Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr8
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: 70076365
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3341059 characters in sequence are not A, C, G, or T
File 39 of 210
Found at i:13888030 original size:7 final size:7
Alignment explanation
Indices: 13888018--13888042 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
13888008 AACTAAGTTT
13888018 CAGTGTC
1 CAGTGTC
13888025 CAGTGTC
1 CAGTGTC
13888032 CAGTGTC
1 CAGTGTC
13888039 CAGT
1 CAGT
13888043 TTTGAACAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.28, G:0.28, T:0.28
Consensus pattern (7 bp):
CAGTGTC
Found at i:13896659 original size:5 final size:5
Alignment explanation
Indices: 13896649--13896680 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
13896639 ATACTCAAAC
13896649 ACCCA ACCCA ACCCA ACCCA ACCCA ACCCA AC
1 ACCCA ACCCA ACCCA ACCCA ACCCA ACCCA AC
13896681 AAACAACAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.41, C:0.59, G:0.00, T:0.00
Consensus pattern (5 bp):
ACCCA
Found at i:13907253 original size:24 final size:24
Alignment explanation
Indices: 13907226--13907274 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
13907216 TGATTAAGTT
*
13907226 AATATTAAAATATTCTTATATTAA
1 AATATCAAAATATTCTTATATTAA
13907250 AATATCAAAATATTCTTATATTAA
1 AATATCAAAATATTCTTATATTAA
13907274 A
1 A
13907275 GGATAATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (24 bp):
AATATCAAAATATTCTTATATTAA
Found at i:13918075 original size:23 final size:23
Alignment explanation
Indices: 13918048--13918100 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
13918038 AGTGTTATTG
13918048 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
13918071 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
13918094 ATCAGTG
1 ATCAGTG
13918101 TGGCACTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:13925839 original size:46 final size:46
Alignment explanation
Indices: 13925772--13925984 Score: 347
Period size: 46 Copynumber: 4.6 Consensus size: 46
13925762 NNNNNNNNNN
*
13925772 TGTTTCAGTGAAGAAAACCATATTGAGTTGTGAAAAGTAGGTATGG
1 TGTTTCAGTGAAGAAAACCATACTGAGTTGTGAAAAGTAGGTATGG
* *
13925818 TGTTTCAGTGAAGAAAACCATATTGAGTTGTGAAAAGTAAGTATGG
1 TGTTTCAGTGAAGAAAACCATACTGAGTTGTGAAAAGTAGGTATGG
*
13925864 TGTTTCAGTGAAGAAAACCATACTGAATTGTGAAAAGTAGGTATGG
1 TGTTTCAGTGAAGAAAACCATACTGAGTTGTGAAAAGTAGGTATGG
**
13925910 TGTTTCAGTGAAGAAAAATATACTGAGTTGTGAAAAGTAGGTATGG
1 TGTTTCAGTGAAGAAAACCATACTGAGTTGTGAAAAGTAGGTATGG
*
13925956 TATTTTC-GTGAAGAAAACCATACTGAGTT
1 T-GTTTCAGTGAAGAAAACCATACTGAGTT
13925985 ATAGCAATGT
Statistics
Matches: 156, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
46 152 0.97
47 4 0.03
ACGTcount: A:0.36, C:0.08, G:0.26, T:0.31
Consensus pattern (46 bp):
TGTTTCAGTGAAGAAAACCATACTGAGTTGTGAAAAGTAGGTATGG
Found at i:13927680 original size:20 final size:20
Alignment explanation
Indices: 13927655--13927693 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
13927645 CAACCGTACA
13927655 CTGAGTATTTCATACTCAGG
1 CTGAGTATTTCATACTCAGG
13927675 CTGAGTATTTCATACTCAG
1 CTGAGTATTTCATACTCAG
13927694 TGGTATTACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.36
Consensus pattern (20 bp):
CTGAGTATTTCATACTCAGG
Found at i:13928338 original size:23 final size:24
Alignment explanation
Indices: 13928294--13928338 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
13928284 TTTCTCACAT
* **
13928294 TTTCAATTCAATCATTTTTCCACC
1 TTTCAATTCAATAATTAATCCACC
13928318 TTTCAA-TCAATAATTAATCCA
1 TTTCAATTCAATAATTAATCCA
13928339 TAAATTCACA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 12 0.67
24 6 0.33
ACGTcount: A:0.33, C:0.24, G:0.00, T:0.42
Consensus pattern (24 bp):
TTTCAATTCAATAATTAATCCACC
Found at i:13928493 original size:3 final size:3
Alignment explanation
Indices: 13928485--13928759 Score: 550
Period size: 3 Copynumber: 91.7 Consensus size: 3
13928475 CCACTCATCT
13928485 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
13928533 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
13928581 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
13928629 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
13928677 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
13928725 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
13928760 CTTACCTCAC
Statistics
Matches: 272, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 272 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:13930516 original size:25 final size:25
Alignment explanation
Indices: 13930487--13930536 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
13930477 GATATAGTTG
13930487 GCATGCCATAGGATTTGTGGGCACT
1 GCATGCCATAGGATTTGTGGGCACT
13930512 GCATGCCATAGGATTTGTGGGCACT
1 GCATGCCATAGGATTTGTGGGCACT
13930537 TACCTTTGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.20, C:0.20, G:0.32, T:0.28
Consensus pattern (25 bp):
GCATGCCATAGGATTTGTGGGCACT
Found at i:13931238 original size:15 final size:15
Alignment explanation
Indices: 13931218--13931246 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
13931208 GTTTTGTTGC
13931218 TTGATAACACGGTGA
1 TTGATAACACGGTGA
13931233 TTGATAACACGGTG
1 TTGATAACACGGTG
13931247 TGTGAAGCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.28
Consensus pattern (15 bp):
TTGATAACACGGTGA
Found at i:13935192 original size:26 final size:25
Alignment explanation
Indices: 13935145--13935193 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
13935135 ACGATTATCG
13935145 TATTAATGTTATTTAAATTGAATTT
1 TATTAATGTTATTTAAATTGAATTT
*
13935170 TATT-ATGTTACTTTTAATGTGAAT
1 TATTAATGTTA-TTTAAAT-TGAAT
13935194 GGATTGATGT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 6 0.29
25 10 0.48
26 5 0.24
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (25 bp):
TATTAATGTTATTTAAATTGAATTT
Found at i:13938695 original size:12 final size:12
Alignment explanation
Indices: 13938678--13938702 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13938668 GCCCCTTGAC
13938678 TCGTGTTAATTT
1 TCGTGTTAATTT
13938690 TCGTGTTAATTT
1 TCGTGTTAATTT
13938702 T
1 T
13938703 AAACTAAACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.16, T:0.60
Consensus pattern (12 bp):
TCGTGTTAATTT
Found at i:13943961 original size:29 final size:29
Alignment explanation
Indices: 13943919--13943980 Score: 115
Period size: 29 Copynumber: 2.1 Consensus size: 29
13943909 TCTACACTTC
13943919 AGTGCCTACTGTTTTGCACTTCAGTGCTT
1 AGTGCCTACTGTTTTGCACTTCAGTGCTT
*
13943948 AGTGCCTACTGTTTTGCACTTTAGTGCTT
1 AGTGCCTACTGTTTTGCACTTCAGTGCTT
13943977 AGTG
1 AGTG
13943981 ATTTGCATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.15, C:0.21, G:0.23, T:0.42
Consensus pattern (29 bp):
AGTGCCTACTGTTTTGCACTTCAGTGCTT
Found at i:13943974 original size:22 final size:21
Alignment explanation
Indices: 13943946--13944001 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 21
13943936 ACTTCAGTGC
*
13943946 TTAGTGCCTACTGTTTTGCACT
1 TTAGTGCCTACTGATTTGCA-T
* *
13943968 TTAGTGCTTAGTGATTTGCAT
1 TTAGTGCCTACTGATTTGCAT
*
13943989 TTAGGTACCTACT
1 TTA-GTGCCTACT
13944002 AGAGCACCTC
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
21 4 0.15
22 23 0.85
ACGTcount: A:0.18, C:0.18, G:0.20, T:0.45
Consensus pattern (21 bp):
TTAGTGCCTACTGATTTGCAT
Found at i:13947595 original size:22 final size:21
Alignment explanation
Indices: 13947561--13947617 Score: 51
Period size: 22 Copynumber: 2.6 Consensus size: 21
13947551 AAGGGTATCC
* * *
13947561 ACAAATTAAATCTCTAATATT
1 ACAAATCATATCTCTAAGATT
13947582 ACAAAATCATATCTTCTAAGATT
1 AC-AAATCATATC-TCTAAGATT
* *
13947605 GCATATCATATCT
1 ACAAATCATATCT
13947618 AAGATTGCAT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
21 3 0.10
22 17 0.59
23 9 0.31
ACGTcount: A:0.42, C:0.18, G:0.04, T:0.37
Consensus pattern (21 bp):
ACAAATCATATCTCTAAGATT
Found at i:13949915 original size:8 final size:8
Alignment explanation
Indices: 13949902--13949933 Score: 55
Period size: 8 Copynumber: 3.9 Consensus size: 8
13949892 CGTGTTTTAA
13949902 AAAAAATC
1 AAAAAATC
13949910 AAAAAATAC
1 AAAAAAT-C
13949919 AAAAAATC
1 AAAAAATC
13949927 AAAAAAT
1 AAAAAAT
13949934 TACATTTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 15 0.65
9 8 0.35
ACGTcount: A:0.78, C:0.09, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAAAATC
Found at i:13950103 original size:90 final size:90
Alignment explanation
Indices: 13949929--13950105 Score: 259
Period size: 90 Copynumber: 2.0 Consensus size: 90
13949919 AAAAAATCAA
* *
13949929 AAAATTACATTTTGACCCCTAAACTTTCTCAAAATTACATTTTGACCACTAAACTTTCTCAAAAT
1 AAAATTACATTTTGACCCCTAAAATTTCTCAAAATTACATTTTAACCACTAAACTTTCTCAAAAT
*
13949994 TACATTTTGACCCCTAAACTTTCTT
66 TACATTTTGACCCCAAAACTTTCTT
* *
13950019 AAAATTATC-TTTTGACCCTTAAAATTTCTCAAAATTACATTTTAACCCCTAAACTTTCTCAAAA
1 AAAATTA-CATTTTGACCCCTAAAATTTCTCAAAATTACATTTTAACCACTAAACTTTCTCAAAA
**
13950083 TTATGTTTT-AGCCCCAAAACTTT
65 TTACATTTTGA-CCCCAAAACTTT
13950106 TGCTGCGTCT
Statistics
Matches: 78, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
89 1 0.01
90 76 0.97
91 1 0.01
ACGTcount: A:0.35, C:0.23, G:0.03, T:0.38
Consensus pattern (90 bp):
AAAATTACATTTTGACCCCTAAAATTTCTCAAAATTACATTTTAACCACTAAACTTTCTCAAAAT
TACATTTTGACCCCAAAACTTTCTT
Found at i:13950105 original size:30 final size:30
Alignment explanation
Indices: 13949929--13950085 Score: 253
Period size: 30 Copynumber: 5.2 Consensus size: 30
13949919 AAAAAATCAA
13949929 AAAATTACATTTTGACCCCTAAACTTTCTC
1 AAAATTACATTTTGACCCCTAAACTTTCTC
*
13949959 AAAATTACATTTTGACCACTAAACTTTCTC
1 AAAATTACATTTTGACCCCTAAACTTTCTC
*
13949989 AAAATTACATTTTGACCCCTAAACTTTCTT
1 AAAATTACATTTTGACCCCTAAACTTTCTC
* *
13950019 AAAATTATC-TTTTGACCCTTAAAATTTCTC
1 AAAATTA-CATTTTGACCCCTAAACTTTCTC
*
13950049 AAAATTACATTTTAACCCCTAAACTTTCTC
1 AAAATTACATTTTGACCCCTAAACTTTCTC
13950079 AAAATTA
1 AAAATTA
13950086 TGTTTTAGCC
Statistics
Matches: 116, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
29 1 0.01
30 114 0.98
31 1 0.01
ACGTcount: A:0.36, C:0.23, G:0.03, T:0.38
Consensus pattern (30 bp):
AAAATTACATTTTGACCCCTAAACTTTCTC
Found at i:13950440 original size:3 final size:3
Alignment explanation
Indices: 13950432--13950461 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
13950422 GGTGAAGAGG
13950432 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
13950462 AGAAAGAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:13950466 original size:4 final size:4
Alignment explanation
Indices: 13950457--13950486 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
13950447 GAAGAAGAAG
13950457 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AA
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AA
13950487 AAAAATGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:13950539 original size:7 final size:8
Alignment explanation
Indices: 13950486--13950538 Score: 74
Period size: 8 Copynumber: 6.6 Consensus size: 8
13950476 AAAGAAAGAA
13950486 AAAAAATG
1 AAAAAATG
13950494 -AAAAATG
1 AAAAAATG
13950501 AAAAAATG
1 AAAAAATG
13950509 AAAAAATG
1 AAAAAATG
13950517 AAAAAAAATG
1 --AAAAAATG
13950527 -AAAAATG
1 AAAAAATG
13950534 AAAAA
1 AAAAA
13950539 TTAATAGTCG
Statistics
Matches: 41, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
7 14 0.34
8 19 0.46
10 8 0.20
ACGTcount: A:0.77, C:0.00, G:0.11, T:0.11
Consensus pattern (8 bp):
AAAAAATG
Found at i:13950707 original size:24 final size:25
Alignment explanation
Indices: 13950670--13950730 Score: 81
Period size: 24 Copynumber: 2.5 Consensus size: 25
13950660 AAGTAGCTGC
13950670 CCAATAGGCCCAACAGCCTT-GCAGG
1 CCAATAGGCCCAACAG-CTTGGCAGG
13950695 CCAATA-GCCCAACAGCTTGGCAGG
1 CCAATAGGCCCAACAGCTTGGCAGG
**
13950719 CCAGCAGGCCCA
1 CCAATAGGCCCA
13950731 TCACAGCAGC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
23 3 0.09
24 18 0.56
25 11 0.34
ACGTcount: A:0.28, C:0.38, G:0.25, T:0.10
Consensus pattern (25 bp):
CCAATAGGCCCAACAGCTTGGCAGG
Found at i:13950839 original size:7 final size:7
Alignment explanation
Indices: 13950818--13950860 Score: 50
Period size: 7 Copynumber: 5.9 Consensus size: 7
13950808 CCCAGTCCAA
13950818 AAAAAAG
1 AAAAAAG
**
13950825 AAGGAAG
1 AAAAAAG
13950832 AAAAAAG
1 AAAAAAG
13950839 AAAAAAAAG
1 --AAAAAAG
13950848 AAAAAAG
1 AAAAAAG
13950855 AAAAAA
1 AAAAAA
13950861 TCAAGCTCGT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
7 23 0.77
9 7 0.23
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:13950846 original size:23 final size:23
Alignment explanation
Indices: 13950816--13950860 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
13950806 AGCCCAGTCC
**
13950816 AAAAAAAAGAAGGAAGAAAAAAG
1 AAAAAAAAGAAAAAAGAAAAAAG
13950839 AAAAAAAAGAAAAAAGAAAAAA
1 AAAAAAAAGAAAAAAGAAAAAA
13950861 TCAAGCTCGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (23 bp):
AAAAAAAAGAAAAAAGAAAAAAG
Found at i:13950848 original size:16 final size:16
Alignment explanation
Indices: 13950829--13950860 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
13950819 AAAAAGAAGG
13950829 AAGAAAAAAGAAAAAA
1 AAGAAAAAAGAAAAAA
13950845 AAGAAAAAAGAAAAAA
1 AAGAAAAAAGAAAAAA
13950861 TCAAGCTCGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (16 bp):
AAGAAAAAAGAAAAAA
Found at i:13951003 original size:5 final size:5
Alignment explanation
Indices: 13950993--13951019 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
13950983 TGTATTTATG
13950993 TTAAT TTAAT TTAAT TTAAT TTAAT TT
1 TTAAT TTAAT TTAAT TTAAT TTAAT TT
13951020 TAATAAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (5 bp):
TTAAT
Found at i:13951483 original size:18 final size:18
Alignment explanation
Indices: 13951460--13951763 Score: 210
Period size: 18 Copynumber: 16.6 Consensus size: 18
13951450 AAAATTCAAT
*
13951460 TTTTCAAAATTTTTCGTG
1 TTTTCAAAAATTTTCGTG
*
13951478 TTTTCAAAATATTTCCGTG
1 TTTTCAAAA-ATTTTCGTG
13951497 -TTTCAAAAACTTTTCGTG
1 TTTTCAAAAA-TTTTCGTG
*
13951515 TTTTAAAAAATTTTCGTG
1 TTTTCAAAAATTTTCGTG
*
13951533 TTTTCAAAAAATTCTCGTG
1 TTTTC-AAAAATTTTCGTG
* **
13951552 -CTTCGCAAATTTTCGTG
1 TTTTCAAAAATTTTCGTG
* * *
13951569 TTTTTAAAAATTCTCGCG
1 TTTTCAAAAATTTTCGTG
*
13951587 TTTTCAAAAAAATTCTCGTG
1 TTTTC--AAAAATTTTCGTG
** *
13951607 -TTTCACCAATTTTTGTG
1 TTTTCAAAAATTTTCGTG
**
13951624 TTTTCAAAAAAAATCCTCGTG
1 TTTTC---AAAAATTTTCGTG
* *
13951645 TTTTCAAAAAAATTCTCTTG
1 TTTTC--AAAAATTTTCGTG
*
13951665 -TTACAAAAATTTTCGTG
1 TTTTCAAAAATTTTCGTG
*
13951682 TTTTCAAAAAATTTCGTG
1 TTTTCAAAAATTTTCGTG
*
13951700 TTTTAAAAAAAAATTTTCGTG
1 TTTT---CAAAAATTTTCGTG
*
13951721 TTCTT--AAAATTCTCGT-
1 TT-TTCAAAAATTTTCGTG
* *
13951737 ATTTCAAAAGTTTTCGTG
1 TTTTCAAAAATTTTCGTG
13951755 -TTTCAAAAA
1 TTTTCAAAAA
13951764 AATTCTCATG
Statistics
Matches: 226, Mismatches: 41, Indels: 39
0.74 0.13 0.13
Matches are distributed among these distances:
15 2 0.01
16 1 0.00
17 58 0.26
18 77 0.34
19 34 0.15
20 25 0.11
21 27 0.12
22 2 0.01
ACGTcount: A:0.31, C:0.14, G:0.11, T:0.44
Consensus pattern (18 bp):
TTTTCAAAAATTTTCGTG
Found at i:13951515 original size:37 final size:37
Alignment explanation
Indices: 13951460--13951710 Score: 183
Period size: 37 Copynumber: 6.8 Consensus size: 37
13951450 AAAATTCAAT
* *
13951460 TTTTCAAAATTTTTCGTGTTTTCAAAATATTTCCGTG
1 TTTTCAAAAATTTTCGTGTTTTCAAAAAATTTCCGTG
*
13951497 -TTTCAAAAACTTTTCGTGTTTT-AAAAAATTTTCGTG
1 TTTTCAAAAA-TTTTCGTGTTTTCAAAAAATTTCCGTG
* * ** *
13951533 TTTTCAAAAAATTCTCGTG-CTTC-GCAAATTTTCGTG
1 TTTTC-AAAAATTTTCGTGTTTTCAAAAAATTTCCGTG
* * * *
13951569 TTTTTAAAAATTCTCGCGTTTTCAAAAAAATTCTCGTG
1 TTTTCAAAAATTTTCGTGTTTTCAAAAAATTTC-CGTG
** * * *
13951607 -TTTCACCAATTTTTGTGTTTTCAAAAAAAATCCTCGTG
1 TTTTCAAAAATTTTCGTGTTTTC-AAAAAATTTC-CGTG
** * *
13951645 TTTTCAAAAAAATTC-TCTTGTT-ACAAAAATTTTCGTG
1 TTTTCAAAAATTTTCGTGTT-TTCA-AAAAATTTCCGTG
* *
13951682 TTTTCAAAAAATTTCGTGTTTTAAAAAAA
1 TTTTCAAAAATTTTCGTGTTTTCAAAAAA
13951711 AATTTTCGTG
Statistics
Matches: 169, Mismatches: 32, Indels: 26
0.74 0.14 0.11
Matches are distributed among these distances:
35 12 0.07
36 40 0.24
37 70 0.41
38 36 0.21
39 11 0.07
ACGTcount: A:0.31, C:0.14, G:0.10, T:0.44
Consensus pattern (37 bp):
TTTTCAAAAATTTTCGTGTTTTCAAAAAATTTCCGTG
Found at i:13951530 original size:55 final size:55
Alignment explanation
Indices: 13951460--13951779 Score: 310
Period size: 55 Copynumber: 5.8 Consensus size: 55
13951450 AAAATTCAAT
* * * *
13951460 TTTTCAAAATTTTTCGTGTTTTCAAAATATTTC-CGTGTTTCAAAAACTTTTCGTG
1 TTTTAAAAAATTTTCGTGTTTTCAAAAAAATTCTCGTGTTTCAAAAA-TTTTCGTG
* **
13951515 TTTTAAAAAATTTTCGTGTTTTC-AAAAAATTCTCGTGCTTCGCAAATTTTCGTG
1 TTTTAAAAAATTTTCGTGTTTTCAAAAAAATTCTCGTGTTTCAAAAATTTTCGTG
* * * ** *
13951569 TTTTTAAAAATTCTCGCGTTTTCAAAAAAATTCTCGTGTTTCACCAATTTTTGTG
1 TTTTAAAAAATTTTCGTGTTTTCAAAAAAATTCTCGTGTTTCAAAAATTTTCGTG
** * *
13951624 TTTTCAAAAAAAATCCTCGTGTTTTCAAAAAAATTCTCTTGTTACAAAAATTTTCGTG
1 TTTT---AAAAAATTTTCGTGTTTTCAAAAAAATTCTCGTGTTTCAAAAATTTTCGTG
* * * *
13951682 TTTTCAAAAAA-TTTCGTGTTTTAAAAAAAAATTTTCGTG-TTCTTAAAATTCTCGT-
1 TTTT-AAAAAATTTTCGTGTTTT-CAAAAAAATTCTCGTGTTTC-AAAAATTTTCGTG
* * * *
13951737 ATTTCAAAAGTTTTCGTG-TTTCAAAAAAATTCTCATGTTTCAA
1 TTTTAAAAAATTTTCGTGTTTTCAAAAAAATTCTCGTGTTTCAA
13951780 TTGGATCACG
Statistics
Matches: 218, Mismatches: 38, Indels: 20
0.79 0.14 0.07
Matches are distributed among these distances:
53 14 0.06
54 45 0.21
55 83 0.38
56 29 0.13
58 47 0.22
ACGTcount: A:0.31, C:0.14, G:0.10, T:0.44
Consensus pattern (55 bp):
TTTTAAAAAATTTTCGTGTTTTCAAAAAAATTCTCGTGTTTCAAAAATTTTCGTG
Found at i:13951775 original size:19 final size:19
Alignment explanation
Indices: 13951473--13951779 Score: 153
Period size: 17 Copynumber: 16.6 Consensus size: 19
13951463 TCAAAATTTT
* *
13951473 TCGTGTTTTCAAAATATTTC
1 TCGTG-TTTCAAAAAAATTC
* *
13951493 -CGTGTTTC-AAAAACTTT
1 TCGTGTTTCAAAAAAATTC
* *
13951510 TCGTGTTT-TAAAAAATTT
1 TCGTGTTTCAAAAAAATTC
13951528 TCGTGTTTTC-AAAAAATTC
1 TCGTG-TTTCAAAAAAATTC
* ** *
13951547 TCGTGCTTC--GCAAATTT
1 TCGTGTTTCAAAAAAATTC
**
13951564 TCGTGTTT-TTAAAAATTC
1 TCGTGTTTCAAAAAAATTC
*
13951582 TCGCGTTTTCAAAAAAATTC
1 TCGTG-TTTCAAAAAAATTC
** *
13951602 TCGTGTTTC--ACCAATTT
1 TCGTGTTTCAAAAAAATTC
* *
13951619 TTGTGTTTTCAAAAAAAATCC
1 TCGTG-TTTC-AAAAAAATTC
13951640 TCGTGTTTTCAAAAAAATTC
1 TCGTG-TTTCAAAAAAATTC
* * *
13951660 TCTTG-TT-ACAAAAATTT
1 TCGTGTTTCAAAAAAATTC
13951677 TCGTGTTTTC-AAAAAATT-
1 TCGTG-TTTCAAAAAAATTC
* *
13951695 TCGTGTTTTAAAAAAAAATTT
1 TCGTG-TTT-CAAAAAAATTC
**
13951716 TCGTG-TTC-TTAAAATTC
1 TCGTGTTTCAAAAAAATTC
* * *
13951733 TCGTATTTC--AAAAGTTT
1 TCGTGTTTCAAAAAAATTC
13951750 TCGTGTTTCAAAAAAATTC
1 TCGTGTTTCAAAAAAATTC
*
13951769 TCATGTTTCAA
1 TCGTGTTTCAA
13951780 TTGGATCACG
Statistics
Matches: 221, Mismatches: 45, Indels: 43
0.72 0.15 0.14
Matches are distributed among these distances:
17 62 0.28
18 54 0.24
19 54 0.24
20 33 0.15
21 18 0.08
ACGTcount: A:0.31, C:0.15, G:0.11, T:0.44
Consensus pattern (19 bp):
TCGTGTTTCAAAAAAATTC
Found at i:13957733 original size:9 final size:9
Alignment explanation
Indices: 13957719--13957760 Score: 59
Period size: 9 Copynumber: 4.8 Consensus size: 9
13957709 TATTATGCCT
13957719 AAAAAAAAC
1 AAAAAAAAC
13957728 AAAAAAAAC
1 AAAAAAAAC
*
13957737 AAAACAAA-
1 AAAAAAAAC
*
13957745 AAAAAACAC
1 AAAAAAAAC
13957754 AAAAAAA
1 AAAAAAA
13957761 TCAAGATGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
8 6 0.21
9 22 0.79
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:13957740 original size:14 final size:13
Alignment explanation
Indices: 13957719--13957760 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
13957709 TATTATGCCT
13957719 AAAAAAAACAAAA
1 AAAAAAAACAAAA
13957732 AAAACAAAAC-AAA
1 AAAA-AAAACAAAA
*
13957745 AAAAAACACAAAA
1 AAAAAAAACAAAA
13957758 AAA
1 AAA
13957761 TCAAGATGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
12 4 0.15
13 17 0.65
14 5 0.19
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAAAAACAAAA
Found at i:13957745 original size:12 final size:12
Alignment explanation
Indices: 13957719--13957760 Score: 59
Period size: 12 Copynumber: 3.5 Consensus size: 12
13957709 TATTATGCCT
13957719 AAAAAAAACA-A
1 AAAAAAAACACA
*
13957730 AAAAAACAAAACA
1 AAAAAA-AACACA
13957743 AAAAAAAACACA
1 AAAAAAAACACA
13957755 AAAAAA
1 AAAAAA
13957761 TCAAGATGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
11 6 0.22
12 14 0.52
13 7 0.26
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAAAAACACA
Found at i:13957760 original size:15 final size:14
Alignment explanation
Indices: 13957719--13957750 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
13957709 TATTATGCCT
13957719 AAAAAAAACAAAAA
1 AAAAAAAACAAAAA
*
13957733 AAACAAAACAAAAA
1 AAAAAAAACAAAAA
13957747 AAAA
1 AAAA
13957751 CACAAAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (14 bp):
AAAAAAAACAAAAA
Found at i:13958757 original size:77 final size:77
Alignment explanation
Indices: 13958625--13959085 Score: 565
Period size: 77 Copynumber: 6.0 Consensus size: 77
13958615 GTATTTTTTA
* * * * * * *
13958625 ACATACCGAGGTATTTTTTAAAATTCCTATTTTTCAAAATTAACTCATATTGCGAGAGGTGAGTT
1 ACATCCCGAGGTATCTTTTAAATTTCTTGTTTTTAAAAATCAACTCATATTGCGAGAGGTGAGTT
*
13958690 GAGCCTCGGGCC
66 GAGCCTCGGGTC
* *
13958702 ACATCCCGAGGTA-CTTTTAAATTTCTATGTTTTTTAAAATCAACTCATATTGCGAGAAGTGAGT
1 ACATCCCGAGGTATCTTTTAAATTTCT-TGTTTTTAAAAATCAACTCATATTGCGAGAGGTGAGT
*
13958766 TGAGCCT-TGGTC
65 TGAGCCTCGGGTC
* *
13958778 ACATGCCGAGGTATTTCTTTTATATTTC-TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGA
1 ACATCCCGAGGTA--TCTTTTAAATTTCTTGTTTTT-AAAAATCAACTCATATTGCGAGAGGTGA
13958842 GTTGAGCCTCGGGTC
63 GTTGAGCCTCGGGTC
* * * * * *
13958857 ACATACCGAGGTATTTTTTAAAATTCCTATTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTT
1 ACATCCCGAGGTATCTTTTAAATTTCTTGTTTTTAAAAATCAACTCATATTGCGAGAGGTGAGTT
*
13958922 GAGCCTCGGGCC
66 GAGCCTCGGGTC
* ** *
13958934 ACATCCCGAGGTA-CTTTTAAATTTCTGTTTTTTTTTAAATCAACTCATATTGCGAGAAGTGAGT
1 ACATCCCGAGGTATCTTTTAAATTTCT-TGTTTTTAAAAATCAACTCATATTGCGAGAGGTGAGT
13958998 TGAGCCTC-GGTC
65 TGAGCCTCGGGTC
* * *
13959010 ACATGCTGAGGTATTTCTTTTATATTTC-TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGA
1 ACATCCCGAGGTA--TCTTTTAAATTTCTTGTTTTT-AAAAATCAACTCATATTGCGAGAGGTGA
13959074 GTTGAGCCTCGG
63 GTTGAGCCTCGG
13959086 NNNNNNNNNN
Statistics
Matches: 333, Mismatches: 38, Indels: 24
0.84 0.10 0.06
Matches are distributed among these distances:
76 49 0.15
77 169 0.51
78 76 0.23
79 39 0.12
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (77 bp):
ACATCCCGAGGTATCTTTTAAATTTCTTGTTTTTAAAAATCAACTCATATTGCGAGAGGTGAGTT
GAGCCTCGGGTC
Found at i:13958922 original size:155 final size:154
Alignment explanation
Indices: 13958625--13959085 Score: 594
Period size: 155 Copynumber: 3.0 Consensus size: 154
13958615 GTATTTTTTA
* * * *
13958625 ACATACCGAGGTATTT-TTTAAAATTCCTATTTTTCAAAATTAACTCATATTGCGAGAGGTGAGT
1 ACATACCGAGGTATTTCTTTTAAATTTCTGTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGT
* * * *
13958689 TGAGCCTCGGGCCACATCCCGAGGTA-CTTTTAAATTTCTATGTTTTTTAAAATCAACTCATATT
66 TGAGCCTCGGGTCACATACCGAGGTATTTTTTAAATTTCTA--TTTTTCAAAATCAACTCATATT
* * *
13958753 GCGAGAAGTGAGTTGAGCCT-TGGTC
129 GCGAGAGGTGAGTTGAGCCTCGGGCC
* *
13958778 ACATGCCGAGGTATTTCTTTTATATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAG
1 ACATACCGAGGTATTTCTTTTAAATTTCTGTTTTTC-AAAATCAACTCATATTGCGAGAGGTGAG
*
13958843 TTGAGCCTCGGGTCACATACCGAGGTATTTTTTAAAATTCCTATTTTTCAAAATCAACTCATATT
65 TTGAGCCTCGGGTCACATACCGAGGTATTTTTT-AAATTTCTATTTTTCAAAATCAACTCATATT
13958908 GCGAGAGGTGAGTTGAGCCTCGGGCC
129 GCGAGAGGTGAGTTGAGCCTCGGGCC
* ** *
13958934 ACATCCCGAGGTA---CTTTTAAATTTCTGTTTTTTTTTAAATCAACTCATATTGCGAGAAGTGA
1 ACATACCGAGGTATTTCTTTTAAATTTCTG--TTTTTCAAAATCAACTCATATTGCGAGAGGTGA
* * * *
13958996 GTTGAGCCTC-GGTCACATGCTGAGGTATTTCTTTTATATTTCTGTTTTTCAAAAATCAACTCAT
64 GTTGAGCCTCGGGTCACATACCGAGGTA-TT-TTTTAAATTTCTATTTTTC-AAAATCAACTCAT
13959060 ATTGCGAGAGGTGAGTTGAGCCTCGG
126 ATTGCGAGAGGTGAGTTGAGCCTCGG
13959086 NNNNNNNNNN
Statistics
Matches: 274, Mismatches: 24, Indels: 18
0.87 0.08 0.06
Matches are distributed among these distances:
153 43 0.16
154 64 0.23
155 140 0.51
156 19 0.07
157 8 0.03
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (154 bp):
ACATACCGAGGTATTTCTTTTAAATTTCTGTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGT
TGAGCCTCGGGTCACATACCGAGGTATTTTTTAAATTTCTATTTTTCAAAATCAACTCATATTGC
GAGAGGTGAGTTGAGCCTCGGGCC
Found at i:13959031 original size:232 final size:232
Alignment explanation
Indices: 13958625--13959085 Score: 868
Period size: 232 Copynumber: 2.0 Consensus size: 232
13958615 GTATTTTTTA
*
13958625 ACATACCGAGGTATTTTTTAAAATTCCTATTTTTCAAAATTAACTCATATTGCGAGAGGTGAGTT
1 ACATACCGAGGTATTTTTTAAAATTCCTATTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTT
13958690 GAGCCTCGGGCCACATCCCGAGGTACTTTTAAATTTCTATGTTTTTTAAAATCAACTCATATTGC
66 GAGCCTCGGGCCACATCCCGAGGTACTTTTAAATTTCTATGTTTTTTAAAATCAACTCATATTGC
*
13958755 GAGAAGTGAGTTGAGCCTTGGTCACATGCCGAGGTATTTCTTTTATATTTCTGTTTTTCAAAAAT
131 GAGAAGTGAGTTGAGCCTCGGTCACATGCCGAGGTATTTCTTTTATATTTCTGTTTTTCAAAAAT
13958820 CAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC
196 CAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC
13958857 ACATACCGAGGTATTTTTTAAAATTCCTATTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTT
1 ACATACCGAGGTATTTTTTAAAATTCCTATTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTT
* * *
13958922 GAGCCTCGGGCCACATCCCGAGGTACTTTTAAATTTCTGTTTTTTTTTAAATCAACTCATATTGC
66 GAGCCTCGGGCCACATCCCGAGGTACTTTTAAATTTCTATGTTTTTTAAAATCAACTCATATTGC
*
13958987 GAGAAGTGAGTTGAGCCTCGGTCACATGCTGAGGTATTTCTTTTATATTTCTGTTTTTCAAAAAT
131 GAGAAGTGAGTTGAGCCTCGGTCACATGCCGAGGTATTTCTTTTATATTTCTGTTTTTCAAAAAT
13959052 CAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
196 CAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
13959086 NNNNNNNNNN
Statistics
Matches: 223, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
232 223 1.00
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (232 bp):
ACATACCGAGGTATTTTTTAAAATTCCTATTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTT
GAGCCTCGGGCCACATCCCGAGGTACTTTTAAATTTCTATGTTTTTTAAAATCAACTCATATTGC
GAGAAGTGAGTTGAGCCTCGGTCACATGCCGAGGTATTTCTTTTATATTTCTGTTTTTCAAAAAT
CAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC
Found at i:13959624 original size:77 final size:77
Alignment explanation
Indices: 13959424--13960432 Score: 1241
Period size: 77 Copynumber: 13.0 Consensus size: 77
13959414 NTTTTTTTAA
* * * ** * * *
13959424 AAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTTGGGTCACGCTGAGGTATTTCTTGTAAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACCATGCCGAGGTATTTCTTTTAAA
*
13959489 TTTCCATTTTTTTTC
66 TTT-C--TGTTTTTC
13959504 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACCATGCCGAGGTATTTCTTTTA
1 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACCATGCCGAGGTATTTCTTTTA
13959569 AATTTCTGTTTTTC
64 AATTTCTGTTTTTC
* *
13959583 GAAAATCAAGTCATATTGCGAGAGGTGAGTTGAGCCTCGGACCATGCCGAGGTATTTCTTTTAAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACCATGCCGAGGTATTTCTTTTAAA
13959648 TTTCTGTTTTTC
66 TTTCTGTTTTTC
* * * *
13959660 GAAAATCAAGTCATATTGCGAGAGGTGAGTTGAGCCTCGGACCATGCTGAGGTATTTCTCTTAAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACCATGCCGAGGTATTTCTTTTAAA
13959725 TTTCTGTTTTTC
66 TTTCTGTTTTTC
* *
13959737 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACACATGCCGAGGTCTTTCTTTTAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGAC-CATGCCGAGGTATTTCTTTTAA
13959802 ATTTCTGTTTTT-
65 ATTTCTGTTTTTC
* * * ** *
13959814 TAAAATCAACTCATAATGCGAGAGGTTAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTTTTATA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACCATGCCGAGGTATTTCTTTTAAA
*
13959879 TTTGTGTTTTTC
66 TTTCTGTTTTTC
* ** * *
13959891 AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTTTCATA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACCATGCCGAGGTATTTCTTTTAAA
13959956 TTTCTGTTTTTC
66 TTTCTGTTTTTC
* * ** *
13959968 AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCATCGGGTCATGCCGAGGTATTTCTTTTATA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACCATGCCGAGGTATTTCTTTTAAA
*
13960033 TTTGTGTTTTTC
66 TTTCTGTTTTTC
* * *
13960045 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGTCACATGCCGAGGTATTTCTTTTAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGAC-CATGCCGAGGTATTTCTTTTAA
13960110 ATTTCTGGTTTTT-
65 ATTTCT-GTTTTTC
* * * * *
13960123 TAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTAGGTCACATGCCGAGGTATTT-TTTCAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGAC-CATGCCGAGGTATTTCTTTTAA
*
13960187 ATTCCTGTTTTTC
65 ATTTCTGTTTTTC
* * * * * *
13960200 AAAAACCAACTCATACTGCGAGATGTGAGTTGAGCCTCGGGTCACATGCCAAGTTATTTCTTTTA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGAC-CATGCCGAGGTATTTCTTTTA
13960265 AATTTC-GTATTTTC
64 AATTTCTGT-TTTTC
* * *
13960279 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GAGTCACGTCGAGGTA--T-TTTT
1 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGA-CCATGCCGAGGTATTTCTTTT
*
13960340 CAATTTCTGTTTTTC
63 AAATTTCTGTTTTTC
* * * * * *
13960355 AAAAATCAATTCATATTGTGAGAGGTGAGTTGAGCCTTGGGCCACACGCCGAGGTA----TTTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCGGAC-CATGCCGAGGTATTTCTTTTA
13960416 AATTTCTGTTTTTC
64 AATTTCTGTTTTTC
13960430 AAA
1 AAA
13960433 TAAAAAGAAA
Statistics
Matches: 839, Mismatches: 73, Indels: 37
0.88 0.08 0.04
Matches are distributed among these distances:
74 34 0.04
75 23 0.03
76 64 0.08
77 454 0.54
78 132 0.16
79 36 0.04
81 36 0.04
82 60 0.07
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.35
Consensus pattern (77 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACCATGCCGAGGTATTTCTTTTAAA
TTTCTGTTTTTC
Found at i:13960769 original size:60 final size:59
Alignment explanation
Indices: 13960594--13960771 Score: 250
Period size: 60 Copynumber: 2.9 Consensus size: 59
13960584 AAAAAAATAA
* **
13960594 AAAATTTACATTTTAACCCCTAAACTTTCTCAAAATTACAGTTT-GACTACTAAACTTTCTC
1 AAAA-TTACATTTTAACCCCTAAACTTTCTCAAAATTA-TGTTTAG-CCCCTAAACTTTCTC
* *
13960655 AAAATTACATTTTAACCCCTAAACTTTCTCAAAATTATATTTTGACCCCTAAACTTTCTC
1 AAAATTACATTTTAACCCCTAAACTTTCTCAAAATTATGTTTAG-CCCCTAAACTTTCTC
*
13960715 AAAATTACATTTTAACCCCTAAACTTTCTCAAAATTATGTTTCAGCCCCAAAACTTT
1 AAAATTACATTTTAACCCCTAAACTTTCTCAAAATTATGTTT-AGCCCCTAAACTTT
13960772 TGCTGCGTCT
Statistics
Matches: 108, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
59 3 0.03
60 100 0.93
61 5 0.05
ACGTcount: A:0.36, C:0.24, G:0.03, T:0.37
Consensus pattern (59 bp):
AAAATTACATTTTAACCCCTAAACTTTCTCAAAATTATGTTTAGCCCCTAAACTTTCTC
Found at i:13960769 original size:90 final size:91
Alignment explanation
Indices: 13960594--13960771 Score: 250
Period size: 90 Copynumber: 2.0 Consensus size: 91
13960584 AAAAAAATAA
* *
13960594 AAAATTTACATTTTAACCCCTAAACTTTCTCAAAATTACAGTTTGACTACTAAACTTTCTCAAAA
1 AAAATTTACATTTTAACCCCTAAACTTTCTCAAAATTACAGTTTAACCACTAAACTTTCTCAAAA
* *
13960659 TTACATTTTAACCCCTAAACTTTCTC
66 TTACATTTCAACCCCAAAACTTTCTC
* * * *
13960685 AAAA-TTATATTTTGACCCCTAAACTTTCTCAAAATTACATTTTAACCCCTAAACTTTCTCAAAA
1 AAAATTTACATTTTAACCCCTAAACTTTCTCAAAATTACAGTTTAACCACTAAACTTTCTCAAAA
** *
13960749 TTATGTTTCAGCCCCAAAACTTT
66 TTACATTTCAACCCCAAAACTTT
13960772 TGCTGCGTCT
Statistics
Matches: 76, Mismatches: 11, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
90 72 0.95
91 4 0.05
ACGTcount: A:0.36, C:0.24, G:0.03, T:0.37
Consensus pattern (91 bp):
AAAATTTACATTTTAACCCCTAAACTTTCTCAAAATTACAGTTTAACCACTAAACTTTCTCAAAA
TTACATTTCAACCCCAAAACTTTCTC
Found at i:13960771 original size:30 final size:30
Alignment explanation
Indices: 13960594--13960751 Score: 253
Period size: 30 Copynumber: 5.2 Consensus size: 30
13960584 AAAAAAATAA
13960594 AAAATTTACATTTTAACCCCTAAACTTTCTC
1 AAAA-TTACATTTTAACCCCTAAACTTTCTC
* * **
13960625 AAAATTACAGTTTGACTACTAAACTTTCTC
1 AAAATTACATTTTAACCCCTAAACTTTCTC
13960655 AAAATTACATTTTAACCCCTAAACTTTCTC
1 AAAATTACATTTTAACCCCTAAACTTTCTC
* *
13960685 AAAATTATATTTTGACCCCTAAACTTTCTC
1 AAAATTACATTTTAACCCCTAAACTTTCTC
13960715 AAAATTACATTTTAACCCCTAAACTTTCTC
1 AAAATTACATTTTAACCCCTAAACTTTCTC
13960745 AAAATTA
1 AAAATTA
13960752 TGTTTCAGCC
Statistics
Matches: 115, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
30 111 0.97
31 4 0.03
ACGTcount: A:0.37, C:0.23, G:0.02, T:0.37
Consensus pattern (30 bp):
AAAATTACATTTTAACCCCTAAACTTTCTC
Found at i:13961102 original size:3 final size:3
Alignment explanation
Indices: 13961094--13961133 Score: 62
Period size: 3 Copynumber: 13.0 Consensus size: 3
13961084 GGTGAAGAGG
*
13961094 GAA GAA GAA AAA GAA GAA GGAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA -GAA GAA GAA GAA GAA GAA GAA
13961134 AGAAAAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
3 31 0.91
4 3 0.09
ACGTcount: A:0.68, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:13961107 original size:9 final size:9
Alignment explanation
Indices: 13961095--13961150 Score: 60
Period size: 9 Copynumber: 6.1 Consensus size: 9
13961085 GTGAAGAGGG
13961095 AAGAAGAAA
1 AAGAAGAAA
*
13961104 AAGAAGAAGG
1 AAGAAGAA-A
*
13961114 AAGAAGAAG
1 AAGAAGAAA
13961123 AAGAAGAAGA
1 AAGAAGAA-A
*
13961133 AAGAAAAAA
1 AAGAAGAAA
13961142 AAGAA-AAA
1 AAGAAGAAA
13961150 A
1 A
13961151 GAAAAAAGAA
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
8 4 0.10
9 23 0.55
10 15 0.36
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (9 bp):
AAGAAGAAA
Found at i:13961115 original size:19 final size:19
Alignment explanation
Indices: 13961087--13961146 Score: 84
Period size: 19 Copynumber: 3.2 Consensus size: 19
13961077 AAGCTAGGGT
*
13961087 GAAGAGGGAAGAAGAAAAA
1 GAAGAAGGAAGAAGAAAAA
*
13961106 GAAGAAGGAAGAAGAAGAA
1 GAAGAAGGAAGAAGAAAAA
* *
13961125 GAAGAAGAAAGAAAAAAAA
1 GAAGAAGGAAGAAGAAAAA
13961144 GAA
1 GAA
13961147 AAAAGAAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 36 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (19 bp):
GAAGAAGGAAGAAGAAAAA
Found at i:13961136 original size:16 final size:16
Alignment explanation
Indices: 13961094--13961153 Score: 70
Period size: 16 Copynumber: 3.8 Consensus size: 16
13961084 GGTGAAGAGG
13961094 GAAGAAGAAA-AAGAA
1 GAAGAAGAAAGAAGAA
13961109 GAAGGAAG-AAGAAGAA
1 GAA-GAAGAAAGAAGAA
*
13961125 GAAGAAGAAAGAAAAA
1 GAAGAAGAAAGAAGAA
* *
13961141 AAAGAAAAAAGAA
1 GAAGAAGAAAGAA
13961154 AAAAGAAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
15 9 0.23
16 30 0.77
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (16 bp):
GAAGAAGAAAGAAGAA
Found at i:13961148 original size:6 final size:6
Alignment explanation
Indices: 13961098--13961163 Score: 51
Period size: 6 Copynumber: 10.3 Consensus size: 6
13961088 AAGAGGGAAG
* * * * *
13961098 AAGAAA AAGAAGA AGGAAG AAGAAG AAGAAG AAGAAA GAAAAAA AAGAAAA
1 AAGAAA AAGAA-A AAGAAA AAGAAA AAGAAA AAGAAA -AAGAAA AAG-AAA
13961149 AAGAAAA AAGAAA AA
1 AAG-AAA AAGAAA AA
13961164 TTAATAGTCG
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
6 28 0.55
7 23 0.45
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (6 bp):
AAGAAA
Found at i:13961446 original size:21 final size:22
Alignment explanation
Indices: 13961420--13961468 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 22
13961410 GCCCAGTCCC
**
13961420 AAAAAAAGAAGGAAG-AAAAAG
1 AAAAAAAGAAAAAAGAAAAAAG
13961441 AAAAAAAGAAAAAAGAAAAAAG
1 AAAAAAAGAAAAAAGAAAAAAG
13961463 AAAAAA
1 AAAAAA
13961469 TCAAGCTCGT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 13 0.52
22 12 0.48
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (22 bp):
AAAAAAAGAAAAAAGAAAAAAG
Found at i:13961448 original size:8 final size:7
Alignment explanation
Indices: 13961421--13961468 Score: 62
Period size: 7 Copynumber: 6.9 Consensus size: 7
13961411 CCCAGTCCCA
13961421 AAAAAAG
1 AAAAAAG
**
13961428 AAGGAAG
1 AAAAAAG
13961435 -AAAAAG
1 AAAAAAG
13961441 AAAAAAAG
1 -AAAAAAG
13961449 AAAAAAG
1 AAAAAAG
13961456 AAAAAAG
1 AAAAAAG
13961463 AAAAAA
1 AAAAAA
13961469 TCAAGCTCGT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
6 4 0.11
7 25 0.71
8 6 0.17
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:13962075 original size:20 final size:22
Alignment explanation
Indices: 13962036--13962077 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
13962026 TTCGTCTTTC
13962036 AAAATTCTCATGTCTTCAAAAT
1 AAAATTCTCATGTCTTCAAAAT
*
13962058 AAAATTC-CAT-TTTTCAAAAT
1 AAAATTCTCATGTCTTCAAAAT
13962078 TTTTCGTGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 9 0.47
21 3 0.16
22 7 0.37
ACGTcount: A:0.43, C:0.17, G:0.02, T:0.38
Consensus pattern (22 bp):
AAAATTCTCATGTCTTCAAAAT
Found at i:13962110 original size:18 final size:17
Alignment explanation
Indices: 13962069--13962274 Score: 137
Period size: 18 Copynumber: 11.6 Consensus size: 17
13962059 AAATTCCATT
**
13962069 TTTCAAAATTTTTCGTG
1 TTTCAAAAAATTTCGTG
* *
13962086 -TTAAAAAAAATTCGGTG
1 TTTCAAAAAATTTC-GTG
13962103 TTTC-AAAAATATTCGTG
1 TTTCAAAAAAT-TTCGTG
13962120 TTTTCAAAAAATTTCCGTG
1 -TTTCAAAAAATTT-CGTG
*
13962139 TTTCAAAAATTTTCGTG
1 TTTCAAAAAATTTCGTG
*
13962156 TTTTAAAAAATTTTCGTG
1 TTTCAAAAAA-TTTCGTG
13962174 TTTTCAAAAAATTCTCGTG
1 -TTTCAAAAAATT-TCGTG
* ** *
13962193 CTTCGCAAATTTTCGTG
1 TTTCAAAAAATTTCGTG
** *
13962210 TTTTTAAAAATTCTCGCG
1 TTTCAAAAAATT-TCGTG
*
13962228 TTTTCAAAAAAATTCTCCTG
1 -TTTC-AAAAAATT-TCGTG
* * *
13962248 TTACAAAAATTTTTGTG
1 TTTCAAAAAATTTCGTG
*
13962265 TTTTAAAAAA
1 TTTCAAAAAA
13962275 CAAATTCGTG
Statistics
Matches: 146, Mismatches: 31, Indels: 24
0.73 0.15 0.12
Matches are distributed among these distances:
16 9 0.06
17 45 0.31
18 51 0.35
19 30 0.21
20 11 0.08
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.43
Consensus pattern (17 bp):
TTTCAAAAAATTTCGTG
Found at i:13962203 original size:54 final size:53
Alignment explanation
Indices: 13962068--13962274 Score: 213
Period size: 54 Copynumber: 3.8 Consensus size: 53
13962058 AAAATTCCAT
* * * ** * *
13962068 TTTTC-AAAATTTTTCGTGTTAAAAAAAATTCG-GTGTTTCAAAAATATTCGTG
1 TTTTCAAAAAATTCTCGTGTTCAAAAATTTTCGTGT-TTTAAAAAATTTTCGTG
13962120 TTTTCAAAAAATT-TCCGTGTTTCAAAAATTTTCGTGTTTTAAAAAATTTTCGTG
1 TTTTCAAAAAATTCT-CGTG-TTCAAAAATTTTCGTGTTTTAAAAAATTTTCGTG
** * * *
13962174 TTTTCAAAAAATTCTCGTGCTTCGCAAATTTTCGTGTTTTTAAAAATTCTCGCG
1 TTTTCAAAAAATTCTCGTG-TTCAAAAATTTTCGTGTTTTAAAAAATTTTCGTG
* *
13962228 TTTTCAAAAAAATTCTCCTGTTACAAAAATTTTTGTGTTTTAAAAAA
1 TTTTC-AAAAAATTCTCGTGTT-CAAAAATTTTCGTGTTTTAAAAAA
13962275 CAAATTCGTG
Statistics
Matches: 131, Mismatches: 17, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
52 6 0.05
53 10 0.08
54 79 0.60
55 36 0.27
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.43
Consensus pattern (53 bp):
TTTTCAAAAAATTCTCGTGTTCAAAAATTTTCGTGTTTTAAAAAATTTTCGTG
Found at i:13962272 original size:17 final size:17
Alignment explanation
Indices: 13962068--13962273 Score: 126
Period size: 17 Copynumber: 11.5 Consensus size: 17
13962058 AAAATTCCAT
*
13962068 TTTTCAAAATTTTTCGTG
1 TTTT-AAAAATTTTCGTG
* **
13962086 -TTAAAAAAAATTCGGTG
1 TTTTAAAAATTTTC-GTG
* *
13962103 TTTCAAAAATATTCGTG
1 TTTTAAAAATTTTCGTG
*
13962120 TTTTCAAAAAATTTCCGTG
1 TTTT--AAAAATTTTCGTG
*
13962139 TTTCAAAAATTTTCGTG
1 TTTTAAAAATTTTCGTG
13962156 TTTTAAAAAATTTTCGTG
1 TTTT-AAAAATTTTCGTG
*
13962174 TTTTCAAAAAATTCTCGTG
1 TTTT--AAAAATTTTCGTG
* ***
13962193 CTTCGCAAATTTTCGTG
1 TTTTAAAAATTTTCGTG
* *
13962210 TTTTTAAAAATTCTCGCG
1 -TTTTAAAAATTTTCGTG
* *
13962228 TTTTCAAAAAAATTCTCCTG
1 TTTT---AAAAATTTTCGTG
** *
13962248 TTACAAAAATTTTTGTG
1 TTTTAAAAATTTTCGTG
13962265 TTTTAAAAA
1 TTTTAAAAA
13962274 ACAAATTCGT
Statistics
Matches: 145, Mismatches: 33, Indels: 21
0.73 0.17 0.11
Matches are distributed among these distances:
16 7 0.05
17 57 0.39
18 39 0.27
19 29 0.20
20 13 0.09
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.44
Consensus pattern (17 bp):
TTTTAAAAATTTTCGTG
Found at i:13962294 original size:109 final size:106
Alignment explanation
Indices: 13962119--13962321 Score: 250
Period size: 109 Copynumber: 1.9 Consensus size: 106
13962109 AAATATTCGT
* **
13962119 GTTTTCAAAAAATTTCCGTGTTTCAAAAATTTTCGTGTTTTAAAAAATTTTCGTGTTTTCAAAAA
1 GTTTTCAAAAAATTTCCGTGTTACAAAAATTTTCGTGTTTTAAAAAAAATTCGTGTTTT--AAAA
* *
13962184 ATTCTCGTGCTTCGCAAA-TTTTCGTGTTTTTAAAAATTCTCGC
64 ATTCTCATACTTC-CAAAGTTTTCGTGTTTTTAAAAATTCTCGC
*
13962227 GTTTTCAAAAAAATTCTCC-TGTTACAAAAATTTTTGTGTTTTAAAAAACAAATTCGTGTTCTT-
1 GTTTTC-AAAAAATT-TCCGTGTTACAAAAATTTTCGTGTTTT-AAAAA-AAATTCGTGTT-TTA
*
13962290 AAAATTCTCATATTTCCAAAGTTTTCGTGTTT
61 AAAATTCTCATACTTCCAAAGTTTTCGTGTTT
13962322 CAAAAAAATT
Statistics
Matches: 82, Mismatches: 7, Indels: 11
0.82 0.07 0.11
Matches are distributed among these distances:
108 10 0.12
109 53 0.65
110 8 0.10
111 9 0.11
112 2 0.02
ACGTcount: A:0.31, C:0.14, G:0.11, T:0.44
Consensus pattern (106 bp):
GTTTTCAAAAAATTTCCGTGTTACAAAAATTTTCGTGTTTTAAAAAAAATTCGTGTTTTAAAAAT
TCTCATACTTCCAAAGTTTTCGTGTTTTTAAAAATTCTCGC
Found at i:13965418 original size:18 final size:18
Alignment explanation
Indices: 13965374--13965763 Score: 222
Period size: 18 Copynumber: 21.7 Consensus size: 18
13965364 TAAAAAAAAT
*
13965374 GAAAATTTATG-AAACAC
1 GAAAATTTTTGAAAACAC
**
13965391 GAGATTTTTTTGAAAACAC
1 GA-AAATTTTTGAAAACAC
*
13965410 GAAAA-TTTTCAAAACACC
1 GAAAATTTTTGAAAACA-C
13965428 G-AAATTTTTGAAAACAC
1 GAAAATTTTTGAAAACAC
* * *
13965445 GAGAATTTTTG-AAATAT
1 GAAAATTTTTGAAAACAC
* * *
13965462 TAAAAATTTTGAAACCAC
1 GAAAATTTTTGAAAACAC
13965480 GAAAATTTTTGAAAACAC
1 GAAAATTTTTGAAAACAC
* *
13965498 GGAAATTTTAG-AAACAC
1 GAAAATTTTTGAAAACAC
* *
13965515 AAAAATTTTT-AAAAGAC
1 GAAAATTTTTGAAAACAC
*
13965532 GATAATTTTTTG-AAACAC
1 GA-AAATTTTTGAAAACAC
* * *
13965550 GAGAATTGTTGAAAATAC
1 GAAAATTTTTGAAAACAC
* *
13965568 AAAAAATTTTTGAATACAC
1 -GAAAATTTTTGAAAACAC
*
13965587 GAAAATTTTCG-AAACAC
1 GAAAATTTTTGAAAACAC
* *
13965604 --AAATTTTAG-AAACAT
1 GAAAATTTTTGAAAACAC
*
13965619 GGAAATTTTTAGAAAACAC
1 GAAAATTTTT-GAAAACAC
*
13965638 GGAAAA-TTTTGAAAA-AT
1 -GAAAATTTTTGAAAACAC
*
13965655 G-GAATCTTTTGAAAACAC
1 GAAAAT-TTTTGAAAACAC
13965673 -AAATATTTTTTG-AAACAC
1 GAAA-A-TTTTTGAAAACAC
**
13965691 GATAAAAATTATTTTGAAGCCAC
1 G---AAAA-T-TTTTGAAAACAC
*
13965714 GAAAA--TTTCAAAACAC
1 GAAAATTTTTGAAAACAC
*
13965730 GGAAATTTTTTGTGAAAACAC
1 -GAAA-ATTTT-TGAAAACAC
*
13965751 GAAATTTTTTGAA
1 GAAAATTTTTGAA
13965764 TATTTACAAT
Statistics
Matches: 284, Mismatches: 56, Indels: 65
0.70 0.14 0.16
Matches are distributed among these distances:
15 15 0.05
16 9 0.03
17 80 0.28
18 100 0.35
19 41 0.14
20 15 0.05
21 11 0.04
22 8 0.03
23 5 0.02
ACGTcount: A:0.47, C:0.11, G:0.12, T:0.30
Consensus pattern (18 bp):
GAAAATTTTTGAAAACAC
Found at i:13965440 original size:53 final size:51
Alignment explanation
Indices: 13965376--13965681 Score: 184
Period size: 53 Copynumber: 5.8 Consensus size: 51
13965366 AAAAAAATGA
* *
13965376 AAATTTATG-AAACACGAGATTTTTTTGAAAACACGAAAATTTTCAAAACACCG
1 AAATTTTTGAAAACACGAGA-ATTTTTGAAAACAC-AAAATTTTCAAAACA-CG
* * *
13965429 AAATTTTTGAAAACACGAGAATTTTTGAAATATTA-AAAATTTTGAAACCACG
1 AAATTTTTGAAAACACGAGAATTTTTGAAA-A-CACAAAATTTTCAAAACACG
* * *
13965481 AAAATTTTTGAAAACACG-GAAATTTT-AGAAACACAAAAATTTTTAAAAGACG
1 -AAATTTTTGAAAACACGAGAATTTTTGA-AAACAC-AAAATTTTCAAAACACG
* * * *
13965533 ATAATTTTTTG-AAACACGAGAATTGTTGAAAATACAAAAAATTTTTGAATACACG
1 A-AA-TTTTTGAAAACACGAGAATTTTTG-AAA-ACACAAAA-TTTTCAAAACACG
* * * * *
13965588 AAAATTTTCG-AAACAC-A-AATTTTAG-AAACATGGAAATTTTTAGAAAACACGG
1 -AAATTTTTGAAAACACGAGAATTTTTGAAAACA--CAAAATTTT-CAAAACAC-G
* *
13965640 AAAATTTTGAAAA-ATG-GAATCTTTTGAAAACACAAATATTTT
1 AAATTTTTGAAAACACGAGAAT-TTTTGAAAACACAAA-ATTTT
13965682 TTGAAACACG
Statistics
Matches: 200, Mismatches: 28, Indels: 50
0.72 0.10 0.18
Matches are distributed among these distances:
49 3 0.01
50 7 0.04
51 21 0.10
52 50 0.25
53 68 0.34
54 33 0.17
55 17 0.09
56 1 0.00
ACGTcount: A:0.47, C:0.10, G:0.12, T:0.30
Consensus pattern (51 bp):
AAATTTTTGAAAACACGAGAATTTTTGAAAACACAAAATTTTCAAAACACG
Found at i:13965443 original size:35 final size:35
Alignment explanation
Indices: 13965397--13965652 Score: 168
Period size: 35 Copynumber: 7.3 Consensus size: 35
13965387 ACACGAGATT
*
13965397 TTTTTGAAAACACGAAAATTTTCAAAACACCGAAA
1 TTTTTGAAAACACGAAAATTTTGAAAACACCGAAA
* * ***
13965432 TTTTTGAAAACACGAGAATTTTTG-AAATATTAAAA
1 TTTTTGAAAACACGA-AAATTTTGAAAACACCGAAA
* * *
13965467 ATTTTGAAACCACGAAAATTTTTGAAAACACGGAAA
1 TTTTTGAAAACACGAAAA-TTTTGAAAACACCGAAA
* * * *
13965503 TTTTAG-AAACACAAAAATTTTTAAAAGA-CGATAA
1 TTTTTGAAAACACGAAAATTTTGAAAACACCGA-AA
* * **
13965537 TTTTTTG-AAACACGAGAATTGTTGAAAATACAAAAAA
1 -TTTTTGAAAACACGAAAATT-TTGAAAACAC-CGAAA
*
13965574 TTTTTGAATACACGAAAATTTTCG-AAACA-C-AAA
1 TTTTTGAAAACACGAAAATTTT-GAAAACACCGAAA
* * * *
13965607 TTTTAG-AAACATGGAAATTTTTAGAAAACACGGAAA
1 TTTTTGAAAACA-CGAAAATTTT-GAAAACACCGAAA
*
13965643 ATTTTGAAAA
1 TTTTTGAAAA
13965653 ATGGAATCTT
Statistics
Matches: 167, Mismatches: 39, Indels: 28
0.71 0.17 0.12
Matches are distributed among these distances:
32 4 0.02
33 19 0.11
34 18 0.11
35 65 0.39
36 43 0.26
37 17 0.10
38 1 0.01
ACGTcount: A:0.48, C:0.11, G:0.12, T:0.30
Consensus pattern (35 bp):
TTTTTGAAAACACGAAAATTTTGAAAACACCGAAA
Found at i:13965654 original size:89 final size:88
Alignment explanation
Indices: 13965397--13965652 Score: 240
Period size: 88 Copynumber: 2.9 Consensus size: 88
13965387 ACACGAGATT
* * *
13965397 TTTTTGAAAACACGAAAATTTTCA-AAACACCGAAATTTTTGAAAACACGAGAATTTTT-GAAAT
1 TTTTTGAAAACACGAAAATTTT-AGAAACA-CAAAATTTTT-AAAACACGATAATTTTTAGAAAC
** ** *
13965460 ATTAAAAATT-TTGAAACCAC-GAAAA
63 A-CGAAAATTGTTGAAAATACAAAAAA
* * *
13965485 TTTTTGAAAACACGGAAATTTTAGAAACACAAAAATTTTTAAAAGACGATAATTTTTTGAAACAC
1 TTTTTGAAAACACGAAAATTTTAGAAACAC-AAAATTTTTAAAACACGATAATTTTTAGAAACAC
*
13965550 GAGAATTGTTGAAAATACAAAAAA
65 GAAAATTGTTGAAAATACAAAAAA
* * *
13965574 TTTTTGAATACACGAAAATTTTCGAAACAC-AAA-TTTTAGAAACATGGA-AATTTTTAGAAAAC
1 TTTTTGAAAACACGAAAATTTTAGAAACACAAAATTTTTA-AAACA-CGATAATTTTTAG-AAAC
13965636 ACGGAAAATT-TTGAAAA
63 AC-GAAAATTGTTGAAAA
13965653 ATGGAATCTT
Statistics
Matches: 141, Mismatches: 18, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
86 5 0.04
87 37 0.26
88 62 0.44
89 37 0.26
ACGTcount: A:0.48, C:0.11, G:0.12, T:0.30
Consensus pattern (88 bp):
TTTTTGAAAACACGAAAATTTTAGAAACACAAAATTTTTAAAACACGATAATTTTTAGAAACACG
AAAATTGTTGAAAATACAAAAAA
Found at i:13965681 original size:17 final size:18
Alignment explanation
Indices: 13965398--13965763 Score: 155
Period size: 17 Copynumber: 20.4 Consensus size: 18
13965388 CACGAGATTT
13965398 TTTTGAAAACACGAAA-A
1 TTTTGAAAACACGAAATA
*
13965415 TTTTCAAAACACCGAAAT-
1 TTTTGAAAACA-CGAAATA
13965433 TTTTGAAAACACGAGAAT-
1 TTTTGAAAACACGA-AATA
* ** *
13965451 TTTTG-AAATATTAAAAA
1 TTTTGAAAACACGAAATA
*
13965468 TTTTGAAACCACGAAA-A
1 TTTTGAAAACACGAAATA
*
13965485 TTTTTGAAAACACGGAA-A
1 -TTTTGAAAACACGAAATA
*
13965503 TTTT-AGAAACAC-AAAAA
1 TTTTGA-AAACACGAAATA
* * *
13965520 TTTTTAAAAGACGATAATT
1 TTTTGAAAACACGA-AATA
13965539 TTTTG-AAACACGAGAAT-
1 TTTTGAAAACACGA-AATA
* * * *
13965556 TGTTGAAAATACAAAAAA
1 TTTTGAAAACACGAAATA
*
13965574 TTTTTGAATACACGAAA-A
1 -TTTTGAAAACACGAAATA
13965592 TTTTCG-AAACAC-AAAT-
1 TTTT-GAAAACACGAAATA
* *
13965608 TTTAG-AAACATGGAAAT-
1 TTTTGAAAACA-CGAAATA
13965625 TTTTAGAAAACACGGAAA-A
1 TTTT-GAAAACAC-GAAATA
* * *
13965644 TTTTGAAAA-ATGGAATC
1 TTTTGAAAACACGAAATA
13965661 TTTTGAAAACAC-AAATA
1 TTTTGAAAACACGAAATA
13965678 TTTTTTG-AAACACGATAAAAATTA
1 --TTTTGAAAACACG----AAA-TA
**
13965702 TTTTGAAGCCACGAAA-A
1 TTTTGAAAACACGAAATA
* *
13965719 -TTTCAAAACACGGAAATTT
1 TTTTGAAAACAC-GAAA-TA
*
13965738 TTTGTGAAAACACGAAATT
1 TTT-TGAAAACACGAAATA
13965757 TTTTGAA
1 TTTTGAA
13965764 TATTTACAAT
Statistics
Matches: 266, Mismatches: 45, Indels: 75
0.69 0.12 0.19
Matches are distributed among these distances:
15 6 0.02
16 22 0.08
17 84 0.32
18 81 0.30
19 44 0.17
20 6 0.02
21 8 0.03
22 5 0.02
23 8 0.03
24 2 0.01
ACGTcount: A:0.47, C:0.11, G:0.12, T:0.30
Consensus pattern (18 bp):
TTTTGAAAACACGAAATA
Found at i:13965756 original size:20 final size:21
Alignment explanation
Indices: 13965723--13965761 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
13965713 CGAAAATTTC
13965723 AAAACACGGAAATTTTTTGTG
1 AAAACACGGAAATTTTTTGTG
13965744 AAAACAC-GAAATTTTTTG
1 AAAACACGGAAATTTTTTG
13965762 AATATTTACA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.41, C:0.10, G:0.15, T:0.33
Consensus pattern (21 bp):
AAAACACGGAAATTTTTTGTG
Found at i:13965907 original size:10 final size:8
Alignment explanation
Indices: 13965855--13965899 Score: 51
Period size: 8 Copynumber: 6.0 Consensus size: 8
13965845 TTAGAATTGA
13965855 ATAAAAAT
1 ATAAAAAT
13965863 -TAAAAAT
1 ATAAAAAT
13965870 AT--AAAT
1 ATAAAAAT
**
13965876 ACCAAAAT
1 ATAAAAAT
13965884 ATAAAAAT
1 ATAAAAAT
13965892 ATAAAAAT
1 ATAAAAAT
13965900 GCATAAAATG
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
6 5 0.16
7 7 0.23
8 19 0.61
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.24
Consensus pattern (8 bp):
ATAAAAAT
Found at i:13966061 original size:19 final size:18
Alignment explanation
Indices: 13966037--13966097 Score: 88
Period size: 18 Copynumber: 3.3 Consensus size: 18
13966027 AACCTTTTTT
13966037 TTTTTTCTTTTTTCTTCTC
1 TTTTTTCTTTTTT-TTCTC
13966056 TTTTTTCTTTTTTTT-TCC
1 TTTTTTCTTTTTTTTCT-C
*
13966074 TTTTTTCTTCTTTTTCTC
1 TTTTTTCTTTTTTTTCTC
13966092 TTTTTT
1 TTTTTT
13966098 TTTCTGCTGG
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
17 1 0.03
18 24 0.62
19 14 0.36
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (18 bp):
TTTTTTCTTTTTTTTCTC
Found at i:13966069 original size:27 final size:27
Alignment explanation
Indices: 13966031--13966098 Score: 86
Period size: 29 Copynumber: 2.5 Consensus size: 27
13966021 GAATTGAACC
13966031 TTTTT-TTTTTTT-CTTTTTTCTTCTCT
1 TTTTTCTTTTTTTCCTTTTTTCTTCT-T
13966057 TTTTTCTTTTTTTTTCCTTTTTTCTTCTT
1 TTTTTC--TTTTTTTCCTTTTTTCTTCTT
*
13966086 TTTCTCTTTTTTT
1 TTTTTCTTTTTTT
13966099 TTCTGCTGGG
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
26 5 0.14
27 7 0.19
29 13 0.35
30 12 0.32
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (27 bp):
TTTTTCTTTTTTTCCTTTTTTCTTCTT
Found at i:13966077 original size:29 final size:29
Alignment explanation
Indices: 13966033--13966101 Score: 111
Period size: 30 Copynumber: 2.3 Consensus size: 29
13966023 ATTGAACCTT
* *
13966033 TTTTTTTTTTCTTTTTTCTTCTCTTTTTTC
1 TTTTTTTTTCCTTTTTTCTTCT-TTTTCTC
13966063 TTTTTTTTTCCTTTTTTCTTCTTTTTCTC
1 TTTTTTTTTCCTTTTTTCTTCTTTTTCTC
13966092 TTTTTTTTTC
1 TTTTTTTTTC
13966102 TGCTGGGCTG
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
29 16 0.43
30 21 0.57
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (29 bp):
TTTTTTTTTCCTTTTTTCTTCTTTTTCTC
Found at i:13966394 original size:3 final size:3
Alignment explanation
Indices: 13966382--13966415 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
13966372 TTGTTTTTTT
*
13966382 TTC TTT TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
13966416 CTTGGAAACT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (3 bp):
TTC
Found at i:13966533 original size:18 final size:16
Alignment explanation
Indices: 13966475--13966531 Score: 62
Period size: 16 Copynumber: 3.4 Consensus size: 16
13966465 CTGCCTTCCC
*
13966475 CTCTTTTCTCTTCTTCCT
1 CTCTTTTCTCTCCTT--T
*
13966493 TTCTTTTCTCTCCTTT
1 CTCTTTTCTCTCCTTT
13966509 CTCTTTTCTCTCCTATT
1 CTCTTTTCTCTCCT-TT
13966526 -TCTTTT
1 CTCTTTT
13966532 TTTTTTTTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
16 20 0.57
17 2 0.06
18 13 0.37
ACGTcount: A:0.02, C:0.33, G:0.00, T:0.65
Consensus pattern (16 bp):
CTCTTTTCTCTCCTTT
Found at i:13966815 original size:29 final size:29
Alignment explanation
Indices: 13966771--13966903 Score: 142
Period size: 30 Copynumber: 4.5 Consensus size: 29
13966761 AAACGTAAGA
* *
13966771 GTCATAATGTAATTTCAAAAAGTTTATGG
1 GTCAAAATGTAATTTCAAAAAGTTTAGGG
* * *
13966800 GTTAAAATGTAGTTTCAAAAAAATTTAGGG
1 GTCAAAATGTAATTTC-AAAAAGTTTAGGG
* * *
13966830 GTTAAAATATAATTTTAGGAAAA-TTTAGGG
1 GTCAAAATGTAATTTCA--AAAAGTTTAGGG
*
13966860 GTCAAAATGCAATTTCAAAAAGTTTAGGG
1 GTCAAAATGTAATTTCAAAAAGTTTAGGG
*
13966889 GCCAAAATGTAATTT
1 GTCAAAATGTAATTT
13966904 TTTTTATTTT
Statistics
Matches: 86, Mismatches: 14, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
28 4 0.05
29 34 0.40
30 44 0.51
31 4 0.05
ACGTcount: A:0.41, C:0.06, G:0.19, T:0.34
Consensus pattern (29 bp):
GTCAAAATGTAATTTCAAAAAGTTTAGGG
Found at i:13967577 original size:78 final size:78
Alignment explanation
Indices: 13967102--13967699 Score: 578
Period size: 78 Copynumber: 7.6 Consensus size: 78
13967092 GGCGTGCAAC
* * * * * *
13967102 CCGAAGCTCAACTCACATTTCG-AATTATGAGTTGATTTTTTGGAAAATAGAAATTGAAAAG-AA
1 CCGAGGCTCAACTCACCTCTCGCAA-TATGAGTTGATTTTTTGAAAAACAGAAATTTAAAAGAAA
*
13967165 TACATCGGCATGCGAT
65 TACCTCGGCATG-G-T
* * * * ** *
13967181 CCGAGGCTCCACTTACCTCTCGCAATATGAGTTAATTTTTTTTTGAGAAGTA-AAATTT-GAA-A
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTTGAAAAACAGAAATTTAAAAGA
* * *
13967243 AATACCTCGAC-TTGA
63 AATACCTCGGCATGGT
* * * *
13967258 CTCAAGGCTCAACTCACCTCTTGCAATATGAGTTGA-TTTTTGCAAAAATAGATATTT---A-AA
1 C-CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-AAAAACAGAAATTTAAAAGAA
* * *
13967318 ATACCTCAGCGTGCGAC
64 ATACCTCGGCATG-G-T
* *
13967335 CCGAGGCTCAACTCATCTCTCG-TA-ATGAGTTGA-TTTTTGAAAAACAGAAATTTAAAAGAAAT
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTTAAAAGAAAT
*
13967397 ACCTCGTCATGTGT
66 ACCTCGGCATG-GT
* * *** * *
13967411 CGGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTAACAAAAAAATAGAAATTAAAAAGAA
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT--TTGAAAAACAGAAATTTAAAAGAA
13967476 ATACCTCGGCATGGT
64 ATACCTCGGCATGGT
*
13967491 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACATAAATTTAAAAGAAAT
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTTAAAAGAAAT
13967556 ACCTCGGCATGGT
66 ACCTCGGCATGGT
13967569 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAAACAGAAATTTAAAAGA
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTG-AAAAACAGAAATTTAAAAGA
*
13967634 AATACCTCGGAATGTTGGT
63 AATACCTCGGCA---TGGT
*
13967653 CCGAGG-TCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTAAAAA
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTTTGAAAAA
13967700 GAAAAAAAAG
Statistics
Matches: 433, Mismatches: 59, Indels: 52
0.80 0.11 0.10
Matches are distributed among these distances:
73 12 0.03
74 32 0.07
75 7 0.02
76 45 0.10
77 16 0.04
78 106 0.24
79 30 0.07
80 59 0.14
81 71 0.16
82 17 0.04
83 27 0.06
84 11 0.03
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (78 bp):
CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTTAAAAGAAAT
ACCTCGGCATGGT
Found at i:13967780 original size:96 final size:96
Alignment explanation
Indices: 13967613--13967787 Score: 246
Period size: 98 Copynumber: 1.8 Consensus size: 96
13967603 ATTTTTTTTG
* **
13967613 AAAAAACAGAAATTTAAAAGAAATACCTCGGAATGTTGGTCCGAGGTCAACTCACCTCTCGCAAT
1 AAAAAACAGAAATTTAAAAGAAATACCTC-GAACGTTGACCCGAGGTCAACTCACCTCTCGCAAT
13967678 ATGAGTTGAATTTTTTTAAAAAGAAAAAAAAGA
65 ATGAGTTG-ATTTTTTTAAAAAGAAAAAAAAGA
* * * *
13967711 AAAAAATAGAAATTTAAAAGAAATACCTC-AGCG-TGACCCGAGGCTCAACTCACCTCTCGTATT
1 AAAAAACAGAAATTTAAAAGAAATACCTCGAACGTTGACCCGAGG-TCAACTCACCTCTCGCAAT
13967774 ATGAGTTGATTTTT
65 ATGAGTTGATTTTT
13967788 GAAAAAAATA
Statistics
Matches: 69, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
95 14 0.20
96 27 0.39
98 28 0.41
ACGTcount: A:0.41, C:0.17, G:0.16, T:0.26
Consensus pattern (96 bp):
AAAAAACAGAAATTTAAAAGAAATACCTCGAACGTTGACCCGAGGTCAACTCACCTCTCGCAATA
TGAGTTGATTTTTTTAAAAAGAAAAAAAAGA
Found at i:13967795 original size:96 final size:97
Alignment explanation
Indices: 13967613--13967795 Score: 237
Period size: 96 Copynumber: 1.9 Consensus size: 97
13967603 ATTTTTTTTG
* **
13967613 AAAAAACAGAAATTTAAAAGAAATACCTCGGAATGTTGGTCCGAGGTCAACTCACCTCTCGCAAT
1 AAAAAACAGAAATTTAAAAGAAATACCTC-GAACGTTGACCCGAGGTCAACTCACCTCTCGCAAT
**
13967678 ATGAGTTGAATTTTTTTAAAAAGAAAAAAAAGA
65 ATGAGTTGAATTTTTAAAAAAAGAAAAAAAAGA
* * * *
13967711 AAAAAATAGAAATTTAAAAGAAATACCTC-AGCG-TGACCCGAGGCTCAACTCACCTCTCGTATT
1 AAAAAACAGAAATTTAAAAGAAATACCTCGAACGTTGACCCGAGG-TCAACTCACCTCTCGCAAT
13967774 ATGAGTTG-ATTTTTGAAAAAAA
65 ATGAGTTGAATTTTT-AAAAAAA
13967796 TAGAAATTAA
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
95 14 0.19
96 32 0.43
98 28 0.38
ACGTcount: A:0.43, C:0.16, G:0.16, T:0.25
Consensus pattern (97 bp):
AAAAAACAGAAATTTAAAAGAAATACCTCGAACGTTGACCCGAGGTCAACTCACCTCTCGCAATA
TGAGTTGAATTTTTAAAAAAAGAAAAAAAAGA
Found at i:13979689 original size:17 final size:16
Alignment explanation
Indices: 13979663--13979998 Score: 161
Period size: 18 Copynumber: 19.3 Consensus size: 16
13979653 ATACGAATTT
*
13979663 TTTTTAAAACACGAAGA
1 TTTTTGAAACACGAA-A
** **
13979680 TTTTTGAAACAATTATT
1 TTTTTGAAAC-ACGAAA
* *
13979697 TTTTTTAAAAAACGAAAA
1 TTTTTGAAACA-CGA-AA
* * *
13979715 TTTATGAAACAAGAGAT
1 TTTTTGAAACACGA-AA
13979732 TTTTTTGAAAACACGAAAA
1 TTT-TTG-AAACACG-AAA
**
13979751 TTTTCAAAACACCGAAA
1 TTTTTGAAACA-CGAAA
*
13979768 TTTTTGAAAACACGAGGA
1 TTTTTG-AAACACGA-AA
* *
13979786 TTTTTGAAATACAAAAA
1 TTTTTGAAACAC-GAAA
* *
13979803 ATTTTGAAACCATGAAAA
1 TTTTTGAAA-CACG-AAA
*
13979821 TTTTTGAAAACAAGGAAA
1 TTTTTG-AAAC-ACGAAA
* *
13979839 TTTTTAAAACACGGGAAT
1 TTTTTGAAACAC--GAAA
*
13979857 TTTTTGAAACACCAGAA
1 TTTTTGAAACACGA-AA
13979874 TTTTTGAAAACACGGAAA
1 TTTTTG-AAACAC-GAAA
*
13979892 TTTTTGAAAACACGGAAT
1 TTTTTG-AAACAC-GAAA
* *
13979910 TTTTTAAAACACAAAAA
1 TTTTTGAAACAC-GAAA
*
13979927 TTTTTGAAATACGAAAA
1 TTTTTGAAACACG-AAA
*
13979944 TTTTAGAAACAC-AAA
1 TTTTTGAAACACGAAA
* *
13979959 TTTTTAAAAGACGACAA
1 TTTTTGAAACACGA-AA
13979976 TTTTTTGAAACACGAGAA
1 -TTTTTGAAACACGA-AA
13979994 TTTTT
1 TTTTT
13979999 TTTAAAACAT
Statistics
Matches: 239, Mismatches: 57, Indels: 46
0.70 0.17 0.13
Matches are distributed among these distances:
15 12 0.05
16 4 0.02
17 102 0.43
18 104 0.44
19 16 0.07
20 1 0.00
ACGTcount: A:0.46, C:0.10, G:0.12, T:0.32
Consensus pattern (16 bp):
TTTTTGAAACACGAAA
Found at i:13979754 original size:18 final size:18
Alignment explanation
Indices: 13979697--13980049 Score: 225
Period size: 18 Copynumber: 20.1 Consensus size: 18
13979687 AACAATTATT
* *
13979697 TTTTTTAAAAAACGAAAA
1 TTTTTGAAAACACGAAAA
* * **
13979715 TTTATG-AAACAAGAGATT
1 TTTTTGAAAACACGA-AAA
13979733 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
*
13979751 -TTTTCAAAACACCG-AAA
1 TTTTTGAAAACA-CGAAAA
**
13979768 TTTTTGAAAACACGAGGA
1 TTTTTGAAAACACGAAAA
13979786 TTTTTGAAATACA--AAAA
1 TTTTTGAAA-ACACGAAAA
* * *
13979803 ATTTTGAAACCATGAAAA
1 TTTTTGAAAACACGAAAA
* *
13979821 TTTTTGAAAACAAGGAAA
1 TTTTTGAAAACACGAAAA
* *
13979839 TTTTT-AAAACACGGGAAT
1 TTTTTGAAAACAC-GAAAA
* *
13979857 TTTTTG-AAACACCAGAA
1 TTTTTGAAAACACGAAAA
*
13979874 TTTTTGAAAACACGGAAA
1 TTTTTGAAAACACGAAAA
*
13979892 TTTTTGAAAACACG-GAA
1 TTTTTGAAAACACGAAAA
* *
13979909 TTTTTTAAAACACAAAAA
1 TTTTTGAAAACACGAAAA
*
13979927 TTTTTG-AAATACGAAAA
1 TTTTTGAAAACACGAAAA
*
13979944 TTTTAG-AAACAC--AAA
1 TTTTTGAAAACACGAAAA
* *
13979959 TTTTT-AAAAGACGACAAT
1 TTTTTGAAAACACGA-AAA
*
13979977 TTTTTG-AAACACGAGAATT
1 TTTTTGAAAACACGA-AA-A
* **
13979996 TTTTTTAAAACATAAAAA
1 TTTTTGAAAACACGAAAA
**
13980014 AATTT-AAAACACGAAAA
1 TTTTTGAAAACACGAAAA
* *
13980031 TTTGTG-AAACACGAGAA
1 TTTTTGAAAACACGAAAA
13980048 TT
1 TT
13980050 NNNNNNNNNN
Statistics
Matches: 258, Mismatches: 57, Indels: 41
0.72 0.16 0.12
Matches are distributed among these distances:
15 12 0.05
16 2 0.01
17 101 0.39
18 119 0.46
19 18 0.07
20 6 0.02
ACGTcount: A:0.47, C:0.10, G:0.12, T:0.31
Consensus pattern (18 bp):
TTTTTGAAAACACGAAAA
Found at i:13979930 original size:16 final size:15
Alignment explanation
Indices: 13979911--13979967 Score: 51
Period size: 17 Copynumber: 3.5 Consensus size: 15
13979901 ACACGGAATT
13979911 TTTTAAAACACAAAAA
1 TTTTAAAACAC-AAAA
* *
13979927 TTTTTGAAATACGAAAA
1 -TTTTAAAACAC-AAAA
*
13979944 TTTTAGAAACACAAAT
1 TTTTA-AAACACAAAA
13979960 TTTTAAAA
1 TTTTAAAA
13979968 GACGACAATT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
15 3 0.09
16 12 0.36
17 18 0.55
ACGTcount: A:0.53, C:0.09, G:0.05, T:0.33
Consensus pattern (15 bp):
TTTTAAAACACAAAA
Found at i:13979946 original size:35 final size:35
Alignment explanation
Indices: 13979662--13980049 Score: 234
Period size: 35 Copynumber: 11.1 Consensus size: 35
13979652 AATACGAATT
* *** **
13979662 TTTTTTAAAACACGAAGATTTTTGAAACAATTATT
1 TTTTTTAAAACACGAAAATTTTTGAAACACGAAAA
* * * * *
13979697 TTTTTTAAAAAACGAAAATTTATGAAACAAGAGAT
1 TTTTTTAAAACACGAAAATTTTTGAAACACGAAAA
**
13979732 TTTTTTGAAAACACGAAAATTTTCAAAACACCG-AAA
1 TTTTTT-AAAACACGAAAATTTTTGAAACA-CGAAAA
* ** * *
13979768 TTTTTGAAAACACGAGGATTTTTGAAATACAAAAA
1 TTTTTTAAAACACGAAAATTTTTGAAACACGAAAA
* * * * * *
13979803 ATTTTGAAACCATGAAAATTTTTGAAAACAAGGAAA
1 TTTTTTAAAACACGAAAATTTTTG-AAACACGAAAA
* * * *
13979839 -TTTTTAAAACACGGGAATTTTTTGAAACACCAGAA
1 TTTTTTAAAACAC-GAAAATTTTTGAAACACGAAAA
* * *
13979874 TTTTTGAAAACACGGAAATTTTTGAAAACACG-GAA
1 TTTTTTAAAACACGAAAATTTTTG-AAACACGAAAA
* *
13979909 TTTTTTAAAACACAAAAATTTTTGAAATACGAAAA
1 TTTTTTAAAACACGAAAATTTTTGAAACACGAAAA
* * *
13979944 --TTTTAGAAACAC--AAATTTTTAAAAGACGACAA
1 TTTTTTA-AAACACGAAAATTTTTGAAACACGAAAA
* * * *
13979976 TTTTTTGAAACACGAGAATTTTTTTTAAA-ACATAAAA
1 TTTTTTAAAACACGA-AA-ATTTTTGAAACAC-GAAAA
*** * *
13980013 AAATTTAAAACACGAAAATTTGTGAAACACGAGAA
1 TTTTTTAAAACACGAAAATTTTTGAAACACGAAAA
13980048 TT
1 TT
13980050 NNNNNNNNNN
Statistics
Matches: 270, Mismatches: 66, Indels: 34
0.73 0.18 0.09
Matches are distributed among these distances:
32 17 0.06
33 11 0.04
34 17 0.06
35 136 0.50
36 66 0.24
37 23 0.09
ACGTcount: A:0.47, C:0.10, G:0.11, T:0.32
Consensus pattern (35 bp):
TTTTTTAAAACACGAAAATTTTTGAAACACGAAAA
Found at i:13984984 original size:21 final size:21
Alignment explanation
Indices: 13984960--13985010 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
13984950 CTACAACTTA
*
13984960 AAGCAGAGGCGGCAACGAGGG
1 AAGCAGAGGCGGCAACGAGAG
* *
13984981 AAGCAGAGGCTGCAGCGAGAG
1 AAGCAGAGGCGGCAACGAGAG
13985002 AAGCAGAGG
1 AAGCAGAGG
13985011 TTCAAAAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.35, C:0.18, G:0.45, T:0.02
Consensus pattern (21 bp):
AAGCAGAGGCGGCAACGAGAG
Found at i:13985439 original size:44 final size:44
Alignment explanation
Indices: 13985391--13985557 Score: 153
Period size: 43 Copynumber: 3.9 Consensus size: 44
13985381 GTTTTTGTAC
*
13985391 AAAAGCGCCGCTAAAGAACATGGTCTTTAGTGGCGTTTATAAAA
1 AAAAGCGCCGCTAAAGAACATGTTCTTTAGTGGCGTTTATAAAA
* * * * *
13985435 AAAAGCGCCGCTGAAA-AACATGATATTTAGTGGCATTT-TTATA
1 AAAAGCGCCGCT-AAAGAACATGTTCTTTAGTGGCGTTTATAAAA
* * * * * *
13985478 CAAAGCGCCGTTAAAAAACATGTTCTTTAGCGGCGCTTA-ATAA
1 AAAAGCGCCGCTAAAGAACATGTTCTTTAGTGGCGTTTATAAAA
* * * *
13985521 AAAA-CGTCACTAAAGATCATGTTCTTCAGTGGCGTTT
1 AAAAGCGCCGCTAAAGAACATGTTCTTTAGTGGCGTTT
13985558 TTTTCCAAGC
Statistics
Matches: 96, Mismatches: 24, Indels: 8
0.75 0.19 0.06
Matches are distributed among these distances:
42 28 0.29
43 34 0.35
44 31 0.32
45 3 0.03
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (44 bp):
AAAAGCGCCGCTAAAGAACATGTTCTTTAGTGGCGTTTATAAAA
Found at i:13985496 original size:43 final size:43
Alignment explanation
Indices: 13985374--13985601 Score: 154
Period size: 42 Copynumber: 5.3 Consensus size: 43
13985364 AACCCAAAAA
* * * *
13985374 TAGTGGCGTTTTTGTACAAAAGCGCCGCTAAAGAACATGGTCTT
1 TAGTGGCGTTTTTATAC-AAAGCGCCGCTAAAAAACATGATATT
* * * *
13985418 TAGTGGCGTTTATAAAAAAAAGCGCCGCTGAAAAACATGATATT
1 TAGTGGCGTTT-TTATACAAAGCGCCGCTAAAAAACATGATATT
* * * *
13985462 TAGTGGCATTTTTATACAAAGCGCCGTTAAAAAACATGTTCTT
1 TAGTGGCGTTTTTATACAAAGCGCCGCTAAAAAACATGATATT
* * * * * * * * * * *
13985505 TAGCGGCG-CTTAATAAAAAACGTCACTAAAGATCATGTTCTT
1 TAGTGGCGTTTTTATACAAAGCGCCGCTAAAAAACATGATATT
* * * * *
13985547 CAGTGGCGTTTTT-TTCCAAGCGCCGCTAAAGAACATGGTATT
1 TAGTGGCGTTTTTATACAAAGCGCCGCTAAAAAACATGATATT
**
13985589 TAACGGCGTTTTT
1 TAGTGGCGTTTTT
13985602 GTTTGTAAAC
Statistics
Matches: 139, Mismatches: 43, Indels: 6
0.74 0.23 0.03
Matches are distributed among these distances:
42 61 0.44
43 33 0.24
44 43 0.31
45 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.31
Consensus pattern (43 bp):
TAGTGGCGTTTTTATACAAAGCGCCGCTAAAAAACATGATATT
Found at i:13985561 original size:87 final size:88
Alignment explanation
Indices: 13985375--13985596 Score: 222
Period size: 87 Copynumber: 2.6 Consensus size: 88
13985365 ACCCAAAAAT
* * * *
13985375 AGTGGCGTTTTTGTACAAAAGCGCCGCTAAAGAACATGGTCTTTAGTGGCGTTTATAAAAAAAAG
1 AGTGGCGTTTTTTTACAAAAGCGCCGCTAAAAAACATGGTCTTTAGCGGCGCTTATAAAAAAAAG
* *
13985440 CGCCGCTGAAAAACATGATATTT
66 CGCCACTGAAAAACATGATATTC
* * * * *
13985463 AGTGGCATTTTTATAC-AAAGCGCCGTTAAAAAACATGTTCTTTAGCGGCGCTTA-ATAAAAAA-
1 AGTGGCGTTTTTTTACAAAAGCGCCGCTAAAAAACATGGTCTTTAGCGGCGCTTATAAAAAAAAG
* * * *
13985525 CGTCACT-AAAGATCATGTTCTTC
66 CGCCACTGAAA-AACATGATATTC
* * * *
13985548 AGTGGCGTTTTTTT-C-CAAGCGCCGCTAAAGAACATGGTATTTAACGGCG
1 AGTGGCGTTTTTTTACAAAAGCGCCGCTAAAAAACATGGTCTTTAGCGGCG
13985597 TTTTTGTTTG
Statistics
Matches: 111, Mismatches: 22, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
84 32 0.29
85 25 0.23
86 7 0.06
87 33 0.30
88 14 0.13
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (88 bp):
AGTGGCGTTTTTTTACAAAAGCGCCGCTAAAAAACATGGTCTTTAGCGGCGCTTATAAAAAAAAG
CGCCACTGAAAAACATGATATTC
Found at i:13987730 original size:25 final size:26
Alignment explanation
Indices: 13987683--13987739 Score: 89
Period size: 25 Copynumber: 2.2 Consensus size: 26
13987673 GACAAAAAAA
*
13987683 ATAAAACTGTTTAAAAAAATAAACTG
1 ATAAAACTATTTAAAAAAATAAACTG
13987709 ATAAAACTATTT-AAAAAATAAACTG
1 ATAAAACTATTTAAAAAAATAAACTG
*
13987734 ACAAAA
1 ATAAAA
13987740 AAAAAGTGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 18 0.62
26 11 0.38
ACGTcount: A:0.61, C:0.09, G:0.05, T:0.25
Consensus pattern (26 bp):
ATAAAACTATTTAAAAAAATAAACTG
Found at i:13991780 original size:373 final size:373
Alignment explanation
Indices: 13991086--13991832 Score: 1379
Period size: 373 Copynumber: 2.0 Consensus size: 373
13991076 ACGGCTGTAG
*
13991086 TCCCCTCACACATGCATCGACTTCGGGCATACGAGCCAGTAACCGATATAGAGGCCAATCTAGAG
1 TCCCCTCACACATGCATCGACTTCAGGCATACGAGCCAGTAACCGATATAGAGGCCAATCTAGAG
*
13991151 GCAGAACATCAGCCAGAGCTCGAGCCCGAGCCCAAGCGGTCATATACGCATTTCGCTGATAGTTC
66 GCAGAACATCAGCCAGAGCTCGAGCCCGAGCCCAAGCGGTCATATACACATTTCGCTGATAGTTC
*
13991216 TTATCATCCGGAGTTACGGGTCAATGACTATTTCCCAGGCTCGTCAGGGCACGGATATAATTCCG
131 TTATCATCCGGAGTTACGGGTCAATGACTATTTCCCAGGCTCGTCAGGGCACGAATATAATTCCG
13991281 GGTTTGATATCTTTAGTTCAATACAATCACAGTACAACAGTCCTTCCGGCTCTAGCTCATCGATA
196 GGTTTGATATCTTTAGTTCAATACAATCACAGTACAACAGTCCTTCCGGCTCTAGCTCATCGATA
* *
13991346 GTATTCGGGGCATATGATTTTTCTTTCATGTTTCGCACACCCCCACCTGCGGCTGAAGAGGACGT
261 GTATTCGGGGCATATGATTTTTCTTTCATGTTTCGCACACCCCCACCTGCAGCTAAAGAGGACGT
* *
13991411 TGATCGCCACAATTACCCACAACGTGAACGTTGACCCCTGCAGAAATA
326 TGATCGCCACAATCACCCACAACGTGAACGTCGACCCCTGCAGAAATA
13991459 TCCCCTCACACATGCATCGACTTCAGGCATACGAGCCAGTAACCGATATAGAGGCCAATCTAGAG
1 TCCCCTCACACATGCATCGACTTCAGGCATACGAGCCAGTAACCGATATAGAGGCCAATCTAGAG
13991524 GCAGAACATCAGCCAGAGCTCGAGCCCGAGCCCAAGCGGTCATATACACATTTCGCTGATAGTTC
66 GCAGAACATCAGCCAGAGCTCGAGCCCGAGCCCAAGCGGTCATATACACATTTCGCTGATAGTTC
* *
13991589 TTATCATCCGGAGTTACGGGTCAATGACTATTTCCCAGGCTTGTCAGGGCACGAATATAATTTCG
131 TTATCATCCGGAGTTACGGGTCAATGACTATTTCCCAGGCTCGTCAGGGCACGAATATAATTCCG
*
13991654 GGTTTGATATCTTTAGTTCAATACAATCACAGTACAACAGTCCTTCCGGCTCTAGCTCATCGATG
196 GGTTTGATATCTTTAGTTCAATACAATCACAGTACAACAGTCCTTCCGGCTCTAGCTCATCGATA
13991719 GCT-TTCGGGGCATATGATTTTTCTTTCATGTTTCGCACACCCCCACCTGCAGCTAAAGAGGACG
261 G-TATTCGGGGCATATGATTTTTCTTTCATGTTTCGCACACCCCCACCTGCAGCTAAAGAGGACG
*
13991783 TTGATCGCCACAATCACCCACAACGTGAACGTCGACCCCTGTAGAAATA
325 TTGATCGCCACAATCACCCACAACGTGAACGTCGACCCCTGCAGAAATA
13991832 T
1 T
13991833 ACCTCTAGGA
Statistics
Matches: 362, Mismatches: 11, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
373 361 1.00
374 1 0.00
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (373 bp):
TCCCCTCACACATGCATCGACTTCAGGCATACGAGCCAGTAACCGATATAGAGGCCAATCTAGAG
GCAGAACATCAGCCAGAGCTCGAGCCCGAGCCCAAGCGGTCATATACACATTTCGCTGATAGTTC
TTATCATCCGGAGTTACGGGTCAATGACTATTTCCCAGGCTCGTCAGGGCACGAATATAATTCCG
GGTTTGATATCTTTAGTTCAATACAATCACAGTACAACAGTCCTTCCGGCTCTAGCTCATCGATA
GTATTCGGGGCATATGATTTTTCTTTCATGTTTCGCACACCCCCACCTGCAGCTAAAGAGGACGT
TGATCGCCACAATCACCCACAACGTGAACGTCGACCCCTGCAGAAATA
Found at i:13994950 original size:16 final size:16
Alignment explanation
Indices: 13994910--13994969 Score: 56
Period size: 16 Copynumber: 3.9 Consensus size: 16
13994900 TAACATTCAC
*
13994910 AATAAACACATAA-TT
1 AATAAACACAAAACTT
13994925 AATCTAAACACAAAACTT
1 AA--TAAACACAAAACTT
*
13994943 AATAAACAAAAAACTT
1 AATAAACACAAAACTT
13994959 --TAAA-ACAAAAC
1 AATAAACACAAAAC
13994970 ATAAAAATAA
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
13 6 0.15
14 4 0.10
15 2 0.05
16 13 0.33
17 10 0.26
18 4 0.10
ACGTcount: A:0.63, C:0.17, G:0.00, T:0.20
Consensus pattern (16 bp):
AATAAACACAAAACTT
Found at i:13995216 original size:27 final size:27
Alignment explanation
Indices: 13995186--13995244 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
13995176 GGGTGCCGTC
* *
13995186 TATGGGGATGGCGTCACCTGTGCCACT
1 TATGGGGAAGGCGTCACCGGTGCCACT
* **
13995213 TATGGGGAAGGCGTGACCGGTGCTGCT
1 TATGGGGAAGGCGTCACCGGTGCCACT
13995240 TATGG
1 TATGG
13995245 AAAAGGCTTG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.15, C:0.20, G:0.39, T:0.25
Consensus pattern (27 bp):
TATGGGGAAGGCGTCACCGGTGCCACT
Found at i:13995994 original size:22 final size:22
Alignment explanation
Indices: 13995948--13995994 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
13995938 ACATAAATTT
** *
13995948 TTTATAATATAAATTTTTAAGA
1 TTTATAATATAAATTTAGAAAA
*
13995970 TTTATAATATAAGTTTAGAAAA
1 TTTATAATATAAATTTAGAAAA
13995992 TTT
1 TTT
13995995 TTACCATAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.49
Consensus pattern (22 bp):
TTTATAATATAAATTTAGAAAA
Found at i:13997162 original size:22 final size:21
Alignment explanation
Indices: 13997137--13997180 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
13997127 TAATGCCAAA
13997137 ATAATAATA-GCATAACATCGTG
1 ATAATAATATG-ATAACA-CGTG
*
13997159 ATAATAGTATGATAACACGTG
1 ATAATAATATGATAACACGTG
13997180 A
1 A
13997181 GAACAATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
22 14 0.70
23 1 0.05
ACGTcount: A:0.45, C:0.11, G:0.16, T:0.27
Consensus pattern (21 bp):
ATAATAATATGATAACACGTG
Found at i:13997477 original size:42 final size:42
Alignment explanation
Indices: 13997418--13997554 Score: 204
Period size: 42 Copynumber: 3.3 Consensus size: 42
13997408 TAAAAATATC
* *
13997418 AAGGAAGCAACATGGGAAAGCAACATCCATG-TCTAGACAAAA
1 AAGGAAGCAACTTGGGAAAGCAACATCCAAGTTC-AGACAAAA
*
13997460 AAGGAAGCAACTTGGGAAAACAACATCCAAGTTCAGACAAAA
1 AAGGAAGCAACTTGGGAAAGCAACATCCAAGTTCAGACAAAA
* * *
13997502 AAGGAAGCAACTTGGGAAAGCAACATCTAGGTTCAAACAAAA
1 AAGGAAGCAACTTGGGAAAGCAACATCCAAGTTCAGACAAAA
13997544 AAGGAAGCAAC
1 AAGGAAGCAAC
13997555 GTGAAAGTAA
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
42 85 0.98
43 2 0.02
ACGTcount: A:0.49, C:0.18, G:0.21, T:0.12
Consensus pattern (42 bp):
AAGGAAGCAACTTGGGAAAGCAACATCCAAGTTCAGACAAAA
Found at i:14033675 original size:3 final size:3
Alignment explanation
Indices: 14033663--14033751 Score: 58
Period size: 3 Copynumber: 30.0 Consensus size: 3
14033653 AAGAGAAATG
* * * **
14033663 ATA ATAA ATA ATA ATA A-A GT- ATA TACA ATA ATA GTA ATA GCA ATA
1 ATA AT-A ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA
* * * *
14033708 TTA A-A ATA ATA ATA ATA ATA ATA ATA GTA AAA ATA ATG ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
14033752 CTATTGAAAT
Statistics
Matches: 63, Mismatches: 18, Indels: 10
0.69 0.20 0.11
Matches are distributed among these distances:
2 4 0.06
3 54 0.86
4 5 0.08
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:14033727 original size:20 final size:21
Alignment explanation
Indices: 14033668--14033731 Score: 53
Period size: 23 Copynumber: 3.0 Consensus size: 21
14033658 AAATGATAAT
*
14033668 AAATAATAATAA-AGTATATA
1 AAATAATAATAATAATATATA
* *
14033688 CAATAATAGTAATAGCA-ATATTA
1 AAATAATAATAATA--ATATA-TA
14033711 AAATAATAATAATAATA-ATA
1 AAATAATAATAATAATATATA
14033731 A
1 A
14033732 TAGTAAAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 10
0.69 0.10 0.20
Matches are distributed among these distances:
20 13 0.38
21 3 0.09
22 4 0.12
23 14 0.41
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (21 bp):
AAATAATAATAATAATATATA
Found at i:14034410 original size:27 final size:27
Alignment explanation
Indices: 14034358--14034410 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
14034348 ATTAAAATAA
* * *
14034358 AAAACGGAAAAGAAAAATACAGGAAAC
1 AAAACAGAAAAGAAAAATAAAAGAAAC
14034385 AAAACAGAAGAAGAAAAA-AAAAGAAA
1 AAAACAGAA-AAGAAAAATAAAAGAAA
14034411 AACCACCTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 14 0.64
28 8 0.36
ACGTcount: A:0.74, C:0.08, G:0.17, T:0.02
Consensus pattern (27 bp):
AAAACAGAAAAGAAAAATAAAAGAAAC
Found at i:14034450 original size:39 final size:39
Alignment explanation
Indices: 14034398--14034472 Score: 150
Period size: 39 Copynumber: 1.9 Consensus size: 39
14034388 ACAGAAGAAG
14034398 AAAAAAAAAGAAAAACCACCTTCTTTCAAATTTTTTAGA
1 AAAAAAAAAGAAAAACCACCTTCTTTCAAATTTTTTAGA
14034437 AAAAAAAAAGAAAAACCACCTTCTTTCAAATTTTTT
1 AAAAAAAAAGAAAAACCACCTTCTTTCAAATTTTTT
14034473 CTTTTTCGTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.51, C:0.16, G:0.04, T:0.29
Consensus pattern (39 bp):
AAAAAAAAAGAAAAACCACCTTCTTTCAAATTTTTTAGA
Found at i:14035213 original size:132 final size:132
Alignment explanation
Indices: 14035068--14035394 Score: 550
Period size: 132 Copynumber: 2.5 Consensus size: 132
14035058 GATTATTGGA
* * * *
14035068 TTAAATCTACTTCCCTACTACTTTGGGAAGATAAGAAT-AGTCGTCTTCGATCTGCTCTC-CTAC
1 TTAAATCTTCTTCCCTACTACCTTGGGAAGATAAGATTCA-CCGTCTTCGATCTGCTC-CACTAC
*
14035131 TGCTTAGGGAAACAGGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACCGG
64 TGCTTAGGGAAACAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACCGG
14035196 CGGC
129 CGGC
*
14035200 TTAAATCTTCTTCCCTACTACCTTGGGAAGATAAGATTCACCGTCTTCAATCTGCTCCACTACTG
1 TTAAATCTTCTTCCCTACTACCTTGGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTG
* *
14035265 TTTAGGGAGACAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACCGGCG
66 CTTAGGGAAACAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACCGGCG
14035330 GC
131 GC
14035332 TTAAATCTTCTTCCCTACTACCTTGGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTAC
1 TTAAATCTTCTTCCCTACTACCTTGGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTAC
14035395 ACCGCCAGCA
Statistics
Matches: 184, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
131 1 0.01
132 182 0.99
133 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.28
Consensus pattern (132 bp):
TTAAATCTTCTTCCCTACTACCTTGGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTG
CTTAGGGAAACAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACCGGCG
GC
Found at i:14035661 original size:89 final size:89
Alignment explanation
Indices: 14035464--14036118 Score: 873
Period size: 89 Copynumber: 7.4 Consensus size: 89
14035454 GGCAATAAGA
* * * ** *
14035464 CTGGTGTCTTCGATCTACTTCGCTGCCAGTACAGGAAGGCAAGATCTGCTATTTTCAACCTACTC
1 CTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTC
* **** ***
14035529 CACTGC-TGGTCAGGGAAATAAGG
66 CGCTGCAAACCCAGGGAGGCAAGG
* ** * *
14035552 CTGGTGTCCTCGATCTGCTTCATTGTCAGTACAGGAAGGCAAGATCTGTTATTTTCAGTCTGCTC
1 CTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTC
* * **
14035617 TGTTGCAAACCCAGGGAGTTAAGG
66 CGCTGCAAACCCAGGGAGGCAAGG
* * *
14035641 CTGGTGTTTTCGATCTGCTTCGCTGTCAGTACAGAAATGCAAGATCTGCTATCTTCAGTCTGCTC
1 CTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTC
*
14035706 CGCTGCAAACCCAGTGAGGCAAGG
66 CGCTGCAAACCCAGGGAGGCAAGG
* *
14035730 CTGGTGTCTTCAATCTGCTTCGCTGTCAATACAGGAAGGCAAGATCTGCTATCTTCAG-CTTGCT
1 CTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTC-TGCT
*
14035794 CCGCTGCAAACCCAGGGAGGCAAGA
65 CCGCTGCAAACCCAGGGAGGCAAGG
* * * *
14035819 CTAGTGTCTTCGATCTGCTTCACTGTCAATACGGGAAGGCAAGATCTGCTATCTTCAGTCTGCTC
1 CTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTC
14035884 CGCTGCAAACCCAGGGAGGCAAGG
66 CGCTGCAAACCCAGGGAGGCAAGG
* * * * * *
14035908 CTAGTGTCTTTGATCTACTTCGCTGTCAATACAGGAAAGCAAGATCTGCTATCTTCAATCTGCTC
1 CTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTC
* *
14035973 CACTACAAACCCAGGGAGGCAAGG
66 CGCTGCAAACCCAGGGAGGCAAGG
* *
14035997 CCGGTGTCTTCGACCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTC
1 CTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTC
*
14036062 CGCTGCAAACCCAGTGAGGCAAGG
66 CGCTGCAAACCCAGGGAGGCAAGG
*
14036086 CTGGTGTCTTCGATCTGCTTCACTGTCAGTACA
1 CTGGTGTCTTCGATCTGCTTCGCTGTCAGTACA
14036119 AAATTGAATC
Statistics
Matches: 499, Mismatches: 65, Indels: 5
0.88 0.11 0.01
Matches are distributed among these distances:
88 60 0.12
89 438 0.88
90 1 0.00
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (89 bp):
CTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTC
CGCTGCAAACCCAGGGAGGCAAGG
Found at i:14040675 original size:18 final size:18
Alignment explanation
Indices: 14040652--14040686 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
14040642 TTATATAATG
* *
14040652 TTTATATTCTTTTATGAT
1 TTTATATACTATTATGAT
14040670 TTTATATACTATTATGA
1 TTTATATACTATTATGA
14040687 GTCAGATTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.60
Consensus pattern (18 bp):
TTTATATACTATTATGAT
Found at i:14055009 original size:48 final size:49
Alignment explanation
Indices: 14054937--14055033 Score: 187
Period size: 48 Copynumber: 2.0 Consensus size: 49
14054927 ATATATATAA
14054937 ATATATATATATATTTCATTATTAGAAATACAGTGCACTCGTACAAACG
1 ATATATATATATATTTCATTATTAGAAATACAGTGCACTCGTACAAACG
14054986 ATATATATAT-TATTTCATTATTAGAAATACAGTGCACTCGTACAAACG
1 ATATATATATATATTTCATTATTAGAAATACAGTGCACTCGTACAAACG
14055034 CAAATACATC
Statistics
Matches: 48, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
48 38 0.79
49 10 0.21
ACGTcount: A:0.40, C:0.14, G:0.10, T:0.35
Consensus pattern (49 bp):
ATATATATATATATTTCATTATTAGAAATACAGTGCACTCGTACAAACG
Found at i:14061096 original size:6 final size:6
Alignment explanation
Indices: 14061085--14061189 Score: 123
Period size: 6 Copynumber: 18.0 Consensus size: 6
14061075 AAAATATTCC
*
14061085 AAGAAA AAG--A AA-AAA AAGAAA AAGAAA AAGAAA AAGAAA AA-AGA
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA
*
14061129 AA-AAA AAGAAA AAGAACA AAGAACA AAGAAA AA-AGAA AAGAAA AAGGAA
1 AAGAAA AAGAAA AAGAA-A AAGAA-A AAGAAA AAGA-AA AAGAAA AAGAAA
14061178 AAGAAA AAGAAA
1 AAGAAA AAGAAA
14061190 TGAAAGAAGA
Statistics
Matches: 88, Mismatches: 4, Indels: 14
0.83 0.04 0.13
Matches are distributed among these distances:
4 3 0.03
5 12 0.14
6 59 0.67
7 14 0.16
ACGTcount: A:0.82, C:0.02, G:0.16, T:0.00
Consensus pattern (6 bp):
AAGAAA
Found at i:14061106 original size:7 final size:7
Alignment explanation
Indices: 14061088--14061179 Score: 93
Period size: 7 Copynumber: 13.4 Consensus size: 7
14061078 ATATTCCAAG
14061088 AAAAAGA
1 AAAAAGA
*
14061095 AAAAAAA
1 AAAAAGA
14061102 GAAAAAG-
1 -AAAAAGA
14061109 AAAAAG-
1 AAAAAGA
14061115 AAAAAGA
1 AAAAAGA
14061122 AAAAAGA
1 AAAAAGA
*
14061129 AAAAAAA
1 AAAAAGA
14061136 GAAAAAGA
1 -AAAAAGA
*
14061144 ACAAAGA
1 AAAAAGA
*
14061151 ACAAAGA
1 AAAAAGA
14061158 AAAAAG-
1 AAAAAGA
14061164 -AAAAGA
1 AAAAAGA
*
14061170 AAAAGGA
1 AAAAAGA
14061177 AAA
1 AAA
14061180 GAAAAAGAAA
Statistics
Matches: 73, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
5 5 0.07
6 12 0.16
7 45 0.62
8 11 0.15
ACGTcount: A:0.83, C:0.02, G:0.15, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:14061942 original size:15 final size:15
Alignment explanation
Indices: 14061922--14061962 Score: 64
Period size: 16 Copynumber: 2.7 Consensus size: 15
14061912 TGACATTCTG
14061922 CATTCATACAAATAT
1 CATTCATACAAATAT
*
14061937 CATTCAATGCAAATAT
1 CATTC-ATACAAATAT
14061953 CATTCATACA
1 CATTCATACA
14061963 CGTCTAGTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 9 0.39
16 14 0.61
ACGTcount: A:0.44, C:0.22, G:0.02, T:0.32
Consensus pattern (15 bp):
CATTCATACAAATAT
Found at i:14062216 original size:15 final size:15
Alignment explanation
Indices: 14062196--14062236 Score: 64
Period size: 16 Copynumber: 2.7 Consensus size: 15
14062186 TGACATTCTG
14062196 CATTCATACAAATAT
1 CATTCATACAAATAT
*
14062211 CATTCAATGCAAATAT
1 CATTC-ATACAAATAT
14062227 CATTCATACA
1 CATTCATACA
14062237 CGTCTAGTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 9 0.39
16 14 0.61
ACGTcount: A:0.44, C:0.22, G:0.02, T:0.32
Consensus pattern (15 bp):
CATTCATACAAATAT
Found at i:14062351 original size:274 final size:275
Alignment explanation
Indices: 14061852--14062400 Score: 1091
Period size: 274 Copynumber: 2.0 Consensus size: 275
14061842 TAGTGATAGA
14061852 ACCTTGATGAACAACGAGTAATGACAACCTAAGCATTAAAAGAGGATCATTCTCGAAAAATGACA
1 ACCTTGATGAACAACGAGTAATGACAACCTAAGCATTAAAAGAGGATCATTCTCGAAAAATGACA
14061917 TTCTGCATTCATACAAATATCATTCAATGCAAATATCATTCATACACGTCTAGTTAGGAGCATTT
66 TTCTGCATTCATACAAATATCATTCAATGCAAATATCATTCATACACGTCTAGTTAGGAGCATTT
14061982 GATTCATTCTAATCATGACATTCTAAACATTAGGCATAAATAGGTCCATGAAATGGATTTTACAG
131 GATTCATTCTAATCATGACATTCTAAACATTAGGCATAAATAGGTCCATGAAATGGATTTTACAG
14062047 GTCATGTTCCCCAGAGAACAGATTAATGAAGTTACCCATACCCCTGAAGTTGCAGTGGGATGGAT
196 GTCATGTTCCCCAGAGAACAGATTAATGAAGTTACCCATACCCCTGAAGTTGCAGTGGGATGGAT
14062112 TAAAGTCATTATATC
261 TAAAGTCATTATATC
14062127 ACCTTGATG-ACAACGAGTAATGACAACCTAAGCATTAAAAGAGGATCATTCTCGAAAAATGACA
1 ACCTTGATGAACAACGAGTAATGACAACCTAAGCATTAAAAGAGGATCATTCTCGAAAAATGACA
14062191 TTCTGCATTCATACAAATATCATTCAATGCAAATATCATTCATACACGTCTAGTTAGGAGCATTT
66 TTCTGCATTCATACAAATATCATTCAATGCAAATATCATTCATACACGTCTAGTTAGGAGCATTT
14062256 GATTCATTCTAATCATGACATTCTAAACATTAGGCATAAATAGGTCCATGAAATGGATTTTACAG
131 GATTCATTCTAATCATGACATTCTAAACATTAGGCATAAATAGGTCCATGAAATGGATTTTACAG
14062321 GTCATGTTCCCCAGAGAACAGATTAATGAAGTTACCCATACCCCTGAAGTTGCAGTGGGATGGAT
196 GTCATGTTCCCCAGAGAACAGATTAATGAAGTTACCCATACCCCTGAAGTTGCAGTGGGATGGAT
14062386 TAAAGTCATTATATC
261 TAAAGTCATTATATC
14062401 CAGCCTCACC
Statistics
Matches: 274, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
274 265 0.97
275 9 0.03
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (275 bp):
ACCTTGATGAACAACGAGTAATGACAACCTAAGCATTAAAAGAGGATCATTCTCGAAAAATGACA
TTCTGCATTCATACAAATATCATTCAATGCAAATATCATTCATACACGTCTAGTTAGGAGCATTT
GATTCATTCTAATCATGACATTCTAAACATTAGGCATAAATAGGTCCATGAAATGGATTTTACAG
GTCATGTTCCCCAGAGAACAGATTAATGAAGTTACCCATACCCCTGAAGTTGCAGTGGGATGGAT
TAAAGTCATTATATC
Found at i:14062683 original size:100 final size:100
Alignment explanation
Indices: 14062510--14063168 Score: 978
Period size: 100 Copynumber: 6.6 Consensus size: 100
14062500 TCTTTGGCAT
* * * * *
14062510 TGCAGTGGAACAGATTAAAGCTAAAATGACAAATCTTGCTTCCTCGACATTTCAATTAAAAAGAT
1 TGCAGTGGAACAGATTGAAGCTACAATGACGAATCTTGCTTCCCCGACATTGCAATTAAAAAGAT
14062575 TGAAGCCACAACGGCGAATCTTACTTCCCTGGCGG
66 TGAAGCCACAACGGCGAATCTTACTTCCCTGGCGG
* * * * *
14062610 TGCAGTGGAATAGATTGAAGTTACAACGACGAATCTTGCTTCCCCGACATTACAACTAAAAAGAT
1 TGCAGTGGAACAGATTGAAGCTACAATGACGAATCTTGCTTCCCCGACATTGCAATTAAAAAGAT
* * *
14062675 TGAAGCCACAACGACAAATCTTACTTCCCTGGAGG
66 TGAAGCCACAACGGCGAATCTTACTTCCCTGGCGG
** *
14062710 TGCAGTGGAACAGATTGAAGCTACAGCGACGAATCTTGCTTCCTCGACATTGCAATTAAAAAGAT
1 TGCAGTGGAACAGATTGAAGCTACAATGACGAATCTTGCTTCCCCGACATTGCAATTAAAAAGAT
*
14062775 TGAAGCCACAACGGCGAATTTTACTTCCCTGGCGG
66 TGAAGCCACAACGGCGAATCTTACTTCCCTGGCGG
* *
14062810 TGCAGTGGAACAGATTGAAGCTATAATGGCGAATCTTGCTTCCCCGACATTGCAATTAAAAAGAT
1 TGCAGTGGAACAGATTGAAGCTACAATGACGAATCTTGCTTCCCCGACATTGCAATTAAAAAGAT
*
14062875 TGAAGCCACAACGGCGAATTTTACTTCCCTGGCGG
66 TGAAGCCACAACGGCGAATCTTACTTCCCTGGCGG
* *
14062910 TGCAGTGGAACAGATTGAAGCTATAATGGCGAATCTTGCTTCCCCGACATTGCAATTAAAAAGAT
1 TGCAGTGGAACAGATTGAAGCTACAATGACGAATCTTGCTTCCCCGACATTGCAATTAAAAAGAT
* ** * *
14062975 TGAAGCCACAATGGTAAATCTTACTTCCCTAGCAG
66 TGAAGCCACAACGGCGAATCTTACTTCCCTGGCGG
* **
14063010 TGCAGTGGAATAGATTGAAGCTACAATGGTGAATCTTGCTTCCCCGACATTGCAATTAAAAAGAT
1 TGCAGTGGAACAGATTGAAGCTACAATGACGAATCTTGCTTCCCCGACATTGCAATTAAAAAGAT
* ** *
14063075 TGAAGCCACAACGGAGAATCTTACTTCCCTAACAG
66 TGAAGCCACAACGGCGAATCTTACTTCCCTGGCGG
* *
14063110 TGCAGTGGAACAGATTGAAGCTACAAT-AGCGAATCTTACTTCCCCGACATTGCAGTTAA
1 TGCAGTGGAACAGATTGAAGCTACAATGA-CGAATCTTGCTTCCCCGACATTGCAATTAA
14063169 TTAGACTGAA
Statistics
Matches: 513, Mismatches: 45, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
100 513 1.00
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.25
Consensus pattern (100 bp):
TGCAGTGGAACAGATTGAAGCTACAATGACGAATCTTGCTTCCCCGACATTGCAATTAAAAAGAT
TGAAGCCACAACGGCGAATCTTACTTCCCTGGCGG
Found at i:14063164 original size:50 final size:50
Alignment explanation
Indices: 14062507--14063165 Score: 496
Period size: 50 Copynumber: 13.2 Consensus size: 50
14062497 ATCTCTTTGG
* * * * * * *
14062507 CATTGCAGTGGAACAGATTAAAGCTAAAATGACAAATCTTGCTTCCTCGA
1 CATTGCAGTGGAAAAGATTGAAGCTACAATGGCGAATCTTACTTCCCCGA
* * ** * * * *
14062557 CATTTCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGG
1 CATTGCAGTGGAAAAGATTGAAGCTACAATGGCGAATCTTACTTCCCCGA
** * * * * *
14062607 CGGTGCAGTGGAATAGATTGAAGTTACAACGACGAATCTTGCTTCCCCGA
1 CATTGCAGTGGAAAAGATTGAAGCTACAATGGCGAATCTTACTTCCCCGA
* * * * * * * *
14062657 CATTACAACT-AAAAAGATTGAAGCCACAACGACAAATCTTACTTCCCTGGA
1 CATTGC-AGTGGAAAAGATTGAAGCTACAATGGCGAATCTTACTTCCC-CGA
** * ** * * *
14062708 -GGTGCAGTGGAACAGATTGAAGCTACAGCGACGAATCTTGCTTCCTCGA
1 CATTGCAGTGGAAAAGATTGAAGCTACAATGGCGAATCTTACTTCCCCGA
* ** * * * * *
14062757 CATTGCAATTAAAAAGATTGAAGCCACAACGGCGAATTTTACTTCCCTGG
1 CATTGCAGTGGAAAAGATTGAAGCTACAATGGCGAATCTTACTTCCCCGA
** * * *
14062807 CGGTGCAGTGGAACAGATTGAAGCTATAATGGCGAATCTTGCTTCCCCGA
1 CATTGCAGTGGAAAAGATTGAAGCTACAATGGCGAATCTTACTTCCCCGA
* ** * * * * *
14062857 CATTGCAATTAAAAAGATTGAAGCCACAACGGCGAATTTTACTTCCCTGG
1 CATTGCAGTGGAAAAGATTGAAGCTACAATGGCGAATCTTACTTCCCCGA
** * * *
14062907 CGGTGCAGTGGAACAGATTGAAGCTATAATGGCGAATCTTGCTTCCCCGA
1 CATTGCAGTGGAAAAGATTGAAGCTACAATGGCGAATCTTACTTCCCCGA
* ** * ** *
14062957 CATTGCAATTAAAAAGATTGAAGCCACAATGGTAAATCTTACTT-CCCTA
1 CATTGCAGTGGAAAAGATTGAAGCTACAATGGCGAATCTTACTTCCCCGA
* * * *
14063006 GCAGTGCAGTGGAATAGATTGAAGCTACAATGGTGAATCTTGCTTCCCCGA
1 -CATTGCAGTGGAAAAGATTGAAGCTACAATGGCGAATCTTACTTCCCCGA
* ** * * * **
14063057 CATTGCAATTAAAAAGATTGAAGCCACAACGGAGAATCTTACTTCCCTAA
1 CATTGCAGTGGAAAAGATTGAAGCTACAATGGCGAATCTTACTTCCCCGA
* * *
14063107 CAGTGCAGTGGAACAGATTGAAGCTACAATAGCGAATCTTACTTCCCCGA
1 CATTGCAGTGGAAAAGATTGAAGCTACAATGGCGAATCTTACTTCCCCGA
14063157 CATTGCAGT
1 CATTGCAGT
14063166 TAATTAGACT
Statistics
Matches: 455, Mismatches: 148, Indels: 12
0.74 0.24 0.02
Matches are distributed among these distances:
49 8 0.02
50 439 0.96
51 8 0.02
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (50 bp):
CATTGCAGTGGAAAAGATTGAAGCTACAATGGCGAATCTTACTTCCCCGA
Found at i:14063398 original size:44 final size:46
Alignment explanation
Indices: 14063281--14063398 Score: 136
Period size: 47 Copynumber: 2.6 Consensus size: 46
14063271 CATATCAGGT
* *
14063281 CTTATC-CTCCTGAAGTTGCAGTGGGGCAGACTGAAGATAGCGAGC
1 CTTATCTCTCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAGC
** * *
14063326 CTTATCTCTTTTTGAAGTTGCAGTGGAGCAGACTGAAGCTA-CTAATC
1 CTTATCTC-TCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGC-AAGC
14063373 C-TATCTC-CCTGAAGTTGCAGTGGAGC
1 CTTATCTCTCCTGAAGTTGCAGTGGAGC
14063399 GGATTAAAAT
Statistics
Matches: 62, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
44 17 0.27
45 6 0.10
46 8 0.13
47 31 0.50
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (46 bp):
CTTATCTCTCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAGC
Found at i:14065186 original size:19 final size:19
Alignment explanation
Indices: 14065162--14065198 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
14065152 TAAATTTGAT
14065162 ATTATTATTGTTATTATTA
1 ATTATTATTGTTATTATTA
* *
14065181 ATTATTGTTGTTGTTATT
1 ATTATTATTGTTATTATT
14065199 TACTCATTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.11, T:0.65
Consensus pattern (19 bp):
ATTATTATTGTTATTATTA
Found at i:14069800 original size:2 final size:2
Alignment explanation
Indices: 14069793--14069819 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
14069783 TTTGTCTTAA
14069793 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
14069820 AGATTATTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:14076906 original size:312 final size:313
Alignment explanation
Indices: 14076330--14076954 Score: 1243
Period size: 312 Copynumber: 2.0 Consensus size: 313
14076320 CTAATTTAAT
14076330 TCCATATAAATATATATTCATATTAAAATTTATTTTTATTACACAAATATATAACTATTGTAAAC
1 TCCATATAAATATATATTCATATTAAAATTTATTTTTATTACACAAATATATAACTATTGTAAAC
14076395 TCTTAAATAATTTAATTAATACATTAACCAGTATAGAAAAATAAAATAGTATTATCGTATTTTAA
66 TCTTAAATAATTTAATTAATACATTAACCAGTATAGAAAAATAAAATAGTATTATCGTATTTTAA
14076460 TCATAATTAAATATATCCATCTAAAAACTTCGAATATTAAATTACAATTTGTGAGAAATTTATCA
131 TCATAATTAAATATATCCATCTAAAAACTTCGAATATTAAATTACAATTTGTGAGAAATTTATCA
14076525 TTTTGTCTTGTGAATTTCACTTGATAATATCAATATTTCATTCTTTATAATCAATATTATGTTTT
196 TTTTGTCTTGTGAATTTCACTTGATAATATCAATATTTCATTCTTTATAATCAATATTATGTTTT
14076590 AAGAGAAGAGATTGGATGAAACTGTGATTTCACGTCATTTTTATCCCTTTTCA
261 AAGAGAAGAGATTGGATGAAACTGTGATTTCACGTCATTTTTATCCCTTTTCA
14076643 TCCATATAAA-ATATATTCATATTAAAATTTATTTTTATTACACAAATATATAACTATTGTAAAC
1 TCCATATAAATATATATTCATATTAAAATTTATTTTTATTACACAAATATATAACTATTGTAAAC
14076707 TCTTAAATAATTTAATTAATACATTAACCAGTATAGAAAAATAAAATAGTATTATCGTATTTTAA
66 TCTTAAATAATTTAATTAATACATTAACCAGTATAGAAAAATAAAATAGTATTATCGTATTTTAA
14076772 TCATAATTAAATATATCCATCTAAAAACTTCGAATATTAAATTACAATTTGTGAGAAATTTATCA
131 TCATAATTAAATATATCCATCTAAAAACTTCGAATATTAAATTACAATTTGTGAGAAATTTATCA
14076837 TTTTGTCTTGTGAATTTCACTTGATAATATCAATATTTCATTCTTTATAATCAATATTATGTTTT
196 TTTTGTCTTGTGAATTTCACTTGATAATATCAATATTTCATTCTTTATAATCAATATTATGTTTT
14076902 AAGAGAAGAGATTGGATGAAACTGTGATTTCACGTCATTTTTATCCCTTTTCA
261 AAGAGAAGAGATTGGATGAAACTGTGATTTCACGTCATTTTTATCCCTTTTCA
14076955 ATAGGAGAAT
Statistics
Matches: 312, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
312 302 0.97
313 10 0.03
ACGTcount: A:0.39, C:0.11, G:0.08, T:0.42
Consensus pattern (313 bp):
TCCATATAAATATATATTCATATTAAAATTTATTTTTATTACACAAATATATAACTATTGTAAAC
TCTTAAATAATTTAATTAATACATTAACCAGTATAGAAAAATAAAATAGTATTATCGTATTTTAA
TCATAATTAAATATATCCATCTAAAAACTTCGAATATTAAATTACAATTTGTGAGAAATTTATCA
TTTTGTCTTGTGAATTTCACTTGATAATATCAATATTTCATTCTTTATAATCAATATTATGTTTT
AAGAGAAGAGATTGGATGAAACTGTGATTTCACGTCATTTTTATCCCTTTTCA
Found at i:14078636 original size:31 final size:30
Alignment explanation
Indices: 14078587--14078653 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 30
14078577 ATATAGATTT
* *
14078587 TAATTTGGTGCAATTATATACGTGAAACTC
1 TAATTTGGTGCAAATATATACGTAAAACTC
* * *
14078617 TAATTGTGGTTCAAATATATACTTAAAACTT
1 TAATT-TGGTGCAAATATATACGTAAAACTC
14078648 TAATTT
1 TAATTT
14078654 TGATTTAATC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
30 6 0.19
31 25 0.81
ACGTcount: A:0.36, C:0.10, G:0.12, T:0.42
Consensus pattern (30 bp):
TAATTTGGTGCAAATATATACGTAAAACTC
Found at i:14087019 original size:147 final size:147
Alignment explanation
Indices: 14086865--14087159 Score: 581
Period size: 147 Copynumber: 2.0 Consensus size: 147
14086855 TCAAAAAAAA
14086865 ATAAAAAAATTTAATTAAACCCAATTTTTTTTAAAAAAAATCTCATTAAACTCTTAAAATTTTTA
1 ATAAAAAAA-TTAATTAAACCCAATTTTTTTTAAAAAAAATCTCATTAAACTCTTAAAATTTTTA
14086930 AAAAAATTTCTAGGTCTTCCAAAACTTATTAGTTATTATTATTTTTCGCCCAATTTTGAGTGTGA
65 AAAAAATTTCTAGGTCTTCCAAAACTTATTAGTTATTATTATTTTTCGCCCAATTTTGAGTGTGA
14086995 GTATTTATTCCAAGTCCT
130 GTATTTATTCCAAGTCCT
14087013 ATAAAAAAATTAATTAAACCCAATTTTTTTTAAAAAAAATCTCATTAAACTCTTAAAATTTTTAA
1 ATAAAAAAATTAATTAAACCCAATTTTTTTTAAAAAAAATCTCATTAAACTCTTAAAATTTTTAA
14087078 AAAAATTTCTAGGTCTTCCAAAACTTATTAGTTATTATTATTTTTCGCCCAATTTTGAGTGTGAG
66 AAAAATTTCTAGGTCTTCCAAAACTTATTAGTTATTATTATTTTTCGCCCAATTTTGAGTGTGAG
14087143 TATTTATTCCAAGTCCT
131 TATTTATTCCAAGTCCT
14087160 GAAAATCAAT
Statistics
Matches: 147, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
147 138 0.94
148 9 0.06
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.42
Consensus pattern (147 bp):
ATAAAAAAATTAATTAAACCCAATTTTTTTTAAAAAAAATCTCATTAAACTCTTAAAATTTTTAA
AAAAATTTCTAGGTCTTCCAAAACTTATTAGTTATTATTATTTTTCGCCCAATTTTGAGTGTGAG
TATTTATTCCAAGTCCT
Found at i:14092077 original size:2 final size:2
Alignment explanation
Indices: 14092070--14092109 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
14092060 TTTAATTTGC
14092070 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14092110 TGTGAATATC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14105250 original size:34 final size:34
Alignment explanation
Indices: 14105207--14105277 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
14105197 ACTCACAAAA
14105207 GCATAAACTACTTTCTTAATTAATCTAAGGGAAT
1 GCATAAACTACTTTCTTAATTAATCTAAGGGAAT
14105241 GCATAAACTACTTTCTTAATTAATCTAAGGGAAT
1 GCATAAACTACTTTCTTAATTAATCTAAGGGAAT
14105275 GCA
1 GCA
14105278 AAGATATCAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.34
Consensus pattern (34 bp):
GCATAAACTACTTTCTTAATTAATCTAAGGGAAT
Found at i:14111282 original size:2 final size:2
Alignment explanation
Indices: 14111275--14111328 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
14111265 ATACAAATAA
14111275 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
14111317 GT GT GT GT GT GT
1 GT GT GT GT GT GT
14111329 CAGATACGTA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
GT
Found at i:14115403 original size:14 final size:15
Alignment explanation
Indices: 14115370--14115403 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
14115360 ATCTATTAGG
14115370 GTTAATAATAAGTCA
1 GTTAATAATAAGTCA
14115385 G-TAATAAT-AGTCA
1 GTTAATAATAAGTCA
14115398 GTTAAT
1 GTTAAT
14115404 TAGAGGGTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 6 0.33
14 11 0.61
15 1 0.06
ACGTcount: A:0.44, C:0.06, G:0.15, T:0.35
Consensus pattern (15 bp):
GTTAATAATAAGTCA
Found at i:14123275 original size:20 final size:18
Alignment explanation
Indices: 14123233--14123275 Score: 50
Period size: 20 Copynumber: 2.3 Consensus size: 18
14123223 TTGGTTTATA
14123233 TAAATTAAAATAAATAAT
1 TAAATTAAAATAAATAAT
* *
14123251 AAAATCTAAACATATATAAT
1 TAAAT-TAAA-ATAAATAAT
14123271 TAAAT
1 TAAAT
14123276 AATTAATTAC
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 4 0.20
19 4 0.20
20 12 0.60
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.33
Consensus pattern (18 bp):
TAAATTAAAATAAATAAT
Found at i:14126248 original size:14 final size:14
Alignment explanation
Indices: 14126211--14126248 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
14126201 TTAACATTTA
*
14126211 TTTTTAAAATAAAC
1 TTTTTAATATAAAC
14126225 TTATTT-ATATAAAC
1 TT-TTTAATATAAAC
14126239 TTTTTAATAT
1 TTTTTAATAT
14126249 TTTTTACATA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
13 3 0.14
14 15 0.71
15 3 0.14
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (14 bp):
TTTTTAATATAAAC
Found at i:14130808 original size:6 final size:6
Alignment explanation
Indices: 14130792--14130831 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
14130782 GCAGATATGG
* *
14130792 TTTTA- TTTTAC TTTTAC TTTTAC TTTTAT TTTTAA TTTTA
1 TTTTAC TTTTAC TTTTAC TTTTAC TTTTAC TTTTAC TTTTA
14130832 GTCTTGTTCT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
5 5 0.16
6 27 0.84
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.72
Consensus pattern (6 bp):
TTTTAC
Found at i:14132821 original size:10 final size:10
Alignment explanation
Indices: 14132806--14132833 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
14132796 TTTCAAATCC
14132806 GAGAAAAAAA
1 GAGAAAAAAA
14132816 GAGAAAAAAA
1 GAGAAAAAAA
14132826 GAGAAAAA
1 GAGAAAAA
14132834 TATGTTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (10 bp):
GAGAAAAAAA
Found at i:14136719 original size:29 final size:28
Alignment explanation
Indices: 14136678--14136737 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 28
14136668 TATTTATAAA
*
14136678 TTTTAAAAGATTAAATTA-AATTATTATAT
1 TTTTAAAAGATTAAAGTATAATT-TTAT-T
* *
14136707 TTTTAAGATATTAAAGTATAATTTTATT
1 TTTTAAAAGATTAAAGTATAATTTTATT
14136735 TTT
1 TTT
14136738 ATTAATTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 4 0.15
29 19 0.70
30 4 0.15
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (28 bp):
TTTTAAAAGATTAAAGTATAATTTTATT
Found at i:14156656 original size:37 final size:37
Alignment explanation
Indices: 14156606--14156678 Score: 110
Period size: 37 Copynumber: 2.0 Consensus size: 37
14156596 TTTTCGATTT
**
14156606 TAATTACACAAAATATTATTTAATTATATAAATTATA
1 TAATTACACAAAATATTATCCAATTATATAAATTATA
**
14156643 TAATTACGGAAAATATTATCCAATTATATAAATTAT
1 TAATTACACAAAATATTATCCAATTATATAAATTAT
14156679 TACAGATTTC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.49, C:0.07, G:0.03, T:0.41
Consensus pattern (37 bp):
TAATTACACAAAATATTATCCAATTATATAAATTATA
Found at i:14156679 original size:20 final size:18
Alignment explanation
Indices: 14156620--14156680 Score: 54
Period size: 17 Copynumber: 3.4 Consensus size: 18
14156610 TACACAAAAT
14156620 ATTATT-TAATTATATAA
1 ATTATTATAATTATATAA
***
14156637 ATTA-TATAATTACGGAA
1 ATTATTATAATTATATAA
*
14156654 AATATTATCCAATTATATAA
1 ATTATTAT--AATTATATAA
14156674 ATTATTA
1 ATTATTA
14156681 CAGATTTCAT
Statistics
Matches: 32, Mismatches: 8, Indels: 5
0.71 0.18 0.11
Matches are distributed among these distances:
16 1 0.03
17 15 0.47
18 3 0.09
20 13 0.41
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (18 bp):
ATTATTATAATTATATAA
Found at i:14159783 original size:52 final size:52
Alignment explanation
Indices: 14159705--14159808 Score: 208
Period size: 52 Copynumber: 2.0 Consensus size: 52
14159695 ACAAGAAGAG
14159705 AATGAGAATCTACTTGACAAGGTGAGCCTTTATCATTACTGTTGTGTTATCT
1 AATGAGAATCTACTTGACAAGGTGAGCCTTTATCATTACTGTTGTGTTATCT
14159757 AATGAGAATCTACTTGACAAGGTGAGCCTTTATCATTACTGTTGTGTTATCT
1 AATGAGAATCTACTTGACAAGGTGAGCCTTTATCATTACTGTTGTGTTATCT
14159809 GCAACATGTA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.38
Consensus pattern (52 bp):
AATGAGAATCTACTTGACAAGGTGAGCCTTTATCATTACTGTTGTGTTATCT
Found at i:14166686 original size:16 final size:16
Alignment explanation
Indices: 14166665--14166698 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
14166655 TCATATAAAA
14166665 TCGGATCATGGCTTCT
1 TCGGATCATGGCTTCT
*
14166681 TCGGATCATGTCTTCT
1 TCGGATCATGGCTTCT
14166697 TC
1 TC
14166699 CATACCATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.12, C:0.26, G:0.21, T:0.41
Consensus pattern (16 bp):
TCGGATCATGGCTTCT
Found at i:14168254 original size:20 final size:20
Alignment explanation
Indices: 14168229--14168266 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
14168219 ATATGAAAAT
* *
14168229 TAAATTAATTCATTTAATAA
1 TAAATTAACTAATTTAATAA
14168249 TAAATTAACTAATTTAAT
1 TAAATTAACTAATTTAAT
14168267 CTAACCCCTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (20 bp):
TAAATTAACTAATTTAATAA
Found at i:14170597 original size:16 final size:18
Alignment explanation
Indices: 14170576--14170608 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
14170566 CATAAAATCT
14170576 TATTAA-AAAAT-TTATA
1 TATTAATAAAATATTATA
14170592 TATTAATAAAATATTAT
1 TATTAATAAAATATTAT
14170609 TTTTTAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 5 0.33
18 4 0.27
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
TATTAATAAAATATTATA
Done.