGGGTCAAAACCAACAGACAAACTAAGAGAGAGG
* *
1452203 AAAGTCTCTAGGGTCAAAGCCGACAGA
1 AAAGTCTCTAGGGTCAAAACCAACAGA
1452230 TAGACTTTAG
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
43 59 0.98
44 1 0.02
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.14
Consensus pattern (43 bp):
AAAGTCTCTAGGGTCAAAACCAACAGACAAACTAAGAGAGAGG
Found at i:1465826 original size:106 final size:106
Alignment explanation
Indices: 1465677--1465979 Score: 462
Period size: 106 Copynumber: 2.8 Consensus size: 106
1465667 GCTGTTCATG
* * *
1465677 CTTGTTGGAGCTGCTGTCATTGATGCTGTGGAAGCTGCTGCTTGTTGAAGTTGCTGGTTTCGAGT
1 CTTGTTGGAGCTACTGTCGTTGCTGC-GTGGAAGCTGCTGCTTGTTGAAGTTGCTGGTTTCGAGT
1465742 GTTTTGTGGAGCTGCTATTCGTGCTTGTTGTGGAAGCTGCTA
65 GTTTTGTGGAGCTGCTATTCGTGCTTGTTGTGGAAGCTGCTA
1465784 CTTGTTGGAGCTACTGTCGTTGCTGCGTGGAAGCTGCTGCTTGTTGAAGTTGCTGGTTTCGAGTG
1 CTTGTTGGAGCTACTGTCGTTGCTGCGTGGAAGCTGCTGCTTGTTGAAGTTGCTGGTTTCGAGTG
*
1465849 TTTTGTGGAGCTGCTATTTGTGCTTGTTGTGGAAGCTGCTA
66 TTTTGTGGAGCTGCTATTCGTGCTTGTTGTGGAAGCTGCTA
* * * * * * *
1465890 CTTGTTGGAGCTACTGTCGTTGCTGCGTGGAAACTGCTGCTTATTTAAGCTGCTAGTTTTGGGTG
1 CTTGTTGGAGCTACTGTCGTTGCTGCGTGGAAGCTGCTGCTTGTTGAAGTTGCTGGTTTCGAGTG
* * * *
1465955 CTTTGTGGAGATACTATTCATGCTT
66 TTTTGTGGAGCTGCTATTCGTGCTT
1465980 ATTAGAGCTT
Statistics
Matches: 180, Mismatches: 16, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
106 157 0.87
107 23 0.13
ACGTcount: A:0.13, C:0.16, G:0.32, T:0.40
Consensus pattern (106 bp):
CTTGTTGGAGCTACTGTCGTTGCTGCGTGGAAGCTGCTGCTTGTTGAAGTTGCTGGTTTCGAGTG
TTTTGTGGAGCTGCTATTCGTGCTTGTTGTGGAAGCTGCTA
Found at i:1466670 original size:4 final size:4
Alignment explanation
Indices: 1466663--1466699 Score: 60
Period size: 4 Copynumber: 9.8 Consensus size: 4
1466653 GAATGATGAT
1466663 TTTA TTTA TTTA TTTA TTTA TTTA -TTA TTT- TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
1466700 CTACTTATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
3 6 0.19
4 25 0.81
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:1467225 original size:91 final size:91
Alignment explanation
Indices: 1467008--1467999 Score: 1045
Period size: 87 Copynumber: 10.9 Consensus size: 91
1466998 TAATGTTTAA
* * * * * * *
1467008 ATTGTAAATGTCAGACCGTAAGAAATAGACTAATACATGGATTATATTTGAGAATCAGATTCTTT
1 ATTGTAAATGTCAGACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATCA-ATTCTTT
*
1467073 TTTATGAAAAAAAAAAGAAAAAAAGTTGATTG
65 TTTAT--AGAAAAAAAG---AAAAGTTGATTG
* * * *
1467105 ATTATAAATGTCAGACTGAAAGGATTAGACTAATGCATGAATTATATCGGGGAATCAATTCTTTT
1 ATTGTAAATGTCAGACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATCAATTCTTTT
1467170 TTATAGAAAAAAAGAAAAGTTGATTG
66 TTATAGAAAAAAAGAAAAGTTGATTG
* * * *
1467196 ATTGTAAATATCAGATTGCAAGGAGTAGACTAATGCATGAATTACATCTGAGAATCAGATTCTTT
1 ATTGTAAATGTCAGACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATCA-ATTCTTT
*
1467261 TTTAT-G---GAAA-AAAAGTTGATTG
65 TTTATAGAAAAAAAGAAAAGTTGATTG
* * ** * * * * *
1467283 ATTGTAAATATTAGACTATAGGGATTAGACTAATACATGAATTATATCTAAGAATCGGATTCTTA
1 ATTGTAAATGTCAGACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATC-AATTCTTT
*
1467348 TTTATAGAAAAAAAAGAAAAGTTAATTG
65 TTTATAG-AAAAAAAGAAAAGTTGATTG
* *
1467376 ATTGTAAATGTCAGACTGCAAGGATTAGATTAATGCATGAATTATATCTGAGAATCGATTTCTTT
1 ATTGTAAATGTCAGACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATC-AATTCTTT
*
1467441 TTTATAGAAAAAAGAAAAGAAAAGTTGACTG
65 TTTATAG---AAA-AAAAGAAAAGTTGATTG
* * * *
1467472 ATTGTAAATGTCAGACTGTAAGGATTAAACTAATGCATAAATTATATCTGAGAATCGGATTCTTT
1 ATTGTAAATGTCAGACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATC-AATTCTTT
* *
1467537 TTTAT----TAAAA-AAAAGTTGACTG
65 TTTATAGAAAAAAAGAAAAGTTGATTG
* * *
1467559 ATTGTAAATGTCAAACTGCAAAGATTAGACTAATGCATGAATTATATTTGAGAATCAAATTCTTT
1 ATTGTAAATGTCAGACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATC-AATTCTTT
*
1467624 TTTATAGAAAAAAAG-AAAGACTGATTG
65 TTTATAGAAAAAAAGAAAAG-TTGATTG
* * *
1467651 ATTGTAAATGTCAGACTGCAATGATTAG-CTAATGTATGAATTATATCTGAGAATCAATTATTTT
1 ATTGTAAATGTCAGACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATCAATTCTTTT
*
1467715 TTATAG-AAAAAATAAAAGTTGATTG
66 TTATAGAAAAAAAGAAAAGTTGATTG
* * * * * * * *
1467740 ATTGTAACTGTCAGACTTCAAAGATCAAACTAATGCTTGAATTATATCTGAGAATTAGATTATTT
1 ATTGTAAATGTCAGACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATCA-ATTCTTT
1467805 TTTAT-G----AAA-AAAAGTTGATTG
65 TTTATAGAAAAAAAGAAAAGTTGATTG
* * *
1467826 ATTATAAATGTCAGACTGCAAGAATTAGACTAATGCATAAATTATATCTGAGAATCAGATTCTTT
1 ATTGTAAATGTCAGACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATCA-ATTCTTT
* ** *
1467891 TTTATAGAAAAAATGGAAAAACTAATTG
65 TTTATAGAAAAAA-AGAAAAGTTGATTG
* ** * * * *
1467919 CTTGTAAATGTCAGACTATAAGGATTAGACTAATGTAT-TATTATATTTGAGAATCGGATT-TTT
1 ATTGTAAATGTCAGACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATC-AATTCTTT
*
1467982 TTTATAGGAAAAAAGAAA
65 TTTATAGAAAAAAAGAAA
1468000 GACTGCAAGG
Statistics
Matches: 762, Mismatches: 105, Indels: 63
0.82 0.11 0.07
Matches are distributed among these distances:
86 71 0.09
87 148 0.19
88 8 0.01
89 35 0.05
90 48 0.06
91 124 0.16
92 64 0.08
93 113 0.15
94 9 0.01
95 4 0.01
96 91 0.12
97 47 0.06
ACGTcount: A:0.42, C:0.08, G:0.17, T:0.34
Consensus pattern (91 bp):
ATTGTAAATGTCAGACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATCAATTCTTTT
TTATAGAAAAAAAGAAAAGTTGATTG
Found at i:1467541 original size:276 final size:270
Alignment explanation
Indices: 1467008--1467999 Score: 1215
Period size: 276 Copynumber: 3.6 Consensus size: 270
1466998 TAATGTTTAA
* * * * * *
1467008 ATTGTAAATGTCAGACCGTAAGAAATAGACTAATACATGGATTATATTTGAGAATCAGATTCTTT
1 ATTGTAAATGTCAGACTGCAAGGATTAGACTAATACATGAATTATATCTGAGAATCAGATTCTTT
* * * * *
1467073 TTTATGAAAAAAAAAAGAAAAAAAGTTGATTGATTATAAATGTCAGACTGAAAGGATTAGACTAA
66 TTTAT-AGAAAAAAAAG---AAAAGCTAATTGATTGTAAATGTCAGACTGCAAGGATTAGACTAA
* *
1467138 TGCATGAATTATATCGGGGAATCAATTCTTTTTTATAGAAAAAAAGAAAAGTTGATTGATTGTAA
127 TGCATGAATTATATCTGAGAATCAATTCTTTTTTATAGAAAAAAAGAAAAGTTGATTGATTGTAA
* * * * * *
1467203 ATATCAGATTGCAAGGAGTAGACTAATGCATGAATTACATCTGAGAATCAGATTCTTTTTTATGG
192 ATGTCAGACTGTAAGGATTAAACTAATGCATGAATTATATCTGAGAATCAGATTCTTTTTTAT-G
1467268 AAAAAAAGTTGATTG
256 AAAAAAAGTTGATTG
* * ** * * * *
1467283 ATTGTAAATATTAGACTATAGGGATTAGACTAATACATGAATTATATCTAAGAATCGGATTCTTA
1 ATTGTAAATGTCAGACTGCAAGGATTAGACTAATACATGAATTATATCTGAGAATCAGATTCTTT
* *
1467348 TTTATAGAAAAAAAAGAAAAGTTAATTGATTGTAAATGTCAGACTGCAAGGATTAGATTAATGCA
66 TTTATAGAAAAAAAAGAAAAGCTAATTGATTGTAAATGTCAGACTGCAAGGATTAGACTAATGCA
* *
1467413 TGAATTATATCTGAGAATCGATTTCTTTTTTATAGAAAAAAGAAAAGAAAAGTTGACTGATTGTA
131 TGAATTATATCTGAGAATC-AATTCTTTTTTATAG---AAA-AAAAGAAAAGTTGATTGATTGTA
* *
1467478 AATGTCAGACTGTAAGGATTAAACTAATGCATAAATTATATCTGAGAATCGGATTCTTTTTTATT
191 AATGTCAGACTGTAAGGATTAAACTAATGCATGAATTATATCTGAGAATCAGATTCTTTTTTA-T
* *
1467543 AAAAAAAAGTTGACTG
255 GAAAAAAAGTTGATTG
* * * * *
1467559 ATTGTAAATGTCAAACTGCAAAGATTAGACTAATGCATGAATTATATTTGAGAATCAAATTCTTT
1 ATTGTAAATGTCAGACTGCAAGGATTAGACTAATACATGAATTATATCTGAGAATCAGATTCTTT
* * *
1467624 TTTATAG-AAAAAAAG-AAAGACTGATTGATTGTAAATGTCAGACTGCAATGATTAG-CTAATGT
66 TTTATAGAAAAAAAAGAAAAG-CTAATTGATTGTAAATGTCAGACTGCAAGGATTAGACTAATGC
* * *
1467686 ATGAATTATATCTGAGAATCAATTATTTTTTATAG-AAAAAATAAAAGTTGATTGATTGTAACTG
130 ATGAATTATATCTGAGAATCAATTCTTTTTTATAGAAAAAAAGAAAAGTTGATTGATTGTAAATG
* * * * *
1467750 TCAGACT-TCAAAGATCAAACTAATGCTTGAATTATATCTGAGAATTAGATTATTTTTTATGAAA
195 TCAGACTGT-AAGGATTAAACTAATGCATGAATTATATCTGAGAATCAGATTCTTTTTTATGAAA
1467814 AAAAGTTGATTG
259 AAAAGTTGATTG
* * * *
1467826 ATTATAAATGTCAGACTGCAAGAATTAGACTAATGCATAAATTATATCTGAGAATCAGATTCTTT
1 ATTGTAAATGTCAGACTGCAAGGATTAGACTAATACATGAATTATATCTGAGAATCAGATTCTTT
** * * ** *
1467891 TTTATAGAAAAAATGGAAAAACTAATTGCTTGTAAATGTCAGACTATAAGGATTAGACTAATGTA
66 TTTATAGAAAAAAAAGAAAAGCTAATTGATTGTAAATGTCAGACTGCAAGGATTAGACTAATGCA
* * * *
1467956 T-TATTATATTTGAGAATCGGATT-TTTTTTATAGGAAAAAAGAAA
131 TGAATTATATCTGAGAATC-AATTCTTTTTTATAGAAAAAAAGAAA
1468000 GACTGCAAGG
Statistics
Matches: 622, Mismatches: 82, Indels: 32
0.85 0.11 0.04
Matches are distributed among these distances:
267 81 0.13
268 135 0.22
269 26 0.04
271 62 0.10
272 14 0.02
273 13 0.02
274 39 0.06
275 101 0.16
276 150 0.24
277 1 0.00
ACGTcount: A:0.42, C:0.08, G:0.17, T:0.34
Consensus pattern (270 bp):
ATTGTAAATGTCAGACTGCAAGGATTAGACTAATACATGAATTATATCTGAGAATCAGATTCTTT
TTTATAGAAAAAAAAGAAAAGCTAATTGATTGTAAATGTCAGACTGCAAGGATTAGACTAATGCA
TGAATTATATCTGAGAATCAATTCTTTTTTATAGAAAAAAAGAAAAGTTGATTGATTGTAAATGT
CAGACTGTAAGGATTAAACTAATGCATGAATTATATCTGAGAATCAGATTCTTTTTTATGAAAAA
AAGTTGATTG
Found at i:1468062 original size:68 final size:67
Alignment explanation
Indices: 1467938--1468066 Score: 161
Period size: 69 Copynumber: 1.9 Consensus size: 67
1467928 GTCAGACTAT
* * * * * *
1467938 AAGGATTAGACTAATGTATTATTATATTTGAGAATCGGATTTTTTTTATAGGAAAAAAGAAAGAC
1 AAGGATTAGACTAATGCATAATTATATATGAGAATCAGATTTTTTGT-TAGAAAAAAAGAAAGAC
1468003 TGC
65 TGC
* *
1468006 AAGGATTAGACTAATGCATGAATTGTATATGAGAATCAGATTTTTTGGTA-AAAAAAAGAAA
1 AAGGATTAGACTAATGCAT-AATTATATATGAGAATCAGATTTTTTGTTAGAAAAAAAGAAA
1468067 AATTGGTTGA
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
67 10 0.19
68 20 0.38
69 22 0.42
ACGTcount: A:0.43, C:0.05, G:0.19, T:0.33
Consensus pattern (67 bp):
AAGGATTAGACTAATGCATAATTATATATGAGAATCAGATTTTTTGTTAGAAAAAAAGAAAGACT
GC
Found at i:1471135 original size:11 final size:11
Alignment explanation
Indices: 1471099--1471137 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
1471089 TTTGTATATT
1471099 TTATAAATAAA
1 TTATAAATAAA
* *
1471110 TTAAAAATAAT
1 TTATAAATAAA
1471121 TTATAAATAAA
1 TTATAAATAAA
1471132 TTATAA
1 TTATAA
1471138 TTCATGCACT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
TTATAAATAAA
Found at i:1471539 original size:294 final size:298
Alignment explanation
Indices: 1470899--1471832 Score: 1260
Period size: 294 Copynumber: 3.2 Consensus size: 298
1470889 AAGTTGAGGA
* * * * *
1470899 AAATTTTTTCTTAGTCATTTTACAT-ATAAAGAAAAACTCG-TATTTAAATTGTTACCGAAAAAT
1 AAATTTTTTCTTGGTCATTTAAC-TGATAAAGGAAAACTTGCT-TTTAAGTTGTTACCGAAAAAT
* * * * ** *
1470962 GAAATGTGTGCATCTGTAAATCTGAAATAAGTCGTTATCGAAAAAAGTAATTTATTTTTGGCTAA
64 AAAATATGTGCTTCTGTAAATCTGAAATAAGTCGTTATCAAAAAAAGTAAAATATTGTTGGCTAA
* * * * *
1471027 CATAAATTTAAGTTCTATCAA-T-T--ACA-AAT--ATGTACAATATTAATTAGTTTT-AAAAAA
129 CATAAATTTAAGTTTTATCAATTATAAAAATAATACATATACAATATTAATTAATTTTCATAAAA
* * * *
1471084 ATAAATTTGTATATTTTATAAATAAATTAAAAATAATTTAT-AA-ATAAA-TTATAATTCATGCA
194 ATAAATTTGTATAATTTATAAATAAATTAAAAATAATTTATAAATATAAAGTAATAATACATGTA
*
1471146 CTATATTAATTAATTTTAATAAAAATAATAAATGTACAAT
259 CAATATTAATTAATTTTAATAAAAATAATAAATGTACAAT
* * *
1471186 AAATTTTTTCTTGGTCATTTTACTGATAAAGGAAAACTTGTTTTTAAGTCGTTACCGAAAAATAA
1 AAATTTTTTCTTGGTCATTTAACTGATAAAGGAAAACTTGCTTTTAAGTTGTTACCGAAAAATAA
* * *
1471251 AATATGTGCTTCTGTAAATCTGAAATAAGTCGTTATAAAAAAAAGGAAAATATTGTTGGTTAACA
66 AATATGTGCTTCTGTAAATCTGAAATAAGTCGTTATCAAAAAAAGTAAAATATTGTTGGCTAACA
*
1471316 TAAATTTAAGTTTTATCAATTATAAAAATAATACATATATAATATTAATTAATTTTCATAAAAAT
131 TAAATTTAAGTTTTATCAATTATAAAAATAATACATATACAATATTAATTAATTTTCATAAAAAT
1471381 AAATTTGTATAATTTATAAATAAATTAAAAA-AATTTATAAATATAAAGTAATAATACATGTACA
196 AAATTTGTATAATTTATAAATAAATTAAAAATAATTTATAAATATAAAGTAATAATACATGTACA
*
1471445 ATATTAATTAATTTTAATAAAAA-AATAGATGTACAAT
261 ATATTAATTAATTTTAATAAAAATAATAAATGTACAAT
* *
1471482 AAA-TTTTT-TTGGTCATTTAACTGGTAAAGGAAAGA-TTGCTTTTAAGTTATTACCGAAAAATA
1 AAATTTTTTCTTGGTCATTTAACTGATAAAGGAAA-ACTTGCTTTTAAGTTGTTACCGAAAAATA
* * *
1471544 AAATATGTGCTTCTGCAAATCCGAAATAAGTCGTTTTCAAAAAAAGTAAAATATTGTTGGCTAAC
65 AAATATGTGCTTCTGTAAATCTGAAATAAGTCGTTATCAAAAAAAGTAAAATATTGTTGGCTAAC
* *
1471609 ATAAATTTAA-TTTCTATTAATTATAAAAATAATACATACACAATATTAATTAATTTTCATAAAA
130 ATAAATTTAAGTTT-TATCAATTATAAAAATAATACATATACAATATTAATTAATTTTCATAAAA
* * *
1471673 ATAAATTTTTTTAATTTATAAATAAATTAAAAATAATTTATAAATAAAAAGTAATAATACATGTA
194 ATAAATTTGTATAATTTATAAATAAATTAAAAATAATTTATAAATATAAAGTAATAATACATGTA
* *
1471738 AAATATTAATTAATTTAAATAAAAATAATAAATGTACAAT
259 CAATATTAATTAATTTTAATAAAAATAATAAATGTACAAT
* * * * *
1471778 AAATTTTTTCTTGGTCATTTTACAGATAAAGAAAAACTCG-TATTTAAGTCGTTAC
1 AAATTTTTTCTTGGTCATTTAACTGATAAAGGAAAACTTGCT-TTTAAGTTGTTAC
1471833 TAAAAAAATA
Statistics
Matches: 572, Mismatches: 54, Indels: 31
0.87 0.08 0.05
Matches are distributed among these distances:
286 1 0.00
287 129 0.23
288 2 0.00
289 1 0.00
291 2 0.00
292 3 0.01
293 3 0.01
294 220 0.38
295 98 0.17
296 37 0.06
297 42 0.07
298 34 0.06
ACGTcount: A:0.46, C:0.07, G:0.08, T:0.38
Consensus pattern (298 bp):
AAATTTTTTCTTGGTCATTTAACTGATAAAGGAAAACTTGCTTTTAAGTTGTTACCGAAAAATAA
AATATGTGCTTCTGTAAATCTGAAATAAGTCGTTATCAAAAAAAGTAAAATATTGTTGGCTAACA
TAAATTTAAGTTTTATCAATTATAAAAATAATACATATACAATATTAATTAATTTTCATAAAAAT
AAATTTGTATAATTTATAAATAAATTAAAAATAATTTATAAATATAAAGTAATAATACATGTACA
ATATTAATTAATTTTAATAAAAATAATAAATGTACAAT
Found at i:1472253 original size:68 final size:67
Alignment explanation
Indices: 1472117--1472261 Score: 179
Period size: 68 Copynumber: 2.1 Consensus size: 67
1472107 ATAAACCCTT
* * *
1472117 TTAATTTAATTTTTTATTTTAAAAAATAATTAATATTTTAATTTATTAATGTAATTTTTTAAAGT
1 TTAATTT-ATTTTTTAATATAAAAAATAATTAATATATTAATTTATTAATGTAATTTTTTAAAGT
1472182 TAA
65 TAA
*
1472185 TTGAATATTATTTTTTAATATAAAATAATAATTAATATATT-ATTT-TTTAT-TAAATTTTTTAA
1 TT-AAT-TTATTTTTTAATATAAAA-AATAATTAATATATTAATTTATTAATGT-AATTTTTTAA
*
1472247 ATTTAA
62 AGTTAA
1472253 TTAATTTAT
1 TTAATTTAT
1472262 AAAAAAATTA
Statistics
Matches: 68, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
66 4 0.06
67 4 0.06
68 23 0.34
69 21 0.31
70 16 0.24
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (67 bp):
TTAATTTATTTTTTAATATAAAAAATAATTAATATATTAATTTATTAATGTAATTTTTTAAAGTT
AA
Found at i:1473977 original size:43 final size:43
Alignment explanation
Indices: 1473916--1474001 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
1473906 ATTACGTGTA
1473916 AATTTTGATTTTTATTTGGTTTTAATATTCAATATTCAGTATT
1 AATTTTGATTTTTATTTGGTTTTAATATTCAATATTCAGTATT
*
1473959 AATTTTGATTTTTATTTGGTTTTGATATTCAATATTCAGTATT
1 AATTTTGATTTTTATTTGGTTTTAATATTCAATATTCAGTATT
1474002 TAGTTATGAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.27, C:0.05, G:0.10, T:0.58
Consensus pattern (43 bp):
AATTTTGATTTTTATTTGGTTTTAATATTCAATATTCAGTATT
Found at i:1480247 original size:2 final size:2
Alignment explanation
Indices: 1480240--1480271 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
1480230 GAATTATAAT
*
1480240 TA TA TA TA TA CA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1480272 GATTTAGTGC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:1486365 original size:8 final size:8
Alignment explanation
Indices: 1486352--1486386 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
1486342 TTATATTTAA
1486352 AATAATTT
1 AATAATTT
1486360 AATAATTT
1 AATAATTT
1486368 AATAATTT
1 AATAATTT
*
1486376 ATATTATTT
1 A-ATAATTT
1486385 AA
1 AA
1486387 ATTTTAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
8 18 0.72
9 7 0.28
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (8 bp):
AATAATTT
Found at i:1487506 original size:34 final size:34
Alignment explanation
Indices: 1487442--1487506 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 34
1487432 ACGATCATAT
* *
1487442 TATCTCGTTAGGGAAAACTAATTGCTTAGAGTGA
1 TATCTCATTAGGGAAAACTAATTGCCTAGAGTGA
* * *
1487476 TATCTCATTATGGAGAACTAATTTCCTAGAG
1 TATCTCATTAGGGAAAACTAATTGCCTAGAG
1487507 AATCATAGTT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 26 1.00
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.34
Consensus pattern (34 bp):
TATCTCATTAGGGAAAACTAATTGCCTAGAGTGA
Found at i:1487651 original size:19 final size:19
Alignment explanation
Indices: 1487627--1487664 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
1487617 TAGGATGATC
1487627 CTAATTCATGTCATGGTCT
1 CTAATTCATGTCATGGTCT
1487646 CTAATTCATGTCATGGTCT
1 CTAATTCATGTCATGGTCT
1487665 TTATCTTCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.21, G:0.16, T:0.42
Consensus pattern (19 bp):
CTAATTCATGTCATGGTCT
Found at i:1488097 original size:25 final size:28
Alignment explanation
Indices: 1488035--1488098 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 28
1488025 CTATTATCTA
1488035 TTTAGTTTTTTTCCTTTCCATATTCATC
1 TTTAGTTTTTTTCCTTTCCATATTCATC
*
1488063 TTTAGCTTTTTTT-C-TT-CAT-TTTATC
1 TTTAG-TTTTTTTCCTTTCCATATTCATC
1488088 TTTAGTTTTTT
1 TTTAGTTTTTT
1488099 CTCTACAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
24 6 0.18
25 10 0.29
26 3 0.09
27 2 0.06
28 6 0.18
29 7 0.21
ACGTcount: A:0.12, C:0.16, G:0.05, T:0.67
Consensus pattern (28 bp):
TTTAGTTTTTTTCCTTTCCATATTCATC
Found at i:1496777 original size:27 final size:27
Alignment explanation
Indices: 1496739--1497087 Score: 443
Period size: 27 Copynumber: 12.7 Consensus size: 27
1496729 TTTCTTTCCA
* *
1496739 AAGTCCATAACTCTGTGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
*
1496766 AAGTCCTCAACTCCGTGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
*
1496793 AAAGTCCACAACTCCGTGGCACCCTTTT
1 -AAGTCCACAACTCCGTGGCATCCTTTT
*
1496821 AAAGTCCACAACTTCGTGGCA-CCATTTT
1 -AAGTCCACAACTCCGTGGCATCC-TTTT
**
1496849 AAAGTCCACAACTCTATGGCATCCTTTT
1 -AAGTCCACAACTCCGTGGCATCCTTTT
* * *
1496877 AAGTCCACAACTTCGTGGCACCCTTTA
1 AAGTCCACAACTCCGTGGCATCCTTTT
* * *
1496904 AAGTCCACAACTCCATGACACCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
*
1496931 AAAGTCCACAACTCCGTGGCACCCTTTT
1 -AAGTCCACAACTCCGTGGCATCCTTTT
1496959 AAGTCCACAACTCCGTGGCA-CTCTTTT
1 AAGTCCACAACTCCGTGGCATC-CTTTT
* * *
1496986 AAAGTCCACCACTCTGTGACA-CTCTTTT
1 -AAGTCCACAACTCCGTGGCATC-CTTTT
*
1497014 AAGTCCACAACTCTGTGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
1497041 AAGTCCACAACTCCGTGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
1497068 AAGTCCACAACTCCGTGGCA
1 AAGTCCACAACTCCGTGGCA
1497088 GCACCCTTTT
Statistics
Matches: 289, Mismatches: 26, Indels: 14
0.88 0.08 0.04
Matches are distributed among these distances:
26 1 0.00
27 165 0.57
28 121 0.42
29 2 0.01
ACGTcount: A:0.25, C:0.32, G:0.14, T:0.29
Consensus pattern (27 bp):
AAGTCCACAACTCCGTGGCATCCTTTT
Found at i:1496806 original size:55 final size:55
Alignment explanation
Indices: 1496738--1497087 Score: 453
Period size: 55 Copynumber: 6.4 Consensus size: 55
1496728 ATTTCTTTCC
* * *
1496738 AAAGTCCATAACTCTGTGGCATCCTTTT-AAGTCCTCAACTCCGTGGCATCCTTTT
1 AAAGTCCACAACTCCGTGGCATCCTTTTAAAGTCCACAACTCCGTGGCA-CCTTTT
* *
1496793 AAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTTCGTGGCACCATTTT
1 AAAGTCCACAACTCCGTGGCATCCTTTTAAAGTCCACAACTCCGTGGCACC-TTTT
** * *
1496849 AAAGTCCACAACTCTATGGCATCCTTTT-AAGTCCACAACTTCGTGGCACCCTTT
1 AAAGTCCACAACTCCGTGGCATCCTTTTAAAGTCCACAACTCCGTGGCACCTTTT
* * *
1496903 AAAGTCCACAACTCCATGACACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTT
1 AAAGTCCACAACTCCGTGGCATCCTTTTAAAGTCCACAACTCCGTGGCA-CCTTTT
* * *
1496959 -AAGTCCACAACTCCGTGGCA-CTCTTTTAAAGTCCACCACTCTGTGACACTCTTTT
1 AAAGTCCACAACTCCGTGGCATC-CTTTTAAAGTCCACAACTCCGTGGCAC-CTTTT
*
1497014 -AAGTCCACAACTCTGTGGCATCCTTTT-AAGTCCACAACTCCGTGGCATCCTTTT
1 AAAGTCCACAACTCCGTGGCATCCTTTTAAAGTCCACAACTCCGTGGCA-CCTTTT
1497068 -AAGTCCACAACTCCGTGGCA
1 AAAGTCCACAACTCCGTGGCA
1497088 GCACCCTTTT
Statistics
Matches: 263, Mismatches: 24, Indels: 17
0.87 0.08 0.06
Matches are distributed among these distances:
54 71 0.27
55 139 0.53
56 53 0.20
ACGTcount: A:0.25, C:0.32, G:0.14, T:0.29
Consensus pattern (55 bp):
AAAGTCCACAACTCCGTGGCATCCTTTTAAAGTCCACAACTCCGTGGCACCTTTT
Found at i:1497189 original size:32 final size:32
Alignment explanation
Indices: 1497122--1497604 Score: 236
Period size: 28 Copynumber: 16.2 Consensus size: 32
1497112 AGTGGCATCA
*
1497122 TTCAAAG-CC-CACAAGTCGGTGGC-A-TCAT
1 TTCAAAGCCCACACAAGTCGGTGGCAACCCAT
*
1497150 TTCAAAGCCCACACAAGTCGGTGGCAACTCAT
1 TTCAAAGCCCACACAAGTCGGTGGCAACCCAT
*
1497182 TTGAAAGCCCACACAAGTCGGTGGCAACCCAT
1 TTCAAAGCCCACACAAGTCGGTGGCAACCCAT
*
1497214 TTCAAAGCCCACACAAGTCGGTGGTAACCCAT
1 TTCAAAGCCCACACAAGTCGGTGGCAACCCAT
* * *
1497246 TTCAAAG-TC-CACAAGTCAGTGGC-ATCC-T
1 TTCAAAGCCCACACAAGTCGGTGGCAACCCAT
* * *
1497274 TTCAAAG-CC-CATAAGTCAGTGGC-ATCC-T
1 TTCAAAGCCCACACAAGTCGGTGGCAACCCAT
* *
1497302 TCTCAAAG-CC-CACAAGTCAGTGGC-ATCC-T
1 T-TCAAAGCCCACACAAGTCGGTGGCAACCCAT
* *
1497331 TCTCAAAG-CC-CACAAGTCAGTGGC-ATCC-T
1 T-TCAAAGCCCACACAAGTCGGTGGCAACCCAT
* ** * *
1497360 TCTCAAAGCCCACACAAATTAGTGGC-A-TCTT
1 T-TCAAAGCCCACACAAGTCGGTGGCAACCCAT
* *
1497391 TTCAAAG-CC-CACAAGTCAGTGGC-ATCC-T
1 TTCAAAGCCCACACAAGTCGGTGGCAACCCAT
* **
1497419 TTCAAAG-CC-CACAAGTCAGTGGC-GTCC-T
1 TTCAAAGCCCACACAAGTCGGTGGCAACCCAT
* *
1497447 TTCAAAG-CC-CACAAGTCAGTGGC-ATCC-T
1 TTCAAAGCCCACACAAGTCGGTGGCAACCCAT
* * * *
1497475 TCTCAAAGCCCACACAAATCAGTGGC-A-TCTT
1 T-TCAAAGCCCACACAAGTCGGTGGCAACCCAT
* ** *
1497506 TTCAAAG-CC-TACAAGTTAGTGGC-ACCC-C
1 TTCAAAGCCCACACAAGTCGGTGGCAACCCAT
* * ** ****
1497534 TTCAAAGCTCACATAAGTTAGTGGCACATTTTT
1 TTCAAAGCCCACACAAGTCGGTGGCA-ACCCAT
* * *
1497567 TTAAAAGCCCACACAAGTCGATGGCAACCCTT
1 TTCAAAGCCCACACAAGTCGGTGGCAACCCAT
1497599 TTCAAA
1 TTCAAA
1497605 TCACCACTTT
Statistics
Matches: 393, Mismatches: 43, Indels: 34
0.84 0.09 0.07
Matches are distributed among these distances:
28 123 0.31
29 81 0.21
30 56 0.14
31 33 0.08
32 80 0.20
33 20 0.05
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.22
Consensus pattern (32 bp):
TTCAAAGCCCACACAAGTCGGTGGCAACCCAT
Found at i:1497225 original size:64 final size:60
Alignment explanation
Indices: 1497122--1497488 Score: 277
Period size: 58 Copynumber: 6.2 Consensus size: 60
1497112 AGTGGCATCA
* *
1497122 TTCAAAGCCCACAAGTCGGTGGCATCATTTCAAAGCCCACACAAGTCGGTGGCAACTCAT
1 TTCAAAGCCCACAAGTCGGTGGCACCATTTCAAAGCCCACACAAGTCGGTGGCAACCCAT
* *
1497182 TTGAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGTAACCCAT
1 TTCAAAG-CC-CACAAGTCGGTGGC-A-CCATTTCAAAGCCCACACAAGTCGGTGGCAACCCAT
* * * * *
1497246 TTCAAAGTCCACAAGTCAGTGGCATCC-TTTCAAAG-CC-CATAAGTCAGTGGC-ATCC-T
1 TTCAAAGCCCACAAGTCGGTGGCA-CCATTTCAAAGCCCACACAAGTCGGTGGCAACCCAT
* * *
1497302 TCTCAAAGCCCACAAGTCAGTGGCATCC-TTCTCAAAG-CC-CACAAGTCAGTGGC-ATCC-T
1 T-TCAAAGCCCACAAGTCGGTGGCA-CCATT-TCAAAGCCCACACAAGTCGGTGGCAACCCAT
* ** * * * *
1497360 TCTCAAAGCCCACACAAATTAGTGGCATCTTTTCAAAG-CC-CACAAGTCAGTGGC-ATCC-T
1 T-TCAAAG-CC-CACAAGTCGGTGGCACCATTTCAAAGCCCACACAAGTCGGTGGCAACCCAT
* * * *
1497419 TTCAAAGCCCACAAGTCAGTGGCGTCC-TTTCAAAG-CC-CACAAGTCAGTGGC-ATCC-T
1 TTCAAAGCCCACAAGTCGGTGGC-ACCATTTCAAAGCCCACACAAGTCGGTGGCAACCCAT
1497475 TCTCAAAGCCCACA
1 T-TCAAAGCCCACA
1497489 CAAATCAGTG
Statistics
Matches: 275, Mismatches: 21, Indels: 25
0.86 0.07 0.08
Matches are distributed among these distances:
56 44 0.16
57 45 0.16
58 51 0.19
59 33 0.12
60 29 0.11
61 5 0.02
62 27 0.10
63 2 0.01
64 39 0.14
ACGTcount: A:0.29, C:0.32, G:0.18, T:0.21
Consensus pattern (60 bp):
TTCAAAGCCCACAAGTCGGTGGCACCATTTCAAAGCCCACACAAGTCGGTGGCAACCCAT
Found at i:1497437 original size:87 final size:86
Alignment explanation
Indices: 1497092--1497559 Score: 473
Period size: 87 Copynumber: 5.3 Consensus size: 86
1497082 GTGGCAGCAC
* * * * *
1497092 CCTTTTAAAG-CC-CACAAGTTAGTGGCATC-ATTCAAAGCCCACAAGTCGGTGGCATCATTTCA
1 CCTTTCAAAGCCCACACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCA
*
1497154 AAGCCCACACAAGTCGGTGGCAACT
66 AAG-CC-CACAAGTCAGTGGC-A-T
* * * * * * * *
1497179 CATTTGAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGTAACCC
1 CCTTTCAAAGCCCACACAAGTCAGTGGC-A-TCTTTTCAAAG-CC-CACAAGTCAGTGG-CATCC
*
1497244 ATTTCAAAGTCCACAAGTCAGTGGCAT
61 -TTTCAAAGCCCACAAGTCAGTGGCAT
* *
1497271 CCTTTCAAAG-CC-CATAAGTCAGTGGCATCCTTCTCAAAGCCCACAAGTCAGTGGCATCCTTCT
1 CCTTTCAAAGCCCACACAAGTCAGTGGCAT-CTTTTCAAAGCCCACAAGTCAGTGGCATCCTT-T
1497334 CAAAGCCCACAAGTCAGTGGCAT
64 CAAAGCCCACAAGTCAGTGGCAT
* *
1497357 CCTTCTCAAAGCCCACACAAATTAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTC
1 CCTT-TCAAAGCCCACACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTC
*
1497422 AAAGCCCACAAGTCAGTGGCGT
65 AAAGCCCACAAGTCAGTGGCAT
* * *
1497444 CCTTTCAAAG-CC-CACAAGTCAGTGGCATCCTTCTCAAAGCCCACACAAATCAGTGGCATCTTT
1 CCTTTCAAAGCCCACACAAGTCAGTGGCAT-CTTTTCAAAG-CC-CACAAGTCAGTGGCATCCTT
* * *
1497507 TCAAAGCCTACAAGTTAGTGGCAC
63 TCAAAGCCCACAAGTCAGTGGCAT
* * * *
1497531 CCCTTCAAAGCTCACATAAGTTAGTGGCA
1 CCTTTCAAAGCCCACACAAGTCAGTGGCA
1497560 CATTTTTTTA
Statistics
Matches: 322, Mismatches: 40, Indels: 36
0.81 0.10 0.09
Matches are distributed among these distances:
84 14 0.04
85 13 0.04
86 38 0.12
87 100 0.31
88 38 0.12
89 47 0.15
90 13 0.04
91 3 0.01
92 16 0.05
93 3 0.01
94 26 0.08
95 3 0.01
96 8 0.02
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.22
Consensus pattern (86 bp):
CCTTTCAAAGCCCACACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCA
AAGCCCACAAGTCAGTGGCAT
Found at i:1497479 original size:115 final size:112
Alignment explanation
Indices: 1496720--1497546 Score: 502
Period size: 115 Copynumber: 7.2 Consensus size: 112
1496710 AGTCCACGAT
* * * * * * * * * *
1496720 TCAGTGGCATTTCTTTCCAAAGTCCATAACTCTGTGGCATCCTTT-TAAGTCCTCAACTCCGTGG
1 TCAGTGGCA-TCCTTT-CAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGG
* * * * * * *
1496784 CATCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTT-AAAGTCCACAACT
64 CATCCTTTCAAAGCCCACAAATCAGTGGCA-TCTTTTCAAAGCCCACAA-G
* * * * * *
1496834 TC-GTGGCA-CCATTTTAAAGTCCACAACTCTA-TGGCATCCTTT-TAAGTCCACAACTTC-GTG
1 TCAGTGGCATCC-TTTCAAAGCCCACAAGTC-AGTGGCATCCTTTCAAAGCCCACAA-GTCAGTG
* * * * * * *
1496894 GCACCCTTT-AAAGTCCACAACTCCA-TGACACCCTTTT-AAAGTCCACAAC
63 GCATCCTTTCAAAGCCCACAAAT-CAGTGGCA-TCTTTTCAAAGCCCACAAG
* * * * * * * * * * * *
1496943 TCCGTGGCACCCTTT-TAAGTCCACAACTCCGTGGCA-CTCTTTTAAAGTCCACCACTCTGTGAC
1 TCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATC-CTTTCAAAGCCCACAAGTCAGTGGC
* * * * * *
1497006 A-CTCTTT-TAAGTCCACAACTCTGTGGCATCCTTTT--AAGTCCACAAC
65 ATC-CTTTCAAAGCCCACAAATCAGTGGCAT-CTTTTCAAAGCCCACAAG
* * * * * * * *
1497052 TCCGTGGCATCCTTT-TAAGTCCACAACTCCGTGGCAGCACCCTTTTAAAGCCCACAAGTTAGTG
1 TCAGTGGCATCCTTTCAAAGCCCACAAGTCAGT-G--GCATCCTTTCAAAGCCCACAAGTCAGTG
* * * *
1497116 GCAT-CATTCAAAGCCCACAAGTCGGTGGCATCATTTCAAAGCCCACACAAG
63 GCATCCTTTCAAAGCCCACAAATCAGTGGCATCTTTTCAAAG-CC-CACAAG
* * * * *
1497167 TCGGTGGCAACTCATTTGAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGT
1 TCAGTGGC-A-TCCTTTCAAAG-CC-CACAAGTCAGTGGC-ATCC-TTTCAAAG-CC-CACAAGT
* * * * * * *
1497232 CGGTGGTAACCCATTTCAAAGTCCACAAGTCAGTGGCATCCTTTCAAAGCCCATAAG
58 CAGTGG-CATCC-TTTCAAAGCCCACAAATCAGTGGCATCTTTTCAAAGCCCACAAG
1497289 TCAGTGGCATCCTTCTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACAAGTCAGTGG
1 TCAGTGGCATCCTT-TCAAAGCCCACAAGTCAGTGGCATCCTT-TCAAAGCCCACAAGTCAGTGG
*
1497354 CATCCTTCTCAAAGCCCACACAAATTAGTGGCATCTTTTCAAAGCCCACAAG
64 CATCCTT-TCAAAG-CC-CACAAATCAGTGGCATCTTTTCAAAGCCCACAAG
*
1497406 TCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCGTCCTTTCAAAGCCCACAAGTCAGTGGCA
1 TCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCA
*
1497471 TCCTTCTCAAAGCCCACACAAATCAGTGGCATCTTTTCAAAGCCTACAAG
66 TCCTT-TCAAAG-CC-CACAAATCAGTGGCATCTTTTCAAAGCCCACAAG
* * * *
1497521 TTAGTGGCACCCCTTCAAAGCTCACA
1 TCAGTGGCATCCTTTCAAAGCCCACA
1497547 TAAGTTAGTG
Statistics
Matches: 602, Mismatches: 71, Indels: 79
0.80 0.09 0.11
Matches are distributed among these distances:
108 1 0.00
109 70 0.12
110 84 0.14
111 56 0.09
112 46 0.08
113 10 0.02
114 5 0.01
115 114 0.19
116 41 0.07
117 55 0.09
118 16 0.03
119 22 0.04
120 17 0.03
121 17 0.03
122 13 0.02
123 3 0.00
124 32 0.05
ACGTcount: A:0.27, C:0.32, G:0.16, T:0.25
Consensus pattern (112 bp):
TCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCA
TCCTTTCAAAGCCCACAAATCAGTGGCATCTTTTCAAAGCCCACAAG
Found at i:1497537 original size:28 final size:28
Alignment explanation
Indices: 1496720--1497546 Score: 514
Period size: 28 Copynumber: 28.9 Consensus size: 28
1496710 AGTCCACGAT
* * * *
1496720 TCAGTGGCATTTCTTTCCAAAGTCCATAAC
1 TCAGTGGCA-TCCTTT-CAAAGCCCACAAG
* * * * *
1496750 TCTGTGGCATCCTTT-TAAGTCCTCAAC
1 TCAGTGGCATCCTTTCAAAGCCCACAAG
* * * *
1496777 TCCGTGGCATCCTTTTAAAGTCCACAAC
1 TCAGTGGCATCCTTTCAAAGCCCACAAG
* * * * *
1496805 TCCGTGGCACCCTTTTAAAGTCCACAACT
1 TCAGTGGCATCCTTTCAAAGCCCACAA-G
* * *
1496834 TC-GTGGCA-CCATTTTAAAGTCCACAAC
1 TCAGTGGCATCC-TTTCAAAGCCCACAAG
* * *
1496861 TCTA-TGGCATCCTTT-TAAGTCCACAACT
1 TC-AGTGGCATCCTTTCAAAGCCCACAA-G
* * *
1496889 TC-GTGGCACCCTTT-AAAGTCCACAAC
1 TCAGTGGCATCCTTTCAAAGCCCACAAG
* * * * *
1496915 TCCA-TGACACCCTTTTAAAGTCCACAAC
1 T-CAGTGGCATCCTTTCAAAGCCCACAAG
* * * * *
1496943 TCCGTGGCACCCTTT-TAAGTCCACAAC
1 TCAGTGGCATCCTTTCAAAGCCCACAAG
* * * * *
1496970 TCCGTGGCA-CTCTTTTAAAGTCCACCAC
1 TCAGTGGCATC-CTTTCAAAGCCCACAAG
* * * * *
1496998 TCTGTGACA-CTCTTT-TAAGTCCACAAC
1 TCAGTGGCATC-CTTTCAAAGCCCACAAG
* * * *
1497025 TCTGTGGCATCCTTT-TAAGTCCACAAC
1 TCAGTGGCATCCTTTCAAAGCCCACAAG
* * * *
1497052 TCCGTGGCATCCTTT-TAAGTCCACAAC
1 TCAGTGGCATCCTTTCAAAGCCCACAAG
* * *
1497079 TCCGTGGCAGCACCCTTTTAAAGCCCACAAG
1 TCAGT-G--GCATCCTTTCAAAGCCCACAAG
* *
1497110 TTAGTGGCAT-CATTCAAAGCCCACAAG
1 TCAGTGGCATCCTTTCAAAGCCCACAAG
* *
1497137 TCGGTGGCATCATTTCAAAGCCCACACAAG
1 TCAGTGGCATCCTTTCAAAG-CC-CACAAG
* * *
1497167 TCGGTGGCAACTCATTTGAAAGCCCACACAAG
1 TCAGTGGC-A-TCCTTTCAAAG-CC-CACAAG
* *
1497199 TCGGTGGCAACCCATTTCAAAGCCCACACAAG
1 TCAGTGGC-ATCC-TTTCAAAG-CC-CACAAG
* * * *
1497231 TCGGTGGTAACCCATTTCAAAGTCCACAAG
1 TCAGTGG-CATCC-TTTCAAAGCCCACAAG
*
1497261 TCAGTGGCATCCTTTCAAAGCCCATAAG
1 TCAGTGGCATCCTTTCAAAGCCCACAAG
1497289 TCAGTGGCATCCTTCTCAAAGCCCACAAG
1 TCAGTGGCATCCTT-TCAAAGCCCACAAG
1497318 TCAGTGGCATCCTTCTCAAAGCCCACAAG
1 TCAGTGGCATCCTT-TCAAAGCCCACAAG
*
1497347 TCAGTGGCATCCTTCTCAAAGCCCACACAAA
1 TCAGTGGCATCCTT-TCAAAG-CC-CACAAG
* *
1497378 TTAGTGGCATCTTTTCAAAGCCCACAAG
1 TCAGTGGCATCCTTTCAAAGCCCACAAG
1497406 TCAGTGGCATCCTTTCAAAGCCCACAAG
1 TCAGTGGCATCCTTTCAAAGCCCACAAG
*
1497434 TCAGTGGCGTCCTTTCAAAGCCCACAAG
1 TCAGTGGCATCCTTTCAAAGCCCACAAG
*
1497462 TCAGTGGCATCCTTCTCAAAGCCCACACAAA
1 TCAGTGGCATCCTT-TCAAAG-CC-CACAAG
* *
1497493 TCAGTGGCATCTTTTCAAAGCCTACAAG
1 TCAGTGGCATCCTTTCAAAGCCCACAAG
* * * *
1497521 TTAGTGGCACCCCTTCAAAGCTCACA
1 TCAGTGGCATCCTTTCAAAGCCCACA
1497547 TAAGTTAGTG
Statistics
Matches: 694, Mismatches: 71, Indels: 66
0.84 0.09 0.08
Matches are distributed among these distances:
26 2 0.00
27 181 0.26
28 248 0.36
29 87 0.13
30 59 0.09
31 50 0.07
32 67 0.10
ACGTcount: A:0.27, C:0.32, G:0.16, T:0.25
Consensus pattern (28 bp):
TCAGTGGCATCCTTTCAAAGCCCACAAG
Found at i:1499279 original size:28 final size:28
Alignment explanation
Indices: 1499236--1499952 Score: 865
Period size: 28 Copynumber: 25.5 Consensus size: 28
1499226 CGTTCATCTC
*
1499236 TTCAAAGCCCAGAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
1499264 TTTAAAGCCCACAAGTCAGTGGCA-TCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
1499291 TTCAAAGCCCACAAGTAAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
1499319 TTCATAGCCCACAAGTTAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
1499347 TTCAAAGCCCACAAGTCAGTGGCA-TCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
1499374 TTTAAAGCCCACAAGTCAGTGGCATCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
1499402 TTCAAAGCCCACGAGTCAGTGGCAACACTT
1 TTCAAAGCCCACAAGTCAGTGGC-AC-CCT
1499432 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * * *
1499460 TTTAAAGACCACCAA-TCAATGGCA-TCT
1 TTCAAAGCCCA-CAAGTCAGTGGCACCCT
*
1499487 TTCAAAGCCCACAAGTTAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
** *
1499515 TTCAAAAACCACAAGTC-GTGGCA-TCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
1499541 TTCAAAGCCCACAAGTCAGTGGCATCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
1499569 TTCAAAG-CCACGAGTCAGTGGCAACTCT
1 TTCAAAGCCCACAAGTCAGTGGC-ACCCT
*
1499597 GTTCAAAGCCCACAAGTCAGTGGCATCCT
1 -TTCAAAGCCCACAAGTCAGTGGCACCCT
1499626 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
1499654 TACAAAGCCCATGCAAGTTAGTGGCACCC-
1 TTCAAAGCCCA--CAAGTCAGTGGCACCCT
*
1499683 TTCAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
* *
1499712 TTCAAAGCCCACAAGTTAATGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
1499740 TTCAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
* *
1499769 TTTAAAGCCCACAAGTTAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
1499797 TTCAAAGCCCACAAGTTAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
* * *
1499826 TTCAAAGCCCATAAGTCAGTGGCATCAT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
1499854 TTCAAAGCCCAAAAGTTAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * **
1499882 TTCAAAGCCCACAAGTTAGTAGCACATT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
1499910 TTCAAACCCCACAAGTCAATGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
1499938 TTTAAAGCCCACAAG
1 TTCAAAGCCCACAAG
1499953 CTAGTGGTAA
Statistics
Matches: 591, Mismatches: 80, Indels: 36
0.84 0.11 0.05
Matches are distributed among these distances:
26 20 0.03
27 106 0.18
28 313 0.53
29 98 0.17
30 54 0.09
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.22
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCACCCT
Found at i:1499490 original size:85 final size:83
Alignment explanation
Indices: 1499230--1499952 Score: 818
Period size: 85 Copynumber: 8.6 Consensus size: 83
1499220 CTAGAACGTT
* *
1499230 CATCTCTTCAAAGCCCAGAAGTCAGTGGCACCCTTTT-AAAGCCCACAAGTCAGTGGCA-TCTTT
1 CATCT-TTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTT
*
1499293 CAAAGCCCACAAGTAAGTGG
64 CAAAGCCCACAAGTCAGTGG
* * * * * *
1499313 CACCCTTTCATAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA-TCTTTT
1 CA-TCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTC
1499377 AAAGCCCACAAGTCAGTGG
65 AAAGCCCACAAGTCAGTGG
*
1499396 CATCTTTTCAAAGCCCACGAGTCAGTGGCAACACTTTTCAAAGCCCACAAGTCAGTGGCACCCTT
1 CATC-TTTCAAAGCCCACAAGTCAGTGGC-AC-CTTTTCAAAGCCCACAAGTCAGTGGCACCCTT
* * *
1499461 TTAAAGACCACCAA-TCAATGG
63 TCAAAGCCCA-CAAGTCAGTGG
* * ** *
1499482 CATCTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAAACCACAAGTC-GTGGCA-TCTTTCA
1 CATCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCA
1499545 AAGCCCACAAGTCAGTGG
66 AAGCCCACAAGTCAGTGG
* * *
1499563 CATCTTTTCAAAG-CCACGAGTCAGTGGCAACTCTGTTCAAAGCCCACAAGTCAGTGGCATCCTT
1 CATC-TTTCAAAGCCCACAAGTCAGTGGC-AC-CTTTTCAAAGCCCACAAGTCAGTGGCACCCTT
1499627 TCAAAGCCCACAAGTCAGTGG
63 TCAAAGCCCACAAGTCAGTGG
* * * * *
1499648 CACCCTTACAAAGCCCATGCAAGTTAGTGGCACC-CTTCAAAGCCCACAAGTCAGTGGCACTCTT
1 CA-TCTTTCAAAGCCCA--CAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCAC-CCT
* *
1499712 TTCAAAGCCCACAAGTTAATGG
62 TTCAAAGCCCACAAGTCAGTGG
* * *
1499734 CACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTTAAAGCCCACAAGTTAGTGGCACCCTTT
1 CA-TCTTTCAAAGCCCACAAGTCAGTGGCAC-CTTTTCAAAGCCCACAAGTCAGTGGCACCCTTT
*
1499799 CAAAGCCCACAAGTTAGTGG
64 CAAAGCCCACAAGTCAGTGG
* * * * *
1499819 CACTCTTTTCAAAGCCCATAAGTCAGTGGCATCATTTCAAAGCCCAAAAGTTAGTGGCACCCTTT
1 CA-TC-TTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTT
* *
1499884 CAAAGCCCACAAGTTAGTAG
64 CAAAGCCCACAAGTCAGTGG
* *
1499904 CA-CATTTTCAAACCCCACAAGTCAATGGCACCCTTTT-AAAGCCCACAAG
1 CATC--TTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCACAAG
1499953 CTAGTGGTAA
Statistics
Matches: 557, Mismatches: 60, Indels: 45
0.84 0.09 0.07
Matches are distributed among these distances:
80 3 0.01
81 34 0.06
82 22 0.04
83 124 0.22
84 59 0.11
85 188 0.34
86 112 0.20
87 5 0.01
88 10 0.02
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.22
Consensus pattern (83 bp):
CATCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCA
AAGCCCACAAGTCAGTGG
Found at i:1499617 original size:57 final size:56
Alignment explanation
Indices: 1499230--1500030 Score: 843
Period size: 57 Copynumber: 14.1 Consensus size: 56
1499220 CTAGAACGTT
* * * *
1499230 CATCTCTTCAAAGCCCAGAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGTGG
1 CATCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGG
* * * *
1499286 CATC-TTTCAAAGCCCACAAGTAAGTGGCACCCTTTCATAGCCCACAAGTTAGTGG
1 CATCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGG
* * *
1499341 CACCCTTTCAAAGCCCACAAGTCAGTGGCA-TCTTTTAAAGCCCACAAGTCAGTGG
1 CATCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGG
* *
1499396 CATCTTTTCAAAGCCCACGAGTCAGTGGCAACACTTTTCAAAGCCCACAAGTCAGTGG
1 CATCTTTTCAAAGCCCACAAGTCAGTGGC-ACTC-TTTCAAAGCCCACAAGTCAGTGG
* * * *
1499454 CACCCTTTT-AAAGACCACCAA-TCAATGGCA-TCTTTCAAAGCCCACAAGTTAGTGG
1 CA-TCTTTTCAAAGCCCA-CAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGG
* * **
1499509 CACCCTTTCAAAAACCACAAGTC-GTGGCA-TCTTTCAAAGCCCACAAGTCAGTGG
1 CATCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGG
*
1499563 CATCTTTTCAAAG-CCACGAGTCAGTGGCAACTCTGTTCAAAGCCCACAAGTCAGTGG
1 CATCTTTTCAAAGCCCACAAGTCAGTGGC-ACTCT-TTCAAAGCCCACAAGTCAGTGG
* * * *
1499620 CATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTACAAAGCCCATGCAAGTTAGTGG
1 CATCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCA--CAAGTCAGTGG
** * *
1499678 CA-CCCTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTTAATGG
1 CATCTTTTCAAAGCCCACAAGTCAGTGGCACTC-TTTCAAAGCCCACAAGTCAGTGG
* * * *
1499734 CACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTTAAAGCCCACAAGTTAGTGG
1 CATCTTTTCAAAGCCCACAAGTCAGTGGCACTC-TTTCAAAGCCCACAAGTCAGTGG
* * * *
1499791 CACCCTTTCAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAGCCCATAAGTCAGTGG
1 CATCTTTTCAAAGCCCACAAGTCAGTGGCACTC-TTTCAAAGCCCACAAGTCAGTGG
* * * * * *
1499848 CATCATTTCAAAGCCCAAAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTTAGTAG
1 CATCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGG
* * * *
1499904 CA-CATTTTCAAACCCCACAAGTCAATGGCACCCTTTTAAAGCCCACAAG-CTAGTGG
1 CATC-TTTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTC-AGTGG
* * * * * *
1499960 TAACTCTTTTCAATGCCCACACGAGTCGGTGACAAATCTTTTCAAAGCCCACAAAAGTTAGTGG
1 -CA-TCTTTTCAAAGCCCACA--AGTCAGTGGC-ACTC-TTTCAAAGCCCAC--AAGTCAGTGG
1500024 CA-CTTTT
1 CATCTTTT
1500031 TTTTTAAAAA
Statistics
Matches: 643, Mismatches: 73, Indels: 53
0.84 0.09 0.07
Matches are distributed among these distances:
53 8 0.01
54 52 0.08
55 130 0.20
56 120 0.19
57 202 0.31
58 88 0.14
59 8 0.01
60 7 0.01
61 7 0.01
62 12 0.02
63 1 0.00
64 8 0.01
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (56 bp):
CATCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGG
Found at i:1505996 original size:10 final size:10
Alignment explanation
Indices: 1505981--1506037 Score: 60
Period size: 10 Copynumber: 5.4 Consensus size: 10
1505971 TCCTTTATAC
1505981 AAAAAAAACA
1 AAAAAAAACA
1505991 AAAAAAAACA
1 AAAAAAAACA
*
1506001 AAAAAACCAAGA
1 AAAAAA--AACA
**
1506013 AAAAAATAGTA
1 AAAAAA-AACA
1506024 AAAAAAAACA
1 AAAAAAAACA
1506034 AAAA
1 AAAA
1506038 TGAGTCTAGA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
10 22 0.56
11 8 0.21
12 9 0.23
ACGTcount: A:0.84, C:0.09, G:0.04, T:0.04
Consensus pattern (10 bp):
AAAAAAAACA
Found at i:1506001 original size:19 final size:20
Alignment explanation
Indices: 1505979--1506018 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
1505969 CATCCTTTAT
1505979 ACAAAAAAAACAA-AAAAAA
1 ACAAAAAAAACAAGAAAAAA
*
1505998 ACAAAAAAACCAAGAAAAAA
1 ACAAAAAAAACAAGAAAAAA
1506018 A
1 A
1506019 TAGTAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.85, C:0.12, G:0.03, T:0.00
Consensus pattern (20 bp):
ACAAAAAAAACAAGAAAAAA
Found at i:1507294 original size:28 final size:28
Alignment explanation
Indices: 1507251--1508544 Score: 1491
Period size: 28 Copynumber: 45.8 Consensus size: 28
1507241 CGTTCATCTC
*
1507251 TTCAAAGCCCAGAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
1507279 TTTAAAGCCCACAAGTCAGTGGCA-TCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
1507306 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
1507334 TTCAAAACCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
1507362 TTCAAAGCCCATAAGTCAGTGGCA-TCG
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
1507389 TTCAAAGCCCACAAGTCAGTGACATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * * *
1507417 TTCAAAGCCCACGAGTCAGGGGTAACTCTT
1 TTCAAAGCCCACAAGTCAGTGG-CAC-CCT
* *
1507447 TTCAATGCTCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
1507475 TTTAAAGCCCACAAGTCAGTGGCA-TCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
1507502 TTCAAAGCCCGA-AAGTCTGTGGCACCAT
1 TTCAAAGCCC-ACAAGTCAGTGGCACCCT
*
1507530 TTTAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
1507558 TTCAAAGCCCACAAGTTAGTCGCAACTCTT
1 TTCAAAGCCCACAAGTCAGTGGC-AC-CCT
*
1507588 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * **
1507616 TTCAAAGCCCATAAGTCAGGGGTGCCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
1507644 TTCAAAGCCCATAAGTCAG-GAGCACCCT
1 TTCAAAGCCCACAAGTCAGTG-GCACCCT
* *
1507672 TTCAAAGCCCAAAAGTCAGTGGCGCCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
1507700 TTCAAAGCACACAAGTCAGTAGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
1507728 TTCAAAGCCCACAAGTTAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
* * * *
1507757 TTCAAAGCCTACAAATCAGTGGTATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
1507785 TTCAAAGCTCACAAGTAAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
1507813 TTCAAAGCCCATAAGTTAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
1507841 TTCAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
* *
1507870 TTCAAAGCCCACAAGTCAGTGGCATCCA
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
1507898 TTCAAAGCCCATAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
1507926 TTCAAAGCCCACAAGTCAATGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
* **
1507955 TTCAAAGCCCACAAGTTAGTGGTGCCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
1507983 TTCAAAGCCCATAAGTTAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
1508011 TTCAAAGCCCATAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
***
1508039 TTCAAAGCCCACAAGTCAGTGGCATTATT
1 TTCAAAGCCCACAAGTCAGTGGCA-CCCT
*
1508068 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
1508096 TTCAAAGCCTACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
1508124 TTCAAAACCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
1508152 TTCAAAGCCTATAAGTCAGTGGCACCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
1508180 TTCAAAACCCACAAGTCAGTGACACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
* *
1508209 TTCAAAGCCCATAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
1508237 TTCAAAGCCCACAAGTCAATAGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
* *
1508266 TTCAAAGCCCACAAGTCAATGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
* *
1508295 TTCAAAGCCCACAAGTCAATGGCGCCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
1508323 TTCACAGCCCACGCAAGTTAGTGGCACCGT
1 TTCAAAGCCCA--CAAGTCAGTGGCACCCT
* *
1508353 TTCAAAGCCCACAAGTCAGTGGCGCTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
* *
1508382 TTCAAATCCCACAAGTTAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * * * *
1508410 TTCAAAGCTCACAAGTTAGTGACGCTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
* *
1508439 TTCAAAGCCCACAAGTAAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * * * *
1508467 TTTAAAGCCCATAAGTCAATGGTACACT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
1508495 TTCAAAGCCCACAAGTCAGTGACACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
1508523 TTCAAAGCCCGCAAGCCAGTGG
1 TTCAAAGCCCACAAGTCAGTGG
1508545 TAACTCTTTT
Statistics
Matches: 1070, Mismatches: 175, Indels: 42
0.83 0.14 0.03
Matches are distributed among these distances:
27 72 0.07
28 705 0.66
29 227 0.21
30 66 0.06
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.23
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCACCCT
Found at i:1507483 original size:113 final size:112
Alignment explanation
Indices: 1507251--1508544 Score: 1474
Period size: 113 Copynumber: 11.4 Consensus size: 112
1507241 CGTTCATCTC
* * *
1507251 TTCAAAGCCCAGAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGTGGCAT-CTTTCAAAGCC
1 TTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCC
*
1507315 CACAAGTCAGTGGCACCCTTTCAAAACCCACAAGTCAGTGGCACCCT
66 CACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
1507362 TTCAAAGCCCATAAGTCAGTGGCA-TCGTTCAAAGCCCACAAGTCAGTGACATCCTTTCAAAGCC
1 TTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCC
* * * * * *
1507426 CACGAGTCAGGGGTAACTCTTTTCAATGCTCACAAGTCAGTGGCACCCT
66 CACAAGTCAGTGG-CAC-CCTTTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
1507475 TTTAAAGCCCACAAGTCAGTGGCA-TCTTTCAAAGCCCGA-AAGTCTGTGGCA-CCATTTTAAAG
1 TTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCC-ACAAGTCAGTGGCATCC-TTTCAAAG
* * *
1507537 CCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTCGCAACTCTT
64 CCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGC-AC-CCT
* * ***
1507588 TTCAAAGCCCACAAGTCAGTGGCA-TCCTTTCAAAGCCCATAAGTCAGGGGTGCCCTTTCAAAGC
1 TTCAAAGCCCACAAGTCAGTGGCACT-CTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGC
* * *
1507652 CCATAAGTCAG-GAGCACCCTTTCAAAGCCCAAAAGTCAGTGGCGCCCT
65 CCACAAGTCAGTG-GCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCT
* * * *
1507700 TTCAAAGCACACAAGTCAGTAGCA-TCCTTTCAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAG
1 TTCAAAGCCCACAAGTCAGTGGCACT-CTTTCAAAGCCCACAAGTCAGTGGCA-TCCTTTCAAAG
* * * * * *
1507764 CCTACAAATCAGTGGTATCCTTTCAAAGCTCACAAGTAAGTGGCACCCT
64 CCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCT
* * * *
1507813 TTCAAAGCCCATAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGC
1 TTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCA-TCCTTTCAAAGC
* * *
1507878 CCACAAGTCAGTGGCATCCATTCAAAGCCCATAAGTCAGTGGCACCCT
65 CCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCT
* * ***
1507926 TTCAAAGCCCACAAGTCAATGGCACTCTTTTCAAAGCCCACAAGTTAGTGGTGCCCTTTCAAAGC
1 TTCAAAGCCCACAAGTCAGTGGCACTC-TTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGC
* * * *
1507991 CCATAAGTTAGTGGCATCCTTTCAAAGCCCATAAGTCAGTGGCACCCT
65 CCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCT
* *
1508039 TTCAAAGCCCACAAGTCAGTGGCATTATTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGC
1 TTCAAAGCCCACAAGTCAGTGGCACT-CTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGC
* * *
1508104 CTACAAGTCAGTGGCACCCTTTCAAAACCCACAAGTCAGTGGCATCCT
65 CCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCT
* * * * *
1508152 TTCAAAGCCTATAAGTCAGTGGCAC-CTTTTCAAAACCCACAAGTCAGTGACACTCTTTTCAAAG
1 TTCAAAGCCCACAAGTCAGTGGCACTC-TTTCAAAGCCCACAAGTCAGTGGCA-TCCTTTCAAAG
* * * * *
1508216 CCCATAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAATAGCACTCTT
64 CCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCT
* * ** *
1508266 TTCAAAGCCCACAAGTCAATGGCACTCTTTTCAAAGCCCACAAGTCAATGGCGCCCTTTCACAGC
1 TTCAAAGCCCACAAGTCAGTGGCACTC-TTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGC
* * * *
1508331 CCACGCAAGTTAGTGGCACCGTTTCAAAGCCCACAAGTCAGTGGCGCTCTT
65 CCA--CAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCT
* * * * * *
1508382 TTCAAATCCCACAAGTTAGTGGCACCCTTTCAAAGCTCACAAGTTAGTGACGC-TCTTTTCAAAG
1 TTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTG--GCATCCTTTCAAAG
* * * * * * *
1508446 CCCACAAGTAAGTGGCATCCTTTTAAAGCCCATAAGTCAATGGTACACT
64 CCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCT
* * * *
1508495 TTCAAAGCCCACAAGTCAGTGACACCCTTTCAAAGCCCGCAAGCCAGTGG
1 TTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGG
1508545 TAACTCTTTT
Statistics
Matches: 1004, Mismatches: 155, Indels: 48
0.83 0.13 0.04
Matches are distributed among these distances:
110 24 0.02
111 67 0.07
112 78 0.08
113 556 0.55
114 159 0.16
115 44 0.04
116 74 0.07
117 2 0.00
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.23
Consensus pattern (112 bp):
TTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCC
CACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCT
Found at i:1507537 original size:141 final size:139
Alignment explanation
Indices: 1507251--1508612 Score: 1491
Period size: 141 Copynumber: 9.6 Consensus size: 139
1507241 CGTTCATCTC
* * *
1507251 TTCAAAGCCCAGAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGTGGCA-TC-TTTCAAAGC
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGAACTCTTTTCAAAGC
* *
1507314 CCACAAGTCAGTGGCACCCTTTCAAAACCCACAAGTCAGTGGCACCCTTTCAAAGCCCATAAGTC
66 CCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTCAAAGCCCACAAGTC
* *
1507379 AGTGGCATCG
130 AGTGGCACCT
* * * * *
1507389 TTCAAAGCCCACAAGTCAGTGACATCCTTTCAAAGCCCACGAGTCAGGGGTAACTCTTTTCAATG
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGG-AACTCTTTTCAAAG
* * *
1507454 CTCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGTGGCATCTTTCAAAGCCCGA-AAGT
65 CCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTCAAAGCCC-ACAAGT
*
1507518 CTGTGGCACCAT
129 CAGTGGCACC-T
* * *
1507530 TTTAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTCGCAACTCTTTTCAAAG
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGT-GGAACTCTTTTCAAAG
* * * *
1507595 CCCACAAGTCAGTGGCATCCTTTCAAAGCCCATAAGTCAGGGGTGC-CCTTTCAAAGCCCATAAG
65 CCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCA-GTG-GCACCTTTCAAAGCCCACAAG
1507659 TCAG-GAGCACCCT
128 TCAGTG-GCA-CCT
* * * * * *
1507672 TTCAAAGCCCAAAAGTCAGTGGCGCCCTTTCAAAGCACACAAGTCAGTAGCA-TCCTTTCAAAGC
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGAACTCTTTTCAAAGC
* * * * * *
1507736 CCACAAGTTAGTGGCACTCTTTTCAAAGCCTACAAATCAGTGGTATCCTTTCAAAGCTCACAAGT
66 CCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTCAAAGCCCACAAGT
*
1507801 AAGTGGCACCCT
129 CAGTGGCA-CCT
* * *
1507813 TTCAAAGCCCATAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGC
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGAACTCTTTTCAAAGC
* * *
1507878 CCACAAGTCAGTGGCATCCATTCAAAGCCCATAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTC
66 CCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTCAAAGCCCACAAGTC
*
1507943 AATGGCACTCTT
130 AGTGGCAC-C-T
* ** * * * *
1507955 TTCAAAGCCCACAAGTTAGTGGTGCCCTTTCAAAGCCCATAAGTTAGTGGCA-TCCTTTCAAAGC
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGAACTCTTTTCAAAGC
* **
1508019 CCATAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATTATTTTCAAAGCCCACAAGT
66 CCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA--CCTTTCAAAGCCCACAAGT
1508084 CAGTGGCATCCT
129 CAGTGGCA-CCT
* * * *
1508096 TTCAAAGCCTACAAGTCAGTGGCACCCTTTCAAAACCCACAAGTCAGTGGCA-TCCTTTCAAAGC
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGAACTCTTTTCAAAGC
* * * * * *
1508160 CTATAAGTCAGTGGCACCTTTTCAAAACCCACAAGTCAGTGACACTCTTTTCAAAGCCCATAAGT
66 CCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAC-C-TTTCAAAGCCCACAAGT
1508225 CAGTGGCATCCT
129 CAGTGGCA-CCT
* * * * *
1508237 TTCAAAGCCCACAAGTCAATAGCACTCTTTTCAAAGCCCACAAGTCAATGGCACTCTTTTCAAAG
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGAACTCTTTTCAAAG
* * * *
1508302 CCCACAAGTCAATGGCGCCCTTTCACAGCCCACGCAAGTTAGTGGCACCGTTTCAAAGCCCACAA
65 CCCACAAGTCAGTGGCACCCTTTCAAAGCCCA--CAAGTCAGTGGCACC-TTTCAAAGCCCACAA
*
1508367 GTCAGTGGCGCTCTT
127 GTCAGTGGCAC-C-T
* * * * *
1508382 TTCAAATCCCACAAGTTAGTGGCACCCTTTCAAAGCTCACAAGTTAGT-GACGCTCTTTTCAAAG
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGA-ACTCTTTTCAAAG
* * * * * *
1508446 CCCACAAGTAAGTGGCATCCTTTTAAAGCCCATAAGTCAATGGTACACTTTCAAAGCCCACAAGT
65 CCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAC-CTTTCAAAGCCCACAAGT
*
1508511 CAGTGACACCCT
129 CAGTGGCA-CCT
* * * * * *
1508523 TTCAAAGCCCGCAAGCCAGTGGTAACTCTTTTCAAAGCTCACACGAGTCGGTGGTAACTCTTTTC
1 TTCAAAGCCCACAAGTCAGTGG-CAC-CCTTTCAAAGC-C-CACAAGTCAGTGG-AACTCTTTTC
* *
1508588 AAAGCTCACACAAATTAGTGGCACC
61 AAAGC-C-CACAAGTCAGTGGCACC
1508613 TTTTTTTTAA
Statistics
Matches: 1034, Mismatches: 151, Indels: 68
0.83 0.12 0.05
Matches are distributed among these distances:
138 44 0.04
139 2 0.00
140 55 0.05
141 497 0.48
142 228 0.22
143 54 0.05
144 82 0.08
145 42 0.04
146 14 0.01
147 2 0.00
148 14 0.01
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.23
Consensus pattern (139 bp):
TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGAACTCTTTTCAAAGC
CCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTCAAAGCCCACAAGTCA
GTGGCACCT
Found at i:1509513 original size:20 final size:20
Alignment explanation
Indices: 1509490--1509614 Score: 97
Period size: 20 Copynumber: 5.7 Consensus size: 20
1509480 AAGTACGCAG
*
1509490 ATGTATCGATGCATTTTTCA
1 ATGTATCGATACATTTTTCA
* * *
1509510 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* *
1509530 ATATATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
1509550 ATGTATCGATACATTCTGTCTTTTTACCCA
1 ATGTATCGATACA-------TTTTT---CA
1509580 GATGTATCGATACATTTTTCA
1 -ATGTATCGATACATTTTTCA
1509601 ATGTATCGATACAT
1 ATGTATCGATACAT
1509615 CTAGTTAAAA
Statistics
Matches: 83, Mismatches: 11, Indels: 22
0.72 0.09 0.19
Matches are distributed among these distances:
20 57 0.69
21 2 0.02
24 5 0.06
27 4 0.05
30 2 0.02
31 13 0.16
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:1513616 original size:20 final size:20
Alignment explanation
Indices: 1513591--1513739 Score: 111
Period size: 20 Copynumber: 6.9 Consensus size: 20
1513581 TTTTTACCCA
1513591 AATGTATCGATACATTTTTC
1 AATGTATCGATACATTTTTC
* * *
1513611 AATGTATCGATACATGTATG
1 AATGTATCGATACATTTTTC
1513631 AATGTATCGATACATTCTTT-
1 AATGTATCGATACATT-TTTC
*
1513651 AATGTGTCGATACATTCTATCTTTTTACC
1 AATGTATCGAT--A--C-A--TTTTT--C
*
1513680 TAGATTTATCGATACATTTTTC
1 -A-ATGTATCGATACATTTTTC
* * *
1513702 AATGTATCGATACATGTATG
1 AATGTATCGATACATTTTTC
1513722 AATGTATCGATACATTTT
1 AATGTATCGATACATTTT
1513740 GTCTTTTTAC
Statistics
Matches: 102, Mismatches: 14, Indels: 26
0.72 0.10 0.18
Matches are distributed among these distances:
20 73 0.72
21 3 0.03
22 2 0.02
24 6 0.06
25 1 0.01
26 4 0.04
27 3 0.03
29 1 0.01
30 1 0.01
31 8 0.08
ACGTcount: A:0.30, C:0.14, G:0.13, T:0.43
Consensus pattern (20 bp):
AATGTATCGATACATTTTTC
Found at i:1513636 original size:40 final size:40
Alignment explanation
Indices: 1513591--1513739 Score: 147
Period size: 40 Copynumber: 3.5 Consensus size: 40
1513581 TTTTTACCCA
1513591 AATGTATCGATACATTTTTCAATGTATCGATACATGTATG
1 AATGTATCGATACATTTTTCAATGTATCGATACATGTATG
* * *
1513631 AATGTATCGATACATTCTTT-AATGTGTCGATACATTCTATCTTTTTACCT
1 AATGTATCGATACATT-TTTCAATGTATCGATACA-TGTA------T---G
*
1513681 AGATTTATCGATACATTTTTCAATGTATCGATACATGTATG
1 A-ATGTATCGATACATTTTTCAATGTATCGATACATGTATG
1513722 AATGTATCGATACATTTT
1 AATGTATCGATACATTTT
1513740 GTCTTTTTAC
Statistics
Matches: 88, Mismatches: 8, Indels: 26
0.72 0.07 0.21
Matches are distributed among these distances:
40 45 0.51
41 7 0.08
44 1 0.01
47 1 0.01
50 7 0.08
51 27 0.31
ACGTcount: A:0.30, C:0.14, G:0.13, T:0.43
Consensus pattern (40 bp):
AATGTATCGATACATTTTTCAATGTATCGATACATGTATG
Found at i:1513732 original size:71 final size:69
Alignment explanation
Indices: 1513612--1513783 Score: 215
Period size: 71 Copynumber: 2.5 Consensus size: 69
1513602 ACATTTTTCA
* * * *
1513612 ATGTATCGATACATGTATGAATGTATCGATACATTCTTTAATGTGTCGATACATTCTATCTTTTT
1 ATGTATCGATACAT-T-TCAATGTATCGATACATTCATGAATGTATCGATACATTCTATCTTTTT
1513677 ACCTAG
64 ACCTAG
* * *
1513683 ATTTATCGATACATTTTTCAATGTATCGATACATGT-ATGAATGTATCGATACATTTTGTCTTTT
1 ATGTATCGATACA--TTTCAATGTATCGATACAT-TCATGAATGTATCGATACATTCTATCTTTT
1513747 TACCTAG
63 TACCTAG
1513754 ATGTATCGATACA--TCAATGTATCGATACAT
1 ATGTATCGATACATTTCAATGTATCGATACAT
1513784 CTGGTTAAAA
Statistics
Matches: 90, Mismatches: 8, Indels: 10
0.83 0.07 0.09
Matches are distributed among these distances:
67 17 0.19
71 70 0.78
72 2 0.02
73 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.42
Consensus pattern (69 bp):
ATGTATCGATACATTTCAATGTATCGATACATTCATGAATGTATCGATACATTCTATCTTTTTAC
CTAG
Found at i:1513775 original size:16 final size:16
Alignment explanation
Indices: 1513754--1513784 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
1513744 TTTTACCTAG
1513754 ATGTATCGATACATCA
1 ATGTATCGATACATCA
1513770 ATGTATCGATACATC
1 ATGTATCGATACATC
1513785 TGGTTAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.32
Consensus pattern (16 bp):
ATGTATCGATACATCA
Found at i:1517246 original size:13 final size:13
Alignment explanation
Indices: 1517228--1517253 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1517218 GTAGCCAAAT
1517228 TTGTATCGATACA
1 TTGTATCGATACA
1517241 TTGTATCGATACA
1 TTGTATCGATACA
1517254 CCATAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1523582 original size:20 final size:20
Alignment explanation
Indices: 1523547--1523587 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
1523537 CAAATTTCTT
1523547 GTTTTTCACTTCAAAATACATC
1 GTTTTTCAC-TCAAAAT-CATC
1523569 GTTTTTCA-TCAAAATCATC
1 GTTTTTCACTCAAAATCATC
1523588 TTCAAAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 7 0.37
22 8 0.42
ACGTcount: A:0.32, C:0.22, G:0.05, T:0.41
Consensus pattern (20 bp):
GTTTTTCACTCAAAATCATC
Found at i:1524664 original size:13 final size:13
Alignment explanation
Indices: 1524646--1524671 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1524636 TACAGCAAGT
1524646 ATGTATCGATACA
1 ATGTATCGATACA
1524659 ATGTATCGATACA
1 ATGTATCGATACA
1524672 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1526918 original size:21 final size:21
Alignment explanation
Indices: 1526885--1526929 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1526875 TTGCAAGTTG
*
1526885 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
1526907 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
1526927 AAA
1 AAA
1526930 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:1528753 original size:15 final size:15
Alignment explanation
Indices: 1528733--1528763 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1528723 TAAAAATGTC
*
1528733 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
1528748 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
1528763 C
1 C
1528764 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:1530861 original size:13 final size:13
Alignment explanation
Indices: 1530843--1530868 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1530833 ACATTTTTCT
1530843 TTGTATCGATACA
1 TTGTATCGATACA
1530856 TTGTATCGATACA
1 TTGTATCGATACA
1530869 GGGTGATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1531032 original size:20 final size:20
Alignment explanation
Indices: 1530989--1531034 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
1530979 AAATCTTTTG
1530989 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
1531010 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
1531030 CAAAA
1 CAAAA
1531035 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:1534402 original size:10 final size:10
Alignment explanation
Indices: 1534387--1534412 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
1534377 CCGGGAATTT
1534387 GTGTTTTGAG
1 GTGTTTTGAG
1534397 GTGTTTTGAG
1 GTGTTTTGAG
1534407 GTGTTT
1 GTGTTT
1534413 GTGGGAGCTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.08, C:0.00, G:0.38, T:0.54
Consensus pattern (10 bp):
GTGTTTTGAG
Found at i:1534900 original size:52 final size:52
Alignment explanation
Indices: 1534822--1534949 Score: 224
Period size: 52 Copynumber: 2.5 Consensus size: 52
1534812 CGAAATATGA
*
1534822 AAATTTGCCTGCATGTATCGATACA-TTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAA-AATGTATCGATACATCTGGGC
1534874 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
1534926 AAA-TTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
1534950 AAGATCAGTG
Statistics
Matches: 74, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
51 21 0.28
52 48 0.65
53 5 0.07
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
Found at i:1534976 original size:13 final size:13
Alignment explanation
Indices: 1534958--1534982 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1534948 CAAAGATCAG
1534958 TGTATCGATACAA
1 TGTATCGATACAA
1534971 TGTATCGATACA
1 TGTATCGATACA
1534983 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1535063 original size:13 final size:13
Alignment explanation
Indices: 1535045--1535069 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1535035 CGAAAAAATA
1535045 TGTATCGATACAT
1 TGTATCGATACAT
1535058 TGTATCGATACA
1 TGTATCGATACA
1535070 ACATTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1536006 original size:67 final size:68
Alignment explanation
Indices: 1535884--1536010 Score: 175
Period size: 67 Copynumber: 1.9 Consensus size: 68
1535874 ATTGGGTTTT
* * *
1535884 AAAGATGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATG
1 AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGAAGATG
1535949 AGA
66 AGA
* * ** *
1535952 AAAG-TGATAAAGATGCCAATATGTTGATTCACGGCCAACGCTATTGGGCTTAAAGATGA
1 AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGA
1536011 GAAAAAGGAT
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
67 47 0.92
68 4 0.08
ACGTcount: A:0.38, C:0.13, G:0.25, T:0.24
Consensus pattern (68 bp):
AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGAAGATG
AGA
Found at i:1536308 original size:98 final size:94
Alignment explanation
Indices: 1536023--1536687 Score: 907
Period size: 98 Copynumber: 7.0 Consensus size: 94
1536013 AAAAGGATGT
* *
1536023 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAATATGCTGATT
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT---AAAGATGCCAATATGCTGATT
1536088 CAAGGCCAGCTATATTGGACTT-A-AAGGTGC
63 CAAGGCCAGCTATATTGGACTTAAGAAGGTGC
* * * * * *
1536118 CAATGTGCTGATTCAAGGCTAGCTACGTTGGACTTAAAGGT-GAGGTGCCAATGTGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGATGCCAATATGCTGATTCAA
*
1536182 GGCCAGCTACATTGGACTTAAAGATGAAGGTGC
66 GGCCAGCTATATTGGACTT--A-A-GAAGGTGC
* *
1536215 CAATGTGCTGAGTCAAGGCCAGCTACATTGGTCTTAAAGATAAAGATGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGATGCCAATATGCTGATTCAA
*
1536280 GGCCAGCTATATTGGGCTTAATGGTGAAGGTGC
66 GGCCAGCTATATTGGACTTAA----GAAGGTGC
* *
1536313 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGATGCCAATATGCTGATTCAA
1536378 GGCCAGCTATATTGGACTTAATGGTGAAGGTGC
66 GGCCAGCTATATTGGACTTAA----GAAGGTGC
*
1536411 CAATGTGCTGAGTT-AAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGAT
1 CAATGTGCTGA-TTCAAGGCCAGCTACATTGGACTTAAAGAT---AAAGATGCCAATATGCTGAT
1536475 TCAAGGCCAGCTATATTGGACTT-A-AAGGTGC
62 TCAAGGCCAGCTATATTGGACTTAAGAAGGTGC
*
1536506 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGATGCCAATATGCTGATTCAA
*
1536571 GGCCAGCGATATTGGACTT-A-AAGGTGC
66 GGCCAGCTATATTGGACTTAAGAAGGTGC
* *
1536598 CAATGTGCTGATTCAAGGCCAGTTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGATGCCAATATGCTGATTCAA
* *
1536663 GGCCAGCGATATTGGGCTT-AGAAGG
66 GGCCAGCTATATTGGACTTAAGAAGG
1536688 GTTGCCACCG
Statistics
Matches: 528, Mismatches: 26, Indels: 34
0.90 0.04 0.06
Matches are distributed among these distances:
91 39 0.07
92 131 0.25
93 4 0.01
94 2 0.00
95 84 0.16
96 1 0.00
97 43 0.08
98 179 0.34
99 1 0.00
100 1 0.00
101 43 0.08
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (94 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGATGCCAATATGCTGATTCAA
GGCCAGCTATATTGGACTTAAGAAGGTGC
Found at i:1536677 original size:49 final size:49
Alignment explanation
Indices: 1536023--1536669 Score: 821
Period size: 49 Copynumber: 13.5 Consensus size: 49
1536013 AAAAGGATGT
*
1536023 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGC
* *
1536075 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
1536118 CAATGTGCTGATTCAAGGCTAGCTACGTTGGACTTAAAGGTG-AGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1536166 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
1536215 CAATGTGCTGAGTCAAGGCCAGCTACATTGGTCTTAAAGATAAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * * *
1536264 CAATATGCTGATTCAAGGCCAGCTATATTGGGCTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
1536313 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
1536362 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1536411 CAATGTGCTGAGTT-AAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGA-TTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGC
* *
1536463 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
1536506 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
1536555 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
1536598 CAATGTGCTGATTCAAGGCCAGTTACATTGGACTTAAAGATGAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
1536647 CAATATGCTGATTCAAGGCCAGC
1 CAATGTGCTGATTCAAGGCCAGC
1536670 GATATTGGGC
Statistics
Matches: 515, Mismatches: 56, Indels: 51
0.83 0.09 0.08
Matches are distributed among these distances:
43 115 0.22
45 1 0.00
47 2 0.00
48 47 0.09
49 276 0.54
50 3 0.01
51 2 0.00
52 69 0.13
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.26
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
Found at i:1536758 original size:34 final size:33
Alignment explanation
Indices: 1536703--1537294 Score: 486
Period size: 34 Copynumber: 17.8 Consensus size: 33
1536693 CACCGACTTG
* *
1536703 TGTGGGCTTTGGAAAGGGAAAAAGATGCCACGGAAT
1 TGTGGGCTTT--AAAAGGAAAAAG-TGCCACGGAGT
*
1536739 TGTGGAC-TTAAAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTAAAA-GG-AAAA-AGTGCCACGGAGT
**
1536774 TGTGGGCTTTAAAA-GAAAAAGGTGCCATAGAGT
1 TGTGGGCTTTAAAAGGAAAAA-GTGCCACGGAGT
*
1536807 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGT
1 TGTGGGCTTT-AAAA-GG-AAAA-AGTGCCACGGAGT
1536844 TGTGGGCTTTAAAA-GAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAA-GTGCCACGGAGT
* *
1536877 TGTAGGCTTTAAAAAGAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAA-GTGCCACGGAGT
*
1536911 TGTGGGC-TTAAACGG-----GTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGTGCCACGGAGT
* * *
1536938 TGTGGAC-TTAAAGATGAAAAAAGTGCCACGGAAT
1 TGTGGGCTTTAAA-A-GGAAAAAGTGCCACGGAGT
*
1536972 TGTAGGCTTTAAAAGG-----GTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGTGCCACGGAGT
* * *
1537000 TGTGGAC-TTAAAGATGAAAAAAGTGCCACGGAAT
1 TGTGGGCTTTAAA-A-GGAAAAAGTGCCACGGAGT
1537034 TGTGGGCTTTAAAAGG-----GTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGTGCCACGGAGT
* * *
1537062 TGTGGAC-TTAAAGATGAAAAAAGTGCCACGGAAT
1 TGTGGGCTTTAAA-A-GGAAAAAGTGCCACGGAGT
1537096 TGTGGGCTTTAAAAGG-----GTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGTGCCACGGAGT
* * *
1537124 TGTGGAC-TTAAAGATGAAAAAAAGTGCCACGGAAT
1 TGTGGGCTTTAAA-A-G-GAAAAAGTGCCACGGAGT
*
1537159 TGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGTGCCACGGAGT
1537192 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTT-AAAA-GG-AAAA-AGTGCCACGGAGT
1537229 TGTGGGCTTTAAACA-GAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTAAA-AGGAAAAA-GTGCCACGGAGT
1537263 TGTGGGCTTTAAAAAGGGAAAGAGAGTGCCAC
1 TGTGGGCTTT-AAAA-GGAAA-A-AGTGCCAC
1537295 AAAGTTGTAG
Statistics
Matches: 461, Mismatches: 39, Indels: 111
0.75 0.06 0.18
Matches are distributed among these distances:
27 38 0.08
28 53 0.11
29 4 0.01
32 2 0.00
33 92 0.20
34 118 0.26
35 60 0.13
36 35 0.08
37 57 0.12
38 2 0.00
ACGTcount: A:0.34, C:0.12, G:0.33, T:0.21
Consensus pattern (33 bp):
TGTGGGCTTTAAAAGGAAAAAGTGCCACGGAGT
Found at i:1536994 original size:62 final size:63
Alignment explanation
Indices: 1536728--1537569 Score: 724
Period size: 62 Copynumber: 12.9 Consensus size: 63
1536718 GGGAAAAAGA
* * *
1536728 TGCCACGGAATTGTGGAC-TTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAA
1 TGCCACGGAGTTGTGGGCTTTAAAA-TGAAAAA-AGTGCCACGGAGTTGTGGGCTTTAAAAG---
1536792 AAGG
61 -AGG
** * *
1536796 TGCCATAGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGAA
1 TGCCACGGAGTTGTGGGCTTT-AAAA-TGAAAAA-AGTGCCACGGAGTTGTGGGCTTTAAAAG--
1536861 AAAGG
61 --AGG
* * * *
1536866 TGCCACGGAGTTGTAGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGC-TTAAACG-GG
1 TGCCACGGAGTTGTGGGCTTTAAAATGAAAAAAGTGCCACGGAGTTGTGGGCTTTAAAAGAGG
* * *
1536927 TGCCACGGAGTTGTGGAC-TTAAAGATGAAAAAAGTGCCACGGAATTGTAGGCTTTAAAAG-GG
1 TGCCACGGAGTTGTGGGCTTTAAA-ATGAAAAAAGTGCCACGGAGTTGTGGGCTTTAAAAGAGG
* *
1536989 TGCCACGGAGTTGTGGAC-TTAAAGATGAAAAAAGTGCCACGGAATTGTGGGCTTTAAAAG-GG
1 TGCCACGGAGTTGTGGGCTTTAAA-ATGAAAAAAGTGCCACGGAGTTGTGGGCTTTAAAAGAGG
* *
1537051 TGCCACGGAGTTGTGGAC-TTAAAGATGAAAAAAGTGCCACGGAATTGTGGGCTTTAAAAG-GG
1 TGCCACGGAGTTGTGGGCTTTAAA-ATGAAAAAAGTGCCACGGAGTTGTGGGCTTTAAAAGAGG
* *
1537113 TGCCACGGAGTTGTGGAC-TTAAAGATGAAAAAAAGTGCCACGGAATTGTGGGCTTTAAAAGAAA
1 TGCCACGGAGTTGTGGGCTTTAAA-ATG-AAAAAAGTGCCACGGAGTTGTGGGCTTTAAAAG---
*
1537177 AAAG
61 -AGG
*
1537181 TGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACAGA
1 TGCCACGGAGTTGTGGGCTTT-AAAA-TGAAAAA-AGTGCCACGGAGTTGTGGGCTTTAAA-AG-
1537246 AAAAGG
61 ---AGG
* * **
1537252 TGCCACGGAGTTGTGGGCTTTAAAAAGGGAAAGAGAGTGCCACAAAG-T-T--G---T-----AG
1 TGCCACGGAGTTGTGGGCTTT-AAAA-TGAAA-AAAGTGCCACGGAGTTGTGGGCTTTAAAAGAG
1537305 G
63 G
* *
1537306 TGCCACAGAGTTGTGGGCTTTAAAA-GAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAA
1 TGCCACGGAGTTGTGGGCTTTAAAATGAAAAAAGTGCCACGGAGTTGTGGGCTTTAAAAG----A
1537370 GG
62 GG
* * *
1537372 TGCCATGGAGTTGTGGGCTTTGAAAAGGAAAAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAG
1 TGCCACGGAGTTGTGGGCTTT-AAAATG---AAAAA-AGTGCCACGGAGTTGTGGGCTTTAAAAG
1537437 AAAAAGG
61 ----AGG
* * *
1537444 TGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGGGTTGTGGGCTTTAAAAAGAAAA
1 TGCCACGGAGTTGTGGGCTTTAAAATGAAAAAAGTGCCACGGAGTTGTGGGCTTT-AAAAG----
1537509 AGG
61 AGG
* *
1537512 TGCCACGGAGTTGTGGGC-TTAAAGATGAAAAAAGTGCCACGGAATTGTGGGATTTAAA
1 TGCCACGGAGTTGTGGGCTTTAAA-ATGAAAAAAGTGCCACGGAGTTGTGGGCTTTAAA
1537570 GGAAAAGATG
Statistics
Matches: 686, Mismatches: 48, Indels: 81
0.84 0.06 0.10
Matches are distributed among these distances:
50 10 0.01
51 5 0.01
52 1 0.00
53 4 0.01
54 24 0.03
57 1 0.00
60 5 0.01
61 42 0.06
62 158 0.23
63 33 0.05
64 1 0.00
66 28 0.04
67 51 0.07
68 100 0.15
69 15 0.02
70 95 0.14
71 59 0.09
72 54 0.08
ACGTcount: A:0.34, C:0.12, G:0.32, T:0.21
Consensus pattern (63 bp):
TGCCACGGAGTTGTGGGCTTTAAAATGAAAAAAGTGCCACGGAGTTGTGGGCTTTAAAAGAGG
Found at i:1537340 original size:33 final size:33
Alignment explanation
Indices: 1537303--1537598 Score: 380
Period size: 34 Copynumber: 8.7 Consensus size: 33
1537293 ACAAAGTTGT
*
1537303 AGGTGCCACAGAGTTGTGGGCTTTAAAAGAAAA
1 AGGTGCCACGGAGTTGTGGGCTTTAAAAGAAAA
1537336 AGGTGCCACGGAGTTGTGGGCTTTAAAAGAAAA
1 AGGTGCCACGGAGTTGTGGGCTTTAAAAGAAAA
*
1537369 AGGTGCCATGGAGTTGTGGGCTTTGAAAAGGAAAAAAA
1 AGGTGCCACGGAGTTGTGGGCTTT-AAAA-G---AAAA
*
1537407 AGAGTGCCACAGAGTTGTGGGCTTTAAAAGAAAA
1 AG-GTGCCACGGAGTTGTGGGCTTTAAAAGAAAA
1537441 AGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAA
1 AGGTGCCACGGAGTTGTGGGCTTT-AAAAGAAAA
*
1537475 AGGTGCCACGGGGTTGTGGGCTTTAAAAAGAAAA
1 AGGTGCCACGGAGTTGTGGGCTTT-AAAAGAAAA
1537509 AGGTGCCACGGAGTTGTGGGC-TTAAAGATGAAAA
1 AGGTGCCACGGAGTTGTGGGCTTTAAA-A-GAAAA
* * * *
1537543 AAGTGCCACGGAATTGTGGGATTT-AAAGGAAA
1 AGGTGCCACGGAGTTGTGGGCTTTAAAAGAAAA
* * * *
1537575 AGATGCCACTGAGTCGTGGACTTT
1 AGGTGCCACGGAGTTGTGGGCTTT
1537599 GAGCAGAGAT
Statistics
Matches: 235, Mismatches: 18, Indels: 21
0.86 0.07 0.08
Matches are distributed among these distances:
32 24 0.10
33 80 0.34
34 97 0.41
35 3 0.01
37 1 0.00
38 10 0.04
39 20 0.09
ACGTcount: A:0.34, C:0.12, G:0.32, T:0.22
Consensus pattern (33 bp):
AGGTGCCACGGAGTTGTGGGCTTTAAAAGAAAA
Found at i:1537614 original size:31 final size:31
Alignment explanation
Indices: 1537578--1537660 Score: 139
Period size: 31 Copynumber: 2.7 Consensus size: 31
1537568 AAGGAAAAGA
*
1537578 TGCCACTGAGTCGTGGACTTTGAGCAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
*
1537609 TGCCACTGAGTCATGGACTTTGAGAAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
*
1537640 TGCCACTGATTCGTGGACTTT
1 TGCCACTGAGTCGTGGACTTT
1537661 AAAAAGGTAT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 48 1.00
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (31 bp):
TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
Found at i:1538625 original size:12 final size:12
Alignment explanation
Indices: 1538610--1538634 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1538600 GGTTTTTCCT
1538610 TTTTTTTTTTTG
1 TTTTTTTTTTTG
1538622 TTTTTTTTTTTG
1 TTTTTTTTTTTG
1538634 T
1 T
1538635 GAAGAGTAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (12 bp):
TTTTTTTTTTTG
Found at i:1545725 original size:52 final size:52
Alignment explanation
Indices: 1545647--1545774 Score: 224
Period size: 52 Copynumber: 2.5 Consensus size: 52
1545637 CGAAATATGA
*
1545647 AAATTTGCCTGCATGTATCGATACA-TTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAA-AATGTATCGATACATCTGGGC
1545699 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
1545751 AAA-TTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
1545775 AAGATCAGTG
Statistics
Matches: 74, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
51 21 0.28
52 48 0.65
53 5 0.07
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
Found at i:1545801 original size:13 final size:13
Alignment explanation
Indices: 1545783--1545807 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1545773 CAAAGATCAG
1545783 TGTATCGATACAA
1 TGTATCGATACAA
1545796 TGTATCGATACA
1 TGTATCGATACA
1545808 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1547904 original size:13 final size:13
Alignment explanation
Indices: 1547886--1547911 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1547876 TACAGCAAGT
1547886 ATGTATCGATACA
1 ATGTATCGATACA
1547899 ATGTATCGATACA
1 ATGTATCGATACA
1547912 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1561530 original size:17 final size:18
Alignment explanation
Indices: 1561508--1561541 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
1561498 ACAACGTTCA
1561508 TTTTTTTA-TTTTATTTC
1 TTTTTTTATTTTTATTTC
1561525 TTTTTTTATTTTTATTT
1 TTTTTTTATTTTTATTT
1561542 TTTATTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.12, C:0.03, G:0.00, T:0.85
Consensus pattern (18 bp):
TTTTTTTATTTTTATTTC
Found at i:1561536 original size:6 final size:6
Alignment explanation
Indices: 1561510--1561550 Score: 50
Period size: 6 Copynumber: 6.8 Consensus size: 6
1561500 AACGTTCATT
1561510 TTTTTA -TTTTA TTTCTT- TTTTTA TTTTTA TTTTTTA TTTTT
1 TTTTTA TTTTTA TTT-TTA TTTTTA TTTTTA -TTTTTA TTTTT
1561551 TACTATATGA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
5 7 0.23
6 16 0.52
7 8 0.26
ACGTcount: A:0.12, C:0.02, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTA
Found at i:1561542 original size:13 final size:12
Alignment explanation
Indices: 1561507--1561551 Score: 63
Period size: 13 Copynumber: 3.6 Consensus size: 12
1561497 AACAACGTTC
1561507 ATTTTTTTATTTT
1 ATTTTTTT-TTTT
*
1561520 ATTTCTTTTTTT
1 ATTTTTTTTTTT
1561532 ATTTTTATTTTTT
1 ATTTTT-TTTTTT
1561545 ATTTTTT
1 ATTTTTT
1561552 ACTATATGAC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
12 10 0.34
13 19 0.66
ACGTcount: A:0.13, C:0.02, G:0.00, T:0.84
Consensus pattern (12 bp):
ATTTTTTTTTTT
Found at i:1562362 original size:2 final size:2
Alignment explanation
Indices: 1562355--1562383 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1562345 CGTAAAAGTA
1562355 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1562384 AAATCAATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1562616 original size:19 final size:20
Alignment explanation
Indices: 1562596--1562668 Score: 71
Period size: 19 Copynumber: 3.6 Consensus size: 20
1562586 TATCAATTTT
1562596 TTTAAAAAAATTACCAC-T-
1 TTTAAAAAAATTACCACTTC
* *
1562614 TTTAAAAAGAATTAGCA-TTA
1 TTTAAAAA-AATTACCACTTC
*
1562634 TTTAAAAAAATTATCATCTTCC
1 TTTAAAAAAATTACCA-CTT-C
1562656 TTTAAAAAAATTA
1 TTTAAAAAAATTA
1562669 TCTTTCTCTT
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
18 8 0.17
19 15 0.33
20 8 0.17
21 2 0.04
22 13 0.28
ACGTcount: A:0.49, C:0.11, G:0.03, T:0.37
Consensus pattern (20 bp):
TTTAAAAAAATTACCACTTC
Found at i:1562689 original size:21 final size:19
Alignment explanation
Indices: 1562639--1562690 Score: 50
Period size: 20 Copynumber: 2.6 Consensus size: 19
1562629 CATTATTTAA
*
1562639 AAAAATTATCATCTTCCTTT
1 AAAAA-TATTATCTTCCTTT
* *
1562659 AAAAAAATTATCTTTCTCTT
1 AAAAATATTATCTTCCT-TT
1562679 AAAAACTATTAT
1 AAAAA-TATTAT
1562691 TCTATTAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 9 0.35
20 12 0.46
21 5 0.19
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.42
Consensus pattern (19 bp):
AAAAATATTATCTTCCTTT
Found at i:1563035 original size:3 final size:3
Alignment explanation
Indices: 1563027--1563060 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
1563017 AGCAGAATAC
*
1563027 AAT AAT AAT AAT AAT AAC AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1563061 CTTTTTTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:1564604 original size:16 final size:15
Alignment explanation
Indices: 1564583--1564639 Score: 51
Period size: 16 Copynumber: 3.7 Consensus size: 15
1564573 CGAGTAATCA
1564583 TTTTTGAGTTTGAAT
1 TTTTTGAGTTTGAAT
** *
1564598 CTTTTTGTTTTTCAAAT
1 -TTTTTGAGTTT-GAAT
*
1564615 ATTTTGAGTTTGAAT
1 TTTTTGAGTTTGAAT
*
1564630 TTTTTCAGTT
1 TTTTTGAGTT
1564640 AGGCTCAAGT
Statistics
Matches: 31, Mismatches: 9, Indels: 3
0.72 0.21 0.07
Matches are distributed among these distances:
15 11 0.35
16 17 0.55
17 3 0.10
ACGTcount: A:0.19, C:0.05, G:0.14, T:0.61
Consensus pattern (15 bp):
TTTTTGAGTTTGAAT
Found at i:1564822 original size:127 final size:127
Alignment explanation
Indices: 1564679--1565046 Score: 468
Period size: 127 Copynumber: 2.9 Consensus size: 127
1564669 ACATTTGGCC
*
1564679 AGATGAAATCTTGATTCCATTACAATCATATTCGACATGCTACGATCTTTTCAGTTTTAAAATAT
1 AGATGAAATCTTGATTCTATTACAATCATATTCGACATGCTACGATCTTTTCAGTTTTAAAATAT
* * * *
1564744 TTTGATTCCGAATTCTTTCGGTTAGGCTTAAGTTCGAGTAATCACCAATAGCACGTTTAGTT
66 TTTGATTCCAAATTCTTTCGGTTAGGCTCAAGTTCGAGTAATCACCAACAGAACGTTTAGTT
* ** * * *
1564806 AGATGAAATCTTGATTCTACTATGATCATATTCGGCATGCTATGATCTTTTCAATTTTAAAATAT
1 AGATGAAATCTTGATTCTATTACAATCATATTCGACATGCTACGATCTTTTCAGTTTTAAAATAT
* * * * * *
1564871 TTTGGTTCCAAATTTTTTCGATTAGGCTCAAATTCGAGCAATCACTAACAGAACGTTTAGTT
66 TTTGATTCCAAATTCTTTCGGTTAGGCTCAAGTTCGAGTAATCACCAACAGAACGTTTAGTT
* * * * * *
1564933 AGATGAAATCCTGATTTTATTACTTATGATCATATTTAGA-GTGCTACAATCTTTTCAGTTTTTA
1 AGATGAAATCTTGATTCTATTAC--A--ATCATA-TTCGACATGCTACGATCTTTTCAGTTTTAA
*
1564997 AATATTTTGATTCCAAATTCTTTCCGTTAGGCTCAAGTTCGAGTAATCAC
61 AATATTTTGATTCCAAATTCTTTCGGTTAGGCTCAAGTTCGAGTAATCAC
1565047 TAACGTCATG
Statistics
Matches: 201, Mismatches: 35, Indels: 6
0.83 0.14 0.02
Matches are distributed among these distances:
127 129 0.64
131 69 0.34
132 3 0.01
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.40
Consensus pattern (127 bp):
AGATGAAATCTTGATTCTATTACAATCATATTCGACATGCTACGATCTTTTCAGTTTTAAAATAT
TTTGATTCCAAATTCTTTCGGTTAGGCTCAAGTTCGAGTAATCACCAACAGAACGTTTAGTT
Found at i:1565846 original size:17 final size:18
Alignment explanation
Indices: 1565826--1565870 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
1565816 AAAAACTTAA
1565826 AAAATATTTTT-TATATT
1 AAAATATTTTTGTATATT
1565843 AAAATATTATTTTGTATATT
1 AAAATA-T-TTTTGTATATT
1565863 -AAATATTT
1 AAAATATTT
1565871 AATATATTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
17 8 0.32
18 2 0.08
19 9 0.36
20 6 0.24
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (18 bp):
AAAATATTTTTGTATATT
Found at i:1565846 original size:19 final size:20
Alignment explanation
Indices: 1565822--1565865 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
1565812 AGAAAAAAAC
*
1565822 TTAAAA-AATATTTTTTATA
1 TTAAAATAATATTTTGTATA
*
1565841 TTAAAATATTATTTTGTATA
1 TTAAAATAATATTTTGTATA
1565861 TTAAA
1 TTAAA
1565866 TATTTAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (20 bp):
TTAAAATAATATTTTGTATA
Found at i:1565866 original size:19 final size:20
Alignment explanation
Indices: 1565830--1565869 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
1565820 ACTTAAAAAA
*
1565830 TATTTTTTATATTAAAATAT
1 TATTTTGTATATTAAAATAT
1565850 TATTTTGTATATT-AAATAT
1 TATTTTGTATATTAAAATAT
1565869 T
1 T
1565870 TAATATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (20 bp):
TATTTTGTATATTAAAATAT
Found at i:1565918 original size:22 final size:22
Alignment explanation
Indices: 1565893--1565934 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
1565883 AAACTTATAT
*
1565893 TTAATATGTTATTTATTAATAG
1 TTAATATGTTATATATTAATAG
*
1565915 TTAATATTTTATATATTAAT
1 TTAATATGTTATATATTAAT
1565935 TATCTAACAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (22 bp):
TTAATATGTTATATATTAATAG
Found at i:1566010 original size:25 final size:24
Alignment explanation
Indices: 1565974--1566066 Score: 77
Period size: 25 Copynumber: 3.8 Consensus size: 24
1565964 TAAAGGATAC
1565974 TATTTTT-AATATAATTTGA-AATAA
1 TATTTTTAAATATAATTT-ATAA-AA
1565998 TATTTTTAAATATAATTTATTAAAA
1 TATTTTTAAATATAATTTA-TAAAA
* *
1566023 TATTTATAAATATTAATTTTTATTAAA
1 TATTTTTAAATA-TAA--TTTATAAAA
1566050 T-TTTTTATAA-ATAATTT
1 TATTTTTA-AATATAATTT
1566067 TATTAATTTA
Statistics
Matches: 59, Mismatches: 3, Indels: 15
0.77 0.04 0.19
Matches are distributed among these distances:
23 3 0.05
24 8 0.14
25 26 0.44
26 11 0.19
27 7 0.12
28 4 0.07
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (24 bp):
TATTTTTAAATATAATTTATAAAA
Found at i:1566044 original size:28 final size:25
Alignment explanation
Indices: 1565996--1566072 Score: 84
Period size: 28 Copynumber: 3.0 Consensus size: 25
1565986 AATTTGAAAT
*
1565996 AATATTTTTAAATATAATTTATTAA
1 AATATTTATAAATATAATTTATTAA
1566021 AATATTTATAAATATTAATTTTTATTAA
1 AATATTTATAAATA-TAA--TTTATTAA
* * *
1566049 ATTTTTTATAAATA-ATTTTATTAA
1 AATATTTATAAATATAATTTATTAA
1566073 TTTATTTTTC
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
24 8 0.18
25 13 0.29
26 4 0.09
28 20 0.44
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (25 bp):
AATATTTATAAATATAATTTATTAA
Found at i:1566079 original size:13 final size:13
Alignment explanation
Indices: 1566040--1566105 Score: 50
Period size: 13 Copynumber: 5.2 Consensus size: 13
1566030 AAATATTAAT
*
1566040 TTTTATTAAATT-
1 TTTTATTAATTTA
* *
1566052 TTTTA-TAAATAA
1 TTTTATTAATTTA
1566064 TTTTATTAATTTA
1 TTTTATTAATTTA
1566077 TTTT-TCTAATTTA
1 TTTTAT-TAATTTA
*
1566090 TTTGTA-TAATTAA
1 TTT-TATTAATTTA
1566103 TTT
1 TTT
1566106 AAATTATATA
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
11 5 0.11
12 11 0.24
13 28 0.62
14 1 0.02
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (13 bp):
TTTTATTAATTTA
Found at i:1567222 original size:17 final size:19
Alignment explanation
Indices: 1567200--1567237 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
1567190 GCTACTGCCA
1567200 ATTTTAT-T-TATCGATAC
1 ATTTTATGTGTATCGATAC
1567217 ATTTTATGGTGTATCGATAC
1 ATTTTAT-GTGTATCGATAC
1567237 A
1 A
1567238 AAGCAATTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.39
19 1 0.06
20 10 0.56
ACGTcount: A:0.29, C:0.11, G:0.13, T:0.47
Consensus pattern (19 bp):
ATTTTATGTGTATCGATAC
Found at i:1569705 original size:10 final size:10
Alignment explanation
Indices: 1569690--1569715 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
1569680 TTTAGGAGGT
1569690 GAATTTGATG
1 GAATTTGATG
1569700 GAATTTGATG
1 GAATTTGATG
1569710 GAATTT
1 GAATTT
1569716 TGTTGATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.27, T:0.42
Consensus pattern (10 bp):
GAATTTGATG
Found at i:1569960 original size:20 final size:20
Alignment explanation
Indices: 1569937--1569976 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
1569927 GATTTTTTTG
1569937 TATCGATACATTTTGCAATA
1 TATCGATACATTTTGCAATA
*
1569957 TATCGATACATTTTGGAATA
1 TATCGATACATTTTGCAATA
1569977 ATCCAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.40
Consensus pattern (20 bp):
TATCGATACATTTTGCAATA
Found at i:1570120 original size:21 final size:21
Alignment explanation
Indices: 1570085--1570127 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1570075 AAAATTCACG
*
1570085 AACAATTAACCACACAACATC
1 AACAATTAACAACACAACATC
* *
1570106 AACAATTAATAACACAAGATC
1 AACAATTAACAACACAACATC
1570127 A
1 A
1570128 TTTCAAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.56, C:0.26, G:0.02, T:0.16
Consensus pattern (21 bp):
AACAATTAACAACACAACATC
Found at i:1571493 original size:19 final size:19
Alignment explanation
Indices: 1571465--1571559 Score: 88
Period size: 19 Copynumber: 5.6 Consensus size: 19
1571455 AAACAATAAC
*
1571465 TGTATTGATACATAAGTGT
1 TGTATCGATACATAAGTGT
1571484 TGTATCGATAC--AA----
1 TGTATCGATACATAAGTGT
1571497 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
1571516 TGTATCGATAC---A---T
1 TGTATCGATACATAAGTGT
1571529 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
*
1571548 TGTATCAATACA
1 TGTATCGATACA
1571560 ATGTATCGCT
Statistics
Matches: 62, Mismatches: 2, Indels: 24
0.70 0.02 0.27
Matches are distributed among these distances:
13 23 0.37
15 2 0.03
16 2 0.03
17 2 0.03
19 33 0.53
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.37
Consensus pattern (19 bp):
TGTATCGATACATAAGTGT
Found at i:1571507 original size:32 final size:32
Alignment explanation
Indices: 1571465--1571567 Score: 179
Period size: 32 Copynumber: 3.2 Consensus size: 32
1571455 AAACAATAAC
*
1571465 TGTATTGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
1571497 TGTATCGATACATAAGTGTTGTATCGATACAT
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
1571529 TGTATCGATACATAAGTGTTGTATCAATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
1571561 TGTATCG
1 TGTATCG
1571568 CTACGAAGCT
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 67 1.00
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:1571541 original size:13 final size:13
Alignment explanation
Indices: 1571483--1571541 Score: 55
Period size: 13 Copynumber: 4.1 Consensus size: 13
1571473 TACATAAGTG
1571483 TTGTATCGATACA
1 TTGTATCGATACA
*
1571496 ATGTATCGATACATAA
1 TTGTATCGATAC---A
1571512 GTGTTGTATCGATACA
1 ---TTGTATCGATACA
1571528 TTGTATCGATACA
1 TTGTATCGATACA
1571541 T
1 T
1571542 AAGTGTTGTA
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
13 25 0.66
16 2 0.05
19 11 0.29
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.37
Consensus pattern (13 bp):
TTGTATCGATACA
Done.