Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 ID=Chr01-JGI_221_v2.0
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: 55868233
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 983842 characters in sequence are not A, C, G, or T
File 23 of 187
Found at i:7561665 original size:59 final size:59
Alignment explanation
Indices: 7561545--7561704 Score: 162
Period size: 59 Copynumber: 2.7 Consensus size: 59
7561535 TTTTAGGACC
* * * * * *
7561545 TGAATTTAGCAACTATTCTCACATCAGAGTTTGAACTTTTTTTTAACCAAGTTAAGTCT
1 TGAAATTAGCAATTATTCTCACATTAGGGTCTGAACTTTTTTTTAACCAAGTTAAGCCT
* * * * * *
7561604 TGAAATTGGCAATTGTTTTCACATTGGGGTCTGAACTTTTTTTTATCCAA-TTTAGACCT
1 TGAAATTAGCAATTATTCTCACATTAGGGTCTGAACTTTTTTTTAACCAAGTTAAG-CCT
* * *
7561663 TGAACTTAGCAATTATTCTCATATTAGGGTTTGAA-TTTTTTT
1 TGAAATTAGCAATTATTCTCACATTAGGGTCTGAACTTTTTTT
7561705 GGTCCAAATT
Statistics
Matches: 81, Mismatches: 19, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
58 11 0.14
59 70 0.86
ACGTcount: A:0.27, C:0.14, G:0.14, T:0.44
Consensus pattern (59 bp):
TGAAATTAGCAATTATTCTCACATTAGGGTCTGAACTTTTTTTTAACCAAGTTAAGCCT
Found at i:7566702 original size:2 final size:2
Alignment explanation
Indices: 7566695--7566731 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
7566685 ATAAGAATGA
7566695 AT AT AT AT 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 AT AT AT AT A
7566732 AGTAATAGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:7568896 original size:28 final size:27
Alignment explanation
Indices: 7568865--7568917 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
7568855 AAATAATTAG
*
7568865 ATTTTTTTATATTTTTACAATATTTATC
1 ATTTTTATATATTTTT-CAATATTTATC
*
7568893 ATTTTTATATATTTTTTAATATTTA
1 ATTTTTATATATTTTTCAATATTTA
7568918 ACAATATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 8 0.35
28 15 0.65
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (27 bp):
ATTTTTATATATTTTTCAATATTTATC
Found at i:7568992 original size:21 final size:21
Alignment explanation
Indices: 7568968--7569011 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
7568958 GTTAATCTTA
*
7568968 GTCTGCCAAATGGCACGTTTT
1 GTCTGCCAAATAGCACGTTTT
* *
7568989 GTCTGCTAAATAGCTCGTTTT
1 GTCTGCCAAATAGCACGTTTT
7569010 GT
1 GT
7569012 TTTAGGACTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.18, C:0.20, G:0.23, T:0.39
Consensus pattern (21 bp):
GTCTGCCAAATAGCACGTTTT
Found at i:7572259 original size:50 final size:50
Alignment explanation
Indices: 7572186--7572376 Score: 242
Period size: 50 Copynumber: 3.9 Consensus size: 50
7572176 ACATTAAGAG
7572186 GATGAGA--TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
* *
7572234 GATGAGAGGTCCCATGTAAGACCATGTCTGGGATATGGCGTTGGCACCGA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
* ** * * *
7572284 GATAAGAGGTCCCCCGTAAGACCATTTCTGGGACATGGCATAGGCACCTA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
* ** * * *
7572334 TATGAGAACTCACATGTAAGACCATATCTGGGATATGGCATTG
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTG
7572377 CAGTACAAGA
Statistics
Matches: 121, Mismatches: 20, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
48 7 0.06
50 114 0.94
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (50 bp):
GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
Found at i:7592572 original size:16 final size:16
Alignment explanation
Indices: 7592535--7592574 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
7592525 TTAATGAAAT
* *
7592535 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
7592551 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
7592567 TAAAATTA
1 TAAAATTA
7592575 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:7592650 original size:9 final size:9
Alignment explanation
Indices: 7592638--7592680 Score: 72
Period size: 9 Copynumber: 5.0 Consensus size: 9
7592628 TTTATCAAAT
7592638 TATTAATTG
1 TATTAATTG
7592647 TATTAATTG
1 TATTAATTG
7592656 --TTAATTG
1 TATTAATTG
7592663 TATTAATTG
1 TATTAATTG
7592672 TATTAATTG
1 TATTAATTG
7592681 CTGTAACAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
7 7 0.22
9 25 0.78
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.56
Consensus pattern (9 bp):
TATTAATTG
Found at i:7592654 original size:16 final size:16
Alignment explanation
Indices: 7592635--7592680 Score: 65
Period size: 16 Copynumber: 2.8 Consensus size: 16
7592625 AAATTTATCA
7592635 AATTATTAATTGTATT
1 AATTATTAATTGTATT
*
7592651 AATTGTTAATTGTATT
1 AATTATTAATTGTATT
7592667 AATTGTATTAATTG
1 AA-T-TATTAATTG
7592681 CTGTAACAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
16 17 0.65
17 1 0.04
18 8 0.31
ACGTcount: A:0.35, C:0.00, G:0.11, T:0.54
Consensus pattern (16 bp):
AATTATTAATTGTATT
Found at i:7592836 original size:9 final size:9
Alignment explanation
Indices: 7592822--7592847 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
7592812 ACACAAGCTA
7592822 AAATTAATC
1 AAATTAATC
7592831 AAATTAATC
1 AAATTAATC
7592840 AAATTAAT
1 AAATTAAT
7592848 TTACAAAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.35
Consensus pattern (9 bp):
AAATTAATC
Found at i:7594270 original size:23 final size:24
Alignment explanation
Indices: 7594244--7594290 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
7594234 TAAATCAAAC
*
7594244 TTAAAATAAAAACTAT-TATATTT
1 TTAAAATAAAAAATATATATATTT
7594267 TTAAAATAAAAAATATATATATTT
1 TTAAAATAAAAAATATATATATTT
7594291 AATATATTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 15 0.68
24 7 0.32
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (24 bp):
TTAAAATAAAAAATATATATATTT
Found at i:7596778 original size:10 final size:9
Alignment explanation
Indices: 7596763--7596805 Score: 50
Period size: 10 Copynumber: 4.4 Consensus size: 9
7596753 GGTTCCTCTA
7596763 AAAAAATTAC
1 AAAAAATT-C
7596773 AAAAAATTC
1 AAAAAATTC
*
7596782 AAAATAATTTT
1 AAAA-AA-TTC
7596793 AAAAAATTC
1 AAAAAATTC
7596802 AAAA
1 AAAA
7596806 TATTTAAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
9 11 0.38
10 12 0.41
11 6 0.21
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.26
Consensus pattern (9 bp):
AAAAAATTC
Found at i:7596790 original size:20 final size:20
Alignment explanation
Indices: 7596762--7596807 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
7596752 TGGTTCCTCT
*
7596762 AAAAAAATTACAAAAAATTC
1 AAAATAATTACAAAAAATTC
**
7596782 AAAATAATTTTAAAAAATTC
1 AAAATAATTACAAAAAATTC
7596802 AAAATA
1 AAAATA
7596808 TTTAAGAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.26
Consensus pattern (20 bp):
AAAATAATTACAAAAAATTC
Found at i:7596825 original size:20 final size:21
Alignment explanation
Indices: 7596802--7596842 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
7596792 TAAAAAATTC
* *
7596802 AAAATATTTAAGAAAT-CTAA
1 AAAATATATAAAAAATGCTAA
7596822 AAAATATATAAAAAATGCTAA
1 AAAATATATAAAAAATGCTAA
7596843 CTTATAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.27
Consensus pattern (21 bp):
AAAATATATAAAAAATGCTAA
Found at i:7596963 original size:2 final size:2
Alignment explanation
Indices: 7596956--7596981 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7596946 GAGTTTTCAA
7596956 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
7596982 TGTGTTCCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7602501 original size:160 final size:160
Alignment explanation
Indices: 7602237--7602552 Score: 524
Period size: 160 Copynumber: 2.0 Consensus size: 160
7602227 ACACGGATAC
* *
7602237 TTCAAGAAAAGTAGAGTCAGAGTAACATAGGTAGCACCTGATTGAACTGTTCAATCATGTCAAAG
1 TTCAAGAAAAGTAGAGTCAGAGCAACATAGGTAGCACCTGATTAAACTGTTCAATCATGTCAAAG
* * *
7602302 TTTTAGATGATGAATAGCCGTTGAAAGCAACTAAATCTGTGTCCAACAATTATTTTTTGTTGGCT
66 TTTTAGATGATGAATACCCGTTGAAAGCAACTAAATCTGTGTCCAACAATTATCTTTTATTGGCT
*
7602367 TTACTTCGTATGGTAAAAGATTTTGGATTG
131 TTACTTCGTACGGTAAAAGATTTTGGATTG
** *
7602397 TTCAAGAAAAGTAGAGTTGGAGCAACATTGGTAGCACCTGATTAAACTGTTCAATCATGTCAAAG
1 TTCAAGAAAAGTAGAGTCAGAGCAACATAGGTAGCACCTGATTAAACTGTTCAATCATGTCAAAG
* *
7602462 TTTTAGATGATGAATACCCTTTGAAAGCAATTAAATCTGTGTCCAACAATTATCTTTTATTGGCT
66 TTTTAGATGATGAATACCCGTTGAAAGCAACTAAATCTGTGTCCAACAATTATCTTTTATTGGCT
*
7602527 TTACTTTGTACGGTAAAAGATTTTGG
131 TTACTTCGTACGGTAAAAGATTTTGG
7602553 CTCGATTGTA
Statistics
Matches: 144, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
160 144 1.00
ACGTcount: A:0.33, C:0.14, G:0.20, T:0.34
Consensus pattern (160 bp):
TTCAAGAAAAGTAGAGTCAGAGCAACATAGGTAGCACCTGATTAAACTGTTCAATCATGTCAAAG
TTTTAGATGATGAATACCCGTTGAAAGCAACTAAATCTGTGTCCAACAATTATCTTTTATTGGCT
TTACTTCGTACGGTAAAAGATTTTGGATTG
Found at i:7604009 original size:2 final size:2
Alignment explanation
Indices: 7604002--7604031 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
7603992 AACATCATAC
*
7604002 GT GT GT GT GT GT GT GT AT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
7604032 ATGCATACCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.03, C:0.00, G:0.47, T:0.50
Consensus pattern (2 bp):
GT
Found at i:7604024 original size:14 final size:14
Alignment explanation
Indices: 7604005--7604034 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
7603995 ATCATACGTG
7604005 TGTGTGTGTGTGTA
1 TGTGTGTGTGTGTA
7604019 TGTGTGTGTGTGTA
1 TGTGTGTGTGTGTA
7604033 TG
1 TG
7604035 CATACCATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.07, C:0.00, G:0.43, T:0.50
Consensus pattern (14 bp):
TGTGTGTGTGTGTA
Found at i:7610164 original size:13 final size:12
Alignment explanation
Indices: 7610136--7610171 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
7610126 TTTATCAGTG
7610136 AAAAATATACAT
1 AAAAATATACAT
*
7610148 AAAAATATCCAT
1 AAAAATATACAT
7610160 AAAAA-ATACAT
1 AAAAATATACAT
7610171 A
1 A
7610172 TGACAATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 6 0.27
12 16 0.73
ACGTcount: A:0.67, C:0.11, G:0.00, T:0.22
Consensus pattern (12 bp):
AAAAATATACAT
Found at i:7610434 original size:19 final size:19
Alignment explanation
Indices: 7610396--7610436 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
7610386 ACCATATATA
* * *
7610396 ATTTCAATACATCATGCTT
1 ATTTCAATAAACCATACTT
7610415 ATTTCAATAAACCATACTT
1 ATTTCAATAAACCATACTT
7610434 ATT
1 ATT
7610437 GTACATATTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.20, G:0.02, T:0.41
Consensus pattern (19 bp):
ATTTCAATAAACCATACTT
Found at i:7621765 original size:17 final size:17
Alignment explanation
Indices: 7621743--7621778 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
7621733 CGATTGCATG
7621743 TTTCTATTGCTGTTTAT
1 TTTCTATTGCTGTTTAT
7621760 TTTCTATTGCTGTTTAT
1 TTTCTATTGCTGTTTAT
7621777 TT
1 TT
7621779 CCCTTTGAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.11, C:0.11, G:0.11, T:0.67
Consensus pattern (17 bp):
TTTCTATTGCTGTTTAT
Found at i:7622532 original size:22 final size:22
Alignment explanation
Indices: 7622491--7622612 Score: 103
Period size: 23 Copynumber: 5.5 Consensus size: 22
7622481 GAAGATGAAA
7622491 CTGGAAATTG--TTGCATTTGTT
1 CTGGAAATTGTTTTG-ATTTGTT
* *
7622512 -TTGATATTGTTCTTGATTTGTT
1 CTGGAAATTGTT-TTGATTTGTT
7622534 CTGGAAATTGTTTTGA-TTGTCT
1 CTGGAAATTGTTTTGATTTGT-T
*
7622556 GCTGGAAATTGTTATGA-TTGTCT
1 -CTGGAAATTGTTTTGATTTGT-T
7622579 GCTGGAAATTGTTTTGA-TTGTCT
1 -CTGGAAATTGTTTTGATTTGT-T
7622602 GCTGGAAATTG
1 -CTGGAAATTG
7622613 AATTTGTTTA
Statistics
Matches: 89, Mismatches: 6, Indels: 10
0.85 0.06 0.10
Matches are distributed among these distances:
20 7 0.08
21 4 0.04
22 12 0.13
23 66 0.74
ACGTcount: A:0.19, C:0.08, G:0.25, T:0.48
Consensus pattern (22 bp):
CTGGAAATTGTTTTGATTTGTT
Found at i:7622560 original size:23 final size:23
Alignment explanation
Indices: 7622517--7622612 Score: 151
Period size: 23 Copynumber: 4.2 Consensus size: 23
7622507 TTGTTTTGAT
7622517 ATTGTTCTTGATTTGT-T-CTGGAA
1 ATTGTT-TTGA-TTGTCTGCTGGAA
7622540 ATTGTTTTGATTGTCTGCTGGAA
1 ATTGTTTTGATTGTCTGCTGGAA
*
7622563 ATTGTTATGATTGTCTGCTGGAA
1 ATTGTTTTGATTGTCTGCTGGAA
7622586 ATTGTTTTGATTGTCTGCTGGAA
1 ATTGTTTTGATTGTCTGCTGGAA
7622609 ATTG
1 ATTG
7622613 AATTTGTTTA
Statistics
Matches: 69, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
21 4 0.06
22 5 0.07
23 60 0.87
ACGTcount: A:0.19, C:0.08, G:0.25, T:0.48
Consensus pattern (23 bp):
ATTGTTTTGATTGTCTGCTGGAA
Found at i:7629342 original size:45 final size:44
Alignment explanation
Indices: 7629261--7629351 Score: 128
Period size: 45 Copynumber: 2.0 Consensus size: 44
7629251 NNNTCTATTC
*
7629261 CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTACTATTACACCTCTATTCCATTA
*** *
7629305 CATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCCATTA
1 CATTCAACCAAACACAAGA-TTACTATTACACCTCTATTCCATTA
7629350 CA
1 CA
7629352 CCTCTAATCC
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
44 16 0.39
45 25 0.61
ACGTcount: A:0.34, C:0.29, G:0.05, T:0.32
Consensus pattern (44 bp):
CATTCAACCAAACACAAGATTACTATTACACCTCTATTCCATTA
Found at i:7629351 original size:16 final size:16
Alignment explanation
Indices: 7629330--7629362 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
7629320 TTGATTTGCT
*
7629330 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
7629346 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
7629362 A
1 A
7629363 ATTCAGCGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.30, C:0.36, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:7632123 original size:3 final size:3
Alignment explanation
Indices: 7632115--7632140 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
7632105 ACACTGACAG
7632115 GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GA
7632141 TAAAAGAGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:7636730 original size:43 final size:44
Alignment explanation
Indices: 7636666--7636777 Score: 156
Period size: 44 Copynumber: 2.5 Consensus size: 44
7636656 GAATTGAATT
*
7636666 AAATGAAATTCAGAAAAGTGAGTCAAA-ATAAATTGG-ATAGAAAC
1 AAATGAAATT-TGAAAAGTGAGTCAAAGATAAA-TGGAATAGAAAC
* *
7636710 AAATGAAATTTGAAAAGTGAGTCAAAGATAGATGGAATAGAAAT
1 AAATGAAATTTGAAAAGTGAGTCAAAGATAAATGGAATAGAAAC
*
7636754 AAATGAAATTTGAAAAGTTAGTCA
1 AAATGAAATTTGAAAAGTGAGTCA
7636778 GAACAATTAT
Statistics
Matches: 62, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
43 18 0.29
44 44 0.71
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.23
Consensus pattern (44 bp):
AAATGAAATTTGAAAAGTGAGTCAAAGATAAATGGAATAGAAAC
Found at i:7637990 original size:105 final size:103
Alignment explanation
Indices: 7637776--7638229 Score: 590
Period size: 105 Copynumber: 4.5 Consensus size: 103
7637766 ATTACAAGGT
* *
7637776 GGTGTCGGCCATTAACAGGCCAGCACCCAAATTTTTTTTTTACTTTTTTCGTATACTGATATCTG
1 GGTGCCGGCCATTGACAGGCCAGCACCCAAA-TTTTTTTTTACTTTTTTCGTATACTGATATCTG
* *
7637841 ATTCTGACAC-----GAAATTTTTTTTTAAATTGTACTG
65 ATTCTGACACAAAAAAAAAATTTTTTTTAAATTGTACTG
* * *
7637875 GGTGCCGGCCATTGACAGGCCAACACCCAAATTTTTTTTTATTTTTTTCGTATTCTGATATCTGA
1 GGTGCCGGCCATTGACAGGCCAGCACCCAAATTTTTTTTTACTTTTTTCGTATACTGATATCTGA
7637940 TTCTGACACAAAAAAAAAGAATTTTTTTTAAATTGTACTG
66 TTCTGACAC-AAAAAAAA-AATTTTTTTTAAATTGTACTG
* * **
7637980 GGTGCCGGCCATTGATAGGCCAGTACCCAAATTTTTTTTT--TTACTTCGTATACTGATATCTGA
1 GGTGCCGGCCATTGACAGGCCAGCACCCAAATTTTTTTTTACTTTTTTCGTATACTGATATCTGA
* *
7638043 TTTTGACACTAAAAAAATAA-----TTTAAATTGTACTG
66 TTCTGACAC-AAAAAAAAAATTTTTTTTAAATTGTACTG
* *
7638077 GGTGCCGGCCATTGATAGGCCGGCACCCAAAATTTTTTTTTTACTTTTTTCGTATACTGATATCT
1 GGTGCCGGCCATTGACAGGCCAGCACCC-AAA-TTTTTTTTTACTTTTTTCGTATACTGATATCT
*
7638142 GATTCTGACACAAAAAAATAATTTTTTTTTAAATTGTACTG
64 GATTCTGACACAAAAAAA-AAATTTTTTTTAAATTGTACTG
* * *
7638183 GGTGCCGGCTATTGACAAGCCAGCACCCAAATTTTTTTTTCCTTTTT
1 GGTGCCGGCCATTGACAGGCCAGCACCCAAATTTTTTTTTACTTTTT
7638230 CTTTTTTTTC
Statistics
Matches: 310, Mismatches: 28, Indels: 29
0.84 0.08 0.08
Matches are distributed among these distances:
97 40 0.13
98 44 0.14
99 37 0.12
100 7 0.02
101 30 0.10
102 2 0.01
103 35 0.11
104 17 0.05
105 60 0.19
106 38 0.12
ACGTcount: A:0.27, C:0.18, G:0.15, T:0.40
Consensus pattern (103 bp):
GGTGCCGGCCATTGACAGGCCAGCACCCAAATTTTTTTTTACTTTTTTCGTATACTGATATCTGA
TTCTGACACAAAAAAAAAATTTTTTTTAAATTGTACTG
Found at i:7638213 original size:203 final size:202
Alignment explanation
Indices: 7637776--7638222 Score: 639
Period size: 204 Copynumber: 2.2 Consensus size: 202
7637766 ATTACAAGGT
* *
7637776 GGTGTCGGCCATTAACAGGCCAGCACCCAAA-TTTTTTTTTTACTTTTTTCGTATACTGATATCT
1 GGTGCCGGCCATTGACAGGCCAGCACCCAAATTTTTTTTTTTAC---TTTCGTATACTGATATCT
* *** **
7637840 GATTCTGACACGAAATTTTTTTTTAAATTGTACTGGGTGCCGGCCATTGACAGGCCAACACCCAA
63 GATTCTGACACAAAAAAATAATTTAAATTGTACTGGGTGCCGGCCATTGACAGGCCAACACCCAA
* *
7637905 ATTTTTTTTTATTTTTTTCGTATTCTGATATCTGATTCTGACACAAAAAAAAAGAATTTTTTTTA
128 ATTTTTTTTTACTTTTTTCGTATACTGATATCTGATTCTGACACAAAAAAAAAGAATTTTTTTTA
7637970 AATTGTACTG
193 AATTGTACTG
* *
7637980 GGTGCCGGCCATTGATAGGCCAGTACCCAAATTTTTTTTTTTAC-TTCGTATACTGATATCTGAT
1 GGTGCCGGCCATTGACAGGCCAGCACCCAAATTTTTTTTTTTACTTTCGTATACTGATATCTGAT
* * **
7638044 TTTGACACTAAAAAAATAATTTAAATTGTACTGGGTGCCGGCCATTGATAGGCCGGCACCCAAAA
66 TCTGACAC-AAAAAAATAATTTAAATTGTACTGGGTGCCGGCCATTGACAGGCCAACACCC-AAA
* *
7638109 TTTTTTTTTTACTTTTTTCGTATACTGATATCTGATTCTGACACAAAAAAATA-ATTTTTTTTTA
129 -TTTTTTTTTACTTTTTTCGTATACTGATATCTGATTCTGACACAAAAAAAAAGAATTTTTTTTA
7638173 AATTGTACTG
193 AATTGTACTG
* *
7638183 GGTGCCGGCTATTGACAAGCCAGCACCCAAATTTTTTTTT
1 GGTGCCGGCCATTGACAGGCCAGCACCCAAATTTTTTTTT
7638223 CCTTTTTCTT
Statistics
Matches: 217, Mismatches: 22, Indels: 9
0.88 0.09 0.04
Matches are distributed among these distances:
201 27 0.12
202 43 0.20
203 59 0.27
204 76 0.35
205 12 0.06
ACGTcount: A:0.27, C:0.18, G:0.15, T:0.39
Consensus pattern (202 bp):
GGTGCCGGCCATTGACAGGCCAGCACCCAAATTTTTTTTTTTACTTTCGTATACTGATATCTGAT
TCTGACACAAAAAAATAATTTAAATTGTACTGGGTGCCGGCCATTGACAGGCCAACACCCAAATT
TTTTTTTACTTTTTTCGTATACTGATATCTGATTCTGACACAAAAAAAAAGAATTTTTTTTAAAT
TGTACTG
Found at i:7638236 original size:16 final size:16
Alignment explanation
Indices: 7638215--7638246 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
7638205 GCACCCAAAT
7638215 TTTTTTTTCCTTTTTC
1 TTTTTTTTCCTTTTTC
7638231 TTTTTTTTCCTTTTTC
1 TTTTTTTTCCTTTTTC
7638247 ATATATCAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTTTTTTCCTTTTTC
Found at i:7639434 original size:32 final size:33
Alignment explanation
Indices: 7639389--7639455 Score: 84
Period size: 32 Copynumber: 2.1 Consensus size: 33
7639379 AAATGCCAAT
7639389 TTACTTTTATCTATTTACTTAATATTTT-ATTA
1 TTACTTTTATCTATTTACTTAATATTTTCATTA
* **
7639421 TTACTTGTT-TCTATTTTCTTTTTATTTTCATTA
1 TTACTT-TTATCTATTTACTTAATATTTTCATTA
7639454 TT
1 TT
7639456 TTATTATCTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
32 22 0.73
33 8 0.27
ACGTcount: A:0.21, C:0.10, G:0.01, T:0.67
Consensus pattern (33 bp):
TTACTTTTATCTATTTACTTAATATTTTCATTA
Found at i:7646852 original size:14 final size:17
Alignment explanation
Indices: 7646815--7646857 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 17
7646805 AAATTAATTC
7646815 TAATGTATATTATTAAAT
1 TAAT-TATATTATTAAAT
7646833 TAATTATATTA-TAAA-
1 TAATTATATTATTAAAT
7646848 T-ATTATATTA
1 TAATTATATTA
7646858 AGAAATAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 9 0.36
15 1 0.04
16 4 0.16
17 7 0.28
18 4 0.16
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (17 bp):
TAATTATATTATTAAAT
Found at i:7648527 original size:3 final size:3
Alignment explanation
Indices: 7648519--7648551 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
7648509 ATTATATTCC
7648519 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
7648552 TGAATTATAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:7651037 original size:32 final size:32
Alignment explanation
Indices: 7650998--7651068 Score: 115
Period size: 32 Copynumber: 2.2 Consensus size: 32
7650988 ATTTTAGAGG
* *
7650998 TTGATTAATACAAATCATTGGAGAAATTAAGA
1 TTGATTAATACAAACCATTGAAGAAATTAAGA
*
7651030 TTGATTAATACAAACCCTTGAAGAAATTAAGA
1 TTGATTAATACAAACCATTGAAGAAATTAAGA
7651062 TTGATTA
1 TTGATTA
7651069 GAAATTTAGT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.45, C:0.08, G:0.14, T:0.32
Consensus pattern (32 bp):
TTGATTAATACAAACCATTGAAGAAATTAAGA
Found at i:7656001 original size:27 final size:27
Alignment explanation
Indices: 7655963--7656016 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
7655953 CCCCATCTAA
7655963 ACTCCGATTTGGGCGGAGTAGACGAGG
1 ACTCCGATTTGGGCGGAGTAGACGAGG
7655990 ACTCCGATTTGGGCGGAGTAGACGAGG
1 ACTCCGATTTGGGCGGAGTAGACGAGG
7656017 GCTTCGTCGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.22, C:0.19, G:0.41, T:0.19
Consensus pattern (27 bp):
ACTCCGATTTGGGCGGAGTAGACGAGG
Found at i:7662949 original size:2 final size:2
Alignment explanation
Indices: 7662938--7662976 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
7662928 CAAGTTCAAC
7662938 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7662977 GATAAGAGTC
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:7663687 original size:6 final size:6
Alignment explanation
Indices: 7663676--7663727 Score: 59
Period size: 6 Copynumber: 8.7 Consensus size: 6
7663666 TTTTTGAGCT
* * * * *
7663676 TATATG TATATG TCTATG TCTATG TCTATG TCTATG TACATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
7663724 TATA
1 TATA
7663728 ATTCTGAGTT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.27, C:0.10, G:0.15, T:0.48
Consensus pattern (6 bp):
TATATG
Found at i:7663705 original size:18 final size:18
Alignment explanation
Indices: 7663678--7663724 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 18
7663668 TTTGAGCTTA
7663678 TATGTATATGTCTATGTC
1 TATGTATATGTCTATGTC
*
7663696 TATGTCTATGTCTATGTAC
1 TATGTATATGTCTATGT-C
7663715 -ATGTATATGT
1 TATGTATATGT
7663725 ATAATTCTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 25 0.96
19 1 0.04
ACGTcount: A:0.23, C:0.11, G:0.17, T:0.49
Consensus pattern (18 bp):
TATGTATATGTCTATGTC
Found at i:7668483 original size:14 final size:15
Alignment explanation
Indices: 7668460--7668496 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
7668450 ATTATTAAAT
7668460 AAAT-TTTTAAAG-A
1 AAATATTTTAAAGAA
7668473 AAATATTTTAAAGATA
1 AAATATTTTAAAGA-A
7668489 AAATATTT
1 AAATATTT
7668497 CCTTTATGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 4 0.19
14 8 0.38
16 9 0.43
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (15 bp):
AAATATTTTAAAGAA
Found at i:7673218 original size:17 final size:17
Alignment explanation
Indices: 7673196--7673230 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
7673186 ATTTTTTCTT
* *
7673196 TTTTTTAATAATTTTTA
1 TTTTTTAAAAAATTTTA
7673213 TTTTTTAAAAAATTTTA
1 TTTTTTAAAAAATTTTA
7673230 T
1 T
7673231 AAAATTTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTTTTAAAAAATTTTA
Found at i:7673254 original size:10 final size:11
Alignment explanation
Indices: 7673214--7673257 Score: 58
Period size: 10 Copynumber: 4.3 Consensus size: 11
7673204 TAATTTTTAT
7673214 TTTTTA-AAAA
1 TTTTTATAAAA
*
7673224 ATTTTATAAAA
1 TTTTTATAAAA
7673235 -TTTTATAAAA
1 TTTTTATAAAA
7673245 TTTTTA-AAAA
1 TTTTTATAAAA
7673255 TTT
1 TTT
7673258 ATTTAATTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
10 22 0.71
11 9 0.29
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
TTTTTATAAAA
Found at i:7676698 original size:7 final size:7
Alignment explanation
Indices: 7676686--7676800 Score: 167
Period size: 7 Copynumber: 15.9 Consensus size: 7
7676676 CATGCCATAG
7676686 CCCTAAA
1 CCCTAAA
7676693 CCCTAAA
1 CCCTAAA
7676700 CCCTAAA
1 CCCTAAA
7676707 CCCTAAA
1 CCCTAAA
7676714 CCCTAAAA
1 CCCT-AAA
7676722 CCCTAAA
1 CCCTAAA
7676729 CCCTAAA
1 CCCTAAA
7676736 CCCTAAA
1 CCCTAAA
*
7676743 CCCCAAA
1 CCCTAAA
7676750 CCCCTAAAA
1 -CCCT-AAA
7676759 CCCTAAA
1 CCCTAAA
*
7676766 CCCCAAAA
1 -CCCTAAA
7676774 CCCTAAA
1 CCCTAAA
*
7676781 CCTTAAA
1 CCCTAAA
7676788 CCCTAAA
1 CCCTAAA
7676795 CCCTAA
1 CCCTAA
7676801 TACTCACATT
Statistics
Matches: 98, Mismatches: 6, Indels: 8
0.88 0.05 0.07
Matches are distributed among these distances:
7 75 0.77
8 20 0.20
9 3 0.03
ACGTcount: A:0.43, C:0.43, G:0.00, T:0.13
Consensus pattern (7 bp):
CCCTAAA
Found at i:7676725 original size:29 final size:28
Alignment explanation
Indices: 7676686--7676800 Score: 167
Period size: 29 Copynumber: 4.0 Consensus size: 28
7676676 CATGCCATAG
7676686 CCCTAAACCCTAAACCCTAAACCCTAAA
1 CCCTAAACCCTAAACCCTAAACCCTAAA
7676714 CCCTAAAACCCTAAACCCTAAACCCTAAA
1 CCCT-AAACCCTAAACCCTAAACCCTAAA
* *
7676743 CCCCAAACCCCTAAAACCCTAAACCCCAAAA
1 CCCTAAA-CCCT-AAACCCTAAA-CCCTAAA
*
7676774 CCCTAAACCTTAAACCCTAAACCCTAA
1 CCCTAAACCCTAAACCCTAAACCCTAA
7676801 TACTCACATT
Statistics
Matches: 78, Mismatches: 5, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
28 12 0.15
29 41 0.53
30 13 0.17
31 12 0.15
ACGTcount: A:0.43, C:0.43, G:0.00, T:0.13
Consensus pattern (28 bp):
CCCTAAACCCTAAACCCTAAACCCTAAA
Found at i:7678072 original size:5 final size:6
Alignment explanation
Indices: 7678057--7678081 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
7678047 AAATTCATAA
7678057 AAAAAT AAAAAT AAAAAT AAAAAT A
1 AAAAAT AAAAAT AAAAAT AAAAAT A
7678082 TTCAAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:7678689 original size:25 final size:25
Alignment explanation
Indices: 7678637--7678690 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
7678627 AATGAATTGA
*
7678637 TTTAATTTTTATTTATTATTACATT
1 TTTAATTTTTATTTATTATTACAAT
* *
7678662 TTTAA-TTTTATTTTTTTTTACCAAT
1 TTTAATTTTTATTTATTATTA-CAAT
7678687 TTTA
1 TTTA
7678691 GTCCTACAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 13 0.52
25 12 0.48
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.69
Consensus pattern (25 bp):
TTTAATTTTTATTTATTATTACAAT
Found at i:7683551 original size:47 final size:45
Alignment explanation
Indices: 7683442--7683549 Score: 139
Period size: 43 Copynumber: 2.4 Consensus size: 45
7683432 CTTTACCATT
* * *
7683442 TTGATATATTTGATATATTGAGTATGTTCGGTATGTTTTTGTATATC
1 TTGATATTTTTTATATATTGAGTATGTT--GTATGTTATTGTATATC
*
7683489 TTGGTATTTTTTATATATTGAGTATG-T-TATGTTATTGTATATC
1 TTGATATTTTTTATATATTGAGTATGTTGTATGTTATTGTATATC
*
7683532 TTGATATTTTTTTTATAT
1 TTGATATTTTTTATATAT
7683550 ATTTGATATA
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
43 31 0.56
46 1 0.02
47 23 0.42
ACGTcount: A:0.23, C:0.03, G:0.16, T:0.58
Consensus pattern (45 bp):
TTGATATTTTTTATATATTGAGTATGTTGTATGTTATTGTATATC
Found at i:7684388 original size:29 final size:30
Alignment explanation
Indices: 7684350--7684407 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
7684340 TGATATAACC
*
7684350 TTGATAGTTTAGGGAT-ATAATTAGAATGAT
1 TTGATAGTTTAAGGATCA-AATTAGAATGAT
*
7684380 TTGA-AGTTTAAGGATCAATTTAGAATGA
1 TTGATAGTTTAAGGATCAAATTAGAATGA
7684408 ACTCATAGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 20 0.80
30 5 0.20
ACGTcount: A:0.38, C:0.02, G:0.22, T:0.38
Consensus pattern (30 bp):
TTGATAGTTTAAGGATCAAATTAGAATGAT
Found at i:7684626 original size:14 final size:13
Alignment explanation
Indices: 7684607--7684636 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
7684597 CCCTTTCTTC
7684607 CTCTTCTCCTCCTT
1 CTCTTCTCC-CCTT
7684621 CTCTTCTCCCCTT
1 CTCTTCTCCCCTT
7684634 CTC
1 CTC
7684637 CGGTCCCTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (13 bp):
CTCTTCTCCCCTT
Found at i:7687285 original size:24 final size:24
Alignment explanation
Indices: 7687228--7687279 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
7687218 TTTTTAAAAG
* * *
7687228 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
7687252 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATTAGCATAATAT
7687276 ATTT
1 ATTT
7687280 GACATTAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:7687290 original size:24 final size:24
Alignment explanation
Indices: 7687245--7687291 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
7687235 ATTTATGAGT
*
7687245 ATAATATATTTAGCATTTATTAGC
1 ATAATATATTTAGCATTAATTAGC
7687269 ATAATATATTT-GACATTAATTAG
1 ATAATATATTTAG-CATTAATTAG
7687292 AATTAGGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.40, C:0.06, G:0.09, T:0.45
Consensus pattern (24 bp):
ATAATATATTTAGCATTAATTAGC
Found at i:7688119 original size:17 final size:17
Alignment explanation
Indices: 7688081--7688129 Score: 55
Period size: 19 Copynumber: 2.8 Consensus size: 17
7688071 TGGTGAGAAG
7688081 TAAAAGTTTAGGGGAAAA
1 TAAAAGTTTAGGGG-AAA
*
7688099 TAAAAAGTTTTGGGG-AA
1 T-AAAAGTTTAGGGGAAA
7688116 TAAAAGTTTGAGGG
1 TAAAAGTTT-AGGG
7688130 AAAGTAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 8 0.30
17 6 0.22
18 1 0.04
19 12 0.44
ACGTcount: A:0.43, C:0.00, G:0.31, T:0.27
Consensus pattern (17 bp):
TAAAAGTTTAGGGGAAA
Found at i:7688444 original size:9 final size:9
Alignment explanation
Indices: 7688430--7688466 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
7688420 TATAGTTTGA
7688430 TATTCGAAT
1 TATTCGAAT
7688439 TATTCGAAT
1 TATTCGAAT
*
7688448 TATTCGAGT
1 TATTCGAAT
7688457 TATTCGAAT
1 TATTCGAAT
7688466 T
1 T
7688467 CAAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:7688537 original size:9 final size:9
Alignment explanation
Indices: 7688520--7688550 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
7688510 TCGAGTTGAT
7688520 TCGAATAAC
1 TCGAATAAC
*
7688529 TCGATTAAC
1 TCGAATAAC
7688538 TCGAATAAC
1 TCGAATAAC
7688547 TCGA
1 TCGA
7688551 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:7691496 original size:18 final size:17
Alignment explanation
Indices: 7691463--7691501 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
7691453 TTTTATAAAT
7691463 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
7691481 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
7691498 TGTG
1 TGTG
7691502 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:7691773 original size:23 final size:23
Alignment explanation
Indices: 7691747--7691821 Score: 107
Period size: 23 Copynumber: 3.3 Consensus size: 23
7691737 GTGTTATTGA
7691747 TCAGTGGTAGCTTCGGCTACATT
1 TCAGTGGTAGCTTCGGCTACATT
* *
7691770 TCAGTGGTAGCTACGACTACATAT
1 TCAGTGGTAGCTTCGGCTACAT-T
*
7691794 T-AGTGGTAGCTTCGGCTACATA
1 TCAGTGGTAGCTTCGGCTACATT
7691816 TCAGTG
1 TCAGTG
7691822 TGGCACTTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
22 1 0.02
23 42 0.93
24 2 0.04
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.32
Consensus pattern (23 bp):
TCAGTGGTAGCTTCGGCTACATT
Found at i:7695398 original size:2 final size:2
Alignment explanation
Indices: 7695391--7695423 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
7695381 GGACAGTTTC
7695391 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7695424 TCTTAATTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7711109 original size:27 final size:26
Alignment explanation
Indices: 7711056--7711117 Score: 88
Period size: 26 Copynumber: 2.3 Consensus size: 26
7711046 AGAAAACAAC
* * *
7711056 AAAAAGAGAATCTATTCTAAAAAGAA
1 AAAAAGAAAACCTAATCTAAAAAGAA
7711082 AAAAAGAAAACCTAATCTAAAAATGAA
1 AAAAAGAAAACCTAATCTAAAAA-GAA
7711109 AAAAAGAAA
1 AAAAAGAAA
7711118 GAAAGAAAGG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 20 0.62
27 12 0.38
ACGTcount: A:0.68, C:0.08, G:0.10, T:0.15
Consensus pattern (26 bp):
AAAAAGAAAACCTAATCTAAAAAGAA
Found at i:7715865 original size:28 final size:28
Alignment explanation
Indices: 7715833--7715897 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
7715823 TATCAAAAAT
7715833 ATCAATAAAAATTTTTAAGTGTAGAGAC
1 ATCAATAAAAATTTTTAAGTGTAGAGAC
* *
7715861 ATCAATAAAATTTTTTAAGTGTAGAGAT
1 ATCAATAAAAATTTTTAAGTGTAGAGAC
7715889 ATCAATAAA
1 ATCAATAAA
7715898 TATCAATAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.48, C:0.06, G:0.12, T:0.34
Consensus pattern (28 bp):
ATCAATAAAAATTTTTAAGTGTAGAGAC
Found at i:7717447 original size:12 final size:12
Alignment explanation
Indices: 7717430--7717455 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
7717420 AAAGAAAATG
7717430 TATTATTATTTT
1 TATTATTATTTT
7717442 TATTATTATTTT
1 TATTATTATTTT
7717454 TA
1 TA
7717456 AATATAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (12 bp):
TATTATTATTTT
Found at i:7722017 original size:2 final size:2
Alignment explanation
Indices: 7722005--7722034 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
7721995 TTGGTTTAAA
7722005 AT AT A- 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 AT A
7722035 ATAACATGCC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:7722784 original size:14 final size:14
Alignment explanation
Indices: 7722765--7722794 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
7722755 TGACCTTGTT
7722765 CAGTTGTGCTGTCC
1 CAGTTGTGCTGTCC
*
7722779 CAGTTGTGTTGTCC
1 CAGTTGTGCTGTCC
7722793 CA
1 CA
7722795 TCAATGACAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.10, C:0.27, G:0.27, T:0.37
Consensus pattern (14 bp):
CAGTTGTGCTGTCC
Found at i:7723094 original size:5 final size:5
Alignment explanation
Indices: 7723084--7723109 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
7723074 TGAGCATTCG
7723084 ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA A
7723110 AATTTTCGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:7723853 original size:30 final size:29
Alignment explanation
Indices: 7723819--7723876 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
7723809 AGAGGTGGGA
*
7723819 TGGGAAGAAAATAAAAGTTTTAGGGGAAAC
1 TGGG-AGAAAATAAAAATTTTAGGGGAAAC
* * *
7723849 TGGGAGGAAGTAAAAATTTTGGGGGAAA
1 TGGGAGAAAATAAAAATTTTAGGGGAAA
7723877 ATAAAATGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 20 0.83
30 4 0.17
ACGTcount: A:0.43, C:0.02, G:0.34, T:0.21
Consensus pattern (29 bp):
TGGGAGAAAATAAAAATTTTAGGGGAAAC
Found at i:7726849 original size:51 final size:51
Alignment explanation
Indices: 7726754--7726870 Score: 146
Period size: 51 Copynumber: 2.3 Consensus size: 51
7726744 GATAATAACA
* * **
7726754 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGATACTCTCATATCGG
* * * *
7726805 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGGA-ACTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTAC-AGGGGATACTCTCATATCGG
7726856 TGCCAACGCCATGTC
1 TGCCAACGCCATGTC
7726871 NNNNNNNNNN
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
51 52 0.93
52 4 0.07
ACGTcount: A:0.21, C:0.30, G:0.25, T:0.25
Consensus pattern (51 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGATACTCTCATATCGG
Found at i:7731594 original size:11 final size:11
Alignment explanation
Indices: 7731578--7731604 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
7731568 TAGAAATTAG
7731578 TTTGTGAAACT
1 TTTGTGAAACT
7731589 TTTGTGAAACT
1 TTTGTGAAACT
7731600 TTTGT
1 TTTGT
7731605 ATTGATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.22, C:0.07, G:0.19, T:0.52
Consensus pattern (11 bp):
TTTGTGAAACT
Found at i:7733761 original size:45 final size:44
Alignment explanation
Indices: 7733672--7733766 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
7733662 TTACACCTCT
*
7733672 ATTACATTCAACCAAACACAAGATTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACACAAGATTACTATTACACCTCTATTCC
*** *
7733716 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACACAAGA-TTACTATTACACCTCTATTCC
7733761 ATTACA
1 ATTACA
7733767 CCTCTAATCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 20 0.44
45 25 0.56
ACGTcount: A:0.35, C:0.27, G:0.05, T:0.33
Consensus pattern (44 bp):
ATTACATTCAACCAAACACAAGATTACTATTACACCTCTATTCC
Found at i:7733766 original size:16 final size:16
Alignment explanation
Indices: 7733745--7733782 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
7733735 TTGATTTGCT
*
7733745 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
7733761 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
*
7733777 AATACA
1 ATTACA
7733783 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.32
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:7735384 original size:23 final size:24
Alignment explanation
Indices: 7735349--7735396 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
7735339 ATACATAAAC
7735349 TTCACACAAATAAAAAACAATCAA
1 TTCACACAAATAAAAAACAATCAA
* * *
7735373 TTCA-ACATATAAAACACATTCAA
1 TTCACACAAATAAAAAACAATCAA
7735396 T
1 T
7735397 CACCAACAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 17 0.81
24 4 0.19
ACGTcount: A:0.56, C:0.21, G:0.00, T:0.23
Consensus pattern (24 bp):
TTCACACAAATAAAAAACAATCAA
Found at i:7735630 original size:43 final size:43
Alignment explanation
Indices: 7735583--7735679 Score: 151
Period size: 43 Copynumber: 2.3 Consensus size: 43
7735573 AGAGTAATAC
* *
7735583 CTTTAGCGGCGTTTTTGGTATAAGCGCTGCTATAGA-CTAGGGT
1 CTTTAGCGGCGTTTTTGGTAAAAGCGCCGCTATAGATC-AGGGT
7735626 CTTTAGCGGCGTTTTTGGTAAAAGCGCCGCTATAGATCAGGGT
1 CTTTAGCGGCGTTTTTGGTAAAAGCGCCGCTATAGATCAGGGT
*
7735669 CTTTAGTGGCG
1 CTTTAGCGGCG
7735680 NNNNNNNNNN
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
43 49 0.98
44 1 0.02
ACGTcount: A:0.19, C:0.18, G:0.31, T:0.33
Consensus pattern (43 bp):
CTTTAGCGGCGTTTTTGGTAAAAGCGCCGCTATAGATCAGGGT
Found at i:7739983 original size:40 final size:42
Alignment explanation
Indices: 7739934--7740015 Score: 107
Period size: 41 Copynumber: 2.0 Consensus size: 42
7739924 TTGTCGATTC
*
7739934 CAACTTTTACGGCG-CTT-ACAATCAAACGCCACTAAT-TTTA
1 CAACATTTACGGCGTCTTGACAAT-AAACGCCACTAATATTTA
* *
7739974 CAACATTTACGGCGTTTTGAGAATAAACGCCACTAATATTTA
1 CAACATTTACGGCGTCTTGACAATAAACGCCACTAATATTTA
7740016 ATTCGTCAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
40 13 0.36
41 15 0.42
42 8 0.22
ACGTcount: A:0.34, C:0.23, G:0.12, T:0.30
Consensus pattern (42 bp):
CAACATTTACGGCGTCTTGACAATAAACGCCACTAATATTTA
Found at i:7741551 original size:31 final size:32
Alignment explanation
Indices: 7741485--7741559 Score: 98
Period size: 31 Copynumber: 2.4 Consensus size: 32
7741475 TAACCCATAT
* * *
7741485 ATAACCCCTAAATCCCCTTTAACCCTTAAAGC
1 ATAACCCCTAAATCCCCTCTAACCCCTAAACC
* *
7741517 ATAAACCCTAAA-CTCCTCTAACCCCTAAACC
1 ATAACCCCTAAATCCCCTCTAACCCCTAAACC
7741548 ATAACCCCTAAA
1 ATAACCCCTAAA
7741560 AAATTTTATT
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
31 26 0.70
32 11 0.30
ACGTcount: A:0.39, C:0.39, G:0.01, T:0.21
Consensus pattern (32 bp):
ATAACCCCTAAATCCCCTCTAACCCCTAAACC
Found at i:7741856 original size:22 final size:21
Alignment explanation
Indices: 7741831--7741884 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
7741821 CTTACCGTTC
*
7741831 AAACCCTAAACCAGAAATCCCT
1 AAACCCTAAACC-GAAACCCCT
* *
7741853 AAACCCTGAATCCTAAACCCCT
1 AAACCCT-AAACCGAAACCCCT
7741875 AAACCCTAAA
1 AAACCCTAAA
7741885 TCTTAACTCT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 2 0.07
22 21 0.78
23 4 0.15
ACGTcount: A:0.44, C:0.37, G:0.04, T:0.15
Consensus pattern (21 bp):
AAACCCTAAACCGAAACCCCT
Found at i:7741877 original size:8 final size:7
Alignment explanation
Indices: 7741831--7741884 Score: 54
Period size: 7 Copynumber: 7.4 Consensus size: 7
7741821 CTTACCGTTC
7741831 AAACCCT
1 AAACCCT
**
7741838 AAACCAG
1 AAACCCT
7741845 AAATCCCT
1 AAA-CCCT
7741853 AAACCCT
1 AAACCCT
* *
7741860 GAATCCT
1 AAACCCT
7741867 AAACCCCT
1 AAA-CCCT
7741875 AAACCCT
1 AAACCCT
7741882 AAA
1 AAA
7741885 TCTTAACTCT
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
7 26 0.70
8 11 0.30
ACGTcount: A:0.44, C:0.37, G:0.04, T:0.15
Consensus pattern (7 bp):
AAACCCT
Found at i:7741907 original size:31 final size:29
Alignment explanation
Indices: 7741864--7741945 Score: 76
Period size: 31 Copynumber: 2.8 Consensus size: 29
7741854 AACCCTGAAT
* * *
7741864 CCTAAACCCCTAAACCCTAAATCTTAACT
1 CCTAATCCCCTAAACCCTAAATCATAACA
* * * *
7741893 CTTAACTCCCCCTAACCCCAAAAGCATAACA
1 CCTAA-T-CCCCTAAACCCTAAATCATAACA
7741924 CCTAAT-CCCTAAACCCTAAATC
1 CCTAATCCCCTAAACCCTAAATC
7741946 CATACCCTGA
Statistics
Matches: 40, Mismatches: 11, Indels: 5
0.71 0.20 0.09
Matches are distributed among these distances:
28 13 0.32
29 4 0.10
30 1 0.03
31 22 0.55
ACGTcount: A:0.38, C:0.40, G:0.01, T:0.21
Consensus pattern (29 bp):
CCTAATCCCCTAAACCCTAAATCATAACA
Found at i:7742440 original size:113 final size:113
Alignment explanation
Indices: 7742170--7742441 Score: 352
Period size: 113 Copynumber: 2.4 Consensus size: 113
7742160 AATCCCTGAT
* *
7742170 CATTAGCGGCGCTTTTCTAAAAACGCCGCTAAATCCCTCAAAAGCACAGAAAACGACGACGTTGC
1 CATTAGCGGCGCTTTTATAAAAACGCCGCTAAATCCCT-GAAAGCACAGAAAACGACGACGTTGC
* * *
7742235 GCTTAGTTTTTTTTGCGGCGCTTTCCAAAAAACGCCGCTAAAGACTGAA
65 GCTTAGTGTTTTTTGCGGCGCTTTACAAAAAACGCCGCTAAAGACTCAA
* * * * * *
7742284 CATTAGCGGCGCTTTAACAAAAACGCCGCTAAAATCCCCGAAAGC-CAGAAAACGGCGTCGTTGG
1 CATTAGCGGCGCTTTTATAAAAACGCCGCT-AAATCCCTGAAAGCACAGAAAACGACGACGTTGC
*
7742348 GCTTAG-GTTTTTTGCGGCGCTTTA-ACAAAAACGCCGCTAAAGACTTCAG
65 GCTTAGTGTTTTTTGCGGCGCTTTACA-AAAAACGCCGCTAAAGAC-TCAA
* *
7742397 CATTAGCGGCGCTTTCTGTAAAAGCGCCGCTAAATCCCTGAAAGC
1 CATTAGCGGCGCTTT-TATAAAAACGCCGCTAAATCCCTGAAAGC
7742442 TCGGGAGACG
Statistics
Matches: 137, Mismatches: 17, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
111 1 0.01
112 34 0.25
113 52 0.38
114 43 0.31
115 7 0.05
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.22
Consensus pattern (113 bp):
CATTAGCGGCGCTTTTATAAAAACGCCGCTAAATCCCTGAAAGCACAGAAAACGACGACGTTGCG
CTTAGTGTTTTTTGCGGCGCTTTACAAAAAACGCCGCTAAAGACTCAA
Found at i:7742470 original size:112 final size:110
Alignment explanation
Indices: 7742170--7742463 Score: 347
Period size: 114 Copynumber: 2.6 Consensus size: 110
7742160 AATCCCTGAT
* * *
7742170 CATTAGCGGCGCTTTTCTAAAAACGCCGCTAAATCCCTCAAAAGCACAGAAAACGACGACGTTGC
1 CATTAGCGGCGCTTTTATAAAAACGCCGCTAAATCCCT-GAAAGC-CAGAAAACGACGTCGTTGC
* *
7742235 GCTTAGTTTTTTTTGCGGCGCTTTCCAAAAAACGCCGCTAAAGACTGAA
64 GCTTAG--TTTTTTGCGGCGCTTTACAAAAAACGCCGCTAAAGACTCAA
* * * * *
7742284 CATTAGCGGCGCTTTAACAAAAACGCCGCTAAAATCCCCGAAAGCCAGAAAACGGCGTCGTTGGG
1 CATTAGCGGCGCTTTTATAAAAACGCCGCT-AAATCCCTGAAAGCCAGAAAACGACGTCGTTGCG
*
7742349 CTTAGGTTTTTTGCGGCGCTTTA-ACAAAAACGCCGCTAAAGACTTCAG
65 CTTA-GTTTTTTGCGGCGCTTTACA-AAAAACGCCGCTAAAGAC-TCAA
* * * * *
7742397 CATTAGCGGCGCTTTCTGTAAAAGCGCCGCTAAATCCCTGAAAGCTCGGGAGACGACGTCGTTGC
1 CATTAGCGGCGCTTT-TATAAAAACGCCGCTAAATCCCTGAAAGC-CAGAAAACGACGTCGTTGC
7742462 GC
64 GC
7742464 CAGTTTTAAG
Statistics
Matches: 153, Mismatches: 21, Indels: 12
0.82 0.11 0.06
Matches are distributed among these distances:
111 1 0.01
112 34 0.22
113 51 0.33
114 60 0.39
115 7 0.05
ACGTcount: A:0.29, C:0.27, G:0.23, T:0.22
Consensus pattern (110 bp):
CATTAGCGGCGCTTTTATAAAAACGCCGCTAAATCCCTGAAAGCCAGAAAACGACGTCGTTGCGC
TTAGTTTTTTGCGGCGCTTTACAAAAAACGCCGCTAAAGACTCAA
Found at i:7742567 original size:87 final size:87
Alignment explanation
Indices: 7742406--7742583 Score: 236
Period size: 87 Copynumber: 2.0 Consensus size: 87
7742396 GCATTAGCGG
* * *
7742406 CGCTTTCTGTAAAAGCGCCGCTAAATCCCTGAAAGCTCGGGAGACGACGTCGTTGCGCCAGTTTT
1 CGCTTTCTATAAAAGCGCCGCTAAATCCCTGAAAGCTCGGGAAACGACATCGTTGCGCCAGTTTT
7742471 AAGTAGCGGCGCTTTTCC-AGAAA
66 -AGTAGCGGCGC-TTTCCTAGAAA
* *
7742494 CGCTTTCTAT-AAAGCGCCGCTAAATCCCTGAAAGCTCGGGAAACGACATCGTTGGGCTTAGTTA
1 CGCTTTCTATAAAAGCGCCGCTAAATCCCTGAAAGCTCGGGAAACGACATCGTTGCGC-CAGTT-
* *
7742558 TT-TTTGCGGCGCTTTCCTAGAAA
64 TTAGTAGCGGCGCTTTCCTAGAAA
7742581 CGC
1 CGC
7742584 CGCTAAAGCC
Statistics
Matches: 80, Mismatches: 7, Indels: 7
0.85 0.07 0.07
Matches are distributed among these distances:
86 5 0.06
87 60 0.75
88 13 0.16
89 2 0.03
ACGTcount: A:0.24, C:0.26, G:0.25, T:0.26
Consensus pattern (87 bp):
CGCTTTCTATAAAAGCGCCGCTAAATCCCTGAAAGCTCGGGAAACGACATCGTTGCGCCAGTTTT
AGTAGCGGCGCTTTCCTAGAAA
Found at i:7747174 original size:25 final size:25
Alignment explanation
Indices: 7747119--7747178 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
7747109 GTAAATTTGG
*
7747119 TAAATAATTTTAATTAAAATAAGAA
1 TAAATAATATTAATTAAAATAAGAA
7747144 TAAAATAATATTAA-TAAAATAA-AA
1 T-AAATAATATTAATTAAAATAAGAA
7747168 GCTAAATAATA
1 --TAAATAATA
7747179 GTGGGGGAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
24 2 0.06
25 17 0.55
26 12 0.39
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (25 bp):
TAAATAATATTAATTAAAATAAGAA
Found at i:7751031 original size:12 final size:13
Alignment explanation
Indices: 7750999--7751036 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
7750989 CAAAGAAAGG
*
7750999 ATAGAAAAAGAGA
1 ATAGAAACAGAGA
7751012 ATAGAAACAGAGA
1 ATAGAAACAGAGA
7751025 A-AGAAACAGAGA
1 ATAGAAACAGAGA
7751037 GCAAAACGGG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 11 0.46
13 13 0.54
ACGTcount: A:0.66, C:0.05, G:0.24, T:0.05
Consensus pattern (13 bp):
ATAGAAACAGAGA
Found at i:7751782 original size:23 final size:22
Alignment explanation
Indices: 7751755--7751839 Score: 104
Period size: 21 Copynumber: 4.0 Consensus size: 22
7751745 CTTTGCCGAC
7751755 CAGGCACTTTATGTGTCGTATCT
1 CAGGCACTTTATGTGTCGTAT-T
*
7751778 CAGGCACTTTACGTGTCGTA-T
1 CAGGCACTTTATGTGTCGTATT
* **
7751799 CAGGCACCTCGTGTGTCGT-TT
1 CAGGCACTTTATGTGTCGTATT
7751820 CAGGCAC-TTATGTGTCGTAT
1 CAGGCACTTTATGTGTCGTAT
7751840 ACTGATCAGG
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
20 9 0.17
21 25 0.47
23 19 0.36
ACGTcount: A:0.16, C:0.24, G:0.25, T:0.35
Consensus pattern (22 bp):
CAGGCACTTTATGTGTCGTATT
Found at i:7752590 original size:17 final size:17
Alignment explanation
Indices: 7752545--7752591 Score: 76
Period size: 17 Copynumber: 2.8 Consensus size: 17
7752535 GGCATGTACT
*
7752545 TAAGTAATGTACATACC
1 TAAGTAATGTATATACC
7752562 TAAGTAATGTATATACC
1 TAAGTAATGTATATACC
*
7752579 TAAGTGATGTATA
1 TAAGTAATGTATA
7752592 GGGATTAGTC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.34
Consensus pattern (17 bp):
TAAGTAATGTATATACC
Found at i:7753847 original size:127 final size:126
Alignment explanation
Indices: 7753538--7753825 Score: 474
Period size: 127 Copynumber: 2.3 Consensus size: 126
7753528 GTTTACAAAC
* * *
7753538 AAAAACGCCACTAAAGACCATGTTCTTTAGCAGCGCTTAGAAAAAAACGCCGCTAAAGAACATGT
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAAAACATGT
*
7753603 TCTTTAGCGGCGCTTAAGGAAAGAGAACGCCGAAGACCATGTTCTTTAGCGGCGCTTAGAA
66 TCTTTAGCGGCGCTTAAGGAAAGAAAACGCCGAAGACCATGTTCTTTAGCGGCGCTTAGAA
7753664 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAAAACCATG
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAAAA-CATG
7753729 TTCTTTAGCGGCGCTT-A-GAAA-AAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
65 TTCTTTAGCGGCGCTTAAGGAAAGAAAACGCCG---AAGACCATGTTCTTTAGCGGCGCTTAGAA
*
7753791 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCG
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCG
7753826 TTTATTCTTA
Statistics
Matches: 153, Mismatches: 5, Indels: 7
0.93 0.03 0.04
Matches are distributed among these distances:
124 8 0.05
125 4 0.03
126 58 0.38
127 83 0.54
ACGTcount: A:0.34, C:0.23, G:0.22, T:0.21
Consensus pattern (126 bp):
AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAAAACATGT
TCTTTAGCGGCGCTTAAGGAAAGAAAACGCCGAAGACCATGTTCTTTAGCGGCGCTTAGAA
Found at i:7753849 original size:42 final size:42
Alignment explanation
Indices: 7753538--7753825 Score: 465
Period size: 42 Copynumber: 6.8 Consensus size: 42
7753528 GTTTACAAAC
* *
7753538 AAAAACGCCACTAAAGACCATGTTCTTTAGCAGCGCTTAGAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
*
7753580 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAAGGAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTT-A-GAA
*
7753624 AGAGAACGCCG---AAGACCATGTTCTTTAGCGGCGCTTAGAA
1 A-AAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
7753664 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
*
7753706 AAAAACGCCGCTAAAAAACCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCT-AAAGACCATGTTCTTTAGCGGCGCTTAGAA
7753749 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
*
7753791 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCG
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCG
7753826 TTTATTCTTA
Statistics
Matches: 230, Mismatches: 9, Indels: 14
0.91 0.04 0.06
Matches are distributed among these distances:
39 8 0.03
40 4 0.02
41 1 0.00
42 163 0.71
43 42 0.18
44 4 0.02
45 8 0.03
ACGTcount: A:0.34, C:0.23, G:0.22, T:0.21
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
Found at i:7753865 original size:169 final size:168
Alignment explanation
Indices: 7753538--7753889 Score: 449
Period size: 169 Copynumber: 2.1 Consensus size: 168
7753528 GTTTACAAAC
*
7753538 AAAAACGCCACTAAAGACCATGTTCTTTAGCAGCGCTTAGAAAAAAACGCCGCTAAAGAACATGT
1 AAAAACGCCACTAAAAACCATGTTCTTTAGCAGCGCTTAGAAAAAAACGCCGCTAAAGAACATGT
*
7753603 TCTTTAGCGGCGCTTAAGGAAAGAGAACGCCGAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAA
66 TCTTTAGCGGCGCTTAAGGAAAGAAAACGCCGAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAA
* ****
7753668 ACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
131 ACGCCGCTAAAGAACATGAAAATTAGCGGCGCTTAGAA
* * *
7753706 AAAAACGCCGCTAAAAAACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGACCATG
1 AAAAACGCCACT-AAAAACCATGTTCTTTAGCAGCGCTTAGAAAAAAACGCCGCTAAAGAACATG
* * ***
7753771 TTCTTTAGCGGCGCTT-A-GAAA-AAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTATTC
65 TTCTTTAGCGGCGCTTAAGGAAAGAAAACGCCG---AAGACCATGTTCTTTAGCGGCGCTTAGAA
** * * *
7753833 TTAAGCGCCGCTAAAGAACATGAAAATTAGCGGCGCTTTTATAC
127 AAAAACGCCGCTAAAGAACATGAAAATTAGCGGCGC--TTAGAA
7753877 AAAAACGCCACTA
1 AAAAACGCCACTA
7753890 TTTTTGAGAT
Statistics
Matches: 157, Mismatches: 21, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
166 8 0.05
167 4 0.03
168 12 0.08
169 117 0.75
170 1 0.01
171 15 0.10
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.22
Consensus pattern (168 bp):
AAAAACGCCACTAAAAACCATGTTCTTTAGCAGCGCTTAGAAAAAAACGCCGCTAAAGAACATGT
TCTTTAGCGGCGCTTAAGGAAAGAAAACGCCGAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAA
ACGCCGCTAAAGAACATGAAAATTAGCGGCGCTTAGAA
Found at i:7759791 original size:13 final size:13
Alignment explanation
Indices: 7759773--7759822 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
7759763 CACATTTTAG
7759773 TAAGTAATGTATT
1 TAAGTAATGTATT
7759786 TAAGTAAAT-TATT
1 TAAGT-AATGTATT
*
7759799 TAAGTAATATATT
1 TAAGTAATGTATT
*
7759812 CAAGTTAATGT
1 TAAG-TAATGT
7759823 TGCATAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
12 3 0.09
13 21 0.66
14 8 0.25
ACGTcount: A:0.42, C:0.02, G:0.12, T:0.44
Consensus pattern (13 bp):
TAAGTAATGTATT
Found at i:7759931 original size:74 final size:74
Alignment explanation
Indices: 7759853--7760005 Score: 306
Period size: 74 Copynumber: 2.1 Consensus size: 74
7759843 GTAAGTAATG
7759853 TAAGTCATGTAAAATATACTTAAAAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
1 TAAGTCATGTAAAATATACTTAAAAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
7759918 ATATATTAA
66 ATATATTAA
7759927 TAAGTCATGTAAAATATACTTAAAAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
1 TAAGTCATGTAAAATATACTTAAAAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
7759992 ATATATTAA
66 ATATATTAA
7760001 TAAGT
1 TAAGT
7760006 TAAATTAAAT
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 79 1.00
ACGTcount: A:0.50, C:0.04, G:0.07, T:0.39
Consensus pattern (74 bp):
TAAGTCATGTAAAATATACTTAAAAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
ATATATTAA
Found at i:7759956 original size:36 final size:37
Alignment explanation
Indices: 7759853--7759998 Score: 160
Period size: 34 Copynumber: 4.0 Consensus size: 37
7759843 GTAAGTAATG
*
7759853 TAAGTCATGTAAAATAT-A-CTTAAAA-ATATATATT
1 TAAGTAATGTAAAATATAATCTTAAAATATATATATT
* *
7759887 TAAGTAATGTAAGATATCAATTTTAAAATATATATATT
1 TAAGTAATGTAAAATAT-AATCTTAAAATATATATATT
*
7759925 AATAAGTCATGTAAAATAT-A-CTTAAAA-ATATATATT
1 --TAAGTAATGTAAAATATAATCTTAAAATATATATATT
* *
7759961 TAAGTAATGTAAGATATCAATTTTAAAATATATATATT
1 TAAGTAATGTAAAATAT-AATCTTAAAATATATATATT
7759999 AATAAGTTAA
Statistics
Matches: 93, Mismatches: 9, Indels: 16
0.79 0.08 0.14
Matches are distributed among these distances:
34 30 0.32
36 11 0.12
37 18 0.19
38 19 0.20
40 15 0.16
ACGTcount: A:0.49, C:0.04, G:0.07, T:0.40
Consensus pattern (37 bp):
TAAGTAATGTAAAATATAATCTTAAAATATATATATT
Found at i:7760005 original size:40 final size:37
Alignment explanation
Indices: 7759872--7759998 Score: 170
Period size: 38 Copynumber: 3.4 Consensus size: 37
7759862 TAAAATATAC
7759872 TTAAAAATATATATTTAAGTAATGTAAGATATCAATT
1 TTAAAAATATATATTTAAGTAATGTAAGATATCAATT
* * *
7759909 TTAAAATATATATATTAATAAGTCATGTAAAATAT--A-C
1 TTAAAA-ATATATATT--TAAGTAATGTAAGATATCAATT
7759946 TTAAAAATATATATTTAAGTAATGTAAGATATCAATT
1 TTAAAAATATATATTTAAGTAATGTAAGATATCAATT
7759983 TTAAAATATATATATT
1 TTAAAA-ATATATATT
7759999 AATAAGTTAA
Statistics
Matches: 77, Mismatches: 6, Indels: 13
0.80 0.06 0.14
Matches are distributed among these distances:
34 15 0.19
36 10 0.13
37 18 0.23
38 19 0.25
40 15 0.19
ACGTcount: A:0.50, C:0.03, G:0.06, T:0.41
Consensus pattern (37 bp):
TTAAAAATATATATTTAAGTAATGTAAGATATCAATT
Found at i:7760046 original size:20 final size:20
Alignment explanation
Indices: 7760023--7760071 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
7760013 AATTGTAAAA
*
7760023 ATATATTAAATATTGAAAT-T
1 ATATATTAAAT-TTAAAATAT
*
7760043 ATATATTAACTTTAAAATAT
1 ATATATTAAATTTAAAATAT
7760063 ATATATTAA
1 ATATATTAA
7760072 TAAGTTATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 6 0.23
20 20 0.77
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (20 bp):
ATATATTAAATTTAAAATAT
Found at i:7760063 original size:18 final size:19
Alignment explanation
Indices: 7760009--7760066 Score: 59
Period size: 18 Copynumber: 3.1 Consensus size: 19
7759999 AATAAGTTAA
7760009 ATTAAAT-TGTAAAA-ATAT
1 ATTAAATAT-TAAAATATAT
*
7760027 ATTAAATATTGAAATTATAT
1 ATTAAATATT-AAAATATAT
*
7760047 ATTAACT-TTAAAATATAT
1 ATTAAATATTAAAATATAT
7760065 AT
1 AT
7760067 ATTAATAAGT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
18 18 0.53
19 6 0.18
20 10 0.29
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (19 bp):
ATTAAATATTAAAATATAT
Found at i:7760190 original size:67 final size:67
Alignment explanation
Indices: 7760118--7760256 Score: 235
Period size: 67 Copynumber: 2.1 Consensus size: 67
7760108 TTTGTTGAGA
*
7760118 ATTCATTATATAATGAATTTATTAAACATTCAATCAATTA-ACTAACCAAAATTGATAATTCACT
1 ATTCATTATATAATGAATTTATAAAACATTCAATCAATTAGA-TAACCAAAATTGATAATTCACT
*
7760182 GGC
65 GAC
*
7760185 ATTCATTATATAATGAATTTATAAAACATTCAATCAATTAGATAACCAAAATTGATAATTCATTG
1 ATTCATTATATAATGAATTTATAAAACATTCAATCAATTAGATAACCAAAATTGATAATTCACTG
7760250 AC
66 AC
7760252 ATTCA
1 ATTCA
7760257 ATCAATTAAT
Statistics
Matches: 68, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
67 67 0.99
68 1 0.01
ACGTcount: A:0.45, C:0.14, G:0.06, T:0.36
Consensus pattern (67 bp):
ATTCATTATATAATGAATTTATAAAACATTCAATCAATTAGATAACCAAAATTGATAATTCACTG
AC
Found at i:7760342 original size:16 final size:16
Alignment explanation
Indices: 7760321--7760353 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
7760311 TTAACCGGAT
*
7760321 AAATTGTAAATCGATA
1 AAATTGCAAATCGATA
7760337 AAATTGCAAATCGATA
1 AAATTGCAAATCGATA
7760353 A
1 A
7760354 TTATAAATAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.52, C:0.09, G:0.12, T:0.27
Consensus pattern (16 bp):
AAATTGCAAATCGATA
Found at i:7762656 original size:7 final size:7
Alignment explanation
Indices: 7762646--7762686 Score: 64
Period size: 7 Copynumber: 5.9 Consensus size: 7
7762636 TGTAATCCTT
*
7762646 AAACCTC
1 AAACCCC
7762653 AAACCCC
1 AAACCCC
*
7762660 AAACCCT
1 AAACCCC
7762667 AAACCCC
1 AAACCCC
7762674 AAACCCC
1 AAACCCC
7762681 AAACCC
1 AAACCC
7762687 TAAAACCCCG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.44, C:0.51, G:0.00, T:0.05
Consensus pattern (7 bp):
AAACCCC
Found at i:7762671 original size:21 final size:21
Alignment explanation
Indices: 7762645--7762695 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
7762635 TTGTAATCCT
*
7762645 TAAACCTCAAACCCCAAACCC
1 TAAACCCCAAACCCCAAACCC
7762666 TAAACCCCAAACCCCAAACCC
1 TAAACCCCAAACCCCAAACCC
7762687 TAAAACCCC
1 T-AAACCCC
7762696 GAACAGTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
21 21 0.75
22 7 0.25
ACGTcount: A:0.43, C:0.49, G:0.00, T:0.08
Consensus pattern (21 bp):
TAAACCCCAAACCCCAAACCC
Found at i:7763498 original size:20 final size:20
Alignment explanation
Indices: 7763463--7763500 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
7763453 GTATCTTTTC
7763463 TAATTATATATGAAATTATT
1 TAATTATATATGAAATTATT
7763483 TAATATATATAT-AAATTA
1 TAAT-TATATATGAAATTA
7763501 CAAATCAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (20 bp):
TAATTATATATGAAATTATT
Found at i:7763709 original size:18 final size:18
Alignment explanation
Indices: 7763686--7763721 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
7763676 ATTGAATTTT
7763686 AATT-AATATAAATAAACA
1 AATTAAATATAAA-AAACA
7763704 AATTAAATATAAAAAACA
1 AATTAAATATAAAAAACA
7763722 TATAAAATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (18 bp):
AATTAAATATAAAAAACA
Found at i:7763729 original size:18 final size:19
Alignment explanation
Indices: 7763690--7763729 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
7763680 AATTTTAATT
*
7763690 AATATAAATAAACAAATTA
1 AATATAAATAAACAAATAA
*
7763709 AATATAAA-AAACATATAA
1 AATATAAATAAACAAATAA
7763727 AAT
1 AAT
7763730 GATTTTGTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (19 bp):
AATATAAATAAACAAATAA
Found at i:7764368 original size:114 final size:113
Alignment explanation
Indices: 7763824--7764383 Score: 467
Period size: 114 Copynumber: 4.9 Consensus size: 113
7763814 GTTTCGGTAA
* * ** *
7763824 AAGCGCCGCTAATACTATGC-TTCAGCGGCGTTTTCCCATGTGCGCCACTAATTCCAGTATACAT
1 AAGCGCCGCTAATACTATACATT-AGCGGCGTTTT-TCATAAGCGCCACTAATTCCAATATACAT
* * * *
7763888 CAAGAACTAAACGCTGTGTTTTGGTTAAGATACTTTGCGGCGCGTT-ACAC-
64 CAAG-ACCAAACGTTGCGTTTTGGTTAAGATATTTTGCGGCGC-TTAACACT
* * * * *
7763938 AAACTCCGCTAATGA-TATACTTTAGCGGCGTTTTTCATCAAGCGCCACTAATTCTAATACT-CC
1 AAGCGCCGCTAAT-ACTATACATTAGCGGCGTTTTTCAT-AAGCGCCACTAATTCCAATA-TACA
* * * *
7764001 TCAAGACCAAAC-TCTGCGTTTTGGTTAAGATATTTGGAGGCGCTTACCACA
63 TCAAGACCAAACGT-TGCGTTTTGGTTAAGATATTTTGCGGCGCTTAACACT
* * * * * * * ** *
7764052 AAACACTGCT-ATAACTATCCTTTA-CTGGCGTTTTCCATAAACGCCACTAATTATAGTATACAT
1 AAGCGCCGCTAAT-ACTATACATTAGC-GGCGTTTTTCATAAGCGCCACTAATTCCAATATACAT
* * * * * *
7764115 CAAGACCAAAATGGTGCGTTTTGATTAAGATATCTTGCGGCGTTTAACGCT
64 CAAGACC-AAACGTTGCGTTTTGGTTAAGATATTTTGCGGCGCTTAACACT
** * *
7764166 CTGCGCCGCTAATACTATACATTAGCGGCGTTTTCTTTATAAGCGCCACTAATTGCAATATACAT
1 AAGCGCCGCTAATACTATACATTAGCGGCG-TTT-TTCATAAGCGCCACTAATTCCAATATACAT
* * * * *
7764231 CAAGACTAAAC-TCTGCGTTTTGGTTAACATCTTTTGCGGCGCTT-CCGCT
64 CAAGACCAAACGT-TGCGTTTTGGTTAAGATATTTTGCGGCGCTTAACACT
* *
7764280 AAGCGCCGCTAATACTATACATTACCGGCGTTTGTTCATAAGCGCCACTAATGCCAATATACATC
1 AAGCGCCGCTAATACTATACATTAGCGGCGTTT-TTCATAAGCGCCACTAATTCCAATATACATC
* *
7764345 AAGACCAGAACGTTGCGTGTTGGTCT-TGATATTTTGCGG
65 AAGACCA-AACGTTGCGTTTTGGT-TAAGATATTTTGCGG
7764384 TGCTGCGTGG
Statistics
Matches: 357, Mismatches: 69, Indels: 40
0.77 0.15 0.09
Matches are distributed among these distances:
112 3 0.01
113 104 0.29
114 179 0.50
115 41 0.11
116 30 0.08
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (113 bp):
AAGCGCCGCTAATACTATACATTAGCGGCGTTTTTCATAAGCGCCACTAATTCCAATATACATCA
AGACCAAACGTTGCGTTTTGGTTAAGATATTTTGCGGCGCTTAACACT
Found at i:7772158 original size:6 final size:6
Alignment explanation
Indices: 7772147--7772171 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
7772137 ATTAACCGTA
7772147 TATTTT TATTTT TATTTT TATTTT T
1 TATTTT TATTTT TATTTT TATTTT T
7772172 TGCATTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TATTTT
Found at i:7774368 original size:20 final size:21
Alignment explanation
Indices: 7774343--7774382 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
7774333 CTACCCTACT
7774343 CTACTTCA-ATTTAAT-TTTTG
1 CTACTT-ATATTTAATATTTTG
7774363 CTACTTATATTTAATATTTT
1 CTACTTATATTTAATATTTT
7774383 TAATATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 1 0.06
20 13 0.72
21 4 0.22
ACGTcount: A:0.28, C:0.12, G:0.03, T:0.57
Consensus pattern (21 bp):
CTACTTATATTTAATATTTTG
Found at i:7780636 original size:38 final size:38
Alignment explanation
Indices: 7780561--7780636 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 38
7780551 TAATGAGTCA
* **
7780561 ATAACCATTTTCATGGTGTCACTCCATAGAGTTTGTAG
1 ATAACCATTTTCATGGTGTCACTCCATAAAGCCTGTAG
* * *
7780599 ATAACCATTTTCATGTTGTCATTCTATAAAGCCTGTAG
1 ATAACCATTTTCATGGTGTCACTCCATAAAGCCTGTAG
7780637 GTTATTTCCA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.38
Consensus pattern (38 bp):
ATAACCATTTTCATGGTGTCACTCCATAAAGCCTGTAG
Found at i:7783952 original size:22 final size:23
Alignment explanation
Indices: 7783910--7783952 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
7783900 AAATAAAGTG
* *
7783910 TAAAATCATTTTAATATATAAAA
1 TAAAATCATTATAATAGATAAAA
7783933 TAAAAT-ATTATAATAGATAA
1 TAAAATCATTATAATAGATAA
7783953 CTAAATTGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.37
Consensus pattern (23 bp):
TAAAATCATTATAATAGATAAAA
Found at i:7784468 original size:14 final size:14
Alignment explanation
Indices: 7784449--7784488 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
7784439 TTGATTGCCA
7784449 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
7784463 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
7784477 GGAAAATGTTTT
1 GTAAAATGTTTT
7784489 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:7784501 original size:34 final size:35
Alignment explanation
Indices: 7784457--7784523 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
7784447 CAGTAAAATG
* *
7784457 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATAATTTACTGGAAAATATTTTAC
*
7784491 TTTTCTGTAAAATAATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATAATTTACTGGAAAATATTTT
7784524 CTGATGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATAATTTACTGGAAAATATTTTAC
Found at i:7784509 original size:20 final size:20
Alignment explanation
Indices: 7784472--7784511 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
7784462 CGTAAAATGA
**
7784472 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATAATTTACT
*
7784492 TTTCTGTAAAATAATTTACT
1 TTTCTGGAAAATAATTTACT
7784512 GGAAAATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATAATTTACT
Found at i:7788822 original size:18 final size:18
Alignment explanation
Indices: 7788799--7788841 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
7788789 TGATGGGTCA
7788799 TTTCCTTCTCCTTCTCCT
1 TTTCCTTCTCCTTCTCCT
7788817 TTTCCTTCTCCTTCTCCT
1 TTTCCTTCTCCTTCTCCT
7788835 TTTCCTT
1 TTTCCTT
7788842 TACCTATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.00, C:0.42, G:0.00, T:0.58
Consensus pattern (18 bp):
TTTCCTTCTCCTTCTCCT
Found at i:7788842 original size:6 final size:6
Alignment explanation
Indices: 7788801--7788841 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
7788791 ATGGGTCATT
* *
7788801 TCCTTC TCCTTC TCCTTT TCCTTC TCCTTC TCCTTT TCCTT
1 TCCTTC TCCTTC TCCTTC TCCTTC TCCTTC TCCTTC TCCTT
7788842 TACCTATTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.00, C:0.44, G:0.00, T:0.56
Consensus pattern (6 bp):
TCCTTC
Found at i:7789564 original size:30 final size:31
Alignment explanation
Indices: 7789523--7789585 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
7789513 TTAAATTATG
*
7789523 AAGCCAAGTTCA-GTA-CTAAATTGAACCAAA
1 AAGCCAAGTTCATATACCT-AATTGAACCAAA
*
7789553 AAGCCAGGTTCATATACCTAATTGAACCAAA
1 AAGCCAAGTTCATATACCTAATTGAACCAAA
7789584 AA
1 AA
7789586 AGGTTTAGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 11 0.38
31 16 0.55
32 2 0.07
ACGTcount: A:0.46, C:0.21, G:0.13, T:0.21
Consensus pattern (31 bp):
AAGCCAAGTTCATATACCTAATTGAACCAAA
Found at i:7803728 original size:29 final size:29
Alignment explanation
Indices: 7803691--7803788 Score: 67
Period size: 29 Copynumber: 3.4 Consensus size: 29
7803681 TTTTTTTTTT
*
7803691 GTCATCTAACTATGAAAAGTTATAAAATG
1 GTCACCTAACTATGAAAAGTTATAAAATG
* ****
7803720 GTCACCTAATTA-GTAAAA-TT-TTTTTTG
1 GTCACCTAACTATG-AAAAGTTATAAAATG
* * *
7803747 GTCATCAAACTATGAAAAGTTACAAAATG
1 GTCACCTAACTATGAAAAGTTATAAAATG
* *
7803776 ATCACCCAACTAT
1 GTCACCTAACTAT
7803789 TCAATTGTCT
Statistics
Matches: 48, Mismatches: 17, Indels: 8
0.66 0.23 0.11
Matches are distributed among these distances:
27 16 0.33
28 6 0.12
29 26 0.54
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.33
Consensus pattern (29 bp):
GTCACCTAACTATGAAAAGTTATAAAATG
Found at i:7806848 original size:30 final size:31
Alignment explanation
Indices: 7806781--7806860 Score: 92
Period size: 30 Copynumber: 2.6 Consensus size: 31
7806771 TAACTAAAAA
* *
7806781 AAAAGTTATAATTT-AGTCATTGAACTATTC
1 AAAAGTTTTAATTTAAGTCAGTGAACTATTC
* *
7806811 GAAAGTTTTCATTTAAGTCAGT-AACTATTC
1 AAAAGTTTTAATTTAAGTCAGTGAACTATTC
* *
7806841 AAAAGTTTTTATTCAAGTCA
1 AAAAGTTTTAATTTAAGTCA
7806861 CTGAGTTGTT
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
30 36 0.86
31 6 0.14
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.40
Consensus pattern (31 bp):
AAAAGTTTTAATTTAAGTCAGTGAACTATTC
Found at i:7814992 original size:31 final size:31
Alignment explanation
Indices: 7814931--7814993 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
7814921 ATATTTTAAC
* *
7814931 AGAGGACTAAAATTTTTAATTTGAAGATATA
1 AGAGGACTAAAATTTTTAATTTAAAAATATA
*
7814962 AGAGGA-TTAAATTTTTAATTTTAAAAATATA
1 AGAGGACTAAAATTTTTAA-TTTAAAAATATA
7814993 A
1 A
7814994 AAAAACTACA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 11 0.39
31 17 0.61
ACGTcount: A:0.48, C:0.02, G:0.13, T:0.38
Consensus pattern (31 bp):
AGAGGACTAAAATTTTTAATTTAAAAATATA
Found at i:7815132 original size:3 final size:3
Alignment explanation
Indices: 7815124--7815156 Score: 57
Period size: 3 Copynumber: 10.7 Consensus size: 3
7815114 GATGCTATTT
7815124 TAA TAA TAA TAA TAAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TA
7815157 CACATTTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:7815145 original size:16 final size:16
Alignment explanation
Indices: 7815124--7815154 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
7815114 GATGCTATTT
7815124 TAATAATAATAATAAA
1 TAATAATAATAATAAA
7815140 TAATAATAATAATAA
1 TAATAATAATAATAA
7815155 TACACATTTT
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
TAATAATAATAATAAA
Found at i:7829167 original size:23 final size:23
Alignment explanation
Indices: 7829123--7829170 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 23
7829113 AAAATTTTAA
7829123 TAAATGAAAAATATATAAAAATAT
1 TAAATGAAAAATATAT-AAAATAT
*
7829147 TAAATTAAAAATCATAT-AAATAT
1 TAAATGAAAAAT-ATATAAAATAT
7829170 T
1 T
7829171 TTTAAAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 7 0.32
24 11 0.50
25 4 0.18
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (23 bp):
TAAATGAAAAATATATAAAATAT
Found at i:7829851 original size:20 final size:20
Alignment explanation
Indices: 7829787--7829899 Score: 76
Period size: 20 Copynumber: 5.9 Consensus size: 20
7829777 TAAAAAACAT
**
7829787 ATAAAAATTATAAAAAAAACC
1 ATAAAAATT-TACTAAAAACC
* * * *
7829808 ATTAAATTTTACTAAAATCA
1 ATAAAAATTTACTAAAAACC
* *
7829828 ATAAAAATTAATTAAAAACC
1 ATAAAAATTTACTAAAAACC
*
7829848 AT-AAAACTTA-T-AAAA--
1 ATAAAAATTTACTAAAAACC
*
7829863 A-AACAATTTACTAAAAACC
1 ATAAAAATTTACTAAAAACC
*
7829882 ATAAAAATTTATTAAAAA
1 ATAAAAATTTACTAAAAA
7829900 ATCATTTGTA
Statistics
Matches: 68, Mismatches: 18, Indels: 13
0.69 0.18 0.13
Matches are distributed among these distances:
15 7 0.10
16 1 0.01
17 8 0.12
18 1 0.01
19 7 0.10
20 37 0.54
21 7 0.10
ACGTcount: A:0.63, C:0.10, G:0.00, T:0.27
Consensus pattern (20 bp):
ATAAAAATTTACTAAAAACC
Found at i:7829930 original size:24 final size:24
Alignment explanation
Indices: 7829885--7829930 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
7829875 AAAAACCATA
* *
7829885 AAAATTTATTAAAAAATCATTTGT
1 AAAATATATTAAAAAATAATTTGT
* *
7829909 AAAATATATTAGAAATTAATTT
1 AAAATATATTAAAAAATAATTT
7829931 AAAACCATAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.41
Consensus pattern (24 bp):
AAAATATATTAAAAAATAATTTGT
Found at i:7830181 original size:19 final size:21
Alignment explanation
Indices: 7830136--7830181 Score: 55
Period size: 19 Copynumber: 2.4 Consensus size: 21
7830126 TAAAATAATA
*
7830136 AATTATTTTTATAGATTTTAT
1 AATTAATTTTATAGATTTTAT
7830157 AA--AATTTTAT-GATTTT-T
1 AATTAATTTTATAGATTTTAT
7830174 AATTAATT
1 AATTAATT
7830182 CATAATGTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
17 3 0.14
18 6 0.27
19 11 0.50
21 2 0.09
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (21 bp):
AATTAATTTTATAGATTTTAT
Found at i:7831057 original size:22 final size:24
Alignment explanation
Indices: 7831012--7831070 Score: 77
Period size: 22 Copynumber: 2.5 Consensus size: 24
7831002 CGAATATAAT
*
7831012 AAATATATTTTTTATTTTTATTTTA
1 AAATA-ATTTTTTATTTATATTTTA
7831037 AAATAATTTTTTA-TTAT-TTTTA
1 AAATAATTTTTTATTTATATTTTA
*
7831059 AAATAAATTTTT
1 AAATAATTTTTT
7831071 GGTGTTTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
22 16 0.50
23 3 0.09
24 8 0.25
25 5 0.16
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (24 bp):
AAATAATTTTTTATTTATATTTTA
Found at i:7831067 original size:23 final size:25
Alignment explanation
Indices: 7831012--7831070 Score: 79
Period size: 23 Copynumber: 2.5 Consensus size: 25
7831002 CGAATATAAT
* *
7831012 AAATATATTTTTTATTTTTATTTTA
1 AAATAAATTTTTTATTTATATTTTA
7831037 AAAT-AATTTTTTA-TTAT-TTTTA
1 AAATAAATTTTTTATTTATATTTTA
7831059 AAATAAATTTTT
1 AAATAAATTTTT
7831071 GGTGTTTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
22 9 0.29
23 10 0.32
24 8 0.26
25 4 0.13
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (25 bp):
AAATAAATTTTTTATTTATATTTTA
Found at i:7831082 original size:23 final size:22
Alignment explanation
Indices: 7831032--7831084 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
7831022 TTTATTTTTA
* *
7831032 TTTTAAAATAATTTTTTATTAT
1 TTTTAAAATAAATTTTTAGTAT
* *
7831054 TTTTAAAATAAATTTTTGGTGT
1 TTTTAAAATAAATTTTTAGTAT
7831076 TTATTAAAA
1 TT-TTAAAA
7831085 AAGGGCCGGG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
22 20 0.77
23 6 0.23
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.57
Consensus pattern (22 bp):
TTTTAAAATAAATTTTTAGTAT
Found at i:7833971 original size:54 final size:54
Alignment explanation
Indices: 7833904--7834006 Score: 134
Period size: 54 Copynumber: 1.9 Consensus size: 54
7833894 CATGTCTCAA
* * * *
7833904 ATCGTGTAGCTCACTAACTTATGTCACACAGCCATGTTGCAAGCCGTGTGCCAG
1 ATCGAGTAACTCACTAACTTAGGTCACACAGCCATGTCGCAAGCCGTGTGCCAG
* * * *
7833958 ATCGAGTAACTCACTGACTTGGGTCACACGGCCATGTCGCAGGCCGTGT
1 ATCGAGTAACTCACTAACTTAGGTCACACAGCCATGTCGCAAGCCGTGT
7834007 ATAACTTGCA
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 41 1.00
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.24
Consensus pattern (54 bp):
ATCGAGTAACTCACTAACTTAGGTCACACAGCCATGTCGCAAGCCGTGTGCCAG
Done.