Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007960.1 Hibiscus syriacus cultivar Beakdansim tig00110387_pilon, whole genome shotgun sequence
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: 7905731
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 38 of 39
Found at i:7342166 original size:42 final size:45
Alignment explanation
Indices: 7342082--7342166 Score: 140
Period size: 42 Copynumber: 2.0 Consensus size: 45
7342072 TTCTCAACCA
*
7342082 ACATAATTATATGAGTAATGGATGTTATGTTGGAGATAAAAAGCG
1 ACATAATTATATGAGCAATGGATGTTATGTTGGAGATAAAAAGCG
7342127 ACATAA-T-TATGAGCAATGGATGTT-TGTTGGAGATAAAAAG
1 ACATAATTATATGAGCAATGGATGTTATGTTGGAGATAAAAAG
7342167 AAACTTCATT
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
42 16 0.41
43 16 0.41
44 1 0.03
45 6 0.15
ACGTcount: A:0.40, C:0.05, G:0.25, T:0.31
Consensus pattern (45 bp):
ACATAATTATATGAGCAATGGATGTTATGTTGGAGATAAAAAGCG
Found at i:7344931 original size:35 final size:35
Alignment explanation
Indices: 7344885--7344954 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
7344875 AAAACAATTC
*
7344885 TCAATTTCATTCTAAACCTCAAATTCCAAAATAAT
1 TCAATTACATTCTAAACCTCAAATTCCAAAATAAT
7344920 TCAATTACATTCTAAACCTCAAATTCCAAAATAAT
1 TCAATTACATTCTAAACCTCAAATTCCAAAATAAT
7344955 CAAAATAATA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.44, C:0.23, G:0.00, T:0.33
Consensus pattern (35 bp):
TCAATTACATTCTAAACCTCAAATTCCAAAATAAT
Found at i:7354774 original size:260 final size:260
Alignment explanation
Indices: 7354313--7354830 Score: 919
Period size: 260 Copynumber: 2.0 Consensus size: 260
7354303 GGGGGCCACT
7354313 AAAATCATCAAGAAGTCATCTTTTGCTGCTATATTAATGCACCGAATTCGGTGCAATTAATGTGT
1 AAAATCATCAAGAAGTCATCTTTTGCTGCTATATTAATGCACCGAATTCGGTGCAATTAATGTGT
* * *
7354378 GTTGAAATTTTGAGATGGCTAAATTACATTTTAGTCATTGTACTTTAGGGTATTTTCAAATATTA
66 GTTAAAATTTTGAGATGGCTAAATTACATTTTAGTCATTGCACTTTAGGATATTTTCAAATATTA
* * *
7354443 GTCCTTAAGTTTCAACTATAAATACCCTAGCTCATTTAACTTCAAAATCATCCCAAAATCATTTC
131 ATCCCTAAGCTTCAACTATAAATACCCTAGCTCATTTAACTTCAAAATCATCCCAAAATCATTTC
* *
7354508 TTTCTCCCAATACTAGAGAGGTTTCTTGCGATTAGTGAGTGTTTTATAAACACCTGTAATTTTCC
196 TTTCTCCCAATACTAGAGAGCTTTCTTGCGAGTAGTGAGTGTTTTATAAACACCTGTAATTTTCC
*
7354573 AAAATCATCAAGAAGTCATCTTTTGCTGCTATATTAATGCACCGGATTCGGTGCAATTAATGTGT
1 AAAATCATCAAGAAGTCATCTTTTGCTGCTATATTAATGCACCGAATTCGGTGCAATTAATGTGT
7354638 GTTAAAATTTTGAGATGGCTAAATTACATTTTAGTCATTGCACTTTAGGATATTTTCAAATATTA
66 GTTAAAATTTTGAGATGGCTAAATTACATTTTAGTCATTGCACTTTAGGATATTTTCAAATATTA
* *
7354703 ATCCCTAAGCTTCAACTATAAATACCCTAGCTCATTTAGCTTTAAAATCATCCCAAAATCATTTC
131 ATCCCTAAGCTTCAACTATAAATACCCTAGCTCATTTAACTTCAAAATCATCCCAAAATCATTTC
* *
7354768 TTTCTCCCAATACTAGAGAGCTTTCTTGTGAGTAGTGAGTGTTTTGTAAACACCTGTAATTTT
196 TTTCTCCCAATACTAGAGAGCTTTCTTGCGAGTAGTGAGTGTTTTATAAACACCTGTAATTTT
7354831 TCTCTCTTAG
Statistics
Matches: 245, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
260 245 1.00
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (260 bp):
AAAATCATCAAGAAGTCATCTTTTGCTGCTATATTAATGCACCGAATTCGGTGCAATTAATGTGT
GTTAAAATTTTGAGATGGCTAAATTACATTTTAGTCATTGCACTTTAGGATATTTTCAAATATTA
ATCCCTAAGCTTCAACTATAAATACCCTAGCTCATTTAACTTCAAAATCATCCCAAAATCATTTC
TTTCTCCCAATACTAGAGAGCTTTCTTGCGAGTAGTGAGTGTTTTATAAACACCTGTAATTTTCC
Found at i:7360495 original size:20 final size:20
Alignment explanation
Indices: 7360472--7360515 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
7360462 ACCTATATTC
*
7360472 CAAATTCGCAACACAGAAGT
1 CAAATCCGCAACACAGAAGT
7360492 CAAATCCGCAACACAGAAGT
1 CAAATCCGCAACACAGAAGT
7360512 CAAA
1 CAAA
7360516 GTGCGTTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.48, C:0.27, G:0.14, T:0.11
Consensus pattern (20 bp):
CAAATCCGCAACACAGAAGT
Found at i:7360663 original size:22 final size:22
Alignment explanation
Indices: 7360631--7360688 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
7360621 TCACTCTCTA
* *
7360631 CGACGACATCCGTCCCCATCTC
1 CGACGAAATCCGTCCCCATATC
* *
7360653 CGATGAAATCCATCCCCATATC
1 CGACGAAATCCGTCCCCATATC
7360675 CGACGAAATCCGTC
1 CGACGAAATCCGTC
7360689 TATCTCTATC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.26, C:0.41, G:0.14, T:0.19
Consensus pattern (22 bp):
CGACGAAATCCGTCCCCATATC
Found at i:7361054 original size:14 final size:14
Alignment explanation
Indices: 7361035--7361065 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
7361025 ACACGAAAAT
7361035 GAAAATCGCAACAC
1 GAAAATCGCAACAC
*
7361049 GAAAATCGCAACGC
1 GAAAATCGCAACAC
7361063 GAA
1 GAA
7361066 TTTAGTTTCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.48, C:0.26, G:0.19, T:0.06
Consensus pattern (14 bp):
GAAAATCGCAACAC
Found at i:7363279 original size:21 final size:20
Alignment explanation
Indices: 7363252--7363349 Score: 115
Period size: 21 Copynumber: 4.7 Consensus size: 20
7363242 ATGCACCTGT
*
7363252 CATCGTTCAAGAGGCGCCTC
1 CATCGTTCAAGAGGCCCCTC
7363272 CTATCGTTCAAGAGGCCCCTAC
1 C-ATCGTTCAAGAGGCCCCT-C
7363294 CATCGTTCAAGAGGCCCCTCC
1 CATCGTTCAAGAGGCCCCT-C
* * * *
7363315 CACCGTTCAAGAGGACCATGT
1 CATCGTTCAAGAGGCCCCT-C
7363336 CATCGTTCAAGAGG
1 CATCGTTCAAGAGG
7363350 TCTATCCCAC
Statistics
Matches: 68, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
20 1 0.01
21 65 0.96
22 2 0.03
ACGTcount: A:0.23, C:0.34, G:0.22, T:0.20
Consensus pattern (20 bp):
CATCGTTCAAGAGGCCCCTC
Found at i:7363299 original size:42 final size:42
Alignment explanation
Indices: 7363252--7363368 Score: 144
Period size: 42 Copynumber: 2.8 Consensus size: 42
7363242 ATGCACCTGT
* * * * *
7363252 CATCGTTCAAGAGGCGCCTCCTATCGTTCAAGAGGCCCCTAC
1 CATCGTTCAAGAGGCCCCTCCCACCGTTCAAGAGGACCATAC
**
7363294 CATCGTTCAAGAGGCCCCTCCCACCGTTCAAGAGGACCATGT
1 CATCGTTCAAGAGGCCCCTCCCACCGTTCAAGAGGACCATAC
* **
7363336 CATCGTTCAAGAGGTCTATCCCACCGTTCAAGA
1 CATCGTTCAAGAGGCCCCTCCCACCGTTCAAGA
7363369 TCTCGATTCA
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 65 1.00
ACGTcount: A:0.24, C:0.34, G:0.21, T:0.21
Consensus pattern (42 bp):
CATCGTTCAAGAGGCCCCTCCCACCGTTCAAGAGGACCATAC
Found at i:7363363 original size:21 final size:21
Alignment explanation
Indices: 7363276--7363368 Score: 87
Period size: 21 Copynumber: 4.4 Consensus size: 21
7363266 CGCCTCCTAT
* * * *
7363276 CGTTCAAGAGGCCCCTACCAT
1 CGTTCAAGAGGACCATCCCAC
* *
7363297 CGTTCAAGAGGCCCCTCCCAC
1 CGTTCAAGAGGACCATCCCAC
** *
7363318 CGTTCAAGAGGACCATGTCAT
1 CGTTCAAGAGGACCATCCCAC
* *
7363339 CGTTCAAGAGGTCTATCCCAC
1 CGTTCAAGAGGACCATCCCAC
7363360 CGTTCAAGA
1 CGTTCAAGA
7363369 TCTCGATTCA
Statistics
Matches: 60, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 60 1.00
ACGTcount: A:0.25, C:0.34, G:0.20, T:0.20
Consensus pattern (21 bp):
CGTTCAAGAGGACCATCCCAC
Found at i:7364396 original size:20 final size:20
Alignment explanation
Indices: 7364372--7364451 Score: 108
Period size: 20 Copynumber: 4.0 Consensus size: 20
7364362 GATAATCGAG
* *
7364372 TTGCGAATTTGACTTTTGCG
1 TTGCGAATTTGACTTTCGCA
* *
7364392 TTGCGAATTTGACTATCGTA
1 TTGCGAATTTGACTTTCGCA
*
7364412 TTGCGAATTTAACTTTCGCA
1 TTGCGAATTTGACTTTCGCA
7364432 TTGCGAATTTGAC-TTCGCA
1 TTGCGAATTTGACTTTCGCA
7364451 T
1 T
7364452 CAATCGCAAC
Statistics
Matches: 52, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
19 7 0.13
20 45 0.87
ACGTcount: A:0.21, C:0.17, G:0.20, T:0.41
Consensus pattern (20 bp):
TTGCGAATTTGACTTTCGCA
Found at i:7365528 original size:24 final size:24
Alignment explanation
Indices: 7365494--7365547 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
7365484 CTAAAACATC
*
7365494 ATCAAAATCCGAGTATTGACCAAT
1 ATCAAAATCCGAGTATTGACCAAG
* *
7365518 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
7365542 ATCAAA
1 ATCAAA
7365548 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:7366561 original size:19 final size:20
Alignment explanation
Indices: 7366485--7366560 Score: 102
Period size: 19 Copynumber: 3.9 Consensus size: 20
7366475 ACTAAAACCT
* *
7366485 GTTGCGAAATT-AAATTCGT
1 GTTGCGAATTTGAAATTCGA
* *
7366504 GTTGCGAATTCGAAAATCGA
1 GTTGCGAATTTGAAATTCGA
7366524 GTTGCGAATTTGAAATTC-A
1 GTTGCGAATTTGAAATTCGA
7366543 GTTGCGAATTTGAAATTC
1 GTTGCGAATTTGAAATTC
7366561 ATTTTTGCGA
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
19 28 0.56
20 22 0.44
ACGTcount: A:0.32, C:0.12, G:0.22, T:0.34
Consensus pattern (20 bp):
GTTGCGAATTTGAAATTCGA
Found at i:7366570 original size:21 final size:19
Alignment explanation
Indices: 7366485--7366575 Score: 94
Period size: 19 Copynumber: 4.6 Consensus size: 19
7366475 ACTAAAACCT
* *
7366485 GTTGCGAAATT-AAATTCGT
1 GTTGCGAATTTGAAATTC-A
* *
7366504 GTTGCGAATTCGAAAATCGA
1 GTTGCGAATTTGAAATTC-A
7366524 GTTGCGAATTTGAAATTCA
1 GTTGCGAATTTGAAATTCA
7366543 GTTGCGAATTTGAAATTCA
1 GTTGCGAATTTGAAATTCA
*
7366562 TTTTTGCGAATTTG
1 --GTTGCGAATTTG
7366576 GCAAACGCGT
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
19 29 0.47
20 22 0.35
21 11 0.18
ACGTcount: A:0.30, C:0.11, G:0.22, T:0.37
Consensus pattern (19 bp):
GTTGCGAATTTGAAATTCA
Found at i:7383054 original size:15 final size:15
Alignment explanation
Indices: 7383021--7383057 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
7383011 ATATTTAGCT
**
7383021 GGGCGGGCGGATGTG
1 GGGCGGGCGGATGCA
7383036 GGGCGGGCGGATGCA
1 GGGCGGGCGGATGCA
7383051 GGGCGGG
1 GGGCGGG
7383058 TAATATCTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.08, C:0.16, G:0.68, T:0.08
Consensus pattern (15 bp):
GGGCGGGCGGATGCA
Found at i:7383927 original size:59 final size:60
Alignment explanation
Indices: 7383847--7383971 Score: 171
Period size: 59 Copynumber: 2.1 Consensus size: 60
7383837 GTTTGGGGCC
* * *
7383847 AATTTAGAAAGAGTGTCATAGTTTAGGGATGAAATTAAAATGTATAAAAGTTTAAAG-CT
1 AATTTAGAAAGAGAGTCATAGTTTAGGGATGAAATTAAAATATATAAAAATTTAAAGACT
* * * * *
7383906 AATTTAGAATGAGAGTCATAGTTTGGGGATGAAATTGAAATATTTAAAAATTTAATGACT
1 AATTTAGAAAGAGAGTCATAGTTTAGGGATGAAATTAAAATATATAAAAATTTAAAGACT
7383966 AATTTA
1 AATTTA
7383972 AAATAAAGAT
Statistics
Matches: 57, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
59 49 0.86
60 8 0.14
ACGTcount: A:0.43, C:0.03, G:0.19, T:0.34
Consensus pattern (60 bp):
AATTTAGAAAGAGAGTCATAGTTTAGGGATGAAATTAAAATATATAAAAATTTAAAGACT
Found at i:7392251 original size:20 final size:20
Alignment explanation
Indices: 7392226--7392263 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
7392216 ATCCTATTTC
7392226 CTGATAATCTTACATTCCCA
1 CTGATAATCTTACATTCCCA
7392246 CTGATAATCTTACATTCC
1 CTGATAATCTTACATTCC
7392264 GTGAATCAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.29, G:0.05, T:0.37
Consensus pattern (20 bp):
CTGATAATCTTACATTCCCA
Found at i:7392439 original size:13 final size:13
Alignment explanation
Indices: 7392421--7392447 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
7392411 CTTGTTTCAC
7392421 AGAATTTAATTTT
1 AGAATTTAATTTT
7392434 AGAATTTAATTTT
1 AGAATTTAATTTT
7392447 A
1 A
7392448 AAGTTAAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (13 bp):
AGAATTTAATTTT
Found at i:7396200 original size:15 final size:16
Alignment explanation
Indices: 7396180--7396210 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
7396170 TCCTCTCCCC
7396180 CCTCCACTTCC-TTGG
1 CCTCCACTTCCGTTGG
7396195 CCTCCACTTCCGTTGG
1 CCTCCACTTCCGTTGG
7396211 TGTTTTCACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.06, C:0.45, G:0.16, T:0.32
Consensus pattern (16 bp):
CCTCCACTTCCGTTGG
Found at i:7410481 original size:17 final size:17
Alignment explanation
Indices: 7410459--7410497 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
7410449 ATTTTGTTTG
7410459 TATTTTATTTAACTA-TT
1 TATTTTATTTAA-TATTT
*
7410476 TATTTTTTTTAATATTT
1 TATTTTATTTAATATTT
7410493 TATTT
1 TATTT
7410498 AATTATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 2 0.10
17 18 0.90
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.72
Consensus pattern (17 bp):
TATTTTATTTAATATTT
Found at i:7410491 original size:12 final size:13
Alignment explanation
Indices: 7410475--7410510 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
7410465 ATTTAACTAT
7410475 TTATTTTTTTTAA
1 TTATTTTTTTTAA
*
7410488 -TATTTTATTTAA
1 TTATTTTTTTTAA
7410500 TTATTTTTTTT
1 TTATTTTTTTT
7410511 GTAATTATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (13 bp):
TTATTTTTTTTAA
Found at i:7410515 original size:15 final size:14
Alignment explanation
Indices: 7410478--7410518 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 14
7410468 TAACTATTTA
7410478 TTTTTTTTAA-TA-
1 TTTTTTTTAATTAT
*
7410490 TTTTATTTAATTAT
1 TTTTTTTTAATTAT
7410504 TTTTTTTGTAATTAT
1 TTTTTTT-TAATTAT
7410519 AAAATAGAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 9 0.38
13 2 0.08
14 6 0.25
15 7 0.29
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (14 bp):
TTTTTTTTAATTAT
Found at i:7413801 original size:19 final size:20
Alignment explanation
Indices: 7413773--7413819 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 20
7413763 TATGTTTTCA
*
7413773 ATGAACAGTA-CTATATTGT
1 ATGAACAGTATATATATTGT
*
7413792 ATGAATAGTATTATATATTGT
1 ATGAACAGTA-TATATATTGT
7413813 ATGAACA
1 ATGAACA
7413820 ATATCGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 9 0.39
21 14 0.61
ACGTcount: A:0.40, C:0.06, G:0.15, T:0.38
Consensus pattern (20 bp):
ATGAACAGTATATATATTGT
Found at i:7413838 original size:22 final size:23
Alignment explanation
Indices: 7413813--7413868 Score: 69
Period size: 22 Copynumber: 2.4 Consensus size: 23
7413803 TATATATTGT
*
7413813 ATGAACAATATCGTAAACAGTA-
1 ATGAACAATATCGTAAACAATAC
* *
7413835 ATGAACAGTATCGTGAACAATACC
1 ATGAACAATATCGTAAACAATA-C
7413859 ATGAACAATA
1 ATGAACAATA
7413869 CCGATTCTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 19 0.68
24 9 0.32
ACGTcount: A:0.48, C:0.16, G:0.14, T:0.21
Consensus pattern (23 bp):
ATGAACAATATCGTAAACAATAC
Found at i:7414836 original size:22 final size:22
Alignment explanation
Indices: 7414811--7414868 Score: 98
Period size: 22 Copynumber: 2.6 Consensus size: 22
7414801 GGCATATGAA
*
7414811 ATTTGTCTCGAAGGACCTATGT
1 ATTTGTCCCGAAGGACCTATGT
*
7414833 ATTTATCCCGAAGGACCTATGT
1 ATTTGTCCCGAAGGACCTATGT
7414855 ATTTGTCCCGAAGG
1 ATTTGTCCCGAAGG
7414869 GCCGCGTAGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.33
Consensus pattern (22 bp):
ATTTGTCCCGAAGGACCTATGT
Found at i:7418936 original size:24 final size:23
Alignment explanation
Indices: 7418907--7418968 Score: 76
Period size: 22 Copynumber: 2.8 Consensus size: 23
7418897 GAATTAAAAT
*
7418907 ATAACACAATAAAT-TTTTTACAC
1 ATAACAC-ATAAATAATTTTACAC
7418930 ATAA-ACATAAATAATTTTACAC
1 ATAACACATAAATAATTTTACAC
*
7418952 ATAA-ACGTAAATAATTT
1 ATAACACATAAATAATTT
7418969 AAATAATATA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
21 6 0.17
22 26 0.72
23 4 0.11
ACGTcount: A:0.52, C:0.13, G:0.02, T:0.34
Consensus pattern (23 bp):
ATAACACATAAATAATTTTACAC
Found at i:7418950 original size:22 final size:22
Alignment explanation
Indices: 7418922--7418968 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
7418912 ACAATAAATT
7418922 TTTTACACATAAACATAAATAA
1 TTTTACACATAAACATAAATAA
*
7418944 TTTTACACATAAACGTAAATAA
1 TTTTACACATAAACATAAATAA
7418966 TTT
1 TTT
7418969 AAATAATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.49, C:0.13, G:0.02, T:0.36
Consensus pattern (22 bp):
TTTTACACATAAACATAAATAA
Found at i:7421243 original size:19 final size:19
Alignment explanation
Indices: 7421219--7421257 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
7421209 ATGTGAGATT
*
7421219 CTCATGGGAAATGAATTCA
1 CTCATGGGAAAGGAATTCA
7421238 CTCATGGGAAAGGAATTCA
1 CTCATGGGAAAGGAATTCA
7421257 C
1 C
7421258 ATTCTCCCGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.36, C:0.18, G:0.23, T:0.23
Consensus pattern (19 bp):
CTCATGGGAAAGGAATTCA
Found at i:7421839 original size:20 final size:20
Alignment explanation
Indices: 7421801--7421839 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
7421791 TAATTATATT
**
7421801 CACTGATAATCTTTTATTTC
1 CACTGATAATCTTACATTTC
*
7421821 CACTGGTAATCTTACATTT
1 CACTGATAATCTTACATTT
7421840 TGTGAACCAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.21, G:0.08, T:0.46
Consensus pattern (20 bp):
CACTGATAATCTTACATTTC
Found at i:7422214 original size:38 final size:38
Alignment explanation
Indices: 7422159--7422236 Score: 113
Period size: 38 Copynumber: 2.1 Consensus size: 38
7422149 CTCGCAAGGG
7422159 CACATGATCCCTAAGCAAGA-AAACACAAACCTATACCT
1 CACATGATCCCTAAGCAA-ATAAACACAAACCTATACCT
* * *
7422197 CACATGATCCTTGAGCAAATAAAGACAAACCTATACCT
1 CACATGATCCCTAAGCAAATAAACACAAACCTATACCT
7422235 CA
1 CA
7422237 ATTCCGAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 1 0.03
38 35 0.97
ACGTcount: A:0.44, C:0.29, G:0.09, T:0.18
Consensus pattern (38 bp):
CACATGATCCCTAAGCAAATAAACACAAACCTATACCT
Found at i:7424789 original size:35 final size:34
Alignment explanation
Indices: 7424702--7424819 Score: 155
Period size: 35 Copynumber: 3.3 Consensus size: 34
7424692 TTATCCCATT
* *
7424702 ACAATTTTTCAACAAACATCTACCAAACTTTGAAAA
1 ACAA-TTTTCAAGAAACATTTACCAAACTTTG-AAA
*
7424738 ATCATTTTTCAAAGAAACATTTACCAAACTTTGAAA
1 A-CAATTTTC-AAGAAACATTTACCAAACTTTGAAA
7424774 ACAATTTTCAGAGAAACATTTACCAAACTTTGAAA
1 ACAATTTTCA-AGAAACATTTACCAAACTTTGAAA
*
7424809 ACTATTTTCAA
1 ACAATTTTCAA
7424820 AGTTGGTTGC
Statistics
Matches: 74, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
34 2 0.03
35 40 0.54
36 10 0.14
37 22 0.30
ACGTcount: A:0.45, C:0.19, G:0.05, T:0.31
Consensus pattern (34 bp):
ACAATTTTCAAGAAACATTTACCAAACTTTGAAA
Found at i:7429318 original size:35 final size:35
Alignment explanation
Indices: 7429236--7429348 Score: 165
Period size: 35 Copynumber: 3.2 Consensus size: 35
7429226 TCATTACAAT
* *
7429236 TTTTC-AACAAACATCTACCAAACTTTGAAAAACCA
1 TTTTCAAAGAAACATTTACCAAACTTT-AAAAACCA
7429271 TTTTTCAAAGAAACATTTACCAAACTTTAAAAACCA
1 -TTTTCAAAGAAACATTTACCAAACTTTAAAAACCA
* *
7429307 TTTTCAAAGAAACATTTACCAAACTTTGAAAACTA
1 TTTTCAAAGAAACATTTACCAAACTTTAAAAACCA
7429342 TTTTCAA
1 TTTTCAA
7429349 TGTTGGTTGC
Statistics
Matches: 72, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
35 40 0.56
36 13 0.18
37 19 0.26
ACGTcount: A:0.45, C:0.20, G:0.04, T:0.31
Consensus pattern (35 bp):
TTTTCAAAGAAACATTTACCAAACTTTAAAAACCA
Found at i:7431095 original size:36 final size:36
Alignment explanation
Indices: 7431048--7431137 Score: 155
Period size: 36 Copynumber: 2.5 Consensus size: 36
7431038 AATTTTGTAA
7431048 AAAAAAATTATATAAATTTATGAATTTAAAATTTGT
1 AAAAAAATTATATAAATTTATGAATTTAAAATTTGT
*
7431084 AAAAAAATTATATAAATTTATGAATTTAAAATTTTT
1 AAAAAAATTATATAAATTTATGAATTTAAAATTTGT
7431120 AAAGAAAA-TATATAAATT
1 AAA-AAAATTATATAAATT
7431138 AATTATAGTA
Statistics
Matches: 52, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
36 48 0.92
37 4 0.08
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (36 bp):
AAAAAAATTATATAAATTTATGAATTTAAAATTTGT
Found at i:7438649 original size:20 final size:20
Alignment explanation
Indices: 7438624--7438662 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
7438614 GTTTGGTTTA
7438624 GGGAATATAAGATTACCAGT
1 GGGAATATAAGATTACCAGT
7438644 GGGAATATAAGATTACCAG
1 GGGAATATAAGATTACCAG
7438663 GGAATATGAT
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:0.41, C:0.10, G:0.26, T:0.23
Consensus pattern (20 bp):
GGGAATATAAGATTACCAGT
Found at i:7438667 original size:18 final size:18
Alignment explanation
Indices: 7438623--7438669 Score: 76
Period size: 20 Copynumber: 2.5 Consensus size: 18
7438613 CGTTTGGTTT
7438623 AGGGAATATAAGATTACC
1 AGGGAATATAAGATTACC
7438641 AGTGGGAATATAAGATTACC
1 A--GGGAATATAAGATTACC
7438661 AGGGAATAT
1 AGGGAATAT
7438670 GATTACTTGG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
18 9 0.33
20 18 0.67
ACGTcount: A:0.43, C:0.09, G:0.26, T:0.23
Consensus pattern (18 bp):
AGGGAATATAAGATTACC
Found at i:7442249 original size:16 final size:16
Alignment explanation
Indices: 7442230--7442261 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
7442220 AGATTTTCAA
7442230 TAAAATATAAAAAATT
1 TAAAATATAAAAAATT
*
7442246 TAAAATATATAAAATT
1 TAAAATATAAAAAATT
7442262 ATGAAATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
TAAAATATAAAAAATT
Found at i:7443683 original size:23 final size:24
Alignment explanation
Indices: 7443656--7443704 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
7443646 TAATAAATAG
7443656 TATTATT-TATTATAAAAATT-TAA
1 TATTATTAT-TTATAAAAATTGTAA
*
7443679 TATTATTATTTATAAATATTGTAA
1 TATTATTATTTATAAAAATTGTAA
7443703 TA
1 TA
7443705 AAATATTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 17 0.74
24 6 0.26
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (24 bp):
TATTATTATTTATAAAAATTGTAA
Found at i:7443732 original size:35 final size:35
Alignment explanation
Indices: 7443667--7443735 Score: 95
Period size: 35 Copynumber: 2.0 Consensus size: 35
7443657 ATTATTTATT
*
7443667 ATAAAAATTTAATATTATTATTTATAAATATTGTA
1 ATAAAAATTTAATATTATTATATATAAATATTGTA
* *
7443702 ATAAAATATTTAATATTATT-TATGTCAATATTGT
1 ATAAAA-ATTTAATATTATTATATATAAATATTGT
7443736 TATTATTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
35 17 0.57
36 13 0.43
ACGTcount: A:0.45, C:0.01, G:0.04, T:0.49
Consensus pattern (35 bp):
ATAAAAATTTAATATTATTATATATAAATATTGTA
Found at i:7443896 original size:16 final size:16
Alignment explanation
Indices: 7443863--7443896 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
7443853 AATAATATAT
* *
7443863 ATTATTTATTATATTA
1 ATTATTTATTAAAATA
7443879 ATTATTTATTAAAATA
1 ATTATTTATTAAAATA
7443895 AT
1 AT
7443897 ATTATTATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
ATTATTTATTAAAATA
Found at i:7444007 original size:19 final size:19
Alignment explanation
Indices: 7443985--7444037 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
7443975 TAATATTTTA
*
7443985 ATTAAAATGATATTAAAAT
1 ATTAAAATAATATTAAAAT
* *
7444004 ATTATATTAATATT-AAAT
1 ATTAAAATAATATTAAAAT
7444022 ATATAAAATAATATTA
1 AT-TAAAATAATATTA
7444038 CTTTGATTAT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
18 6 0.22
19 21 0.78
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.42
Consensus pattern (19 bp):
ATTAAAATAATATTAAAAT
Found at i:7462686 original size:28 final size:30
Alignment explanation
Indices: 7462655--7462710 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
7462645 TTTATGTTAA
*
7462655 GGAAAT-AACTTATAAAATTTT-AGGAGAG
1 GGAAATGAACATATAAAATTTTAAGGAGAG
*
7462683 GGAAGTGAACATATAAAATTTTAAGGAG
1 GGAAATGAACATATAAAATTTTAAGGAG
7462711 TCAGAATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 5 0.21
29 14 0.58
30 5 0.21
ACGTcount: A:0.46, C:0.04, G:0.23, T:0.27
Consensus pattern (30 bp):
GGAAATGAACATATAAAATTTTAAGGAGAG
Found at i:7463050 original size:31 final size:31
Alignment explanation
Indices: 7463012--7463073 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
7463002 AGATTGTTTT
7463012 ACTAATTACGGGTACGAACCAACTTACCTCA
1 ACTAATTACGGGTACGAACCAACTTACCTCA
* *
7463043 ACTAATTACGGGTACGAATCAACTTATCTCA
1 ACTAATTACGGGTACGAACCAACTTACCTCA
7463074 GTAGTTAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.35, C:0.26, G:0.13, T:0.26
Consensus pattern (31 bp):
ACTAATTACGGGTACGAACCAACTTACCTCA
Found at i:7465769 original size:40 final size:41
Alignment explanation
Indices: 7465724--7465806 Score: 141
Period size: 42 Copynumber: 2.0 Consensus size: 41
7465714 TAGCTTTTGA
*
7465724 TTGGTTGAACTAAGAATC-TGTCTGACTTAGACAAGTCAGT
1 TTGGTTGAACCAAGAATCATGTCTGACTTAGACAAGTCAGT
7465764 TTGGTTGAACCAAGAATCGATGTCTGACTTAGACAAGTCAGT
1 TTGGTTGAACCAAGAATC-ATGTCTGACTTAGACAAGTCAGT
7465806 T
1 T
7465807 AGATTGGTTG
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
40 17 0.43
42 23 0.57
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (41 bp):
TTGGTTGAACCAAGAATCATGTCTGACTTAGACAAGTCAGT
Found at i:7465831 original size:46 final size:44
Alignment explanation
Indices: 7465721--7465834 Score: 164
Period size: 46 Copynumber: 2.6 Consensus size: 44
7465711 TTATAGCTTT
7465721 TGATTGGTTGAACTAAGAATC--TGTCTGACTTAGACAAGTCAG
1 TGATTGGTTGAACTAAGAATCGATGTCTGACTTAGACAAGTCAG
*
7465763 T--TTGGTTGAACCAAGAATCGATGTCTGACTTAGACAAGTCAG
1 TGATTGGTTGAACTAAGAATCGATGTCTGACTTAGACAAGTCAG
*
7465805 TTAGATTGGTTGAACTAAAAATCGATGTCT
1 -T-GATTGGTTGAACTAAGAATCGATGTCT
7465835 TACAGTTCAA
Statistics
Matches: 63, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
40 17 0.27
42 22 0.35
43 1 0.02
46 23 0.37
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.32
Consensus pattern (44 bp):
TGATTGGTTGAACTAAGAATCGATGTCTGACTTAGACAAGTCAG
Found at i:7470352 original size:16 final size:16
Alignment explanation
Indices: 7470331--7470361 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
7470321 ATAAATAAAT
7470331 GAACATAAACGAACAC
1 GAACATAAACGAACAC
7470347 GAACATAAACGAACA
1 GAACATAAACGAACA
7470362 AAATATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.58, C:0.23, G:0.13, T:0.06
Consensus pattern (16 bp):
GAACATAAACGAACAC
Found at i:7470444 original size:10 final size:10
Alignment explanation
Indices: 7470429--7470483 Score: 51
Period size: 10 Copynumber: 5.4 Consensus size: 10
7470419 TTTAATAAAT
7470429 AACGAACATA
1 AACGAACATA
**
7470439 AACGAACACG
1 AACGAACATA
7470449 AAC-ATA-ATGA
1 AACGA-ACAT-A
7470459 ACACGAACATA
1 A-ACGAACATA
7470470 AACGAACATA
1 AACGAACATA
7470480 AACG
1 AACG
7470484 TTGGAGACCC
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
9 2 0.06
10 26 0.72
11 5 0.14
12 3 0.08
ACGTcount: A:0.56, C:0.22, G:0.13, T:0.09
Consensus pattern (10 bp):
AACGAACATA
Found at i:7470451 original size:16 final size:16
Alignment explanation
Indices: 7470430--7470477 Score: 80
Period size: 16 Copynumber: 3.1 Consensus size: 16
7470420 TTAATAAATA
7470430 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
7470446 ACGAACAT-AATGAAC
1 ACGAACATAAACGAAC
7470461 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
7470477 A
1 A
7470478 TAAACGTTGG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
15 14 0.48
16 15 0.52
ACGTcount: A:0.56, C:0.23, G:0.12, T:0.08
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:7470700 original size:12 final size:12
Alignment explanation
Indices: 7470683--7470747 Score: 98
Period size: 12 Copynumber: 5.6 Consensus size: 12
7470673 TCTTGATTCA
7470683 AGCTCGATTCCG
1 AGCTCGATTCCG
*
7470695 AGCTCGATT-CA
1 AGCTCGATTCCG
7470706 AGCTCGATTCCG
1 AGCTCGATTCCG
*
7470718 AGCTCGATT-CA
1 AGCTCGATTCCG
7470729 AGCTCGATTCCG
1 AGCTCGATTCCG
7470741 AGCTCGA
1 AGCTCGA
7470748 CATTGCCCCA
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
11 20 0.43
12 27 0.57
ACGTcount: A:0.22, C:0.31, G:0.23, T:0.25
Consensus pattern (12 bp):
AGCTCGATTCCG
Found at i:7470703 original size:23 final size:23
Alignment explanation
Indices: 7470677--7470747 Score: 142
Period size: 23 Copynumber: 3.1 Consensus size: 23
7470667 TTAAGATCTT
7470677 GATTCAAGCTCGATTCCGAGCTC
1 GATTCAAGCTCGATTCCGAGCTC
7470700 GATTCAAGCTCGATTCCGAGCTC
1 GATTCAAGCTCGATTCCGAGCTC
7470723 GATTCAAGCTCGATTCCGAGCTC
1 GATTCAAGCTCGATTCCGAGCTC
7470746 GA
1 GA
7470748 CATTGCCCCA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 48 1.00
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.25
Consensus pattern (23 bp):
GATTCAAGCTCGATTCCGAGCTC
Found at i:7470709 original size:11 final size:11
Alignment explanation
Indices: 7470677--7470738 Score: 88
Period size: 11 Copynumber: 5.5 Consensus size: 11
7470667 TTAAGATCTT
7470677 GATTCAAGCTC
1 GATTCAAGCTC
*
7470688 GATTCCGAGCTC
1 GATT-CAAGCTC
7470700 GATTCAAGCTC
1 GATTCAAGCTC
*
7470711 GATTCCGAGCTC
1 GATT-CAAGCTC
7470723 GATTCAAGCTC
1 GATTCAAGCTC
7470734 GATTC
1 GATTC
7470739 CGAGCTCGAC
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
11 25 0.56
12 20 0.44
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (11 bp):
GATTCAAGCTC
Found at i:7471637 original size:14 final size:14
Alignment explanation
Indices: 7471620--7471672 Score: 78
Period size: 14 Copynumber: 4.1 Consensus size: 14
7471610 GAACATAAAT
7471620 GAACATAACCGAAC
1 GAACATAACCGAAC
7471634 GAACAT-A---AAC
1 GAACATAACCGAAC
7471644 GAACATAACCGAAC
1 GAACATAACCGAAC
7471658 GAACATAACCGAAC
1 GAACATAACCGAAC
7471672 G
1 G
7471673 TTCACGAACG
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
10 9 0.26
11 1 0.03
13 1 0.03
14 24 0.69
ACGTcount: A:0.51, C:0.26, G:0.15, T:0.08
Consensus pattern (14 bp):
GAACATAACCGAAC
Found at i:7471682 original size:24 final size:24
Alignment explanation
Indices: 7471610--7471671 Score: 106
Period size: 24 Copynumber: 2.6 Consensus size: 24
7471600 ATAAATGAAT
*
7471610 GAACATAAATGAACATAACCGAAC
1 GAACATAAACGAACATAACCGAAC
7471634 GAACATAAACGAACATAACCGAAC
1 GAACATAAACGAACATAACCGAAC
*
7471658 GAACATAACCGAAC
1 GAACATAAACGAAC
7471672 GTTCACGAAC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.53, C:0.24, G:0.13, T:0.10
Consensus pattern (24 bp):
GAACATAAACGAACATAACCGAAC
Found at i:7473814 original size:17 final size:17
Alignment explanation
Indices: 7473779--7473814 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
7473769 TACTCTCATC
*
7473779 AATAATTTTTTTCTGAA
1 AATAATTTTTTTCTAAA
*
7473796 AATATTTTTTTTCTAAA
1 AATAATTTTTTTCTAAA
7473813 AA
1 AA
7473815 ATAAAATTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.53
Consensus pattern (17 bp):
AATAATTTTTTTCTAAA
Found at i:7482452 original size:31 final size:31
Alignment explanation
Indices: 7482417--7482477 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
7482407 TCACGAACTA
* *
7482417 AAAATTATCAAGCTCGACTCGAACTCGAAAC
1 AAAATTATAAAACTCGACTCGAACTCGAAAC
*
7482448 AAAATTTTAAAACTCGACTCGAACTCGAAA
1 AAAATTATAAAACTCGACTCGAACTCGAAA
7482478 AAGCTTGAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.44, C:0.23, G:0.11, T:0.21
Consensus pattern (31 bp):
AAAATTATAAAACTCGACTCGAACTCGAAAC
Found at i:7482533 original size:16 final size:16
Alignment explanation
Indices: 7482512--7482542 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
7482502 AAAGCTCAAT
7482512 ACTTAAACTCGAAAAG
1 ACTTAAACTCGAAAAG
7482528 ACTTAAACTCGAAAA
1 ACTTAAACTCGAAAA
7482543 AATTTTGAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.19, G:0.10, T:0.19
Consensus pattern (16 bp):
ACTTAAACTCGAAAAG
Found at i:7484241 original size:14 final size:14
Alignment explanation
Indices: 7484224--7484263 Score: 71
Period size: 14 Copynumber: 2.9 Consensus size: 14
7484214 CAGGTTAAGG
7484224 GTTTAGGGTTTATA
1 GTTTAGGGTTTATA
7484238 GTTTAGGGTTTATA
1 GTTTAGGGTTTATA
*
7484252 GTTTAGAGTTTA
1 GTTTAGGGTTTA
7484264 GGATATAGGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.23, C:0.00, G:0.28, T:0.50
Consensus pattern (14 bp):
GTTTAGGGTTTATA
Found at i:7484247 original size:21 final size:21
Alignment explanation
Indices: 7484221--7484275 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
7484211 AATCAGGTTA
*
7484221 AGGGTTTAGGGTTTATAGTTT
1 AGGGTTTAGGGTTTAGAGTTT
**
7484242 AGGGTTTATAGTTTAGAGTTT
1 AGGGTTTAGGGTTTAGAGTTT
* *
7484263 AGGATATAGGGTT
1 AGGGTTTAGGGTT
7484276 CATTGCAAAG
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.24, C:0.00, G:0.33, T:0.44
Consensus pattern (21 bp):
AGGGTTTAGGGTTTAGAGTTT
Found at i:7484893 original size:55 final size:55
Alignment explanation
Indices: 7484828--7484933 Score: 140
Period size: 55 Copynumber: 1.9 Consensus size: 55
7484818 GGTCACCGAA
* * * **
7484828 GATGATGTGGCATTTCCATGTCACTATTTTATGCTGATGTGGAATTTACACAAAT
1 GATGATGTGGCATGTCCACGTCACTAATTTATGCTGACATGGAATTTACACAAAT
* * *
7484883 GATGATGTGGCATGTCCACGTCATTAATTTGTGTTGACATGGAATTTACAC
1 GATGATGTGGCATGTCCACGTCACTAATTTATGCTGACATGGAATTTACAC
7484934 GTCAGATTTT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
55 43 1.00
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.37
Consensus pattern (55 bp):
GATGATGTGGCATGTCCACGTCACTAATTTATGCTGACATGGAATTTACACAAAT
Found at i:7485758 original size:21 final size:21
Alignment explanation
Indices: 7485732--7485776 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
7485722 GATTTCTGGG
* *
7485732 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
7485753 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
7485774 CAA
1 CAA
7485777 ACGAACAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:7487172 original size:14 final size:14
Alignment explanation
Indices: 7487153--7487180 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
7487143 GAAAAGAAGC
7487153 TATGTGATACGTGA
1 TATGTGATACGTGA
7487167 TATGTGATACGTGA
1 TATGTGATACGTGA
7487181 ATTACAAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.07, G:0.29, T:0.36
Consensus pattern (14 bp):
TATGTGATACGTGA
Found at i:7487460 original size:149 final size:149
Alignment explanation
Indices: 7487281--7487595 Score: 596
Period size: 149 Copynumber: 2.1 Consensus size: 149
7487271 GAGTCGAGGG
7487281 TCTACGCGGTCCTTCGGGACATATATATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTCCTTCGGGACATATATATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
7487346 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
66 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
7487411 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
*
7487430 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTCCTTCGGGACATATATATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
*
7487495 ACTTGATCCTTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
66 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
7487560 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
7487579 TCTACGCGG-CACTTCGG
1 TCTACGCGGTC-CTTCGG
7487596 TGCAATTATA
Statistics
Matches: 163, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
148 1 0.01
149 162 0.99
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (149 bp):
TCTACGCGGTCCTTCGGGACATATATATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
TATGGCACTACGGTGCAAT
Found at i:7487596 original size:23 final size:23
Alignment explanation
Indices: 7487563--7487607 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
7487553 ATCATTATAT
*
7487563 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
*
7487586 GGCACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTATACG
7487608 AGCTGTGGTG
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:0.22, C:0.27, G:0.27, T:0.24
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:7490756 original size:2 final size:2
Alignment explanation
Indices: 7490749--7490782 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
7490739 TTTAAAAGTA
* *
7490749 AT AT AT AT AT AT AT AT AT AT AT AA AT AT AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7490783 TTGTTTAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:7492611 original size:4 final size:4
Alignment explanation
Indices: 7492604--7492633 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
7492594 GGATGGATAG
7492604 ATAA ATAA ATAA ATAA ATAA ATAA ATAA AT
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA AT
7492634 CCCTCCCTTT
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:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (4 bp):
ATAA
Found at i:7509034 original size:21 final size:20
Alignment explanation
Indices: 7508999--7509038 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
7508989 TTTATAAAAT
*
7508999 TATTATATTATTATATTTTA
1 TATTATATTAATATATTTTA
7509019 TATTATGATTAATATATTTT
1 TATTAT-ATTAATATATTTT
7509039 TATAAATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (20 bp):
TATTATATTAATATATTTTA
Found at i:7512344 original size:20 final size:20
Alignment explanation
Indices: 7512319--7512361 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
7512309 ATCAACACAA
7512319 AGTTAGAGAGAGAATGATTG
1 AGTTAGAGAGAGAATGATTG
7512339 AGTTAGAGAGAGAATGATTG
1 AGTTAGAGAGAGAATGATTG
7512359 AGT
1 AGT
7512362 GATAAAAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.40, C:0.00, G:0.35, T:0.26
Consensus pattern (20 bp):
AGTTAGAGAGAGAATGATTG
Found at i:7516154 original size:3 final size:3
Alignment explanation
Indices: 7516140--7516205 Score: 71
Period size: 3 Copynumber: 22.0 Consensus size: 3
7516130 TTTCATTAAA
* * *
7516140 ATT ATT -TT ATT ATT ATT ATT ATT ACT ATT AAT ATT AAT ATT ATAT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T
* *
7516185 ATT ATT ATT ACT ATT ACT ATT
1 ATT ATT ATT ATT ATT ATT ATT
7516206 TAAATAAAAT
Statistics
Matches: 51, Mismatches: 10, Indels: 4
0.78 0.15 0.06
Matches are distributed among these distances:
2 2 0.04
3 46 0.90
4 3 0.06
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:7523791 original size:17 final size:17
Alignment explanation
Indices: 7523769--7523823 Score: 76
Period size: 17 Copynumber: 3.2 Consensus size: 17
7523759 CTCATCCAGC
7523769 AAAGAAAGAAGAAGGAA
1 AAAGAAAGAAGAAGGAA
*
7523786 AAAGAAAAAAGAAAGGAA
1 AAAGAAAGAAG-AAGGAA
*
7523804 AAA-AAAGAAAAAGGAA
1 AAAGAAAGAAGAAGGAA
7523820 AAAG
1 AAAG
7523824 GGAAAATGAG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
16 9 0.27
17 15 0.45
18 9 0.27
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (17 bp):
AAAGAAAGAAGAAGGAA
Found at i:7523794 original size:6 final size:6
Alignment explanation
Indices: 7523773--7523873 Score: 71
Period size: 6 Copynumber: 15.3 Consensus size: 6
7523763 TCCAGCAAAG
* *
7523773 AAAGAA GAAGGAA AAAGAAA AAAGAA AGGAAAAA AAAGAA AAAGGAA AAAGGGAA
1 AAAGAA -AAAGAA AAAG-AA AAAGAA A--AAGAA AAAGAA AAA-GAA AAA--GAA
7523828 AATGAGAAA AAAGAA AAAGAA AAAG-A AAAGAA AAATGAA AAA-AA AA
1 AA--AG-AA AAAGAA AAAGAA AAAGAA AAAGAA AAA-GAA AAAGAA AA
7523874 GGAGAAATTG
Statistics
Matches: 80, Mismatches: 4, Indels: 22
0.75 0.04 0.21
Matches are distributed among these distances:
5 9 0.11
6 29 0.36
7 25 0.31
8 12 0.15
9 4 0.05
10 1 0.01
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (6 bp):
AAAGAA
Found at i:7523794 original size:7 final size:7
Alignment explanation
Indices: 7523784--7523870 Score: 67
Period size: 7 Copynumber: 12.7 Consensus size: 7
7523774 AAGAAGAAGG
7523784 AAAAAGA
1 AAAAAGA
7523791 AAAAAGA
1 AAAAAGA
*
7523798 AAGGAA-A
1 AA-AAAGA
7523805 AAAAAGA
1 AAAAAGA
*
7523812 AAAAGGA
1 AAAAAGA
*
7523819 AAAAGGGA
1 AAAA-AGA
*
7523827 AAATGAGA
1 AAA-AAGA
7523835 AAAAAG-
1 AAAAAGA
7523841 AAAAAG-
1 AAAAAGA
7523847 AAAAAG-
1 AAAAAGA
7523853 -AAAAGA
1 AAAAAGA
*
7523859 AAAATGA
1 AAAAAGA
7523866 AAAAA
1 AAAAA
7523871 AAAGGAGAAA
Statistics
Matches: 66, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
5 5 0.08
6 14 0.21
7 34 0.52
8 13 0.20
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (7 bp):
AAAAAGA
Found at i:7523856 original size:17 final size:17
Alignment explanation
Indices: 7523769--7523874 Score: 68
Period size: 17 Copynumber: 6.5 Consensus size: 17
7523759 CTCATCCAGC
*
7523769 AAAG-AAAGAAGAAGGAA
1 AAAGAAAAGAA-AAAGAA
*
7523786 AAAGAAAA-AAGAAAGGA
1 AAAGAAAAGAA-AAAGAA
7523803 AAA-AAAAGAAAAAGGAA
1 AAAGAAAAGAAAAA-GAA
* *
7523820 AAAG---GGAAAATG-A
1 AAAGAAAAGAAAAAGAA
*
7523833 GAA-AAAAGAAAAAGAA
1 AAAGAAAAGAAAAAGAA
7523849 AAAGAAAAGAAAAATGAA
1 AAAGAAAAGAAAAA-GAA
7523867 AAA-AAAAG
1 AAAGAAAAG
7523875 GAGAAATTGA
Statistics
Matches: 70, Mismatches: 9, Indels: 20
0.71 0.09 0.20
Matches are distributed among these distances:
13 3 0.04
14 1 0.01
15 11 0.16
16 10 0.14
17 36 0.51
18 9 0.13
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (17 bp):
AAAGAAAAGAAAAAGAA
Found at i:7526396 original size:75 final size:75
Alignment explanation
Indices: 7526300--7526460 Score: 297
Period size: 75 Copynumber: 2.1 Consensus size: 75
7526290 TTTATTCTCC
7526300 TCATAATCAGAATTCAGGATTTCC-TCGGTATCAAAAAAGCTATCAATATTTGTGAAATCATCCT
1 TCATAATCAGAATTCAGGATTTCCAT-GGTATCAAAAAAGCTATCAATATTTGTGAAATCATCCT
7526364 GAAAGATCGCT
65 GAAAGATCGCT
*
7526375 TCATAATCAGAATTCAGGATTTCCATGGTATCAAAAATGCTATCAATATTTGTGAAATCATCCTG
1 TCATAATCAGAATTCAGGATTTCCATGGTATCAAAAAAGCTATCAATATTTGTGAAATCATCCTG
7526440 AAAGATCGCT
66 AAAGATCGCT
7526450 TCATAATCAGA
1 TCATAATCAGA
7526461 TGAGTAGTTA
Statistics
Matches: 84, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
75 83 0.99
76 1 0.01
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.31
Consensus pattern (75 bp):
TCATAATCAGAATTCAGGATTTCCATGGTATCAAAAAAGCTATCAATATTTGTGAAATCATCCTG
AAAGATCGCT
Found at i:7528492 original size:22 final size:22
Alignment explanation
Indices: 7528463--7528517 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
7528453 ATCTACACTC
7528463 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
*
7528485 TTTAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
7528507 TTCAAAGATGA
1 TTCAAAGATGA
7528518 AAGCTTTATG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.40
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:7529317 original size:76 final size:76
Alignment explanation
Indices: 7529191--7529538 Score: 655
Period size: 76 Copynumber: 4.6 Consensus size: 76
7529181 CTATTTCCCA
7529191 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
7529256 AGCCTTAGGGT
66 AGCCTTAGGGT
7529267 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
7529332 AGCCTTAGGGT
66 AGCCTTAGGGT
7529343 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
7529408 AGCCTTAGGGT
66 AGCCTTAGGGT
7529419 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
7529484 AGCCTTAGGGT
66 AGCCTTAGGGT
* * *
7529495 CATCTGTAAGCCCTTCAGTGCATGATGTTTTC-AAAA-CCTTCGGG
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGG
7529539 TCATCTATAA
Statistics
Matches: 269, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
74 8 0.03
75 4 0.01
76 257 0.96
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.34
Consensus pattern (76 bp):
CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGT
Found at i:7529521 original size:45 final size:45
Alignment explanation
Indices: 7529472--7529575 Score: 145
Period size: 45 Copynumber: 2.3 Consensus size: 45
7529462 GGGAGCTTTT
* * * *
7529472 TGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTAGGGTCATCTATAAGCCATACAGTGCA
* *
7529517 TGATGTTTTCAAAACCTTCGGGTCATCTATAAGTCATACAGTGCA
1 TGATGTTTTCAAAACCTTAGGGTCATCTATAAGCCATACAGTGCA
*
7529562 TGATGTTTCCAAAA
1 TGATGTTTTCAAAA
7529576 AGCCTTCGGG
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 52 1.00
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (45 bp):
TGATGTTTTCAAAACCTTAGGGTCATCTATAAGCCATACAGTGCA
Found at i:7529550 original size:121 final size:121
Alignment explanation
Indices: 7529396--7529647 Score: 441
Period size: 121 Copynumber: 2.1 Consensus size: 121
7529386 GGGAGCTTTT
* * *
7529396 TGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTT
1 TGATGTTTTCAAAACCTTAGGGTCATCTATAAGTCATACAGTGCATGATGTTTCCAAAAAGCCTT
*
7529461 CGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGCCCTTCAGTGCA
66 CGGGAGCTTTTTGATGTTTTCAAAACCTTAGGGTCATCTGTAAGCCCTTCAGTGCA
*
7529517 TGATGTTTTCAAAACCTTCGGGTCATCTATAAGTCATACAGTGCATGATGTTTCCAAAAAGCCTT
1 TGATGTTTTCAAAACCTTAGGGTCATCTATAAGTCATACAGTGCATGATGTTTCCAAAAAGCCTT
*
7529582 CGGGAGCTTTTTGATGTTTTCAAAACCTTAGGGTTATCTGTAAGCCCTTCAGTGCA
66 CGGGAGCTTTTTGATGTTTTCAAAACCTTAGGGTCATCTGTAAGCCCTTCAGTGCA
7529638 TGATGCTTTT
1 TGATG-TTTT
7529648 TTAGGACCTC
Statistics
Matches: 124, Mismatches: 6, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
121 120 0.97
122 4 0.03
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.35
Consensus pattern (121 bp):
TGATGTTTTCAAAACCTTAGGGTCATCTATAAGTCATACAGTGCATGATGTTTCCAAAAAGCCTT
CGGGAGCTTTTTGATGTTTTCAAAACCTTAGGGTCATCTGTAAGCCCTTCAGTGCA
Found at i:7529818 original size:3 final size:3
Alignment explanation
Indices: 7529804--7529857 Score: 65
Period size: 3 Copynumber: 18.0 Consensus size: 3
7529794 TTTCATTAAA
* * *
7529804 ATT ATT -TT ATT ATT ATT ACT ATT AAT ATT AAT ATT ATAT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT
7529849 ATT ATT ATT
1 ATT ATT ATT
7529858 TAAATAAAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
2 2 0.05
3 38 0.88
4 3 0.07
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:7531650 original size:2 final size:2
Alignment explanation
Indices: 7531643--7531674 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
7531633 TATGTTAAGA
7531643 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
7531675 TTTCTTTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7537011 original size:18 final size:18
Alignment explanation
Indices: 7536988--7537111 Score: 185
Period size: 18 Copynumber: 6.9 Consensus size: 18
7536978 GCGTAGAATT
* *
7536988 TGTCCCGTAGGACCACTG
1 TGTCCCGAAGGACCACTA
*
7537006 TGTCCCGAAGGACCACTG
1 TGTCCCGAAGGACCACTA
*
7537024 TGTCCCGAAGGACCATTA
1 TGTCCCGAAGGACCACTA
7537042 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
*
7537060 TGTCCCGAAGGACCATTA
1 TGTCCCGAAGGACCACTA
* *
7537078 TGTTCCGAATGACCACTA
1 TGTCCCGAAGGACCACTA
7537096 TGTCCCGAAGGACCAC
1 TGTCCCGAAGGACCAC
7537112 GTAGACCCTC
Statistics
Matches: 96, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 96 1.00
ACGTcount: A:0.25, C:0.31, G:0.23, T:0.20
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:7541037 original size:25 final size:25
Alignment explanation
Indices: 7540989--7541055 Score: 98
Period size: 25 Copynumber: 2.6 Consensus size: 25
7540979 ATAGATGAAA
* *
7540989 TTATAAAATTTTAAATATGAGTTAAT
1 TTATAAAATTTT-AAGATGAGTTAAC
*
7541015 TTATAAAATTTTAAGATGTGTTAAC
1 TTATAAAATTTTAAGATGAGTTAAC
7541040 TTATAAAATTTTAAGA
1 TTATAAAATTTTAAGA
7541056 GGTGAAAATA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
25 26 0.68
26 12 0.32
ACGTcount: A:0.45, C:0.01, G:0.09, T:0.45
Consensus pattern (25 bp):
TTATAAAATTTTAAGATGAGTTAAC
Found at i:7541261 original size:2 final size:2
Alignment explanation
Indices: 7541254--7541278 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7541244 TAAATATACA
7541254 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 A
7541279 AGTAATACGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7546679 original size:17 final size:19
Alignment explanation
Indices: 7546659--7546696 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
7546649 CAAAAAAAAC
7546659 AAAAAG-CAG-CTGTTCGA
1 AAAAAGACAGACTGTTCGA
*
7546676 AAAAAGAGAGACTGTTCGA
1 AAAAAGACAGACTGTTCGA
7546695 AA
1 AA
7546697 GAAAAAAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 2 0.11
19 10 0.56
ACGTcount: A:0.47, C:0.13, G:0.24, T:0.16
Consensus pattern (19 bp):
AAAAAGACAGACTGTTCGA
Found at i:7551437 original size:28 final size:28
Alignment explanation
Indices: 7551397--7551480 Score: 150
Period size: 28 Copynumber: 3.0 Consensus size: 28
7551387 ACTGTCATTG
7551397 CTTTCAAGCACTGGCTCGACAATATAAT
1 CTTTCAAGCACTGGCTCGACAATATAAT
7551425 CTTTCAAGCACTGGCTCGACAATATAAT
1 CTTTCAAGCACTGGCTCGACAATATAAT
* *
7551453 CTTTCAAGCACTAGCTCGACATTATAAT
1 CTTTCAAGCACTGGCTCGACAATATAAT
7551481 GTAAACATAG
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 54 1.00
ACGTcount: A:0.32, C:0.25, G:0.13, T:0.30
Consensus pattern (28 bp):
CTTTCAAGCACTGGCTCGACAATATAAT
Found at i:7552158 original size:31 final size:30
Alignment explanation
Indices: 7552061--7552158 Score: 96
Period size: 31 Copynumber: 3.3 Consensus size: 30
7552051 AAACTTTGAT
* *
7552061 AAATTTAATGATTATTTATGAAAATTAAATA
1 AAATTTAATGATTATTTAT-AAAGTTTAATA
* *
7552092 AAATTTAAT-AGCT-TTTA-AAAGTTTTATA
1 AAATTTAATGA-TTATTTATAAAGTTTAATA
7552120 AAATTTAATGATTAATTTATAATAGTTTAAT-
1 AAATTTAATGATT-ATTTATAA-AGTTTAATA
7552151 AAATTTAA
1 AAATTTAA
7552159 AAAGAAATTA
Statistics
Matches: 55, Mismatches: 6, Indels: 12
0.75 0.08 0.16
Matches are distributed among these distances:
28 18 0.33
29 1 0.02
30 9 0.16
31 20 0.36
32 7 0.13
ACGTcount: A:0.48, C:0.01, G:0.06, T:0.45
Consensus pattern (30 bp):
AAATTTAATGATTATTTATAAAGTTTAATA
Found at i:7561024 original size:23 final size:23
Alignment explanation
Indices: 7560998--7561061 Score: 101
Period size: 23 Copynumber: 2.8 Consensus size: 23
7560988 CAGCTCATAT
7560998 AATTGCACCGAAGTGCCACGTAG
1 AATTGCACCGAAGTGCCACGTAG
* *
7561021 AATTGCACCGGAGTGCCGCGTAG
1 AATTGCACCGAAGTGCCACGTAG
*
7561044 AATTGCACCGTAGTGCCA
1 AATTGCACCGAAGTGCCA
7561062 TATAATAATG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.27, C:0.27, G:0.28, T:0.19
Consensus pattern (23 bp):
AATTGCACCGAAGTGCCACGTAG
Found at i:7561251 original size:103 final size:103
Alignment explanation
Indices: 7561072--7561294 Score: 446
Period size: 103 Copynumber: 2.2 Consensus size: 103
7561062 TATAATAATG
7561072 TCCCGAAGGACCACATATCACTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCT
1 TCCCGAAGGACCACATATCACTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCT
7561137 CACCAGACTTCACACATGTTCCAAAGAATACATATATA
66 CACCAGACTTCACACATGTTCCAAAGAATACATATATA
7561175 TCCCGAAGGACCACATATCACTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCT
1 TCCCGAAGGACCACATATCACTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCT
7561240 CACCAGACTTCACACATGTTCCAAAGAATACATATATA
66 CACCAGACTTCACACATGTTCCAAAGAATACATATATA
7561278 TCCCGAAGGACCACATA
1 TCCCGAAGGACCACATA
7561295 GACCCTCGAC
Statistics
Matches: 120, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
103 120 1.00
ACGTcount: A:0.37, C:0.25, G:0.13, T:0.25
Consensus pattern (103 bp):
TCCCGAAGGACCACATATCACTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCT
CACCAGACTTCACACATGTTCCAAAGAATACATATATA
Found at i:7562243 original size:64 final size:63
Alignment explanation
Indices: 7562046--7562266 Score: 232
Period size: 64 Copynumber: 3.5 Consensus size: 63
7562036 TAATGAAGGT
* * * * * *
7562046 ATGCATCGATGCACTACTGATGCATCGGTGCATAAAATGTATTCGATGTTGTATTATTACTGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCACAAATTGCATTCGATGTT-TATTATTAATGGG
* * * *
7562110 ATACATCGATGCA-TGCCTTATGCATCGATGCACTAATTGCATTCGATGTTTCCTTATTAATGGG
1 ATGCATCGATGCACT-ACTTATGCATCGATGCACAAATTGCATTCGATGTTT-ATTATTAATGGG
**
7562174 ATGCATCGATGCACTACTTATGCATCGATGCACAAATTGCATTCGATGTATTAATT-TTAA-AAG
1 ATGCATCGATGCACTACTTATGCATCGATGCACAAATTGCATTCGATGT-TT-ATTATTAATGGG
* **
7562237 AGTGCATTGATGCACTACCAATGCATCGAT
1 A-TGCATCGATGCACTACTTATGCATCGAT
7562267 ACACCTTCAA
Statistics
Matches: 132, Mismatches: 20, Indels: 10
0.81 0.12 0.06
Matches are distributed among these distances:
63 4 0.03
64 123 0.93
65 5 0.04
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (63 bp):
ATGCATCGATGCACTACTTATGCATCGATGCACAAATTGCATTCGATGTTTATTATTAATGGG
Found at i:7566463 original size:23 final size:23
Alignment explanation
Indices: 7566437--7566500 Score: 101
Period size: 23 Copynumber: 2.8 Consensus size: 23
7566427 CAGCTCATAT
7566437 AATTGCACCGAAGTGCCACGTAG
1 AATTGCACCGAAGTGCCACGTAG
* * *
7566460 AATTACACCGGAGTGCCGCGTAG
1 AATTGCACCGAAGTGCCACGTAG
7566483 AATTGCACCGAAGTGCCA
1 AATTGCACCGAAGTGCCA
7566501 TATAATAATG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.30, C:0.27, G:0.27, T:0.17
Consensus pattern (23 bp):
AATTGCACCGAAGTGCCACGTAG
Found at i:7566690 original size:103 final size:103
Alignment explanation
Indices: 7566511--7566733 Score: 428
Period size: 103 Copynumber: 2.2 Consensus size: 103
7566501 TATAATAATG
*
7566511 TCCCGAAGGACCACATATCACTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCT
1 TCCCGAAGGACCACATATCACTCCTTAAGAATCATATACATATACTAGGGATCAAATATGTGTCT
7566576 CACCAGACTTCACACATGTTCCAAAGAATACATATATA
66 CACCAGACTTCACACATGTTCCAAAGAATACATATATA
7566614 TCCCGAAGGACCACATATCACTCCTTAAGAATCATATACATATACTAGGGATCAAATATGTGTCT
1 TCCCGAAGGACCACATATCACTCCTTAAGAATCATATACATATACTAGGGATCAAATATGTGTCT
*
7566679 CACCAGACTTCACACATGTTCCAAGGAATACATATATA
66 CACCAGACTTCACACATGTTCCAAAGAATACATATATA
7566717 TCCCGAAGGACCACATA
1 TCCCGAAGGACCACATA
7566734 GACCCTCGAC
Statistics
Matches: 118, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
103 118 1.00
ACGTcount: A:0.37, C:0.25, G:0.13, T:0.25
Consensus pattern (103 bp):
TCCCGAAGGACCACATATCACTCCTTAAGAATCATATACATATACTAGGGATCAAATATGTGTCT
CACCAGACTTCACACATGTTCCAAAGAATACATATATA
Found at i:7567593 original size:64 final size:64
Alignment explanation
Indices: 7567485--7567705 Score: 245
Period size: 64 Copynumber: 3.5 Consensus size: 64
7567475 TAATGAAGGT
* * * * *
7567485 ATGCATCGATGCACTACTGATGCATCGGTGCA-TAAAATGTATTCGATGTTGT-ATTATTACTAG
1 ATGCATCGATGCACTACTTATGCATCGATGCACT-AATTGCATTCGATGTT-TCATTATTAATAG
7567548 G
64 G
* * *
7567549 ATGCATCGATGCA-TGCCTTATGCATCGATGCACTAATTGCATTCGATGTTTCCTTATTAATGGG
1 ATGCATCGATGCACT-ACTTATGCATCGATGCACTAATTGCATTCGATGTTTCATTATTAATAGG
* * *
7567613 ATGCATCGATGCACTACTTATGCATCGATGCACAAATTGCATTCGATGTATTAATT-TTAA-AAG
1 ATGCATCGATGCACTACTTATGCATCGATGCACTAATTGCATTCGATGT-TTCATTATTAATAGG
**
7567676 AGTGCATCGATGCACTACCAATGCATCGAT
1 A-TGCATCGATGCACTACTTATGCATCGAT
7567706 ACACCTTCAA
Statistics
Matches: 135, Mismatches: 16, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
63 4 0.03
64 125 0.93
65 6 0.04
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (64 bp):
ATGCATCGATGCACTACTTATGCATCGATGCACTAATTGCATTCGATGTTTCATTATTAATAGG
Found at i:7574528 original size:13 final size:14
Alignment explanation
Indices: 7574505--7574534 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
7574495 GTTTCCAGAT
7574505 TTCTCTTCTTCTTC
1 TTCTCTTCTTCTTC
7574519 TTCT-TTCTTCTTC
1 TTCTCTTCTTCTTC
7574532 TTC
1 TTC
7574535 ACCGTGAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (14 bp):
TTCTCTTCTTCTTC
Found at i:7575892 original size:23 final size:23
Alignment explanation
Indices: 7575839--7575893 Score: 74
Period size: 23 Copynumber: 2.4 Consensus size: 23
7575829 CAAGCTTATA
*
7575839 TGGCACTACGGTGTAATTCTACG
1 TGGCACTTCGGTGTAATTCTACG
* * *
7575862 CGGTACTTTGGTGTAATTCTACG
1 TGGCACTTCGGTGTAATTCTACG
7575885 TGGCACTTC
1 TGGCACTTC
7575894 AGTTCATTTA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.18, C:0.22, G:0.25, T:0.35
Consensus pattern (23 bp):
TGGCACTTCGGTGTAATTCTACG
Found at i:7578514 original size:22 final size:22
Alignment explanation
Indices: 7578480--7578527 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
7578470 CACACATATA
* *
7578480 TATCATTATCATTCATAT-CTTT
1 TATCACTAACATTCAT-TCCTTT
*
7578502 TATCACTAACATTGATTCCTTT
1 TATCACTAACATTCATTCCTTT
7578524 TATC
1 TATC
7578528 GTATGATCTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 1 0.05
22 21 0.95
ACGTcount: A:0.27, C:0.21, G:0.02, T:0.50
Consensus pattern (22 bp):
TATCACTAACATTCATTCCTTT
Found at i:7578763 original size:30 final size:30
Alignment explanation
Indices: 7578729--7578801 Score: 128
Period size: 30 Copynumber: 2.4 Consensus size: 30
7578719 CCCGAAGGAC
7578729 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
7578759 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
* *
7578789 CTGTCCATAGGTC
1 CTATCCAGAGGTC
7578802 CCGAAGAACC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.25
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:7579620 original size:20 final size:21
Alignment explanation
Indices: 7579571--7579620 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
7579561 GTACTATACA
7579571 GTGTATCGATGCATCCTTAATG
1 GTGTATCGATGCA-CCTTAATG
* * *
7579593 GTGCATCGATGCA-CTTACTT
1 GTGTATCGATGCACCTTAATG
7579613 GTGTATCG
1 GTGTATCG
7579621 GTGTACAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 12 0.50
22 12 0.50
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.36
Consensus pattern (21 bp):
GTGTATCGATGCACCTTAATG
Found at i:7580082 original size:25 final size:26
Alignment explanation
Indices: 7580015--7580067 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
7580005 CATCTCAACG
7580015 TTCA-TTTATTAACTCTTTTTCAGAAA
1 TTCACTTTA-TAACTCTTTTTCAGAAA
*
7580041 TTCACTTTAAAACTCTTTTTCAGAAA
1 TTCACTTTATAACTCTTTTTCAGAAA
7580067 T
1 T
7580068 CTTTTATAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 21 0.84
27 4 0.16
ACGTcount: A:0.32, C:0.17, G:0.04, T:0.47
Consensus pattern (26 bp):
TTCACTTTATAACTCTTTTTCAGAAA
Found at i:7583880 original size:30 final size:30
Alignment explanation
Indices: 7583846--7583918 Score: 128
Period size: 30 Copynumber: 2.4 Consensus size: 30
7583836 CCCGAAGGAC
7583846 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
7583876 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
* *
7583906 CTGTCCATAGGTC
1 CTATCCAGAGGTC
7583919 CCGAAGAACC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.25
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:7585427 original size:21 final size:20
Alignment explanation
Indices: 7585403--7585442 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
7585393 TATGTACACT
7585403 ATTTTAGATATTTTATATTTC
1 ATTTTAGATATTTT-TATTTC
* *
7585424 ATTTTGGTTATTTTTATTT
1 ATTTTAGATATTTTTATTT
7585443 TTATTTATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.23, C:0.03, G:0.07, T:0.68
Consensus pattern (20 bp):
ATTTTAGATATTTTTATTTC
Found at i:7585727 original size:22 final size:24
Alignment explanation
Indices: 7585694--7585756 Score: 67
Period size: 22 Copynumber: 2.7 Consensus size: 24
7585684 TTAGTCATAC
* *
7585694 ATATATACATTTGTTTAAATA-AT
1 ATATATATATTTATTTAAATATAT
* *
7585717 A-ATATTTATTTATTTTAATATAT
1 ATATATATATTTATTTAAATATAT
*
7585740 ATATATATATTTTTTTA
1 ATATATATATTTATTTA
7585757 TTTTTTTTTA
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
22 15 0.48
23 4 0.13
24 12 0.39
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (24 bp):
ATATATATATTTATTTAAATATAT
Found at i:7585750 original size:20 final size:19
Alignment explanation
Indices: 7585713--7585752 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
7585703 TTTGTTTAAA
* *
7585713 TAATAATATTTATTTATTT
1 TAATAATATATATATATTT
7585732 TAATATATATATATATATTT
1 TAATA-ATATATATATATTT
7585752 T
1 T
7585753 TTTATTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
TAATAATATATATATATTT
Found at i:7585906 original size:2 final size:2
Alignment explanation
Indices: 7585883--7585925 Score: 52
Period size: 2 Copynumber: 22.0 Consensus size: 2
7585873 ATATTTTTAA
* * *
7585883 AT AT AT AA AT AT CT -T AT TT 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 AT
7585924 AT
1 AT
7585926 TTAATTATTT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:7585909 original size:23 final size:23
Alignment explanation
Indices: 7585874--7585917 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
7585864 CATTTTCTGA
*
7585874 TATTTTTAAATATATAAATATCT
1 TATTTATAAATATATAAATATCT
* *
7585897 TATTTATATATATATATATAT
1 TATTTATAAATATATAAATAT
7585918 ATATATATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (23 bp):
TATTTATAAATATATAAATATCT
Found at i:7586093 original size:141 final size:139
Alignment explanation
Indices: 7585814--7586069 Score: 404
Period size: 141 Copynumber: 1.8 Consensus size: 139
7585804 ATTTAATATT
7585814 TATTTATTTTTCAATATTAAGAAAGAGCAGTCTTAAAGCAACTAGATGTCCATTTTCTGATATTT
1 TATTTATTTTTCAATATTAAGAAAGAGCAGTCTTAAAGCAACTAGATGTCCATTTTCTGATATTT
* * * * * * *
7585879 TTAAATATATAAATATCTTATTTATATATATATATATATATATATATTTAATTATTTTAGATAAA
66 TTAAATAAATAAATATCTTATATATATATATATATAAAAAAACATATTTAA-TA-TTTAAATAAA
7585944 TATTTTATTAA
129 TATTTTATTAA
* *
7585955 TATTTATTTTTCAATATTAAGAAAGTGCATTCTTAAAGCAACTAGATGTCCATTTTCTGATATTT
1 TATTTATTTTTCAATATTAAGAAAGAGCAGTCTTAAAGCAACTAGATGTCCATTTTCTGATATTT
7586020 TTAAATAAATAAATATCTTATATATATATATATATTAAAAAAACATATTT
66 TTAAATAAATAAATATCTTATATATATATATATA-TAAAAAAACATATTT
7586070 TAAATTAAAT
Statistics
Matches: 106, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
141 95 0.90
142 11 0.10
ACGTcount: A:0.41, C:0.07, G:0.06, T:0.46
Consensus pattern (139 bp):
TATTTATTTTTCAATATTAAGAAAGAGCAGTCTTAAAGCAACTAGATGTCCATTTTCTGATATTT
TTAAATAAATAAATATCTTATATATATATATATATAAAAAAACATATTTAATATTTAAATAAATA
TTTTATTAA
Found at i:7586103 original size:160 final size:163
Alignment explanation
Indices: 7585918--7586218 Score: 418
Period size: 164 Copynumber: 1.9 Consensus size: 163
7585908 ATATATATAT
*
7585918 ATATATATTTAATTATTTTAGATAAATATTTTATT-A-A-TATTTATTTTTCAATATTAAG-AAA
1 ATATATATTTAATTATTTTAGATAAATATTTTATTAATATTATTTATTTTTCAATATAAAGAAAA
* * * *
7585979 GTGCAT-TCTTAAAGCAACTAGATGTC-CATTTTCTGATATTTTTAAATAAATAAATATCTTATA
66 GAG-ATGTCTTAAAGCAACTAGAAG-CAC-TTTTCTGATATTTCTAAATAAATAAACATCTTATA
7586042 TATATATATATATTAAAAAAACATATTTTAAATTAA
128 TATATATATATATTAAAAAAACATATTTTAAATTAA
*
7586078 ATATAT-TTTAATTATTTTTAGATAAATATTTTATTAATATTTATTTATTTTTTAATATAAAGAA
1 ATATATATTTAATTA-TTTTAGATAAATATTTTATTAATA-TTATTTATTTTTCAATATAAAGAA
* ** *
7586142 AAGAGTTGTCTTAAAGCATTTAGAAGCACTTTTCTGATATTTCTGAATAAATAAACATCTTATAT
64 AAGAGATGTCTTAAAGCAACTAGAAGCACTTTTCTGATATTTCTAAATAAATAAACATCTTATAT
7586207 ATATATATATAT
129 ATATATATATAT
7586219 AAATTAATAG
Statistics
Matches: 123, Mismatches: 10, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
159 8 0.07
160 26 0.21
161 1 0.01
162 1 0.01
164 66 0.54
165 21 0.17
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.47
Consensus pattern (163 bp):
ATATATATTTAATTATTTTAGATAAATATTTTATTAATATTATTTATTTTTCAATATAAAGAAAA
GAGATGTCTTAAAGCAACTAGAAGCACTTTTCTGATATTTCTAAATAAATAAACATCTTATATAT
ATATATATATTAAAAAAACATATTTTAAATTAA
Found at i:7588899 original size:8 final size:7
Alignment explanation
Indices: 7588867--7588901 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
7588857 AGATCTTCGG
7588867 TTTTCC-
1 TTTTCCT
7588873 TTTTCCT
1 TTTTCCT
7588880 TTTTCCT
1 TTTTCCT
7588887 TTTTCCT
1 TTTTCCT
7588894 TATTTCCT
1 T-TTTCCT
7588902 ACACTGGACC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 6 0.22
7 15 0.56
8 6 0.22
ACGTcount: A:0.03, C:0.29, G:0.00, T:0.69
Consensus pattern (7 bp):
TTTTCCT
Found at i:7589929 original size:6 final size:6
Alignment explanation
Indices: 7589924--7589966 Score: 68
Period size: 6 Copynumber: 7.2 Consensus size: 6
7589914 TCATCTCCTC
* *
7589924 CACCTC CACCTC CACCTT CACCTT CACCTT CACCTT CACCTT C
1 CACCTT CACCTT CACCTT CACCTT CACCTT CACCTT CACCTT C
7589967 TACTTTGTCA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.16, C:0.56, G:0.00, T:0.28
Consensus pattern (6 bp):
CACCTT
Found at i:7593353 original size:2 final size:2
Alignment explanation
Indices: 7593346--7593374 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
7593336 AACAGTAGGC
7593346 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7593375 GTATGCTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7603699 original size:2 final size:2
Alignment explanation
Indices: 7603692--7603749 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
7603682 CTGAAATAGT
7603692 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7603734 TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA
7603750 ATTTTAATAA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7606700 original size:28 final size:28
Alignment explanation
Indices: 7606669--7606785 Score: 123
Period size: 28 Copynumber: 4.2 Consensus size: 28
7606659 GAATTTTTGT
7606669 GAAAAGATGATATTTTAGGAATTATTTC
1 GAAAAGATGATATTTTAGGAATTATTTC
* * * *
7606697 GAAAAAAAGTTAATTCTAGGAATTATTTC
1 GAAAAGATGAT-ATTTTAGGAATTATTTC
7606726 GAAAAG-TGATATTTT-GAGAATTATTT-
1 GAAAAGATGATATTTTAG-GAATTATTTC
* * *
7606752 GAAGAAGGTGATAGTTTGGGAATTATTTC
1 GAA-AAGATGATATTTTAGGAATTATTTC
7606781 GAAAA
1 GAAAA
7606786 AAATGTTATT
Statistics
Matches: 74, Mismatches: 9, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
26 4 0.05
27 16 0.22
28 29 0.39
29 25 0.34
ACGTcount: A:0.40, C:0.03, G:0.21, T:0.36
Consensus pattern (28 bp):
GAAAAGATGATATTTTAGGAATTATTTC
Found at i:7606702 original size:57 final size:55
Alignment explanation
Indices: 7606652--7606785 Score: 132
Period size: 56 Copynumber: 2.4 Consensus size: 55
7606642 AAAATTTAAT
* *
7606652 ATTCTGGGAATT-TTTGTGAAAAGATGATATTTT-AGGAATTATTTCGAAAAAAAGTTA
1 ATTCTAGGAATTATTT-CGAAAAG-TGATATTTTGA-GAATTATTTCG-AAAAAAGTTA
* *
7606709 ATTCTAGGAATTATTTCGAAAAGTGATATTTTGAGAATTATTT-GAAGAAGGTGATA
1 ATTCTAGGAATTATTTCGAAAAGTGATATTTTGAGAATTATTTCGAAAAAAGT--TA
* *
7606765 GTT-TGGGAATTATTTCGAAAA
1 ATTCTAGGAATTATTTCGAAAA
7606786 AAATGTTATT
Statistics
Matches: 67, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
54 6 0.09
55 18 0.27
56 22 0.33
57 18 0.27
58 3 0.04
ACGTcount: A:0.37, C:0.04, G:0.21, T:0.38
Consensus pattern (55 bp):
ATTCTAGGAATTATTTCGAAAAGTGATATTTTGAGAATTATTTCGAAAAAAGTTA
Found at i:7613274 original size:29 final size:28
Alignment explanation
Indices: 7613242--7613382 Score: 138
Period size: 29 Copynumber: 4.9 Consensus size: 28
7613232 TGGCAAAATT
* *
7613242 TGGGAATTTTTGTGAAAAATGTGACATTC
1 TGGGAATTTTT-TGAAAAAGGTGATATTC
* *
7613271 TGGGAATTTTTGTGAAAAAGATGATATTT
1 TGGGAATTTTT-TGAAAAAGGTGATATTC
* *
7613300 TGGGAATTATTTCGAATAAAAGTGATATTC
1 TGGGAATT-TTTTGAA-AAAGGTGATATTC
* * * *
7613330 TAGGAATTATTTAAAAAAGGTGATATTT
1 TGGGAATTTTTTGAAAAAGGTGATATTC
*
7613358 TGAGAATTATTTTGAAAAAGGTGAT
1 TGGGAATT-TTTTGAAAAAGGTGAT
7613383 GGTTTGGGAA
Statistics
Matches: 91, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
28 17 0.19
29 54 0.59
30 20 0.22
ACGTcount: A:0.37, C:0.03, G:0.22, T:0.38
Consensus pattern (28 bp):
TGGGAATTTTTTGAAAAAGGTGATATTC
Found at i:7613302 original size:58 final size:57
Alignment explanation
Indices: 7613240--7613381 Score: 169
Period size: 58 Copynumber: 2.5 Consensus size: 57
7613230 TTTGGCAAAA
* * * *
7613240 TTTGGGAATT-TTTGTGAAAAATGTGACATTCTGGGAATTTTTGTGAAAAAGATGATAT
1 TTTGGGAATTATTT-TGAAAAAAGTGACATTCTAGGAATTATT-TAAAAAAGATGATAT
* * *
7613298 TTTGGGAATTATTTCGAATAAAAGTGATATTCTAGGAATTATTTAAAAAAGGTGATAT
1 TTTGGGAATTATTTTGAA-AAAAGTGACATTCTAGGAATTATTTAAAAAAGATGATAT
* *
7613356 TTTGAGAATTATTTTGAAAAAGGTGA
1 TTTGGGAATTATTTTGAAAAAAGTGA
7613382 TGGTTTGGGA
Statistics
Matches: 72, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
57 7 0.10
58 42 0.58
59 23 0.32
ACGTcount: A:0.37, C:0.03, G:0.22, T:0.39
Consensus pattern (57 bp):
TTTGGGAATTATTTTGAAAAAAGTGACATTCTAGGAATTATTTAAAAAAGATGATAT
Found at i:7613388 original size:29 final size:29
Alignment explanation
Indices: 7613285--7613398 Score: 92
Period size: 29 Copynumber: 3.9 Consensus size: 29
7613275 AATTTTTGTG
* * * *
7613285 AAAAAGATGATATTTTGGGAATTATTTCGA
1 AAAAAGGTGATAGTTTGAGAATTATTT-TA
7613315 ATAAAA-GTGATA-TTCT-AGGAATTA-TTTA
1 A-AAAAGGTGATAGTT-TGA-GAATTATTTTA
* *
7613343 AAAAAGGTGATATTTTGAGAATTATTTTG
1 AAAAAGGTGATAGTTTGAGAATTATTTTA
* *
7613372 AAAAAGGTGATGGTTTGGGAATTATTT
1 AAAAAGGTGATAGTTTGAGAATTATTT
7613399 CGACAAAAAA
Statistics
Matches: 70, Mismatches: 7, Indels: 15
0.76 0.08 0.16
Matches are distributed among these distances:
27 4 0.06
28 15 0.21
29 34 0.49
30 13 0.19
31 4 0.06
ACGTcount: A:0.39, C:0.02, G:0.21, T:0.39
Consensus pattern (29 bp):
AAAAAGGTGATAGTTTGAGAATTATTTTA
Found at i:7614505 original size:26 final size:26
Alignment explanation
Indices: 7614452--7614505 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 26
7614442 AGGGTAACTC
* *
7614452 TTTTATGGGATTTACTGCAGTATAAT
1 TTTTATGAGATTTACTGCACTATAAT
* * *
7614478 TTTTATGAGATTTGCTGGACTATGAT
1 TTTTATGAGATTTACTGCACTATAAT
7614504 TT
1 TT
7614506 GTTTAGTGTA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.24, C:0.07, G:0.20, T:0.48
Consensus pattern (26 bp):
TTTTATGAGATTTACTGCACTATAAT
Found at i:7635083 original size:2 final size:2
Alignment explanation
Indices: 7635076--7635105 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
7635066 AATATGTATT
7635076 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7635106 AGAAGTGATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7636541 original size:20 final size:20
Alignment explanation
Indices: 7636496--7636541 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
7636486 TTTTTTTTAA
7636496 TAATATGAGTGATTACAATG
1 TAATATGAGTGATTACAATG
* *
7636516 TCATATGAGTGATTACAATT
1 TAATATGAGTGATTACAATG
7636536 TAATAT
1 TAATAT
7636542 CCATTTAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (20 bp):
TAATATGAGTGATTACAATG
Found at i:7640666 original size:38 final size:38
Alignment explanation
Indices: 7640611--7640686 Score: 125
Period size: 38 Copynumber: 2.0 Consensus size: 38
7640601 TCAAAGACTC
* *
7640611 AAATTCATGTAAGCTAATACAATGAAAAACCCAATCAT
1 AAATTCATGTAACCTAATAAAATGAAAAACCCAATCAT
*
7640649 AAATTCGTGTAACCTAATAAAATGAAAAACCCAATCAT
1 AAATTCATGTAACCTAATAAAATGAAAAACCCAATCAT
7640687 TAACACCGAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.50, C:0.18, G:0.08, T:0.24
Consensus pattern (38 bp):
AAATTCATGTAACCTAATAAAATGAAAAACCCAATCAT
Found at i:7649403 original size:15 final size:15
Alignment explanation
Indices: 7649383--7649413 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
7649373 CAACAAATAG
7649383 AATTTTTATATAAAT
1 AATTTTTATATAAAT
*
7649398 AATTTTTATTTAAAT
1 AATTTTTATATAAAT
7649413 A
1 A
7649414 TTTAGAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
AATTTTTATATAAAT
Found at i:7649618 original size:20 final size:20
Alignment explanation
Indices: 7649573--7649629 Score: 80
Period size: 19 Copynumber: 2.9 Consensus size: 20
7649563 ATCTTATTAT
7649573 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTTTATTCCCA
* *
7649593 C-AGTAATCTTTTATTTCCA
1 CTGGTAATCTTTTATTCCCA
*
7649612 CTGGTAATCTTATATTCC
1 CTGGTAATCTTTTATTCC
7649630 GTGAACCAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.46
Consensus pattern (20 bp):
CTGGTAATCTTTTATTCCCA
Found at i:7669134 original size:51 final size:50
Alignment explanation
Indices: 7669068--7669194 Score: 164
Period size: 51 Copynumber: 2.5 Consensus size: 50
7669058 TTAGCAGTAA
* ** *
7669068 AGCGCGCCCCTTGCACCGCGCTATACGATGATTTGGCGTCACATGGGGTAT
1 AGCGCGCCCCCTGCACCGCGCTATACGATGAGCTGGCGCCACAT-GGGTAT
* * *
7669119 AGTGCGCCCCCTGCACCGCGCTATACGGTGAGCTGGCGCCACGTGGGTAT
1 AGCGCGCCCCCTGCACCGCGCTATACGATGAGCTGGCGCCACATGGGTAT
* *
7669169 AGCGCGACCCCTGCAGCGCGCTATAC
1 AGCGCGCCCCCTGCACCGCGCTATAC
7669195 CTGTATATCT
Statistics
Matches: 66, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
50 29 0.44
51 37 0.56
ACGTcount: A:0.17, C:0.34, G:0.31, T:0.19
Consensus pattern (50 bp):
AGCGCGCCCCCTGCACCGCGCTATACGATGAGCTGGCGCCACATGGGTAT
Found at i:7671702 original size:50 final size:51
Alignment explanation
Indices: 7671627--7671750 Score: 189
Period size: 50 Copynumber: 2.5 Consensus size: 51
7671617 TTATACAAAA
7671627 CGCGGTACCTGATCCGCGCTATATAAAATTATGTCAG-AGTAAAGGTAT-G
1 CGCGGTACCTGATCCGCGCTATATAAAATTATGTCAGAAGTAAAGGTATAG
** *
7671676 TCGCGGTACCTGCCCCGCGCTATATAAAATTATGTCGGAAGTAAAGGTATAG
1 -CGCGGTACCTGATCCGCGCTATATAAAATTATGTCAGAAGTAAAGGTATAG
*
7671728 CGCGGTTCCTGATCCGCGCTATA
1 CGCGGTACCTGATCCGCGCTATA
7671751 CCCCTACGTG
Statistics
Matches: 66, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
50 34 0.52
51 31 0.47
52 1 0.02
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.26
Consensus pattern (51 bp):
CGCGGTACCTGATCCGCGCTATATAAAATTATGTCAGAAGTAAAGGTATAG
Done.