Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 202 of 349
Found at i:65362433 original size:68 final size:65
Alignment explanation
Indices: 65362219--65362471 Score: 196
Period size: 68 Copynumber: 3.8 Consensus size: 65
65362209 CATAATTTTG
* * * *
65362219 GCTCTCTTGTAC-ACATGGTGAACACTTAGTACCACCCATGTGACCTAGC--CAGTTTA-TCTCA
1 GCTCTCTTGT-CTACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACA-TATATTCTCA
65362280 TA
64 TA
* * * * * * *
65362282 GCTCTATTGTCTACATGGTGTCCTTCACCTGGAACCACGCATGCGACCTAGCTACATATA-TCCC
1 GCTCTCTTGTCTACATGGTG---TACACATAGTACCACCCATGCGACCTAGCTACATATATTCTC
65362346 ATA
63 ATA
* *
65362349 GCTATCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATCATAATGTCTC
1 GCTCTCTTGTCTACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACAT-AT-AT-TCTC
65362414 ATA
63 ATA
* * * ** *
65362417 GCTCTCTTGTAC-ACATGATGTGCAC-TCAGCACCATACATGTGACCTAGCTACATA
1 GCTCTCTTGT-CTACATGGTGTACACAT-AGTACCACCCATGCGACCTAGCTACATA
65362472 CCATCTGTAT
Statistics
Matches: 151, Mismatches: 27, Indels: 20
0.76 0.14 0.10
Matches are distributed among these distances:
62 1 0.01
63 17 0.11
64 28 0.19
65 2 0.01
66 23 0.15
67 29 0.19
68 50 0.33
69 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.29
Consensus pattern (65 bp):
GCTCTCTTGTCTACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACATATATTCTCATA
Found at i:65362954 original size:30 final size:30
Alignment explanation
Indices: 65362920--65362980 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
65362910 TCCTTAACTC
65362920 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
65362950 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
65362980 A
1 A
65362981 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:65365542 original size:22 final size:20
Alignment explanation
Indices: 65365510--65365558 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 20
65365500 GCCGAATTTA
65365510 TGAACTATTTTAATACATTAGTG
1 TGAAC-ATTTTAAT-CATT-GTG
* *
65365533 TGAACATTTTTATTATTGTG
1 TGAACATTTTAATCATTGTG
65365553 TGAACA
1 TGAACA
65365559 CCTAGATGCC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 9 0.38
21 3 0.12
22 7 0.29
23 5 0.21
ACGTcount: A:0.33, C:0.08, G:0.14, T:0.45
Consensus pattern (20 bp):
TGAACATTTTAATCATTGTG
Found at i:65372315 original size:20 final size:21
Alignment explanation
Indices: 65372290--65372343 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
65372280 GTTGTAAAGT
65372290 TTTATTTTTATT-TTTACTTA-
1 TTTATTTTT-TTATTTACTTAG
65372310 TTTATTTTTTTATTTACTTAG
1 TTTATTTTTTTATTTACTTAG
**
65372331 TTTAAATTTTTAT
1 TTTATTTTTTTAT
65372344 GTCAATATTC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 2 0.07
20 17 0.57
21 11 0.37
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.72
Consensus pattern (21 bp):
TTTATTTTTTTATTTACTTAG
Found at i:65372340 original size:21 final size:20
Alignment explanation
Indices: 65372302--65372343 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
65372292 TATTTTTATT
**
65372302 TTTACTTATTTATTTTTTTA
1 TTTACTTATTTAAATTTTTA
65372322 TTTACTTAGTTTAAATTTTTA
1 TTTACTTA-TTTAAATTTTTA
65372343 T
1 T
65372344 GTCAATATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.24, C:0.05, G:0.02, T:0.69
Consensus pattern (20 bp):
TTTACTTATTTAAATTTTTA
Found at i:65374682 original size:17 final size:18
Alignment explanation
Indices: 65374645--65374682 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
65374635 GATTGAGAGT
* *
65374645 GAAAAGGAATGTGAAACA
1 GAAAAGAAATGTGAAAAA
65374663 GAAAAGAAAT-TGAAAAA
1 GAAAAGAAATGTGAAAAA
65374680 GAA
1 GAA
65374683 GTTGAAGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.63, C:0.03, G:0.24, T:0.11
Consensus pattern (18 bp):
GAAAAGAAATGTGAAAAA
Found at i:65374695 original size:13 final size:12
Alignment explanation
Indices: 65374664--65374718 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 12
65374654 TGTGAAACAG
*
65374664 AAAAGAAATTGA
1 AAAAGAAGTTGA
65374676 AAAAGAAGTTGA
1 AAAAGAAGTTGA
*
65374688 AGAAAGAAG-AGA
1 A-AAAGAAGTTGA
*
65374700 AAATG-AGTTAGA
1 AAAAGAAGTT-GA
65374712 AAAAGAA
1 AAAAGAA
65374719 ACAAAAGAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
10 2 0.06
11 3 0.09
12 21 0.62
13 8 0.24
ACGTcount: A:0.64, C:0.00, G:0.24, T:0.13
Consensus pattern (12 bp):
AAAAGAAGTTGA
Found at i:65376089 original size:7 final size:6
Alignment explanation
Indices: 65376066--65376099 Score: 50
Period size: 6 Copynumber: 5.3 Consensus size: 6
65376056 AGTTGTAAAG
65376066 TTTTAT TTTTAT TTTTAT TATTTATT TTTTAT TT
1 TTTTAT TTTTAT TTTTAT T-TTTA-T TTTTAT TT
65376100 ACTTAGTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 16 0.62
7 8 0.31
8 2 0.08
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTAT
Found at i:65376091 original size:13 final size:12
Alignment explanation
Indices: 65376066--65376099 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 12
65376056 AGTTGTAAAG
65376066 TTTTATTTTTAT
1 TTTTATTTTTAT
65376078 TTTTATTATTTATT
1 TTTTATT-TTTA-T
65376092 TTTTATTT
1 TTTTATTT
65376100 ACTTAGTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 7 0.35
13 5 0.25
14 8 0.40
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (12 bp):
TTTTATTTTTAT
Found at i:65377823 original size:13 final size:12
Alignment explanation
Indices: 65377805--65377864 Score: 75
Period size: 13 Copynumber: 4.8 Consensus size: 12
65377795 GACCGTATGT
65377805 AATTTTTTTTTC
1 AATTTTTTTTTC
65377817 AAATTTTTTTTTC
1 -AATTTTTTTTTC
*
65377830 AATTTTATTTTTG
1 AATTTT-TTTTTC
*
65377843 ATTTTTTTTTTC
1 AATTTTTTTTTC
*
65377855 GATTTTTTTT
1 AATTTTTTTT
65377865 GAATCTACAA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
12 19 0.46
13 22 0.54
ACGTcount: A:0.17, C:0.05, G:0.03, T:0.75
Consensus pattern (12 bp):
AATTTTTTTTTC
Found at i:65380090 original size:21 final size:20
Alignment explanation
Indices: 65380056--65380121 Score: 62
Period size: 21 Copynumber: 3.1 Consensus size: 20
65380046 ACATTTTTGT
65380056 AAAGAGAAAACAAAGAAAAG-A
1 AAAGA-AAAACAAA-AAAAGAA
*
65380077 AAAGAAAAAGCAAAAGAAGAA
1 AAAGAAAAA-CAAAAAAAGAA
*
65380098 AAAGAAAACAAAATAAAAAGAA
1 AAAGAAAA-ACAA-AAAAAGAA
65380120 AA
1 AA
65380122 GAGAGGCAAG
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
20 8 0.21
21 20 0.53
22 10 0.26
ACGTcount: A:0.79, C:0.05, G:0.15, T:0.02
Consensus pattern (20 bp):
AAAGAAAAACAAAAAAAGAA
Found at i:65380091 original size:6 final size:5
Alignment explanation
Indices: 65380067--65380123 Score: 53
Period size: 5 Copynumber: 11.0 Consensus size: 5
65380057 AAGAGAAAAC
* * *
65380067 AAAGA AAAGA AAAGAA AAAGCA AAAGA AGA-A AAAGA AAACA AAATAA
1 AAAGA AAAGA AAAG-A AAAG-A AAAGA AAAGA AAAGA AAAGA AAA-GA
65380114 AAAGA AAAGA
1 AAAGA AAAGA
65380124 GAGGCAAGAG
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
4 3 0.07
5 26 0.60
6 14 0.33
ACGTcount: A:0.79, C:0.04, G:0.16, T:0.02
Consensus pattern (5 bp):
AAAGA
Found at i:65380116 original size:25 final size:25
Alignment explanation
Indices: 65380071--65380119 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
65380061 GAAAACAAAG
*
65380071 AAAAGAAAAGAAAAAGCAAAAGAAGA
1 AAAAGAAAACAAAAA-CAAAAGAAGA
65380097 AAAAGAAAACAAAATA-AAAAGAA
1 AAAAGAAAACAAAA-ACAAAAGAA
65380120 AAGAGAGGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 7 0.33
26 13 0.62
27 1 0.05
ACGTcount: A:0.80, C:0.04, G:0.14, T:0.02
Consensus pattern (25 bp):
AAAAGAAAACAAAAACAAAAGAAGA
Found at i:65380200 original size:12 final size:12
Alignment explanation
Indices: 65380192--65380216 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
65380182 TTTGAAAAGC
65380192 AAAAAGAAAATG
1 AAAAAGAAAATG
65380204 AAAAAGAAAATG
1 AAAAAGAAAATG
65380216 A
1 A
65380217 GATTGAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (12 bp):
AAAAAGAAAATG
Found at i:65380213 original size:18 final size:18
Alignment explanation
Indices: 65380186--65380241 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
65380176 AAAGCCTTTG
65380186 AAAAGCAAAAAGAAAATGA
1 AAAAG-AAAAAGAAAATGA
* * *
65380205 AAAAGAAAATGAGATTGA
1 AAAAGAAAAAGAAAATGA
* *
65380223 AAAAGAGAACGAAAA-GA
1 AAAAGAAAAAGAAAATGA
65380240 AA
1 AA
65380242 TTTGGGAGTG
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
17 4 0.13
18 21 0.70
19 5 0.17
ACGTcount: A:0.70, C:0.04, G:0.20, T:0.07
Consensus pattern (18 bp):
AAAAGAAAAAGAAAATGA
Found at i:65380226 original size:30 final size:31
Alignment explanation
Indices: 65380192--65380273 Score: 87
Period size: 30 Copynumber: 2.7 Consensus size: 31
65380182 TTTGAAAAGC
*
65380192 AAAAAGAAAATGAAAAAGAAA-ATGAGATTG
1 AAAAAGAAAATGAAAAAGAAATATGAGAGTG
* * * *
65380222 AAAAAGAGAACG-AAAAGAAATTTGGGAGTG
1 AAAAAGAAAATGAAAAAGAAATATGAGAGTG
**
65380252 AAAAAGAAGCTGAAAAAGAAAT
1 AAAAAGAAAATGAAAAAGAAAT
65380274 TGAAACAAAA
Statistics
Matches: 41, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
29 8 0.20
30 24 0.59
31 9 0.22
ACGTcount: A:0.62, C:0.02, G:0.23, T:0.12
Consensus pattern (31 bp):
AAAAAGAAAATGAAAAAGAAATATGAGAGTG
Found at i:65380835 original size:20 final size:20
Alignment explanation
Indices: 65380779--65380835 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
65380769 AGCTCCGTTT
* *
65380779 AGCTCATTTCCAGCTCACTCG
1 AGCTCAATT-CAGCTCACTCA
* *
65380800 AGCTCAAGTCAACTCACTCA
1 AGCTCAATTCAGCTCACTCA
65380820 AGCTCAATTCAGCTCA
1 AGCTCAATTCAGCTCA
65380836 ATCTTAACCC
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 23 0.77
21 7 0.23
ACGTcount: A:0.28, C:0.35, G:0.12, T:0.25
Consensus pattern (20 bp):
AGCTCAATTCAGCTCACTCA
Found at i:65382953 original size:13 final size:15
Alignment explanation
Indices: 65382934--65382974 Score: 59
Period size: 13 Copynumber: 2.8 Consensus size: 15
65382924 TCGTAGCTTC
65382934 GAAAAAAAAAAG-TT
1 GAAAAAAAAAAGTTT
65382948 -AAAAAAAAAAGTTTT
1 GAAAAAAAAAAG-TTT
65382963 GAAAAAAAAAAG
1 GAAAAAAAAAAG
65382975 AAGGAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 11 0.46
15 2 0.08
16 11 0.46
ACGTcount: A:0.73, C:0.00, G:0.12, T:0.15
Consensus pattern (15 bp):
GAAAAAAAAAAGTTT
Found at i:65383654 original size:15 final size:15
Alignment explanation
Indices: 65383622--65383655 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
65383612 GTTCAACGAA
*
65383622 GAGGCCAACGCAACC
1 GAGGCCAACGAAACC
*
65383637 GAGGCCAACGAAATC
1 GAGGCCAACGAAACC
65383652 GAGG
1 GAGG
65383656 GAGGTTCGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.35, C:0.29, G:0.32, T:0.03
Consensus pattern (15 bp):
GAGGCCAACGAAACC
Found at i:65387610 original size:13 final size:15
Alignment explanation
Indices: 65387591--65387631 Score: 59
Period size: 13 Copynumber: 2.8 Consensus size: 15
65387581 TCGTAGCTTC
65387591 GAAAAAAAAAAG-TT
1 GAAAAAAAAAAGTTT
65387605 -AAAAAAAAAAGTTTT
1 GAAAAAAAAAAG-TTT
65387620 GAAAAAAAAAAG
1 GAAAAAAAAAAG
65387632 AAGGAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 11 0.46
15 2 0.08
16 11 0.46
ACGTcount: A:0.73, C:0.00, G:0.12, T:0.15
Consensus pattern (15 bp):
GAAAAAAAAAAGTTT
Found at i:65388310 original size:15 final size:15
Alignment explanation
Indices: 65388278--65388311 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
65388268 GTTCAACGAA
*
65388278 GAGGCCAACGCAACC
1 GAGGCCAACGAAACC
*
65388293 GAGGCCAACGAAATC
1 GAGGCCAACGAAACC
65388308 GAGG
1 GAGG
65388312 GAGGTTCGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.35, C:0.29, G:0.32, T:0.03
Consensus pattern (15 bp):
GAGGCCAACGAAACC
Found at i:65393151 original size:11 final size:12
Alignment explanation
Indices: 65393128--65393164 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
65393118 AAAAAAATCG
65393128 AAATTCAAAAAA
1 AAATTCAAAAAA
65393140 AAATTCAAAAAA
1 AAATTCAAAAAA
* *
65393152 AAAGTGAAAAAA
1 AAATTCAAAAAA
65393164 A
1 A
65393165 TCGAGCAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.76, C:0.05, G:0.05, T:0.14
Consensus pattern (12 bp):
AAATTCAAAAAA
Found at i:65393177 original size:28 final size:28
Alignment explanation
Indices: 65393146--65393225 Score: 92
Period size: 28 Copynumber: 2.8 Consensus size: 28
65393136 AAAAAAATTC
*
65393146 AAAAAAAAAGTGAAAAAAA-TCGAGCAAA
1 AAAAAAAAAGTAAAAAAAAGT-GAGCAAA
65393174 AAAAAAGAAAG-AAAAAAAAGTGAGCAAA
1 AAAAAA-AAAGTAAAAAAAAGTGAGCAAA
**
65393202 AAAAATCAAGTTAAAAAAAAGTGA
1 AAAAAAAAAG-TAAAAAAAAGTGA
65393226 AAAGTCTTGC
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
27 3 0.07
28 25 0.56
29 17 0.38
ACGTcount: A:0.71, C:0.05, G:0.15, T:0.09
Consensus pattern (28 bp):
AAAAAAAAAGTAAAAAAAAGTGAGCAAA
Found at i:65394328 original size:47 final size:47
Alignment explanation
Indices: 65394250--65394354 Score: 133
Period size: 47 Copynumber: 2.2 Consensus size: 47
65394240 GAGTGTCATG
* *
65394250 GAAAAAGAAATTGAGATTGAAAAAGGATGTGA-AAAGAGAAAGAAATC
1 GAAAAAGAAATTGAGATTGAAAAAAGATGTGAGAAAAAGAAA-AAATC
* *
65394297 GAAAAAGAAATTGAGATTGAACAAAAG-TGTGAGGAAAAAGAGAAAATT
1 GAAAAAGAAATTGAGATTGAA-AAAAGATGTGA-GAAAAAGAAAAAATC
65394345 GAAAAAGAAA
1 GAAAAAGAAA
65394355 GAAAAGACAA
Statistics
Matches: 51, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
47 26 0.51
48 18 0.35
49 7 0.14
ACGTcount: A:0.59, C:0.02, G:0.25, T:0.14
Consensus pattern (47 bp):
GAAAAAGAAATTGAGATTGAAAAAAGATGTGAGAAAAAGAAAAAATC
Found at i:65395271 original size:20 final size:20
Alignment explanation
Indices: 65395248--65395301 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
65395238 AGTTTTTCCC
*
65395248 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
65395268 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
65395288 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
65395302 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:65395283 original size:30 final size:30
Alignment explanation
Indices: 65395248--65395321 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
65395238 AGTTTTTCCC
65395248 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
65395278 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
65395308 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
65395322 TGGCTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 36 0.90
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:65395311 original size:20 final size:20
Alignment explanation
Indices: 65395248--65395312 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
65395238 AGTTTTTCCC
* * * *
65395248 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
65395268 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
65395287 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
65395308 AGCTC
1 AGCTC
65395313 GTTTGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:65396780 original size:20 final size:20
Alignment explanation
Indices: 65396735--65396780 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
65396725 GCTCGTTTCT
*
65396735 AGCTCACTCGAGCTCAAGTC
1 AGCTCACTCAAGCTCAAGTC
* *
65396755 AACTCACTCAAGCTCAATTC
1 AGCTCACTCAAGCTCAAGTC
65396775 AGCTCA
1 AGCTCA
65396781 ATCTTAACCC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.30, C:0.35, G:0.13, T:0.22
Consensus pattern (20 bp):
AGCTCACTCAAGCTCAAGTC
Found at i:65409090 original size:21 final size:22
Alignment explanation
Indices: 65409064--65409110 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
65409054 AGCAATTTGG
*
65409064 AGAATTTGA-AGA-ACTGAAAA
1 AGAAATTGAGAGAGACTGAAAA
*
65409084 AGAAATTGAGAGAGAGTGAAAA
1 AGAAATTGAGAGAGACTGAAAA
65409106 AGAAA
1 AGAAA
65409111 AAAAAATGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 8 0.35
21 3 0.13
22 12 0.52
ACGTcount: A:0.57, C:0.02, G:0.26, T:0.15
Consensus pattern (22 bp):
AGAAATTGAGAGAGACTGAAAA
Found at i:65411429 original size:22 final size:22
Alignment explanation
Indices: 65411401--65411444 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
65411391 TTTTGAACCA
*
65411401 TTACCATTTCGTACCAAATCCC
1 TTACCATTTCATACCAAATCCC
*
65411423 TTACCATTTCATACCAATTCCC
1 TTACCATTTCATACCAAATCCC
65411445 AAATACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.27, C:0.36, G:0.02, T:0.34
Consensus pattern (22 bp):
TTACCATTTCATACCAAATCCC
Found at i:65412794 original size:10 final size:10
Alignment explanation
Indices: 65412778--65412835 Score: 64
Period size: 10 Copynumber: 5.7 Consensus size: 10
65412768 CAACTCCGAC
65412778 CAGCTCAATT
1 CAGCTCAATT
* *
65412788 GAGCTCATTT
1 CAGCTCAATT
65412798 CAGCTCAA-T
1 CAGCTCAATT
65412807 CGAGCTCAATT
1 C-AGCTCAATT
*
65412818 TAGCTACAATT
1 CAGCT-CAATT
65412829 CAGCTCA
1 CAGCTCA
65412836 TTTATTTTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 2 0.05
10 27 0.69
11 10 0.26
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.29
Consensus pattern (10 bp):
CAGCTCAATT
Found at i:65412801 original size:20 final size:20
Alignment explanation
Indices: 65412778--65412838 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
65412768 CAACTCCGAC
65412778 CAGCTCAATTGAGCTCATTT
1 CAGCTCAATTGAGCTCATTT
*
65412798 CAGCTCAATCGAGCTCAATTT
1 CAGCTCAATTGAGCTC-ATTT
*
65412819 -AGCTACAATTCAGCTCATTT
1 CAGCT-CAATTGAGCTCATTT
65412839 ATTTTATTGG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 23 0.64
21 13 0.36
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (20 bp):
CAGCTCAATTGAGCTCATTT
Found at i:65414214 original size:11 final size:11
Alignment explanation
Indices: 65414198--65414232 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
65414188 AAAAAAGAAG
65414198 AAATTCAAAAA
1 AAATTCAAAAA
65414209 AAATTC-AAAA
1 AAATTCAAAAA
*
65414219 AAATTGAAAAA
1 AAATTCAAAAA
65414230 AAA
1 AAA
65414233 AGAAAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 9 0.41
11 13 0.59
ACGTcount: A:0.74, C:0.06, G:0.03, T:0.17
Consensus pattern (11 bp):
AAATTCAAAAA
Found at i:65414220 original size:10 final size:10
Alignment explanation
Indices: 65414198--65414231 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
65414188 AAAAAAGAAG
65414198 AAATTCAAAAA
1 AAATTC-AAAA
65414209 AAATTCAAAA
1 AAATTCAAAA
*
65414219 AAATTGAAAA
1 AAATTCAAAA
65414229 AAA
1 AAA
65414232 AAGAAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 16 0.73
11 6 0.27
ACGTcount: A:0.74, C:0.06, G:0.03, T:0.18
Consensus pattern (10 bp):
AAATTCAAAA
Found at i:65414291 original size:12 final size:12
Alignment explanation
Indices: 65414215--65414292 Score: 52
Period size: 12 Copynumber: 6.2 Consensus size: 12
65414205 AAAAAAATTC
*
65414215 AAAAAAATTGAA
1 AAAAAAAGTGAA
*
65414227 AAAAAAAG-AAA
1 AAAAAAAGTGAA
65414238 AAAAAGAAGTGACA
1 AAAAA-AAGTGA-A
*
65414252 AAAAAATCGAGT-TA
1 AAAAAA---AGTGAA
*
65414266 AAAAAAAGAAGAA
1 AAAAAAAG-TGAA
65414279 AAAAAAAGTGAA
1 AAAAAAAGTGAA
65414291 AA
1 AA
65414293 GTCTTGCGAG
Statistics
Matches: 51, Mismatches: 7, Indels: 16
0.69 0.09 0.22
Matches are distributed among these distances:
11 9 0.18
12 15 0.29
13 11 0.22
14 13 0.25
16 3 0.06
ACGTcount: A:0.74, C:0.03, G:0.14, T:0.09
Consensus pattern (12 bp):
AAAAAAAGTGAA
Found at i:65415275 original size:18 final size:18
Alignment explanation
Indices: 65415254--65415288 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
65415244 AGAAAAGAAA
65415254 ATTGA-AAAAGAAATTGAG
1 ATTGAGAAAA-AAATTGAG
65415272 ATTGAGAAAAAAATTGA
1 ATTGAGAAAAAAATTGA
65415289 AAAAGAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.57, C:0.00, G:0.20, T:0.23
Consensus pattern (18 bp):
ATTGAGAAAAAAATTGAG
Found at i:65417368 original size:10 final size:10
Alignment explanation
Indices: 65417352--65417409 Score: 64
Period size: 10 Copynumber: 5.7 Consensus size: 10
65417342 CAACTCCGAC
65417352 CAGCTCAATT
1 CAGCTCAATT
* *
65417362 GAGCTCATTT
1 CAGCTCAATT
65417372 CAGCTCAA-T
1 CAGCTCAATT
65417381 CGAGCTCAATT
1 C-AGCTCAATT
*
65417392 TAGCTACAATT
1 CAGCT-CAATT
65417403 CAGCTCA
1 CAGCTCA
65417410 TTTATTTTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 2 0.05
10 27 0.69
11 10 0.26
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.29
Consensus pattern (10 bp):
CAGCTCAATT
Found at i:65417375 original size:20 final size:20
Alignment explanation
Indices: 65417352--65417412 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
65417342 CAACTCCGAC
65417352 CAGCTCAATTGAGCTCATTT
1 CAGCTCAATTGAGCTCATTT
*
65417372 CAGCTCAATCGAGCTCAATTT
1 CAGCTCAATTGAGCTC-ATTT
*
65417393 -AGCTACAATTCAGCTCATTT
1 CAGCT-CAATTGAGCTCATTT
65417413 ATTTTATTGG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 23 0.64
21 13 0.36
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (20 bp):
CAGCTCAATTGAGCTCATTT
Found at i:65422636 original size:30 final size:30
Alignment explanation
Indices: 65422582--65422666 Score: 109
Period size: 30 Copynumber: 2.8 Consensus size: 30
65422572 TTCTTTTGTT
*
65422582 TCAATTTCTTTTTCATCTTCTTTTTCACTC
1 TCAATTTCTTTTTCATCTTCTTTTTCAATC
**
65422612 TCAAATTTCTTTTTGTTC-TCTTTTTCAATC
1 TC-AATTTCTTTTTCATCTTCTTTTTCAATC
* *
65422642 TCATTTTCTTTTTCATTTTCTTTTT
1 TCAATTTCTTTTTCATCTTCTTTTT
65422667 GGTTTTCAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
29 11 0.24
30 22 0.48
31 13 0.28
ACGTcount: A:0.13, C:0.21, G:0.01, T:0.65
Consensus pattern (30 bp):
TCAATTTCTTTTTCATCTTCTTTTTCAATC
Found at i:65422673 original size:12 final size:12
Alignment explanation
Indices: 65422642--65422666 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
65422632 TTTTTCAATC
65422642 TCATTTTCTTTT
1 TCATTTTCTTTT
65422654 TCATTTTCTTTT
1 TCATTTTCTTTT
65422666 T
1 T
65422667 GGTTTTCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (12 bp):
TCATTTTCTTTT
Found at i:65422684 original size:12 final size:12
Alignment explanation
Indices: 65422669--65422699 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
65422659 TTCTTTTTGG
*
65422669 TTTTCAAATGCT
1 TTTTCAAAGGCT
65422681 TTTTCAAAGGCT
1 TTTTCAAAGGCT
65422693 TTTTCAA
1 TTTTCAA
65422700 GTTCTCTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.26, C:0.16, G:0.10, T:0.48
Consensus pattern (12 bp):
TTTTCAAAGGCT
Found at i:65422757 original size:5 final size:5
Alignment explanation
Indices: 65422747--65422803 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
65422737 CTCTTGCCTC
*
65422747 TCTTT TCTTT T-TATT TCATTT TCTTT T-TCT TCTTT TGCCTTT TCTTT
1 TCTTT TCTTT TCT-TT TC-TTT TCTTT TCTTT TCTTT T--CTTT TCTTT
65422794 TCTTT TCTTT
1 TCTTT TCTTT
65422804 ATTTTCTCTT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
4 4 0.09
5 30 0.68
6 4 0.09
7 6 0.14
ACGTcount: A:0.04, C:0.19, G:0.02, T:0.75
Consensus pattern (5 bp):
TCTTT
Found at i:65422803 original size:15 final size:14
Alignment explanation
Indices: 65422747--65422810 Score: 65
Period size: 16 Copynumber: 4.2 Consensus size: 14
65422737 CTCTTGCCTC
65422747 TCTTTTCTTTTTATT
1 TCTTTTCTTTTT-TT
*
65422762 TCATTTTCTTTTTCT
1 TC-TTTTCTTTTTTT
65422777 TCTTTTGCCTTTTCTTT
1 TCTTTT--CTTTT-TTT
*
65422794 TCTTTTCTTTATTT
1 TCTTTTCTTTTTTT
65422808 TCT
1 TCT
65422811 CTTTACAAGA
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
14 10 0.24
15 9 0.21
16 15 0.36
17 8 0.19
ACGTcount: A:0.05, C:0.19, G:0.02, T:0.75
Consensus pattern (14 bp):
TCTTTTCTTTTTTT
Found at i:65422813 original size:21 final size:20
Alignment explanation
Indices: 65422745--65422814 Score: 54
Period size: 20 Copynumber: 3.4 Consensus size: 20
65422735 GCCTCTTGCC
65422745 TCTCTTTTCTTTTTATTTCATTT
1 TCTCTTTTC-TTTT-TTT-ATTT
***
65422768 TCT-TTTTCTTCTTTTGCCTT
1 TCTCTTTTCTT-TTTTTATTT
65422788 T-TCTTTTCTTTTCTTTATTT
1 TCTCTTTTCTTTT-TTTATTT
65422808 TCTCTTT
1 TCTCTTT
65422815 ACAAGAATGT
Statistics
Matches: 37, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
19 3 0.08
20 15 0.41
21 9 0.24
22 7 0.19
23 3 0.08
ACGTcount: A:0.04, C:0.20, G:0.01, T:0.74
Consensus pattern (20 bp):
TCTCTTTTCTTTTTTTATTT
Found at i:65430500 original size:20 final size:19
Alignment explanation
Indices: 65430477--65430541 Score: 51
Period size: 20 Copynumber: 3.3 Consensus size: 19
65430467 AAGCTCAAAC
65430477 GAGCTAAAGTAAGCTAAATT
1 GAGCTAAAGT-AGCTAAATT
65430497 GAGCTCAAACG-AGCTAAATT
1 GAGCT-AAA-GTAGCTAAATT
* * * *
65430517 AAGCTCATGTGAGCTAAATC
1 GAGCTAAAGT-AGCTAAATT
65430537 GAGCT
1 GAGCT
65430542 GGGAAAAACT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 30 0.83
21 3 0.08
22 1 0.03
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (19 bp):
GAGCTAAAGTAGCTAAATT
Found at i:65432354 original size:33 final size:33
Alignment explanation
Indices: 65432316--65432378 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
65432306 GATTACTCAC
65432316 TTCACTCG-TTTCTTTT-ACAGACTCTCTTTCTTT
1 TTCACTCGATTTCTTTTCA-AG-CTCTCTTTCTTT
*
65432349 TTCACTTGATTTCTTTTCAAGCTCTCTTTC
1 TTCACTCGATTTCTTTTCAAGCTCTCTTTC
65432379 AATTTCTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
33 16 0.59
34 10 0.37
35 1 0.04
ACGTcount: A:0.13, C:0.27, G:0.06, T:0.54
Consensus pattern (33 bp):
TTCACTCGATTTCTTTTCAAGCTCTCTTTCTTT
Found at i:65432467 original size:18 final size:18
Alignment explanation
Indices: 65432446--65432503 Score: 73
Period size: 18 Copynumber: 3.3 Consensus size: 18
65432436 TTTTCTCTCA
65432446 CTTTTTCGATTTCTTTTT
1 CTTTTTCGATTTCTTTTT
* *
65432464 CTTTTGCAATTTCTTTTT
1 CTTTTTCGATTTCTTTTT
*
65432482 CTTTTT-GTTTTCTTTTT
1 CTTTTTCGATTTCTTTTT
*
65432499 GTTTT
1 CTTTT
65432504 CTTTCAATTT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
17 13 0.38
18 21 0.62
ACGTcount: A:0.05, C:0.14, G:0.07, T:0.74
Consensus pattern (18 bp):
CTTTTTCGATTTCTTTTT
Found at i:65432494 original size:11 final size:11
Alignment explanation
Indices: 65432478--65432507 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
65432468 TGCAATTTCT
65432478 TTTTCTTTTTG
1 TTTTCTTTTTG
65432489 TTTTCTTTTTG
1 TTTTCTTTTTG
65432500 TTTTCTTT
1 TTTTCTTT
65432508 CAATTTCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.00, C:0.10, G:0.07, T:0.83
Consensus pattern (11 bp):
TTTTCTTTTTG
Found at i:65432520 original size:6 final size:6
Alignment explanation
Indices: 65432393--65432507 Score: 63
Period size: 6 Copynumber: 18.7 Consensus size: 6
65432383 TCTTTTTTCG
* * * **
65432393 CTTTTT CTTTTT CAATTTTTT CTCTTT CTTTTCT TTCTTTT CTTTTT CTCTCA
1 CTTTTT CTTTTT C---TTTTT CTTTTT CTTTT-T CT-TTTT CTTTTT CTTTTT
** * ** *
65432446 CTTTTT CGATTT CTTTTT CTTTTG CAATTT CTTTTT CTTTTT -GTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
*
65432493 CTTTTT -GTTTT CTTT
1 CTTTTT CTTTTT CTTT
65432508 CAATTTCTTT
Statistics
Matches: 78, Mismatches: 24, Indels: 14
0.67 0.21 0.12
Matches are distributed among these distances:
5 8 0.10
6 57 0.73
7 4 0.05
8 3 0.04
9 6 0.08
ACGTcount: A:0.05, C:0.18, G:0.03, T:0.73
Consensus pattern (6 bp):
CTTTTT
Found at i:65432520 original size:68 final size:68
Alignment explanation
Indices: 65432373--65432529 Score: 154
Period size: 65 Copynumber: 2.4 Consensus size: 68
65432363 TTTCAAGCTC
* *
65432373 TCTTTCAATTTCTTTTTTCG---CTTTTTCTTTTTCAATTTTTTCTCTTTCTTTTCTTTCTTTTC
1 TCTTTCAATTTC-TTTTTCGATTCTTTTTCTTTTGCAATTTTTTCTCTTTCTTGTCTTTCTTTTC
65432435 TTTT
65 TTTT
* *
65432439 TCTCTC-A---CTTTTTCGATTTCTTTTTCTTTTGCAATTTCTTTTTCTTT-TTGT-TTTCTTTT
1 TCTTTCAATTTCTTTTTCGA-TTCTTTTTCTTTTGCAATTT-TTTCTCTTTCTTGTCTTTCTTTT
65432498 -TGTTT
64 CT-TTT
*
65432503 TCTTTCAATTTCTTTTTCAATCTCTTT
1 TCTTTCAATTTCTTTTTCGAT-TCTTT
65432530 CTCCTTTTCT
Statistics
Matches: 74, Mismatches: 6, Indels: 20
0.74 0.06 0.20
Matches are distributed among these distances:
61 7 0.09
62 1 0.01
63 1 0.01
64 16 0.22
65 22 0.30
66 13 0.18
67 1 0.01
68 13 0.18
ACGTcount: A:0.08, C:0.19, G:0.03, T:0.70
Consensus pattern (68 bp):
TCTTTCAATTTCTTTTTCGATTCTTTTTCTTTTGCAATTTTTTCTCTTTCTTGTCTTTCTTTTCT
TTT
Found at i:65433588 original size:11 final size:11
Alignment explanation
Indices: 65433574--65433608 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
65433564 TTTTTTTTCC
*
65433574 TTTTTTTCG-A
1 TTTTTTTTGAA
65433584 TTTTTTTTGAA
1 TTTTTTTTGAA
65433595 TTTTTTTTGAA
1 TTTTTTTTGAA
65433606 TTT
1 TTT
65433609 CTTCTCTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 8 0.35
11 15 0.65
ACGTcount: A:0.14, C:0.03, G:0.09, T:0.74
Consensus pattern (11 bp):
TTTTTTTTGAA
Found at i:65435170 original size:30 final size:30
Alignment explanation
Indices: 65435136--65435232 Score: 81
Period size: 30 Copynumber: 3.2 Consensus size: 30
65435126 TAAACTAAAA
65435136 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
65435166 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
* * *
65435196 TGAGCTAAGGTTTAGCTTGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
65435226 TGAGCTA
1 TGAGCTA
65435233 GGAGTGAGCT
Statistics
Matches: 49, Mismatches: 15, Indels: 6
0.70 0.21 0.09
Matches are distributed among these distances:
29 2 0.04
30 41 0.84
31 6 0.12
ACGTcount: A:0.28, C:0.14, G:0.29, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:65439118 original size:10 final size:10
Alignment explanation
Indices: 65439102--65439159 Score: 55
Period size: 10 Copynumber: 5.7 Consensus size: 10
65439092 CAACTCCGAC
65439102 CAGCTCAATT
1 CAGCTCAATT
* *
65439112 GAGCTCATTT
1 CAGCTCAATT
65439122 CAGCTCAA-T
1 CAGCTCAATT
*
65439131 CGAGCTTAATT
1 C-AGCTCAATT
*
65439142 TAGCTACAATT
1 CAGCT-CAATT
65439153 CAGCTCA
1 CAGCTCA
65439160 TTTATTTTAT
Statistics
Matches: 37, Mismatches: 8, Indels: 6
0.73 0.16 0.12
Matches are distributed among these distances:
9 2 0.05
10 26 0.70
11 9 0.24
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (10 bp):
CAGCTCAATT
Found at i:65439125 original size:20 final size:20
Alignment explanation
Indices: 65439102--65439162 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 20
65439092 CAACTCCGAC
65439102 CAGCTCAATTGAGCTCATTT
1 CAGCTCAATTGAGCTCATTT
* *
65439122 CAGCTCAATCGAGCTTAATTT
1 CAGCTCAATTGAGC-TCATTT
*
65439143 -AGCTACAATTCAGCTCATTT
1 CAGCT-CAATTGAGCTCATTT
65439163 ATTTTATTGG
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
20 22 0.65
21 12 0.35
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (20 bp):
CAGCTCAATTGAGCTCATTT
Found at i:65440432 original size:11 final size:10
Alignment explanation
Indices: 65440416--65440445 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
65440406 TTCGTAATGT
65440416 AAAAAAAAGTC
1 AAAAAAAA-TC
65440427 AAAAAAAATC
1 AAAAAAAATC
65440437 AAAAAAAAT
1 AAAAAAAAT
65440446 TTGAGTTGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 11 0.58
11 8 0.42
ACGTcount: A:0.80, C:0.07, G:0.03, T:0.10
Consensus pattern (10 bp):
AAAAAAAATC
Found at i:65440529 original size:12 final size:13
Alignment explanation
Indices: 65440501--65440539 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
65440491 ATTGTATTGG
*
65440501 ATTTAAAAAAAAGA
1 ATTTCAAAAAAA-A
*
65440515 AATTCAAAAAAAA
1 ATTTCAAAAAAAA
65440528 ATTTCAAAAAAA
1 ATTTCAAAAAAA
65440540 TCGAAAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 12 0.55
14 10 0.45
ACGTcount: A:0.72, C:0.05, G:0.03, T:0.21
Consensus pattern (13 bp):
ATTTCAAAAAAAA
Found at i:65441731 original size:18 final size:18
Alignment explanation
Indices: 65441710--65441744 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
65441700 AGAAAAGAAA
65441710 ATTGA-AAAAGAAATTGAG
1 ATTGAGAAAA-AAATTGAG
65441728 ATTGAGAAAAAAATTGA
1 ATTGAGAAAAAAATTGA
65441745 AAAAGAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.57, C:0.00, G:0.20, T:0.23
Consensus pattern (18 bp):
ATTGAGAAAAAAATTGAG
Found at i:65444040 original size:22 final size:22
Alignment explanation
Indices: 65444012--65444055 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
65444002 TTTTGAACCA
65444012 TTACCATTTCGTACCAAATCCC
1 TTACCATTTCGTACCAAATCCC
*
65444034 TTACCATTTCGTACCAATTCCC
1 TTACCATTTCGTACCAAATCCC
65444056 AAATACCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.25, C:0.36, G:0.05, T:0.34
Consensus pattern (22 bp):
TTACCATTTCGTACCAAATCCC
Found at i:65446589 original size:22 final size:22
Alignment explanation
Indices: 65446562--65446609 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
65446552 CAATCTTTGG
*
65446562 AGAATTTGAAAGA-ACTGAAAA
1 AGAAATTGAAAGAGACTGAAAA
* *
65446583 AGAAATTGAGAGAGAGTGAAAA
1 AGAAATTGAAAGAGACTGAAAA
65446605 AGAAA
1 AGAAA
65446610 AGAAAAATGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.58, C:0.02, G:0.25, T:0.15
Consensus pattern (22 bp):
AGAAATTGAAAGAGACTGAAAA
Found at i:65446658 original size:20 final size:20
Alignment explanation
Indices: 65446633--65446675 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
65446623 AAAAGAAAAG
65446633 AAAGAAGAGAGATTGAGAGA
1 AAAGAAGAGAGATTGAGAGA
** *
65446653 AAAGAATCGAGATTGTGAGA
1 AAAGAAGAGAGATTGAGAGA
65446673 AAA
1 AAA
65446676 ACAAGAGCAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.53, C:0.02, G:0.30, T:0.14
Consensus pattern (20 bp):
AAAGAAGAGAGATTGAGAGA
Found at i:65448943 original size:22 final size:22
Alignment explanation
Indices: 65448915--65448958 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
65448905 TTTTGAACCA
*
65448915 TTACCATTTCGTACCAAATCCC
1 TTACCATTTCATACCAAATCCC
*
65448937 TTACCATTTCATACCAATTCCC
1 TTACCATTTCATACCAAATCCC
65448959 AAATACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.27, C:0.36, G:0.02, T:0.34
Consensus pattern (22 bp):
TTACCATTTCATACCAAATCCC
Found at i:65450306 original size:10 final size:10
Alignment explanation
Indices: 65450290--65450347 Score: 64
Period size: 10 Copynumber: 5.7 Consensus size: 10
65450280 CAACTCCTAC
65450290 CAGCTCAATT
1 CAGCTCAATT
* *
65450300 GAGCTCATTT
1 CAGCTCAATT
65450310 CAGCTCAA-T
1 CAGCTCAATT
65450319 CGAGCTCAATT
1 C-AGCTCAATT
*
65450330 TAGCTACAATT
1 CAGCT-CAATT
65450341 CAGCTCA
1 CAGCTCA
65450348 TTTATTTTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 2 0.05
10 27 0.69
11 10 0.26
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.29
Consensus pattern (10 bp):
CAGCTCAATT
Found at i:65450313 original size:20 final size:20
Alignment explanation
Indices: 65450290--65450350 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
65450280 CAACTCCTAC
65450290 CAGCTCAATTGAGCTCATTT
1 CAGCTCAATTGAGCTCATTT
*
65450310 CAGCTCAATCGAGCTCAATTT
1 CAGCTCAATTGAGCTC-ATTT
*
65450331 -AGCTACAATTCAGCTCATTT
1 CAGCT-CAATTGAGCTCATTT
65450351 ATTTTATTGG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 23 0.64
21 13 0.36
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (20 bp):
CAGCTCAATTGAGCTCATTT
Found at i:65452309 original size:4 final size:4
Alignment explanation
Indices: 65452300--65452331 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
65452290 TTAAACTAAG
65452300 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
65452332 AATAAAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
TAAA
Found at i:65456866 original size:40 final size:40
Alignment explanation
Indices: 65456821--65457685 Score: 1516
Period size: 40 Copynumber: 21.6 Consensus size: 40
65456811 CAAGCTCAAT
* * * * *
65456821 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
65456861 TGCCTTCGGGTCTTAGCCCGGATATATCAACTT-GCACAAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAA-TTCGCACAAA
65456901 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* *
65456941 TGCCGTCGGGTCTTAGCCCGGATATATCAGTTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
65456981 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
65457021 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* * *
65457061 TGCCTTCGGGTCTTATCCCAGATATATCAATTCGGACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
65457101 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
65457141 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
65457181 TGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
65457221 TGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
65457261 TGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
65457301 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
65457341 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* *
65457381 TGCCTTCGGGTCTTAACCCGGATATATCAATTCACACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
65457421 TGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
65457461 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
65457501 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* *
65457541 TGCCTTCGGGTCTTAACCCGGATATATCAATTCACACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
65457581 TGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
65457621 TGCCTTCGGGTCTTAGCCCGGATATATCAATTGGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
65457661 TGCCTTCGGGTCTTAGCCCGGATAT
1 TGCCTTCGGGTCTTAGCCCGGATAT
65457686 CATTCAAATG
Statistics
Matches: 793, Mismatches: 30, Indels: 4
0.96 0.04 0.00
Matches are distributed among these distances:
39 2 0.00
40 790 1.00
41 1 0.00
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
Found at i:65464820 original size:40 final size:40
Alignment explanation
Indices: 65464775--65465519 Score: 1251
Period size: 40 Copynumber: 18.6 Consensus size: 40
65464765 CAAGCTCAAT
* * * * *
65464775 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
65464815 TGCCTTCGGGTCTTAGCCCGGATATATCAACTT-GCA-AAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAA-TTCGCACAAA
*
65464854 TTGCCTTCGGGTCTTAGCCCGGATATATCAATTCGTACAAA
1 -TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* *
65464895 TGCCGTCGGGTCTTAGCCCGGATATATCAGTTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* *
65464935 TGACTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
65464975 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
65465015 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
65465055 TGCCTTCGGGTCTTAGCCTGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
65465095 TGCCTTCCGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
65465135 TGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
65465175 TGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* *
65465215 TGCCTTTGGGTCTTAACCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
65465255 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* *
65465295 TGCCTTTGGGTCTTAACCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
65465335 TGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* *
65465375 TGCCTTTGGGTCTTAACCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
65465415 TGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
65465455 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
65465495 TGCCTTCGGGTCTTAGCCCGGATAT
1 TGCCTTCGGGTCTTAGCCCGGATAT
65465520 CATTCAAATG
Statistics
Matches: 670, Mismatches: 31, Indels: 8
0.94 0.04 0.01
Matches are distributed among these distances:
39 4 0.01
40 662 0.99
41 4 0.01
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.28
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
Found at i:65469157 original size:42 final size:41
Alignment explanation
Indices: 65469044--65469192 Score: 127
Period size: 43 Copynumber: 3.5 Consensus size: 41
65469034 CTGGGACATT
* * *
65469044 GTGTAAGACCGTGTCTGGGACACAGGCTTCGATTGAGATTTAC
1 GTGTAAGACCATGTCTGGGACACAGGCATCGATT-TGATTT-C
* * **
65469087 GTATAAGACCATGTCTGGGAAATTGGCATCGTATTTGATTTC
1 GTGTAAGACCATGTCTGGGACACAGGCATCG-ATTTGATTTC
* * * *
65469129 GTGTAAGACCCTATCTGGGACAGAGGCATCGATATTGAATTAC
1 GTGTAAGACCATGTCTGGGACACAGGCATCGAT-TTG-ATTTC
* * *
65469172 ATGTAAGACCACGTCCGGGAC
1 GTGTAAGACCATGTCTGGGAC
65469193 GTCGGCATTG
Statistics
Matches: 84, Mismatches: 19, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
41 2 0.02
42 29 0.35
43 50 0.60
44 3 0.04
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.28
Consensus pattern (41 bp):
GTGTAAGACCATGTCTGGGACACAGGCATCGATTTGATTTC
Found at i:65469200 original size:85 final size:85
Alignment explanation
Indices: 65469044--65469211 Score: 187
Period size: 85 Copynumber: 2.0 Consensus size: 85
65469034 CTGGGACATT
* * * * * *
65469044 GTGTAAGACCGTGTCTGGGACACAGGCTTCGATTGAGATTTACGTATAAGACCATGTCTGGGAAA
1 GTGTAAGACCCTATCTGGGACACAGGCATCGATTGAGATTTACATATAAGACCACGTCCGGGAAA
* *
65469109 TTGGCATCGTATTTGATTTC
66 TCGGCATCGTACTTGATTTC
* *
65469129 GTGTAAGACCCTATCTGGGACAGAGGCATCGATATTGA-A-TTACATGTAAGACCACGTCCGGGA
1 GTGTAAGACCCTATCTGGGACACAGGCATCG--ATTGAGATTTACATATAAGACCACGTCCGGGA
** *
65469192 CGTCGGCATTGTACTTGATT
64 AATCGGCATCGTACTTGATT
65469212 ATGAGCATCT
Statistics
Matches: 68, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
85 62 0.91
86 1 0.01
87 5 0.07
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (85 bp):
GTGTAAGACCCTATCTGGGACACAGGCATCGATTGAGATTTACATATAAGACCACGTCCGGGAAA
TCGGCATCGTACTTGATTTC
Found at i:65470381 original size:30 final size:30
Alignment explanation
Indices: 65470302--65470382 Score: 74
Period size: 30 Copynumber: 2.7 Consensus size: 30
65470292 ACTTTCAACT
* *
65470302 CACGAGCTAAACCTTAGCTCAACTTCAGCT
1 CACGAGCTAAAGCTTAGCTCAACTTCAGCA
* * ** * *
65470332 TAGGAG-TTTAGCCTCAGCTCAACTTTAGCA
1 CACGAGCTAAAG-CTTAGCTCAACTTCAGCA
65470362 CACGAGCTAAAGCTTAGCTCA
1 CACGAGCTAAAGCTTAGCTCA
65470383 TTTTAGTTTA
Statistics
Matches: 36, Mismatches: 13, Indels: 4
0.68 0.25 0.08
Matches are distributed among these distances:
29 2 0.06
30 31 0.86
31 3 0.08
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (30 bp):
CACGAGCTAAAGCTTAGCTCAACTTCAGCA
Found at i:65478215 original size:12 final size:13
Alignment explanation
Indices: 65478176--65478220 Score: 74
Period size: 13 Copynumber: 3.5 Consensus size: 13
65478166 CCGTATGCAA
65478176 TTTTTTTTCAAAT
1 TTTTTTTTCAAAT
65478189 TTTTTTTTCAAAT
1 TTTTTTTTCAAAT
*
65478202 TTTTTTTTC-GAT
1 TTTTTTTTCAAAT
65478214 TTTTTTT
1 TTTTTTT
65478221 ATTTTTTTGA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
12 9 0.29
13 22 0.71
ACGTcount: A:0.16, C:0.07, G:0.02, T:0.76
Consensus pattern (13 bp):
TTTTTTTTCAAAT
Found at i:65484858 original size:40 final size:40
Alignment explanation
Indices: 65484814--65485037 Score: 290
Period size: 40 Copynumber: 5.6 Consensus size: 40
65484804 AAGTGAATAT
* * * * **
65484814 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAA
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTGTTAA
65484854 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
65484894 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
* *
65484934 ATCCGGGTTAAGTCCCAAAGGCATTCGTGCGAATTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
* * * **
65484974 ATCCGGGTCATGTCCCGAAGGCATT-GTGTGAGTTACTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
* *
65485013 ATCCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATT
65485038 TGAACGAGGA
Statistics
Matches: 166, Mismatches: 17, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 34 0.20
40 132 0.80
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
Found at i:65484912 original size:80 final size:80
Alignment explanation
Indices: 65484775--65485037 Score: 300
Period size: 80 Copynumber: 3.3 Consensus size: 80
65484765 TTGAATGCTG
* * * * *
65484775 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGAATATATCCGGATTAAGAT-CCGAAGGCC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTG-TTAAATCCGGGTTAAG-TCCCGAAGGCC
*
65484837 TTTGTGCGAGATACTAAA
63 TTTGTGCGAGTTACTAAA
* * *
65484855 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
**
65484920 GTGCGAGTTGTTAAA
66 GTGCGAGTTACTAAA
* * * * * *
65484935 TCCGGGTTAAGTCCCAAAGGCATTCGTGCGAATTGTTAAATCCGGGTCATGTCCCGAAGG-CATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
*
65484999 GTGTGAGTTACTAAA
66 GTGCGAGTTACTAAA
*
65485014 TCCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
65485038 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 24, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
79 35 0.22
80 113 0.72
81 8 0.05
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
GTGCGAGTTACTAAA
Found at i:65492800 original size:40 final size:40
Alignment explanation
Indices: 65492717--65492979 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
65492707 TTGAATGCTG
* * * * * *
65492717 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
65492757 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
65492797 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
65492837 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
65492877 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
65492917 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
65492956 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
65492980 TGAACGAGGA
Statistics
Matches: 201, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.17
40 158 0.79
41 8 0.04
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:65492999 original size:79 final size:80
Alignment explanation
Indices: 65492756--65493014 Score: 247
Period size: 80 Copynumber: 3.3 Consensus size: 80
65492746 AAGTGAATAT
* * * * * *
65492756 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * *
65492820 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
** * *
65492836 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
65492901 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * *
65492916 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
65492980 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
65492995 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
65493015 TACGTGATTT
Statistics
Matches: 154, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
78 14 0.09
79 47 0.31
80 93 0.60
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:65496926 original size:19 final size:19
Alignment explanation
Indices: 65496902--65496941 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
65496892 AGCTCCCATG
65496902 TAGCTCCACACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
***
65496921 TAGCTCGGGACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
65496940 TA
1 TA
65496942 TCAGCTCACG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.25, C:0.35, G:0.17, T:0.23
Consensus pattern (19 bp):
TAGCTCCACACCAGCTCAT
Found at i:65498877 original size:16 final size:16
Alignment explanation
Indices: 65498856--65498886 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
65498846 GAAATTACGA
*
65498856 TAAAAGTCAAGAGAGG
1 TAAAAGGCAAGAGAGG
65498872 TAAAAGGCAAGAGAG
1 TAAAAGGCAAGAGAG
65498887 CGTGAGCGCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.06, G:0.32, T:0.10
Consensus pattern (16 bp):
TAAAAGGCAAGAGAGG
Found at i:65502481 original size:22 final size:22
Alignment explanation
Indices: 65502453--65502496 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
65502443 TTTTGAACCA
65502453 TTACCATTTCGTACCAAATCCC
1 TTACCATTTCGTACCAAATCCC
*
65502475 TTACCATTTCGTACCAATTCCC
1 TTACCATTTCGTACCAAATCCC
65502497 AAATACCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.25, C:0.36, G:0.05, T:0.34
Consensus pattern (22 bp):
TTACCATTTCGTACCAAATCCC
Found at i:65505521 original size:19 final size:18
Alignment explanation
Indices: 65505497--65505535 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
65505487 AGCTCCCATG
65505497 TAGCTCCACACCAGCTCAT
1 TAGCT-CACACCAGCTCAT
**
65505516 TAGCTCGGACCAGCTCAT
1 TAGCTCACACCAGCTCAT
65505534 TA
1 TA
65505536 TCAGCTCACG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.26, C:0.36, G:0.15, T:0.23
Consensus pattern (18 bp):
TAGCTCACACCAGCTCAT
Found at i:65511766 original size:30 final size:31
Alignment explanation
Indices: 65511695--65511777 Score: 91
Period size: 30 Copynumber: 2.7 Consensus size: 31
65511685 CTTTTGTTTC
*
65511695 AATTTCTTTTTCATCTTCTTTTTCACTCTCA
1 AATTTCTTTTTCATCTTCTTTTTCAATCTCA
*
65511726 AATTTC-TTTTCGTTCTT-TTTTTCAATCTC-
1 AATTTCTTTTTC-ATCTTCTTTTTCAATCTCA
* * *
65511755 ATTTTCTTTTTCATTTTCCTTTT
1 AATTTCTTTTTCATCTTCTTTTT
65511778 GCTTTTCAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
29 8 0.19
30 25 0.58
31 10 0.23
ACGTcount: A:0.13, C:0.22, G:0.01, T:0.64
Consensus pattern (31 bp):
AATTTCTTTTTCATCTTCTTTTTCAATCTCA
Found at i:65511856 original size:5 final size:5
Alignment explanation
Indices: 65511846--65511909 Score: 51
Period size: 5 Copynumber: 12.0 Consensus size: 5
65511836 CTCTTGCCTC
*
65511846 TCTTT TCTTT T-TATT TCATTT TCGTTT TCTTT T-TCT TCTTT TGCTTTT
1 TCTTT TCTTT TCT-TT TC-TTT TC-TTT TCTTT TCTTT TCTTT T-C-TTT
65511894 TCGTTT TCTTT TCTTT
1 TC-TTT TCTTT TCTTT
65511910 GTTTTCTCTT
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
4 4 0.08
5 24 0.49
6 16 0.33
7 5 0.10
ACGTcount: A:0.03, C:0.17, G:0.05, T:0.75
Consensus pattern (5 bp):
TCTTT
Found at i:65511878 original size:27 final size:26
Alignment explanation
Indices: 65511846--65511914 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 26
65511836 CTCTTGCCTC
*
65511846 TCTTTTCTTTTTATTTCATTTTCGTTT
1 TCTTTTCTTTTT-TTGCATTTTCGTTT
* *
65511873 TCTTTTTCTTCTTTTGCTTTTTCGTTT
1 TC-TTTTCTTTTTTTGCATTTTCGTTT
65511900 TCTTTTCTTTGTTTT
1 TCTTTTCTTT-TTTT
65511915 CTCTTTACAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
26 7 0.19
27 20 0.56
28 9 0.25
ACGTcount: A:0.03, C:0.16, G:0.06, T:0.75
Consensus pattern (26 bp):
TCTTTTCTTTTTTTGCATTTTCGTTT
Found at i:65511894 original size:21 final size:21
Alignment explanation
Indices: 65511848--65511920 Score: 60
Period size: 21 Copynumber: 3.4 Consensus size: 21
65511838 CTTGCCTCTC
* *
65511848 TTTTCTTTTTATTTCATTTT-CG
1 TTTTCTTTTT-CTTC-TTTTGCT
65511870 TTTTCTTTTTCTTCTTTTGCT
1 TTTTCTTTTTCTTCTTTTGCT
* *
65511891 TTTTCGTTTTCTTTTCTTTG-T
1 TTTTCTTTTTCTTCT-TTTGCT
65511912 TTTCTCTTT
1 TTT-TCTTT
65511921 ACAAGAATGT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
20 4 0.09
21 21 0.49
22 18 0.42
ACGTcount: A:0.03, C:0.16, G:0.05, T:0.75
Consensus pattern (21 bp):
TTTTCTTTTTCTTCTTTTGCT
Found at i:65512940 original size:16 final size:15
Alignment explanation
Indices: 65512907--65512940 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
65512897 ATTACAACTT
*
65512907 GAATTTTTTTAATTC
1 GAATTTTTTTAATAC
65512922 GAATTTTTTTAACTAC
1 GAATTTTTTTAA-TAC
65512938 GAA
1 GAA
65512941 CCTATTTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.32, C:0.09, G:0.09, T:0.50
Consensus pattern (15 bp):
GAATTTTTTTAATAC
Found at i:65514575 original size:30 final size:30
Alignment explanation
Indices: 65514490--65514586 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
65514480 TAAACTAAAA
* *
65514490 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
* * * * * *
65514520 TGAGCTGAGGCTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
65514550 TGAGCTAAGGTTTAGCTCGTGAGCTGAA-T
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
65514579 ATGAGCTA
1 -TGAGCTA
65514587 GGAGTGAGCT
Statistics
Matches: 52, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
29 1 0.02
30 51 0.98
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
Found at i:65514993 original size:29 final size:29
Alignment explanation
Indices: 65514927--65514983 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
65514917 GATTCAAAGA
*
65514927 TGGGTTTATGGATATGAAGTTTATGTAGT
1 TGGGTTTATGGATATAAAGTTTATGTAGT
*
65514956 TGGGTTTATGGATATAAAGTTTTTGTAG
1 TGGGTTTATGGATATAAAGTTTATGTAG
65514984 GTTTGGTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.25, C:0.00, G:0.30, T:0.46
Consensus pattern (29 bp):
TGGGTTTATGGATATAAAGTTTATGTAGT
Found at i:65518225 original size:30 final size:28
Alignment explanation
Indices: 65518172--65518227 Score: 76
Period size: 30 Copynumber: 1.9 Consensus size: 28
65518162 TTCTTCCACG
* *
65518172 CTTTCTTTTTGCTCACTCTCTTTTTCAA
1 CTTTCTTTTTGCACACACTCTTTTTCAA
65518200 CTTTACTTTCTTGCACACACTCTTTTTC
1 CTTT-CTTT-TTGCACACACTCTTTTTC
65518228 TTTTTCGCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 4 0.17
29 4 0.17
30 16 0.67
ACGTcount: A:0.12, C:0.30, G:0.04, T:0.54
Consensus pattern (28 bp):
CTTTCTTTTTGCACACACTCTTTTTCAA
Found at i:65519602 original size:29 final size:29
Alignment explanation
Indices: 65519536--65519592 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
65519526 GGATTCAAGA
*
65519536 TGGGTTTATGGATATGAAGTTTATGTAGT
1 TGGGTTTATGGATATAAAGTTTATGTAGT
*
65519565 TGGGTTTATGGATATAAAGTTTTTGTAG
1 TGGGTTTATGGATATAAAGTTTATGTAG
65519593 GTTTGGTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.25, C:0.00, G:0.30, T:0.46
Consensus pattern (29 bp):
TGGGTTTATGGATATAAAGTTTATGTAGT
Found at i:65523316 original size:10 final size:10
Alignment explanation
Indices: 65523301--65523327 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
65523291 TAAGTTGAAG
65523301 TTGAGCTGAT
1 TTGAGCTGAT
65523311 TTGAGCTGAT
1 TTGAGCTGAT
65523321 TTGAGCT
1 TTGAGCT
65523328 TGAAGGAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.19, C:0.11, G:0.30, T:0.41
Consensus pattern (10 bp):
TTGAGCTGAT
Found at i:65526592 original size:40 final size:39
Alignment explanation
Indices: 65526494--65526716 Score: 241
Period size: 40 Copynumber: 5.6 Consensus size: 39
65526484 TCCTCGTTCA
* * * * *
65526494 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* *
65526533 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
65526572 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* *
65526612 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* * * * * *
65526652 AAAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCAC
* *
65526693 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
65526717 CAGCATTCAA
Statistics
Matches: 160, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 37 0.23
40 115 0.72
41 8 0.05
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
Found at i:65526716 original size:120 final size:119
Alignment explanation
Indices: 65526494--65526716 Score: 272
Period size: 120 Copynumber: 1.9 Consensus size: 119
65526484 TCCTCGTTCA
* * * *
65526494 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
* *
65526559 TAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
66 TAACAACTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * *
65526613 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAATCCGGA
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGA-CATAACCCGGA
* *
65526677 TATATTC-ACTTAGCAC-AAAGCCTTCGGGACTTAGCCCGGA
64 TATA-ACAAC-TAGCACGAAAGCCTTCGGGACTTAACCCGGA
65526717 CAGCATTCAA
Statistics
Matches: 87, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
119 37 0.43
120 44 0.51
121 6 0.07
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
TAACAACTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:65534434 original size:39 final size:40
Alignment explanation
Indices: 65534391--65534612 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
65534381 TCCTCGTTCA
* * * * *
65534391 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
65534430 AATGCCTTCGGGAC-TAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
65534469 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
65534509 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
65534549 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
65534589 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
65534613 CAGCATTCAA
Statistics
Matches: 159, Mismatches: 19, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
38 19 0.12
39 31 0.19
40 101 0.64
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:65534621 original size:41 final size:41
Alignment explanation
Indices: 65534544--65534621 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
65534534 TTAGTATCTC
* * *
65534544 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
65534585 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
65534622 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:65540730 original size:10 final size:10
Alignment explanation
Indices: 65540716--65540762 Score: 60
Period size: 10 Copynumber: 4.7 Consensus size: 10
65540706 TAAGCTCGGT
*
65540716 TGAGCTCAAA
1 TGAGCTGAAA
*
65540726 CGAGCTGAAA
1 TGAGCTGAAA
65540736 TGAGCTGAAA
1 TGAGCTGAAA
65540746 TGAGCT-AAA
1 TGAGCTGAAA
65540755 TTGAGCTG
1 -TGAGCTG
65540763 GACGGAGCTC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
9 3 0.09
10 29 0.91
ACGTcount: A:0.36, C:0.15, G:0.28, T:0.21
Consensus pattern (10 bp):
TGAGCTGAAA
Found at i:65542467 original size:13 final size:13
Alignment explanation
Indices: 65542449--65542477 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
65542439 AATAGTTGTG
65542449 TGTTATTTAATTA
1 TGTTATTTAATTA
65542462 TGTTATTTAATTA
1 TGTTATTTAATTA
65542475 TGT
1 TGT
65542478 AGGTTAGCTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.28, C:0.00, G:0.10, T:0.62
Consensus pattern (13 bp):
TGTTATTTAATTA
Found at i:65544693 original size:4 final size:4
Alignment explanation
Indices: 65544684--65544711 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
65544674 AAGTTTTATT
65544684 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
65544712 CTTAGTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:65551655 original size:10 final size:10
Alignment explanation
Indices: 65551642--65551687 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
65551632 AGCTCACTTG
65551642 AGCTCGTTTT
1 AGCTCGTTTT
*
65551652 AGCTCGTTTG
1 AGCTCGTTTT
*
65551662 AGCTCGAATTT
1 AGCTCG-TTTT
*
65551673 AGCTCGTTTC
1 AGCTCGTTTT
65551683 AGCTC
1 AGCTC
65551688 ATTCCTTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
10 22 0.73
11 8 0.27
ACGTcount: A:0.15, C:0.24, G:0.22, T:0.39
Consensus pattern (10 bp):
AGCTCGTTTT
Found at i:65551675 original size:21 final size:20
Alignment explanation
Indices: 65551639--65551687 Score: 71
Period size: 21 Copynumber: 2.4 Consensus size: 20
65551629 ATAAGCTCAC
*
65551639 TTGAGCTCGTTTTAGCTCGT
1 TTGAGCTCGATTTAGCTCGT
65551659 TTGAGCTCGAATTTAGCTCGT
1 TTGAGCTCG-ATTTAGCTCGT
*
65551680 TTCAGCTC
1 TTGAGCTC
65551688 ATTCCTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 9 0.35
21 17 0.65
ACGTcount: A:0.14, C:0.22, G:0.22, T:0.41
Consensus pattern (20 bp):
TTGAGCTCGATTTAGCTCGT
Found at i:65551930 original size:13 final size:13
Alignment explanation
Indices: 65551912--65551940 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
65551902 AATAGTTGTG
65551912 TGTTATTTAATTA
1 TGTTATTTAATTA
65551925 TGTTATTTAATTA
1 TGTTATTTAATTA
65551938 TGT
1 TGT
65551941 AGGTTAGCCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.28, C:0.00, G:0.10, T:0.62
Consensus pattern (13 bp):
TGTTATTTAATTA
Found at i:65553346 original size:13 final size:13
Alignment explanation
Indices: 65553316--65553346 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
65553306 AGTTCCGTTG
65553316 AAAAATTTCAAAA
1 AAAAATTTCAAAA
*
65553329 CAAAATTTCAAAA
1 AAAAATTTCAAAA
65553342 AAAAA
1 AAAAA
65553347 CCTTTTGAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.71, C:0.10, G:0.00, T:0.19
Consensus pattern (13 bp):
AAAAATTTCAAAA
Found at i:65553682 original size:26 final size:28
Alignment explanation
Indices: 65553652--65553706 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
65553642 ACCAACACAC
65553652 TAAT-ATCA-CAGCAAAGCTGCCAGTAA
1 TAATAATCAGCAGCAAAGCTGCCAGTAA
* *
65553678 TAATAATGATGCAGCATAGCTGCCAGTAA
1 TAATAATCA-GCAGCAAAGCTGCCAGTAA
65553707 CAGTAAGTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 4 0.17
27 3 0.12
29 17 0.71
ACGTcount: A:0.40, C:0.20, G:0.18, T:0.22
Consensus pattern (28 bp):
TAATAATCAGCAGCAAAGCTGCCAGTAA
Found at i:65561231 original size:27 final size:28
Alignment explanation
Indices: 65561147--65561244 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
65561137 CATGAGATTG
* * * *
65561147 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
65561176 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
65561204 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
65561231 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
65561245 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:65561255 original size:27 final size:27
Alignment explanation
Indices: 65561175--65561257 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
65561165 TAAATTGTAC
* *
65561175 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
65561203 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
65561230 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
65561257 A
1 A
65561258 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:65561258 original size:29 final size:27
Alignment explanation
Indices: 65561147--65561258 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
65561137 CATGAGATTG
** * *
65561147 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
65561176 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
65561204 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
65561231 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
65561259 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:65564367 original size:24 final size:26
Alignment explanation
Indices: 65564316--65564367 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
65564306 ATCGATAAAA
*
65564316 ATTATAAGTTGAGAAGAATTTATTTTG
1 ATTATAAGTTGAG-AGAATTTATCTTG
*
65564343 ATTATAAGTTGAG-GATTTTA-CTTG
1 ATTATAAGTTGAGAGAATTTATCTTG
65564367 A
1 A
65564368 AGACAAGCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 4 0.17
25 6 0.26
27 13 0.57
ACGTcount: A:0.35, C:0.02, G:0.19, T:0.44
Consensus pattern (26 bp):
ATTATAAGTTGAGAGAATTTATCTTG
Found at i:65575775 original size:43 final size:43
Alignment explanation
Indices: 65575714--65575840 Score: 159
Period size: 43 Copynumber: 3.0 Consensus size: 43
65575704 ACATAGGATT
*
65575714 TCGATATGTGATTTCGTGTAAGACCACGTCTGGGATGTTGGCA
1 TCGATATATGATTTCGTGTAAGACCACGTCTGGGATGTTGGCA
* *
65575757 TCGATTTATGATTTCGTGTAAAACC-CTGTCTGGGATAG-TGGCA
1 TCGATATATGATTTCGTGTAAGACCAC-GTCTGGGAT-GTTGGCA
* * * *
65575800 TCGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGG
1 TCGATATATGATTTCGTGTAAGACCACGTCTGGGATGTTGG
65575841 TGTTGTACGA
Statistics
Matches: 71, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
42 2 0.03
43 67 0.94
44 2 0.03
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (43 bp):
TCGATATATGATTTCGTGTAAGACCACGTCTGGGATGTTGGCA
Found at i:65576367 original size:149 final size:150
Alignment explanation
Indices: 65576097--65576402 Score: 510
Period size: 149 Copynumber: 2.1 Consensus size: 150
65576087 TGTTTATAAG
* * * **
65576097 ATATGTTTGAGTTTGCAAGCATGATACATGTACATTTGGTTAAGTTTTGTTTGGTTCGGTCTAGT
1 ATATGTTTGAGTTTGCAAGCACGATACATCTACATTTGGCTAAGTTTTGTTTGGTTCCATCTAGT
65576162 TTAATTGAATTATGTATGTCATTAAAATGAATTATTTGCTTATAACTTACTAAGCTATTTAGGCT
66 TTAATTGAATTATGTATGTCATTAAAATGAATTATTTGCTTATAACTTACTAAGCTATTTAGGCT
*
65576227 TATTGTGTGAGTGTTTGTT-
131 TACTGTGTGAGTGTTTGTTC
*
65576246 ATATGTTTGAGTTTGCAAGCACGATACATCTACATTTGGCTAAGGTTTT-TTTGGTTCCATTTAG
1 ATATGTTTGAGTTTGCAAGCACGATACATCTACATTTGGCTAA-GTTTTGTTTGGTTCCATCTAG
*
65576310 TTTAATTGAATTATGTATGTCATTAAAATGAATTATTTGCTTATGACTTACTAAGCTATTTAGGC
65 TTTAATTGAATTATGTATGTCATTAAAATGAATTATTTGCTTATAACTTACTAAGCTATTTAGGC
65576375 TTACTGTGTGAGTGTTTGTTC
130 TTACTGTGTGAGTGTTTGTTC
65576396 AT-TGTTT
1 ATATGTTT
65576403 TATAGATTTT
Statistics
Matches: 147, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
149 140 0.95
150 7 0.05
ACGTcount: A:0.25, C:0.09, G:0.19, T:0.46
Consensus pattern (150 bp):
ATATGTTTGAGTTTGCAAGCACGATACATCTACATTTGGCTAAGTTTTGTTTGGTTCCATCTAGT
TTAATTGAATTATGTATGTCATTAAAATGAATTATTTGCTTATAACTTACTAAGCTATTTAGGCT
TACTGTGTGAGTGTTTGTTC
Found at i:65578724 original size:45 final size:46
Alignment explanation
Indices: 65578660--65578834 Score: 216
Period size: 45 Copynumber: 3.8 Consensus size: 46
65578650 TGTAACCCGC
*
65578660 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
* *
65578705 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C--GTTCGCAT
* *
65578755 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
*
65578798 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
65578835 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 9, Indels: 19
0.80 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 36 0.32
46 29 0.26
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
Found at i:65578825 original size:93 final size:92
Alignment explanation
Indices: 65578667--65578837 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 92
65578657 CGCCCATAAG
*
65578667 CGAACTCGGACTCAACTCAACGAGCTCGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 CGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
65578732 CGAGTTCGGATGCCTAGTTACATCTCA
66 CGAGTTCGGATGCCTAGTTACATCTCA
*
65578759 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCA
65578824 ACGAGTTCGGATGC
65 ACGAGTTCGGATGC
65578838 TCAACCATCC
Statistics
Matches: 76, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
92 28 0.37
93 48 0.63
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (92 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCA
Found at i:65586292 original size:45 final size:45
Alignment explanation
Indices: 65586228--65586401 Score: 201
Period size: 45 Copynumber: 3.8 Consensus size: 45
65586218 TGTAACCCGC
*
65586228 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTGCAT
* *
65586273 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTGCAT
* * * *
65586323 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTT-GCAT
*
65586366 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG
65586402 ATGCTCAACC
Statistics
Matches: 108, Mismatches: 12, Indels: 17
0.79 0.09 0.12
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 36 0.33
46 27 0.25
47 28 0.26
48 3 0.03
49 1 0.01
50 6 0.06
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTGCAT
Found at i:65586393 original size:93 final size:92
Alignment explanation
Indices: 65586235--65586405 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 92
65586225 CGCCCATAAG
* * *
65586235 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 CGAACTCGGACTCAACTCAACGAGCTCAGACATTGCATCCATAAGTGAACTCGGACTCAACTCAA
65586300 CGAGTTCGGATGCCTAGTTACATCTCA
66 CGAGTTCGGATGCCTAGTTACATCTCA
*
65586327 CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGACATT-GCATCCATAAGTGAACTCGGACTCAACTCA
65586392 ACGAGTTCGGATGC
65 ACGAGTTCGGATGC
65586406 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
92 30 0.41
93 44 0.59
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (92 bp):
CGAACTCGGACTCAACTCAACGAGCTCAGACATTGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCA
Found at i:65588577 original size:50 final size:49
Alignment explanation
Indices: 65588456--65588693 Score: 273
Period size: 49 Copynumber: 4.8 Consensus size: 49
65588446 TGAGGTCGCA
* ** *
65588456 TGTGTAGTACTAAGTGCAGGCTACTATGCATACCCA-AAAACTGT-GATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCAGATAA-T-TAG-TCACG
* **
65588507 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAAGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-AGTCACG
* *
65588557 TGTGTAGTATTAAGTGCAGGCTACTACGTGTACCGGATAATTAGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGTCACG
* * * *
65588606 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGTCACG
* * *
65588655 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
65588694 GCTTTGGCTA
Statistics
Matches: 164, Mismatches: 20, Indels: 8
0.85 0.10 0.04
Matches are distributed among these distances:
49 88 0.54
50 45 0.27
51 31 0.19
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGTCACG
Found at i:65591170 original size:31 final size:31
Alignment explanation
Indices: 65591128--65591211 Score: 145
Period size: 31 Copynumber: 2.7 Consensus size: 31
65591118 TTAGTCTTGA
65591128 CATAT-ACTGGGCCGAAGCC-TTTCTATAAAT
1 CATATCACTGGGCCGAAGCCTTTTC-ATAAAT
65591158 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
65591189 CATATCACTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
65591212 ACTGTAAACG
Statistics
Matches: 52, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
30 5 0.10
31 43 0.83
32 4 0.08
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:65591282 original size:42 final size:42
Alignment explanation
Indices: 65591235--65591325 Score: 173
Period size: 42 Copynumber: 2.2 Consensus size: 42
65591225 TGGCCCTTAG
*
65591235 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
65591277 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
65591319 GCCCATT
1 GCCCATT
65591326 CGGGGAGACT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
Found at i:65591488 original size:24 final size:24
Alignment explanation
Indices: 65591461--65591545 Score: 73
Period size: 25 Copynumber: 3.5 Consensus size: 24
65591451 ATGGAGGCTT
*
65591461 AGCCTCTTTTAAT-AATTAGGGCAA
1 AGCC-CTTTTAATAAACTAGGGCAA
* *
65591485 AGCCCTTTCTGATAAACTGGGGCAA
1 AGCCCTTT-TAATAAACTAGGGCAA
** * *
65591510 AGCCCTTTTCGGTAAACTGGGGCAG
1 AGCCCTTTT-AATAAACTAGGGCAA
65591535 AGCCCTTTTAA
1 AGCCCTTTTAA
65591546 CACTTCCTCC
Statistics
Matches: 51, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
23 4 0.08
24 8 0.16
25 39 0.76
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.28
Consensus pattern (24 bp):
AGCCCTTTTAATAAACTAGGGCAA
Found at i:65591511 original size:25 final size:25
Alignment explanation
Indices: 65591479--65591543 Score: 96
Period size: 25 Copynumber: 2.6 Consensus size: 25
65591469 TTAATAATTA
65591479 GGGCAAAGCCC-TTTCTGATAAACTG
1 GGGCAAAGCCCTTTTC-GATAAACTG
*
65591504 GGGCAAAGCCCTTTTCGGTAAACTG
1 GGGCAAAGCCCTTTTCGATAAACTG
*
65591529 GGGCAGAGCCCTTTT
1 GGGCAAAGCCCTTTT
65591544 AACACTTCCT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
25 33 0.89
26 4 0.11
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.25
Consensus pattern (25 bp):
GGGCAAAGCCCTTTTCGATAAACTG
Found at i:65592501 original size:27 final size:27
Alignment explanation
Indices: 65592471--65592712 Score: 139
Period size: 27 Copynumber: 8.9 Consensus size: 27
65592461 GTAAATCTAC
* *
65592471 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCGGTAATTTTAT
** *
65592498 AAACC-AGTGGTATTTCTATAATTTTTAG
1 AAACCAAG-GGTATTTCGGTAA-TTTTAT
* * * *
65592526 AAAGTCAAAGGTATTTCTGTAATTTTGT
1 AAA-CCAAGGGTATTTCGGTAATTTTAT
** * *
65592554 AAATTAGGGGTATTTTGGTAATTTTAT
1 AAACCAAGGGTATTTCGGTAATTTTAT
*** * * *
65592581 AAATTGATGGTATTTCGGTAATTTCAC
1 AAACCAAGGGTATTTCGGTAATTTTAT
*
65592608 AAACC-AGTGGTATTTCGGTAATTTTAC
1 AAACCAAG-GGTATTTCGGTAATTTTAT
* * * *
65592635 AAACTAGGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTCGGTAATTTTAT
* * * *
65592662 AAACTAGGGGTATTTTGGTAATTCTAT
1 AAACCAAGGGTATTTCGGTAATTTTAT
** *
65592689 CTTA-CAAGGGTATTTCAGTAATTT
1 -AAACCAAGGGTATTTCGGTAATTT
65592713 CACAATTGAG
Statistics
Matches: 171, Mismatches: 37, Indels: 14
0.77 0.17 0.06
Matches are distributed among these distances:
26 3 0.02
27 138 0.81
28 16 0.09
29 13 0.08
30 1 0.01
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (27 bp):
AAACCAAGGGTATTTCGGTAATTTTAT
Found at i:65592620 original size:54 final size:54
Alignment explanation
Indices: 65592559--65592717 Score: 169
Period size: 54 Copynumber: 2.9 Consensus size: 54
65592549 TTTGTAAATT
* * *
65592559 AGGGGTATTTTGGTAATTTTATAAA-TTGATGGTATTTCGGTAATTTCACAAACC
1 AGGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTCGGTAATTTCACAAACC
* * * * *
65592613 AGTGGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTCGGTAATTTCACAAACC
* ** * *
65592667 AGGGGTATTTTGGTAATTCTATCTTAC-AAGGGTATTTCAGTAATTTCACAA
1 AGGGGTATTTTGGTAATTTTA-CAAACTAGGGGTATTTCGGTAATTTCACAA
65592718 TTGAGGGTAA
Statistics
Matches: 86, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
54 81 0.94
55 5 0.06
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (54 bp):
AGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTCGGTAATTTCACAAACC
Found at i:65592674 original size:81 final size:81
Alignment explanation
Indices: 65592535--65592684 Score: 212
Period size: 81 Copynumber: 1.9 Consensus size: 81
65592525 GAAAGTCAAA
* ** * * * *
65592535 GGTATTTCTGTAATTTTGTAAATTAGGGGTATTTTGGTAATTTTATAAATTGATGGTATTTCGGT
1 GGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAATAGAGGGTATTTCGGT
65592600 AATTTCACAAACCAGT
66 AATTTCACAAACCAGT
*
65592616 GGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTGG
1 GGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAA-TAGAGGGTATTTCGG
65592680 TAATT
65 TAATT
65592685 CTATCTTACA
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
81 58 0.97
82 2 0.03
ACGTcount: A:0.28, C:0.07, G:0.21, T:0.43
Consensus pattern (81 bp):
GGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAATAGAGGGTATTTCGGT
AATTTCACAAACCAGT
Found at i:65592701 original size:81 final size:81
Alignment explanation
Indices: 65592535--65592717 Score: 201
Period size: 81 Copynumber: 2.3 Consensus size: 81
65592525 GAAAGTCAAA
* ** * * * *
65592535 GGTATTTCTGTAATTTTGTAAATTAGGGGTATTTTGGTAATTTTATAAATTGATGGTATTTCGGT
1 GGTATTTCAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAATAGAGGGTATTTCGGT
*
65592600 AATTTCACAAACCAGT
66 AATTTCACAAACAAGT
* *
65592616 GGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTGG
1 GGTATTTCAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAA-TAGAGGGTATTTCGG
**
65592680 TAA-TTCTATCTTACAAG-
65 TAATTTC-A-CAAACAAGT
*
65592697 GGTATTTCAGTAATTTCACAA
1 GGTATTTCAGTAATTTTACAA
65592718 TTGAGGGTAA
Statistics
Matches: 86, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
80 3 0.03
81 76 0.88
82 7 0.08
ACGTcount: A:0.29, C:0.09, G:0.20, T:0.42
Consensus pattern (81 bp):
GGTATTTCAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAATAGAGGGTATTTCGGT
AATTTCACAAACAAGT
Found at i:65592752 original size:27 final size:27
Alignment explanation
Indices: 65592720--65592953 Score: 308
Period size: 27 Copynumber: 8.7 Consensus size: 27
65592710 TTTCACAATT
* *
65592720 GAGGGTAAAACAGTAATTTTGTAAATT
1 GAGGGTAAAACGGTAATTTTGTAAATC
* *
65592747 GAGGGTAAAATGATAATTTTGTAAATC
1 GAGGGTAAAACGGTAATTTTGTAAATC
*
65592774 GAGGGTAAAACGGTAATTCTGTAAATC
1 GAGGGTAAAACGGTAATTTTGTAAATC
* *
65592801 GAGGGTAAAATGGTAATTCTT-TAAATT
1 GAGGGTAAAACGGTAATT-TTGTAAATC
*
65592828 GAGGGTAAAACGGTAATTTTATAAATC
1 GAGGGTAAAACGGTAATTTTGTAAATC
* * * *
65592855 GAGGGTGAAACGATAATTCTATAAATC
1 GAGGGTAAAACGGTAATTTTGTAAATC
65592882 GAGGGTAAAACGGTAATTTTGTAAATC
1 GAGGGTAAAACGGTAATTTTGTAAATC
* * *
65592909 GAGGGTGAAACGGTAATTCTATAAATC
1 GAGGGTAAAACGGTAATTTTGTAAATC
*
65592936 GAGGGTAAAATGGTAATT
1 GAGGGTAAAACGGTAATT
65592954 CTACAAATCA
Statistics
Matches: 181, Mismatches: 24, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
26 2 0.01
27 178 0.98
28 1 0.01
ACGTcount: A:0.39, C:0.07, G:0.24, T:0.30
Consensus pattern (27 bp):
GAGGGTAAAACGGTAATTTTGTAAATC
Done.