Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 55 of 349
Found at i:15910251 original size:15 final size:16
Alignment explanation
Indices: 15910223--15910265 Score: 56
Period size: 15 Copynumber: 2.8 Consensus size: 16
15910213 ATCTCAAAAT
15910223 CATTTCTCATATTTTC
1 CATTTCTCATATTTTC
15910239 CATTTCT-ATATTTT-
1 CATTTCTCATATTTTC
15910253 C-TTATCTCATATT
1 CATT-TCTCATATT
15910266 CATTTATCCT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 2 0.08
14 4 0.16
15 12 0.48
16 7 0.28
ACGTcount: A:0.21, C:0.21, G:0.00, T:0.58
Consensus pattern (16 bp):
CATTTCTCATATTTTC
Found at i:15917665 original size:18 final size:18
Alignment explanation
Indices: 15917639--15917674 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
15917629 AAACCAAAAA
15917639 AATTCGGTTAATCGGTCG
1 AATTCGGTTAATCGGTCG
*
15917657 AATTTGGTTAATCGGTCG
1 AATTCGGTTAATCGGTCG
15917675 GTTAACCGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.14, G:0.28, T:0.36
Consensus pattern (18 bp):
AATTCGGTTAATCGGTCG
Found at i:15917994 original size:9 final size:9
Alignment explanation
Indices: 15917964--15918055 Score: 102
Period size: 9 Copynumber: 10.6 Consensus size: 9
15917954 TTTATACAAA
15917964 TAATTCGGT
1 TAATTCGGT
* *
15917973 TAATTTGGG
1 TAATTCGGT
15917982 TAATTCGGT
1 TAATTCGGT
*
15917991 TAATTCGAT
1 TAATTCGGT
15918000 TAATTCGAG-
1 TAATTCG-GT
15918009 TAATTCGGT
1 TAATTCGGT
*
15918018 TAATTCGAT
1 TAATTCGGT
*
15918027 TAATTCGAT
1 TAATTCGGT
15918036 TAATT---T
1 TAATTCGGT
15918042 TAATTCGGT
1 TAATTCGGT
15918051 TAATT
1 TAATT
15918056 TTATACTTAT
Statistics
Matches: 71, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
6 6 0.08
8 1 0.01
9 64 0.90
ACGTcount: A:0.28, C:0.09, G:0.17, T:0.46
Consensus pattern (9 bp):
TAATTCGGT
Found at i:15918002 original size:27 final size:27
Alignment explanation
Indices: 15917964--15918055 Score: 118
Period size: 27 Copynumber: 3.5 Consensus size: 27
15917954 TTTATACAAA
* * *
15917964 TAATTCGGTTAATTTGGGTAATTCGGT
1 TAATTCGATTAATTCGAGTAATTCGGT
15917991 TAATTCGATTAATTCGAGTAATTCGGT
1 TAATTCGATTAATTCGAGTAATTCGGT
*
15918018 TAATTCGATTAATTCGATTAATT---T
1 TAATTCGATTAATTCGAGTAATTCGGT
*
15918042 TAATTCGGTTAATT
1 TAATTCGATTAATT
15918056 TTATACTTAT
Statistics
Matches: 60, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
24 14 0.23
27 46 0.77
ACGTcount: A:0.28, C:0.09, G:0.17, T:0.46
Consensus pattern (27 bp):
TAATTCGATTAATTCGAGTAATTCGGT
Found at i:15918046 original size:15 final size:15
Alignment explanation
Indices: 15918026--15918058 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
15918016 GTTAATTCGA
15918026 TTAATTCGATTAATT
1 TTAATTCGATTAATT
*
15918041 TTAATTCGGTTAATT
1 TTAATTCGATTAATT
15918056 TTA
1 TTA
15918059 TACTTATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.30, C:0.06, G:0.09, T:0.55
Consensus pattern (15 bp):
TTAATTCGATTAATT
Found at i:15918440 original size:21 final size:21
Alignment explanation
Indices: 15918411--15918452 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
15918401 GTTGATTTCT
* *
15918411 ATTGGCCTCTTTTAGAATGTC
1 ATTGACCTCTTCTAGAATGTC
15918432 ATTGACCTCTTCTAGAATGTC
1 ATTGACCTCTTCTAGAATGTC
15918453 CACTTAAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.21, C:0.21, G:0.17, T:0.40
Consensus pattern (21 bp):
ATTGACCTCTTCTAGAATGTC
Found at i:15919491 original size:19 final size:18
Alignment explanation
Indices: 15919446--15919492 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 18
15919436 CAATTTGAAA
*
15919446 TAAATAATAAAAAAATCT
1 TAAAAAATAAAAAAATCT
15919464 TAAACAAATAAAAAAAGGT-T
1 TAAA-AAATAAAAAAA--TCT
15919484 TAAAAAATA
1 TAAAAAATA
15919493 GACACTATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 4 0.16
19 15 0.60
20 5 0.20
21 1 0.04
ACGTcount: A:0.68, C:0.04, G:0.04, T:0.23
Consensus pattern (18 bp):
TAAAAAATAAAAAAATCT
Found at i:15921102 original size:15 final size:15
Alignment explanation
Indices: 15921084--15921115 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
15921074 TTGGACTTAA
*
15921084 TTATTATTTTTTGGT
1 TTATTATTATTTGGT
15921099 TTATTATTATTTGGT
1 TTATTATTATTTGGT
15921114 TT
1 TT
15921116 CATTTCTGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.00, G:0.12, T:0.72
Consensus pattern (15 bp):
TTATTATTATTTGGT
Found at i:15921750 original size:44 final size:45
Alignment explanation
Indices: 15921697--15921813 Score: 148
Period size: 44 Copynumber: 2.6 Consensus size: 45
15921687 ATTTAGTCTG
* *
15921697 CTCCACTGCAACTTTAGGGAGATAAGACTT-GTGGTTTCAATCTA
1 CTCCACTGCAACTTCAGGGAGATAAGACTTAGTGGCTTCAATCTA
* ** * *
15921741 CTTCACTGCAACTTCAAAGAGATAAG-GTTAGTGGCTTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTAGTGGCTTCAATCTA
*
15921785 CTCCACTACAACTTCAGGGAGATAAGACT
1 CTCCACTGCAACTTCAGGGAGATAAGACT
15921814 CGCCATGGTG
Statistics
Matches: 59, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
43 2 0.03
44 56 0.95
45 1 0.02
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (45 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTTAGTGGCTTCAATCTA
Found at i:15934958 original size:55 final size:55
Alignment explanation
Indices: 15934898--15935003 Score: 142
Period size: 55 Copynumber: 1.9 Consensus size: 55
15934888 CAAAGTTGTA
* * *
15934898 CACGGGTAGGCCA-CACGGGTGTGCGTCATGGCCTTGTTAAAAAGACAGTGTCGTC
1 CACGGGCAGG-CAGCACGGGTGTGCGCCATGGCCGTGTTAAAAAGACAGTGTCGTC
* * *
15934953 CACGGGCAGGCAGCACGGGTGTGTGCCATGGCCGTGTTAATAAGTCAGTGT
1 CACGGGCAGGCAGCACGGGTGTGCGCCATGGCCGTGTTAAAAAGACAGTGT
15935004 TGCCCAAGAT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
54 2 0.05
55 42 0.95
ACGTcount: A:0.21, C:0.23, G:0.35, T:0.22
Consensus pattern (55 bp):
CACGGGCAGGCAGCACGGGTGTGCGCCATGGCCGTGTTAAAAAGACAGTGTCGTC
Found at i:15936239 original size:424 final size:426
Alignment explanation
Indices: 15935436--15936277 Score: 1431
Period size: 424 Copynumber: 2.0 Consensus size: 426
15935426 TCGAGTTCGG
* * *
15935436 TTCAAGGGAATACATTTCCCCATGGTTATACGGAGATGAAAATCTTACGAAGACATAGGTACAGA
1 TTCAAGAGAATACATTTCCCCATGGCTATACGGAGATGAAAACCTTACGAAGACATAGGTACAGA
* * *
15935501 TGTATCCCGGAAGCGATCCACTATCCTGTACGGAGGTGAAAACCTCACGAAAGACTAGTTTCTCA
66 TGTATCCCAGAAGCAATCCACTATCCTGTACGGAGGTGAAAACCTCACGAAAAACTAGTTTCTCA
**
15935566 CTTTCACTTAAAGGGAAGGACCGAGCAGTCATGCAATGCAATATGCAAAAATATTTAAAGACTCG
131 CTCCCACTTAAAGGGAAGGACCGAGCAGTCATGCAATGCAATATGCAAAAATATTTAAAGACTCG
* *
15935631 AACCAACAAAGCAGGTATTATGACCGAGATATCGAAGATAACAGATGAAATGCAATGAAAGGATC
196 AACCAACAAAGCAGGTATTATGACCAAGATATCGAAGATAACAGATGAAATGCAATGAAAGGATA
* * *
15935696 GTATTTTAAATCAAATTTTCAATTTTCAACGAAAAGACATAAATTAATCAATTTACGGCTTGACT
261 ATATTTTAAATCAAATTTTCAACTTTCAACGAAAAGACATAAATTAATCAATTTACGGCGTGACT
* *
15935761 CTCTCAGTTTCTAGTAGAGTCGCCAAGCTGTCGAAATCCTTTTTTTTAAACTATCAAC-TTTATT
326 CTCTCAGTTTCCAGTAGAGTCGCCAAGCTGTCGAAACCCTTTTTTTTAAACTATCAACTTTTATT
15935825 TAAAAAGAAAATGAAAAAT-AGGAGTCGCCGCCATTT
391 TAAAAAGAAAATGAAAAATGA-GAGTCGCCGCCATTT
*
15935861 TTCAAGAGAATACA-TTCCCCATGGCTATACGGAGATGAAAACCTTACGAAGACATAGGTACGGA
1 TTCAAGAGAATACATTTCCCCATGGCTATACGGAGATGAAAACCTTACGAAGACATAGGTACAGA
* *
15935925 TGTATTCCAGAAGCAATCCACTATCCTGTACGGAGGTGAAAACCTTACGAAAAACTAGTTTCTCA
66 TGTATCCCAGAAGCAATCCACTATCCTGTACGGAGGTGAAAACCTCACGAAAAACTAGTTTCTCA
* *
15935990 CTCCCACTTAAAGGGTAGGACCGAGCAGTCATGCAATGTAATATGCAAAAATATTTAAAGACTCG
131 CTCCCACTTAAAGGGAAGGACCGAGCAGTCATGCAATGCAATATGCAAAAATATTTAAAGACTCG
*
15936055 AACCAACAAAGCAGGTATTATGACTAAGATATCGAA-AGTAACAGATGAAATGCAATGAAAGGAT
196 AACCAACAAAGCAGGTATTATGACCAAGATATCGAAGA-TAACAGATGAAATGCAATGAAAGGAT
*
15936119 AATATTTTAAATCAAATTTTCAACTTTCAACGAAAAGACATAAATTAATCAATTTATGGCGTGAC
260 AATATTTTAAATCAAATTTTCAACTTTCAACGAAAAGACATAAATTAATCAATTTACGGCGTGAC
*
15936184 TCTCTCAGTTTCCAGTAGAGTCGCCAAGCTGTCGAAACCCTTTTTTTTAAACTATCGACTTTTAT
325 TCTCTCAGTTTCCAGTAGAGTCGCCAAGCTGTCGAAACCCTTTTTTTTAAACTATCAACTTTTAT
15936249 TTAAAAAGAAAATGAAAAATGAGAGTCGC
390 TTAAAAAGAAAATGAAAAATGAGAGTCGC
15936278 TACCAATCCT
Statistics
Matches: 391, Mismatches: 23, Indels: 6
0.93 0.05 0.01
Matches are distributed among these distances:
423 1 0.00
424 344 0.88
425 45 0.12
426 1 0.00
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (426 bp):
TTCAAGAGAATACATTTCCCCATGGCTATACGGAGATGAAAACCTTACGAAGACATAGGTACAGA
TGTATCCCAGAAGCAATCCACTATCCTGTACGGAGGTGAAAACCTCACGAAAAACTAGTTTCTCA
CTCCCACTTAAAGGGAAGGACCGAGCAGTCATGCAATGCAATATGCAAAAATATTTAAAGACTCG
AACCAACAAAGCAGGTATTATGACCAAGATATCGAAGATAACAGATGAAATGCAATGAAAGGATA
ATATTTTAAATCAAATTTTCAACTTTCAACGAAAAGACATAAATTAATCAATTTACGGCGTGACT
CTCTCAGTTTCCAGTAGAGTCGCCAAGCTGTCGAAACCCTTTTTTTTAAACTATCAACTTTTATT
TAAAAAGAAAATGAAAAATGAGAGTCGCCGCCATTT
Found at i:15937210 original size:27 final size:28
Alignment explanation
Indices: 15937180--15937232 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
15937170 TTTTAAAATG
*
15937180 TCATAAAGAG-AATTTAGA-ATAAATATT
1 TCATAAAAAGTAATTT-GATATAAATATT
15937207 TCATAAAAAGTAATTTGATATAAATA
1 TCATAAAAAGTAATTTGATATAAATA
15937233 ATACATATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 11 0.48
28 12 0.52
ACGTcount: A:0.53, C:0.04, G:0.09, T:0.34
Consensus pattern (28 bp):
TCATAAAAAGTAATTTGATATAAATATT
Found at i:15937239 original size:28 final size:27
Alignment explanation
Indices: 15937181--15937239 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 27
15937171 TTTAAAATGT
* * *
15937181 CATAAAGAGAATTTAGAATAAATATTT
1 CATAAAAAGAATTTAGAATAAATAATA
15937208 CATAAAAAGTAATTT-GATATAAATAATA
1 CATAAAAAG-AATTTAGA-ATAAATAATA
15937236 CATA
1 CATA
15937240 TATAAAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 10 0.37
28 17 0.63
ACGTcount: A:0.54, C:0.05, G:0.08, T:0.32
Consensus pattern (27 bp):
CATAAAAAGAATTTAGAATAAATAATA
Found at i:15938239 original size:13 final size:13
Alignment explanation
Indices: 15938219--15938274 Score: 62
Period size: 14 Copynumber: 4.2 Consensus size: 13
15938209 AATAAGAAAG
15938219 AAAAAGAA-AATA
1 AAAAAGAATAATA
15938231 AAAACAGAATAATA
1 AAAA-AGAATAATA
*
15938245 AAGAAA-AAAAATA
1 AA-AAAGAATAATA
15938258 AAAACAGAATAATA
1 AAAA-AGAATAATA
15938272 AAA
1 AAA
15938275 GCGGCGATGA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
12 6 0.16
13 13 0.35
14 16 0.43
15 2 0.05
ACGTcount: A:0.79, C:0.04, G:0.07, T:0.11
Consensus pattern (13 bp):
AAAAAGAATAATA
Found at i:15938263 original size:27 final size:29
Alignment explanation
Indices: 15938209--15938273 Score: 107
Period size: 27 Copynumber: 2.3 Consensus size: 29
15938199 TTCGAATGAA
*
15938209 AATAAGAAAGAAAAAGAAAATAAAAACAG
1 AATAATAAAGAAAAAGAAAATAAAAACAG
15938238 AATAATAAAG-AAAA-AAAATAAAAACAG
1 AATAATAAAGAAAAAGAAAATAAAAACAG
15938265 AATAATAAA
1 AATAATAAA
15938274 AGCGGCGATG
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 22 0.63
28 4 0.11
29 9 0.26
ACGTcount: A:0.77, C:0.03, G:0.09, T:0.11
Consensus pattern (29 bp):
AATAATAAAGAAAAAGAAAATAAAAACAG
Found at i:15947576 original size:27 final size:27
Alignment explanation
Indices: 15947538--15947589 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
15947528 GTCAAAGTCC
15947538 ATTTTTCTGGCTTATATTTTCACCTCT
1 ATTTTTCTGGCTTATATTTTCACCTCT
15947565 ATTTTTCTGGCTTATATTTTCACCT
1 ATTTTTCTGGCTTATATTTTCACCT
15947590 AAACTCTACC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.15, C:0.21, G:0.08, T:0.56
Consensus pattern (27 bp):
ATTTTTCTGGCTTATATTTTCACCTCT
Found at i:15953664 original size:3 final size:3
Alignment explanation
Indices: 15953656--15953710 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
15953646 AAAGGTATTG
15953656 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
15953704 AAT AAT A
1 AAT AAT A
15953711 GATATTAGAC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:15958592 original size:64 final size:64
Alignment explanation
Indices: 15958519--15958729 Score: 151
Period size: 64 Copynumber: 3.2 Consensus size: 64
15958509 CTGGGCCAGA
*
15958519 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
* * * *** * ** *
15958583 GCCCATTTCAAAATAC-ATGCAACATTAGTAAACATATGCAAGCCC--ATTTGGGTAACAGTGGT
1 GCCCATTTCAGATTACAAT--AA-ACT-G-GGCCTTA-GC---CCCTTATTCAGATAACA---GT
* *
15958645 ACTGGGCCAGA-
54 A-TGGCCCATAG
*
15958656 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
15958720 GCCCATTTCA
1 GCCCATTTCA
15958730 AAATACATGC
Statistics
Matches: 103, Mismatches: 27, Indels: 34
0.63 0.16 0.21
Matches are distributed among these distances:
63 9 0.09
64 25 0.24
65 5 0.05
66 2 0.02
67 10 0.10
68 5 0.05
69 5 0.05
70 10 0.10
71 2 0.02
72 5 0.05
73 16 0.16
74 9 0.09
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.27
Consensus pattern (64 bp):
GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
Found at i:15958731 original size:137 final size:136
Alignment explanation
Indices: 15958485--15958770 Score: 536
Period size: 137 Copynumber: 2.1 Consensus size: 136
15958475 CATTGGGCCT
**
15958485 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
15958550 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATTAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGT-AA
15958615 CATATGC
130 CATATGC
15958622 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
15958687 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAC
15958752 ATATGC
131 ATATGC
15958758 AAGCCCATTTGGG
1 AAGCCCATTTGGG
15958771 GAGACTACTC
Statistics
Matches: 146, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
136 22 0.15
137 124 0.85
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAC
ATATGC
Found at i:15959055 original size:25 final size:26
Alignment explanation
Indices: 15959018--15959070 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
15959008 TCAAACATGC
15959018 ATTTAGGTCAATTTAATC-CTAGGGGT
1 ATTTAGGTCAATTT-ATCACTAGGGGT
*
15959044 ATTTCGGT-AATTTATCTACTAGGGGT
1 ATTTAGGTCAATTTATC-ACTAGGGGT
15959070 A
1 A
15959071 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 3 0.12
25 5 0.21
26 16 0.67
ACGTcount: A:0.26, C:0.11, G:0.23, T:0.40
Consensus pattern (26 bp):
ATTTAGGTCAATTTATCACTAGGGGT
Found at i:15960586 original size:26 final size:26
Alignment explanation
Indices: 15960550--15960659 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
15960540 CATGAAATTC
15960550 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
15960576 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
15960602 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
15960628 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
15960654 TTATCA
1 TTATCA
15960660 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:15964543 original size:64 final size:64
Alignment explanation
Indices: 15964470--15964680 Score: 142
Period size: 64 Copynumber: 3.2 Consensus size: 64
15964460 CTGGGCCAGA
*
15964470 GCCCTTTTCAGATTACAATAAATTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAATTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
* * *** * ** * *
15964534 GCCCATTTCAAAATAC-ATGCAACATTAGTAAACATATGCAAGCCC--ATTTGGGTAATAGTGGT
1 GCCCATTTCAGATTACAAT--AA-ATT-G-GGCCTTA-GC---CCCTTATTCAGATAACA---GT
* *
15964596 ACTGGGCCAGA-
54 A-TGGCCCATAG
* *
15964607 GCCCTTTTCAGATTACAATAAAATGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAATTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
15964671 GCCCATTTCA
1 GCCCATTTCA
15964681 AAATACATGC
Statistics
Matches: 102, Mismatches: 28, Indels: 34
0.62 0.17 0.21
Matches are distributed among these distances:
63 9 0.09
64 25 0.25
65 5 0.05
66 3 0.03
67 9 0.09
68 5 0.05
69 5 0.05
70 9 0.09
71 2 0.02
72 5 0.05
73 16 0.16
74 9 0.09
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.27
Consensus pattern (64 bp):
GCCCATTTCAGATTACAATAAATTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
Found at i:15964682 original size:137 final size:136
Alignment explanation
Indices: 15964436--15964721 Score: 518
Period size: 137 Copynumber: 2.1 Consensus size: 136
15964426 CATTGGGCCT
** *
15964436 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAATTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAAATGGGCCTT
*
15964501 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATTAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGT-AA
15964566 CATATGC
130 CATATGC
*
15964573 AAGCCCATTTGGGTAATAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAAATGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAAATGGGCCTT
15964638 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAC
15964703 ATATGC
131 ATATGC
15964709 AAGCCCATTTGGG
1 AAGCCCATTTGGG
15964722 GAGACTACTC
Statistics
Matches: 144, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
136 22 0.15
137 122 0.85
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAAATGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAC
ATATGC
Found at i:15965006 original size:25 final size:26
Alignment explanation
Indices: 15964969--15965021 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
15964959 TCAAACATGC
15964969 ATTTAGGTCAATTTAATC-CTAGGGGT
1 ATTTAGGTCAATTT-ATCACTAGGGGT
*
15964995 ATTTCGGT-AATTTATCTACTAGGGGT
1 ATTTAGGTCAATTTATC-ACTAGGGGT
15965021 A
1 A
15965022 AAACTATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 3 0.12
25 5 0.21
26 16 0.67
ACGTcount: A:0.26, C:0.11, G:0.23, T:0.40
Consensus pattern (26 bp):
ATTTAGGTCAATTTATCACTAGGGGT
Found at i:15966619 original size:26 final size:26
Alignment explanation
Indices: 15966509--15966618 Score: 157
Period size: 26 Copynumber: 4.2 Consensus size: 26
15966499 CATGAAATTC
15966509 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
15966535 TTATTATGAAACATTTACTTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
15966561 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* * *
15966587 TTATCAAGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
15966613 TTATCA
1 TTATCA
15966619 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.37, C:0.23, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:15968737 original size:25 final size:26
Alignment explanation
Indices: 15968709--15968758 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
15968699 CCCCCTCCCA
15968709 AAAAACCTAA-CCCCCCAAAAAAAAG
1 AAAAACCTAACCCCCCCAAAAAAAAG
15968734 AAAAACCTAACCCCCCCAAAAAAAA
1 AAAAACCTAACCCCCCCAAAAAAAA
15968759 ACCAAGAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 10 0.42
26 14 0.58
ACGTcount: A:0.60, C:0.34, G:0.02, T:0.04
Consensus pattern (26 bp):
AAAAACCTAACCCCCCCAAAAAAAAG
Found at i:15969783 original size:15 final size:17
Alignment explanation
Indices: 15969755--15969786 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
15969745 TTGTATATAT
15969755 TATATTTATATTATGTA
1 TATATTTATATTATGTA
15969772 TATATTT-T-TTATGTA
1 TATATTTATATTATGTA
15969787 CGTTTCCTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.62
Consensus pattern (17 bp):
TATATTTATATTATGTA
Found at i:15971609 original size:12 final size:12
Alignment explanation
Indices: 15971592--15971627 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
15971582 ATTCATTTGA
15971592 CATTCATGCATT
1 CATTCATGCATT
*
15971604 CATTCATGCATC
1 CATTCATGCATT
*
15971616 CATTCATTCATT
1 CATTCATGCATT
15971628 TCATATCCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.25, C:0.28, G:0.06, T:0.42
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:15977971 original size:53 final size:53
Alignment explanation
Indices: 15977911--15978108 Score: 168
Period size: 53 Copynumber: 3.5 Consensus size: 53
15977901 TTTTAAATTG
15977911 ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCA
1 ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCA
* * * * *
15977964 ACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAG-TTTT--AAATT
1 ACTCATATTGCGAGAGGTGAGTTAAGCCT---------TTTA---ATTTTT-GTTTTTCAAAATC
*
15978026 G
53 A
* *
15978027 ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTTATTTTGGTTTTTCAAAATCA
1 ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCA
* *
15978080 ACTCATATTGCTAGAGGTGAGTTGAGCCT
1 ACTCATATTGCGAGAGGTGAGTTAAGCCT
15978109 CGGGGCACAC
Statistics
Matches: 113, Mismatches: 16, Indels: 32
0.70 0.10 0.20
Matches are distributed among these distances:
50 1 0.01
51 9 0.08
53 58 0.51
54 1 0.01
62 2 0.02
63 31 0.27
65 10 0.09
66 1 0.01
ACGTcount: A:0.25, C:0.14, G:0.23, T:0.38
Consensus pattern (53 bp):
ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCA
Found at i:15978040 original size:116 final size:116
Alignment explanation
Indices: 15977824--15978129 Score: 551
Period size: 116 Copynumber: 2.6 Consensus size: 116
15977814 GTTGAGGTAT
* * *
15977824 TTTTAATTGTTG-TTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCT
1 TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCT
15977888 GAGGTATTTTTAGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCC
66 GAGGTATTTTTAGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCC
15977939 TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCT
1 TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCT
15978004 GAGGTATTTTTAGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCC
66 GAGGTATTTTTAGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCC
* * *
15978055 TTTTTATTTTGGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACACT
1 TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCT
15978120 GAGGTATTTT
66 GAGGTATTTT
15978130 CAATTTTTGT
Statistics
Matches: 184, Mismatches: 6, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
115 11 0.06
116 173 0.94
ACGTcount: A:0.25, C:0.14, G:0.24, T:0.38
Consensus pattern (116 bp):
TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCT
GAGGTATTTTTAGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCC
Found at i:15978177 original size:72 final size:73
Alignment explanation
Indices: 15978066--15978249 Score: 223
Period size: 72 Copynumber: 2.5 Consensus size: 73
15978056 TTTTATTTTG
* * * * *
15978066 GTTTTTCAA-AATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCAC-ACTGAGGTATTT
1 GTTTGTCAAGAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGA-TGAGGTAATT
*
15978129 TCAATTTTT
65 TCAATTTCT
* **
15978138 GTGTT-TTAA-TTTCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATT
1 GT-TTGTCAAGAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATT
15978201 TCAATTTCT
65 TCAATTTCT
* *
15978210 GTTTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGA
1 GTTTGTCAAGAATCAACTCATATTGCAAGAGGTGAGTTGA
15978250 ATCTTTTAAT
Statistics
Matches: 95, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
71 2 0.02
72 64 0.67
73 29 0.31
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.34
Consensus pattern (73 bp):
GTTTGTCAAGAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTT
CAATTTCT
Found at i:15978549 original size:55 final size:56
Alignment explanation
Indices: 15978489--15978610 Score: 176
Period size: 57 Copynumber: 2.2 Consensus size: 56
15978479 TGAGGTATTC
* *
15978489 TTAATTTTTGTTGTTTC-AAAAA-TCAACTCATGTTGCGAGAGGTGAGTTAAGCCTT
1 TTAATTTCTGTT-TTTCAAAAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCCTT
* *
15978544 TTAATTTCTGTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTT
1 TTAATTTCTGTTTTTC-AAAAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCCTT
15978601 TTAATTTCTG
1 TTAATTTCTG
15978611 CGAGAGTTGA
Statistics
Matches: 60, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
54 4 0.07
55 11 0.18
56 5 0.08
57 40 0.67
ACGTcount: A:0.28, C:0.12, G:0.18, T:0.42
Consensus pattern (56 bp):
TTAATTTCTGTTTTTCAAAAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCCTT
Found at i:15978615 original size:30 final size:30
Alignment explanation
Indices: 15978579--15978640 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
15978569 CAACTCATAT
15978579 TGCGAGAGGTGAGTTGAG-CTTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTC-TTTTAATTTC
*
15978609 TGCGAGAGTTGAGTTGAGTCTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
15978639 TG
1 TG
15978641 TTTTTCAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.97
31 1 0.03
ACGTcount: A:0.19, C:0.10, G:0.29, T:0.42
Consensus pattern (30 bp):
TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
Found at i:15980542 original size:15 final size:17
Alignment explanation
Indices: 15980514--15980545 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
15980504 TTGTATATAT
15980514 TATATTTATATTATGTA
1 TATATTTATATTATGTA
15980531 TATATTT-T-TTATGTA
1 TATATTTATATTATGTA
15980546 CGTTTCTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.62
Consensus pattern (17 bp):
TATATTTATATTATGTA
Found at i:15981723 original size:27 final size:27
Alignment explanation
Indices: 15981599--15981776 Score: 90
Period size: 27 Copynumber: 6.6 Consensus size: 27
15981589 ATGGCATTAC
*
15981599 CATACATG-GGAAGTCCGTTAAGACAAT
1 CATA-ATGTGGAAGTCCGTTAGGACAAT
*** * * * *
15981626 TGCAATATGGAAGTCCGTCAGAATAAT
1 CATAATGTGGAAGTCCGTTAGGACAAT
* * * * * *
15981653 CTTAATGTAAGAAATCTGTCAGGACTAT
1 CATAATGT-GGAAGTCCGTTAGGACAAT
* *
15981681 CTTAA-GTGAGAAGTCCTTTAGGACAAT
1 CATAATGTG-GAAGTCCGTTAGGACAAT
* * *
15981708 CATAATGTGGATGTCCGCTAGGAAAAT
1 CATAATGTGGAAGTCCGTTAGGACAAT
** * *
15981735 TGTAATGTGGAAGTCCGTCAAGACAAT
1 CATAATGTGGAAGTCCGTTAGGACAAT
* *
15981762 CTTAATGTAGAAGTC
1 CATAATGTGGAAGTC
15981777 TGCCAGGACG
Statistics
Matches: 108, Mismatches: 39, Indels: 8
0.70 0.25 0.05
Matches are distributed among these distances:
26 2 0.02
27 85 0.79
28 21 0.19
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (27 bp):
CATAATGTGGAAGTCCGTTAGGACAAT
Found at i:15981791 original size:54 final size:54
Alignment explanation
Indices: 15981620--15981792 Score: 145
Period size: 54 Copynumber: 3.2 Consensus size: 54
15981610 AGTCCGTTAA
* * * * *
15981620 GACAATTGCAATATGGAAGTCCGTC-AGAATAATCTTAATGTAAGAAATCTGTCAG
1 GACAATTGTAATGTGGAAGTCCGTCAAG-ACAATCTTAATGT-AGAAGTCTGCCAG
* * * * * * * * *
15981675 GACTATCT-TAA-GTGAGAAGTCCTTTAGGACAATCATAATGTGGATGTCCGCTAG
1 GACAAT-TGTAATGTG-GAAGTCCGTCAAGACAATCTTAATGTAGAAGTCTGCCAG
*
15981729 GAAAATTGTAATGTGGAAGTCCGTCAAGACAATCTTAATGTAGAAGTCTGCCAG
1 GACAATTGTAATGTGGAAGTCCGTCAAGACAATCTTAATGTAGAAGTCTGCCAG
*
15981783 GACGATTGTA
1 GACAATTGTA
15981793 TTTGGGAAGT
Statistics
Matches: 87, Mismatches: 26, Indels: 11
0.70 0.21 0.09
Matches are distributed among these distances:
53 1 0.01
54 55 0.63
55 29 0.33
56 2 0.02
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (54 bp):
GACAATTGTAATGTGGAAGTCCGTCAAGACAATCTTAATGTAGAAGTCTGCCAG
Found at i:16001163 original size:24 final size:27
Alignment explanation
Indices: 16001136--16001190 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
16001126 CAGATTTTAT
*
16001136 AAAATAT-ATTTGT-CCAAATATATA-
1 AAAATATAATTTATACCAAATATATAG
*
16001160 AAAATATAATTTATATCAAATATATAG
1 AAAATATAATTTATACCAAATATATAG
16001187 AAAA
1 AAAA
16001191 GGTATAAAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 7 0.27
25 5 0.19
26 10 0.38
27 4 0.15
ACGTcount: A:0.56, C:0.05, G:0.04, T:0.35
Consensus pattern (27 bp):
AAAATATAATTTATACCAAATATATAG
Found at i:16003724 original size:22 final size:22
Alignment explanation
Indices: 16003682--16003724 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
16003672 AATATACATT
*
16003682 CTTAATGATATAGGAAAGGTTG
1 CTTAATGATATAAGAAAGGTTG
* *
16003704 CTTAATGATGTAAGAAGGGTT
1 CTTAATGATATAAGAAAGGTT
16003725 ACTAGAATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.35, C:0.05, G:0.28, T:0.33
Consensus pattern (22 bp):
CTTAATGATATAAGAAAGGTTG
Found at i:16009938 original size:57 final size:57
Alignment explanation
Indices: 16009859--16010086 Score: 291
Period size: 56 Copynumber: 4.0 Consensus size: 57
16009849 ATTTTTCAGA
* * * *
16009859 TCATTTTTATTTTGGAGAAAACCACATTCATTTCCAAATGA-TTCCATTTCCCCATTT
1 TCATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGATTTCCATTTCTCCA-TT
* * * * * *
16009916 TCATTTTCATTCTGGACAAAACCATAATAATTTCCAAGT-ATTTCAACTTCTCCATT
1 TCATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGATTTCCATTTCTCCATT
*
16009972 TCATTTTCATTTTGGAGAAATCCATAATCATTTCCAAATG-TTTCCATTTCTCCATT
1 TCATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGATTTCCATTTCTCCATT
* * *
16010028 TCGTTTTCATTTTGGAGAAAATCATAATCATTTCTAAATGATTTCCTATTTCTCCATT
1 TCATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGATTTCC-ATTTCTCCATT
16010086 T
1 T
16010087 TCACCAATTC
Statistics
Matches: 146, Mismatches: 21, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
56 87 0.60
57 47 0.32
58 12 0.08
ACGTcount: A:0.29, C:0.21, G:0.07, T:0.43
Consensus pattern (57 bp):
TCATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGATTTCCATTTCTCCATT
Found at i:16010072 original size:113 final size:114
Alignment explanation
Indices: 16009859--16010086 Score: 298
Period size: 113 Copynumber: 2.0 Consensus size: 114
16009849 ATTTTTCAGA
* *
16009859 TCATTTTTATTTTGGAGAAAACCACATTCATTTCCAAATGATTCCATTTCCCCATTTTCATTTTC
1 TCATTTTCATTTTGGAGAAAACCACAATCATTTCCAAATGATTCCATTTCCCCATTTTCATTTTC
*
16009924 ATTCTGGACAAAACCATAATAATTTCCAAGTATTT-CAACTTCTCCATT
66 ATTCTGGACAAAACCATAATAATTTCCAAATATTTCCAACTTCTCCATT
* * * * *
16009972 TCATTTTCATTTTGGAGAAATCCATAATCATTTCCAAATGTTTCCATTTCTCCA-TTTCGTTTTC
1 TCATTTTCATTTTGGAGAAAACCACAATCATTTCCAAATGATTCCATTTCCCCATTTTCATTTTC
* * * * * * *
16010036 ATTTTGGAGAAAATCATAATCATTTCTAAATGATTTCCTATTTCTCCATT
66 ATTCTGGACAAAACCATAATAATTTCCAAAT-ATTTCCAACTTCTCCATT
16010086 T
1 T
16010087 TCACCAATTC
Statistics
Matches: 98, Mismatches: 15, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
112 34 0.35
113 52 0.53
114 12 0.12
ACGTcount: A:0.29, C:0.21, G:0.07, T:0.43
Consensus pattern (114 bp):
TCATTTTCATTTTGGAGAAAACCACAATCATTTCCAAATGATTCCATTTCCCCATTTTCATTTTC
ATTCTGGACAAAACCATAATAATTTCCAAATATTTCCAACTTCTCCATT
Found at i:16011832 original size:19 final size:19
Alignment explanation
Indices: 16011795--16011832 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
16011785 ATCTGGATTC
*
16011795 AAGAACACTTTCTTTTTCT
1 AAGAACACTTTCTTCTTCT
16011814 AAGAACA-TTTCTCTCTTCT
1 AAGAACACTTTCT-TCTTCT
16011833 TGTTTTCTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.26, C:0.24, G:0.05, T:0.45
Consensus pattern (19 bp):
AAGAACACTTTCTTCTTCT
Found at i:16017535 original size:3 final size:3
Alignment explanation
Indices: 16017480--16017571 Score: 73
Period size: 3 Copynumber: 31.0 Consensus size: 3
16017470 TATTTACTTA
* * * * *
16017480 TAT TAT TACT TA- TAT TGT TAT TAC TAT TAT CAT TAT GATT TAT TAG
1 TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT
* * *
16017526 T-T TAT TAT TAT CAT TAT TAC TAC TAT TA- TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
16017572 ATTTTTGCCC
Statistics
Matches: 70, Mismatches: 14, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
2 5 0.07
3 60 0.86
4 5 0.07
ACGTcount: A:0.32, C:0.07, G:0.03, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:16017558 original size:17 final size:17
Alignment explanation
Indices: 16017531--16017574 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
16017521 ATTAGTTTAT
16017531 TATTATCATTATTACTAC
1 TATTAT-ATTATTACTAC
* *
16017549 TATTATATTATTATTAT
1 TATTATATTATTACTAC
16017566 TATTATATT
1 TATTATATT
16017575 TTTGCCCATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 18 0.75
18 6 0.25
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (17 bp):
TATTATATTATTACTAC
Found at i:16028432 original size:39 final size:40
Alignment explanation
Indices: 16028387--16028611 Score: 233
Period size: 40 Copynumber: 5.7 Consensus size: 40
16028377 GCTCCTCGTT
* * * *
16028387 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
16028427 C-AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
16028466 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
16028506 CAAAGGCCTTCGGGGCTTAACCCGGAACTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
16028546 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
16028587 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
16028612 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 22, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
39 38 0.24
40 105 0.67
41 14 0.09
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:16028620 original size:41 final size:41
Alignment explanation
Indices: 16028543--16028620 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
16028533 CTTGTATCTC
* * *
16028543 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
16028584 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
16028621 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:16034084 original size:63 final size:64
Alignment explanation
Indices: 16033985--16034107 Score: 203
Period size: 63 Copynumber: 1.9 Consensus size: 64
16033975 TCATTCGTGA
*
16033985 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAG-CTCCTAATTATTTGACATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAGTCTCCTAATTATTTGACATAAGCAT
* * *
16034048 CACATTTAGTTAGGAGCATTTGATTCATTTCAATCATAGTGTCCTAATTATTTGGCATAA
1 CACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAGTCTCCTAATTATTTGACATAA
16034108 ACATAGATAC
Statistics
Matches: 55, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
63 37 0.67
64 18 0.33
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (64 bp):
CACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAGTCTCCTAATTATTTGACATAAGCAT
Found at i:16034466 original size:44 final size:45
Alignment explanation
Indices: 16034412--16034647 Score: 179
Period size: 44 Copynumber: 5.4 Consensus size: 45
16034402 CTCATCACCC
*
16034412 TAAGTAGTAGGGAAACAGATCGAAGGTGACA-AGCCTT-AACCCCT
1 TAAGCAGTAGGGAAACAGATCGAAGGTGACAGA-CCTTAAACCCCT
* * * ** *
16034456 TAAACAGTAGGGTAACAG-GCTGAATTTG-CAGATCTTAAACCCC-
1 TAAGCAGTAGGGAAACAGATC-GAAGGTGACAGACCTTAAACCCCT
* * ** *
16034499 TAAGTAGTAGGGAAACAGATCGAAGGCGATGGGCCTTAAACCCC-
1 TAAGCAGTAGGGAAACAGATCGAAGGTGACAGACCTTAAACCCCT
* * * *
16034543 TAAGCAGTAGGGTAACAG-GCTGAA--TTACAGATCTT-AACCCCT
1 TAAGCAGTAGGGAAACAGATC-GAAGGTGACAGACCTTAAACCCCT
* *
16034585 TAAGCAGTAGGGAAACAGATCGAAGATGAAAGACCTTAAACCCC-
1 TAAGCAGTAGGGAAACAGATCGAAGGTGACAGACCTTAAACCCCT
* * *
16034629 TAAGTAGTAAGGTAACAGA
1 TAAGCAGTAGGGAAACAGA
16034648 CTGAATTGCA
Statistics
Matches: 146, Mismatches: 35, Indels: 22
0.72 0.17 0.11
Matches are distributed among these distances:
41 6 0.04
42 25 0.17
43 27 0.18
44 82 0.56
45 6 0.04
ACGTcount: A:0.37, C:0.19, G:0.24, T:0.19
Consensus pattern (45 bp):
TAAGCAGTAGGGAAACAGATCGAAGGTGACAGACCTTAAACCCCT
Found at i:16034490 original size:87 final size:86
Alignment explanation
Indices: 16034183--16034732 Score: 531
Period size: 86 Copynumber: 6.3 Consensus size: 86
16034173 AATTCACAAG
* * * * * * *
16034183 CCTTAACCCCCTAAGCAGTAAGGTAACAAGCTAAATTTACAAATCTTAACCCCCTAAGCAATAGG
1 CCTTAA-CCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGCAGTAGG
* ** *
16034248 GAAATAGATCGAAGATGATGGGC
65 GAAACAGATCGAAGATGA-AAGA
* *
16034271 CCTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTATCTCCCTAAGCAGTAG
1 CCTTAACCCCTAAGCAGTAGGGTAACAGGCTG-A-ATTTACAGATCTTATCACCCTAAGCAGTAG
* * * *
16034336 TGG-AGCAGATCAAATATGAAGGA
64 -GGAAACAGATCGAAGATGAAAGA
* * * * *
16034359 CCTTAACCCCCAAGTAGTAGGGTAACAAGCTGAATTTACAGATCTCATCACCCTAAGTAGTAGGG
1 CCTTAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGCAGTAGGG
*
16034424 AAACAGATCGAAGGTGACAAG-
66 AAACAGATCGAAGATGA-AAGA
* * * *
16034445 CCTTAACCCCTTAAACAGTAGGGTAACAGGCTGAATTTGCAGATCTTA-AACCCCTAAGTAGTAG
1 CCTTAACCCC-TAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCA-CCCTAAGCAGTAG
** ** *
16034509 GGAAACAGATCGAAGGCGATGGG
64 GGAAACAGATCGAAGATGAAAGA
*
16034532 CCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAA-TTACAGATCTTAAC-CCCTTAAGCAGTAG
1 CCTT-AACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCC-TAAGCAGTAG
16034595 GGAAACAGATCGAAGATGAAAGA
64 GGAAACAGATCGAAGATGAAAGA
* * * * * *
16034618 CCTTAAACCCCTAAGTAGTAAGGTAACAGACTGAA-TTGCAGATCTTATCTCTCTAAGCAGTAGT
1 CCTT-AACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGCAGTAG-
* *
16034682 GG-AGCAGATCGAAGA-CAAATGA
64 GGAAACAGATCGAAGATGAAA-GA
* *
16034704 TCTTAACCCCCTAAGCAGTAGGGAAACAG
1 CCTTAA-CCCCTAAGCAGTAGGGTAACAG
16034733 ATCAGAGGTG
Statistics
Matches: 390, Mismatches: 57, Indels: 32
0.81 0.12 0.07
Matches are distributed among these distances:
85 10 0.03
86 179 0.46
87 119 0.31
88 42 0.11
89 38 0.10
90 2 0.01
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.21
Consensus pattern (86 bp):
CCTTAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGCAGTAGGG
AAACAGATCGAAGATGAAAGA
Found at i:16036640 original size:32 final size:32
Alignment explanation
Indices: 16036583--16036643 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
16036573 TATGTATATC
*
16036583 AATATTATACTATGTATACTTTTTCTTTTCTA
1 AATATTATACTATGTATACTATTTCTTTTCTA
16036615 AATATTATA-TATGCATATA-TATTTCTTTT
1 AATATTATACTATG--TATACTATTTCTTTT
16036644 ATATATTATG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
31 4 0.15
32 18 0.69
33 4 0.15
ACGTcount: A:0.31, C:0.10, G:0.03, T:0.56
Consensus pattern (32 bp):
AATATTATACTATGTATACTATTTCTTTTCTA
Found at i:16036671 original size:25 final size:26
Alignment explanation
Indices: 16036608--16036678 Score: 65
Period size: 26 Copynumber: 2.7 Consensus size: 26
16036598 ATACTTTTTC
*
16036608 TTTTCTAA-ATATTATATATGCATATA
1 TTTTCTAATATA-TATATATGCATACA
** *
16036634 TATTTCTTTTATATAT-TATGTATACA
1 T-TTTCTAATATATATATATGCATACA
*
16036660 TTTTCTAATATATACATAT
1 TTTTCTAATATATATATAT
16036679 ACTATGTAAA
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
25 11 0.31
26 13 0.37
27 8 0.23
28 3 0.09
ACGTcount: A:0.35, C:0.08, G:0.03, T:0.54
Consensus pattern (26 bp):
TTTTCTAATATATATATATGCATACA
Found at i:16036824 original size:16 final size:17
Alignment explanation
Indices: 16036800--16036832 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
16036790 GTGTATTGTA
16036800 TATACATTTTTA-ATAT
1 TATACATTTTTATATAT
*
16036816 TATATATTTTTATATAT
1 TATACATTTTTATATAT
16036833 ATTATGTACA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (17 bp):
TATACATTTTTATATAT
Found at i:16036915 original size:22 final size:22
Alignment explanation
Indices: 16036812--16036918 Score: 65
Period size: 24 Copynumber: 4.6 Consensus size: 22
16036802 TACATTTTTA
* *
16036812 ATAT-TATATATTTTTATATAT
1 ATATGTATATATTTTAATACAT
* *
16036833 ATTATGTACATTTTTTTAATAC-T
1 A-TATGTATA-TATTTTAATACAT
* * *
16036856 ACGTATATATATATTTTATTTCTAT
1 A--TATGTATATATTTTAATAC-AT
*
16036881 CATGACGTATATATTTTAATACAT
1 -AT-ATGTATATATTTTAATACAT
16036905 ATATGTATATATTT
1 ATATGTATATATTT
16036919 ATGTATCGTC
Statistics
Matches: 63, Mismatches: 15, Indels: 15
0.68 0.16 0.16
Matches are distributed among these distances:
21 1 0.02
22 14 0.22
23 15 0.24
24 17 0.27
25 15 0.24
26 1 0.02
ACGTcount: A:0.35, C:0.07, G:0.05, T:0.54
Consensus pattern (22 bp):
ATATGTATATATTTTAATACAT
Found at i:16036973 original size:22 final size:21
Alignment explanation
Indices: 16036929--16036973 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
16036919 ATGTATCGTC
* *
16036929 ATTATTAGTTTTTCTATATAT
1 ATTATTAGTTTTTCAATAAAT
*
16036950 ATTATTATTGTTTTCAATAAAT
1 ATTATTAGT-TTTTCAATAAAT
16036972 AT
1 AT
16036974 CGTATATATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.58
Consensus pattern (21 bp):
ATTATTAGTTTTTCAATAAAT
Found at i:16037120 original size:25 final size:24
Alignment explanation
Indices: 16037064--16037140 Score: 72
Period size: 25 Copynumber: 3.3 Consensus size: 24
16037054 ATTATTATTT
16037064 TTATTATTATCATGTTCAATACTA
1 TTATTATTATCATGTTCAATACTA
* **
16037088 -TATGTATTATTATTGTTTTATACTA
1 TTAT-TATTATCA-TGTTCAATACTA
*
16037113 TTATTATT-T-ATG-TCATTACTA
1 TTATTATTATCATGTTCAATACTA
16037134 TTATTAT
1 TTATTAT
16037141 CGTTTTCGTT
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
21 13 0.30
22 2 0.05
23 4 0.09
24 8 0.18
25 14 0.32
26 3 0.07
ACGTcount: A:0.30, C:0.08, G:0.05, T:0.57
Consensus pattern (24 bp):
TTATTATTATCATGTTCAATACTA
Found at i:16051026 original size:35 final size:35
Alignment explanation
Indices: 16050987--16051059 Score: 146
Period size: 35 Copynumber: 2.1 Consensus size: 35
16050977 CAGGTATGTG
16050987 ATATATATTATTTATGTGAGATTGATCTGACGAGA
1 ATATATATTATTTATGTGAGATTGATCTGACGAGA
16051022 ATATATATTATTTATGTGAGATTGATCTGACGAGA
1 ATATATATTATTTATGTGAGATTGATCTGACGAGA
16051057 ATA
1 ATA
16051060 AAGAATGTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.36, C:0.05, G:0.19, T:0.40
Consensus pattern (35 bp):
ATATATATTATTTATGTGAGATTGATCTGACGAGA
Found at i:16052737 original size:38 final size:38
Alignment explanation
Indices: 16052641--16052738 Score: 124
Period size: 40 Copynumber: 2.5 Consensus size: 38
16052631 GTATACAGTA
*
16052641 CCACTTGGTGTGTAGGGTTGGATAGGTTGATTTTATCC
1 CCACTTGGTGTGTAGGGTTGGATAGGTCGATTTTATCC
* * *
16052679 TCATGCTTGGTGTGTAGGGTTGGGTGGGTCGATTTTATCC
1 CCA--CTTGGTGTGTAGGGTTGGATAGGTCGATTTTATCC
* *
16052719 CCACATGGTGTGTTGGGTTG
1 CCACTTGGTGTGTAGGGTTG
16052739 AACGGAGATG
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
38 17 0.33
40 34 0.67
ACGTcount: A:0.12, C:0.13, G:0.36, T:0.39
Consensus pattern (38 bp):
CCACTTGGTGTGTAGGGTTGGATAGGTCGATTTTATCC
Found at i:16062627 original size:25 final size:24
Alignment explanation
Indices: 16062599--16062672 Score: 71
Period size: 24 Copynumber: 3.0 Consensus size: 24
16062589 CGGGCTAGGG
16062599 ATTTTAGGTTTTGGGCTAGTGTTTT
1 ATTTT-GGTTTTGGGCTAGTGTTTT
16062624 ATTTCT-GTTTTGGGCTA-TGTTTT
1 ATTT-TGGTTTTGGGCTAGTGTTTT
* * *
16062647 GTTATTGGAATTTGGGTTAGTGTTTT
1 ATT-TTGG-TTTTGGGCTAGTGTTTT
16062673 GGGCCTTTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
23 9 0.22
24 13 0.32
25 12 0.29
26 7 0.17
ACGTcount: A:0.12, C:0.04, G:0.27, T:0.57
Consensus pattern (24 bp):
ATTTTGGTTTTGGGCTAGTGTTTT
Found at i:16063218 original size:43 final size:44
Alignment explanation
Indices: 16063125--16063220 Score: 108
Period size: 43 Copynumber: 2.2 Consensus size: 44
16063115 CAACTTCAGG
**
16063125 GAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAA
1 GAGATAAGATCTTCAATCTTCAACCTGCTTCCTTGCTACCTCAA
* *
16063169 GAAGATAAGA-C-TCAATCTTTAACCTGC-TCTCTTGCTACCTCGGA
1 G-AGATAAGATCTTCAATCTTCAACCTGCTTC-CTTGCTACCTC-AA
16063213 GAGATAAG
1 GAGATAAG
16063221 GCTTGGGGCT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
42 2 0.04
43 31 0.69
44 4 0.09
45 8 0.18
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (44 bp):
GAGATAAGATCTTCAATCTTCAACCTGCTTCCTTGCTACCTCAA
Found at i:16063528 original size:176 final size:176
Alignment explanation
Indices: 16062978--16063834 Score: 1125
Period size: 176 Copynumber: 4.9 Consensus size: 176
16062968 TCTGCTCCAC
* * * * * * *
16062978 TGCTACCTTAGGAAGATAAGATCTACAATCATCAATCTGCTTCTTTTGCTATCTCAAAAAGATAA
1 TGCTACCTAAGGAAGATAAGA-CT-CAATCTTCAACCTGC-TCTCTTGCTACCTCAGAGAGATAA
* * * * *
16063043 GGCTAATGGCTAAAATCTGCTCCATTGTCAATACATGGAGAAAAGATTCGCCATCTTTGATCTGC
63 GGCTAGTGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCTTCGATCTGC
* * *
16063108 TCCGCTGCAACTTCAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCT
128 TCCACTACAGCTT-AGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCT
* *
16063158 TGCTACCTCAA-GAAGATAAGACTCAATCTTTAACCTGCTCTCTTGCTACCTCGGAGAGATAAGG
1 TGCTACCT-AAGGAAGATAAGACTCAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGG
* * * * * *
16063222 CTTGGGGCTTAAAT-T--TTC--T--C-TTACATGGAGATAAGATTTGCC-TCTTTCGATCTGCT
65 CTAGTGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATC-TTCGATCTGCT
*
16063278 CCACTACTGCTTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCT
129 CCACTACAGCTTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCT
*
16063326 TGCTACCTCAA-GAAGATCAGACTCAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGG
1 TGCTACCT-AAGGAAGATAAGACTCAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGG
* * *
16063390 CTAGTGGCTAAAATTTGCTCCATTGCCGATACATGGAGATAAGATTCTCCATCTTCAATCTGCTC
65 CTAGTGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCTTCGATCTGCTC
* *
16063455 CACTACCGCTTAGGGAGATAAGATATTCAATCTTCAGTCTGCTTCCT
130 CACTACAGCTTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCT
*
16063502 TGCTACCTAAGGAAGATAATACTCAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGC
1 TGCTACCTAAGGAAGATAAGACTCAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGC
*
16063567 TAGTGGCTAAAATCTGCTCTATTGCCGATACATGGAGATAAGATTCGCCATCTTCGATCTGCTCC
66 TAGTGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCTTCGATCTGCTCC
16063632 ACTA-ACGCTTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCT
131 ACTACA-GCTTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCT
* *
16063678 TGCTACCCT-AGGAAGATAAGACTACAAT-TGCCAACCTGCTCTCTTACTACCTCAGAGAGATAA
1 TGCTA-CCTAAGGAAGATAAGACT-CAATCT-TCAACCTGCTCTCTTGCTACCTCAGAGAGATAA
* *
16063741 GGCTTA-AGGCTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCC-TCTTTCGATCT
63 GGC-TAGTGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATC-TTCGATCT
* * *
16063804 GTTCCACTGCAACTTTAGGGAGATAAGATCT
126 GCTCCACTACAGC-TTAGGGAGATAAGATCT
16063835 GACTTCACCA
Statistics
Matches: 605, Mismatches: 52, Indels: 42
0.87 0.07 0.06
Matches are distributed among these distances:
168 110 0.18
169 38 0.06
170 1 0.00
171 2 0.00
172 1 0.00
173 1 0.00
174 2 0.00
175 3 0.00
176 261 0.43
177 133 0.22
178 32 0.05
179 2 0.00
180 18 0.03
181 1 0.00
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.30
Consensus pattern (176 bp):
TGCTACCTAAGGAAGATAAGACTCAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGC
TAGTGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCTTCGATCTGCTCC
ACTACAGCTTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCT
Found at i:16071013 original size:26 final size:26
Alignment explanation
Indices: 16070983--16071081 Score: 117
Period size: 27 Copynumber: 3.7 Consensus size: 26
16070973 CATGGCTGCT
*
16070983 AGAACAGATAATGTGACAGTGTCACC
1 AGAACAGATAATGTGGCAGTGTCACC
* *
16071009 AGAACAGATAATTGTGGCAGAGCCACC
1 AGAACAGATAA-TGTGGCAGTGTCACC
* *
16071036 AGAACATATATATGTGGTAGTGTCACC
1 AGAACAGATA-ATGTGGCAGTGTCACC
*
16071063 AGATCAGATAATTGTGGCA
1 AGAACAGATAA-TGTGGCA
16071082 TAGCCACCAG
Statistics
Matches: 60, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
26 12 0.20
27 47 0.78
28 1 0.02
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.22
Consensus pattern (26 bp):
AGAACAGATAATGTGGCAGTGTCACC
Found at i:16071059 original size:54 final size:53
Alignment explanation
Indices: 16070983--16071091 Score: 164
Period size: 54 Copynumber: 2.0 Consensus size: 53
16070973 CATGGCTGCT
16070983 AGAACAGATAATGTGACAGTGTCACCAGAACAGATAATTGTGGCAGAGCCACC
1 AGAACAGATAATGTGACAGTGTCACCAGAACAGATAATTGTGGCAGAGCCACC
* ** * *
16071036 AGAACATATATATGTGGTAGTGTCACCAGATCAGATAATTGTGGCATAGCCACC
1 AGAACAGATA-ATGTGACAGTGTCACCAGAACAGATAATTGTGGCAGAGCCACC
16071090 AG
1 AG
16071092 GACGCTTCCT
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
53 9 0.18
54 41 0.82
ACGTcount: A:0.36, C:0.19, G:0.24, T:0.21
Consensus pattern (53 bp):
AGAACAGATAATGTGACAGTGTCACCAGAACAGATAATTGTGGCAGAGCCACC
Found at i:16080292 original size:9 final size:9
Alignment explanation
Indices: 16080262--16080299 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
16080252 AAACCCTTTT
16080262 AAAATT-TA
1 AAAATTATA
*
16080270 ACAATTATTA
1 AAAATTA-TA
16080280 AAAATTATA
1 AAAATTATA
16080289 AAAATTATA
1 AAAATTATA
16080298 AA
1 AA
16080300 CTACATTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
8 5 0.19
9 13 0.50
10 8 0.31
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (9 bp):
AAAATTATA
Found at i:16087155 original size:21 final size:21
Alignment explanation
Indices: 16087129--16087175 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
16087119 ACGAGTGATA
16087129 ATAATGA-AAATAATAAATAAT
1 ATAATGATAAATAA-AAATAAT
* *
16087150 ATAATGATATATGAAAATAAT
1 ATAATGATAAATAAAAATAAT
16087171 ATAAT
1 ATAAT
16087176 ACTATTATAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (21 bp):
ATAATGATAAATAAAAATAAT
Found at i:16087352 original size:26 final size:26
Alignment explanation
Indices: 16087276--16087353 Score: 65
Period size: 26 Copynumber: 3.1 Consensus size: 26
16087266 AAAAATGTAC
*
16087276 ATGTACATA-TAATAGTATTTAAAAAT
1 ATGTACATAGT-ATAGTATATAAAAAT
* * **
16087302 ATATATATGAG-ATA--ATATGGAAAT
1 ATGTACAT-AGTATAGTATATAAAAAT
16087326 ATGTACATAGTATAGTATATAAAAAT
1 ATGTACATAGTATAGTATATAAAAAT
16087352 AT
1 AT
16087354 AACTAATGAC
Statistics
Matches: 38, Mismatches: 9, Indels: 10
0.67 0.16 0.18
Matches are distributed among these distances:
23 2 0.05
24 16 0.42
26 19 0.50
27 1 0.03
ACGTcount: A:0.50, C:0.03, G:0.12, T:0.36
Consensus pattern (26 bp):
ATGTACATAGTATAGTATATAAAAAT
Found at i:16096342 original size:11 final size:12
Alignment explanation
Indices: 16096326--16096354 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
16096316 TTATTAATGG
16096326 TGAATG-ATATT
1 TGAATGAATATT
16096337 TGAATGAATATT
1 TGAATGAATATT
16096349 TGAATG
1 TGAATG
16096355 TTCTTGTTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 6 0.35
12 11 0.65
ACGTcount: A:0.38, C:0.00, G:0.21, T:0.41
Consensus pattern (12 bp):
TGAATGAATATT
Found at i:16102968 original size:93 final size:93
Alignment explanation
Indices: 16102823--16103007 Score: 361
Period size: 93 Copynumber: 2.0 Consensus size: 93
16102813 GGTGTGTGCC
16102823 ATGGTCGTGTTGATAAGTCAGTGTTGCCCACGGCTAAAGGGCATGGGTGTGCCCTAAGCCACACG
1 ATGGTCGTGTTGATAAGTCAGTGTTGCCCACGGCTAAAGGGCATGGGTGTGCCCTAAGCCACACG
*
16102888 GGTACGTGAATTCACACGGCCCACCTAT
66 GGTACGTGAATCCACACGGCCCACCTAT
16102916 ATGGTCGTGTTGATAAGTCAGTGTTGCCCACGGCTAAAGGGCATGGGTGTGCCCTAAGCCACACG
1 ATGGTCGTGTTGATAAGTCAGTGTTGCCCACGGCTAAAGGGCATGGGTGTGCCCTAAGCCACACG
16102981 GGTACGTGAATCCACACGGCCCACCTA
66 GGTACGTGAATCCACACGGCCCACCTA
16103008 CACTGGCGTG
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 91 1.00
ACGTcount: A:0.23, C:0.26, G:0.29, T:0.22
Consensus pattern (93 bp):
ATGGTCGTGTTGATAAGTCAGTGTTGCCCACGGCTAAAGGGCATGGGTGTGCCCTAAGCCACACG
GGTACGTGAATCCACACGGCCCACCTAT
Found at i:16111185 original size:46 final size:46
Alignment explanation
Indices: 16111118--16111209 Score: 166
Period size: 46 Copynumber: 2.0 Consensus size: 46
16111108 ACATGGAGGT
*
16111118 ACAGGAGGTGCAGAGGATGTACCATCCTCTTGATCACTAGCTCTCA
1 ACAGGAGGTGAAGAGGATGTACCATCCTCTTGATCACTAGCTCTCA
*
16111164 ACAGGAGGTGAAGAGGATGTACCATTCTCTTGATCACTAGCTCTCA
1 ACAGGAGGTGAAGAGGATGTACCATCCTCTTGATCACTAGCTCTCA
16111210 CACTAACACG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.25
Consensus pattern (46 bp):
ACAGGAGGTGAAGAGGATGTACCATCCTCTTGATCACTAGCTCTCA
Found at i:16117046 original size:19 final size:19
Alignment explanation
Indices: 16117022--16117061 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
16117012 CGGGACTTAA
*
16117022 TCGGAAACTTT-AAGAATTT
1 TCGGAAAATTTCAA-AATTT
16117041 TCGGAAAATTTCAAAATTT
1 TCGGAAAATTTCAAAATTT
16117060 TC
1 TC
16117062 TAAGGTGCAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 17 0.89
20 2 0.11
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (19 bp):
TCGGAAAATTTCAAAATTT
Found at i:16131173 original size:40 final size:40
Alignment explanation
Indices: 16131117--16131515 Score: 609
Period size: 40 Copynumber: 10.0 Consensus size: 40
16131107 GAATACACAT
* * *
16131117 CACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
16131157 CACCAGCACGAATGCTCTTTGGGACTTAACCCTGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * * * *
16131197 CTCTAGCACGAATGCTCTTCGAGACTTAGCTCGGACATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
16131237 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAT
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
16131277 CACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
16131317 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAT
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
16131357 CACTAGCACAAATGCTCTTCGGGAGTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
16131397 CACCAGCACGAATGCTCTTCGGGAGTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
16131437 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGACATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
16131477 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGAATATA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
16131516 TAACTCTCAA
Statistics
Matches: 325, Mismatches: 34, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 325 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
Found at i:16141311 original size:19 final size:19
Alignment explanation
Indices: 16141287--16141323 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
16141277 AAGAAATACG
16141287 AAGTTCATCATAGAACAGT
1 AAGTTCATCATAGAACAGT
16141306 AAGTTCATCATAGAACAG
1 AAGTTCATCATAGAACAG
16141324 CTACCCCTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.43, C:0.16, G:0.16, T:0.24
Consensus pattern (19 bp):
AAGTTCATCATAGAACAGT
Found at i:16148908 original size:16 final size:17
Alignment explanation
Indices: 16148879--16148919 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
16148869 ATATATATAT
*
16148879 AAAGTAAAAGGAATA-AA
1 AAAG-AAAAAGAATAGAA
16148896 AAAGAAAAAGAATAGAA
1 AAAGAAAAAGAATAGAA
16148913 AAAGAAA
1 AAAGAAA
16148920 GAAAGGATGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.76, C:0.00, G:0.17, T:0.07
Consensus pattern (17 bp):
AAAGAAAAAGAATAGAA
Found at i:16148974 original size:19 final size:20
Alignment explanation
Indices: 16148950--16149002 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
16148940 AGAACAGGGG
*
16148950 AAAGAAAGAATGAAGG-AAA
1 AAAGAAAGAAGGAAGGAAAA
16148969 AAAGAAAGAAGGAAGGAAAA
1 AAAGAAAGAAGGAAGGAAAA
16148989 AAAGAAAGAAGGAA
1 AAAGAAAGAAGGAA
16149003 AAAGGGGAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 15 0.47
20 17 0.53
ACGTcount: A:0.70, C:0.00, G:0.28, T:0.02
Consensus pattern (20 bp):
AAAGAAAGAAGGAAGGAAAA
Found at i:16149004 original size:16 final size:16
Alignment explanation
Indices: 16148948--16149005 Score: 62
Period size: 16 Copynumber: 3.4 Consensus size: 16
16148938 AGAGAACAGG
* *
16148948 GGAAAGAAAGAATGAA
1 GGAAAAAAAGAAAGAA
*
16148964 GGAAAAAAGAAAGAAGGAA
1 GG--AAAA-AAAGAAAGAA
16148983 GGAAAAAAAGAAAGAA
1 GGAAAAAAAGAAAGAA
16148999 GGAAAAA
1 GGAAAAA
16149006 GGGGAAATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
16 18 0.50
17 4 0.11
18 3 0.08
19 11 0.31
ACGTcount: A:0.69, C:0.00, G:0.29, T:0.02
Consensus pattern (16 bp):
GGAAAAAAAGAAAGAA
Found at i:16149372 original size:20 final size:20
Alignment explanation
Indices: 16149347--16149394 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
16149337 GAGTAGAAAT
*
16149347 AAAGTATGAATTAAAATAGA
1 AAAGTAGGAATTAAAATAGA
16149367 AAAGTAGGAATTAAAATAGA
1 AAAGTAGGAATTAAAATAGA
16149387 AAAGTAGG
1 AAAGTAGG
16149395 TGAATTTAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.58, C:0.00, G:0.21, T:0.21
Consensus pattern (20 bp):
AAAGTAGGAATTAAAATAGA
Found at i:16150665 original size:53 final size:53
Alignment explanation
Indices: 16150608--16150782 Score: 271
Period size: 53 Copynumber: 3.3 Consensus size: 53
16150598 TGTCGGATAT
*
16150608 TGTTACTGTTACTGTTTCTGATTTGTTTCGATGAGGTACTCTGTGTACCGTAA
1 TGTTACTGTTACTGTTTCTGATTTGTTCCGATGAGGTACTCTGTGTACCGTAA
16150661 TGTTACTGTTACTGTTT-TGGATTTGTTCCGATGAGGTACTCTGTGTACCGTAA
1 TGTTACTGTTACTGTTTCT-GATTTGTTCCGATGAGGTACTCTGTGTACCGTAA
* * * *
16150714 TGTTACTGTTACTGTTTCGGATTTGTTCCGATTAGGTACTCTGTGTATCGTAC
1 TGTTACTGTTACTGTTTCTGATTTGTTCCGATGAGGTACTCTGTGTACCGTAA
* *
16150767 TGCTACTATTACTGTT
1 TGTTACTGTTACTGTT
16150783 ACTGTTCCGG
Statistics
Matches: 113, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
52 1 0.01
53 112 0.99
ACGTcount: A:0.17, C:0.16, G:0.22, T:0.45
Consensus pattern (53 bp):
TGTTACTGTTACTGTTTCTGATTTGTTCCGATGAGGTACTCTGTGTACCGTAA
Found at i:16151095 original size:18 final size:18
Alignment explanation
Indices: 16150899--16151175 Score: 170
Period size: 18 Copynumber: 14.9 Consensus size: 18
16150889 ATAAAATGAC
*
16150899 TGATTATTACTGAATAAT
1 TGATTGTTACTGAATAAT
* * *
16150917 TGACTGTTAC-CAGATACT
1 TGATTGTTACTGA-ATAAT
*
16150935 TGATTGTTACTGGAT-AT
1 TGATTGTTACTGAATAAT
* * *
16150952 TAGACTATTACTGAATAAC
1 T-GATTGTTACTGAATAAT
* *
16150971 TGAATATTACTGAATAAT
1 TGATTGTTACTGAATAAT
** *
16150989 TGATCATTACTGAATAAC
1 TGATTGTTACTGAATAAT
*
16151007 TGATTGTCACTGAATGAA-
1 TGATTGTTACTGAAT-AAT
16151025 TGATTGTTACTGAATAACT
1 TGATTGTTACTGAATAA-T
*
16151044 TAATTGTTACTGAAT-AT
1 TGATTGTTACTGAATAAT
16151061 CTGATT-TTACTGAATAAT
1 -TGATTGTTACTGAATAAT
*
16151079 TGACTGTTACTGGATAACCGATCAAT
1 TGATTGTTACT-G---A---AT-AAT
* * *
16151105 TGATCGATACTGAATAAC
1 TGATTGTTACTGAATAAT
* * *
16151123 TGGTTATTATTGAATAAT
1 TGATTGTTACTGAATAAT
*
16151141 TGATTGTTACCGAATAACT
1 TGATTGTTACTGAATAA-T
*
16151160 T-ACTGTTACTGAATAA
1 TGATTGTTACTGAATAA
16151176 ATAATTGTTC
Statistics
Matches: 200, Mismatches: 40, Indels: 38
0.72 0.14 0.14
Matches are distributed among these distances:
17 19 0.09
18 142 0.71
19 23 0.12
22 2 0.01
25 3 0.01
26 11 0.05
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (18 bp):
TGATTGTTACTGAATAAT
Found at i:16159339 original size:43 final size:41
Alignment explanation
Indices: 16159289--16159370 Score: 101
Period size: 41 Copynumber: 2.0 Consensus size: 41
16159279 CCCAGACATG
* * * *
16159289 GTCTTACATTCTATCACATATCGATGTCACTGTCCCAAACAGA
1 GTCTTACA-TCAATCAAATA-CGATGCCAATGTCCCAAACAGA
*
16159332 GTCTTACATGAATCAAATACGATGCCAATGTCCCAAACA
1 GTCTTACATCAATCAAATACGATGCCAATGTCCCAAACA
16159371 TGGTTTTACA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
41 18 0.53
42 8 0.24
43 8 0.24
ACGTcount: A:0.34, C:0.27, G:0.12, T:0.27
Consensus pattern (41 bp):
GTCTTACATCAATCAAATACGATGCCAATGTCCCAAACAGA
Found at i:16159380 original size:41 final size:43
Alignment explanation
Indices: 16159269--16159423 Score: 113
Period size: 43 Copynumber: 3.7 Consensus size: 43
16159259 ATATTGTACA
** * * *
16159269 ATGCCAACATCCCAGACATGGTCTTACATTCTATCACATATCG
1 ATGCCAATGTCCCAAACATGGTCTTACATTCAATCAAATATCG
* * *
16159312 ATGTCACTGTCCCAAACA-GAGTCTTACA-TGAATCAAATA-CG
1 ATGCCAATGTCCCAAACATG-GTCTTACATTCAATCAAATATCG
* * *
16159353 ATGCCAATGTCCCAAACATGGTTTTACACGT-AATCACATATC-
1 ATGCCAATGTCCCAAACATGGTCTTACA-TTCAATCAAATATCG
** * *
16159395 AGTGCCAACATCCCAGACGTGGTCTTACA
1 A-TGCCAATGTCCCAAACATGGTCTTACA
16159424 CGAGAACACA
Statistics
Matches: 89, Mismatches: 17, Indels: 12
0.75 0.14 0.10
Matches are distributed among these distances:
41 25 0.28
42 19 0.21
43 45 0.51
ACGTcount: A:0.32, C:0.28, G:0.14, T:0.26
Consensus pattern (43 bp):
ATGCCAATGTCCCAAACATGGTCTTACATTCAATCAAATATCG
Found at i:16161297 original size:44 final size:44
Alignment explanation
Indices: 16161244--16161388 Score: 145
Period size: 44 Copynumber: 3.3 Consensus size: 44
16161234 GGCTATCTGA
16161244 GGCACTAAGTGTGAGATACCGAGATAGCTTCGGTTAATTGAAAT
1 GGCACTAAGTGTGAGATACCGAGATAGCTTCGGTTAATTGAAAT
* *** * * *
16161288 GGCACTAAGTGTGTAGA-ATCGTTCTAGTTTTGGCTAACCCTT-AAA-
1 GGCACTAAGTGTG-AGATACCGAGATAGCTTCGGTTAA---TTGAAAT
* *
16161333 -GCACTAAGTGTGTGATACCGAGATAGCTTCAGTTAATTGAAAT
1 GGCACTAAGTGTGAGATACCGAGATAGCTTCGGTTAATTGAAAT
16161376 GGCACTAAGTGTG
1 GGCACTAAGTGTG
16161389 CAGAATCGTT
Statistics
Matches: 77, Mismatches: 16, Indels: 16
0.71 0.15 0.15
Matches are distributed among these distances:
41 2 0.03
42 3 0.04
43 2 0.03
44 62 0.81
45 3 0.04
46 3 0.04
47 2 0.03
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.30
Consensus pattern (44 bp):
GGCACTAAGTGTGAGATACCGAGATAGCTTCGGTTAATTGAAAT
Found at i:16161350 original size:88 final size:88
Alignment explanation
Indices: 16161245--16161432 Score: 322
Period size: 88 Copynumber: 2.1 Consensus size: 88
16161235 GCTATCTGAG
* *
16161245 GCACTAAGTGTGAGATACCGAGATAGCTTCGGTTAATTGAAATGGCACTAAGTGTGTAGAATCGT
1 GCACTAAGTGTGAGATACCGAGATAGCTTCAGTTAATTGAAATGGCACTAAGTGTGCAGAATCGT
** *
16161310 TCTAGTTTTGGCTAACCCTTAAA
66 TCTAGCCTCGGCTAACCCTTAAA
*
16161333 GCACTAAGTGTGTGATACCGAGATAGCTTCAGTTAATTGAAATGGCACTAAGTGTGCAGAATCGT
1 GCACTAAGTGTGAGATACCGAGATAGCTTCAGTTAATTGAAATGGCACTAAGTGTGCAGAATCGT
16161398 TCTAGCCTCGGCTAACCCTTAAA
66 TCTAGCCTCGGCTAACCCTTAAA
16161421 GCACTAAGTGTG
1 GCACTAAGTGTG
16161433 CGGATCTTAA
Statistics
Matches: 94, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
88 94 1.00
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (88 bp):
GCACTAAGTGTGAGATACCGAGATAGCTTCAGTTAATTGAAATGGCACTAAGTGTGCAGAATCGT
TCTAGCCTCGGCTAACCCTTAAA
Found at i:16161425 original size:44 final size:44
Alignment explanation
Indices: 16161289--16161433 Score: 127
Period size: 44 Copynumber: 3.3 Consensus size: 44
16161279 AATTGAAATG
* * *
16161289 GCACTAAGTGTGTAGAATCGTTCTAGTTTTGGCTAACCCTTAAA
1 GCACTAAGTGTGCAGAATCGTTCTAGCTTCGGCTAACCCTTAAA
* * *** * *
16161333 GCACTAAGTGTG-TGATACCGAGATAGCTTCAGTTAA---TTGAAA
1 GCACTAAGTGTGCAGA-ATCGTTCTAGCTTCGGCTAACCCTT-AAA
*
16161375 TGGCACTAAGTGTGCAGAATCGTTCTAGCCTCGGCTAACCCTTAAA
1 --GCACTAAGTGTGCAGAATCGTTCTAGCTTCGGCTAACCCTTAAA
16161421 GCACTAAGTGTGC
1 GCACTAAGTGTGC
16161434 GGATCTTAAA
Statistics
Matches: 76, Mismatches: 17, Indels: 16
0.70 0.16 0.15
Matches are distributed among these distances:
41 2 0.03
42 3 0.04
43 2 0.03
44 62 0.82
45 2 0.03
46 3 0.04
47 2 0.03
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (44 bp):
GCACTAAGTGTGCAGAATCGTTCTAGCTTCGGCTAACCCTTAAA
Found at i:16163227 original size:17 final size:19
Alignment explanation
Indices: 16163191--16163227 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
16163181 AAAGCCCATA
16163191 ACACGGCCCATGTAGGCCC
1 ACACGGCCCATGTAGGCCC
*
16163210 ACAC-GCCCGTGT-GGCCC
1 ACACGGCCCATGTAGGCCC
16163227 A
1 A
16163228 TTAATCTCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 6 0.35
18 7 0.41
19 4 0.24
ACGTcount: A:0.19, C:0.43, G:0.27, T:0.11
Consensus pattern (19 bp):
ACACGGCCCATGTAGGCCC
Found at i:16180247 original size:8 final size:8
Alignment explanation
Indices: 16180234--16180259 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
16180224 CGGAGTACTC
16180234 ACCTTAAA
1 ACCTTAAA
16180242 ACCTTAAA
1 ACCTTAAA
16180250 ACCTTAAA
1 ACCTTAAA
16180258 AC
1 AC
16180260 TATCTTACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.50, C:0.27, G:0.00, T:0.23
Consensus pattern (8 bp):
ACCTTAAA
Found at i:16183885 original size:23 final size:23
Alignment explanation
Indices: 16183859--16183903 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
16183849 TAGATATCTG
*
16183859 ATGACGTTATCTT-ATAAATATGC
1 ATGAAGTTATCTTGA-AAATATGC
*
16183882 ATGAATTTATCTTGAAAATATG
1 ATGAAGTTATCTTGAAAATATG
16183904 TTGAATTGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (23 bp):
ATGAAGTTATCTTGAAAATATGC
Found at i:16184385 original size:45 final size:44
Alignment explanation
Indices: 16184321--16184488 Score: 192
Period size: 45 Copynumber: 3.7 Consensus size: 44
16184311 CGATACCGAT
** * *
16184321 GTCCCAGACATGGTCTTACACATAACCACGTATATCGATGCCAAC
1 GTCCCAGATGTGGTCTTACACA-AAACACATATATCGATGCCAAC
* *
16184366 GTCCCAGATGTGTTCTTACACGAAAACACATATATTGATGCCAAC
1 GTCCCAGATGTGGTCTTACAC-AAAACACATATATCGATGCCAAC
* * *
16184411 ATCCTAGATGTGGTCTTAGACAAAAACACATATATCGATGCCAAC
1 GTCCCAGATGTGGTCTTACAC-AAAACACATATATCGATGCCAAC
* * *
16184456 GTCCCAAACGTGGGCTTACACGAAAACACATAT
1 GTCCCAGATGTGGTCTTACAC-AAAACACATAT
16184489 CGAAATCCTA
Statistics
Matches: 103, Mismatches: 19, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
45 102 0.99
46 1 0.01
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.23
Consensus pattern (44 bp):
GTCCCAGATGTGGTCTTACACAAAACACATATATCGATGCCAAC
Found at i:16186379 original size:22 final size:20
Alignment explanation
Indices: 16186331--16186379 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 20
16186321 TCTTAACTAT
*
16186331 TCAAATCCATAGCCAAAACA
1 TCAAATCAATAGCCAAAACA
16186351 TACCAAATCAATATGCCAAAATCA
1 T--CAAATCAATA-GCCAAAA-CA
16186375 TCAAA
1 TCAAA
16186380 CTTACACAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
20 1 0.04
22 13 0.54
23 7 0.29
24 3 0.12
ACGTcount: A:0.51, C:0.27, G:0.04, T:0.18
Consensus pattern (20 bp):
TCAAATCAATAGCCAAAACA
Found at i:16187238 original size:43 final size:43
Alignment explanation
Indices: 16187191--16187295 Score: 122
Period size: 43 Copynumber: 2.4 Consensus size: 43
16187181 TCCCAGGTAG
* * *
16187191 GGTCTTATACGAAATCA-TATAACGATGCCAATGTCCCAAACAT
1 GGTCTTATAAGAAATCACAAT-ACAATGCCAATGTCCCAAACAT
* * *
16187234 GGTCTTACAAGTAATCACAATACAATGCCAATGTCCCAGACAT
1 GGTCTTATAAGAAATCACAATACAATGCCAATGTCCCAAACAT
* *
16187277 GGTCTTATATGTAATCACA
1 GGTCTTATAAGAAATCACA
16187296 TCTCGATAAT
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
43 51 0.96
44 2 0.04
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (43 bp):
GGTCTTATAAGAAATCACAATACAATGCCAATGTCCCAAACAT
Found at i:16188180 original size:38 final size:39
Alignment explanation
Indices: 16188129--16188242 Score: 151
Period size: 39 Copynumber: 2.9 Consensus size: 39
16188119 ACGTAGCTTA
*
16188129 TTCAACCCTGTGTCCATGCCATAAT-CTTTCACTAACGC
1 TTCAACCCTGTGTCGATGCCATAATACTTTCACTAACGC
* *
16188167 TTCAATCCTGTGTCGATGCCATAATACTTTCACTAACTC
1 TTCAACCCTGTGTCGATGCCATAATACTTTCACTAACGC
* * *
16188206 TTTAAGGCC-ATGTCGATGCCATAATACTTTCACTAAC
1 TTCAA-CCCTGTGTCGATGCCATAATACTTTCACTAAC
16188243 ACTATTCTTT
Statistics
Matches: 68, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
38 23 0.34
39 43 0.63
40 2 0.03
ACGTcount: A:0.26, C:0.29, G:0.11, T:0.33
Consensus pattern (39 bp):
TTCAACCCTGTGTCGATGCCATAATACTTTCACTAACGC
Found at i:16191542 original size:29 final size:30
Alignment explanation
Indices: 16191497--16191555 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
16191487 CATGGCCGGC
16191497 CACACGCCCATGTGACA-ACCCATGTGTCT
1 CACACGCCCATGTGACACACCCATGTGTCT
* *
16191526 CACACGGCCA-GTAGACACCCCCATGTGTCT
1 CACACGCCCATGT-GACACACCCATGTGTCT
16191556 AGGCCGTGCC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 2 0.08
29 13 0.50
30 11 0.42
ACGTcount: A:0.24, C:0.39, G:0.19, T:0.19
Consensus pattern (30 bp):
CACACGCCCATGTGACACACCCATGTGTCT
Found at i:16193564 original size:27 final size:27
Alignment explanation
Indices: 16193506--16193648 Score: 114
Period size: 27 Copynumber: 5.3 Consensus size: 27
16193496 AAGGGTAAAA
*
16193506 CAGTTATTTTATC-CTACAA-GGTATTT
1 CAGTAATTTTA-CACTACAAGGGTATTT
*
16193532 CGGTAATTTTACACTACAAGGGTATTT
1 CAGTAATTTTACACTACAAGGGTATTT
* *
16193559 CAGTAATTTTACA-AATCAGGGGTATTT
1 CAGTAATTTTACACTA-CAAGGGTATTT
* * *
16193586 TAGTAATTTTACAAGT-CGAGGGTATTT
1 CAGTAATTTTAC-ACTACAAGGGTATTT
* * ** *
16193613 CAATAATTTCACAAAATAAGGGTATTT
1 CAGTAATTTTACACTACAAGGGTATTT
*
16193640 CGGTAATTT
1 CAGTAATTT
16193649 CACAAATTAG
Statistics
Matches: 93, Mismatches: 18, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
25 1 0.01
26 17 0.18
27 74 0.80
28 1 0.01
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.39
Consensus pattern (27 bp):
CAGTAATTTTACACTACAAGGGTATTT
Found at i:16193620 original size:81 final size:81
Alignment explanation
Indices: 16193525--16193707 Score: 224
Period size: 81 Copynumber: 2.3 Consensus size: 81
16193515 TATCCTACAA
* ** *
16193525 GGTATTTCGGTAATTTTACACTACAAGGGTATTTCAGTAATTTTACAAATCAGGGGTATTTTAG-
1 GGTATTTCAGTAATTTTACAAAACAAGGGTATTTCAGTAATTTCACAAATCAGGGGTA-TTTAGA
*
16193589 TAATTTTACAAGTCGAG
65 TAATTTTACAACTCGAG
* * * * * *
16193606 GGTATTTCAATAATTTCACAAAATAAGGGTATTTCGGTAATTTCACAAATTAGGGGTATTTCGAT
1 GGTATTTCAGTAATTTTACAAAACAAGGGTATTTCAGTAATTTCACAAATCAGGGGTATTTAGAT
* *
16193671 AATTTTATAACTCGGG
66 AATTTTACAACTCGAG
*
16193687 GGTATTTTAGTAATTTTACAA
1 GGTATTTCAGTAATTTTACAA
16193708 GTTAAGGGTC
Statistics
Matches: 85, Mismatches: 16, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
80 4 0.05
81 81 0.95
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (81 bp):
GGTATTTCAGTAATTTTACAAAACAAGGGTATTTCAGTAATTTCACAAATCAGGGGTATTTAGAT
AATTTTACAACTCGAG
Found at i:16193700 original size:27 final size:27
Alignment explanation
Indices: 16193525--16193707 Score: 167
Period size: 27 Copynumber: 6.8 Consensus size: 27
16193515 TATCCTACAA
* * *
16193525 GGTATTTCGGTAATTTTAC-ACTACAAG
1 GGTATTTCAGTAATTTTACAAAT-CAGG
16193552 GGTATTTCAGTAATTTTACAAATCAGG
1 GGTATTTCAGTAATTTTACAAATCAGG
* *
16193579 GGTATTTTAGTAATTTTACAAGTC-GAG
1 GGTATTTCAGTAATTTTACAAATCAG-G
* * *
16193606 GGTATTTCAATAATTTCACAAAAT-AAG
1 GGTATTTCAGTAATTTTAC-AAATCAGG
* * *
16193633 GGTATTTCGGTAATTTCACAAATTAGG
1 GGTATTTCAGTAATTTTACAAATCAGG
* * *
16193660 GGTATTTC-GATAATTTTATAACTCGGG
1 GGTATTTCAG-TAATTTTACAAATCAGG
*
16193687 GGTATTTTAGTAATTTTACAA
1 GGTATTTCAGTAATTTTACAA
16193708 GTTAAGGGTC
Statistics
Matches: 129, Mismatches: 20, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
26 6 0.05
27 117 0.91
28 6 0.05
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (27 bp):
GGTATTTCAGTAATTTTACAAATCAGG
Found at i:16198017 original size:47 final size:47
Alignment explanation
Indices: 16197957--16198073 Score: 137
Period size: 47 Copynumber: 2.5 Consensus size: 47
16197947 GTGTGACTAA
* * ** *
16197957 TACCTTGACTTGGCTACGGGCCATGATATAGGTATTTTGAG-AGGAGT
1 TACCTTGATTTGGCTACGGGCCATGATATAGGTACTCCG-GCAGAAGT
* * *
16198004 TACCTTGATTTGGCTACGAGCCATGGTATAGGTACTCCGGCATAAGT
1 TACCTTGATTTGGCTACGGGCCATGATATAGGTACTCCGGCAGAAGT
*
16198051 TACCTTGATTTGGCTGCGGGCCA
1 TACCTTGATTTGGCTACGGGCCA
16198074 CAGTATGGGT
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
46 1 0.02
47 58 0.98
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.31
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGGCCATGATATAGGTACTCCGGCAGAAGT
Found at i:16208834 original size:60 final size:60
Alignment explanation
Indices: 16208762--16208879 Score: 227
Period size: 60 Copynumber: 2.0 Consensus size: 60
16208752 AAATGTGGTG
*
16208762 GTTAAAAGTGTGAATAAATTGAAAATATGGGCTGCTAGTAATACATGTTAAATTTGGCTA
1 GTTAAAAGTGTGAATAAATTGAAAATATGGGCTACTAGTAATACATGTTAAATTTGGCTA
16208822 GTTAAAAGTGTGAATAAATTGAAAATATGGGCTACTAGTAATACATGTTAAATTTGGC
1 GTTAAAAGTGTGAATAAATTGAAAATATGGGCTACTAGTAATACATGTTAAATTTGGC
16208880 CAAGCATGGG
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 57 1.00
ACGTcount: A:0.39, C:0.07, G:0.21, T:0.33
Consensus pattern (60 bp):
GTTAAAAGTGTGAATAAATTGAAAATATGGGCTACTAGTAATACATGTTAAATTTGGCTA
Found at i:16209144 original size:40 final size:40
Alignment explanation
Indices: 16209089--16209168 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
16209079 GGAGAAAAAG
16209089 TAAGGTTGTCGAATAGTCGATCCGATCAGTCAATTTTGAA
1 TAAGGTTGTCGAATAGTCGATCCGATCAGTCAATTTTGAA
16209129 TAAGGTTGTCGAATAGTCGATCCGATCAGTCAATTTTGAA
1 TAAGGTTGTCGAATAGTCGATCCGATCAGTCAATTTTGAA
16209169 CGCGAGGTAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.33
Consensus pattern (40 bp):
TAAGGTTGTCGAATAGTCGATCCGATCAGTCAATTTTGAA
Found at i:16212747 original size:47 final size:49
Alignment explanation
Indices: 16212641--16212771 Score: 169
Period size: 47 Copynumber: 2.7 Consensus size: 49
16212631 GTACGAGTGA
* * * * *
16212641 TACCTTGATTTCGCTATGGGCCATGGTATGGGTA-TTTCAGAGAGGAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCTCAGAGAGAAGT
*
16212689 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCT-AG-GATAAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCTCAGAGAGAAGT
**
16212736 TACCTTGATTTGGCTACAAGCCATGGTATAGGTACT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACT
16212772 TATCAATTGT
Statistics
Matches: 74, Mismatches: 8, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
47 39 0.53
48 33 0.45
49 2 0.03
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (49 bp):
TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCTCAGAGAGAAGT
Found at i:16219609 original size:3 final size:3
Alignment explanation
Indices: 16219594--16219645 Score: 50
Period size: 3 Copynumber: 17.3 Consensus size: 3
16219584 GAGGATGAAA
* * * * * *
16219594 ATG ATG GTG ATG ATG AGG ATG ACG ATG GTG ATG ATG ATT ATG ATG AAG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
16219642 ATG A
1 ATG A
16219646 GCCTACCAGA
Statistics
Matches: 37, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.02, G:0.37, T:0.29
Consensus pattern (3 bp):
ATG
Found at i:16224573 original size:3 final size:3
Alignment explanation
Indices: 16224565--16224617 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
16224555 TAAACTTGCT
16224565 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
16224613 TTC TT
1 TTC TT
16224618 TTTTGCAATT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:16231890 original size:5 final size:5
Alignment explanation
Indices: 16231880--16231914 Score: 52
Period size: 5 Copynumber: 6.6 Consensus size: 5
16231870 ACTATTGTGA
16231880 AAAAT AAAAT AAAAT AAAAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT --AAAAT AAAAT AAAAT AAA
16231915 GAACACACAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 23 0.82
7 5 0.18
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:16231901 original size:17 final size:17
Alignment explanation
Indices: 16231879--16231914 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
16231869 TACTATTGTG
16231879 AAAAATAAAATAAAATA
1 AAAAATAAAATAAAATA
16231896 AAAAATAAAATAAAATA
1 AAAAATAAAATAAAATA
16231913 AA
1 AA
16231915 GAACACACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (17 bp):
AAAAATAAAATAAAATA
Found at i:16231902 original size:12 final size:12
Alignment explanation
Indices: 16231885--16231910 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
16231875 TGTGAAAAAT
16231885 AAAATAAAATAA
1 AAAATAAAATAA
16231897 AAAATAAAATAA
1 AAAATAAAATAA
16231909 AA
1 AA
16231911 TAAAGAACAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (12 bp):
AAAATAAAATAA
Found at i:16240182 original size:16 final size:15
Alignment explanation
Indices: 16240141--16240182 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
16240131 GAGGGAAAAT
16240141 AAAATTGAAAGGATG
1 AAAATTGAAAGGATG
*
16240156 AAATATTGAAAGGTTG
1 AAA-ATTGAAAGGATG
16240172 AAAATTAGAAA
1 AAAATT-GAAA
16240183 TAATTTTTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 6 0.25
16 18 0.75
ACGTcount: A:0.55, C:0.00, G:0.21, T:0.24
Consensus pattern (15 bp):
AAAATTGAAAGGATG
Found at i:16245146 original size:22 final size:23
Alignment explanation
Indices: 16245101--16245155 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 23
16245091 ATTCACTAAT
* *
16245101 TCATCACAATATCATCTATTTCA
1 TCATCACAAAATCATCTATATCA
16245124 T-ATCACAAAACTCATC-ATATCA
1 TCATCACAAAA-TCATCTATATCA
*
16245146 TCATCTCAAA
1 TCATCACAAA
16245156 CCAAACCAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 14 0.52
23 13 0.48
ACGTcount: A:0.40, C:0.27, G:0.00, T:0.33
Consensus pattern (23 bp):
TCATCACAAAATCATCTATATCA
Found at i:16251075 original size:4 final size:4
Alignment explanation
Indices: 16251066--16251094 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
16251056 CACACGCCTC
16251066 CTCA CTCA CTCA CTCA CTCA CTCA CTCA C
1 CTCA CTCA CTCA CTCA CTCA CTCA CTCA C
16251095 CAAGTAGTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.24, C:0.52, G:0.00, T:0.24
Consensus pattern (4 bp):
CTCA
Found at i:16253154 original size:21 final size:21
Alignment explanation
Indices: 16253128--16253208 Score: 81
Period size: 21 Copynumber: 3.9 Consensus size: 21
16253118 GTTCTACTTA
*
16253128 TATGAGTTTCTGTTCAGCACT
1 TATGAGCTTCTGTTCAGCACT
* * * *
16253149 TTTGAGCTTCTGTTTAACCCT
1 TATGAGCTTCTGTTCAGCACT
* * *
16253170 TATGGGTTTCTGTTTAGCACT
1 TATGAGCTTCTGTTCAGCACT
*
16253191 TATGTGCTTCTGTTCAGC
1 TATGAGCTTCTGTTCAGC
16253209 CTTCGGGCTT
Statistics
Matches: 47, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 47 1.00
ACGTcount: A:0.15, C:0.20, G:0.20, T:0.46
Consensus pattern (21 bp):
TATGAGCTTCTGTTCAGCACT
Found at i:16253156 original size:42 final size:43
Alignment explanation
Indices: 16253110--16253205 Score: 117
Period size: 42 Copynumber: 2.3 Consensus size: 43
16253100 TAGCTATCAC
* *
16253110 GAGCTTCTGTTCT-A-CTTATATGAGTTTCTGTTCAGCACTTTT
1 GAGCTTCTGTTCTAACCCT-TATGAGTTTCTGTTCAGCACTTAT
* *
16253152 GAGCTTCTGTT-TAACCCTTATGGGTTTCTGTTTAGCACTTAT
1 GAGCTTCTGTTCTAACCCTTATGAGTTTCTGTTCAGCACTTAT
*
16253194 GTGCTTCTGTTC
1 GAGCTTCTGTTC
16253206 AGCCTTCGGG
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
41 1 0.02
42 43 0.93
43 2 0.04
ACGTcount: A:0.15, C:0.20, G:0.19, T:0.47
Consensus pattern (43 bp):
GAGCTTCTGTTCTAACCCTTATGAGTTTCTGTTCAGCACTTAT
Found at i:16263410 original size:17 final size:18
Alignment explanation
Indices: 16263382--16263415 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
16263372 AGACTGTAGC
16263382 TTGTTTTGGACTTTTTTT
1 TTGTTTTGGACTTTTTTT
16263400 TTGTTTT-GACTTTTTT
1 TTGTTTTGGACTTTTTT
16263416 CAAATTAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.06, C:0.06, G:0.15, T:0.74
Consensus pattern (18 bp):
TTGTTTTGGACTTTTTTT
Found at i:16266085 original size:28 final size:28
Alignment explanation
Indices: 16266045--16266110 Score: 114
Period size: 28 Copynumber: 2.4 Consensus size: 28
16266035 GATGTGCTAA
*
16266045 TATACCCCTATGTATGCAAAATTACCAT
1 TATACCCCTATGTATGCAAAATGACCAT
*
16266073 TATACCCCTATGTATGCAAAATGACCTT
1 TATACCCCTATGTATGCAAAATGACCAT
16266101 TATACCCCTA
1 TATACCCCTA
16266111 GGGTTAATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.33, C:0.27, G:0.08, T:0.32
Consensus pattern (28 bp):
TATACCCCTATGTATGCAAAATGACCAT
Found at i:16266274 original size:27 final size:27
Alignment explanation
Indices: 16266216--16266305 Score: 119
Period size: 28 Copynumber: 3.2 Consensus size: 27
16266206 AGGAAGCATC
16266216 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
16266244 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
16266271 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
16266300 CTGGTG
1 CTGGTG
16266306 ACTCTGTCAC
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 23 0.42
28 25 0.45
29 7 0.13
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:16266329 original size:56 final size:55
Alignment explanation
Indices: 16266216--16266330 Score: 144
Period size: 55 Copynumber: 2.1 Consensus size: 55
16266206 AGGAAGCATC
* *
16266216 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTT
* * *
16266271 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTTT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTG-TT
16266327 CTGG
1 CTGG
16266331 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.56
56 22 0.42
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (55 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTT
Found at i:16266795 original size:19 final size:19
Alignment explanation
Indices: 16266771--16266809 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
16266761 TTAATTATTT
* *
16266771 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
16266790 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
16266809 T
1 T
16266810 ATGATGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:16269533 original size:11 final size:11
Alignment explanation
Indices: 16269517--16269541 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
16269507 TATATATATG
16269517 TATTTTTTATT
1 TATTTTTTATT
16269528 TATTTTTTATT
1 TATTTTTTATT
16269539 TAT
1 TAT
16269542 ATATTTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (11 bp):
TATTTTTTATT
Found at i:16272175 original size:36 final size:36
Alignment explanation
Indices: 16272123--16272214 Score: 111
Period size: 36 Copynumber: 2.6 Consensus size: 36
16272113 ACAAGTATAG
*
16272123 TAAAAAATAAATAAATAATAATGAA-AATAAGAATAA
1 TAAAAAATAAAGAAATAATAAT-AATAATAAGAATAA
*
16272159 TAAACAATAAAGAAATAATAATAATAATAAG-A-AA
1 TAAAAAATAAAGAAATAATAATAATAATAAGAATAA
* *
16272193 TAAGAAATAAATAAATAA-AATA
1 TAAAAAATAAAGAAATAATAATA
16272215 TGCAAACAGT
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
33 4 0.08
34 17 0.34
35 3 0.06
36 26 0.52
ACGTcount: A:0.72, C:0.01, G:0.05, T:0.22
Consensus pattern (36 bp):
TAAAAAATAAAGAAATAATAATAATAATAAGAATAA
Found at i:16272188 original size:30 final size:31
Alignment explanation
Indices: 16272148--16272214 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 31
16272138 TAATAATGAA
* * *
16272148 AATAAGAATAATAAACAATAAAGAAAT-AAT
1 AATAATAATAAGAAACAAGAAAGAAATAAAT
* *
16272178 AATAATAATAAGAAATAAGAAATAAATAAAT
1 AATAATAATAAGAAACAAGAAAGAAATAAAT
16272209 AA-AATA
1 AATAATA
16272215 TGCAAACAGT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
30 26 0.84
31 5 0.16
ACGTcount: A:0.72, C:0.01, G:0.06, T:0.21
Consensus pattern (31 bp):
AATAATAATAAGAAACAAGAAAGAAATAAAT
Found at i:16272205 original size:27 final size:28
Alignment explanation
Indices: 16272147--16272214 Score: 81
Period size: 27 Copynumber: 2.5 Consensus size: 28
16272137 ATAATAATGA
*
16272147 AAATAAGAATAATAAACAATAAAGAAAT
1 AAATAATAATAATAAACAATAAAGAAAT
16272175 -AATAATAATAATAAGA-AAT-AAGAAAT
1 AAATAATAATAATAA-ACAATAAAGAAAT
16272201 AAATAAATAA-AATA
1 AAAT-AATAATAATA
16272215 TGCAAACAGT
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
26 7 0.19
27 23 0.64
28 6 0.17
ACGTcount: A:0.72, C:0.01, G:0.06, T:0.21
Consensus pattern (28 bp):
AAATAATAATAATAAACAATAAAGAAAT
Found at i:16273285 original size:42 final size:42
Alignment explanation
Indices: 16273196--16273285 Score: 101
Period size: 42 Copynumber: 2.1 Consensus size: 42
16273186 TCTTAGGATC
* * * *
16273196 CACATGGCCAAGGACAGGCCTATGTGACCAGGACATGTTGGT
1 CACATGACCAAGGACACGCCCATGTGACCAGGACATGTGGGT
* *
16273238 CACATGACCAAGGACACGCCCCTGTGTCCAGG-CAGTGTGGGT
1 CACATGACCAAGGACACGCCCATGTGACCAGGACA-TGTGGGT
*
16273280 TACATG
1 CACATG
16273286 GCCATGTCAC
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
41 2 0.05
42 38 0.95
ACGTcount: A:0.24, C:0.27, G:0.30, T:0.19
Consensus pattern (42 bp):
CACATGACCAAGGACACGCCCATGTGACCAGGACATGTGGGT
Found at i:16281797 original size:42 final size:42
Alignment explanation
Indices: 16281750--16281834 Score: 152
Period size: 42 Copynumber: 2.0 Consensus size: 42
16281740 TGTCATGGTG
16281750 TTAAATTACAAATTTAACAAAATTCAGGGATTAATAGTGAAT
1 TTAAATTACAAATTTAACAAAATTCAGGGATTAATAGTGAAT
* *
16281792 TTAAATTACAAATTTAACAAAATTCAGGTATTGATAGTGAAT
1 TTAAATTACAAATTTAACAAAATTCAGGGATTAATAGTGAAT
16281834 T
1 T
16281835 ATATGTATAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.46, C:0.07, G:0.12, T:0.35
Consensus pattern (42 bp):
TTAAATTACAAATTTAACAAAATTCAGGGATTAATAGTGAAT
Found at i:16283875 original size:105 final size:105
Alignment explanation
Indices: 16283754--16283976 Score: 347
Period size: 105 Copynumber: 2.1 Consensus size: 105
16283744 ATGGCTTGCG
*
16283754 ACACGGCCGTGTGACCCAACATTGAATGCACACACGGGTAGACACACGGGCTGGGACACGACCGT
1 ACACGGCCGTGTGACCCAACATTGAATGCACACACGGGTAGACACACGGGCTGAGACACGACCGT
* *
16283819 GTGTCCAAATTTTAAATGTCTACACGGTCTGGGTTGTGAC
66 GTGTCCAAATTTTAAATATCTACACGGTCTGGGCTGTGAC
* * *
16283859 ACACGGCCGTGTGACCCGACATTGAATGCACACATGGGTGGACACACGGGCTGAGACACGACCGT
1 ACACGGCCGTGTGACCCAACATTGAATGCACACACGGGTAGACACACGGGCTGAGACACGACCGT
***
16283924 GTGTTTGAATTTTAAATATCTACACGGTCTGGGCTGTGAC
66 GTGTCCAAATTTTAAATATCTACACGGTCTGGGCTGTGAC
* *
16283964 ACAGGGTCGTGTG
1 ACACGGCCGTGTG
16283977 TCCTCTATTT
Statistics
Matches: 107, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
105 107 1.00
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (105 bp):
ACACGGCCGTGTGACCCAACATTGAATGCACACACGGGTAGACACACGGGCTGAGACACGACCGT
GTGTCCAAATTTTAAATATCTACACGGTCTGGGCTGTGAC
Found at i:16300025 original size:30 final size:30
Alignment explanation
Indices: 16299991--16300050 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
16299981 TGGAGAACTG
16299991 GTTTCATTCTGACTTGGTTTGTATCCCTGC
1 GTTTCATTCTGACTTGGTTTGTATCCCTGC
16300021 GTTTCATTCTGACTTGGTTTGTATCCCTGC
1 GTTTCATTCTGACTTGGTTTGTATCCCTGC
16300051 TTACTTTGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.10, C:0.23, G:0.20, T:0.47
Consensus pattern (30 bp):
GTTTCATTCTGACTTGGTTTGTATCCCTGC
Found at i:16301340 original size:6 final size:6
Alignment explanation
Indices: 16301320--16301358 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
16301310 TTGTGTGTTC
*
16301320 TTTATT TTATTTT TTTATT TTTATT TTTA-T TTTATT TTT
1 TTTATT TT-TATT TTTATT TTTATT TTTATT TTTATT TTT
16301359 CACAAATTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
5 5 0.17
6 19 0.66
7 5 0.17
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTATT
Done.