Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold427
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: 252688
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
File 1 of 2
Found at i:7 original size:2 final size:2
Alignment explanation
Indices: 1--37 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
38 ATATGAATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4552 original size:28 final size:28
Alignment explanation
Indices: 4521--4576 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
4511 TATCCCCTCG
*
4521 GAAATAACGGGGTTGGAGTATCCCCGAT
1 GAAATAACGAGGTTGGAGTATCCCCGAT
*
4549 GAAATAACGAGGTTGGAGTATCCTCGAT
1 GAAATAACGAGGTTGGAGTATCCCCGAT
4577 TGTGAAGAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.30, C:0.16, G:0.30, T:0.23
Consensus pattern (28 bp):
GAAATAACGAGGTTGGAGTATCCCCGAT
Found at i:4620 original size:51 final size:51
Alignment explanation
Indices: 4559--4724 Score: 178
Period size: 51 Copynumber: 3.3 Consensus size: 51
4549 GAAATAACGA
*
4559 GGTTGGAGTATCCTCGATTGT-GAAGAATTGGTGTTTTTA-AAATAAAACCGG
1 GGTTGGAGTATCCTCGATTGTGGAA-AATTAGTG-TTTTAGAAATAAAACCGG
*
4610 GGTTGAAGTATCCTCGATTGTGGAAAATTAGTGTTTTAGAAATAAAACCGG
1 GGTTGGAGTATCCTCGATTGTGGAAAATTAGTGTTTTAGAAATAAAACCGG
* * * * * **
4661 AGTTGGAGTATCCCCGATTAT-GAGAAATCAATAG-TTTAGAAATAAAGTCGG
1 GGTTGGAGTATCCTCGATTGTGGA-AAATTAGT-GTTTTAGAAATAAAACCGG
*
4712 GGTTAGAGTATCC
1 GGTTGGAGTATCC
4725 CCTCGGAAAA
Statistics
Matches: 99, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
50 7 0.07
51 88 0.89
52 4 0.04
ACGTcount: A:0.33, C:0.11, G:0.26, T:0.31
Consensus pattern (51 bp):
GGTTGGAGTATCCTCGATTGTGGAAAATTAGTGTTTTAGAAATAAAACCGG
Found at i:4622 original size:107 final size:107
Alignment explanation
Indices: 4416--4610 Score: 275
Period size: 107 Copynumber: 1.8 Consensus size: 107
4406 TTTTGGAGAT
* *
4416 AATAACGGGGTTGGAGTATCCCCTTGAAAATAACGAGGTTGGAGTATCCTCGGTTGTGAAAAATC
1 AATAACGGGGTTGGAGTATCCCCATGAAAATAACGAGGTTGGAGTATCCTCGATTGTGAAAAATC
* **
4481 GATGATTGGGAAATAAAATTGGGATTAGAATATCCCCTCGGA
66 GATGATTGGAAAATAAAACCGGGATTAGAATATCCCCTCGGA
*
4523 AATAACGGGGTTGGAGTATCCCCGATG-AAATAACGAGGTTGGAGTATCCTCGATTGTGAAGAAT
1 AATAACGGGGTTGGAGTATCCCC-ATGAAAATAACGAGGTTGGAGTATCCTCGATTGTGAAAAAT
* * * **
4587 TGGTGTTTTTAAAATAAAACCGGG
65 CGATGATTGGAAAATAAAACCGGG
4611 GTTGAAGTAT
Statistics
Matches: 76, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
107 74 0.97
108 2 0.03
ACGTcount: A:0.32, C:0.13, G:0.28, T:0.27
Consensus pattern (107 bp):
AATAACGGGGTTGGAGTATCCCCATGAAAATAACGAGGTTGGAGTATCCTCGATTGTGAAAAATC
GATGATTGGAAAATAAAACCGGGATTAGAATATCCCCTCGGA
Found at i:4725 original size:51 final size:51
Alignment explanation
Indices: 4594--4935 Score: 179
Period size: 51 Copynumber: 6.6 Consensus size: 51
4584 AATTGGTGTT
* * * * * *
4594 TTTA-AAATAAAACCGGGGTTGAAGTATCCTCGATTGTG-GAAAATTAGT-G
1 TTTAGAAATAAAGCCGGGGTTGGAGTATCCCCGATTATGAG-AAATCAATAG
* *
4643 TTTTAGAAATAAAACCGGAGTTGGAGTATCCCCGATTATGAGAAATCAATAG
1 -TTTAGAAATAAAGCCGGGGTTGGAGTATCCCCGATTATGAGAAATCAATAG
* * ** * * *
4695 TTTAGAAATAAAGTCGGGGTTAGAGTATCCCC---TCGGA-AAAACGGGGGTAGAG
1 TTTAGAAATAAAGCCGGGGTTGGAGTATCCCCGATTATGAGAAATC-----AATAG
* *
4747 TATCCTCGATGAAAT--AG-CGGGGTTGGAGTA-CCCCTGATTATGAAAAAAATCAATATT
1 T-T--T--A-GAAATAAAGCCGGGGTTGGAGTATCCCC-GATTATG--AGAAATCAATA-G
* * * * *
4804 TTTGGATATAAAGCCGGGGTTGGAGTATCCCCGATTA-AAGGAAAATTAGT-G
1 TTTAGAAATAAAGCCGGGGTTGGAGTATCCCCGATTATGA-G-AAATCAATAG
** *
4855 TTTTAGAAATAAAATCGGGGTTGGAGTATTCCCGATTATGAGAAATCAATAG
1 -TTTAGAAATAAAGCCGGGGTTGGAGTATCCCCGATTATGAGAAATCAATAG
*
4907 TTTAGAAATAAAGCCGGGGTTAGAGTATC
1 TTTAGAAATAAAGCCGGGGTTGGAGTATC
4936 TCCTCGAAAA
Statistics
Matches: 220, Mismatches: 41, Indels: 61
0.68 0.13 0.19
Matches are distributed among these distances:
47 4 0.02
48 3 0.01
50 4 0.02
51 100 0.45
52 40 0.18
53 10 0.05
54 23 0.10
55 17 0.08
56 5 0.02
57 2 0.01
58 7 0.03
60 1 0.00
61 4 0.02
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.27
Consensus pattern (51 bp):
TTTAGAAATAAAGCCGGGGTTGGAGTATCCCCGATTATGAGAAATCAATAG
Found at i:4882 original size:212 final size:208
Alignment explanation
Indices: 4490--4969 Score: 629
Period size: 212 Copynumber: 2.3 Consensus size: 208
4480 CGATGATTGG
* * * *
4490 GAAATAAAATTGGGATTAGAATATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAAATA
1 GAAATAAAGTCGGGGTTAGAGTATCCCCTCGGAAA-AACGGGGTTGGAGTATCCCCGATGAAATA
* * * *** *
4555 ACGAGGTTGGAGTATCCTCGATTGTGAAGAATTGGTGTTTTTAAAATAAAACCGGGGTTGAAGTA
65 ACGAGGTTGGAGTACCCTCGATTATGAAAAATCAATATTTTTAAAATAAAACCGGGGTTGAAGTA
* **
4620 TCCTCGATTGTGGAAAATTAGTGTTTTAGAAATAAAACCGGAGTTGGAGTATCCCCGATTATGAG
130 TCCCCGATTAAGGAAAATTAGTGTTTTAGAAATAAAACCGGAGTTGGAGTATCCCCGATTATGAG
4685 AAATCAATAGTTTA
195 AAATCAATAGTTTA
* * * *
4699 GAAATAAAGTCGGGGTTAGAGTATCCCCTCGGAAAAACGGGGGTAGAGTATCCTCGATGAAATAG
1 GAAATAAAGTCGGGGTTAGAGTATCCCCTCGGAAAAACGGGGTTGGAGTATCCCCGATGAAATAA
* * * * *
4764 CGGGGTTGGAGTACCC-CTGATTATGAAAAAAATCAATATTTTTGGATATAAAGCCGGGGTTGGA
66 CGAGGTTGGAGTACCCTC-GATTATG--AAAAATCAATATTTTT-AAAATAAAACCGGGGTTGAA
* * *
4828 GTATCCCCGATTAAAGGAAAATTAGTGTTTTAGAAATAAAATCGGGGTTGGAGTATTCCCGATTA
127 GTATCCCCGATT-AAGGAAAATTAGTGTTTTAGAAATAAAACCGGAGTTGGAGTATCCCCGATTA
4893 TGAGAAATCAATAGTTTA
191 TGAGAAATCAATAGTTTA
* * *
4911 GAAATAAAGCCGGGGTTAGAGTATCTCCTCGAAAAAAACGGGGTTGGAGTATCCCCGAT
1 GAAATAAAGTCGGGGTTAGAGTATCCCCTCG-GAAAAACGGGGTTGGAGTATCCCCGAT
4970 TATGAGAAAT
Statistics
Matches: 233, Mismatches: 32, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
207 1 0.00
208 46 0.20
209 31 0.13
210 11 0.05
211 27 0.12
212 94 0.40
213 23 0.10
ACGTcount: A:0.34, C:0.13, G:0.26, T:0.27
Consensus pattern (208 bp):
GAAATAAAGTCGGGGTTAGAGTATCCCCTCGGAAAAACGGGGTTGGAGTATCCCCGATGAAATAA
CGAGGTTGGAGTACCCTCGATTATGAAAAATCAATATTTTTAAAATAAAACCGGGGTTGAAGTAT
CCCCGATTAAGGAAAATTAGTGTTTTAGAAATAAAACCGGAGTTGGAGTATCCCCGATTATGAGA
AATCAATAGTTTA
Found at i:5008 original size:79 final size:80
Alignment explanation
Indices: 4859--5098 Score: 322
Period size: 82 Copynumber: 3.0 Consensus size: 80
4849 TTAGTGTTTT
* * ** *
4859 AGAAATAAAATCGGGGTTGGAGTATTCCCGATTATGAGAAATCAATAGTTTAGAAATAAAGCCGG
1 AGAAA-AAAA-CGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAAATCGA
* *
4924 GGTTAGAGTATCTCCTC
64 AGTTAGAATATCTCCTC
4941 -GAAAAAAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAAATCGAAG
1 AGAAAAAAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAAATCGAAG
5005 TTAGAATATCTCCTC
66 TTAGAATATCTCCTC
** * *
5020 AGAAAAAAAAACAAGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGGAATAAAATCGG
1 AG--AAAAAAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAAATCGA
5085 AG-TAGGAATATCTC
64 AGTTA-GAATATCTC
5099 TGATTGTGAA
Statistics
Matches: 143, Mismatches: 11, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
79 64 0.45
80 5 0.03
81 6 0.04
82 68 0.48
ACGTcount: A:0.40, C:0.13, G:0.21, T:0.26
Consensus pattern (80 bp):
AGAAAAAAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAAATCGAAG
TTAGAATATCTCCTC
Found at i:5169 original size:28 final size:28
Alignment explanation
Indices: 5138--5206 Score: 129
Period size: 28 Copynumber: 2.5 Consensus size: 28
5128 AAAATCAGGG
*
5138 TTGGAGTATCCCTTCGGAAATAACGGGA
1 TTGGAGTATCCCCTCGGAAATAACGGGA
5166 TTGGAGTATCCCCTCGGAAATAACGGGA
1 TTGGAGTATCCCCTCGGAAATAACGGGA
5194 TTGGAGTATCCCC
1 TTGGAGTATCCCC
5207 GATGAAATAG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (28 bp):
TTGGAGTATCCCCTCGGAAATAACGGGA
Found at i:5213 original size:28 final size:28
Alignment explanation
Indices: 5138--5237 Score: 98
Period size: 28 Copynumber: 3.6 Consensus size: 28
5128 AAAATCAGGG
5138 TTGGAGTATCCCTTCG--GAAATAACGGGA
1 TTGGAGTATCCC--CGATGAAATAACGGGA
***
5166 TTGGAGTATCCCCTCGGAAATAACGGGA
1 TTGGAGTATCCCCGATGAAATAACGGGA
* *
5194 TTGGAGTATCCCCGATGAAATAGCAAGG-
1 TTGGAGTATCCCCGATGAAATAAC-GGGA
*
5222 TTGGAGTACCCCCGAT
1 TTGGAGTATCCCCGAT
5238 TATGAAAAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
26 1 0.02
28 59 0.95
29 2 0.03
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (28 bp):
TTGGAGTATCCCCGATGAAATAACGGGA
Found at i:5399 original size:52 final size:53
Alignment explanation
Indices: 5220--5401 Score: 190
Period size: 52 Copynumber: 3.4 Consensus size: 53
5210 GAAATAGCAA
* ** * * * * *
5220 GGTTGGAGTACCCCCGATTATGAAAAAAGATCAATATTTTTGAATATAAAGTCGG
1 GGTTGGAGTATCCCCGATTATGAGGAAA-ATTAGT-GTTTTGAAAATAAAATCGG
* * * *
5275 GGTTTGAGTATCCCCAATTA-AAGGAAAATTAGTGTTTT-AGAAATAAAACCGG
1 GGTTGGAGTATCCCCGATTATGAGGAAAATTAGTGTTTTGA-AAATAAAATCGG
* *
5327 GGTTGGAGTATCCCTGATTATGA-GAAAATTGGTGTTTTGAAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAGGAAAATTAGTGTTTTGAAAATAAAATCGG
5379 GGTTGGAGTATCCCCGATTATGA
1 GGTTGGAGTATCCCCGATTATGA
5402 ACAATTGAGA
Statistics
Matches: 105, Mismatches: 19, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
51 1 0.01
52 77 0.73
53 6 0.06
54 4 0.04
55 17 0.16
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.30
Consensus pattern (53 bp):
GGTTGGAGTATCCCCGATTATGAGGAAAATTAGTGTTTTGAAAATAAAATCGG
Found at i:7853 original size:61 final size:59
Alignment explanation
Indices: 7757--8354 Score: 542
Period size: 55 Copynumber: 10.3 Consensus size: 59
7747 AAAGAAGTGT
* * * * *
7757 GTCCTGTTCTTTGAGGACTGAAAAGTGCGATCAACTCGTGTGGTCTTTGAAAAAAGAAAGC
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTG-AAAAAG-AAGC
* *
7818 ATCCTGCTCTTTGAGAACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAGAAGGC
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAA--AGAA-GC
* * * *
7879 GTCCTACTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGAGCTTTGAAAGACGAAGGC
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAA-AAGAA-GC
* *
7939 GTCCTGCTCTTTGAGGACTAAAAAAGTGCCACCAACTTGTGTGGGATTTGCAAAAAGAAAGC
1 GTCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTG-AAAAAG-AAGC
* * * ** * *
8001 ATCTTGCTTTTTGAGGACTGAAAAGTGTTACCAACTTGTGTGGGCTTTAAAAAGAGAAGGT
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAA-AGAA-GC
* * * * *
8062 GTCTTGCTCTTTGAGGACTG-AAGGTGCCACTAACTTGCGTGAGCTTTG--AAAG--GC
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAAGAAGC
* * * *
8116 GTCCTGTTCCTTGAGGATTGAAAAATGCCACCAACTTGTGTGGGCTTTG--AAAG--GC
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAAGAAGC
* * * * *
8171 ATCTTGCTCTTTGAGGATTGGAAAA-TGCCACTAACTTGTGTGGGCTTT--AAAAG--GA
1 GTCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAAGAAGC
* * *
8226 GTCCTGCTCTTTGAGGACTGAAAGGTGCTACCAACTTGTGTGGACTTTG--AAAG--GC
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAAGAAGC
* * * *
8281 GTCCTGCTATTTGAGGACTGAAAAATGCCACCAACTCGTGTGGGC-TT-CAAAAG--GC
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAAGAAGC
8336 GTCCTGCTCTTTGAGGACT
1 GTCCTGCTCTTTGAGGACT
8355 AGAGGGCAAA
Statistics
Matches: 451, Mismatches: 68, Indels: 42
0.80 0.12 0.07
Matches are distributed among these distances:
54 23 0.05
55 175 0.39
56 5 0.01
57 2 0.00
58 2 0.00
59 4 0.01
60 78 0.17
61 111 0.25
62 46 0.10
63 5 0.01
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (59 bp):
GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAAGAAGC
Found at i:8085 original size:183 final size:174
Alignment explanation
Indices: 7757--8327 Score: 698
Period size: 183 Copynumber: 3.3 Consensus size: 174
7747 AAAGAAGTGT
* * * * * *
7757 GTCCTGTTCTTTGAGGACTGAAAAGTGCGATCAACTCGTGTGGTCTTTGAAAAAAGAAAGCATCC
1 GTCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTCGTGTGGGCTTTG-AAAAAGAAAGCATCT
* * *
7822 TGCTCTTTGAGAACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTACT
65 TGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAGAAGG-GTCCTGCT
7887 CTTTGAGGACTGAAGGTGCCACCAACTTGTGTGAGCTTTGAAAGACGAAGGC
129 CTTTGAGGACTGAAGGTGCCACCAACTTGTGTGAGCTTT----GA--AAGGC
* * *
7939 GTCCTGCTCTTTGAGGACTAAAAAAGTGCCACCAACTTGTGTGGGATTTGCAAAAAGAAAGCATC
1 GTCCTGCTCTTTGAGGACTGAAAAA-TGCCACCAACTCGTGTGGGCTTTG-AAAAAGAAAGCATC
* ** *
8004 TTGCTTTTTGAGGACTGAAAAGTGTTACCAACTTGTGTGGGCTTTAAAAAGAGAAGGTGTCTTGC
64 TTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAGAAGG-GTCCTGC
* *
8069 TCTTTGAGGACTGAAGGTGCCACTAACTTGCGTGAGCTTTGAAAGGC
128 TCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGAGCTTTGAAAGGC
* * * *
8116 GTCCTGTTCCTTGAGGATTGAAAAATGCCACCAACTTGTGTGGGCTTTG--AAAG---GCATCTT
1 GTCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTCGTGTGGGCTTTGAAAAAGAAAGCATCTT
* *
8176 GCTCTTTGAGGATTGGAAAA-TGCCACTAACTTGTGTGGGCTTT-AAAAG-G-A--GTCCTGCTC
66 GCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAGAAGGGTCCTGCTC
*
8235 TTTGAGGACTGAAAGGTGCTACCAACTTGTGTG-GACTTTGAAAGGC
130 TTTGAGGACTG-AAGGTGCCACCAACTTGTGTGAG-CTTTGAAAGGC
*
8281 GTCCTGCTATTTGAGGACTGAAAAATGCCACCAACTCGTGTGGGCTT
1 GTCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTCGTGTGGGCTT
8328 CAAAAGGCGT
Statistics
Matches: 346, Mismatches: 39, Indels: 25
0.84 0.10 0.06
Matches are distributed among these distances:
164 20 0.06
165 71 0.21
167 1 0.00
168 1 0.00
169 5 0.01
170 39 0.11
171 5 0.01
173 4 0.01
176 23 0.07
177 26 0.08
179 2 0.01
182 22 0.06
183 127 0.37
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (174 bp):
GTCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTCGTGTGGGCTTTGAAAAAGAAAGCATCTT
GCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAGAAGGGTCCTGCTCT
TTGAGGACTGAAGGTGCCACCAACTTGTGTGAGCTTTGAAAGGC
Found at i:8460 original size:55 final size:54
Alignment explanation
Indices: 8376--8540 Score: 240
Period size: 55 Copynumber: 3.0 Consensus size: 54
8366 GGAGAGAGCA
*
8376 TCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAG
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAG
* *
8431 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAG
* * * *
8486 TCCTACTCTTTGAAGACTAAAAAGTACCACCAACTTGTGTGGGCTTTAAAAGGAG
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAG
8541 AAGGCGTCCA
Statistics
Matches: 99, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
54 3 0.03
55 93 0.94
56 3 0.03
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (54 bp):
TCCTGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAG
Found at i:8497 original size:149 final size:149
Alignment explanation
Indices: 8227--8504 Score: 423
Period size: 149 Copynumber: 1.9 Consensus size: 149
8217 TTAAAAGGAG
* * *
8227 TCCTGCTCTTTGAGGACTGAAAGGTGCTACCAACTTGTGTGGACTTTGAAAGGCGTCCTGCTATT
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGACTTTAAAAGGAGTCCTGCTATT
* *
8292 TGAGGACTGAAAAATGCCACCAACTCGTGTGGGCTTCAAAAGGCGTCCTGCTCTTTGAGGACTAG
66 TGAGGACTGAAAAATGCCACCAACTCGTGTGGGCTTCAAAAGGCGTCCTACTCTTTGAAGACTAG
8357 AGGGCAAAAGGAGAGAGCA
131 AGGGCAAAAGGAGAGAGCA
* * *
8376 TCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCTCT
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGACTTTAAAAGGAGTCCTGCTAT
** * **
8440 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTACTCTTTGAAGACTA
65 TTGAGGACTGAAAAATGCCACCAACTCGTGTGGGCTTCAAAAGGCGTCCTACTCTTTGAAGACTA
8505 AAAAGTACCA
Statistics
Matches: 115, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
149 112 0.97
150 3 0.03
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (149 bp):
TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGACTTTAAAAGGAGTCCTGCTATT
TGAGGACTGAAAAATGCCACCAACTCGTGTGGGCTTCAAAAGGCGTCCTACTCTTTGAAGACTAG
AGGGCAAAAGGAGAGAGCA
Found at i:8528 original size:204 final size:204
Alignment explanation
Indices: 8169--8538 Score: 600
Period size: 204 Copynumber: 1.8 Consensus size: 204
8159 GCTTTGAAAG
* * *
8169 GCATCTTGCTCTTTGAGGATTGGAAAATGCCACTAACTTGTGTGGGCTTTAAAAGGAGTCCTGCT
1 GCATCCTGCTCTTTGAGGATAGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCT
* * *
8234 CTTTGAGGACTGAAAGGTGCTACCAACTTGTGTGGACTTTGAAAGGCGTCCTGCTATTTGAGGAC
66 CTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGACTTTGAAAGGCGTCCTACTATTTGAAGAC
*
8299 TGAAAAATGCCACCAACTCGTGTGGGCTTCAAAAGGCGTCCTGCTCTTTGAGGACTAGAGGGCAA
131 TGAAAAATACCACCAACTCGTGTGGGCTTCAAAAGGCGTCCTGCTCTTTGAGGACTAGAGGGCAA
8364 AAGGAGAGA
196 AAGGAGAGA
*
8373 GCATCCTGCTCTTTGAGGACTAGG-AAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGC
1 GCATCCTGCTCTTTGAGGA-TAGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGC
* *
8437 TCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTACTCTTTGAAGA
65 TCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGACTTTGAAAGGCGTCCTACTATTTGAAGA
* *
8502 CT-AAAAAGTACCACCAACTTGTGTGGGCTTTAAAAGG
130 CTGAAAAA-TACCACCAACTCGTGTGGGCTTCAAAAGG
8539 AGAAGGCGTC
Statistics
Matches: 152, Mismatches: 12, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
203 5 0.03
204 144 0.95
205 3 0.02
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.27
Consensus pattern (204 bp):
GCATCCTGCTCTTTGAGGATAGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCT
CTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGACTTTGAAAGGCGTCCTACTATTTGAAGAC
TGAAAAATACCACCAACTCGTGTGGGCTTCAAAAGGCGTCCTGCTCTTTGAGGACTAGAGGGCAA
AAGGAGAGA
Found at i:11581 original size:28 final size:28
Alignment explanation
Indices: 11542--11618 Score: 86
Period size: 28 Copynumber: 2.8 Consensus size: 28
11532 TTTTTTCATA
*
11542 ATCGGGGGTACTCCAACCCCGCTATTTC
1 ATCGGGGATACTCCAACCCCGCTATTTC
* * *
11570 ATCGGGGATACTCCAATCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGCTATTTC
11598 --CGAAGGGATACTCCAACCCCG
1 ATCG--GGGATACTCCAACCCCG
11619 GTTTTATTTC
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
26 2 0.05
28 39 0.95
ACGTcount: A:0.22, C:0.32, G:0.21, T:0.25
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGCTATTTC
Found at i:11685 original size:51 final size:51
Alignment explanation
Indices: 11602--11717 Score: 128
Period size: 51 Copynumber: 2.3 Consensus size: 51
11592 TATTTCCGAA
* * **
11602 GGGATACTCCAACCCCGGTTTTATTTCTAAAACA-CTAATTTTTCACAATCG
1 GGGATACACCAACCCCGATTTTATTTCTAAAACATC-AATCCTTCACAATCG
*
11653 GGGATACACCAATCCCGATTTTATTT-TAAAAACATCAATCCTTCACAATCG
1 GGGATACACCAACCCCGATTTTATTTCT-AAAACATCAATCCTTCACAATCG
* * *
11704 AGAATACTCCAACC
1 GGGATACACCAACC
11718 TCGTTATTTC
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
50 1 0.02
51 52 0.96
52 1 0.02
ACGTcount: A:0.34, C:0.27, G:0.10, T:0.29
Consensus pattern (51 bp):
GGGATACACCAACCCCGATTTTATTTCTAAAACATCAATCCTTCACAATCG
Found at i:13027 original size:51 final size:50
Alignment explanation
Indices: 12967--13133 Score: 171
Period size: 51 Copynumber: 3.3 Consensus size: 50
12957 GAAATAACGA
* * *
12967 GGTTGGAGTATCCTCGATTGT-GAAGGATTGGTGTTTTTA-AAATAAAACTGG
1 GGTTGGAGTATCC-CGATTGTGGAA-AATTAGTG-TTTTAGAAATAAAACCGG
13018 GGTTGGAGTATTCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAACCGG
1 GGTTGGAGTA-TCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAACCGG
* * * *
13069 GGTTGGAGTATCCCCGATTAT-GAGAAATCAATAG-TTTAGAAATAAAATCGG
1 GGTTGGAGTAT-CCCGATTGTGGA-AAATTAGT-GTTTTAGAAATAAAACCGG
*
13120 GGTTAGAGTATCCC
1 GGTTGGAGTATCCC
13134 TTCGAAAAAA
Statistics
Matches: 102, Mismatches: 8, Indels: 13
0.83 0.07 0.11
Matches are distributed among these distances:
50 11 0.11
51 84 0.82
52 7 0.07
ACGTcount: A:0.31, C:0.11, G:0.27, T:0.31
Consensus pattern (50 bp):
GGTTGGAGTATCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAACCGG
Found at i:13239 original size:55 final size:55
Alignment explanation
Indices: 13177--13361 Score: 250
Period size: 55 Copynumber: 3.4 Consensus size: 55
13167 AAATAGCGGA
13177 GTTGGAGTACCCCCGATTATGAAAAAAAATCAATATTTTTGGATATAAAGCCGGG
1 GTTGGAGTACCCCCGATTATGAAAAAAAATCAATATTTTTGGATATAAAGCCGGG
*
13232 GTTGGAGTACCCCCTATTATGAAAAAAAATCAATATTTTTGGATATAAAGCCGGG
1 GTTGGAGTACCCCCGATTATGAAAAAAAATCAATATTTTTGGATATAAAGCCGGG
* ** * * * * * *
13287 GTTGGAGTATCCCCGATTA--AAGGAAAATTAGT-GTTTTAGAAATAAAACCGGG
1 GTTGGAGTACCCCCGATTATGAAAAAAAATCAATATTTTTGGATATAAAGCCGGG
*
13339 GTTGGAGTATCCCCGATTATGAA
1 GTTGGAGTACCCCCGATTATGAA
13362 CAATTGAGAA
Statistics
Matches: 117, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
52 35 0.30
53 9 0.08
54 2 0.02
55 71 0.61
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (55 bp):
GTTGGAGTACCCCCGATTATGAAAAAAAATCAATATTTTTGGATATAAAGCCGGG
Found at i:14582 original size:21 final size:21
Alignment explanation
Indices: 14558--14623 Score: 83
Period size: 21 Copynumber: 3.5 Consensus size: 21
14548 TATGCCCATC
14558 ATTCCATGCCTTCACTTTCAT
1 ATTCCATGCCTTCACTTTCAT
14579 ATTCCATGCC--CA---TC--
1 ATTCCATGCCTTCACTTTCAT
14593 ATTCCATGCCTTCACTTTCAT
1 ATTCCATGCCTTCACTTTCAT
14614 ATTCCATGCC
1 ATTCCATGCC
14624 CATCATTCCA
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
14 10 0.26
16 4 0.11
19 4 0.11
21 20 0.53
ACGTcount: A:0.20, C:0.36, G:0.06, T:0.38
Consensus pattern (21 bp):
ATTCCATGCCTTCACTTTCAT
Found at i:14635 original size:21 final size:21
Alignment explanation
Indices: 14588--14635 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 21
14578 TATTCCATGC
*
14588 CCATCATTCCATGCCTTCACTT
1 CCAT-ATTCCATGCCATCACTT
*
14610 TCATATTCCATGCCCATCA-TT
1 CCATATTCCATG-CCATCACTT
14631 CCATA
1 CCATA
14636 CCTCCATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.23, C:0.38, G:0.04, T:0.35
Consensus pattern (21 bp):
CCATATTCCATGCCATCACTT
Found at i:14683 original size:35 final size:35
Alignment explanation
Indices: 14549--14676 Score: 211
Period size: 35 Copynumber: 3.7 Consensus size: 35
14539 TCATTTTTTT
14549 ATGCCCATCATTCCATGCCTTCACTTTCATATTCC
1 ATGCCCATCATTCCATGCCTTCACTTTCATATTCC
14584 ATGCCCATCATTCCATGCCTTCACTTTCATATTCC
1 ATGCCCATCATTCCATGCCTTCACTTTCATATTCC
* * * *
14619 ATGCCCATCATTCCATACCTCCATTTTTATATTCC
1 ATGCCCATCATTCCATGCCTTCACTTTCATATTCC
*
14654 ATGCCCATCATTTCATGCCTTCA
1 ATGCCCATCATTCCATGCCTTCA
14677 TTTTTATTAT
Statistics
Matches: 86, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 86 1.00
ACGTcount: A:0.21, C:0.36, G:0.05, T:0.38
Consensus pattern (35 bp):
ATGCCCATCATTCCATGCCTTCACTTTCATATTCC
Found at i:14731 original size:6 final size:6
Alignment explanation
Indices: 14690--14724 Score: 61
Period size: 6 Copynumber: 5.7 Consensus size: 6
14680 TTATTATTTT
14690 TTTTGAA TTTTAA TTTTAA TTTTAA TTTTAA TTTT
1 TTTT-AA TTTTAA TTTTAA TTTTAA TTTTAA TTTT
14725 TGATTTTTAC
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 24 0.86
7 4 0.14
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (6 bp):
TTTTAA
Found at i:16327 original size:13 final size:13
Alignment explanation
Indices: 16309--16334 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
16299 CAATTTTTTG
16309 TGTATCGATACAT
1 TGTATCGATACAT
16322 TGTATCGATACAT
1 TGTATCGATACAT
16335 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:16346 original size:32 final size:33
Alignment explanation
Indices: 16289--16352 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
16279 TACAAGCCAA
**
16289 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
16322 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
16353 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:19649 original size:22 final size:21
Alignment explanation
Indices: 19609--19654 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
19599 GATTAAATAA
19609 AAATTATATATCAAATACTTAT
1 AAATTATATATCAAATACTT-T
*
19631 AAATTATATAT-ATATTACTTT
1 AAATTATATATCA-AATACTTT
19652 AAA
1 AAA
19655 AAACTTAATC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (21 bp):
AAATTATATATCAAATACTTT
Found at i:19744 original size:32 final size:31
Alignment explanation
Indices: 19708--19824 Score: 128
Period size: 32 Copynumber: 3.7 Consensus size: 31
19698 ATTAAAATTT
19708 TTTAATAACTATCAAATTTATAAATAATTATA
1 TTTAAT-ACTATCAAATTTATAAATAATTATA
* *
19740 TTTAATATTCATCAAATTTATAAATAATTTTA
1 TTTAATACT-ATCAAATTTATAAATAATTATA
* * * * *
19772 TTTAATATTTATAAAATATACAAATAAATATA
1 TTTAATA-CTATCAAATTTATAAATAATTATA
*
19804 TTTAATTC-ATCAAATTTATAA
1 TTTAATACTATCAAATTTATAA
19825 TCAATATCGA
Statistics
Matches: 71, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
30 10 0.14
31 2 0.03
32 57 0.80
33 2 0.03
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (31 bp):
TTTAATACTATCAAATTTATAAATAATTATA
Found at i:20784 original size:18 final size:17
Alignment explanation
Indices: 20759--20798 Score: 62
Period size: 18 Copynumber: 2.3 Consensus size: 17
20749 AATATGAATA
20759 TAAAATATAATAATTTT
1 TAAAATATAATAATTTT
*
20776 TAAATATATAATATTTTT
1 TAAA-ATATAATAATTTT
20794 TAAAA
1 TAAAA
20799 ATTTTAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TAAAATATAATAATTTT
Found at i:21005 original size:21 final size:21
Alignment explanation
Indices: 20981--21025 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
20971 AAAAATAGCA
* *
20981 ATAGTGATGAGATT-AATTATT
1 ATAGTAATAAGATTGAA-TATT
21002 ATAGTAATAAGATTGAATATT
1 ATAGTAATAAGATTGAATATT
21023 ATA
1 ATA
21026 ATATGAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 19 0.90
22 2 0.10
ACGTcount: A:0.44, C:0.00, G:0.16, T:0.40
Consensus pattern (21 bp):
ATAGTAATAAGATTGAATATT
Found at i:21268 original size:18 final size:19
Alignment explanation
Indices: 21247--21291 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
21237 ATAAATAATT
*
21247 TAAAAATT-TTAAATAAAA
1 TAAAAATTATAAAATAAAA
21265 T--AAATTACTAAAATAAAA
1 TAAAAATTA-TAAAATAAAA
21283 TAAAAATTA
1 TAAAAATTA
21292 GAAATTTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
16 5 0.23
18 11 0.50
20 6 0.27
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (19 bp):
TAAAAATTATAAAATAAAA
Found at i:21321 original size:44 final size:45
Alignment explanation
Indices: 21231--21323 Score: 104
Period size: 43 Copynumber: 2.1 Consensus size: 45
21221 TTATTGTATT
*
21231 AAAT-AAATAAATAATTTAAAAATTTTAAATAAAATAAATTACTA
1 AAATAAAATAAATAATTTAAAAATTTTAAATAAAATAAATAACTA
* * *
21275 AAATAAAATAAA-AA-TTAGAAA-TTTATATATAAATAAATAATTTA
1 AAATAAAATAAATAATTTAAAAATTTTAAATA-AAATAAATAA-CTA
21319 AAATA
1 AAATA
21324 TTTAAAATAA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
42 7 0.17
43 15 0.36
44 13 0.31
45 7 0.17
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.33
Consensus pattern (45 bp):
AAATAAAATAAATAATTTAAAAATTTTAAATAAAATAAATAACTA
Found at i:21337 original size:29 final size:26
Alignment explanation
Indices: 21273--21349 Score: 77
Period size: 29 Copynumber: 2.9 Consensus size: 26
21263 AATAAATTAC
*
21273 TAAAAT-AAAATAAAAATTAGAAATT
1 TAAAATAAAAATAAAAATTAAAAATT
* *
21298 T-ATATATAAATAAATAATTTAAAATATT
1 TAAAATAAAAATAAA-AA-TTAAAA-ATT
*
21326 TAAAATAAAAATAAAAAATAAAAA
1 TAAAATAAAAATAAAAATTAAAAA
21350 ATTATATAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
24 3 0.07
25 8 0.20
26 3 0.07
27 10 0.24
28 6 0.15
29 11 0.27
ACGTcount: A:0.69, C:0.00, G:0.01, T:0.30
Consensus pattern (26 bp):
TAAAATAAAAATAAAAATTAAAAATT
Found at i:22891 original size:64 final size:64
Alignment explanation
Indices: 22790--22918 Score: 231
Period size: 64 Copynumber: 2.0 Consensus size: 64
22780 ACTACTTGAG
* *
22790 AACCCATGGATTCAACAATGATTTTTAAGCCTTTGTCAAATAATTGACTAATTCTAAAAAAGTT
1 AACCCATGGATTCAACAATGACTCTTAAGCCTTTGTCAAATAATTGACTAATTCTAAAAAAGTT
*
22854 AACCCATGGATTCAACAATGACTCTTAAGCCTTTGTCAAATAATTGACTAATTCTAAGAAAGTT
1 AACCCATGGATTCAACAATGACTCTTAAGCCTTTGTCAAATAATTGACTAATTCTAAAAAAGTT
22918 A
1 A
22919 TGCCTAAGAC
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 62 1.00
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.33
Consensus pattern (64 bp):
AACCCATGGATTCAACAATGACTCTTAAGCCTTTGTCAAATAATTGACTAATTCTAAAAAAGTT
Found at i:26176 original size:18 final size:18
Alignment explanation
Indices: 26143--26177 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
26133 CAGAAAATAT
* *
26143 ATACATACGTATACATAC
1 ATACATACATACACATAC
26161 ATACATACATACACATA
1 ATACATACATACACATA
26178 TATATATATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.23, G:0.03, T:0.26
Consensus pattern (18 bp):
ATACATACATACACATAC
Found at i:29829 original size:12 final size:12
Alignment explanation
Indices: 29780--29831 Score: 52
Period size: 12 Copynumber: 4.3 Consensus size: 12
29770 AAACTCATAA
*
29780 ATATTTATTCAT
1 ATATATATTCAT
* * *
29792 ACATACATACAT
1 ATATATATTCAT
29804 ATATATATAT-AT
1 ATATATAT-TCAT
29816 ATATATATTCAT
1 ATATATATTCAT
29828 ATAT
1 ATAT
29832 TGAATATCCA
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
11 1 0.03
12 30 0.97
ACGTcount: A:0.44, C:0.10, G:0.00, T:0.46
Consensus pattern (12 bp):
ATATATATTCAT
Found at i:31960 original size:21 final size:21
Alignment explanation
Indices: 31934--31976 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
31924 GTCGAAAAAT
31934 TGCTCCTTCTTGACGAGGAAC
1 TGCTCCTTCTTGACGAGGAAC
31955 TGCTCCTTCTTGACGAGGAAC
1 TGCTCCTTCTTGACGAGGAAC
31976 T
1 T
31977 TAAGGCAGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.23, T:0.30
Consensus pattern (21 bp):
TGCTCCTTCTTGACGAGGAAC
Found at i:32541 original size:3 final size:3
Alignment explanation
Indices: 32533--32572 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
32523 TTTCTATTCC
* *
32533 GTT GTT GTT GTT GTT GCT GTT GCT GTT GTT GTT GTT GTT G
1 GTT GTT GTT GTT GTT GTT GTT GTT GTT GTT GTT GTT GTT G
32573 CTACTGCTGT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.00, C:0.05, G:0.35, T:0.60
Consensus pattern (3 bp):
GTT
Found at i:32580 original size:24 final size:24
Alignment explanation
Indices: 32533--32582 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
32523 TTTCTATTCC
**
32533 GTTGTTGTTGTTGTTGCTGTTGCT
1 GTTGTTGTTGTTGTTGCTACTGCT
32557 GTTGTTGTTGTTGTTGCTACTGCT
1 GTTGTTGTTGTTGTTGCTACTGCT
32581 GT
1 GT
32583 AATGGCGTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.02, C:0.10, G:0.32, T:0.56
Consensus pattern (24 bp):
GTTGTTGTTGTTGTTGCTACTGCT
Found at i:33088 original size:76 final size:76
Alignment explanation
Indices: 32899--33090 Score: 203
Period size: 78 Copynumber: 2.5 Consensus size: 76
32889 TCTACTTTTC
* *
32899 ATTCTAGAAAGTCTATATTTATCAACGCAAGTTTAAATGTCTTTATATATTTAAAATAAAATAAA
1 ATTCTAGAAAGTCTATATTTATCAACGTAAGTTTAAATGTCTTTACATATTTAAAATAAAATAAA
32964 ATAAAAATTCT
66 ATAAAAATTCT
* * * *
32975 ATTTTCTAGAAAGTCTATTTTTATCAACTTAACTTTAAATGT-TTGTACATATTTTTAAA-AAAA
1 A--TTCTAGAAAGTCTATATTTATCAACGTAAGTTTAAATGTCTT-TACATA-TTTAAAATAAAA
* * **
33038 T-ATATATATTTTCT
62 TAAAATAAAAATTCT
*
33052 GATTCTAGAAAGTCTATATTAATCAAC-TAAGGTTTAAAT
1 -ATTCTAGAAAGTCTATATTTATCAACGTAA-GTTTAAAT
33091 TGCAAAAATA
Statistics
Matches: 97, Mismatches: 13, Indels: 12
0.80 0.11 0.10
Matches are distributed among these distances:
75 3 0.03
76 31 0.32
77 11 0.11
78 46 0.47
79 6 0.06
ACGTcount: A:0.41, C:0.09, G:0.07, T:0.42
Consensus pattern (76 bp):
ATTCTAGAAAGTCTATATTTATCAACGTAAGTTTAAATGTCTTTACATATTTAAAATAAAATAAA
ATAAAAATTCT
Found at i:33159 original size:17 final size:17
Alignment explanation
Indices: 33121--33159 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
33111 AATAGGTTTA
*
33121 AATTTAAAAAATTAATT
1 AATTTTAAAAATTAATT
*
33138 -CTTTTAAAAATTAATT
1 AATTTTAAAAATTAATT
33154 AATTTT
1 AATTTT
33160 TTAATATGAT
Statistics
Matches: 18, Mismatches: 3, Indels: 2
0.78 0.13 0.09
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (17 bp):
AATTTTAAAAATTAATT
Found at i:34062 original size:25 final size:25
Alignment explanation
Indices: 34034--34126 Score: 66
Period size: 25 Copynumber: 3.7 Consensus size: 25
34024 TATATGAAGT
34034 TTTAAATAATATTTTAATTTATATA
1 TTTAAATAATATTTTAATTTATATA
* * * *
34059 TTTATATCATA-TTTATATTTTTGTA
1 TTTAAATAATATTTTA-ATTTATATA
* *
34084 TTATAAA-AGTATTTAAAGTTTTATATA
1 TT-TAAATAATATTTTAA--TTTATATA
*
34111 TTTATATAA-ATTTTAA
1 TTTAAATAATATTTTAA
34127 AAATTAAAAA
Statistics
Matches: 49, Mismatches: 13, Indels: 11
0.67 0.18 0.15
Matches are distributed among these distances:
24 4 0.08
25 21 0.43
26 15 0.31
27 9 0.18
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (25 bp):
TTTAAATAATATTTTAATTTATATA
Found at i:35845 original size:23 final size:24
Alignment explanation
Indices: 35783--35845 Score: 60
Period size: 23 Copynumber: 2.7 Consensus size: 24
35773 ATGAATTAAG
* * *
35783 ATAATACAAACACAACATAGAAAA
1 ATAATATAAACATAATATAGAAAA
*
35807 GTAAT-TAAA-ATCAATAT-GAAAA
1 ATAATATAAACAT-AATATAGAAAA
35829 ATAATATAAACATAATA
1 ATAATATAAACATAATA
35846 CAAATATACA
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
22 10 0.32
23 15 0.48
24 6 0.19
ACGTcount: A:0.63, C:0.10, G:0.05, T:0.22
Consensus pattern (24 bp):
ATAATATAAACATAATATAGAAAA
Found at i:35871 original size:17 final size:18
Alignment explanation
Indices: 35826--35872 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
35816 ATCAATATGA
*
35826 AAAATAATATAAACATAAT
1 AAAAT-ATACAAACATAAT
35845 ACAAATATACAAACAT-AT
1 A-AAATATACAAACATAAT
35863 AAAATATACA
1 AAAATATACA
35873 TAAAATAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 9 0.35
18 3 0.12
19 10 0.38
20 4 0.15
ACGTcount: A:0.66, C:0.11, G:0.00, T:0.23
Consensus pattern (18 bp):
AAAATATACAAACATAAT
Found at i:36259 original size:16 final size:16
Alignment explanation
Indices: 36230--36280 Score: 63
Period size: 16 Copynumber: 3.4 Consensus size: 16
36220 TAATAATTTA
36230 AATATA-TATA-ATAT
1 AATATATTATATATAT
*
36244 AATATATTATTTATAT
1 AATATATTATATATAT
*
36260 TATATATTATATA-AT
1 AATATATTATATATAT
36275 AATATA
1 AATATA
36281 AATAATTTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
14 6 0.19
15 10 0.32
16 15 0.48
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
AATATATTATATATAT
Found at i:36292 original size:28 final size:28
Alignment explanation
Indices: 36232--36292 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
36222 ATAATTTAAA
* * *
36232 TATATATAATATAATATATTATTTATAT
1 TATATATAATATAATATATAAATAATAT
*
36260 TATATATTATATAATAATATAAATAAT-T
1 TATATATAATATAAT-ATATAAATAATAT
36288 TATAT
1 TATAT
36293 TTTAAAACTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 20 0.71
29 8 0.29
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (28 bp):
TATATATAATATAATATATAAATAATAT
Found at i:36461 original size:16 final size:15
Alignment explanation
Indices: 36427--36455 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
36417 AGAATACTTA
36427 CTTTATTTTTTCTCT
1 CTTTATTTTTTCTCT
36442 CTTT-TTTTTTCTCT
1 CTTTATTTTTTCTCT
36456 TTCTTTCCTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.76
Consensus pattern (15 bp):
CTTTATTTTTTCTCT
Found at i:36482 original size:11 final size:12
Alignment explanation
Indices: 36432--36475 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
36422 ACTTACTTTA
36432 TTTTTTCTCTCT
1 TTTTTTCTCTCT
*
36444 TTTTTTTTCTCT
1 TTTTTTCTCTCT
*
36456 TTCTTTCCTCTCCT
1 TT-TTTTCTCT-CT
36470 TTTTTT
1 TTTTTT
36476 TTCCTTTCTC
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
12 13 0.50
13 9 0.35
14 4 0.15
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (12 bp):
TTTTTTCTCTCT
Found at i:36495 original size:25 final size:27
Alignment explanation
Indices: 36437--36496 Score: 81
Period size: 26 Copynumber: 2.3 Consensus size: 27
36427 CTTTATTTTT
* *
36437 TCTCTCTTTTTTTTTCTCTTTCTTTCC
1 TCTCCCTTTTTTTTTCTCTTTCTTCCC
36464 TCT-CCTTTTTTTTTC-CTTTC-TCCC
1 TCTCCCTTTTTTTTTCTCTTTCTTCCC
36488 TCTCCCTTT
1 TCTCCCTTT
36497 CCCTCTTCCC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 6 0.20
25 10 0.33
26 11 0.37
27 3 0.10
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (27 bp):
TCTCCCTTTTTTTTTCTCTTTCTTCCC
Found at i:38610 original size:33 final size:33
Alignment explanation
Indices: 38573--38639 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
38563 TTCAACGATT
38573 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
38606 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
38639 T
1 T
38640 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:38611 original size:13 final size:13
Alignment explanation
Indices: 38593--38617 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38583 CATAAAATGT
38593 TGTATCGATACAA
1 TGTATCGATACAA
38606 TGTATCGATACA
1 TGTATCGATACA
38618 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:38698 original size:13 final size:13
Alignment explanation
Indices: 38680--38704 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38670 ATTACTCAAA
38680 TGTATCGATACAT
1 TGTATCGATACAT
38693 TGTATCGATACA
1 TGTATCGATACA
38705 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:38806 original size:52 final size:52
Alignment explanation
Indices: 38713--38840 Score: 224
Period size: 52 Copynumber: 2.5 Consensus size: 52
38703 CACTGATCTT
*
38713 TGTATCGATACATGCAGGC-AATTTGCCCAGATGTATCGATACA-TTTTAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATT-AAA
38764 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
38816 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
38841 TCATATTTCG
Statistics
Matches: 74, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
51 19 0.26
52 52 0.70
53 3 0.04
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
Found at i:42558 original size:18 final size:19
Alignment explanation
Indices: 42522--42559 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
42512 GATGATAGGA
42522 AGAGAGATGGAGAGATAAT
1 AGAGAGATGGAGAGATAAT
*
42541 AGAGAGAT-GAGGGATAAT
1 AGAGAGATGGAGAGATAAT
42559 A
1 A
42560 AAAGGAGGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.47, C:0.00, G:0.37, T:0.16
Consensus pattern (19 bp):
AGAGAGATGGAGAGATAAT
Found at i:49911 original size:20 final size:19
Alignment explanation
Indices: 49888--49929 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 19
49878 TTAAAAAAAT
*
49888 AAAATAAAAGAATAAAAGAA
1 AAAAAAAAAGAA-AAAAGAA
49908 AAAAAAAAAGAAAAAAGAA
1 AAAAAAAAAGAAAAAAGAA
49927 AAA
1 AAA
49930 TGGCACCAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.86, C:0.00, G:0.10, T:0.05
Consensus pattern (19 bp):
AAAAAAAAAGAAAAAAGAA
Found at i:49924 original size:19 final size:20
Alignment explanation
Indices: 49879--49929 Score: 70
Period size: 19 Copynumber: 2.5 Consensus size: 20
49869 AATTTAAAAT
49879 TAAAA-AAATAAAATAAAAGAA
1 TAAAAGAAA-AAAA-AAAAGAA
49900 TAAAAGAAAAAAAAAAAGAA
1 TAAAAGAAAAAAAAAAAGAA
49920 -AAAAGAAAAA
1 TAAAAGAAAAA
49930 TGGCACCAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
19 10 0.34
20 7 0.24
21 9 0.31
22 3 0.10
ACGTcount: A:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (20 bp):
TAAAAGAAAAAAAAAAAGAA
Found at i:50951 original size:14 final size:15
Alignment explanation
Indices: 50924--50957 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
50914 AGACTAGATT
*
50924 AAATAAATATAATTC
1 AAATAAATATAATTA
50939 AAATAAA-ATAATTA
1 AAATAAATATAATTA
50953 AAATA
1 AAATA
50958 TCATTTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (15 bp):
AAATAAATATAATTA
Found at i:51366 original size:18 final size:19
Alignment explanation
Indices: 51343--51378 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
51333 GCATAATACA
51343 TACAACAATCAAA-GCTTC
1 TACAACAATCAAATGCTTC
*
51361 TACAACAGTCAAATGCTT
1 TACAACAATCAAATGCTT
51379 GCAAAAGAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.42, C:0.25, G:0.08, T:0.25
Consensus pattern (19 bp):
TACAACAATCAAATGCTTC
Found at i:64520 original size:21 final size:21
Alignment explanation
Indices: 64494--64534 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
64484 AGTCATAATC
*
64494 AGCACCTACTGTACCTCAAAT
1 AGCACCTACAGTACCTCAAAT
64515 AGCACCTACAGTACCTCAAA
1 AGCACCTACAGTACCTCAAA
64535 CAGAACCACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.37, C:0.34, G:0.10, T:0.20
Consensus pattern (21 bp):
AGCACCTACAGTACCTCAAAT
Found at i:75844 original size:140 final size:139
Alignment explanation
Indices: 75587--75868 Score: 501
Period size: 140 Copynumber: 2.0 Consensus size: 139
75577 GCGTTAGTGA
*
75587 AATTGAAACCCAGAAGGAAACATCTTAGCTTTGGATTTTGCATTGTAAACAGGCATTTAAATTTG
1 AATTGAAACCCAAAAGGAAACATCTTAGCTTTGGATTTTGCATTGTAAACAGGCATTTAAATTTG
* *
75652 AATAAAATCGAACAAATTCACTATTTTCGGTCTGAAACTATATTATTTTATCAAATCAAAATGAG
66 AATAAAATCGAACAAATTCAATATTTTCGGTCTGAAACTATATTATTATATCAAAT-AAAATGAG
75717 AAAATGGTTG
130 AAAATGGTTG
* *
75727 AATTGAATCCCAAAAGGAAACATCTTAGCTTTGGATTTTGCATTGTAAACAGGCATTTGAATTTG
1 AATTGAAACCCAAAAGGAAACATCTTAGCTTTGGATTTTGCATTGTAAACAGGCATTTAAATTTG
*
75792 AATAAAATCGAACATATTCAATATTTTCGGTCTGAAACTATATTATTATATCAAATAAAATGAGA
66 AATAAAATCGAACAAATTCAATATTTTCGGTCTGAAACTATATTATTATATCAAATAAAATGAGA
75857 AAATGGTTG
131 AAATGGTTG
75866 AAT
1 AAT
75869 ATCATTTTGT
Statistics
Matches: 136, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
139 21 0.15
140 115 0.85
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (139 bp):
AATTGAAACCCAAAAGGAAACATCTTAGCTTTGGATTTTGCATTGTAAACAGGCATTTAAATTTG
AATAAAATCGAACAAATTCAATATTTTCGGTCTGAAACTATATTATTATATCAAATAAAATGAGA
AAATGGTTG
Found at i:76172 original size:17 final size:17
Alignment explanation
Indices: 76115--76182 Score: 57
Period size: 17 Copynumber: 3.9 Consensus size: 17
76105 TTTAAATATT
*
76115 AAATAAATAAATTTAATATT
1 AAATAAAT--ATTTAATA-A
* *
76135 AATTAAATATTAAAT-A
1 AAATAAATATTTAATAA
*
76151 TAATAAATATTTAATAA
1 AAATAAATATTTAATAA
*
76168 AAATATATATTTAAT
1 AAATAAATATTTAAT
76183 TAAATAAAAT
Statistics
Matches: 39, Mismatches: 8, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
16 12 0.31
17 14 0.36
18 6 0.15
20 7 0.18
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AAATAAATATTTAATAA
Found at i:76884 original size:22 final size:23
Alignment explanation
Indices: 76859--76918 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 23
76849 TATAAAAAAA
76859 ATATTTTTATATTAATATTT-AT
1 ATATTTTTATATTAATATTTAAT
76881 ATATTTTTATAATT-ATATTTAAAT
1 ATATTTTTAT-ATTAATATTT-AAT
*
76905 AAATTTTT-TATTAA
1 ATATTTTTATATTAA
76919 ATGAAAAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
22 19 0.58
23 5 0.15
24 9 0.27
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (23 bp):
ATATTTTTATATTAATATTTAAT
Found at i:77331 original size:22 final size:22
Alignment explanation
Indices: 77306--77355 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
77296 TAATAATTTT
77306 TTATTTAA-ATTTAATTATAAAA
1 TTATTTAATATTTAA-TATAAAA
*
77328 TTATATAAATATTTAATATAAAA
1 TTAT-TTAATATTTAATATAAAA
77351 -TATTT
1 TTATTT
77356 TTTAATATTG
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
21 1 0.04
22 7 0.29
23 10 0.42
24 6 0.25
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
TTATTTAATATTTAATATAAAA
Found at i:77362 original size:24 final size:24
Alignment explanation
Indices: 77309--77364 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
77299 TAATTTTTTA
77309 TTTAA-ATTTAATTATAAAATTAT
1 TTTAATATTTAATTATAAAATTAT
* * *
77332 ATAAATATTTAA-TATAAAATATTT
1 TTTAATATTTAATTATAAAAT-TAT
77356 TTTAATATT
1 TTTAATATT
77365 GTTAGGATCT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
23 11 0.42
24 15 0.58
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (24 bp):
TTTAATATTTAATTATAAAATTAT
Found at i:77655 original size:20 final size:19
Alignment explanation
Indices: 77626--77664 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
77616 AGGTCAAAAC
77626 CCTTAAATGTATCGATACA
1 CCTTAAATGTATCGATACA
77645 CCTTCAAATGTATCGATACA
1 CCTT-AAATGTATCGATACA
77665 GAATGCACAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.36, C:0.23, G:0.10, T:0.31
Consensus pattern (19 bp):
CCTTAAATGTATCGATACA
Found at i:77692 original size:13 final size:13
Alignment explanation
Indices: 77674--77698 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
77664 AGAATGCACA
77674 GTATCGATACATT
1 GTATCGATACATT
77687 GTATCGATACAT
1 GTATCGATACAT
77699 GACCAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:77817 original size:13 final size:13
Alignment explanation
Indices: 77799--77824 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
77789 ACACACAATA
77799 TGTATCGATACAT
1 TGTATCGATACAT
77812 TGTATCGATACAT
1 TGTATCGATACAT
77825 CCCAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:77840 original size:33 final size:32
Alignment explanation
Indices: 77779--77846 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 32
77769 CCTTAACTGT
*
77779 TTGTATCGATACACACAATATGTATCGATACA
1 TTGTATCGATACACACAAAATGTATCGATACA
*
77811 TTGTATCGATACATCCCAAAATGTATCGATACA
1 TTGTATCGATACA-CACAAAATGTATCGATACA
77844 TTG
1 TTG
77847 GTTTGTAACG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 13 0.39
33 20 0.61
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.32
Consensus pattern (32 bp):
TTGTATCGATACACACAAAATGTATCGATACA
Found at i:79451 original size:12 final size:12
Alignment explanation
Indices: 79434--79468 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
79424 AATGAAGAAG
79434 AAGAAGATGATA
1 AAGAAGATGATA
79446 AAGAAGATGATA
1 AAGAAGATGATA
* *
79458 ATGATGATGAT
1 AAGAAGATGAT
79469 GGTGATTCGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.51, C:0.00, G:0.26, T:0.23
Consensus pattern (12 bp):
AAGAAGATGATA
Found at i:83316 original size:16 final size:16
Alignment explanation
Indices: 83297--83333 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
83287 AAATAAATAG
*
83297 AAAATAAAAAAG--CA
1 AAAAAAAAAAAGACCA
83311 AAAAAAAAAAAGACCA
1 AAAAAAAAAAAGACCA
83327 AAAAAAA
1 AAAAAAA
83334 GAACGAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 11 0.55
16 9 0.45
ACGTcount: A:0.84, C:0.08, G:0.05, T:0.03
Consensus pattern (16 bp):
AAAAAAAAAAAGACCA
Found at i:85583 original size:80 final size:80
Alignment explanation
Indices: 85487--85852 Score: 364
Period size: 80 Copynumber: 4.5 Consensus size: 80
85477 TTCTGAAGGA
* * *
85487 ATACTCTAATCCTGTTTCTACCTCTAAAAAATCAAAATTTTTATTTTTAGGGATACTCCAACCCT
1 ATACTCCAATCCTGTTTTTACCTCTAAAAAATCAAAATTTTCATTTTTAGGGATACTCCAACCCT
*
85552 ACCATTTTTTAGGGG
66 ACCATTTCTTAGGGG
* * * * *
85567 ATACTCCAATTCTGTTTTAACCTTTAAAAACAATCAAAATTTTCA-TTTTCGGAGATACTCAAAC
1 ATACTCCAATCCTGTTTTTACCTCT-AAAA-AATCAAAATTTTCATTTTTAGG-GATACTCCAAC
* * *
85631 CCCACTATTTTTTTAGGGG
63 CCTACCA-TTTCTTAGGGG
* * * * * * * ** *
85650 ATACTCCTACCCTGTTTTTACTTTTAAAAGTATC-CAATTTTCCATCTTCGGGGATATTCCAA-C
1 ATACTCCAATCCTGTTTTTACCTCTAAAA-AATCAAAATTTT-CATTTTTAGGGATACTCCAACC
* * *
85713 CTCGCCATCTCTAAGGGG
64 CT-ACCATTTCTTAGGGG
85731 ATACTCCAA-CCTCGTTTTTACCTCTAAAAAATCAAAATTTTCATTTTTAGGGATACTCCAACCC
1 ATACTCCAATCCT-GTTTTTACCTCTAAAAAATCAAAATTTTCATTTTTAGGGATACTCCAACCC
* *
85795 TATCATTTCTGAGGGG
65 TACCATTTCTTAGGGG
*
85811 ATACTCCAATCCTGTTTTTACTTCTAAAAATATC-AAATTTTC
1 ATACTCCAATCCTGTTTTTACCTCTAAAAA-ATCAAAATTTTC
85853 TATCTTCGAG
Statistics
Matches: 231, Mismatches: 43, Indels: 24
0.78 0.14 0.08
Matches are distributed among these distances:
80 86 0.37
81 63 0.27
82 47 0.20
83 35 0.15
ACGTcount: A:0.30, C:0.23, G:0.10, T:0.37
Consensus pattern (80 bp):
ATACTCCAATCCTGTTTTTACCTCTAAAAAATCAAAATTTTCATTTTTAGGGATACTCCAACCCT
ACCATTTCTTAGGGG
Found at i:85833 original size:161 final size:164
Alignment explanation
Indices: 85562--85874 Score: 406
Period size: 161 Copynumber: 1.9 Consensus size: 164
85552 ACCATTTTTT
* * *
85562 AGGGGATACTCCAATTCTGTTTTAACCTTTAAAAACAATCAAAATTTTCATTTTCGGAGATACTC
1 AGGGGATACTCCAACTCTGTTTTAACCTCTAAAAACAATCAAAATTTTCATTTTAGGAGATACTC
* * * * * *
85627 AAACCCCACTATTTTTTTAGGGGATACTCCTACCCTGTTTTTACTTTTAAAAGTATCCAATTTTC
66 AAACCCCACTATTTTCTGAGGGGATACTCCAACCCTGTTTTTACTTCTAAAAATATCAAATTTTC
*
85692 CATCTTCGGGGATA-TTCCAACCTCGCCATCTCTA
131 CATCTTCGAGGATACTT-CAACCTCGCCATCTCTA
*
85726 AGGGGATACTCCAAC-CTCGTTTTTACCTCT-AAAA-AATCAAAATTTTCATTTTTAGG-GATAC
1 AGGGGATACTCCAACTCT-GTTTTAACCTCTAAAAACAATCAAAATTTTCA-TTTTAGGAGATAC
* * *
85787 TCCAACCCTA-TCA-TTTCTGAGGGGATACTCCAATCCTGTTTTTACTTCTAAAAATATCAAATT
64 TCAAACCCCACT-ATTTTCTGAGGGGATACTCCAACCCTGTTTTTACTTCTAAAAATATCAAATT
*
85850 TTCTATCTTCGAGGATACTTCAACC
128 TTCCATCTTCGAGGATACTTCAACC
85875 CATTATCTCC
Statistics
Matches: 130, Mismatches: 15, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
161 64 0.49
162 30 0.23
163 12 0.09
164 24 0.18
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.36
Consensus pattern (164 bp):
AGGGGATACTCCAACTCTGTTTTAACCTCTAAAAACAATCAAAATTTTCATTTTAGGAGATACTC
AAACCCCACTATTTTCTGAGGGGATACTCCAACCCTGTTTTTACTTCTAAAAATATCAAATTTTC
CATCTTCGAGGATACTTCAACCTCGCCATCTCTA
Found at i:85909 original size:80 final size:78
Alignment explanation
Indices: 85645--85909 Score: 248
Period size: 80 Copynumber: 3.3 Consensus size: 78
85635 CTATTTTTTT
* * * * *
85645 AGGGGATACTCCTACCCTGTTTTTACTTTTAAAAGTATCCAATTTTCCATCTTCGGGGATA-TTC
1 AGGGGATACTCC-AACCTGTTTTTACTTCTAAAAATATCAAATTTT-CATCTTCGAGGATACTT-
**
85709 CAACCTCGCCATCTCTA
63 CAACC-CATCATCTCTA
* ** *
85726 AGGGGATACTCCAACCTCGTTTTTACCTCTAAAAA-ATCAAAATTTTCAT-TTTTAGGGATACTC
1 AGGGGATACTCCAACCT-GTTTTTACTTCTAAAAATATC-AAATTTTCATCTTCGA-GGATACTT
* *
85789 CAACCCTATCATTTCTG
63 CAACCC-ATCATCTCTA
85806 AGGGGATACTCCAATCCTGTTTTTACTTCTAAAAATATCAAATTTTCTATCTTCGAGGATACTTC
1 AGGGGATACTCCAA-CCTGTTTTTACTTCTAAAAATATCAAATTTTC-ATCTTCGAGGATACTTC
* *
85871 AACCCATTATCTCCA
64 AACCCATCATCTCTA
* * *
85886 AGAGGTATGCTCCAACCTTTTTTT
1 AG-GGGATACTCCAACCTGTTTTT
85910 TCAAAATTTC
Statistics
Matches: 150, Mismatches: 24, Indels: 21
0.77 0.12 0.11
Matches are distributed among these distances:
79 3 0.02
80 80 0.53
81 64 0.43
82 3 0.02
ACGTcount: A:0.27, C:0.25, G:0.12, T:0.36
Consensus pattern (78 bp):
AGGGGATACTCCAACCTGTTTTTACTTCTAAAAATATCAAATTTTCATCTTCGAGGATACTTCAA
CCCATCATCTCTA
Found at i:85910 original size:81 final size:79
Alignment explanation
Indices: 85645--85910 Score: 243
Period size: 81 Copynumber: 3.3 Consensus size: 79
85635 CTATTTTTTT
* * * * * *
85645 AGGGGATACTCCTACCCTGTTTTTACTTTTAAAAGTATCCAATTTTCCATCTTCGGGGATA-TTC
1 AGGGGATACTCCAACCTTGTTTTTACTTCTAAAAATATCAAATTTT-CATCTTCGAGGATACTT-
**
85709 CAACCTCGCCATCTCTA
64 CAACC-CATCATCTCTA
* * ** *
85726 AGGGGATACTCCAACCTCGTTTTTACCTCTAAAAA-ATCAAAATTTTCAT-TTTTAGGGATACTC
1 AGGGGATACTCCAACCTTGTTTTTACTTCTAAAAATATC-AAATTTTCATCTTCGA-GGATACTT
* *
85789 CAACCCTATCATTTCTG
64 CAACCC-ATCATCTCTA
85806 AGGGGATACTCCAATCC-TGTTTTTACTTCTAAAAATATCAAATTTTCTATCTTCGAGGATACTT
1 AGGGGATACTCCAA-CCTTGTTTTTACTTCTAAAAATATCAAATTTTC-ATCTTCGAGGATACTT
* *
85870 CAACCCATTATCTCCA
64 CAACCCATCATCTCTA
* * *
85886 AGAGGTATGCTCCAACCTTTTTTTT
1 AG-GGGATACTCCAACCTTGTTTTT
85911 CAAAATTTCT
Statistics
Matches: 148, Mismatches: 27, Indels: 20
0.76 0.14 0.10
Matches are distributed among these distances:
79 3 0.02
80 70 0.47
81 72 0.49
82 3 0.02
ACGTcount: A:0.27, C:0.24, G:0.12, T:0.36
Consensus pattern (79 bp):
AGGGGATACTCCAACCTTGTTTTTACTTCTAAAAATATCAAATTTTCATCTTCGAGGATACTTCA
ACCCATCATCTCTA
Found at i:95762 original size:81 final size:79
Alignment explanation
Indices: 95654--95857 Score: 230
Period size: 81 Copynumber: 2.6 Consensus size: 79
95644 AATAACGGAG
* * * * * * *
95654 TTGGAGTGTTCCCTTGAAAATAACGGGGCTCGAGTATCCCCGGTTATGAGAAATCGATGA-TTAG
1 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAAT-ATTTAG
*
95718 AGGAAAAAAAATCGGGA
65 -GG-AAAAAAACCGGGA
* *
95735 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGG
1 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTAGG
* * *
95800 GAATAAAGCCGGGG
66 GAAAAAAACCGGGA
* * *
95814 TTGGAGTATCCTCTCGGAAGTAACGGGGTTGGAGTATCCCCGAT
1 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGAT
95858 GAAATAACGA
Statistics
Matches: 105, Mismatches: 17, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
79 49 0.47
80 3 0.03
81 53 0.50
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (79 bp):
TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTAGG
GAAAAAAACCGGGA
Found at i:95849 original size:28 final size:28
Alignment explanation
Indices: 95809--95882 Score: 98
Period size: 28 Copynumber: 2.6 Consensus size: 28
95799 GGAATAAAGC
*
95809 CGGGGTTGGAGTATCCTCTCG-GAAGTAA
1 CGGGGTTGGAGTATCCTC-CGAGAAATAA
95837 CGGGGTTGGAGTATCC-CCGATGAAATAA
1 CGGGGTTGGAGTATCCTCCGA-GAAATAA
*
95865 CGAGGTTGGAGTATCCTC
1 CGGGGTTGGAGTATCCTC
95883 GATTGTGAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
26 2 0.05
27 1 0.02
28 37 0.90
29 1 0.02
ACGTcount: A:0.23, C:0.19, G:0.34, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCTCCGAGAAATAA
Found at i:95938 original size:52 final size:51
Alignment explanation
Indices: 95869--96038 Score: 146
Period size: 52 Copynumber: 3.3 Consensus size: 51
95859 AAATAACGAG
* * * **
95869 GTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATTGGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTGG-AGTTTTGAAAATAAAACCGGA
*** * *
95921 GTTGGAGTATCCCCGATTAAAAGAAAATTGGCGTTTTGAAAATAAAACCGGG
1 GTTGGAGTATCCCCGATTGTGA-AAAATTGGAGTTTTGAAAATAAAACCGGA
* * * **
95973 GTTGGAGTACCCCCGATTGTGGAAAAATTAGTGTTTT-AGCGATAAAACC-GA
1 GTTGGAGTATCCCCGATTGT-GAAAAATTGGAGTTTTGA-AAATAAAACCGGA
96024 GGTTGGAGTATCCCC
1 -GTTGGAGTATCCCC
96039 TCGAAAATAA
Statistics
Matches: 94, Mismatches: 20, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
51 2 0.02
52 83 0.88
53 9 0.10
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTGGAGTTTTGAAAATAAAACCGGA
Found at i:96199 original size:209 final size:211
Alignment explanation
Indices: 95802--96204 Score: 580
Period size: 209 Copynumber: 1.9 Consensus size: 211
95792 TATTTTGGGA
* * * * *
95802 ATAAAGCCGGGGTTGGAGTATCCTCTCGGAAGTAACGGGGTTGGAGTATCCCCGATGAAATAACG
1 ATAAAACCGAGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGAAATAAC-
* * **
95867 AGGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATTGGAGTTGGAGTATC
65 AGGTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTAAAGTATC
* * *
95932 CCCGATTAAAAGAAAATTGGCGTTTTGAAAATAAAACCGGGGTTGGAGTACCCCCGATTGTGGAA
130 CCCGATTAAAAGAAAATTAGCGTTTTGAAAATAAAACCGGAGTTGGAATACCCCCGATTGTGGAA
95997 AAATTAGTGTTTTAGCG
195 AAATTAGTGTTTTAGCG
*
96014 ATAAAACCGAGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATG-ATTAAC-
1 ATAAAACCGAGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGAAATAACA
* *
96077 GG-TGGGGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTAAAGTAT
66 GGTTGGAGTATCCCCGATTGTGAA-AAATTGGT-ATTTTTGGAAATAAAATCGGAGTTAAAGTAT
* * * *
96141 CCCCGATT-ATAGAAAATTAGTGTTTTGAAAATAAAATCGGAGTTGGAATATCCCCGATTGTGGA
129 CCCCGATTAAAAGAAAATTAGCGTTTTGAAAATAAAACCGGAGTTGGAATACCCCCGATTGTGGA
96205 GAATTGAGAA
Statistics
Matches: 170, Mismatches: 19, Indels: 7
0.87 0.10 0.04
Matches are distributed among these distances:
208 19 0.11
209 59 0.35
210 35 0.21
211 5 0.03
212 52 0.31
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (211 bp):
ATAAAACCGAGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGAAATAACA
GGTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTAAAGTATCC
CCGATTAAAAGAAAATTAGCGTTTTGAAAATAAAACCGGAGTTGGAATACCCCCGATTGTGGAAA
AATTAGTGTTTTAGCG
Found at i:98706 original size:21 final size:21
Alignment explanation
Indices: 98680--98756 Score: 111
Period size: 21 Copynumber: 3.7 Consensus size: 21
98670 GTTGGGACCC
* *
98680 TGTATCGATACATTTGTA-GAA
1 TGTATCGATACA-TTCTACAAA
*
98701 TGTATCGATACATTCCACAAA
1 TGTATCGATACATTCTACAAA
98722 TGTATCGATACATTCTACAAA
1 TGTATCGATACATTCTACAAA
98743 TGTATCGATACATT
1 TGTATCGATACATT
98757 TGAATTTTTT
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
20 3 0.06
21 48 0.94
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (21 bp):
TGTATCGATACATTCTACAAA
Found at i:99585 original size:55 final size:54
Alignment explanation
Indices: 99501--100227 Score: 592
Period size: 55 Copynumber: 12.9 Consensus size: 54
99491 ATAAAGCGTA
* *
99501 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGTG
*
99556 TCCTGCTCTTTGAGGATTGGAAAATGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
* *
99611 TCCTGCTCTGTGA-G---G---ATGCCACCGACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* * * *
99658 TCCTGCTCGTTGAGGTCTGGAAAATGCCACCAACTTGTGTGGGCTTCGAAAGGGG
1 TCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* * *
99713 TCCTGCTCTTTGGGGACTGAAAAATGCCACCAACTTGTGTGGGCTTCGAAAGGGG
1 TCCTGCTCTTTGAGGACTG-AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* * ***
99768 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAACA
1 TCCTGCTCTTTGAGGACTGAAA-ATGCCACCAACTTGTGTGGGCTTTG-AAAG-----GTG
** * **
99829 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGGGTGGGCTTTAAAAGAAAAGGCA
1 TCCTGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTT----G-AAAGGTG
* ** * *
99888 TCCCGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAATG
1 TCCTGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTGAAAG---GTG
* * *
99945 -CGTCTCGCTCTTTGAGGATTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCG
1 TC--CT-GCTCTTTGAGGACTG-AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* * *
100002 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAAG
1 TCCTGCTCTTTGAGGACTGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGG----TG
* ** * * *
100061 CATCCTGCTTTTTGAGGACTGAAGCTGCCACAAACTTGGGTGGGCTTTAAAAGAAAAGGCG
1 --TCCTGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTT----G-AAAGGTG
* ** * *
100122 TCCCGCTCTTTGAGGACTGAAGGTGTCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTT----G-AAAGGTG
*
100181 T-CTCGCTCTTTGAGGACTGAAGAATGCCACCAACTTGTGGGGGCTTT
1 TCCT-GCTCTTTGAGGACTGAA-AATGCCACCAACTTGTGTGGGCTTT
100228 TAAAAGGAAA
Statistics
Matches: 570, Mismatches: 57, Indels: 85
0.80 0.08 0.12
Matches are distributed among these distances:
47 39 0.07
48 3 0.01
50 1 0.00
52 1 0.00
54 14 0.02
55 218 0.38
56 11 0.02
57 1 0.00
58 3 0.01
59 132 0.23
60 95 0.17
61 40 0.07
64 7 0.01
65 5 0.01
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (54 bp):
TCCTGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
Found at i:99655 original size:102 final size:105
Alignment explanation
Indices: 99519--100054 Score: 390
Period size: 102 Copynumber: 4.8 Consensus size: 105
99509 TTTGAGGACT
*
99519 AAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGATTGGAAAATGCC
1 AAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGATTGGAAAATGCC
*
99584 ACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTC-T-G-TG
65 ACCAACTTGTGTGGGCTTTAA-AGGGGTCCTGCTCTTGGATG
** * *
99623 -AGGATGCCACCGACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCGTTGAGG-TCTGGAAAATGCC
1 AAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGAT-TGGAAAATGCC
*
99686 ACCAACTTGTGTGGGCTTCGAAAGGGGTCCTGCTCTTTGGGGACTG
65 ACCAACTTGTGTGGGCTT-TAAAGGGGTCCTGCTC-TT--GGA-TG
* * * * *
99732 AAAAATGCCACCAACTTGTGTGGGCTTCGAAAGGGGTCCTGCTCTTTGGGGACT-GAAAGGTGCC
1 AAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGATTGGAAA-ATGCC
***
99796 ACCAACTTGTGTGGGCTTTGAAAAGAAAAAACATCCTGCTCTTTGAGGACTG
65 ACCAACTTGTGTGGGCTTT--AAAG-----GGGTCCTGCTC-TT--GGA-TG
** * ** * * **
99848 -AAGGTGCCACCAACTTGGGTGGGCTTTAAAAGAAAAGGCATCCCGCTCTTTGAGGACT-GAAGG
1 AAAAATGCCACCAACTTGTGTGGGCTTT----G-AAAGGTGTCCTGCTCTTTGAGGATTGGAAAA
*
99911 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAATGCGT-CTCGCTCTTTGAGGATTG
61 TGCCACCAACTTGTGTGGGCTTT-AAAG-----GGGTCCT-GCTC-TT--GGA-TG
* * * * *
99966 AAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGGGGACT-GAAAGGTGCC
1 AAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGATTGGAAA-ATGCC
100030 ACCAACTTGTGTGGGCTTTGAAAGG
65 ACCAACTTGTGTGGGCTTT-AAAGG
100055 AAAAAGCATC
Statistics
Matches: 362, Mismatches: 43, Indels: 48
0.80 0.09 0.11
Matches are distributed among these distances:
101 1 0.00
102 84 0.23
103 4 0.01
104 1 0.00
107 1 0.00
109 6 0.02
110 67 0.19
111 4 0.01
114 25 0.07
115 51 0.14
116 18 0.05
117 2 0.01
118 25 0.07
119 49 0.14
120 24 0.07
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (105 bp):
AAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGATTGGAAAATGCCA
CCAACTTGTGTGGGCTTTAAAGGGGTCCTGCTCTTGGATG
Found at i:99870 original size:60 final size:59
Alignment explanation
Indices: 99627--100260 Score: 673
Period size: 55 Copynumber: 10.9 Consensus size: 59
99617 TCTGTGAGGA
* * * * **
99627 TGCCACCGACTTGTGTGGGCTTT----G-AAAGGTGTCCTGCTCGTTGAGGTCTGGAAAA
1 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCTGCTCTTTGAGGACT-GAAGG
* * * **
99682 TGCCACCAACTTGTGTGGGC-TT---CG-AAAGGGGTCCTGCTCTTTGGGGACTGAAAAA
1 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCTGCTCTTTGAGGACTG-AAGG
* * *
99737 TGCCACCAACTTGTGTGGGC-TT---CG-AAAGGGGTCCTGCTCTTTGGGGACTGAAAGG
1 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCTGCTCTTTGAGGACTG-AAGG
** *
99792 TGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAACATCCTGCTCTTTGAGGACTGAAGG
1 TGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCGTCCTGCTCTTTGAGGACTGAAGG
* * *
99852 TGCCACCAACTTGGGTGGGCTTTAAAAGAAAAGGCATCCCGCTCTTTGAGGACTGAAGG
1 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCTGCTCTTTGAGGACTGAAGG
* * **
99911 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAATGCGT-CTCGCTCTTTGAGGATTGAAAAA
1 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCT-GCTCTTTGAGGACTG-AAGG
*
99971 TGCCACCAACTTGTGTGGGCTTT-----AAAAGGCGTCCTGCTCTTTGGGGACTGAAAGG
1 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCTGCTCTTTGAGGACTG-AAGG
* * * * *
100026 TGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAAGCATCCTGCTTTTTGAGGACTGAAGC
1 TGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCGTCCTGCTCTTTGAGGACTGAAGG
* * *
100086 TGCCACAAACTTGGGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAGG
1 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCTGCTCTTTGAGGACTGAAGG
* *
100145 TGTCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGT-CTCGCTCTTTGAGGACTGAAGAA
1 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCT-GCTCTTTGAGGACTGAAG-G
* *
100205 TGCCACCAACTTGTGGGGGCTTTTAAAAGGAAAAGGCGTCCCGCTCTTTGAGGACT
1 TGCCACCAACTTGTGTGGGC-TTTAAAA-GAAAAGGCGTCCTGCTCTTTGAGGACT
100261 AAAAAGCGGA
Statistics
Matches: 507, Mismatches: 50, Indels: 37
0.85 0.08 0.06
Matches are distributed among these distances:
54 3 0.01
55 165 0.33
56 4 0.01
58 2 0.00
59 163 0.32
60 94 0.19
61 51 0.10
62 24 0.05
63 1 0.00
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.26
Consensus pattern (59 bp):
TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCTGCTCTTTGAGGACTGAAGG
Found at i:99903 original size:59 final size:59
Alignment explanation
Indices: 99627--100260 Score: 660
Period size: 59 Copynumber: 10.9 Consensus size: 59
99617 TCTGTGAGGA
* * * * * **
99627 TGCCACCGACTTGTGTGGGCTTT----G-AAAGGTGTCCTGCTCGTTGAGGTCTGGAAAA
1 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACT-GAAGG
* * * * **
99682 TGCCACCAACTTGTGTGGGC-TT---CG-AAAGGGGTCCTGCTCTTTGGGGACTGAAAAA
1 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTG-AAGG
* * * *
99737 TGCCACCAACTTGTGTGGGC-TT---CG-AAAGGGGTCCTGCTCTTTGGGGACTGAAAGG
1 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTG-AAGG
** * *
99792 TGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAACATCCTGCTCTTTGAGGACTGAAGG
1 TGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAGG
* *
99852 TGCCACCAACTTGGGTGGGCTTTAAAAGAAAAGGCATCCCGCTCTTTGAGGACTGAAGG
1 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAGG
* * * **
99911 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAATGCGTCTCGCTCTTTGAGGATTGAAAAA
1 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTG-AAGG
* *
99971 TGCCACCAACTTGTGTGGGCTTT-----AAAAGGCGTCCTGCTCTTTGGGGACTGAAAGG
1 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTG-AAGG
* * * * * *
100026 TGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAAGCATCCTGCTTTTTGAGGACTGAAGC
1 TGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAGG
* *
100086 TGCCACAAACTTGGGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAGG
1 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAGG
* * *
100145 TGTCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCTCGCTCTTTGAGGACTGAAGAA
1 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAG-G
*
100205 TGCCACCAACTTGTGGGGGCTTTTAAAAGGAAAAGGCGTCCCGCTCTTTGAGGACT
1 TGCCACCAACTTGTGTGGGC-TTTAAAA-GAAAAGGCGTCCCGCTCTTTGAGGACT
100261 AAAAAGCGGA
Statistics
Matches: 509, Mismatches: 52, Indels: 29
0.86 0.09 0.05
Matches are distributed among these distances:
54 3 0.01
55 166 0.33
56 2 0.00
59 167 0.33
60 94 0.18
61 51 0.10
62 26 0.05
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.26
Consensus pattern (59 bp):
TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAGG
Found at i:100128 original size:234 final size:234
Alignment explanation
Indices: 99682--100234 Score: 893
Period size: 234 Copynumber: 2.4 Consensus size: 234
99672 GTCTGGAAAA
* * *
99682 TGCCACCAACTTGTGTGGGC-TT---CG-AAAGGGGTC-CTGCTCTTTGGGGACTGAAAAATGCC
1 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCTC-GCTCTTTGAGGACTGAAAAATGCC
** *
99741 ACCAACTTGTGTGGGCTTCGAAAGGGGTCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGT
65 ACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGT
* *
99806 GTGGGCTTTGAAAAGAAAAAACATCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGGGTGGG
130 GTGGGCTTTGAAAAGAAAAAACATCCTGCTCTTTGAGGACTGAAGCTGCCACAAACTTGGGTGGG
99871 CTTTAAAAGAAAAGGCATCCCGCTCTTTGAGGACTGAAGG
195 CTTTAAAAGAAAAGGCATCCCGCTCTTTGAGGACTGAAGG
* *
99911 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAATGCGTCTCGCTCTTTGAGGATTGAAAAATGCCA
1 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCTCGCTCTTTGAGGACTGAAAAATGCCA
99976 CCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTG
66 CCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTG
* * *
100041 TGGGCTTTGAAAGGAAAAAGCATCCTGCTTTTTGAGGACTGAAGCTGCCACAAACTTGGGTGGGC
131 TGGGCTTTGAAAAGAAAAAACATCCTGCTCTTTGAGGACTGAAGCTGCCACAAACTTGGGTGGGC
*
100106 TTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAGG
196 TTTAAAAGAAAAGGCATCCCGCTCTTTGAGGACTGAAGG
* *
100145 TGTCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCTCGCTCTTTGAGGACTGAAGAATGCCA
1 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCTCGCTCTTTGAGGACTGAAAAATGCCA
*
100210 CCAACTTGTGGGGGCTTTTAAAAGG
66 CCAACTTGTGTGGGC-TTTAAAAGG
100235 AAAAGGCGTC
Statistics
Matches: 298, Mismatches: 19, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
229 20 0.07
230 2 0.01
233 1 0.00
234 265 0.89
235 10 0.03
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.25
Consensus pattern (234 bp):
TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCTCGCTCTTTGAGGACTGAAAAATGCCA
CCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTG
TGGGCTTTGAAAAGAAAAAACATCCTGCTCTTTGAGGACTGAAGCTGCCACAAACTTGGGTGGGC
TTTAAAAGAAAAGGCATCCCGCTCTTTGAGGACTGAAGG
Found at i:103994 original size:13 final size:13
Alignment explanation
Indices: 103976--104002 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
103966 AAAATTTCCA
103976 AATGTATCGATAC
1 AATGTATCGATAC
103989 AATGTATCGATAC
1 AATGTATCGATAC
104002 A
1 A
104003 CAGAAAAATG
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:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:104066 original size:19 final size:18
Alignment explanation
Indices: 104042--104109 Score: 74
Period size: 19 Copynumber: 3.9 Consensus size: 18
104032 CAGTAGCTAA
104042 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
104061 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
*
104076 -T-TGTATCGACACAAAAC
1 TTATGTATCGATAC-AAAC
104093 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
104110 TTGTTGAATT
Statistics
Matches: 41, Mismatches: 2, Indels: 13
0.73 0.04 0.23
Matches are distributed among these distances:
13 10 0.24
14 1 0.02
16 2 0.05
18 4 0.10
19 24 0.59
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:104095 original size:32 final size:32
Alignment explanation
Indices: 104045--104107 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
104035 TAGCTAATTA
* *
104045 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGACACAAAACTTATGTATCGATACAT
104077 TGTATCGACACAAAACTTATGTATCGATACA
1 TGTATCGACACAAAACTTATGTATCGATACA
104108 AATTGTTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (32 bp):
TGTATCGACACAAAACTTATGTATCGATACAT
Found at i:108376 original size:67 final size:67
Alignment explanation
Indices: 108312--108471 Score: 214
Period size: 67 Copynumber: 2.4 Consensus size: 67
108302 CGATGGCATA
* * * * * * *
108312 TTTTAGTCCTAAAAGAGCAAGACGCCTTTCCT-TTTCTTTTTGAAAGCTCACATAAGCTGGTGGC
1 TTTTAGTCCTCAAAGAGTAGGACGCCTTTCCTCTTGCCTATT-AAAGCCCACATAAGCTGGTGGC
108376 ACC
65 ACC
* * *
108379 TTTTAGTCCTCAAAGAGTAGGATGCCTTTCCTCTTGCCTATTAAAGCCCACATAAGCTGGTAGTA
1 TTTTAGTCCTCAAAGAGTAGGACGCCTTTCCTCTTGCCTATTAAAGCCCACATAAGCTGGTGGCA
108444 CC
66 CC
108446 TTTTAGTCCTCAAAGAGTAGGACGCC
1 TTTTAGTCCTCAAAGAGTAGGACGCC
108472 AACTATTTCA
Statistics
Matches: 81, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
67 75 0.93
68 6 0.07
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (67 bp):
TTTTAGTCCTCAAAGAGTAGGACGCCTTTCCTCTTGCCTATTAAAGCCCACATAAGCTGGTGGCA
CC
Found at i:108954 original size:15 final size:16
Alignment explanation
Indices: 108927--108970 Score: 56
Period size: 15 Copynumber: 2.8 Consensus size: 16
108917 GGTTTTGGGT
108927 GAAGAAGAAGAAAAAAA
1 GAAGAA-AAGAAAAAAA
*
108944 GAA-AAAAGAAAAGAA
1 GAAGAAAAGAAAAAAA
108959 GAAGAAAA-AAAA
1 GAAGAAAAGAAAA
108971 TGAAATTGAG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 16 0.64
16 6 0.24
17 3 0.12
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (16 bp):
GAAGAAAAGAAAAAAA
Found at i:112441 original size:52 final size:52
Alignment explanation
Indices: 112296--112421 Score: 234
Period size: 52 Copynumber: 2.4 Consensus size: 52
112286 AATATGAAAT
*
112296 TTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATTTGGGCAAA
1 TTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGCAAA
112348 TTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGCAAA
1 TTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGCAAA
*
112400 TTTGCCTGCACGTATCGATACA
1 TTTGCCTGCATGTATCGATACA
112422 AAGATCAGTG
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (52 bp):
TTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGCAAA
Found at i:112448 original size:13 final size:13
Alignment explanation
Indices: 112430--112454 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
112420 CAAAGATCAG
112430 TGTATCGATACAA
1 TGTATCGATACAA
112443 TGTATCGATACA
1 TGTATCGATACA
112455 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:114479 original size:81 final size:81
Alignment explanation
Indices: 114148--114621 Score: 427
Period size: 80 Copynumber: 5.9 Consensus size: 81
114138 CAACCTCGTC
* * ** * *
114148 TTCTGAGGGAATACTCCAACC-CCGTTTTTACCTCT-AAAAAATCAAAACTTTCATTTTCG-GGA
1 TTCTTAGGGGATACTCCAACCTCTATTTTTACCTCTAAAAAAATCAAAATTTTCATTTTTGAGGA
114210 TACTCCAACCCCACCAT
66 TACTCCAA-CCCACCAT
*
114227 TT-TTGAGGGGATACTCCAACC-CCATTTTTACCTCTAAAAAAATCAAAATTTTCATTTTTGAGG
1 TTCTT-AGGGGATACTCCAACCTCTATTTTTACCTCTAAAAAAATCAAAATTTTCATTTTTGAGG
114290 ATACTCCAACCCACCAT
65 ATACTCCAACCCACCAT
** * * * *
114307 TTCTTAAAGGATACTCCAA-CTCTATTTTTACTTCTAAAAATATC-TAATTTTCCATCTTCT-A-
1 TTCTTAGGGGATACTCCAACCTCTATTTTTACCTCTAAAAAAATCAAAATTTT-CAT-TTTTGAG
*
114368 GATACTCCAACCCCGCCAT
64 GATACTCCAA-CCCACCAT
* ** * * *
114387 CTCCAAAGGGATACTTCAACCTCT-TTTTTACCTCTAAAAAAATCAAAATTTTCTTTTTTGAGGA
1 TTCTTAGGGGATACTCCAACCTCTATTTTTACCTCTAAAAAAATCAAAATTTTCATTTTTGAGGA
*
114451 TACTCTAACCCTACCAT
66 TACTCCAACCC-ACCAT
* * * * * * * *
114468 TTCTTAGGGGATACTCCAA-CTCTATTTTTACTTTTAAAAATATCTAATTTTTCATCTTCGGGGA
1 TTCTTAGGGGATACTCCAACCTCTATTTTTACCTCTAAAAAAATCAAAATTTTCATTTTTGAGGA
* * *
114532 TACTCTAAACCCGCAAT
66 TACTC-CAACCCACCAT
* * ** * * *
114549 TTCTGAGAGGATACTCCAACCT-TGCTTTTACCT-TTAAAAAATTAAAATTTTCA-TTTTCAGGG
1 TTCTTAGGGGATACTCCAACCTCTATTTTTACCTCTAAAAAAATCAAAATTTTCATTTTTGA-GG
114611 ATACTCCAACC
65 ATACTCCAACC
114622 TTATTATCTC
Statistics
Matches: 321, Mismatches: 57, Indels: 34
0.78 0.14 0.08
Matches are distributed among these distances:
78 1 0.00
79 56 0.17
80 140 0.44
81 117 0.36
82 7 0.02
ACGTcount: A:0.31, C:0.25, G:0.09, T:0.35
Consensus pattern (81 bp):
TTCTTAGGGGATACTCCAACCTCTATTTTTACCTCTAAAAAAATCAAAATTTTCATTTTTGAGGA
TACTCCAACCCACCAT
Found at i:114615 original size:161 final size:160
Alignment explanation
Indices: 114158--114657 Score: 560
Period size: 161 Copynumber: 3.1 Consensus size: 160
114148 TTCTGAGGGA
* ** * * ** *
114158 ATACTCCAACCCCGTTTTTACCTCTAAAAA-ATCAAAACTTTCATTTTCGGGATACTCCAACCCC
1 ATACTCCAACTCTATTTTTACTTCTAAAAATATCTAATTTTTCATCTTCGGGATACTCCAACCCC
* * * **
114222 ACCATTTTTGAGGGGATACTCCAACCCCATTTTTACCTCTAAAAAAATCAAAATTTTCATTTTTG
66 GCCATTTCTGAGAGGATACTCCAA-CCTTTTTTTACCTCTAAAAAAATCAAAATTTTCATTTTTG
*
114287 AGGATACTCCAACCC-ACCATTTCTTAAAGG
130 AGGATACTCCAACCCTACCATTTCTTAGAGG
* **
114317 ATACTCCAACTCTATTTTTACTTCTAAAAATATCTAATTTTCCATCTTCTAGATACTCCAACCCC
1 ATACTCCAACTCTATTTTTACTTCTAAAAATATCTAATTTTTCATCTTCGGGATACTCCAACCCC
* * * * *
114382 GCCATCTC-CAAAGGGATACTTCAACCTCTTTTTTACCTCTAAAAAAATCAAAATTTTCTTTTTT
66 GCCATTTCTGAGA-GGATACTCCAACCT-TTTTTTACCTCTAAAAAAATCAAAATTTTCATTTTT
* *
114446 GAGGATACTCTAACCCTACCATTTCTTAGGGG
129 GAGGATACTCCAACCCTACCATTTCTTAGAGG
* * *
114478 ATACTCCAACTCTATTTTTACTTTTAAAAATATCTAATTTTTCATCTTCGGGGATACTCTAAACC
1 ATACTCCAACTCTATTTTTACTTCTAAAAATATCTAATTTTTCATCTTC-GGGATACTCCAACCC
* * * *
114543 CGCAATTTCTGAGAGGATACTCCAACCTTGCTTTTACCT-TTAAAAAATTAAAATTTTCA-TTTT
65 CGCCATTTCTGAGAGGATACTCCAACCTT-TTTTTACCTCTAAAAAAATCAAAATTTTCATTTTT
* * ** * * *
114606 CAGGGATACTCCAACCTTATTATCTCTAAGAAG
129 GA-GGATACTCCAACCCTACCATTTCTTAGAGG
*
114639 ATACTCCAACTCTTTTTTT
1 ATACTCCAACTCTATTTTT
114658 TCAAAATTTC
Statistics
Matches: 284, Mismatches: 49, Indels: 14
0.82 0.14 0.04
Matches are distributed among these distances:
159 29 0.10
160 96 0.34
161 118 0.42
162 39 0.14
163 2 0.01
ACGTcount: A:0.31, C:0.25, G:0.08, T:0.36
Consensus pattern (160 bp):
ATACTCCAACTCTATTTTTACTTCTAAAAATATCTAATTTTTCATCTTCGGGATACTCCAACCCC
GCCATTTCTGAGAGGATACTCCAACCTTTTTTTACCTCTAAAAAAATCAAAATTTTCATTTTTGA
GGATACTCCAACCCTACCATTTCTTAGAGG
Found at i:115802 original size:19 final size:21
Alignment explanation
Indices: 115766--115817 Score: 63
Period size: 19 Copynumber: 2.5 Consensus size: 21
115756 GAGCTTTTGG
* *
115766 TTTTTGCTTTTGTTTTTCTCT
1 TTTTTGCTTTTGTCTTTCTAT
115787 TTTTTG-TTTT-TCTTTCTAT
1 TTTTTGCTTTTGTCTTTCTAT
115806 TTTTTAGCTTTT
1 TTTTT-GCTTTT
115818 ATGTAAGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 12 0.44
20 5 0.19
21 10 0.37
ACGTcount: A:0.04, C:0.12, G:0.08, T:0.77
Consensus pattern (21 bp):
TTTTTGCTTTTGTCTTTCTAT
Found at i:117355 original size:38 final size:38
Alignment explanation
Indices: 117303--117375 Score: 119
Period size: 38 Copynumber: 1.9 Consensus size: 38
117293 GGATTAAGTT
117303 AAAATCCCTCAATCTAAAGGATTCAAATTAGATAGGTC
1 AAAATCCCTCAATCTAAAGGATTCAAATTAGATAGGTC
* * *
117341 AAAATCCCTTAATCTAAGGGATTTAAATTAGATAG
1 AAAATCCCTCAATCTAAAGGATTCAAATTAGATAG
117376 ATACCATATT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.42, C:0.15, G:0.14, T:0.29
Consensus pattern (38 bp):
AAAATCCCTCAATCTAAAGGATTCAAATTAGATAGGTC
Found at i:122255 original size:2 final size:2
Alignment explanation
Indices: 122248--122298 Score: 93
Period size: 2 Copynumber: 25.5 Consensus size: 2
122238 TAATCTGCTC
*
122248 TA TA TA TA TA TA TA TA TA TC 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
122290 TA TA TA TA T
1 TA TA TA TA T
122299 GTACTGTACC
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:122488 original size:12 final size:13
Alignment explanation
Indices: 122453--122486 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
122443 TTTTTCAAGT
*
122453 AAGGAAAAAGGGG
1 AAGGAAAAAGGGA
122466 AAGGAAAAAGGGA
1 AAGGAAAAAGGGA
122479 AAGGAAAA
1 AAGGAAAA
122487 GGAGAGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (13 bp):
AAGGAAAAAGGGA
Found at i:125404 original size:16 final size:17
Alignment explanation
Indices: 125350--125406 Score: 66
Period size: 17 Copynumber: 3.4 Consensus size: 17
125340 TATATTGAGA
125350 AAATATATTATTA-AATT
1 AAATAT-TTATTATAATT
*
125367 AAATATATATT-TATATT
1 AAATATTTATTATA-ATT
125384 AAATATTTATTATAATT
1 AAATATTTATTATAATT
125401 -AATATT
1 AAATATT
125407 AAAATAACAT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
16 11 0.31
17 22 0.63
18 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
AAATATTTATTATAATT
Found at i:125896 original size:24 final size:24
Alignment explanation
Indices: 125869--125918 Score: 59
Period size: 23 Copynumber: 2.1 Consensus size: 24
125859 TTAGTTTATT
125869 TATTTG-ATGTTTATAAAATTTAGA
1 TATTTGAATGTTTA-AAAATTTAGA
**
125893 TA-TTGAATGTTTAACCATTTAGA
1 TATTTGAATGTTTAAAAATTTAGA
125916 TAT
1 TAT
125919 ATATATATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
23 13 0.59
24 9 0.41
ACGTcount: A:0.36, C:0.04, G:0.12, T:0.48
Consensus pattern (24 bp):
TATTTGAATGTTTAAAAATTTAGA
Found at i:126617 original size:18 final size:18
Alignment explanation
Indices: 126591--126644 Score: 65
Period size: 18 Copynumber: 3.0 Consensus size: 18
126581 TATTTAATTT
*
126591 TTATATTAAAAAATATAA
1 TTATATTAAAATATATAA
* *
126609 TTATTTTAATATATA-AA
1 TTATATTAAAATATATAA
126626 TATATATTAAAATATATAA
1 T-TATATTAAAATATATAA
126645 AAATATTGTT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
17 3 0.10
18 24 0.83
19 2 0.07
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TTATATTAAAATATATAA
Found at i:127314 original size:22 final size:20
Alignment explanation
Indices: 127289--127328 Score: 62
Period size: 22 Copynumber: 1.9 Consensus size: 20
127279 GGAAGATGTG
127289 ATTTAAAATATTTAATTTTTAA
1 ATTTAAAATA--TAATTTTTAA
127311 ATTTAAAATATAATTTTT
1 ATTTAAAATATAATTTTT
127329 TCAACATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.44
22 10 0.56
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
ATTTAAAATATAATTTTTAA
Found at i:135096 original size:13 final size:14
Alignment explanation
Indices: 135070--135099 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
135060 ATATATTGAT
135070 AATAAAAATATTAC
1 AATAAAAATATTAC
135084 AATAAAAAT-TTAC
1 AATAAAAATATTAC
135097 AAT
1 AAT
135100 TCATAATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (14 bp):
AATAAAAATATTAC
Found at i:141569 original size:33 final size:33
Alignment explanation
Indices: 141532--141594 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
141522 TTTAGGCAAA
* *
141532 ACAGGTAACTGTCATGTTACTTATGCAAGTGCT
1 ACAGGTAACTGTCATATTACATATGCAAGTGCT
*
141565 ACAGGTAACTGTCCTATTACATATGCAAGT
1 ACAGGTAACTGTCATATTACATATGCAAGT
141595 ATTGAAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (33 bp):
ACAGGTAACTGTCATATTACATATGCAAGTGCT
Found at i:147309 original size:3 final size:3
Alignment explanation
Indices: 147303--147339 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
147293 CACAAGCAAG
147303 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
147340 CCTTCCTAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:147902 original size:123 final size:123
Alignment explanation
Indices: 147683--147926 Score: 373
Period size: 123 Copynumber: 2.0 Consensus size: 123
147673 CCCCGTCCAC
* * * ** *
147683 CACCTCTGCCTCTTCCGCTAGCTGGTCCTGTTGATGAACCCCTGCCACCACGACCCCTTTCACCA
1 CACCTCTGCCTCTTCCACTAGCTGGTCCTGTTGATGAACACCTGCCACCACAACCCCTACCAACA
*
147748 GACTTTACAGGAGACTCAAAATCTTTAACATCATCTTCATCACTTTCATCAATATCAA
66 GACTTTACAGGAAACTCAAAATCTTTAACATCATCTTCATCACTTTCATCAATATCAA
* *
147806 CACCTCTGCCTCTTCCACTAGCTGGTCCTTTTGATGCACACCTGCCACCACAACCCCTACCAACA
1 CACCTCTGCCTCTTCCACTAGCTGGTCCTGTTGATGAACACCTGCCACCACAACCCCTACCAACA
* *
147871 GACTTTACAGGAAACTGC-AAATCTTTAACATCATCTTCATCGCTTTCATTAATATC
66 GACTTTACAGGAAACT-CAAAATCTTTAACATCATCTTCATCACTTTCATCAATATC
147927 TAGAGCTCTT
Statistics
Matches: 109, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
123 108 0.99
124 1 0.01
ACGTcount: A:0.26, C:0.35, G:0.11, T:0.29
Consensus pattern (123 bp):
CACCTCTGCCTCTTCCACTAGCTGGTCCTGTTGATGAACACCTGCCACCACAACCCCTACCAACA
GACTTTACAGGAAACTCAAAATCTTTAACATCATCTTCATCACTTTCATCAATATCAA
Found at i:149606 original size:20 final size:20
Alignment explanation
Indices: 149569--149608 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
149559 TTAAAATTAG
*
149569 TAAAAAATTAAATTTATAAT
1 TAAAAAATTAAATGTATAAT
149589 TAAAAAACTTAAA-GTATAAT
1 TAAAAAA-TTAAATGTATAAT
149609 AATATAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.35
Consensus pattern (20 bp):
TAAAAAATTAAATGTATAAT
Found at i:149728 original size:23 final size:23
Alignment explanation
Indices: 149683--149728 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
149673 TTTATGAAAA
* *
149683 TATATTTATAATTATTTTACAAT
1 TATATTAATAATTATTATACAAT
149706 TATATTAATAATTTATTAT-CAAT
1 TATATTAATAA-TTATTATACAAT
149729 AAAAATAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.54
Consensus pattern (23 bp):
TATATTAATAATTATTATACAAT
Found at i:151551 original size:17 final size:17
Alignment explanation
Indices: 151529--151569 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
151519 GATATATGGG
151529 ATATATATACTAAAATC
1 ATATATATACTAAAATC
* * *
151546 ATATATGTACTAATATT
1 ATATATATACTAAAATC
151563 ATATATA
1 ATATATA
151570 GTCTATATAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (17 bp):
ATATATATACTAAAATC
Found at i:151593 original size:15 final size:15
Alignment explanation
Indices: 151558--151598 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
151548 ATATGTACTA
151558 ATATTATATATA-GT
1 ATATTATATATATGT
* *
151572 CTA-TATATATATTT
1 ATATTATATATATGT
151586 ATATTATATATAT
1 ATATTATATATAT
151599 ATTAAAGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
13 8 0.36
14 5 0.23
15 9 0.41
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (15 bp):
ATATTATATATATGT
Found at i:152774 original size:12 final size:12
Alignment explanation
Indices: 152757--152782 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
152747 GGCCGCAGAT
152757 TCCTTGCTTTGC
1 TCCTTGCTTTGC
152769 TCCTTGCTTTGC
1 TCCTTGCTTTGC
152781 TC
1 TC
152783 TTTACTTTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.35, G:0.15, T:0.50
Consensus pattern (12 bp):
TCCTTGCTTTGC
Found at i:153054 original size:3 final size:3
Alignment explanation
Indices: 153046--153077 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
153036 GCCATGGAGT
153046 CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CA
1 CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CA
153078 TCTTCTGGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.66, G:0.00, T:0.00
Consensus pattern (3 bp):
CAC
Found at i:154603 original size:31 final size:30
Alignment explanation
Indices: 154547--154616 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 30
154537 ATTTTTTTGT
* * *
154547 TTTAAATTAATTTAAAAATTTATTTTAATA
1 TTTAAAATAATTTAAAAAATAATTTTAATA
*
154577 TTTAAAATAATATTAAAAAATAATTTTTATA
1 TTTAAAATAAT-TTAAAAAATAATTTTAATA
*
154608 -TAAAAATAA
1 TTTAAAATAA
154617 ATTTTAAACA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
30 18 0.53
31 16 0.47
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (30 bp):
TTTAAAATAATTTAAAAAATAATTTTAATA
Found at i:154624 original size:31 final size:31
Alignment explanation
Indices: 154557--154633 Score: 75
Period size: 31 Copynumber: 2.5 Consensus size: 31
154547 TTTAAATTAA
* * *
154557 TTTAAAAATTTATTTTAATATTTAAAATAAT
1 TTTAAAAAATAATTTTAATATTAAAAATAAT
* *
154588 ATTAAAAAATAATTTTTATA-TAAAAATAAAT
1 TTTAAAAAATAATTTTAATATTAAAAAT-AAT
* *
154619 TTTAAACAGTAATTT
1 TTTAAAAAATAATTT
154634 CAGTTGGATG
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
30 6 0.16
31 31 0.84
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (31 bp):
TTTAAAAAATAATTTTAATATTAAAAATAAT
Found at i:155069 original size:19 final size:20
Alignment explanation
Indices: 155035--155075 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
155025 AAAGATTTGA
*
155035 TTTAATTTAGAATAATATTT
1 TTTAATTTAAAATAATATTT
155055 TTTAA-TTAAAATAATATTT
1 TTTAATTTAAAATAATATTT
155074 TT
1 TT
155076 ATTTAAGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (20 bp):
TTTAATTTAAAATAATATTT
Found at i:155081 original size:18 final size:19
Alignment explanation
Indices: 155039--155081 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
155029 ATTTGATTTA
*
155039 ATTTAGAATAATATTTTTT
1 ATTTAAAATAATATTTTTT
*
155058 AATTAAAATAATA-TTTTT
1 ATTTAAAATAATATTTTTT
155076 ATTTAA
1 ATTTAA
155082 GTTTAATATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (19 bp):
ATTTAAAATAATATTTTTT
Found at i:163614 original size:20 final size:20
Alignment explanation
Indices: 163573--163616 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
163563 AAAAGTAGAC
*
163573 ATTTGCATAATAGTTCCTAA
1 ATTTGCATAATAGATCCTAA
*
163593 ATTTGCA-ATTAGATCCTCAA
1 ATTTGCATAATAGATCCT-AA
163613 ATTT
1 ATTT
163617 TAAAAATTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.34, C:0.16, G:0.09, T:0.41
Consensus pattern (20 bp):
ATTTGCATAATAGATCCTAA
Found at i:165681 original size:80 final size:80
Alignment explanation
Indices: 165564--165718 Score: 267
Period size: 80 Copynumber: 1.9 Consensus size: 80
165554 CCTTTTCTTC
165564 TTTTATTTCCCCCGATGCTGCTGTTGGTTTTCCTTGCTACT-CTGTTTGTTTCCTCTTCATTGCT
1 TTTTATTTCCCCCGATGCTGCTGTTGGTTTTCCTTGCTACTGCTGTTTGTTTCCTCTTCATTGCT
165628 GCTTCACGTGCCCTTT
66 -CTTCACGTGCCCTTT
* * *
165644 TTTTATTTCCCCCGATGCTGCTGTTGTTTTTCTTTGCTACTGCTGTTTGTTTCTTCTTCATTGCT
1 TTTTATTTCCCCCGATGCTGCTGTTGGTTTTCCTTGCTACTGCTGTTTGTTTCCTCTTCATTGCT
165709 CTTCACGTGC
66 CTTCACGTGC
165719 TGCTGCTGGT
Statistics
Matches: 71, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
80 49 0.69
81 22 0.31
ACGTcount: A:0.06, C:0.27, G:0.16, T:0.50
Consensus pattern (80 bp):
TTTTATTTCCCCCGATGCTGCTGTTGGTTTTCCTTGCTACTGCTGTTTGTTTCCTCTTCATTGCT
CTTCACGTGCCCTTT
Found at i:165917 original size:8 final size:8
Alignment explanation
Indices: 165899--166024 Score: 69
Period size: 8 Copynumber: 16.6 Consensus size: 8
165889 CGGCCATTTC
165899 ATTTT-TT
1 ATTTTATT
165906 ATTTTATT
1 ATTTTATT
165914 ATTTTATT
1 ATTTTATT
165922 ATTTTGATT
1 ATTTT-ATT
* *
165931 TTTTTGATG
1 ATTTT-ATT
*
165940 ATTTTA-G
1 ATTTTATT
*
165947 ATTTT-TAG
1 ATTTTAT-T
165955 ATTTTA-T
1 ATTTTATT
165962 -TTTTACTT
1 ATTTTA-TT
*
165970 -TTTGATT
1 ATTTTATT
165977 ATTTT-TT
1 ATTTTATT
*
165984 ATTTTTTT
1 ATTTTATT
165992 ATTATT-TT
1 ATT-TTATT
166000 ATTTTA-T
1 ATTTTATT
166007 A--TTA-T
1 ATTTTATT
166012 ATTTTATT
1 ATTTTATT
166020 ATTTT
1 ATTTT
166025 TTTGATTTTT
Statistics
Matches: 99, Mismatches: 6, Indels: 27
0.75 0.05 0.20
Matches are distributed among these distances:
5 5 0.05
6 5 0.05
7 27 0.27
8 46 0.46
9 16 0.16
ACGTcount: A:0.21, C:0.01, G:0.05, T:0.73
Consensus pattern (8 bp):
ATTTTATT
Found at i:165945 original size:34 final size:33
Alignment explanation
Indices: 165904--166085 Score: 104
Period size: 34 Copynumber: 5.2 Consensus size: 33
165894 ATTTCATTTT
165904 TTATTTTATTATTTTATTATTTTGATTTTTTTGA
1 TTATTTTATT-TTTTATTATTTTGATTTTTTTGA
* * * *
165938 TGATTTTAGATTTTTAGATTTTATTTTTA-CTTTTTGA
1 TTATTTT--ATTTTT---TATTATTTTGATTTTTTTGA
165975 TTATTTTTTATTTTTTTATTATTTT-ATTTTATATT-A
1 TTA--TTTTA-TTTTTTATTATTTTGATTTT-T-TTGA
* *
166011 -TATTTTATTATTTTTTTGATTTTTTGATTTCTTTGA
1 TTATTTTATT-TTTTATT-A--TTTTGATTTTTTTGA
* *
166047 TTTTTTTGATTTTTTGATT-TTTTGAATTTTTTGA
1 TTATTTT-ATTTTTT-ATTATTTTGATTTTTTTGA
166081 TTATT
1 TTATT
166086 ATTTTAATTT
Statistics
Matches: 114, Mismatches: 14, Indels: 40
0.68 0.08 0.24
Matches are distributed among these distances:
32 2 0.02
33 11 0.10
34 25 0.22
35 17 0.15
36 11 0.10
37 25 0.22
38 19 0.17
39 4 0.04
ACGTcount: A:0.19, C:0.01, G:0.07, T:0.73
Consensus pattern (33 bp):
TTATTTTATTTTTTATTATTTTGATTTTTTTGA
Found at i:165980 original size:17 final size:17
Alignment explanation
Indices: 165958--165999 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
165948 TTTTTAGATT
165958 TTATTTTTACTTTTTGA
1 TTATTTTTACTTTTTGA
* *
165975 TTATTTTTTATTTTTTTA
1 TTA-TTTTTACTTTTTGA
165993 TTATTTT
1 TTATTTT
166000 ATTTTATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (17 bp):
TTATTTTTACTTTTTGA
Found at i:165991 original size:10 final size:10
Alignment explanation
Indices: 165968--166035 Score: 55
Period size: 11 Copynumber: 6.3 Consensus size: 10
165958 TTATTTTTAC
* *
165968 TTTTTGATTA
1 TTTTTTATTT
165978 TTTTTTATTT
1 TTTTTTATTT
165988 TTTTATTATTT
1 TTTT-TTATTT
*
165999 TATTTTATATTA
1 T-TTTT-TATTT
*
166011 TATTTTATTAT
1 TTTTTTATT-T
166022 TTTTTTGATTT
1 TTTTTT-ATTT
166033 TTT
1 TTT
166036 GATTTCTTTG
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
10 16 0.34
11 20 0.43
12 11 0.23
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (10 bp):
TTTTTTATTT
Done.