Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 74 of 208
Found at i:26790132 original size:26 final size:25
Alignment explanation
Indices: 26790101--26790149 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
26790091 CTTAAAAAAT
26790101 TTCTATGCGTATTACATCAAATAAAC
1 TTCTAT-CGTATTACATCAAATAAAC
**
26790127 TTCTATTTTATTACATCAAATAA
1 TTCTATCGTATTACATCAAATAA
26790150 TAAAATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 15 0.71
26 6 0.29
ACGTcount: A:0.39, C:0.16, G:0.04, T:0.41
Consensus pattern (25 bp):
TTCTATCGTATTACATCAAATAAAC
Found at i:26790290 original size:24 final size:24
Alignment explanation
Indices: 26790263--26790315 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
26790253 GGCGGTTGTT
*
26790263 CTTCCTCTGGTGGTGATTGTGGTC
1 CTTCCTCCGGTGGTGATTGTGGTC
* *
26790287 CTTCCTCCGGTGGTGGTTGTGGTT
1 CTTCCTCCGGTGGTGATTGTGGTC
26790311 CTTCC
1 CTTCC
26790316 GGTTCCGCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.02, C:0.25, G:0.32, T:0.42
Consensus pattern (24 bp):
CTTCCTCCGGTGGTGATTGTGGTC
Found at i:26792406 original size:29 final size:29
Alignment explanation
Indices: 26792364--26792420 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
26792354 ACCATTAATG
* *
26792364 AAAATATAAAAAAATTTAAAATTATTTTT
1 AAAAAATAAAAAAAATTAAAATTATTTTT
* *
26792393 AAAAAATATAAAAAATTATAATTATTTT
1 AAAAAATAAAAAAAATTAAAATTATTTT
26792421 AAATAATGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (29 bp):
AAAAAATAAAAAAAATTAAAATTATTTTT
Found at i:26792497 original size:22 final size:22
Alignment explanation
Indices: 26792472--26792522 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
26792462 AAATATGAGT
* *
26792472 TTGAGAGAATTTTGGAAGGAAG
1 TTGAGAGAATTTTAGAAGGAAA
26792494 TTGAGAGAATTTTAGAAGGAAA
1 TTGAGAGAATTTTAGAAGGAAA
26792516 TTGAGAG
1 TTGAGAG
26792523 GATTAGAGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.39, C:0.00, G:0.33, T:0.27
Consensus pattern (22 bp):
TTGAGAGAATTTTAGAAGGAAA
Found at i:26794198 original size:23 final size:24
Alignment explanation
Indices: 26794151--26794196 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
26794141 GAAAAATATT
26794151 AAATATATATATTTTGTATTTTTA
1 AAATATATATATTTTGTATTTTTA
*
26794175 AAATATA-ATAGTTTTTTATTTT
1 AAATATATATA-TTTTGTATTTT
26794197 AAGTTTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (24 bp):
AAATATATATATTTTGTATTTTTA
Found at i:26794326 original size:59 final size:59
Alignment explanation
Indices: 26794263--26794439 Score: 255
Period size: 66 Copynumber: 2.9 Consensus size: 59
26794253 TCAAGTTTGT
*
26794263 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATAATTTGATAAA
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
26794322 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATTAATAATTTGATAA
1 TTTACTAATCAAATGTTAGATTTTATTACAACAA-T--T--AA-T-ACAATTAATAATTTGATAA
26794387 A
59 A
* * *
26794388 TTTACTAATTAAATGTTAGATTTTATTACAGCAATTAATACAATTAACAATT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATT
26794440 AATAATTTGA
Statistics
Matches: 107, Mismatches: 4, Indels: 14
0.86 0.03 0.11
Matches are distributed among these distances:
59 45 0.42
60 2 0.02
61 2 0.02
62 1 0.01
63 1 0.01
64 2 0.02
65 2 0.02
66 52 0.49
ACGTcount: A:0.45, C:0.09, G:0.06, T:0.41
Consensus pattern (59 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
Found at i:26794376 original size:66 final size:66
Alignment explanation
Indices: 26794293--26794461 Score: 293
Period size: 66 Copynumber: 2.5 Consensus size: 66
26794283 TTTTGTTACA
26794293 ACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTATTACAACAATT
1 ACAATT-A-ACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTATTACAACAATT
26794358 AAT
64 AAT
* *
26794361 ACAATTAACAATTAATAATTTGATAAATTTACTAATTAAATGTTAGATTTTATTACAGCAATTAA
1 ACAATTAACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTATTACAACAATTAA
26794426 T
66 T
*
26794427 ACAATTAACAATTAATAATTTGATAATTTTACTAA
1 ACAATTAACAATTAATAATTTGATAAATTTACTAA
26794462 CAATTAGTTT
Statistics
Matches: 98, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
66 91 0.93
67 1 0.01
68 6 0.06
ACGTcount: A:0.47, C:0.08, G:0.05, T:0.40
Consensus pattern (66 bp):
ACAATTAACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTATTACAACAATTAA
T
Found at i:26794515 original size:5 final size:5
Alignment explanation
Indices: 26794505--26794534 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
26794495 TAATTAAAAA
26794505 CGGGC CGGGC CGGGC CGGGC CGGGC CGGGC
1 CGGGC CGGGC CGGGC CGGGC CGGGC CGGGC
26794535 TCGAGCCCCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.00, C:0.40, G:0.60, T:0.00
Consensus pattern (5 bp):
CGGGC
Found at i:26795028 original size:19 final size:19
Alignment explanation
Indices: 26795006--26795042 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
26794996 AGAAATTGAT
26795006 AAGAAG-AAAAG--AAAGA
1 AAGAAGAAAAAGAAAAAGA
26795022 AAGAAGAAAAAGAAAAAGA
1 AAGAAGAAAAAGAAAAAGA
26795041 AA
1 AA
26795043 AAAGTGAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 6 0.33
17 5 0.28
19 7 0.39
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (19 bp):
AAGAAGAAAAAGAAAAAGA
Found at i:26809379 original size:20 final size:21
Alignment explanation
Indices: 26809340--26809379 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
26809330 GGTATGCAAA
* *
26809340 TTTGTGAGAATTTGGGTTTTT
1 TTTGTGAGAATTTAGATTTTT
26809361 TTTG-GAGAATTTAGATTTT
1 TTTGTGAGAATTTAGATTTT
26809380 AAAAGGGTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.20, C:0.00, G:0.25, T:0.55
Consensus pattern (21 bp):
TTTGTGAGAATTTAGATTTTT
Found at i:26823937 original size:59 final size:59
Alignment explanation
Indices: 26823874--26824020 Score: 179
Period size: 59 Copynumber: 2.5 Consensus size: 59
26823864 CAAAAAGCTT
* *
26823874 AGTTTAGATACTTAATTGGACAAAAAAAAGTTCAAGTATCAATTTGAACCTTGACGCT-A
1 AGTTTAGATACCTAATTGGACAAAAAAAAGTTCAAGTATCAAATTGAACCTTGA-GCTCA
* * * * * *
26823933 AGTTTAGATACCCAATCGGATAAAAAAAGGTTTAAGTATCAAATTGAACCTTGAGGTCA
1 AGTTTAGATACCTAATTGGACAAAAAAAAGTTCAAGTATCAAATTGAACCTTGAGCTCA
** *
26823992 AGTTTAGGCACCTAATTAGACAAAAAAAA
1 AGTTTAGATACCTAATTGGACAAAAAAAA
26824021 ACACATTAGG
Statistics
Matches: 72, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
58 2 0.03
59 70 0.97
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.27
Consensus pattern (59 bp):
AGTTTAGATACCTAATTGGACAAAAAAAAGTTCAAGTATCAAATTGAACCTTGAGCTCA
Found at i:26824458 original size:20 final size:20
Alignment explanation
Indices: 26824411--26824459 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
26824401 TAAACTAATT
*
26824411 TTTAATTAATACTTATATAA
1 TTTAATAAATACTTATATAA
*
26824431 TTAAAATAAATA-TTATATAAA
1 TT-TAATAAATACTTATAT-AA
26824452 TTTAATAA
1 TTTAATAA
26824460 TCGGACATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
20 13 0.54
21 11 0.46
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (20 bp):
TTTAATAAATACTTATATAA
Found at i:26824944 original size:25 final size:26
Alignment explanation
Indices: 26824913--26824977 Score: 89
Period size: 25 Copynumber: 2.5 Consensus size: 26
26824903 TTTATAAATA
*
26824913 AATTTATTTAAAATTAGTGTTTT-TT
1 AATTTATTTAAAATTAATGTTTTGTT
*
26824938 ATTTTATTT-AAATTAATGTTTTGTT
1 AATTTATTTAAAATTAATGTTTTGTT
26824963 AATTTATTTATAAAT
1 AATTTATTTA-AAAT
26824978 AATAAATCAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
24 12 0.35
25 18 0.53
27 4 0.12
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (26 bp):
AATTTATTTAAAATTAATGTTTTGTT
Found at i:26826204 original size:19 final size:20
Alignment explanation
Indices: 26826172--26826209 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
26826162 AACCTATAAA
*
26826172 TATAGAAAATTATATAAAAG
1 TATAGAAAAATATATAAAAG
26826192 TATA-AAAAATATATAAAA
1 TATAGAAAAATATATAAAA
26826210 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (20 bp):
TATAGAAAAATATATAAAAG
Found at i:26826242 original size:12 final size:11
Alignment explanation
Indices: 26826224--26826273 Score: 75
Period size: 12 Copynumber: 4.5 Consensus size: 11
26826214 TTAAAATGAT
26826224 GAAAATTATAA
1 GAAAATTATAA
26826235 GAAAAATTATAA
1 G-AAAATTATAA
26826247 GAAAATATATAA
1 GAAAAT-TATAA
26826259 GAAAATTAT-A
1 GAAAATTATAA
26826269 GAAAA
1 GAAAA
26826274 GTTTGTTATT
Statistics
Matches: 37, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
10 6 0.16
11 9 0.24
12 22 0.59
ACGTcount: A:0.66, C:0.00, G:0.10, T:0.24
Consensus pattern (11 bp):
GAAAATTATAA
Found at i:26826263 original size:23 final size:22
Alignment explanation
Indices: 26826216--26826273 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 22
26826206 AAAAATAATT
*
26826216 AAAATGAT-GAAAATTATAAGA
1 AAAATTATAGAAAATTATAAGA
26826237 AAAATTATAAGAAAATATATAAG-
1 AAAATTAT-AGAAAAT-TATAAGA
26826260 AAAATTATAGAAAA
1 AAAATTATAGAAAA
26826274 GTTTGTTATT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
21 7 0.21
22 6 0.18
23 14 0.42
24 6 0.18
ACGTcount: A:0.66, C:0.00, G:0.10, T:0.24
Consensus pattern (22 bp):
AAAATTATAGAAAATTATAAGA
Found at i:26826271 original size:10 final size:10
Alignment explanation
Indices: 26826172--26826273 Score: 75
Period size: 10 Copynumber: 9.9 Consensus size: 10
26826162 AACCTATAAA
26826172 TATAGAAAAT
1 TATAGAAAAT
* *
26826182 TATATAAAAG
1 TATAGAAAAT
*
26826192 TATAAAAAAT
1 TATAGAAAAT
26826202 ATATA-AAAAT
1 -TATAGAAAAT
* *
26826212 AAT-TAAAAT
1 TATAGAAAAT
*
26826221 GAT-GAAAAT
1 TATAGAAAAT
26826230 TATAAGAAAAAT
1 TAT-AG-AAAAT
26826242 TATAAGAAAAT
1 TAT-AGAAAAT
26826253 ATATAAGAAAAT
1 -TAT-AGAAAAT
26826265 TATAGAAAA
1 TATAGAAAA
26826274 GTTTGTTATT
Statistics
Matches: 78, Mismatches: 8, Indels: 12
0.80 0.08 0.12
Matches are distributed among these distances:
9 16 0.21
10 27 0.35
11 13 0.17
12 22 0.28
ACGTcount: A:0.65, C:0.00, G:0.08, T:0.27
Consensus pattern (10 bp):
TATAGAAAAT
Found at i:26845290 original size:125 final size:125
Alignment explanation
Indices: 26845066--26845444 Score: 632
Period size: 125 Copynumber: 3.0 Consensus size: 125
26845056 GATAAAATCA
*
26845066 AAGCAGGATGCTTTATCAGAAGAATTTCTAAAATCGCGCCCACATGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATCAGAAGAATTTCTAAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* *
26845131 AGGTCCTGAAAAAATAATTTTGAGTTGACGTTTCTGAGAAAATAGTATAAAAAATGCTTC
66 AGGTCCTGAAAAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
* *
26845191 AGGCAGGATGCTTTATCAGAAGAATTTCTAAAATCGCGCCCACGTGGACGCACTTTTGCTACAGT
1 AAGCAGGATGCTTTATCAGAAGAATTTCTAAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
*
26845256 AGGTCCTGAAAAAATAATTTTGAGTTGACATTTCTGAGCAAATAGTATAAAAAAAACGCTTC
66 AGGTCCTGAAAAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTAT--AAAAAACGCTTC
*
26845318 AAGCAGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATCAGAAGAATTTCTAAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* * * * *
26845383 TGGTCCTAAAAAAATAATTTCGAGTTGACGTTTCTAAGCAAATAGTATAAAAAACACTTC
66 AGGTCCTGAAAAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
26845443 AA
1 AA
26845445 TCGACTAGCT
Statistics
Matches: 237, Mismatches: 15, Indels: 4
0.93 0.06 0.02
Matches are distributed among these distances:
125 121 0.51
127 116 0.49
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.28
Consensus pattern (125 bp):
AAGCAGGATGCTTTATCAGAAGAATTTCTAAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
AGGTCCTGAAAAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
Found at i:26845374 original size:127 final size:127
Alignment explanation
Indices: 26845066--26845436 Score: 629
Period size: 127 Copynumber: 2.9 Consensus size: 127
26845056 GATAAAATCA
*
26845066 AAGCAGGATGCTTTATCAGAAGAATTTCTAAAATCGCGCCCACATGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATCAGAAGAATTTCTAAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* *
26845131 AGGTCCTGAAAAAATAATTTTGAGTTGACGTTTCTGAGAAAATAGTAT--AAAAAATGCTTC
66 AGGTCCTGAAAAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTATAAAAAAAACGCTTC
* *
26845191 AGGCAGGATGCTTTATCAGAAGAATTTCTAAAATCGCGCCCACGTGGACGCACTTTTGCTACAGT
1 AAGCAGGATGCTTTATCAGAAGAATTTCTAAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
*
26845256 AGGTCCTGAAAAAATAATTTTGAGTTGACATTTCTGAGCAAATAGTATAAAAAAAACGCTTC
66 AGGTCCTGAAAAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTATAAAAAAAACGCTTC
*
26845318 AAGCAGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATCAGAAGAATTTCTAAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* * * *
26845383 TGGTCCTAAAAAAATAATTTCGAGTTGACGTTTCTAAGCAAATAGTATAAAAAA
66 AGGTCCTGAAAAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTATAAAAAA
26845437 CACTTCAATC
Statistics
Matches: 230, Mismatches: 14, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
125 108 0.47
127 122 0.53
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.28
Consensus pattern (127 bp):
AAGCAGGATGCTTTATCAGAAGAATTTCTAAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
AGGTCCTGAAAAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTATAAAAAAAACGCTTC
Found at i:26846107 original size:51 final size:51
Alignment explanation
Indices: 26846036--26846132 Score: 142
Period size: 51 Copynumber: 1.9 Consensus size: 51
26846026 AGTAATTAAC
*
26846036 AATAGGGATTTAAGAGAAATTTA-AGAGGAAATTGAGGGCAAATTGAAATTA
1 AATAGGGATTTAAGAGAAATTTAGA-AGGAAATTGAGAGCAAATTGAAATTA
* * *
26846087 AATATGGATTTGAGAGAAATTTGGAAGGAAATTGAGAGCAAATTGA
1 AATAGGGATTTAAGAGAAATTTAGAAGGAAATTGAGAGCAAATTGA
26846133 GAGGAAATTG
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
51 40 0.98
52 1 0.02
ACGTcount: A:0.45, C:0.02, G:0.27, T:0.26
Consensus pattern (51 bp):
AATAGGGATTTAAGAGAAATTTAGAAGGAAATTGAGAGCAAATTGAAATTA
Found at i:26846121 original size:22 final size:22
Alignment explanation
Indices: 26846096--26846149 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
26846086 AAATATGGAT
26846096 TTGAGAGAAATTTG-GAAGGAAA
1 TTGAGAGAAATTTGAG-AGGAAA
26846118 TTGAGAGCAAA-TTGAGAGGAAA
1 TTGAGAG-AAATTTGAGAGGAAA
26846140 TTGAGA-AAAT
1 TTGAGAGAAAT
26846150 AATTGAGGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
20 3 0.10
22 22 0.76
23 4 0.14
ACGTcount: A:0.46, C:0.02, G:0.30, T:0.22
Consensus pattern (22 bp):
TTGAGAGAAATTTGAGAGGAAA
Found at i:26849747 original size:25 final size:23
Alignment explanation
Indices: 26849713--26849763 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 23
26849703 ATTATTTACG
*
26849713 ATTTTAATATTTAATTTTAAAAGTT
1 ATTTTAATA-TAAATTTTAAAA-TT
*
26849738 ATTTTGATATAAATTTTAAAATT
1 ATTTTAATATAAATTTTAAAATT
26849761 ATT
1 ATT
26849764 AAGTCCAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 5 0.21
24 11 0.46
25 8 0.33
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (23 bp):
ATTTTAATATAAATTTTAAAATT
Found at i:26853575 original size:11 final size:13
Alignment explanation
Indices: 26853551--26853582 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
26853541 TAGTTTATTA
26853551 ATATTTTAATATG
1 ATATTTTAATATG
26853564 AT-TTTTAA-ATG
1 ATATTTTAATATG
26853575 ATATTTTA
1 ATATTTTA
26853583 TTAATTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 5 0.28
12 11 0.61
13 2 0.11
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (13 bp):
ATATTTTAATATG
Found at i:26857639 original size:25 final size:25
Alignment explanation
Indices: 26857601--26857649 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
26857591 GATCACCGAT
** *
26857601 TTCAGCTCTTATGAGCTTCCTGTTA
1 TTCAGCTCACATGAGCTTACTGTTA
26857626 TTCAGCTCACATGAGCTTACTGTT
1 TTCAGCTCACATGAGCTTACTGTT
26857650 TACAACTCAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.18, C:0.24, G:0.16, T:0.41
Consensus pattern (25 bp):
TTCAGCTCACATGAGCTTACTGTTA
Found at i:26857663 original size:24 final size:25
Alignment explanation
Indices: 26857610--26857665 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 25
26857600 TTTCAGCTCT
* * *
26857610 TATGAGCTTCCTGTTATTCAGCTCA
1 TATGAGCTTACTGTTATACAACTCA
*
26857635 CATGAGCTTACTGTT-TACAACTCA
1 TATGAGCTTACTGTTATACAACTCA
26857659 TATGAGC
1 TATGAGC
26857666 ATACATGTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
24 13 0.50
25 13 0.50
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (25 bp):
TATGAGCTTACTGTTATACAACTCA
Found at i:26859157 original size:25 final size:24
Alignment explanation
Indices: 26859108--26859160 Score: 70
Period size: 25 Copynumber: 2.2 Consensus size: 24
26859098 GTCATTAGGG
* * *
26859108 TTACCGATTCTAGCTCTTATGAGC
1 TTACCGATACTAACTCGTATGAGC
26859132 TTACCGATACTCAACTCGTATGAGC
1 TTACCGATACT-AACTCGTATGAGC
26859157 TTAC
1 TTAC
26859161 TGTTATTCAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 10 0.40
25 15 0.60
ACGTcount: A:0.25, C:0.26, G:0.15, T:0.34
Consensus pattern (24 bp):
TTACCGATACTAACTCGTATGAGC
Found at i:26859650 original size:23 final size:23
Alignment explanation
Indices: 26859624--26859674 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
26859614 GAAAGGTATG
26859624 TGTAATATCCC-GAAAATTACTAC
1 TGTAATA-CCCTGAAAATTACTAC
*
26859647 TGTAATACCCTGAAAATTGCTAC
1 TGTAATACCCTGAAAATTACTAC
*
26859670 AGTAA
1 TGTAA
26859675 GAAAGTAGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 3 0.12
23 22 0.88
ACGTcount: A:0.39, C:0.20, G:0.12, T:0.29
Consensus pattern (23 bp):
TGTAATACCCTGAAAATTACTAC
Found at i:26865805 original size:38 final size:40
Alignment explanation
Indices: 26865727--26865815 Score: 112
Period size: 41 Copynumber: 2.3 Consensus size: 40
26865717 CGACTTTGAG
*
26865727 TCGATAAGACACTGGGTGTCAATTTACTACTTCGGATTAAT
1 TCGATAAGACACTGGGTGCCAATTTA-TACTTCGGATTAAT
* *
26865768 TCGATAAGGCACTGGGTGCCAA-TT-TACTTCGGTTTAAT
1 TCGATAAGACACTGGGTGCCAATTTATACTTCGGATTAAT
*
26865806 T-GATGAGACA
1 TCGATAAGACA
26865816 TTGTGTGTCA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
37 7 0.16
38 14 0.33
40 2 0.05
41 20 0.47
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (40 bp):
TCGATAAGACACTGGGTGCCAATTTATACTTCGGATTAAT
Found at i:26867720 original size:3 final size:3
Alignment explanation
Indices: 26867712--26867737 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
26867702 TTAAAAGAGT
26867712 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
26867738 TTGAAAACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:26868658 original size:13 final size:15
Alignment explanation
Indices: 26868627--26868662 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
26868617 GAAAAGAGAA
26868627 AAAAATA-AAGAAAG
1 AAAAATAGAAGAAAG
26868641 AAAAATAGAA-AAAG
1 AAAAATAGAAGAAAG
26868655 -AAAATAGA
1 AAAAATAGA
26868663 TATACCGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 8 0.38
14 11 0.52
15 2 0.10
ACGTcount: A:0.78, C:0.00, G:0.14, T:0.08
Consensus pattern (15 bp):
AAAAATAGAAGAAAG
Found at i:26869578 original size:95 final size:95
Alignment explanation
Indices: 26869461--26869654 Score: 298
Period size: 95 Copynumber: 2.0 Consensus size: 95
26869451 AAGATCTGAA
**
26869461 ATCTTCAATCTATTCCACTGCCAACCAGGAAGATAGAATTATTGGCTTCAATATACTCCACTGTA
1 ATCTTCAATCTATTCCACTGCCAACCAGGAAGATAGAATTATCAGCTTCAATATACTCCACTGTA
26869526 GTCACAGGGAGGTAAAATCTGCCATCTTTG
66 GTCACAGGGAGGTAAAATCTGCCATCTTTG
** * * * * *
26869556 ATCTTCAATCTATTCTTCTGCCAATCAGGGAGATAGAATTATCAGCTTCACTGTACTCTACTGTA
1 ATCTTCAATCTATTCCACTGCCAACCAGGAAGATAGAATTATCAGCTTCAATATACTCCACTGTA
*
26869621 GTCGCAGGGAGGTAAAATCTGCCATCTTTG
66 GTCACAGGGAGGTAAAATCTGCCATCTTTG
26869651 ATCT
1 ATCT
26869655 GCTCCGCTGC
Statistics
Matches: 89, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
95 89 1.00
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (95 bp):
ATCTTCAATCTATTCCACTGCCAACCAGGAAGATAGAATTATCAGCTTCAATATACTCCACTGTA
GTCACAGGGAGGTAAAATCTGCCATCTTTG
Found at i:26869826 original size:67 final size:67
Alignment explanation
Indices: 26869717--26869842 Score: 207
Period size: 67 Copynumber: 1.9 Consensus size: 67
26869707 GCCAGTGCAG
* * *
26869717 GAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGCTACAACCGAGAGAGGCAAGGTTTGTCAAGGC
1 GAAGGCAAGATCTATTGTCTTCAACCAGCTCCACCACAACCGAGAGAGGCAAGGTTTGTCAAGGC
26869782 AA
66 AA
* *
26869784 GAAGGCAAGATCTATTGTCTTCAACTAGCTCCACCACTACCGAGAGAGGCAAGGTTTGT
1 GAAGGCAAGATCTATTGTCTTCAACCAGCTCCACCACAACCGAGAGAGGCAAGGTTTGT
26869843 GTCTTCGATC
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
67 54 1.00
ACGTcount: A:0.29, C:0.24, G:0.25, T:0.21
Consensus pattern (67 bp):
GAAGGCAAGATCTATTGTCTTCAACCAGCTCCACCACAACCGAGAGAGGCAAGGTTTGTCAAGGC
AA
Found at i:26869878 original size:44 final size:43
Alignment explanation
Indices: 26869830--26870056 Score: 169
Period size: 44 Copynumber: 5.2 Consensus size: 43
26869820 CTACCGAGAG
* *
26869830 AGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGA
1 AGGCAAGGTTTGTGTCTTCGACCAGCTTC-CTGTCAATGCAGGA
* * * * * *
26869874 AGGCAAGATCTGTTGTCTTCAACCAGC-TCC-ATCACA-ACCGAGA
1 AGGCAAGGTTTG-TGTCTTCGACCAGCTTCCTGTCA-ATGCAG-GA
*
26869917 GAGGCAAGGTTTGTGTCTTCGACCTGCTTCACTGTCAATGCAGGA
1 -AGGCAAGGTTTGTGTCTTCGACCAGCTTC-CTGTCAATGCAGGA
* * * * * * *
26869962 AGGCAAGATCTTTTGTCTTCAATCAGC-TCC-ATCACA-ACCGAGA
1 AGGCAAGGT-TTGTGTCTTCGACCAGCTTCCTGTCA-ATGCAG-GA
26870005 GAGGCAAGGTTTGTGTCTTCGACCAGCTTCGCTGTCAATGCAGGA
1 -AGGCAAGGTTTGTGTCTTCGACCAGCTTC-CTGTCAATGCAGGA
26870050 AGGCAAG
1 AGGCAAG
26870057 ATCTGTTGTC
Statistics
Matches: 137, Mismatches: 30, Indels: 32
0.69 0.15 0.16
Matches are distributed among these distances:
42 10 0.07
43 34 0.25
44 51 0.37
45 32 0.23
46 10 0.07
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (43 bp):
AGGCAAGGTTTGTGTCTTCGACCAGCTTCCTGTCAATGCAGGA
Found at i:26869922 original size:88 final size:88
Alignment explanation
Indices: 26869773--26870070 Score: 497
Period size: 88 Copynumber: 3.4 Consensus size: 88
26869763 AGGCAAGGTT
* * * * * *
26869773 TGTCAAGGCAAGAAGGCAAGATCTATTGTCTTCAACTAGCTCCACCACTACCGAGAGAGGCAAGG
1 TGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAGG
*
26869838 TTTGTGTCTTCGATCTGCTTCGC
66 TTTGTGTCTTCGACCTGCTTCGC
26869861 TGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAGG
1 TGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAGG
*
26869926 TTTGTGTCTTCGACCTGCTTCAC
66 TTTGTGTCTTCGACCTGCTTCGC
* *
26869949 TGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAATCAGCTCCATCACAACCGAGAGAGGCAAGG
1 TGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAGG
*
26870014 TTTGTGTCTTCGACCAGCTTCGC
66 TTTGTGTCTTCGACCTGCTTCGC
26870037 TGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCA
1 TGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCA
26870071 CTGATCTATT
Statistics
Matches: 197, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
88 197 1.00
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.26
Consensus pattern (88 bp):
TGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAGG
TTTGTGTCTTCGACCTGCTTCGC
Found at i:26871174 original size:21 final size:21
Alignment explanation
Indices: 26871148--26871194 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
26871138 GGTAGAGCAA
*
26871148 GATCACCACATGCCCTAATCT
1 GATCACCACATGCCCCAATCT
** *
26871169 GATCACTTCATGCCCCATTCT
1 GATCACCACATGCCCCAATCT
26871190 GATCA
1 GATCA
26871195 ATATTTGAGC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.26, C:0.36, G:0.11, T:0.28
Consensus pattern (21 bp):
GATCACCACATGCCCCAATCT
Found at i:26872141 original size:198 final size:198
Alignment explanation
Indices: 26871798--26872192 Score: 745
Period size: 198 Copynumber: 2.0 Consensus size: 198
26871788 TCATGCCAGT
*
26871798 CCTTATTCACCTCTAGGTAATTCGGTGACAAAATGTGGTGTCTGCTTCTAAATTGATTTCAGACC
1 CCTTATTCACCTCTAGGTAATTCGGTGACAAAACGTGGTGTCTGCTTCTAAATTGATTTCAGACC
*
26871863 TCAGTTATCGTGCTATCATTTAAGTTCAATGCATTTTCCAATACTATCCTCTCTGAAATTCTGTA
66 TCAGTTATCGTGCTATCATTTAAGTTCAATGCATTTTCCAATACCATCCTCTCTGAAATTCTGTA
26871928 TCGGTATAGGATGACCTTAATCCATGAAGTAGCCTCTAAAAAAAAATGAAGCAATGCCCATTAGA
131 TCGGTATAGGATGACCTTAATCCATGAAGTAGCCTCTAAAAAAAAATGAAGCAATGCCCATTAGA
26871993 AGC
196 AGC
* *
26871996 CCTTGTTCACCTCTAGGTAATTCGGTGACAAAACGTGGTGTCTGCTTCTGAATTGATTTCAGACC
1 CCTTATTCACCTCTAGGTAATTCGGTGACAAAACGTGGTGTCTGCTTCTAAATTGATTTCAGACC
26872061 TCAGTTATCGTGCTATCATTTAAGTTCAATGCATTTTCCAATACCATCCTCTCTGAAATTCTGTA
66 TCAGTTATCGTGCTATCATTTAAGTTCAATGCATTTTCCAATACCATCCTCTCTGAAATTCTGTA
*
26872126 TCGGTATAGGATGACCTTAATCCATGAAGTAGCCTCTCAAAAAAAATGAAGCAATGCCCATTAGA
131 TCGGTATAGGATGACCTTAATCCATGAAGTAGCCTCTAAAAAAAAATGAAGCAATGCCCATTAGA
26872191 AG
196 AG
26872193 TCTTTGGTAA
Statistics
Matches: 192, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
198 192 1.00
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (198 bp):
CCTTATTCACCTCTAGGTAATTCGGTGACAAAACGTGGTGTCTGCTTCTAAATTGATTTCAGACC
TCAGTTATCGTGCTATCATTTAAGTTCAATGCATTTTCCAATACCATCCTCTCTGAAATTCTGTA
TCGGTATAGGATGACCTTAATCCATGAAGTAGCCTCTAAAAAAAAATGAAGCAATGCCCATTAGA
AGC
Found at i:26872327 original size:6 final size:6
Alignment explanation
Indices: 26872316--26872376 Score: 99
Period size: 6 Copynumber: 10.3 Consensus size: 6
26872306 TTAACCTCTC
26872316 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT -TCTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CT-TTTT
26872364 -TTTTT CTTTTT CT
1 CTTTTT CTTTTT CT
26872377 CCTATTTTTG
Statistics
Matches: 53, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.09
6 48 0.91
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
CTTTTT
Found at i:26872384 original size:18 final size:18
Alignment explanation
Indices: 26872316--26872391 Score: 86
Period size: 18 Copynumber: 4.2 Consensus size: 18
26872306 TTAACCTCTC
26872316 CTTTTTCT-TTTTCTTTTT
1 CTTTTTCTCTTTT-TTTTT
26872334 CTTTTTCT-TTTTCTTTTT
1 CTTTTTCTCTTTT-TTTTT
26872352 CTTTTT-TCTTTTTTTTT
1 CTTTTTCTCTTTTTTTTT
* *
26872369 CTTTTTCTCCTATTTTTGT
1 CTTTTTCT-CTTTTTTTTT
26872388 CTTT
1 CTTT
26872392 GATTTTTTTT
Statistics
Matches: 53, Mismatches: 2, Indels: 5
0.88 0.03 0.08
Matches are distributed among these distances:
17 12 0.23
18 29 0.55
19 12 0.23
ACGTcount: A:0.01, C:0.17, G:0.01, T:0.80
Consensus pattern (18 bp):
CTTTTTCTCTTTTTTTTT
Found at i:26872419 original size:20 final size:19
Alignment explanation
Indices: 26872389--26872462 Score: 105
Period size: 19 Copynumber: 3.8 Consensus size: 19
26872379 TATTTTTGTC
26872389 TTTGATTTTTTTTTGATTT
1 TTTGATTTTTTTTTGATTT
26872408 TTTGATTTTTTTTTTGATTTT
1 TTTGA-TTTTTTTTTGA-TTT
*
26872429 TTTGA-TTTTTTTTGATAT
1 TTTGATTTTTTTTTGATTT
*
26872447 TTTGAATTTTTTTTGA
1 TTTGATTTTTTTTTGA
26872463 GTCTGAACTC
Statistics
Matches: 51, Mismatches: 1, Indels: 6
0.88 0.02 0.10
Matches are distributed among these distances:
18 7 0.14
19 25 0.49
20 11 0.22
21 8 0.16
ACGTcount: A:0.14, C:0.00, G:0.11, T:0.76
Consensus pattern (19 bp):
TTTGATTTTTTTTTGATTT
Found at i:26872420 original size:21 final size:21
Alignment explanation
Indices: 26872389--26872441 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
26872379 TATTTTTGTC
26872389 TTTGA-TTTTTTTTTGA-TTT
1 TTTGATTTTTTTTTTGATTTT
26872408 TTTGATTTTTTTTTTGATTTT
1 TTTGATTTTTTTTTTGATTTT
26872429 TTTGATTTTTTTT
1 TTTGATTTTTTTT
26872442 GATATTTTGA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
19 5 0.16
20 11 0.34
21 16 0.50
ACGTcount: A:0.09, C:0.00, G:0.09, T:0.81
Consensus pattern (21 bp):
TTTGATTTTTTTTTTGATTTT
Found at i:26872441 original size:12 final size:12
Alignment explanation
Indices: 26872405--26872431 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
26872395 TTTTTTTTGA
26872405 TTTTTTGATTTT
1 TTTTTTGATTTT
26872417 TTTTTTGATTTT
1 TTTTTTGATTTT
26872429 TTT
1 TTT
26872432 GATTTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.07, C:0.00, G:0.07, T:0.85
Consensus pattern (12 bp):
TTTTTTGATTTT
Found at i:26872448 original size:12 final size:10
Alignment explanation
Indices: 26872389--26872462 Score: 68
Period size: 8 Copynumber: 7.5 Consensus size: 10
26872379 TATTTTTGTC
26872389 TTTGATTTTTT
1 TTTGA-TTTTT
26872400 TTTGA--TTT
1 TTTGATTTTT
26872408 TTTGATTTTTTT
1 TTTGA--TTTTT
26872420 TTTGA-TTTT
1 TTTGATTTTT
26872429 TTTGATTTTT
1 TTTGATTTTT
*
26872439 TTTGA--TAT
1 TTTGATTTTT
26872447 TTTGAATTTTT
1 TTTG-ATTTTT
26872458 TTTGA
1 TTTGA
26872463 GTCTGAACTC
Statistics
Matches: 53, Mismatches: 2, Indels: 17
0.74 0.03 0.24
Matches are distributed among these distances:
8 14 0.26
9 10 0.19
10 10 0.19
11 11 0.21
12 8 0.15
ACGTcount: A:0.14, C:0.00, G:0.11, T:0.76
Consensus pattern (10 bp):
TTTGATTTTT
Found at i:26873184 original size:21 final size:22
Alignment explanation
Indices: 26873151--26873191 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
26873141 TATGTACAAT
*
26873151 ATGATTATGAATGAATGAATGA
1 ATGATTATGAATGAAAGAATGA
26873173 ATGATT-TGAATGAAAGAAT
1 ATGATTATGAATGAAAGAAT
26873192 AAAAGAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.46, C:0.00, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGATTATGAATGAAAGAATGA
Found at i:26876743 original size:3 final size:3
Alignment explanation
Indices: 26876735--26876772 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
26876725 TTAAAAGAGT
26876735 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
26876773 TTGAAACATG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:26876884 original size:10 final size:11
Alignment explanation
Indices: 26876862--26876890 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
26876852 AAAAACTAAA
26876862 AATATATATAT
1 AATATATATAT
26876873 AATATA-ATAT
1 AATATATATAT
26876883 AATATATA
1 AATATATA
26876891 AAAAGGTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (11 bp):
AATATATATAT
Found at i:26876979 original size:12 final size:13
Alignment explanation
Indices: 26876952--26876984 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
26876942 TATAAGGGAA
*
26876952 AATAAAAACTAAT
1 AATAATAACTAAT
26876965 AATAATAAC-AAT
1 AATAATAACTAAT
26876977 AATAATAA
1 AATAATAA
26876985 TAACATCACA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.70, C:0.06, G:0.00, T:0.24
Consensus pattern (13 bp):
AATAATAACTAAT
Found at i:26876981 original size:15 final size:15
Alignment explanation
Indices: 26876961--26876989 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
26876951 AAATAAAAAC
26876961 TAATAATAATAACAA
1 TAATAATAATAACAA
26876976 TAATAATAATAACA
1 TAATAATAATAACA
26876990 TCACATTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.28
Consensus pattern (15 bp):
TAATAATAATAACAA
Found at i:26877696 original size:13 final size:15
Alignment explanation
Indices: 26877665--26877700 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
26877655 GAAAAGAGAA
26877665 AAAAATA-AAGAAAG
1 AAAAATAGAAGAAAG
26877679 AAAAATAGAA-AAAG
1 AAAAATAGAAGAAAG
26877693 -AAAATAGA
1 AAAAATAGA
26877701 TATACCGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 8 0.38
14 11 0.52
15 2 0.10
ACGTcount: A:0.78, C:0.00, G:0.14, T:0.08
Consensus pattern (15 bp):
AAAAATAGAAGAAAG
Found at i:26881234 original size:18 final size:18
Alignment explanation
Indices: 26881201--26881235 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
26881191 CTTATTTTTG
* *
26881201 CGAAAGCTACGTCTATTA
1 CGAAAGCTAAGACTATTA
26881219 CGAAAGCTAAGACTATT
1 CGAAAGCTAAGACTATT
26881236 CAATCTGGCC
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:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (18 bp):
CGAAAGCTAAGACTATTA
Found at i:26885909 original size:17 final size:17
Alignment explanation
Indices: 26885883--26885917 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
26885873 TTAAAAAACA
*
26885883 TTTTTCAAAAATATATT
1 TTTTTCAAAAATACATT
*
26885900 TTTTTTAAAAATACATT
1 TTTTTCAAAAATACATT
26885917 T
1 T
26885918 GAAAAGTGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (17 bp):
TTTTTCAAAAATACATT
Found at i:26886161 original size:26 final size:27
Alignment explanation
Indices: 26886107--26886163 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
26886097 TAAGTAATTA
* *
26886107 ATATAAATTATTTGTAAAATTATTGAT
1 ATATAAAATATTTGTAAAATTATTAAT
26886134 ATATAAAATATTT-TAAAATT-TTAA-
1 ATATAAAATATTTGTAAAATTATTAAT
26886158 ATATAA
1 ATATAA
26886164 TAGTAAATCA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 6 0.21
25 3 0.11
26 7 0.25
27 12 0.43
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.46
Consensus pattern (27 bp):
ATATAAAATATTTGTAAAATTATTAAT
Found at i:26896677 original size:53 final size:54
Alignment explanation
Indices: 26896575--26896681 Score: 153
Period size: 53 Copynumber: 2.0 Consensus size: 54
26896565 CCTTAAATGC
* **
26896575 TTACGAATTGATTAAATAATTTTTATTAAATTATTATAATAAATAATGTAAAAT
1 TTACGAATTGATCAAATAATTTTTATTAAATTACCATAATAAATAATGTAAAAT
* * *
26896629 TTACGAATTGATCAAATAA-TTTTATTTAATTACCATAATAATTCATGTAAAAT
1 TTACGAATTGATCAAATAATTTTTATTAAATTACCATAATAAATAATGTAAAAT
26896682 ATGAAATGAA
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
53 29 0.62
54 18 0.38
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.43
Consensus pattern (54 bp):
TTACGAATTGATCAAATAATTTTTATTAAATTACCATAATAAATAATGTAAAAT
Found at i:26897075 original size:24 final size:24
Alignment explanation
Indices: 26897038--26897085 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
26897028 AAAAGAATAC
* *
26897038 AAAAATTATTAAAAATTACAAAAA
1 AAAAACTATAAAAAATTACAAAAA
* *
26897062 AAAAACTATAAAAATTTACTAAAA
1 AAAAACTATAAAAAATTACAAAAA
26897086 TTTCAAATAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (24 bp):
AAAAACTATAAAAAATTACAAAAA
Found at i:26897318 original size:15 final size:14
Alignment explanation
Indices: 26897294--26897323 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
26897284 ATATAATAAA
26897294 TAAATAAATTGAAC
1 TAAATAAATTGAAC
26897308 TAAACTAAATTGAAC
1 TAAA-TAAATTGAAC
26897323 T
1 T
26897324 TCTTTTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.53, C:0.10, G:0.07, T:0.30
Consensus pattern (14 bp):
TAAATAAATTGAAC
Found at i:26897870 original size:3 final size:3
Alignment explanation
Indices: 26897864--26897889 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
26897854 GGAAAAAAAT
26897864 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
26897890 CTAATCATCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:26907810 original size:37 final size:38
Alignment explanation
Indices: 26907757--26907849 Score: 98
Period size: 37 Copynumber: 2.5 Consensus size: 38
26907747 AGTTCCACAT
* * * **
26907757 TGTGGTGTGTAAGGTGGATGATCCAATTATGGTTC-TA
1 TGTGGTGTGCAGGGTGGATGAGCCAATTATGGCCCTTA
* ** *
26907794 TGTGGTGTGCAGGGTGGATGGGCCTTTTGTGGCCCTTA
1 TGTGGTGTGCAGGGTGGATGAGCCAATTATGGCCCTTA
26907832 TGTGGTGTGCAGGGTGGA
1 TGTGGTGTGCAGGGTGGA
26907850 CGAAGCGGTG
Statistics
Matches: 46, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
37 26 0.57
38 20 0.43
ACGTcount: A:0.14, C:0.11, G:0.41, T:0.34
Consensus pattern (38 bp):
TGTGGTGTGCAGGGTGGATGAGCCAATTATGGCCCTTA
Found at i:26910076 original size:3 final size:3
Alignment explanation
Indices: 26910068--26910098 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
26910058 ATAAATTTCA
26910068 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
26910099 GCTTTTATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:26910253 original size:13 final size:13
Alignment explanation
Indices: 26910232--26910261 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
26910222 ATTTTTTAAA
*
26910232 ATATTTATTTTAT
1 ATATGTATTTTAT
26910245 ATATGTATTTTAT
1 ATATGTATTTTAT
26910258 ATAT
1 ATAT
26910262 TATGATTCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.63
Consensus pattern (13 bp):
ATATGTATTTTAT
Found at i:26910935 original size:110 final size:110
Alignment explanation
Indices: 26910737--26911281 Score: 848
Period size: 110 Copynumber: 5.0 Consensus size: 110
26910727 TCAAAAAAGG
*
26910737 AAAATATTTCTAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCT
1 AAAA-ATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCT
26910802 GGGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTTT
65 GGGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTTT
* *
26910848 TAAAATTTCAAAATAAGGAAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
1 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
*
26910913 GGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTCTT
66 GGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTTT
*
26910958 AAAAATTTCAAAATAAGGAAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
1 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
26911023 GGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTTT
66 GGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTTT
*
26911068 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACATGCCCTAAGGTGCT-
1 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
* * * ** *
26911132 GGTGTCGATTTTTCTCATTCAACCAAATAGCTAAATA-CCCCTTC
66 GGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTTT
* * **
26911176 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAG-GAACGTGCTTTAAGGTGCTG
1 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
* * * * **
26911240 GGTTTCGA--TTTCTCGTTTATCCAAATTGCCAAATATCCTTTT
66 GGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTT
26911282 GAATTTTAAT
Statistics
Matches: 405, Mismatches: 27, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
106 22 0.05
107 19 0.05
108 54 0.13
109 34 0.08
110 273 0.67
111 3 0.01
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (110 bp):
AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
GGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTTT
Found at i:26914121 original size:32 final size:29
Alignment explanation
Indices: 26914062--26914134 Score: 83
Period size: 32 Copynumber: 2.4 Consensus size: 29
26914052 GGGTCCAATT
*
26914062 AAAATTTTTAAATTTTTGTGAGATTAATG
1 AAAATTTTCAAATTTTTGTGAGATTAATG
* * *
26914091 AGAATTTTCAAATATTTTAAGTGAGCTTAATT
1 AAAATTTTCAAAT-TTTT--GTGAGATTAATG
26914123 AAAATTTTCAAA
1 AAAATTTTCAAA
26914135 AAAATTAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
29 11 0.31
30 4 0.11
32 21 0.58
ACGTcount: A:0.41, C:0.04, G:0.11, T:0.44
Consensus pattern (29 bp):
AAAATTTTCAAATTTTTGTGAGATTAATG
Found at i:26921356 original size:30 final size:30
Alignment explanation
Indices: 26921272--26921357 Score: 86
Period size: 30 Copynumber: 2.9 Consensus size: 30
26921262 TAAGGTTATT
*
26921272 TTTACCAAAATATTACAAAAAAATAA-AAAA
1 TTTACCAAAATAATACAAAAAAA-AAGAAAA
** * * **
26921302 AATACCAAAATAATA-TACAAAAAAGATTA
1 TTTACCAAAATAATACAAAAAAAAAGAAAA
26921331 TTTACCAAAATAATACAAAAAAAAAGA
1 TTTACCAAAATAATACAAAAAAAAAGA
26921358 CGGCTGAATG
Statistics
Matches: 43, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
28 2 0.05
29 20 0.47
30 21 0.49
ACGTcount: A:0.66, C:0.10, G:0.02, T:0.21
Consensus pattern (30 bp):
TTTACCAAAATAATACAAAAAAAAAGAAAA
Found at i:26929771 original size:45 final size:45
Alignment explanation
Indices: 26929691--26929777 Score: 106
Period size: 45 Copynumber: 1.9 Consensus size: 45
26929681 ATTTCATGTT
* *
26929691 AATCTTTTTGAATTTTTATGAATTTTTATATATTTTTTAATTTGG
1 AATCTTTTTGAATTTTTATGAATTTTTACATATTTTTAAATTTGG
* *
26929736 AATCTTTTT-ATTTTTTTTGAATATTTGTACA-ATTTTTAAATT
1 AATCTTTTTGAATTTTTATGAAT-TTT-TACATATTTTTAAATT
26929778 ATTTGTTGAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
44 11 0.31
45 22 0.61
46 3 0.08
ACGTcount: A:0.28, C:0.03, G:0.07, T:0.62
Consensus pattern (45 bp):
AATCTTTTTGAATTTTTATGAATTTTTACATATTTTTAAATTTGG
Found at i:26934068 original size:277 final size:276
Alignment explanation
Indices: 26933519--26934052 Score: 838
Period size: 276 Copynumber: 1.9 Consensus size: 276
26933509 TCCCTAAGCC
* * * * * *
26933519 TTTGGCCAATTAAAAACTTGTAGCGATAAGACTTTTACAATTTAGTCCTTGTATTAAAATTACCT
1 TTTGGCCAATTAAAAACCTATAGCGATAAGACTTTTACAATTTAGTCATTGTACTAAAACTAACT
*
26933584 ATTAATTCTACAAAATTATTGGAAAAAACTTTAATATATTTTTTACACCAAGTCCGTAAATATTC
66 ATTAATTCTACAAAATTACTGGAAAAAACTTTAATATATTTTTTACACCAAGTCCGTAAATATTC
* **
26933649 ATATTAATATTTATGAACCCGATTTATGGAAATGAGGTTCCAAAATTGCCTTTTCTAGCACCATT
131 AAATTAATATTTATGAACCCGATTTATGGAAATGAGGTTCCAAAATCACCTTTTCTAGCACCATT
*
26933714 GAAAATCTGACTGTTACATACACACTGCCGGACCTACCACGTCTCACTGGCTTGAAAAGAAACTT
196 GAAAATCGGACTGTTACATACACACTGCCGGACCTACCACGTCTCACTGGCTTGAAAAGAAACTT
26933779 GCACGTAGCCCTTAAA
261 GCACGTAGCCCTTAAA
*
26933795 TTTGGCCAATTAAAAACCTATAGTTG-TAAGACTTTTACAATTTAGTCATTGTACTAAAACTAAC
1 TTTGGCCAATTAAAAACCTATAG-CGATAAGACTTTTACAATTTAGTCATTGTACTAAAACTAAC
* *
26933859 TATTAATTCTACAAAATTACTGGACAAAACTTTAATATATTTTTTACACCAAGTCTGTAAATATT
65 TATTAATTCTACAAAATTACTGGAAAAAACTTTAATATATTTTTTACACCAAGTCCGTAAATATT
* * * * *
26933924 CAAACTTAATATTTTTGGACCTGGTTTAT-GAAATTGGGGTTCCAAAATCACCTTTTCTAGCACC
130 CAAA-TTAATATTTATGAACCCGATTTATGGAAA-TGAGGTTCCAAAATCACCTTTTCTAGCACC
* *
26933988 ATTGAAAATCGGGCTGTTACATATACACTGCCGGACCTACCACGTCTCACTGGCTTGAAAAGAAA
193 ATTGAAAATCGGACTGTTACATACACACTGCCGGACCTACCACGTCTCACTGGCTTGAAAAGAAA
26934053 TGTGCTTGTA
Statistics
Matches: 234, Mismatches: 21, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
276 124 0.53
277 110 0.47
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.34
Consensus pattern (276 bp):
TTTGGCCAATTAAAAACCTATAGCGATAAGACTTTTACAATTTAGTCATTGTACTAAAACTAACT
ATTAATTCTACAAAATTACTGGAAAAAACTTTAATATATTTTTTACACCAAGTCCGTAAATATTC
AAATTAATATTTATGAACCCGATTTATGGAAATGAGGTTCCAAAATCACCTTTTCTAGCACCATT
GAAAATCGGACTGTTACATACACACTGCCGGACCTACCACGTCTCACTGGCTTGAAAAGAAACTT
GCACGTAGCCCTTAAA
Found at i:26935795 original size:40 final size:40
Alignment explanation
Indices: 26935751--26935829 Score: 113
Period size: 40 Copynumber: 2.0 Consensus size: 40
26935741 TCCTGAATAA
* *
26935751 GTGCTCCTAATAGTACTTTCGTACTCCTGTTAACACTACG
1 GTGCTCCTAATAGCACATTCGTACTCCTGTTAACACTACG
* * *
26935791 GTGCTCCTGATAGCACATTCGTGCTCCTGTTAGCACTAC
1 GTGCTCCTAATAGCACATTCGTACTCCTGTTAACACTAC
26935830 AATGCTCTAG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.20, C:0.29, G:0.18, T:0.33
Consensus pattern (40 bp):
GTGCTCCTAATAGCACATTCGTACTCCTGTTAACACTACG
Found at i:26935836 original size:20 final size:19
Alignment explanation
Indices: 26935774--26935829 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 19
26935764 TACTTTCGTA
*
26935774 CTCCTGTTAACACTACGGTG
1 CTCCTGTTAGCACTAC-GTG
* *
26935794 CTCCTGATAGCACATTCGTG
1 CTCCTGTTAGCAC-TACGTG
26935814 CTCCTGTTAGCACTAC
1 CTCCTGTTAGCACTAC
26935830 AATGCTCTAG
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
19 2 0.07
20 26 0.87
21 2 0.07
ACGTcount: A:0.20, C:0.32, G:0.18, T:0.30
Consensus pattern (19 bp):
CTCCTGTTAGCACTACGTG
Found at i:26935836 original size:40 final size:40
Alignment explanation
Indices: 26935752--26935845 Score: 109
Period size: 40 Copynumber: 2.4 Consensus size: 40
26935742 CCTGAATAAG
* * * **
26935752 TGCTCCTAATAGTACTTTCGTACTCCTGTTAACACTACGG
1 TGCTCCTGATAGCACATTCGTACTCCTGTTAACACTACAA
* *
26935792 TGCTCCTGATAGCACATTCGTGCTCCTGTTAGCACTACAA
1 TGCTCCTGATAGCACATTCGTACTCCTGTTAACACTACAA
26935832 TGCT-CTAGATAGCA
1 TGCTCCT-GATAGCA
26935846 TATTTATGCT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
39 2 0.04
40 44 0.96
ACGTcount: A:0.23, C:0.28, G:0.17, T:0.32
Consensus pattern (40 bp):
TGCTCCTGATAGCACATTCGTACTCCTGTTAACACTACAA
Found at i:26935856 original size:40 final size:40
Alignment explanation
Indices: 26935774--26935858 Score: 100
Period size: 40 Copynumber: 2.1 Consensus size: 40
26935764 TACTTTCGTA
** *
26935774 CTCCTGTTAACACTACGGTGCTCCTGATAGCACATTCGTG
1 CTCCTGTTAACACTACAATGCTCCTGATAGCACATTCATG
* * *
26935814 CTCCTGTTAGCACTACAATGCT-CTAGATAGCATATTTATG
1 CTCCTGTTAACACTACAATGCTCCT-GATAGCACATTCATG
26935854 CTCCT
1 CTCCT
26935859 ATTTGCATTA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
39 2 0.05
40 36 0.95
ACGTcount: A:0.22, C:0.28, G:0.16, T:0.33
Consensus pattern (40 bp):
CTCCTGTTAACACTACAATGCTCCTGATAGCACATTCATG
Found at i:26936622 original size:35 final size:35
Alignment explanation
Indices: 26936583--26936655 Score: 137
Period size: 35 Copynumber: 2.1 Consensus size: 35
26936573 TGGTATGTTT
*
26936583 TATCAAGTTAGTGATGAATGGTTGGAATGTATGCA
1 TATCAAGTTAGTGATGAATGATTGGAATGTATGCA
26936618 TATCAAGTTAGTGATGAATGATTGGAATGTATGCA
1 TATCAAGTTAGTGATGAATGATTGGAATGTATGCA
26936653 TAT
1 TAT
26936656 TATCAATGAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.33, C:0.05, G:0.26, T:0.36
Consensus pattern (35 bp):
TATCAAGTTAGTGATGAATGATTGGAATGTATGCA
Found at i:26937584 original size:22 final size:22
Alignment explanation
Indices: 26937559--26937602 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
26937549 GAAAACCTGA
26937559 AAACA-AAGAACTCTCAAAATGT
1 AAACACAA-AACTCTCAAAATGT
* *
26937581 AAACACAAAATTCTCTAAATGT
1 AAACACAAAACTCTCAAAATGT
26937603 GTTATGAGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.52, C:0.18, G:0.07, T:0.23
Consensus pattern (22 bp):
AAACACAAAACTCTCAAAATGT
Found at i:26940916 original size:26 final size:26
Alignment explanation
Indices: 26940853--26940914 Score: 65
Period size: 27 Copynumber: 2.4 Consensus size: 26
26940843 AACTTTGGAT
26940853 TAAAAT-TAAAGCGAATTGATCAACA
1 TAAAATATAAAGCGAATTGATCAACA
* * * *
26940878 AAAAAAATTAAAGCGAATTTAT-AGCA
1 TAAAATA-TAAAGCGAATTGATCAACA
26940904 TAAAATATAAA
1 TAAAATATAAA
26940915 AGGTTAAAAT
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
25 8 0.28
26 8 0.28
27 13 0.45
ACGTcount: A:0.58, C:0.08, G:0.10, T:0.24
Consensus pattern (26 bp):
TAAAATATAAAGCGAATTGATCAACA
Found at i:26949748 original size:21 final size:21
Alignment explanation
Indices: 26949722--26949761 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
26949712 TATTTTATCA
26949722 TAAACCCT-AACCTCAGAACGC
1 TAAACCCTAAACCT-AGAACGC
*
26949743 TAAACCTTAAACCTAGAAC
1 TAAACCCTAAACCTAGAAC
26949762 CTCAAACTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.42, C:0.33, G:0.07, T:0.17
Consensus pattern (21 bp):
TAAACCCTAAACCTAGAACGC
Found at i:26950466 original size:14 final size:14
Alignment explanation
Indices: 26950447--26950480 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
26950437 TTAAAATAAT
26950447 AAACTCCATTAACA
1 AAACTCCATTAACA
*
26950461 AAACTCCATTTACA
1 AAACTCCATTAACA
26950475 AAACTC
1 AAACTC
26950481 TAACTCAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.47, C:0.29, G:0.00, T:0.24
Consensus pattern (14 bp):
AAACTCCATTAACA
Found at i:26964402 original size:23 final size:24
Alignment explanation
Indices: 26964376--26964422 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
26964366 ACCACATATA
*
26964376 TATTAATTAC-TTTAAAACCGAAT
1 TATTAATTACATGTAAAACCGAAT
**
26964399 TATTGCTTACATGTAAAACCGAAT
1 TATTAATTACATGTAAAACCGAAT
26964423 AATCGTCACA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.40, C:0.15, G:0.09, T:0.36
Consensus pattern (24 bp):
TATTAATTACATGTAAAACCGAAT
Found at i:26967771 original size:45 final size:47
Alignment explanation
Indices: 26967722--26967810 Score: 119
Period size: 45 Copynumber: 1.9 Consensus size: 47
26967712 CTCTGGTAAT
* * *
26967722 AACTCTTCGGAGTTACCTGTTA-AGCTCA-ATGAGCTTCCTATTTTA
1 AACTCTTAGGAGTTACCTGTTATAGCCCAGATAAGCTTCCTATTTTA
* *
26967767 AACTCTTATGAGTTTCCTGTTATAGCCCAGATAAGCTTCCTATT
1 AACTCTTAGGAGTTACCTGTTATAGCCCAGATAAGCTTCCTATT
26967811 ACATGGCTGA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
45 19 0.51
46 5 0.14
47 13 0.35
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.38
Consensus pattern (47 bp):
AACTCTTAGGAGTTACCTGTTATAGCCCAGATAAGCTTCCTATTTTA
Found at i:26967907 original size:35 final size:35
Alignment explanation
Indices: 26967857--26967929 Score: 119
Period size: 35 Copynumber: 2.1 Consensus size: 35
26967847 GAGAGTGCTT
* *
26967857 CCTGATTATGTGTTGACGGATCACGGTTTTGTACA
1 CCTGAATATGAGTTGACGGATCACGGTTTTGTACA
*
26967892 CCTGAATATGAGTTGACGGATCACTGTTTTGTACA
1 CCTGAATATGAGTTGACGGATCACGGTTTTGTACA
26967927 CCT
1 CCT
26967930 CGTGTGTACT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.22, C:0.19, G:0.23, T:0.36
Consensus pattern (35 bp):
CCTGAATATGAGTTGACGGATCACGGTTTTGTACA
Found at i:26969392 original size:20 final size:22
Alignment explanation
Indices: 26969367--26969413 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
26969357 CATGTTAATA
26969367 TATTTTT-ATCATG-TTTGTAT
1 TATTTTTAATCATGTTTTGTAT
* *
26969387 TATTTTTAATTATGTTTTGTTT
1 TATTTTTAATCATGTTTTGTAT
26969409 TATTT
1 TATTT
26969414 ATTTTATCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 7 0.30
21 5 0.22
22 11 0.48
ACGTcount: A:0.19, C:0.02, G:0.09, T:0.70
Consensus pattern (22 bp):
TATTTTTAATCATGTTTTGTAT
Found at i:26969913 original size:56 final size:56
Alignment explanation
Indices: 26969827--26969941 Score: 230
Period size: 56 Copynumber: 2.1 Consensus size: 56
26969817 GTGCGTGGTG
26969827 GTTGACTTGGAGAGGTTTTCCAAGCATGGTGGAGATGTATAACATTAGCCTCCTTT
1 GTTGACTTGGAGAGGTTTTCCAAGCATGGTGGAGATGTATAACATTAGCCTCCTTT
26969883 GTTGACTTGGAGAGGTTTTCCAAGCATGGTGGAGATGTATAACATTAGCCTCCTTT
1 GTTGACTTGGAGAGGTTTTCCAAGCATGGTGGAGATGTATAACATTAGCCTCCTTT
26969939 GTT
1 GTT
26969942 TAATGGAAAA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 59 1.00
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.35
Consensus pattern (56 bp):
GTTGACTTGGAGAGGTTTTCCAAGCATGGTGGAGATGTATAACATTAGCCTCCTTT
Found at i:26975725 original size:21 final size:21
Alignment explanation
Indices: 26975690--26975740 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
26975680 ATGTCTAAAT
* * *
26975690 TAAATAATTTAAATTTAAACTC
1 TAAATAA-ATAAATTAAAACCC
26975712 TAAATAAATAAATTAAAACCC
1 TAAATAAATAAATTAAAACCC
*
26975733 TAATTAAA
1 TAAATAAA
26975741 AAAAATTTCA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
21 18 0.72
22 7 0.28
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (21 bp):
TAAATAAATAAATTAAAACCC
Found at i:26976818 original size:22 final size:22
Alignment explanation
Indices: 26976790--26976832 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
26976780 TATTTGGCAT
*
26976790 GACTAATGGTAGAATAGTGGTG
1 GACTAATGGCAGAATAGTGGTG
*
26976812 GACTAATGGCAGCATAGTGGT
1 GACTAATGGCAGAATAGTGGT
26976833 CATGCCATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.30, C:0.09, G:0.35, T:0.26
Consensus pattern (22 bp):
GACTAATGGCAGAATAGTGGTG
Found at i:26980402 original size:14 final size:14
Alignment explanation
Indices: 26980383--26980409 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
26980373 TTTCTCACTG
26980383 TTTTGTTATTATTA
1 TTTTGTTATTATTA
26980397 TTTTGTTATTATT
1 TTTTGTTATTATT
26980410 GTTTGTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.19, C:0.00, G:0.07, T:0.74
Consensus pattern (14 bp):
TTTTGTTATTATTA
Found at i:26982263 original size:51 final size:51
Alignment explanation
Indices: 26982152--26982320 Score: 275
Period size: 51 Copynumber: 3.3 Consensus size: 51
26982142 CAGATCATAT
* **
26982152 TTATTACTTGTCACTTGTCACTGATCAGATAAGTGGTAGCTTTAGCTACCAC
1 TTATCACTTGTCACTTGTCACTGATCAGATAAGT-GTAGCTAAAGCTACCAC
26982204 TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
** *
26982255 TTATCACTTGTCACTTGTCGTTGATCAGATAAGTGTAGCTAAAACTACCAC
1 TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
26982306 TTATCACTTGTCACT
1 TTATCACTTGTCACT
26982321 GATCAGAAGT
Statistics
Matches: 111, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
51 78 0.70
52 33 0.30
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.35
Consensus pattern (51 bp):
TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
Found at i:26989037 original size:16 final size:16
Alignment explanation
Indices: 26988995--26989038 Score: 54
Period size: 16 Copynumber: 2.7 Consensus size: 16
26988985 TTTTTTTAAT
26988995 ATTTTTAGTAT-TTTTA
1 ATTTTTA-TATATTTTA
*
26989011 ATGTATTATATATTTTA
1 AT-TTTTATATATTTTA
26989028 ATTTTTATATA
1 ATTTTTATATA
26989039 AAAAGAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
16 13 0.54
17 11 0.46
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.64
Consensus pattern (16 bp):
ATTTTTATATATTTTA
Found at i:26991537 original size:39 final size:38
Alignment explanation
Indices: 26991420--26991548 Score: 115
Period size: 36 Copynumber: 3.4 Consensus size: 38
26991410 GATCCGATTG
* *
26991420 AAACACGAGAATTTCTTGTTTTGAAAACACGAGAATTTTA
1 AAACACGAG-ATTT-TTTTTTTGAAAACACGAAAATTTTA
* * * *
26991460 AGACA-TA-ATATTTTTTTT-AAAAC-C-AAAATTTATG
1 AAACACGAGATTTTTTTTTTGAAAACACGAAAATTT-TA
26991494 AAACACGAGATTTTTTTTTTGAAAACACGAAAATTTTCA
1 AAACACGAGATTTTTTTTTTGAAAACACGAAAATTTT-A
*
26991533 AAACACGGAAATTTTT
1 AAACAC-GAGATTTTT
26991549 GAAAACGAAA
Statistics
Matches: 70, Mismatches: 11, Indels: 16
0.72 0.11 0.16
Matches are distributed among these distances:
33 6 0.09
34 6 0.09
35 6 0.09
36 16 0.23
37 8 0.11
38 2 0.03
39 14 0.20
40 12 0.17
ACGTcount: A:0.42, C:0.12, G:0.11, T:0.36
Consensus pattern (38 bp):
AAACACGAGATTTTTTTTTTGAAAACACGAAAATTTTA
Found at i:26991548 original size:72 final size:73
Alignment explanation
Indices: 26991418--26991571 Score: 181
Period size: 72 Copynumber: 2.1 Consensus size: 73
26991408 GTGATCCGAT
* * * *
26991418 TGAAACACGAGAATTTCTTGTTTTGAAAACACGAGAATTTTAAGACATAATATTTTTTTTAAAAC
1 TGAAACACGAGAATTTCTTGTTTTGAAAACACGAAAATTTTAAAACAGAATA-TTTTTTGAAAAC
26991483 CAAAATTTA
65 CAAAATTTA
*
26991492 TGAAACACGAG-ATTT-TTTTTTTGAAAACACGAAAATTTTCAAAACACGGAA-A-TTTTTGAAA
1 TGAAACACGAGAATTTCTTGTTTTGAAAACACGAAAATTTT-AAAACA--GAATATTTTTTGAAA
* *
26991553 ACGAAAATTTT
63 ACCAAAATTTA
26991564 TGAAACAC
1 TGAAACAC
26991572 AAAAATTTTT
Statistics
Matches: 70, Mismatches: 7, Indels: 8
0.82 0.08 0.09
Matches are distributed among these distances:
72 47 0.67
73 9 0.13
74 12 0.17
75 2 0.03
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.34
Consensus pattern (73 bp):
TGAAACACGAGAATTTCTTGTTTTGAAAACACGAAAATTTTAAAACAGAATATTTTTTGAAAACC
AAAATTTA
Found at i:26991562 original size:16 final size:17
Alignment explanation
Indices: 26991509--26991601 Score: 98
Period size: 17 Copynumber: 5.4 Consensus size: 17
26991499 CGAGATTTTT
26991509 TTTTTGAAAACACGAAAA
1 TTTTTG-AAACACGAAAA
** *
26991527 TTTTCAAAACACGGAAA
1 TTTTTGAAACACGAAAA
26991544 TTTTTGAAA-ACGAAAA
1 TTTTTGAAACACGAAAA
*
26991560 TTTTTGAAACACAAAAA
1 TTTTTGAAACACGAAAA
*
26991577 TTTTTAGAAGACACTAAAA
1 TTTTT-GAA-ACACGAAAA
*
26991596 ATTTTG
1 TTTTTG
26991602 GAAAATGGAT
Statistics
Matches: 63, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
16 15 0.24
17 28 0.44
18 8 0.13
19 12 0.19
ACGTcount: A:0.47, C:0.11, G:0.11, T:0.31
Consensus pattern (17 bp):
TTTTTGAAACACGAAAA
Found at i:26991562 original size:33 final size:35
Alignment explanation
Indices: 26991509--26991600 Score: 98
Period size: 33 Copynumber: 2.6 Consensus size: 35
26991499 CGAGATTTTT
**
26991509 TTTTTGAAAACACGAAAATTTTCAAAACACGGAAA
1 TTTTTGAAAACACGAAAATTTTCAAAACACAAAAA
**
26991544 TTTTTG-AAA-ACGAAAATTTTTGAAACACAAAAA
1 TTTTTGAAAACACGAAAATTTTCAAAACACAAAAA
* *
26991577 TTTTTAGAAGACACTAAAAATTTT
1 TTTTT-GAAAACAC-GAAAATTTT
26991601 GGAAAATGGA
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
33 25 0.53
34 4 0.09
35 8 0.17
36 2 0.04
37 8 0.17
ACGTcount: A:0.48, C:0.11, G:0.10, T:0.32
Consensus pattern (35 bp):
TTTTTGAAAACACGAAAATTTTCAAAACACAAAAA
Found at i:26991595 original size:19 final size:18
Alignment explanation
Indices: 26991541--26991605 Score: 64
Period size: 16 Copynumber: 3.7 Consensus size: 18
26991531 CAAAACACGG
*
26991541 AAATTTTTGAAA-AC-GA
1 AAATTTTTGAAACACAAA
26991557 AAATTTTTGAAACAC-AA
1 AAATTTTTGAAACACAAA
*
26991574 AAATTTTTAGAAGACACTAA
1 AAATTTTT-GAA-ACACAAA
*
26991594 AAATTTTGGAAA
1 AAATTTTTGAAA
26991606 ATGGATTTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
16 12 0.28
17 11 0.26
18 4 0.09
19 7 0.16
20 9 0.21
ACGTcount: A:0.51, C:0.08, G:0.11, T:0.31
Consensus pattern (18 bp):
AAATTTTTGAAACACAAA
Found at i:26991816 original size:20 final size:19
Alignment explanation
Indices: 26991778--26991824 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
26991768 GAATATAATT
26991778 TTTTTGAAACACGAGAAAAA
1 TTTTTGAAACACG-GAAAAA
*
26991798 TTTTTGAAGGCAC-GAAAAA
1 TTTTTGAA-ACACGGAAAAA
26991817 -TTTTGAAA
1 TTTTTGAAA
26991825 AATAGAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
18 7 0.29
19 6 0.25
20 8 0.33
21 3 0.12
ACGTcount: A:0.45, C:0.09, G:0.17, T:0.30
Consensus pattern (19 bp):
TTTTTGAAACACGGAAAAA
Found at i:26992194 original size:7 final size:7
Alignment explanation
Indices: 26992184--26992269 Score: 75
Period size: 7 Copynumber: 11.9 Consensus size: 7
26992174 TGAAACTCTT
*
26992184 TTTTTTT
1 TTTTTTC
26992191 TTTTCTTC
1 TTTT-TTC
*
26992199 TTTTTCC
1 TTTTTTC
*
26992206 TTTTTCC
1 TTTTTTC
26992213 TTTTTT-
1 TTTTTTC
*
26992219 TCTCTTTC
1 T-TTTTTC
26992227 TTTTTTC
1 TTTTTTC
*
26992234 TTCTTTC
1 TTTTTTC
26992241 TTTTTTTC
1 -TTTTTTC
26992249 TTTTTTC
1 TTTTTTC
*
26992256 TTTCTCTC
1 TTT-TTTC
26992264 TTTTTT
1 TTTTTT
26992270 TCTGGCCTGC
Statistics
Matches: 65, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
6 1 0.02
7 45 0.69
8 19 0.29
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (7 bp):
TTTTTTC
Found at i:26992209 original size:15 final size:14
Alignment explanation
Indices: 26992180--26992268 Score: 90
Period size: 15 Copynumber: 6.1 Consensus size: 14
26992170 GAATTGAAAC
*
26992180 TCTTTTTTTTTTTT
1 TCTTTTTTTCTTTT
26992194 TCTTCTTTTTCCTTTT
1 TCTT-TTTTT-CTTTT
*
26992210 TCCTTTTTTTCTCTT
1 T-CTTTTTTTCTTTT
26992225 TC-TTTTTTCTTCTT
1 TCTTTTTTTCTT-TT
26992239 TCTTTTTTTCTTTTT
1 TCTTTTTTTC-TTTT
* *
26992254 TCTTTCTCTCTTTT
1 TCTTTTTTTCTTTT
26992268 T
1 T
26992269 TTCTGGCCTG
Statistics
Matches: 64, Mismatches: 5, Indels: 12
0.79 0.06 0.15
Matches are distributed among these distances:
13 8 0.12
14 14 0.22
15 27 0.42
16 12 0.19
17 3 0.05
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (14 bp):
TCTTTTTTTCTTTT
Found at i:26992227 original size:28 final size:27
Alignment explanation
Indices: 26992181--26992268 Score: 92
Period size: 28 Copynumber: 3.2 Consensus size: 27
26992171 AATTGAAACT
26992181 CTTTTT-TTTTTTT-TC-TTCTTTTTC
1 CTTTTTCTTTTTTTCTCTTTCTTTTTC
*
26992205 CTTTTTCCTTTTTTTCTCTTTCTTTTTT
1 CTTTTT-CTTTTTTTCTCTTTCTTTTTC
* *
26992233 CTTCTTTCTTTTTTTCTTTTTTCTTTCTC
1 CTT-TTTCTTTTTTTC-TCTTTCTTTTTC
26992262 TCTTTTT
1 -CTTTTT
26992269 TTCTGGCCTG
Statistics
Matches: 53, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
24 6 0.11
26 7 0.13
27 2 0.04
28 20 0.38
29 15 0.28
30 3 0.06
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (27 bp):
CTTTTTCTTTTTTTCTCTTTCTTTTTC
Found at i:26992269 original size:22 final size:22
Alignment explanation
Indices: 26992183--26992272 Score: 76
Period size: 22 Copynumber: 4.0 Consensus size: 22
26992173 TTGAAACTCT
*
26992183 TTTTTT-TTTTTTCTTCTTTTTCC
1 TTTTTTCTTTTTTCTT-TCTTT-C
* *
26992206 TTTTTCCTTTTTT-TCTCTTTC
1 TTTTTTCTTTTTTCTTTCTTTC
* *
26992227 TTTTTTCTTCTTTCTTTTTTTC
1 TTTTTTCTTTTTTCTTTCTTTC
* *
26992249 TTTTTTCTTTCTCTCTTTTTTTC
1 TTTTTTCTTT-TTTCTTTCTTTC
26992272 T
1 T
26992273 GGCCTGCTTC
Statistics
Matches: 55, Mismatches: 9, Indels: 6
0.79 0.13 0.09
Matches are distributed among these distances:
21 12 0.22
22 19 0.35
23 18 0.33
24 6 0.11
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (22 bp):
TTTTTTCTTTTTTCTTTCTTTC
Found at i:26992269 original size:23 final size:22
Alignment explanation
Indices: 26992223--26992272 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 22
26992213 TTTTTTTCTC
*
26992223 TTTCTTTTTTCTTCTTTCTTTT
1 TTTCTTTTTTCTTCTCTCTTTT
26992245 TTTCTTTTTTCTTTCTCTCTTTT
1 TTTCTTTTTTC-TTCTCTCTTTT
26992268 TTTCT
1 TTTCT
26992273 GGCCTGCTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
22 11 0.42
23 15 0.58
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (22 bp):
TTTCTTTTTTCTTCTCTCTTTT
Found at i:26992466 original size:30 final size:29
Alignment explanation
Indices: 26992402--26992466 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 29
26992392 GGGCCTTTTC
* *
26992402 TTTTTGGGCTGCTTTTTTTTGCTTTGGTTT
1 TTTTTGGGCTGATTTTTTTT-CTTTGGTTG
26992432 TTTTTGGGCTGATTTGTTTTT-TTTGTGTTG
1 TTTTTGGGCTGATTT-TTTTTCTTTG-GTTG
26992462 TTTTT
1 TTTTT
26992467 TTTAATTAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
29 4 0.13
30 22 0.71
31 5 0.16
ACGTcount: A:0.02, C:0.06, G:0.23, T:0.69
Consensus pattern (29 bp):
TTTTTGGGCTGATTTTTTTTCTTTGGTTG
Found at i:26992593 original size:3 final size:3
Alignment explanation
Indices: 26992587--26992611 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
26992577 TTTTTTTTCT
26992587 TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC T
26992612 CCTCCTACAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:26992999 original size:29 final size:29
Alignment explanation
Indices: 26992966--26993067 Score: 91
Period size: 30 Copynumber: 3.4 Consensus size: 29
26992956 TGTAATTTTT
*
26992966 AGAAAATTTAGGATTAAAATGAAATTTAA
1 AGAAAATTTAGGGTTAAAATGAAATTTAA
* * *
26992995 TGAAATTTTAGGGGTCT-AAGTGAAATTTAA
1 AGAAAATTTA-GGGT-TAAAATGAAATTTAA
* *
26993025 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAATTT-AGGGTTAAAATGAAATTTAA
*
26993054 GGAAAAGTTTAGGG
1 AGAAAA-TTTAGGG
26993068 GTCAAAATCA
Statistics
Matches: 58, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
29 17 0.29
30 39 0.67
31 2 0.03
ACGTcount: A:0.45, C:0.02, G:0.23, T:0.30
Consensus pattern (29 bp):
AGAAAATTTAGGGTTAAAATGAAATTTAA
Found at i:26993021 original size:30 final size:30
Alignment explanation
Indices: 26992981--26993075 Score: 120
Period size: 30 Copynumber: 3.2 Consensus size: 30
26992971 ATTTAGGATT
* *
26992981 AAAATGAAATTTAATGAAATTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* * *
26993011 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
*
26993041 AAAATGAAATTT-AGGAAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
26993071 AAAAT
1 AAAAT
26993076 CAATTTTTAT
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
29 2 0.04
30 53 0.96
ACGTcount: A:0.45, C:0.03, G:0.22, T:0.29
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:26993101 original size:13 final size:14
Alignment explanation
Indices: 26993077--26993109 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
26993067 GGTCAAAATC
*
26993077 AATTTTTATTTTTA
1 AATTTTTATTTTGA
26993091 AATTTTT-TTTTGA
1 AATTTTTATTTTGA
26993104 AATTTT
1 AATTTT
26993110 GAAAATTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (14 bp):
AATTTTTATTTTGA
Found at i:26993438 original size:55 final size:55
Alignment explanation
Indices: 26993354--26993463 Score: 186
Period size: 55 Copynumber: 2.0 Consensus size: 55
26993344 GTGAGCCAAT
* *
26993354 GCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG-AAAACAGAATTTGCAAAAG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTG-AAAAG
26993409 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAG
26993464 TAGAAATTGA
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
55 40 0.77
56 12 0.23
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.29
Consensus pattern (55 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAG
Found at i:26993461 original size:14 final size:14
Alignment explanation
Indices: 26993442--26993476 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
26993432 GAGTTGATTT
26993442 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
**
26993456 TTGAAAAGTAGAAA
1 TTGAAAAACAGAAA
26993470 TTGAAAA
1 TTGAAAA
26993477 TACCTCAGCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.60, C:0.03, G:0.17, T:0.20
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:26993714 original size:85 final size:86
Alignment explanation
Indices: 26993562--26993809 Score: 279
Period size: 85 Copynumber: 2.8 Consensus size: 86
26993552 AAAACAAAAT
* * *
26993562 TAAAACAGAATTTGAAAAGACCTCAGCGTGTGGCCTGAGACTCAACTCACCTCTTGCAATATGAG
1 TAAAACAGAAATTGAAAATACCTCAGC-TGT-GCCTGAGGCTCAACTCACCTCTTGCAATATGAG
*
26993627 TTGATTTGAAAAG-TAGAATT-AG
64 TTGATTTGAAAAGATAG-ATTGAA
* * *
26993649 TAAAGCAGAAATTGAAAATACCTCAGC-GTGCCTTGAGGCTCAACTCACCTCTCGCAATATAAGT
1 TAAAACAGAAATTGAAAATACCTCAGCTGTGCC-TGAGGCTCAACTCACCTCTTGCAATATGAGT
26993713 TGATTTTTGAAAAGCATAGATTGAA
65 TGA--TTTGAAAAG-ATAGATTGAA
* * * *
26993738 AAAAACATAAATTGAAAATACCTCAGCATATGAGCC-GAGGCTCAACTTACCTCTTGCAATATGA
1 TAAAACAGAAATTGAAAATACCTCAGC---TGTGCCTGAGGCTCAACTCACCTCTTGCAATATGA
26993802 GTTGATTT
63 GTTGATTT
26993810 TTGAAAAACA
Statistics
Matches: 137, Mismatches: 14, Indels: 18
0.81 0.08 0.11
Matches are distributed among these distances:
84 3 0.02
85 33 0.24
87 33 0.24
88 3 0.02
89 31 0.23
91 30 0.22
93 4 0.03
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (86 bp):
TAAAACAGAAATTGAAAATACCTCAGCTGTGCCTGAGGCTCAACTCACCTCTTGCAATATGAGTT
GATTTGAAAAGATAGATTGAA
Found at i:26993724 original size:87 final size:88
Alignment explanation
Indices: 26993562--26993816 Score: 297
Period size: 91 Copynumber: 2.9 Consensus size: 88
26993552 AAAACAAAAT
* * *
26993562 TAAAACAGAATTTGAAAAGACCTCAGCGTGTGGCCTGAGACTCAACTCACCTCTTGCAATATGAG
1 TAAAACAGAAATTGAAAATACCTCAGC-TGT-GCCTGAGGCTCAACTCACCTCTTGCAATATGAG
*
26993627 TTGA--TTTGAAAAG-TAGAATT-AG
64 TTGATTTTTGAAAAGATAG-ATTGAA
* * *
26993649 TAAAGCAGAAATTGAAAATACCTCAGC-GTGCCTTGAGGCTCAACTCACCTCTCGCAATATAAGT
1 TAAAACAGAAATTGAAAATACCTCAGCTGTGCC-TGAGGCTCAACTCACCTCTTGCAATATGAGT
26993713 TGATTTTTGAAAAGCATAGATTGAA
65 TGATTTTTGAAAAG-ATAGATTGAA
* * * *
26993738 AAAAACATAAATTGAAAATACCTCAGCATATGAGCC-GAGGCTCAACTTACCTCTTGCAATATGA
1 TAAAACAGAAATTGAAAATACCTCAGC---TGTGCCTGAGGCTCAACTCACCTCTTGCAATATGA
26993802 GTTGATTTTTGAAAA
63 GTTGATTTTTGAAAA
26993817 ACAAAAATTA
Statistics
Matches: 144, Mismatches: 14, Indels: 16
0.83 0.08 0.09
Matches are distributed among these distances:
84 3 0.02
85 33 0.23
87 33 0.23
88 3 0.02
89 28 0.19
91 40 0.28
93 4 0.03
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (88 bp):
TAAAACAGAAATTGAAAATACCTCAGCTGTGCCTGAGGCTCAACTCACCTCTTGCAATATGAGTT
GATTTTTGAAAAGATAGATTGAA
Found at i:26993755 original size:15 final size:16
Alignment explanation
Indices: 26993722--26993755 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
26993712 TTGATTTTTG
* *
26993722 AAAAGCATAGATTGAA
1 AAAAACATAAATTGAA
26993738 AAAAACATAAATTGAA
1 AAAAACATAAATTGAA
26993754 AA
1 AA
26993756 TACCTCAGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.65, C:0.06, G:0.12, T:0.18
Consensus pattern (16 bp):
AAAAACATAAATTGAA
Found at i:26994109 original size:192 final size:192
Alignment explanation
Indices: 26993774--26994386 Score: 1084
Period size: 191 Copynumber: 3.2 Consensus size: 192
26993764 CATATGAGCC
* ** *
26993774 GAGGCTCAACTTACCTCTTGCAATATGAGTTGATTTTTGAAAAACAAAAATTAAAAGGCTTAACT
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGA-TTTTGAAAAACAAAAATTAAAAGGCTTAACT
* *
26993839 CACCTCTTGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTAGGCGTGCCCCGAGGCTC
65 CACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTC
*
26993904 AACTCATTTCTCGCAATATGAGTTGATTTTTTTTTAAAATTTAAAAATACCTCAACGTGTCTT
130 AACTCACTTCTCGCAATATGAGTTGATTTTTTTTTAAAATTTAAAAATACCTCAACGTGTCTT
26993967 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
26994032 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
26994097 ACTCACTTCTCGCAATATGAGTTGA-TTTTTTTTAAAATTTAAAAATACCTCAACGTGTCTT
131 ACTCACTTCTCGCAATATGAGTTGATTTTTTTTTAAAATTTAAAAATACCTCAACGTGTCTT
26994158 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
*
26994223 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCATGCCCCGAGGCTCA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
* *** * *
26994288 ACTCACTTCTCGCAATATGAGTTAATTTTTTAAAAAAATTTAAAAATACATCAACGCGTCTT
131 ACTCACTTCTCGCAATATGAGTTGATTTTTTTTTAAAATTTAAAAATACCTCAACGTGTCTT
26994350 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTT
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTT
26994387 CCTTGGAAAG
Statistics
Matches: 405, Mismatches: 14, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
191 189 0.47
192 187 0.46
193 29 0.07
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.31
Consensus pattern (192 bp):
GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
ACTCACTTCTCGCAATATGAGTTGATTTTTTTTTAAAATTTAAAAATACCTCAACGTGTCTT
Found at i:27002660 original size:16 final size:17
Alignment explanation
Indices: 27002634--27002673 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
27002624 AGTATGGGAT
*
27002634 ATGCAATGAATGAATTG
1 ATGCAATGAATGAATGG
27002651 ATGC-ATGAATGAATGG
1 ATGCAATGAATGAATGG
27002667 ATG-AATG
1 ATGCAATG
27002674 TCAAATGAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.40, C:0.05, G:0.28, T:0.28
Consensus pattern (17 bp):
ATGCAATGAATGAATGG
Found at i:27006150 original size:39 final size:38
Alignment explanation
Indices: 27006033--27006161 Score: 106
Period size: 36 Copynumber: 3.4 Consensus size: 38
27006023 GATCCGATTG
* * *
27006033 AAACACGAGAATTTCTTGTTTTGAAAGCACGAGAATTTTA
1 AAACACGAG-ATTT-TTTTTTTGAAAACACGAAAATTTTA
* * * *
27006073 AGACA-TA-ATATTTTTTTT-AAAAC-C-AAAATTTATG
1 AAACACGAGATTTTTTTTTTGAAAACACGAAAATTT-TA
27006107 AAACACGAGATTTTTTTTTTGAAAACACGAAAATTTTCA
1 AAACACGAGATTTTTTTTTTGAAAACACGAAAATTTT-A
*
27006146 AAACACGGAAATTTTT
1 AAACAC-GAGATTTTT
27006162 GAAAACGAAA
Statistics
Matches: 69, Mismatches: 12, Indels: 16
0.71 0.12 0.16
Matches are distributed among these distances:
33 6 0.09
34 6 0.09
35 5 0.07
36 16 0.23
37 8 0.12
38 2 0.03
39 14 0.20
40 12 0.17
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.36
Consensus pattern (38 bp):
AAACACGAGATTTTTTTTTTGAAAACACGAAAATTTTA
Found at i:27006183 original size:33 final size:35
Alignment explanation
Indices: 27006122--27006213 Score: 91
Period size: 33 Copynumber: 2.6 Consensus size: 35
27006112 CGAGATTTTT
**
27006122 TTTTTGAAAACACGAAAATTTTCAAAACACGGAAA
1 TTTTTGAAAACACGAAAATTTTCAAAACACAAAAA
*
27006157 TTTTTG-AAA-ACGAAAACTTTT-GAAACACAAAAA
1 TTTTTGAAAACACGAAAA-TTTTCAAAACACAAAAA
* *
27006190 TTTTTAGAAGACACTAAAAATTTT
1 TTTTT-GAAAACAC-GAAAATTTT
27006214 GGAAAATGGA
Statistics
Matches: 47, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
33 21 0.45
34 8 0.17
35 8 0.17
36 6 0.13
37 4 0.09
ACGTcount: A:0.48, C:0.12, G:0.10, T:0.30
Consensus pattern (35 bp):
TTTTTGAAAACACGAAAATTTTCAAAACACAAAAA
Found at i:27006194 original size:17 final size:17
Alignment explanation
Indices: 27006122--27006214 Score: 89
Period size: 17 Copynumber: 5.4 Consensus size: 17
27006112 CGAGATTTTT
27006122 TTTTTGAAAACACGAAAA
1 TTTTTG-AAACACGAAAA
** *
27006140 TTTTCAAAACACGGAAA
1 TTTTTGAAACACGAAAA
27006157 TTTTTGAAA-ACGAAAA
1 TTTTTGAAACACGAAAA
* *
27006173 CTTTTGAAACACAAAAA
1 TTTTTGAAACACGAAAA
*
27006190 TTTTTAGAAGACACTAAAA
1 TTTTT-GAA-ACACGAAAA
*
27006209 ATTTTG
1 TTTTTG
27006215 GAAAATGGAT
Statistics
Matches: 61, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
16 14 0.23
17 27 0.44
18 8 0.13
19 12 0.20
ACGTcount: A:0.47, C:0.12, G:0.11, T:0.30
Consensus pattern (17 bp):
TTTTTGAAACACGAAAA
Found at i:27006208 original size:19 final size:18
Alignment explanation
Indices: 27006154--27006218 Score: 55
Period size: 16 Copynumber: 3.7 Consensus size: 18
27006144 CAAAACACGG
*
27006154 AAATTTTTGAAA-AC-GA
1 AAATTTTTGAAACACAAA
*
27006170 AAACTTTTGAAACAC-AA
1 AAATTTTTGAAACACAAA
*
27006187 AAATTTTTAGAAGACACTAA
1 AAATTTTT-GAA-ACACAAA
*
27006207 AAATTTTGGAAA
1 AAATTTTTGAAA
27006219 ATGGATTTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
16 11 0.27
17 10 0.24
18 4 0.10
19 7 0.17
20 9 0.22
ACGTcount: A:0.51, C:0.09, G:0.11, T:0.29
Consensus pattern (18 bp):
AAATTTTTGAAACACAAA
Found at i:27006429 original size:20 final size:19
Alignment explanation
Indices: 27006391--27006437 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
27006381 AATATATTTT
27006391 TTTTTGAAACACGAGAAAAA
1 TTTTTGAAACACG-GAAAAA
*
27006411 TTTTTGAAGGCAC-GAAAAA
1 TTTTTGAA-ACACGGAAAAA
27006430 -TTTTGAAA
1 TTTTTGAAA
27006438 AATAGAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
18 7 0.29
19 6 0.25
20 8 0.33
21 3 0.12
ACGTcount: A:0.45, C:0.09, G:0.17, T:0.30
Consensus pattern (19 bp):
TTTTTGAAACACGGAAAAA
Found at i:27006811 original size:7 final size:7
Alignment explanation
Indices: 27006794--27006886 Score: 100
Period size: 7 Copynumber: 13.1 Consensus size: 7
27006784 GAATTGAAAC
27006794 TCTTTTT
1 TCTTTTT
27006801 T-TTTCTT
1 TCTTT-TT
*
27006808 T-TTTCT
1 TCTTTTT
27006814 TCTTTTT
1 TCTTTTT
27006821 TCCTTTTT
1 T-CTTTTT
*
27006829 CCTTTTT
1 TCTTTTT
*
27006836 TCTCTTT
1 TCTTTTT
27006843 TCTTTTT
1 TCTTTTT
*
27006850 TCTTCTT
1 TCTTTTT
27006857 TCTTTTT
1 TCTTTTT
27006864 TCTTTTT
1 TCTTTTT
*
27006871 TCTTTCTC
1 TCTTT-TT
27006879 TCTTTTT
1 TCTTTTT
27006886 T
1 T
27006887 TCTGGCCTGC
Statistics
Matches: 72, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
6 5 0.07
7 55 0.76
8 12 0.17
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (7 bp):
TCTTTTT
Found at i:27007024 original size:15 final size:16
Alignment explanation
Indices: 27007006--27007046 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
27006996 TTTTCTTTTT
27007006 CTTTTTTTTTTGGGC-
1 CTTTTTTTTTTGGGCG
*
27007021 CTTTTCTTTTTGGGCTG
1 CTTTTTTTTTTGGGC-G
27007038 CTTTTTTTT
1 CTTTTTTTT
27007047 ACTTTGGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 14 0.64
17 8 0.36
ACGTcount: A:0.00, C:0.15, G:0.17, T:0.68
Consensus pattern (16 bp):
CTTTTTTTTTTGGGCG
Found at i:27007215 original size:14 final size:14
Alignment explanation
Indices: 27007193--27007233 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
27007183 GATTGTTAAA
*
27007193 TTTTT-TTTCTTTT
1 TTTTTCTTTCTTCT
27007206 TTTTTCTTTCTTCT
1 TTTTTCTTTCTTCT
*
27007220 TCTTTC-TTCTTCT
1 TTTTTCTTTCTTCT
27007233 T
1 T
27007234 CTCCTCCTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 13 0.52
14 12 0.48
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTTTCTTTCTTCT
Found at i:27007225 original size:10 final size:10
Alignment explanation
Indices: 27007199--27007233 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
27007189 TAAATTTTTT
* *
27007199 TTCTTTTTTT
1 TTCTTTCTTC
27007209 TTCTTTCTTC
1 TTCTTTCTTC
27007219 TTCTTTCTTC
1 TTCTTTCTTC
27007229 TTCTT
1 TTCTT
27007234 CTCCTCCTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (10 bp):
TTCTTTCTTC
Found at i:27007229 original size:13 final size:14
Alignment explanation
Indices: 27007198--27007235 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
27007188 TTAAATTTTT
* *
27007198 TTTCTTTTTTTTTC
1 TTTCTTCTTCTTTC
27007212 TTTCTTCTTCTTTC
1 TTTCTTCTTCTTTC
27007226 -TTCTTCTTCT
1 TTTCTTCTTCT
27007236 CCTCCTACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTCTTCTTCTTTC
Found at i:27007336 original size:10 final size:10
Alignment explanation
Indices: 27007301--27007350 Score: 59
Period size: 10 Copynumber: 5.2 Consensus size: 10
27007291 ACGCCGGTAC
27007301 TCTT-TCTTT
1 TCTTCTCTTT
* *
27007310 TCTTCTCCTC
1 TCTTCTCTTT
27007320 T-TTCTCTTT
1 TCTTCTCTTT
27007329 TCTTCTCTTT
1 TCTTCTCTTT
*
27007339 TCTTCTTTTT
1 TCTTCTCTTT
27007349 TC
1 TC
27007351 CTTCGAAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
9 11 0.32
10 23 0.68
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (10 bp):
TCTTCTCTTT
Found at i:27007348 original size:19 final size:19
Alignment explanation
Indices: 27007305--27007347 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
27007295 CGGTACTCTT
27007305 TCTTTTCTTCTCCTCTTTC
1 TCTTTTCTTCTCCTCTTTC
27007324 TCTTTTCTTCT-CT-TTTC
1 TCTTTTCTTCTCCTCTTTC
27007341 TTCTTTT
1 -TCTTTT
27007348 TTCCTTCGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 4 0.17
18 8 0.35
19 11 0.48
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (19 bp):
TCTTTTCTTCTCCTCTTTC
Found at i:27007715 original size:30 final size:30
Alignment explanation
Indices: 27007614--27007708 Score: 120
Period size: 30 Copynumber: 3.2 Consensus size: 30
27007604 ATTTAGGATT
*
27007614 AAAATGAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* * **
27007644 TAAGTGAAATTTAAAGAAAGTTTAAAGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
*
27007674 AAAATGAAATTT-AGGAAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
27007704 AAAAT
1 AAAAT
27007709 ACAATTTTTA
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
29 2 0.04
30 52 0.96
ACGTcount: A:0.46, C:0.03, G:0.22, T:0.28
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:27008872 original size:33 final size:33
Alignment explanation
Indices: 27008824--27008891 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
27008814 GAGGACAGAC
* *
27008824 AAGCAACCTAGGACAAAG-AAATGGACAGACATT
1 AAGCAACCCAAGACAAAGAAAAT-GACAGACATT
27008857 AAGCAACCCAAGACAAAGAAAATGACAGACATT
1 AAGCAACCCAAGACAAAGAAAATGACAGACATT
27008890 AA
1 AA
27008892 TCCACCTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 28 0.88
34 4 0.12
ACGTcount: A:0.53, C:0.19, G:0.18, T:0.10
Consensus pattern (33 bp):
AAGCAACCCAAGACAAAGAAAATGACAGACATT
Found at i:27009227 original size:13 final size:13
Alignment explanation
Indices: 27009220--27009274 Score: 51
Period size: 13 Copynumber: 4.2 Consensus size: 13
27009210 TTATTCTTAA
27009220 TAAATATTTAAAT
1 TAAATATTTAAAT
*
27009233 TAAATATTTAATAA
1 TAAATATTTAA-AT
27009247 TAAA-ATTT-AAT
1 TAAATATTTAAAT
*
27009258 TGATAATTTTTAAAT
1 T-A-AATATTTAAAT
27009273 TA
1 TA
27009275 TTTTTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 9
0.74 0.07 0.20
Matches are distributed among these distances:
11 2 0.06
12 2 0.06
13 17 0.50
14 9 0.26
15 4 0.12
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (13 bp):
TAAATATTTAAAT
Done.