Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009463.1 Hibiscus syriacus cultivar Beakdansim tig00113726_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: 3931635
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 20
Found at i:1475338 original size:122 final size:122
Alignment explanation
Indices: 1474997--1475682 Score: 774
Period size: 122 Copynumber: 5.7 Consensus size: 122
1474987 GAATTAAAGC
*
1474997 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCCTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
* * * ** *
1475062 GAACTCTTTCTGGAAATGTTGATGTTGATCTATCTATTTCTGTGATAGAATC-ATTCAA
66 GAAATC-TTCTGGAAATGTTGGTGCTGATCTATCTCCTTCTGTGATAGAATCGA-GCAA
* * * * *
1475120 AAGGTTGGACAAGTTCTTCTCATTATGAACTTATTATT-CTCTTCAGATGAGTTATTCTTATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
* * ** *
1475184 GAACA-CTTCTGGAAATGTTGATGTTGATCTATCTCCTTCTGTGATAGCGTCGAGTAA
66 GAA-ATCTTCTGGAAATGTTGGTGCTGATCTATCTCCTTCTGTGATAGAATCGAGCAA
*
1475241 AAGGTTGAATAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
* * *
1475306 GAAAACTTCTGGAAATGTTGGTGCTGATCTATCTCCTTTTGGGATAGAATCGAGCAA
66 GAAATCTTCTGGAAATGTTGGTGCTGATCTATCTCCTTCTGTGATAGAATCGAGCAA
** * * * *
1475363 AATATTGAACAAGTTATTCTCATTATGAACTTTTTCTTCCTCTTCAGATGAATTCTTCTTATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
* * * * * *
1475428 -AAATTCTTCTAGAAATGTTGGTGCTAATCTATCTTCTTTTGGGATAGAATTGAGCAA
66 GAAA-TCTTCTGGAAATGTTGGTGCTGATCTATCTCCTTCTGTGATAGAATCGAGCAA
* * *
1475485 AAGGTTGAACAAGTTCTTCTTATTATGAACTTC-TCATTCCTATTCAGATGAGTTCTTTTCATTA
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTC-TTCCTCTTCAGATGAGTTCTTCTCATTA
* * * ** *
1475549 TGAACTTCCTCTGGAAA---T-GT--TGATCCA--T-C--GAGTGATAGACTCGAGCAA
65 TGAA-ATCTTCTGGAAATGTTGGTGCTGATCTATCTCCTTCTGTGATAGAATCGAGCAA
* * *
1475597 AAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTCCCTCTTCAGATGAGTTCTTCTTATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
* *
1475662 GAACTTCCTCTGGAAATGTTG
66 GAA-ATCTTCTGGAAATGTTG
1475683 ATCCATCGAG
Statistics
Matches: 487, Mismatches: 63, Indels: 33
0.84 0.11 0.06
Matches are distributed among these distances:
112 86 0.18
113 2 0.00
114 1 0.00
115 2 0.00
117 5 0.01
119 2 0.00
120 1 0.00
121 83 0.17
122 260 0.53
123 45 0.09
ACGTcount: A:0.26, C:0.18, G:0.16, T:0.40
Consensus pattern (122 bp):
AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
GAAATCTTCTGGAAATGTTGGTGCTGATCTATCTCCTTCTGTGATAGAATCGAGCAA
Found at i:1475667 original size:112 final size:112
Alignment explanation
Indices: 1475470--1475696 Score: 368
Period size: 112 Copynumber: 2.0 Consensus size: 112
1475460 CTTCTTTTGG
* * * *
1475470 GATAGAATTGAGCAAAAGGTTGAACAAGTTCTTCTTATTATGAACTTCTCATTCCTATTCAGATG
1 GATAGAATCGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTCATCCCTATTCAGATG
1475535 AGTTCTTTTCATTATGAACTTCCTCTGGAAATGTTGATCCATCGAGT
66 AGTTCTTTTCATTATGAACTTCCTCTGGAAATGTTGATCCATCGAGT
* *
1475582 GATAGACTCGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTC-TCCCTCTTCAGAT
1 GATAGAATCGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTC-TCATCCCTATTCAGAT
1475646 GAGTTCTTCTT-ATTATGAACTTCCTCTGGAAATGTTGATCCATCGAGT
65 GAGTTCTT-TTCATTATGAACTTCCTCTGGAAATGTTGATCCATCGAGT
1475694 GAT
1 GAT
1475697 GGAAATTTCT
Statistics
Matches: 107, Mismatches: 6, Indels: 4
0.91 0.05 0.03
Matches are distributed among these distances:
112 103 0.96
113 4 0.04
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.37
Consensus pattern (112 bp):
GATAGAATCGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTCATCCCTATTCAGATG
AGTTCTTTTCATTATGAACTTCCTCTGGAAATGTTGATCCATCGAGT
Found at i:1475762 original size:36 final size:35
Alignment explanation
Indices: 1475722--1475837 Score: 88
Period size: 36 Copynumber: 3.2 Consensus size: 35
1475712 TAGTGAACTG
1475722 TCTCAAGCAAGACGAATATTGTTTTAAGAAAAACAA
1 TCTCAAGCAAGAC-AATATTGTTTTAAGAAAAACAA
* * * * ** ** **
1475758 TCTCAAGTGAGATACATTGTTGTTTCGAGTGAAACTG
1 TCTCAAG-CA-AGACAATATTGTTTTAAGAAAAACAA
* *
1475795 TCTCAAGCGAGACAAATTTTGTTTTAAGAAAAACAA
1 TCTCAAGCAAGAC-AATATTGTTTTAAGAAAAACAA
1475831 TCTCAAG
1 TCTCAAG
1475838 TGAGATAAAT
Statistics
Matches: 56, Mismatches: 21, Indels: 6
0.67 0.25 0.07
Matches are distributed among these distances:
35 3 0.05
36 28 0.50
37 22 0.39
38 3 0.05
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (35 bp):
TCTCAAGCAAGACAATATTGTTTTAAGAAAAACAA
Found at i:1475817 original size:73 final size:73
Alignment explanation
Indices: 1475706--1475923 Score: 325
Period size: 73 Copynumber: 3.0 Consensus size: 73
1475696 TGGAAATTTC
* * * *
1475706 TGTTTCTAGTG-AACTGTCTCAAGCAAGACGAATATTGTTTTAAGAAAAACAATCTCAAGTGAGA
1 TGTTTCGAGTGAAACTGTCTCAAGCGAGACAAATTTTGTTTTAAGAAAAACAATCTCAAGTGAGA
*
1475770 TACATTGT
66 TAAATTGT
1475778 TGTTTCGAGTGAAACTGTCTCAAGCGAGACAAATTTTGTTTTAAGAAAAACAATCTCAAGTGAGA
1 TGTTTCGAGTGAAACTGTCTCAAGCGAGACAAATTTTGTTTTAAGAAAAACAATCTCAAGTGAGA
1475843 TAAATTGT
66 TAAATTGT
* * * *
1475851 TGTTTCGAGTGAAATTTTCTCAAGCGAGACGCAA-TTTGTTTTAAGAAAAATAA-CTCAAGTGAG
1 TGTTTCGAGTGAAACTGTCTCAAGCGAGAC-AAATTTTGTTTTAAGAAAAACAATCTCAAGTGAG
1475914 ATAAATTGT
65 ATAAATTGT
1475923 T
1 T
1475924 ATTTGAAAAC
Statistics
Matches: 135, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
72 30 0.22
73 103 0.76
74 2 0.01
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (73 bp):
TGTTTCGAGTGAAACTGTCTCAAGCGAGACAAATTTTGTTTTAAGAAAAACAATCTCAAGTGAGA
TAAATTGT
Found at i:1475848 original size:36 final size:37
Alignment explanation
Indices: 1475740--1475923 Score: 151
Period size: 37 Copynumber: 5.1 Consensus size: 37
1475730 AAGACGAATA
*
1475740 TTGTTTTAAGAAAAACAATCTCAAGTGAGATACATTG
1 TTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTG
** ** ** * *
1475777 TTGTTTCGAGTGAAACTGTCTCAAGCGAGACAAATT-
1 TTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTG
1475813 TTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTG
1 TTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTG
** ** *** * **
1475850 TTGTTTCGAGTGAAATTTTCTCAAGCGAGACGCAA-T-
1 TTGTTTTAAGAAAAACAATCTCAAGTGAGA-TAAATTG
*
1475886 TTGTTTTAAGAAAAATAA-CTCAAGTGAGATAAATTG
1 TTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTG
1475922 TT
1 TT
1475924 ATTTGAAAAC
Statistics
Matches: 107, Mismatches: 36, Indels: 9
0.70 0.24 0.06
Matches are distributed among these distances:
34 2 0.02
35 11 0.10
36 42 0.39
37 50 0.47
38 2 0.02
ACGTcount: A:0.37, C:0.11, G:0.18, T:0.33
Consensus pattern (37 bp):
TTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTG
Found at i:1476702 original size:22 final size:22
Alignment explanation
Indices: 1476649--1476703 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
1476639 TAAAGTTTTT
* *
1476649 ATCTTTGAAAAGAGAATCTATC
1 ATCTTTGAAGAGAGAATATATC
1476671 ATCTTTGAAGAGAGAATATATC
1 ATCTTTGAAGAGAGAATATATC
1476693 ATCTTTGAAGA
1 ATCTTTGAAGA
1476704 ATGTAGATGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.40, C:0.11, G:0.16, T:0.33
Consensus pattern (22 bp):
ATCTTTGAAGAGAGAATATATC
Found at i:1486229 original size:18 final size:16
Alignment explanation
Indices: 1486206--1486244 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 16
1486196 AATTCCAAGA
1486206 AAATATATTAATTTTTAT
1 AAATATA-T-ATTTTTAT
1486224 AAATATATATTTTTAT
1 AAATATATATTTTTAT
1486240 AAATA
1 AAATA
1486245 AGATATTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 13 0.62
17 1 0.05
18 7 0.33
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
AAATATATATTTTTAT
Found at i:1486250 original size:17 final size:16
Alignment explanation
Indices: 1486216--1486252 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
1486206 AAATATATTA
*
1486216 ATTTTTATAAATATAT
1 ATTTTTATAAATAGAT
1486232 ATTTTTATAAATAAGAT
1 ATTTTTATAAAT-AGAT
1486249 ATTT
1 ATTT
1486253 ATTTACTTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 12 0.63
17 7 0.37
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (16 bp):
ATTTTTATAAATAGAT
Found at i:1486470 original size:137 final size:136
Alignment explanation
Indices: 1486222--1486481 Score: 382
Period size: 137 Copynumber: 1.9 Consensus size: 136
1486212 ATTAATTTTT
* * * * *
1486222 ATAAATATATATTTTTATAAATAAGATATTTATTTACTTAGAAATATCATAAAAGGACTTCTAGT
1 ATAAATATATATATTTATAAATAAGATATTTATTTACTTAAAAATATCAGAAAAAGACTTATAGT
* *
1486287 TGCTTTAAGACAACCCCTTTCTTAATATTAAAAAATAAATAAATATTAATAA-AATATTTTTCTA
66 TGCTTTAAGACAACCCATTTCTTAATATTAAAAAATAAATAAATATTAAGAAGAATATTTTTCTA
1486351 AAAATA
131 AAAATA
*
1486357 ATAAATATATATAATTTATAAA-AGTAGATATTTATTTATTTAAAAATATCAGAAAAAGACTTAT
1 ATAAATATATAT-ATTTATAAATA--AGATATTTATTTACTTAAAAATATCAGAAAAAGACTTAT
*
1486421 AGTTGCTTTAAGACAACCCATTTCTTTGATATT-AAAAATAAATAAATATTAAGAAGAATAT
63 AGTTGCTTTAAGACAACCCATTTC-TTAATATTAAAAAATAAATAAATATTAAGAAGAATAT
1486482 AATAATTTTT
Statistics
Matches: 111, Mismatches: 9, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
135 13 0.12
136 8 0.07
137 78 0.70
138 12 0.11
ACGTcount: A:0.48, C:0.08, G:0.07, T:0.38
Consensus pattern (136 bp):
ATAAATATATATATTTATAAATAAGATATTTATTTACTTAAAAATATCAGAAAAAGACTTATAGT
TGCTTTAAGACAACCCATTTCTTAATATTAAAAAATAAATAAATATTAAGAAGAATATTTTTCTA
AAAATA
Found at i:1486523 original size:41 final size:43
Alignment explanation
Indices: 1486452--1486532 Score: 96
Period size: 40 Copynumber: 1.9 Consensus size: 43
1486442 TTCTTTGATA
* *
1486452 TTAAAAATAAATAAATATTAAGAAGAATATA-ATA-ATTTTTC
1 TTAAAAATAAATAAAAATGAAGAAGAATATATATATATTTTTC
* *
1486493 TTAAAAAT-AATAAAAATGAAGTATATATATATATATATTT
1 TTAAAAATAAATAAAAATGAAGAAGA-ATATATATATATTT
1486533 ATAAATAAGA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
40 13 0.39
41 13 0.39
42 3 0.09
43 4 0.12
ACGTcount: A:0.56, C:0.01, G:0.05, T:0.38
Consensus pattern (43 bp):
TTAAAAATAAATAAAAATGAAGAAGAATATATATATATTTTTC
Found at i:1495646 original size:15 final size:15
Alignment explanation
Indices: 1495610--1495647 Score: 60
Period size: 16 Copynumber: 2.5 Consensus size: 15
1495600 AACCCTTGTT
1495610 AAATAAA-ATGATTA
1 AAATAAATATGATTA
1495624 AAATTAAATATGATTA
1 AAA-TAAATATGATTA
1495640 AAATAAAT
1 AAATAAAT
1495648 TGTTAATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 3 0.14
15 9 0.41
16 10 0.45
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (15 bp):
AAATAAATATGATTA
Found at i:1505914 original size:16 final size:16
Alignment explanation
Indices: 1505893--1505927 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
1505883 TAAGTGGGGA
*
1505893 ATTTGATGAGTATTTT
1 ATTTGATGAATATTTT
*
1505909 ATTTGATTAATATTTT
1 ATTTGATGAATATTTT
1505925 ATT
1 ATT
1505928 ATTAATTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.11, T:0.60
Consensus pattern (16 bp):
ATTTGATGAATATTTT
Found at i:1506364 original size:18 final size:18
Alignment explanation
Indices: 1506341--1506375 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
1506331 ATTCTTAGAA
1506341 TTTTATTTTCTTTAGGTG
1 TTTTATTTTCTTTAGGTG
1506359 TTTTATTTTCTTTAGGT
1 TTTTATTTTCTTTAGGT
1506376 TTTCTCAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.11, C:0.06, G:0.14, T:0.69
Consensus pattern (18 bp):
TTTTATTTTCTTTAGGTG
Found at i:1511827 original size:45 final size:45
Alignment explanation
Indices: 1511778--1511869 Score: 166
Period size: 45 Copynumber: 2.0 Consensus size: 45
1511768 TAGATTTAAC
1511778 TTGGAAAATCAACTTAAATCCAATGATCCATAGTAAATCTTATCA
1 TTGGAAAATCAACTTAAATCCAATGATCCATAGTAAATCTTATCA
* *
1511823 TTGGAAAATCAACTTGAATCCAATGATCCATATTAAATCTTATCA
1 TTGGAAAATCAACTTAAATCCAATGATCCATAGTAAATCTTATCA
1511868 TT
1 TT
1511870 TTAATTCATG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.34
Consensus pattern (45 bp):
TTGGAAAATCAACTTAAATCCAATGATCCATAGTAAATCTTATCA
Found at i:1513298 original size:21 final size:22
Alignment explanation
Indices: 1513272--1513333 Score: 65
Period size: 21 Copynumber: 2.9 Consensus size: 22
1513262 ATCATTTGAA
**
1513272 CTAAGGGATCGATCCTTTTTGG
1 CTAAGGGATCGATCCTTTTTCC
* *
1513294 C-AAGGGATCAAT-CATTTTCC
1 CTAAGGGATCGATCCTTTTTCC
*
1513314 CTAAAGGATCGATCCTTTTT
1 CTAAGGGATCGATCCTTTTT
1513334 TCTGGAAAAG
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
20 6 0.19
21 19 0.61
22 6 0.19
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.35
Consensus pattern (22 bp):
CTAAGGGATCGATCCTTTTTCC
Found at i:1519875 original size:15 final size:16
Alignment explanation
Indices: 1519839--1519876 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
1519829 ATGGTCATTA
*
1519839 ACTAAAATTTTAGGGT
1 ACTAAAATTTTAGAGT
1519855 ACTAAAA-TTTAGAGT
1 ACTAAAATTTTAGAGT
*
1519870 ATTAAAA
1 ACTAAAA
1519877 AAAATGAAGC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.47, C:0.05, G:0.13, T:0.34
Consensus pattern (16 bp):
ACTAAAATTTTAGAGT
Found at i:1523085 original size:21 final size:21
Alignment explanation
Indices: 1523059--1523108 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
1523049 ATCATCTCTT
1523059 AATGGAATCCCTAGAAAAACA
1 AATGGAATCCCTAGAAAAACA
*
1523080 AATGGAATCCCTATAAAAACA
1 AATGGAATCCCTAGAAAAACA
1523101 AATGGAAT
1 AATGGAAT
1523109 ATTTCCCACC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.52, C:0.16, G:0.14, T:0.18
Consensus pattern (21 bp):
AATGGAATCCCTAGAAAAACA
Found at i:1524191 original size:16 final size:16
Alignment explanation
Indices: 1524172--1524282 Score: 71
Period size: 16 Copynumber: 6.9 Consensus size: 16
1524162 GACCCAAATA
* *
1524172 GAAAACAACCCAAACC
1 GAAAATAACCCGAACC
* * *
1524188 GAAATTGACCCGAACT
1 GAAAATAACCCGAACC
** *
1524204 GAAAGCAACCTGAACC
1 GAAAATAACCCGAACC
* *
1524220 GAAAATAACACGAACA
1 GAAAATAACCCGAACC
* *
1524236 GAAAGTAACCCAAACC
1 GAAAATAACCCGAACC
*
1524252 -ATAAATAAACCGAACC
1 GA-AAATAACCCGAACC
* *
1524268 GAAAACAACTCGAAC
1 GAAAATAACCCGAAC
1524283 TGAATTTGAT
Statistics
Matches: 68, Mismatches: 25, Indels: 4
0.70 0.26 0.04
Matches are distributed among these distances:
15 1 0.01
16 66 0.97
17 1 0.01
ACGTcount: A:0.51, C:0.28, G:0.13, T:0.08
Consensus pattern (16 bp):
GAAAATAACCCGAACC
Found at i:1524213 original size:32 final size:32
Alignment explanation
Indices: 1524171--1524276 Score: 90
Period size: 32 Copynumber: 3.3 Consensus size: 32
1524161 TGACCCAAAT
* * * *
1524171 AGAAAACAACCCAAACCGAAATTGACCCGAAC
1 AGAAAGCAACCCAAACCGAAAATAACACGAAC
* **
1524203 TGAAAGCAACCTGAACCGAAAATAACACGAAC
1 AGAAAGCAACCCAAACCGAAAATAACACGAAC
*
1524235 AGAAAGTAACCCAAACC-ATAAATAA-ACCGAAC
1 AGAAAGCAACCCAAACCGA-AAATAACA-CGAAC
* *
1524267 CGAAAACAAC
1 AGAAAGCAAC
1524277 TCGAACTGAA
Statistics
Matches: 58, Mismatches: 14, Indels: 4
0.76 0.18 0.05
Matches are distributed among these distances:
31 2 0.03
32 56 0.97
ACGTcount: A:0.53, C:0.27, G:0.12, T:0.08
Consensus pattern (32 bp):
AGAAAGCAACCCAAACCGAAAATAACACGAAC
Found at i:1524547 original size:32 final size:32
Alignment explanation
Indices: 1524511--1524579 Score: 86
Period size: 32 Copynumber: 2.2 Consensus size: 32
1524501 GATCCAAATG
**
1524511 TTGACCTAAAT-CGAAAATCAATTGATTCGATA
1 TTGACC-AAATCCGAAAATCAACCGATTCGATA
**
1524543 TTGACCCGATCCGAAAATCAACCGATTCGATA
1 TTGACCAAATCCGAAAATCAACCGATTCGATA
1524575 TTGAC
1 TTGAC
1524580 TCGACCTAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 2 0.06
32 30 0.94
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.28
Consensus pattern (32 bp):
TTGACCAAATCCGAAAATCAACCGATTCGATA
Found at i:1524606 original size:32 final size:32
Alignment explanation
Indices: 1524522--1524608 Score: 113
Period size: 32 Copynumber: 2.7 Consensus size: 32
1524512 TGACCTAAAT
1524522 CGAAAATCAATTGATTCGATATTGACCCGATC
1 CGAAAATCAATTGATTCGATATTGACCCGATC
** *
1524554 CGAAAATCAACCGATTCGATATTGACTCGA-C
1 CGAAAATCAATTGATTCGATATTGACCCGATC
* *
1524585 CTAAAATCTAATTGATCCGATATT
1 CGAAAATC-AATTGATTCGATATT
1524609 AAACCAACCC
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
31 8 0.17
32 39 0.83
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.29
Consensus pattern (32 bp):
CGAAAATCAATTGATTCGATATTGACCCGATC
Found at i:1530544 original size:12 final size:11
Alignment explanation
Indices: 1530527--1530598 Score: 63
Period size: 12 Copynumber: 6.1 Consensus size: 11
1530517 AAAATAGAAT
1530527 TCAGAACATATA
1 TCAGAACATA-A
1530539 TCAGAACATAA
1 TCAGAACATAA
*
1530550 TCCAGATCATAAA
1 T-CAGAACAT-AA
1530563 TCAGAACATAA
1 TCAGAACATAA
** *
1530574 TTCAGGTCATGTA
1 -TCAGAACAT-AA
1530587 TCAGAACATAA
1 TCAGAACATAA
1530598 T
1 T
1530599 TCAAGTCGGA
Statistics
Matches: 48, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
11 6 0.12
12 38 0.79
13 4 0.08
ACGTcount: A:0.46, C:0.18, G:0.11, T:0.25
Consensus pattern (11 bp):
TCAGAACATAA
Found at i:1530599 original size:24 final size:24
Alignment explanation
Indices: 1530524--1530601 Score: 111
Period size: 24 Copynumber: 3.2 Consensus size: 24
1530514 ATCAAAATAG
*
1530524 AATTCAGAACATATATCAGAACAT
1 AATTCAGATCATATATCAGAACAT
* *
1530548 AATCCAGATCATAAATCAGAACAT
1 AATTCAGATCATATATCAGAACAT
* *
1530572 AATTCAGGTCATGTATCAGAACAT
1 AATTCAGATCATATATCAGAACAT
1530596 AATTCA
1 AATTCA
1530602 AGTCGGAAAT
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.46, C:0.18, G:0.10, T:0.26
Consensus pattern (24 bp):
AATTCAGATCATATATCAGAACAT
Found at i:1530613 original size:24 final size:24
Alignment explanation
Indices: 1530538--1530615 Score: 79
Period size: 24 Copynumber: 3.2 Consensus size: 24
1530528 CAGAACATAT
* *
1530538 ATCAGAACATAA-TCCAGATCATAA
1 ATCAGAACATAATTCAAG-TCAGAA
* *
1530562 ATCAGAACATAATTCAGGTCATG-T
1 ATCAGAACATAATTCAAGTCA-GAA
*
1530586 ATCAGAACATAATTCAAGTCGGAA
1 ATCAGAACATAATTCAAGTCAGAA
1530610 ATCAGA
1 ATCAGA
1530616 TAAAATATTT
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
23 1 0.02
24 40 0.91
25 3 0.07
ACGTcount: A:0.45, C:0.18, G:0.14, T:0.23
Consensus pattern (24 bp):
ATCAGAACATAATTCAAGTCAGAA
Found at i:1534921 original size:2 final size:2
Alignment explanation
Indices: 1534914--1534938 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1534904 CTTTTAAAAC
1534914 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
1534939 CCCCTATCCC
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:1535196 original size:23 final size:21
Alignment explanation
Indices: 1535145--1535198 Score: 54
Period size: 23 Copynumber: 2.4 Consensus size: 21
1535135 TCCAAATAAA
*
1535145 AAATCAGAACATATTCAGGTC
1 AAATCAGAACATATTCAAGTC
*
1535166 ATGTATCAGAACATAATTCAAGTC
1 A--AATCAGAACAT-ATTCAAGTC
1535190 GAAATCAGA
1 -AAATCAGA
1535199 TAAAATTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
21 1 0.04
23 16 0.62
24 8 0.31
25 1 0.04
ACGTcount: A:0.44, C:0.17, G:0.15, T:0.24
Consensus pattern (21 bp):
AAATCAGAACATATTCAAGTC
Found at i:1545942 original size:276 final size:275
Alignment explanation
Indices: 1545443--1545996 Score: 990
Period size: 276 Copynumber: 2.0 Consensus size: 275
1545433 AAGCTCATGT
*
1545443 TGAATTTGACCAAACCCTAACTTTAGGTAAAAGATGTTTTTGATGAAATTACTTTAGGGGTTCGA
1 TGAATTTGACCAAACCCTAACTTTAGGT-AAAGATGTTTTTGATGAAATTAATTTAGGGGTTCGA
1545508 TTGTAGAGGTCTTGAAATGTTGAATAGAGGTTAGTTTCATGCTTGAATCAATGAAAACCATGAGA
65 TTGTAGAGGTCTTGAAATGTTGAATAGAGGTTAGTTTCATGCTTGAATCAATGAAAACCA--AGA
1545573 TCTACACCCCTAAAGCATTCGACCTTGAGGAAATAAGTTGGGAAAATTTGTAGAAAAATTCCCAT
128 TCTACACCCCTAAAGCATTCGACCTTGAGGAAATAAGTTGGGAAAATTTGTAGAAAAATTCCCAT
1545638 GGGTTATAAATGATATTTGGAAGTTATATAAGCCTTAGAAAACATATTTGGGCAAATATTTAATT
193 GGGTTATAAATGATATTTGGAAGTTATATAAGCCTTAGAAAACATATTTGGGCAAATATTTAATT
1545703 TTTCCAATAGTTGAGGAAC
258 TTT-CAATAGTTGAGGAAC
*
1545722 TGAATTTGACCAAACCCTAACTTTAGGGT-AAGATGTGTTTTGATGAAATTAATTTAGGGGTTTG
1 TGAATTTGACCAAACCCTAACTTTA-GGTAAAGATGT-TTTTGATGAAATTAATTTAGGGGTTCG
1545786 A-TGTAGAGGTCTTGAAATGTTGAATAGAGGTTAGTTTCATGCTTGAATCAAATGAAAACC-AGA
64 ATTGTAGAGGTCTTGAAATGTTGAATAGAGGTTAGTTTCATGCTTGAATC-AATGAAAACCAAGA
1545849 TCTACACCCCTAAAGCATTCGACCTTGAGGAAATAAGTTGGGAAAATTTGTA-AAAAATTCCCAT
128 TCTACACCCCTAAAGCATTCGACCTTGAGGAAATAAGTTGGGAAAATTTGTAGAAAAATTCCCAT
1545913 GGGTTATAAATGATATTTGGAAGGTTATATAAGCCTTAGAAAACATATTTGGGCAAATATTTAAT
193 GGGTTATAAATGATATTTGGAA-GTTATATAAGCCTTAGAAAACATATTTGGGCAAATATTTAAT
1545978 TTTTCAATAGTTGAGGAAC
257 TTTTCAATAGTTGAGGAAC
1545997 CTATTTGGTA
Statistics
Matches: 269, Mismatches: 2, Indels: 12
0.95 0.01 0.04
Matches are distributed among these distances:
275 49 0.18
276 101 0.38
278 55 0.20
279 61 0.23
280 3 0.01
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (275 bp):
TGAATTTGACCAAACCCTAACTTTAGGTAAAGATGTTTTTGATGAAATTAATTTAGGGGTTCGAT
TGTAGAGGTCTTGAAATGTTGAATAGAGGTTAGTTTCATGCTTGAATCAATGAAAACCAAGATCT
ACACCCCTAAAGCATTCGACCTTGAGGAAATAAGTTGGGAAAATTTGTAGAAAAATTCCCATGGG
TTATAAATGATATTTGGAAGTTATATAAGCCTTAGAAAACATATTTGGGCAAATATTTAATTTTT
CAATAGTTGAGGAAC
Found at i:1547328 original size:2 final size:2
Alignment explanation
Indices: 1547321--1547414 Score: 172
Period size: 2 Copynumber: 47.0 Consensus size: 2
1547311 AGACCAATCC
1547321 AT AT AT 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
1547363 AT AT AT 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
1547405 -T CAT AT AT AT
1 AT -AT AT AT AT
1547415 TCTTCATTGA
Statistics
Matches: 90, Mismatches: 0, Indels: 4
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.01
2 88 0.98
3 1 0.01
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1548419 original size:2 final size:2
Alignment explanation
Indices: 1548401--1548446 Score: 60
Period size: 2 Copynumber: 23.5 Consensus size: 2
1548391 TTATGAGTAC
*
1548401 AT AT AT A- AGT AT GT AT AT AT AT A- AT AT AT AT AT AT AT AT AT
1 AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1548442 AT AT A
1 AT AT A
1548447 ACCCCTAGAC
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
1 2 0.05
2 36 0.92
3 1 0.03
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (2 bp):
AT
Found at i:1548447 original size:23 final size:23
Alignment explanation
Indices: 1548401--1548447 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
1548391 TTATGAGTAC
*
1548401 ATATATAAGTATGTATATATATA
1 ATATATAAGTATATATATATATA
1548424 ATATATATA-TATATATATATATA
1 ATATATA-AGTATATATATATATA
1548447 A
1 A
1548448 CCCCTAGACC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 21 0.95
24 1 0.05
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (23 bp):
ATATATAAGTATATATATATATA
Found at i:1552839 original size:39 final size:39
Alignment explanation
Indices: 1552796--1552885 Score: 126
Period size: 39 Copynumber: 2.3 Consensus size: 39
1552786 AGGACCTGCG
* *
1552796 GTAAGGATTTACCCTGAGGACAAAGCAGAGGAGCCTACA
1 GTAAGGACTTACCCTGAGCACAAAGCAGAGGAGCCTACA
* * *
1552835 GTAAGGACTTACCTTGAGCACAAAGCAGAGGAGCCTGCG
1 GTAAGGACTTACCCTGAGCACAAAGCAGAGGAGCCTACA
*
1552874 GTAAGGTCTTAC
1 GTAAGGACTTAC
1552886 AAGTCATATA
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.32, C:0.21, G:0.29, T:0.18
Consensus pattern (39 bp):
GTAAGGACTTACCCTGAGCACAAAGCAGAGGAGCCTACA
Found at i:1554321 original size:90 final size:93
Alignment explanation
Indices: 1554201--1554375 Score: 268
Period size: 90 Copynumber: 1.9 Consensus size: 93
1554191 ATTATATATT
*
1554201 TATATAAGTATATACTTATAATGAATGCATAAGTATAATGGACA-T-T-ATATATACATGCATTA
1 TATATAAGTATATACTTATAATGAATGCATAAGTATAATGGACATTATGATATATACATGCATCA
1554263 TATTATCATAACATTCATCATACAAATA
66 TATTATCATAACATTCATCATACAAATA
* * *
1554291 TATATATA-TATATACTTATGATGTATGCATAAGTATAATGTACATTATGATATATACATGCATC
1 TATATA-AGTATATACTTATAATGAATGCATAAGTATAATGGACATTATGATATATACATGCATC
*
1554355 GTATTATCATAACATTCATCA
65 ATATTATCATAACATTCATCA
1554376 CACATATTAA
Statistics
Matches: 76, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
90 39 0.51
91 2 0.03
92 1 0.01
93 34 0.45
ACGTcount: A:0.42, C:0.11, G:0.09, T:0.38
Consensus pattern (93 bp):
TATATAAGTATATACTTATAATGAATGCATAAGTATAATGGACATTATGATATATACATGCATCA
TATTATCATAACATTCATCATACAAATA
Found at i:1554584 original size:7 final size:7
Alignment explanation
Indices: 1554572--1554608 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
1554562 CCCACAAGTA
1554572 TATACTT
1 TATACTT
1554579 TATAC-T
1 TATACTT
1554585 TATAC-T
1 TATACTT
*
1554591 TATAATT
1 TATACTT
1554598 TATACTT
1 TATACTT
1554605 TATA
1 TATA
1554609 TATAATTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
6 11 0.41
7 16 0.59
ACGTcount: A:0.35, C:0.11, G:0.00, T:0.54
Consensus pattern (7 bp):
TATACTT
Found at i:1554614 original size:18 final size:18
Alignment explanation
Indices: 1554570--1554628 Score: 59
Period size: 18 Copynumber: 3.2 Consensus size: 18
1554560 GTCCCACAAG
*
1554570 TATATACTTTATAC-TTA
1 TATATAATTTATACTTTA
1554587 TACTTATAATTTATACTTTA
1 TA--TATAATTTATACTTTA
*
1554607 TATATAATTAATA-TATTA
1 TATATAATTTATACT-TTA
1554625 TATA
1 TATA
1554629 CTTAGAAGTA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
17 3 0.08
18 17 0.47
19 11 0.31
20 5 0.14
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.53
Consensus pattern (18 bp):
TATATAATTTATACTTTA
Found at i:1554792 original size:11 final size:12
Alignment explanation
Indices: 1554757--1554796 Score: 50
Period size: 11 Copynumber: 3.6 Consensus size: 12
1554747 ATTATATACA
1554757 TATAC-TTATAG
1 TATACATTATAG
*
1554768 TATA-AGTATAG
1 TATACATTATAG
1554779 TATACATTAT-G
1 TATACATTATAG
1554790 TATACAT
1 TATACAT
1554797 GCATTATCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
11 21 0.84
12 4 0.16
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.42
Consensus pattern (12 bp):
TATACATTATAG
Found at i:1554851 original size:8 final size:8
Alignment explanation
Indices: 1554829--1554877 Score: 50
Period size: 8 Copynumber: 6.2 Consensus size: 8
1554819 TTCATCATAC
1554829 ATATT-AT
1 ATATTAAT
1554836 ATA-T-AT
1 ATATTAAT
*
1554842 ATAATAAT
1 ATATTAAT
1554850 ATATGTATAT
1 ATAT-TA-AT
1554860 ATATTAAT
1 ATATTAAT
1554868 ATATTAAT
1 ATATTAAT
1554876 AT
1 AT
1554878 TGTTTTATGT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
6 6 0.16
7 4 0.11
8 17 0.46
9 4 0.11
10 6 0.16
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (8 bp):
ATATTAAT
Found at i:1554877 original size:18 final size:18
Alignment explanation
Indices: 1554837--1554871 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1554827 ACATATTATA
1554837 TATATATAATAATATATG
1 TATATATAATAATATATG
*
1554855 TATATATATTAATATAT
1 TATATATAATAATATAT
1554872 TAATATTGTT
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:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (18 bp):
TATATATAATAATATATG
Found at i:1557014 original size:23 final size:22
Alignment explanation
Indices: 1556988--1557038 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
1556978 CTATATGATG
*
1556988 TGTTTTTCTCT-ATCTTTATGGTA
1 TGTTTTTCTCTGA-CTTT-TGGAA
*
1557011 TGTTTCTCTCTGACTTTTGGAA
1 TGTTTTTCTCTGACTTTTGGAA
1557033 TGTTTT
1 TGTTTT
1557039 AGGTTGTTCG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
22 9 0.38
23 14 0.58
24 1 0.04
ACGTcount: A:0.12, C:0.14, G:0.16, T:0.59
Consensus pattern (22 bp):
TGTTTTTCTCTGACTTTTGGAA
Found at i:1559189 original size:45 final size:49
Alignment explanation
Indices: 1559131--1559265 Score: 190
Period size: 45 Copynumber: 2.8 Consensus size: 49
1559121 TTAATGAGGT
1559131 TATTTATTTTAAAATAATTTATTTTAAAATAATTTATTAT-AAA-AT-A
1 TATTTATTTTAAAATAATTTATTTTAAAATAATTTATTATAAAATATGA
* *
1559177 -ATTTATTATAAAATAATTTATTTTAAAATAAATTATTATAAAATATGGA
1 TATTTATTTTAAAATAATTTATTTTAAAATAATTTATTATAAAATAT-GA
1559226 TTGATTTATTTTAAAATAATTTATTTT-AAATAATTTATTA
1 -T-ATTTATTTTAAAATAATTTATTTTAAAATAATTTATTA
1559266 GTATGGATTG
Statistics
Matches: 78, Mismatches: 4, Indels: 9
0.86 0.04 0.10
Matches are distributed among these distances:
45 37 0.47
46 3 0.04
47 2 0.03
49 1 0.01
51 12 0.15
52 23 0.29
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (49 bp):
TATTTATTTTAAAATAATTTATTTTAAAATAATTTATTATAAAATATGA
Found at i:1559234 original size:22 final size:22
Alignment explanation
Indices: 1559209--1559309 Score: 94
Period size: 22 Copynumber: 4.5 Consensus size: 22
1559199 TTAAAATAAA
*
1559209 TTATTATAAAATATGGATTGAT
1 TTATTTTAAAATATGGATTGAT
** * *
1559231 TTATTTTAAAATAATTTATTTTAA
1 TTATTTTAAAAT-ATGGA-TTGAT
* * * *
1559255 ATAATTTATTAGTATGGATTGAT
1 TTATTTTA-AAATATGGATTGAT
1559278 TTATTTTAAAATATGGATTGAT
1 TTATTTTAAAATATGGATTGAT
1559300 TTATTTTAAA
1 TTATTTTAAA
1559310 TAATTTATTA
Statistics
Matches: 59, Mismatches: 17, Indels: 6
0.72 0.21 0.07
Matches are distributed among these distances:
22 33 0.56
23 12 0.20
24 12 0.20
25 2 0.03
ACGTcount: A:0.39, C:0.00, G:0.10, T:0.51
Consensus pattern (22 bp):
TTATTTTAAAATATGGATTGAT
Found at i:1559258 original size:14 final size:15
Alignment explanation
Indices: 1559132--1559264 Score: 160
Period size: 15 Copynumber: 8.5 Consensus size: 15
1559122 TAATGAGGTT
1559132 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
1559147 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
1559162 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
*
1559177 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
1559192 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
* *
1559207 AATTATTATAAAATATGGA
1 ATTTATT-TTAAA-AT--A
1559226 TTGATTTATTTTAAAATA
1 ---ATTTATTTTAAAATA
1559244 ATTTATTTT-AAATA
1 ATTTATTTTAAAATA
1559258 ATTTATT
1 ATTTATT
1559265 AGTATGGATT
Statistics
Matches: 105, Mismatches: 6, Indels: 15
0.83 0.05 0.12
Matches are distributed among these distances:
14 12 0.11
15 73 0.70
16 4 0.04
17 2 0.02
18 1 0.01
19 1 0.01
20 2 0.02
21 4 0.04
22 6 0.06
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (15 bp):
ATTTATTTTAAAATA
Found at i:1559282 original size:32 final size:32
Alignment explanation
Indices: 1559244--1559985 Score: 300
Period size: 32 Copynumber: 24.4 Consensus size: 32
1559234 TTTTAAAATA
1559244 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
1559276 ATTTA-TTT---TAA---A--A-TATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
1559298 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
1559330 ATTTATTTT--A-AA---A-TA--A-GGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
*
1559352 ATTTATTTTAAATAATTTATTAGTATGAATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
* *
1559384 ATTTATTTTAAAATATGGATTGATTTATAGTTGTATGAATTG
1 ATTTATTTT--AA-AT--A---ATTTAT--TAGTATGGATTG
1559426 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
1559458 ATTTA-TTT---TAA---A--A-TATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
1559480 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
1559512 ATTTA-TTT---TAA---A--A-TATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
*
1559534 ATTTATTTTAAATGATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
1559566 ATTTA-TTT---TAA---A--A-TATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
1559588 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
** **
1559620 ATTTATTTTAAA-ATATGGATT-G-ATTTATT-
1 ATTTATTTTAAATA-ATTTATTAGTATGGATTG
* * * * * *
1559649 ATTGTAGTTGTATGGATTGATTTATTTTA-AAT-AATTT
1 ATT-TA-TT-T-T-AAATAATTTA--TTAGTATGGATTG
* * ** * * *
1559686 ATTAATATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTA--TT--AGTATGGATTG
** **
1559722 ATTTATTTTAAA-ATATAGATT-G-ATTTATT-
1 ATTTATTTTAAATA-ATTTATTAGTATGGATTG
* * * * *
1559751 ATTGTAGTTGTATAGATTGATTTATT--T-T-AAATA
1 ATT-TA-TT-T-TA-AATAATTTATTAGTATGGATTG
* * * *
1559784 ATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATT--T-T-AAATAATTTA--TT--AGTATGGATTG
*
1559824 ATTTATTTTAAATAATTTATTGGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
1559856 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
* *
1559888 ATTTATTTTAAATAATTTATTTGTATAGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
1559920 ATTTA-TTT---TAA---A--A-TATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
*
1559942 ATTTATTTTAAATAATTTATTTGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
1559974 ATTTATTTTAAA
1 ATTTATTTTAAA
1559986 ATATAGATTG
Statistics
Matches: 551, Mismatches: 54, Indels: 210
0.68 0.07 0.26
Matches are distributed among these distances:
22 84 0.15
23 20 0.04
24 1 0.00
25 9 0.02
26 15 0.03
28 15 0.03
29 15 0.03
30 15 0.03
31 28 0.05
32 235 0.43
33 7 0.01
34 26 0.05
35 5 0.01
36 26 0.05
37 8 0.01
38 2 0.00
39 3 0.01
40 17 0.03
42 20 0.04
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (32 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTG
Found at i:1559299 original size:69 final size:67
Alignment explanation
Indices: 1559162--1559319 Score: 203
Period size: 69 Copynumber: 2.3 Consensus size: 67
1559152 TTTTAAAATA
*
1559162 ATTTATTATAAAATAATTTATTATAAAATAATTTATTTTAAAATAAATTATTATAAAATATGGAT
1 ATTTATTTTAAAATAATTTATTATAAAATAATTTATTTTAAAATAAATTATTATAAAATATGGAT
1559227 TG
66 TG
* ** * * * *
1559229 ATTTATTTTAAAATAATTTATT-TTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATG
1 ATTTATTTTAAAATAATTTATTATAAAATAATTTATT--T-TAAAATAAATTATTATAAAATATG
1559293 GATTG
63 GATTG
1559298 ATTTATTTT-AAATAATTTATTA
1 ATTTATTTTAAAATAATTTATTA
1559320 GTATGGATTG
Statistics
Matches: 79, Mismatches: 8, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
66 13 0.16
67 21 0.27
68 13 0.16
69 32 0.41
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (67 bp):
ATTTATTTTAAAATAATTTATTATAAAATAATTTATTTTAAAATAAATTATTATAAAATATGGAT
TG
Found at i:1559309 original size:54 final size:54
Alignment explanation
Indices: 1559244--1560017 Score: 575
Period size: 54 Copynumber: 14.4 Consensus size: 54
1559234 TTTTAAAATA
1559244 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
1559298 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATAAGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
1559352 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* ** * * ** * * *
1559406 ATTTATAGTTGTATGAATTGATT--TAT---TTTAAATAATTTATTAGTATGGATTG
1 ATTTAT-TTTAAAT-AATTTATTAGTATGGATTGATTTATTTTA-AAATATGGATTG
** ** * ** * * *
1559458 ATTTATTTTAAA-ATATGGATT-G-ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATA-ATTTATTAGTATGGA-TTGATTTATTTTA-AAATATGGATTG
* * * * *
1559512 ATTTATTTT-AA-AA--TA-T-GGATTGATTTATTTTAAATGATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGA-TTT--AT--TTTA-AAATATGGATTG
** ** * ** * * *
1559566 ATTTATTTTAAA-ATATGGATT-G-ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATA-ATTTATTAGTATGGA-TTGATTTATTTTA-AAATATGGATTG
* * * * ***
1559620 ATTTATTTT-AA-AA--TA-T-GGATTGATTTA-TTATTGTAGTTGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTA-AAATATGGATTG
*
1559668 ATTTATTTTAAATAATTTATTAATATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* * * *** *
1559722 ATTTATTTT-AA-AA--TA-TAG-ATTGATTTA-TTATTGTAGTTGTATAGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTA-AAATATGGATTG
1559770 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
1559824 ATTTATTTTAAATAATTTATTGGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTA-TTT---TAA---A--A-TATGGATTG
* *
1559888 ATTTATTTTAAATAATTTATTTGTATAGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* *
1559942 ATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATAGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1559996 ATTTATTTTAAATAATTTATTA
1 ATTTATTTTAAATAATTTATTA
1560018 TTGTAGTTGT
Statistics
Matches: 610, Mismatches: 63, Indels: 94
0.80 0.08 0.12
Matches are distributed among these distances:
47 7 0.01
48 49 0.08
49 19 0.03
50 25 0.04
51 12 0.02
52 25 0.04
53 12 0.02
54 359 0.59
55 25 0.04
56 9 0.01
57 1 0.00
58 9 0.01
59 6 0.01
60 3 0.00
61 1 0.00
63 4 0.01
64 44 0.07
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (54 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
Found at i:1559400 original size:22 final size:22
Alignment explanation
Indices: 1559375--1559437 Score: 69
Period size: 20 Copynumber: 3.0 Consensus size: 22
1559365 AATTTATTAG
1559375 TATGAATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
* * *
1559397 TATGGATTGATTTATAGTT---G
1 TATGAATTGATTTAT-TTTAAAA
1559417 TATGAATTGATTTATTTTAAA
1 TATGAATTGATTTATTTTAAA
1559438 TAATTTATTA
Statistics
Matches: 32, Mismatches: 5, Indels: 8
0.71 0.11 0.18
Matches are distributed among these distances:
19 2 0.06
20 14 0.44
22 14 0.44
23 2 0.06
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:1559439 original size:74 final size:74
Alignment explanation
Indices: 1559348--1559485 Score: 267
Period size: 74 Copynumber: 1.9 Consensus size: 74
1559338 TAAAATAAGG
1559348 ATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATA
1 ATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATA
1559413 GTTGTATGA
66 GTTGTATGA
*
1559422 ATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTAT
1 ATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTAT
1559486 TTTAAATAAT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
74 63 1.00
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (74 bp):
ATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATA
GTTGTATGA
Found at i:1559451 original size:128 final size:128
Alignment explanation
Indices: 1559289--1559539 Score: 475
Period size: 128 Copynumber: 2.0 Consensus size: 128
1559279 TATTTTAAAA
*
1559289 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATAAGGATTGAT
1 TATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATAAGGATTGAT
1559354 TTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATAGTTG
66 TTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATAGTTG
*
1559417 TATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATAAGGATTGAT
*
1559482 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTAT
66 TTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTAT
1559540 TTTAAATGAT
Statistics
Matches: 120, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
128 120 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (128 bp):
TATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATAAGGATTGAT
TTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATAGTTG
Found at i:1559474 original size:22 final size:22
Alignment explanation
Indices: 1559449--1559491 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
1559439 AATTTATTAG
1559449 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
1559471 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
1559492 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:1559507 original size:236 final size:236
Alignment explanation
Indices: 1559244--1560017 Score: 1204
Period size: 236 Copynumber: 3.3 Consensus size: 236
1559234 TTTTAAAATA
*
1559244 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAA
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTGATTTATTTTAA
*
1559309 ATAATTTATTAGTATGGATTGATTTATTTTAAAATAAGGATTGATTTATTTTAAATAATTTATTA
66 ATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTA
* *
1559374 GTATGAATTGATTTATTTTAAAATATGGATTGATTTATAGTTGTATGAATTGATTTATTTTAAAT
131 GTATGGATTGATTTATTTTAAAATATGGATTGATTTATAGTTGTATGGATTGATTTATTTTAAAT
1559439 AATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
196 AATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
1559480 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAA
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTGATTTATTTTAA
*
1559545 ATGATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTA
66 ATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTA
1559610 GTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATGGATTGATTTATT
131 GTATGGATTGATTTATTTTAAAATATGGATTGA--T-TTA---TAGTTGTATGGATTGATTTATT
*
1559675 TTAAATAATTTATTAATATGGATTGATTTATTTTAAAATATGGATTG
190 TTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* * * ***
1559722 ATTTATTTT-AA-AA--TA-TAG-ATTGATTTA-TTATTGTAGTTGTATAGATTGATTTATTTTA
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTA-AAATATAGATTGATTTATTTTA
1559780 AATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATT
65 AATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATT
* *
1559845 GGTATGGATTGATTTATTTT--AA-AT--A---ATTTAT--TAGTATGGATTGATTTATTTTAAA
130 AGTATGGATTGATTTATTTTAAAATATGGATTGATTTATAGTTGTATGGATTGATTTATTTTAAA
* *
1559900 TAATTTATTTGTATAGATTGATTTATTTTAAAATATGGATTG
195 TAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
1559942 ATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATAGATTGATTTATTTTAA
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTGATTTATTTTAA
1560007 ATAATTTATTA
66 ATAATTTATTA
1560018 TTGTAGTTGT
Statistics
Matches: 499, Mismatches: 25, Indels: 38
0.89 0.04 0.07
Matches are distributed among these distances:
220 71 0.14
221 2 0.00
222 3 0.01
224 2 0.00
225 5 0.01
226 39 0.08
227 7 0.01
228 1 0.00
231 1 0.00
233 2 0.00
234 2 0.00
235 7 0.01
236 268 0.54
237 3 0.01
238 3 0.01
239 3 0.01
240 2 0.00
241 2 0.00
242 76 0.15
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (236 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTGATTTATTTTAA
ATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTA
GTATGGATTGATTTATTTTAAAATATGGATTGATTTATAGTTGTATGGATTGATTTATTTTAAAT
AATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
Found at i:1559528 original size:22 final size:22
Alignment explanation
Indices: 1559503--1559545 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
1559493 AATTTATTAG
1559503 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
1559525 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
1559546 TGATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:1559582 original size:22 final size:22
Alignment explanation
Indices: 1559557--1559599 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
1559547 GATTTATTAG
1559557 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
1559579 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
1559600 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:1559636 original size:22 final size:22
Alignment explanation
Indices: 1559611--1559750 Score: 91
Period size: 22 Copynumber: 5.7 Consensus size: 22
1559601 AATTTATTAG
1559611 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
***
1559633 TATGGATTGATTTATTATTGTAGTTG
1 TATGGATTGATTTA-T-TT-TA-AAA
1559659 TATGGATTGATTTATTTTAAATAA
1 TATGGATTGATTTATTTT-AA-AA
** *
1559683 TTTATTAATATGGATTGATTTATTTTAAAA
1 --TATGGAT-T-GATTTA-TT---TTAAAA
1559713 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
*
1559735 TATAGATTGATTTATT
1 TATGGATTGATTTATT
1559751 ATTGTAGTTG
Statistics
Matches: 91, Mismatches: 13, Indels: 28
0.69 0.10 0.21
Matches are distributed among these distances:
22 35 0.38
23 2 0.02
24 5 0.05
25 5 0.05
26 24 0.26
27 2 0.02
28 10 0.11
29 2 0.02
30 2 0.02
31 2 0.02
32 2 0.02
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.52
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:1559845 original size:22 final size:22
Alignment explanation
Indices: 1559793--1559835 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
1559783 AATTTATTAG
1559793 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
1559815 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
1559836 TAATTTATTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:1560065 original size:31 final size:31
Alignment explanation
Indices: 1560030--1560090 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
1560020 GTAGTTGTAT
* *
1560030 AAATTATTTAAATTTCAGTATTGTAAAACTA
1 AAATTATTTAAATCTCAGTATTGCAAAACTA
1560061 AAATTATTTAAATCTCAGTATTGCAAAACT
1 AAATTATTTAAATCTCAGTATTGCAAAACT
1560091 CTTTTAAGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.44, C:0.10, G:0.07, T:0.39
Consensus pattern (31 bp):
AAATTATTTAAATCTCAGTATTGCAAAACTA
Found at i:1561586 original size:43 final size:41
Alignment explanation
Indices: 1561502--1561586 Score: 93
Period size: 43 Copynumber: 2.0 Consensus size: 41
1561492 AATAAAAATC
*
1561502 ATGATTTAATTATATTTTTATTAAAATTAAAATTTTTATAA
1 ATGATTTAATTATATTTTTATTAAAATTAAAATTTTCATAA
* *
1561543 ATGA-TTAATTATCAATATTTTATTAGAATT-TAATTATTCATAA
1 ATGATTTAATTAT--AT-TTTTATTAAAATTAAAATT-TTCATAA
1561586 A
1 A
1561587 ATTAGTTTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
40 8 0.22
41 4 0.11
42 6 0.16
43 19 0.51
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.51
Consensus pattern (41 bp):
ATGATTTAATTATATTTTTATTAAAATTAAAATTTTCATAA
Found at i:1572169 original size:22 final size:22
Alignment explanation
Indices: 1572141--1572182 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
1572131 GTTTTTCTGC
1572141 TTTCGAATA-GAAAAGTAATAGT
1 TTTCGAATAGGAAAA-TAATAGT
1572163 TTTCGAATAGGAAAATAATA
1 TTTCGAATAGGAAAATAATA
1572183 CCTTTTGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.48, C:0.05, G:0.17, T:0.31
Consensus pattern (22 bp):
TTTCGAATAGGAAAATAATAGT
Found at i:1572188 original size:23 final size:22
Alignment explanation
Indices: 1572141--1572188 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 22
1572131 GTTTTTCTGC
*
1572141 TTTCGAATAGAAAAGTAATAGT
1 TTTCGAATAGAAAAGTAATACT
1572163 TTTCGAATAGGAAAA-TAATACCT
1 TTTCGAATA-GAAAAGTAATA-CT
1572186 TTT
1 TTT
1572189 GAAAACTTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 14 0.61
23 9 0.39
ACGTcount: A:0.42, C:0.08, G:0.15, T:0.35
Consensus pattern (22 bp):
TTTCGAATAGAAAAGTAATACT
Found at i:1573277 original size:83 final size:83
Alignment explanation
Indices: 1573087--1573390 Score: 217
Period size: 83 Copynumber: 3.7 Consensus size: 83
1573077 CCGCAATAGT
* ** * * * * * *
1573087 ATTAATATATAGTGGTGTTTGATCATACAAACGCCACAACA-AAAGTAATTTTGC-GGAGTTTTT
1 ATTATTATATAGTGACGTTTTATCAAACAAACGCCGCAAGAGAAAGTAATTTAGCAGCA-TTTTT
** * *
1573150 -TACAAACGCCGTAATAGG
65 ATACAAACAACGAAATATG
* * *** * *
1573168 GTTAGTATATAGTGGTATTTTTTCAAACAAACGCCGCAAGAGAAAGTAATTTTGCAGCATTTCTT
1 ATTATTATATAGTGACGTTTTATCAAACAAACGCCGCAAGAGAAAGTAATTTAGCAGCATTT-TT
* *
1573233 A-ACAAACGACGCAATA-G
65 ATACAAACAACGAAATATG
* * * * * *
1573250 AATTATTACTTTA-TGGCGTTTTATCAAACAAGCGCTGC-AGAAGAAAGTAATTTAGCGGCGTTT
1 -ATTATTA-TATAGTGACGTTTTATCAAACAAACGCCGCAAG-AGAAAGTAATTTAGCAGCATTT
1573313 TTATACAAACAACGAAATATG
63 TTATACAAACAACGAAATATG
* ** * *
1573334 TTTATTATATAGTGACGTTTTATCTTACAAATGCCGCAAAAGAAAGTAATTTAGCAG
1 ATTATTATATAGTGACGTTTTATCAAACAAACGCCGCAAGAGAAAGTAATTTAGCAG
1573391 TGTTTTCAAA
Statistics
Matches: 178, Mismatches: 34, Indels: 20
0.77 0.15 0.09
Matches are distributed among these distances:
81 33 0.19
82 25 0.14
83 115 0.65
84 5 0.03
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.31
Consensus pattern (83 bp):
ATTATTATATAGTGACGTTTTATCAAACAAACGCCGCAAGAGAAAGTAATTTAGCAGCATTTTTA
TACAAACAACGAAATATG
Found at i:1573396 original size:83 final size:82
Alignment explanation
Indices: 1573185--1573406 Score: 223
Period size: 83 Copynumber: 2.7 Consensus size: 82
1573175 TATAGTGGTA
* * * * * *
1573185 TTTTTTCAAACAAACGCCGCAAGAGAAAGTAATTTTGCAGCATTTCTTAACAAACGACGCAATAG
1 TTTTATCAAACAAACGCCGCAAAAGAAAGTAATTTAGCAGCGTTT-TTAACAAACAACGAAATAG
* *
1573250 AATTATTACTTTATGGCG
65 AATTATTACTATATGACG
* * * *
1573268 TTTTATCAAACAAGCGCTGCAGAAGAAAGTAATTTAGCGGCGTTTTTATACAAACAACGAAATAT
1 TTTTATCAAACAAACGCCGCAAAAGAAAGTAATTTAGCAGCGTTTTTA-ACAAACAACGAAATA-
*
1573333 G-TTTATTA-TATAGTGACG
64 GAATTATTACTATA-TGACG
** * * *
1573351 TTTTATCTTACAAATGCCGCAAAAGAAAGTAATTTAGCAGTGTTTTCAAACAAACA
1 TTTTATCAAACAAACGCCGCAAAAGAAAGTAATTTAGCAGCGTTTT-TAACAAACA
1573407 CCGTGATAAT
Statistics
Matches: 113, Mismatches: 22, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
82 6 0.05
83 105 0.93
84 2 0.02
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.31
Consensus pattern (82 bp):
TTTTATCAAACAAACGCCGCAAAAGAAAGTAATTTAGCAGCGTTTTTAACAAACAACGAAATAGA
ATTATTACTATATGACG
Found at i:1574865 original size:15 final size:15
Alignment explanation
Indices: 1574845--1574875 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
1574835 ACACAAAGAA
1574845 TCAAGAAGAAACTCC
1 TCAAGAAGAAACTCC
1574860 TCAAGAAGAAACTCC
1 TCAAGAAGAAACTCC
1574875 T
1 T
1574876 TCCTAGGCAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.45, C:0.26, G:0.13, T:0.16
Consensus pattern (15 bp):
TCAAGAAGAAACTCC
Found at i:1584046 original size:42 final size:44
Alignment explanation
Indices: 1583939--1584052 Score: 153
Period size: 44 Copynumber: 2.6 Consensus size: 44
1583929 TTTAGCGGCG
* * *
1583939 TTTGTATCCTAAAAAC-ATCGCTATATACCATACCTATTGCGACA
1 TTTGTATCCTAAAAACGCT-GCTATATACCAGACCTATAGCGACA
*
1583983 TTTGTATCCTAAAAACGCTGCTATATACCAGACCTATAGTGACA
1 TTTGTATCCTAAAAACGCTGCTATATACCAGACCTATAGCGACA
*
1584027 -TT-TATCCTAAATACGCTGCTATATAC
1 TTTGTATCCTAAAAACGCTGCTATATAC
1584053 TAGTTCAATA
Statistics
Matches: 64, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
42 23 0.36
43 2 0.03
44 38 0.59
45 1 0.02
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.32
Consensus pattern (44 bp):
TTTGTATCCTAAAAACGCTGCTATATACCAGACCTATAGCGACA
Found at i:1584185 original size:42 final size:42
Alignment explanation
Indices: 1584100--1584191 Score: 105
Period size: 42 Copynumber: 2.2 Consensus size: 42
1584090 TAAATACCAT
* * *
1584100 ACTTATTGCGGAGTTTGCATAAAAATGCCTCGAAATGTCAAC
1 ACTTATTGCGGAGTTTGCATAAAAATGCCGCGAAATATAAAC
* * *
1584142 ACTTATTGCGGTGTTTGTGA-AAAAATGCCGCTAAATATAAAC
1 ACTTATTGCGGAGTTTG-CATAAAAATGCCGCGAAATATAAAC
*
1584184 ACCTATTG
1 ACTTATTG
1584192 TGGCGTTTTT
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
42 41 0.98
43 1 0.02
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.30
Consensus pattern (42 bp):
ACTTATTGCGGAGTTTGCATAAAAATGCCGCGAAATATAAAC
Found at i:1586242 original size:33 final size:33
Alignment explanation
Indices: 1586200--1586268 Score: 122
Period size: 33 Copynumber: 2.1 Consensus size: 33
1586190 GTCTTAAGGA
1586200 ATAATTAAAAGAGTAAGAACAT-TATCGAAGTGG
1 ATAATTAAAAGAGTAAGAAC-TCTATCGAAGTGG
1586233 ATAATTAAAAGAGTAAGAACTCTATCGAAGTGG
1 ATAATTAAAAGAGTAAGAACTCTATCGAAGTGG
1586266 ATA
1 ATA
1586269 GTTGAGCAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
32 1 0.03
33 34 0.97
ACGTcount: A:0.48, C:0.07, G:0.20, T:0.25
Consensus pattern (33 bp):
ATAATTAAAAGAGTAAGAACTCTATCGAAGTGG
Found at i:1586647 original size:18 final size:18
Alignment explanation
Indices: 1586625--1586685 Score: 79
Period size: 18 Copynumber: 3.4 Consensus size: 18
1586615 TTTTCATTTT
*
1586625 ATTATTATTATTATTATT
1 ATTATTATTATTATTATA
* *
1586643 GTTATTATTATTATAATA
1 ATTATTATTATTATTATA
1586661 ATTATTATTATT-TTATAA
1 ATTATTATTATTATTAT-A
1586679 ATTATTA
1 ATTATTA
1586686 CAAAACAACC
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
17 3 0.08
18 34 0.92
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (18 bp):
ATTATTATTATTATTATA
Found at i:1586685 original size:3 final size:3
Alignment explanation
Indices: 1586623--1586676 Score: 74
Period size: 3 Copynumber: 18.3 Consensus size: 3
1586613 TTTTTTCATT
* * *
1586623 TTA TTA TTA TTA TTA TTA TTG TTA TTA TTA TTA TAA TAA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1586671 TT- TTA T
1 TTA TTA T
1586677 AAATTATTAC
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
2 2 0.04
3 44 0.96
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:1588690 original size:143 final size:142
Alignment explanation
Indices: 1588427--1588690 Score: 338
Period size: 143 Copynumber: 1.9 Consensus size: 142
1588417 TAATCATATT
*
1588427 TTAATATTTATATATTTTTAATATTAAGAAATGGGTTCTCATAAAGCATATAGAAGTCCTTTTCT
1 TTAATATTTATATATTTTTAATATTAAGAAATGAGTTCTCATAAAGCATATAGAAGTCCTTTTCT
* * * * *
1588492 GATATTCTTAAATAAATAAATATCTATTTTTATAAATTATATATACTTATTTTAATTATTTTTAT
66 GATATTCTTAAATAAATAAATATCTATATTAATAAATTATATAAAATTATATTAATTATTTTTAT
1588557 AGAAATGTTTTA
131 AGAAATGTTTTA
* *
1588569 TTAATATTTAT-TCATTTTTTAATATTAAGAAATGAGTTGTCTTAAAGCACT-TAGAAGTCCTTT
1 TTAATATTTATAT-A-TTTTTAATATTAAGAAATGAGTTCTCATAAAGCA-TATAGAAGTCCTTT
* * * * *
1588632 TTTGATATT-TCTAAGTAAATAAATATCT-TATTAATATATTTTCTTAAAATTATATTAAT
63 TCTGATATTCT-TAAATAAATAAATATCTATATTAATAAATTAT-ATAAAATTATATTAAT
1588691 AAATTTGAAA
Statistics
Matches: 104, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
141 1 0.01
142 23 0.22
143 79 0.76
144 1 0.01
ACGTcount: A:0.38, C:0.07, G:0.07, T:0.48
Consensus pattern (142 bp):
TTAATATTTATATATTTTTAATATTAAGAAATGAGTTCTCATAAAGCATATAGAAGTCCTTTTCT
GATATTCTTAAATAAATAAATATCTATATTAATAAATTATATAAAATTATATTAATTATTTTTAT
AGAAATGTTTTA
Found at i:1596452 original size:75 final size:74
Alignment explanation
Indices: 1596352--1596500 Score: 199
Period size: 75 Copynumber: 2.0 Consensus size: 74
1596342 ATCAACAATA
* * * * * *
1596352 AGCAAATGTTGAGGCATGCTGAAAGCCCATTTCAATCATAATTAGGAATATTGATATATTTTGAA
1 AGCAAATGCTGAGGCATACTGAAAGCCCATTTCAAT-AGAATGAGGAATATTGACACATTTTGAA
*
1596417 TGTTTGTATC
65 TGCTTGTATC
* * *
1596427 AGCAAATGCTGGGGCATACTGAAAGCCCATTTCAATAGAATGAGGAATGTTGACGCATTTTGAAT
1 AGCAAATGCTGAGGCATACTGAAAGCCCATTTCAATAGAATGAGGAATATTGACACATTTTGAAT
1596492 GCTTGTATC
66 GCTTGTATC
1596501 GATAAATGTT
Statistics
Matches: 64, Mismatches: 10, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
74 31 0.48
75 33 0.52
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.32
Consensus pattern (74 bp):
AGCAAATGCTGAGGCATACTGAAAGCCCATTTCAATAGAATGAGGAATATTGACACATTTTGAAT
GCTTGTATC
Found at i:1596523 original size:74 final size:75
Alignment explanation
Indices: 1596352--1596523 Score: 213
Period size: 74 Copynumber: 2.3 Consensus size: 75
1596342 ATCAACAATA
* * * * *
1596352 AGCAAATGTTGAGGCATGCTGAAAGCCCATTTCAATCATAATTAGGAATATTGATATATTTTGAA
1 AGCAAATGTTGGGGCATGCTGAAAGCCCATTTCAATCAGAATGAGGAATATTGACACATTTTGAA
*
1596417 TGTTTGTATC
66 TGCTTGTATC
* * * *
1596427 AGCAAATGCTGGGGCATACTGAAAGCCCATTTCAAT-AGAATGAGGAATGTTGACGCATTTTGAA
1 AGCAAATGTTGGGGCATGCTGAAAGCCCATTTCAATCAGAATGAGGAATATTGACACATTTTGAA
1596491 TGCTTGTATC
66 TGCTTGTATC
* *
1596501 -GATAAATGTTGGGGCTTGCTGAA
1 AG-CAAATGTTGGGGCATGCTGAA
1596524 GGCCTATATC
Statistics
Matches: 82, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
73 1 0.01
74 48 0.59
75 33 0.40
ACGTcount: A:0.31, C:0.13, G:0.23, T:0.32
Consensus pattern (75 bp):
AGCAAATGTTGGGGCATGCTGAAAGCCCATTTCAATCAGAATGAGGAATATTGACACATTTTGAA
TGCTTGTATC
Found at i:1597497 original size:22 final size:20
Alignment explanation
Indices: 1597444--1597498 Score: 76
Period size: 19 Copynumber: 2.7 Consensus size: 20
1597434 TACATCTACA
1597444 TTCTTCAAAGATGATAGATT
1 TTCTTCAAAGATGATAGATT
1597464 TTCTT-AAAGATGATAGATT
1 TTCTTCAAAGATGATAGATT
*
1597483 CTCTTTTCAAAGATGA
1 -T-TCTTCAAAGATGA
1597499 AAGCTTTATT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 14 0.45
20 6 0.19
21 3 0.10
22 8 0.26
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.40
Consensus pattern (20 bp):
TTCTTCAAAGATGATAGATT
Found at i:1598306 original size:45 final size:45
Alignment explanation
Indices: 1598156--1598425 Score: 393
Period size: 45 Copynumber: 6.0 Consensus size: 45
1598146 CTATTTCCCA
*
1598156 CATC-GTAAGCCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGT
1 CATCTGTAAGACCTTCAGTGCATGATGTTTTC-AAAACCTTCGGGT
* *
1598201 CATCTATAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTC-GGT
1 CATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
*
1598245 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
*
1598290 CATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAACATTCGGGT
1 CATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* *
1598335 CATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAACCTTTGAGT
1 CATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
** *
1598380 CATCCATAAGACCTGT-AGTGCAGGATGTTTTCAAAAAACCTTCGGG
1 CATCTGTAAGACCT-TCAGTGCATGATGTTTTC--AAAACCTTCGGG
1598426 AGCTTTTTGA
Statistics
Matches: 208, Mismatches: 12, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
44 43 0.21
45 128 0.62
46 27 0.13
47 10 0.05
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (45 bp):
CATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
Found at i:1598407 original size:135 final size:135
Alignment explanation
Indices: 1598156--1598425 Score: 402
Period size: 134 Copynumber: 2.0 Consensus size: 135
1598146 CTATTTCCCA
* * *
1598156 CATCGTAAGCCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGTCATCTATAAGCCCTTCAGTG
1 CATCGTAAGACCTTCAGTGCATGATGTTTTCAAAAACATTCGGGTCATCTATAAGACCTTCAGTG
** * *
1598221 CATGATGTTTTCAAAACCTTCGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTC-AAAACCTT
66 CATGATGTTTTCAAAACCTTCGGTCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAAAACCTT
1598285 CGGGT
131 CGGGT
*
1598290 CATCTGTAAGACCTTCAGTGCATGATGTTTTC-AAAACATTCGGGTCATCTGTAAGACCTTCAGT
1 CATC-GTAAGACCTTCAGTGCATGATGTTTTCAAAAACATTCGGGTCATCTATAAGACCTTCAGT
*
1598354 GCATGATGTTTTCAAAACCTTTGAGTCATCCATAAGACCTGT-AGTGCAGGATGTTTTCAAAAAA
65 GCATGATGTTTTCAAAACCTTCG-GTCATCCATAAGACCT-TCAGTGCAGGATGTTTTC-AAAAA
1598418 CCTTCGGG
127 CCTTCGGG
1598426 AGCTTTTTGA
Statistics
Matches: 122, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
134 55 0.45
135 54 0.44
136 1 0.01
137 12 0.10
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (135 bp):
CATCGTAAGACCTTCAGTGCATGATGTTTTCAAAAACATTCGGGTCATCTATAAGACCTTCAGTG
CATGATGTTTTCAAAACCTTCGGTCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAAAACCTT
CGGGT
Found at i:1598482 original size:43 final size:45
Alignment explanation
Indices: 1598433--1598534 Score: 136
Period size: 45 Copynumber: 2.3 Consensus size: 45
1598423 GGGAGCTTTT
* ** * *
1598433 TGATGTTTT-AAAGCC-TTGGGTCATCTGTAAGACCTTCAGTGCC
1 TGATGTTTTCAAAACCTTTGGGTCATCCATAAGACCTGCAGTGCA
1598476 TGATGTTTTCAAAACCTTTGGGTCATCCATAAGACCTGCAGTGCA
1 TGATGTTTTCAAAACCTTTGGGTCATCCATAAGACCTGCAGTGCA
*
1598521 AGATGTTTTCAAAA
1 TGATGTTTTCAAAA
1598535 AGCCTTCGGC
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
43 9 0.18
44 5 0.10
45 37 0.73
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (45 bp):
TGATGTTTTCAAAACCTTTGGGTCATCCATAAGACCTGCAGTGCA
Found at i:1598606 original size:45 final size:45
Alignment explanation
Indices: 1598552--1598664 Score: 154
Period size: 45 Copynumber: 2.5 Consensus size: 45
1598542 GGCAGCTTTT
* * * * *
1598552 TGATATTTTCAAAACCTTCGGGTCATCTATAAGCCCTTCAATGCC
1 TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTGCAATGCA
*
1598597 TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTGCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTGCAATGCA
1598642 TGATGTTTTCAAGAAGCCTTCGG
1 TGATGTTTTCAA-AA-CCTTCGG
1598665 AAGCTTTTTG
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
45 51 0.85
46 2 0.03
47 7 0.12
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.32
Consensus pattern (45 bp):
TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTGCAATGCA
Found at i:1598607 original size:76 final size:74
Alignment explanation
Indices: 1598476--1598617 Score: 194
Period size: 76 Copynumber: 1.9 Consensus size: 74
1598466 CTTCAGTGCC
* * *
1598476 TGATGTTTTCAAAACCTTTGGGTCATCCATAAGACCTGCAGTGCAAGATGTTTTCAAAAAGCCTT
1 TGATATTTTCAAAACCTTCGGGTCATCCATAAGACCTGCAATGCAAGATGTTTTC-AAAA-CCTT
1598541 CGGCAGCTTTT
64 CGGCAGCTTTT
* * * **
1598552 TGATATTTTCAAAACCTTCGGGTCATCTATAAGCCCTTCAATGCCTGATGTTTTCAAAACCTTCG
1 TGATATTTTCAAAACCTTCGGGTCATCCATAAGACCTGCAATGCAAGATGTTTTCAAAACCTTCG
1598617 G
66 G
1598618 GTCATCCATA
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
74 7 0.12
75 4 0.07
76 47 0.81
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.34
Consensus pattern (74 bp):
TGATATTTTCAAAACCTTCGGGTCATCCATAAGACCTGCAATGCAAGATGTTTTCAAAACCTTCG
GCAGCTTTT
Found at i:1598632 original size:121 final size:121
Alignment explanation
Indices: 1598312--1598729 Score: 651
Period size: 121 Copynumber: 3.5 Consensus size: 121
1598302 CTTCAGTGCA
* *
1598312 TGATGTTTTCAAAACATTCGGGTCATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAACCTTTG
1 TGATATTTTCAAAACCTTCGGGTCATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAACCTTTG
* * * * *
1598377 AGTCATCCATAAGACCTGTAGTGCAGGATGTTTTCAAAAAACCTTCGGGAGCTTTT
66 GGTCATCCATAAGACCTGCAGTGCAAGATGTTTTCAAAAAGCCTTCGGAAGCTTTT
* * *
1598433 TGATGTTTT-AAAGCCTT-GGGTCATCTGTAAGACCTTCAGTGCCTGATGTTTTCAAAACCTTTG
1 TGATATTTTCAAAACCTTCGGGTCATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAACCTTTG
*
1598496 GGTCATCCATAAGACCTGCAGTGCAAGATGTTTTCAAAAAGCCTTCGGCAGCTTTT
66 GGTCATCCATAAGACCTGCAGTGCAAGATGTTTTCAAAAAGCCTTCGGAAGCTTTT
* * * * *
1598552 TGATATTTTCAAAACCTTCGGGTCATCTATAAGCCCTTCAATGCCTGATGTTTTCAAAACCTTCG
1 TGATATTTTCAAAACCTTCGGGTCATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAACCTTTG
* *
1598617 GGTCATCCATAAGACCTGCAGTGCATGATGTTTTCAAGAAGCCTTCGGAAGCTTTT
66 GGTCATCCATAAGACCTGCAGTGCAAGATGTTTTCAAAAAGCCTTCGGAAGCTTTT
*
1598673 TGATATTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAA
1 TGATATTTTCAAAACCTTCGGGTCATCTGTAAGACCTTCAGTGCATGATGTTTTCAA
1598730 CATTTCCATC
Statistics
Matches: 274, Mismatches: 21, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
119 104 0.38
120 13 0.05
121 157 0.57
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (121 bp):
TGATATTTTCAAAACCTTCGGGTCATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAACCTTTG
GGTCATCCATAAGACCTGCAGTGCAAGATGTTTTCAAAAAGCCTTCGGAAGCTTTT
Found at i:1598889 original size:3 final size:3
Alignment explanation
Indices: 1598851--1598880 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
1598841 TTTTTTCATT
1598851 TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1598881 AAATTATTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:1600462 original size:12 final size:11
Alignment explanation
Indices: 1600439--1600482 Score: 54
Period size: 12 Copynumber: 3.9 Consensus size: 11
1600429 GTTATTACTT
*
1600439 TTATATTTTAA
1 TTATTTTTTAA
1600450 TTATTTCTTTAA
1 TTATTT-TTTAA
1600462 TTATTATTTT-A
1 TTATT-TTTTAA
1600473 TTATTTTTTA
1 TTATTTTTTA
1600483 TCTTAGTCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
10 4 0.14
11 11 0.38
12 13 0.45
13 1 0.03
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.70
Consensus pattern (11 bp):
TTATTTTTTAA
Found at i:1600475 original size:8 final size:8
Alignment explanation
Indices: 1600404--1600483 Score: 55
Period size: 8 Copynumber: 10.2 Consensus size: 8
1600394 GGGTCAACTA
1600404 ATTTTATT
1 ATTTTATT
*
1600412 A-TTTATA
1 ATTTTATT
*
1600419 ATATTATT
1 ATTTTATT
1600427 -TTGTTATT
1 ATT-TTATT
1600435 ACTTTTA-T
1 A-TTTTATT
1600443 ATTTTAATT
1 ATTTT-ATT
1600452 ATTTCT-TT
1 ATTT-TATT
*
1600460 A-ATTATT
1 ATTTTATT
1600467 ATTTTATT
1 ATTTTATT
1600475 ATTTT-TT
1 ATTTTATT
1600482 AT
1 AT
1600484 CTTAGTCTTA
Statistics
Matches: 57, Mismatches: 6, Indels: 19
0.70 0.07 0.23
Matches are distributed among these distances:
6 1 0.02
7 19 0.33
8 26 0.46
9 8 0.14
10 3 0.05
ACGTcount: A:0.28, C:0.03, G:0.01, T:0.69
Consensus pattern (8 bp):
ATTTTATT
Found at i:1600791 original size:22 final size:21
Alignment explanation
Indices: 1600749--1600792 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
1600739 ATATTCTTAA
* *
1600749 ATAAATAAATATCCTATTTTT
1 ATAAATAAATATACTAATTTT
*
1600770 ATAAATTATATATACTAATTTT
1 ATAAA-TAAATATACTAATTTT
1600792 A
1 A
1600793 ATTATTTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (21 bp):
ATAAATAAATATACTAATTTT
Found at i:1602790 original size:21 final size:19
Alignment explanation
Indices: 1602764--1602805 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 19
1602754 TTGTACCAAG
1602764 ACTAACCCCTTTAGTATCGAT
1 ACTAA-CCC-TTAGTATCGAT
*
1602785 ACTAACCCTTGGTATCGAT
1 ACTAACCCTTAGTATCGAT
1602804 AC
1 AC
1602806 CAAATTTGGC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 12 0.60
20 3 0.15
21 5 0.25
ACGTcount: A:0.29, C:0.29, G:0.12, T:0.31
Consensus pattern (19 bp):
ACTAACCCTTAGTATCGAT
Found at i:1605646 original size:13 final size:13
Alignment explanation
Indices: 1605628--1605659 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
1605618 GTCATAAATC
*
1605628 TATGACGTGCATT
1 TATGACGCGCATT
1605641 TATGACGCGCATT
1 TATGACGCGCATT
1605654 TATGAC
1 TATGAC
1605660 TTACATTGCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (13 bp):
TATGACGCGCATT
Found at i:1614029 original size:22 final size:21
Alignment explanation
Indices: 1614004--1614052 Score: 64
Period size: 20 Copynumber: 2.3 Consensus size: 21
1613994 CTTTATAAAG
*
1614004 TAATGATAAATTTAGATAATTT
1 TAATGATAAATTTAG-TAATAT
*
1614026 TAATGA-AAATTTTGTAATAT
1 TAATGATAAATTTAGTAATAT
1614046 TAATGAT
1 TAATGAT
1614053 CATTTTGTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 11 0.46
21 7 0.29
22 6 0.25
ACGTcount: A:0.45, C:0.00, G:0.10, T:0.45
Consensus pattern (21 bp):
TAATGATAAATTTAGTAATAT
Found at i:1614048 original size:20 final size:20
Alignment explanation
Indices: 1614004--1614061 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
1613994 CTTTATAAAG
* *
1614004 TAATGATAAATTTAGATAATTT
1 TAATGA-AAATTTTG-TAATAT
1614026 TAATGAAAATTTTGTAATAT
1 TAATGAAAATTTTGTAATAT
**
1614046 TAATGATCATTTTGTA
1 TAATGAAAATTTTGTA
1614062 CCGCTTGAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 19 0.59
21 7 0.22
22 6 0.19
ACGTcount: A:0.41, C:0.02, G:0.10, T:0.47
Consensus pattern (20 bp):
TAATGAAAATTTTGTAATAT
Found at i:1617360 original size:55 final size:55
Alignment explanation
Indices: 1617267--1617586 Score: 457
Period size: 55 Copynumber: 5.8 Consensus size: 55
1617257 CTAAGTGTAC
* *
1617267 TACATGCATTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAGTCA
1 TACAGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAGTCA
* *
1617322 AACAGGCACTATGTGTGCAAATCCATGGAATTCATCATGAGTTGATGAATAGTCA
1 TACAGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAGTCA
* * * *
1617377 TACAAGCACTATGTGTGCAAATCCACGAAAATTCATCATGAGTTGATGAATAGCCG
1 TACAGGCACTATGTGTGCAAATCCACG-GAATTCATCATGAGTTGATGAATAGTCA
* * * *
1617433 TACATGCATTATGTATGCAAATCCACGGAATTCATCATGAGTTGATGAATAGTCG
1 TACAGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAGTCA
1617488 TACAGGCACTATGTGTGCAAATCCACGGAAATTCATCATGAGTTGATGAATAG---
1 TACAGGCACTATGTGTGCAAATCCACGG-AATTCATCATGAGTTGATGAATAGTCA
* * **
1617541 TACAGACACTATGTGTGTAAATCCACAAAATTCATCATGAGTTGAT
1 TACAGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGAT
1617587 AAATTACCAT
Statistics
Matches: 241, Mismatches: 22, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
52 18 0.07
53 24 0.10
55 126 0.52
56 73 0.30
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.28
Consensus pattern (55 bp):
TACAGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAGTCA
Found at i:1617469 original size:111 final size:108
Alignment explanation
Indices: 1617267--1617586 Score: 446
Period size: 111 Copynumber: 2.9 Consensus size: 108
1617257 CTAAGTGTAC
* * * **
1617267 TACATGCATTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAGTCAAACAGGCACT
1 TACAAGCACTATGTGTGCAAATCCACGAAATTCATCATGAGTTGATGAATAG-CGTACA-GCACT
*
1617332 ATGTGTGCAAATCCATGGAATTCATCATGAGTTGATGAATAGTCA
64 ATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAGTCA
*
1617377 TACAAGCACTATGTGTGCAAATCCACGAAAATTCATCATGAGTTGATGAATAGCCGTACATGCAT
1 TACAAGCACTATGTGTGCAAATCCACG-AAATTCATCATGAGTTGATGAATAG-CGTACA-GCAC
* *
1617442 TATGTATGCAAATCCACGGAATTCATCATGAGTTGATGAATAGTCG
63 TATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAGTCA
*
1617488 TACAGGCACTATGTGTGCAAATCCACGGAAATTCATCATGAGTTGATGAATA--GTACAGACACT
1 TACAAGCACTATGTGTGCAAATCCAC-GAAATTCATCATGAGTTGATGAATAGCGTACAG-CACT
* **
1617551 ATGTGTGTAAATCCACAAAATTCATCATGAGTTGAT
64 ATGTGTGCAAATCCACGGAATTCATCATGAGTTGAT
1617587 AAATTACCAT
Statistics
Matches: 190, Mismatches: 17, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
107 1 0.01
108 40 0.21
110 25 0.13
111 123 0.65
112 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.28
Consensus pattern (108 bp):
TACAAGCACTATGTGTGCAAATCCACGAAATTCATCATGAGTTGATGAATAGCGTACAGCACTAT
GTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAGTCA
Found at i:1624345 original size:85 final size:84
Alignment explanation
Indices: 1624245--1624584 Score: 421
Period size: 85 Copynumber: 4.0 Consensus size: 84
1624235 GTTGAAGGTA
* ** ** *
1624245 TTTGCTGACAGATAACCCTTCTCGCCTTGAGTTATACTGTAAATTGGATACGCCTCAGAGCTGAA
1 TTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATACTGTAAA-T-GATGTGCCTTTGAGCTGAG
*
1624310 TGTAATCGAACTCGAAGGAC-
64 TGTAATCGAACTCGAAGGTCT
* * * *
1624330 TTTGATGACATATAACCCTTCTCGCCTTGAGTTATGCTGCAAATGATGTGCCTTTGAGCTGAGTG
1 TTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATACTGTAAATGATGTGCCTTTGAGCTGAGTG
1624395 TAATCGAACTCGAAGGTCTT
66 TAATCGAACTCGAAGGTC-T
** * *
1624415 TTTGTTGGTAGACAACCCTTCTCGCCTTGAGTTATACTGTAAATGATGTGCCTTTGAGCCGAGTG
1 TTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATACTGTAAATGATGTGCCTTTGAGCTGAGTG
1624480 TAATCGAACTCGAAGGTCT
66 TAATCGAACTCGAAGGTCT
* * * * ** * *
1624499 TTTGTTGGCAAATAACCCTTCTTGCCTTGAGCTATGTTGCAAATGATGTTCCTTTGAGCTGAGTG
1 TTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATACTGTAAATGATGTGCCTTTGAGCTGAGTG
* *
1624564 TAATCGAACTCAAAAGTCT
66 TAATCGAACTCGAAGGTCT
1624583 TT
1 TT
1624585 GGCAAATAGC
Statistics
Matches: 223, Mismatches: 30, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
83 33 0.15
84 76 0.34
85 114 0.51
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (84 bp):
TTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATACTGTAAATGATGTGCCTTTGAGCTGAGTG
TAATCGAACTCGAAGGTCT
Found at i:1624547 original size:169 final size:170
Alignment explanation
Indices: 1624258--1624584 Score: 487
Period size: 169 Copynumber: 1.9 Consensus size: 170
1624248 GCTGACAGAT
*
1624258 AACCCTTCTCGCCTTGAGTTATACTGTAAATTGGATACGCCTCAGAGCTGAATGTAATCGAACTC
1 AACCCTTCTCGCCTTGAGTTATACTGTAAATTGGATACGCCTCAGAGCCGAATGTAATCGAACTC
* *
1624323 GAAGGACTTTGATGACATATAACCCTTCTCGCCTTGAGTTATGCTGCAAATGATGTGCCTTTGAG
66 GAAGGACTTTGATGACAAATAACCCTTCTCGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAG
* *
1624388 CTGAGTGTAATCGAACTCGAAGGTCTTTTTGTTGGTAGAC
131 CTGAGTGTAATCGAACTCAAAAGTCTTTTTGTTGGTAGAC
** ** *
1624428 AACCCTTCTCGCCTTGAGTTATACTGTAAA-T-GATGTGCCTTTGAGCCGAGTGTAATCGAACTC
1 AACCCTTCTCGCCTTGAGTTATACTGTAAATTGGATACGCCTCAGAGCCGAATGTAATCGAACTC
* * * * * *
1624491 GAAGGTCTTTTGTTGGCAAATAACCCTTCTTGCCTTGAGCTATGTTGCAAATGATGTTCCTTTGA
66 GAAGGAC-TTTGATGACAAATAACCCTTCTCGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGA
1624556 GCTGAGTGTAATCGAACTCAAAAGTCTTT
130 GCTGAGTGTAATCGAACTCAAAAGTCTTT
1624585 GGCAAATAGC
Statistics
Matches: 140, Mismatches: 16, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
168 32 0.23
169 78 0.56
170 30 0.21
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (170 bp):
AACCCTTCTCGCCTTGAGTTATACTGTAAATTGGATACGCCTCAGAGCCGAATGTAATCGAACTC
GAAGGACTTTGATGACAAATAACCCTTCTCGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAG
CTGAGTGTAATCGAACTCAAAAGTCTTTTTGTTGGTAGAC
Found at i:1624954 original size:112 final size:112
Alignment explanation
Indices: 1624807--1625043 Score: 359
Period size: 112 Copynumber: 2.1 Consensus size: 112
1624797 CACGATATCT
* ** * *
1624807 TTCGTCGTGAAGTTGAAATTGTGGATGACCTATTCGTTGTGAAGTTGATCCTTGAATTGGATGTC
1 TTCGTCGTGAAGTTAAAACCGTGGATGACCCATTCGTTGTGAAGTTGATCCTTGAATTGGATATC
1624872 CTTCGTCGTGAAGTTGAAATCCAATGTTGCTAGT-GAGCACGATTAAC
66 CTTCGTCGTGAAGTTGAAATCCAATGTTGCTAGTAG-GCACGATTAAC
* *
1624919 TTCGTCGTGAAGTTAAAACCGTGGATGGCCCATTCGTTGTGTAGTTGATCCTTGAATTGGATATC
1 TTCGTCGTGAAGTTAAAACCGTGGATGACCCATTCGTTGTGAAGTTGATCCTTGAATTGGATATC
* * **
1624984 CTTCGTCGTGAAGTTGAAATCCAATGTTGTTGGTAGGCACGATTCCC
66 CTTCGTCGTGAAGTTGAAATCCAATGTTGCTAGTAGGCACGATTAAC
1625031 TTCGTCGTGAAGT
1 TTCGTCGTGAAGT
1625044 CGAAATTGAC
Statistics
Matches: 113, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
112 112 0.99
113 1 0.01
ACGTcount: A:0.22, C:0.17, G:0.26, T:0.35
Consensus pattern (112 bp):
TTCGTCGTGAAGTTAAAACCGTGGATGACCCATTCGTTGTGAAGTTGATCCTTGAATTGGATATC
CTTCGTCGTGAAGTTGAAATCCAATGTTGCTAGTAGGCACGATTAAC
Found at i:1625229 original size:43 final size:44
Alignment explanation
Indices: 1625166--1625275 Score: 152
Period size: 43 Copynumber: 2.5 Consensus size: 44
1625156 GATTCCCTTT
* *
1625166 GTCGTGAAGTTGAAACCGTGGATGC-GTGGACATGATATCCTCC
1 GTCGTGAAGTTGAAATCGTGGATGCTGTGGACACGATATCCTCC
** *
1625209 GTCGTGAAGTTGAAATCGTGGAT-CTGTGGGTACGATATCCTCT
1 GTCGTGAAGTTGAAATCGTGGATGCTGTGGACACGATATCCTCC
*
1625252 GTCGTGGAGTTGAAATCGTGGATG
1 GTCGTGAAGTTGAAATCGTGGATG
1625276 GACCCTTTGT
Statistics
Matches: 59, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
42 1 0.02
43 58 0.98
ACGTcount: A:0.22, C:0.16, G:0.33, T:0.29
Consensus pattern (44 bp):
GTCGTGAAGTTGAAATCGTGGATGCTGTGGACACGATATCCTCC
Found at i:1625409 original size:43 final size:43
Alignment explanation
Indices: 1625345--1625471 Score: 148
Period size: 43 Copynumber: 3.0 Consensus size: 43
1625335 CAAGTTGTGG
* * * * * *
1625345 GTGGACACGAT-TCCCTTCGTCGTGAAGTTGAAACCGTGGTTGA
1 GTGGGCACGATAT-CCTCCGTCGTGGAGTTGAAATCGTGGATCA
** *
1625388 GTGGGCACGATATCCTCCGTCGTGGAGTTGAAATATTGGATCC
1 GTGGGCACGATATCCTCCGTCGTGGAGTTGAAATCGTGGATCA
*
1625431 GTGGGTACGATATCCTCCGTCGTGGAGTTGAAATCGTGGAT
1 GTGGGCACGATATCCTCCGTCGTGGAGTTGAAATCGTGGAT
1625472 GACCCCTTCA
Statistics
Matches: 71, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
43 70 0.99
44 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.31, T:0.28
Consensus pattern (43 bp):
GTGGGCACGATATCCTCCGTCGTGGAGTTGAAATCGTGGATCA
Found at i:1625489 original size:197 final size:197
Alignment explanation
Indices: 1625154--1625536 Score: 615
Period size: 197 Copynumber: 1.9 Consensus size: 197
1625144 GCTTGTTTGT
* * *
1625154 ACGATTCCCTTTGTCGTGAAGTTGAAACCGTGGATGCGTGGACATGATATCCTCCGTCGTGAAGT
1 ACGATTCCCTTCGTCGTGAAGTTGAAACCGTGGATGAGTGGACACGATATCCTCCGTCGTGAAGT
* * * *
1625219 TGAAATCGTGGATCTGTGGGTACGATATCCTCTGTCGTGGAGTTGAAATCGTGGATGGACCCTTT
66 TGAAATAGTGGATCCGTGGGTACGATATCCTCCGTCGTGGAGTTGAAATCGTGGATGGACCCTTC
*
1625284 GTCGTGAAGTTGAGCCTTAACTTAAATATCCTTCATCGTGAAGTTAAAATCCAAGTTGTGGGTGG
131 ATCGTGAAGTTGAGCCTTAACTTAAATATCCTTCATCGTGAAGTTAAAATCCAAGTTGTGGGTGG
1625349 AC
196 AC
* * *
1625351 ACGATTCCCTTCGTCGTGAAGTTGAAACCGTGGTTGAGTGGGCACGATATCCTCCGTCGTGGAGT
1 ACGATTCCCTTCGTCGTGAAGTTGAAACCGTGGATGAGTGGACACGATATCCTCCGTCGTGAAGT
*
1625416 TGAAATATTGGATCCGTGGGTACGATATCCTCCGTCGTGGAGTTGAAATCGTGGAT-GACCCCTT
66 TGAAATAGTGGATCCGTGGGTACGATATCCTCCGTCGTGGAGTTGAAATCGTGGATGGA-CCCTT
* * *
1625480 CATCGTGAAGTTGAGCCTTGACTTGAATATCCTTCATCGTGAAGTTGAAATCCAAGT
130 CATCGTGAAGTTGAGCCTTAACTTAAATATCCTTCATCGTGAAGTTAAAATCCAAGT
1625537 ATTGTATGTT
Statistics
Matches: 170, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
196 2 0.01
197 168 0.99
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (197 bp):
ACGATTCCCTTCGTCGTGAAGTTGAAACCGTGGATGAGTGGACACGATATCCTCCGTCGTGAAGT
TGAAATAGTGGATCCGTGGGTACGATATCCTCCGTCGTGGAGTTGAAATCGTGGATGGACCCTTC
ATCGTGAAGTTGAGCCTTAACTTAAATATCCTTCATCGTGAAGTTAAAATCCAAGTTGTGGGTGG
AC
Found at i:1625763 original size:64 final size:64
Alignment explanation
Indices: 1625676--1625805 Score: 215
Period size: 64 Copynumber: 2.0 Consensus size: 64
1625666 TTGTGTCGTT
* * *
1625676 TTGAGTTCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAATTGTTTG
1 TTGAGTACAATATCCTTCACTGTGAAGTTAAAATTGACTCTGAATGAAACTGGAAAATTGTTTG
* *
1625740 TTGAGTACAATATCCTTCACTGTGAAGTTAAAATTGACTCTGAATGAAATTGGAAAGTTGTTTG
1 TTGAGTACAATATCCTTCACTGTGAAGTTAAAATTGACTCTGAATGAAACTGGAAAATTGTTTG
1625804 TT
1 TT
1625806 AACAGACGCT
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 61 1.00
ACGTcount: A:0.31, C:0.12, G:0.21, T:0.37
Consensus pattern (64 bp):
TTGAGTACAATATCCTTCACTGTGAAGTTAAAATTGACTCTGAATGAAACTGGAAAATTGTTTG
Found at i:1626136 original size:32 final size:32
Alignment explanation
Indices: 1626062--1626123 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
1626052 TTGTATCAGT
* * *
1626062 ATGTTGAATCCCCAAATATGCCCTAATATTCA
1 ATGTTGAATCTCCAAATATGCCCCAACATTCA
1626094 ATGTTGAATCTCCAAATATGCCCCAACATT
1 ATGTTGAATCTCCAAATATGCCCCAACATT
1626124 TGTTGTTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.34, C:0.26, G:0.10, T:0.31
Consensus pattern (32 bp):
ATGTTGAATCTCCAAATATGCCCCAACATTCA
Found at i:1627371 original size:2 final size:2
Alignment explanation
Indices: 1627364--1627397 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
1627354 GACGACAAGG
*
1627364 AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1627398 GGCTAAATGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:1634604 original size:13 final size:13
Alignment explanation
Indices: 1634586--1634624 Score: 60
Period size: 13 Copynumber: 2.9 Consensus size: 13
1634576 TTGATTTTTT
1634586 GGTCAAAGTCAAC
1 GGTCAAAGTCAAC
*
1634599 GGTCAAAGCCAAC
1 GGTCAAAGTCAAC
1634612 GAGTCAAAGTCAA
1 G-GTCAAAGTCAA
1634625 TGGGTTGACT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 13 0.57
14 10 0.43
ACGTcount: A:0.41, C:0.23, G:0.23, T:0.13
Consensus pattern (13 bp):
GGTCAAAGTCAAC
Found at i:1635873 original size:3 final size:3
Alignment explanation
Indices: 1635865--1635935 Score: 90
Period size: 3 Copynumber: 24.0 Consensus size: 3
1635855 CATTTTAATT
*
1635865 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA ATA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * **
1635912 ATA ATA TTA TCG TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA
1635936 AATAAAGAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
2 2 0.03
3 59 0.97
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:1637230 original size:2 final size:2
Alignment explanation
Indices: 1637223--1637283 Score: 77
Period size: 2 Copynumber: 30.0 Consensus size: 2
1637213 TTTTAAATAA
* *
1637223 AT AT AT AT CAT GT TT 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
* *
1637266 AT AT AT AT GT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT
1637284 TACTTTAGTT
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
2 49 0.96
3 2 0.04
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.51
Consensus pattern (2 bp):
AT
Found at i:1637893 original size:61 final size:61
Alignment explanation
Indices: 1637820--1637941 Score: 244
Period size: 61 Copynumber: 2.0 Consensus size: 61
1637810 ATTTATTTAT
1637820 TCACATACTTTTCCTCCAAGTAAAAATTCGTGCCCGGGCAAAAACCGGTTACGACAACTTG
1 TCACATACTTTTCCTCCAAGTAAAAATTCGTGCCCGGGCAAAAACCGGTTACGACAACTTG
1637881 TCACATACTTTTCCTCCAAGTAAAAATTCGTGCCCGGGCAAAAACCGGTTACGACAACTTG
1 TCACATACTTTTCCTCCAAGTAAAAATTCGTGCCCGGGCAAAAACCGGTTACGACAACTTG
1637942 GCGACTCCGC
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (61 bp):
TCACATACTTTTCCTCCAAGTAAAAATTCGTGCCCGGGCAAAAACCGGTTACGACAACTTG
Found at i:1638859 original size:20 final size:21
Alignment explanation
Indices: 1638823--1638865 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
1638813 CGAGAGAGTG
1638823 TTCATCAAATAG-AAAAAGTT
1 TTCATCAAATAGAAAAAAGTT
*
1638843 TTCAT-AAATGGACAAAAAGTT
1 TTCATCAAATAGA-AAAAAGTT
1638864 TT
1 TT
1638866 ATGATCAAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 5 0.25
20 5 0.25
21 10 0.50
ACGTcount: A:0.47, C:0.09, G:0.12, T:0.33
Consensus pattern (21 bp):
TTCATCAAATAGAAAAAAGTT
Found at i:1642927 original size:15 final size:15
Alignment explanation
Indices: 1642907--1642970 Score: 57
Period size: 15 Copynumber: 4.5 Consensus size: 15
1642897 TTGAAAACTA
1642907 TTGAAAAATAAGATT
1 TTGAAAAATAAGATT
* *
1642922 TTGAAAAACATAGTTT
1 TTGAAAAATA-AGATT
*
1642938 TTGAAAACT---A--
1 TTGAAAAATAAGATT
1642948 TTGAAAAATAAGATT
1 TTGAAAAATAAGATT
1642963 TTGAAAAA
1 TTGAAAAA
1642971 CAATATATGG
Statistics
Matches: 37, Mismatches: 6, Indels: 12
0.67 0.11 0.22
Matches are distributed among these distances:
10 8 0.22
13 1 0.03
15 17 0.46
16 11 0.30
ACGTcount: A:0.52, C:0.03, G:0.12, T:0.33
Consensus pattern (15 bp):
TTGAAAAATAAGATT
Found at i:1642949 original size:41 final size:41
Alignment explanation
Indices: 1642892--1642972 Score: 162
Period size: 41 Copynumber: 2.0 Consensus size: 41
1642882 TAATGGGCAA
1642892 AGTTTTTGAAAACTATTGAAAAATAAGATTTTGAAAAACAT
1 AGTTTTTGAAAACTATTGAAAAATAAGATTTTGAAAAACAT
1642933 AGTTTTTGAAAACTATTGAAAAATAAGATTTTGAAAAACA
1 AGTTTTTGAAAACTATTGAAAAATAAGATTTTGAAAAACA
1642973 ATATATGGGC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.49, C:0.05, G:0.12, T:0.33
Consensus pattern (41 bp):
AGTTTTTGAAAACTATTGAAAAATAAGATTTTGAAAAACAT
Found at i:1644440 original size:472 final size:472
Alignment explanation
Indices: 1643546--1644488 Score: 1807
Period size: 472 Copynumber: 2.0 Consensus size: 472
1643536 ATAATGCAAA
* *
1643546 ACAATTTTGTTTCTTTGAAAACCAATAAATCAGCATATTTCCAAGGAATTGGCAAGTACTGGAGG
1 ACAATTTTGTTTCTTTGAAAACCAAGAAATCAGCATATTTCCAAGGAATTGGCAAGTACCGGAGG
1643611 TCCTTTTCCTATCTAATTTGCATCCTCCATAATCCGCATCAAAAAAATCATGCAAGCTAAAGCTA
66 TCCTTTTCCTATCTAATTTGCATCCTCCATAATCCGCATCAAAAAAATCATGCAAGCTAAAGCTA
1643676 GAGTCTCTAGGATACCAAAGTCCTAAACTAGGAGTGTCCTTAAGGTATCTAAAGATTCTCTTAAC
131 GAGTCTCTAGGATACCAAAGTCCTAAACTAGGAGTGTCCTTAAGGTATCTAAAGATTCTCTTAAC
*
1643741 AGTTAGTAAATGTGATTCCTTAGGGCATGATTGAAATCTAGCACATAAGCAAACACTAAACATAT
196 AGTTAGTAAATGTGATTCCTTAGGGCATGATTGAAATATAGCACATAAGCAAACACTAAACATAT
*
1643806 TGTCCGGTCTACTTACAGTTAGATAAAGTAGAGATCCAATCATTAACCTATATAATTTAACATCT
261 TGTCCGGTCCACTTACAGTTAGATAAAGTAGAGATCCAATCATTAACCTATATAATTTAACATCT
1643871 ACACATTTACCTCCTTCATCTAAGTCAAGCTTTGTTGAAGAGCTCATTGGATTGTCATGAGGTTT
326 ACACATTTACCTCCTTCATCTAAGTCAAGCTTTGTTGAAGAGCTCATTGGATTGTCATGAGGTTT
*
1643936 TCCATTTTCCAGTCTAAACTTCTTAAGCATATCTTTGACGTATTAAGCTTGATTGATGAAGATGC
391 GCCATTTTCCAGTCTAAACTTCTTAAGCATATCTTTGACGTATT-AGCTTGATTGATGAAGATGC
1644001 CATCTTTTCTTTGCTTGC
455 CATCTTTTCTTTGCTTGC
1644019 ACAATTTTG-TTCTTTGAAAACCAAGAAATCAGCATATTTCCAAGGAATTGGCAAGTACCGGAGG
1 ACAATTTTGTTTCTTTGAAAACCAAGAAATCAGCATATTTCCAAGGAATTGGCAAGTACCGGAGG
*
1644083 TGCTTTTCCTATCTAATTTGCATCCTCCATAATCCGCATCAAAAAAATCATGCAAGCTAAAGCTA
66 TCCTTTTCCTATCTAATTTGCATCCTCCATAATCCGCATCAAAAAAATCATGCAAGCTAAAGCTA
1644148 GAGTCTCTAGGATACCAAAGTCCTAAACTAGGAGTGTCCTTAAGGTATCTAAAGATTCTCTTAAC
131 GAGTCTCTAGGATACCAAAGTCCTAAACTAGGAGTGTCCTTAAGGTATCTAAAGATTCTCTTAAC
1644213 AGTTAGTAAATGTGATTCCTTAGGGCATGATTGAAATATAGCACATAAGCAAACACTAAACATAT
196 AGTTAGTAAATGTGATTCCTTAGGGCATGATTGAAATATAGCACATAAGCAAACACTAAACATAT
*
1644278 TGTCCGGTCCACTTACAGTTAGATAAAGTAGAGATCCAATCATTGACCTATATAATTTAACATCT
261 TGTCCGGTCCACTTACAGTTAGATAAAGTAGAGATCCAATCATTAACCTATATAATTTAACATCT
1644343 ACACATTTACCTCCTTCATCTAAGTCAAGCTTTGTTGAAGAGCTCATTGGATTGTCATGAGGTTT
326 ACACATTTACCTCCTTCATCTAAGTCAAGCTTTGTTGAAGAGCTCATTGGATTGTCATGAGGTTT
1644408 GCCATTTTCCAGTCTAAACTTCTTAAGCATATCTTTGACGTATTAGCTTGATTGATGAAGATGCC
391 GCCATTTTCCAGTCTAAACTTCTTAAGCATATCTTTGACGTATTAGCTTGATTGATGAAGATGCC
1644473 ATCTTTTCTTTGCTTG
456 ATCTTTTCTTTGCTTG
1644489 ATTTGGAGTC
Statistics
Matches: 463, Mismatches: 7, Indels: 2
0.98 0.01 0.00
Matches are distributed among these distances:
471 37 0.08
472 417 0.90
473 9 0.02
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.33
Consensus pattern (472 bp):
ACAATTTTGTTTCTTTGAAAACCAAGAAATCAGCATATTTCCAAGGAATTGGCAAGTACCGGAGG
TCCTTTTCCTATCTAATTTGCATCCTCCATAATCCGCATCAAAAAAATCATGCAAGCTAAAGCTA
GAGTCTCTAGGATACCAAAGTCCTAAACTAGGAGTGTCCTTAAGGTATCTAAAGATTCTCTTAAC
AGTTAGTAAATGTGATTCCTTAGGGCATGATTGAAATATAGCACATAAGCAAACACTAAACATAT
TGTCCGGTCCACTTACAGTTAGATAAAGTAGAGATCCAATCATTAACCTATATAATTTAACATCT
ACACATTTACCTCCTTCATCTAAGTCAAGCTTTGTTGAAGAGCTCATTGGATTGTCATGAGGTTT
GCCATTTTCCAGTCTAAACTTCTTAAGCATATCTTTGACGTATTAGCTTGATTGATGAAGATGCC
ATCTTTTCTTTGCTTGC
Found at i:1650351 original size:19 final size:18
Alignment explanation
Indices: 1650327--1650363 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
1650317 GAAGGAATTC
*
1650327 GAGAATTTATTGATAAATG
1 GAGAATTAATTGA-AAATG
1650346 GAGAATTAATTGAAAATG
1 GAGAATTAATTGAAAATG
1650364 TGATCAACAA
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:0.46, C:0.00, G:0.22, T:0.32
Consensus pattern (18 bp):
GAGAATTAATTGAAAATG
Found at i:1651512 original size:72 final size:72
Alignment explanation
Indices: 1651395--1651600 Score: 295
Period size: 72 Copynumber: 2.9 Consensus size: 72
1651385 TACAATAAAT
* *
1651395 CTTGAGTTATCCCCCTAAAGCAATTGGTTAATAGCCCCAACTTTATGGATAATATTCAGCTAGTC
1 CTTGAGTTATCCCCCTAAAGAAAATGGTTAATAGCCCCAACTTTATGGATAATATTCAGCTAGTC
1651460 TGTTATG
66 TGTTATG
* * ** * *
1651467 CTTGAGTTGTCCCTCTAGCGAAAATGGTTAATAGCCCCAGCTTTATGGATAATATTAAGCTAGTC
1 CTTGAGTTATCCCCCTAAAGAAAATGGTTAATAGCCCCAACTTTATGGATAATATTCAGCTAGTC
1651532 TGTTATG
66 TGTTATG
* * * * *
1651539 CTTGATTTATCCCCCTAAAGCAATTGGTTAATCGCCCCATCTTTATGGATAATATTCAGCTA
1 CTTGAGTTATCCCCCTAAAGAAAATGGTTAATAGCCCCAACTTTATGGATAATATTCAGCTA
1651601 ACCTATATTA
Statistics
Matches: 116, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
72 116 1.00
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (72 bp):
CTTGAGTTATCCCCCTAAAGAAAATGGTTAATAGCCCCAACTTTATGGATAATATTCAGCTAGTC
TGTTATG
Found at i:1652124 original size:72 final size:72
Alignment explanation
Indices: 1652006--1652211 Score: 277
Period size: 72 Copynumber: 2.9 Consensus size: 72
1651996 TACAATAAAT
* * * *
1652006 CTTGAGTTATCCCCCTAAAGCAATTGGTTAATAGCCCCGGCCTTATGGATAATATTCAGCTAGTA
1 CTTGAGTTATCCCCCTAAAGAAAATGGTTAATAGCCCCAGCTTTATGGATAATATTCAGCTAGTA
1652071 TGTTATG
66 TGTTATG
* * ** * *
1652078 CTTGAGTTGTCCCTCTAGCGAAAATGGTTAATAGCCCCAGCTTTATGGATAATATTAAGCTAGTC
1 CTTGAGTTATCCCCCTAAAGAAAATGGTTAATAGCCCCAGCTTTATGGATAATATTCAGCTAGTA
1652143 TGTTATG
66 TGTTATG
* * * * *
1652150 CTTGATTTATCCCCCTAAAGCAATTGGTTAATCGCCCCATCTTTATGGATAATATTCAGCTA
1 CTTGAGTTATCCCCCTAAAGAAAATGGTTAATAGCCCCAGCTTTATGGATAATATTCAGCTA
1652212 ACCTATATTA
Statistics
Matches: 114, Mismatches: 20, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
72 114 1.00
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (72 bp):
CTTGAGTTATCCCCCTAAAGAAAATGGTTAATAGCCCCAGCTTTATGGATAATATTCAGCTAGTA
TGTTATG
Found at i:1652455 original size:611 final size:609
Alignment explanation
Indices: 1651223--1652441 Score: 2316
Period size: 611 Copynumber: 2.0 Consensus size: 609
1651213 TTCGATTACT
1651223 AACATATTTTTTACAAATAGGTAAATCTAGTTTAAGTCAGTTGCTTGGGAATTGAACTCTAACAA
1 AACATATTTTTTACAAATAGGTAAATCTAGTTTAAGTCAGTTGCTTGGGAATTGAACTCTAACAA
1651288 AGCGATTTTCTGAATTCCACCAAAACACCTAGACTATAACAGGTTCTTCTTAATAAGCTTAAGAA
66 AGCGATTTTCTGAATTCCACCAAAACACCTAGACTATAACAGGTTCTTCTTAATAAGCTTAAGAA
1651353 ATTGGATTTGGATACCCATGTTATACTATATATACAATAAATCTTGAGTTATCCCCCTAAAGCAA
131 ATTGGATTTGGATACCCATGTTATACTATATATACAATAAATCTTGAGTTATCCCCCTAAAGCAA
* *
1651418 TTGGTTAATAGCCCCAACTTTATGGATAATATTCAGCTAGTCTGTTATGCTTGAGTTGTCCCTCT
196 TTGGTTAATAGCCCCAACCTTATGGATAATATTCAGCTAGTATGTTATGCTTGAGTTGTCCCTCT
1651483 AGCGAAAATGGTTAATAGCCCCAGCTTTATGGATAATATTAAGCTAGTCTGTTATGCTTGATTTA
261 AGCGAAAATGGTTAATAGCCCCAGCTTTATGGATAATATTAAGCTAGTCTGTTATGCTTGATTTA
1651548 TCCCCCTAAAGCAATTGGTTAATCGCCCCATCTTTATGGATAATATTCAGCTAACCTATATTACT
326 TCCCCCTAAAGCAATTGGTTAATCGCCCCATCTTTATGGATAATATTCAGCTAACCTATATTACT
1651613 ATTATATGCAATAAAGTTGTCCCTCTAGAGAAATGGTTAATCGCGCCCCGGCTTTAGAGAAGTTT
391 ATTATATGCAATAAAGTTGTCCCTCTAGAGAAATGGTTAATC-CGCCCCGGCTTTAGAGAAGTTT
1651678 CAATTAGCCTGATAAAGGTGATTATTTATTATATACACAATAAAGCTGAATTCAGCTAGCCAAAA
455 CAATTAGCCTGATAAAGGTGATTATTTATTATATA-ACAATAAAGCTGAATTCAGCTAGCCAAAA
1651743 TGGCAAATTGTAAGAGATGGACTAAGGATGTTAAGAAACACCTATTATAGTCAACTTCACACGAG
519 TGGCAAATTGTAAGAGATGGACTAAGGATGTTAAGAAACACCTATTATAGTCAACTTCACACGAG
1651808 CACTTAGAAACTTCACTTTTTTGACG
584 CACTTAGAAACTTCACTTTTTTGACG
1651834 AACATATTTTTTACAAATAGGTAAATCTAGTTTAAGTCAGTTGCTTGGGAATTGAACTCTAACAA
1 AACATATTTTTTACAAATAGGTAAATCTAGTTTAAGTCAGTTGCTTGGGAATTGAACTCTAACAA
1651899 AGCGATTTTCTGAATTCCACCAAAACACCTAGACTATAACAGGTTCTTCTTAATAAGCTTAAGAA
66 AGCGATTTTCTGAATTCCACCAAAACACCTAGACTATAACAGGTTCTTCTTAATAAGCTTAAGAA
1651964 ATTGGATTTGGATACCCATGTTATACTATATATACAATAAATCTTGAGTTATCCCCCTAAAGCAA
131 ATTGGATTTGGATACCCATGTTATACTATATATACAATAAATCTTGAGTTATCCCCCTAAAGCAA
**
1652029 TTGGTTAATAGCCCCGGCCTTATGGATAATATTCAGCTAGTATGTTATGCTTGAGTTGTCCCTCT
196 TTGGTTAATAGCCCCAACCTTATGGATAATATTCAGCTAGTATGTTATGCTTGAGTTGTCCCTCT
1652094 AGCGAAAATGGTTAATAGCCCCAGCTTTATGGATAATATTAAGCTAGTCTGTTATGCTTGATTTA
261 AGCGAAAATGGTTAATAGCCCCAGCTTTATGGATAATATTAAGCTAGTCTGTTATGCTTGATTTA
1652159 TCCCCCTAAAGCAATTGGTTAATCGCCCCATCTTTATGGATAATATTCAGCTAACCTATATTACT
326 TCCCCCTAAAGCAATTGGTTAATCGCCCCATCTTTATGGATAATATTCAGCTAACCTATATTACT
1652224 ATTATATGCAATAAAGTTGTCCCTCTAGAGAAATTGGTTAAT-CGCCCCGGCTTTATGGAGAAGT
391 ATTATATGCAATAAAGTTGTCCCTCTAGAGAAA-TGGTTAATCCGCCCCGGCTTTA--GAGAAGT
1652288 TTCAATTAGCCTGATAAAGGTGATTATTTTATTATAT-ACAATAAAGCTGAATTCAGCTAGCCAA
453 TTCAATTAGCCTGATAAAGGTGATTA-TTTATTATATAACAATAAAGCTGAATTCAGCTAGCCAA
1652352 AATGGCAAATGTGTTAAGAGATGGACTAAGGATGTTAAGAAACACCTATTATAGTCAACTTCACA
517 AATGGCAAAT-TG-TAAGAGATGGACTAAGGATGTTAAGAAACACCTATTATAGTCAACTTCACA
1652417 CGAGCACTTAGAAACTTCACTTTTT
580 CGAGCACTTAGAAACTTCACTTTTT
1652442 AGATTGATAT
Statistics
Matches: 598, Mismatches: 4, Indels: 10
0.98 0.01 0.02
Matches are distributed among these distances:
610 13 0.02
611 456 0.76
612 43 0.07
613 86 0.14
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (609 bp):
AACATATTTTTTACAAATAGGTAAATCTAGTTTAAGTCAGTTGCTTGGGAATTGAACTCTAACAA
AGCGATTTTCTGAATTCCACCAAAACACCTAGACTATAACAGGTTCTTCTTAATAAGCTTAAGAA
ATTGGATTTGGATACCCATGTTATACTATATATACAATAAATCTTGAGTTATCCCCCTAAAGCAA
TTGGTTAATAGCCCCAACCTTATGGATAATATTCAGCTAGTATGTTATGCTTGAGTTGTCCCTCT
AGCGAAAATGGTTAATAGCCCCAGCTTTATGGATAATATTAAGCTAGTCTGTTATGCTTGATTTA
TCCCCCTAAAGCAATTGGTTAATCGCCCCATCTTTATGGATAATATTCAGCTAACCTATATTACT
ATTATATGCAATAAAGTTGTCCCTCTAGAGAAATGGTTAATCCGCCCCGGCTTTAGAGAAGTTTC
AATTAGCCTGATAAAGGTGATTATTTATTATATAACAATAAAGCTGAATTCAGCTAGCCAAAATG
GCAAATTGTAAGAGATGGACTAAGGATGTTAAGAAACACCTATTATAGTCAACTTCACACGAGCA
CTTAGAAACTTCACTTTTTTGACG
Found at i:1654227 original size:74 final size:75
Alignment explanation
Indices: 1654140--1654306 Score: 264
Period size: 74 Copynumber: 2.2 Consensus size: 75
1654130 AAGCGAAATT
* *
1654140 GGGCATGCTGAAAGCCCATTTCAATCAGAATCAGGAATGTTAATGTATTTTGAATGTTTGTATCA
1 GGGCATGCTGAAAGCCCATTTCAATCAGAATCAGGAATGTTAATGTATTTTGAACGTTTATATCA
**
1654205 GCAAATGTTG
66 GCAAATACTG
*
1654215 GGGCATGC-GAAAGCCCATTTCAATCAGAATCAGGAATGTTGATGTATTTTGAACGTTTATATCA
1 GGGCATGCTGAAAGCCCATTTCAATCAGAATCAGGAATGTTAATGTATTTTGAACGTTTATATCA
*
1654279 GTAAATACTG
66 GCAAATACTG
*
1654289 GGGCATGCTGAAGGCCCA
1 GGGCATGCTGAAAGCCCA
1654307 CATCATCATG
Statistics
Matches: 84, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
74 68 0.81
75 16 0.19
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.30
Consensus pattern (75 bp):
GGGCATGCTGAAAGCCCATTTCAATCAGAATCAGGAATGTTAATGTATTTTGAACGTTTATATCA
GCAAATACTG
Found at i:1655267 original size:54 final size:55
Alignment explanation
Indices: 1655171--1655313 Score: 211
Period size: 54 Copynumber: 2.7 Consensus size: 55
1655161 TTAATTGATG
* * *
1655171 AGAA-ATCTGGGCAGAAGCCACAAGAAAAGATTAATGTGTTGTCAAATGTTTTA-
1 AGAACATCTGGGCAGAAGCCACAAGAAAAGATGAATATATTGTCAAATGTTTTAC
*
1655224 AGAACATCTGGGCAGAAGCCACATGAAAAGATGAATATATTGTCAAATGTTTTAC
1 AGAACATCTGGGCAGAAGCCACAAGAAAAGATGAATATATTGTCAAATGTTTTAC
* *
1655279 A-AACATCTGGGCAGAAGCCACAGGAAATGATGAAT
1 AGAACATCTGGGCAGAAGCCACAAGAAAAGATGAAT
1655314 GTGTTATCGA
Statistics
Matches: 82, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
53 4 0.05
54 77 0.94
55 1 0.01
ACGTcount: A:0.41, C:0.14, G:0.22, T:0.23
Consensus pattern (55 bp):
AGAACATCTGGGCAGAAGCCACAAGAAAAGATGAATATATTGTCAAATGTTTTAC
Found at i:1655753 original size:22 final size:22
Alignment explanation
Indices: 1655728--1655781 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
1655718 ATCTACATTC
* *
1655728 TTCAGAGATGATAGGTTCTCTT
1 TTCAAAGATGATAGATTCTCTT
*
1655750 TTCAAATATG-TAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
1655771 TTCAAAGATGA
1 TTCAAAGATGA
1655782 AAGCTTTATT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 19 0.70
22 8 0.30
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.41
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:1656702 original size:90 final size:89
Alignment explanation
Indices: 1656549--1656831 Score: 316
Period size: 90 Copynumber: 3.0 Consensus size: 89
1656539 AAGATGATAA
* * * *
1656549 GACCTCAGGACCATCCATAAGACCTACAGTGCAGGATGTTTCCAAAAATCCTTCGGGAGCTTTTT
1 GACCTCAGGGCCATCCATAAGACCTACAGTGCAAGATGTTTTCAAAAAGCCTTC-GGAGCTTTTT
* * *
1656614 GATATTTAAAGCCTTTAGGTCATCT
65 GATATTTAAAACCTCTGGGTCATCT
*
1656639 GACCTCAGGGCCATCCATAAGACCTACAGTGCAAGATGTTTTTAAAAAGCCTTCAGGAGCTTTTT
1 GACCTCAGGGCCATCCATAAGACCTACAGTGCAAGATGTTTTCAAAAAGCCTTC-GGAGCTTTTT
*
1656704 GATATTTAAAACCTCCGGGTCATCTGCAAGATGGT
65 GATATTTAAAACCTCTGGGTCA--T-C-------T
* *
1656739 AAGACCTCAGGGCCATCCATAAGACCTACAGTG-AAGGATGTTTTCAAAAAGCTTTCGAGAGCAT
1 --GACCTCAGGGCCATCCATAAGACCTACAGTGCAA-GATGTTTTCAAAAAGCCTTCG-GAGCTT
1656803 TTTGATATTTAAAACCTCTGGGTCATCT
62 TTTGATATTTAAAACCTCTGGGTCATCT
1656831 G
1 G
1656832 TAAGACCTAC
Statistics
Matches: 165, Mismatches: 14, Indels: 28
0.80 0.07 0.14
Matches are distributed among these distances:
90 78 0.47
92 2 0.01
93 1 0.01
99 1 0.01
100 2 0.01
101 3 0.02
102 78 0.47
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (89 bp):
GACCTCAGGGCCATCCATAAGACCTACAGTGCAAGATGTTTTCAAAAAGCCTTCGGAGCTTTTTG
ATATTTAAAACCTCTGGGTCATCT
Found at i:1657094 original size:116 final size:116
Alignment explanation
Indices: 1656728--1657183 Score: 689
Period size: 116 Copynumber: 3.9 Consensus size: 116
1656718 CCGGGTCATC
* * *
1656728 TGCAAGATGGTAAGACCTCAGGGCCATCCATAAGACCTACAGTGAAGGATGTTTTCAAAAAGCTT
1 TGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCT
* * **
1656793 TCGAGAGCATTTTGATATTTAAAACCTCTGGGTCATCTGTAAGACCTACAG
66 TCGGGAGCCTTTTGATATTTAAAACCTCCAGGTCATCTGTAAGACCTACAG
* * ** * *
1656844 TGTATGATGATAAGACCTCAGGGCCATCCATAAGATTTACAGTGCATGATGTTTTCAAAAAGCCA
1 TGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCT
* *
1656909 TCGGGAG-CTTTTGATATTTAAAACCTCCATGTCATCTGTAATACCTACAG
66 TCGGGAGCCTTTTGATATTTAAAACCTCCAGGTCATCTGTAAGACCTACAG
* *
1656959 TACAAGATGATAAGACCTCAGGGCCATCCATAAGACCTAAAGTGCAGGATGTTTTCAAAAAGCCT
1 TGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCT
* *
1657024 TTGGGAGCCTTTTGATTTTTAAAACCTCCAGGTCATCTGTAAGACCTACAG
66 TCGGGAGCCTTTTGATATTTAAAACCTCCAGGTCATCTGTAAGACCTACAG
*
1657075 TGCAAGATGATAAGACCTCAGGGCCATCCATAAAACCTACAGTGCAGGATGTTTTCAAAAAGCCT
1 TGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCT
* * * *
1657140 TCAGGAGCTTTTTGATATTTAAAGCCTCCAGGTCATCTGCAAGA
66 TCGGGAGCCTTTTGATATTTAAAACCTCCAGGTCATCTGTAAGA
1657184 TGATAAGACC
Statistics
Matches: 303, Mismatches: 36, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
115 101 0.33
116 202 0.67
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (116 bp):
TGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCT
TCGGGAGCCTTTTGATATTTAAAACCTCCAGGTCATCTGTAAGACCTACAG
Found at i:1657133 original size:231 final size:232
Alignment explanation
Indices: 1656730--1657178 Score: 713
Period size: 231 Copynumber: 1.9 Consensus size: 232
1656720 GGGTCATCTG
* *
1656730 CAAGATGGTAAGACCTCAGGGCCATCCATAAGACCTACAGTGAAGGATGTTTTCAAAAAGCTTTC
1 CAAGATGATAAGACCTCAGGGCCATCCATAAGACCTAAAGTGAAGGATGTTTTCAAAAAGCTTTC
** * *
1656795 GAGAGCATTTTGATATTTAAAACCTCTGGGTCATCTGTAAGACCTACAGTGTATGATGATAAGAC
66 GAGAGCATTTTGATATTTAAAACCTCCAGGTCATCTGTAAGACCTACAGTGCAAGATGATAAGAC
* ** * *
1656860 CTCAGGGCCATCCATAAGATTTACAGTGCATGATGTTTTCAAAAAGCCATCGGGAGC-TTTTGAT
131 CTCAGGGCCATCCATAAAACCTACAGTGCAGGATGTTTTCAAAAAGCCATCAGGAGCTTTTTGAT
*
1656924 ATTTAAAACCTCCATGTCATCTGTAATACCTACAGTA
196 ATTTAAAACCTCCAGGTCATCTGTAATACCTACAGTA
*
1656961 CAAGATGATAAGACCTCAGGGCCATCCATAAGACCTAAAGTGCAGGATGTTTTCAAAAAGCCTTT
1 CAAGATGATAAGACCTCAGGGCCATCCATAAGACCTAAAGTGAAGGATGTTTTCAAAAAG-CTTT
* * *
1657026 -GGGAGCCTTTTGATTTTTAAAACCTCCAGGTCATCTGTAAGACCTACAGTGCAAGATGATAAGA
65 CGAGAGCATTTTGATATTTAAAACCTCCAGGTCATCTGTAAGACCTACAGTGCAAGATGATAAGA
*
1657090 CCTCAGGGCCATCCATAAAACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCAGGAGCTTTTTGA
130 CCTCAGGGCCATCCATAAAACCTACAGTGCAGGATGTTTTCAAAAAGCCATCAGGAGCTTTTTGA
*
1657155 TATTTAAAGCCTCCAGGTCATCTG
195 TATTTAAAACCTCCAGGTCATCTG
1657179 CAAGATGATA
Statistics
Matches: 198, Mismatches: 18, Indels: 3
0.90 0.08 0.01
Matches are distributed among these distances:
231 166 0.84
232 32 0.16
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.28
Consensus pattern (232 bp):
CAAGATGATAAGACCTCAGGGCCATCCATAAGACCTAAAGTGAAGGATGTTTTCAAAAAGCTTTC
GAGAGCATTTTGATATTTAAAACCTCCAGGTCATCTGTAAGACCTACAGTGCAAGATGATAAGAC
CTCAGGGCCATCCATAAAACCTACAGTGCAGGATGTTTTCAAAAAGCCATCAGGAGCTTTTTGAT
ATTTAAAACCTCCAGGTCATCTGTAATACCTACAGTA
Found at i:1657211 original size:20 final size:20
Alignment explanation
Indices: 1657186--1657253 Score: 75
Period size: 20 Copynumber: 3.3 Consensus size: 20
1657176 CTGCAAGATG
1657186 ATAAGACCTCAGGGCCATCC
1 ATAAGACCTCAGGGCCATCC
* * *
1657206 ATAAGACCTACAGTGCAAGAT-G
1 ATAAGACCT-CAGGGC--CATCC
1657228 ATAAGACCTCAGGGCCATCC
1 ATAAGACCTCAGGGCCATCC
1657248 ATAAGA
1 ATAAGA
1657254 TCTACAGTGC
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
19 2 0.05
20 15 0.39
21 10 0.26
22 9 0.24
23 2 0.05
ACGTcount: A:0.37, C:0.26, G:0.21, T:0.16
Consensus pattern (20 bp):
ATAAGACCTCAGGGCCATCC
Found at i:1657234 original size:22 final size:21
Alignment explanation
Indices: 1657177--1657239 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
1657167 CCAGGTCATC
1657177 TGCAAGATGATAAGACCTCAG
1 TGCAAGATGATAAGACCTCAG
* * *
1657198 GGC--CATCCATAAGACCTACAG
1 TGCAAGAT-GATAAGACCT-CAG
1657219 TGCAAGATGATAAGACCTCAG
1 TGCAAGATGATAAGACCTCAG
1657240 GGCCATCCAT
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
19 2 0.06
20 9 0.28
21 10 0.31
22 9 0.28
23 2 0.06
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.17
Consensus pattern (21 bp):
TGCAAGATGATAAGACCTCAG
Found at i:1657236 original size:42 final size:42
Alignment explanation
Indices: 1657177--1657269 Score: 168
Period size: 42 Copynumber: 2.2 Consensus size: 42
1657167 CCAGGTCATC
1657177 TGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCTACAG
1 TGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCTACAG
*
1657219 TGCAAGATGATAAGACCTCAGGGCCATCCATAAGATCTACAG
1 TGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCTACAG
*
1657261 TGCAGGATG
1 TGCAAGATG
1657270 TTTTCAAAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.34, C:0.24, G:0.24, T:0.18
Consensus pattern (42 bp):
TGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCTACAG
Found at i:1657724 original size:116 final size:115
Alignment explanation
Indices: 1657207--1658045 Score: 1252
Period size: 116 Copynumber: 7.3 Consensus size: 115
1657197 GGGCCATCCA
*
1657207 TAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCATAAGATCTACAGTGCAGGATGTT
1 TAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCTACAGTGCAGGATGTT
* * * *
1657272 TTCAAAAAGCCTTCGGGAGCCTTTTGATATTTAAAACTTTCGAGTCATCTG
66 TTCAAAAAGCCTTC-GGAGCTTTTTGATATTTAAAACCTCCGGGTCATCTG
* * * *
1657323 TAAGACCTGCAGTGCAAGATGATAAGACCTCAAGGCCATCTATAAAACCTACAGTGCAGGATGTT
1 TAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCTACAGTGCAGGATGTT
1657388 TTCAAAAAGCCTTCGGAGCTTTTTGATATTTAAAACCT-CGGGTCATCTG
66 TTCAAAAAGCCTTCGGAGCTTTTTGATATTTAAAACCTCCGGGTCATCTG
* * *
1657437 TAAGACCTACAATGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCTATAGTGTAGGATGTT
1 TAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCTACAGTGCAGGATGTT
* *
1657502 TTCAAAAAGCCTTCGAGAGCTTTTTGATATTTAAAAGCTCC-GGTCATCTA
66 TTCAAAAAGCCTTCG-GAGCTTTTTGATATTTAAAACCTCCGGGTCATCTG
* * * **
1657552 TAAGACCTACAATGCAAGATGATAAGACCTCATGGCCATCCATAAGACCTATAGTGCATAATGTT
1 TAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCTACAGTGCAGGATGTT
*
1657617 TCCAAAAAGCCTTCCGGAGCTTTTTGATATTTAAAACCTCCGGGTCATCTG
66 TTCAAAAAGCCTT-CGGAGCTTTTTGATATTTAAAACCTCCGGGTCATCTG
* * * *
1657668 TAACACCTACAGTGCAAGATGATAAGACCTGAGGGCCACCCATAAGACCTACAGTGCATGATGTT
1 TAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCTACAGTGCAGGATGTT
* *
1657733 TTCAAAAAGTCTTCGAGAGCTTTTTTATATTTAAAACCTCCGGGTCATCTG
66 TTCAAAAAGCCTTCG-GAGCTTTTTGATATTTAAAACCTCCGGGTCATCTG
* * * *
1657784 TATGACCTACAGTGCAAGATGATAAGACATCAGGGCCATTCATAAGACATACAGTGCAGGATGTT
1 TAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCTACAGTGCAGGATGTT
*
1657849 TTCAAAAAGCCTTCAGG-GCTTTTTGATATTTAAAACCTCCGGGCCATCTG
66 TTCAAAAAGCCTTC-GGAGCTTTTTGATATTTAAAACCTCCGGGTCATCTG
* * * *
1657899 TAAGACCTACAGTGAAAGATGATAAGACTTCAGGGCCATCCATAAGACCTATAGTGCAGGATGTG
1 TAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCTACAGTGCAGGATGTT
* * *
1657964 TTCAAAAAGCCTTTGAGATCTTTTTGATATTTAAAACCTTCGGGTCATCTG
66 TTCAAAAAGCCTTCG-GAGCTTTTTGATATTTAAAACCTCCGGGTCATCTG
*
1658015 TAAGACCTACAGTGCAAGATGAGAAGACCTC
1 TAAGACCTACAGTGCAAGATGATAAGACCTC
1658046 TGGGTAAAAT
Statistics
Matches: 656, Mismatches: 59, Indels: 16
0.90 0.08 0.02
Matches are distributed among these distances:
114 84 0.13
115 254 0.39
116 317 0.48
117 1 0.00
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (115 bp):
TAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCTACAGTGCAGGATGTT
TTCAAAAAGCCTTCGGAGCTTTTTGATATTTAAAACCTCCGGGTCATCTG
Found at i:1657733 original size:231 final size:232
Alignment explanation
Indices: 1657207--1658045 Score: 1267
Period size: 231 Copynumber: 3.6 Consensus size: 232
1657197 GGGCCATCCA
*
1657207 TAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCATAAGATCTACAGTGCAGGATGTT
1 TAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCTACAGTGCAGGATGTT
* * * *
1657272 TTCAAAAAGCCTTCGGGAGCCTTTTGATATTTAAAA-CTTTCGAGTCATCTGTAAGACCTGCAGT
66 TTCAAAAAGCCTTCGAGAGCTTTTTGATATTTAAAACCTTCCG-GTCATCTGTAAGACCTACAGT
* *
1657336 GCAAGATGATAAGACCTCAAGGCCATCTATAAAACCTACAGTGCAGGATGTTTTCAAAAAGCCTT
130 GCAAGATGATAAGACCTCAAGGCCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTT
1657401 -CGGAGCTTTTTGATATTTAAAACCT-CGGGTCATCTG
195 CCGGAGCTTTTTGATATTTAAAACCTCCGGGTCATCTG
* * *
1657437 TAAGACCTACAATGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCTATAGTGTAGGATGTT
1 TAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCTACAGTGCAGGATGTT
* * *
1657502 TTCAAAAAGCCTTCGAGAGCTTTTTGATATTTAAAAGC-TCCGGTCATCTATAAGACCTACAATG
66 TTCAAAAAGCCTTCGAGAGCTTTTTGATATTTAAAACCTTCCGGTCATCTGTAAGACCTACAGTG
* * ** *
1657566 CAAGATGATAAGACCTCATGGCCATCCATAAGACCTATAGTGCATAATGTTTCCAAAAAGCCTTC
131 CAAGATGATAAGACCTCAAGGCCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTC
1657631 CGGAGCTTTTTGATATTTAAAACCTCCGGGTCATCTG
196 CGGAGCTTTTTGATATTTAAAACCTCCGGGTCATCTG
* * * *
1657668 TAACACCTACAGTGCAAGATGATAAGACCTGAGGGCCACCCATAAGACCTACAGTGCATGATGTT
1 TAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCTACAGTGCAGGATGTT
* * *
1657733 TTCAAAAAGTCTTCGAGAGCTTTTTTATATTTAAAACC-TCCGGGTCATCTGTATGACCTACAGT
66 TTCAAAAAGCCTTCGAGAGCTTTTTGATATTTAAAACCTTCC-GGTCATCTGTAAGACCTACAGT
* * * *
1657797 GCAAGATGATAAGACATCAGGGCCATTCATAAGACATACAGTGCAGGATGTTTTCAAAAAGCCTT
130 GCAAGATGATAAGACCTCAAGGCCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTT
* *
1657862 CAGG-GCTTTTTGATATTTAAAACCTCCGGGCCATCTG
195 CCGGAGCTTTTTGATATTTAAAACCTCCGGGTCATCTG
* * * *
1657899 TAAGACCTACAGTGAAAGATGATAAGACTTCAGGGCCATCCATAAGACCTATAGTGCAGGATGTG
1 TAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCTACAGTGCAGGATGTT
* * *
1657964 TTCAAAAAGCCTTTGAGATCTTTTTGATATTTAAAACCTTCGGGTCATCTGTAAGACCTACAGTG
66 TTCAAAAAGCCTTCGAGAGCTTTTTGATATTTAAAACCTTCCGGTCATCTGTAAGACCTACAGTG
*
1658029 CAAGATGAGAAGACCTC
131 CAAGATGATAAGACCTC
1658046 TGGGTAAAAT
Statistics
Matches: 548, Mismatches: 56, Indels: 9
0.89 0.09 0.01
Matches are distributed among these distances:
229 76 0.14
230 123 0.22
231 268 0.49
232 81 0.15
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (232 bp):
TAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCTACAGTGCAGGATGTT
TTCAAAAAGCCTTCGAGAGCTTTTTGATATTTAAAACCTTCCGGTCATCTGTAAGACCTACAGTG
CAAGATGATAAGACCTCAAGGCCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTC
CGGAGCTTTTTGATATTTAAAACCTCCGGGTCATCTG
Found at i:1658199 original size:3 final size:3
Alignment explanation
Indices: 1658191--1658251 Score: 90
Period size: 3 Copynumber: 21.0 Consensus size: 3
1658181 TATTTTTCTT
*
1658191 TTA TTA TTA TTA TTA TTA TTA TTA -TA TTA TTA TTA TTA TTA -TA ATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
1658237 ATA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA
1658252 AATAAATAAT
Statistics
Matches: 55, Mismatches: 1, Indels: 4
0.92 0.02 0.07
Matches are distributed among these distances:
2 4 0.07
3 51 0.93
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:1658218 original size:20 final size:20
Alignment explanation
Indices: 1658195--1658255 Score: 97
Period size: 20 Copynumber: 3.1 Consensus size: 20
1658185 TTTCTTTTAT
*
1658195 TATTATTATTATTATTATTA
1 TATTATTATTATTATTATAA
1658215 TATTATTATTATTATTATAA
1 TATTATTATTATTATTATAA
*
1658235 TAATATTATTATTATTA-AA
1 TATTATTATTATTATTATAA
1658254 TA
1 TA
1658256 AATAATTACA
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
19 4 0.10
20 35 0.90
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TATTATTATTATTATTATAA
Found at i:1658261 original size:23 final size:23
Alignment explanation
Indices: 1658192--1658251 Score: 102
Period size: 23 Copynumber: 2.6 Consensus size: 23
1658182 ATTTTTCTTT
* *
1658192 TATTATTATTATTATTATTATTA
1 TATTATTATTATTATTATAATAA
1658215 TATTATTATTATTATTATAATAA
1 TATTATTATTATTATTATAATAA
1658238 TATTATTATTATTA
1 TATTATTATTATTA
1658252 AATAAATAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (23 bp):
TATTATTATTATTATTATAATAA
Done.