Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008539.1 Hibiscus syriacus cultivar Beakdansim tig00111427_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: 6067759
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 24 of 31
Found at i:4537596 original size:30 final size:30
Alignment explanation
Indices: 4537560--4537626 Score: 91
Period size: 30 Copynumber: 2.2 Consensus size: 30
4537550 TATCACACTT
*
4537560 AAAAAAACCCGACCCGA-ACCTGAAATTTTA
1 AAAAAAACCCAACCCGATACC-GAAATTTTA
* *
4537590 AAAAAAATCCAACCCGATTCCGAAATTTTA
1 AAAAAAACCCAACCCGATACCGAAATTTTA
4537620 AAAAAAA
1 AAAAAAA
4537627 ATCTGATCCG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
30 31 0.94
31 2 0.06
ACGTcount: A:0.52, C:0.22, G:0.07, T:0.18
Consensus pattern (30 bp):
AAAAAAACCCAACCCGATACCGAAATTTTA
Found at i:4552759 original size:41 final size:41
Alignment explanation
Indices: 4552700--4552777 Score: 120
Period size: 41 Copynumber: 1.9 Consensus size: 41
4552690 GAGTATTATG
*
4552700 AAACAAAACAAGTCGAATAGGAGATAGCAGAAACAATACCA
1 AAACAAAACAAGTCGAATAGGAGACAGCAGAAACAATACCA
* * *
4552741 AAACAAAACAAGTTGAATAGGTGACAGCAGGAACAAT
1 AAACAAAACAAGTCGAATAGGAGACAGCAGAAACAAT
4552778 TAAGTCAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.54, C:0.15, G:0.19, T:0.12
Consensus pattern (41 bp):
AAACAAAACAAGTCGAATAGGAGACAGCAGAAACAATACCA
Found at i:4558842 original size:22 final size:20
Alignment explanation
Indices: 4558817--4558857 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
4558807 ACATATAAAT
*
4558817 ATGAATTCATATGAAAAGTAAC
1 ATGAATT-ACATG-AAAGTAAC
4558839 ATGAATTACATGAAAGTAA
1 ATGAATTACATGAAAGTAA
4558858 ACTATGTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 4 0.22
22 7 0.39
ACGTcount: A:0.51, C:0.07, G:0.15, T:0.27
Consensus pattern (20 bp):
ATGAATTACATGAAAGTAAC
Found at i:4559029 original size:21 final size:21
Alignment explanation
Indices: 4559003--4559061 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
4558993 GAGGGTCTAC
4559003 GCGGTCCTTCGGGACAATATA
1 GCGGTCCTTCGGGACAATATA
* *
4559024 GCGGTCATTCGGGATAATATA
1 GCGGTCCTTCGGGACAATATA
* *
4559045 GTGGTCCTTCGAGACAA
1 GCGGTCCTTCGGGACAA
4559062 ATTTCATATG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.25
Consensus pattern (21 bp):
GCGGTCCTTCGGGACAATATA
Found at i:4559836 original size:22 final size:21
Alignment explanation
Indices: 4559794--4559837 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
4559784 TACGGAAGTA
*
4559794 CTGTAGCAGGGTATCGATTCC
1 CTGTAGCAGGGAATCGATTCC
*
4559815 CTGTAGCAGGGGAATCGGTTCC
1 CTGTAGCA-GGGAATCGATTCC
4559837 C
1 C
4559838 CTATGACAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.18, C:0.25, G:0.32, T:0.25
Consensus pattern (21 bp):
CTGTAGCAGGGAATCGATTCC
Found at i:4559901 original size:22 final size:22
Alignment explanation
Indices: 4559883--4559928 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
4559873 CTATTCAAGA
*
4559883 TATTGTTCATTACTGTTCACTG
1 TATTGTTCATTACTGTTCACAG
4559905 TATTGTTCATTACTGTTCACAG
1 TATTGTTCATTACTGTTCACAG
4559927 TA
1 TA
4559929 CTGTCCAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.22, C:0.17, G:0.13, T:0.48
Consensus pattern (22 bp):
TATTGTTCATTACTGTTCACAG
Found at i:4574489 original size:19 final size:19
Alignment explanation
Indices: 4574465--4574502 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
4574455 TTGTTTTGCT
4574465 TATTACTATCCATTGCTTG
1 TATTACTATCCATTGCTTG
4574484 TATTACTATCCATTGCTTG
1 TATTACTATCCATTGCTTG
4574503 AGGACAAGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.21, G:0.11, T:0.47
Consensus pattern (19 bp):
TATTACTATCCATTGCTTG
Found at i:4587442 original size:23 final size:23
Alignment explanation
Indices: 4587416--4587484 Score: 93
Period size: 23 Copynumber: 3.0 Consensus size: 23
4587406 CACCACAGCT
*
4587416 CGTATAAATGCACCGAAGTGCCA
1 CGTAAAAATGCACCGAAGTGCCA
* * * *
4587439 CGTAGAATTGCACCGTAGTGCCT
1 CGTAAAAATGCACCGAAGTGCCA
4587462 CGTAAAAATGCACCGAAGTGCCA
1 CGTAAAAATGCACCGAAGTGCCA
4587485 TATAAGATGT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.32, C:0.26, G:0.23, T:0.19
Consensus pattern (23 bp):
CGTAAAAATGCACCGAAGTGCCA
Found at i:4600347 original size:23 final size:23
Alignment explanation
Indices: 4600321--4600402 Score: 101
Period size: 23 Copynumber: 3.6 Consensus size: 23
4600311 ACAGGTAAAA
* *
4600321 ATATGATATAATAGGTAGCGCTT
1 ATATAATATAATAGGTATCGCTT
* *
4600344 ATATAATGTAATAGGTATCGTTT
1 ATATAATATAATAGGTATCGCTT
* *
4600367 ATATAATGTAATAGATATCGCTT
1 ATATAATATAATAGGTATCGCTT
*
4600390 ATATAATAAAATA
1 ATATAATATAATA
4600403 TGTTAATTAC
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.41, C:0.06, G:0.15, T:0.38
Consensus pattern (23 bp):
ATATAATATAATAGGTATCGCTT
Found at i:4600459 original size:23 final size:23
Alignment explanation
Indices: 4600433--4600492 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
4600423 ATCAATCACA
*
4600433 ATAACATATTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
4600456 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
4600479 ATAATGTAATAGGT
1 ATAACATAATAGGT
4600493 TAATTACTGA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.37, C:0.08, G:0.20, T:0.35
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:4600466 original size:87 final size:87
Alignment explanation
Indices: 4600355--4600641 Score: 394
Period size: 87 Copynumber: 3.3 Consensus size: 87
4600345 TATAATGTAA
* * * * * *
4600355 TAGGTATCGTTTATATAATGTAATAGATATCGCTTATATAATAAAATATGTTAATTACTGGAAAC
1 TAGGTAGCGCTTATATAATGTAATAGGTAGCGCTTATATAATAAAATAAGTTAATTACTGGAAAT
*
4600420 ATTATCAATCACAATAACATAT
66 ATTATCAAGCACAATAACATAT
** * *
4600442 TAGGTAGCGCTTATATAATGTAATAGGTAGCGCTTATATAATGTAATAGGTTAATTACTGAAAAT
1 TAGGTAGCGCTTATATAATGTAATAGGTAGCGCTTATATAATAAAATAAGTTAATTACTGGAAAT
4600507 ATTATCAAGCACAATAACATAT
66 ATTATCAAGCACAATAACATAT
* * * ** *
4600529 TAGGTACCTCTTATTTAATGTAATAGGTAGCATTTATATAATAAAATAAGTTAATTACGGGAAAT
1 TAGGTAGCGCTTATATAATGTAATAGGTAGCGCTTATATAATAAAATAAGTTAATTACTGGAAAT
*
4600594 ATTATTAAGCACAATAACATAT
66 ATTATCAAGCACAATAACATAT
* *
4600616 TAGGTAGTGTTTATATAATGTAATAG
1 TAGGTAGCGCTTATATAATGTAATAG
4600642 TCACTCTACT
Statistics
Matches: 174, Mismatches: 26, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
87 174 1.00
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (87 bp):
TAGGTAGCGCTTATATAATGTAATAGGTAGCGCTTATATAATAAAATAAGTTAATTACTGGAAAT
ATTATCAAGCACAATAACATAT
Found at i:4604538 original size:17 final size:18
Alignment explanation
Indices: 4604510--4604543 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
4604500 CACCCACTTT
*
4604510 TAAAAAATTAAATAAAAC
1 TAAAAAATTAAACAAAAC
4604528 TAAAAAA-TAAACAAAA
1 TAAAAAATTAAACAAAA
4604544 ACCGATGAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.18
Consensus pattern (18 bp):
TAAAAAATTAAACAAAAC
Found at i:4604988 original size:20 final size:19
Alignment explanation
Indices: 4604956--4604993 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
4604946 TAGTTTATCC
4604956 TATTTTCTATTAATAATTTG
1 TATTTTCTATTAA-AATTTG
4604976 TATTTATCT-TTAAAATTT
1 TATTT-TCTATTAAAATTT
4604994 TATAAATTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 5 0.29
20 9 0.53
21 3 0.18
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.61
Consensus pattern (19 bp):
TATTTTCTATTAAAATTTG
Found at i:4605029 original size:13 final size:13
Alignment explanation
Indices: 4605011--4605036 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4605001 TCATCATTAA
4605011 CATTAAATCTTAC
1 CATTAAATCTTAC
4605024 CATTAAATCTTAC
1 CATTAAATCTTAC
4605037 GTCTGACTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.38
Consensus pattern (13 bp):
CATTAAATCTTAC
Found at i:4605054 original size:2 final size:2
Alignment explanation
Indices: 4605047--4605103 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
4605037 GTCTGACTTC
4605047 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4605089 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
4605104 AATTTGTGTG
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4605769 original size:16 final size:15
Alignment explanation
Indices: 4605748--4605808 Score: 63
Period size: 16 Copynumber: 3.9 Consensus size: 15
4605738 ATCCGACCTG
4605748 TTTTCAACCTGACTT
1 TTTTCAACCTGACTT
4605763 ATTTTCAACCTGACATGT
1 -TTTTCAACCTGAC-T-T
4605781 TTTT-AACCTGATCTGT
1 TTTTCAACCTGA-CT-T
4605797 TTTT-AACCTGAC
1 TTTTCAACCTGAC
4605809 CTATAAATGA
Statistics
Matches: 42, Mismatches: 0, Indels: 7
0.86 0.00 0.14
Matches are distributed among these distances:
15 1 0.02
16 34 0.81
17 6 0.14
18 1 0.02
ACGTcount: A:0.23, C:0.23, G:0.10, T:0.44
Consensus pattern (15 bp):
TTTTCAACCTGACTT
Found at i:4605782 original size:32 final size:32
Alignment explanation
Indices: 4605746--4605808 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
4605736 TTATCCGACC
4605746 TGTTTTCAACCTGA-CT-TATTTTCAACCTGACA
1 TGTTTTCAACCTGATCTGT-TTTT-AACCTGACA
*
4605778 TGTTTTTAACCTGATCTGTTTTTAACCTGAC
1 TGTTTTCAACCTGATCTGTTTTTAACCTGAC
4605809 CTATAAATGA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
32 21 0.75
33 6 0.21
34 1 0.04
ACGTcount: A:0.22, C:0.22, G:0.11, T:0.44
Consensus pattern (32 bp):
TGTTTTCAACCTGATCTGTTTTTAACCTGACA
Found at i:4606089 original size:14 final size:14
Alignment explanation
Indices: 4606067--4606113 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
4606057 TGCAAAGGAA
*
4606067 AATTAATATAGTTT
1 AATTTATATAGTTT
4606081 AATTTATATA----
1 AATTTATATAGTTT
4606091 AA-TTATATAGTTT
1 AATTTATATAGTTT
4606104 AATTTATATA
1 AATTTATATA
4606114 AAGAAAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 10
0.71 0.03 0.26
Matches are distributed among these distances:
9 7 0.26
10 2 0.07
13 2 0.07
14 16 0.59
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (14 bp):
AATTTATATAGTTT
Found at i:4606100 original size:23 final size:24
Alignment explanation
Indices: 4606066--4606115 Score: 93
Period size: 23 Copynumber: 2.1 Consensus size: 24
4606056 ATGCAAAGGA
4606066 AAATTAATATAGTTTAATTTATAT
1 AAATTAATATAGTTTAATTTATAT
4606090 AAATT-ATATAGTTTAATTTATAT
1 AAATTAATATAGTTTAATTTATAT
4606113 AAA
1 AAA
4606116 GAAAAAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 21 0.81
24 5 0.19
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (24 bp):
AAATTAATATAGTTTAATTTATAT
Found at i:4607400 original size:20 final size:21
Alignment explanation
Indices: 4607363--4607402 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
4607353 AAATTAAGTT
4607363 AAATGAATTTTAAGATTTTAC
1 AAATGAATTTTAAGATTTTAC
4607384 AAATG-ATTTTACA-ATTTTA
1 AAATGAATTTTA-AGATTTTA
4607403 TATTCGATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.42, C:0.05, G:0.07, T:0.45
Consensus pattern (21 bp):
AAATGAATTTTAAGATTTTAC
Found at i:4607779 original size:64 final size:65
Alignment explanation
Indices: 4607619--4607780 Score: 209
Period size: 65 Copynumber: 2.5 Consensus size: 65
4607609 GAATTAATTG
* * **** *
4607619 AAACATCGAATGCATTCCATGCACCGATGCATTCTCCATGCATCGATACACTCTGAATATTTTCA
1 AAACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATACACTCAGAATATTTTCA
* * **
4607684 AAACATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCACTCAGGCTATTTTC-
1 AAACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATACACTCAGAATATTTTCA
*
4607748 AAACATCAAATGCATTTCATGCATCGATGCACA
1 AAACATCGAATGCATTTCATGCATCGATGCACA
4607781 CTTGGTGCAC
Statistics
Matches: 84, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
64 31 0.37
65 53 0.63
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.27
Consensus pattern (65 bp):
AAACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATACACTCAGAATATTTTCA
Found at i:4616005 original size:20 final size:21
Alignment explanation
Indices: 4615968--4616007 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
4615958 AAATTAAGTT
4615968 AAATGAATTTTAAGATTTTAC
1 AAATGAATTTTAAGATTTTAC
4615989 AAAT-AATTTTACA-ATTTTA
1 AAATGAATTTTA-AGATTTTA
4616008 TATTCGATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (21 bp):
AAATGAATTTTAAGATTTTAC
Found at i:4616382 original size:64 final size:65
Alignment explanation
Indices: 4616223--4616384 Score: 209
Period size: 65 Copynumber: 2.5 Consensus size: 65
4616213 TGAATTATTG
* * **** * *
4616223 AAACATCGAATGCATTCCATGCACCGATGCATTCTCCATGCATTGATACACTCTGAATATTTTCA
1 AAACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATACACTCAGAATATTTTCA
* * **
4616288 AAACATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCACTCAGGCTATTTTC-
1 AAACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATACACTCAGAATATTTTCA
4616352 AAACATCGAATGCATTTCATGCATCGATGCACA
1 AAACATCGAATGCATTTCATGCATCGATGCACA
4616385 CTTGGTGCAC
Statistics
Matches: 84, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
64 32 0.38
65 52 0.62
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.28
Consensus pattern (65 bp):
AAACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATACACTCAGAATATTTTCA
Found at i:4627996 original size:17 final size:17
Alignment explanation
Indices: 4627974--4628021 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
4627964 CGGTCACGAC
4627974 CCGACCCGTTGACCCGA
1 CCGACCCGTTGACCCGA
*
4627991 CCGACCCTTTGACCCGA
1 CCGACCCGTTGACCCGA
*
4628008 CTCGA-TCGTTGACC
1 C-CGACCCGTTGACC
4628022 GTTGACCGGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
17 24 0.89
18 3 0.11
ACGTcount: A:0.17, C:0.44, G:0.21, T:0.19
Consensus pattern (17 bp):
CCGACCCGTTGACCCGA
Found at i:4628118 original size:29 final size:29
Alignment explanation
Indices: 4628058--4628125 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
4628048 ATTTAGTTTT
* ** *
4628058 GGTGCTATTCTGGTAATTAATTCGGAATG
1 GGTGCTATTTTGGTAATTAATTCAAAAAG
* *
4628087 GGTGCTATTTTGGTAATTATTTTAAAAAG
1 GGTGCTATTTTGGTAATTAATTCAAAAAG
4628116 GGTGCTATTT
1 GGTGCTATTT
4628126 GTGTAAAATG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.25, C:0.07, G:0.25, T:0.43
Consensus pattern (29 bp):
GGTGCTATTTTGGTAATTAATTCAAAAAG
Found at i:4635467 original size:17 final size:18
Alignment explanation
Indices: 4635435--4635469 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
4635425 TGACCGGTCA
4635435 CGACCCGACCCGTTGACC
1 CGACCCGACCCGTTGACC
*
4635453 CGACCCGA-TCGTTGACC
1 CGACCCGACCCGTTGACC
4635470 GTTGACCGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.17, C:0.46, G:0.23, T:0.14
Consensus pattern (18 bp):
CGACCCGACCCGTTGACC
Found at i:4635540 original size:29 final size:29
Alignment explanation
Indices: 4635477--4635553 Score: 93
Period size: 29 Copynumber: 2.7 Consensus size: 29
4635467 ACCGTTGACC
* ***
4635477 GGTGCTATTCTGGTAAATAATTCGGTTTT
1 GGTGCTATTCTGGTAATTAATTCGGAAAT
4635506 GGTGCTATTCTGGTAATTAATTC-GAAAT
1 GGTGCTATTCTGGTAATTAATTCGGAAAT
*
4635534 GGATGCTATTTTGGTAATTA
1 GG-TGCTATTCTGGTAATTA
4635554 TTTTAAAAAG
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
28 4 0.10
29 38 0.90
ACGTcount: A:0.25, C:0.09, G:0.23, T:0.43
Consensus pattern (29 bp):
GGTGCTATTCTGGTAATTAATTCGGAAAT
Found at i:4635569 original size:29 final size:29
Alignment explanation
Indices: 4635506--4635573 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
4635496 ATTCGGTTTT
* * *
4635506 GGTGCTATTCTGGTAATTAATTCGAAATG
1 GGTGCTATTTTGGTAATTAATTCAAAAAG
* * *
4635535 GATGCTATTTTGGTAATTATTTTAAAAAG
1 GGTGCTATTTTGGTAATTAATTCAAAAAG
4635564 GGTGCTATTT
1 GGTGCTATTT
4635574 GTGTAAAATG
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.28, C:0.07, G:0.22, T:0.43
Consensus pattern (29 bp):
GGTGCTATTTTGGTAATTAATTCAAAAAG
Found at i:4637808 original size:19 final size:20
Alignment explanation
Indices: 4637795--4637836 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
4637785 AATTTTTCTA
4637795 TTCCCTCTAAATTTCTCAAT
1 TTCCCTCTAAATTTCTCAAT
4637815 TTCCCTCTAAATTTC-CAAT
1 TTCCCTCTAAATTTCTCAAT
4637834 TTC
1 TTC
4637837 TCTATATTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.24, C:0.31, G:0.00, T:0.45
Consensus pattern (20 bp):
TTCCCTCTAAATTTCTCAAT
Found at i:4638060 original size:2 final size:2
Alignment explanation
Indices: 4638053--4638107 Score: 69
Period size: 2 Copynumber: 27.5 Consensus size: 2
4638043 CTTAGTGTGA
*
4638053 AT AT AT AT A- AGT AT AT AC AT CA- AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT A-T AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT
4638095 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
4638108 ATTAAATGTT
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
1 2 0.04
2 43 0.91
3 2 0.04
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.44
Consensus pattern (2 bp):
AT
Found at i:4638314 original size:17 final size:18
Alignment explanation
Indices: 4638292--4638330 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
4638282 TTAGGAAATT
4638292 TTGAGAATATAG-GGAAA
1 TTGAGAATATAGAGGAAA
*
4638309 TTGAGAATTTAGAAGGAAA
1 TTGAGAATATAG-AGGAAA
4638328 TTG
1 TTG
4638331 GGAAATTTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 11 0.58
19 8 0.42
ACGTcount: A:0.44, C:0.00, G:0.28, T:0.28
Consensus pattern (18 bp):
TTGAGAATATAGAGGAAA
Found at i:4638326 original size:19 final size:18
Alignment explanation
Indices: 4638292--4638343 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 18
4638282 TTAGGAAATT
*
4638292 TTGAGAATATAG-GGAAA
1 TTGAGAATTTAGAGGAAA
4638309 TTGAGAATTTAGAAGGAAA
1 TTGAGAATTTAG-AGGAAA
*
4638328 TTGGGAAATTTAGAGG
1 TTGAG-AATTTAGAGG
4638344 GAATAGAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 11 0.37
19 12 0.40
20 7 0.23
ACGTcount: A:0.42, C:0.00, G:0.31, T:0.27
Consensus pattern (18 bp):
TTGAGAATTTAGAGGAAA
Found at i:4638339 original size:20 final size:19
Alignment explanation
Indices: 4638292--4638346 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 19
4638282 TTAGGAAATT
*
4638292 TTGAGAATATAG--GGAAA
1 TTGAGAATTTAGAAGGAAA
4638309 TTGAGAATTTAGAAGGAAA
1 TTGAGAATTTAGAAGGAAA
* *
4638328 TTGGGAAATTTAGAGGGAA
1 TTGAG-AATTTAGAAGGAA
4638347 TAGAAAATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
17 11 0.34
19 9 0.28
20 12 0.38
ACGTcount: A:0.44, C:0.00, G:0.31, T:0.25
Consensus pattern (19 bp):
TTGAGAATTTAGAAGGAAA
Found at i:4638672 original size:14 final size:14
Alignment explanation
Indices: 4638653--4638679 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
4638643 TATATTTAAA
4638653 CTATATATATATAC
1 CTATATATATATAC
4638667 CTATATATATATA
1 CTATATATATATA
4638680 TATAAATATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.44
Consensus pattern (14 bp):
CTATATATATATAC
Found at i:4638882 original size:17 final size:15
Alignment explanation
Indices: 4638853--4638888 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
4638843 CTATATATTT
4638853 TATATAGTTTATACA
1 TATATAGTTTATACA
*
4638868 TATATAGTTTATATA
1 TATATAGTTTATACA
4638883 TATATA
1 TATATA
4638889 TATATATACT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.50
Consensus pattern (15 bp):
TATATAGTTTATACA
Found at i:4638901 original size:15 final size:15
Alignment explanation
Indices: 4638807--4638902 Score: 54
Period size: 15 Copynumber: 6.4 Consensus size: 15
4638797 ATGCACACAC
4638807 ATATATACTATAT-T
1 ATATATACTATATAT
* * *
4638821 AATATAAATTATA-AC
1 -ATATATACTATATAT
*
4638836 ATATAAACTATATATT
1 ATATATACTATATA-T
* * * *
4638852 TTATATAGTTTATAC
1 ATATATACTATATAT
* *
4638867 ATATATAGTTTATAT
1 ATATATACTATATAT
4638882 ATATATA-TATATAT
1 ATATATACTATATAT
4638896 ACTATAT
1 A-TATAT
4638903 TAATATAAAT
Statistics
Matches: 64, Mismatches: 13, Indels: 8
0.75 0.15 0.09
Matches are distributed among these distances:
14 18 0.28
15 36 0.56
16 10 0.16
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.47
Consensus pattern (15 bp):
ATATATACTATATAT
Found at i:4638984 original size:13 final size:13
Alignment explanation
Indices: 4638956--4639175 Score: 80
Period size: 13 Copynumber: 16.3 Consensus size: 13
4638946 ATATACTTTT
4638956 TATAGTTTATACATA
1 TATAGTTTAT--ATA
4638971 TATAGTTTATATA
1 TATAGTTTATATA
* * *
4638984 TAAAGTTCACATAAA
1 TATAGTT--TATATA
* *
4638999 CATAATTTATATA
1 TATAGTTTATATA
4639012 TATAGCTTATAATAATTA
1 TATAG-TT-T-AT-A-TA
4639030 TATAGTTTATA-A
1 TATAGTTTATATA
*
4639042 TA-A-TTATATAGTT
1 TATAGTT-TATA-TA
*
4639055 TATAATTTTATATA
1 TAT-AGTTTATATA
*
4639069 CATAGTTTATATA
1 TATAGTTTATATA
* * *
4639082 CATAGTTCACATAAA
1 TATAGTT--TATATA
*
4639097 TATAATTTATATA
1 TATAGTTTATATA
4639110 TATAGTTTATA-A
1 TATAGTTTATATA
4639122 TA-A--TTATATA
1 TATAGTTTATATA
* * *
4639132 GTTTA-TAATATAAA
1 -TATAGT-TTATATA
4639146 TATAGTTTATATA
1 TATAGTTTATATA
*
4639159 TA-ATTTTATATTA
1 TATAGTTTATA-TA
4639172 TATA
1 TATA
4639176 TATTATATTT
Statistics
Matches: 154, Mismatches: 28, Indels: 47
0.67 0.12 0.21
Matches are distributed among these distances:
9 5 0.03
10 3 0.02
11 7 0.05
12 14 0.09
13 62 0.40
14 13 0.08
15 35 0.23
16 5 0.03
17 3 0.02
18 7 0.05
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.47
Consensus pattern (13 bp):
TATAGTTTATATA
Found at i:4639059 original size:15 final size:18
Alignment explanation
Indices: 4639010--4639168 Score: 115
Period size: 18 Copynumber: 8.3 Consensus size: 18
4639000 ATAATTTATA
*
4639010 TATATAGCTTATAATAAT
1 TATATAGTTTATAATAAT
4639028 TATATAGTTTATAATAAT
1 TATATAGTTTATAATAAT
*
4639046 TATATAGTTTATAATTTTAT
1 TATATAGTTTATAA--TAAT
* *
4639066 ATACATAGTTTATATACATAGT
1 -TATATAG-TT-TATA-ATAAT
* ** *
4639088 TCACATA-AATATAATTTAT
1 T-ATATAGTTTATAA-TAAT
4639107 ATATATAGTTTATAATAAT
1 -TATATAGTTTATAATAAT
4639126 TATATAGTTTATAAT-AT
1 TATATAGTTTATAATAAT
*
4639143 AAATATAGTTTATATATAAT
1 -TATATAGTTTATA-ATAAT
*
4639163 TTTATA
1 TATATA
4639169 TTATATATAT
Statistics
Matches: 112, Mismatches: 16, Indels: 25
0.73 0.10 0.16
Matches are distributed among these distances:
17 2 0.02
18 59 0.53
19 19 0.17
20 11 0.10
21 7 0.06
22 9 0.08
23 4 0.04
24 1 0.01
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.48
Consensus pattern (18 bp):
TATATAGTTTATAATAAT
Found at i:4639102 original size:98 final size:99
Alignment explanation
Indices: 4638954--4639156 Score: 311
Period size: 98 Copynumber: 2.1 Consensus size: 99
4638944 TTATATACTT
* * *
4638954 TTTATAGTTTATACATATATAGTTTATATATAAAGTTCACATAAACATAATTTATATATATAGCT
1 TTTATAATTTATACATACATAGTTTATATACAAAGTTCACATAAACATAATTTATATATATAGCT
*
4639019 TATAATAATTATATAGTTTATAATA-ATTATATAG
66 TATAATAATTATATAGTTTATAATATA-AATATAG
* * * *
4639053 TTTATAATTT-TATATACATAGTTTATATACATAGTTCACATAAATATAATTTATATATATAGTT
1 TTTATAATTTATACATACATAGTTTATATACAAAGTTCACATAAACATAATTTATATATATAGCT
4639117 TATAATAATTATATAGTTTATAATATAAATATAG
66 TATAATAATTATATAGTTTATAATATAAATATAG
4639151 TTTATA
1 TTTATA
4639157 TATAATTTTA
Statistics
Matches: 95, Mismatches: 8, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
98 85 0.89
99 10 0.11
ACGTcount: A:0.43, C:0.04, G:0.05, T:0.47
Consensus pattern (99 bp):
TTTATAATTTATACATACATAGTTTATATACAAAGTTCACATAAACATAATTTATATATATAGCT
TATAATAATTATATAGTTTATAATATAAATATAG
Found at i:4648873 original size:7 final size:7
Alignment explanation
Indices: 4648858--4648888 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
4648848 AATCAAAGAT
4648858 AAAGCAG
1 AAAGCAG
*
4648865 AAAGAAG
1 AAAGCAG
4648872 AAAGCAG
1 AAAGCAG
4648879 AAAGCAG
1 AAAGCAG
4648886 AAA
1 AAA
4648889 ACCAATCATC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.65, C:0.10, G:0.26, T:0.00
Consensus pattern (7 bp):
AAAGCAG
Found at i:4649254 original size:15 final size:15
Alignment explanation
Indices: 4649236--4649266 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4649226 AAATTCTAAA
4649236 TATTTAAATAAAAAT
1 TATTTAAATAAAAAT
*
4649251 TATTTATATAAAAAT
1 TATTTAAATAAAAAT
4649266 T
1 T
4649267 CTATTTGTTG
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:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TATTTAAATAAAAAT
Found at i:4653186 original size:27 final size:24
Alignment explanation
Indices: 4653152--4653206 Score: 92
Period size: 24 Copynumber: 2.3 Consensus size: 24
4653142 CCAAGTCGAA
*
4653152 GAAGAAGAATATTTTAGCCCGAGC
1 GAAGAAGAAGATTTTAGCCCGAGC
4653176 GAAGAAGAAGATTTTAGCCCGAGC
1 GAAGAAGAAGATTTTAGCCCGAGC
*
4653200 AAAGAAG
1 GAAGAAG
4653207 TAGGGAGAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.42, C:0.15, G:0.27, T:0.16
Consensus pattern (24 bp):
GAAGAAGAAGATTTTAGCCCGAGC
Found at i:4653869 original size:21 final size:21
Alignment explanation
Indices: 4653840--4653892 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
4653830 ATTCTGACTA
4653840 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCGATTTCCCAAAT
* * *
4653861 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTCCCAAAT
*
4653882 TCGCAATGCGA
1 TCGCATTGCGA
4653893 ATACGTAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTCCCAAAT
Found at i:4653907 original size:20 final size:20
Alignment explanation
Indices: 4653882--4654036 Score: 197
Period size: 20 Copynumber: 7.7 Consensus size: 20
4653872 TTTTCCTAAT
4653882 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* * *
4653902 TCGCAACGCAAATTTA-GAAAA
1 TCGCAATGCGAA--TACGTAAA
*
4653923 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
* *
4653943 TCGCAACGCGAATTTA-GAAAA
1 TCGCAATGCGAA--TACGTAAA
*
4653964 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
4653984 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
4654004 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
4654024 TCGCAATGCGAAT
1 TCGCAATGCGAAT
4654037 CTGACTATCG
Statistics
Matches: 115, Mismatches: 14, Indels: 12
0.82 0.10 0.09
Matches are distributed among these distances:
19 4 0.03
20 80 0.70
21 27 0.23
22 4 0.03
ACGTcount: A:0.39, C:0.20, G:0.19, T:0.21
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:4653925 original size:21 final size:20
Alignment explanation
Indices: 4653899--4653969 Score: 81
Period size: 21 Copynumber: 3.5 Consensus size: 20
4653889 GCGAATACGT
4653899 AAATCGCAACGCAAATTTAGA
1 AAATCGCAACGC-AATTTAGA
* * *
4653920 AAATCGCAATGCGA-TTACGT
1 AAATCGCAACGCAATTTA-GA
4653940 AAATCGCAACGCGAATTTAGA
1 AAATCGCAACGC-AATTTAGA
4653961 AAATCGCAA
1 AAATCGCAA
4653970 TGCGATTACG
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
19 3 0.07
20 13 0.32
21 22 0.54
22 3 0.07
ACGTcount: A:0.44, C:0.20, G:0.17, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCAATTTAGA
Found at i:4653928 original size:41 final size:41
Alignment explanation
Indices: 4653882--4654054 Score: 235
Period size: 41 Copynumber: 4.3 Consensus size: 41
4653872 TTTTCCTAAT
*
4653882 TCGCAATGCGAATACGTAAATCGCAACGCAAATTTAGAAAA
1 TCGCAATGCGAATACGTAAATCGCAACGCGAATTTAGAAAA
*
4653923 TCGCAATGCGATTACGTAAATCGCAACGCGAATTTAGAAAA
1 TCGCAATGCGAATACGTAAATCGCAACGCGAATTTAGAAAA
* * *
4653964 TCGCAATGCGATTACGTAAATCGCAATGCGAA--TACGTAAA
1 TCGCAATGCGAATACGTAAATCGCAACGCGAATTTA-GAAAA
* * **
4654004 TCGCAATGCGAATACGTAAATCGCAATGCGAATCT-GACTA
1 TCGCAATGCGAATACGTAAATCGCAACGCGAATTTAGAAAA
4654044 TCGCAATGCGA
1 TCGCAATGCGA
4654055 TTTACATAGC
Statistics
Matches: 121, Mismatches: 8, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
39 2 0.02
40 48 0.40
41 70 0.58
42 1 0.01
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.21
Consensus pattern (41 bp):
TCGCAATGCGAATACGTAAATCGCAACGCGAATTTAGAAAA
Found at i:4653985 original size:61 final size:60
Alignment explanation
Indices: 4653882--4654034 Score: 184
Period size: 61 Copynumber: 2.5 Consensus size: 60
4653872 TTTTCCTAAT
* * * * * *
4653882 TCGCAATGCGAATACGTAAATCGCAACGCAAATTTA-GAAAATCGCAATGCGATTACGTAAA
1 TCGCAACGCGAATACGAAAATCGCAATGC-GA-TTACGTAAATCGCAATGCGAATACGTAAA
4653943 TCGCAACGCGAATTTA-GAAAATCGCAATGCGATTACGTAAATCGCAATGCGAATACGTAAA
1 TCGCAACGCGAA--TACGAAAATCGCAATGCGATTACGTAAATCGCAATGCGAATACGTAAA
* *
4654004 TCGCAATGCGAATACGTAAATCGCAATGCGA
1 TCGCAACGCGAATACGAAAATCGCAATGCGA
4654035 ATCTGACTAT
Statistics
Matches: 80, Mismatches: 8, Indels: 9
0.82 0.08 0.09
Matches are distributed among these distances:
59 2 0.03
60 18 0.22
61 46 0.57
62 12 0.15
63 2 0.03
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.21
Consensus pattern (60 bp):
TCGCAACGCGAATACGAAAATCGCAATGCGATTACGTAAATCGCAATGCGAATACGTAAA
Found at i:4654257 original size:22 final size:22
Alignment explanation
Indices: 4654232--4654297 Score: 96
Period size: 22 Copynumber: 3.0 Consensus size: 22
4654222 GGCGACATCC
4654232 GTCCCCATCTCCGACGAAATCA
1 GTCCCCATCTCCGACGAAATCA
* *
4654254 GTCCCCATCGCCGACGATATCA
1 GTCCCCATCTCCGACGAAATCA
* *
4654276 GTCTCCATCTCCGGCGAAATCA
1 GTCCCCATCTCCGACGAAATCA
4654298 TTCACGGTCA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.24, C:0.39, G:0.17, T:0.20
Consensus pattern (22 bp):
GTCCCCATCTCCGACGAAATCA
Found at i:4654676 original size:20 final size:20
Alignment explanation
Indices: 4654634--4654702 Score: 104
Period size: 20 Copynumber: 3.5 Consensus size: 20
4654624 CGATTCTGTC
*
4654634 GTTGCGATTTTCA-TTTCGC
1 GTTGCGATTTTCATTTTCGT
**
4654653 GTTGCGATAGTCATTTTCGT
1 GTTGCGATTTTCATTTTCGT
4654673 GTTGCGATTTTCATTTTCGT
1 GTTGCGATTTTCATTTTCGT
4654693 GTTGCGATTT
1 GTTGCGATTT
4654703 AAAGTTTCAG
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
19 11 0.25
20 33 0.75
ACGTcount: A:0.12, C:0.16, G:0.23, T:0.49
Consensus pattern (20 bp):
GTTGCGATTTTCATTTTCGT
Found at i:4654710 original size:20 final size:20
Alignment explanation
Indices: 4654667--4654710 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
4654657 CGATAGTCAT
** *
4654667 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTAAAG
4654687 TTTCGTGTTGCGATTTAAAG
1 TTTCGTGTTGCGATTTAAAG
4654707 TTTC
1 TTTC
4654711 AGAAACTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.14, C:0.14, G:0.20, T:0.52
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTAAAG
Found at i:4655770 original size:61 final size:61
Alignment explanation
Indices: 4655662--4655823 Score: 254
Period size: 61 Copynumber: 2.7 Consensus size: 61
4655652 ACTATGATTA
* **
4655662 TTATTTTAAATTAGTCTTCAAAC-TTTTGAACATTTCAATTATATCCCCAAAATATAAAAT
1 TTATTCTAAATTAGTCCCCAAACTTTTTGAACATTTCAATTATATCCCCAAAATATAAAAT
* * *
4655722 TTATTCTAAATTAGTCCCCAAACTTTTTGAACATTTCAATTGTATCCCCAAAATATGAACT
1 TTATTCTAAATTAGTCCCCAAACTTTTTGAACATTTCAATTATATCCCCAAAATATAAAAT
*
4655783 TCATTCTAAATTAGTCCCCAAACTTTTTGAACATTTCAATT
1 TTATTCTAAATTAGTCCCCAAACTTTTTGAACATTTCAATT
4655824 TCATTCCCAA
Statistics
Matches: 94, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
60 20 0.21
61 74 0.79
ACGTcount: A:0.36, C:0.19, G:0.05, T:0.40
Consensus pattern (61 bp):
TTATTCTAAATTAGTCCCCAAACTTTTTGAACATTTCAATTATATCCCCAAAATATAAAAT
Found at i:4655772 original size:30 final size:30
Alignment explanation
Indices: 4655732--4655824 Score: 93
Period size: 30 Copynumber: 3.1 Consensus size: 30
4655722 TTATTCTAAA
4655732 TTAGTCCCCAAACTTTTTGAACATTTCAAT
1 TTAGTCCCCAAACTTTTTGAACATTTCAAT
* * * *
4655762 TGTA-TCCCCAAA--ATATGAACTTCATTCTAAA
1 T-TAGTCCCCAAACTTTTTGAACAT--TTC-AAT
4655793 TTAGTCCCCAAACTTTTTGAACATTTCAAT
1 TTAGTCCCCAAACTTTTTGAACATTTCAAT
4655823 TT
1 TT
4655825 CATTCCCAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 14
0.69 0.11 0.20
Matches are distributed among these distances:
28 7 0.15
30 18 0.38
31 16 0.33
33 7 0.15
ACGTcount: A:0.32, C:0.23, G:0.06, T:0.39
Consensus pattern (30 bp):
TTAGTCCCCAAACTTTTTGAACATTTCAAT
Found at i:4655803 original size:31 final size:30
Alignment explanation
Indices: 4655705--4655804 Score: 80
Period size: 31 Copynumber: 3.3 Consensus size: 30
4655695 TTCAATTATA
* *
4655705 TCCCCAAAATATAAAATTTATTCTAAATTAG
1 TCCCCAAAATAT-GAACTTATTCTAAATTAG
* * * *
4655736 TCCCCAAACTTTTTGAACAT-TTC-AATTGTA-
1 TCCCCAAA--ATATGAACTTATTCTAAAT-TAG
4655766 TCCCCAAAATATGAACTTCATTCTAAATTAG
1 TCCCCAAAATATGAACTT-ATTCTAAATTAG
4655797 TCCCCAAA
1 TCCCCAAA
4655805 CTTTTTGAAC
Statistics
Matches: 52, Mismatches: 10, Indels: 14
0.68 0.13 0.18
Matches are distributed among these distances:
28 7 0.13
30 16 0.31
31 24 0.46
32 3 0.06
33 2 0.04
ACGTcount: A:0.38, C:0.23, G:0.05, T:0.34
Consensus pattern (30 bp):
TCCCCAAAATATGAACTTATTCTAAATTAG
Found at i:4656074 original size:3 final size:3
Alignment explanation
Indices: 4656066--4656103 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
4656056 GAATTAACTC
4656066 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
4656104 TCACTGTCGG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:4658613 original size:16 final size:16
Alignment explanation
Indices: 4658592--4658626 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
4658582 GTTTCTCACT
4658592 TGTTCTTCACTTGTTG
1 TGTTCTTCACTTGTTG
4658608 TGTTCTTCACTTGTTG
1 TGTTCTTCACTTGTTG
4658624 TGT
1 TGT
4658627 GTCATGGGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.06, C:0.17, G:0.20, T:0.57
Consensus pattern (16 bp):
TGTTCTTCACTTGTTG
Found at i:4663573 original size:2 final size:2
Alignment explanation
Indices: 4663566--4663604 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
4663556 ACACTTAATC
4663566 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4663605 CTAATAAATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4664693 original size:3 final size:3
Alignment explanation
Indices: 4664685--4664728 Score: 51
Period size: 3 Copynumber: 16.0 Consensus size: 3
4664675 TTTGTTTTAT
*
4664685 TTA TTA TTA TTA TT- TTG TT- TTA TTA TTA -TA TTA -TA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
4664729 AATAATTAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
2 8 0.22
3 29 0.78
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:4664709 original size:16 final size:16
Alignment explanation
Indices: 4664682--4664728 Score: 60
Period size: 16 Copynumber: 3.0 Consensus size: 16
4664672 TCATTTGTTT
4664682 TATT-TATTATTATTA
1 TATTATATTATTATTA
* * *
4664697 TTTTGTTTTATTATTA
1 TATTATATTATTATTA
4664713 TATTATATTATTATTA
1 TATTATATTATTATTA
4664729 AATAATTAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
15 3 0.12
16 23 0.88
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (16 bp):
TATTATATTATTATTA
Found at i:4664721 original size:23 final size:23
Alignment explanation
Indices: 4664675--4664718 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
4664665 TTTTATTTCA
4664675 TTTGTTTTATTTATTATTATTAT
1 TTTGTTTTATTTATTATTATTAT
4664698 TTTGTTTTA-TTATTA-TATTAT
1 TTTGTTTTATTTATTATTATTAT
4664719 ATTATTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 6 0.29
22 6 0.29
23 9 0.43
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.73
Consensus pattern (23 bp):
TTTGTTTTATTTATTATTATTAT
Found at i:4665889 original size:28 final size:27
Alignment explanation
Indices: 4665857--4665913 Score: 78
Period size: 28 Copynumber: 2.1 Consensus size: 27
4665847 TTATAATTCT
*
4665857 TTATTTTCAAAATTTTTATATATACTTA
1 TTATTTTCAAAATATTTATATATA-TTA
* *
4665885 TTATTTTCATAGTATTTATATATATTA
1 TTATTTTCAAAATATTTATATATATTA
4665912 TT
1 TT
4665914 TTATTAATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 5 0.19
28 21 0.81
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (27 bp):
TTATTTTCAAAATATTTATATATATTA
Found at i:4665934 original size:24 final size:24
Alignment explanation
Indices: 4665877--4665934 Score: 57
Period size: 24 Copynumber: 2.4 Consensus size: 24
4665867 AATTTTTATA
* *
4665877 TATACTTATTATTTTCATAGTATT
1 TATATTTATTATTTTCATAATATT
*
4665901 TATATATATTATTTT-ATTAATATT
1 TATATTTATTATTTTCA-TAATATT
4665925 TCAT-TTTATT
1 T-ATATTTATT
4665935 TGCAAGTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
23 1 0.04
24 25 0.89
25 2 0.07
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (24 bp):
TATATTTATTATTTTCATAATATT
Found at i:4670772 original size:7 final size:7
Alignment explanation
Indices: 4670756--4670861 Score: 95
Period size: 7 Copynumber: 13.9 Consensus size: 7
4670746 AGTAAAGAAA
4670756 AAAAAAG
1 AAAAAAG
*
4670763 AAAAATG
1 AAAAAAG
4670770 AAAAAAG
1 AAAAAAG
4670777 ATGAAAAATG
1 A--AAAAA-G
4670787 AAAAAAAG
1 -AAAAAAG
4670795 AAAAAATGAG
1 -AAAAA--AG
4670805 AAAAAAG
1 AAAAAAG
4670812 AAAAAAG
1 AAAAAAG
4670819 AAAAAAAG
1 -AAAAAAG
4670827 AAAAAAG
1 AAAAAAG
*
4670834 ATGAAAAG
1 A-AAAAAG
*
4670842 GAAAAAG
1 AAAAAAG
*
4670849 GAAAAAG
1 AAAAAAG
4670856 AAAAAA
1 AAAAAA
4670862 AAGGGAAAAA
Statistics
Matches: 85, Mismatches: 6, Indels: 16
0.79 0.06 0.15
Matches are distributed among these distances:
7 47 0.55
8 19 0.22
9 15 0.18
10 3 0.04
11 1 0.01
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.05
Consensus pattern (7 bp):
AAAAAAG
Found at i:4670774 original size:8 final size:8
Alignment explanation
Indices: 4670749--4670864 Score: 89
Period size: 8 Copynumber: 14.5 Consensus size: 8
4670739 CTCATCAAGT
4670749 AAAGAAAA
1 AAAGAAAA
4670757 AAA-AAGAA
1 AAAGAA-AA
4670765 AAATG-AAA
1 AAA-GAAAA
4670773 AAAGATGAAA
1 AAAGA--AAA
*
4670783 AATGAAAA
1 AAAGAAAA
4670791 AAAGAAAA
1 AAAGAAAA
*
4670799 AATGAGAAA
1 AAAGA-AAA
4670808 AAAG-AAA
1 AAAGAAAA
4670815 AAAGAAAA
1 AAAGAAAA
4670823 AAAG-AAA
1 AAAGAAAA
**
4670830 AAAGATGA
1 AAAGAAAA
*
4670838 AAAGGAAA
1 AAAGAAAA
*
4670846 AAGGAAAA
1 AAAGAAAA
*
4670854 AGA-AAAA
1 AAAGAAAA
4670861 AAAG
1 AAAG
4670865 GGAAAAAGAG
Statistics
Matches: 84, Mismatches: 14, Indels: 20
0.71 0.12 0.17
Matches are distributed among these distances:
7 23 0.27
8 47 0.56
9 7 0.08
10 7 0.08
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.04
Consensus pattern (8 bp):
AAAGAAAA
Found at i:4670791 original size:32 final size:31
Alignment explanation
Indices: 4670755--4670871 Score: 114
Period size: 31 Copynumber: 3.7 Consensus size: 31
4670745 AAGTAAAGAA
*
4670755 AAAAAAAGAAAAATGA-AAAAAGATGAAAAATG
1 AAAAAAAGAAAAATGAGAAAAA-A-GAAAAAAG
4670787 AAAAAAAGAAAAAATGAGAAAAAAGAAAAAAG
1 AAAAAAAG-AAAAATGAGAAAAAAGAAAAAAG
* * *
4670819 AAAAAAAGAAAAAAGATG-AAAAGGAAAAAGG
1 AAAAAAAGAAAAATGA-GAAAAAAGAAAAAAG
* *
4670850 AAAAAGAA-AAAAAAGGGAAAAA
1 AAAAA-AAGAAAAATGAGAAAAA
4670872 GAGAGAGGAG
Statistics
Matches: 75, Mismatches: 5, Indels: 11
0.82 0.05 0.12
Matches are distributed among these distances:
30 1 0.01
31 34 0.45
32 26 0.35
33 9 0.12
34 5 0.07
ACGTcount: A:0.78, C:0.00, G:0.18, T:0.04
Consensus pattern (31 bp):
AAAAAAAGAAAAATGAGAAAAAAGAAAAAAG
Found at i:4670873 original size:17 final size:17
Alignment explanation
Indices: 4670752--4670871 Score: 95
Period size: 17 Copynumber: 6.9 Consensus size: 17
4670742 ATCAAGTAAA
*
4670752 GAAAAAAAAAGAAAAAT
1 GAAAAAAAAGGAAAAAT
* *
4670769 GAAAAAAGATGAAAAAT
1 GAAAAAAAAGGAAAAAT
*
4670786 G-AAAAAAAGAAAAAAT
1 GAAAAAAAAGGAAAAAT
* *
4670802 GAGAAAAAA-GAAAAAA
1 GAAAAAAAAGGAAAAAT
*
4670818 G-AAAAAAAGAAAAAAGAT
1 GAAAAAAAAG-GAAAA-AT
4670836 GAAAAGGAAAAAGGAAAAA-
1 G-AAA--AAAAAGGAAAAAT
4670855 GAAAAAAAAGGGAAAAA
1 GAAAAAAAA-GGAAAAA
4670872 GAGAGAGGAG
Statistics
Matches: 82, Mismatches: 12, Indels: 18
0.73 0.11 0.16
Matches are distributed among these distances:
15 6 0.07
16 24 0.29
17 33 0.40
18 5 0.06
19 1 0.01
20 3 0.04
21 4 0.05
22 6 0.07
ACGTcount: A:0.78, C:0.00, G:0.18, T:0.04
Consensus pattern (17 bp):
GAAAAAAAAGGAAAAAT
Found at i:4671413 original size:32 final size:32
Alignment explanation
Indices: 4671377--4671439 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
4671367 GTCAGACACA
*
4671377 AGAAGTATCACTACCAGATGAGCATAACAACG
1 AGAAGTATCACTACAAGATGAGCATAACAACG
* *
4671409 AGAAGTATCTCTATAAGATGAGCATAACAAC
1 AGAAGTATCACTACAAGATGAGCATAACAAC
4671440 CATTTTTTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.44, C:0.19, G:0.17, T:0.19
Consensus pattern (32 bp):
AGAAGTATCACTACAAGATGAGCATAACAACG
Found at i:4673803 original size:31 final size:31
Alignment explanation
Indices: 4673765--4673920 Score: 260
Period size: 31 Copynumber: 5.0 Consensus size: 31
4673755 CCCGAAGGAC
* *
4673765 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TTCCGAAGAACATAGGTAAA
* *
4673796 CAGTCCATATGTCCCGAAGGACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
4673827 CAGTCCATATGTTCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
4673858 CAGTCCATATGTTCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
4673889 CAGTCCATATGTTCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
4673920 C
1 C
4673921 CCTCGACCCT
Statistics
Matches: 118, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
31 117 0.99
32 1 0.01
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.22
Consensus pattern (31 bp):
CAGTCCATATGTTCCGAAGAACATAGGTAAA
Found at i:4674124 original size:23 final size:24
Alignment explanation
Indices: 4674098--4674144 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
4674088 ATATACTTGT
*
4674098 TTTCACATATATA-TTTCATATCA
1 TTTCACATATACACTTTCATATCA
4674121 TTTCACATATACACTTTCATATCA
1 TTTCACATATACACTTTCATATCA
4674145 CATGCCATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.34, C:0.21, G:0.00, T:0.45
Consensus pattern (24 bp):
TTTCACATATACACTTTCATATCA
Found at i:4674728 original size:21 final size:21
Alignment explanation
Indices: 4674698--4674742 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
4674688 ATTCTGTCGT
* *
4674698 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
4674719 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
4674740 TTG
1 TTG
4674743 CCCAGAAATC
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:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:4676518 original size:35 final size:35
Alignment explanation
Indices: 4676467--4676533 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
4676457 TTCAACCAGA
4676467 AATAGAATATTGGGGCATT-TTGAAGGCTCATAAC
1 AATAGAATATTGGGGCATTCTTGAAGGCTCATAAC
* *
4676501 AATATGAATATTTGGGCATTCTTGGAGGCTCAT
1 AATA-GAATATTGGGGCATTCTTGAAGGCTCAT
4676534 CTCAACAAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 4 0.14
35 14 0.48
36 11 0.38
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.33
Consensus pattern (35 bp):
AATAGAATATTGGGGCATTCTTGAAGGCTCATAAC
Found at i:4678062 original size:22 final size:22
Alignment explanation
Indices: 4678034--4678088 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
4678024 ATCTACATTC
4678034 TTCAAAGATGATAAATTCTCTT
1 TTCAAAGATGATAAATTCTCTT
* *
4678056 TTTAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAAATTCTCTT
*
4678078 TTCGAAGATGA
1 TTCAAAGATGA
4678089 AAGCTTTATT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.40
Consensus pattern (22 bp):
TTCAAAGATGATAAATTCTCTT
Found at i:4679243 original size:116 final size:113
Alignment explanation
Indices: 4678889--4679423 Score: 685
Period size: 113 Copynumber: 4.7 Consensus size: 113
4678879 CATTTCCAGA
* * *
4678889 AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAATAAGTTCATAATTAGAAGAACTTGT
1 AGAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGT
* * *
4678954 TCAAACTTTTCGCTTAAATTCATCATTCGATGGATCAACATTGCCAGGT
66 TCAACCTTTT-GCTTAAATTCATCACTCGATGGATCAGCATTGCCAGGT
* * *
4679003 AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATTAGAAGAACTTGT
1 AGAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGT
* * * * *
4679068 TCAACCTTTTGCTCAAATTCATCACTCGGTAGATCGGCAGTGCCAGGT
66 TCAACCTTTTGCTTAAATTCATCACTCGATGGATCAGCATTGCCAGGT
* *
4679116 AGAGTTCATAATGAGAAGAACTTATATGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAATTTTT
1 AGAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAA--CTT
* * * * * *
4679181 GTTTTAACCTTTTGCTTTAATTCATCACCCGATGGATTATCATTGCCAGTT
64 G-TTCAACCTTTTGCTTAAATTCATCACTCGATGGATCAGCATTGCCAGGT
* *
4679232 AGAGTTCATAATGAGAATAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAATTTGT
1 AGAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGT
* * * * * * *
4679297 TCAACCTTTCGCTTTAATTCATCACTTGAGGGATTAGCTTTTCCAGAG-
66 TCAACCTTTTGCTTAAATTCATCACTCGATGGATCAGCATTGCCAG-GT
* * * *
4679345 AAAATTCATAATGAGAAGAACTTATCTGAAGAAGAAGAAGAAGAAGTTCATAATGAGAAGAGCTT
1 AGAGTTCATAATGAGAAGAACTTATCTGAAGAAG--GAAGAAGAAGTTCATAATAAGAAGAACTT
4679410 GTTCAACCTTTTGC
64 GTTCAACCTTTTGC
4679424 ATAACTCTTT
Statistics
Matches: 371, Mismatches: 44, Indels: 11
0.87 0.10 0.03
Matches are distributed among these distances:
113 157 0.42
114 76 0.20
115 42 0.11
116 96 0.26
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (113 bp):
AGAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGT
TCAACCTTTTGCTTAAATTCATCACTCGATGGATCAGCATTGCCAGGT
Found at i:4679291 original size:229 final size:227
Alignment explanation
Indices: 4678884--4679421 Score: 688
Period size: 229 Copynumber: 2.4 Consensus size: 227
4678874 TTAAACATTT
* * *
4678884 CCAGA-AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAATAAGTTCATAATTAGAAGA
1 CCAGAGAGAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGA
**
4678948 ACTTGTTCAAACTTTTCGCTTAAATTCATCATTCGATGGATCAACATTGCCAGGTAGAGTTCATA
66 ACTTGTTCAAACTTTTCGCTTAAATTCATCACCCGATGGATCAACATTGCCAGGTAGAGTTCATA
* *
4679013 ATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATTAGAAGAACTTGTTCAACCTTTT
131 ATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATAAGAAGAACTTGTTCAACCTTTC
*
4679078 GCTCAAATTCATCACTCG-GTAGATCGGCAGTG
196 GCTCAAATTCATCACTCGAG-AGATCAGCAGTG
*
4679110 CCAG-GTAGAGTTCATAATGAGAAGAACTTATATGAAGAAGGAAGAAGAAGTTCATAATAAGAAG
1 CCAGAG-AGAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAG
* * * * * * *
4679174 AATTTTTGTTTTAACCTTTT-GCTTTAATTCATCACCCGATGGATTATCATTGCCAGTTAGAGTT
65 AA--CTTG-TTCAAACTTTTCGCTTAAATTCATCACCCGATGGATCAACATTGCCAGGTAGAGTT
* * * *
4679238 CATAATGAGAATAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACC
127 CATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATAAGAAGAACTTGTTCAACC
** * * * ** *
4679303 TTTCGCTTTAATTCATCACTTGAGGGATTAGCTTTT
192 TTTCGCTCAAATTCATCACTCGAGAGATCAGCAGTG
* * *
4679339 CCAGAGAAAATTCATAATGAGAAGAACTTATCTGAAGAAGAAGAAGAAGAAGTTCATAATGAGAA
1 CCAGAGAGAGTTCATAATGAGAAGAACTTATCTGAAGAAG--GAAGAAGAAGTTCATAATAAGAA
* *
4679404 GAGCTTGTTCAACCTTTT
64 GAACTTGTTCAAACTTTT
4679422 GCATAACTCT
Statistics
Matches: 268, Mismatches: 35, Indels: 16
0.84 0.11 0.05
Matches are distributed among these distances:
226 4 0.01
227 56 0.21
228 10 0.04
229 163 0.61
230 11 0.04
231 24 0.09
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (227 bp):
CCAGAGAGAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGA
ACTTGTTCAAACTTTTCGCTTAAATTCATCACCCGATGGATCAACATTGCCAGGTAGAGTTCATA
ATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATAAGAAGAACTTGTTCAACCTTTC
GCTCAAATTCATCACTCGAGAGATCAGCAGTG
Found at i:4679969 original size:16 final size:17
Alignment explanation
Indices: 4679948--4679992 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
4679938 TTTTACTTTC
*
4679948 ATATATTTATGATTA-T
1 ATATATTTATCATTAGT
4679964 ATATATTTATCATTAGT
1 ATATATTTATCATTAGT
4679981 ATTATTATTTAT
1 A-TA-TATTTAT
4679993 TATTTATGTC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 14 0.56
17 2 0.08
18 2 0.08
19 7 0.28
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (17 bp):
ATATATTTATCATTAGT
Found at i:4680393 original size:11 final size:13
Alignment explanation
Indices: 4680356--4680395 Score: 50
Period size: 11 Copynumber: 3.3 Consensus size: 13
4680346 TGTTTAATAA
4680356 AATATA-TATATT
1 AATATATTATATT
*
4680368 AATATATTATCTT
1 AATATATTATATT
4680381 AA-A-ATTATATT
1 AATATATTATATT
4680392 AATA
1 AATA
4680396 AACTTAACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 9 0.38
12 8 0.33
13 7 0.29
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (13 bp):
AATATATTATATT
Found at i:4683024 original size:167 final size:167
Alignment explanation
Indices: 4682718--4683056 Score: 556
Period size: 167 Copynumber: 2.0 Consensus size: 167
4682708 TTCGTGAGAT
*
4682718 AAAATTAAATACTTTTGGTTTTAATATTTGAAAATATTTCAGATAATATATTTCTTGCTATCATT
1 AAAATTAAATACTTTTGGTTTTAATATTTGAAAATATTGCAGATAATATATTTCTTGCTATCATT
* *
4682783 ACTGGTAACCAGCTAGTGTGAAAAAACTTTTACATTCTGTTACTAACATAACTTTTAGGTCATTG
66 ACTGGTAACCAGCTAATGTGAAAAAACTTTCACATTCTGTTACTAACATAACTTTTAGGTCATTG
4682848 CTGTTTTCCTCCCTTTTTTCATTTTTGTCAGTCAAAC
131 CTGTTTTCCTCCCTTTTTTCATTTTTGTCAGTCAAAC
* * *
4682885 AAAATTAAATA-TTTATGGTTTTAATATTTGAAAGTGTTGCAGATAATTTATTTCTTGCTATCAT
1 AAAATTAAATACTTT-TGGTTTTAATATTTGAAAATATTGCAGATAATATATTTCTTGCTATCAT
* * *
4682949 TACTGGTAAGCAGCTAATGTG-AAAAACTTTCACATTCTGTTACTAACATACCTTTTAGGTTATT
65 TACTGGTAACCAGCTAATGTGAAAAAACTTTCACATTCTGTTACTAACATAACTTTTAGGTCATT
*
4683013 GCTGTTTTTCCTCCCTTTTTTTATTTTTGTCAGTCAAAC
130 GCTG-TTTTCCTCCCTTTTTTCATTTTTGTCAGTCAAAC
4683052 AAAAT
1 AAAAT
4683057 GTTATATATC
Statistics
Matches: 160, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
166 47 0.29
167 113 0.71
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.44
Consensus pattern (167 bp):
AAAATTAAATACTTTTGGTTTTAATATTTGAAAATATTGCAGATAATATATTTCTTGCTATCATT
ACTGGTAACCAGCTAATGTGAAAAAACTTTCACATTCTGTTACTAACATAACTTTTAGGTCATTG
CTGTTTTCCTCCCTTTTTTCATTTTTGTCAGTCAAAC
Found at i:4696684 original size:13 final size:13
Alignment explanation
Indices: 4696666--4696696 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
4696656 TTTAGGTGAT
4696666 ATGGTTTTTTGTA
1 ATGGTTTTTTGTA
4696679 ATGGTTTTTTGTA
1 ATGGTTTTTTGTA
4696692 ATGGT
1 ATGGT
4696697 GTATATTCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.26, T:0.58
Consensus pattern (13 bp):
ATGGTTTTTTGTA
Found at i:4705843 original size:19 final size:19
Alignment explanation
Indices: 4705782--4705844 Score: 56
Period size: 19 Copynumber: 3.1 Consensus size: 19
4705772 TTATGATTTT
4705782 ATTAATAAATATATTTTAAA
1 ATTAATAAATATATTTT-AA
* *
4705802 TATTTTAATAATTA-ATATGTAA
1 -A--TTAATAAATATAT-TTTAA
4705824 ATTAATAAATATATTTTAA
1 ATTAATAAATATATTTTAA
4705843 AT
1 AT
4705845 ATTATTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
19 15 0.44
20 2 0.06
21 2 0.06
22 4 0.12
23 11 0.32
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.48
Consensus pattern (19 bp):
ATTAATAAATATATTTTAA
Found at i:4705877 original size:42 final size:42
Alignment explanation
Indices: 4705781--4705870 Score: 114
Period size: 42 Copynumber: 2.1 Consensus size: 42
4705771 TTTATGATTT
*
4705781 TATTAATAAATATATTTTAAATATTTTAATAATTAATATGTAA
1 TATTAATAAATATATTTTAAATATTTTAATAATT-ATATATAA
*
4705824 -ATTAATAAATATATTTTAAATATTATTAA-AATGT-TTTATAA
1 TATTAATAAATATATTTTAAATATT-TTAATAAT-TATATATAA
4705865 TATTAA
1 TATTAA
4705871 ATAATATTAC
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
41 5 0.12
42 32 0.76
43 5 0.12
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (42 bp):
TATTAATAAATATATTTTAAATATTTTAATAATTATATATAA
Found at i:4706041 original size:24 final size:24
Alignment explanation
Indices: 4705997--4706043 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
4705987 TTATTATATT
*
4705997 ATATTATTAATAAATATATTTTAA
1 ATATTATTAATAAATAAATTTTAA
*
4706021 ATATT-TTAATAATTAGAATTTTA
1 ATATTATTAATAAATA-AATTTTA
4706044 TTAACATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (24 bp):
ATATTATTAATAAATAAATTTTAA
Found at i:4706214 original size:13 final size:13
Alignment explanation
Indices: 4706165--4706214 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
4706155 ATTTAAAATA
*
4706165 TAATATCATATAT
1 TAATATAATATAT
*
4706178 TATTATAATATAAT
1 TAATATAATAT-AT
4706192 TGAA-AT-ATATAT
1 T-AATATAATATAT
4706204 TAATATAATAT
1 TAATATAATAT
4706215 TGAATCATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
11 2 0.07
12 5 0.17
13 17 0.57
14 5 0.17
15 1 0.03
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (13 bp):
TAATATAATATAT
Found at i:4706648 original size:14 final size:14
Alignment explanation
Indices: 4706627--4706667 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
4706617 AAACACTAAG
4706627 AAATATTTTTCAAA
1 AAATATTTTTCAAA
* *
4706641 ATATATTTTTTAAA
1 AAATATTTTTCAAA
4706655 AAATA-TTTTCAAA
1 AAATATTTTTCAAA
4706668 CTATGGAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
13 7 0.30
14 16 0.70
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (14 bp):
AAATATTTTTCAAA
Found at i:4710252 original size:44 final size:44
Alignment explanation
Indices: 4710204--4710377 Score: 217
Period size: 44 Copynumber: 4.0 Consensus size: 44
4710194 CCATGAGTGT
* * *
4710204 CACCTTTCTGTCC-ATAATTCATCGTTATGCATTTTCATTTATGG
1 CACCTTTATG-CCAATAATGCATCGTTATGCATTTTCATTTATGA
* * * *
4710248 CACCTTTCTGCTAATAGTGCATCGGTATGCATTTTCATTTATGA
1 CACCTTTATGCCAATAATGCATCGTTATGCATTTTCATTTATGA
* *
4710292 CACCTTTATGCCAATAATGCA-CAATTATGCATTTTTATTTATGA
1 CACCTTTATGCCAATAATGCATC-GTTATGCATTTTCATTTATGA
* *
4710336 CACATTTATGCCAATAATGCATCGTTATGCGTTTTCATTTAT
1 CACCTTTATGCCAATAATGCATCGTTATGCATTTTCATTTAT
4710378 TTCGATAACA
Statistics
Matches: 112, Mismatches: 15, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
43 2 0.02
44 109 0.97
45 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.12, T:0.43
Consensus pattern (44 bp):
CACCTTTATGCCAATAATGCATCGTTATGCATTTTCATTTATGA
Found at i:4716404 original size:42 final size:42
Alignment explanation
Indices: 4716357--4716716 Score: 295
Period size: 42 Copynumber: 8.7 Consensus size: 42
4716347 CAGAGAACTT
* * *
4716357 ATCATCTTGCTCGAAAGGCTTACAGATGACCCAAAGAATTTA
1 ATCATCATGCTCGAAAGGCTTACTGATGACCCAAAGGATTTA
* * * * *
4716399 ATCATCATGCTCAAAAGGCTGACAT-ATGACTCGAATGATTTA
1 ATCATCATGCTCGAAAGGCTTAC-TGATGACCCAAAGGATTTA
* *
4716441 ATCATCATGCTCGAAAGGCTTACTGATGGCCCAAAGGATTTC
1 ATCATCATGCTCGAAAGGCTTACTGATGACCCAAAGGATTTA
* * *
4716483 AGCATCATGCTCGAAAGAG-TTACTGATGGCCCGAAGGATTTA
1 ATCATCATGCTCGAAAG-GCTTACTGATGACCCAAAGGATTTA
* * * *
4716525 ATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTA
1 ATCATCATGCTCGAAAGGCTTACTGATGACCCAAAGGATTTA
* *** **** *
4716567 ATCATCATGCTCGAAAGACTTACTGATGGATTTACTTTA-CTA
1 ATCATCATGCTCGAAAGGCTTACTGAT-GACCCAAAGGATTTA
* * * ** *
4716609 CTCTTC-TG-T-G-AAGACTTACAAATTACCCGAAA-GATTTA
1 ATCATCATGCTCGAAAGGCTTACTGATGACCC-AAAGGATTTA
* * *
4716647 ATCATCATGCTCGAAAGACTTACTGATGTCCCAAAGGATTTC
1 ATCATCATGCTCGAAAGGCTTACTGATGACCCAAAGGATTTA
* *
4716689 ATCATCATGCTCGAAAGACTTAATGATG
1 ATCATCATGCTCGAAAGGCTTACTGATG
4716717 GATTTGCTTC
Statistics
Matches: 255, Mismatches: 51, Indels: 24
0.77 0.15 0.07
Matches are distributed among these distances:
37 2 0.01
38 18 0.07
39 3 0.01
40 2 0.01
41 7 0.03
42 220 0.86
43 3 0.01
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (42 bp):
ATCATCATGCTCGAAAGGCTTACTGATGACCCAAAGGATTTA
Found at i:4716564 original size:20 final size:20
Alignment explanation
Indices: 4716502--4716566 Score: 60
Period size: 20 Copynumber: 3.1 Consensus size: 20
4716492 CTCGAAAGAG
*
4716502 TTACTGATGGCCCGAAGGAT
1 TTACTGATGGCCCGAAGGAC
* * *
4716522 TTAATCATCAT-GCTCGAAAGAC
1 TT-A-C-TGATGGCCCGAAGGAC
4716544 TTACTGATGGCCCGAAGGAC
1 TTACTGATGGCCCGAAGGAC
4716564 TTA
1 TTA
4716567 ATCATCATGC
Statistics
Matches: 34, Mismatches: 7, Indels: 8
0.69 0.14 0.16
Matches are distributed among these distances:
19 3 0.09
20 15 0.44
21 2 0.06
22 11 0.32
23 3 0.09
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (20 bp):
TTACTGATGGCCCGAAGGAC
Found at i:4716589 original size:126 final size:120
Alignment explanation
Indices: 4716359--4716966 Score: 415
Period size: 122 Copynumber: 4.9 Consensus size: 120
4716349 GAGAACTTAT
* * * * *
4716359 CATCTTGCTCGAAAG-GCTTACAGATGACCCAAAGAATTTAATCATCATGCTCAAAAGGCTGACA
1 CATC-TGCTCGAAAGAG-TTACAGATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTAC-
* * *
4716423 T-ATGACTCGAATGATTTAATCATCATGCTCGAAAGGCTTACTGATGGCCCAAAGGA-TTTCA
63 TGATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGG----AAGGACTTT-A
* *
4716484 GCATCATGCTCGAAAGAGTTACTGATGGCCCGAAGGATTTAATCATCATGCTCGAAAGACTTACT
1 -CATC-TGCTCGAAAGAGTTACAGATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACT
* * ***
4716549 GATGGCCCGAAGGACTTAATCATCATGCTCGAAAGACTTACTGATGGATTTACTTTA
64 GATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGAAGGACTTTA
* * * * * *
4716606 CTACTCTTCT-GTGAAGACTTACAAATTACCCGAAAGATTTAATCATCATGCTCGAAAGACTTAC
1 C-A-TCTGCTCG-AAAGAGTTACAGATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTAC
* * * * ** *
4716670 TGATGTCCCAAAGGATTTCATCATCATGCTCGAAAGACTTAATGATGGATTTG-CTTCAA
63 TGATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGA-AGGACTT-TA
* * * * * * * *
4716729 TATTCTTCCTTG-AAGACTTACAAATTACCTGAAGAATTTAATCATCATGCTCGAAAGACTTACT
1 CA-TC-TGCTCGAAAGAGTTACAGATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACT
* * * ** *
4716793 GATGACACTTACTGATGGATTTAATCATTATTCTCGAAAGACTTACTGATGGACTTG-CTTCA
64 GATGAC-C---C-GAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGA-AGGACTTTA
* * * * * * *
4716855 C-TACT-CTTCCATGAAGACTTACAAATTACCTGAAGAATTTAATCATCATGCTCGAAAGACTTT
1 CAT-CTGC-TCGA--AAGAGTTACAGATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTA
* ** * * *
4716918 CTGATGGCTTGAAGGACTTAATCATCACGCTCGAAAGACTTACTAATGG
62 CTGATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGG
4716967 CTTGAAAGGC
Statistics
Matches: 403, Mismatches: 59, Indels: 44
0.80 0.12 0.09
Matches are distributed among these distances:
121 2 0.00
122 189 0.47
123 13 0.03
124 4 0.01
125 2 0.00
126 96 0.24
127 97 0.24
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (120 bp):
CATCTGCTCGAAAGAGTTACAGATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGA
TGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGAAGGACTTTA
Found at i:4716661 original size:22 final size:22
Alignment explanation
Indices: 4716636--4716712 Score: 63
Period size: 22 Copynumber: 3.6 Consensus size: 22
4716626 ACAAATTACC
*
4716636 CGAAAGATTTAATCATCATGCT
1 CGAAAGACTTAATCATCATGCT
*
4716658 CGAAAGACTT-A-C-TGATG-T
1 CGAAAGACTTAATCATCATGCT
* * *
4716676 CCCAAAGGATTTCATCATCATGCT
1 -CGAAA-GACTTAATCATCATGCT
4716700 CGAAAGACTTAAT
1 CGAAAGACTTAAT
4716713 GATGGATTTG
Statistics
Matches: 41, Mismatches: 8, Indels: 12
0.67 0.13 0.20
Matches are distributed among these distances:
18 1 0.02
19 8 0.20
20 5 0.12
21 2 0.05
22 16 0.39
23 8 0.20
24 1 0.02
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.29
Consensus pattern (22 bp):
CGAAAGACTTAATCATCATGCT
Found at i:4716665 original size:122 final size:121
Alignment explanation
Indices: 4716512--4716966 Score: 606
Period size: 122 Copynumber: 3.7 Consensus size: 121
4716502 TTACTGATGG
*
4716512 CCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTAATCATCATGC
1 CCCGAAGAATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTAATCATCATGC
* *
4716577 TCGAAAGACTTACTGATGGATTTACTTTACTACTCTTCTGTGAAGACTTACAAATTA
66 TCGAAAGACTTACTGATGGATTTGCTTCACTACTCTTCT-TGAAGACTTACAAATTA
* * * *
4716634 CCCGAA-AGATTTAATCATCATGCTCGAAAGACTTACTGATGTCCCAAAGGATTTCATCATCATG
1 CCCGAAGA-ATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTAATCATCATG
* * *
4716698 CTCGAAAGACTTAATGATGGATTTGCTTCAATATTCTTCCTTGAAGACTTACAAATTA
65 CTCGAAAGACTTACTGATGGATTTGCTTCACTACTCTT-CTTGAAGACTTACAAATTA
* * * *
4716756 CCTGAAGAATTTAATCATCATGCTCGAAAGACTTACTGATGACACTTACTGATGGATTTAATCAT
1 CCCGAAGAATTTAATCATCATGCTCGAAAGACTTACTGATGGC-C---C-GAAGGACTTAATCAT
* * * *
4716821 TATTCTCGAAAGACTTACTGATGGACTTGCTTCACTACTCTTCCATGAAGACTTACAAATTA
61 CATGCTCGAAAGACTTACTGATGGATTTGCTTCACTACTCTT-CTTGAAGACTTACAAATTA
* * ** *
4716883 CCTGAAGAATTTAATCATCATGCTCGAAAGACTTTCTGATGGCTTGAAGGACTTAATCATCACGC
1 CCCGAAGAATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTAATCATCATGC
*
4716948 TCGAAAGACTTACTAATGG
66 TCGAAAGACTTACTGATGG
4716967 CTTGAAAGGC
Statistics
Matches: 293, Mismatches: 32, Indels: 16
0.86 0.09 0.05
Matches are distributed among these distances:
122 180 0.61
123 4 0.01
126 1 0.00
127 108 0.37
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (121 bp):
CCCGAAGAATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTAATCATCATGC
TCGAAAGACTTACTGATGGATTTGCTTCACTACTCTTCTTGAAGACTTACAAATTA
Found at i:4716931 original size:42 final size:42
Alignment explanation
Indices: 4716885--4716972 Score: 131
Period size: 42 Copynumber: 2.1 Consensus size: 42
4716875 ACAAATTACC
* * * *
4716885 TGAAGAATTTAATCATCATGCTCGAAAGACTTTCTGATGGCT
1 TGAAGAACTTAATCATCACGCTCGAAAGACTTACTAATGGCT
*
4716927 TGAAGGACTTAATCATCACGCTCGAAAGACTTACTAATGGCT
1 TGAAGAACTTAATCATCACGCTCGAAAGACTTACTAATGGCT
4716969 TGAA
1 TGAA
4716973 AGGCTTACTG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (42 bp):
TGAAGAACTTAATCATCACGCTCGAAAGACTTACTAATGGCT
Found at i:4720614 original size:23 final size:23
Alignment explanation
Indices: 4720588--4720665 Score: 93
Period size: 23 Copynumber: 3.3 Consensus size: 23
4720578 CACCACAGCT
4720588 CATATAATTGCACCGAAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
* *
4720611 CATATAATTGCACCGGAGTGCCG
1 CATATAATTGCACCGAAGTGCCA
* * *
4720634 CATAGAATTACACCGTAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
*
4720657 TATAATAAT
1 CAT-ATAAT
4720666 GTCCATAAGG
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
23 42 0.91
24 4 0.09
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (23 bp):
CATATAATTGCACCGAAGTGCCA
Found at i:4720843 original size:103 final size:104
Alignment explanation
Indices: 4720675--4720890 Score: 380
Period size: 103 Copynumber: 2.1 Consensus size: 104
4720665 TGTCCATAAG
* *
4720675 GACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCAGAC
1 GACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAGAC
*
4720740 TTCACACATGTTTC-AAAGAATACATATATGTCCCGAAA
66 TTCACACATGTTCCAAAAGAATACATATATGTCCCGAAA
*
4720778 GACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCAGAC
1 GACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAGAC
*
4720843 TTCACACATGTTCCAAAAGAATACATATATGTCCCGAAG
66 TTCACACATGTTCCAAAAGAATACATATATGTCCCGAAA
4720882 GACCACATA
1 GACCACATA
4720891 GACCCTCGAC
Statistics
Matches: 107, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
103 75 0.70
104 32 0.30
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.26
Consensus pattern (104 bp):
GACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAGAC
TTCACACATGTTCCAAAAGAATACATATATGTCCCGAAA
Found at i:4728258 original size:2 final size:2
Alignment explanation
Indices: 4728251--4728285 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
4728241 TATTGCCTGC
4728251 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4728286 ATTTTATGTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4729406 original size:31 final size:31
Alignment explanation
Indices: 4729368--4729432 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
4729358 ATGCATGATC
** *
4729368 CCTAATGTTATTGTTCCATTCGATTTTAGTT
1 CCTAATGTTACCGATCCATTCGATTTTAGTT
4729399 CCTAATGTTACCGATCCATTCGATTTTAGTT
1 CCTAATGTTACCGATCCATTCGATTTTAGTT
4729430 CCT
1 CCT
4729433 CAGCCATGTC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.20, C:0.22, G:0.12, T:0.46
Consensus pattern (31 bp):
CCTAATGTTACCGATCCATTCGATTTTAGTT
Found at i:4732117 original size:21 final size:21
Alignment explanation
Indices: 4732046--4732124 Score: 65
Period size: 21 Copynumber: 3.8 Consensus size: 21
4732036 ATTTTATTCC
*
4732046 AAATTCTAAAATCTAAAATCAT
1 AAATTCTAAAATCTAAAAT-TT
* *
4732068 AACTT-T-AAATCTTAAATTT
1 AAATTCTAAAATCTAAAATTT
* *
4732087 AAA-CCATAAAACCTAAAATTT
1 AAATTC-TAAAATCTAAAATTT
*
4732108 AAATTCTAAACTCTAAA
1 AAATTCTAAAATCTAAA
4732125 CTCTGAATCA
Statistics
Matches: 43, Mismatches: 10, Indels: 9
0.69 0.16 0.15
Matches are distributed among these distances:
19 3 0.07
20 11 0.26
21 24 0.56
22 5 0.12
ACGTcount: A:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (21 bp):
AAATTCTAAAATCTAAAATTT
Found at i:4732328 original size:15 final size:15
Alignment explanation
Indices: 4732310--4732349 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
4732300 TCATAACTCC
*
4732310 TAAAATCTAAAATTT
1 TAAAATCTAAAATTA
*
4732325 TAAAACCTAAAATTA
1 TAAAATCTAAAATTA
*
4732340 TAAATTCTAA
1 TAAAATCTAA
4732350 TCTTTAAACT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.35
Consensus pattern (15 bp):
TAAAATCTAAAATTA
Found at i:4732929 original size:44 final size:44
Alignment explanation
Indices: 4732867--4732976 Score: 132
Period size: 43 Copynumber: 2.5 Consensus size: 44
4732857 TTATGAAAAT
* * *
4732867 AAAAAGTGTGACTAAAAAAATTACGAGCCTCAA-CTGTAAATGA
1 AAAAAGTGAGATTAAAAAAATTACGAGCCTCAATCTGTAAAGGA
* * * *
4732910 AAAAAGTGAGATTAAAAAAATTAGGGGCCTCAATTTGTAAAGGT
1 AAAAAGTGAGATTAAAAAAATTACGAGCCTCAATCTGTAAAGGA
*
4732954 AGAAAGTGAGATTTAAAAAAATT
1 AAAAAGTGAGA-TTAAAAAAATT
4732977 GGCAGACTTG
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
43 29 0.51
44 17 0.30
45 11 0.19
ACGTcount: A:0.49, C:0.08, G:0.19, T:0.24
Consensus pattern (44 bp):
AAAAAGTGAGATTAAAAAAATTACGAGCCTCAATCTGTAAAGGA
Found at i:4734235 original size:22 final size:22
Alignment explanation
Indices: 4734210--4734283 Score: 60
Period size: 22 Copynumber: 3.3 Consensus size: 22
4734200 TACAATATAC
*
4734210 TAATTTTATACATCATAAAAAA
1 TAATTTAATACATCATAAAAAA
* ** * *
4734232 TAATTTCATTTTAT-ATTAATATAC
1 TAATTT-AATACATCA-TAA-AAAA
4734256 TAATTTAATACATCATAAAAAA
1 TAATTTAATACATCATAAAAAA
4734278 TAATTT
1 TAATTT
4734284 CATTTTATAT
Statistics
Matches: 37, Mismatches: 11, Indels: 8
0.66 0.20 0.14
Matches are distributed among these distances:
22 15 0.41
23 13 0.35
24 9 0.24
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.43
Consensus pattern (22 bp):
TAATTTAATACATCATAAAAAA
Found at i:4734242 original size:27 final size:27
Alignment explanation
Indices: 4734212--4734292 Score: 72
Period size: 27 Copynumber: 3.3 Consensus size: 27
4734202 CAATATACTA
4734212 ATTTTATACATCATAAAAAATAATTTC
1 ATTTTATACATCATAAAAAATAATTTC
* *
4734239 ATTTTAT--AT--TAATATACTAATTT-
1 ATTTTATACATCATAA-AAAATAATTTC
4734262 A----ATACATCATAAAAAATAATTTC
1 ATTTTATACATCATAAAAAATAATTTC
4734285 ATTTTATA
1 ATTTTATA
4734293 TTAAATTGTA
Statistics
Matches: 40, Mismatches: 4, Indels: 20
0.62 0.06 0.31
Matches are distributed among these distances:
19 2 0.05
21 2 0.05
22 8 0.20
23 8 0.20
24 8 0.20
25 2 0.05
27 10 0.25
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (27 bp):
ATTTTATACATCATAAAAAATAATTTC
Found at i:4734255 original size:46 final size:46
Alignment explanation
Indices: 4734203--4734296 Score: 179
Period size: 46 Copynumber: 2.0 Consensus size: 46
4734193 CAATGTATAC
*
4734203 AATATACTAATTTTATACATCATAAAAAATAATTTCATTTTATATT
1 AATATACTAATTTAATACATCATAAAAAATAATTTCATTTTATATT
4734249 AATATACTAATTTAATACATCATAAAAAATAATTTCATTTTATATT
1 AATATACTAATTTAATACATCATAAAAAATAATTTCATTTTATATT
4734295 AA
1 AA
4734297 ATTGTATAAT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.44
Consensus pattern (46 bp):
AATATACTAATTTAATACATCATAAAAAATAATTTCATTTTATATT
Found at i:4734886 original size:20 final size:20
Alignment explanation
Indices: 4734863--4734926 Score: 53
Period size: 19 Copynumber: 3.2 Consensus size: 20
4734853 TAGTATTTAG
4734863 ATAAAT-TTATTAATAATTTT
1 ATAAATATT-TTAATAATTTT
* *
4734883 AT-AATCTTTTAATAAATTTA
1 ATAAATATTTTAAT-AATTTT
*
4734903 ATAAGTATTTT-ATAATTTT
1 ATAAATATTTTAATAATTTT
*
4734922 TTAAA
1 ATAAA
4734927 CTTTATTGAC
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
19 16 0.46
20 13 0.37
21 6 0.17
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (20 bp):
ATAAATATTTTAATAATTTT
Found at i:4734896 original size:19 final size:20
Alignment explanation
Indices: 4734872--4734921 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
4734862 GATAAATTTA
*
4734872 TTAATAATTTTATAA-TCTT
1 TTAATAATTTTATAAGTATT
*
4734891 TTAATAAATTTAATAAGTATT
1 TTAAT-AATTTTATAAGTATT
4734912 TT-ATAATTTT
1 TTAATAATTTT
4734922 TTAAACTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 10 0.38
20 11 0.42
21 5 0.19
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (20 bp):
TTAATAATTTTATAAGTATT
Found at i:4734924 original size:31 final size:30
Alignment explanation
Indices: 4734839--4734925 Score: 95
Period size: 31 Copynumber: 2.8 Consensus size: 30
4734829 TTCAATAATA
* *
4734839 TAATAATTATTTTAT-AGTATTTAGATAAATT
1 TAATAA-TATTTTATAATTTTTTA-ATAAATT
* *
4734870 TATTAATAATTTTATAATCTTTTAATAAATT
1 TAATAAT-ATTTTATAATTTTTTAATAAATT
4734901 TAATAAGTATTTTATAATTTTTTAA
1 TAATAA-TATTTTATAATTTTTTAA
4734926 ACTTTATTGA
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
30 1 0.02
31 40 0.85
32 6 0.13
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.54
Consensus pattern (30 bp):
TAATAATATTTTATAATTTTTTAATAAATT
Found at i:4735669 original size:19 final size:19
Alignment explanation
Indices: 4735647--4735734 Score: 63
Period size: 20 Copynumber: 4.4 Consensus size: 19
4735637 AAAGTTTAAA
4735647 AAATTATAAAATATTTATT
1 AAATTATAAAATATTTATT
* *
4735666 AAATTTATTAAAAGA-TTATA
1 AAA-TTA-TAAAATATTTATT
4735686 AAATTATTAATAA-ATTTATCT
1 AAATTA-TAA-AATATTTAT-T
*
4735707 AAATACTATAAAATAATTATT
1 AAAT--TATAAAATATTTATT
*
4735728 ATATTAT
1 AAATTAT
4735735 CGAACTTTTA
Statistics
Matches: 56, Mismatches: 5, Indels: 16
0.73 0.06 0.21
Matches are distributed among these distances:
19 14 0.25
20 16 0.29
21 16 0.29
22 8 0.14
23 2 0.04
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.44
Consensus pattern (19 bp):
AAATTATAAAATATTTATT
Found at i:4735677 original size:31 final size:31
Alignment explanation
Indices: 4735642--4735728 Score: 97
Period size: 31 Copynumber: 2.8 Consensus size: 31
4735632 TCAATAAAGT
4735642 TTAAAAAATTATAAAATATTTATTAAATTTA
1 TTAAAAAATTATAAAATATTTATTAAATTTA
* *
4735673 TTAAAAGATTATAAAAT-TATTAATAAATTTA
1 TTAAAAAATTATAAAATAT-TTATTAAATTTA
* * *
4735704 TCT-AAATACTATAAAATAATTATTA
1 T-TAAAAAATTATAAAATATTTATTA
4735729 TATTATCGAA
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
30 1 0.02
31 45 0.96
32 1 0.02
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.43
Consensus pattern (31 bp):
TTAAAAAATTATAAAATATTTATTAAATTTA
Found at i:4735704 original size:20 final size:20
Alignment explanation
Indices: 4735637--4735704 Score: 63
Period size: 19 Copynumber: 3.5 Consensus size: 20
4735627 TTTCGTCAAT
*
4735637 AAAG-TTTAAAAAATTA-TA
1 AAAGATTTATAAAATTATTA
* *
4735655 AAATATTTATTAAATTTATTA
1 AAAGATTTA-TAAAATTATTA
4735676 AAAGA-TTATAAAATTATTA
1 AAAGATTTATAAAATTATTA
4735695 ATAA-ATTTAT
1 A-AAGATTTAT
4735705 CTAAATACTA
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
18 3 0.08
19 16 0.40
20 15 0.38
21 6 0.15
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (20 bp):
AAAGATTTATAAAATTATTA
Found at i:4740978 original size:13 final size:14
Alignment explanation
Indices: 4740952--4740981 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
4740942 GTATGGCATA
4740952 TTTGTTTGTTTTGT
1 TTTGTTTGTTTTGT
4740966 TTTGTTT-TTTTGT
1 TTTGTTTGTTTTGT
4740979 TTT
1 TTT
4740982 CAAATTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.83
Consensus pattern (14 bp):
TTTGTTTGTTTTGT
Found at i:4743722 original size:16 final size:16
Alignment explanation
Indices: 4743701--4743733 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
4743691 AAAAATAATA
4743701 TATAGATGAGTATTAT
1 TATAGATGAGTATTAT
4743717 TATAGATGAGTATTAT
1 TATAGATGAGTATTAT
4743733 T
1 T
4743734 GCAATTATCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.45
Consensus pattern (16 bp):
TATAGATGAGTATTAT
Found at i:4746290 original size:21 final size:22
Alignment explanation
Indices: 4746266--4746312 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
4746256 CAGATTGCAA
4746266 ACAGGGAACCGATT-CCCTGCT
1 ACAGGGAACCGATTCCCCTGCT
*
4746287 ACAGGGTACCGATTCCCCTGCT
1 ACAGGGAACCGATTCCCCTGCT
4746309 ACAG
1 ACAG
4746313 TACTTCCATA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 13 0.54
22 11 0.46
ACGTcount: A:0.23, C:0.34, G:0.23, T:0.19
Consensus pattern (22 bp):
ACAGGGAACCGATTCCCCTGCT
Found at i:4746889 original size:24 final size:23
Alignment explanation
Indices: 4746862--4746912 Score: 68
Period size: 22 Copynumber: 2.2 Consensus size: 23
4746852 CCACTAGGGG
*
4746862 CACTAAATATTTGTCCCGAAGGAC
1 CACT-AATATATGTCCCGAAGGAC
*
4746886 CACT-GTATATGTCCCGAAGGAC
1 CACTAATATATGTCCCGAAGGAC
4746908 CACTA
1 CACTA
4746913 TGTCCCGAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 20 0.83
24 4 0.17
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (23 bp):
CACTAATATATGTCCCGAAGGAC
Found at i:4746901 original size:22 final size:22
Alignment explanation
Indices: 4746873--4746935 Score: 98
Period size: 22 Copynumber: 3.0 Consensus size: 22
4746863 ACTAAATATT
4746873 TGTCCCGAAGGACCACTGTATA
1 TGTCCCGAAGGACCACTGTATA
4746895 TGTCCCGAAGGACCAC----TA
1 TGTCCCGAAGGACCACTGTATA
4746913 TGTCCCGAAGGACCACTGTATA
1 TGTCCCGAAGGACCACTGTATA
4746935 T
1 T
4746936 CCCTCGACTC
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
18 18 0.49
22 19 0.51
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (22 bp):
TGTCCCGAAGGACCACTGTATA
Found at i:4746916 original size:18 final size:18
Alignment explanation
Indices: 4746873--4746929 Score: 78
Period size: 18 Copynumber: 2.9 Consensus size: 18
4746863 ACTAAATATT
4746873 TGTCCCGAAGGACCACTGTATA
1 TGTCCCGAAGGACCAC----TA
4746895 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
4746913 TGTCCCGAAGGACCACT
1 TGTCCCGAAGGACCACT
4746930 GTATATCCCT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
18 19 0.54
22 16 0.46
ACGTcount: A:0.26, C:0.32, G:0.23, T:0.19
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:4748421 original size:21 final size:21
Alignment explanation
Indices: 4748365--4748410 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
4748355 GGCACTGATG
*
4748365 CCACTTATCCTCTTCACGTTC
1 CCACATATCCTCTTCACGTTC
4748386 CCACATATCCTCTTCACGTTC
1 CCACATATCCTCTTCACGTTC
4748407 CCAC
1 CCAC
4748411 GTTGCTTCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.17, C:0.46, G:0.04, T:0.33
Consensus pattern (21 bp):
CCACATATCCTCTTCACGTTC
Found at i:4749362 original size:23 final size:23
Alignment explanation
Indices: 4749316--4749377 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 23
4749306 CAGCTTGTAT
*
4749316 AAATGCACTGAAGTGCCACATAG
1 AAATGCACCGAAGTGCCACATAG
* * * * *
4749339 AATTGTACCGTAGTGCCGCGTAG
1 AAATGCACCGAAGTGCCACATAG
4749362 AAATGCACCGAAGTGC
1 AAATGCACCGAAGTGC
4749378 TATATAAGGT
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.32, C:0.23, G:0.26, T:0.19
Consensus pattern (23 bp):
AAATGCACCGAAGTGCCACATAG
Found at i:4750018 original size:106 final size:106
Alignment explanation
Indices: 4749896--4750109 Score: 428
Period size: 106 Copynumber: 2.0 Consensus size: 106
4749886 ACTTAGTTCA
4749896 CTTTCCATATTATCATACATTTATATAATCTTATATGTCCTATCATTAACCTATAAACTTACTCA
1 CTTTCCATATTATCATACATTTATATAATCTTATATGTCCTATCATTAACCTATAAACTTACTCA
4749961 TATACTCATATATACTCTTTAATATAATTTGTATAGTAATG
66 TATACTCATATATACTCTTTAATATAATTTGTATAGTAATG
4750002 CTTTCCATATTATCATACATTTATATAATCTTATATGTCCTATCATTAACCTATAAACTTACTCA
1 CTTTCCATATTATCATACATTTATATAATCTTATATGTCCTATCATTAACCTATAAACTTACTCA
4750067 TATACTCATATATACTCTTTAATATAATTTGTATAGTAATG
66 TATACTCATATATACTCTTTAATATAATTTGTATAGTAATG
4750108 CT
1 CT
4750110 CTATAATTGT
Statistics
Matches: 108, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
106 108 1.00
ACGTcount: A:0.35, C:0.17, G:0.04, T:0.44
Consensus pattern (106 bp):
CTTTCCATATTATCATACATTTATATAATCTTATATGTCCTATCATTAACCTATAAACTTACTCA
TATACTCATATATACTCTTTAATATAATTTGTATAGTAATG
Found at i:4750506 original size:2 final size:2
Alignment explanation
Indices: 4750499--4750527 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
4750489 ATCTTATGTT
4750499 CA CA CA CA CA CA CA CA CA CA CA CA CA CA C
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA C
4750528 TATATATATA
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:0.48, C:0.52, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:4751105 original size:24 final size:20
Alignment explanation
Indices: 4751050--4751107 Score: 62
Period size: 24 Copynumber: 2.7 Consensus size: 20
4751040 AATAAAGGTA
4751050 TGCATCGATGCACTCTACAG
1 TGCATCGATGCACTCTACAG
* *
4751070 TGTATCGATGCATTCCTTAACATG
1 TGCATCGATGCACT-C-T-ACA-G
4751094 TGCATCGATGCACT
1 TGCATCGATGCACT
4751108 ACCTGTGCAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
20 12 0.40
21 1 0.03
22 1 0.03
23 3 0.10
24 13 0.43
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (20 bp):
TGCATCGATGCACTCTACAG
Found at i:4754787 original size:23 final size:23
Alignment explanation
Indices: 4754753--4754819 Score: 89
Period size: 23 Copynumber: 2.9 Consensus size: 23
4754743 CACCACAGCT
*
4754753 CGTATAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
* * * *
4754776 CGTAGAATTGCACCGTAGTACCG
1 CGTAGAAATGCACCGAAGTGCCA
4754799 CGTAGAAATGCACCGAAGTGC
1 CGTAGAAATGCACCGAAGTGC
4754820 TATATACGGT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.31, C:0.25, G:0.25, T:0.18
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:4756668 original size:21 final size:21
Alignment explanation
Indices: 4756642--4756697 Score: 112
Period size: 21 Copynumber: 2.7 Consensus size: 21
4756632 TCTTGATATT
4756642 TTAAGCTTATATAAGCTTTCC
1 TTAAGCTTATATAAGCTTTCC
4756663 TTAAGCTTATATAAGCTTTCC
1 TTAAGCTTATATAAGCTTTCC
4756684 TTAAGCTTATATAA
1 TTAAGCTTATATAA
4756698 CCCTGAAGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.32, C:0.16, G:0.09, T:0.43
Consensus pattern (21 bp):
TTAAGCTTATATAAGCTTTCC
Found at i:4761623 original size:22 final size:22
Alignment explanation
Indices: 4761593--4761655 Score: 80
Period size: 22 Copynumber: 3.0 Consensus size: 22
4761583 ACTGAATATT
4761593 TGTCCCGAAGGACCACTGTATA
1 TGTCCCGAAGGACCACTGTATA
*
4761615 TGTCTCGAAGGACCAC----TA
1 TGTCCCGAAGGACCACTGTATA
*
4761633 TGTCCCGAAAGACCACTGTATA
1 TGTCCCGAAGGACCACTGTATA
4761655 T
1 T
4761656 CCCTCGACTC
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
18 16 0.47
22 18 0.53
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.24
Consensus pattern (22 bp):
TGTCCCGAAGGACCACTGTATA
Found at i:4761636 original size:18 final size:18
Alignment explanation
Indices: 4761613--4761649 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
4761603 GACCACTGTA
* *
4761613 TATGTCTCGAAGGACCAC
1 TATGTCCCGAAAGACCAC
4761631 TATGTCCCGAAAGACCAC
1 TATGTCCCGAAAGACCAC
4761649 T
1 T
4761650 GTATATCCCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.22
Consensus pattern (18 bp):
TATGTCCCGAAAGACCAC
Done.