Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01015347.1 Kokia drynarioides strain JFW-HI SEQ_130394, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 410906
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Warning! 895 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:10592 original size:37 final size:37
Alignment explanation
Indices: 10542--10620 Score: 158
Period size: 37 Copynumber: 2.1 Consensus size: 37
10532 AGAGTGGTGT
10542 AACTATGAATTAATGATCATATGGTAGTAAAATAAAA
1 AACTATGAATTAATGATCATATGGTAGTAAAATAAAA
10579 AACTATGAATTAATGATCATATGGTAGTAAAATAAAA
1 AACTATGAATTAATGATCATATGGTAGTAAAATAAAA
10616 AACTA
1 AACTA
10621 CCCTCCAGTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.52, C:0.06, G:0.13, T:0.29
Consensus pattern (37 bp):
AACTATGAATTAATGATCATATGGTAGTAAAATAAAA
Found at i:11547 original size:281 final size:282
Alignment explanation
Indices: 11038--11604 Score: 976
Period size: 281 Copynumber: 2.0 Consensus size: 282
11028 ATGATTATTA
* * *
11038 ATTACTCCAATTAATTGACAACATTAAGCAGAAAAGAACTAGGAAATAAATACAAGTATAATACA
1 ATTACACCAATTAATTGACAACATTAAGAAGAAAAGAACTAGGAAATAAATACAAGTAAAATACA
* *
11103 AACAAAAACAATTACATCCTGCATGAATATTCATTTGAATGCATATTGGCATTGGAAATCGATCT
66 AACAAAAACAATTACATCCTGCATGAATATTCATTTGAATGCATACTGGCATTGGAAATCAATCT
11168 TCTTCAAGTAATCAATAATAATTCCATAAACATGAAAGAGGAAAAAAGAATGAATGAAACAGGAA
131 TCTTCAAGTAATCAATAATAATTCCATAAACATGAAAGAGGAAAAAAGAATGAATGAAACAGGAA
11233 TCTTTGAATTTGAAAATGCAGAATATTCCACATCCATGACATTTGGGCTATGC-TTTTAAAATTT
196 TCTTTGAATTTGAAAATGCAGAATATTCCACATCCATGACATTTGGGCTATGCTTTTTAAAATTT
11297 CATGAAAATACCAAGAAAGAAG
261 CATGAAAATACCAAGAAAGAAG
*
11319 ATTACACCAATTAATTGACAACATTAAGAAGAAAAGCACTAGGAAATAAATACAAGTAAAATACA
1 ATTACACCAATTAATTGACAACATTAAGAAGAAAAGAACTAGGAAATAAATACAAGTAAAATACA
*
11384 AACAAAAACAATTACATCCTGCATGAATATTCATTTGAATGTATACTGGCATTGGAAATCAATCT
66 AACAAAAACAATTACATCCTGCATGAATATTCATTTGAATGCATACTGGCATTGGAAATCAATCT
* * *
11449 TCTTCAAGTGATCAATAATAATTCCATAAACATGAAAGAGGAAAAAAGAAT-AGGTGAAACTGGA
131 TCTTCAAGTAATCAATAATAATTCCATAAACATGAAAGAGGAAAAAAGAATGA-ATGAAACAGGA
* * *
11513 ATCTTTGAATTTGAAATTTCAGAATATTCCACATCCATGACATTTGGGCTATGCTTTTTCAAATT
195 ATCTTTGAATTTGAAAATGCAGAATATTCCACATCCATGACATTTGGGCTATGCTTTTTAAAATT
* *
11578 TCATGAAAATGCCAAGAAATAAG
260 TCATGAAAATACCAAGAAAGAAG
11601 ATTA
1 ATTA
11605 ATTCATGATA
Statistics
Matches: 269, Mismatches: 15, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
280 1 0.00
281 234 0.87
282 34 0.13
ACGTcount: A:0.45, C:0.14, G:0.14, T:0.27
Consensus pattern (282 bp):
ATTACACCAATTAATTGACAACATTAAGAAGAAAAGAACTAGGAAATAAATACAAGTAAAATACA
AACAAAAACAATTACATCCTGCATGAATATTCATTTGAATGCATACTGGCATTGGAAATCAATCT
TCTTCAAGTAATCAATAATAATTCCATAAACATGAAAGAGGAAAAAAGAATGAATGAAACAGGAA
TCTTTGAATTTGAAAATGCAGAATATTCCACATCCATGACATTTGGGCTATGCTTTTTAAAATTT
CATGAAAATACCAAGAAAGAAG
Found at i:11965 original size:95 final size:96
Alignment explanation
Indices: 11802--11993 Score: 305
Period size: 95 Copynumber: 2.0 Consensus size: 96
11792 AGTGGACTTC
* ** *
11802 AGTTGACCATATAAGATCAAGCAAAAACACTTAATAGCGCAAGTTCAACTTCGTTTGAACTTATG
1 AGTTGACCATATAAGATCAAGCAAAAACACTTAATAGAGCAAGTTCAACTTCAATTGAACTTAAG
* *
11867 AACATTA-GTCAAGTTCCATCTAAGTAAAAA
66 AACATCATGTCAAGTTCCATCTAAATAAAAA
*
11897 AGTTGACCATATAAGATCAAGCAAAAACACTTAATGGAGCAAGTTCAACTTCAATTGAACTTAAG
1 AGTTGACCATATAAGATCAAGCAAAAACACTTAATAGAGCAAGTTCAACTTCAATTGAACTTAAG
*
11962 AACATCATGTCAAGTTCGATCTAAATAAAAA
66 AACATCATGTCAAGTTCCATCTAAATAAAAA
11993 A
1 A
11994 AAATGTGTAT
Statistics
Matches: 88, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
95 66 0.75
96 22 0.25
ACGTcount: A:0.43, C:0.17, G:0.14, T:0.26
Consensus pattern (96 bp):
AGTTGACCATATAAGATCAAGCAAAAACACTTAATAGAGCAAGTTCAACTTCAATTGAACTTAAG
AACATCATGTCAAGTTCCATCTAAATAAAAA
Found at i:23981 original size:27 final size:26
Alignment explanation
Indices: 23951--24020 Score: 88
Period size: 26 Copynumber: 2.7 Consensus size: 26
23941 AATTAGAAAT
* *
23951 ATAAATATCTATTTACT-TACAAATAAA
1 ATAAAAATATATTTA-TATACAAA-AAA
*
23978 ATAAAAATATATTTATATTCAAAAAA
1 ATAAAAATATATTTATATACAAAAAA
24004 ATAAAAATATATTTATA
1 ATAAAAATATATTTATA
24021 GGTGAAAATA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
26 21 0.54
27 18 0.46
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (26 bp):
ATAAAAATATATTTATATACAAAAAA
Found at i:24010 original size:26 final size:27
Alignment explanation
Indices: 23970--24020 Score: 95
Period size: 26 Copynumber: 1.9 Consensus size: 27
23960 TATTTACTTA
23970 CAAATAAAATAAAAATATATTTATATT
1 CAAATAAAATAAAAATATATTTATATT
23997 CAAA-AAAATAAAAATATATTTATA
1 CAAATAAAATAAAAATATATTTATA
24021 GGTGAAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 20 0.83
27 4 0.17
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (27 bp):
CAAATAAAATAAAAATATATTTATATT
Found at i:27395 original size:3 final size:3
Alignment explanation
Indices: 27387--27413 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
27377 CATTGCCCTC
27387 CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT
27414 GAAGCTTTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:27493 original size:8 final size:8
Alignment explanation
Indices: 27466--27510 Score: 63
Period size: 8 Copynumber: 5.5 Consensus size: 8
27456 GATGTGAAAG
*
27466 GAAAAAGA
1 GAAAGAGA
*
27474 GTAAAGAAA
1 G-AAAGAGA
27483 GAAAGAGA
1 GAAAGAGA
27491 GAAAGAGA
1 GAAAGAGA
27499 GAAAGAGA
1 GAAAGAGA
27507 GAAA
1 GAAA
27511 CGGGGACAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
8 27 0.82
9 6 0.18
ACGTcount: A:0.67, C:0.00, G:0.31, T:0.02
Consensus pattern (8 bp):
GAAAGAGA
Found at i:30367 original size:23 final size:23
Alignment explanation
Indices: 30290--30367 Score: 58
Period size: 23 Copynumber: 3.6 Consensus size: 23
30280 TTCTTCTAAC
*
30290 TTTTATCTGCCTTTATGGCACGTT
1 TTTTTTCTGCC-TTATGGCACGTT
* * *
30314 TTTCTTCTGCCTTGTAGCACG--
1 TTTTTTCTGCCTTATGGCACGTT
* *
30335 --CTTT-TACCTTATGGCACGTT
1 TTTTTTCTGCCTTATGGCACGTT
30355 TTTTTTCTGCCTT
1 TTTTTTCTGCCTT
30368 CGTGGTAGAT
Statistics
Matches: 38, Mismatches: 11, Indels: 11
0.63 0.18 0.18
Matches are distributed among these distances:
18 11 0.29
19 2 0.05
22 3 0.08
23 13 0.34
24 9 0.24
ACGTcount: A:0.10, C:0.24, G:0.15, T:0.50
Consensus pattern (23 bp):
TTTTTTCTGCCTTATGGCACGTT
Found at i:36036 original size:26 final size:27
Alignment explanation
Indices: 36007--36064 Score: 64
Period size: 26 Copynumber: 2.1 Consensus size: 27
35997 CAAGAAAATA
36007 TCAAAGACTAACTTAAAT-AAAAAAGT
1 TCAAAGACTAACTTAAATCAAAAAAGT
* ** *
36033 TCAATGTGTAACTTGAATCCAAAAAAGT
1 TCAAAGACTAACTTAAAT-CAAAAAAGT
36061 TCAA
1 TCAA
36065 CCCCCAATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 14 0.54
28 12 0.46
ACGTcount: A:0.50, C:0.14, G:0.10, T:0.26
Consensus pattern (27 bp):
TCAAAGACTAACTTAAATCAAAAAAGT
Found at i:40779 original size:3 final size:3
Alignment explanation
Indices: 40771--40796 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
40761 TTGCATACAA
40771 GAT GAT GAT GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GA
40797 GGCATGAAAG
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:0.35, C:0.00, G:0.35, T:0.31
Consensus pattern (3 bp):
GAT
Found at i:47515 original size:35 final size:36
Alignment explanation
Indices: 47448--47515 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 36
47438 GTAGGTCTTA
*
47448 TTTTTTTAAGTTAAATTTAGCCCAAAACTTTTTTTT
1 TTTTTTTAAGTTAAATTTAGACCAAAACTTTTTTTT
*
47484 TTTTTTTAAGTTAAATTT-GACCATAA-TTTTTT
1 TTTTTTTAAGTTAAATTTAGACCAAAACTTTTTT
47516 AATAAGTCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 6 0.20
35 6 0.20
36 18 0.60
ACGTcount: A:0.28, C:0.09, G:0.06, T:0.57
Consensus pattern (36 bp):
TTTTTTTAAGTTAAATTTAGACCAAAACTTTTTTTT
Found at i:57160 original size:31 final size:31
Alignment explanation
Indices: 57094--57160 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
57084 TTAACAACTT
**
57094 AGTGACTTAAATAAAAACTTTTCAATAGTTT
1 AGTGACTTAAATAAAAACTTTTCAATAGTGA
* ** *
57125 AGTGACTTAAATGAAAGTTTTTGAATAGTGA
1 AGTGACTTAAATAAAAACTTTTCAATAGTGA
57156 AGTGA
1 AGTGA
57161 TCATATTGTA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.40, C:0.06, G:0.18, T:0.36
Consensus pattern (31 bp):
AGTGACTTAAATAAAAACTTTTCAATAGTGA
Found at i:58532 original size:213 final size:214
Alignment explanation
Indices: 58164--58567 Score: 643
Period size: 213 Copynumber: 1.9 Consensus size: 214
58154 TTGTTGCAAA
* *
58164 CCTAATGAATGTTACTGCAGCCAGTTGCTATAAATATCGGCTATGGAAACTAGTTGAAACTGATA
1 CCTAATGAATGTTACTGCAGCCAATTGCTATAAATATCGGCTATGGAAACTAGTTGAAACTGAAA
* *
58229 AATAGTGATTCTTAACACAGTGTTGTGGTTGCTATTTGAATCTCTTTATAATTTCTTAGTGCTAT
66 AATAGTGACTCTTAACACAGTGTTGTGGTTGCTATTTGAATCTCTCTATAATTTCTTAGTGCTAT
* *
58294 TCTCTCTTGACTGTATGCTTGGCTGCTAAGTCCTGCTTACCCTGTTCTTGATACCTTCTATCCAA
131 TCTCTCTTGACCGTATGCTTGGCTGCTAAATCCTGCTTACCCTGTTCTTGATACCTTCTATCCAA
58359 ATGGAATATTCATGTTTTG
196 ATGGAATATTCATGTTTTG
* *
58378 CCTAATGAATGTTACTGCAGCCAATTGCTTTAAATATCGGCTATGG-AA-TGAGTTGAAATTGAA
1 CCTAATGAATGTTACTGCAGCCAATTGCTATAAATATCGGCTATGGAAACT-AGTTGAAACTGAA
* ** * *
58441 AAATTA-TGACTCTTAACACAGTGTTGTGGTTGCTGTTTTCATCTCTCTATAATTTCTTATTGTT
65 AAA-TAGTGACTCTTAACACAGTGTTGTGGTTGCTATTTGAATCTCTCTATAATTTCTTAGTGCT
*
58505 ATTCTCTCTTGACCGTATGTTTGGCTGCTAAATCCTGCTTACCCTGTTCTTGATACCTTCTAT
129 ATTCTCTCTTGACCGTATGCTTGGCTGCTAAATCCTGCTTACCCTGTTCTTGATACCTTCTAT
58568 AATATGCAAT
Statistics
Matches: 174, Mismatches: 14, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
212 1 0.01
213 127 0.73
214 46 0.26
ACGTcount: A:0.24, C:0.19, G:0.17, T:0.40
Consensus pattern (214 bp):
CCTAATGAATGTTACTGCAGCCAATTGCTATAAATATCGGCTATGGAAACTAGTTGAAACTGAAA
AATAGTGACTCTTAACACAGTGTTGTGGTTGCTATTTGAATCTCTCTATAATTTCTTAGTGCTAT
TCTCTCTTGACCGTATGCTTGGCTGCTAAATCCTGCTTACCCTGTTCTTGATACCTTCTATCCAA
ATGGAATATTCATGTTTTG
Found at i:66064 original size:6 final size:6
Alignment explanation
Indices: 66053--66092 Score: 80
Period size: 6 Copynumber: 6.7 Consensus size: 6
66043 TATTTAGAGC
66053 GATGGG GATGGG GATGGG GATGGG GATGGG GATGGG GATG
1 GATGGG GATGGG GATGGG GATGGG GATGGG GATGGG GATG
66093 TTAAACATTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.17, C:0.00, G:0.65, T:0.17
Consensus pattern (6 bp):
GATGGG
Found at i:66488 original size:3 final size:3
Alignment explanation
Indices: 66480--66505 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
66470 CAAAATAAGT
66480 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
66506 TCAAAATTTC
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:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:67098 original size:53 final size:56
Alignment explanation
Indices: 67015--67133 Score: 145
Period size: 53 Copynumber: 2.2 Consensus size: 56
67005 TTAGTAGTCA
* * *
67015 TCAATTATTATTAATTTTTTTTAGTTATTCAATTATAAAAAGTTATAAAAT-ATCAT
1 TCAATTATTAATAA-TTTTTTTAGTCATTCAATTATAAAAAGTTACAAAATGATCAT
** *
67071 TCAATTATTAATAA-TTTTTTA-TCATTCAATTATGGAAAGTTACAAAATGATTAT
1 TCAATTATTAATAATTTTTTTAGTCATTCAATTATAAAAAGTTACAAAATGATCAT
*
67125 TAAATTATT
1 TCAATTATT
67134 TTATTTTATC
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
53 23 0.42
54 19 0.35
56 13 0.24
ACGTcount: A:0.41, C:0.06, G:0.05, T:0.48
Consensus pattern (56 bp):
TCAATTATTAATAATTTTTTTAGTCATTCAATTATAAAAAGTTACAAAATGATCAT
Found at i:70787 original size:67 final size:67
Alignment explanation
Indices: 70679--70813 Score: 243
Period size: 67 Copynumber: 2.0 Consensus size: 67
70669 TATTAATAGG
70679 TTTTTTAATCCAATGAACGCCAGTCCATTTGGAATTTGTGTACACTCATTAAAAAACACCCTTTC
1 TTTTTTAATCCAATGAACGCCAGTCCATTTGGAATTTGTGTACACTCATTAAAAAACACCCTTTC
70744 TC
66 TC
* **
70746 TTTTTTAATCCAATGAAGGCCAGTCCATTTGGAATTTGTGTACTGTCATTAAAAAACACCCTTTC
1 TTTTTTAATCCAATGAACGCCAGTCCATTTGGAATTTGTGTACACTCATTAAAAAACACCCTTTC
70811 TC
66 TC
70813 T
1 T
70814 CACTATAGAT
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
67 65 1.00
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.37
Consensus pattern (67 bp):
TTTTTTAATCCAATGAACGCCAGTCCATTTGGAATTTGTGTACACTCATTAAAAAACACCCTTTC
TC
Found at i:76306 original size:20 final size:18
Alignment explanation
Indices: 76277--76315 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
76267 AACTTCTCGA
76277 AAGTTAAAAAGTTTTTATTT
1 AAGTTAAAAA-TTTTT-TTT
*
76297 AAGTTTAAAATTTTTTTT
1 AAGTTAAAAATTTTTTTT
76315 A
1 A
76316 TTTGCTGTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 5 0.28
20 9 0.50
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (18 bp):
AAGTTAAAAATTTTTTTT
Found at i:89127 original size:17 final size:17
Alignment explanation
Indices: 89105--89148 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
89095 CATTACTTTT
89105 CAAAAATATTTTTGAGA
1 CAAAAATATTTTTGAGA
89122 CAAAAA-ATATTTTGAGA
1 CAAAAATAT-TTTTGAGA
*
89139 TAAAAATATT
1 CAAAAATATT
89149 ACTAAACAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 2 0.08
17 20 0.83
18 2 0.08
ACGTcount: A:0.52, C:0.05, G:0.09, T:0.34
Consensus pattern (17 bp):
CAAAAATATTTTTGAGA
Found at i:89143 original size:16 final size:17
Alignment explanation
Indices: 89106--89148 Score: 61
Period size: 16 Copynumber: 2.5 Consensus size: 17
89096 ATTACTTTTC
89106 AAAAATATTTTTGAGACA
1 AAAAATA-TTTTGAGACA
*
89124 AAAAATATTTTGAGA-T
1 AAAAATATTTTGAGACA
89140 AAAAATATT
1 AAAAATATT
89149 ACTAAACAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 9 0.38
17 8 0.33
18 7 0.29
ACGTcount: A:0.53, C:0.02, G:0.09, T:0.35
Consensus pattern (17 bp):
AAAAATATTTTGAGACA
Found at i:115187 original size:445 final size:448
Alignment explanation
Indices: 114328--115159 Score: 1209
Period size: 443 Copynumber: 1.9 Consensus size: 448
114318 CTCGACGGGG
* * *
114328 GAGAGGAGCTTTTATGGTTCTCTTGTGTTGAGAGAATGAGGAAAATCCCTCTTTTACGTCATAAG
1 GAGAGGAGCTCTTATGGTTCTCTTGTGTTGAAAGAACGAGGAAAATCCCTCTTTTACGTCATAAG
* * * *
114393 GGGTGGTTTATATAGCTCCCAAGTCCTGTGGGACAAGTGCGGGGCATATTGGGCCACGTCTATAT
66 GGGTGGCTTATATAGCTCCCAAGTCCTATGGGACAAGTGCGGGGCATATAGGGCCACATCTATAT
* * * *
114458 AACAACATATAGTTCATGTGTCTGTAGTCATGTAGCACTTTGGCGAGGTCTCTGTGCATGATGGT
131 AACAACATATAGTTCACGTATCTATAGTCATGTAGCACATTGGCGAGGTCTCTGTGCATGATGGT
* * * * *
114523 TGACCTGGCGAGGTCTTCCAAGCATGATAGAGACGTACAACACTCTTCTTTTTCATTGCTAGTGT
196 TGACCTGGCAAGGTCTTCCAAGCACGACAGAGACATACAACACTCTTCTTTTTCATTGCTAGTGC
* *
114588 CTTTATATATTGGTCCTTTCCTTCATTCTTAGTAGTTTTACTTTGGATTCTATAATGAAATTAAG
261 CTTTATATATTGGTCCTTTCCTTCATTCTTAGTAGGTTAACTTTGGATTCTATAATGAAATTAAG
* * * *
114653 ATACTTATGTCCTTAGCACCTCCTGTTTTACATTTTGATATTTGCTTTCTACAAAATCTCTCCAA
326 ATACTTATCTCCTTAACACCTCCTGTTTTACATTTTGATATCTGCTTTCTACAAAATCACTCCAA
*
114718 GTTTAACAGCGGTTCAACCGAAGGCCAAGAGCCATAGGTGGTCTTCTAAGAGATGGGA
391 GATTAACAGCGGTTCAACCGAAGGCCAAGAGCCATAGGTGGTCTTCTAAGAGATGGGA
*
114776 GAGAGGAGCTCTTATGGTTCTCTTGTGTTGAAAGAACGAGGAAAATCCCTC-TTTATGTCATAAG
1 GAGAGGAGCTCTTATGGTTCTCTTGTGTTGAAAGAACGAGGAAAATCCCTCTTTTACGTCATAAG
* *
114840 GGGTGGCTTATATAGC-CCTCAAGTCCTATGGGACAAGTGTGGGGCATATAGGG-CA-ATGTATA
66 GGGTGGCTTATATAGCTCC-CAAGTCCTATGGGACAAGTGCGGGGCATATAGGGCCACATCTATA
* * * *
114902 -GATAACATATAG-TCAACGTATCTATAGTCATGTAGCACATT-GCTGA-GTCTTTGTGCGTGAT
130 TAACAACATATAGTTC-ACGTATCTATAGTCATGTAGCACATTGGC-GAGGTCTCTGTGCATGAT
114963 GGTTGACCTGGCAAGGTCTTCCAAGCACGACAGAGACATACAACACTCTTCTTTTTCATTGCTAG
193 GGTTGACCTGGCAAGGTCTTCCAAGCACGACAGAGACATACAACACTCTTCTTTTTCATTGCTAG
*
115028 TGCCTTTATGCT-TTGGTCCTTTCCTCCATCATTC-TAGTAGGTTAACTTTGGATTCTATAATGA
258 TGCCTTTAT-ATATTGGTCCTTTCCT---TCATTCTTAGTAGGTTAACTTTGGATTCTATAATGA
* * *
115091 AATTAAGATGCTTGA-CTCGTTAACGCCTCCTGTTTTACATTTTGATATCTGCTTTCTACAAAAT
319 AATTAAGATACTT-ATCTCCTTAACACCTCCTGTTTTACATTTTGATATCTGCTTTCTACAAAAT
115155 CACTC
383 CACTC
115160 TTGGATTAAT
Statistics
Matches: 343, Mismatches: 33, Indels: 19
0.87 0.08 0.05
Matches are distributed among these distances:
443 99 0.29
444 35 0.10
445 92 0.27
446 11 0.03
447 58 0.17
448 48 0.14
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (448 bp):
GAGAGGAGCTCTTATGGTTCTCTTGTGTTGAAAGAACGAGGAAAATCCCTCTTTTACGTCATAAG
GGGTGGCTTATATAGCTCCCAAGTCCTATGGGACAAGTGCGGGGCATATAGGGCCACATCTATAT
AACAACATATAGTTCACGTATCTATAGTCATGTAGCACATTGGCGAGGTCTCTGTGCATGATGGT
TGACCTGGCAAGGTCTTCCAAGCACGACAGAGACATACAACACTCTTCTTTTTCATTGCTAGTGC
CTTTATATATTGGTCCTTTCCTTCATTCTTAGTAGGTTAACTTTGGATTCTATAATGAAATTAAG
ATACTTATCTCCTTAACACCTCCTGTTTTACATTTTGATATCTGCTTTCTACAAAATCACTCCAA
GATTAACAGCGGTTCAACCGAAGGCCAAGAGCCATAGGTGGTCTTCTAAGAGATGGGA
Found at i:116152 original size:62 final size:62
Alignment explanation
Indices: 116055--116179 Score: 250
Period size: 62 Copynumber: 2.0 Consensus size: 62
116045 GTCATTTATT
116055 TATGGCTTCGATCGGTATCCAGTTCGCATAAAATATTTCATTTATCACTAGAATGAAAGATC
1 TATGGCTTCGATCGGTATCCAGTTCGCATAAAATATTTCATTTATCACTAGAATGAAAGATC
116117 TATGGCTTCGATCGGTATCCAGTTCGCATAAAATATTTCATTTATCACTAGAATGAAAGATC
1 TATGGCTTCGATCGGTATCCAGTTCGCATAAAATATTTCATTTATCACTAGAATGAAAGATC
116179 T
1 T
116180 CCTACAATTT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 63 1.00
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (62 bp):
TATGGCTTCGATCGGTATCCAGTTCGCATAAAATATTTCATTTATCACTAGAATGAAAGATC
Found at i:118957 original size:18 final size:18
Alignment explanation
Indices: 118936--118971 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
118926 TTTACACTAG
*
118936 AAAAATA-ATATAAATGA
1 AAAAATACATAAAAATGA
118953 AAAAATACATAAAAATGA
1 AAAAATACATAAAAATGA
118971 A
1 A
118972 GCATGTTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.72, C:0.03, G:0.06, T:0.19
Consensus pattern (18 bp):
AAAAATACATAAAAATGA
Found at i:125989 original size:27 final size:27
Alignment explanation
Indices: 125959--126010 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
125949 TTTTTATATT
*
125959 TATTTATTTATTTGATTGTGTTTAAGG
1 TATTTATATATTTGATTGTGTTTAAGG
* * *
125986 TATTTCTATATTTTATTTTGTTTAA
1 TATTTATATATTTGATTGTGTTTAA
126011 TATGAACTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.23, C:0.02, G:0.12, T:0.63
Consensus pattern (27 bp):
TATTTATATATTTGATTGTGTTTAAGG
Found at i:127040 original size:18 final size:19
Alignment explanation
Indices: 127003--127051 Score: 64
Period size: 18 Copynumber: 2.6 Consensus size: 19
126993 TTAAAATTTA
*
127003 TAAAAAAAAATAGAAGAAT
1 TAAAAAAAAATACAAGAAT
* *
127022 TTAATAAAAATACAA-AAT
1 TAAAAAAAAATACAAGAAT
127040 TAAAAAAAAATA
1 TAAAAAAAAATA
127052 TATATAAAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
18 13 0.52
19 12 0.48
ACGTcount: A:0.73, C:0.02, G:0.04, T:0.20
Consensus pattern (19 bp):
TAAAAAAAAATACAAGAAT
Found at i:128652 original size:23 final size:23
Alignment explanation
Indices: 128602--128657 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 23
128592 TCACAAACAA
128602 TAAATCAACACAAACAAACCAAAAT
1 TAAAT-AA-ACAAACAAACCAAAAT
* * *
128627 TAAATAAACAAACTAACTAAATT
1 TAAATAAACAAACAAACCAAAAT
128650 TAAATAAA
1 TAAATAAA
128658 AAATATAAGG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 21 0.75
24 2 0.07
25 5 0.18
ACGTcount: A:0.64, C:0.16, G:0.00, T:0.20
Consensus pattern (23 bp):
TAAATAAACAAACAAACCAAAAT
Found at i:130611 original size:104 final size:104
Alignment explanation
Indices: 130424--130849 Score: 557
Period size: 104 Copynumber: 4.1 Consensus size: 104
130414 TGTTGTAATT
* * *
130424 TTAGAGGCTTCAAGATTTTCATGTAAATAATGAATCAAAGCTCTTACATTGTAAAATGAGTTTGA
1 TTAGAGGTTTCAAGATTTTCATGTAAATAATGAACCAAAGCTCTTACATTGTAGAATGAGTTTGA
* * * *
130489 TTTTGATTCATCATTTTCGCATAAACTTGAGTATTTAAC
66 TTTTGATTCAGCAATTTCACATAAACTCGAGTATTTAAC
* *
130528 TTAGAGGTTTCAAGATTTTCATATAAATAATGAACCAAAGCTCTTACATTGTAGTATGAGTTTGA
1 TTAGAGGTTTCAAGATTTTCATGTAAATAATGAACCAAAGCTCTTACATTGTAGAATGAGTTTGA
* * * * *
130593 TTTTGATTCGGAAATTTCGCCTAAACTCAGAATATTTAAC
66 TTTTGATTCAGCAATTTCACATAAACTC-GAGTATTTAAC
** * * * * *
130633 TTAGAATTTTCAAGGTTTTCATGTAAATAATGAATCGAGGCTCATACATTGTAGAATGAGTTTGA
1 TTAGAGGTTTCAAGATTTTCATGTAAATAATGAACCAAAGCTCTTACATTGTAGAATGAGTTTGA
* * *
130698 TTTTGATTCATCATTTTCACATAAACACGAGTATTTAAC
66 TTTTGATTCAGCAATTTCACATAAACTCGAGTATTTAAC
* * *
130737 ATAGAGGTTTCAACATTTTCATGTAAATAATGAACCAAAGCTCTTACATTGTAGCATGAGTTTGA
1 TTAGAGGTTTCAAGATTTTCATGTAAATAATGAACCAAAGCTCTTACATTGTAGAATGAGTTTGA
* *
130802 TTTTGA-TCTGTAATATTCACATAAACTCGAGTATTTAAC
66 TTTTGATTCAGCAAT-TTCACATAAACTCGAGTATTTAAC
*
130841 TTAGTGGTT
1 TTAGAGGTT
130850 GGTGCATGAT
Statistics
Matches: 274, Mismatches: 46, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
103 4 0.01
104 183 0.67
105 87 0.32
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.38
Consensus pattern (104 bp):
TTAGAGGTTTCAAGATTTTCATGTAAATAATGAACCAAAGCTCTTACATTGTAGAATGAGTTTGA
TTTTGATTCAGCAATTTCACATAAACTCGAGTATTTAAC
Found at i:130799 original size:209 final size:208
Alignment explanation
Indices: 130432--130844 Score: 648
Period size: 209 Copynumber: 2.0 Consensus size: 208
130422 TTTTAGAGGC
*
130432 TTCAAGATTTTCATGTAAATAATGAATCAAAGCTCTTACATTGTAAAATGAGTTTGATTTTGATT
1 TTCAAGATTTTCATGTAAATAATGAATCAAAGCTCATACATTGTAAAATGAGTTTGATTTTGATT
* ** * *
130497 CATCATTTTCGCATAAACTTGAGTATTTAACTTAGAGGTTTCAAGATTTTCATATAAATAATGAA
66 CATCATTTTCACATAAACACGAGTATTTAACATAGAGGTTTCAACATTTTCATATAAATAATGAA
* * *
130562 CCAAAGCTCTTACATTGTAGTATGAGTTTGATTTTGATTCGGAAAT-TTCGCCTAAACTCAGAAT
131 CCAAAGCTCTTACATTGTAGCATGAGTTTGATTTTGA-TCGGAAATATTCACATAAACTC-GAAT
130626 ATTTAACTTAGAATT
194 ATTTAACTTAGAATT
* * * *
130641 TTCAAGGTTTTCATGTAAATAATGAATCGAGGCTCATACATTGTAGAATGAGTTTGATTTTGATT
1 TTCAAGATTTTCATGTAAATAATGAATCAAAGCTCATACATTGTAAAATGAGTTTGATTTTGATT
*
130706 CATCATTTTCACATAAACACGAGTATTTAACATAGAGGTTTCAACATTTTCATGTAAATAATGAA
66 CATCATTTTCACATAAACACGAGTATTTAACATAGAGGTTTCAACATTTTCATATAAATAATGAA
* * *
130771 CCAAAGCTCTTACATTGTAGCATGAGTTTGATTTTGATCTGTAATATTCACATAAACTCGAGTAT
131 CCAAAGCTCTTACATTGTAGCATGAGTTTGATTTTGATCGGAAATATTCACATAAACTCGAATAT
130836 TTAACTTAG
196 TTAACTTAG
130845 TGGTTGGTGC
Statistics
Matches: 186, Mismatches: 17, Indels: 3
0.90 0.08 0.01
Matches are distributed among these distances:
208 20 0.11
209 166 0.89
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.38
Consensus pattern (208 bp):
TTCAAGATTTTCATGTAAATAATGAATCAAAGCTCATACATTGTAAAATGAGTTTGATTTTGATT
CATCATTTTCACATAAACACGAGTATTTAACATAGAGGTTTCAACATTTTCATATAAATAATGAA
CCAAAGCTCTTACATTGTAGCATGAGTTTGATTTTGATCGGAAATATTCACATAAACTCGAATAT
TTAACTTAGAATT
Found at i:136120 original size:15 final size:15
Alignment explanation
Indices: 136100--136129 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
136090 ATACTATTAA
*
136100 TATTTAGACTTATTT
1 TATTTAGACTAATTT
136115 TATTTAGACTAATTT
1 TATTTAGACTAATTT
136130 GATAAGGTCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.57
Consensus pattern (15 bp):
TATTTAGACTAATTT
Found at i:140149 original size:61 final size:59
Alignment explanation
Indices: 140073--140230 Score: 183
Period size: 59 Copynumber: 2.6 Consensus size: 59
140063 ATTTGGACCC
* *
140073 CTATAGTGAAATTCTCACTTTGACCCTTTTACTAATTTTTTTGATCATTTTG-TCCCTCGTA
1 CTATAGTGAAATTCTCACTTTGACCCTTTTACT-ATTTTTTT-ATCACTTTGCT-CCTCATA
* * * * * *
140134 CTATAATGAAATTCTCAGTTTAACCATTTTACTATTCTTTTATCACTTTGCTCCTTATA
1 CTATAGTGAAATTCTCACTTTGACCCTTTTACTATTTTTTTATCACTTTGCTCCTCATA
* * *
140193 CTATAGTAAAATTCTCACTTCGTCCCTTTTACTATTTT
1 CTATAGTGAAATTCTCACTTTGACCCTTTTACTATTTT
140231 GTTCGGTTAC
Statistics
Matches: 80, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
59 43 0.54
60 8 0.10
61 29 0.36
ACGTcount: A:0.24, C:0.22, G:0.07, T:0.47
Consensus pattern (59 bp):
CTATAGTGAAATTCTCACTTTGACCCTTTTACTATTTTTTTATCACTTTGCTCCTCATA
Found at i:151016 original size:84 final size:84
Alignment explanation
Indices: 150872--151031 Score: 198
Period size: 84 Copynumber: 1.9 Consensus size: 84
150862 TTTCTAGTTT
* *
150872 TCATTGCTTGGTTTGTGTTAGCAAGTTATATCGATTTTCAAAATGTGCAGGTTGCTTTTTATTGG
1 TCATTGCTTGGTTCGTGTTAGCAAGTCATATCGATTTTCAAAATGTGCAGGTTGCTTTTTATTGG
* *
150937 CTTTATGGTTCGATCGTCC
66 CATTACGGTTCGATCGTCC
* * * ** *
150956 TCATTGCTTGGTTCGTGTTAGCGAGTCATATTGA-TTTCAAGATGTTTTA-GTTGTTCTTTTATT
1 TCATTGCTTGGTTCGTGTTAGCAAGTCATATCGATTTTCAAAATG-TGCAGGTTGCT-TTTTATT
151019 GGCATTACGGTTC
64 GGCATTACGGTTC
151032 TATCTTCGTA
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
83 14 0.22
84 50 0.78
ACGTcount: A:0.17, C:0.14, G:0.23, T:0.46
Consensus pattern (84 bp):
TCATTGCTTGGTTCGTGTTAGCAAGTCATATCGATTTTCAAAATGTGCAGGTTGCTTTTTATTGG
CATTACGGTTCGATCGTCC
Found at i:151253 original size:97 final size:97
Alignment explanation
Indices: 150956--151631 Score: 800
Period size: 97 Copynumber: 7.1 Consensus size: 97
150946 TCGATCGTCC
* * * * * *
150956 TCATTGCTTGGTTCGTGTTAGCGAGTCATATTGATTTCAAGATGTTTTAGTTGTTCTTTTATTGG
1 TCATTGCTTGGTTCGTGTTAGCAAGTTATATCGATTTCAAAATGTTTTGGTTGTTTTTTTATTGG
* *
151021 CATTACGGTTCTATCTTCGTACATTCGAGTTT
66 CATTACGGTTCCATCTTCCTACATTCGAGTTT
* * * **
151053 TCATTGCTTGGTTCATGTTAGCAAGTTATATCAATTTCGAAATGTTTCT-G-T-TTTCCTTATTG
1 TCATTGCTTGGTTCGTGTTAGCAAGTTATATCGATTTCAAAATGTTT-TGGTTGTTTTTTTATTG
* *
151115 ACATTACGGTTCCATCTTCCTACATTCAAGTTT
65 GCATTACGGTTCCATCTTCCTACATTCGAGTTT
* * * *
151148 TCATTGCTTGGTTCTTATTAGCAAGTCATATTGATTTCAAAATGTTTTGGTTGTTTTTTTATTGG
1 TCATTGCTTGGTTCGTGTTAGCAAGTTATATCGATTTCAAAATGTTTTGGTTGTTTTTTTATTGG
*
151213 CGTTACGGTTCCATCTTCCTACAATT-GAGTTT
66 CATTACGGTTCCATCTTCCTAC-ATTCGAGTTT
* * *
151245 TCATTGCTTGGTTCGTGTTAGCAAGTTATATCGGTTTCGAAATGTTTCT-G-T-CTTTTTTATTG
1 TCATTGCTTGGTTCGTGTTAGCAAGTTATATCGATTTCAAAATGTTT-TGGTTGTTTTTTTATTG
* *
151307 ACATTACGGTTCCATCTTCCTACATTCAAGTTT
65 GCATTACGGTTCCATCTTCCTACATTCGAGTTT
*
151340 TCATTGCTTGGTTCTTGTTAGCAAGTTATATCG--------A--TTTTGGTTG-TTTTTTATTGG
1 TCATTGCTTGGTTCGTGTTAGCAAGTTATATCGATTTCAAAATGTTTTGGTTGTTTTTTTATTGG
* *
151394 CATTACGGTTCCATCTTCCTACATTTGAGTTG
66 CATTACGGTTCCATCTTCCTACATTCGAGTTT
* * * *
151426 TCATTGCTTGGTTCATGTTAACAAGTTATATCCATCTTCAAAATGTTTTGGTTGCTTTTTT-TTG
1 TCATTGCTTGGTTCGTGTTAGCAAGTTATATCGAT-TTCAAAATGTTTTGGTTGTTTTTTTATTG
* * *
151490 GCTTTATGGTTCCATCTTCCTACATTCAAGTTT
65 GCATTACGGTTCCATCTTCCTACATTCGAGTTT
*
151523 TCATTGCTTGGTTCGTGTTAGCAAGTTATATCGATTCTCATAATGTTTTGGTTG--TTTTTATTG
1 TCATTGCTTGGTTCGTGTTAGCAAGTTATATCGATT-TCAAAATGTTTTGGTTGTTTTTTTATTG
* * *
151586 GCATTACGGTTTCATCTTCCTACATTTGAGTTG
65 GCATTACGGTTCCATCTTCCTACATTCGAGTTT
*
151619 TCATTGGTTGGTT
1 TCATTGCTTGGTT
151632 TTATGGTTCC
Statistics
Matches: 496, Mismatches: 59, Indels: 49
0.82 0.10 0.08
Matches are distributed among these distances:
84 1 0.00
85 4 0.01
86 70 0.14
87 1 0.00
94 4 0.01
95 153 0.31
96 46 0.09
97 206 0.42
98 11 0.02
ACGTcount: A:0.19, C:0.16, G:0.18, T:0.48
Consensus pattern (97 bp):
TCATTGCTTGGTTCGTGTTAGCAAGTTATATCGATTTCAAAATGTTTTGGTTGTTTTTTTATTGG
CATTACGGTTCCATCTTCCTACATTCGAGTTT
Found at i:151285 original size:192 final size:190
Alignment explanation
Indices: 150956--151631 Score: 901
Period size: 192 Copynumber: 3.6 Consensus size: 190
150946 TCGATCGTCC
* * *
150956 TCATTGCTTGGTTCGTGTTAGCGAGTCATATTGATTTCAAGATGTTTTAGTTGTTCTTTTATTGG
1 TCATTGCTTGGTTCGTGTTAGCAAGTCATATTGATTTCAAAATGTTTTGGTTGTT-TTTTATTGG
* * *
151021 CATTACGGTTCTATCTTCGTAC-ATTCGAGTTTTCATTGCTTGGTTCATGTTAGCAAGTTATATC
65 CATTACGGTTCCATCTTCCTACAATT-GAGTTGTCATTGCTTGGTTCATGTTAGCAAGTTATATC
*
151085 AATTTCGAAATGTTTCTGTTTTCCTTATTGACATTACGGTTCCATCTTCCTACATTCAAGTTT
129 AATTTCGAAATGTTTCTGTTTT-TTTATTGACATTACGGTTCCATCTTCCTACATTCAAGTTT
* *
151148 TCATTGCTTGGTTCTTATTAGCAAGTCATATTGATTTCAAAATGTTTTGGTTGTTTTTTTATTGG
1 TCATTGCTTGGTTCGTGTTAGCAAGTCATATTGATTTCAAAATGTTTTGGTTG-TTTTTTATTGG
* * * *
151213 CGTTACGGTTCCATCTTCCTACAATTGAGTTTTCATTGCTTGGTTCGTGTTAGCAAGTTATATCG
65 CATTACGGTTCCATCTTCCTACAATTGAGTTGTCATTGCTTGGTTCATGTTAGCAAGTTATATCA
*
151278 GTTTCGAAATGTTTCTGTCTTTTTTATTGACATTACGGTTCCATCTTCCTACATTCAAGTTT
130 ATTTCGAAATGTTTCTGT-TTTTTTATTGACATTACGGTTCCATCTTCCTACATTCAAGTTT
* *
151340 TCATTGCTTGGTTCTTGTTAGCAAGT--TA-T-A--TC--GA--TTTTGGTTGTTTTTTATTGGC
1 TCATTGCTTGGTTCGTGTTAGCAAGTCATATTGATTTCAAAATGTTTTGGTTGTTTTTTATTGGC
* * *
151395 ATTACGGTTCCATCTTCCTACATTTGAGTTGTCATTGCTTGGTTCATGTTAACAAGTTATATCCA
66 ATTACGGTTCCATCTTCCTACAATTGAGTTGTCATTGCTTGGTTCATGTTAGCAAGTTATATCAA
* * * * *
151460 TCTTCAAAATGTTT-TGGTTGCTTTTTTTTGGCTTTATGGTTCCATCTTCCTACATTCAAGTTT
131 T-TTCGAAATGTTTCT-GTT--TTTTTATTGACATTACGGTTCCATCTTCCTACATTCAAGTTT
* * *
151523 TCATTGCTTGGTTCGTGTTAGCAAGTTATATCGATTCTCATAATGTTTTGGTTG-TTTTTATTGG
1 TCATTGCTTGGTTCGTGTTAGCAAGTCATATTGATT-TCAAAATGTTTTGGTTGTTTTTTATTGG
* * *
151587 CATTACGGTTTCATCTTCCTACATTTGAGTTGTCATTGGTTGGTT
65 CATTACGGTTCCATCTTCCTACAATTGAGTTGTCATTGCTTGGTT
151632 TTATGGTTCC
Statistics
Matches: 435, Mismatches: 31, Indels: 35
0.87 0.06 0.07
Matches are distributed among these distances:
181 73 0.17
182 22 0.05
183 63 0.14
184 1 0.00
185 2 0.00
186 2 0.00
187 1 0.00
188 1 0.00
189 1 0.00
190 4 0.01
192 195 0.45
193 61 0.14
194 9 0.02
ACGTcount: A:0.19, C:0.16, G:0.18, T:0.48
Consensus pattern (190 bp):
TCATTGCTTGGTTCGTGTTAGCAAGTCATATTGATTTCAAAATGTTTTGGTTGTTTTTTATTGGC
ATTACGGTTCCATCTTCCTACAATTGAGTTGTCATTGCTTGGTTCATGTTAGCAAGTTATATCAA
TTTCGAAATGTTTCTGTTTTTTTATTGACATTACGGTTCCATCTTCCTACATTCAAGTTT
Found at i:158142 original size:2 final size:2
Alignment explanation
Indices: 158135--158159 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
158125 AATTTTAATT
158135 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
158160 TAAATTAGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:158504 original size:21 final size:20
Alignment explanation
Indices: 158463--158503 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
158453 GTCGGTGGGG
*
158463 ATCGATTATTTCATATTAAA
1 ATCGATTATTTAATATTAAA
158483 ATCGATTAATTTAAT-TTAAA
1 ATCGATT-ATTTAATATTAAA
158503 A
1 A
158504 AAAAATTGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (20 bp):
ATCGATTATTTAATATTAAA
Found at i:166562 original size:5 final size:5
Alignment explanation
Indices: 166552--166577 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
166542 AACAAATATT
166552 TATGA TATGA TATGA TATGA TATGA T
1 TATGA TATGA TATGA TATGA TATGA T
166578 TTGGTCCCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.19, T:0.42
Consensus pattern (5 bp):
TATGA
Found at i:171846 original size:91 final size:91
Alignment explanation
Indices: 171683--171902 Score: 244
Period size: 91 Copynumber: 2.4 Consensus size: 91
171673 TGATATCTGC
* * * * *
171683 ACTTTGAAAATGTCTAATCTGGTAAATAAATTATCAATTTGTGCATTATTTGGCACTTTTAATTT
1 ACTTTGAAAATGTCTAATGTGGTAATTAAACTATCAATTTGTGCATTATTTGGCACCTATAATTT
** * *
171748 CACAAAATATCTGATGTGGTACTTGT
66 CACAAAATATCCAATGCGGTACTTAT
* * * * *
171774 ACTTTGAAAATGTCTAATGTGGTACTTGAACTATCAATTTGTGTATTATTTGGTACCTATACTTT
1 ACTTTGAAAATGTCTAATGTGGTAATTAAACTATCAATTTGTGCATTATTTGGCACCTATAATTT
* * *
171839 TATAAAATCTCCAATGCGGTACTTAT
66 CACAAAATATCCAATGCGGTACTTAT
* * *
171865 ACTTTGAAAATAT-TCAATGTGGTATTTAAACTGTCAAT
1 ACTTTGAAAATGTCT-AATGTGGTAATTAAACTATCAAT
171903 ATGCATATTA
Statistics
Matches: 107, Mismatches: 21, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
90 1 0.01
91 106 0.99
ACGTcount: A:0.32, C:0.13, G:0.14, T:0.41
Consensus pattern (91 bp):
ACTTTGAAAATGTCTAATGTGGTAATTAAACTATCAATTTGTGCATTATTTGGCACCTATAATTT
CACAAAATATCCAATGCGGTACTTAT
Found at i:171888 original size:29 final size:31
Alignment explanation
Indices: 171824--171888 Score: 73
Period size: 31 Copynumber: 2.2 Consensus size: 31
171814 GTGTATTATT
*
171824 TGGTACCTATACTTTTATAAAATCTCCAATG
1 TGGTACCTATACTTTGATAAAATCTCCAATG
* *
171855 CGGTACTTATACTTTGA-AAATAT-T-CAATG
1 TGGTACCTATACTTTGATAAA-ATCTCCAATG
171884 TGGTA
1 TGGTA
171889 TTTAAACTGT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
29 9 0.31
30 4 0.14
31 16 0.55
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.38
Consensus pattern (31 bp):
TGGTACCTATACTTTGATAAAATCTCCAATG
Found at i:172438 original size:5 final size:5
Alignment explanation
Indices: 172428--172452 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
172418 AATCATTGGA
172428 GGTTG GGTTG GGTTG GGTTG GGTTG
1 GGTTG GGTTG GGTTG GGTTG GGTTG
172453 TCAAAACACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.00, G:0.60, T:0.40
Consensus pattern (5 bp):
GGTTG
Found at i:177572 original size:11 final size:11
Alignment explanation
Indices: 177556--177607 Score: 52
Period size: 11 Copynumber: 4.5 Consensus size: 11
177546 ACCTTCTCAA
177556 AAAATATTTAT
1 AAAATATTTAT
177567 AAAATATTATTAT
1 AAAATA-T-TTAT
*
177580 CCAAA-ATTTAT
1 -AAAATATTTAT
*
177591 AAAATATATAT
1 AAAATATTTAT
177602 AAAATA
1 AAAATA
177608 AAATCATTAC
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
10 3 0.09
11 21 0.62
12 2 0.06
13 5 0.15
14 3 0.09
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (11 bp):
AAAATATTTAT
Found at i:179964 original size:16 final size:16
Alignment explanation
Indices: 179945--180009 Score: 67
Period size: 16 Copynumber: 3.8 Consensus size: 16
179935 ATACAAATTC
*
179945 AGGCTTCGTGCCTAGT
1 AGGCTTTGTGCCTAGT
*
179961 AGGCTTTGTGCTGCTGTTATT
1 AGGCTTTGTGC--C---TAGT
179982 AGGCTTTGTGCCTAGT
1 AGGCTTTGTGCCTAGT
179998 AGGCTTTGTGCC
1 AGGCTTTGTGCC
180010 GGTGTTATAA
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
16 25 0.61
18 1 0.02
19 1 0.02
21 14 0.34
ACGTcount: A:0.11, C:0.20, G:0.31, T:0.38
Consensus pattern (16 bp):
AGGCTTTGTGCCTAGT
Found at i:179995 original size:37 final size:37
Alignment explanation
Indices: 179945--180030 Score: 127
Period size: 37 Copynumber: 2.3 Consensus size: 37
179935 ATACAAATTC
* * *
179945 AGGCTTCGTGCCTAGTAGGCTTTGTGCTGCTGTTATT
1 AGGCTTTGTGCCTAGTAGGCTTTGTGCCGCTGTTATA
*
179982 AGGCTTTGTGCCTAGTAGGCTTTGTGCCGGTGTTATA
1 AGGCTTTGTGCCTAGTAGGCTTTGTGCCGCTGTTATA
*
180019 AGGCTATGTGCC
1 AGGCTTTGTGCC
180031 AGTGATCCAA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 44 1.00
ACGTcount: A:0.13, C:0.19, G:0.31, T:0.37
Consensus pattern (37 bp):
AGGCTTTGTGCCTAGTAGGCTTTGTGCCGCTGTTATA
Found at i:181230 original size:22 final size:22
Alignment explanation
Indices: 181205--181248 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
181195 AATTGAAAAG
181205 GTTAATTAATTAATTAATTAAA
1 GTTAATTAATTAATTAATTAAA
* * **
181227 GTTATTTATTTTTTTAATTAAA
1 GTTAATTAATTAATTAATTAAA
181249 AAAATTAAAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.55
Consensus pattern (22 bp):
GTTAATTAATTAATTAATTAAA
Found at i:184233 original size:15 final size:15
Alignment explanation
Indices: 184215--184244 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
184205 TTGAGGTTGC
*
184215 TGCTGGTGGTGATGA
1 TGCTGGTGGGGATGA
184230 TGCTGGTGGGGATGA
1 TGCTGGTGGGGATGA
184245 GGGTGGGGGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.07, G:0.50, T:0.30
Consensus pattern (15 bp):
TGCTGGTGGGGATGA
Found at i:187333 original size:16 final size:17
Alignment explanation
Indices: 187301--187333 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
187291 TTAAAGTCAC
187301 TAAATTATTAATAATTT
1 TAAATTATTAATAATTT
*
187318 TAAATT-TTAATTATTT
1 TAAATTATTAATAATTT
187334 AACTTCAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TAAATTATTAATAATTT
Found at i:191644 original size:31 final size:31
Alignment explanation
Indices: 191607--191665 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
191597 TTTAAATAAA
191607 AAAACTTTTAAAT-ATTTCAGTAAATTAATCG
1 AAAACTTTTAAATAATTT-AGTAAATTAATCG
* *
191638 AAAACTTTTGAATAATTTATTAAATTAA
1 AAAACTTTTAAATAATTTAGTAAATTAA
191666 ATGAATGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
31 21 0.84
32 4 0.16
ACGTcount: A:0.47, C:0.07, G:0.05, T:0.41
Consensus pattern (31 bp):
AAAACTTTTAAATAATTTAGTAAATTAATCG
Found at i:197568 original size:23 final size:23
Alignment explanation
Indices: 197538--197584 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
197528 GCTTAGACAG
197538 AAAACCCGGGCAAAGAGAGTGAT
1 AAAACCCGGGCAAAGAGAGTGAT
197561 AAAACCCGGGCAAAGAGAGTGAT
1 AAAACCCGGGCAAAGAGAGTGAT
197584 A
1 A
197585 GCGATTCACG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.45, C:0.17, G:0.30, T:0.09
Consensus pattern (23 bp):
AAAACCCGGGCAAAGAGAGTGAT
Found at i:204388 original size:73 final size:71
Alignment explanation
Indices: 204243--204480 Score: 193
Period size: 69 Copynumber: 3.3 Consensus size: 71
204233 CAACTTCAAT
* * * ** * *
204243 AAAATCGAGTATCTTATTCGGACTTGGGTATGAGTATTGAATACAGATATATGAGTGTCTTATTC
1 AAAATCAAGTATCTTATTCAGAC-T-CGTACAAGTATTGAATACAG--GTATGAG-ATCTTATTC
*
204308 ATGCTATCAGC
61 ATTCTATCAGC
204319 AAAATCAAGTATCTTATTCAGACTCAGTACAAGTATTGAATACAGGTATGAGCATCTTATTCATT
1 AAAATCAAGTATCTTATTCAGACTC-GTACAAGTATTGAATACAGGTATGAG-ATCTTATTCATT
204384 CTATCAGC
64 CTATCAGC
** * *
204392 AAAATC-A--A-CTTATTCAGACTCGGGCATGAGTATTGAATACTTGGTA-GTA-ATATTATTCA
1 AAAATCAAGTATCTTATTCAGACTCGTACA--AGTATTGAATAC-AGGTATG-AGATCTTATTCA
204451 TGT-TATCAGC
62 T-TCTATCAGC
*
204461 AAAACCGAAGTATCTTATTC
1 AAAATC-AAGTATCTTATTC
204481 TGTCACAAGC
Statistics
Matches: 137, Mismatches: 14, Indels: 24
0.78 0.08 0.14
Matches are distributed among these distances:
68 3 0.02
69 35 0.26
70 15 0.11
71 6 0.04
72 1 0.01
73 31 0.23
74 7 0.05
75 18 0.13
76 21 0.15
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.34
Consensus pattern (71 bp):
AAAATCAAGTATCTTATTCAGACTCGTACAAGTATTGAATACAGGTATGAGATCTTATTCATTCT
ATCAGC
Found at i:206374 original size:2 final size:2
Alignment explanation
Indices: 206367--206397 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
206357 TCTCTTTTAG
206367 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
206398 TTGTTCACTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:206758 original size:6 final size:7
Alignment explanation
Indices: 206743--206767 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
206733 ATAAATGATC
206743 TTTTCTT
1 TTTTCTT
206750 TTTTCTT
1 TTTTCTT
206757 TTTTCTT
1 TTTTCTT
206764 TTTT
1 TTTT
206768 GAACTAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTCTT
Found at i:210441 original size:23 final size:23
Alignment explanation
Indices: 210415--210466 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
210405 TTGTGCGTGT
210415 TTACTGATTCGCACTATATGTGC
1 TTACTGATTCGCACTATATGTGC
* * *
210438 TTACTGATTTGCACTGTGTGTGC
1 TTACTGATTCGCACTATATGTGC
210461 TTACTG
1 TTACTG
210467 TTTCCCCAGC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.17, C:0.19, G:0.21, T:0.42
Consensus pattern (23 bp):
TTACTGATTCGCACTATATGTGC
Found at i:212948 original size:23 final size:23
Alignment explanation
Indices: 212916--213025 Score: 102
Period size: 23 Copynumber: 4.8 Consensus size: 23
212906 GCTGGGGAAA
*
212916 CAGTAAGCACACACAGTGC-AAT
1 CAGTAGGCACACACAGTGCAAAT
*
212938 CCAGTAGGCACATACAGTGC-AAT
1 -CAGTAGGCACACACAGTGCAAAT
* * **
212961 CAGTAGGCGCACATAACGCAAAT
1 CAGTAGGCACACACAGTGCAAAT
212984 CAGTAGGCACAC-CAGGTGCGAAA-
1 CAGTAGGCACACACA-GTGC-AAAT
*
213007 CAGTAAGCACACACAGTGC
1 CAGTAGGCACACACAGTGC
213026 TGAACAGTAA
Statistics
Matches: 71, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
22 15 0.21
23 51 0.72
24 5 0.07
ACGTcount: A:0.37, C:0.27, G:0.23, T:0.13
Consensus pattern (23 bp):
CAGTAGGCACACACAGTGCAAAT
Found at i:212965 original size:45 final size:46
Alignment explanation
Indices: 212912--213025 Score: 126
Period size: 45 Copynumber: 2.5 Consensus size: 46
212902 AAGTGCTGGG
212912 GAAACAGTAAGCACACACAGTGC-AATCCAGTAGGCACATACA-GTGC
1 GAAACAGTAAGCACACACAGTGCAAAT-CAGTAGGCACA-ACAGGTGC
* * * * ** *
212958 -AATCAGTAGGCGCACATAACGCAAATCAGTAGGCACACCAGGTGC
1 GAAACAGTAAGCACACACAGTGCAAATCAGTAGGCACAACAGGTGC
213003 GAAACAGTAAGCACACACAGTGC
1 GAAACAGTAAGCACACACAGTGC
213026 TGAACAGTAA
Statistics
Matches: 52, Mismatches: 13, Indels: 6
0.73 0.18 0.08
Matches are distributed among these distances:
44 2 0.04
45 31 0.60
46 19 0.37
ACGTcount: A:0.39, C:0.26, G:0.23, T:0.12
Consensus pattern (46 bp):
GAAACAGTAAGCACACACAGTGCAAATCAGTAGGCACAACAGGTGC
Found at i:213138 original size:24 final size:26
Alignment explanation
Indices: 213100--213147 Score: 66
Period size: 24 Copynumber: 1.9 Consensus size: 26
213090 TCTACATGGG
213100 CATAATCTCTCATAT-TCATCATTTCT
1 CATAATCTCTCATATATCA-CATTTCT
213126 CATAAT-T-TCATATATCACATTT
1 CATAATCTCTCATATATCACATTT
213148 AGATTTCTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 11 0.52
25 4 0.19
26 6 0.29
ACGTcount: A:0.31, C:0.23, G:0.00, T:0.46
Consensus pattern (26 bp):
CATAATCTCTCATATATCACATTTCT
Found at i:215967 original size:31 final size:28
Alignment explanation
Indices: 215907--215963 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
215897 AATTAATATA
*
215907 TAATTATTATTTCTATAAAAGAGTATTT
1 TAATTATTATTTATATAAAAGAGTATTT
* *
215935 TAATTATTATTTATATAGAAGAGTCTTT
1 TAATTATTATTTATATAAAAGAGTATTT
215963 T
1 T
215964 TTTATTAGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.37, C:0.04, G:0.09, T:0.51
Consensus pattern (28 bp):
TAATTATTATTTATATAAAAGAGTATTT
Found at i:216517 original size:2 final size:2
Alignment explanation
Indices: 216510--216538 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
216500 TTTTAGTGTT
216510 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
216539 TAATACGAGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:216836 original size:29 final size:30
Alignment explanation
Indices: 216776--216846 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 30
216766 ATAATTTGTA
* * *
216776 TTTTTATAACTTTTAAAAAATTAAATTTAT
1 TTTTTATTATTTTTAAAAAATTAAATTGAT
*
216806 TTTTTATTATTTTTAAAAAATTATA-TGAT
1 TTTTTATTATTTTTAAAAAATTAAATTGAT
*
216835 TTTATCATTATT
1 TTT-TTATTATT
216847 AATTTAAAGT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
29 6 0.17
30 29 0.83
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.58
Consensus pattern (30 bp):
TTTTTATTATTTTTAAAAAATTAAATTGAT
Found at i:217143 original size:21 final size:22
Alignment explanation
Indices: 217119--217159 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
217109 AATTTCGTAA
*
217119 TTAA-ATTTGATATTTTTTAAG
1 TTAATATTTAATATTTTTTAAG
*
217140 TTAATATTTAATTTTTTTTA
1 TTAATATTTAATATTTTTTA
217160 TCTCATTTGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (22 bp):
TTAATATTTAATATTTTTTAAG
Found at i:217153 original size:27 final size:28
Alignment explanation
Indices: 217094--217150 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
217084 TCCGTATCTC
* **
217094 AATTTGATATTTTTTAATTTCGTAATTA
1 AATTTGATATTTTTTAAGTTAATAATTA
*
217122 AATTTGATATTTTTTAAGTTAATATTTA
1 AATTTGATATTTTTTAAGTTAATAATTA
217150 A
1 A
217151 TTTTTTTTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.35, C:0.02, G:0.07, T:0.56
Consensus pattern (28 bp):
AATTTGATATTTTTTAAGTTAATAATTA
Found at i:217972 original size:43 final size:43
Alignment explanation
Indices: 217925--218022 Score: 169
Period size: 43 Copynumber: 2.3 Consensus size: 43
217915 AATTTAAAAA
217925 AAAATTAAATTAGTAATGGTAAAATTACAAATCCAAAAATTAT
1 AAAATTAAATTAGTAATGGTAAAATTACAAATCCAAAAATTAT
*
217968 AAAATTAAATTAGTAATGGTAAAATTACAAGTCCAAAAATTAT
1 AAAATTAAATTAGTAATGGTAAAATTACAAATCCAAAAATTAT
*
218011 AATAATTTAATT
1 AA-AATTAAATT
218023 TAATCTTTTA
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
43 44 0.85
44 8 0.15
ACGTcount: A:0.54, C:0.06, G:0.07, T:0.33
Consensus pattern (43 bp):
AAAATTAAATTAGTAATGGTAAAATTACAAATCCAAAAATTAT
Found at i:218087 original size:22 final size:23
Alignment explanation
Indices: 218033--218094 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
218023 TAATCTTTTA
* *
218033 AAAATTATAAAATATAGATTATT
1 AAAATAATAAAATATACATTATT
*
218056 AAAATAATAAAAT-TACATTTTT
1 AAAATAATAAAATATACATTATT
* *
218078 AATATCATAAAAATATA
1 AAAATAAT-AAAATATA
218095 TAATTTAATT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
22 13 0.41
23 17 0.53
24 2 0.06
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.37
Consensus pattern (23 bp):
AAAATAATAAAATATACATTATT
Found at i:227912 original size:20 final size:19
Alignment explanation
Indices: 227879--227921 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
227869 AGTCTGACTC
*
227879 TTTTTTTAAATAAATTTAAT
1 TTTTTTTAAATAAAATT-AT
**
227899 TTTTTTTATTTAAAATTAT
1 TTTTTTTAAATAAAATTAT
227918 TTTT
1 TTTT
227922 CGAACTTAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTTTTTAAATAAAATTAT
Found at i:228829 original size:18 final size:19
Alignment explanation
Indices: 228792--228829 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
228782 TGCATTATTT
*
228792 ATTCGAATAATAAATGTAG
1 ATTCGAATAATAAATATAG
*
228811 ATTCGAAT-TTAAATATAG
1 ATTCGAATAATAAATATAG
228829 A
1 A
228830 GATTCGGATC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.47, C:0.05, G:0.13, T:0.34
Consensus pattern (19 bp):
ATTCGAATAATAAATATAG
Found at i:230472 original size:18 final size:18
Alignment explanation
Indices: 230449--230487 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
230439 ATAGTTTTGA
230449 TACTTATCCTGGTAAAAG
1 TACTTATCCTGGTAAAAG
*
230467 TACTTATCTTGGTAAAAG
1 TACTTATCCTGGTAAAAG
230485 TAC
1 TAC
230488 CATAGAGGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.36
Consensus pattern (18 bp):
TACTTATCCTGGTAAAAG
Found at i:232280 original size:31 final size:31
Alignment explanation
Indices: 232245--232373 Score: 102
Period size: 31 Copynumber: 4.2 Consensus size: 31
232235 AAGGATTTCC
*
232245 AAAAATTTTGGAGGGTTTAATTAACATTTTT
1 AAAAATTTTGGAGGGTTTAATTAAAATTTTT
* * * * *
232276 AAAAAATTT-GATAGGATTAA-TGAGATTTTT
1 AAAAATTTTGGA-GGGTTTAATTAAAATTTTT
* * *
232306 CAAAAATGTTGGAGAGTATAATTAAAATTTTT
1 -AAAAATTTTGGAGGGTTTAATTAAAATTTTT
* * *
232338 AAAACTTTTGGAAGGCTTT-ATTAAAATTTCT
1 AAAAATTTTGG-AGGGTTTAATTAAAATTTTT
232369 AAAAA
1 AAAAA
232374 AAGTGATGGG
Statistics
Matches: 73, Mismatches: 20, Indels: 10
0.71 0.19 0.10
Matches are distributed among these distances:
30 10 0.14
31 49 0.67
32 14 0.19
ACGTcount: A:0.42, C:0.04, G:0.15, T:0.40
Consensus pattern (31 bp):
AAAAATTTTGGAGGGTTTAATTAAAATTTTT
Found at i:232337 original size:32 final size:31
Alignment explanation
Indices: 232244--232341 Score: 76
Period size: 32 Copynumber: 3.2 Consensus size: 31
232234 TAAGGATTTC
* * *
232244 CAAAAATTTTGGAGGGTTTAATTAACATTTTT
1 CAAAAA-TTTGGAGAGTATAATTAAAATTTTT
* * * * *
232276 AAAAAATTT-GATAGGATTAA-TGAGATTTTT
1 CAAAAATTTGGAGAGTA-TAATTAAAATTTTT
232306 CAAAAATGTTGGAGAGTATAATTAAAATTTTT
1 CAAAAAT-TTGGAGAGTATAATTAAAATTTTT
232338 -AAAA
1 CAAAA
232342 CTTTTGGAAG
Statistics
Matches: 50, Mismatches: 12, Indels: 9
0.70 0.17 0.13
Matches are distributed among these distances:
30 17 0.34
31 15 0.30
32 18 0.36
ACGTcount: A:0.43, C:0.03, G:0.15, T:0.39
Consensus pattern (31 bp):
CAAAAATTTGGAGAGTATAATTAAAATTTTT
Found at i:242168 original size:35 final size:35
Alignment explanation
Indices: 242122--242191 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
242112 GGAGAAAACC
242122 AGTCTTTTTGTTGTAAGTACTACAAGATTTTAAAT
1 AGTCTTTTTGTTGTAAGTACTACAAGATTTTAAAT
242157 AGTCTTTTTGTTGTAAGTACTACAAGATTTTAAAT
1 AGTCTTTTTGTTGTAAGTACTACAAGATTTTAAAT
242192 TGAAAATTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (35 bp):
AGTCTTTTTGTTGTAAGTACTACAAGATTTTAAAT
Found at i:243237 original size:23 final size:23
Alignment explanation
Indices: 243183--243238 Score: 85
Period size: 23 Copynumber: 2.4 Consensus size: 23
243173 ACACTAGCAC
*
243183 GCTCTCTGATTAGCACTGTGTGT
1 GCTCTCTGTTTAGCACTGTGTGT
* *
243206 GCTCTCTGTTTATCACTTTGTGT
1 GCTCTCTGTTTAGCACTGTGTGT
243229 GCTCTCTGTT
1 GCTCTCTGTT
243239 GCCCAACACT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.09, C:0.23, G:0.21, T:0.46
Consensus pattern (23 bp):
GCTCTCTGTTTAGCACTGTGTGT
Found at i:259474 original size:16 final size:16
Alignment explanation
Indices: 259453--259484 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
259443 TTAAAAATAC
259453 ATTAAAAATTATTTAT
1 ATTAAAAATTATTTAT
259469 ATTAAAAATTATTTAT
1 ATTAAAAATTATTTAT
259485 GAATAACAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
ATTAAAAATTATTTAT
Found at i:259613 original size:18 final size:18
Alignment explanation
Indices: 259553--259612 Score: 61
Period size: 18 Copynumber: 3.3 Consensus size: 18
259543 TAATCTCTCT
*
259553 AAAAAATTAAAAATATTTA
1 AAAAAATTCAAAAT-TTTA
*
259572 TAAAAATTCCAAAA-TTTA
1 AAAAAATT-CAAAATTTTA
*
259590 ATAAAATT-AAAATTTTA
1 AAAAAATTCAAAATTTTA
259607 AAAAAA
1 AAAAAA
259613 AATTCTAAAG
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
16 4 0.12
17 9 0.26
18 10 0.29
19 7 0.21
20 4 0.12
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (18 bp):
AAAAAATTCAAAATTTTA
Found at i:262782 original size:29 final size:28
Alignment explanation
Indices: 262709--262900 Score: 151
Period size: 30 Copynumber: 6.6 Consensus size: 28
262699 CCAAACTGTC
*
262709 CAAAAATTCCGTTTTTACACCCG-AACTT
1 CAAAAATTCCATTTTTAC-CCCGAAACTT
* * *
262737 TAGAAAA-TCTCATTTTTTAACTCGAAACTT
1 CA-AAAATTC-CA-TTTTTACCCCGAAACTT
*
262767 CGAAAAATTCCATTTTTACCCCCAAACTTT
1 C-AAAAATTCCATTTTTACCCCGAAAC-TT
**
262797 CAAAAA-TCCTATTTTTAACCCTAAAACTT
1 CAAAAATTCC-ATTTTT-ACCCCGAAACTT
262826 CCAAAAATTCCA-TTTTACCCCTG-AACTTT
1 -CAAAAATTCCATTTTTACCCC-GAAAC-TT
*
262855 CAAAAATCCCATTTTTGACCCCGAAACTT
1 CAAAAATTCCATTTTT-ACCCCGAAACTT
*
262884 CCAAAAATTCAATTTTT
1 -CAAAAATTCCATTTTT
262901 TCCTATTTTG
Statistics
Matches: 132, Mismatches: 15, Indels: 32
0.74 0.08 0.18
Matches are distributed among these distances:
28 23 0.17
29 46 0.35
30 57 0.43
31 6 0.05
ACGTcount: A:0.35, C:0.26, G:0.04, T:0.34
Consensus pattern (28 bp):
CAAAAATTCCATTTTTACCCCGAAACTT
Found at i:262831 original size:30 final size:28
Alignment explanation
Indices: 262697--262974 Score: 141
Period size: 29 Copynumber: 9.1 Consensus size: 28
262687 CCTCAGAGGT
*
262697 CCCCAAACTGTCCAAAAATTCCGTTTTT-A
1 CCCCAAACT-TCCAAAAA-TCCATTTTTAA
* *
262726 CACCCGAACTT-TAGAAAATCTCATTTTTTAA
1 C-CCCAAACTTCCA-AAAATC-CA-TTTTTAA
* * * *
262757 CTCGAAACTTCGAAAAATTCCATTTTTAC
1 CCCCAAACTTCCAAAAA-TCCATTTTTAA
*
262786 CCCCAAACTTTCAAAAATCCTATTTTTAA
1 CCCCAAACTTCCAAAAATCC-ATTTTTAA
*
262815 CCCTAAAACTTCCAAAAATTCCA-TTTT-A
1 CCC-CAAACTTCCAAAAA-TCCATTTTTAA
* * *
262843 CCCCTGAACTTTCAAAAATCCCATTTTTGA
1 CCCC-AAACTTCCAAAAAT-CCATTTTTAA
*
262873 CCCCGAAACTTCCAAAAATTCAATTTTTTCCTATTTTGA
1 CCCC-AAACTTCCAAAAA-TCCA--TTTT--TA-----A
*
262912 CCCCAAAACTTCCAAAAATTCCATTTTTAC
1 CCCCAA-ACTTCCAAAAA-TCCATTTTTAA
* * *
262942 CCCCGAACTTCTAAAAATCCCATTTTTGA
1 CCCCAAACTTCCAAAAAT-CCATTTTTAA
262971 CCCC
1 CCCC
262975 GAATTTTCCC
Statistics
Matches: 194, Mismatches: 29, Indels: 52
0.71 0.11 0.19
Matches are distributed among these distances:
27 1 0.01
28 25 0.13
29 66 0.34
30 60 0.31
31 9 0.05
32 4 0.02
34 1 0.01
35 2 0.01
37 4 0.02
38 2 0.01
39 20 0.10
ACGTcount: A:0.33, C:0.29, G:0.04, T:0.33
Consensus pattern (28 bp):
CCCCAAACTTCCAAAAATCCATTTTTAA
Found at i:262853 original size:58 final size:56
Alignment explanation
Indices: 262701--262899 Score: 213
Period size: 58 Copynumber: 3.4 Consensus size: 56
262691 AGAGGTCCCC
* *
262701 AAACTGTCCAAAAATTCCGTTTTTACACCCGAACTTT-AGAAAAT-CTCATTTTTTAACTCG
1 AAACT-TCCAAAAATTCC-ATTTTAC-CCCGAACTTTCA-AAAATCCT-A-TTTTTAACCCG
* * *
262761 AAACTTCGAAAAATTCCATTTTTACCCCCAAACTTTCAAAAATCCTATTTTTAACCCTA
1 AAACTTCCAAAAATTCCA-TTTTA-CCCCGAACTTTCAAAAATCCTATTTTTAACCC-G
* *
262820 AAACTTCCAAAAATTCCATTTTACCCCTGAACTTTCAAAAATCCCATTTTTGACCCCG
1 AAACTTCCAAAAATTCCATTTTACCCC-GAACTTTCAAAAATCCTATTTTT-AACCCG
*
262878 AAACTTCCAAAAATTCAATTTT
1 AAACTTCCAAAAATTCCATTTT
262900 TTCCTATTTT
Statistics
Matches: 121, Mismatches: 11, Indels: 16
0.82 0.07 0.11
Matches are distributed among these distances:
57 4 0.03
58 56 0.46
59 52 0.43
60 9 0.07
ACGTcount: A:0.36, C:0.26, G:0.05, T:0.34
Consensus pattern (56 bp):
AAACTTCCAAAAATTCCATTTTACCCCGAACTTTCAAAAATCCTATTTTTAACCCG
Found at i:262937 original size:29 final size:29
Alignment explanation
Indices: 262900--263002 Score: 91
Period size: 29 Copynumber: 3.5 Consensus size: 29
262890 ATTCAATTTT
262900 TTCCTATTTTGACCCCAAAACTTCCAAAAA
1 TTCC-ATTTTGACCCCAAAACTTCCAAAAA
* ** *
262930 TTCCATTTTTACCCCCGAACTTCTAAAAA
1 TTCCATTTTGACCCCAAAACTTCCAAAAA
* * ** *
262959 TCCCATTTTTGACCCCGAATTTTCCCAAAA
1 TTCCA-TTTTGACCCCAAAACTTCCAAAAA
*
262989 TTACATTTT-ACCCC
1 TTCCATTTTGACCCC
263003 TGGTATCCGA
Statistics
Matches: 58, Mismatches: 14, Indels: 4
0.76 0.18 0.05
Matches are distributed among these distances:
28 5 0.09
29 29 0.50
30 24 0.41
ACGTcount: A:0.30, C:0.32, G:0.04, T:0.34
Consensus pattern (29 bp):
TTCCATTTTGACCCCAAAACTTCCAAAAA
Found at i:262947 original size:69 final size:66
Alignment explanation
Indices: 262833--262968 Score: 166
Period size: 69 Copynumber: 2.0 Consensus size: 66
262823 CTTCCAAAAA
** * *
262833 TTCCATTTTACCCCTGAACTTTCAAAAATCCCATTTTTGACCCCGAAACTTCCAAAAATTCAATT
1 TTCCATTTTACCCCAAAACTTCCAAAAATCCCATTTTTGACCCCG-AACTTCCAAAAATCCAATT
262898 TT
65 TT
* * *
262900 TTCCTATTTTGACCCCAAAACTTCCAAAAATTCCATTTTT-ACCCCCGAACTTCTAAAAATCCCA
1 TTCC-ATTTT-ACCCCAAAACTTCCAAAAATCCCATTTTTGA-CCCCGAACTTCCAAAAATCCAA
262964 TTTT
63 TTTT
262968 T
1 T
262969 GACCCCGAAT
Statistics
Matches: 59, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
67 4 0.07
68 25 0.42
69 30 0.51
ACGTcount: A:0.31, C:0.29, G:0.04, T:0.36
Consensus pattern (66 bp):
TTCCATTTTACCCCAAAACTTCCAAAAATCCCATTTTTGACCCCGAACTTCCAAAAATCCAATTT
T
Found at i:265865 original size:15 final size:17
Alignment explanation
Indices: 265835--265866 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
265825 TGGGTTTTAA
265835 ATGGGTTAATTTGGGTT
1 ATGGGTTAATTTGGGTT
265852 ATGGG-TAA-TTGGGTT
1 ATGGGTTAATTTGGGTT
265867 TAGGTTTTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.19, C:0.00, G:0.38, T:0.44
Consensus pattern (17 bp):
ATGGGTTAATTTGGGTT
Found at i:269796 original size:18 final size:17
Alignment explanation
Indices: 269775--269835 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 17
269765 AAGAATTAAT
269775 TTTTTAAAATTTTATATA
1 TTTTTAAAATTTT-TATA
*
269793 TTTTTATAATTTTCTATA
1 TTTTTAAAATTTT-TATA
*
269811 TTTCTTATATATTTTTA-A
1 TTT-TTA-AAATTTTTATA
269829 TTTTTAA
1 TTTTTAA
269836 TCCTTTTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
16 1 0.03
17 3 0.08
18 23 0.62
19 5 0.14
20 5 0.14
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTTTAAAATTTTTATA
Found at i:269797 original size:10 final size:10
Alignment explanation
Indices: 269784--269827 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
269774 TTTTTTAAAA
269784 TTTTATATAT
1 TTTTATATAT
269794 TTTTATA-AT
1 TTTTATATAT
269803 TTTCTATAT-T
1 TTT-TATATAT
*
269813 TCTTATATAT
1 TTTTATATAT
269823 TTTTA
1 TTTTA
269828 ATTTTTAATC
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
9 10 0.34
10 19 0.66
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (10 bp):
TTTTATATAT
Found at i:269867 original size:18 final size:19
Alignment explanation
Indices: 269846--269886 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
269836 TCCTTTTTTT
* *
269846 TTTTTGTAT-TTTTTATGA
1 TTTTTCTATATTTTTATAA
269864 -TTTTCTATATTTTTATAA
1 TTTTTCTATATTTTTATAA
269882 TTTTT
1 TTTTT
269887 AACCATTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
17 7 0.37
18 8 0.42
19 4 0.21
ACGTcount: A:0.20, C:0.02, G:0.05, T:0.73
Consensus pattern (19 bp):
TTTTTCTATATTTTTATAA
Found at i:283126 original size:28 final size:28
Alignment explanation
Indices: 283095--283167 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 28
283085 CCAAATATCA
* * * *
283095 CCACAAAAGTTTCCTTTAATTGAGATAG
1 CCACAAAGGCTTCCTTTAACTAAGATAG
* *
283123 CCACAAAGGCATCATTTAACTAAGATAG
1 CCACAAAGGCTTCCTTTAACTAAGATAG
283151 CCACAAAGGCTTCCTTT
1 CCACAAAGGCTTCCTTT
283168 CAGAGACTCG
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (28 bp):
CCACAAAGGCTTCCTTTAACTAAGATAG
Found at i:283235 original size:28 final size:29
Alignment explanation
Indices: 283200--283300 Score: 91
Period size: 28 Copynumber: 3.6 Consensus size: 29
283190 AAAGGCGCCA
283200 TTTAACAGAAATAGCCACAAAGGCTTT-C
1 TTTAACAGAAATAGCCACAAAGGCTTTCC
* * *
283228 TTTGACAG-AGTCAGCCATAAAGGCTTTCC
1 TTTAACAGAAAT-AGCCACAAAGGCTTTCC
* * * *
283257 TTTAACATAGATCGCCACAAAGGC-ATCC
1 TTTAACAGAAATAGCCACAAAGGCTTTCC
* *
283285 TTTAATAGAGATAGCC
1 TTTAACAGAAATAGCC
283301 TGTAACATCC
Statistics
Matches: 57, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
27 2 0.04
28 37 0.65
29 17 0.30
30 1 0.02
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.26
Consensus pattern (29 bp):
TTTAACAGAAATAGCCACAAAGGCTTTCC
Found at i:284951 original size:23 final size:23
Alignment explanation
Indices: 284921--284974 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
284911 ACGCTAGCGC
284921 GCTTACTGTTTCGCACTTCGTGT
1 GCTTACTGTTTCGCACTTCGTGT
*
284944 GCTTACTGTTTCGCACTTTGTGT
1 GCTTACTGTTTCGCACTTCGTGT
*
284967 GCCTACTG
1 GCTTACTG
284975 ATTTGCGTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.09, C:0.26, G:0.22, T:0.43
Consensus pattern (23 bp):
GCTTACTGTTTCGCACTTCGTGT
Found at i:285027 original size:23 final size:23
Alignment explanation
Indices: 284997--285042 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
284987 TGCGCCTACT
284997 GATTGCACTGTGTGTGCCTATTG
1 GATTGCACTGTGTGTGCCTATTG
*
285020 GATTGCACTGTGTGTGCTTATTG
1 GATTGCACTGTGTGTGCCTATTG
285043 TTTCCCCAGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.13, C:0.15, G:0.30, T:0.41
Consensus pattern (23 bp):
GATTGCACTGTGTGTGCCTATTG
Found at i:296134 original size:22 final size:23
Alignment explanation
Indices: 296074--296136 Score: 83
Period size: 23 Copynumber: 2.8 Consensus size: 23
296064 TTAAGAATCG
296074 AAATTAAATTATAATTTTTATAA
1 AAATTAAATTATAATTTTTATAA
* * *
296097 TAATAAAAATATAATTTTTA-AA
1 AAATTAAATTATAATTTTTATAA
*
296119 AAATTAAATTAAAATTTT
1 AAATTAAATTATAATTTT
296137 ATTATTTTAA
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
22 16 0.48
23 17 0.52
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (23 bp):
AAATTAAATTATAATTTTTATAA
Found at i:297642 original size:18 final size:18
Alignment explanation
Indices: 297619--297661 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
297609 AGGAAGCTTT
297619 CTACAAGAGTTGTAAGTA
1 CTACAAGAGTTGTAAGTA
297637 CTACAAGAGTTGTAAGTA
1 CTACAAGAGTTGTAAGTA
297655 CTACAAG
1 CTACAAG
297662 TATTAAAAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.40, C:0.14, G:0.21, T:0.26
Consensus pattern (18 bp):
CTACAAGAGTTGTAAGTA
Found at i:298410 original size:17 final size:18
Alignment explanation
Indices: 298388--298423 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
298378 TAATGTAAAA
298388 AATAAAAA-GAAAAATTG
1 AATAAAAATGAAAAATTG
298405 AATAAAAATGAAAAATTG
1 AATAAAAATGAAAAATTG
298423 A
1 A
298424 TCCATATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.69, C:0.00, G:0.11, T:0.19
Consensus pattern (18 bp):
AATAAAAATGAAAAATTG
Found at i:300700 original size:37 final size:38
Alignment explanation
Indices: 300650--300728 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 38
300640 TTCGAAGCAA
* *
300650 TAAAGTGACACCCAGTGTCTCATCG-GTCTAGCTGAAG
1 TAAAGTGACACCCAGTATCTCATCGAATCTAGCTGAAG
** *
300687 TAAAGTGGTACCCAGTATCTCATCGAATCTATCTGAAG
1 TAAAGTGACACCCAGTATCTCATCGAATCTAGCTGAAG
300725 TAAA
1 TAAA
300729 ATAATGACAC
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
37 22 0.61
38 14 0.39
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.27
Consensus pattern (38 bp):
TAAAGTGACACCCAGTATCTCATCGAATCTAGCTGAAG
Found at i:304266 original size:51 final size:51
Alignment explanation
Indices: 304202--304348 Score: 177
Period size: 51 Copynumber: 2.9 Consensus size: 51
304192 TTTCGTATAG
* * * * *
304202 GAATTCATATACTCACGATGACTCTGAGTCATTGGACCTTTAATCCATCAT
1 GAATTCATTTACTCACGATGACACTGAGTCATCGGACCTTTAATCCATAAA
* * * *
304253 GGATTCATTTACTCACGATGACACTTAGTCATCGGACCTTTAATTCGTAAA
1 GAATTCATTTACTCACGATGACACTGAGTCATCGGACCTTTAATCCATAAA
* * *
304304 GAATTCATTTACTCACGATGACACTTAGTCTTCAGACCCTTTAAT
1 GAATTCATTTACTCACGATGACACTGAGTCATCGGA-CCTTTAAT
304349 TTATAGCTCG
Statistics
Matches: 83, Mismatches: 12, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
51 75 0.90
52 8 0.10
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (51 bp):
GAATTCATTTACTCACGATGACACTGAGTCATCGGACCTTTAATCCATAAA
Found at i:305565 original size:84 final size:82
Alignment explanation
Indices: 305422--305648 Score: 213
Period size: 84 Copynumber: 2.7 Consensus size: 82
305412 CTAACATCGT
* * ** * *
305422 AGTGCATCATCGGATGAACTAAAGTAATTATACTGGCACACATAGTGCATCCTCAGATAAATTGA
1 AGTGCATCATCGGAT-AACTGAAGTAA-TATACTAGCACGTA-AGTGCATCATCAGATAAATCGA
*
305487 AG-CAATCATACTAGCACACA
63 AGTAAAT-ATACTAGCACACA
* * * **
305507 TCGTGCATCATCAGATAACCGAAGTAATCATACTAGCACGTAAGTGCATCATTGGATAAATCGAA
1 -AGTGCATCATCGGATAACTGAAGTAAT-ATACTAGCACGTAAGTGCATCATCAGATAAATCGAA
* * *
305572 GTAAATATGCTGGCACATA
64 GTAAATATACTAGCACACA
* * *
305591 AGTGCATCATTGGATATACTGAAGTAAATATACTAACATGTAAGTGCATCATCAGATA
1 AGTGCATCATCGGATA-ACTGAAGT-AATATACTAGCACGTAAGTGCATCATCAGATA
305649 TACCAAAATA
Statistics
Matches: 114, Mismatches: 23, Indels: 10
0.78 0.16 0.07
Matches are distributed among these distances:
83 13 0.11
84 63 0.55
85 25 0.22
86 13 0.11
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.26
Consensus pattern (82 bp):
AGTGCATCATCGGATAACTGAAGTAATATACTAGCACGTAAGTGCATCATCAGATAAATCGAAGT
AAATATACTAGCACACA
Found at i:305651 original size:42 final size:41
Alignment explanation
Indices: 305422--305648 Score: 161
Period size: 42 Copynumber: 5.4 Consensus size: 41
305412 CTAACATCGT
* * * * **
305422 AGTGCATCATCGGATGAACTAAAGTAATTATACTGGCACACA
1 AGTGCATCATCAGAT-AACTGAAGTAAATATACTAGCACGTA
* * * **
305464 TAGTGCATCCTCAGATAAATTGAAG-CAATCATACTAGCACACA
1 -AGTGCATCATCAGAT-AACTGAAGTAAAT-ATACTAGCACGTA
* *
305507 TCGTGCATCATCAGATAACCGAAGT-AATCATACTAGCACGTA
1 -AGTGCATCATCAGATAACTGAAGTAAAT-ATACTAGCACGTA
** * * * *
305549 AGTGCATCATTGGATAAATCGAAGTAAATATGCTGGCACATA
1 AGTGCATCATCAGATAACT-GAAGTAAATATACTAGCACGTA
** * *
305591 AGTGCATCATTGGATATACTGAAGTAAATATACTAACATGTA
1 AGTGCATCATCAGATA-ACTGAAGTAAATATACTAGCACGTA
305633 AGTGCATCATCAGATA
1 AGTGCATCATCAGATA
305649 TACCAAAATA
Statistics
Matches: 149, Mismatches: 30, Indels: 11
0.78 0.16 0.06
Matches are distributed among these distances:
41 14 0.09
42 85 0.57
43 50 0.34
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.26
Consensus pattern (41 bp):
AGTGCATCATCAGATAACTGAAGTAAATATACTAGCACGTA
Found at i:316692 original size:10 final size:10
Alignment explanation
Indices: 316677--316709 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
316667 ACCGACTAAC
316677 TTTTTAATAA
1 TTTTTAATAA
316687 TTTTTAA-AA
1 TTTTTAATAA
316696 TATTTTAATAA
1 T-TTTTAATAA
316707 TTT
1 TTT
316710 CTTTAATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
9 3 0.14
10 15 0.71
11 3 0.14
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (10 bp):
TTTTTAATAA
Found at i:330811 original size:23 final size:22
Alignment explanation
Indices: 330785--330833 Score: 53
Period size: 24 Copynumber: 2.1 Consensus size: 22
330775 CGTGATTCTC
**
330785 AATTCAAATTTTATTATAGTTTA
1 AATTCAAATTAGATTATA-TTTA
*
330808 AATTTTAAATTAGATTATATTTA
1 AA-TTCAAATTAGATTATATTTA
330831 AAT
1 AAT
330834 CATTTTGATC
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
22 1 0.05
23 8 0.36
24 13 0.59
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (22 bp):
AATTCAAATTAGATTATATTTA
Found at i:332947 original size:18 final size:16
Alignment explanation
Indices: 332903--332940 Score: 60
Period size: 15 Copynumber: 2.4 Consensus size: 16
332893 GGTAATAGTA
332903 ATAATAATAAT-TTTT
1 ATAATAATAATATTTT
*
332918 TTAATAATAATATTTT
1 ATAATAATAATATTTT
332934 ATAATAA
1 ATAATAA
332941 CTAAATAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
ATAATAATAATATTTT
Found at i:334017 original size:30 final size:31
Alignment explanation
Indices: 333983--334236 Score: 171
Period size: 30 Copynumber: 8.6 Consensus size: 31
333973 TAGAAATCAT
*
333983 ATTTTGACCCCCAAACTTTTTCC-AAATTAC
1 ATTTTGACCCCTAAACTTTTTCCAAAATTAC
* * * *
334013 ATTTTAACCCATTAAC-TTTTCCAAAATTAT
1 ATTTTGACCCCTAAACTTTTTCCAAAATTAC
* * * *
334043 ATTTTGACCCTTAAA-TTTCTCTAAAATTAT
1 ATTTTGACCCCTAAACTTTTTCCAAAATTAC
* *
334073 ATTTTTAACCCTAAAC-TTTTCCAAAATTAC
1 ATTTTGACCCCTAAACTTTTTCCAAAATTAC
*
334103 ATTTTGACCCCTAAAC--TTTCCAAAATTAT
1 ATTTTGACCCCTAAACTTTTTCCAAAATTAC
* * * * *
334132 TTTTTTA-ACCTTAA-TTTTTCAAAAATTACC
1 ATTTTGACCCCTAAACTTTTTCCAAAATTA-C
*
334162 ATTTT-ACCCCTAAAC--TTCCCAAAATT-C
1 ATTTTGACCCCTAAACTTTTTCCAAAATTAC
** *
334189 AATTTTTGA--CCTTGA-TTTTTCCAAAATTTCC
1 -A-TTTTGACCCCTAAACTTTTTCCAAAA-TTAC
334220 ATTTT-ACCCCTAAACTT
1 ATTTTGACCCCTAAACTT
334237 CTCGAAATTC
Statistics
Matches: 171, Mismatches: 35, Indels: 35
0.71 0.15 0.15
Matches are distributed among these distances:
27 1 0.01
28 11 0.06
29 60 0.35
30 96 0.56
31 3 0.02
ACGTcount: A:0.33, C:0.23, G:0.02, T:0.42
Consensus pattern (31 bp):
ATTTTGACCCCTAAACTTTTTCCAAAATTAC
Found at i:334171 original size:58 final size:58
Alignment explanation
Indices: 333983--334527 Score: 282
Period size: 58 Copynumber: 9.3 Consensus size: 58
333973 TAGAAATCAT
* * * * *
333983 ATTTTGACCCCCAAACTTTTTCC-AAATTA-CATTTTAACCCATTAACTTTTCCAAAATTA-T
1 ATTTT-ACCCCTAAAC--TTTCCAAAATTATAATTTTAA-CC-TTAATTTTTCAAAAATTACC
* * * * *
334043 ATTTTGACCCTTAAA-TTTCTCTAAAATTATATTTTTAACCCTAAACTTTTCCAAAATTA-C
1 ATTTT-ACCCCTAAACTTTC-C-AAAATTATAATTTTAA-CCTTAATTTTTCAAAAATTACC
**
334103 ATTTTGACCCCTAAACTTTCCAAAATTATTTTTTTAACCTTAATTTTTCAAAAATTACC
1 ATTTT-ACCCCTAAACTTTCCAAAATTATAATTTTAACCTTAATTTTTCAAAAATTACC
* * * * * *
334162 ATTTTACCCCTAAACTTCCCAAAATTCA-ATTTTTGACCTTGATTTTTCCAAAATTTCC
1 ATTTTACCCCTAAACTTTCCAAAATT-ATAATTTTAACCTTAATTTTTCAAAAATTACC
* ** * * **
334220 ATTTTACCCCTAAAC-TTCTCGAAATT-CCATTTTGACCTCAATTTTTCCAAAGTTTACC
1 ATTTTACCCCTAAACTTTC-CAAAATTATAATTTTAACCTTAATTTTT-CAAAAATTACC
* * * * *
334278 A-TTTA-CCCTCAAAC-TTCCAAAAATCTCATTTTAACCCTGATTTTTCCAAAAATTACC
1 ATTTTACCCCT-AAACTTTCCAAAATTATAATTTTAACCTTAATTTTT-CAAAAATTACC
** * *
334335 ATTTTACACCC-AAAC-TTCCAAAAATT-CCATTTTAACCCTAATTTTTTCCAAAATTACC
1 ATTTTAC-CCCTAAACTTTCC-AAAATTATAATTTTAACCTTAA-TTTTTCAAAAATTACC
* * ** * * *** * *
334393 ATTTTACCCTTAAAATCCCCAAAATT-TCATTTTTGACCCCGATGTCTCCAAAAATTACC
1 ATTTTACCCCTAAACTTTCCAAAATTAT-AATTTTAACCTTAAT-TTTTCAAAAATTACC
** *** *
334452 ATTTTACCTCC-AAAC-TTCCAAAAATT-CCATTTTAACCCCGATTTTTCCAAAAATTATC
1 ATTTTACC-CCTAAACTTTCC-AAAATTATAATTTTAACCTTAATTTTT-CAAAAATTACC
334510 ATTTTA-CCCTCAAACTTT
1 ATTTTACCCCT-AAACTTT
334528 TAAAAATTTT
Statistics
Matches: 394, Mismatches: 64, Indels: 55
0.77 0.12 0.11
Matches are distributed among these distances:
56 11 0.03
57 63 0.16
58 178 0.45
59 74 0.19
60 55 0.14
61 13 0.03
ACGTcount: A:0.33, C:0.26, G:0.02, T:0.39
Consensus pattern (58 bp):
ATTTTACCCCTAAACTTTCCAAAATTATAATTTTAACCTTAATTTTTCAAAAATTACC
Found at i:334314 original size:29 final size:29
Alignment explanation
Indices: 334151--334535 Score: 156
Period size: 29 Copynumber: 13.3 Consensus size: 29
334141 CTTAATTTTT
*
334151 CAAAAATTACCATTTTACCCCT-AAACTTC
1 CAAAAATT-CCATTTTAACCCTCAAACTTC
* * * * * ***
334180 CCAAAATTCAATTTTTGACCTTGATTTTTC
1 CAAAAATTCCA-TTTTAACCCTCAAACTTC
* *
334210 CAAAATTTCCATTTTACCCCT-AAACTTC
1 CAAAAATTCCATTTTAACCCTCAAACTTC
* * **
334238 TC-GAAATTCCATTTTGA-CCTCAATTTTTC
1 -CAAAAATTCCATTTTAACCCTCAA-ACTTC
**
334267 CAAAGTTTACCA-TTT-ACCCTCAAACTTC
1 CAAAAATT-CCATTTTAACCCTCAAACTTC
* ***
334295 CAAAAA-TCTCATTTTAACCCTGATTTTTC
1 CAAAAATTC-CATTTTAACCCTCAAACTTC
334324 CAAAAATTACCATTTT-ACACC-CAAACTTC
1 CAAAAATT-CCATTTTAAC-CCTCAAACTTC
**
334353 CAAAAATTCCATTTTAACCCT-AATTTTTTC
1 CAAAAATTCCATTTTAACCCTCAA--ACTTC
* * *
334383 C-AAAATTACCATTTT-ACCCTTAAAATCC
1 CAAAAATT-CCATTTTAACCCTCAAACTTC
* * * * **
334411 CCAAAATTTCATTTTTGACCC-CGATGTCTC
1 CAAAAATTCCA-TTTTAACCCTCAAACT-TC
334441 CAAAAATTACCATTTT-A-CCTCCAAACTTC
1 CAAAAATT-CCATTTTAACCCT-CAAACTTC
***
334470 CAAAAATTCCATTTTAACCC-CGATTTTTC
1 CAAAAATTCCATTTTAACCCTC-AAACTTC
* *
334499 CAAAAATTATCATTTT-ACCCTCAAACTTT
1 CAAAAATT-CCATTTTAACCCTCAAACTTC
*
334528 TAAAAATT
1 CAAAAATT
334536 TTATTTTCGA
Statistics
Matches: 261, Mismatches: 63, Indels: 64
0.67 0.16 0.16
Matches are distributed among these distances:
26 1 0.00
27 6 0.02
28 57 0.22
29 129 0.49
30 65 0.25
31 3 0.01
ACGTcount: A:0.34, C:0.27, G:0.03, T:0.37
Consensus pattern (29 bp):
CAAAAATTCCATTTTAACCCTCAAACTTC
Found at i:334533 original size:58 final size:58
Alignment explanation
Indices: 334145--334575 Score: 414
Period size: 58 Copynumber: 7.4 Consensus size: 58
334135 TTTAACCTTA
* * **
334145 ATTTTT-CAAAAATTACCATTTTACCC-CTAAACTTCCCAAAATTCAATTTTTGACCTTG
1 ATTTTTCCAAAAATTACCATTTTACCCTC-AAACTTCCAAAAATTCCA-TTTTGACCCCG
* * * *
334203 ATTTTTCC-AAAATTTCCATTTTACCC-CTAAACTTCTC-GAAATTCCATTTTGACCTCA
1 ATTTTTCCAAAAATTACCATTTTACCCTC-AAACTTC-CAAAAATTCCATTTTGACCCCG
** * *
334260 ATTTTTCCAAAGTTTACCA-TTTACCCTCAAACTTCCAAAAA-TCTCATTTTAACCCTG
1 ATTTTTCCAAAAATTACCATTTTACCCTCAAACTTCCAAAAATTC-CATTTTGACCCCG
* **
334317 ATTTTTCCAAAAATTACCATTTTACACC-CAAACTTCCAAAAATTCCATTTTAACCCTA
1 ATTTTTCCAAAAATTACCATTTTAC-CCTCAAACTTCCAAAAATTCCATTTTGACCCCG
* * * * *
334375 ATTTTTTCC-AAAATTACCATTTTACCCTTAAAATCCCCAAAATTTCATTTTTGACCCCG
1 A-TTTTTCCAAAAATTACCATTTTACCCTCAAACTTCCAAAAATTCCA-TTTTGACCCCG
* * *
334434 ATGTCTCCAAAAATTACCATTTTA-CCTCCAAACTTCCAAAAATTCCATTTTAACCCCG
1 ATTTTTCCAAAAATTACCATTTTACCCT-CAAACTTCCAAAAATTCCATTTTGACCCCG
* ** **
334492 ATTTTTCCAAAAATTATCATTTTACCCTCAAACTTTTAAAAATTTTATTTTCGACCCCG
1 ATTTTTCCAAAAATTACCATTTTACCCTCAAACTTCCAAAAATTCCATTTT-GACCCCG
** * *
334551 AACTTTCCCAAAATTATCATTTTAC
1 ATTTTTCCAAAAATTACCATTTTAC
334576 TCTCGAGTGT
Statistics
Matches: 314, Mismatches: 43, Indels: 31
0.81 0.11 0.08
Matches are distributed among these distances:
56 3 0.01
57 62 0.20
58 167 0.53
59 82 0.26
ACGTcount: A:0.33, C:0.27, G:0.03, T:0.38
Consensus pattern (58 bp):
ATTTTTCCAAAAATTACCATTTTACCCTCAAACTTCCAAAAATTCCATTTTGACCCCG
Found at i:334534 original size:117 final size:116
Alignment explanation
Indices: 334089--334575 Score: 494
Period size: 117 Copynumber: 4.2 Consensus size: 116
334079 AACCCTAAAC
* **
334089 TTTTCC-AAAATTA-CATTTTGACCCCTAAACTTTCCAAAATTATT--TTTTTAACCTTAATTTT
1 TTTTCCAAAAATTACCATTTT-ACCCC-AAAC-TTCCAAAA--ATTCCATTTTAACCCCAATTTT
* **
334150 T-CAAAAATTACCATTTTACCC-CTAAACTTCCCAAAA-TTCAATTTTTGACCTTGAT
61 TCCAAAAATTACCATTTTACCCTC-AAACTTCCAAAAATTTC-ATTTTTGACCCCGAT
* * * *
334205 TTTTCC-AAAATTTCCATTTTACCCCTAAACTTCTC-GAAATTCCATTTTGACCTCAATTTTTCC
1 TTTTCCAAAAATTACCATTTTACCCC-AAACTTC-CAAAAATTCCATTTTAACCCCAATTTTTCC
** * * *
334268 AAAGTTTACCA-TTTACCCTCAAACTTCCAAAAATCTCA-TTTTAACCCTGAT
64 AAAAATTACCATTTTACCCTCAAACTTCCAAAAATTTCATTTTTGACCCCGAT
*
334319 TTTTCCAAAAATTACCATTTTACACCCAAACTTCCAAAAATTCCATTTTAACCCTAATTTTTTCC
1 TTTTCCAAAAATTACCATTTTAC-CCCAAACTTCCAAAAATTCCATTTTAACCCCAA-TTTTTCC
* * * *
334384 -AAAATTACCATTTTACCCTTAAAATCCCCAAAATTTCATTTTTGACCCCGAT
64 AAAAATTACCATTTTACCCTCAAACTTCCAAAAATTTCATTTTTGACCCCGAT
* * *
334436 GTCTCCAAAAATTACCATTTTACCTCCAAACTTCCAAAAATTCCATTTTAACCCCGATTTTTCCA
1 TTTTCCAAAAATTACCATTTTACC-CCAAACTTCCAAAAATTCCATTTTAACCCCAATTTTTCCA
* ** * * *
334501 AAAATTATCATTTTACCCTCAAACTTTTAAAAATTTTATTTTCGACCCCGAA
65 AAAATTACCATTTTACCCTCAAACTTCCAAAAATTTCATTTTTGACCCCGAT
* * *
334553 CTTTCCCAAAATTATCATTTTAC
1 TTTTCCAAAAATTACCATTTTAC
334576 TCTCGAGTGT
Statistics
Matches: 313, Mismatches: 43, Indels: 29
0.81 0.11 0.08
Matches are distributed among these distances:
113 3 0.01
114 18 0.06
115 87 0.28
116 76 0.24
117 129 0.41
ACGTcount: A:0.33, C:0.26, G:0.03, T:0.39
Consensus pattern (116 bp):
TTTTCCAAAAATTACCATTTTACCCCAAACTTCCAAAAATTCCATTTTAACCCCAATTTTTCCAA
AAATTACCATTTTACCCTCAAACTTCCAAAAATTTCATTTTTGACCCCGAT
Found at i:334619 original size:28 final size:28
Alignment explanation
Indices: 334559--334618 Score: 86
Period size: 28 Copynumber: 2.2 Consensus size: 28
334549 CGAACTTTCC
* * *
334559 CAAAATTATCATTTTACTCTCGAGTGTT
1 CAAAATTACCATTTTACCCTCGAGTGAT
334587 CAAAATTACCATTTTACCCTCGAGT-AT
1 CAAAATTACCATTTTACCCTCGAGTGAT
334614 CAAAA
1 CAAAA
334619 AATCACATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 6 0.21
28 23 0.79
ACGTcount: A:0.35, C:0.22, G:0.08, T:0.35
Consensus pattern (28 bp):
CAAAATTACCATTTTACCCTCGAGTGAT
Found at i:335001 original size:96 final size:96
Alignment explanation
Indices: 334835--335019 Score: 230
Period size: 96 Copynumber: 1.9 Consensus size: 96
334825 AAAACTTTAA
** * * ** * *
334835 AATCAAGGCAATATTTTTTTATTTCGAGTTTTGAAAATTTGTGCCTTAACTTACTAGGTTCAATA
1 AATCAAGGCAATATTTCCTTATCTCGAGTTCTGAAAATTTACGCCTTAACTTACTAGGTGCAACA
334900 TTTCTTCAAATCGAAATAATCGAATACCCTT
66 TTTCTTCAAATCGAAATAATCGAATACCCTT
* **
334931 AATCAAGGCAATGTTTCCTTATCCTCG-GTTCTGAAAATTTACGCCTTAACTTTTTAGGTGCAAC
1 AATCAAGGCAATATTTCCTTAT-CTCGAGTTCTGAAAATTTACGCCTTAACTTACTAGGTGCAA-
*
334995 CA-TTCTTCAAATCGAGATAATCGAA
64 CATTTCTTCAAATCGAAATAATCGAA
335020 CATCCTTTTC
Statistics
Matches: 75, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
96 71 0.95
97 4 0.05
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.37
Consensus pattern (96 bp):
AATCAAGGCAATATTTCCTTATCTCGAGTTCTGAAAATTTACGCCTTAACTTACTAGGTGCAACA
TTTCTTCAAATCGAAATAATCGAATACCCTT
Found at i:341162 original size:18 final size:18
Alignment explanation
Indices: 341139--341173 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
341129 CATCCAATAC
*
341139 TGTTCCTTGTAATTATTT
1 TGTTCCTTGTAAATATTT
341157 TGTTCCTTGTAAATATT
1 TGTTCCTTGTAAATATT
341174 CAGCATTTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.11, G:0.11, T:0.57
Consensus pattern (18 bp):
TGTTCCTTGTAAATATTT
Found at i:341939 original size:48 final size:48
Alignment explanation
Indices: 341617--341979 Score: 189
Period size: 48 Copynumber: 7.5 Consensus size: 48
341607 ATGAAACATG
* * * *
341617 AAGGGAAAGATCTAAGCCGCAACGGTGGATCTAGTACCACGAAGACAC
1 AAGGGAAAGATTTAAGTCGCAACGGTGGATCCAGTACCACAAAGACAC
* * *** * *
341665 AAGGGAAAGATTTGAGCCGCAACGACAGATTCAGTACCACGAAGACAC
1 AAGGGAAAGATTTAAGTCGCAACGGTGGATCCAGTACCACAAAGACAC
* * * ** ** *
341713 GAGGGAAAGGTTTAAGTCGCAACAGTAAATCGTGTACGTCA-AAAG-CATG
1 AAGGGAAAGATTTAAGTCGCAACGGTGGATCCAGTAC--CACAAAGACA-C
* * * * * * * * *
341762 AAGGGAAAGATATAAGCCGTAACGGCGAATCCAATACCACAACGAAATA
1 AAGGGAAAGATTTAAGTCGCAACGGTGGATCCAGTACCACAAAGACA-C
* * * ** * *
341811 AAGGGAAAGGTTTAAGTTGCAA-TGACGAACTCAGTACCTTA-AAAGACATG
1 AAGGGAAAGATTTAAGTCGCAACGGTGGATC-CAGTACC--ACAAAGACA-C
* * *
341861 AAGGGAAAGATCTAAG-CTGTAACGAG-GGATCCAGTACCACTAAGACAC
1 AAGGGAAAGATTTAAGTC-GCAACG-GTGGATCCAGTACCACAAAGACAC
* * ** *
341909 AAGGGAAAGATCTAAGTCGCAATGGTGGATCCAGTACCGTAAAGACAA
1 AAGGGAAAGATTTAAGTCGCAACGGTGGATCCAGTACCACAAAGACAC
*
341957 AAGGGGAAAGGTTTAAGTCGCAA
1 AA-GGGAAAGATTTAAGTCGCAA
341980 TGACGAACCT
Statistics
Matches: 235, Mismatches: 65, Indels: 29
0.71 0.20 0.09
Matches are distributed among these distances:
47 3 0.01
48 116 0.49
49 79 0.34
50 32 0.14
51 4 0.02
52 1 0.00
ACGTcount: A:0.40, C:0.18, G:0.26, T:0.16
Consensus pattern (48 bp):
AAGGGAAAGATTTAAGTCGCAACGGTGGATCCAGTACCACAAAGACAC
Found at i:342458 original size:6 final size:6
Alignment explanation
Indices: 342447--342547 Score: 86
Period size: 6 Copynumber: 17.3 Consensus size: 6
342437 ATCCACTTTT
* **
342447 TTTAAA TTTAAA TTT-AT TTTAAA TTTAAA TTT-GC TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* ** *
342493 TTT-AA TTTAAG TTTAAA TTTATTT TTTAAA TTTAAA ATT--A TTCTAAA
1 TTTAAA TTTAAA TTTAAA TTTA-AA TTTAAA TTTAAA TTTAAA TT-TAAA
342540 TTTAAA TT
1 TTTAAA TT
342548 AATAGAGGTC
Statistics
Matches: 74, Mismatches: 14, Indels: 14
0.73 0.14 0.14
Matches are distributed among these distances:
4 2 0.03
5 13 0.18
6 52 0.70
7 7 0.09
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (6 bp):
TTTAAA
Found at i:342468 original size:17 final size:17
Alignment explanation
Indices: 342446--342547 Score: 132
Period size: 17 Copynumber: 5.9 Consensus size: 17
342436 AATCCACTTT
342446 TTTTAAATTTAAATTTA
1 TTTTAAATTTAAATTTA
*
342463 TTTTAAATTTAAATTTG
1 TTTTAAATTTAAATTTA
*
342480 CTTTAAATTTAAATTTA
1 TTTTAAATTTAAATTTA
* *
342497 ATTTAAGTTTAAATTTA
1 TTTTAAATTTAAATTTA
*
342514 TTTTTTAAATTTAAAATTA
1 --TTTTAAATTTAAATTTA
*
342533 TTCTAAATTTAAATT
1 TTTTAAATTTAAATT
342548 AATAGAGGTC
Statistics
Matches: 73, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
17 59 0.81
19 14 0.19
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (17 bp):
TTTTAAATTTAAATTTA
Found at i:342474 original size:23 final size:24
Alignment explanation
Indices: 342447--342547 Score: 86
Period size: 23 Copynumber: 4.3 Consensus size: 24
342437 ATCCACTTTT
*
342447 TTTAAATTTAAATTT-ATTTTAAA
1 TTTAAATTTAAATTTAAATTTAAA
**
342470 TTTAAATTT-GCTTTAAATTTAAA
1 TTTAAATTTAAATTTAAATTTAAA
* **
342493 TTT-AATTTAAGTTTAAATTTATTT
1 TTTAAATTTAAATTTAAATTTA-AA
*
342517 TTTAAATTTAAAATT--ATTCTAAA
1 TTTAAATTTAAATTTAAATT-TAAA
342540 TTTAAATT
1 TTTAAATT
342548 AATAGAGGTC
Statistics
Matches: 62, Mismatches: 11, Indels: 10
0.75 0.13 0.12
Matches are distributed among these distances:
22 8 0.13
23 40 0.65
24 5 0.08
25 9 0.15
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (24 bp):
TTTAAATTTAAATTTAAATTTAAA
Found at i:345019 original size:29 final size:29
Alignment explanation
Indices: 344972--345165 Score: 134
Period size: 29 Copynumber: 6.7 Consensus size: 29
344962 CCTTGAAGGT
* * *
344972 CCCTAAAC-TGTCCAGAAATCATGTTTTGA
1 CCCTAAACTTTTCCA-AAATTATATTTTGA
345001 CCCTAAACTTTTCCAAAATTATATTTTGA
1 CCCTAAACTTTTCCAAAATTATATTTTGA
*
345030 CCCTTAAA-TTTCTCCAAAATTATATTTTTAA
1 CCC-TAAACTTT-TCCAAAATTATA-TTTTGA
* * *
345061 CCTTGAACTTTTCCAAAATTAAATTTTGA
1 CCCTAAACTTTTCCAAAATTATATTTTGA
* *** *
345090 CCCCAAAAC-TTTCTTTAATTATATTTTTA
1 -CCCTAAACTTTTCCAAAATTATATTTTGA
* *
345119 CCC--GA-TTTTCCAAAAATTACCATTTT-A
1 CCCTAAACTTTTCC-AAAATTA-TATTTTGA
345146 CCCTCAAAC-TTTCCAAAATT
1 CCCT-AAACTTTTCCAAAATT
345166 CCATTTTAAC
Statistics
Matches: 130, Mismatches: 22, Indels: 26
0.73 0.12 0.15
Matches are distributed among these distances:
26 5 0.04
27 9 0.07
28 8 0.06
29 52 0.40
30 46 0.35
31 10 0.08
ACGTcount: A:0.34, C:0.23, G:0.04, T:0.40
Consensus pattern (29 bp):
CCCTAAACTTTTCCAAAATTATATTTTGA
Found at i:345048 original size:30 final size:29
Alignment explanation
Indices: 344995--345165 Score: 127
Period size: 30 Copynumber: 5.9 Consensus size: 29
344985 AGAAATCATG
344995 TTTTGACCC-TAAACTTTTCCAAAATTATA
1 TTTTGACCCTTAAA-TTTTCCAAAATTATA
345024 TTTTGACCCTTAAATTTCTCCAAAATTATA
1 TTTTGACCCTTAAATTT-TCCAAAATTATA
* * * *
345054 TTTTTAACCTTGAACTTTTCCAAAATTAAA
1 TTTTGACCCTT-AAATTTTCCAAAATTATA
** * ***
345084 TTTTGACCCCAAAACTTTCTTTAATTATA
1 TTTTGACCCTTAAATTTTCCAAAATTATA
* * *
345113 TTTTTACCC---GATTTTCCAAAAATTACCA
1 TTTTGACCCTTAAATTTTCC-AAAATTA-TA
* *
345141 TTTT-ACCCTCAAACTTTCCAAAATT
1 TTTTGACCCTTAAATTTTCCAAAATT
345166 CCATTTTAAC
Statistics
Matches: 111, Mismatches: 23, Indels: 16
0.74 0.15 0.11
Matches are distributed among these distances:
26 5 0.05
27 9 0.08
28 5 0.05
29 38 0.34
30 49 0.44
31 5 0.05
ACGTcount: A:0.33, C:0.22, G:0.03, T:0.42
Consensus pattern (29 bp):
TTTTGACCCTTAAATTTTCCAAAATTATA
Found at i:345201 original size:58 final size:57
Alignment explanation
Indices: 345124--345487 Score: 274
Period size: 58 Copynumber: 6.4 Consensus size: 57
345114 TTTTACCCGA
345124 TTTTCCAAAAATTACCATTTTACCCTCAAACTT-TCCAAAATTCCATTTTAACCTTGAT
1 TTTTCCAAAAATTACCATTTTACCC-CAAACTTCT-CAAAATTCCATTTTAACCTTGAT
* * * * *
345182 TTTTCAAAAAAATT-CCATTTTACCCCTAAACTTCTTAAACTTCCATTTTGACCTTCAT
1 TTTTC-CAAAAATTACCATTTTACCCC-AAACTTCTCAAAATTCCATTTTAACCTTGAT
* * * **
345240 TTTTCCAAAATTTACCATTTTATCCCCAAACTTC-CAAAAATCCCATTTTTGACCCCGA-
1 TTTTCCAAAAATTACCATTTTA-CCCCAAACTTCTC-AAAATTCCA-TTTTAACCTTGAT
* * *
345298 TTTTCCAAAAATTACCATTTTACATCTAAACTTCTAAAAATTCCATTTTCAACCTCT-AT
1 TTTTCCAAAAATTACCATTTTAC-CCCAAACTTCTCAAAATTCCATTTT-AACCT-TGAT
* * * **
345357 TTTTCCAAAAATTA-CATTTTACCCCAAAATTC-C---ATT---TTTGAGCC-CAAT
1 TTTTCCAAAAATTACCATTTTACCCCAAACTTCTCAAAATTCCATTTTAACCTTGAT
* * * * *
345405 GTCTT-CAAAAATTACCATGTGACCTCCAAACTT-TCAAAAATTCCATTTTTACCCTGAT
1 -TTTTCCAAAAATTACCATTTTACC-CCAAACTTCTC-AAAATTCCATTTTAACCTTGAT
* *
345463 TTTTCCGAAAATAACCATTTTACCC
1 TTTTCCAAAAATTACCATTTTACCC
345488 TCGAATTTTT
Statistics
Matches: 238, Mismatches: 42, Indels: 53
0.71 0.13 0.16
Matches are distributed among these distances:
48 11 0.05
49 13 0.05
50 11 0.05
53 3 0.01
54 3 0.01
57 28 0.12
58 134 0.56
59 35 0.15
ACGTcount: A:0.33, C:0.26, G:0.03, T:0.38
Consensus pattern (57 bp):
TTTTCCAAAAATTACCATTTTACCCCAAACTTCTCAAAATTCCATTTTAACCTTGAT
Found at i:345286 original size:116 final size:116
Alignment explanation
Indices: 345124--345390 Score: 330
Period size: 116 Copynumber: 2.3 Consensus size: 116
345114 TTTTACCCGA
* **
345124 TTTTCCAAAAATTACCATTTTACCCTCAAACTTTCC-AAAATTCCA-TTTTAACCTTGATTTTTC
1 TTTTCCAAAAATTACCATTTTACCC-CAAAC-TTCCAAAAATCCCATTTTTAACCCCGA-TTTTC
* * * *
345187 AAAAAAATT-CCATTTTACCCCTAAACTTCTTAAACTTCCATTTT-GACCT-TCAT
63 -AAAAAATTACCATTTTACACCTAAACTTCTAAAAATTCCATTTTCAACCTCT-AT
* * *
345240 TTTTCCAAAATTTACCATTTTATCCCCAAACTTCCAAAAATCCCATTTTTGACCCCGATTTTCCA
1 TTTTCCAAAAATTACCATTTTA-CCCCAAACTTCCAAAAATCCCATTTTTAACCCCGATTTTCAA
*
345305 AAAATTACCATTTTACATCTAAACTTCTAAAAATTCCATTTTCAACCTCTAT
65 AAAATTACCATTTTACACCTAAACTTCTAAAAATTCCATTTTCAACCTCTAT
*
345357 TTTTCCAAAAATTA-CATTTTACCCCAAAATTCCA
1 TTTTCCAAAAATTACCATTTTACCCCAAACTTCCA
345391 TTTTTGAGCC
Statistics
Matches: 132, Mismatches: 13, Indels: 13
0.84 0.08 0.08
Matches are distributed among these distances:
115 23 0.17
116 77 0.58
117 31 0.23
118 1 0.01
ACGTcount: A:0.33, C:0.27, G:0.01, T:0.39
Consensus pattern (116 bp):
TTTTCCAAAAATTACCATTTTACCCCAAACTTCCAAAAATCCCATTTTTAACCCCGATTTTCAAA
AAATTACCATTTTACACCTAAACTTCTAAAAATTCCATTTTCAACCTCTAT
Found at i:345414 original size:107 final size:106
Alignment explanation
Indices: 345276--345487 Score: 261
Period size: 107 Copynumber: 2.0 Consensus size: 106
345266 CAAACTTCCA
* * * *
345276 AAAATCCCATTTTTGACCCCGATTTTCCAAAAATTACCATTTTACATCTAAAC-TTCTAAAAATT
1 AAAATCCCATTTTTGACCCCAATTTTCCAAAAATTACCATGTGACATCCAAACTTTC-AAAAATT
*
345340 CCATTTTCAACCTCT-ATTTTTCCAAAAATTA-CATTTTACCCC
65 CCATTTT-AACC-CTGATTTTTCCAAAAATAACCATTTTACCCC
* * *
345382 AAAATTCCATTTTTGAGCCCAATGTCTT-CAAAAATTACCATGTGACCTCCAAACTTTCAAAAAT
1 AAAATCCCATTTTTGACCCCAAT-T-TTCCAAAAATTACCATGTGACATCCAAACTTTCAAAAAT
* *
345446 TCCATTTTTACCCTGATTTTTCCGAAAATAACCATTTTACCC
64 TCCATTTTAACCCTGATTTTTCCAAAAATAACCATTTTACCC
345488 TCGAATTTTT
Statistics
Matches: 91, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
105 2 0.02
106 37 0.41
107 47 0.52
108 5 0.05
ACGTcount: A:0.33, C:0.26, G:0.04, T:0.36
Consensus pattern (106 bp):
AAAATCCCATTTTTGACCCCAATTTTCCAAAAATTACCATGTGACATCCAAACTTTCAAAAATTC
CATTTTAACCCTGATTTTTCCAAAAATAACCATTTTACCCC
Found at i:345973 original size:96 final size:96
Alignment explanation
Indices: 345822--345995 Score: 278
Period size: 96 Copynumber: 1.8 Consensus size: 96
345812 CAATATTCTT
* ***
345822 TTATTTCGAGTTTTGAAAATTTGTGCCTTAACTTACTAGGTGCAATTTTTCTTCAAATCGAAATA
1 TTATTTCGAGTTCTGAAAATTTGTGCCTTAACTTACTAGGTGCAACCATTCTTCAAATCGAAATA
345887 ATCGAATACCCTTAATCAAGGCAATGTTTCC
66 ATCGAATACCCTTAATCAAGGCAATGTTTCC
*
345918 TTATCTTCG-GTTCTGAAAATTTGTGCCTTAACTTACTAGGTGCAACCATTCTTCAAATCGAGAT
1 TTAT-TTCGAGTTCTGAAAATTTGTGCCTTAACTTACTAGGTGCAACCATTCTTCAAATCGAAAT
*
345982 AATCGAATATCCTT
65 AATCGAATACCCTT
345996 TTCTAAAATT
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
96 67 0.94
97 4 0.06
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (96 bp):
TTATTTCGAGTTCTGAAAATTTGTGCCTTAACTTACTAGGTGCAACCATTCTTCAAATCGAAATA
ATCGAATACCCTTAATCAAGGCAATGTTTCC
Found at i:353566 original size:18 final size:18
Alignment explanation
Indices: 353545--353579 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
353535 TAAATACCCA
353545 AAAATAAAATAATAAGTT
1 AAAATAAAATAATAAGTT
*
353563 AAAATAAAATAGTAAGT
1 AAAATAAAATAATAAGT
353580 CTATAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.66, C:0.00, G:0.09, T:0.26
Consensus pattern (18 bp):
AAAATAAAATAATAAGTT
Found at i:362092 original size:20 final size:19
Alignment explanation
Indices: 362069--362121 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 19
362059 TTAAAAAGTC
*
362069 AAAACAATATATAAAAATT
1 AAAAAAATATATAAAAATT
* *
362088 GAAAATAT-TATAAAAATT
1 AAAAAAATATATAAAAATT
*
362106 AAAAAGAATATTTAAA
1 AAAAA-AATATATAAA
362122 TTTCAAGTAA
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
18 14 0.54
19 7 0.27
20 5 0.19
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.28
Consensus pattern (19 bp):
AAAAAAATATATAAAAATT
Found at i:362110 original size:18 final size:17
Alignment explanation
Indices: 362074--362110 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
362064 AAGTCAAAAC
*
362074 AATATATAAAAATTGAA
1 AATATATAAAAATTAAA
362091 AATATTATAAAAATTAAA
1 AATA-TATAAAAATTAAA
362109 AA
1 AA
362111 GAATATTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (17 bp):
AATATATAAAAATTAAA
Found at i:362471 original size:18 final size:18
Alignment explanation
Indices: 362448--362483 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
362438 TTTTTCTCTA
*
362448 GATTTTATATATTTTTAT
1 GATTTTATATATATTTAT
*
362466 GATTTTTTATATATTTAT
1 GATTTTATATATATTTAT
362484 TTTTATTAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.67
Consensus pattern (18 bp):
GATTTTATATATATTTAT
Found at i:363182 original size:18 final size:18
Alignment explanation
Indices: 363130--363182 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 18
363120 GCTCGATCCG
* *
363130 TTTATA-ATTTTATAATA
1 TTTATATATTATATAATT
* *
363147 TTT-TATATTATGTTATT
1 TTTATATATTATATAATT
363164 TTTATATATTATATAATT
1 TTTATATATTATATAATT
363182 T
1 T
363183 AGAACACATC
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
16 2 0.07
17 13 0.46
18 13 0.46
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (18 bp):
TTTATATATTATATAATT
Found at i:365939 original size:12 final size:12
Alignment explanation
Indices: 365922--365949 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
365912 ATGGGCTTTG
365922 TAGGGTTGGCCC
1 TAGGGTTGGCCC
365934 TAGGGTTGGCCC
1 TAGGGTTGGCCC
365946 TAGG
1 TAGG
365950 CTGGTTATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.11, C:0.21, G:0.43, T:0.25
Consensus pattern (12 bp):
TAGGGTTGGCCC
Found at i:366341 original size:28 final size:28
Alignment explanation
Indices: 366300--366353 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
366290 GATTCTGAGG
*
366300 TTTGAGTTCGGGATTCAAGGTTCAAGAT
1 TTTGAGTTCGGGATTCAAGATTCAAGAT
* * *
366328 TTTGGGTTTGGGATTCGAGATTCAAG
1 TTTGAGTTCGGGATTCAAGATTCAAG
366354 GTTCAGGATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.22, C:0.09, G:0.31, T:0.37
Consensus pattern (28 bp):
TTTGAGTTCGGGATTCAAGATTCAAGAT
Found at i:369630 original size:14 final size:15
Alignment explanation
Indices: 369611--369640 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
369601 AAAATTAATA
369611 TATTTTA-AATTTAT
1 TATTTTATAATTTAT
369625 TATTTTATAATTTAT
1 TATTTTATAATTTAT
369640 T
1 T
369641 GATAAATTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TATTTTATAATTTAT
Found at i:371641 original size:15 final size:15
Alignment explanation
Indices: 371594--371647 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
371584 ATTTTTTTAT
371594 ATATAAA-A-TTTTC
1 ATATAAATATTTTTC
*
371607 ATA-AATATATTTTTTA
1 ATATAA-ATA-TTTTTC
371623 ATATAAATATTTTTC
1 ATATAAATATTTTTC
*
371638 ATATACATAT
1 ATATAAATAT
371648 CATGGGTATA
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
12 2 0.06
13 4 0.12
14 1 0.03
15 14 0.42
16 10 0.30
17 2 0.06
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (15 bp):
ATATAAATATTTTTC
Done.