Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold129
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: 3652842
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 48564 characters in sequence are not A, C, G, or T
File 5 of 23
Found at i:619134 original size:21 final size:21
Alignment explanation
Indices: 619101--619145 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
619091 TTGCAAGTTG
*
619101 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
619123 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
619143 AAA
1 AAA
619146 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:623068 original size:17 final size:17
Alignment explanation
Indices: 623028--623081 Score: 90
Period size: 17 Copynumber: 3.1 Consensus size: 17
623018 CATCTGGAAA
623028 TTCTATGTATCGATACATT
1 TTCT-TGTATCGATACA-T
623047 TTCTTGTATCGATACAT
1 TTCTTGTATCGATACAT
623064 TTCTTGTATCGATACAT
1 TTCTTGTATCGATACAT
623081 T
1 T
623082 GTATCGATAC
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
17 19 0.54
18 12 0.34
19 4 0.11
ACGTcount: A:0.24, C:0.17, G:0.11, T:0.48
Consensus pattern (17 bp):
TTCTTGTATCGATACAT
Found at i:623085 original size:13 final size:13
Alignment explanation
Indices: 623067--623105 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
623057 GATACATTTC
623067 TTGTATCGATACA
1 TTGTATCGATACA
623080 TTGTATCGATACA
1 TTGTATCGATACA
*
623093 CTGTATCGATACA
1 TTGTATCGATACA
623106 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:625652 original size:13 final size:13
Alignment explanation
Indices: 625634--625659 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
625624 TACAGCAAGT
625634 ATGTATCGATACA
1 ATGTATCGATACA
625647 ATGTATCGATACA
1 ATGTATCGATACA
625660 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:625744 original size:20 final size:21
Alignment explanation
Indices: 625714--625752 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
625704 CTATATTTTC
625714 AAATATGTATCGATACATTAA
1 AAATATGTATCGATACATTAA
625735 AAAT-TGTATCGATACATT
1 AAATATGTATCGATACATT
625753 TACACGGGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.44, C:0.10, G:0.10, T:0.36
Consensus pattern (21 bp):
AAATATGTATCGATACATTAA
Found at i:635813 original size:103 final size:103
Alignment explanation
Indices: 635632--635825 Score: 334
Period size: 103 Copynumber: 1.9 Consensus size: 103
635622 AAAAGGTAGG
* * *
635632 TAGGCCCAAAGAAAGTATTTGAAGGTGATTGGATCAAGGATAATTTTAATTCCATGATGGTCTTG
1 TAGGCCCAAAGAAAGTATTTAAAGGTAATTGGATCAAGGATAATTTTAATTCCATGATGCTCTTG
*
635697 CCTTTTCTGGGATGTAGCGTTTTTTTTTTTTAATTTCC
66 CCTTTTCTAGGATGTAGCGTTTTTTTTTTTTAATTTCC
*
635735 TAGGCCTAAAGAAAGTATTTAAAGGTAATTGGATCAAGGATAATTTTAATTCCATGATGCTCTTG
1 TAGGCCCAAAGAAAGTATTTAAAGGTAATTGGATCAAGGATAATTTTAATTCCATGATGCTCTTG
*
635800 CCTTTTCTAGGATGTAGTGTTTTTTT
66 CCTTTTCTAGGATGTAGCGTTTTTTT
635826 ATTTCCTCTT
Statistics
Matches: 85, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
103 85 1.00
ACGTcount: A:0.26, C:0.12, G:0.21, T:0.41
Consensus pattern (103 bp):
TAGGCCCAAAGAAAGTATTTAAAGGTAATTGGATCAAGGATAATTTTAATTCCATGATGCTCTTG
CCTTTTCTAGGATGTAGCGTTTTTTTTTTTTAATTTCC
Found at i:638887 original size:13 final size:13
Alignment explanation
Indices: 638869--638894 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
638859 TACAGCAAGT
638869 ATGTATCGATACA
1 ATGTATCGATACA
638882 ATGTATCGATACA
1 ATGTATCGATACA
638895 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:642272 original size:27 final size:27
Alignment explanation
Indices: 642241--642295 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
642231 CTCTTTTTAC
* *
642241 TATTTTGATT-CTGCTTTTGTTTTTTTT
1 TATTTCGATTGCTGC-TTTGTTTCTTTT
*
642268 TATTTCGATTGTTGCTTTGTTTCTTTT
1 TATTTCGATTGCTGCTTTGTTTCTTTT
642295 T
1 T
642296 CTTGTTTCGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 21 0.88
28 3 0.12
ACGTcount: A:0.07, C:0.09, G:0.13, T:0.71
Consensus pattern (27 bp):
TATTTCGATTGCTGCTTTGTTTCTTTT
Found at i:642660 original size:56 final size:56
Alignment explanation
Indices: 642600--642706 Score: 151
Period size: 56 Copynumber: 1.9 Consensus size: 56
642590 TCATGCTACT
* * * *
642600 GTTTCTTTTCTTCATTGCAGCACATTGTTGTCTTCATTACTTTCTTCATTGCTATC
1 GTTTCTTCTCTTCATTGCAACACATTGGTGTCTTCATTACATTCTTCATTGCTATC
* * *
642656 GTTTCTTCTCTTTATTGTAACACGTTGGTGTCTTCATTACATTCTTCATTG
1 GTTTCTTCTCTTCATTGCAACACATTGGTGTCTTCATTACATTCTTCATTG
642707 TTGCCGTTTG
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
56 44 1.00
ACGTcount: A:0.15, C:0.21, G:0.12, T:0.51
Consensus pattern (56 bp):
GTTTCTTCTCTTCATTGCAACACATTGGTGTCTTCATTACATTCTTCATTGCTATC
Found at i:642715 original size:56 final size:56
Alignment explanation
Indices: 642589--642715 Score: 148
Period size: 56 Copynumber: 2.3 Consensus size: 56
642579 TTGCTTTGAT
* * * * *
642589 TTCA-TGCTACTGTTTCTTTTCTTCATTGCAGCACATTGTTGTCTTCATTACTTTC
1 TTCATTGCTACCGTTTCTTCTCTTCATTGCAACACATTGGTGTCTTCATTACATTC
* * * *
642644 TTCATTGCTATCGTTTCTTCTCTTTATTGTAACACGTTGGTGTCTTCATTACATTC
1 TTCATTGCTACCGTTTCTTCTCTTCATTGCAACACATTGGTGTCTTCATTACATTC
* *
642700 TTCATTGTTGCCGTTT
1 TTCATTGCTACCGTTT
642716 GTAGCAGCTT
Statistics
Matches: 59, Mismatches: 12, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
55 4 0.07
56 55 0.93
ACGTcount: A:0.14, C:0.22, G:0.13, T:0.51
Consensus pattern (56 bp):
TTCATTGCTACCGTTTCTTCTCTTCATTGCAACACATTGGTGTCTTCATTACATTC
Found at i:645938 original size:85 final size:84
Alignment explanation
Indices: 645834--646031 Score: 197
Period size: 85 Copynumber: 2.3 Consensus size: 84
645824 TGATAGGTAG
*
645834 ATAAAGGATACAA-AGGTTGATCGGGGTTAAACCGATA-AGCT-AACAAAGGATAAAAAAATTTA
1 ATAAAGGATA-AAGA-GTTGATCGGGATTAAA-C-ATACAGCTCAACAAAGGATAAAAAAATTTA
* * *
645896 CTCGGGACTAAGCCGACT-GATAA
62 CCCGAGACTAAGCC-AATAGATAA
* * * * * *
645919 ATAAGGGATGAAAGAGTTGACCAGGATTAAACTTACAGGTCAACAAAGGATAAAAAGATTTACCC
1 ATAAAGGAT-AAAGAGTTGATCGGGATTAAACATACAGCTCAACAAAGGATAAAAAAATTTACCC
*
645984 GAGACTAAGCCAATAGGTAA
65 GAGACTAAGCCAATAGATAA
*
646004 ATAAAGGATAAAAAGGTTGATCGGGATT
1 ATAAAGGATAAAGA-GTTGATCGGGATT
646032 GAACTGACAA
Statistics
Matches: 92, Mismatches: 15, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
83 2 0.02
84 10 0.11
85 78 0.85
86 2 0.02
ACGTcount: A:0.44, C:0.13, G:0.23, T:0.20
Consensus pattern (84 bp):
ATAAAGGATAAAGAGTTGATCGGGATTAAACATACAGCTCAACAAAGGATAAAAAAATTTACCCG
AGACTAAGCCAATAGATAA
Found at i:646260 original size:41 final size:40
Alignment explanation
Indices: 646207--646320 Score: 120
Period size: 41 Copynumber: 2.8 Consensus size: 40
646197 CAAGTCGACC
* *
646207 AATTAAAAGGTTGGCCAGGGAAAAATTGATAAAGCCAACG
1 AATTAGAAGGTTGGCCAGGGAAAAATTGATAAAGCCAACA
** * * * ** *
646247 GGTTAGAAGGGTTGACAAGGGCAAAATCAATAAAGTCAACA
1 AATTAGAA-GGTTGGCCAGGGAAAAATTGATAAAGCCAACA
*
646288 AATTAGAAAGTTGGCCAGGGAAAAATTGATAAA
1 AATTAGAAGGTTGGCCAGGGAAAAATTGATAAA
646321 TCTAATAGAT
Statistics
Matches: 55, Mismatches: 18, Indels: 2
0.73 0.24 0.03
Matches are distributed among these distances:
40 24 0.44
41 31 0.56
ACGTcount: A:0.46, C:0.11, G:0.25, T:0.18
Consensus pattern (40 bp):
AATTAGAAGGTTGGCCAGGGAAAAATTGATAAAGCCAACA
Found at i:646359 original size:81 final size:81
Alignment explanation
Indices: 646198--646366 Score: 187
Period size: 81 Copynumber: 2.1 Consensus size: 81
646188 ATGAATCAAC
* * * * *
646198 AAGTCGACCAATTAAAAGGTTGGCCAGGGAAAAATTGATAAAGCCAACGGGTTAGAAGGGTTGAC
1 AAGTCAACAAATTAAAAGGTTGGCCAGGGAAAAATTGATAAAGCCAACAGATTAGAAGGGTTCAC
* *
646263 AAGGGCAAAATCAATA
66 AAGGACAAAACCAATA
* * * *
646279 AAGTCAACAAATTAGAAA-GTTGGCCAGGGAAAAATTGATAAATCTAATAGATTATAAGGGTTCA
1 AAGTCAACAAATTA-AAAGGTTGGCCAGGGAAAAATTGATAAAGCCAACAGATTAGAAGGGTTCA
** **
646343 TTAGGATGAAACCAATA
65 CAAGGACAAAACCAATA
646360 AAGTCAA
1 AAGTCAA
646367 ATGAGAATGA
Statistics
Matches: 72, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
81 69 0.96
82 3 0.04
ACGTcount: A:0.44, C:0.12, G:0.23, T:0.21
Consensus pattern (81 bp):
AAGTCAACAAATTAAAAGGTTGGCCAGGGAAAAATTGATAAAGCCAACAGATTAGAAGGGTTCAC
AAGGACAAAACCAATA
Found at i:646504 original size:46 final size:46
Alignment explanation
Indices: 646363--646663 Score: 171
Period size: 46 Copynumber: 6.5 Consensus size: 46
646353 ACCAATAAAG
* * * * * *
646363 TCAAATGAGAATGAAAAAGGTTTGACCAAGATGGTAACCGATACAG
1 TCAAATGAGAATGAAAAGGGTTTGACTAGGGTGATAACCGATACAA
** * * ** * * *
646409 TCAAACAAGAATGAAAAGATGTTTGACAAAAGTGATGATCGATATAA
1 TCAAATGAGAATGAAAAG-GGTTTGACTAGGGTGATAACCGATACAA
* * *
646456 TCAAATGAGGATGAAAAGGGTTTGACCAGGGTCATAACCGATACAA
1 TCAAATGAGAATGAAAAGGGTTTGACTAGGGTGATAACCGATACAA
* * * * * *
646502 TCAAACATG-G-ATGAAAAGGATTTTACTAGGGTGGTTACCGATATAG
1 TC-AA-ATGAGAATGAAAAGGGTTTGACTAGGGTGATAACCGATACAA
* ** * * * **
646548 TCAAATAAGAACAAAAAAGGTTTGACTAGGGTGGTAACCAATACGG
1 TCAAATGAGAATGAAAAGGGTTTGACTAGGGTGATAACCGATACAA
* * * *
646594 TAAAATTAGAATG-AAAGAAGTTTGACTAGGGT-AGTAATCGATAC-A
1 TCAAATGAGAATGAAAAG-GGTTTGACTAGGGTGA-TAACCGATACAA
* *
646639 TCCAAATGAGGATCAAAAGGGTTTG
1 T-CAAATGAGAATGAAAAGGGTTTG
646664 TTTGGTAAAG
Statistics
Matches: 190, Mismatches: 56, Indels: 18
0.72 0.21 0.07
Matches are distributed among these distances:
44 2 0.01
45 7 0.04
46 137 0.72
47 41 0.22
48 3 0.02
ACGTcount: A:0.42, C:0.11, G:0.24, T:0.23
Consensus pattern (46 bp):
TCAAATGAGAATGAAAAGGGTTTGACTAGGGTGATAACCGATACAA
Found at i:652094 original size:20 final size:20
Alignment explanation
Indices: 652069--652142 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
652059 TTTTTATCCA
*
652069 AATGTATCGATAAATGTTTC
1 AATGTATCGATACATGTTTC
* * *
652089 AATGTATTGATACATG-ATG
1 AATGTATCGATACATGTTTC
* *
652108 AATGTATTGATACATTTTTC
1 AATGTATCGATACATGTTTC
652128 AATGTATCGATACAT
1 AATGTATCGATACAT
652143 CTAGTTAAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
19 16 0.36
20 29 0.64
ACGTcount: A:0.35, C:0.09, G:0.15, T:0.41
Consensus pattern (20 bp):
AATGTATCGATACATGTTTC
Found at i:655167 original size:20 final size:20
Alignment explanation
Indices: 655144--655216 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
655134 ACAATTCAAA
655144 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
655164 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
655185 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
655205 GTATCGATACAT
1 GTATCGATACAT
655217 AAAAAAGTTG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:655188 original size:21 final size:21
Alignment explanation
Indices: 655162--655237 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
655152 ACATGTTGCA
655162 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
655183 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
655203 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
*
655224 TTGTATCGATACAT
1 ATGTATCGATACAT
655238 TTCTTGGCAG
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:655195 original size:41 final size:41
Alignment explanation
Indices: 655144--655237 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
655134 ACAATTCAAA
*
655144 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
*
655185 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGTT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
655226 GTATCGATACAT
1 GTATCGATACAT
655238 TTCTTGGCAG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:655294 original size:13 final size:13
Alignment explanation
Indices: 655276--655301 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
655266 TACAGCAAGT
655276 ATGTATCGATACA
1 ATGTATCGATACA
655289 ATGTATCGATACA
1 ATGTATCGATACA
655302 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:659382 original size:15 final size:15
Alignment explanation
Indices: 659362--659391 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
659352 AAAAATGTCT
*
659362 AAAATGAGGAAGCTC
1 AAAATGAAGAAGCTC
659377 AAAATGAAGAAGCTC
1 AAAATGAAGAAGCTC
659392 CAAACGAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.13, G:0.23, T:0.13
Consensus pattern (15 bp):
AAAATGAAGAAGCTC
Found at i:661484 original size:20 final size:21
Alignment explanation
Indices: 661405--661483 Score: 72
Period size: 20 Copynumber: 3.7 Consensus size: 21
661395 AATGTCCAAA
*
661405 ATGTATCGATACATGTTTT-T
1 ATGTATCGATACATCTTTTCT
* *
661425 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACATCT----TTTCT
661450 ATGTATCGATACAT-TTTTCT
1 ATGTATCGATACATCTTTTCT
*
661470 TTGTATCGATACAT
1 ATGTATCGATACAT
661484 TGTATCGATA
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
20 31 0.65
24 3 0.06
25 14 0.29
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.44
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTCT
Found at i:661488 original size:13 final size:13
Alignment explanation
Indices: 661470--661508 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
661460 ACATTTTTCT
661470 TTGTATCGATACA
1 TTGTATCGATACA
661483 TTGTATCGATACA
1 TTGTATCGATACA
*
661496 CTGTATCGATACA
1 TTGTATCGATACA
661509 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:663324 original size:23 final size:23
Alignment explanation
Indices: 663294--663340 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
663284 GTACAAATAA
663294 ATTTTGATATGAATTACTTGATT
1 ATTTTGATATGAATTACTTGATT
663317 ATTTTGATATGAATTACTTGATT
1 ATTTTGATATGAATTACTTGATT
663340 A
1 A
663341 AGGGGGAGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.32, C:0.04, G:0.13, T:0.51
Consensus pattern (23 bp):
ATTTTGATATGAATTACTTGATT
Found at i:664000 original size:20 final size:20
Alignment explanation
Indices: 663977--664049 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
663967 ACAATTCAAA
663977 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
663997 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
664018 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
664038 GTATCGATACAT
1 GTATCGATACAT
664050 AAAAAAGTTG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:664021 original size:21 final size:21
Alignment explanation
Indices: 663995--664070 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
663985 ACATGTTGCA
663995 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
664016 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
664036 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
*
664057 TTGTATCGATACAT
1 ATGTATCGATACAT
664071 TTCTTGGCAG
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:664028 original size:41 final size:41
Alignment explanation
Indices: 663977--664070 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
663967 ACAATTCAAA
*
663977 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
*
664018 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGTT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
664059 GTATCGATACAT
1 GTATCGATACAT
664071 TTCTTGGCAG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:664127 original size:13 final size:13
Alignment explanation
Indices: 664109--664134 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
664099 TACAGCAAGT
664109 ATGTATCGATACA
1 ATGTATCGATACA
664122 ATGTATCGATACA
1 ATGTATCGATACA
664135 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:667714 original size:52 final size:52
Alignment explanation
Indices: 667568--667726 Score: 171
Period size: 52 Copynumber: 3.1 Consensus size: 52
667558 GCTGGGGTAT
* * *
667568 GAGTACCCCCTCAGATGAAAATTTTGGTG-TTTTAGAAGTAAAAAC-GAGGTTG
1 GAGTATCCCCTGAGATGAAAATTTTAGTGTTTTTA-AAGTAAAAACAG-GGTTG
* * * * ** *
667620 GACTAT-CCATAGAGATGAAAAATTCAGTGTTTGGAAAATAAAAACAGGGTTG
1 GAGTATCCCCT-GAGATGAAAATTTTAGTGTTTTTAAAGTAAAAACAGGGTTG
*
667672 GAGTATCCCCTGAGATGAAAATTTTAGTGTTTTTAAAGTAAAAATAGGGTTG
1 GAGTATCCCCTGAGATGAAAATTTTAGTGTTTTTAAAGTAAAAACAGGGTTG
667724 GAG
1 GAG
667727 AATATCTTTG
Statistics
Matches: 85, Mismatches: 18, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
51 3 0.04
52 75 0.88
53 7 0.08
ACGTcount: A:0.36, C:0.10, G:0.25, T:0.29
Consensus pattern (52 bp):
GAGTATCCCCTGAGATGAAAATTTTAGTGTTTTTAAAGTAAAAACAGGGTTG
Found at i:673066 original size:13 final size:13
Alignment explanation
Indices: 673047--673085 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
673037 ACTATTTATG
673047 ATGTATCGATACA
1 ATGTATCGATACA
* *
673060 CTGTATCGATATA
1 ATGTATCGATACA
*
673073 ATATATCGATACA
1 ATGTATCGATACA
673086 TGAATAGTGA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.33
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:673143 original size:13 final size:14
Alignment explanation
Indices: 673114--673143 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
673104 GATTTTTAAC
673114 GATACATGAATAGT
1 GATACATGAATAGT
673128 GATACATGAA-AGT
1 GATACATGAATAGT
673141 GAT
1 GAT
673144 GTATCGATAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.43, C:0.07, G:0.23, T:0.27
Consensus pattern (14 bp):
GATACATGAATAGT
Found at i:673173 original size:10 final size:10
Alignment explanation
Indices: 673154--673184 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
673144 GTATCGATAC
673154 ATGAACAGTG
1 ATGAACAGTG
*
673164 ATGAATAGTG
1 ATGAACAGTG
673174 ATGAACAGTG
1 ATGAACAGTG
673184 A
1 A
673185 AAATGAGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.42, C:0.06, G:0.29, T:0.23
Consensus pattern (10 bp):
ATGAACAGTG
Found at i:673272 original size:53 final size:53
Alignment explanation
Indices: 673208--673344 Score: 229
Period size: 53 Copynumber: 2.6 Consensus size: 53
673198 CTACTTCCAA
673208 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
* * *
673261 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGTCT
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
*
673314 TGTATCAATACATATTTGTGTGTATCGATAC
1 TGTATCGATACATATTT-TGTGTATCGATAC
673345 TATGCAATCT
Statistics
Matches: 78, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
53 65 0.83
54 13 0.17
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.38
Consensus pattern (53 bp):
TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
Found at i:673377 original size:20 final size:20
Alignment explanation
Indices: 673332--673385 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
673322 TACATATTTG
*
673332 TGTGTATCGATACTATGCAA
1 TGTGTATCGATACTATGAAA
* *
673352 TCTGTATCGATAC-ATTTAAA
1 TGTGTATCGATACTA-TGAAA
673372 TGTGTATCGATACT
1 TGTGTATCGATACT
673386 TTTCAGGGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
19 1 0.04
20 27 0.96
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.39
Consensus pattern (20 bp):
TGTGTATCGATACTATGAAA
Found at i:673450 original size:21 final size:21
Alignment explanation
Indices: 673424--673464 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
673414 GTCAACCTTG
673424 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
673445 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
673465 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATTAATACAATACGTATA
Found at i:678350 original size:12 final size:12
Alignment explanation
Indices: 678329--678360 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
678319 ACTAGCATAC
*
678329 GACTATTCCTAT
1 GACTAATCCTAT
678341 GACTAATCCTAT
1 GACTAATCCTAT
678353 GACTAATC
1 GACTAATC
678361 ATCACTCGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.31, C:0.25, G:0.09, T:0.34
Consensus pattern (12 bp):
GACTAATCCTAT
Found at i:688934 original size:33 final size:33
Alignment explanation
Indices: 688868--689225 Score: 485
Period size: 33 Copynumber: 10.8 Consensus size: 33
688858 CAAATACCTT
* *
688868 TTTAAAGTCCACGACT-CAGTGGCA-TCTTTTCC
1 TTTAAAGCCCACAACTAC-GTGGCACTCTTTTCC
688900 TTTAAAGCCCACAACTACGTGGCACTCTTTTCC
1 TTTAAAGCCCACAACTACGTGGCACTCTTTTCC
* * *
688933 TTTAAAGCTCACAACTCCGTGGCACCCTTTTTCC
1 TTTAAAGCCCACAACTACGTGGCACTC-TTTTCC
688967 TTTAAAGCCCACAACTACGTGGCACTCTTTTCC
1 TTTAAAGCCCACAACTACGTGGCACTCTTTTCC
*
689000 TTCT-AAGCCCACAACTGCGTGGCACTCTTTTCC
1 TT-TAAAGCCCACAACTACGTGGCACTCTTTTCC
*
689033 TTTAAAGCCCACAACTGCGTGGCACTCTTTTCC
1 TTTAAAGCCCACAACTACGTGGCACTCTTTTCC
689066 TTTAAAGCCCACAACTACGTGGCACTCTTTTCC
1 TTTAAAGCCCACAACTACGTGGCACTCTTTTCC
689099 TTCT-AAGCCCACAACTACGTGGCACTCTTTTCC
1 TT-TAAAGCCCACAACTACGTGGCACTCTTTTCC
* *
689132 TTCT-AAGCCCACAACTCCGTGGTACTCTTTTTCC
1 TT-TAAAGCCCACAACTACGTGGCACTC-TTTTCC
* *
689166 TTCT-AAGCCCACAACTCCGTGGCACTCTTTTTCT
1 TT-TAAAGCCCACAACTACGTGGCACTC-TTTTCC
* *
689200 TTTTAAGCCCACAACTCCGTGGCACT
1 TTTAAAGCCCACAACTACGTGGCACT
689226 TTGTCCACAA
Statistics
Matches: 304, Mismatches: 14, Indels: 14
0.92 0.04 0.04
Matches are distributed among these distances:
32 21 0.07
33 189 0.62
34 94 0.31
ACGTcount: A:0.21, C:0.34, G:0.13, T:0.32
Consensus pattern (33 bp):
TTTAAAGCCCACAACTACGTGGCACTCTTTTCC
Found at i:689295 original size:34 final size:33
Alignment explanation
Indices: 689249--689372 Score: 123
Period size: 34 Copynumber: 3.8 Consensus size: 33
689239 CGTGGCACCC
*
689249 TTTTAAGCCCACAACTCTGTGGCACTTTTTTCA
1 TTTTAAGCCCACAACTCCGTGGCACTTTTTTCA
* **
689282 TCTTTAAGTCCACAACTCCGTGGCAC-CCTTTCA
1 T-TTTAAGCCCACAACTCCGTGGCACTTTTTTCA
* *
689315 ----AAGCCCACAACTCCGTGGCACCTTTTTCT
1 TTTTAAGCCCACAACTCCGTGGCACTTTTTTCA
* *
689344 TTTTAAGTCCACAACTTCGTGGCATCTTT
1 TTTTAAGCCCACAACTCCGTGGCA-CTTT
689373 CACCCTTTCT
Statistics
Matches: 73, Mismatches: 11, Indels: 13
0.75 0.11 0.13
Matches are distributed among these distances:
28 20 0.27
29 4 0.05
33 24 0.33
34 25 0.34
ACGTcount: A:0.21, C:0.31, G:0.13, T:0.35
Consensus pattern (33 bp):
TTTTAAGCCCACAACTCCGTGGCACTTTTTTCA
Found at i:689303 original size:61 final size:61
Alignment explanation
Indices: 689228--689367 Score: 219
Period size: 61 Copynumber: 2.3 Consensus size: 61
689218 GTGGCACTTT
* * *
689228 GTCCACAACTCCGTGGCACCCTTT-TAAGCCCACAACTCTGTGGCACTTTTTTCATCTTTAA
1 GTCCACAACTCCGTGGCACCCTTTCAAAGCCCACAACTCCGTGGCACCTTTTTC-TCTTTAA
*
689289 GTCCACAACTCCGTGGCACCCTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAA
1 GTCCACAACTCCGTGGCACCCTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTCTTTAA
*
689350 GTCCACAACTTCGTGGCA
1 GTCCACAACTCCGTGGCA
689368 TCTTTCACCC
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
61 47 0.64
62 26 0.36
ACGTcount: A:0.21, C:0.34, G:0.14, T:0.30
Consensus pattern (61 bp):
GTCCACAACTCCGTGGCACCCTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTCTTTAA
Found at i:689417 original size:33 final size:33
Alignment explanation
Indices: 689380--689446 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
689370 TTTCACCCTT
*
689380 TCTAAAGCCCACACAAGTTGGTGGCAACCATTC
1 TCTAAAGCCCACACAAGTCGGTGGCAACCATTC
*
689413 TCTAAAGCCCACACAAGTCGGTGGCAACCCTTC
1 TCTAAAGCCCACACAAGTCGGTGGCAACCATTC
689446 T
1 T
689447 AAACCCAATG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.28, C:0.33, G:0.18, T:0.21
Consensus pattern (33 bp):
TCTAAAGCCCACACAAGTCGGTGGCAACCATTC
Found at i:690414 original size:52 final size:52
Alignment explanation
Indices: 690317--690446 Score: 208
Period size: 52 Copynumber: 2.5 Consensus size: 52
690307 CACTAATCTT
* *
690317 TGTATCGATACATGCAGGC-AAGTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACATTATAAAA
*
690368 TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACATTATTAAA
1 TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACATTATAAAA
* *
690420 TGTATCAATACATGCAAGCAAATTTTC
1 TGTATCGATACATGCAGGCAAATTTTC
690447 ATATTTCGGG
Statistics
Matches: 73, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
51 19 0.26
52 54 0.74
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACATTATAAAA
Found at i:697104 original size:13 final size:13
Alignment explanation
Indices: 697086--697135 Score: 58
Period size: 13 Copynumber: 4.3 Consensus size: 13
697076 ATACATTGCT
697086 CATTGTATCGATA
1 CATTGTATCGATA
697099 CATTGT-TC--T-
1 CATTGTATCGATA
697108 --TTGTATCGATA
1 CATTGTATCGATA
697119 CATTGTATCGATA
1 CATTGTATCGATA
697132 CATT
1 CATT
697136 CTGGGTTTAC
Statistics
Matches: 31, Mismatches: 0, Indels: 12
0.72 0.00 0.28
Matches are distributed among these distances:
7 4 0.13
8 2 0.06
10 2 0.06
12 2 0.06
13 21 0.68
ACGTcount: A:0.26, C:0.16, G:0.14, T:0.44
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:697124 original size:20 final size:20
Alignment explanation
Indices: 697067--697124 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
697057 ATTTTCACAA
* *
697067 TTTGTATTGATACATTGCTC
1 TTTGTATCGATACATTGTTC
*
697087 ATTGTATCGATACATTGTTC
1 TTTGTATCGATACATTGTTC
697107 TTTGTATCGATACATTGT
1 TTTGTATCGATACATTGT
697125 ATCGATACAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.22, C:0.14, G:0.16, T:0.48
Consensus pattern (20 bp):
TTTGTATCGATACATTGTTC
Found at i:697180 original size:20 final size:19
Alignment explanation
Indices: 697151--697224 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 19
697141 TTTACCTAGA
697151 TGTATCGATACATTTTGCAT
1 TGTATCGATACATTTT-CAT
* *
697171 TGTATAGATACATTGCTCAT
1 TGTATCGATACATT-TTCAT
* *
697191 TGTATCGATATATTTTACAA
1 TGTATCGATACATTTT-CAT
697211 TGTATCGATACATT
1 TGTATCGATACATT
697225 CAGGCATTTT
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
19 1 0.02
20 43 0.96
21 1 0.02
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.43
Consensus pattern (19 bp):
TGTATCGATACATTTTCAT
Found at i:699590 original size:51 final size:48
Alignment explanation
Indices: 699527--699640 Score: 149
Period size: 51 Copynumber: 2.3 Consensus size: 48
699517 TTTTCATCTC
*
699527 GGGGATACTCCAATCCT-GGTTCCATTTCCAAAACTTCAATTTTTCTTACTA
1 GGGGATACTCCAA-CCTCGGTTCCATTTCCAAAACATCAATTTTTC--A-TA
** *
699578 GGGGATACTCCAACCTCGGTTTTATTTCCAAAACATCAATTTTTCATC
1 GGGGATACTCCAACCTCGGTTCCATTTCCAAAACATCAATTTTTCATA
699626 GGGGATACTCCAACC
1 GGGGATACTCCAACC
699641 CCGTTATTTT
Statistics
Matches: 58, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
48 16 0.28
49 1 0.02
50 3 0.05
51 38 0.66
ACGTcount: A:0.26, C:0.26, G:0.14, T:0.33
Consensus pattern (48 bp):
GGGGATACTCCAACCTCGGTTCCATTTCCAAAACATCAATTTTTCATA
Found at i:699744 original size:75 final size:75
Alignment explanation
Indices: 699577--699864 Score: 334
Period size: 75 Copynumber: 3.8 Consensus size: 75
699567 TTTTCTTACT
* *
699577 AGGGGATACTCCAACCTCGGTTTTATTTCCAAAACATCAATTTTTC---ATCGGGGATACTCCAA
1 AGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGG--A-TCCAA
699639 CCCCGTTATTTTCG
63 CCCC-TTATTTTCG
* * * *
699653 AGGGGATACTCCAACCCCAGCTTTATTTCTAAAATATTAATTTTTCATAATCGGGG-TCCAACCC
1 AGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATCCAACCC
699717 CTTCATTTTCG
66 CTT-ATTTTCG
*
699728 AGGGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAA
1 AGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGG--A-TCCAA
*
699793 CCCTATTA-TTTCTG
63 CCC-CTTATTTTC-G
* * * * *
699807 AGAGGATACTCCAACCTCGGTTTTATTTCTAAAACACCAATTTTCCACAATCGGGGAT
1 AGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGAT
699865 ATTCCAACTC
Statistics
Matches: 184, Mismatches: 18, Indels: 20
0.83 0.08 0.09
Matches are distributed among these distances:
74 2 0.01
75 67 0.36
76 41 0.22
77 1 0.01
78 4 0.02
79 67 0.36
80 2 0.01
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (75 bp):
AGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATCCAACCC
CTTATTTTCG
Found at i:699836 original size:79 final size:78
Alignment explanation
Indices: 699577--699872 Score: 365
Period size: 79 Copynumber: 3.8 Consensus size: 78
699567 TTTTCTTACT
* *
699577 AGGGGATACTCCAACCTCGGTTTTATTTCCAAAACATCAATTTTTC---ATCGGGGATACTCCAA
1 AGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAA
*
699639 CCCCGTTATTTTCG
66 -CCCTTTATTTTCG
* * * *
699653 AGGGGATACTCCAACCCCAGCTTTATTTCTAAAATATTAATTTTTCATAATCGGGG----TCCAA
1 AGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAA
*
699714 CCCCTTCATTTTCG
66 -CCCTTTATTTTCG
*
699728 AGGGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAA
1 AGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAA
699793 CCCTATTA-TTTCTG
66 CCCT-TTATTTTC-G
* * * * * *
699807 AGAGGATACTCCAACCTCGGTTTTATTTCTAAAACACCAATTTTCCACAATCGGGGATATTCCAA
1 AGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAA
699872 C
66 C
699873 TCCGATTTTA
Statistics
Matches: 190, Mismatches: 21, Indels: 15
0.84 0.09 0.07
Matches are distributed among these distances:
75 68 0.36
76 40 0.21
78 8 0.04
79 74 0.39
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (78 bp):
AGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAA
CCCTTTATTTTCG
Found at i:699859 original size:154 final size:151
Alignment explanation
Indices: 699577--699862 Score: 403
Period size: 154 Copynumber: 1.9 Consensus size: 151
699567 TTTTCTTACT
* *
699577 AGGGGATACTCCAACCTCGGTTTTATTTCCAAAACATCAATTTTTCATCGGGGATACTCCAACCC
1 AGGGGATACTCCAACCCCGATTTTATTTCCAAAACATCAATTTTTCATCGGGGATACTCCAACCC
* * * ** * *
699642 CGTTATTTTCGAGGGGATACTCCAACCCCAGCTTTATTTCTAAAATATTAATTTTTCATAATCGG
66 CATTATTTTCGAGAGGATACTCCAACCCCAGCTTTATTTCTAAAACACCAATTTTCCACAATCGG
699707 GGTCCAACCCCTTCATTTTCG
131 GGTCCAACCCCTTCATTTTCG
*
699728 AGGGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAA
1 AGGGGATACTCCAACCCCGATTTTATTTCCAAAACATCAATTTTTC---ATCGGGGATACTCCAA
* * * *
699793 CCCTATTA-TTTCTGAGAGGATACTCCAACCTCGGTTTTATTTCTAAAACACCAATTTTCCACAA
63 CCCCATTATTTTC-GAGAGGATACTCCAACCCCAGCTTTATTTCTAAAACACCAATTTTCCACAA
699857 TCGGGG
127 TCGGGG
699863 ATATTCCAAC
Statistics
Matches: 117, Mismatches: 14, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
151 43 0.37
153 4 0.03
154 70 0.60
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (151 bp):
AGGGGATACTCCAACCCCGATTTTATTTCCAAAACATCAATTTTTCATCGGGGATACTCCAACCC
CATTATTTTCGAGAGGATACTCCAACCCCAGCTTTATTTCTAAAACACCAATTTTCCACAATCGG
GGTCCAACCCCTTCATTTTCG
Found at i:699892 original size:51 final size:51
Alignment explanation
Indices: 699808--699924 Score: 157
Period size: 51 Copynumber: 2.3 Consensus size: 51
699798 TTATTTCTGA
*
699808 GAGGATACTCCAACCTCGGTTTTATTTCTAAAACACCAATTTTCCACAATC
1 GAGGATACTCCAACCTCGATTTTATTTCTAAAACACCAATTTTCCACAATC
* * * *
699859 GGGGATATTCCAA-CTCCGATTTTATTT-TCAAAACACTAATTTTTCACAATC
1 GAGGATACTCCAACCT-CGATTTTATTTCT-AAAACACCAATTTTCCACAATC
699910 GAGGATACTCCAACC
1 GAGGATACTCCAACC
699925 CCATTATTTC
Statistics
Matches: 56, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
50 3 0.05
51 52 0.93
52 1 0.02
ACGTcount: A:0.32, C:0.26, G:0.11, T:0.32
Consensus pattern (51 bp):
GAGGATACTCCAACCTCGATTTTATTTCTAAAACACCAATTTTCCACAATC
Found at i:699943 original size:28 final size:30
Alignment explanation
Indices: 699907--699980 Score: 93
Period size: 28 Copynumber: 2.6 Consensus size: 30
699897 ATTTTTCACA
*
699907 ATCGAGGATACTCCAACCCCATTATTT-C-
1 ATCGGGGATACTCCAACCCCATTATTTGCG
* *
699935 ATCGGGGATACTCCAATCCCGTTATTTGCG
1 ATCGGGGATACTCCAACCCCATTATTTGCG
699965 A--GGGGATACTCCAACC
1 ATCGGGGATACTCCAACC
699981 TCGGCTTTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
28 38 0.95
29 1 0.03
30 1 0.03
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.26
Consensus pattern (30 bp):
ATCGGGGATACTCCAACCCCATTATTTGCG
Found at i:700014 original size:158 final size:158
Alignment explanation
Indices: 699777--700112 Score: 371
Period size: 158 Copynumber: 2.1 Consensus size: 158
699767 ATTTTTCATA
* * *
699777 ATCGGGGATACTCCAA-CCCTATTATTTCTGAGAGGATACTCCAACCTCGGTTTTATTTCTAAAA
1 ATCGGGGATACTCCAATCCC-GTTATTTCTGAGAGGATACTCCAACCTCGGCTTTATTTCCAAAA
* ** *
699841 CACCAATTTTCCACAATCGGGGATATTCCAA-CTCCGATTTTATTT-TCAAAACACTAATTTTTC
65 CACCAATTTTCCACAATCAGGGATATTCCAACCT-CGACCTTATTTCT-AAAACACTAATTTCTC
699904 ACAATCGAGGATACTCCAACCCCATTATT-TC
128 ACAATCG-GGATACTCCAACCCCATTATTCTC
*
699935 ATCGGGGATACTCCAATCCCGTTATTTGC-GAGGGGATACTCCAACCTCGGCTTTATTTCCAAAA
1 ATCGGGGATACTCCAATCCCGTTATTT-CTGAGAGGATACTCCAACCTCGGCTTTATTTCCAAAA
* *** * * * * *
699999 TATTGA-TTTCTCACAATCAGGGATATTTCAACCTCGGCCTTATTTCTAAAATATTGATTTCTCA
65 CACCAATTTTC-CACAATCAGGGATATTCCAACCTCGACCTTATTTCTAAAACACTAATTTCTCA
* * *
700063 TAATTGGGATACTCCAACCCTATTATTCTC
129 CAATCGGGATACTCCAACCCCATTATTCTC
* *
700093 A-CGGGAATACTCTAATCCCG
1 ATCGGGGATACTCCAATCCCG
700113 ATTTTATTTT
Statistics
Matches: 150, Mismatches: 22, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
157 41 0.27
158 102 0.68
159 7 0.05
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.33
Consensus pattern (158 bp):
ATCGGGGATACTCCAATCCCGTTATTTCTGAGAGGATACTCCAACCTCGGCTTTATTTCCAAAAC
ACCAATTTTCCACAATCAGGGATATTCCAACCTCGACCTTATTTCTAAAACACTAATTTCTCACA
ATCGGGATACTCCAACCCCATTATTCTC
Found at i:702857 original size:16 final size:18
Alignment explanation
Indices: 702830--702864 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
702820 ATTCAAAGGG
702830 GATCATATCGAAA-TAAT
1 GATCATATCGAAACTAAT
702847 GATCA-ATCGAAACTAAT
1 GATCATATCGAAACTAAT
702864 G
1 G
702865 TAACCAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.46, C:0.14, G:0.14, T:0.26
Consensus pattern (18 bp):
GATCATATCGAAACTAAT
Found at i:708391 original size:32 final size:32
Alignment explanation
Indices: 708353--708440 Score: 113
Period size: 32 Copynumber: 2.8 Consensus size: 32
708343 ATCTCTCTTC
* *
708353 TCAAAGTCCATGACTCAGTGGCATATTTTTCT
1 TCAAAGTCCACGACTCAGTGGCACATTTTTCT
* *
708385 TCAAAGTCCACGACTCCGTGGCACCTTTTTCT
1 TCAAAGTCCACGACTCAGTGGCACATTTTTCT
** *
708417 TTTAAGTCCACGACTCTGTGGCAC
1 TCAAAGTCCACGACTCAGTGGCAC
708441 CCTTTTAAAG
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 49 1.00
ACGTcount: A:0.22, C:0.28, G:0.17, T:0.33
Consensus pattern (32 bp):
TCAAAGTCCACGACTCAGTGGCACATTTTTCT
Found at i:708471 original size:27 final size:28
Alignment explanation
Indices: 708434--708565 Score: 151
Period size: 28 Copynumber: 4.5 Consensus size: 28
708424 CCACGACTCT
708434 GTGGCACCCTTTTAAAGCCCACAACTTC
1 GTGGCACCCTTTTAAAGCCCACAACTTC
*
708462 GTGGCACCTTTTTCTTTTTCAAAGTCCACAAC-TC
1 GTGGCACC-----C-TTTT-AAAGCCCACAACTTC
*
708496 TGTGGCACCCTTTT-AAGTCCACAACTTC
1 -GTGGCACCCTTTTAAAGCCCACAACTTC
*
708524 GTGGCACCCTTTTAAAGCCCACAACTCC
1 GTGGCACCCTTTTAAAGCCCACAACTTC
708552 GTGGCACCCTTTTA
1 GTGGCACCCTTTTA
708566 TGTCTACAAC
Statistics
Matches: 91, Mismatches: 3, Indels: 20
0.80 0.03 0.18
Matches are distributed among these distances:
27 24 0.26
28 36 0.40
29 4 0.04
30 1 0.01
33 1 0.01
34 6 0.07
35 19 0.21
ACGTcount: A:0.22, C:0.33, G:0.14, T:0.30
Consensus pattern (28 bp):
GTGGCACCCTTTTAAAGCCCACAACTTC
Found at i:708582 original size:27 final size:27
Alignment explanation
Indices: 708415--708586 Score: 168
Period size: 27 Copynumber: 6.0 Consensus size: 27
708405 GCACCTTTTT
*
708415 CTTTTAAGTCCACGACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCTGTGGCACC
*
708442 CTTTTAAAGCCCACAACT-TCGTGGCACC
1 CTTTT-AAGTCCACAACTCT-GTGGCACC
708470 TTTTTCTTTTTCAAAGTCCACAACTCTGTGGCACC
1 -----C-TTTT--AAGTCCACAACTCTGTGGCACC
708505 CTTTTAAGTCCACAACT-TCGTGGCACC
1 CTTTTAAGTCCACAACTCT-GTGGCACC
* *
708532 CTTTTAAAGCCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCTGTGGCACC
* *
708560 CTTTTATGTCTACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCTGTGGCACC
708587 TTGTTCCTTT
Statistics
Matches: 123, Mismatches: 9, Indels: 26
0.78 0.06 0.16
Matches are distributed among these distances:
26 1 0.01
27 49 0.40
28 42 0.34
29 4 0.03
30 1 0.01
33 1 0.01
34 4 0.03
35 20 0.16
36 1 0.01
ACGTcount: A:0.22, C:0.33, G:0.15, T:0.31
Consensus pattern (27 bp):
CTTTTAAGTCCACAACTCTGTGGCACC
Found at i:708610 original size:33 final size:32
Alignment explanation
Indices: 708388--708788 Score: 313
Period size: 33 Copynumber: 12.8 Consensus size: 32
708378 TTTTTCTTCA
* *
708388 AAGTCCACGACTCCGTGGCACCTTTTTCTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTCCTTTT
* *
708420 AAGTCCACGACTCTGTGGCA-C----CCTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTCCTTTT
* * *
708447 AAAGCCCACAACTTCGTGGCACCTTTTTCTTTTT
1 -AAGTCCACAACTCCGTGGCACC-TTTTCCTTTT
*
708481 CAAAGTCCACAACTCTGTGGCA-C----CCTTTT
1 --AAGTCCACAACTCCGTGGCACCTTTTCCTTTT
*
708510 AAGTCCACAACTTCGTGGCA-C----CCTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTCCTTTT
*
708537 AAAGCCCACAACTCCGTGGCA-C----CCTTTT
1 -AAGTCCACAACTCCGTGGCACCTTTTCCTTTT
* * *
708565 ATGTCTACAACTCTGTGGCACCTTGTTCCTTTT
1 AAGTCCACAACTCCGTGGCACCTT-TTCCTTTT
* *
708598 AAGTCCATAACTCCGTGGCATCTTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCA-CCTTTTCCTTTT
708631 AAGTCCACAACTCCGTGGCACCTTGTTCCTTTT
1 AAGTCCACAACTCCGTGGCACCTT-TTCCTTTT
* ** *
708664 AAGTCCACGACTCCACGGCACCTTTTCTTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTCCTTTT
* * *
708696 AAGTCCACGACTCTGTGGCACCCTTTTCCCCTTT
1 AAGTCCACAACTCCGTGGCA-CCTTTT-CCTTTT
* * *
708730 AAGCCCACACCTCCATGGCATCCTTTTTTCC-TTT
1 AAGTCCACAACTCCGTGGCA-CC--TTTTCCTTTT
708764 AAGTCCACAACTCCGTGGCACCTTT
1 AAGTCCACAACTCCGTGGCACCTTT
708789 AAGTCCAATA
Statistics
Matches: 304, Mismatches: 44, Indels: 43
0.78 0.11 0.11
Matches are distributed among these distances:
27 46 0.15
28 42 0.14
29 6 0.02
31 4 0.01
32 46 0.15
33 86 0.28
34 50 0.16
35 20 0.07
36 4 0.01
ACGTcount: A:0.19, C:0.33, G:0.14, T:0.33
Consensus pattern (32 bp):
AAGTCCACAACTCCGTGGCACCTTTTCCTTTT
Found at i:708910 original size:52 final size:49
Alignment explanation
Indices: 708805--709376 Score: 321
Period size: 51 Copynumber: 12.1 Consensus size: 49
708795 AATATCGTCG
* * * *
708805 GCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGAGCAATGTCGTTG
1 GCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGACCAATGTCGCTA
*
708854 GCCTTGAATCAGCACATTGGCACCTTAACCATCTTTCAGACCAATGTCGCTA
1 GCCTTGAATCAGCACATTGGCACCTT---CATCTTTAAGACCAATGTCGCTA
* * *
708906 GCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATATCGCAA
1 GCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGACCAATGTCGCTA
* * * * *
708949 GCCTTCAATCAGCATATTGGCACCTTTACCATCTTGT--GTCCAATATCGCTG
1 GCCTTGAATCAGCACATTGGCACC-TT--CATCTT-TAAGACCAATGTCGCTA
* * * * *
709000 GCCTTGAATCAGCATATTGGCACCTT-GTCTCTAAGACCAATGTCACTG
1 GCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGACCAATGTCGCTA
* * * *
709048 GCCTTGAATCAGCACATT-----C-GCA----TAAGCCCAATATCGCTG
1 GCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGACCAATGTCGCTA
* * * * *
709087 GCCTTTAATCAGCATATTGGCACCTT-GTCCTTAAGACCAATGTCGCTG
1 GCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGACCAATGTCGCTA
* * * *
709135 GCCTTGAATCAACACATTGG------CA----TAAGCCCAATATCGCTG
1 GCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGACCAATGTCGCTA
* * ** *
709174 GCCTTGAATCAACATATTGGCA-CTTTGTCTTTAAGACCAATGTCGCTG
1 GCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGACCAATGTCGCTA
* * ** * *
709222 GCCTTGAATCAGCATATGGGCACCTTTACCATC-TCGAGTCCAATATCGCTA
1 GCCTTGAATCAGCACATTGGCACC-TT--CATCTTTAAGACCAATGTCGCTA
* * * *
709273 GCCTTGAATCAGCATATTGGCACCTTTACCATC-TTGAGTCCAATATCGCTA
1 GCCTTGAATCAGCACATTGGCACC-TT--CATCTTTAAGACCAATGTCGCTA
** * * * *
709324 GCCTTGAATCAATATATTGGTACCTT-GTCTTTAAGACCAATGTCGCTG
1 GCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGACCAATGTCGCTA
709372 GCCTT
1 GCCTT
709377 AAAGTGGTGA
Statistics
Matches: 421, Mismatches: 61, Indels: 83
0.75 0.11 0.15
Matches are distributed among these distances:
39 64 0.15
43 37 0.09
44 1 0.00
45 1 0.00
46 1 0.00
47 5 0.01
48 114 0.27
49 26 0.06
50 7 0.02
51 118 0.28
52 46 0.11
53 1 0.00
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.30
Consensus pattern (49 bp):
GCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGACCAATGTCGCTA
Found at i:708963 original size:144 final size:139
Alignment explanation
Indices: 708779--709156 Score: 446
Period size: 144 Copynumber: 2.7 Consensus size: 139
708769 CACAACTCCG
* *
708779 TGGCACCTTTAAGTCCAATATCGTCGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGAGC
1 TGGCACCTTTAAGTCCAATATCG-CGGCCTTCAATCAGCATATTGGCACCTTCATCTTTAAGACC
* * * *
708844 AATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTAACCATCTTTCAGACCAATGTCGCTAGCC
65 AATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT----ATCTCTAAGACCAATGTCACTAGCC
708909 TTGAATCAGCACAT
126 TTGAATCAGCACAT
*
708923 TGGCACCTTTAAGTCCAATATCGCAAGCCTTCAATCAGCATATTGGCACCTTTACCATCTTGT--
1 TGGCACCTTTAAGTCCAATATCGC-GGCCTTCAATCAGCATATTGGCACC-TT--CATCTT-TAA
* * * * *
708986 GTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCACTGGCC
61 GACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTATCTCTAAGACCAATGTCACTAGCC
709051 TTGAATCAGCACAT
126 TTGAATCAGCACAT
* * * * *
709065 TCGCA----TAAGCCCAATATCGCTGGCCTTTAATCAGCATATTGGCACCTT-GTCCTTAAGACC
1 TGGCACCTTTAAGTCCAATATCGC-GGCCTTCAATCAGCATATTGGCACCTTCATCTTTAAGACC
*
709125 AATGTCGCTGGCCTTGAATCAACACATTGGCA
65 AATGTCGCTGGCCTTGAATCAGCACATTGGCA
709157 TAAGCCCAAT
Statistics
Matches: 204, Mismatches: 23, Indels: 23
0.82 0.09 0.09
Matches are distributed among these distances:
133 1 0.00
134 3 0.01
135 32 0.16
137 2 0.01
138 37 0.18
142 38 0.19
143 1 0.00
144 46 0.23
145 2 0.01
146 35 0.17
147 6 0.03
148 1 0.00
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.29
Consensus pattern (139 bp):
TGGCACCTTTAAGTCCAATATCGCGGCCTTCAATCAGCATATTGGCACCTTCATCTTTAAGACCA
ATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTATCTCTAAGACCAATGTCACTAGCCTTGAA
TCAGCACAT
Found at i:709090 original size:39 final size:39
Alignment explanation
Indices: 709031--709184 Score: 137
Period size: 39 Copynumber: 3.7 Consensus size: 39
709021 ACCTTGTCTC
* *
709031 TAAGACCAATGTCACTGGCCTTGAATCAGCACATTCGCA
1 TAAGACCAATATCGCTGGCCTTGAATCAGCACATTCGCA
* * * *
709070 TAAGCCCAATATCGCTGGCCTTTAATCAGCATATTGGCACCTTGTCCT
1 TAAGACCAATATCGCTGGCCTTGAATCAGCACATT-----C--G--CA
* * *
709118 TAAGACCAATGTCGCTGGCCTTGAATCAACACATTGGCA
1 TAAGACCAATATCGCTGGCCTTGAATCAGCACATTCGCA
*
709157 TAAGCCCAATATCGCTGGCCTTGAATCA
1 TAAGACCAATATCGCTGGCCTTGAATCA
709185 ACATATTGGC
Statistics
Matches: 91, Mismatches: 15, Indels: 18
0.73 0.12 0.15
Matches are distributed among these distances:
39 57 0.63
41 1 0.01
44 1 0.01
46 1 0.01
48 31 0.34
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (39 bp):
TAAGACCAATATCGCTGGCCTTGAATCAGCACATTCGCA
Found at i:709136 original size:87 final size:87
Alignment explanation
Indices: 708988--709235 Score: 417
Period size: 87 Copynumber: 2.9 Consensus size: 87
708978 CATCTTGTGT
*
708988 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGT-CTCTAAGACCAATGTCACTGGCCT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCCT-TAAGACCAATGTCGCTGGCCT
709052 TGAATCAGCACATTCGCATAAGC
65 TGAATCAGCACATTCGCATAAGC
*
709075 CCAATATCGCTGGCCTTTAATCAGCATATTGGCACCTTGTCCTTAAGACCAATGTCGCTGGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCCTTAAGACCAATGTCGCTGGCCTT
* *
709140 GAATCAACACATTGGCATAAGC
66 GAATCAGCACATTCGCATAAGC
* * *
709162 CCAATATCGCTGGCCTTGAATCAACATATTGGCACTTTGTCTTTAAGACCAATGTCGCTGGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCCTTAAGACCAATGTCGCTGGCCTT
709227 GAATCAGCA
66 GAATCAGCA
709236 TATGGGCACC
Statistics
Matches: 151, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
87 149 0.99
88 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (87 bp):
CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCCTTAAGACCAATGTCGCTGGCCTT
GAATCAGCACATTCGCATAAGC
Found at i:709185 original size:39 final size:39
Alignment explanation
Indices: 709118--709195 Score: 129
Period size: 39 Copynumber: 2.0 Consensus size: 39
709108 ACCTTGTCCT
*
709118 TAAGACCAATGTCGCTGGCCTTGAATCAACACATTGGCA
1 TAAGACCAATATCGCTGGCCTTGAATCAACACATTGGCA
* *
709157 TAAGCCCAATATCGCTGGCCTTGAATCAACATATTGGCA
1 TAAGACCAATATCGCTGGCCTTGAATCAACACATTGGCA
709196 CTTTGTCTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (39 bp):
TAAGACCAATATCGCTGGCCTTGAATCAACACATTGGCA
Found at i:709364 original size:99 final size:98
Alignment explanation
Indices: 709157--709376 Score: 221
Period size: 99 Copynumber: 2.2 Consensus size: 98
709147 CACATTGGCA
* ** * *
709157 TAAGCCCAATATCGCTGGCCTTGAATCAACATATTGGCACTTTGTCTTTAAGACCAATGTCGCTG
1 TAAGACCAATATCGCTGGCCTTGAATCAACATATTGGCACTTTACCTTTAAGACCAATATCGCTA
*
709222 GCCTTGAATCAGCATATGGGCACCTTTACCATCT
66 GCCTTGAATCAACATATGGGCACCTTTA-CATCT
** * * * * *
709256 CGAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTTACCATCTTGAGTCCAATATCG
1 TAAGACCAATATCGCTGGCCTTGAATCAACATATTGGCA-CTTTACC-T-TTAAGACCAATATCG
* * *
709321 CTAGCCTTGAATCAATATATTGGTACCTTGT-C-T-T
63 CTAGCCTTGAATCAACATATGGGCACCTT-TACATCT
*
709355 TAAGACCAATGTCGCTGGCCTT
1 TAAGACCAATATCGCTGGCCTT
709377 AAAGTGGTGA
Statistics
Matches: 97, Mismatches: 20, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
99 52 0.54
100 6 0.06
101 2 0.02
102 36 0.37
103 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (98 bp):
TAAGACCAATATCGCTGGCCTTGAATCAACATATTGGCACTTTACCTTTAAGACCAATATCGCTA
GCCTTGAATCAACATATGGGCACCTTTACATCT
Found at i:709601 original size:85 final size:86
Alignment explanation
Indices: 709433--709964 Score: 551
Period size: 85 Copynumber: 6.2 Consensus size: 86
709423 CTTTTTTAAA
* * * * * *
709433 AAAAAGGTACCACTAACTTGTGTGGGCTTTGAAAAGAGTTACCATTGGCTTGTGGGCTTTGAAAA
1 AAAAGGGTGCCACTAAC-T-TGTGGGCTTTG-AAAG-GGTGCCACTGACTTGTGGGCTTTG-AAA
* * * * *
709498 AAGTTACCATTGGCTTGTGGGCTTTG
61 AGGGTGCCACTGACTTGTGGGCTTTG
* * * *
709524 AAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGGGTACCACTAACTTATGGGCTTT-AAAAGGGT
1 AAAAGGGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGGGT
* * *
709588 ACCATTGACTTGTGGGATTT-
66 GCCACTGACTTGTGGGCTTTG
* * * * * * *
709608 AAAACGATGCCACTGACTTCTGGTCTTTGAAAAGAGTGCCACTAACTTGTGGG-TATTG-AAAGG
1 AAAAGGGTGCCACTAACTTGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCT-TTGAAAAGG
* *
709671 TTGCCACTGACCTGTGGGCTTTG
64 GTGCCACTGACTTGTGGGCTTTG
* * *
709694 -AAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGAGT
1 AAAAGGGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGGGT
709758 GCCACTGACTTGTGGGCTTTG
66 GCCACTGACTTGTGGGCTTTG
* *
709779 -AAAGGGTGCCACTAACTTATGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGT
1 AAAAGGGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGGGT
*
709843 GCCACTAACTTGTGGGCTTTG
66 GCCACTGACTTGTGGGCTTTG
* * * * * * *
709864 -AAATGGTGCAACTGACTTCTAGGCTTTGAAAAGGTGTCACTGACTTGTGGGCTTT-AAAAGGGT
1 AAAAGGGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGGGT
* **
709927 GCCACTAACTTACGGGCTTTG
66 GCCACTGACTTGTGGGCTTTG
709948 -AAAGGGTGCCACTAACT
1 AAAAGGGTGCCACTAACT
709965 CATAGGCTTT
Statistics
Matches: 382, Mismatches: 53, Indels: 19
0.84 0.12 0.04
Matches are distributed among these distances:
84 87 0.23
85 247 0.65
87 18 0.05
88 4 0.01
89 11 0.03
90 1 0.00
91 14 0.04
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.29
Consensus pattern (86 bp):
AAAAGGGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGGGT
GCCACTGACTTGTGGGCTTTG
Found at i:709647 original size:113 final size:113
Alignment explanation
Indices: 709442--709960 Score: 594
Period size: 113 Copynumber: 4.5 Consensus size: 113
709432 AAAAAAGGTA
* * * * *
709442 CCACTAACTTGTGTGGGCTTTGAAAAGAGTTACCATTGGCTTGTGGGCTTTGAAAAAAGTTACCA
1 CCACTAAC-T-TGTGGGCTTT-AAAAG-GGTACCACTGACTTGTGGGCTTTG--AAAAGATGCCA
* * *
709507 TTGGCTTGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGGGTA
60 CTGACTTGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGGGTG
* * *
709561 CCACTAACTTATGGGCTTTAAAAGGGTACCATTGACTTGTGGGATTT-AAAACGATGCCACTGAC
1 CCACTAACTTGTGGGCTTTAAAAGGGTACCACTGACTTGTGGGCTTTGAAAA-GATGCCACTGAC
* * *
709625 TTCTGGTCTTTGAAAAGAGTGCCACTAACTTGTGGG-TATTGAAAGGTTG
65 TTGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGCT-TTGAAAGGGTG
* * * * *
709674 CCACTGACCTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACT
1 CCACTAACTTGTGGGCTTTAAAAGGGTACCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACT
*
709739 TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTG
66 TGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGGGTG
* * * *
709787 CCACTAACTTATGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTAAC
1 CCACTAACTTGTGGGCTTTAAAAGGGTACCACTGACTTGTGGGCTTTGAAAAGA-TGCCACTGAC
* * * * * *
709852 TTGTGGGCTTTGAAATG-GTGCAACTGACTTCTAGGCTTTGAAAAGGTG
65 TTGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGGGTG
* * * * ** * *
709900 TCACTGACTTGTGGGCTTTAAAAGGGTGCCACTAACTTACGGGCTTTGAAAGGGTGCCACT
1 CCACTAACTTGTGGGCTTTAAAAGGGTACCACTGACTTGTGGGCTTTGAAAAGATGCCACT
709961 AACTCATAGG
Statistics
Matches: 352, Mismatches: 43, Indels: 17
0.85 0.10 0.04
Matches are distributed among these distances:
112 12 0.03
113 268 0.76
114 29 0.08
115 20 0.06
116 5 0.01
117 9 0.03
118 1 0.00
119 8 0.02
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (113 bp):
CCACTAACTTGTGGGCTTTAAAAGGGTACCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACT
TGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGGGTG
Found at i:709977 original size:28 final size:28
Alignment explanation
Indices: 709511--709960 Score: 542
Period size: 28 Copynumber: 15.9 Consensus size: 28
709501 TTACCATTGG
* *
709511 CTTGTGGGCTTTGAAAAGAGTGCCACTAA
1 CTTGTGGGCTTTG-AAAGGGTGCCACTGA
* *
709540 CTTGTGGGCTTTGAAAGGGTACCACTAA
1 CTTGTGGGCTTTGAAAGGGTGCCACTGA
* * * *
709568 CTTATGGGCTTTAAAAGGGTACCATTGA
1 CTTGTGGGCTTTGAAAGGGTGCCACTGA
* * * *
709596 CTTGTGGGATTTAAAACGATGCCACTGA
1 CTTGTGGGCTTTGAAAGGGTGCCACTGA
* * * *
709624 CTTCTGGTCTTTGAAAAGAGTGCCACTAA
1 CTTGTGGGCTTTG-AAAGGGTGCCACTGA
*
709653 CTTGTGGG-TATTGAAAGGTTGCCACTGA
1 CTTGTGGGCT-TTGAAAGGGTGCCACTGA
*
709681 CCTGTGGGCTTTGAAAGGGTGCCACTGA
1 CTTGTGGGCTTTGAAAGGGTGCCACTGA
*
709709 CTTGTGGGCTTTGAAAGGATGCCACTGA
1 CTTGTGGGCTTTGAAAGGGTGCCACTGA
*
709737 CTTGTGGGCTTTGAAAAGAGTGCCACTGA
1 CTTGTGGGCTTTG-AAAGGGTGCCACTGA
*
709766 CTTGTGGGCTTTGAAAGGGTGCCACTAA
1 CTTGTGGGCTTTGAAAGGGTGCCACTGA
*
709794 CTTATGGGCTTTGAAAGGGTGCCACTGA
1 CTTGTGGGCTTTGAAAGGGTGCCACTGA
* *
709822 CTTGTGGGCTTTGAAAAGAGTGCCACTAA
1 CTTGTGGGCTTTG-AAAGGGTGCCACTGA
* *
709851 CTTGTGGGCTTTGAAATGGTGCAACTGA
1 CTTGTGGGCTTTGAAAGGGTGCCACTGA
* * * *
709879 CTTCTAGGCTTTGAAAAGGTGTCACTGA
1 CTTGTGGGCTTTGAAAGGGTGCCACTGA
* *
709907 CTTGTGGGCTTTAAAAGGGTGCCACTAA
1 CTTGTGGGCTTTGAAAGGGTGCCACTGA
**
709935 CTTACGGGCTTTGAAAGGGTGCCACT
1 CTTGTGGGCTTTGAAAGGGTGCCACT
709961 AACTCATAGG
Statistics
Matches: 360, Mismatches: 56, Indels: 11
0.84 0.13 0.03
Matches are distributed among these distances:
28 274 0.76
29 86 0.24
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (28 bp):
CTTGTGGGCTTTGAAAGGGTGCCACTGA
Found at i:713031 original size:107 final size:108
Alignment explanation
Indices: 712877--713238 Score: 350
Period size: 108 Copynumber: 3.4 Consensus size: 108
712867 CTTTAATCGA
* * *
712877 GGATACTCCAACTCCGATTTTATTTCCAAAAACACTAATTTTTCACAATCGAGGATACTATAACC
1 GGATACTCCAACCCCGATTTTATTTCCAAAAACACTAATTTTCCACAATCGAGGATACTACAACC
*
712942 TCGTTATTTCATCGGGGATACTCCAACCTTGTTACCTCCGAGG
66 TCGTTATTTCATCGGGGATACTCCAACCTTGTTACCTCTGAGG
* * * * *
712985 GGATACTCTAACCCCGGTTTTATTT-CTAAAACACTAATTTTCCACAATCGGGGATACTCCAACC
1 GGATACTCCAACCCCGATTTTATTTCCAAAAACACTAATTTTCCACAATCGAGGATACTACAACC
* * **** * * * *
713049 CCGGT-TTT-AT-TTTCAAACCACCAA--TT-TT-CCTTTAATCGG
66 TCGTTATTTCATCGGGGATA-CTCCAACCTTGTTACCTCTGA--GG
* * * *
713088 GGATATTCCAACTCCGATTTTATTTCCAAAAACACCAAATTTT-CATAATCGAGGATACTACAAC
1 GGATACTCCAACCCCGATTTTATTTCCAAAAACA-CTAATTTTCCACAATCGAGGATACTACAAC
* *
713152 CTCATTAATTCATCGGGGATACTCCAAGCC-TGTTACCTCTGAGG
65 CTCGTTATTTCATCGGGGATACTCCAA-CCTTGTTACCTCTGAGG
* * *
713196 GGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAATTTTCC
1 GGATACTCCAACCCCGATTTTATTTCCAAAAACACTAATTTTCC
713239 TTTAATGGGG
Statistics
Matches: 195, Mismatches: 45, Indels: 29
0.72 0.17 0.11
Matches are distributed among these distances:
101 4 0.02
102 2 0.01
103 25 0.13
104 30 0.15
105 16 0.08
106 17 0.09
107 46 0.24
108 48 0.25
109 2 0.01
110 5 0.03
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.32
Consensus pattern (108 bp):
GGATACTCCAACCCCGATTTTATTTCCAAAAACACTAATTTTCCACAATCGAGGATACTACAACC
TCGTTATTTCATCGGGGATACTCCAACCTTGTTACCTCTGAGG
Found at i:713188 original size:211 final size:212
Alignment explanation
Indices: 712819--713306 Score: 698
Period size: 211 Copynumber: 2.3 Consensus size: 212
712809 AATTGTTCAT
* * *
712819 AATCGGGGATACTCCAACCTCGGTTTTATTTTTAAAACATCAATTTTCCTTTAATCGAGGATACT
1 AATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGAGGATACT
* * * * *
712884 CCAACTCCGATTTTATTTCCAAAAACACTAATTTTTCACAATCGAGGATACTATAACCTCGTTAT
66 CCAACTCCGATTTTATTTCCAAAAACACCAAATTTTCACAATCGAGGATACTACAACCTCATTAA
*
712949 TTCATCGGGGATACTCCAACCTTGTTACCTCCGAGGGGATACTCTAACCCCGGTTTTA-TTTCTA
131 TTCATCGGGGATACTCCAACCTTGTTACCTCCGAGGGGATACTCCAACCCCGGTTTTATTTTC-A
*
713013 AAACACTAATTTTCC-AC
195 AAACACCAATTTTCCTAC
* * *
713030 AATCGGGGATACTCCAACCCCGGTTTTATTTTCAAACCACCAATTTTCCTTTAATCGGGGATATT
1 AATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGAGGATACT
*
713095 CCAACTCCGATTTTATTTCCAAAAACACCAAATTTTCATAATCGAGGATACTACAACCTCATTAA
66 CCAACTCCGATTTTATTTCCAAAAACACCAAATTTTCACAATCGAGGATACTACAACCTCATTAA
*
713160 TTCATCGGGGATACTCCAAGCC-TGTTACCTCTGAGGGGATACTCCAACCCCGGTTTTATTTTCA
131 TTCATCGGGGATACTCCAA-CCTTGTTACCTCCGAGGGGATACTCCAACCCCGGTTTTATTTTCA
**
713224 AAACACCAATTTTCCTTT
195 AAACACCAATTTTCCTAC
* * * * * **
713242 AAT-GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTTC-ACAATCGAGGATAC
1 AATCGGGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAATTTTCCTTTAATCGAGGATAC
713305 TC
65 TC
713307 TAACCTCGTT
Statistics
Matches: 246, Mismatches: 27, Indels: 8
0.88 0.10 0.03
Matches are distributed among these distances:
211 224 0.91
212 22 0.09
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (212 bp):
AATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGAGGATACT
CCAACTCCGATTTTATTTCCAAAAACACCAAATTTTCACAATCGAGGATACTACAACCTCATTAA
TTCATCGGGGATACTCCAACCTTGTTACCTCCGAGGGGATACTCCAACCCCGGTTTTATTTTCAA
AACACCAATTTTCCTAC
Found at i:713256 original size:51 final size:53
Alignment explanation
Indices: 712817--713311 Score: 218
Period size: 52 Copynumber: 9.4 Consensus size: 53
712807 TCAATTGTTC
* * *
712817 ATAATCGGGGATACTCCAACCTCGGTTTTATTTT-TAAAACATCAATTTTCCT
1 ATAATCGGGGATACTCCAACCCCGGTTTTATTTTCGAAAACACCAATTTTCCT
* * * * * * * *
712869 TTAATCGAGGATACTCCAACTCCGATTTTATTTCCAAAAACACTAATTTTTC-
1 ATAATCGGGGATACTCCAACCCCGGTTTTATTTTCGAAAACACCAATTTTCCT
* * ** * * * *
712921 ACAATCGAGGATACTATAACCTC-G--TTATTTCATCGGGGATACTCCAACCTTGTTACCT
1 ATAATCGGGGATACTCCAACCCCGGTTTTATTT--TC--GAAAACACCAA--TT-TT-CCT
*** * * *
712979 CCGA--GGGGATACTCTAACCCCGGTTTTA-TTTCTAAAACACTAATTTTCC-
1 ATAATCGGGGATACTCCAACCCCGGTTTTATTTTCGAAAACACCAATTTTCCT
* *
713028 ACAATCGGGGATACTCCAACCCCGGTTTTATTTTC-AAACCACCAATTTTCCT
1 ATAATCGGGGATACTCCAACCCCGGTTTTATTTTCGAAAACACCAATTTTCCT
* * * * * *
713080 TTAATCGGGGATATTCCAACTCCGATTTTATTTCCAAAAACACCAAATTTT-C-
1 ATAATCGGGGATACTCCAACCCCGGTTTTATTTTCGAAAACACC-AATTTTCCT
* * * * * * * * * *
713132 ATAATCGAGGATACTACAACCTC--ATTAATTCATCGGGGATACTCCAAGCCTGTTACCT
1 ATAATCGGGGATACTCCAACCCCGGTTTTATT-TTC--GAAAACACCAA---T-TTTCCT
* *
713190 CTGA--GGGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAATTTTCCT
1 ATAATCGGGGATACTCCAACCCCGGTTTTATTTTCGAAAACACCAATTTTCCT
* * * * * * *
713240 TTAAT-GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTTC-
1 ATAATCGGGGATACTCCAACCCCGGTTTTATTTTCGAAAACACCAATTTTCCT
* * *
713291 ACAATCGAGGATACTCTAACC
1 ATAATCGGGGATACTCCAACC
713312 TCGTTATTTC
Statistics
Matches: 325, Mismatches: 85, Indels: 66
0.68 0.18 0.14
Matches are distributed among these distances:
49 8 0.02
50 14 0.04
51 71 0.22
52 125 0.38
53 32 0.10
54 19 0.06
55 3 0.01
56 34 0.10
57 5 0.02
58 11 0.03
59 3 0.01
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (53 bp):
ATAATCGGGGATACTCCAACCCCGGTTTTATTTTCGAAAACACCAATTTTCCT
Found at i:713324 original size:159 final size:160
Alignment explanation
Indices: 713034--713385 Score: 555
Period size: 159 Copynumber: 2.2 Consensus size: 160
713024 TTCCACAATC
* *
713034 GGGGATACTCCAACCCCGGTTTTATTTTCAAACCACCAATTTTCCTTTAATCGGGGATATTCCAA
1 GGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACTCCAA
*
713099 CTCCGATTTTATTTCCAAAAACACCAAATTTTCATAATCGAGGATACTACAACCTCATTAATTCA
66 CTCCGATTTTATTTCCAAAAACACCAAATTTTCACAATCGAGGATACTACAACCTCATTAATTCA
* * *
713164 TCGGGGATACTCCAAGCCTGTTACCTCTGA
131 TCGGGGATACTCCAACCCCGTTACCTCCGA
713194 GGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAAT-GGGGATACTCCAA
1 GGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACTCCAA
* * * *
713258 CTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATCGAGGATACT-CTAACCTCGTTATTTC
66 CTCCGATTTTATTTCCAAAAACACCAAATTTTCACAATCGAGGATACTAC-AACCTCATTAATTC
*
713322 ATCGGGGATACTCCAACCCCGTTACTTCCGA
130 ATCGGGGATACTCCAACCCCGTTACCTCCGA
* * *
713353 GGGGATACTCCAACCTCGGCTTTATTTCCAAAA
1 GGGGATACTCCAACCCCGGTTTTATTTTCAAAA
713386 TATTGATTTC
Statistics
Matches: 177, Mismatches: 14, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
158 1 0.01
159 126 0.71
160 50 0.28
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (160 bp):
GGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACTCCAA
CTCCGATTTTATTTCCAAAAACACCAAATTTTCACAATCGAGGATACTACAACCTCATTAATTCA
TCGGGGATACTCCAACCCCGTTACCTCCGA
Found at i:713330 original size:28 final size:28
Alignment explanation
Indices: 713294--713370 Score: 91
Period size: 28 Copynumber: 2.8 Consensus size: 28
713284 ATTTTTCACA
* * *
713294 ATCGAGGATACTCTAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCTCGTTACTTC
*
713322 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCTCGTTACTTC
***
713350 CGAGGGGATACTCCAACCTCG
1 ATCGGGGATACTCCAACCTCG
713371 GCTTTATTTC
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.26
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCTCGTTACTTC
Found at i:713457 original size:79 final size:78
Alignment explanation
Indices: 713326--713558 Score: 243
Period size: 79 Copynumber: 2.9 Consensus size: 78
713316 TATTTCATCG
* *
713326 GGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCTCGGCTTTATTTCCAAAATATTG
1 GGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCTC-GTTTTATTTCCAAAATATTG
**
713391 ATTTCTCATAATTA
65 ATTTCTCATAACCA
* * * * *
713405 GGGATGCTCCAACCTCGTTATTTCCGAGGGGATACTCCAATCTCGATTTTATTTCC-TAATCATC
1 GGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCTCG-TTTTATTTCCAAAAT-ATT
* * *
713469 GATTTTTCACAACCG
64 GATTTCTCATAACCA
* * * * * *
713484 GGGATACTCTAACCCCGTTATTTTCAAGGGGATACTCCAACCCCGTTATTATCTCGAAAATATTA
1 GGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCTCGTT-TTATTTCCAAAATATT-
*
713549 AATTTCTCAT
64 GATTTCTCAT
713559 CAGGACATAT
Statistics
Matches: 123, Mismatches: 26, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
78 6 0.05
79 107 0.87
80 10 0.08
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.33
Consensus pattern (78 bp):
GGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCTCGTTTTATTTCCAAAATATTGA
TTTCTCATAACCA
Found at i:717141 original size:101 final size:101
Alignment explanation
Indices: 716966--717170 Score: 383
Period size: 101 Copynumber: 2.0 Consensus size: 101
716956 GATATGATGA
716966 GTGGAGGGTCCGACGCATCAATGACTCTGTACCCTTGCCAGCCAGCGAAACAGCACCAATGTTAG
1 GTGGAGGGTCCGACGCATCAATGACTCTGTACCCTTGCCAGCCAGCGAAACAGCACCAATGTTAG
717031 TCGGGGAATTCCCTTTTGAAATTTAGTTGCTTAGAC
66 TCGGGGAATTCCCTTTTGAAATTTAGTTGCTTAGAC
* * *
717067 GTGGAGGGTCCGTCGCATCAATGACTTTGTACCCTTGCCTGCCAGCGAAACAGCACCAATGTTAG
1 GTGGAGGGTCCGACGCATCAATGACTCTGTACCCTTGCCAGCCAGCGAAACAGCACCAATGTTAG
717132 TCGGGGAATTCCCTTTTGAAATTTAGTTGCTTAGAC
66 TCGGGGAATTCCCTTTTGAAATTTAGTTGCTTAGAC
717168 GTG
1 GTG
717171 AGTTCGAACA
Statistics
Matches: 101, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
101 101 1.00
ACGTcount: A:0.23, C:0.24, G:0.25, T:0.27
Consensus pattern (101 bp):
GTGGAGGGTCCGACGCATCAATGACTCTGTACCCTTGCCAGCCAGCGAAACAGCACCAATGTTAG
TCGGGGAATTCCCTTTTGAAATTTAGTTGCTTAGAC
Found at i:717191 original size:101 final size:100
Alignment explanation
Indices: 716966--717195 Score: 311
Period size: 101 Copynumber: 2.3 Consensus size: 100
716956 GATATGATGA
* ** *
716966 GTGGAGGGTCCGACGCATCAATGACTCTGTACCCTTGCCAGCCAGCGAAACAGCACCAATGTTAG
1 GTGGA-GGTCCGACGAAAAAATGACTTTGTACCCTTGCCAGCCAGCGAAACAGCACCAATGTTAG
717031 TCGGGGAATTCCCTTTTGAAATTTAGTTGCTTAGAC
65 TCGGGGAATTCCCTTTTGAAATTTAGTTGCTTAGAC
* * ** *
717067 GTGGAGGGTCCGTCGCATCAATGACTTTGTACCCTTGCCTGCCAGCGAAACAGCACCAATGTTAG
1 GTGGA-GGTCCGACGAAAAAATGACTTTGTACCCTTGCCAGCCAGCGAAACAGCACCAATGTTAG
717132 TCGGGGAATTCCCTTTTGAAATTTAGTTGCTTAGAC
65 TCGGGGAATTCCCTTTTGAAATTTAGTTGCTTAGAC
*
717168 GT-GA-GTTCGAACAAGAAAAAATGACTTT
1 GTGGAGGTCCG-AC--GAAAAAATGACTTT
717196 TGCTAGAGAG
Statistics
Matches: 118, Mismatches: 8, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
98 4 0.03
99 1 0.01
100 2 0.02
101 111 0.94
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (100 bp):
GTGGAGGTCCGACGAAAAAATGACTTTGTACCCTTGCCAGCCAGCGAAACAGCACCAATGTTAGT
CGGGGAATTCCCTTTTGAAATTTAGTTGCTTAGAC
Found at i:727087 original size:55 final size:55
Alignment explanation
Indices: 727006--727923 Score: 1018
Period size: 55 Copynumber: 16.3 Consensus size: 55
726996 CTCCTTTCAC
727006 TTTT-CAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * *
727060 CTTCCCAGTCCTTAAAGAGCAGGACGCCTTTCAAAGCCCACATGAA-TTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACA-CAAGTTGGTGGCA
* * * * *
727115 TTTTTCAGTCCTCAAAAAGCAGGATGCCTTTTAAAGCCTACGCAAGTTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
727170 TTTTTCAGTCCTCAAAGAGCAGGACG-CTTTTCAAAGCCCACACAAGTTGGGGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACGCCTTTT-AAAGCCCACACAAGTTGGTGGCA
* *
727225 CCTTT-CAGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 -TTTTCCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * * ** *
727280 CTTCCCAGTCCTCAAAAAGCATGACGCCTTTCAAAGCCCACATGACTTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * *
727335 TTTTCCAATCCTCAAAAAGCAGGACACCATTTAAAGCCCACATAAGTTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA
*
727390 TTTTCCAGTCCTCAAAGAGCAGGACG-CTTTTCAAAGCCCACACAAGTTGCTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACGCCTTTT-AAAGCCCACACAAGTTGGTGGCA
* * * * * * * ** *
727445 CTTCCCAATCCTCAAAAAACAGGACGTCTCTCGAAGCCCACACAAGTTGGTGTCA
1 TTTTCCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
727500 TTTTCCAGTCCTCAAAAAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
727555 TTTTTCAGTCCTCAAAGAGCAGGATACTTTCTCTTTGCAAAGCCCACACAAGTTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGG--AC--GC-CTTT-TAAAGCCCACACAAGTTGGTGGCA
**
727616 CCTTCCAGTCCTCAAAGAGCAGGACGCCTTTCTTTTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACG-C---C-TTTT-AAAGCCCACACAAGTTGGTGGCA
** * *
727677 CCTTCCAGTCCTCAAAGAGCAAGACGCCTTTCCTTTTCAAAGCCCACACGAGTTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACG-----CCTTTT-AAAGCCCACACAAGTTGGTGGCA
* * *
727738 TTTTCCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACTAGTTTGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * **
727793 TTTTCTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCTGCACAAGTTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA
*
727848 TTTTCCAGTCCTCAAAGAGCAGGATGCTTTCTCTTTGCAAAGCCCACACAAGTTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACGC---CT-TTT--AAAGCCCACACAAGTTGGTGGCA
**
727909 CCTTCCAGTCCTCAA
1 TTTTCCAGTCCTCAA
727924 TTCGTCGGAC
Statistics
Matches: 741, Mismatches: 93, Indels: 53
0.84 0.10 0.06
Matches are distributed among these distances:
54 16 0.02
55 510 0.69
56 18 0.02
57 2 0.00
58 3 0.00
59 5 0.01
60 6 0.01
61 179 0.24
62 1 0.00
65 1 0.00
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (55 bp):
TTTTCCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:728710 original size:11 final size:10
Alignment explanation
Indices: 728663--728708 Score: 60
Period size: 10 Copynumber: 4.8 Consensus size: 10
728653 GTTTGGAAGG
728663 AAAAAAAA-T
1 AAAAAAAATT
* *
728672 AATAATAA-T
1 AAAAAAAATT
728681 AAAAAAAATT
1 AAAAAAAATT
728691 AAAAAAAATT
1 AAAAAAAATT
728701 AAAAAAAA
1 AAAAAAAA
728709 ATACATTTTG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
9 13 0.41
10 19 0.59
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (10 bp):
AAAAAAAATT
Found at i:728846 original size:19 final size:18
Alignment explanation
Indices: 728818--728880 Score: 55
Period size: 19 Copynumber: 3.7 Consensus size: 18
728808 AAACCGTAAA
*
728818 TGTATTGATACATAAGTGT
1 TGTATCGATACATAAGT-T
728837 TGTATCGATAC--AA---
1 TGTATCGATACATAAGTT
*
728850 CGTATCGATACATAAGTTT
1 TGTATCGATACATAAG-TT
728869 TGTATCGATACA
1 TGTATCGATACA
728881 ATGTATCGCT
Statistics
Matches: 35, Mismatches: 3, Indels: 12
0.70 0.06 0.24
Matches are distributed among these distances:
13 10 0.29
15 2 0.06
17 2 0.06
19 21 0.60
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (18 bp):
TGTATCGATACATAAGTT
Found at i:728865 original size:32 final size:32
Alignment explanation
Indices: 728819--728888 Score: 113
Period size: 32 Copynumber: 2.2 Consensus size: 32
728809 AACCGTAAAT
*
728819 GTATTGATACATAAGTGTTGTATCGATACAAC
1 GTATCGATACATAAGTGTTGTATCGATACAAC
* *
728851 GTATCGATACATAAGTTTTGTATCGATACAAT
1 GTATCGATACATAAGTGTTGTATCGATACAAC
728883 GTATCG
1 GTATCG
728889 CTATGAAGCT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.36
Consensus pattern (32 bp):
GTATCGATACATAAGTGTTGTATCGATACAAC
Found at i:728931 original size:21 final size:21
Alignment explanation
Indices: 728905--728946 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
728895 AGCTACTGCC
728905 AAGGAAATGTATCGATACATT
1 AAGGAAATGTATCGATACATT
728926 AAGGAAATGTATCGATACATT
1 AAGGAAATGTATCGATACATT
728947 GTATCGATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.10, G:0.19, T:0.29
Consensus pattern (21 bp):
AAGGAAATGTATCGATACATT
Found at i:728951 original size:13 final size:13
Alignment explanation
Indices: 728933--728958 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
728923 ATTAAGGAAA
728933 TGTATCGATACAT
1 TGTATCGATACAT
728946 TGTATCGATACAT
1 TGTATCGATACAT
728959 CGATCTTTGT
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:731400 original size:52 final size:52
Alignment explanation
Indices: 731328--731882 Score: 304
Period size: 52 Copynumber: 10.6 Consensus size: 52
731318 TTAAGTTTCT
*
731328 CAATTGTT-CATAATCAGGGATACTCCAACCTCGATTTTATTTTC-AAAACAC
1 CAATT-TTCCATAATCGGGGATACTCCAACCTCGATTTTATTTTCAAAAACAC
* *
731379 CAATTTTCCTTTAATCGGGGATACTCCAA-CTCCGATTTTATTTCCAAAAACAC
1 CAATTTTCC-ATAATCGGGGATACTCCAACCT-CGATTTTATTTTCAAAAACAC
* *** * ** * *
731432 CAATTTTTCATAATTAAGGATACTACAACCTCG---TTATTTCATCGGGGATACTC
1 CAATTTTCCATAATCGGGGATACTCCAACCTCGATTTTATTT--TC--AAAAACAC
* **** * *
731485 CAACCTCGTTACC-TCCGAGGGGATACTCCAACCTCGGTTTTA-TTTCTAAAACAC
1 CAA--T--TTTCCATAATCGGGGATACTCCAACCTCGATTTTATTTTCAAAAACAC
* *
731539 TAATTTTCCACAATCGGGGATACTCCAACCTC-AGTTTTATTTTC-AAAACAC
1 CAATTTTCCATAATCGGGGATACTCCAACCTCGA-TTTTATTTTCAAAAACAC
* * *
731590 CAATTTTCCTTTAATCGGGGATACTCTAA-CTCCGATTTTATTTCCAAAAACAC
1 CAATTTTCC-ATAATCGGGGATACTCCAACCT-CGATTTTATTTTCAAAAACAC
* * * * * * *
731643 CAATTTTTCACAATCGAGGATACTACAACCTC---TTTATTTCATCAGGGATACTC
1 CAATTTTCCATAATCGGGGATACTCCAACCTCGATTTTATTT--TCA--AAAACAC
** * * * *
731696 CAA--CCCCGTTACCTCCGAGGGGATACTCCAA-CTCTGGTTTTA-TTTCTAAAACAC
1 CAATTTTCC-ATA-AT-C--GGGGATACTCCAACCTC-GATTTTATTTTCAAAAACAC
* * * * *
731750 TAATTTTCCACAATCGGGGATACTCCAACCCCGGTTTTATTTTC-AAAACGC
1 CAATTTTCCATAATCGGGGATACTCCAACCTCGATTTTATTTTCAAAAACAC
* * *
731801 CAATTTTCCTTTAATCGAGGATACTCCAA-CTCCGATTTTATTTCCAAAAACAC
1 CAATTTTCC-ATAATCGGGGATACTCCAACCT-CGATTTTATTTTCAAAAACAC
* * *
731854 CAATTTTTCACAATCGAGGATACTCCAAC
1 CAATTTTCCATAATCGGGGATACTCCAAC
731883 GTTATTATTT
Statistics
Matches: 378, Mismatches: 81, Indels: 88
0.69 0.15 0.16
Matches are distributed among these distances:
49 13 0.03
50 6 0.02
51 86 0.23
52 142 0.38
53 65 0.17
54 14 0.04
55 5 0.01
56 33 0.09
57 3 0.01
58 4 0.01
59 7 0.02
ACGTcount: A:0.30, C:0.26, G:0.11, T:0.32
Consensus pattern (52 bp):
CAATTTTCCATAATCGGGGATACTCCAACCTCGATTTTATTTTCAAAAACAC
Found at i:731708 original size:211 final size:210
Alignment explanation
Indices: 731339--731995 Score: 1032
Period size: 211 Copynumber: 3.1 Consensus size: 210
731329 AATTGTTCAT
*
731339 AATCAGGGATACTCCAACCTCGATTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACT
1 AATCGGGGATACTCCAACCTCG-TTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACT
* ** *
731404 CCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCATAATTAAGGATACTACAACCTCGTTAT
65 CCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTACAACCTCTTTAT
*
731469 TTCATCGGGGATACTCCAACCTCGTTACCTCCGAGGGGATACTCCAACCTCGGTTTTATTTCTAA
130 TTCATCAGGGATACTCCAACCTCGTTACCTCCGAGGGGATACTCCAACCTCGGTTTTATTTCTAA
731534 AACACTAATTTTCCAC
195 AACACTAATTTTCCAC
731550 AATCGGGGATACTCCAACCTCAGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACT
1 AATCGGGGATACTCCAACCTC-GTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACT
*
731615 CTAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTACAACCTCTTTAT
65 CCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTACAACCTCTTTAT
*
731680 TTCATCAGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAA-CTCTGGTTTTATTTCTA
130 TTCATCAGGGATACTCCAACCTCGTTACCTCCGAGGGGATACTCCAACCTC-GGTTTTATTTCTA
731744 AAACACTAATTTTCCAC
194 AAACACTAATTTTCCAC
* * *
731761 AATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATCGAGGATACT
1 AATCGGGGATACTCCAACCTC-GTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACT
* *
731826 CCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACGT-TATTA
65 CCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTACAACCTCT-TTA
* * * *
731890 TTTCATCAGGGATACTCCAACCTTGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTTCCA
129 TTTCATCAGGGATACTCCAACCTCGTTACCTCCGAGGGGATACTCCAACCTCGGTTTTATTTCTA
* * * *
731955 AAATATTGA-TTTCTCAT
194 AAACACTAATTTTC-CAC
* *
731972 AATTGGGGATACTCCAACCCCGTT
1 AATCGGGGATACTCCAACCTCGTT
731996 ATTTTCGAGG
Statistics
Matches: 416, Mismatches: 25, Indels: 11
0.92 0.06 0.02
Matches are distributed among these distances:
210 11 0.03
211 402 0.97
212 3 0.01
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.32
Consensus pattern (210 bp):
AATCGGGGATACTCCAACCTCGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACTC
CAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTACAACCTCTTTATT
TCATCAGGGATACTCCAACCTCGTTACCTCCGAGGGGATACTCCAACCTCGGTTTTATTTCTAAA
ACACTAATTTTCCAC
Found at i:732045 original size:79 final size:79
Alignment explanation
Indices: 731896--732118 Score: 234
Period size: 79 Copynumber: 2.8 Consensus size: 79
731886 ATTATTTCAT
** ** * *
731896 CAGGGATACTCCAACCTTGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTTCCAAAATAT
1 CAGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTTCCAAAATAT
* * *
731961 TGATTTCTCATAAT
66 CGATTTCTCACAAC
** * * *
731975 TGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAATCCCGATTTTATTTCC-TAATCA
1 CAGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTTCCAAAAT-A
*
732039 TCGATTTTTCACAAC
65 TCGATTTCTCACAAC
* * * * *
732054 CAAGGATACTCCAACCCCGTTATTTTCAAGGGGATACCCCAACCCCG-TTATTATCTCCAAAATA
1 CAGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACT-TTATTTCCAAAATA
732118 T
65 T
732119 TAAATTTCTC
Statistics
Matches: 118, Mismatches: 23, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
78 5 0.04
79 110 0.93
80 3 0.03
ACGTcount: A:0.27, C:0.28, G:0.14, T:0.30
Consensus pattern (79 bp):
CAGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTTCCAAAATAT
CGATTTCTCACAAC
Found at i:732638 original size:34 final size:32
Alignment explanation
Indices: 732549--732763 Score: 165
Period size: 27 Copynumber: 7.0 Consensus size: 32
732539 ACACTTTTTA
*
732549 AAGCCCACAACTCCGTGGCAC-C----CTTTT
1 AAGCCCACAACTCCGTGGCACTCTTTTCCTTT
* * *
732576 AAGTCCACGACTCCGTGGCACCCTTTTTTCCTTT
1 AAGCCCACAACTCCGTGGCA--CTCTTTTCCTTT
*
732610 AAAGCCCACAACTACGTGGCACTCTTTTTCCTTTT
1 -AAGCCCACAACTCCGTGGCACTC-TTTTCC-TTT
* * *
732645 AAGTCCACAACTCTGTGGCAC-C--AT--TTT
1 AAGCCCACAACTCCGTGGCACTCTTTTCCTTT
*
732672 AAGCCCACAACTCCGTGGCAC-C--AT--TTT
1 AAGCCCACAACTCCGTGGCACTCTTTTCCTTT
732699 AAGCCCACAACTCCGTGGCA-TCTTTTTCCTTT
1 AAGCCCACAACTCCGTGGCACTC-TTTTCCTTT
*
732731 AAAGCCCACAACTACGTGGCACTCTTTTCCTTT
1 -AAGCCCACAACTCCGTGGCACTCTTTTCCTTT
732764 TAAGTCCATG
Statistics
Matches: 154, Mismatches: 16, Indels: 30
0.77 0.08 0.15
Matches are distributed among these distances:
27 67 0.44
29 1 0.01
30 2 0.01
32 3 0.02
33 31 0.20
34 30 0.19
35 20 0.13
ACGTcount: A:0.22, C:0.34, G:0.13, T:0.30
Consensus pattern (32 bp):
AAGCCCACAACTCCGTGGCACTCTTTTCCTTT
Found at i:732799 original size:123 final size:124
Alignment explanation
Indices: 732544--732786 Score: 404
Period size: 123 Copynumber: 2.0 Consensus size: 124
732534 TAGGGACACT
* * *
732544 TTTTAAAGCCCACAACTCCGTGGCACCCTTTTAAGTCCACGACTCCGTGGCACCCTTTTTTCCTT
1 TTTTAAAGCCCACAACTCCGTGGCACCATTTTAAGCCCACAACTCCGTGGCACCCTTTTTTCCTT
732609 TAAAGCCCACAACTACGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCTGTGGCACCA
66 TAAAGCCCACAACTACGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCTGTGGCACCA
*
732668 TTTT-AAGCCCACAACTCCGTGGCACCATTTTAAGCCCACAACTCCGTGGCA-TC-TTTTTCCTT
1 TTTTAAAGCCCACAACTCCGTGGCACCATTTTAAGCCCACAACTCCGTGGCACCCTTTTTTCCTT
**
732730 TAAAGCCCACAACTACGTGGCACTC-TTTTCCTTTTAAGTCCATGACTCTGTGGCACC
66 TAAAGCCCACAACTACGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCTGTGGCACC
732787 TTCTTCTAAA
Statistics
Matches: 113, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
120 30 0.27
121 34 0.30
122 1 0.01
123 44 0.39
124 4 0.04
ACGTcount: A:0.22, C:0.33, G:0.14, T:0.31
Consensus pattern (124 bp):
TTTTAAAGCCCACAACTCCGTGGCACCATTTTAAGCCCACAACTCCGTGGCACCCTTTTTTCCTT
TAAAGCCCACAACTACGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCTGTGGCACCA
Found at i:732822 original size:33 final size:33
Alignment explanation
Indices: 732779--732897 Score: 158
Period size: 33 Copynumber: 3.7 Consensus size: 33
732769 CCATGACTCT
*
732779 GTGGC-ACCTTCTTCTAAAGCCTACACAAGTCG
1 GTGGCAACCTTCTTCTAAAGCCCACACAAGTCG
* *
732811 GTGGCAACCTTCTTCCAAAACCCACACAAGTCG
1 GTGGCAACCTTCTTCTAAAGCCCACACAAGTCG
*
732844 GTGGCAACC-ACTCTCTAAAGCCCACACAAGTCG
1 GTGGCAACCTTCT-TCTAAAGCCCACACAAGTCG
732877 GTGGCAACC--CTTCT-AAGCCCA
1 GTGGCAACCTTCTTCTAAAGCCCA
732898 ATATAGCTGG
Statistics
Matches: 79, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
30 7 0.09
31 3 0.04
32 9 0.11
33 60 0.76
ACGTcount: A:0.28, C:0.35, G:0.18, T:0.19
Consensus pattern (33 bp):
GTGGCAACCTTCTTCTAAAGCCCACACAAGTCG
Found at i:732948 original size:49 final size:49
Alignment explanation
Indices: 732890--733682 Score: 1005
Period size: 49 Copynumber: 16.7 Consensus size: 49
732880 GCAACCCTTC
* * * *
732890 TAAGCCCAATATAGCTGGCCCTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
732939 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACC-TCACCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
732987 TAAGTCCAATGTATCTGGCCTTGACTCAGCACATTGGCA-C--CATC--
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
733031 -AAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
733079 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA-C--CA---T
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
733122 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
733171 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA-C--CA---T
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
733214 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
733263 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCAT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
733312 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
733361 TAAGACCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCAT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
733410 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
733459 TAAGACCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
733508 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCACCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
733556 TAAGTCCAGTGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
733599 TAAGTCCAATATAGCTGGCCTTGAATCAGCATA-T-GC-CTTTTCCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC-CTT-CATCTT
*
733647 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTG
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTG
733683 ACATCCTTTT
Statistics
Matches: 646, Mismatches: 70, Indels: 55
0.84 0.09 0.07
Matches are distributed among these distances:
41 2 0.00
42 1 0.00
43 141 0.22
44 3 0.00
45 1 0.00
46 11 0.02
47 1 0.00
48 123 0.19
49 363 0.56
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (49 bp):
TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
Found at i:733338 original size:98 final size:97
Alignment explanation
Indices: 732890--733682 Score: 1114
Period size: 98 Copynumber: 8.4 Consensus size: 97
732880 GCAACCCTTC
* * * * * * * *
732890 TAAGCCCAATATAGCTGGCCCTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACC-TCACCATTAAGTCCAATATAGCT
* * * *
732955 GGCCTTGACTCAGCACATTGGCACC-TCACCTT
65 GGCCTTGAATCAGCATATTGGCACCTTTATCTT
* *
732987 TAAGTCCAATGTATCTGGCCTTGACTCAGCACATTGG-----CACCATCAAGTCCAATATAGCTG
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTCACCATTAAGTCCAATATAGCTG
733047 GCCTTGAATCAGCATATTGGCACCTTTATCTT
66 GCCTTGAATCAGCATATTGGCACCTTTATCTT
733079 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGG-----CACCATTAAGTCCAATATAGCTG
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTCACCATTAAGTCCAATATAGCTG
733139 GCCTTGAATCAGCATATTGGCACCTTTATCTT
66 GCCTTGAATCAGCATATTGGCACCTTTATCTT
733171 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGG-----CACCATTAAGTCCAATATAGCTG
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTCACCATTAAGTCCAATATAGCTG
733231 GCCTTGAATCAGCATATTGGCACCTTTATCTT
66 GCCTTGAATCAGCATATTGGCACCTTTATCTT
733263 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGTCCAATATAGCT
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACC-TCACCATTAAGTCCAATATAGCT
733328 GGCCTTGAATCAGCATATTGGCACCTTTATCTT
65 GGCCTTGAATCAGCATATTGGCACCTTTATCTT
*
733361 TAAGACCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGTCCAATATAGCT
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACC-TCACCATTAAGTCCAATATAGCT
733426 GGCCTTGAATCAGCATATTGGCACCTTTATCTT
65 GGCCTTGAATCAGCATATTGGCACCTTTATCTT
* * * *
733459 TAAGACCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACC-TCACCATTAAGTCCAATATAGCT
* * *
733524 GGCCTTGAATCAGCACATTGGCACC-TCACCTT
65 GGCCTTGAATCAGCATATTGGCACCTTTATCTT
* *
733556 TAAGTCCAGTGTAGCTGGCCTTGAATCAGCACATTGGCACCT-----TTAAGTCCAATATAGCTG
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTCACCATTAAGTCCAATATAGCTG
*
733616 GCCTTGAATCAGCATA-T-GC-CTTTTCCATCTT
66 GCCTTGAATCAGCATATTGGCACCTTT--ATCTT
* *
733647 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTG
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTG
733683 ACATCCTTTT
Statistics
Matches: 653, Mismatches: 33, Indels: 26
0.92 0.05 0.04
Matches are distributed among these distances:
88 1 0.00
89 3 0.00
90 1 0.00
91 111 0.17
92 224 0.34
96 1 0.00
97 74 0.11
98 238 0.36
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (97 bp):
TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTCACCATTAAGTCCAATATAGCTG
GCCTTGAATCAGCATATTGGCACCTTTATCTT
Found at i:733803 original size:67 final size:68
Alignment explanation
Indices: 733695--733821 Score: 166
Period size: 67 Copynumber: 1.9 Consensus size: 68
733685 ATCCTTTTTC
* * * *
733695 TCATCTTTAAGCCCAATATCATTGGTCGTGAATCAACATATTGGCATCTTTATCA-CTTTTCTCA
1 TCATCTTTAAGCCCAATATCACTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTTTCTCA
733759 TCT
66 TCT
* ** * *
733762 TCATCTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTCATCATCTTT
1 TCATCTTTAAGCCCAATATCACTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTT
733822 AAAACCCAGT
Statistics
Matches: 50, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
67 46 0.92
68 4 0.08
ACGTcount: A:0.24, C:0.24, G:0.12, T:0.39
Consensus pattern (68 bp):
TCATCTTTAAGCCCAATATCACTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTTTCTCA
TCT
Found at i:734603 original size:13 final size:13
Alignment explanation
Indices: 734585--734609 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
734575 CATAAAGTGT
734585 TGTATCGATACAA
1 TGTATCGATACAA
734598 TGTATCGATACA
1 TGTATCGATACA
734610 TATTTTTTTG
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:734603 original size:33 final size:33
Alignment explanation
Indices: 734565--734631 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
734555 TTCAACAATT
734565 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
734598 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
734631 T
1 T
734632 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:734669 original size:13 final size:13
Alignment explanation
Indices: 734651--734675 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
734641 TGCCAAAAAA
734651 TGTATCGATACAT
1 TGTATCGATACAT
734664 TGTATCGATACA
1 TGTATCGATACA
734676 CTGATCTTTG
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:734800 original size:52 final size:52
Alignment explanation
Indices: 734684--734808 Score: 196
Period size: 52 Copynumber: 2.4 Consensus size: 52
734674 CACTGATCTT
* * *
734684 TGTATCGATACAAGCAGGAAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
734736 TGTATCGATACATGCAGGCAAATTTGCCTAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
734788 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
734809 CTTTTCATAT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.38, C:0.17, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:742636 original size:520 final size:520
Alignment explanation
Indices: 741655--742692 Score: 1806
Period size: 520 Copynumber: 2.0 Consensus size: 520
741645 ACTTGATAGA
* *
741655 ATCAAGCCTTGCAATTAGCCATGTGGTATGATACAACATGTACTACCTGAGTCTTTTAGCTGTCC
1 ATCAAGCCTTGCAATTAGCCATGTGGTATGATACAACATGTACTACCTCAATCTTTTAGCTGTCC
* *
741720 AAACCAAGGCACAACATAACTTCTCGAATGCAGGGTAATTGCACTCGCATTTTGTGAATTTTTTG
66 AAACCAAGGCACAACATAACTTCTCGAATGCAGGGAAATTGCACTCGCATTCTGTGAATTTTTTG
* * *
741785 CTTAAGTAGTAGATTGCTTGTTCCTTCCTTCCTACCTCATCATGTTTCCCCAATACACAACCCAT
131 CTTAAATAGTAGATTACTTGTTCCTTCCTTCCTACCTCATCATGTTGCCCCAATACACAACCCAT
*
741850 AGATTTATCAAAAATTGCCAAATAAAGGATTAAAGGACAACCAAGCACCGGCGGTATCAACAATT
196 AGATTTATCAAAAACTGCCAAATAAAGGATTAAAGGACAACCAAGCACCGGCGGTATCAACAATT
* *
741915 GGCGGGTTTGACAAATAATGCTTGACCTTATCAAAAGCTTCTTGGCAAGCCTTATTCCACTCTCC
261 GGCGGGTTTGACAAATAATGCTTGACCTTATCAAAAACTTCTTAGCAAGCCTTATTCCACTCTCC
* *
741980 TGGATTTTGTTTTCAAAAGAGTCGAAAAATGGGGTCGCATTTGTTGGTGAGCTGGGATATAAATC
326 TGGATTTTGCTTTCAAAAGAGTCAAAAAATGGGGTCGCATTTGTTGGTGAGCTGGGATATAAATC
* * *
742045 TAGCTATGTAGTTCAATATCCATAAAGAGCTTCTCACCTCCTTTTGAGTTTAAGGCGGTGGCATA
391 TAGCTATGTAGTTCAACATCCATAAAAAGCTTCTCACCTCCTTTTGAGTTTAAAGCGGTGGCATA
742110 TCTTGAATGGCTTTAACTTTGTCTGGGTCAACTTCTATCGCTTTTTCACTGACTATGAAGCCTCG
456 TCTTGAATGGCTTTAACTTTGTCTGGGTCAACTTCTATCGCTTTTTCACTGACTATGAAGCCTCG
*
742175 ATCAAGCCTTGCAGTTAGCCATGTGGTATGATACAACATGTACTACCTCAATCTTTTAGCTGTCC
1 ATCAAGCCTTGCAATTAGCCATGTGGTATGATACAACATGTACTACCTCAATCTTTTAGCTGTCC
* * * * *
742240 AAACTAAGGCATAACATAACTTTTCGATTGCAGGGAAATTGCACTTGCATTCTGTGAATTTTTTG
66 AAACCAAGGCACAACATAACTTCTCGAATGCAGGGAAATTGCACTCGCATTCTGTGAATTTTTTG
742305 CTTAAATAGTAGATTACTTGTTCCTTCCTTCCTACCTCATCATGTTGCCCCAATACACAACCCAT
131 CTTAAATAGTAGATTACTTGTTCCTTCCTTCCTACCTCATCATGTTGCCCCAATACACAACCCAT
* * *
742370 AGATTTATCAAAGACTGCCAAATAAAGGATTAAAGGACGACCAAGCATCGGCGGTATCAACAATT
196 AGATTTATCAAAAACTGCCAAATAAAGGATTAAAGGACAACCAAGCACCGGCGGTATCAACAATT
* ** *
742435 GGTGGGTTTGACGGATAATGCTTGACCTTATCAAAAACTTCTTAGCAAGTCTTATTCCACTCTCC
261 GGCGGGTTTGACAAATAATGCTTGACCTTATCAAAAACTTCTTAGCAAGCCTTATTCCACTCTCC
742500 TGGATTTTGCTTTCAAAAGAGTCAAAAAATGGGGTCGCATTTGTTGGTGAGCTGGGATATAAATC
326 TGGATTTTGCTTTCAAAAGAGTCAAAAAATGGGGTCGCATTTGTTGGTGAGCTGGGATATAAATC
*
742565 TAGCTATGTAGTTCAACATCCATAAAAAGCTTCTCACCTCTTTTTGAGTTTAAAGCGGTGGCATA
391 TAGCTATGTAGTTCAACATCCATAAAAAGCTTCTCACCTCCTTTTGAGTTTAAAGCGGTGGCATA
*
742630 TCTTGAATGGCTTTAACTTTGTCTGGGTCAACTTCTATCTCTTTTTCACTGACTATGAAGCCT
456 TCTTGAATGGCTTTAACTTTGTCTGGGTCAACTTCTATCGCTTTTTCACTGACTATGAAGCCT
742693 AGCAGCTTGC
Statistics
Matches: 488, Mismatches: 30, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
520 488 1.00
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (520 bp):
ATCAAGCCTTGCAATTAGCCATGTGGTATGATACAACATGTACTACCTCAATCTTTTAGCTGTCC
AAACCAAGGCACAACATAACTTCTCGAATGCAGGGAAATTGCACTCGCATTCTGTGAATTTTTTG
CTTAAATAGTAGATTACTTGTTCCTTCCTTCCTACCTCATCATGTTGCCCCAATACACAACCCAT
AGATTTATCAAAAACTGCCAAATAAAGGATTAAAGGACAACCAAGCACCGGCGGTATCAACAATT
GGCGGGTTTGACAAATAATGCTTGACCTTATCAAAAACTTCTTAGCAAGCCTTATTCCACTCTCC
TGGATTTTGCTTTCAAAAGAGTCAAAAAATGGGGTCGCATTTGTTGGTGAGCTGGGATATAAATC
TAGCTATGTAGTTCAACATCCATAAAAAGCTTCTCACCTCCTTTTGAGTTTAAAGCGGTGGCATA
TCTTGAATGGCTTTAACTTTGTCTGGGTCAACTTCTATCGCTTTTTCACTGACTATGAAGCCTCG
Found at i:746477 original size:13 final size:13
Alignment explanation
Indices: 746459--746483 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
746449 CATAAAGTGT
746459 TGTATCGATACAG
1 TGTATCGATACAG
746472 TGTATCGATACA
1 TGTATCGATACA
746484 TAAGTGTTGT
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:0.20, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:746494 original size:32 final size:32
Alignment explanation
Indices: 746439--746539 Score: 166
Period size: 32 Copynumber: 3.1 Consensus size: 32
746429 TTCAACGATT
*
746439 TGTATCGATACATAAAGTGTTGTATCGATACAG
1 TGTATCGATACAT-AAGTGTTGTATCGATACAA
746472 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
* *
746504 TGTATTGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
746536 TGTA
1 TGTA
746540 AGGTATTGCC
Statistics
Matches: 65, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 52 0.80
33 13 0.20
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:746496 original size:19 final size:19
Alignment explanation
Indices: 746438--746534 Score: 83
Period size: 19 Copynumber: 5.7 Consensus size: 19
746428 TTTCAACGAT
746438 TTGTATCGATACATAAAGTG
1 TTGTATCGATACAT-AAGTG
746458 TTGTATCGATAC---A--G
1 TTGTATCGATACATAAGTG
746472 -TGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
746490 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
* *
746504 -TGTATTGATACATAAGTT
1 TTGTATCGATACATAAGTG
746522 TTGTATCGATACA
1 TTGTATCGATACA
746535 ATGTAAGGTA
Statistics
Matches: 63, Mismatches: 2, Indels: 25
0.70 0.02 0.28
Matches are distributed among these distances:
13 21 0.33
14 1 0.02
15 2 0.03
16 2 0.03
17 2 0.03
18 1 0.02
19 22 0.35
20 12 0.19
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:746596 original size:13 final size:13
Alignment explanation
Indices: 746578--746605 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
746568 ATTACTCAAA
746578 TGTATCGATACAT
1 TGTATCGATACAT
746591 TGTATCGATACAT
1 TGTATCGATACAT
746604 TG
1 TG
746606 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:746667 original size:52 final size:52
Alignment explanation
Indices: 746611--746791 Score: 317
Period size: 52 Copynumber: 3.5 Consensus size: 52
746601 CATTGATCTT
* *
746611 TGTATCGATACATGCAGGTAAATTTGCCCAGATGTATCGATACAATATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
746663 TGTATCGATACATGCAGGAAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
746715 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTGTCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
746767 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
746792 TCATATTTTG
Statistics
Matches: 124, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 124 1.00
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:760637 original size:16 final size:16
Alignment explanation
Indices: 760615--760744 Score: 119
Period size: 16 Copynumber: 8.1 Consensus size: 16
760605 GTCCTCCACA
*
760615 AAAAAAACCAAATAAAC
1 AAAAAAA-CAAAAAAAC
760632 -AAAAAACAAAAAAA-
1 AAAAAAACAAAAAAAC
*
760646 AACAAAACAAACAAAA-
1 AAAAAAACAAA-AAAAC
760662 AACAAAAACAAAAAAAC
1 AA-AAAAACAAAAAAAC
760679 AAAAAAACAAACAAAA-
1 AAAAAAACAAA-AAAAC
*
760695 AACAAAAA-ACAAAAAC
1 AA-AAAAACAAAAAAAC
**
760711 AAAAAAACAAAGGAA-
1 AAAAAAACAAAAAAAC
760726 AAAAAAACAAAAACAAC
1 AAAAAAACAAAAA-AAC
760743 AA
1 AA
760745 CAACAAAAAG
Statistics
Matches: 94, Mismatches: 9, Indels: 20
0.76 0.07 0.16
Matches are distributed among these distances:
15 36 0.38
16 37 0.39
17 21 0.22
ACGTcount: A:0.83, C:0.15, G:0.02, T:0.01
Consensus pattern (16 bp):
AAAAAAACAAAAAAAC
Found at i:760643 original size:26 final size:24
Alignment explanation
Indices: 760612--760752 Score: 132
Period size: 26 Copynumber: 5.8 Consensus size: 24
760602 GCAGTCCTCC
*
760612 ACAAAAAAAACCAAATAAACAAAAA
1 ACAAAAAAAAACAAA-AAACAAAAA
760637 ACAAAAAAAAACAAAACAAACAAAAA
1 ACAAAAAAAAAC-AAA-AAACAAAAA
* *
760663 ACAAAAACAAA-AAAACA-AAAAA
1 ACAAAAAAAAACAAAAAACAAAAA
760685 ACAAACAAAAAACAAAAAAC-AAAA
1 ACAAA-AAAAAACAAAAAACAAAAA
760709 AC--AAAAAAACAAAGGAAA-AAAAA
1 ACAAAAAAAAACAAA--AAACAAAAA
760732 ACAAAAACAACAACAACAAAA
1 ACAAAAA-AA-AACAA-AAAA
760753 AGGGTCCGGA
Statistics
Matches: 98, Mismatches: 6, Indels: 23
0.77 0.05 0.18
Matches are distributed among these distances:
21 10 0.10
22 11 0.11
23 16 0.16
24 14 0.14
25 14 0.14
26 27 0.28
27 5 0.05
28 1 0.01
ACGTcount: A:0.82, C:0.16, G:0.01, T:0.01
Consensus pattern (24 bp):
ACAAAAAAAAACAAAAAACAAAAA
Found at i:760676 original size:40 final size:39
Alignment explanation
Indices: 760628--760753 Score: 161
Period size: 40 Copynumber: 3.2 Consensus size: 39
760618 AAAACCAAAT
760628 AAAC-AAAAAACAAAAAAAAACAAAACAAACAAAAAACAA
1 AAACAAAAAAACAAAAAAAAA-AAAACAAACAAAAAACAA
760667 AAACAAAAAAACAAAAAAACAAACAAA-AAACAAAAAACAA
1 AAACAAAAAAACAAAAAAA-AAA-AAACAAACAAAAAACAA
* *
760707 AAACAAAAAAACAAAGGAAAAAAAAAC-AA-AAACAACAA
1 AAACAAAAAAACAAA-AAAAAAAAAACAAACAAAAAACAA
*
760745 CAACAAAAA
1 AAACAAAAA
760754 GGGTCCGGAT
Statistics
Matches: 79, Mismatches: 3, Indels: 11
0.85 0.03 0.12
Matches are distributed among these distances:
38 16 0.20
39 9 0.11
40 46 0.58
41 8 0.10
ACGTcount: A:0.83, C:0.15, G:0.02, T:0.00
Consensus pattern (39 bp):
AAACAAAAAAACAAAAAAAAAAAAACAAACAAAAAACAA
Found at i:760728 original size:33 final size:32
Alignment explanation
Indices: 760614--760751 Score: 158
Period size: 33 Copynumber: 4.3 Consensus size: 32
760604 AGTCCTCCAC
* *
760614 AAAAAA-AACCAAATAAACAAAAAACAAAAAAA
1 AAAAAACAAACAAA-AAACAAAAAACAAAAACA
*
760646 AACAAAACAAACAAAAAACAAAAACAAAAAAACA
1 AA-AAAACAAACAAAAAACAAAAA-ACAAAAACA
760680 AAAAAACAAACAAAAAACAAAAAACAAAAACA
1 AAAAAACAAACAAAAAACAAAAAACAAAAACA
**
760712 AAAAAAC-AA-AGGAAA-AAAAAACAAAAACA
1 AAAAAACAAACAAAAAACAAAAAACAAAAACA
*
760741 ACAACAACAAA
1 A-AAAAACAAA
760752 AAGGGTCCGG
Statistics
Matches: 94, Mismatches: 7, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
29 15 0.16
30 9 0.10
31 4 0.04
32 17 0.18
33 34 0.36
34 15 0.16
ACGTcount: A:0.83, C:0.15, G:0.01, T:0.01
Consensus pattern (32 bp):
AAAAAACAAACAAAAAACAAAAAACAAAAACA
Found at i:760753 original size:1 final size:1
Alignment explanation
Indices: 760632--760738 Score: 70
Period size: 1 Copynumber: 107.0 Consensus size: 1
760622 CCAAATAAAC
* * * * * * * * *
760632 AAAAAACAAAAAAAAACAAAACAAACAAAAAACAAAAACAAAAAAACAAAAAAACAAACAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * ** *
760697 CAAAAAACAAAAACAAAAAAACAAAGGAAAAAAAAACAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
760739 CAACAACAAC
Statistics
Matches: 76, Mismatches: 30, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 76 1.00
ACGTcount: A:0.85, C:0.13, G:0.02, T:0.00
Consensus pattern (1 bp):
A
Found at i:760755 original size:32 final size:30
Alignment explanation
Indices: 760632--760754 Score: 117
Period size: 30 Copynumber: 4.0 Consensus size: 30
760622 CCAAATAAAC
*
760632 AAAAAACAAAAAAAAACAAAACAAACAAAAA-
1 AAAAAA-AAACAAAAACAAAAC-AACAAAAAG
* * *
760663 ACAAAAACAA-AAAAACAAAAAAACAAACAAA
1 A-AAAAAAAACAAAAACAAAACAACAAA-AAG
* *
760694 AAACAAAAAACAAAAACAAAAAAAC-AAAGG
1 AAA-AAAAAACAAAAACAAAACAACAAAAAG
760724 AAAAAAAAACAAAAACAACAACAACAAAAAG
1 AAAAAAAAACAAAAACAA-AACAACAAAAAG
760755 GGTCCGGATG
Statistics
Matches: 78, Mismatches: 7, Indels: 14
0.79 0.07 0.14
Matches are distributed among these distances:
29 21 0.27
30 23 0.29
31 15 0.19
32 19 0.24
ACGTcount: A:0.83, C:0.15, G:0.02, T:0.00
Consensus pattern (30 bp):
AAAAAAAAACAAAAACAAAACAACAAAAAG
Found at i:762309 original size:58 final size:57
Alignment explanation
Indices: 762190--762723 Score: 500
Period size: 58 Copynumber: 9.2 Consensus size: 57
762180 TCACCCTTCA
* * *
762190 AAAGCCCACAAGTTAGTGGCAACCTTC-AAAGCCCATAAATCAGTGGCAACCTTTTCCC
1 AAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCAACCTTTT--C
762248 AAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGC-ACTCTTTTTC
1 AAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCAAC-C-TTTTC
* * *
762306 AAAGCCCACAAATCAGTGGCACCCTTCTCCCAAAGCCCACAAGTCAGTGGCAACC--TTC
1 AAAGCCCACAAGTCAGTGGCAACC-T-T-CAAAAGCCCACAAGTCAGTGGCAACCTTTTC
* * *
762364 AAAAGCCCACAAATCAGTGGCACCCTTCTCCCAAAGCCCACAAGTCAGTGGCAACC--TTC
1 -AAAGCCCACAAGTCAGTGGCAACC-T-T-CAAAAGCCCACAAGTCAGTGGCAACCTTTTC
* * *
762423 AAAGCCCACAAATCAGTGGCACCCTTTTCCTAAAGCCCACAAGTCAGTGGCAACC--TTC
1 AAAGCCCACAAGTCAGTGGCAACC--TT-CAAAAGCCCACAAGTCAGTGGCAACCTTTTC
* * * *
762481 AAAAGCCCACAAGTCAGTTGC-ACTCTTTTTC-AAAGCCCACAAATCAGTGGCACCCTTCTCCC
1 -AAAGCCCACAAGTCAGTGGCAAC-C---TTCAAAAGCCCACAAGTCAGTGGCAACCTT-T-TC
*
762543 AAAGCCCACAAGTCAGTGGCAACC-TCAAAAGCCCACAAGTCAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCAACCTTTT-C
* * * * * *
762600 AAAGCCTATAAGTCAGTGCCAACCTTCAAAAGCCCACAAGTTAGTGG-TATCTTTTC
1 AAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCAACCTTTTC
* * ** * *
762656 AAAAGCCTACAAGTCAGTGGCAACCTTCAAAAGCACACAAGTTGGT-GCAACCCTATC
1 -AAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCAACCTTTTC
762713 AAGAGCCCACA
1 AA-AGCCCACA
762724 CAAGTCGCTG
Statistics
Matches: 421, Mismatches: 32, Indels: 47
0.84 0.06 0.09
Matches are distributed among these distances:
56 4 0.01
57 83 0.20
58 177 0.42
59 100 0.24
60 9 0.02
61 43 0.10
62 5 0.01
ACGTcount: A:0.32, C:0.33, G:0.16, T:0.19
Consensus pattern (57 bp):
AAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCAACCTTTTC
Found at i:762337 original size:89 final size:86
Alignment explanation
Indices: 762184--762682 Score: 546
Period size: 89 Copynumber: 5.7 Consensus size: 86
762174 TATTCCTCAC
* * *
762184 CCTTCAAAAGCCCACAAGTTAGTGGCAACCTTC-AAAGCCCATAAATCAGTGGCAACCTTTTCCC
1 CCTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCAACC-TTTCCC
762248 AAAGCCCACAAGTCAGTGGCAA
65 AAAGCCCACAAGTCAGTGGCAA
* *
762270 CCTTCAAAAGCCCACAAGTCAGTGGC-ACTCTTTTTC-AAAGCCCACAAATCAGTGGCACCCTTC
1 CCTTCAAAAGCCCACAAGTCAGTGGCAAC-C---TTCAAAAGCCCACAAGTCAGTGGCAACCTT-
762333 TCCCAAAGCCCACAAGTCAGTGGCAA
61 TCCCAAAGCCCACAAGTCAGTGGCAA
* * *
762359 CCTTCAAAAGCCCACAAATCAGTGGCACCCTTCTCCCAAAGCCCACAAGTCAGTGGCAACC-TT-
1 CCTTCAAAAGCCCACAAGTCAGTGGCAACC-T-T-CAAAAGCCCACAAGTCAGTGGCAACCTTTC
* *
762422 -CAAAGCCCACAAATCAGTGGCAC
63 CCAAAGCCCACAAGTCAGTGGCAA
* *
762445 CCTTTTCCTAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTTGC-ACTCTTT
1 CC--TT-CAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCAAC-CTTT
** * *
762509 TTCAAAGCCCACAAATCAGTGGCAC
62 CCCAAAGCCCACAAGTCAGTGGCAA
* * *
762534 CCTTCTCCCAAAGCCCACAAGTCAGTGGCAACC-TCAAAAGCCCACAAGTCAGTGGCACCCTTTT
1 CC-T-T-CAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCAACCTTTC
* * *
762598 CCAAAGCCTATAAGTCAGTGCCAA
63 CCAAAGCCCACAAGTCAGTGGCAA
* * * * *
762622 CCTTCAAAAGCCCACAAGTTAGTGGTATCTTTTCAAAAGCCTACAAGTCAGTGGCAACCTT
1 CCTTCAAAAGCCCACAAGTCAGTGGCAAC-CTTCAAAAGCCCACAAGTCAGTGGCAACCTT
762683 CAAAAGCACA
Statistics
Matches: 363, Mismatches: 30, Indels: 39
0.84 0.07 0.09
Matches are distributed among these distances:
85 25 0.07
86 71 0.20
87 33 0.09
88 56 0.15
89 155 0.43
90 23 0.06
ACGTcount: A:0.31, C:0.33, G:0.16, T:0.20
Consensus pattern (86 bp):
CCTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCAACCTTTCCCA
AAGCCCACAAGTCAGTGGCAA
Found at i:762544 original size:206 final size:203
Alignment explanation
Indices: 762190--762697 Score: 820
Period size: 206 Copynumber: 2.5 Consensus size: 203
762180 TCACCCTTCA
* * *
762190 AAAGCCCACAAGTTAGTGGCAACCTTCAAAGCCCATAAATCAGTGGCAACCTTTTCCCAAAGCCC
1 AAAGCCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAATCAGTGGC-ACCTTTTCCAAAAGCCC
762255 ACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCACTCTTTTTCAAAGCCCACAAATC
65 ACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCACTCTTTTTCAAAGCCCACAAATC
762320 AGTGGCACCCTTCTCCCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAATCAGTGGC
130 AGTGGCACCCTTCTCCCAAAGCCCACAAGTCAGTGGCAACC-TCAAAAGCCCACAAATCAGTGGC
762385 ACCCTTCTCCC
194 ACCCTT-TCCC
*
762396 AAAGCCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAATCAGTGGCACCCTTTTCCTAAAGCCC
1 AAAGCCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAATCAGTGGCA-CCTTTTCCAAAAGCCC
*
762461 ACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTTGCACTCTTTTTCAAAGCCCACAAATC
65 ACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCACTCTTTTTCAAAGCCCACAAATC
*
762526 AGTGGCACCCTTCTCCCAAAGCCCACAAGTCAGTGGCAACCTCAAAAGCCCACAAGTCAGTGGCA
130 AGTGGCACCCTTCTCCCAAAGCCCACAAGTCAGTGGCAACCTCAAAAGCCCACAAATCAGTGGCA
*
762591 CCCTTTTCC
195 CCCTTTCCC
* * * * * * * *
762600 AAAGCCTATAAGTCAGTGCCAACCTTCAAAAGCCCACAAGTTAGTGGTATCTTTT-CAAAAGCCT
1 AAAGCCCACAAGTCAGTGGCAACCTTC-AAAGCCCACAAATCAGTGGCACCTTTTCCAAAAGCCC
*
762664 ACAAGTCAGTGGCAACCTTCAAAAGCACACAAGT
65 ACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGT
762698 TGGTGCAACC
Statistics
Matches: 284, Mismatches: 16, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
203 40 0.14
204 32 0.11
205 47 0.17
206 165 0.58
ACGTcount: A:0.32, C:0.33, G:0.16, T:0.19
Consensus pattern (203 bp):
AAAGCCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAATCAGTGGCACCTTTTCCAAAAGCCCA
CAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCACTCTTTTTCAAAGCCCACAAATCA
GTGGCACCCTTCTCCCAAAGCCCACAAGTCAGTGGCAACCTCAAAAGCCCACAAATCAGTGGCAC
CCTTTCCC
Found at i:762802 original size:49 final size:49
Alignment explanation
Indices: 762727--762992 Score: 312
Period size: 49 Copynumber: 5.5 Consensus size: 49
762717 GCCCACACAA
*
762727 GTCGCTGGCCTTGAATCAGCATATTGGCACCGTCATCTTTAAGTCCAAT
1 GTCGCTGGCCTTGAATCAGCACATTGGCACCGTCATCTTTAAGTCCAAT
* *
762776 GTCGCTGGCCTTGAACCAACACATTGGCA----C--CTTTAAGTCCAAT
1 GTCGCTGGCCTTGAATCAGCACATTGGCACCGTCATCTTTAAGTCCAAT
* * * * *
762819 ATCGCTGGCTTTGAATCAGCATATTGGCACCATCATCTTTAAGACCAAT
1 GTCGCTGGCCTTGAATCAGCACATTGGCACCGTCATCTTTAAGTCCAAT
* * **
762868 GTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCGGT
1 GTCGCTGGCCTTGAATCAGCACATTGGCACCGTCATCTTTAAGTCCAAT
* * *
762917 ATCGCTGGCTTTGAATCAGCATATTGGCACCGTCATCTTTAAGAT-CAAT
1 GTCGCTGGCCTTGAATCAGCACATTGGCACCGTCATCTTTAAG-TCCAAT
* *
762966 GTCGCTAGGCCATGAAGCAGCACATTG
1 GTCGCT-GGCCTTGAATCAGCACATTG
762993 TCATTCTTCG
Statistics
Matches: 180, Mismatches: 29, Indels: 15
0.80 0.13 0.07
Matches are distributed among these distances:
43 37 0.21
45 1 0.01
47 1 0.01
49 124 0.69
50 17 0.09
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.29
Consensus pattern (49 bp):
GTCGCTGGCCTTGAATCAGCACATTGGCACCGTCATCTTTAAGTCCAAT
Found at i:762946 original size:98 final size:96
Alignment explanation
Indices: 762728--763001 Score: 385
Period size: 92 Copynumber: 2.9 Consensus size: 96
762718 CCCACACAAG
* *
762728 TCGCTGGCCTTGAATCAGCATATTGGCACCGTCATCTTTAAGTCCAATGTCGCTGGCCTTGAACC
1 TCGCTGGCTTTGAATCAGCATATTGGCACCGTCATCTTTAAGACCAATGTCGCTGGCCTTGAACC
*
762793 AACACATTGGCA----CCTTTAAGTCCAATA
66 AGCACATTGGCATCTTCCTTTAAGTCCAATA
* *
762820 TCGCTGGCTTTGAATCAGCATATTGGCACCATCATCTTTAAGACCAATGTCGCTGGCCTTGAATC
1 TCGCTGGCTTTGAATCAGCATATTGGCACCGTCATCTTTAAGACCAATGTCGCTGGCCTTGAACC
**
762885 AGCACATTGGCATCTTCATCTTTAAGTCCGGTA
66 AGCACATTGGCATCTTC--CTTTAAGTCCAATA
* * *
762918 TCGCTGGCTTTGAATCAGCATATTGGCACCGTCATCTTTAAGATCAATGTCGCTAGGCCATGAAG
1 TCGCTGGCTTTGAATCAGCATATTGGCACCGTCATCTTTAAGACCAATGTCGCT-GGCCTTGAAC
*
762983 CAGCACATTGTCATTCTTC
65 CAGCACATTGGCA-TCTTC
763002 GCATCTTCGA
Statistics
Matches: 162, Mismatches: 12, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
92 72 0.44
96 1 0.01
98 64 0.40
99 20 0.12
100 5 0.03
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.30
Consensus pattern (96 bp):
TCGCTGGCTTTGAATCAGCATATTGGCACCGTCATCTTTAAGACCAATGTCGCTGGCCTTGAACC
AGCACATTGGCATCTTCCTTTAAGTCCAATA
Found at i:763797 original size:19 final size:20
Alignment explanation
Indices: 763754--763806 Score: 90
Period size: 19 Copynumber: 2.7 Consensus size: 20
763744 ATTTCAACAA
763754 TTTGTATCGATACATAAAGT
1 TTTGTATCGATACATAAAGT
*
763774 GTTGTATCGATACAT-AAGT
1 TTTGTATCGATACATAAAGT
763793 TTTGTATCGATACA
1 TTTGTATCGATACA
763807 ATGTAAGGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.40
Consensus pattern (20 bp):
TTTGTATCGATACATAAAGT
Found at i:763867 original size:13 final size:13
Alignment explanation
Indices: 763849--763875 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
763839 ATTACTCAAA
763849 TGTATCGATACAT
1 TGTATCGATACAT
763862 TGTATCGATACAT
1 TGTATCGATACAT
763875 T
1 T
763876 AATCTTTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:763871 original size:34 final size:33
Alignment explanation
Indices: 763828--763894 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 33
763818 TGCCAAAAAA
*
763828 TGTATCGATACATTACTCAAATGTATCGATACAT
1 TGTATCGATACATTAATC-AATGTATCGATACAT
**
763862 TGTATCGATACATTAATCTTTGTATCGATACAT
1 TGTATCGATACATTAATCAATGTATCGATACAT
763895 GCAGGCAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 13 0.43
34 17 0.57
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.39
Consensus pattern (33 bp):
TGTATCGATACATTAATCAATGTATCGATACAT
Found at i:774996 original size:20 final size:20
Alignment explanation
Indices: 774969--775045 Score: 111
Period size: 20 Copynumber: 3.9 Consensus size: 20
774959 GTAAAAAGAC
774969 AAAATGTATCGATACATT-A
1 AAAATGTATCGATACATTCA
774988 AAGAATGTATCGATACATTCA
1 AA-AATGTATCGATACATTCA
* * *
775009 TACATGTATCGATACATTGA
1 AAAATGTATCGATACATTCA
775029 AAAATGTATCGATACAT
1 AAAATGTATCGATACAT
775046 CTGGGTACTT
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
19 2 0.04
20 47 0.92
21 2 0.04
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.31
Consensus pattern (20 bp):
AAAATGTATCGATACATTCA
Found at i:776513 original size:79 final size:79
Alignment explanation
Indices: 776386--776932 Score: 481
Period size: 79 Copynumber: 6.9 Consensus size: 79
776376 AACCTTGTTG
* * * * *
776386 TTTCCGAGGGGATACT-CAACCCCGGTTTTATTT-TCAAAACATCAATTTTTCACAATTGGAGAT
1 TTTCCGAAGGGATACTCCAACCCCGATTTTATTTCT-AAAACATCGATTTTTCACAATCGGGGAT
776449 ACTCCAACCCCATTA
65 ACTCCAACCCCATTA
* * * * *
776464 TTTCCGAAGGGATACTCCAACCCCGACTTTATTTCTAAAATATTGATTTTCCACAATTGGGGATA
1 TTTCCGAAGGGATACTCCAACCCCGATTTTATTTCTAAAACATCGATTTTTCACAATCGGGGATA
*
776529 CGCCAACCCCATTA
66 CTCCAACCCCATTA
* * * ** *
776543 TTTCTGAAAGGATACTCCAACCCCGATTTTATTTCCAAAACGCCAATTTTTCACAATCGGGGATA
1 TTTCCGAAGGGATACTCCAACCCCGATTTTATTTCTAAAACATCGATTTTTCACAATCGGGGATA
*
776608 CTCCAACCCCGTTA
66 CTCCAACCCCATTA
* *
776622 TTTCC-AAGTGGATACTCCAACCCCGATGTTAATTT-TAAAACA-CAGATTTTTCACCATCGGGG
1 TTTCCGAAG-GGATACTCCAACCCCGAT-TTTATTTCTAAAACATC-GATTTTTCACAATCGGGG
*
776684 ATACTCCAACCCTATTA
63 ATACTCCAACCCCATTA
* * ** * * *
776701 TTT-CTAAGGAGATATTCCAACCTAGATTTTTATTTCTAAAACATCGATTTTCCATAATCGGGGT
1 TTTCCGAAGG-GATACTCCAACCCCGA-TTTTATTTCTAAAACATCGATTTTTCACAATCGGGGA
* *
776765 TACTCCAACCTCGTTA
64 TACTCCAACCCCATTA
* * * ** *
776781 TTTTCGAGGGGATACTCCAACTCCGGCTTTATTTCTAAAACATC-AATTTTCA-ACAT-GTAGGG
1 TTTCCGAAGGGATACTCCAACCCCGATTTTATTTCTAAAACATCGATTTTTCACA-ATCG--GGG
* *
776843 ATACTTCAA-CCTAGTTA
63 ATACTCCAACCCCA-TTA
* * * * * *
776860 TTTTC-AAGGGGATACTCTAACCCCAATTTTATTTCCAAAATATCAATTTTCTGC-C-ATCGGGG
1 TTTCCGAA-GGGATACTCCAACCCCGATTTTATTTCTAAAACATCGATTTT-T-CACAATCGGGG
*
776922 ATACTCTAACC
63 ATACTCCAACC
776933 TTGTTATTTC
Statistics
Matches: 379, Mismatches: 68, Indels: 42
0.78 0.14 0.09
Matches are distributed among these distances:
77 2 0.01
78 30 0.08
79 275 0.73
80 64 0.17
81 7 0.02
82 1 0.00
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (79 bp):
TTTCCGAAGGGATACTCCAACCCCGATTTTATTTCTAAAACATCGATTTTTCACAATCGGGGATA
CTCCAACCCCATTA
Found at i:776623 original size:158 final size:156
Alignment explanation
Indices: 776394--776942 Score: 567
Period size: 158 Copynumber: 3.5 Consensus size: 156
776384 TGTTTCCGAG
* * * *
776394 GGGATACT-CAACCCCGGTTTTATTTTCAAAACATCAATTTTTCACAATTGGAGATACTCCAACC
1 GGGATACTCCAACCCCGATTTTATTTCCAAAACATCAATTTTTCACAATCGGGGATACTCCAACC
* * *
776458 CCATTATTTCCGAAGGGATACTCCAACCCCGACTTTATTTCTAAAATATTGATTTTCCACAATTG
66 CCGTTATTTCCGAAGGGATACTCCAACCCCGACTTTATTTCTAAAACATAGATTTTCCAC-ATTG
* *
776523 GGGATACGCCAACCCCATTATTTCTGAA
130 GGGATACTCCAACCCTATTATTTCT-AA
* **
776551 AGGATACTCCAACCCCGATTTTATTTCCAAAACGCCAATTTTTCACAATCGGGGATACTCCAACC
1 GGGATACTCCAACCCCGATTTTATTTCCAAAACATCAATTTTTCACAATCGGGGATACTCCAACC
* *
776616 CCGTTATTTCC-AAGTGGATACTCCAACCCCGA-TGTTAATTT-TAAAACACAGATTTTTCACCA
66 CCGTTATTTCCGAAG-GGATACTCCAACCCCGACT-TT-ATTTCTAAAACATAGATTTTCCA-CA
*
776678 TCGGGGATACTCCAACCCTATTATTTCTAA
127 TTGGGGATACTCCAACCCTATTATTTCTAA
* ** * * * * *
776708 GGAGATATTCCAACCTAGATTTTTATTTCTAAAACATCGATTTTCCATAATCGGGGTTACTCCAA
1 GG-GATACTCCAACCCCGA-TTTTATTTCCAAAACATCAATTTTTCACAATCGGGGATACTCCAA
* * * * * *
776773 CCTCGTTATTTTCGAGGGGATACTCCAACTCCGGCTTTATTTCTAAAACATCA-ATTTTCAACAT
64 CCCCGTTATTTCCGAAGGGATACTCCAACCCCGACTTTATTTCTAAAACAT-AGATTTTCCACAT
* *
776837 GTAGGGATACTTCAA-CCTAGTTATTT-TCAA
128 -TGGGGATACTCCAACCCTA-TTATTTCT-AA
* * * *
776867 GGGGATACTCTAACCCCAATTTTATTTCCAAAATATCAATTTTCTGC-C-ATCGGGGATACTCTA
1 -GGGATACTCCAACCCCGATTTTATTTCCAAAACATCAATTTT-T-CACAATCGGGGATACTCCA
**
776930 ACCTTGTTATTTC
63 ACCCCGTTATTTC
776943 TGAGAGGTTA
Statistics
Matches: 324, Mismatches: 51, Indels: 33
0.79 0.12 0.08
Matches are distributed among these distances:
157 14 0.04
158 189 0.58
159 114 0.35
160 7 0.02
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (156 bp):
GGGATACTCCAACCCCGATTTTATTTCCAAAACATCAATTTTTCACAATCGGGGATACTCCAACC
CCGTTATTTCCGAAGGGATACTCCAACCCCGACTTTATTTCTAAAACATAGATTTTCCACATTGG
GGATACTCCAACCCTATTATTTCTAA
Found at i:776830 original size:238 final size:234
Alignment explanation
Indices: 776367--776958 Score: 602
Period size: 238 Copynumber: 2.5 Consensus size: 234
776357 CCACCGTCGA
* * * * *
776367 GGATACTCTAACCTTGTTGTTTCCGAGGGGATACT-CAACCCCGGTTTTATTTTCAAAACATCAA
1 GGATACTCCAACCTAGTTATTTCCAAGGGGATACTCCAACCCCGATTTTATTTT-AAAACATCAA
* * * * * *
776431 TTTTTCACAATTGGAGATACTCCAACCCCATTATTTCCGAAGGGATACTCCAACCCCGACTTTAT
65 TTTTTCACCATCGGGGATACTCCAACCCTATTATTT-CTAAGGGATACTCCAACCCAGACTTTAT
* * *
776496 TTCTAAAATATTGATTTTCCACAATTGGGGATACGCCAACCCCATTATTTCTGAAAGGATACTCC
129 TTCTAAAACATCGATTTTCCACAATCGGGGATACGCCAACCCCATTATTTCTGAAAGGATACTCC
* *
776561 AACCCCGATTTTATTTCCAAAACGCCAATTTTTC-ACAATCG-G
194 AACCCCGACTTTATTTCCAAAACACCAA-TTTTCAAC-AT-GAG
** * *
776603 GGATACTCCAACCCCGTTATTTCCAAGTGGATACTCCAACCCCGATGTTAATTTTAAAACA-CAG
1 GGATACTCCAACCTAGTTATTTCCAAGGGGATACTCCAACCCCGAT-TTTATTTTAAAACATCA-
* * *
776667 ATTTTTCACCATCGGGGATACTCCAACCCTATTATTTCTAAGGAGATATTCCAACCTAGATTTTT
64 ATTTTTCACCATCGGGGATACTCCAACCCTATTATTTCTAAGG-GATACTCCAACCCAGA-CTTT
* * * * * **
776732 ATTTCTAAAACATCGATTTTCCATAATCGGGGTTACTCCAACCTCGTTATTT-TCGAGGGGATAC
127 ATTTCTAAAACATCGATTTTCCACAATCGGGGATACGCCAACCCCATTATTTCT-GAAAGGATAC
* * * *
776796 TCCAACTCCGGCTTTATTTCTAAAACATCAATTTTCAACATGTAG
191 TCCAACCCCGACTTTATTTCCAAAACACCAATTTTCAACATG-AG
* * * * * *
776841 GGATACTTCAACCTAGTTATTTTCAAGGGGATACTCTAACCCCAATTTTATTTCCAAAATATCAA
1 GGATACTCCAACCTAGTTATTTCCAAGGGGATACTCCAACCCCGATTTTATTT-TAAAACATCAA
* * * * * *
776906 -TTTTCTGCCATCGGGGATACTCTAACCTTGTTATTTCTGAGAGGTTACTCCAA
65 TTTTTC-ACCATCGGGGATACTCCAACCCTATTATTTCTAAG-GGATACTCCAA
776959 TTCCATTTTT
Statistics
Matches: 293, Mismatches: 50, Indels: 24
0.80 0.14 0.07
Matches are distributed among these distances:
236 37 0.13
237 80 0.27
238 173 0.59
239 3 0.01
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.33
Consensus pattern (234 bp):
GGATACTCCAACCTAGTTATTTCCAAGGGGATACTCCAACCCCGATTTTATTTTAAAACATCAAT
TTTTCACCATCGGGGATACTCCAACCCTATTATTTCTAAGGGATACTCCAACCCAGACTTTATTT
CTAAAACATCGATTTTCCACAATCGGGGATACGCCAACCCCATTATTTCTGAAAGGATACTCCAA
CCCCGACTTTATTTCCAAAACACCAATTTTCAACATGAG
Found at i:785755 original size:3 final size:3
Alignment explanation
Indices: 785740--785802 Score: 78
Period size: 3 Copynumber: 22.0 Consensus size: 3
785730 ATTTAACATG
* *
785740 AAT AAT AAA AAT AAT AAT AAT AAT AA- AAT ATT AAT AAT -AT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
785786 AAT AA- AAT AGT AAT AAT
1 AAT AAT AAT AAT AAT AAT
785803 CAATTAGAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
2 6 0.12
3 45 0.88
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:785774 original size:11 final size:12
Alignment explanation
Indices: 785740--785802 Score: 78
Period size: 11 Copynumber: 5.5 Consensus size: 12
785730 ATTTAACATG
*
785740 AATAATAAAAAT
1 AATAATAATAAT
785752 AATAATAATAAT
1 AATAATAATAAT
*
785764 AA-AATATTAAT
1 AATAATAATAAT
785775 AAT-ATAATAAT
1 AATAATAATAAT
*
785786 AATAA-AATAGT
1 AATAATAATAAT
785797 AATAAT
1 AATAAT
785803 CAATTAGAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
11 30 0.68
12 14 0.32
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (12 bp):
AATAATAATAAT
Found at i:785774 original size:14 final size:14
Alignment explanation
Indices: 785740--785802 Score: 74
Period size: 14 Copynumber: 4.4 Consensus size: 14
785730 ATTTAACATG
785740 AATAATAAAAATAAT
1 AATAAT-AAAATAAT
785755 AATAATAATAA-AAT
1 AATAATAA-AATAAT
* *
785769 ATTAATAATATAAT
1 AATAATAAAATAAT
*
785783 AATAATAAAATAGT
1 AATAATAAAATAAT
785797 AATAAT
1 AATAAT
785803 CAATTAGAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
13 1 0.02
14 32 0.78
15 8 0.20
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (14 bp):
AATAATAAAATAAT
Found at i:785787 original size:25 final size:25
Alignment explanation
Indices: 785753--785802 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
785743 AATAAAAATA
*
785753 ATAATAATAATAAAATATTAATAAT
1 ATAATAATAATAAAATAGTAATAAT
785778 ATAATAATAATAAAATAGTAATAAT
1 ATAATAATAATAAAATAGTAATAAT
785803 CAATTAGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (25 bp):
ATAATAATAATAAAATAGTAATAAT
Found at i:786044 original size:25 final size:25
Alignment explanation
Indices: 786016--786081 Score: 123
Period size: 25 Copynumber: 2.6 Consensus size: 25
786006 TTCATGCATA
786016 ATTTCATGCATTTCACATAATGTTC
1 ATTTCATGCATTTCACATAATGTTC
*
786041 ATTTCATGCATTTCACATAATTTTC
1 ATTTCATGCATTTCACATAATGTTC
786066 ATTTCATGCATTTCAC
1 ATTTCATGCATTTCAC
786082 GTAACATTTC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.27, C:0.21, G:0.06, T:0.45
Consensus pattern (25 bp):
ATTTCATGCATTTCACATAATGTTC
Done.