Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009608.1 Hibiscus syriacus cultivar Beakdansim tig00116994_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1053610
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 7
Found at i:3270 original size:15 final size:15
Alignment explanation
Indices: 3252--3281 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
3242 CCACGGTGCT
3252 CCCGGAATCCTGCGC
1 CCCGGAATCCTGCGC
3267 CCCGGAATCCTGCGC
1 CCCGGAATCCTGCGC
3282 GATTGTGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.47, G:0.27, T:0.13
Consensus pattern (15 bp):
CCCGGAATCCTGCGC
Found at i:9651 original size:23 final size:24
Alignment explanation
Indices: 9558--9651 Score: 76
Period size: 23 Copynumber: 4.1 Consensus size: 24
9548 TCAACAATAC
* *
9558 TTTTCA-GGAAAAA-GTTATGTCT
1 TTTTCATGAAAAAAGGTTAAGTCT
9580 TTTT-ATGAAAAAAGGTTAAGTC-
1 TTTTCATGAAAAAAGGTTAAGTCT
* * *
9602 TTCTCATGAAAAAAATGTT-AGTGT
1 TTTTCATG-AAAAAAGGTTAAGTCT
9626 TTTTCAT--AAAAAGAGTTAAGTCT
1 TTTTCATGAAAAAAG-GTTAAGTCT
9649 TTT
1 TTT
9652 AATCAAAGGT
Statistics
Matches: 57, Mismatches: 8, Indels: 13
0.73 0.10 0.17
Matches are distributed among these distances:
21 6 0.11
22 16 0.28
23 20 0.35
24 15 0.26
ACGTcount: A:0.36, C:0.07, G:0.16, T:0.40
Consensus pattern (24 bp):
TTTTCATGAAAAAAGGTTAAGTCT
Found at i:11016 original size:27 final size:26
Alignment explanation
Indices: 10958--11014 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 26
10948 CTCAAAAGAT
10958 TATTATTTTATATATTTAATATTAATA
1 TATTATTTTATATATTTAATA-TAATA
*
10985 TATTATTTTAATATCATTTTAATAAAATA
1 TATTATTTT-ATAT-A-TTTAATATAATA
11014 T
1 T
11015 TAATTATTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
27 9 0.35
28 4 0.15
29 6 0.23
30 7 0.27
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (26 bp):
TATTATTTTATATATTTAATATAATA
Found at i:11095 original size:40 final size:42
Alignment explanation
Indices: 11035--11117 Score: 107
Period size: 42 Copynumber: 2.0 Consensus size: 42
11025 ATTATATTTA
*
11035 TTTATAATTTTAATAATAT-A-ATATAATACAATATTTTATT
1 TTTATAATTATAATAATATAATATATAATACAATATTTTATT
* * **
11075 TTTATAATTATATTATTATAATATATAATATTATATTTTATT
1 TTTATAATTATAATAATATAATATATAATACAATATTTTATT
11117 T
1 T
11118 AATAACATAT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
40 16 0.44
41 1 0.03
42 19 0.53
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (42 bp):
TTTATAATTATAATAATATAATATATAATACAATATTTTATT
Found at i:11105 original size:37 final size:39
Alignment explanation
Indices: 11025--11113 Score: 101
Period size: 40 Copynumber: 2.3 Consensus size: 39
11015 TAATTATTAA
*
11025 ATTATATTTATTTATAATTTTAATAATATAATATAATACAAT
1 ATTATA-TT-TTTATAATTATAATAATATAATATAATA-AAT
* * *
11067 ATTTTATTTTTATAATTATATTATTATAATAT-AT-AAT
1 ATTATATTTTTATAATTATAATAATATAATATAATAAAT
11104 ATTATATTTT
1 ATTATATTTT
11114 ATTTAATAAC
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
37 12 0.29
39 2 0.05
40 21 0.50
41 2 0.05
42 5 0.12
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (39 bp):
ATTATATTTTTATAATTATAATAATATAATATAATAAAT
Found at i:11236 original size:17 final size:16
Alignment explanation
Indices: 11211--11267 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 16
11201 TAATTTTCAA
*
11211 TATTCTAATAATAGTAT
1 TATTTTAATAATA-TAT
*
11228 TATTTTAATAAATAATTAA
1 TATTTTAAT-AAT-A-TAT
11247 TATATTTAATAATATAT
1 TAT-TTTAATAATATAT
11264 TATT
1 TATT
11268 CTTATTTTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
16 1 0.03
17 13 0.39
18 4 0.12
19 9 0.27
20 6 0.18
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (16 bp):
TATTTTAATAATATAT
Found at i:11242 original size:21 final size:20
Alignment explanation
Indices: 11217--11318 Score: 70
Period size: 20 Copynumber: 5.1 Consensus size: 20
11207 TCAATATTCT
11217 AATAATAGTATTATTTTAATA
1 AATAATA-TATTATTTTAATA
*
11238 AATAAT-TAATATATTTAATA
1 AATAATATATTAT-TTTAATA
* *
11258 ATATATTATTCTTATTTTAATA
1 A-ATAATA-TATTATTTTAATA
* * *
11280 AATAAT-TAATATAATTCATA
1 AATAATATATTAT-TTTAATA
11300 AA-AA-A-ATTATTTTAATA
1 AATAATATATTATTTTAATA
11317 AA
1 AA
11319 ATATAATAAT
Statistics
Matches: 63, Mismatches: 12, Indels: 16
0.69 0.13 0.18
Matches are distributed among these distances:
17 7 0.11
18 4 0.06
19 11 0.17
20 15 0.24
21 14 0.22
22 8 0.13
23 4 0.06
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.46
Consensus pattern (20 bp):
AATAATATATTATTTTAATA
Found at i:11415 original size:22 final size:22
Alignment explanation
Indices: 11373--11424 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
11363 TATTTTCTTA
*
11373 ATAATA-TTAAATAAAATTATT
1 ATAATATTTAAATAAAAATATT
*
11394 CTAATATTTAAA-AAATAATATT
1 ATAATATTTAAATAAA-AATATT
*
11416 ATTATATTT
1 ATAATATTT
11425 TTCATAAGTA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
21 8 0.32
22 17 0.68
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (22 bp):
ATAATATTTAAATAAAAATATT
Found at i:11549 original size:13 final size:13
Alignment explanation
Indices: 11527--11561 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 13
11517 CAACCACAGT
11527 AAAATGATTTCTAA
1 AAAAT-ATTTCTAA
11541 AAAATATTTTCTAA
1 AAAATA-TTTCTAA
11555 AAAATAT
1 AAAATAT
11562 AATTAATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 2 0.10
14 18 0.90
ACGTcount: A:0.54, C:0.06, G:0.03, T:0.37
Consensus pattern (13 bp):
AAAATATTTCTAA
Found at i:11551 original size:14 final size:14
Alignment explanation
Indices: 11534--11561 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
11524 AGTAAAATGA
11534 TTTCTAAAAAATAT
1 TTTCTAAAAAATAT
11548 TTTCTAAAAAATAT
1 TTTCTAAAAAATAT
11562 AATTAATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (14 bp):
TTTCTAAAAAATAT
Found at i:22901 original size:20 final size:20
Alignment explanation
Indices: 22884--22922 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
22874 AAGACTTACT
*
22884 GATGGCCCGAAGGTCTTATA
1 GATGGCCCGAAGGGCTTATA
22904 GATGGCCCGAAGGGCTTAT
1 GATGGCCCGAAGGGCTTAT
22923 CATCTTGCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.23, C:0.21, G:0.33, T:0.23
Consensus pattern (20 bp):
GATGGCCCGAAGGGCTTATA
Found at i:22996 original size:42 final size:41
Alignment explanation
Indices: 22898--23002 Score: 102
Period size: 42 Copynumber: 2.5 Consensus size: 41
22888 GCCCGAAGGT
* * * * * **
22898 CTTATAGATGGCCCGAAGGGCTTATCATCTTGCTCTAAAGG
1 CTTACAGATGGCCCGAAGGACTTAGCATCATGCTCGAAAAA
* *
22939 CTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAAA
1 CTTACAGATGGCCCGAAGGACTT-AGCATCATGCTCGAAAAA
* *
22981 CTTACTGATGGCCCGAATGACT
1 CTTACAGATGGCCCGAAGGACT
23003 GATAAATTGT
Statistics
Matches: 50, Mismatches: 13, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
41 19 0.38
42 31 0.62
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.26
Consensus pattern (41 bp):
CTTACAGATGGCCCGAAGGACTTAGCATCATGCTCGAAAAA
Found at i:23397 original size:214 final size:214
Alignment explanation
Indices: 22889--24005 Score: 1747
Period size: 214 Copynumber: 5.2 Consensus size: 214
22879 TTACTGATGG
* *
22889 CCCGAAGGTCTTATAGATGGCCCGAAGGGCTTATCATCTTGCTCTAAAGGCTTACAGATGACCCG
1 CCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCG
* * *
22954 AAGGATTTAAGCATCATGCTCGAAAAACTTACTGATGGCCCGAATGACTGATAAATTGTGAAATT
66 AAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATTGTGAAA-T
* * * * * *
23019 TTTGAAAATCACATTCTTTATTTTCAAAAAAATTTCATCTTATCAAATCATCATTTTTCTTCATT
130 TTTGAAAATCGCATTCTTCATTTTC--AAAAATTCCATCTTCTTAAAACATCA-TTTT-TTCA-T
*
23084 TTCAAATTCATGTGAAAACATCCTA
190 TTCAAATTCATTTGAAAACATCCTA
* * * * * *
23109 CCCGAAGGTATTACGGATGGCCAGAAGGACTTATCATCTTTCTCTAAAGGCTTATAGATGACTCG
1 CCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCG
23174 AAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATTGTGAAATT
66 AAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATTGTGAAATT
23239 TTGAAAATCGCATTCTTCATTTTCAAAAATTCCATCTTCTTAAAACATCATTTTTTCATTTCAAA
131 TTGAAAATCGCATTCTTCATTTTCAAAAATTCCATCTTCTTAAAACATCATTTTTTCATTTCAAA
23304 TTCATTTGAAAACATCCTA
196 TTCATTTGAAAACATCCTA
*
23323 CCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAACGGCTTACAGATGACCCG
1 CCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCG
* *
23388 AAAGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATTTTGAAATT
66 AAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATTGTGAAATT
**
23453 TTGAAAATCATATTCTTCATTTTCAAAAATTCCATCTTCTTAAAACATCATTTTTTCATTTCAAA
131 TTGAAAATCGCATTCTTCATTTTCAAAAATTCCATCTTCTTAAAACATCATTTTTTCATTTCAAA
23518 TTCATTTGAAAACATCCTA
196 TTCATTTGAAAACATCCTA
23537 CCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCG
1 CCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCG
* * *
23602 AAGGATTTAAGCATCATGCTTGAAAGACTTACAGATGGCCCGAATGACTTATAAATTGTGAAATT
66 AAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATTGTGAAATT
* * *
23667 TTGAAAATCGCATTCTTCGTTTTCAAAAATT---TCATCTTAAAACGTCATTTTTT-ATTTTTCA
131 TTGAAAATCGCATTCTTCATTTTCAAAAATTCCATCTTCTTAAAACATCATTTTTTCA--TTTCA
* *
23728 AATTCATGTGAAAATATCCTA
194 AATTCATTTGAAAACATCCTA
* * *
23749 CCTGAAGGTTTTATGGATGGCCTGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCG
1 CCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCG
*
23814 AAGGATTTAAGCATCATGCTCAAAAGACTTACTGATGGCCCGAAGGACTTATAAATTGTGAAATT
66 AAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATTGTGAAATT
* *
23879 TTGAGAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTTTTTTTTCATTTC
131 TTGAAAATCGCATTCTTCATTTTCAAAAATTCCATCTTCTTAAAACATCA---TTTTTTCATTTC
23944 AAATTCATTTGAAAACATCCTA
193 AAATTCATTTGAAAACATCCTA
* * *
23966 CCTGAAGGTTTTATGGATGGCCTGAAGGACTTATCATCTT
1 CCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTT
24006 TGGAAATAGT
Statistics
Matches: 834, Mismatches: 54, Indels: 21
0.92 0.06 0.02
Matches are distributed among these distances:
210 1 0.00
211 20 0.02
212 177 0.21
214 380 0.46
215 18 0.02
216 4 0.00
217 86 0.10
218 6 0.01
219 25 0.03
220 117 0.14
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.34
Consensus pattern (214 bp):
CCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCG
AAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATTGTGAAATT
TTGAAAATCGCATTCTTCATTTTCAAAAATTCCATCTTCTTAAAACATCATTTTTTCATTTCAAA
TTCATTTGAAAACATCCTA
Found at i:23637 original size:42 final size:41
Alignment explanation
Indices: 23552--23652 Score: 123
Period size: 42 Copynumber: 2.4 Consensus size: 41
23542 AGGTCTTATG
* * *
23552 GATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACA
1 GATGGCCCGAAGGACTTAGCATCATGCTCTAAAGACTTACA
* *
23593 GATGACCCGAAGGATTTAAGCATCATGCT-TGAAAGACTTACA
1 GATGGCCCGAAGGACTT-AGCATCATGCTCT-AAAGACTTACA
*
23635 GATGGCCCGAATGACTTA
1 GATGGCCCGAAGGACTTA
23653 TAAATTGTGA
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
41 17 0.34
42 33 0.66
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.25
Consensus pattern (41 bp):
GATGGCCCGAAGGACTTAGCATCATGCTCTAAAGACTTACA
Found at i:23924 original size:426 final size:427
Alignment explanation
Indices: 22889--24005 Score: 1756
Period size: 426 Copynumber: 2.6 Consensus size: 427
22879 TTACTGATGG
* *
22889 CCCGAAGGTCTTATAGATGGCCCGAAGGGCTTATCATCTTGCTCTAAAGGCTTACAGATGACCCG
1 CCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCG
* *
22954 AAGGATTTAAGCATCATGCTCGAAAA-ACTTACTGATGGCCCGAATGACTGATAAATTGTGAAAT
66 AAGGATTTAAGCATCATGCTC-AAAAGACTTACTGATGGCCCGAAGGACTTATAAATTGTGAAA-
* * * * *
23018 TTTTGAAAATCACATTCTTTATTTTCAAAAAAATTTCATCTTATCAAATCATCATTTTTCTTCAT
129 TTTTGAAAATCACATTCTTCATTTTC--AAAAATTCCATCTTCTTAAAACATCATTTTT-TTCA-
* *
23083 TTTCAAATTCATGTGAAAACATCCTACCCGAAGGTATTACGGATGGCCAGAAGGACTTATCATCT
190 TTTCAAATTCATTTGAAAACATCCTACCCGAAGGTATTATGGATGGCCAGAAGGACTTATCATCT
* * * *
23148 TTCTCTAAAGGCTTATAGATGACTCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGC
255 TGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACAGATGGC
*
23213 CCGAAGGACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCATTTTCAAAAATTCCATCTTC
320 CCGAAGGACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCATTTTCAAAAATT-C-TCATC
*
23278 TTAAAACATCATTTTTTCATTTCAAATTCATTTGAAAACATCCTA
383 TTAAAACATCATTTTTTCATTTCAAATTCATGTGAAAACATCCTA
*
23323 CCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAACGGCTTACAGATGACCCG
1 CCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCG
* * *
23388 AAAGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATTTTGAAATT
66 AAGGATTTAAGCATCATGCTCAAAAGACTTACTGATGGCCCGAAGGACTTATAAATTGTGAAATT
*
23453 TTGAAAATCATATTCTTCATTTTCAAAAATTCCATCTTCTTAAAACATCA-TTTTTTCATTTCAA
131 TTGAAAATCACATTCTTCATTTTCAAAAATTCCATCTTCTTAAAACATCATTTTTTTCATTTCAA
* *
23517 ATTCATTTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCT
196 ATTCATTTGAAAACATCCTACCCGAAGGTATTATGGATGGCCAGAAGGACTTATCATCTTGCTCT
* *
23582 AAAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTTGAAAGACTTACAGATGGCCCGAAT
261 AAAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACAGATGGCCCGAAG
* *
23647 GACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATT-TCATCTTAAAACG
326 GACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCATTTTCAAAAATTCTCATCTTAAAACA
*
23711 TCATTTTTT-ATTTTTCAAATTCATGTGAAAATATCCTA
391 TCATTTTTTCA--TTTCAAATTCATGTGAAAACATCCTA
* * *
23749 CCTGAAGGTTTTATGGATGGCCTGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCG
1 CCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCG
23814 AAGGATTTAAGCATCATGCTCAAAAGACTTACTGATGGCCCGAAGGACTTATAAATTGTGAAATT
66 AAGGATTTAAGCATCATGCTCAAAAGACTTACTGATGGCCCGAAGGACTTATAAATTGTGAAATT
* * *
23879 TTGAGAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTTTTTTTTCATTTC
131 TTGAAAATCACATTCTTCATTTTCAAAAATTCCATCTTCTTAAAACATCA--TTTTTTTCATTTC
* * *
23944 AAATTCATTTGAAAACATCCTACCTGAAGGTTTTATGGATGGCCTGAAGGACTTATCATCTT
194 AAATTCATTTGAAAACATCCTACCCGAAGGTATTATGGATGGCCAGAAGGACTTATCATCTT
24006 TGGAAATAGT
Statistics
Matches: 634, Mismatches: 43, Indels: 17
0.91 0.06 0.02
Matches are distributed among these distances:
424 1 0.00
425 20 0.03
426 193 0.30
428 176 0.28
429 75 0.12
430 4 0.01
431 22 0.03
433 27 0.04
434 116 0.18
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.34
Consensus pattern (427 bp):
CCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCG
AAGGATTTAAGCATCATGCTCAAAAGACTTACTGATGGCCCGAAGGACTTATAAATTGTGAAATT
TTGAAAATCACATTCTTCATTTTCAAAAATTCCATCTTCTTAAAACATCATTTTTTTCATTTCAA
ATTCATTTGAAAACATCCTACCCGAAGGTATTATGGATGGCCAGAAGGACTTATCATCTTGCTCT
AAAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACAGATGGCCCGAAG
GACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCATTTTCAAAAATTCTCATCTTAAAACA
TCATTTTTTCATTTCAAATTCATGTGAAAACATCCTA
Found at i:26122 original size:2 final size:2
Alignment explanation
Indices: 26111--26153 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
26101 TTGTAATCAC
26111 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
26152 AT
1 AT
26154 TGGGTATACG
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:30411 original size:20 final size:20
Alignment explanation
Indices: 30386--30431 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
30376 TTGAAGGTAG
30386 TCTTCAATCAACTTGAAACT
1 TCTTCAATCAACTTGAAACT
30406 TCTTCAATCAACTTGAAACT
1 TCTTCAATCAACTTGAAACT
30426 TCTTCA
1 TCTTCA
30432 TTCATCAGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.33, C:0.26, G:0.04, T:0.37
Consensus pattern (20 bp):
TCTTCAATCAACTTGAAACT
Found at i:38496 original size:41 final size:41
Alignment explanation
Indices: 38429--38506 Score: 95
Period size: 41 Copynumber: 1.9 Consensus size: 41
38419 AAACACCATG
*
38429 ATATATGTATACCATTGTAGCGTTTGTCAAAAAAAGCTACT
1 ATATATGTATACCATTGCAGCGTTTGTCAAAAAAAGCTACT
* * **
38470 ATATATGTAT-CCTATTGCGGCTTTTGTTTAAAAAAGC
1 ATATATGTATACC-ATTGCAGCGTTTGTCAAAAAAAGC
38507 CACAGAATCC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
40 2 0.06
41 29 0.94
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.37
Consensus pattern (41 bp):
ATATATGTATACCATTGCAGCGTTTGTCAAAAAAAGCTACT
Found at i:42696 original size:13 final size:14
Alignment explanation
Indices: 42671--42699 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
42661 AATTTAAAAT
42671 AAAATAAAGAAAGA
1 AAAATAAAGAAAGA
42685 AAAATAAA-AAAGA
1 AAAATAAAGAAAGA
42698 AA
1 AA
42700 TCACAATACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.83, C:0.00, G:0.10, T:0.07
Consensus pattern (14 bp):
AAAATAAAGAAAGA
Found at i:42775 original size:18 final size:18
Alignment explanation
Indices: 42752--42786 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
42742 CAAGTATTTC
42752 AATTATATTAAACATGAT
1 AATTATATTAAACATGAT
*
42770 AATTATATTAAAGATGA
1 AATTATATTAAACATGA
42787 GGAAAAATCA
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:0.51, C:0.03, G:0.09, T:0.37
Consensus pattern (18 bp):
AATTATATTAAACATGAT
Found at i:44143 original size:17 final size:16
Alignment explanation
Indices: 44121--44157 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 16
44111 CATCAAATAG
44121 TTGGTGATGACATATAA
1 TTGGTGATGACATAT-A
44138 TTGGTGATGACATATA
1 TTGGTGATGACATATA
44154 TTGG
1 TTGG
44158 CTCAGAACAC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.30, C:0.05, G:0.27, T:0.38
Consensus pattern (16 bp):
TTGGTGATGACATATA
Found at i:54806 original size:31 final size:31
Alignment explanation
Indices: 54736--54806 Score: 115
Period size: 31 Copynumber: 2.3 Consensus size: 31
54726 CTAGTCAAAC
*
54736 TTGCATTCAAATAATGTACAGTATGTCAGGT
1 TTGCATTCAAATAATGCACAGTATGTCAGGT
* *
54767 TCGTATTCAAATAATGCACAGTATGTCAGGT
1 TTGCATTCAAATAATGCACAGTATGTCAGGT
54798 TTGCATTCA
1 TTGCATTCA
54807 GTGAATGCAC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.35
Consensus pattern (31 bp):
TTGCATTCAAATAATGCACAGTATGTCAGGT
Found at i:56456 original size:127 final size:126
Alignment explanation
Indices: 56313--56808 Score: 476
Period size: 119 Copynumber: 4.0 Consensus size: 126
56303 TTATTTCAAA
56313 CTAACTACTAAC-TTTTATTTTATTGCACTTTAACCATTGTTATTTATTTATTGTTTCTAATATT
1 CTAACTACTAACTTTTTATTTTATT-CACTTTAACCATTGTTATTTATTTATTGTTTCTAATATT
* ** * * *
56377 CGATTCGACCTTGTGGTGATCTTATCCGGGGTTTTAATCCTCATTATTATGGTTCAGACTCTG
65 CGATTCGACCTTGTGGTGACCCAATCCGGGG-TATGATCCACATTATTATGGTTCAGACTCTG
* *
56440 CTAACTACTGAC-TTTTATTTTATTCCACTCTAACCATTGTTTATTTATTTATTGTTTCTAATAT
1 CTAACTACTAACTTTTTATTTTATT-CACTTTAACCATTG-TTATTTATTTATTGTTTCTAATAT
* * *
56504 TCGATTCGACCTTGAGGTGACCCGATCCGGGGTATGATCCACATTATTATGGTTCAGACTTTG
64 TCGATTCGACCTTGTGGTGACCCAATCCGGGGTATGATCCACATTATTATGGTTCAGACTCTG
* * * * * *
56567 GTAACCACTAACTTTTTATCTTATTTA-TTT---TATT-TTATTT-TATT-TT-TTT-AAATTAT
1 CTAACTACTAACTTTTTATTTTATTCACTTTAACCATTGTTATTTAT-TTATTGTTTCTAA-TAT
* *
56623 TCAATTCGACCTTGTGGTGACCCAATTCGGGGTATGATCCACATTATTATGGTTCAGACTCTG
64 TCGATTCGACCTTGTGGTGACCCAATCCGGGGTATGATCCACATTATTATGGTTCAGACTCTG
* * * * * * *
56686 TTAACTATTAACTTTTTATTTTATTTA-TTT---TA-TGCTA--TATAT-TTGTTT-GAATTATT
1 CTAACTACTAACTTTTTATTTTATTCACTTTAACCATTGTTATTTATTTATTGTTTCTAA-TATT
* * ** * * *
56742 TGATTCGACCTCGTGGTGACCTGATCCGAGGTATGA-CTCGCATTATTATGGTTCAGACTCTA
65 CGATTCGACCTTGTGGTGACCCAATCCGGGGTATGATC-CACATTATTATGGTTCAGACTCTG
56804 CTAAC
1 CTAAC
56809 CGCTAATTTT
Statistics
Matches: 320, Mismatches: 41, Indels: 25
0.83 0.11 0.06
Matches are distributed among these distances:
117 5 0.02
118 69 0.22
119 94 0.29
120 3 0.01
121 8 0.03
123 3 0.01
126 2 0.01
127 73 0.23
128 63 0.20
ACGTcount: A:0.23, C:0.17, G:0.14, T:0.46
Consensus pattern (126 bp):
CTAACTACTAACTTTTTATTTTATTCACTTTAACCATTGTTATTTATTTATTGTTTCTAATATTC
GATTCGACCTTGTGGTGACCCAATCCGGGGTATGATCCACATTATTATGGTTCAGACTCTG
Found at i:56598 original size:5 final size:5
Alignment explanation
Indices: 56580--56612 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
56570 ACCACTAACT
*
56580 TTTTA TCTTA -TTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
56613 TTTAAATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
4 3 0.12
5 22 0.88
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTTA
Found at i:56599 original size:14 final size:15
Alignment explanation
Indices: 56580--56612 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
56570 ACCACTAACT
56580 TTTTATCTTA-TTTA
1 TTTTATCTTATTTTA
*
56594 TTTTATTTTATTTTA
1 TTTTATCTTATTTTA
56609 TTTT
1 TTTT
56613 TTTAAATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTTATCTTATTTTA
Found at i:56604 original size:19 final size:18
Alignment explanation
Indices: 56580--56616 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
56570 ACCACTAACT
56580 TTTTATCTTATTTATTTTA
1 TTTTATCTTATTT-TTTTA
*
56599 TTTTATTTTATTTTTTTA
1 TTTTATCTTATTTTTTTA
56617 AATTATTCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTATCTTATTTTTTTA
Found at i:56846 original size:16 final size:16
Alignment explanation
Indices: 56804--56848 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
56794 TCAGACTCTA
56804 CTAACCGCTAATTTTT
1 CTAACCGCTAATTTTT
**
56820 CTAACAACTAACTTTTT
1 CTAACCGCTAA-TTTTT
56837 -TAACCGCTAATT
1 CTAACCGCTAATT
56849 ACTAACTGCT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
15 2 0.08
16 17 0.71
17 5 0.21
ACGTcount: A:0.31, C:0.24, G:0.04, T:0.40
Consensus pattern (16 bp):
CTAACCGCTAATTTTT
Found at i:61356 original size:25 final size:26
Alignment explanation
Indices: 61325--61408 Score: 89
Period size: 25 Copynumber: 3.0 Consensus size: 26
61315 AAGAAAAGAG
61325 AGAGAAAAGAAAAAAAAGAAAAAAAA
1 AGAGAAAAGAAAAAAAAGAAAAAAAA
* *
61351 AG-GAAAAGAACAAAGAGAAAACCAAAA
1 AGAGAAAAGAAAAAAAAGAAAA--AAAA
61378 AGAAGAAAAGAAGAAAGAAAGAAAAAGAAA
1 AG-AGAAAAGAA-AAA-AAAGAAAAA-AAA
61408 A
1 A
61409 AAACAGATCA
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
25 17 0.36
26 2 0.04
27 6 0.13
29 9 0.19
30 6 0.13
31 7 0.15
ACGTcount: A:0.77, C:0.04, G:0.19, T:0.00
Consensus pattern (26 bp):
AGAGAAAAGAAAAAAAAGAAAAAAAA
Found at i:61412 original size:40 final size:40
Alignment explanation
Indices: 61334--61410 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 40
61324 GAGAGAAAAG
*
61334 AAAAAAAAGAAAAAAAAAGGAAAAGAACAAAGAGAAAACC
1 AAAAAAAAGAAAAAAAAAGGAAAAGAACAAAGAAAAAACC
*
61374 AAAAAGAAGAAAAGAAGAAA-G-AAAGAA-AAAGAAAAAA
1 AAAAAAAAGAAAA-AA-AAAGGAAAAGAACAAAGAAAAAA
61411 ACAGATCAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
39 9 0.27
40 18 0.55
41 3 0.09
42 3 0.09
ACGTcount: A:0.79, C:0.04, G:0.17, T:0.00
Consensus pattern (40 bp):
AAAAAAAAGAAAAAAAAAGGAAAAGAACAAAGAAAAAACC
Found at i:64666 original size:65 final size:64
Alignment explanation
Indices: 64565--64806 Score: 315
Period size: 65 Copynumber: 3.7 Consensus size: 64
64555 TTGATCTCAC
* * * *
64565 TTGAGATTATTTTCCCAAA-TAAATTTCGTCTTGCTTGAGACATTTTCTCTTGAAACATAAACCT
1 TTGAGATTGTTTTTCCAAACAAAATTT-GTCTCGCTTGAGACATTTTCTCTTGAAACATAAACCT
*
64629 TTGATATTGTTTTTCCAAACAAAATCTTGTCTCGCTTGAGACATTTTCTCTTGAAACATAAACCT
1 TTGAGATTGTTTTTCCAAACAAAAT-TTGTCTCGCTTGAGACATTTTCTCTTGAAACATAAACCT
* * *
64694 TTGAGATTGTTTTCCCAAACAAAATTCAGTCTCGCTTGAGACATTTTCTCTTGAAACATAAGCCT
1 TTGAGATTGTTTTTCCAAACAAAATT-TGTCTCGCTTGAGACATTTTCTCTTGAAACATAAACCT
* * * * *
64759 TTGAGATTGTTTCTCTAAAAACAAATTTCATCTCGCTTGAGATATTTT
1 TTGAGATTGTTTTTCCAAACA-AAATTT-GTCTCGCTTGAGACATTTT
64807 TCCCTTGAGA
Statistics
Matches: 157, Mismatches: 16, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
64 17 0.11
65 116 0.74
66 24 0.15
ACGTcount: A:0.29, C:0.19, G:0.12, T:0.40
Consensus pattern (64 bp):
TTGAGATTGTTTTTCCAAACAAAATTTGTCTCGCTTGAGACATTTTCTCTTGAAACATAAACCT
Found at i:64752 original size:130 final size:130
Alignment explanation
Indices: 64565--64806 Score: 353
Period size: 130 Copynumber: 1.9 Consensus size: 130
64555 TTGATCTCAC
* * *
64565 TTGAGATTATTTTCCCAAATAAATTTCGTCTTGCTTGAGACATTTTCTCTTGAAACATAAACCTT
1 TTGAGATTATTTTCCCAAACAAAATTCGTCTCGCTTGAGACATTTTCTCTTGAAACATAAACCTT
* * * *
64630 TGATATTGTTTTTCCAAACA-AAATCTT-GTCTCGCTTGAGACATTTTCTCTTGAAACATAAACC
66 TGAGATTGTTTCTCCAAAAACAAAT-TTCATCTCGCTTGAGACATTTTCTCTTGAAACATAAACC
64693 T
130 T
* *
64694 TTGAGATTGTTTTCCCAAACAAAATTCAGTCTCGCTTGAGACATTTTCTCTTGAAACATAAGCCT
1 TTGAGATTATTTTCCCAAACAAAATTC-GTCTCGCTTGAGACATTTTCTCTTGAAACATAAACCT
* *
64759 TTGAGATTGTTTCTCTAAAAACAAATTTCATCTCGCTTGAGATATTTT
65 TTGAGATTGTTTCTCCAAAAACAAATTTCATCTCGCTTGAGACATTTT
64807 TCCCTTGAGA
Statistics
Matches: 99, Mismatches: 11, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
129 24 0.24
130 54 0.55
131 21 0.21
ACGTcount: A:0.29, C:0.19, G:0.12, T:0.40
Consensus pattern (130 bp):
TTGAGATTATTTTCCCAAACAAAATTCGTCTCGCTTGAGACATTTTCTCTTGAAACATAAACCTT
TGAGATTGTTTCTCCAAAAACAAATTTCATCTCGCTTGAGACATTTTCTCTTGAAACATAAACCT
Found at i:69917 original size:139 final size:139
Alignment explanation
Indices: 69662--70400 Score: 892
Period size: 139 Copynumber: 5.3 Consensus size: 139
69652 AGTCATTCAC
* * * * * *
69662 CATCAACCAACCAGATCTCCTCAACGCGTAGCAGTAGCGTCATCCTCTGATAACTAGACTTCCTT
1 CATCCACCAACCAGATCTCCTCAACACGTAGGAGCAGCGTCATCCTCAGATAACCAGACTTCCTT
* *
69727 ATCGCGTAGGAACTGTGTTGTCTCCAAATTATCCCTAACA-ATAGCTAGACATCCTCATCACGAA
66 ATCGCGTAGGAACCGTGTTGTCTCCAAATTATCCCTAA-AGATGGCTAGACATCCTCATCACGAA
69791 GGAACAATGT
130 GGAACAATGT
** * * *
69801 TGTCCACCAACCAGATCTCCTCAACGCGTAGGAGCAGCATTATCCTCAGATAACCAGACTTCCTT
1 CATCCACCAACCAGATCTCCTCAACACGTAGGAGCAGCGTCATCCTCAGATAACCAGACTTCCTT
* *
69866 ATCGCGTAGGAACCGTGTTGTATCCAAATTATCCCTAAAGATGGCTAGACATCCTCATCA-TATA
66 ATCGCGTAGGAACCGTGTTGTCTCCAAATTATCCCTAAAGATGGCTAGACATCCTCATCACGA-A
*
69930 GGAAAAATGT
130 GGAACAATGT
* * * * *
69940 CGTCCACCGAA-CATATCTCCTTAACACGTAGGAGCAGCATCATCATCAGATAACCAGACTTCCT
1 CATCCACC-AACCAGATCTCCTCAACACGTAGGAGCAGCGTCATCCTCAGATAACCAGACTTCCT
* * * * * *
70004 CATCGCGTAGGAACCATGTTATCTCCAAATTATCCCTAAATACGGCTAGACATCCTCATCACGTA
65 TATCGCGTAGGAACCGTGTTGTCTCCAAATTATCCCTAAAGATGGCTAGACATCCTCATCACGAA
*
70069 GGAACAATAT
130 GGAACAATGT
* * * **
70079 CATCCACCAACTAGATCTCCTCAACGCGTAGGAGCAGCGTCATCCTCAGACAATTAGACTTCCTT
1 CATCCACCAACCAGATCTCCTCAACACGTAGGAGCAGCGTCATCCTCAGATAACCAGACTTCCTT
* * * * * * * *
70144 ATCACGTAGGAACTGTGTTGTCTCTAAATTATCCCTAAAGATGGATAGATATTCTTATCACGTAG
66 ATCGCGTAGGAACCGTGTTGTCTCCAAATTATCCCTAAAGATGGCTAGACATCCTCATCACGAAG
* *
70209 GAATATTG-
131 GAACAATGT
* * * * * * *
70217 CTTCCACCAACCAGATCTCCTCAATATGTAGGAGCAGCGTTATCCTCAGATAATCAAACTTCCTC
1 CATCCACCAACCAGATCTCCTCAACACGTAGGAGCAGCGTCATCCTCAGATAACCAGACTTCCTT
* * **
70282 ATCACGTAGGAACCGTGTTGTCTCCAAATTATCCCTAAAGACGGCTAGATGTCCTCATCACGAAG
66 ATCGCGTAGGAACCGTGTTGTCTCCAAATTATCCCTAAAGATGGCTAGACATCCTCATCACGAAG
70347 GAACAATGT
131 GAACAATGT
** * * *
70356 CATCCACGGACCAGATCTCCCCAACACGAAGGAGTAGCGTCATCC
1 CATCCACCAACCAGATCTCCTCAACACGTAGGAGCAGCGTCATCC
70401 CCATATTGAC
Statistics
Matches: 510, Mismatches: 84, Indels: 12
0.84 0.14 0.02
Matches are distributed among these distances:
138 122 0.24
139 386 0.76
140 2 0.00
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.25
Consensus pattern (139 bp):
CATCCACCAACCAGATCTCCTCAACACGTAGGAGCAGCGTCATCCTCAGATAACCAGACTTCCTT
ATCGCGTAGGAACCGTGTTGTCTCCAAATTATCCCTAAAGATGGCTAGACATCCTCATCACGAAG
GAACAATGT
Found at i:71637 original size:131 final size:131
Alignment explanation
Indices: 71455--71692 Score: 379
Period size: 131 Copynumber: 1.8 Consensus size: 131
71445 ACTATTAACA
*
71455 TTTATTTTATTGCACTTTAACCATTGTTATTTATTTATTTATTTATTGTTTCTAATATTCGATTC
1 TTTATTTTATTGCACTCTAACCA-T-TTATTTATTTATTTATTTATTGTTTCTAATATTCGATTC
* * * * *
71520 GACCTTGTGGTGATCCGATCCGGTGTATGATCCACATTATTATGGTTCAGATTCTGCTAACTACT
64 GACCATATGGTGAT-CGATACGGGGTATAATCCACATTATTATGGTTCAGATTCTGCTAACTACT
71585 GACT
128 GACT
*
71589 TTTATTTTATTGCACTCTAACCA-TTATTTATTTATTTATTTATTGTTTCTAATATTCGATTTGA
1 TTTATTTTATTGCACTCTAACCATTTATTTATTTATTTATTTATTGTTTCTAATATTCGATTCGA
71653 CCATATGGTGATCGATACGGGGTATAATCCACATTATTAT
66 CCATATGGTGATCGATACGGGGTATAATCCACATTATTAT
71693 TGTTTGGACT
Statistics
Matches: 97, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
130 25 0.26
131 50 0.52
134 22 0.23
ACGTcount: A:0.24, C:0.15, G:0.13, T:0.47
Consensus pattern (131 bp):
TTTATTTTATTGCACTCTAACCATTTATTTATTTATTTATTTATTGTTTCTAATATTCGATTCGA
CCATATGGTGATCGATACGGGGTATAATCCACATTATTATGGTTCAGATTCTGCTAACTACTGAC
T
Found at i:71723 original size:131 final size:132
Alignment explanation
Indices: 71455--71721 Score: 369
Period size: 131 Copynumber: 2.0 Consensus size: 132
71445 ACTATTAACA
*
71455 TTTATTTTATTGCACTTTAACCATTGTTATTTATTTATTTATTTATTGTTTCTAATATTCGATTC
1 TTTATTTTATTGCACTCTAACCA-T-TTATTTATTTATTTATTTATTGTTTCTAATATTCGATTC
* * * * * * *
71520 GACCTTGTGGTGATCCGATCCGGTGTATGATCCACATTATTATGGTTCAGATTCTGCTAACTACT
64 GACCATATGGTGATCCGATACGGGGTATAATCCACATTATTATGGTTCAGACTCTGCTAACTACA
*
71585 GACT
129 AACT
*
71589 TTTATTTTATTGCACTCTAACCA-TTATTTATTTATTTATTTATTGTTTCTAATATTCGATTTGA
1 TTTATTTTATTGCACTCTAACCATTTATTTATTTATTTATTTATTGTTTCTAATATTCGATTCGA
* **
71653 CCATATGGTGAT-CGATACGGGGTATAATCCACATTATTATTGTTTGGACTCTGCTAAAC-ACAA
66 CCATATGGTGATCCGATACGGGGTATAATCCACATTATTATGGTTCAGACTCTGCT-AACTACAA
71716 ACT
130 ACT
71719 TTT
1 TTT
71722 TAACTTATTT
Statistics
Matches: 119, Mismatches: 13, Indels: 6
0.86 0.09 0.04
Matches are distributed among these distances:
130 44 0.37
131 53 0.45
134 22 0.18
ACGTcount: A:0.25, C:0.16, G:0.13, T:0.46
Consensus pattern (132 bp):
TTTATTTTATTGCACTCTAACCATTTATTTATTTATTTATTTATTGTTTCTAATATTCGATTCGA
CCATATGGTGATCCGATACGGGGTATAATCCACATTATTATGGTTCAGACTCTGCTAACTACAAA
CT
Found at i:71736 original size:5 final size:5
Alignment explanation
Indices: 71726--71764 Score: 55
Period size: 5 Copynumber: 8.2 Consensus size: 5
71716 ACTTTTTAAC
*
71726 TTATT TTATT TTATT TTA-T TT-GT TTATT TTATT TTATT T
1 TTATT TTATT TTATT TTATT TTATT TTATT TTATT TTATT T
71765 GTATATATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
4 6 0.19
5 25 0.81
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (5 bp):
TTATT
Found at i:71753 original size:13 final size:13
Alignment explanation
Indices: 71735--71759 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
71725 CTTATTTTAT
71735 TTTATTTTATTTG
1 TTTATTTTATTTG
71748 TTTATTTTATTT
1 TTTATTTTATTT
71760 TATTTGTATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.00, G:0.04, T:0.80
Consensus pattern (13 bp):
TTTATTTTATTTG
Found at i:71753 original size:18 final size:18
Alignment explanation
Indices: 71730--71766 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
71720 TTTAACTTAT
71730 TTTATTTTATTTTATTTG
1 TTTATTTTATTTTATTTG
71748 TTTATTTTATTTTATTTG
1 TTTATTTTATTTTATTTG
71766 T
1 T
71767 ATATATTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.05, T:0.78
Consensus pattern (18 bp):
TTTATTTTATTTTATTTG
Found at i:71785 original size:28 final size:28
Alignment explanation
Indices: 71726--71786 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
71716 ACTTTTTAAC
* *
71726 TTATTTTATTTTATTTTATTTGTTTATT
1 TTATTTTATTTTATTATATTTGTTTATA
71754 TTATTTTATTTGTA-TATATTTGTTTGA-A
1 TTATTTTATTT-TATTATATTTGTTT-ATA
71782 TTATT
1 TTATT
71787 CGATTCGACC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 26 0.90
29 3 0.10
ACGTcount: A:0.21, C:0.00, G:0.07, T:0.72
Consensus pattern (28 bp):
TTATTTTATTTTATTATATTTGTTTATA
Found at i:71847 original size:143 final size:130
Alignment explanation
Indices: 71484--71983 Score: 379
Period size: 131 Copynumber: 3.7 Consensus size: 130
71474 ACCATTGTTA
* * * *
71484 TTTATTTATTTATTTA-TTGTTTCTAA-TATTCGATTCGACCTTGTGGTGA-TCCGATCCGGTGT
1 TTTATTTATATATATATTTGTTT-GAATTATTCGATTCGACCTTGTGGTGACT-CGAT-CGGGGT
* * * * ** * * *
71546 ATGATCCACATTATTATGGTTCAGATTCTGCT-AACTACTGAC-TTTTATTTTATTGCACTCTA-
63 ATAATCCATATTATTATGGTTCGGACTCTGCTAAAC-ACAAACTTTTTATTTTATT-TAATTTAT
* *
71608 ACCATT
126 GCTA-T
* * * * * *
71614 ATTTATTTATTTATTTA-TTGTTTCTAA-TATTCGATTTGACCATATGGTGA-TCGATACGGGGT
1 -TTTATTTATATATATATTTGTTT-GAATTATTCGATTCGACCTTGTGGTGACTCGAT-CGGGGT
* * * *
71676 ATAATCCACATTATTATTGTTTGGACTCTGCTAAACACAAACTTTTTAACTTATTTTATTTTATT
63 ATAATCCATATTATTATGGTTCGGACTCTGCTAAACACAAAC--TTT---TTATTTTA-TTTAAT
*
71741 TTATTTGTTTAT
122 TTA--TG-CTAT
* *
71753 TTTATTTTATTTGTATATATTTGTTTGAATTATTCGATTCGACCTTGTGGTGACCCGATCTGGGG
1 TTTA-TTTA--TATATATATTTGTTTGAATTATTCGATTCGACCTTGTGGTGACTCGATC-GGGG
* * * *
71818 TATTATCCATATTATTATGGTTCGAACTCTGCTAACCACTAACTTTTTATTTTATTTAATTTATG
62 TATAATCCATATTATTATGGTTCGGACTCTGCTAAACACAAACTTTTTATTTTATTTAATTTATG
71883 CTAT
127 CTAT
* *
71887 TTTATTTATATATATATTTGTTTGAATTATTCGATTCGACCTTGTGGTGACTTGATCCGAGGTAT
1 TTTATTTATATATATATTTGTTTGAATTATTCGATTCGACCTTGTGGTGACTCGAT-CGGGGTAT
* * * * *
71952 GACCCGTATTTTTATGGTTCGGACTCTACTAA
65 AATCCATATTATTATGGTTCGGACTCTGCTAA
71984 CCGCTAACTT
Statistics
Matches: 305, Mismatches: 44, Indels: 40
0.78 0.11 0.10
Matches are distributed among these distances:
130 40 0.13
131 127 0.42
132 1 0.00
133 6 0.02
134 7 0.02
135 2 0.01
136 12 0.04
137 10 0.03
138 12 0.04
139 5 0.02
140 1 0.00
141 11 0.04
142 27 0.09
143 44 0.14
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.48
Consensus pattern (130 bp):
TTTATTTATATATATATTTGTTTGAATTATTCGATTCGACCTTGTGGTGACTCGATCGGGGTATA
ATCCATATTATTATGGTTCGGACTCTGCTAAACACAAACTTTTTATTTTATTTAATTTATGCTAT
Found at i:72001 original size:16 final size:16
Alignment explanation
Indices: 71980--72022 Score: 77
Period size: 16 Copynumber: 2.7 Consensus size: 16
71970 TCGGACTCTA
71980 CTAACCGCTAACTTCT
1 CTAACCGCTAACTTCT
*
71996 CTAACCGCTAACTTTT
1 CTAACCGCTAACTTCT
72012 CTAACCGCTAA
1 CTAACCGCTAA
72023 TTATTAACTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.28, C:0.35, G:0.07, T:0.30
Consensus pattern (16 bp):
CTAACCGCTAACTTCT
Found at i:72225 original size:16 final size:16
Alignment explanation
Indices: 72190--72223 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
72180 ATTTCAGTTA
*
72190 TTTAACTTTATGCACT
1 TTTAAATTTATGCACT
72206 TTTAAATTTATGC-CT
1 TTTAAATTTATGCACT
72221 TTT
1 TTT
72224 TATTTTCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.24, C:0.15, G:0.06, T:0.56
Consensus pattern (16 bp):
TTTAAATTTATGCACT
Found at i:74943 original size:35 final size:35
Alignment explanation
Indices: 74879--74946 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
74869 CCTTAGTTCC
* *
74879 ATAAGGAATTACCAGTTCGATCAATATGAACCTAT
1 ATAAGGAATTACCAGTTCGACCAAGATGAACCTAT
* *
74914 ATAAGGAATTACCAGTTTGACCGAGATGAACCT
1 ATAAGGAATTACCAGTTCGACCAAGATGAACCT
74947 GCAGAGACTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (35 bp):
ATAAGGAATTACCAGTTCGACCAAGATGAACCTAT
Found at i:77090 original size:13 final size:14
Alignment explanation
Indices: 77063--77097 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
77053 CTTTTAAAAG
* *
77063 AATTTATATTTTAA
1 AATTTTTATTTAAA
77077 AATTTTTATTTAAA
1 AATTTTTATTTAAA
77091 AATTTTT
1 AATTTTT
77098 TAAAAAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
AATTTTTATTTAAA
Found at i:82265 original size:16 final size:18
Alignment explanation
Indices: 82244--82280 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
82234 AGGAAGAATA
82244 ATAAAA-CTAATAT-TAT
1 ATAAAATCTAATATATAT
*
82260 ATAAAATGTAATATATAT
1 ATAAAATCTAATATATAT
82278 ATA
1 ATA
82281 TATATATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 6 0.33
17 6 0.33
18 6 0.33
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.38
Consensus pattern (18 bp):
ATAAAATCTAATATATAT
Found at i:85573 original size:20 final size:20
Alignment explanation
Indices: 85522--85574 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 20
85512 TAGGATTTTT
*
85522 TTTGCTCAAATGATCAATCCA
1 TTTGCTCAAA-GGTCAATCCA
* ** *
85543 TTAGCAAAAAGGTCAATCCC
1 TTTGCTCAAAGGTCAATCCA
85563 TTTGCTCAAAGG
1 TTTGCTCAAAGG
85575 ATCGATCCTT
Statistics
Matches: 24, Mismatches: 8, Indels: 1
0.73 0.24 0.03
Matches are distributed among these distances:
20 17 0.71
21 7 0.29
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.28
Consensus pattern (20 bp):
TTTGCTCAAAGGTCAATCCA
Found at i:86431 original size:13 final size:13
Alignment explanation
Indices: 86413--86438 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
86403 TGTAGGGACT
86413 GTTGACTTTGACC
1 GTTGACTTTGACC
86426 GTTGACTTTGACC
1 GTTGACTTTGACC
86439 AAAAGTCAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.23, G:0.23, T:0.38
Consensus pattern (13 bp):
GTTGACTTTGACC
Found at i:88684 original size:24 final size:23
Alignment explanation
Indices: 88657--88784 Score: 123
Period size: 24 Copynumber: 5.3 Consensus size: 23
88647 TTCGATTTGA
88657 ATTCTGTTATGATACCTTACCTGG
1 ATTCTGTTATGATA-CTTACCTGG
*
88681 ATTCTGATATGATACTTGACCTGG
1 ATTCTGTTATGATACTT-ACCTGG
* * *
88705 ATTTTGTTATGATACCTGACCTAG
1 ATTCTGTTATGATA-CTTACCTGG
*
88729 ATTCTGATT-TGATACTTGACCTGA
1 ATTCTG-TTATGATACTT-ACCTGG
* *
88753 ATTCTGTTATGATATCTGACCTGA
1 ATTCTGTTATGATA-CTTACCTGG
*
88777 ATTATGTT
1 ATTCTGTT
88785 TTTATTTTTT
Statistics
Matches: 87, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
23 7 0.08
24 74 0.85
25 6 0.07
ACGTcount: A:0.24, C:0.16, G:0.17, T:0.42
Consensus pattern (23 bp):
ATTCTGTTATGATACTTACCTGG
Found at i:88732 original size:48 final size:48
Alignment explanation
Indices: 88654--88774 Score: 188
Period size: 48 Copynumber: 2.5 Consensus size: 48
88644 ATTTTCGATT
* *
88654 TGAATTCTGTTATGATACCTTACCTGGATTCTGATATGATACTTGACC
1 TGAATTCTGTTATGATACCTGACCTAGATTCTGATATGATACTTGACC
* * *
88702 TGGATTTTGTTATGATACCTGACCTAGATTCTGATTTGATACTTGACC
1 TGAATTCTGTTATGATACCTGACCTAGATTCTGATATGATACTTGACC
*
88750 TGAATTCTGTTATGATATCTGACCT
1 TGAATTCTGTTATGATACCTGACCT
88775 GAATTATGTT
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 65 1.00
ACGTcount: A:0.24, C:0.17, G:0.17, T:0.41
Consensus pattern (48 bp):
TGAATTCTGTTATGATACCTGACCTAGATTCTGATATGATACTTGACC
Found at i:93259 original size:24 final size:24
Alignment explanation
Indices: 93220--93325 Score: 122
Period size: 24 Copynumber: 4.4 Consensus size: 24
93210 ATTTGAATTT
*
93220 TGTTATGATACATAACCTGGATTC
1 TGTTATGATACTTAACCTGGATTC
* *
93244 TGGTATGATACTTAACCTGGATTT
1 TGTTATGATACTTAACCTGGATTC
* *
93268 TGTTATGATACCTGACCTGGATTC
1 TGTTATGATACTTAACCTGGATTC
* * * *
93292 TGATCTGATACTTGACCTGAATTC
1 TGTTATGATACTTAACCTGGATTC
*
93316 TATTATGATA
1 TGTTATGATA
93326 TCTGACCTGA
Statistics
Matches: 68, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 68 1.00
ACGTcount: A:0.26, C:0.16, G:0.18, T:0.40
Consensus pattern (24 bp):
TGTTATGATACTTAACCTGGATTC
Found at i:93287 original size:48 final size:48
Alignment explanation
Indices: 93213--93334 Score: 163
Period size: 48 Copynumber: 2.5 Consensus size: 48
93203 ATTTCTGATT
* * *
93213 TGAATTTTGTTATGATACATAACCTGGATTCTGGTATGATACTTAACC
1 TGAATTTTGTTATGATACCTGACCTGGATTCTGATATGATACTTAACC
* * *
93261 TGGATTTTGTTATGATACCTGACCTGGATTCTGATCTGATACTTGACC
1 TGAATTTTGTTATGATACCTGACCTGGATTCTGATATGATACTTAACC
* * *
93309 TGAATTCTATTATGATATCTGACCTG
1 TGAATTTTGTTATGATACCTGACCTG
93335 AATTATGTTT
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 64 1.00
ACGTcount: A:0.25, C:0.16, G:0.18, T:0.40
Consensus pattern (48 bp):
TGAATTTTGTTATGATACCTGACCTGGATTCTGATATGATACTTAACC
Found at i:93348 original size:24 final size:23
Alignment explanation
Indices: 93213--93348 Score: 110
Period size: 24 Copynumber: 5.7 Consensus size: 23
93203 ATTTCTGATT
* *
93213 TGAATTTTGTTATGATACATAACC
1 TGAATTCTGTTATGATAC-TGACC
* * *
93237 TGGATTCTGGTATGATACTTAACC
1 TGAATTCTGTTATGATAC-TGACC
* *
93261 TGGATTTTGTTATGATACCTGACC
1 TGAATTCTGTTATGATA-CTGACC
* * *
93285 TGGATTCTGATCTGATACTTGACC
1 TGAATTCTGTTATGATAC-TGACC
*
93309 TGAATTCTATTATGATATCTGACC
1 TGAATTCTGTTATGATA-CTGACC
* *
93333 TGAATTATGTTTTGAT
1 TGAATTCTGTTATGAT
93349 TTTTGATATA
Statistics
Matches: 92, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
23 1 0.01
24 89 0.97
25 2 0.02
ACGTcount: A:0.26, C:0.15, G:0.18, T:0.42
Consensus pattern (23 bp):
TGAATTCTGTTATGATACTGACC
Found at i:94544 original size:19 final size:20
Alignment explanation
Indices: 94503--94553 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
94493 GAAACCCCTT
* *
94503 TGAAAATATATGATTTTTGA
1 TGAAAATACATGATTTTTAA
94523 TGAAAATACATGA-TTTTAA
1 TGAAAATACATGATTTTTAA
*
94542 TGAAGATACATG
1 TGAAAATACATG
94554 CTCTTGGTCG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 16 0.57
20 12 0.43
ACGTcount: A:0.43, C:0.04, G:0.16, T:0.37
Consensus pattern (20 bp):
TGAAAATACATGATTTTTAA
Found at i:95467 original size:142 final size:142
Alignment explanation
Indices: 95294--95577 Score: 541
Period size: 142 Copynumber: 2.0 Consensus size: 142
95284 GCTAGATAAA
95294 AGGCATACGACGTTCATGAGCTTTAAGAAAACATATATGAGCTAGAAAATAGATGCATGCATGCA
1 AGGCATACGACGTTCATGAGCTTTAAGAAAACATATATGAGCTAGAAAATAGATGCATGCATGCA
95359 AATGAGCTAAAGAAACATCGATTTAAAGTTAGTGAGCTAATGTAAACATAACATGAGCTAGAATA
66 AATGAGCTAAAGAAACATCGATTTAAAGTTAGTGAGCTAATGTAAACATAACATGAGCTAGAATA
95424 ACATGGCATGTG
131 ACATGGCATGTG
*
95436 AGGCATACGACGTTCATGAGCTTTACGAAAACATATATGAGCTAGAAAATAGATGCATGCATGCA
1 AGGCATACGACGTTCATGAGCTTTAAGAAAACATATATGAGCTAGAAAATAGATGCATGCATGCA
*
95501 AATGAGCTAAAGAAACATGGATTTAAAGTTAGTGAGCTAATGTAAACATAACATGAGCTAGAATA
66 AATGAGCTAAAGAAACATCGATTTAAAGTTAGTGAGCTAATGTAAACATAACATGAGCTAGAATA
*
95566 ACATTGCATGTG
131 ACATGGCATGTG
95578 TTAATGAATG
Statistics
Matches: 139, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
142 139 1.00
ACGTcount: A:0.41, C:0.13, G:0.21, T:0.24
Consensus pattern (142 bp):
AGGCATACGACGTTCATGAGCTTTAAGAAAACATATATGAGCTAGAAAATAGATGCATGCATGCA
AATGAGCTAAAGAAACATCGATTTAAAGTTAGTGAGCTAATGTAAACATAACATGAGCTAGAATA
ACATGGCATGTG
Found at i:95653 original size:30 final size:31
Alignment explanation
Indices: 95605--95664 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
95595 ACATGCTGCC
**
95605 ATGATATCTAAATGATATGCAAACATAATAA
1 ATGATATCTAAAACATATGCAAACATAATAA
*
95636 ATGAT-TCTAAAACATATGTAAACATAATA
1 ATGATATCTAAAACATATGCAAACATAATA
95665 TAAAGCTAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.52, C:0.10, G:0.08, T:0.30
Consensus pattern (31 bp):
ATGATATCTAAAACATATGCAAACATAATAA
Found at i:96816 original size:13 final size:13
Alignment explanation
Indices: 96798--96827 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
96788 ACATGTTTTG
96798 TGAATCATCTCCT
1 TGAATCATCTCCT
96811 TGAATCATCTCCT
1 TGAATCATCTCCT
96824 TGAA
1 TGAA
96828 AAGATATGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.27, C:0.27, G:0.10, T:0.37
Consensus pattern (13 bp):
TGAATCATCTCCT
Found at i:98883 original size:19 final size:20
Alignment explanation
Indices: 98842--98892 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
98832 GAAACCCCTT
*
98842 TGAAAATACATGATTTTTTA
1 TGAAAATACATGATTTTTAA
98862 TGAAAATACATGA-TTTTAA
1 TGAAAATACATGATTTTTAA
*
98881 TGAAGATACATG
1 TGAAAATACATG
98893 TTCTTGGCCG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.43, C:0.06, G:0.14, T:0.37
Consensus pattern (20 bp):
TGAAAATACATGATTTTTAA
Found at i:99637 original size:20 final size:21
Alignment explanation
Indices: 99599--99638 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
99589 GATCATCTAG
* *
99599 AAGCTAAGATAACATGTATAT
1 AAGCTAAGATAAAAGGTATAT
99620 AAGCT-AGATAAAAGGTATA
1 AAGCTAAGATAAAAGGTATA
99639 CGACGTTCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.50, C:0.07, G:0.17, T:0.25
Consensus pattern (21 bp):
AAGCTAAGATAAAAGGTATAT
Found at i:101988 original size:20 final size:19
Alignment explanation
Indices: 101944--102018 Score: 69
Period size: 20 Copynumber: 3.8 Consensus size: 19
101934 CACAACGCGA
* *
101944 TTTCAAATTCGCAACACGG
1 TTTCCAATTCGCAACACAG
**
101963 ACTCCAATTTCGCAACACAG
1 TTTCCAA-TTCGCAACACAG
*
101983 TTTCCAAATTCGCAACTCAG
1 TTTCC-AATTCGCAACACAG
*
102003 TTTTCAGATTCGCAAC
1 TTTCCA-ATTCGCAAC
102019 TCGAATTTCT
Statistics
Matches: 45, Mismatches: 8, Indels: 5
0.78 0.14 0.09
Matches are distributed among these distances:
19 5 0.11
20 38 0.84
21 2 0.04
ACGTcount: A:0.31, C:0.29, G:0.12, T:0.28
Consensus pattern (19 bp):
TTTCCAATTCGCAACACAG
Found at i:102019 original size:20 final size:20
Alignment explanation
Indices: 101965--102020 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
101955 CAACACGGAC
* *
101965 TCCAATTTCGCAACACAGTT
1 TCCAAATTCGCAACTCAGTT
101985 TCCAAATTCGCAACTCAGTT
1 TCCAAATTCGCAACTCAGTT
* *
102005 TTCAGATTCGCAACTC
1 TCCAAATTCGCAACTC
102021 GAATTTCTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.29, C:0.30, G:0.11, T:0.30
Consensus pattern (20 bp):
TCCAAATTCGCAACTCAGTT
Found at i:102116 original size:20 final size:21
Alignment explanation
Indices: 102091--102145 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
102081 CGATTTTAAC
*
102091 AATTTCGCAACACGATTTTT-
1 AATTTCGCAACACAATTTTTG
* *
102111 AATTTCGTAACTCAATTTTTG
1 AATTTCGCAACACAATTTTTG
102132 AATTT-GCAACACAA
1 AATTTCGCAACACAA
102146 ATTTCTTCTC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 24 0.83
21 5 0.17
ACGTcount: A:0.35, C:0.18, G:0.09, T:0.38
Consensus pattern (21 bp):
AATTTCGCAACACAATTTTTG
Found at i:102168 original size:60 final size:60
Alignment explanation
Indices: 102133--102249 Score: 162
Period size: 60 Copynumber: 1.9 Consensus size: 60
102123 CAATTTTTGA
* *
102133 ATTTGCAACACAAATTTCTTCTCCGCAACTAGATTTTCTTTTTTGCAACACGAATTTATT
1 ATTTGCAACACAAATTTCTTCTCCGCAACTAGATTTTCTATTTCGCAACACGAATTTATT
* * * * * *
102193 TTTTGCAACACAAATTTCTTTTTCGCAACTTGATTTTCTTTTTCGCAACACAAATTT
1 ATTTGCAACACAAATTTCTTCTCCGCAACTAGATTTTCTATTTCGCAACACGAATTT
102250 TTTGTGTATA
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
60 51 1.00
ACGTcount: A:0.27, C:0.21, G:0.08, T:0.44
Consensus pattern (60 bp):
ATTTGCAACACAAATTTCTTCTCCGCAACTAGATTTTCTATTTCGCAACACGAATTTATT
Found at i:102180 original size:20 final size:20
Alignment explanation
Indices: 102137--102249 Score: 102
Period size: 20 Copynumber: 5.7 Consensus size: 20
102127 TTTTGAATTT
* * *
102137 GCAACACAAATTTCTTCTCC
1 GCAACACGAATTTCTTTTTC
* *
102157 GCAACTA-GATTTTCTTTTTT
1 GCAAC-ACGAATTTCTTTTTC
* *
102177 GCAACACGAATTTATTTTTT
1 GCAACACGAATTTCTTTTTC
*
102197 GCAACACAAATTTCTTTTTC
1 GCAACACGAATTTCTTTTTC
** *
102217 GCAACTTGATTTTCTTTTTC
1 GCAACACGAATTTCTTTTTC
*
102237 GCAACACAAATTT
1 GCAACACGAATTT
102250 TTTGTGTATA
Statistics
Matches: 73, Mismatches: 18, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
19 1 0.01
20 71 0.97
21 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.08, T:0.42
Consensus pattern (20 bp):
GCAACACGAATTTCTTTTTC
Found at i:103033 original size:12 final size:12
Alignment explanation
Indices: 103012--103045 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
103002 ACCGTATTTC
*
103012 CAATACCAAACA
1 CAATATCAAACA
103024 CAATATCAAACA
1 CAATATCAAACA
*
103036 CAATCTCAAA
1 CAATATCAAA
103046 ATCCATAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (12 bp):
CAATATCAAACA
Found at i:103198 original size:24 final size:24
Alignment explanation
Indices: 103171--103224 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
103161 GTATTCGAAA
103171 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
103195 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
103219 TTTGAT
1 TTTGAT
103225 GATATTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:105819 original size:13 final size:13
Alignment explanation
Indices: 105801--105825 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
105791 CTCCAGATTC
105801 GCAACTCAAATTT
1 GCAACTCAAATTT
105814 GCAACTCAAATT
1 GCAACTCAAATT
105826 CCAAATTTGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.08, T:0.28
Consensus pattern (13 bp):
GCAACTCAAATTT
Found at i:105865 original size:20 final size:20
Alignment explanation
Indices: 105828--105866 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
105818 CTCAAATTCC
* * *
105828 AAATTTGCAATGCGAAAATA
1 AAATTCGCAACGCAAAAATA
105848 AAATTCGCAACGCAAAAAT
1 AAATTCGCAACGCAAAAAT
105867 TGTATTCACA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.51, C:0.15, G:0.13, T:0.21
Consensus pattern (20 bp):
AAATTCGCAACGCAAAAATA
Found at i:105911 original size:20 final size:20
Alignment explanation
Indices: 105882--105940 Score: 93
Period size: 20 Copynumber: 3.0 Consensus size: 20
105872 TCACAACACG
105882 AAAA-TCGCAACTCGATATT
1 AAAATTCGCAACTCGATATT
105901 AAAATTCGCAACTCGATATT
1 AAAATTCGCAACTCGATATT
* *
105921 AAAATACGCAACACGATATT
1 AAAATTCGCAACTCGATATT
105941 CGTGTTGCGA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
19 4 0.11
20 33 0.89
ACGTcount: A:0.44, C:0.20, G:0.10, T:0.25
Consensus pattern (20 bp):
AAAATTCGCAACTCGATATT
Found at i:106012 original size:20 final size:20
Alignment explanation
Indices: 105989--106041 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
105979 TTCTCATTGT
* *
105989 GAATTCGATTTTCGTGTTGC
1 GAATTTGATTTTCGAGTTGC
* *
106009 GAATTTGAATATCGAGTTGC
1 GAATTTGATTTTCGAGTTGC
*
106029 GATTTTGATTTTC
1 GAATTTGATTTTC
106042 TTAAACGTAT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.21, C:0.11, G:0.23, T:0.45
Consensus pattern (20 bp):
GAATTTGATTTTCGAGTTGC
Found at i:107601 original size:21 final size:21
Alignment explanation
Indices: 107575--107712 Score: 129
Period size: 21 Copynumber: 6.6 Consensus size: 21
107565 AGTATGGAAT
* *
107575 GTGGATCCTGAACAATAGGAG
1 GTGGATCCTGAACGATGGGAG
107596 GTGGATCCTGAACGATGGGAG
1 GTGGATCCTGAACGATGGGAG
* *
107617 G-GGCTTCTTGAACGATGGGAG
1 GTGG-ATCCTGAACGATGGGAG
* *
107638 G-GGCCTCTTGAACGATGGGAG
1 GTGG-ATCCTGAACGATGGGAG
* *
107659 G-GGCCTCTTGAACGATGGGAG
1 GTGG-ATCCTGAACGATGGGAG
* **
107680 GTGAATCCTGAATAATGGGAG
1 GTGGATCCTGAACGATGGGAG
107701 GTGGATCCTGAA
1 GTGGATCCTGAA
107713 AGGCTGTAGG
Statistics
Matches: 104, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
20 2 0.02
21 101 0.97
22 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.39, T:0.21
Consensus pattern (21 bp):
GTGGATCCTGAACGATGGGAG
Found at i:107698 original size:42 final size:42
Alignment explanation
Indices: 107583--107701 Score: 148
Period size: 42 Copynumber: 2.8 Consensus size: 42
107573 ATGTGGATCC
* * * *
107583 TGAACAATAGGAGGTGGATCCTGAACGATGGGAGGGGCTTCT
1 TGAACGATGGGAGGTGAATCCTGAACGATGGGAGGGGCCTCT
* ** *
107625 TGAACGATGGGAGGGGCCTCTTGAACGATGGGAGGGGCCTCT
1 TGAACGATGGGAGGTGAATCCTGAACGATGGGAGGGGCCTCT
**
107667 TGAACGATGGGAGGTGAATCCTGAATAATGGGAGG
1 TGAACGATGGGAGGTGAATCCTGAACGATGGGAGG
107702 TGGATCCTGA
Statistics
Matches: 64, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 64 1.00
ACGTcount: A:0.25, C:0.14, G:0.40, T:0.20
Consensus pattern (42 bp):
TGAACGATGGGAGGTGAATCCTGAACGATGGGAGGGGCCTCT
Found at i:107883 original size:4 final size:4
Alignment explanation
Indices: 107862--107895 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
107852 AGGCCTCTAA
* *
107862 AAAT AAAT TAAT ACAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
107896 TGTCGAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (4 bp):
AAAT
Found at i:108109 original size:21 final size:23
Alignment explanation
Indices: 108085--108141 Score: 77
Period size: 21 Copynumber: 2.7 Consensus size: 23
108075 TGCACCATTG
*
108085 TCATCATGTAAAGCAT-C-GACC
1 TCATCACGTAAAGCATACTGACC
108106 TCATCACGTAAA--ATACTGACC
1 TCATCACGTAAAGCATACTGACC
108127 TCATCACGTAAAGCA
1 TCATCACGTAAAGCA
108142 CCTAACTCAT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
19 2 0.06
20 1 0.03
21 27 0.87
23 1 0.03
ACGTcount: A:0.37, C:0.28, G:0.12, T:0.23
Consensus pattern (23 bp):
TCATCACGTAAAGCATACTGACC
Found at i:108143 original size:63 final size:63
Alignment explanation
Indices: 108004--108143 Score: 149
Period size: 63 Copynumber: 2.2 Consensus size: 63
107994 AGAAACAATC
* * * *
108004 TCACGTAAAGCACCATTTTCATCACGTAAAATAGCTACCTCACCACGTAAAGACCCTACCTCA
1 TCACGTAAAGCACCATTGTCATCACGTAAAACAGCGACCTCACCACGTAAAGACACTACCTCA
* * * * * * *
108067 TAACGCT-ATGCACCATTGTCATCATGTAAAGCATCGACCTCATCACGTAAA-ATACTGACCTCA
1 TCACG-TAAAGCACCATTGTCATCACGTAAAACAGCGACCTCACCACGTAAAGACACT-ACCTCA
108130 TCACGTAAAGCACC
1 TCACGTAAAGCACC
108144 TAACTCATCC
Statistics
Matches: 61, Mismatches: 13, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
62 4 0.07
63 56 0.92
64 1 0.02
ACGTcount: A:0.34, C:0.31, G:0.11, T:0.23
Consensus pattern (63 bp):
TCACGTAAAGCACCATTGTCATCACGTAAAACAGCGACCTCACCACGTAAAGACACTACCTCA
Found at i:108150 original size:21 final size:20
Alignment explanation
Indices: 108022--108152 Score: 66
Period size: 21 Copynumber: 6.2 Consensus size: 20
108012 AGCACCATTT
**
108022 TCATCACGTAAAATAGCTACC
1 TCATCACGTAAAGCA-CTACC
* *
108043 TCACCACGTAAAGACCCTACC
1 TCATCACGTAAAG-CACTACC
* * * **
108064 TCATAACGCT-ATGCACCATTG
1 TCATCACG-TAAAGCACTA-CC
* *
108085 TCATCATGTAAAGCATCGACC
1 TCATCACGTAAAGCA-CTACC
**
108106 TCATCACGTAAAATACTGACC
1 TCATCACGTAAAGCACT-ACC
*
108127 TCATCACGTAAAGCACCTAAC
1 TCATCACGTAAAGCA-CTACC
108148 TCATC
1 TCATC
108153 CCGTGGAGGT
Statistics
Matches: 79, Mismatches: 24, Indels: 14
0.68 0.21 0.12
Matches are distributed among these distances:
20 5 0.06
21 69 0.87
22 5 0.06
ACGTcount: A:0.34, C:0.32, G:0.11, T:0.23
Consensus pattern (20 bp):
TCATCACGTAAAGCACTACC
Found at i:109809 original size:20 final size:20
Alignment explanation
Indices: 109786--109827 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
109776 AATTCGCAAC
*
109786 ATGAAAATCGCAACTCGAAA
1 ATGAAAATCGCAACACGAAA
*
109806 ATGAAATTCGCAACACGAAA
1 ATGAAAATCGCAACACGAAA
109826 AT
1 AT
109828 CGCAACGCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.50, C:0.19, G:0.14, T:0.17
Consensus pattern (20 bp):
ATGAAAATCGCAACACGAAA
Found at i:109818 original size:34 final size:34
Alignment explanation
Indices: 109775--109840 Score: 114
Period size: 34 Copynumber: 1.9 Consensus size: 34
109765 CTTGAAACTT
* *
109775 AAATTCGCAACATGAAAATCGCAACTCGAAAATG
1 AAATTCGCAACACGAAAATCGCAACGCGAAAATG
109809 AAATTCGCAACACGAAAATCGCAACGCGAAAA
1 AAATTCGCAACACGAAAATCGCAACGCGAAAA
109841 CTAAAATCGC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.48, C:0.23, G:0.15, T:0.14
Consensus pattern (34 bp):
AAATTCGCAACACGAAAATCGCAACGCGAAAATG
Found at i:110379 original size:20 final size:20
Alignment explanation
Indices: 110350--110405 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
110340 ATTTACATTT
* * *
110350 GTGTTACGAAATTAATATTC
1 GTGTTGCGAAAATAAAATTC
110370 GTGTTGCGAAAATAAAATTC
1 GTGTTGCGAAAATAAAATTC
*
110390 GCGTTGCGAAAATAAA
1 GTGTTGCGAAAATAAA
110406 CACGCATTGC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.39, C:0.11, G:0.20, T:0.30
Consensus pattern (20 bp):
GTGTTGCGAAAATAAAATTC
Found at i:110417 original size:19 final size:19
Alignment explanation
Indices: 110373--110428 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 19
110363 AATATTCGTG
*
110373 TTGCGAAAATAAAATTCGCG
1 TTGCGAAAATAAAA-TCGCA
110393 TTGCGAAAATAAACA-CGCA
1 TTGCGAAAATAAA-ATCGCA
*
110412 TTGCGAATTATAAAATC
1 TTGCGAA-AATAAAATC
110429 TTGTTGCGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
19 11 0.35
20 19 0.61
21 1 0.03
ACGTcount: A:0.43, C:0.16, G:0.16, T:0.25
Consensus pattern (19 bp):
TTGCGAAAATAAAATCGCA
Found at i:110515 original size:40 final size:41
Alignment explanation
Indices: 110452--110584 Score: 119
Period size: 40 Copynumber: 3.3 Consensus size: 41
110442 GACTCTTGTT
* * *
110452 TTGCGAATTTAAAAATAGCGTTGCGAAA-AAGAAATTCGAG
1 TTGCGAATTTGAAAATTGAGTTGCGAAATAAGAAATTCGAG
* *
110492 TTGCGAATTTGAAAATTGAGTTGC-AAATTTGAGAAATTCGCG
1 TTGCGAATTTGAAAATTGAGTTGCGAAA--TAAGAAATTCGAG
* * * * * * *
110534 TTGCGAGTTTGGAAACTGTGTTGCGAAATTAG-AGTTCGTG
1 TTGCGAATTTGAAAATTGAGTTGCGAAATAAGAAATTCGAG
110574 TTGCGAATTTG
1 TTGCGAATTTG
110585 TTGGTTATTT
Statistics
Matches: 76, Mismatches: 13, Indels: 8
0.78 0.13 0.08
Matches are distributed among these distances:
39 3 0.04
40 37 0.49
41 3 0.04
42 30 0.39
43 3 0.04
ACGTcount: A:0.32, C:0.10, G:0.26, T:0.32
Consensus pattern (41 bp):
TTGCGAATTTGAAAATTGAGTTGCGAAATAAGAAATTCGAG
Found at i:110548 original size:21 final size:21
Alignment explanation
Indices: 110482--110584 Score: 86
Period size: 20 Copynumber: 5.0 Consensus size: 21
110472 TTGCGAAAAA
110482 GAAATTCGAGTTGCGAATTTG
1 GAAATTCGAGTTGCGAATTTG
* *
110503 AAAATT-GAGTTGCAAATTTG
1 GAAATTCGAGTTGCGAATTTG
* *
110523 AGAAATTCGCGTTGCGAGTTTG
1 -GAAATTCGAGTTGCGAATTTG
* * * *
110545 GAAACT-GTGTTGCGAAATTA
1 GAAATTCGAGTTGCGAATTTG
* *
110565 G-AGTTCGTGTTGCGAATTTG
1 GAAATTCGAGTTGCGAATTTG
110585 TTGGTTATTT
Statistics
Matches: 64, Mismatches: 15, Indels: 7
0.74 0.17 0.08
Matches are distributed among these distances:
19 2 0.03
20 36 0.56
21 15 0.23
22 11 0.17
ACGTcount: A:0.28, C:0.10, G:0.28, T:0.34
Consensus pattern (21 bp):
GAAATTCGAGTTGCGAATTTG
Found at i:110557 original size:42 final size:43
Alignment explanation
Indices: 110481--110584 Score: 117
Period size: 42 Copynumber: 2.5 Consensus size: 43
110471 GTTGCGAAAA
*
110481 AGAAATTCGAGTTGCGAATTTGAAAATTGAGTTGC-AAATTTG
1 AGAAATTCGAGTTGCGAATTTGAAAACTGAGTTGCGAAATTTG
* * * *
110523 AGAAATTCGCGTTGCGAGTTTGGAAACTGTGTTGCGAAA-TT-
1 AGAAATTCGAGTTGCGAATTTGAAAACTGAGTTGCGAAATTTG
* *
110564 AG-AGTTCGTGTTGCGAATTTG
1 AGAAATTCGAGTTGCGAATTTG
110585 TTGGTTATTT
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
40 16 0.30
41 2 0.04
42 32 0.60
43 3 0.06
ACGTcount: A:0.29, C:0.10, G:0.28, T:0.34
Consensus pattern (43 bp):
AGAAATTCGAGTTGCGAATTTGAAAACTGAGTTGCGAAATTTG
Found at i:112408 original size:84 final size:83
Alignment explanation
Indices: 112194--112409 Score: 190
Period size: 84 Copynumber: 2.6 Consensus size: 83
112184 TAAACTCGTG
* ** * * * *
112194 TTTTAGGATA-TTATTTTAATTTTATCTTTAGAAATTTTAGTTTAAATAGTTTTAAGTATTTTAA
1 TTTTAGGATATTTATCTTAGCTTTGT-TTTAGGAATTTAAGTATAAATAGTTTTAAGTATTTTAA
**
112258 TTAGGATTTTGGATATTAT
65 TTAGGATTTAAGATATTAT
** * * * * *
112277 TTTTATTATATTTTATCTTATCTTTGTTTTAGGAATTTTAGTTTAAATATTTTTAAGTGTTTTAA
1 TTTTAGGATA-TTTATCTTAGCTTTGTTTTAGGAATTTAAGTATAAATAGTTTTAAGTATTTTAA
112342 TTAGGATTTAAGATATTA-
65 TTAGGATTTAAGATATTAT
112360 TTTTAGGA-A-TTATCTTTAGC-TTGTTTTCAGGAATTTGAAGGCTATAAATA
1 TTTTAGGATATTTATC-TTAGCTTTGTTTT-AGGAATTT-AA-G-TATAAATA
112410 CCCTCTCAGG
Statistics
Matches: 110, Mismatches: 16, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
80 12 0.11
81 12 0.11
82 2 0.02
83 15 0.14
84 58 0.53
85 11 0.10
ACGTcount: A:0.30, C:0.03, G:0.13, T:0.54
Consensus pattern (83 bp):
TTTTAGGATATTTATCTTAGCTTTGTTTTAGGAATTTAAGTATAAATAGTTTTAAGTATTTTAAT
TAGGATTTAAGATATTAT
Found at i:113057 original size:15 final size:15
Alignment explanation
Indices: 113037--113078 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
113027 AAACCCTTTT
113037 ATATTTATTATATTA
1 ATATTTATTATATTA
*
113052 ATATTTATTATTTTA
1 ATATTTATTATATTA
*
113067 TTATTTTATTAT
1 ATA-TTTATTAT
113079 TTTTCCTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 16 0.67
16 8 0.33
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
ATATTTATTATATTA
Found at i:113066 original size:23 final size:24
Alignment explanation
Indices: 113035--113080 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
113025 AAAAACCCTT
113035 TTATATTTATTATATTAATATTTA
1 TTATATTTATTATATTAATATTTA
* *
113059 TTAT-TTTATTATTTTATTATTT
1 TTATATTTATTATATTAATATTT
113081 TTCCTTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (24 bp):
TTATATTTATTATATTAATATTTA
Found at i:113068 original size:8 final size:8
Alignment explanation
Indices: 113035--113081 Score: 60
Period size: 8 Copynumber: 5.9 Consensus size: 8
113025 AAAAACCCTT
113035 TTATATTTA
1 TTAT-TTTA
*
113044 TTATATTA
1 TTATTTTA
*
113052 ATA-TTTA
1 TTATTTTA
113059 TTATTTTA
1 TTATTTTA
113067 TTATTTTA
1 TTATTTTA
113075 TTATTTT
1 TTATTTT
113082 TCCTTTTTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
7 5 0.15
8 24 0.73
9 4 0.12
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (8 bp):
TTATTTTA
Found at i:113076 original size:26 final size:26
Alignment explanation
Indices: 113033--113102 Score: 72
Period size: 26 Copynumber: 2.7 Consensus size: 26
113023 AAAAAAACCC
* *
113033 TTTTATATTTATTATATTAATATTT-A
1 TTTTTTATTTATTTTATT-ATATTTCA
* *
113059 TTATTTTA-TTATTTTATTATTTTTCC
1 TT-TTTTATTTATTTTATTATATTTCA
113085 TTTTTTATTTATTTTATT
1 TTTTTTATTTATTTTATT
113103 TTAATATATC
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
25 10 0.27
26 23 0.62
27 4 0.11
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (26 bp):
TTTTTTATTTATTTTATTATATTTCA
Found at i:113088 original size:23 final size:22
Alignment explanation
Indices: 113033--113104 Score: 65
Period size: 23 Copynumber: 3.1 Consensus size: 22
113023 AAAAAAACCC
* *
113033 TTTTATATTTATTATATTAATAT
1 TTTTAT-TTTATTATTTTATTAT
113056 TTATTATTTTATTATTTTATTAT
1 TT-TTATTTTATTATTTTATTAT
* *
113079 TTTTCCTTTT-TTATTTATTTTAT
1 TTTT-ATTTTATTATTT-TATTAT
113102 TTT
1 TTT
113105 AATATATCTT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
22 8 0.19
23 30 0.71
24 4 0.10
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (22 bp):
TTTTATTTTATTATTTTATTAT
Found at i:113104 original size:16 final size:15
Alignment explanation
Indices: 113040--113104 Score: 58
Period size: 17 Copynumber: 4.1 Consensus size: 15
113030 CCCTTTTATA
* * *
113040 TTTATTATATTAATA
1 TTTATTATTTTATTT
113055 TTTATTATTTTATTAT
1 TTTATTATTTTATT-T
*
113071 TTTATTATTTTTCCTTT
1 TTTATTA-TTTT-ATTT
113088 TTTATTTATTTTATTT
1 TTTA-TTATTTTATTT
113104 T
1 T
113105 AATATATCTT
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
15 12 0.29
16 11 0.27
17 13 0.32
18 5 0.12
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTATTATTTTATTT
Found at i:118744 original size:22 final size:23
Alignment explanation
Indices: 118671--118744 Score: 73
Period size: 22 Copynumber: 3.2 Consensus size: 23
118661 TAAAAAAACC
*
118671 CTTTTATATTTATTACTATTACTAT
1 CTTTTAT-TTTATTATTATT-CTAT
*
118696 -TTATTATTTTATTATT-TTCCAT
1 CTT-TTATTTTATTATTATTCTAT
*
118718 TTTTTATTTTATT-TTATTCTAT
1 CTTTTATTTTATTATTATTCTAT
118740 CTTTT
1 CTTTT
118745 CAATTTCATC
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
21 2 0.05
22 22 0.52
23 4 0.10
24 10 0.24
25 4 0.10
ACGTcount: A:0.22, C:0.09, G:0.00, T:0.69
Consensus pattern (23 bp):
CTTTTATTTTATTATTATTCTAT
Found at i:122718 original size:91 final size:91
Alignment explanation
Indices: 122563--122728 Score: 296
Period size: 91 Copynumber: 1.8 Consensus size: 91
122553 AAATACAAAC
**
122563 ATTGCATGGCAGGTAGAAACTGTATACGAATGCCAAAAGAATTTGCTAAAAGATTACTCAAAAAT
1 ATTGCATGGCAGGTAGAAACTGTATACGAATGCCAAAAGAATTTAATAAAAGATTACTCAAAAAT
122628 AAAAGTTATATTTACTAAAACATCTA
66 AAAAGTTATATTTACTAAAACATCTA
* *
122654 ATTGCATGGCAGTTGGAAACTGTATACGAATGCCAAAAGAATTTAATAAAAGATTACTCAAAAAT
1 ATTGCATGGCAGGTAGAAACTGTATACGAATGCCAAAAGAATTTAATAAAAGATTACTCAAAAAT
122719 AAAAGTTATA
66 AAAAGTTATA
122729 CATCTAATAA
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
91 71 1.00
ACGTcount: A:0.46, C:0.12, G:0.15, T:0.27
Consensus pattern (91 bp):
ATTGCATGGCAGGTAGAAACTGTATACGAATGCCAAAAGAATTTAATAAAAGATTACTCAAAAAT
AAAAGTTATATTTACTAAAACATCTA
Found at i:128190 original size:21 final size:21
Alignment explanation
Indices: 128166--128231 Score: 80
Period size: 21 Copynumber: 3.1 Consensus size: 21
128156 TAAACATGTG
*
128166 ATGCTCCATTGAATTCAATGA-
1 ATGCTCCATTGAATTCAA-CAC
* *
128187 ATGCTCAATTTAATTCAACAC
1 ATGCTCCATTGAATTCAACAC
*
128208 ATGCTCCATTGAATTCAACGC
1 ATGCTCCATTGAATTCAACAC
128229 ATG
1 ATG
128232 ATCTTTTTCA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
20 1 0.03
21 37 0.97
ACGTcount: A:0.33, C:0.23, G:0.12, T:0.32
Consensus pattern (21 bp):
ATGCTCCATTGAATTCAACAC
Found at i:133321 original size:28 final size:28
Alignment explanation
Indices: 133290--133355 Score: 78
Period size: 28 Copynumber: 2.4 Consensus size: 28
133280 GTGTCTGTAC
*
133290 TAACAAATAAATATTAATGTGCTTAAAT
1 TAACAAATAAATAATAATGTGCTTAAAT
* ** * *
133318 TAACAAATGAATAATGTTGTGCTTTAGT
1 TAACAAATAAATAATAATGTGCTTAAAT
133346 TAACAAATAA
1 TAACAAATAA
133356 GCACCATTGT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.47, C:0.08, G:0.11, T:0.35
Consensus pattern (28 bp):
TAACAAATAAATAATAATGTGCTTAAAT
Found at i:134708 original size:21 final size:20
Alignment explanation
Indices: 134684--134760 Score: 118
Period size: 21 Copynumber: 3.7 Consensus size: 20
134674 CGAGTTACTT
134684 GCGACGGCCGCAATAGCGTCC
1 GCGACGGCCGCAATAGC-TCC
134705 GCGACGGCCGCAATAGCATCC
1 GCGACGGCCGCAATAGC-TCC
134726 GCGACGGCCGCAATAGCTCC
1 GCGACGGCCGCAATAGCTCC
*
134746 TGCGATGGCCGCAAT
1 -GCGACGGCCGCAAT
134761 CACGGTAAAT
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
20 3 0.06
21 50 0.94
ACGTcount: A:0.21, C:0.36, G:0.31, T:0.12
Consensus pattern (20 bp):
GCGACGGCCGCAATAGCTCC
Found at i:138712 original size:23 final size:23
Alignment explanation
Indices: 138686--138763 Score: 60
Period size: 23 Copynumber: 3.6 Consensus size: 23
138676 TTTAAAATAT
138686 TTTTGAAAACATATAATATATAA
1 TTTTGAAAACATATAATATATAA
** *
138709 TTTT-AAAA-A-A-AA-ATCGAT
1 TTTTGAAAACATATAATATATAA
**
138727 TTTTGAAAACATAT-ATAATATGG
1 TTTTGAAAACATATAAT-ATATAA
138750 TTTTGAAAACATAT
1 TTTTGAAAACATAT
138764 TTTTTTAAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 12
0.69 0.11 0.20
Matches are distributed among these distances:
18 7 0.17
19 6 0.14
20 2 0.05
21 3 0.07
22 4 0.10
23 20 0.48
ACGTcount: A:0.49, C:0.05, G:0.08, T:0.38
Consensus pattern (23 bp):
TTTTGAAAACATATAATATATAA
Found at i:138768 original size:38 final size:37
Alignment explanation
Indices: 138669--138841 Score: 131
Period size: 38 Copynumber: 4.6 Consensus size: 37
138659 GTATATATAG
*
138669 TATAGTTTT-TAAA-ATA-TTTTTGAAAACATATAATA
1 TATAGTTTTGAAAACATATTTTTTGAAAACATATAA-A
* * * *
138704 TATAATTTTAAAAAAAAATCGATTTTTGAAAACATATATAA
1 TATAGTTTTGAAAACATAT---TTTTTGAAAACATATA-AA
* * *
138745 TATGGTTTTGAAAACATATTTTTTTAAAACATGTAATA
1 TATAGTTTTGAAAACATATTTTTTGAAAACATATAA-A
* * * *
138783 TATAG-TTTAAAAAAACGA-TTTTTGAAAACGTATAAAA
1 TATAGTTTTGAAAACA-TATTTTTTGAAAACATAT-AAA
138820 TATAGTTTTGAAAACATATTTT
1 TATAGTTTTGAAAACATATTTT
138842 GAATATATAT
Statistics
Matches: 106, Mismatches: 20, Indels: 21
0.72 0.14 0.14
Matches are distributed among these distances:
35 8 0.08
36 3 0.03
37 30 0.28
38 33 0.31
41 31 0.29
42 1 0.01
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.41
Consensus pattern (37 bp):
TATAGTTTTGAAAACATATTTTTTGAAAACATATAAA
Found at i:138828 original size:75 final size:78
Alignment explanation
Indices: 138669--138841 Score: 232
Period size: 75 Copynumber: 2.3 Consensus size: 78
138659 GTATATATAG
* *
138669 TATAGTTTT-TAAA-ATA-TTTTTGAAAACATATAATATATAATTTTAAAAAAAAATCGATTTTT
1 TATAGTTTTGAAAACATATTTTTTGAAAACATATAATATATAAGTTT-AAAAAAAATCGATTTTT
*
138731 GAAAACATATATAA
65 GAAAACATATAAAA
* * *
138745 TATGGTTTTGAAAACATATTTTTTTAAAACATGTAATATAT-AGTTT-AAAAAAA-CGATTTTTG
1 TATAGTTTTGAAAACATATTTTTTGAAAACATATAATATATAAGTTTAAAAAAAATCGATTTTTG
*
138807 AAAACGTATAAAA
66 AAAACATATAAAA
138820 TATAGTTTTGAAAACATATTTT
1 TATAGTTTTGAAAACATATTTT
138842 GAATATATAT
Statistics
Matches: 86, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
75 41 0.48
76 15 0.17
77 3 0.03
78 7 0.08
79 20 0.23
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.41
Consensus pattern (78 bp):
TATAGTTTTGAAAACATATTTTTTGAAAACATATAATATATAAGTTTAAAAAAAATCGATTTTTG
AAAACATATAAAA
Found at i:138851 original size:2 final size:2
Alignment explanation
Indices: 138844--138868 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
138834 CATATTTTGA
138844 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
138869 GTTTTTAAAA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:138964 original size:5 final size:5
Alignment explanation
Indices: 138954--139047 Score: 74
Period size: 5 Copynumber: 19.4 Consensus size: 5
138944 TATTGTGTAC
138954 ATATT ATATT ATA-T ATATT ATACATT AT-TT ATATT ATTATT -TATT
1 ATATT ATATT ATATT ATATT AT--ATT ATATT ATATT A-TATT ATATT
* * * * *
138999 GTTTT ATATT -TATT ATATT AGATT ATATT AGATT AGATT AT-TT AT-TT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
139046 AT
1 AT
139048 TTAATTTCAT
Statistics
Matches: 75, Mismatches: 7, Indels: 15
0.77 0.07 0.15
Matches are distributed among these distances:
4 24 0.32
5 42 0.56
6 4 0.05
7 5 0.07
ACGTcount: A:0.35, C:0.01, G:0.04, T:0.60
Consensus pattern (5 bp):
ATATT
Found at i:143953 original size:261 final size:261
Alignment explanation
Indices: 143489--144000 Score: 916
Period size: 261 Copynumber: 2.0 Consensus size: 261
143479 CGAAGGAAGA
*
143489 ATGACACCATTCCCATACCAGATCACAAGGATACTCGGACCATGGAAGAGCATCTTAAACTTGTT
1 ATGACACCATTCCCATACCAGATCACAAGGATACTCGGACCATGGAAGAGCATCTTAAACCTGTT
* *
143554 CCTTATGAATTAGAGATAGAAAAGAAGAAAGTTGAAGATGAAGGAAGAGCTGAAACAAAGACTAA
66 CCTTATGAATTAGAGATAAAAAAGAAGAAAGTTGAAGATGAACGAAGAGCTGAAACAAAGACTAA
143619 GGGAACTCGAAGCTGAAAAATTCCAATAGAAGTTAGATGATGATACTCAAAAGAATCAAGCAGAC
131 GGGAACTCGAAGCTGAAAAATTCCAATAGAAGTTAGATGATGATACTCAAAAGAATCAAGCAGAC
* *
143684 AGGTTAGAAAAGGAATATAAGAAAGTTTTCTTTGAGTTGGAAGATTTGAGAAAAGGAATAAAGAT
196 AAGTTAGAAAAGGAATATAAGAAAGTTTACTTTGAGTTGGAAGATTTGAGAAAAGGAATAAAGAT
143749 G
261 G
*
143750 ATGACACCATTCCCATACCAGATCATAAGGATACTCGGACCATGGAAGAGCATCTTAAACCTGTT
1 ATGACACCATTCCCATACCAGATCACAAGGATACTCGGACCATGGAAGAGCATCTTAAACCTGTT
* * *
143815 CCTTCTGAATTAGAGATAAAAAAGAAGAAATTTGAAGCTGAACGAAGAGCTGAAACAAAGACTAA
66 CCTTATGAATTAGAGATAAAAAAGAAGAAAGTTGAAGATGAACGAAGAGCTGAAACAAAGACTAA
*
143880 GGGAACTCGAAGCTGAAAAATTCCAATGGAAGTTAGATGATGATACTCAAAAGAATCAAGCAGAC
131 GGGAACTCGAAGCTGAAAAATTCCAATAGAAGTTAGATGATGATACTCAAAAGAATCAAGCAGAC
* *
143945 AAGTTAGAAAATGAATATAAGAAAGTTTACTTTGAGTTGGAAGATTTGATAAAAGG
196 AAGTTAGAAAAGGAATATAAGAAAGTTTACTTTGAGTTGGAAGATTTGAGAAAAGG
144001 GTATCAAGAG
Statistics
Matches: 239, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
261 239 1.00
ACGTcount: A:0.43, C:0.13, G:0.22, T:0.22
Consensus pattern (261 bp):
ATGACACCATTCCCATACCAGATCACAAGGATACTCGGACCATGGAAGAGCATCTTAAACCTGTT
CCTTATGAATTAGAGATAAAAAAGAAGAAAGTTGAAGATGAACGAAGAGCTGAAACAAAGACTAA
GGGAACTCGAAGCTGAAAAATTCCAATAGAAGTTAGATGATGATACTCAAAAGAATCAAGCAGAC
AAGTTAGAAAAGGAATATAAGAAAGTTTACTTTGAGTTGGAAGATTTGAGAAAAGGAATAAAGAT
G
Found at i:144236 original size:8 final size:8
Alignment explanation
Indices: 144223--144248 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
144213 GCCTCGAAAC
144223 TTCATGCA
1 TTCATGCA
144231 TTCATGCA
1 TTCATGCA
144239 TTCATGCA
1 TTCATGCA
144247 TT
1 TT
144249 TCTGCATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.23, C:0.23, G:0.12, T:0.42
Consensus pattern (8 bp):
TTCATGCA
Found at i:144678 original size:24 final size:24
Alignment explanation
Indices: 144651--144696 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
144641 TCAAGGAGAC
* *
144651 TCATATACTGCAAAAGTACAAGCT
1 TCATATACTACAAAAGCACAAGCT
*
144675 TCATCTACTACAAAAGCACAAG
1 TCATATACTACAAAAGCACAAG
144697 ATTAATCGGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.43, C:0.24, G:0.11, T:0.22
Consensus pattern (24 bp):
TCATATACTACAAAAGCACAAGCT
Found at i:152648 original size:214 final size:214
Alignment explanation
Indices: 152279--153409 Score: 1724
Period size: 214 Copynumber: 5.4 Consensus size: 214
152269 CAACATCTTG
* * * * * *
152279 GTGAAAACATCCTGCCCGAAGGTCTTATGGATGACCCGAAGGATTTATTC-TCTTGCTCGAGAGA
1 GTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTA-TCATCTTGCTCTAAAGG
* * * *
152343 CTCACAAATGACCCGAAAGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCTCGAAGGACTT
65 CTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTT
** * *
152408 CGAAATTGTGAAATTTTGAAAATCGCATTCTTAATTTTCAAAAATTTCATCTTCTTAAAATATCA
130 ATAAATTGTGAAATTTTGAAAATCGCATTCTTAGTTTTCAAAAATTTCATCTTCTTAAAACATC-
152473 ATTTTT-ATTTTCAAATTCAT
194 ATTTTTCATTTTCAAATTCAT
* * *
152493 GTGAAAACATCCTACTCGAAGGTCTTATGGATGGCCCGAAGGACTTGTCATCTTGCTCAAAAGGC
1 GTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGC
* *
152558 TTACAGATGACCCGAAGGATTTAAGCATCATGCTCAAAAGACTTATTGATGGCCCGAAGGACTTA
66 TTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTA
* *
152623 TAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCAT
131 TAAATTGTGAAATTTTGAAAATCGCATTCTTAGTTTTCAAAAATTTCATCTTCTTAAAACATCA-
152688 TTTTTTCATTTTCAAATTCAT
195 -TTTTTCATTTTCAAATTCAT
* * *
152709 GTGAAAACATCTTACCTGAAGGTTTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGC
1 GTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGC
* *
152774 TTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGA-GTACTGATGGCCCGAAAGACTTA
66 TTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTA
* * *
152838 TAAATTATGAAAATTTGAAAAT----TGC--A---TT------TTTCATCTTCTTAAAACATCAT
131 TAAATTGTGAAATTTTGAAAATCGCATTCTTAGTTTTCAAAAATTTCATCTTCTTAAAACATCAT
152888 TTTTCATTTTCAAATTCAT
196 TTTTCATTTTCAAATTCAT
* *
152907 GTGAAAACATCCTACCCGAAGGTTTTACGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGC
1 GTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGC
* *
152972 TTACAGATGACCCTAAGGAATTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTA
66 TTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTA
*
153037 TAAATTGTGAAATTTTGAAAATCGCATTCTTTGTTTTCAAAAATTTCATCTTCTTAAAACATCAT
131 TAAATTGTGAAATTTTGAAAATCGCATTCTTAGTTTTCAAAAATTTCATCTTCTTAAAACATCAT
153102 TTTTCATTTTCAAATTCAT
196 TTTTCATTTTCAAATTCAT
* * *
153121 GTGAAAACATCCTACCCGAAGGTTTTACGGATGGCCCAAAGGACTTATCATCTTGCTCTAAAGGC
1 GTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGC
*
153186 TTACAGATGACCCGAAGGAATTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTA
66 TTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTA
*
153251 TAAATTGTGAAATTTTGAAAATCGCATTCTTAGTTTTCAAAAATTTCATCTTCTTAACACATCAT
131 TAAATTGTGAAATTTTGAAAATCGCATTCTTAGTTTTCAAAAATTTCATCTTCTTAAAACATCAT
153316 TTTTCATTTTCAAATTCAT
196 TTTTCATTTTCAAATTCAT
*
153335 GTGAAAACATCCTACCCGAAGGTCTTATGGATGGCTCGAAGGACTTATCATCTTG-TCCTAAAGG
1 GTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCT-CTAAAGG
153399 CTTACAGATGA
65 CTTACAGATGA
153410 GTTTACTTCA
Statistics
Matches: 842, Mismatches: 54, Indels: 42
0.90 0.06 0.04
Matches are distributed among these distances:
198 121 0.14
199 41 0.05
200 20 0.02
203 2 0.00
206 2 0.00
208 2 0.00
211 2 0.00
213 4 0.00
214 490 0.58
215 45 0.05
216 113 0.13
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (214 bp):
GTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGC
TTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTA
TAAATTGTGAAATTTTGAAAATCGCATTCTTAGTTTTCAAAAATTTCATCTTCTTAAAACATCAT
TTTTCATTTTCAAATTCAT
Found at i:152829 original size:41 final size:40
Alignment explanation
Indices: 152738--152837 Score: 103
Period size: 41 Copynumber: 2.5 Consensus size: 40
152728 AGGTTTTATG
* * *
152738 GATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACA
1 GATGGCCCGAAGGACTTAGCATCATGCTCGAAAGGC-TACA
* * *
152779 GATGACCCGAAGGATTTAAGCATCATGCTCGAAAGAG-TACT
1 GATGGCCCGAAGGACTT-AGCATCATGCTCGAAAG-GCTACA
*
152820 GATGGCCCGAAAGACTTA
1 GATGGCCCGAAGGACTTA
152838 TAAATTATGA
Statistics
Matches: 48, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
40 1 0.02
41 32 0.67
42 14 0.29
43 1 0.02
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.23
Consensus pattern (40 bp):
GATGGCCCGAAGGACTTAGCATCATGCTCGAAAGGCTACA
Found at i:153454 original size:35 final size:37
Alignment explanation
Indices: 153399--153479 Score: 105
Period size: 36 Copynumber: 2.2 Consensus size: 37
153389 GTCCTAAAGG
153399 CTTACAGATGAGTTTACTTCACTAC-C-TCTGGTGAAGA
1 CTTA-AGATGAGTTTACTTCACTACTCTTC-GGTGAAGA
* *
153436 CTTAAGATG-GTTTGCTTCACTACTCTTCGGTGAAGG
1 CTTAAGATGAGTTTACTTCACTACTCTTCGGTGAAGA
153472 CTTAAGAT
1 CTTAAGAT
153480 TGACTTGCCC
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
35 13 0.32
36 21 0.52
37 6 0.15
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.35
Consensus pattern (37 bp):
CTTAAGATGAGTTTACTTCACTACTCTTCGGTGAAGA
Found at i:154386 original size:125 final size:125
Alignment explanation
Indices: 154206--154527 Score: 443
Period size: 125 Copynumber: 2.6 Consensus size: 125
154196 AGTTGCGAGA
* * * ** *
154206 CTCATTC-TCAATGACTTCTTGGTCTGAATCTTATTTTCTCATCATGACATG--GGTTCAGTCGT
1 CTCATTCTTC-ATGCCTCCTTGGTCTGAAACTTATCATCTCAACAT-A-ATGTAGGTTCAGTCGT
* * *
154268 GCCCCAACCTTATCTTATACTGGTACAAGCCTTCAAAATGCCCCATCACCTCAAATTGTAAGG
63 GCCCCAACATTATCTTATACTAGTACAAGCCTTCAAAATACCCCATCACCTCAAATTGTAAGG
* * **
154331 CTCATTCTTCATGCCTCCTTGGTCTGAATCTTGTCATCTCAACATGGTGTAGGTTCAGTCGTGCC
1 CTCATTCTTCATGCCTCCTTGGTCTGAAACTTATCATCTCAACATAATGTAGGTTCAGTCGTGCC
* *
154396 CCTACATTATCTTATACTAGTACGAGCCTTCAAAATACCCCATCACCTCAAATTGTAAGG
66 CCAACATTATCTTATACTAGTACAAGCCTTCAAAATACCCCATCACCTCAAATTGTAAGG
* *
154456 CTCATTCTTCATGCCTCCTTGGTCTGAAAGTTATCATCTCAACATAATGTGGGTTCAGTCGTGCC
1 CTCATTCTTCATGCCTCCTTGGTCTGAAACTTATCATCTCAACATAATGTAGGTTCAGTCGTGCC
154521 CCAACAT
66 CCAACAT
154528 ATCCTAACTT
Statistics
Matches: 174, Mismatches: 20, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
123 2 0.01
125 170 0.98
126 2 0.01
ACGTcount: A:0.24, C:0.28, G:0.15, T:0.33
Consensus pattern (125 bp):
CTCATTCTTCATGCCTCCTTGGTCTGAAACTTATCATCTCAACATAATGTAGGTTCAGTCGTGCC
CCAACATTATCTTATACTAGTACAAGCCTTCAAAATACCCCATCACCTCAAATTGTAAGG
Found at i:161324 original size:21 final size:19
Alignment explanation
Indices: 161275--161326 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 19
161265 TGGGCACCCA
*
161275 AAAACATTTTCATTTTAAAT
1 AAAA-ATTTTAATTTTAAAT
161295 AAAAA--TTAATTTTAAAT
1 AAAAATTTTAATTTTAAAT
161312 AAAAAAGTTTTAATT
1 -AAAAA-TTTTAATT
161327 AATATAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
17 11 0.41
18 5 0.19
19 1 0.04
20 4 0.15
21 6 0.22
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (19 bp):
AAAAATTTTAATTTTAAAT
Found at i:163549 original size:20 final size:20
Alignment explanation
Indices: 163524--163563 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
163514 GTAAGGTTTT
163524 GTTTGATCTTC-TTGACTTTG
1 GTTTGAT-TTCATTGACTTTG
*
163544 GTTTGATTTCATTGATTTTG
1 GTTTGATTTCATTGACTTTG
163564 CTTTTGTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 3 0.17
20 15 0.83
ACGTcount: A:0.12, C:0.10, G:0.20, T:0.57
Consensus pattern (20 bp):
GTTTGATTTCATTGACTTTG
Found at i:164522 original size:13 final size:13
Alignment explanation
Indices: 164504--164536 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
164494 ATCAAATGCG
*
164504 TTGGGGCATGGTA
1 TTGGGGCACGGTA
164517 TTGGGGCACGGTA
1 TTGGGGCACGGTA
164530 TTGGGGC
1 TTGGGGC
164537 TATTTTGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.12, C:0.12, G:0.48, T:0.27
Consensus pattern (13 bp):
TTGGGGCACGGTA
Found at i:168029 original size:15 final size:16
Alignment explanation
Indices: 168009--168039 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
167999 AGGCCGCTCT
168009 AAATTGA-AAATAAAA
1 AAATTGAGAAATAAAA
168024 AAATTGAGAAATAAAA
1 AAATTGAGAAATAAAA
168040 TGTGGGTCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.71, C:0.00, G:0.10, T:0.19
Consensus pattern (16 bp):
AAATTGAGAAATAAAA
Found at i:169705 original size:36 final size:35
Alignment explanation
Indices: 169665--169749 Score: 109
Period size: 38 Copynumber: 2.3 Consensus size: 35
169655 GTAATATATA
169665 ATATAGTTTTTGAGAATA-TTTTTGAAAACATATAAT
1 ATATAGTTTTTG-GAA-AGTTTTTGAAAACATATAAT
169701 ATATAGTTTTTTGGAAACGGTTTTTGAAAACATATAAT
1 ATATAG-TTTTTGGAAA--GTTTTTGAAAACATATAAT
*
169739 ATAAAGTTTTT
1 ATATAGTTTTT
169750 TTATAAAAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
35 1 0.02
36 9 0.20
37 11 0.25
38 23 0.52
ACGTcount: A:0.39, C:0.04, G:0.13, T:0.45
Consensus pattern (35 bp):
ATATAGTTTTTGGAAAGTTTTTGAAAACATATAAT
Found at i:169866 original size:23 final size:23
Alignment explanation
Indices: 169837--169881 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
169827 AAAAAATGGT
*
169837 TTTTGAAAACGTATATAATATAG
1 TTTTGAAAACATATATAATATAG
*
169860 TTTTGAAAACATATATTATATA
1 TTTTGAAAACATATATAATATA
169882 TATATAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.44, C:0.04, G:0.09, T:0.42
Consensus pattern (23 bp):
TTTTGAAAACATATATAATATAG
Found at i:169903 original size:23 final size:22
Alignment explanation
Indices: 169877--169931 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
169867 AACATATATT
169877 ATATATATATAATTTTTTAAAA
1 ATATATATATAATTTTTTAAAA
* *
169899 CATAT-TATATAGTTTTTTGAAA
1 -ATATATATATAATTTTTTAAAA
169921 ATATAATATAT
1 ATAT-ATATAT
169932 GTTATATAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 4 0.14
22 15 0.54
23 9 0.32
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (22 bp):
ATATATATATAATTTTTTAAAA
Found at i:169924 original size:21 final size:22
Alignment explanation
Indices: 169877--169931 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 22
169867 AACATATATT
169877 ATATATATATAATTTTTTAAAAC
1 ATAT-TATATAATTTTTTAAAAC
* *
169900 ATATTATATAGTTTTTTGAAAAT
1 ATATTATATAATTTTTT-AAAAC
*
169923 ATAATATAT
1 ATATTATAT
169932 GTTATATAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 12 0.43
23 16 0.57
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (22 bp):
ATATTATATAATTTTTTAAAAC
Found at i:170013 original size:14 final size:13
Alignment explanation
Indices: 169964--170016 Score: 52
Period size: 14 Copynumber: 3.9 Consensus size: 13
169954 ATAGTGTAAG
* *
169964 TATTATATAATAT
1 TATTATTTATTAT
*
169977 ATATTATTTATAAT
1 -TATTATTTATTAT
169991 TATTATTTATTAT
1 TATTATTTATTAT
*
170004 TTTATATTTATTA
1 TAT-TATTTATTA
170017 GATTAGATTA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
13 14 0.42
14 19 0.58
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TATTATTTATTAT
Found at i:181298 original size:95 final size:95
Alignment explanation
Indices: 181135--181410 Score: 498
Period size: 95 Copynumber: 2.9 Consensus size: 95
181125 CACCAAATGT
* * *
181135 AACTACATAGCCCTAAATGCAACTAAATACTATGGCATGAGCTCTTAAACAACTAATAACTTAAG
1 AACTACATGGTCCTAAATGCAACTAAATACTATGGCATGAGCTCTTAAACAACTAATAACCTAAG
181200 TAAAAAGGCATAAAATATAGCCTCTTAAAC
66 TAAAAAGGCATAAAATATAGCCTCTTAAAC
181230 AACTACATGGTCCTAAATGCAACTAAATACTATGGCATGAGCTCTTAAACAACTAATAACCTAAG
1 AACTACATGGTCCTAAATGCAACTAAATACTATGGCATGAGCTCTTAAACAACTAATAACCTAAG
*
181295 TAAAAAGGCATAAAATACAGCCTCTTAAAC
66 TAAAAAGGCATAAAATATAGCCTCTTAAAC
181325 AACTACATGGTCCTAAATGCAACTAAATACTATGGCATGAGCTCTTAAACAACTAATAACCTAAG
1 AACTACATGGTCCTAAATGCAACTAAATACTATGGCATGAGCTCTTAAACAACTAATAACCTAAG
* *
181390 TGAAAAGGCACAAAATATAGC
66 TAAAAAGGCATAAAATATAGC
181411 TTTTTATGGG
Statistics
Matches: 174, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
95 174 1.00
ACGTcount: A:0.45, C:0.20, G:0.12, T:0.23
Consensus pattern (95 bp):
AACTACATGGTCCTAAATGCAACTAAATACTATGGCATGAGCTCTTAAACAACTAATAACCTAAG
TAAAAAGGCATAAAATATAGCCTCTTAAAC
Found at i:181322 original size:45 final size:45
Alignment explanation
Indices: 181176--181329 Score: 132
Period size: 45 Copynumber: 3.3 Consensus size: 45
181166 ATGGCATGAG
* *
181176 CTCTTAAACAACTAATAACTTAAGTAAAAAGGCATAAAATATAGC
1 CTCTTAAACAACTAATAACCTAAGTAAAAAGGCATAAAATACAGC
** * ** *** *
181221 CTCTTAAACAACTACATGGTCCTAAATGCAACTAAATACTATGGCAT-GAG-
1 CTCTTAAACAACTA-AT-AACCT-AA-GTAA--AAAGGC-ATAAAATACAGC
181271 CTCTTAAACAACTAATAACCTAAGTAAAAAGGCATAAAATACAGC
1 CTCTTAAACAACTAATAACCTAAGTAAAAAGGCATAAAATACAGC
181316 CTCTTAAACAACTA
1 CTCTTAAACAACTA
181330 CATGGTCCTA
Statistics
Matches: 81, Mismatches: 19, Indels: 18
0.69 0.16 0.15
Matches are distributed among these distances:
43 4 0.05
44 6 0.07
45 28 0.35
46 5 0.06
47 4 0.05
48 5 0.06
49 5 0.06
50 14 0.17
51 6 0.07
52 4 0.05
ACGTcount: A:0.46, C:0.20, G:0.10, T:0.24
Consensus pattern (45 bp):
CTCTTAAACAACTAATAACCTAAGTAAAAAGGCATAAAATACAGC
Found at i:181375 original size:50 final size:50
Alignment explanation
Indices: 181221--181379 Score: 170
Period size: 50 Copynumber: 3.3 Consensus size: 50
181211 AAAATATAGC
181221 CTCTTAAACAACTACATGGTCCTAAATGCAACTAAATACTATGGCATGAG
1 CTCTTAAACAACTACATGGTCCTAAATGCAACTAAATACTATGGCATGAG
** * ** *** *
181271 CTCTTAAACAACTA-AT-AACCT-AA-GTAA--AAAGGC-ATAAAATACAG
1 CTCTTAAACAACTACATGGTCCTAAATGCAACTAAATACTATGGCAT-GAG
181315 CCTCTTAAACAACTACATGGTCCTAAATGCAACTAAATACTATGGCATGAG
1 -CTCTTAAACAACTACATGGTCCTAAATGCAACTAAATACTATGGCATGAG
181366 CTCTTAAACAACTA
1 CTCTTAAACAACTA
181380 ATAACCTAAG
Statistics
Matches: 82, Mismatches: 18, Indels: 18
0.69 0.15 0.15
Matches are distributed among these distances:
43 4 0.05
44 6 0.07
45 14 0.17
46 5 0.06
47 5 0.06
48 5 0.06
49 5 0.06
50 28 0.34
51 6 0.07
52 4 0.05
ACGTcount: A:0.42, C:0.22, G:0.11, T:0.25
Consensus pattern (50 bp):
CTCTTAAACAACTACATGGTCCTAAATGCAACTAAATACTATGGCATGAG
Found at i:184524 original size:37 final size:36
Alignment explanation
Indices: 184449--184524 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 36
184439 TTTTTATATT
*
184449 TTTAATTTTGTAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
* *
184485 TTTAATTTTTTAAAGAAAA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAA-AAAATTATATAAATATTAT-CAA
184522 TTT
1 TTT
184525 GTAATATTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
36 26 0.74
37 9 0.26
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.47
Consensus pattern (36 bp):
TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
Found at i:184706 original size:20 final size:20
Alignment explanation
Indices: 184670--184707 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
184660 ATCCTATTCC
**
184670 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
184690 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
184708 GTGAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:188676 original size:75 final size:74
Alignment explanation
Indices: 188551--188698 Score: 190
Period size: 75 Copynumber: 2.0 Consensus size: 74
188541 GGTGAGCACA
* ** * * *
188551 TGCCCACCCTGAAATCCGGATTTTCTTTGATTAGTCACTTATTTTATTGATGGTATTCATCCTGA
1 TGCCCACCCTGAAATCCGAATTTTCTTCAATTAGTCACTTATTTTATTGATGGT-TCCACCCTAA
188616 AATTTTATTG
65 AATTTTATTG
* * *
188626 TGCCCACCCTGAAATCTGAATTTTCTTCAATTAGTGAGC-TATTTTTTTGATGGTTCCACCCTAA
1 TGCCCACCCTGAAATCCGAATTTTCTTCAATTAGTCA-CTTATTTTATTGATGGTTCCACCCTAA
188690 AATTTTATT
65 AATTTTATT
188699 TATGCTTACC
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
74 16 0.25
75 46 0.73
76 1 0.02
ACGTcount: A:0.24, C:0.20, G:0.14, T:0.43
Consensus pattern (74 bp):
TGCCCACCCTGAAATCCGAATTTTCTTCAATTAGTCACTTATTTTATTGATGGTTCCACCCTAAA
ATTTTATTG
Done.