Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008301.1 Hibiscus syriacus cultivar Beakdansim tig00110987_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: 3376434
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 18
Found at i:1456316 original size:26 final size:28
Alignment explanation
Indices: 1456257--1456311 Score: 83
Period size: 29 Copynumber: 1.9 Consensus size: 28
1456247 TAACTATCAT
1456257 TTTCATATACCATAATTTCATGATGATGA
1 TTTCATATACCATAATTTCATGATGA-GA
* *
1456286 TTTCATATATCATTATTTCATGATGA
1 TTTCATATACCATAATTTCATGATGA
1456312 ATTCAGAAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.33, C:0.13, G:0.09, T:0.45
Consensus pattern (28 bp):
TTTCATATACCATAATTTCATGATGAGA
Found at i:1459850 original size:2 final size:2
Alignment explanation
Indices: 1459843--1459873 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1459833 GATCCTAACC
1459843 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1459874 TAGTCTCACG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1471419 original size:22 final size:22
Alignment explanation
Indices: 1471373--1471429 Score: 91
Period size: 21 Copynumber: 2.7 Consensus size: 22
1471363 CATACTGGAC
1471373 AAAACGTATCGATACATGTACA
1 AAAACGTATCGATACATGTACA
1471395 AAAAC-TATCGATACATGTACA
1 AAAACGTATCGATACATGTACA
*
1471416 AAAA-GTATTGATAC
1 AAAACGTATCGATAC
1471430 TTTATATAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
21 28 0.85
22 5 0.15
ACGTcount: A:0.47, C:0.16, G:0.12, T:0.25
Consensus pattern (22 bp):
AAAACGTATCGATACATGTACA
Found at i:1473138 original size:24 final size:24
Alignment explanation
Indices: 1473119--1473174 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
1473109 TGAAATTTAT
1473119 ATTGAAATTAAAACTCAAATTGAA
1 ATTGAAATTAAAACTCAAATTGAA
* * *
1473143 ATTTAAATTCAAACTCCAATT-AA
1 ATTGAAATTAAAACTCAAATTGAA
1473166 ATATGAAAT
1 AT-TGAAAT
1473175 GTACATGAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 4 0.15
24 23 0.85
ACGTcount: A:0.52, C:0.11, G:0.05, T:0.32
Consensus pattern (24 bp):
ATTGAAATTAAAACTCAAATTGAA
Found at i:1473142 original size:18 final size:18
Alignment explanation
Indices: 1473119--1473155 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1473109 TGAAATTTAT
1473119 ATTGAAATTAAAACTCAA
1 ATTGAAATTAAAACTCAA
* *
1473137 ATTGAAATTTAAATTCAA
1 ATTGAAATTAAAACTCAA
1473155 A
1 A
1473156 CTCCAATTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.54, C:0.08, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTAAAACTCAA
Found at i:1475783 original size:36 final size:36
Alignment explanation
Indices: 1475731--1475801 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
1475721 AACCTAATTT
*
1475731 GTTAAGAAGAATAGCTTGGTTGAAAAGAAGGTTGTC
1 GTTAAGAAGAAGAGCTTGGTTGAAAAGAAGGTTGTC
*
1475767 GTTAAGAAGAAGAGCTTGGTTGAGAAGAAGGTTGT
1 GTTAAGAAGAAGAGCTTGGTTGAAAAGAAGGTTGT
1475802 TGTTGAAAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.35, C:0.04, G:0.34, T:0.27
Consensus pattern (36 bp):
GTTAAGAAGAAGAGCTTGGTTGAAAAGAAGGTTGTC
Found at i:1475803 original size:15 final size:18
Alignment explanation
Indices: 1475735--1475796 Score: 65
Period size: 18 Copynumber: 3.4 Consensus size: 18
1475725 TAATTTGTTA
*
1475735 AGAAGAATAGCTTGGTTG
1 AGAAGAAGAGCTTGGTTG
* *
1475753 AAAAGAAG-G-TTGTCGTTA
1 AGAAGAAGAGCTTG--GTTG
1475771 AGAAGAAGAGCTTGGTTG
1 AGAAGAAGAGCTTGGTTG
1475789 AGAAGAAG
1 AGAAGAAG
1475797 GTTGTTGTTG
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
16 3 0.09
17 1 0.03
18 27 0.77
19 1 0.03
20 3 0.09
ACGTcount: A:0.39, C:0.05, G:0.34, T:0.23
Consensus pattern (18 bp):
AGAAGAAGAGCTTGGTTG
Found at i:1475806 original size:18 final size:17
Alignment explanation
Indices: 1475749--1475812 Score: 60
Period size: 18 Copynumber: 3.6 Consensus size: 17
1475739 GAATAGCTTG
1475749 GTTGAAAAGAAGGTTGT
1 GTTGAAAAGAAGGTTGT
1475766 CGTT-AAGAAGAAGAGCTTG-
1 -GTTGAA-AAGAAG-G-TTGT
*
1475785 GTTGAGAAGAAGGTTGTT
1 GTTGAAAAGAAGGTTG-T
1475803 GTTGAAAAGA
1 GTTGAAAAGA
1475813 CCCGCGCCTC
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
16 3 0.08
17 3 0.08
18 27 0.71
19 2 0.05
20 3 0.08
ACGTcount: A:0.36, C:0.03, G:0.34, T:0.27
Consensus pattern (17 bp):
GTTGAAAAGAAGGTTGT
Found at i:1476115 original size:22 final size:21
Alignment explanation
Indices: 1476090--1476133 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
1476080 AAGCACACGT
1476090 AATTTAAAAAAAGTATCGATAC
1 AATTT-AAAAAAGTATCGATAC
*
1476112 AATTTTAAAAAGTATCGATAC
1 AATTTAAAAAAGTATCGATAC
1476133 A
1 A
1476134 TTTTGTTTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.52, C:0.09, G:0.09, T:0.30
Consensus pattern (21 bp):
AATTTAAAAAAGTATCGATAC
Found at i:1476122 original size:23 final size:20
Alignment explanation
Indices: 1476097--1476137 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 20
1476087 CGTAATTTAA
1476097 AAAAAGTATCGATACAATTTT
1 AAAAAGTATCGATAC-ATTTT
1476118 AAAAAGTATCGATACATTTT
1 AAAAAGTATCGATACATTTT
1476138 GTTTACCTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.46, C:0.10, G:0.10, T:0.34
Consensus pattern (20 bp):
AAAAAGTATCGATACATTTT
Found at i:1476453 original size:200 final size:200
Alignment explanation
Indices: 1476097--1478859 Score: 4080
Period size: 200 Copynumber: 13.8 Consensus size: 200
1476087 CGTAATTTAA
* * * *
1476097 AAAAAGTATCGATACAATTTTAAAAAGTATCGATACATTTTGTTTACCTATTTTCTCATTAAAAC
1 AAAAAGTATCGATACAATTTAAAAAAGTATCGATACATTATGTTTACCTATTCTCTCATTAAACC
* * * *
1476162 GATATATTTTTACCGGTTATATTGTAAATTTACCTATTACTTTATAATTATTGATTTCGATGTTT
66 GATATATTTTTACCGGTTACATTGTAAATTTACCTATTACTTTATAATAATCGGTTTCGATG-TT
* * * * * * *
1476227 TTG-GGATCAATAATT-ATAATAAATGTATCGACACTTTATTCATGCACCTCGTTAGACATTCAT
130 TTGAGGATCGATACTTAATAA-AAATGTATCGACACTTTATGCGTGCATCTCGTTTGGCATTCAT
1476290 TCTGGAC
194 TCTGGAC
* *
1476297 CAAAAGTATCGATACAATTTAAAAAAGTATCGATACATTATGTTTACCTATTCTTTCATTAAACC
1 AAAAAGTATCGATACAATTTAAAAAAGTATCGATACATTATGTTTACCTATTCTCTCATTAAACC
* *
1476362 GGTATATTTTTACCGGTTACATTGTAAATTTACCTATTACTTTATTATAATCGGTTTCGATGTTT
66 GATATATTTTTACCGGTTACATTGTAAATTTACCTATTACTTTATAATAATCGGTTTCGATGTTT
** *
1476427 TGAGGATCGATACTTAATAAAAATGTATCGACACTTTATATGTGCATCTCGTTTGACATTCATTC
131 TGAGGATCGATACTTAATAAAAATGTATCGACACTTTATGCGTGCATCTCGTTTGGCATTCATTC
*
1476492 TGGGC
196 TGGAC
* * *
1476497 AAAAAGTATCTATACAATTTAAAAGAGTATCGATACTTTATGTTTACCTATTCTCTCATTAAACC
1 AAAAAGTATCGATACAATTTAAAAAAGTATCGATACATTATGTTTACCTATTCTCTCATTAAACC
* *
1476562 GGTATATTTTTACCAGTTACATTGTAAATTTACCTATTACTTTATAATAATCGGTTTCGATGTTT
66 GATATATTTTTACCGGTTACATTGTAAATTTACCTATTACTTTATAATAATCGGTTTCGATGTTT
* *
1476627 TGAGGATCGATACTTAATAAAAATGTATCGACACTTTATGCATGCATCTCGTTTGGCATTCAATC
131 TGAGGATCGATACTTAATAAAAATGTATCGACACTTTATGCGTGCATCTCGTTTGGCATTCATTC
*
1476692 TGTTA-
196 TG-GAC
* *
1476697 AAAAATGTATCGATACAATTTAAAAAAGTATCGATACATTAAGTTTACATATTCTCTCATTAAAC
1 AAAAA-GTATCGATACAATTTAAAAAAGTATCGATACATTATGTTTACCTATTCTCTCATTAAAC
* * *
1476762 CGATATATTTTTACTGGTTACATTGTAAATTTGCCTATTACTTTATAATAATCGGTTTCGATATT
65 CGATATATTTTTACCGGTTACATTGTAAATTTACCTATTACTTTATAATAATCGGTTTCGATGTT
* *
1476827 TTGAGGATCGATACTTAATAAAAATGTATCGACACTTTATGCGTGAATCTTGTTTGGCATTCATT
130 TTGAGGATCGATACTTAATAAAAATGTATCGACACTTTATGCGTGCATCTCGTTTGGCATTCATT
*
1476892 CTGGGC
195 CTGGAC
* * *
1476898 AAAAAATATCGATACAATTTTAAAAAGTATCGATACATTATGTTTACCTATTCTCTTATTAAACC
1 AAAAAGTATCGATACAATTTAAAAAAGTATCGATACATTATGTTTACCTATTCTCTCATTAAACC
* * * *
1476963 GATATATTTTTACCGGTTACAGTGTAAATTTGCCTATTACTTTATAATAATTGGTTTTGATGTTT
66 GATATATTTTTACCGGTTACATTGTAAATTTACCTATTACTTTATAATAATCGGTTTCGATGTTT
* * * * *
1477028 TGAGGATCGATAGTT-ATAATAAATGTATCGAAACTTTATGCGTGCATATCATTTGGCAGTCATT
131 TGAGGATCGATACTTAATAA-AAATGTATCGACACTTTATGCGTGCATCTCGTTTGGCATTCATT
* *
1477092 CTGAAT
195 CTGGAC
*
1477098 AAAAAGTATCGATACAATTTAAAAAAGTATCGATACATTACGTTTACCTATTCTCTCATTAAACC
1 AAAAAGTATCGATACAATTTAAAAAAGTATCGATACATTATGTTTACCTATTCTCTCATTAAACC
* * *
1477163 GATATATTTTTACTGGTTACATTGTAAATTTACCTATTACTTTATAAAAATCAGTTTCGATGTTT
66 GATATATTTTTACCGGTTACATTGTAAATTTACCTATTACTTTATAATAATCGGTTTCGATGTTT
* * * *
1477228 TGAGGATTGATACTTAATAAAAATGTATCGACACTTTATACGTGCATCTCGTTTGTCATTTATTC
131 TGAGGATCGATACTTAATAAAAATGTATCGACACTTTATGCGTGCATCTCGTTTGGCATTCATTC
*
1477293 TGGGC
196 TGGAC
* *
1477298 AAAAAGTATCGATACAATTTAAAAAAGTATCGATACTTTATGTTTACCTATTCTCTCATTAAATC
1 AAAAAGTATCGATACAATTTAAAAAAGTATCGATACATTATGTTTACCTATTCTCTCATTAAACC
* *
1477363 GGTATATTTTTACCGGTTACATTGTAAATTTACCTATTAATTTATAATAATCGGTTTCGATGTTT
66 GATATATTTTTACCGGTTACATTGTAAATTTACCTATTACTTTATAATAATCGGTTTCGATGTTT
* * * *
1477428 TGATGATCGATACTTAATAAAAATGTATCGACACTTTATGTGTGCATCTCGTTTGCCATTCAATC
131 TGAGGATCGATACTTAATAAAAATGTATCGACACTTTATGCGTGCATCTCGTTTGGCATTCATTC
*
1477493 TGTTA-
196 TG-GAC
* * *
1477498 AAAACGTATCGATACAATTTAAAAAAGTATCGATACATTATGTTAACTTATTCTCTCATTAAACC
1 AAAAAGTATCGATACAATTTAAAAAAGTATCGATACATTATGTTTACCTATTCTCTCATTAAACC
* *
1477563 GATATATTTTTACCGGTTACATTGTAATTTTACCTATTACTTTATAATAATCGGTGTCGATGTTT
66 GATATATTTTTACCGGTTACATTGTAAATTTACCTATTACTTTATAATAATCGGTTTCGATGTTT
* * * ** *
1477628 TGAGGATCGATACTTAATAAGAATGTATCTACACTTTATGCATTAATCTCGTTTCGCATTCATTC
131 TGAGGATCGATACTTAATAAAAATGTATCGACACTTTATGCGTGCATCTCGTTTGGCATTCATTC
1477693 TAGG-C
196 T-GGAC
* *
1477698 AAAAAGTATCGATATAATTT-AAAAAGTATCGATACATTATGTTTATCTATTCTCTCATTAAACC
1 AAAAAGTATCGATACAATTTAAAAAAGTATCGATACATTATGTTTACCTATTCTCTCATTAAACC
* *
1477762 GATATATTTTTACCGGTTACAGTGTAAATTTACCTATTACTTTATAATAATTGGTTTCGATGTTT
66 GATATATTTTTACCGGTTACATTGTAAATTTACCTATTACTTTATAATAATCGGTTTCGATGTTT
* * * * * *
1477827 TCAGGATTGACACTT-ATAATAAATGTATCGACACTTTATGCGTGCATTTCATTTGGCAGTCATT
131 TGAGGATCGATACTTAATAA-AAATGTATCGACACTTTATGCGTGCATCTCGTTTGGCATTCATT
1477891 CTGGAC
195 CTGGAC
*
1477897 AAAAAGTATTGATACAATTTAAAAAAGTATCGATACATTAAGTTAAGTTTACCTATTCTCTCATT
1 AAAAAGTATCGATACAATTTAAAAAAGTATCGATACATT-A--T--GTTTACCTATTCTCTCATT
* *
1477962 AAATCGATATATTTTTACCGGTTACATTGTAAATTTACCTATTACTTTATAATAATCAGTTTCGA
61 AAACCGATATATTTTTACCGGTTACATTGTAAATTTACCTATTACTTTATAATAATCGGTTTCGA
* *
1478027 TGTTTTGAGGATCGATACTTAATAAAAATGTATCGACACTTTATACGTGCATCTTGTTTGGCATT
126 TGTTTTGAGGATCGATACTTAATAAAAATGTATCGACACTTTATGCGTGCATCTCGTTTGGCATT
*
1478092 CATTCTGGGC
191 CATTCTGGAC
* * *
1478102 AAAAAGTATCGATACAATTTAAAAACGTATTGATACTTTATGTTTACCTATTCTCTCATTAAACC
1 AAAAAGTATCGATACAATTTAAAAAAGTATCGATACATTATGTTTACCTATTCTCTCATTAAACC
* * *
1478167 GATATATTTTTACTGGTTACATTGTAAATTTACCTATTAGTTTATAATAATCGGTTTCGATATTT
66 GATATATTTTTACCGGTTACATTGTAAATTTACCTATTACTTTATAATAATCGGTTTCGATGTTT
* * *
1478232 TGAGGATCGATACTTAATAAAAGTGTATCGACACTTTATGCGTGCATCTCGTTTGACATTCAATC
131 TGAGGATCGATACTTAATAAAAATGTATCGACACTTTATGCGTGCATCTCGTTTGGCATTCATTC
*
1478297 TGTTA-
196 TG-GAC
*
1478302 AAAAGCGTATCGATACAATTT-AAAAAGTATCGATACATTATGTTTACCTATTCTCTCATTAAAC
1 AAAA-AGTATCGATACAATTTAAAAAAGTATCGATACATTATGTTTACCTATTCTCTCATTAAAC
* *
1478366 CGATATATTTTTACCAGTTACATTGTAAATTTACCTATTACTTTATAATAACCGGTGTT-GATGT
65 CGATATATTTTTACCGGTTACATTGTAAATTTACCTATTACTTTATAATAATCGGT-TTCGATGT
* **
1478430 TTTGAGGATCGATACTTAATAAAAATGTATCGACACTTTATGCGTGAATCTCGTTTGTTATTCAT
129 TTTGAGGATCGATACTTAATAAAAATGTATCGACACTTTATGCGTGCATCTCGTTTGGCATTCAT
1478495 TCTAGG-C
194 TCT-GGAC
1478502 AAAAAGTATCGATACAATTTAAAAAAGTATCGATACATTATGTTTACCTATTCTCTCATTAAACC
1 AAAAAGTATCGATACAATTTAAAAAAGTATCGATACATTATGTTTACCTATTCTCTCATTAAACC
** * * *
1478567 GATGGATTTTTACCGGTTACAGTATAAATTTACCTATTACTTTATAATAATTGGTTTCGATGTTT
66 GATATATTTTTACCGGTTACATTGTAAATTTACCTATTACTTTATAATAATCGGTTTCGATGTTT
* * * * * *
1478632 TGAGGATTGATACTT-ATAATAAATGTATCGACACTTAATGTGTGCATCTCCTTTGGTAGTCATT
131 TGAGGATCGATACTTAATAA-AAATGTATCGACACTTTATGCGTGCATCTCGTTTGGCATTCATT
1478696 CTGGAC
195 CTGGAC
**
1478702 AAAAAGTATTAATACAATTTAAAAAAGTATCGATACATTATGTTTACCTATTCTCTCATTAAACC
1 AAAAAGTATCGATACAATTTAAAAAAGTATCGATACATTATGTTTACCTATTCTCTCATTAAACC
* * *
1478767 GGTATATTTTTA-CTGTTACATTGTACATTTACCTATTACTTTATAATAATCGGTTTCGATGTTT
66 GATATATTTTTACCGGTTACATTGTAAATTTACCTATTACTTTATAATAATCGGTTTCGATGTTT
1478831 TGAGGATCGATACTT-ATAATAAATGTATC
131 TGAGGATCGATACTTAATAA-AAATGTATC
1478860 AATACCTCTA
Statistics
Matches: 2311, Mismatches: 224, Indels: 57
0.89 0.09 0.02
Matches are distributed among these distances:
198 6 0.00
199 277 0.12
200 1635 0.71
201 211 0.09
202 1 0.00
203 1 0.00
204 1 0.00
205 175 0.08
206 4 0.00
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (200 bp):
AAAAAGTATCGATACAATTTAAAAAAGTATCGATACATTATGTTTACCTATTCTCTCATTAAACC
GATATATTTTTACCGGTTACATTGTAAATTTACCTATTACTTTATAATAATCGGTTTCGATGTTT
TGAGGATCGATACTTAATAAAAATGTATCGACACTTTATGCGTGCATCTCGTTTGGCATTCATTC
TGGAC
Found at i:1476727 original size:21 final size:22
Alignment explanation
Indices: 1476694--1476734 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
1476684 ATTCAATCTG
1476694 TTAAAAAATGTATCGATACAAT
1 TTAAAAAATGTATCGATACAAT
1476716 TTAAAAAA-GTATCGATACA
1 TTAAAAAATGTATCGATACA
1476735 TTAAGTTTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.51, C:0.10, G:0.10, T:0.29
Consensus pattern (22 bp):
TTAAAAAATGTATCGATACAAT
Found at i:1477337 original size:19 final size:20
Alignment explanation
Indices: 1477298--1477337 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
1477288 TATTCTGGGC
1477298 AAAAAGTATCGATACAATTTA
1 AAAAAGTATCGATAC-ATTTA
1477319 AAAAAGTATCGATAC-TTTA
1 AAAAAGTATCGATACATTTA
1477338 TGTTTACCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.21
21 15 0.79
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.30
Consensus pattern (20 bp):
AAAAAGTATCGATACATTTA
Found at i:1477519 original size:21 final size:21
Alignment explanation
Indices: 1477495--1477534 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1477485 ATTCAATCTG
*
1477495 TTAAAAACGTATCGATACAAT
1 TTAAAAAAGTATCGATACAAT
1477516 TTAAAAAAGTATCGATACA
1 TTAAAAAAGTATCGATACA
1477535 TTATGTTAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (21 bp):
TTAAAAAAGTATCGATACAAT
Found at i:1481204 original size:21 final size:21
Alignment explanation
Indices: 1481179--1481221 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
1481169 TGAAAACAAC
*
1481179 ACAAACGAAAAGAAGTAGCAA
1 ACAAACGAAAAGAAATAGCAA
1481200 ACAAACGAAAAGAAATAGCAA
1 ACAAACGAAAAGAAATAGCAA
1481221 A
1 A
1481222 GAACAAGGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.65, C:0.14, G:0.16, T:0.05
Consensus pattern (21 bp):
ACAAACGAAAAGAAATAGCAA
Found at i:1483539 original size:9 final size:9
Alignment explanation
Indices: 1483519--1483559 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
1483509 CTTCTTCCTT
*
1483519 CTCCTCTTC
1 CTCCTCTAC
*
1483528 CTCCACTAC
1 CTCCTCTAC
*
1483537 CTCCTCTGC
1 CTCCTCTAC
1483546 CTCCTCTAC
1 CTCCTCTAC
1483555 CTCCT
1 CTCCT
1483560 TGCCAATAAC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.07, C:0.56, G:0.02, T:0.34
Consensus pattern (9 bp):
CTCCTCTAC
Found at i:1483542 original size:18 final size:18
Alignment explanation
Indices: 1483519--1483563 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
1483509 CTTCTTCCTT
*
1483519 CTCCTCTTCCTCCACTAC
1 CTCCTCTGCCTCCACTAC
*
1483537 CTCCTCTGCCTCCTCTAC
1 CTCCTCTGCCTCCACTAC
1483555 CTCCT-TGCC
1 CTCCTCTGCC
1483564 AATAACCTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 4 0.16
18 21 0.84
ACGTcount: A:0.07, C:0.56, G:0.04, T:0.33
Consensus pattern (18 bp):
CTCCTCTGCCTCCACTAC
Found at i:1488358 original size:17 final size:18
Alignment explanation
Indices: 1488336--1488369 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1488326 TTGAAAGGTC
*
1488336 TGGAA-TAAATGATAAGT
1 TGGAATTAAATAATAAGT
1488353 TGGAATTAAATAATAAG
1 TGGAATTAAATAATAAG
1488370 ACAGAATTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.50, C:0.00, G:0.21, T:0.29
Consensus pattern (18 bp):
TGGAATTAAATAATAAGT
Found at i:1493723 original size:17 final size:18
Alignment explanation
Indices: 1493701--1493734 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1493691 TTGAAAGGTC
*
1493701 TGGAA-TAAATGATAAGT
1 TGGAATTAAATAATAAGT
1493718 TGGAATTAAATAATAAG
1 TGGAATTAAATAATAAG
1493735 ACAGAATTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.50, C:0.00, G:0.21, T:0.29
Consensus pattern (18 bp):
TGGAATTAAATAATAAGT
Found at i:1494593 original size:17 final size:17
Alignment explanation
Indices: 1494571--1494605 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
1494561 TTGTTCAGTT
1494571 CAAATTGTTCGATAAAC
1 CAAATTGTTCGATAAAC
1494588 CAAATTGTTCGATAAAC
1 CAAATTGTTCGATAAAC
1494605 C
1 C
1494606 GATCGATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.29
Consensus pattern (17 bp):
CAAATTGTTCGATAAAC
Found at i:1496737 original size:367 final size:359
Alignment explanation
Indices: 1496008--1496853 Score: 1372
Period size: 367 Copynumber: 2.3 Consensus size: 359
1495998 TTATTAAAGT
* * *
1496008 ATCGATGCCTTCAACATATTCGTTATCGCTTTACCAGTTTTGTCATTATGAAACCGGTTTTGTCA
1 ATCGATGCCTTCAACATATTCGATATCGCTTTACCGGTTTTGTCATTATGAAACCGGTTTTTTCA
* *
1496073 TATTTTTACCTATTATATTGTTATGTATCGATACATGTTTATAAAGTATCGATACTTTATAGGCG
66 TATTTTTACCTATTATATTGTTATGTATCGATACATATTTATAAAGTATCGATACTTTATAAGCG
** *
1496138 CTATTACTGCTTTTCTTCCAAAAGTGTCGATACTTATTTGAATGGAATCGATACCTTCAACATAT
131 CTATTACTGCTTTTCTTCCAAAAGTGTAAATACTTATTTGAATAGAATCGATACCTTCAACATAT
1496203 CTAATATCGCTTTACCGGTTTTGTCATTATGAAACCGGTTTTGTCATATTTTTACCTGTTATATT
196 CTAATATCGCTTTACCGGTTTTGTCATTATGAAACCGGTTTTGTCATATTTTTACCTGTTATATT
1496268 GTTATGCATTGATACATGTTTATAAAGTATCGATACTTTATAGGCGCTATTACTGCTTTTCTTTT
261 GTTATGCATTGATACATGTTTATAAAGTATCGATACTTTATAGGCGCTATTACTGCTTTTCTTTT
1496333 AAATTCCAAAAGTGTAGATACTTATTTGAATGGA
326 AAATTCCAAAAGTGTAGATACTTATTTGAATGGA
* * * *
1496367 ATCGATACCTTCAACATATTCGGTATCGCTTTACCGGTTTTGTCATTATAAAACCGATTTTTTTT
1 ATCGATGCCTTCAACATATTCGATATCGCTTTACCGGTTTTGTCATTATGAAACCG--GTTTTTT
*
1496432 CATATTTTTACCTTTTATATTGTTATGTATCGATACATATTTATAAAGTATCGATACTTTATAAG
64 CATATTTTTACCTATTATATTGTTATGTATCGATACATATTTATAAAGTATCGATACTTTATAAG
1496497 CGCTATTACTGCTTTTCTTTTAAATTCCAAAAGTGTAAATA-TTATTTGAATAGAATCGATACCT
129 CGCTATTACTGCTTTTC-------TTCCAAAAGTGTAAATACTTATTTGAATAGAATCGATACCT
1496561 TCAACATATCTAATATCGCTTTACCGGTTTTGTCATTATGAAACCGGTTTTGTCATATTTTTACC
187 TCAACATATCTAATATCGCTTTACCGGTTTTGTCATTATGAAACCGGTTTTGTCATATTTTTACC
1496626 TGTTATATTGTTATGCATTGATACATGTTTATAAAGTATCGATACTTTATAGGCGCTATTACTGC
252 TGTTATATTGTTATGCATTGATACATGTTTATAAAGTATCGATACTTTATAGGCGCTATTACTGC
*
1496691 TTTTCTTTTAAATTCCAAAAGTGTCGATACTTATTTGAATGGA
317 TTTTCTTTTAAATTCCAAAAGTGTAGATACTTATTTGAATGGA
* * * * * * * *
1496734 ATCGTTGCCTTCAACATATCCGATAGCGCTTTACTGATTCTGTCATTTTGAACCCGGTTTTTTCA
1 ATCGATGCCTTCAACATATTCGATATCGCTTTACCGGTTTTGTCATTATGAAACCGGTTTTTTCA
* *
1496799 TATTTTTACCTAATATATTGTTATGTATCGATACATAATTTA-ATAGTATCGATAC
66 TATTTTTACCTATTATATTGTTATGTATCGATACAT-ATTTATAAAGTATCGATAC
1496854 ATACCGACAA
Statistics
Matches: 449, Mismatches: 28, Indels: 14
0.91 0.06 0.03
Matches are distributed among these distances:
359 52 0.12
361 84 0.19
365 54 0.12
366 5 0.01
367 239 0.53
368 15 0.03
ACGTcount: A:0.28, C:0.16, G:0.13, T:0.43
Consensus pattern (359 bp):
ATCGATGCCTTCAACATATTCGATATCGCTTTACCGGTTTTGTCATTATGAAACCGGTTTTTTCA
TATTTTTACCTATTATATTGTTATGTATCGATACATATTTATAAAGTATCGATACTTTATAAGCG
CTATTACTGCTTTTCTTCCAAAAGTGTAAATACTTATTTGAATAGAATCGATACCTTCAACATAT
CTAATATCGCTTTACCGGTTTTGTCATTATGAAACCGGTTTTGTCATATTTTTACCTGTTATATT
GTTATGCATTGATACATGTTTATAAAGTATCGATACTTTATAGGCGCTATTACTGCTTTTCTTTT
AAATTCCAAAAGTGTAGATACTTATTTGAATGGA
Found at i:1496822 original size:183 final size:183
Alignment explanation
Indices: 1496008--1496853 Score: 1260
Period size: 183 Copynumber: 4.7 Consensus size: 183
1495998 TTATTAAAGT
* * * *
1496008 ATCGATGCCTTCAACATATTCGTTATCGCTTTACCAGTTTTGTCATTATGAAACCGGTTTTGTCA
1 ATCGATACCTTCAACATATCCGATATCGCTTTACCGGTTTTGTCATTATGAAACCGGTTTTGTCA
1496073 TATTTTTACCTATTATATTGTTATGTATCGATACATGTTTATAAAGTATCGATACTTTATAGGCG
66 TATTTTTACCTATTATATTGTTATGTATCGATACATGTTTATAAAGTATCGATACTTTATAGGCG
*
1496138 CTATTACTGCTTTTC-------TTCCAAAAGTGTCGATACTTATTTGAATGGA
131 CTATTACTGCTTTTCTTTTAAATTCCAAAAGTGTAGATACTTATTTGAATGGA
**
1496184 ATCGATACCTTCAACATATCTAATATCGCTTTACCGGTTTTGTCATTATGAAACCGGTTTTGTCA
1 ATCGATACCTTCAACATATCCGATATCGCTTTACCGGTTTTGTCATTATGAAACCGGTTTTGTCA
* * *
1496249 TATTTTTACCTGTTATATTGTTATGCATTGATACATGTTTATAAAGTATCGATACTTTATAGGCG
66 TATTTTTACCTATTATATTGTTATGTATCGATACATGTTTATAAAGTATCGATACTTTATAGGCG
1496314 CTATTACTGCTTTTCTTTTAAATTCCAAAAGTGTAGATACTTATTTGAATGGA
131 CTATTACTGCTTTTCTTTTAAATTCCAAAAGTGTAGATACTTATTTGAATGGA
* * * * *
1496367 ATCGATACCTTCAACATATTCGGTATCGCTTTACCGGTTTTGTCATTATAAAACCGATTTTTTTT
1 ATCGATACCTTCAACATATCCGATATCGCTTTACCGGTTTTGTCATTATGAAACCG--GTTTTGT
* * *
1496432 CATATTTTTACCTTTTATATTGTTATGTATCGATACATATTTATAAAGTATCGATACTTTATAAG
64 CATATTTTTACCTATTATATTGTTATGTATCGATACATGTTTATAAAGTATCGATACTTTATAGG
* *
1496497 CGCTATTACTGCTTTTCTTTTAAATTCCAAAAGTGTAAATA-TTATTTGAATAGA
129 CGCTATTACTGCTTTTCTTTTAAATTCCAAAAGTGTAGATACTTATTTGAATGGA
**
1496551 ATCGATACCTTCAACATATCTAATATCGCTTTACCGGTTTTGTCATTATGAAACCGGTTTTGTCA
1 ATCGATACCTTCAACATATCCGATATCGCTTTACCGGTTTTGTCATTATGAAACCGGTTTTGTCA
* * *
1496616 TATTTTTACCTGTTATATTGTTATGCATTGATACATGTTTATAAAGTATCGATACTTTATAGGCG
66 TATTTTTACCTATTATATTGTTATGTATCGATACATGTTTATAAAGTATCGATACTTTATAGGCG
*
1496681 CTATTACTGCTTTTCTTTTAAATTCCAAAAGTGTCGATACTTATTTGAATGGA
131 CTATTACTGCTTTTCTTTTAAATTCCAAAAGTGTAGATACTTATTTGAATGGA
* * * * * * * * *
1496734 ATCGTTGCCTTCAACATATCCGATAGCGCTTTACTGATTCTGTCATTTTGAACCCGGTTTTTTCA
1 ATCGATACCTTCAACATATCCGATATCGCTTTACCGGTTTTGTCATTATGAAACCGGTTTTGTCA
* * *
1496799 TATTTTTACCTAATATATTGTTATGTATCGATACATAATTTA-ATAGTATCGATAC
66 TATTTTTACCTATTATATTGTTATGTATCGATACAT-GTTTATAAAGTATCGATAC
1496854 ATACCGACAA
Statistics
Matches: 603, Mismatches: 56, Indels: 15
0.89 0.08 0.02
Matches are distributed among these distances:
176 136 0.23
182 104 0.17
183 191 0.32
184 67 0.11
185 105 0.17
ACGTcount: A:0.28, C:0.16, G:0.13, T:0.43
Consensus pattern (183 bp):
ATCGATACCTTCAACATATCCGATATCGCTTTACCGGTTTTGTCATTATGAAACCGGTTTTGTCA
TATTTTTACCTATTATATTGTTATGTATCGATACATGTTTATAAAGTATCGATACTTTATAGGCG
CTATTACTGCTTTTCTTTTAAATTCCAAAAGTGTAGATACTTATTTGAATGGA
Found at i:1503537 original size:3 final size:3
Alignment explanation
Indices: 1503522--1503567 Score: 65
Period size: 3 Copynumber: 14.7 Consensus size: 3
1503512 AGTATTTTTA
*
1503522 AAT AAT TAT AAT AAT AAT AAT AAT AAT AAT AAT AACTT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA--T AAT AAT AA
1503568 CAGGACGAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
3 36 0.92
5 3 0.08
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:1503928 original size:134 final size:134
Alignment explanation
Indices: 1503688--1505555 Score: 2271
Period size: 134 Copynumber: 14.0 Consensus size: 134
1503678 GGAATATGAT
* * * * * ** *
1503688 GAGGGATCTGTTTCACTTCTTCTTGAGGGAAAATCATATTTGATGGAGTTGATCCATTCCACTTT
1 GAGGGATCTGTTCCACTTCTTCTGGAGGGAATATCAGATCTGGGGGAGTTGATCCATTCCACTGT
* * * *
1503753 CACTCAGGGAAGATTAAATTGAGGCAGACTTGTTCCACTTTCACTCAGGAAATATCAAATCTTGA
66 CACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTCACTCAGGGAATATCAAATCTTGA
1503818 AAGA
131 AAGA
* * *
1503822 GAGGGATCTGTTCCACTTCTTCTGGAGGGAATATCAAATATGGGGGAGATGATCCATTCCACTGT
1 GAGGGATCTGTTCCACTTCTTCTGGAGGGAATATCAGATCTGGGGGAGTTGATCCATTCCACTGT
* * * *
1503887 CACTCAAGGAAGATTGAATCGAGGTAGACTTGTTCCACTTTCACTGAGGGAATATCAAATCTTGA
66 CACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTCACTCAGGGAATATCAAATCTTGA
**
1503952 ATTA
131 AAGA
* * * * * * *
1503956 GAAGGATATGTTCCGA-TTCTTTTAGAGGGAATATCAGATCTAGGGGAGTTGATACATTTCACTG
1 GAGGGATCTGTTCC-ACTTCTTCTGGAGGGAATATCAGATCTGGGGGAGTTGATCCATTCCACTG
* * * * * *
1504020 TCACTCAGGGAATATTGAATCGACGAAGACTTGTTCCATTGTCACTAAGGGAATATCAAATATTG
65 TCACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTCACTCAGGGAATATCAAATCTTG
1504085 AAAGA
130 AAAGA
* ** * * *
1504090 GAGGGATTTGTTCTGCTTCTTTTGGAGGGAATATCAGATTTGGGGGAGTTGATCTATTCCACTGT
1 GAGGGATCTGTTCCACTTCTTCTGGAGGGAATATCAGATCTGGGGGAGTTGATCCATTCCACTGT
* *
1504155 AACTCAGGGAAGATTGAATCGAGGTAGACTTGTTCCACTGTCACTCAGGGAATATCAAATCTTGA
66 CACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTCACTCAGGGAATATCAAATCTTGA
1504220 AAGA
131 AAGA
* * * * * * * * *
1504224 GAGGGATTTGTTTCGCTTCTTCTAGAGGAAATATCAAATATGGGGGAGTTGATCCATTACACTAT
1 GAGGGATCTGTTCCACTTCTTCTGGAGGGAATATCAGATCTGGGGGAGTTGATCCATTCCACTGT
* * * *
1504289 CAATCAGGAAAGATTGAATCGAGGCATACTTATTCCACTGTCACTCAGGGAATATCAAATCTTGA
66 CACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTCACTCAGGGAATATCAAATCTTGA
1504354 AAGA
131 AAGA
* * * ** *
1504358 GAGGGATTTGTTCCACTTCTTATGGAGGGAAGATCAGATCTGGGGGAGTTGATCCATTTAACTAT
1 GAGGGATCTGTTCCACTTCTTCTGGAGGGAATATCAGATCTGGGGGAGTTGATCCATTCCACTGT
* *
1504423 CACTCAGGGAAGATTGAATCGAGGTAGACTTGTTCCACTGTCACTCGGGGAATATCAAATCTTGA
66 CACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTCACTCAGGGAATATCAAATCTTGA
1504488 AAGA
131 AAGA
* * * * *
1504492 GA--GA-CATGTTCCACTTTTTATAGAGGGAATATTAGATCTGGGGGAGTTGATCAATTCCACTG
1 GAGGGATC-TGTTCCACTTCTTCTGGAGGGAATATCAGATCTGGGGGAGTTGATCCATTCCACTG
* * * ***
1504554 TCACTCTGGGAAGATTGAATCAAGGCAGACTTGTTTCACTGTCACTCAACTAATATCAAATCTTG
65 TCACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTCACTCAGGGAATATCAAATCTTG
1504619 AAAGA
130 AAAGA
* * * * ** *
1504624 GAGGGATTTGTTCCACTTCTTCTTGAGGGAAAATCAGATTTGCAGGAGTTGATCCATTCCACTTT
1 GAGGGATCTGTTCCACTTCTTCTGGAGGGAATATCAGATCTGGGGGAGTTGATCCATTCCACTGT
* *
1504689 CACTCAGGGAAGATTAAATCGAGGCAGGCTTGTTCCACTGTCACTCAGGGAATATCAAATCTTGA
66 CACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTCACTCAGGGAATATCAAATCTTGA
1504754 AAGA
131 AAGA
* * *
1504758 GAGGGATCTGTTCCACTTCTTCTGGAGGGAATATCAAATATGGGGGAGATGATCCATTCCACTGT
1 GAGGGATCTGTTCCACTTCTTCTGGAGGGAATATCAGATCTGGGGGAGTTGATCCATTCCACTGT
* * * * *
1504823 CACTCAGGGAAGATTGAATTGAGGTAGACTTGTTCCACTTTCACTTAGGGAATATCAAATGTTGA
66 CACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTCACTCAGGGAATATCAAATCTTGA
**
1504888 ATTA
131 AAGA
* * * * * * *
1504892 GAAGGATATGTTCCAATTCTTCTAGAGGGAATATCAGATCTAGGGGAGTTGATACATTTCACTGT
1 GAGGGATCTGTTCCACTTCTTCTGGAGGGAATATCAGATCTGGGGGAGTTGATCCATTCCACTGT
* *
1504957 CACTCAGGGAAGATTGAATCGAGGCAGACTTATTCCACTGTCACTCAGGAAATATCAAATCTTGA
66 CACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTCACTCAGGGAATATCAAATCTTGA
*
1505022 ACGA
131 AAGA
* * * * * ** **
1505026 GAGGGATTTGTTTCGCTTCTTCTGGAGGGAATATCAGATAT-GGGGACATTGATTTATTCCGTTG
1 GAGGGATCTGTTCCACTTCTTCTGGAGGGAATATCAGATCTGGGGGA-GTTGATCCATTCCACTG
* * * *
1505090 TCACTC-GGGAAAGATTGAATCGAGGCATACTTGTTCCACTGTTACTCAGGAAATATCAAATATT
65 TCACTCAGGG-AAGATTGAATCGAGGCAGACTTGTTCCACTGTCACTCAGGGAATATCAAATCTT
1505154 GAAAGA
129 GAAAGA
* * *
1505160 GAGGGATCTGTTTCGCTTCTTCTGAAGGGAATATCAGATCTGGGGGAGTTGATCCATTCCACTGT
1 GAGGGATCTGTTCCACTTCTTCTGGAGGGAATATCAGATCTGGGGGAGTTGATCCATTCCACTGT
* * * * * *
1505225 CACTTAGGAAAGATTGAATCGAGGTAAACTTGTTCCACTATCACTCAAGGAATATCAAATCTTGA
66 CACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTCACTCAGGGAATATCAAATCTTGA
1505290 AAGA
131 AAGA
* ** ** * * * *
1505294 GAGAGATCTGTTCTGCTTCTTCTCAAGGGAATATCATATATGAGGGAGTAT-ATCAATTCCACTG
1 GAGGGATCTGTTCCACTTCTTCTGGAGGGAATATCAGATCTGGGGGAGT-TGATCCATTCCACTG
* *
1505358 TCACTCAGGGAAGATTGAATCGAGGTAGACTTGTTCCACTGTCACTTAGGGAATATCAAATCTTG
65 TCACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTCACTCAGGGAATATCAAATCTTG
1505423 AAAGA
130 AAAGA
** * * * * *
1505428 GA--GA-CATGTTCTGCTTTTTCTAGAGGGAATATTAGATCTGGGGTAGTTGATCAATTCCACTG
1 GAGGGATC-TGTTCCACTTCTTCTGGAGGGAATATCAGATCTGGGGGAGTTGATCCATTCCACTG
* * * ***
1505490 TCAGTCTGGGAAGATTGAATCGAGGCAGACTTGTTTCACTGTCACTCAACTAATATCAAATCTTG
65 TCACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTCACTCAGGGAATATCAAATCTTG
1505555 A
130 A
1505556 GGGAATATCA
Statistics
Matches: 1497, Mismatches: 224, Indels: 28
0.86 0.13 0.02
Matches are distributed among these distances:
131 2 0.00
132 220 0.15
133 8 0.01
134 1258 0.84
135 9 0.01
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (134 bp):
GAGGGATCTGTTCCACTTCTTCTGGAGGGAATATCAGATCTGGGGGAGTTGATCCATTCCACTGT
CACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTCACTCAGGGAATATCAAATCTTGA
AAGA
Found at i:1505500 original size:936 final size:936
Alignment explanation
Indices: 1503688--1505555 Score: 3010
Period size: 936 Copynumber: 2.0 Consensus size: 936
1503678 GGAATATGAT
* *
1503688 GAGGGATCTGTTTCACTTCTTCTTGAGGGAAAATCATATTTGATGGAGTTGATCCATTCCACTTT
1 GAGGGATCTGTTCCACTTCTTCTTGAGGGAAAATCAGATTTGATGGAGTTGATCCATTCCACTTT
* *
1503753 CACTCAGGGAAGATTAAATTGAGGCAGACTTGTTCCACTTTCACTCAGGAAATATCAAATCTTGA
66 CACTCAGGGAAGATTAAATCGAGGCAGACTTGTTCCACTGTCACTCAGGAAATATCAAATCTTGA
1503818 AAGAGAGGGATCTGTTCCACTTCTTCTGGAGGGAATATCAAATATGGGGGAGATGATCCATTCCA
131 AAGAGAGGGATCTGTTCCACTTCTTCTGGAGGGAATATCAAATATGGGGGAGATGATCCATTCCA
1503883 CTGTCACTCAAGGAAGATTGAATCGAGGTAGACTTGTTCCACTTTCACTGAGGGAATATCAAATC
196 CTGTCACTCAAGGAAGATTGAATCGAGGTAGACTTGTTCCACTTTCACTGAGGGAATATCAAATC
* *
1503948 TTGAATTAGAAGGATATGTTCCGATTCTTTTAGAGGGAATATCAGATCTAGGGGAGTTGATACAT
261 TTGAATTAGAAGGATATGTTCCAATTCTTCTAGAGGGAATATCAGATCTAGGGGAGTTGATACAT
* * * *
1504013 TTCACTGTCACTCAGGGAATATTGAATCGACGAAGACTTGTTCCATTGTCACTAAGGGAATATCA
326 TTCACTGTCACTCAGGGAAGATTGAATCGACGAAGACTTATTCCACTGTCACTAAGGAAATATCA
* * *
1504078 AATATTGAAAGAGAGGGATTTGTTCTGCTTCTTTTGGAGGGAATATCAGATTTGGGGGAGTTGAT
391 AATATTGAAAGAGAGGGATTTGTTCTGCTTCTTCTGGAGGGAATATCAGATATGGGGGAATTGAT
* *
1504143 CTATTCCACTGTAACTCAGGGAAGATTGAATCGAGGTAGACTTGTTCCACTGTCACTCAGGGAAT
456 CTATTCCACTGTAACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTCACTCAGGAAAT
* *
1504208 ATCAAATCTTGAAAGAGAGGGATTTGTTTCGCTTCTTCTAGAGGAAATATCAAATATGGGGGAGT
521 ATCAAATATTGAAAGAGAGGGATCTGTTTCGCTTCTTCTAGAGGAAATATCAAATATGGGGGAGT
* * *
1504273 TGATCCATTACACTATCAATCAGGAAAGATTGAATCGAGGCATACTTATTCCACTGTCACTCAGG
586 TGATCCATTACACTATCAATCAGGAAAGATTGAATCGAGGCAAACTTATTCCACTATCACTCAAG
* * ** * *
1504338 GAATATCAAATCTTGAAAGAGAGGGATTTGTTCCACTTCTTATGGAGGGAAGATCAGATCTGGGG
651 GAATATCAAATCTTGAAAGAGAGAGATCTGTTCCACTTCTTATCAAGGGAAGATCAGATATGAGG
* *
1504403 GAGTTGATCCATTTAACTATCACTCAGGGAAGATTGAATCGAGGTAGACTTGTTCCACTGTCACT
716 GAGTTGATCAATTCAACTATCACTCAGGGAAGATTGAATCGAGGTAGACTTGTTCCACTGTCACT
*
1504468 CGGGGAATATCAAATCTTGAAAGAGAGACATGTTCCACTTTTTATAGAGGGAATATTAGATCTGG
781 CAGGGAATATCAAATCTTGAAAGAGAGACATGTTCCACTTTTTATAGAGGGAATATTAGATCTGG
1504533 GGGAGTTGATCAATTCCACTGTCACTCTGGGAAGATTGAATCAAGGCAGACTTGTTTCACTGTCA
846 GGGAGTTGATCAATTCCACTGTCACTCTGGGAAGATTGAATCAAGGCAGACTTGTTTCACTGTCA
1504598 CTCAACTAATATCAAATCTTGAAAGA
911 CTCAACTAATATCAAATCTTGAAAGA
*
1504624 GAGGGATTTGTTCCACTTCTTCTTGAGGGAAAATCAGATTTGCA-GGAGTTGATCCATTCCACTT
1 GAGGGATCTGTTCCACTTCTTCTTGAGGGAAAATCAGATTTG-ATGGAGTTGATCCATTCCACTT
* *
1504688 TCACTCAGGGAAGATTAAATCGAGGCAGGCTTGTTCCACTGTCACTCAGGGAATATCAAATCTTG
65 TCACTCAGGGAAGATTAAATCGAGGCAGACTTGTTCCACTGTCACTCAGGAAATATCAAATCTTG
1504753 AAAGAGAGGGATCTGTTCCACTTCTTCTGGAGGGAATATCAAATATGGGGGAGATGATCCATTCC
130 AAAGAGAGGGATCTGTTCCACTTCTTCTGGAGGGAATATCAAATATGGGGGAGATGATCCATTCC
* * *
1504818 ACTGTCACTCAGGGAAGATTGAATTGAGGTAGACTTGTTCCACTTTCACTTAGGGAATATCAAAT
195 ACTGTCACTCAAGGAAGATTGAATCGAGGTAGACTTGTTCCACTTTCACTGAGGGAATATCAAAT
*
1504883 GTTGAATTAGAAGGATATGTTCCAATTCTTCTAGAGGGAATATCAGATCTAGGGGAGTTGATACA
260 CTTGAATTAGAAGGATATGTTCCAATTCTTCTAGAGGGAATATCAGATCTAGGGGAGTTGATACA
* * *
1504948 TTTCACTGTCACTCAGGGAAGATTGAATCGAGGCAGACTTATTCCACTGTCACTCAGGAAATATC
325 TTTCACTGTCACTCAGGGAAGATTGAATCGACGAAGACTTATTCCACTGTCACTAAGGAAATATC
* *
1505013 AAATCTTGAACGAGAGGGATTTGTT-TCGCTTCTTCTGGAGGGAATATCAGATAT-GGGGACATT
390 AAATATTGAAAGAGAGGGATTTGTTCT-GCTTCTTCTGGAGGGAATATCAGATATGGGGGA-ATT
* ** * * *
1505076 GATTTATTCCGTTGTCACTC-GGGAAAGATTGAATCGAGGCATACTTGTTCCACTGTTACTCAGG
453 GATCTATTCCACTGTAACTCAGGG-AAGATTGAATCGAGGCAGACTTGTTCCACTGTCACTCAGG
* * *
1505140 AAATATCAAATATTGAAAGAGAGGGATCTGTTTCGCTTCTTCT-GAAGGGAATATCAGATCTGGG
517 AAATATCAAATATTGAAAGAGAGGGATCTGTTTCGCTTCTTCTAG-AGGAAATATCAAATATGGG
* * * * * *
1505204 GGAGTTGATCCATTCCACTGTCACTTAGGAAAGATTGAATCGAGGTAAACTTGTTCCACTATCAC
581 GGAGTTGATCCATTACACTATCAATCAGGAAAGATTGAATCGAGGCAAACTTATTCCACTATCAC
** * * *
1505269 TCAAGGAATATCAAATCTTGAAAGAGAGAGATCTGTTCTGCTTCTTCTCAAGGGAATATCATATA
646 TCAAGGAATATCAAATCTTGAAAGAGAGAGATCTGTTCCACTTCTTATCAAGGGAAGATCAGATA
* *
1505334 TGAGGGAGTAT-ATCAATTCCACTGTCACTCAGGGAAGATTGAATCGAGGTAGACTTGTTCCACT
711 TGAGGGAGT-TGATCAATTCAACTATCACTCAGGGAAGATTGAATCGAGGTAGACTTGTTCCACT
* ** *
1505398 GTCACTTAGGGAATATCAAATCTTGAAAGAGAGACATGTTCTGCTTTTTCTAGAGGGAATATTAG
775 GTCACTCAGGGAATATCAAATCTTGAAAGAGAGACATGTTCCACTTTTTATAGAGGGAATATTAG
* * *
1505463 ATCTGGGGTAGTTGATCAATTCCACTGTCAGTCTGGGAAGATTGAATCGAGGCAGACTTGTTTCA
840 ATCTGGGGGAGTTGATCAATTCCACTGTCACTCTGGGAAGATTGAATCAAGGCAGACTTGTTTCA
1505528 CTGTCACTCAACTAATATCAAATCTTGA
905 CTGTCACTCAACTAATATCAAATCTTGA
1505556 GGGAATATCA
Statistics
Matches: 856, Mismatches: 70, Indels: 12
0.91 0.07 0.01
Matches are distributed among these distances:
935 10 0.01
936 844 0.99
937 2 0.00
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (936 bp):
GAGGGATCTGTTCCACTTCTTCTTGAGGGAAAATCAGATTTGATGGAGTTGATCCATTCCACTTT
CACTCAGGGAAGATTAAATCGAGGCAGACTTGTTCCACTGTCACTCAGGAAATATCAAATCTTGA
AAGAGAGGGATCTGTTCCACTTCTTCTGGAGGGAATATCAAATATGGGGGAGATGATCCATTCCA
CTGTCACTCAAGGAAGATTGAATCGAGGTAGACTTGTTCCACTTTCACTGAGGGAATATCAAATC
TTGAATTAGAAGGATATGTTCCAATTCTTCTAGAGGGAATATCAGATCTAGGGGAGTTGATACAT
TTCACTGTCACTCAGGGAAGATTGAATCGACGAAGACTTATTCCACTGTCACTAAGGAAATATCA
AATATTGAAAGAGAGGGATTTGTTCTGCTTCTTCTGGAGGGAATATCAGATATGGGGGAATTGAT
CTATTCCACTGTAACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTCACTCAGGAAAT
ATCAAATATTGAAAGAGAGGGATCTGTTTCGCTTCTTCTAGAGGAAATATCAAATATGGGGGAGT
TGATCCATTACACTATCAATCAGGAAAGATTGAATCGAGGCAAACTTATTCCACTATCACTCAAG
GAATATCAAATCTTGAAAGAGAGAGATCTGTTCCACTTCTTATCAAGGGAAGATCAGATATGAGG
GAGTTGATCAATTCAACTATCACTCAGGGAAGATTGAATCGAGGTAGACTTGTTCCACTGTCACT
CAGGGAATATCAAATCTTGAAAGAGAGACATGTTCCACTTTTTATAGAGGGAATATTAGATCTGG
GGGAGTTGATCAATTCCACTGTCACTCTGGGAAGATTGAATCAAGGCAGACTTGTTTCACTGTCA
CTCAACTAATATCAAATCTTGAAAGA
Found at i:1507103 original size:14 final size:13
Alignment explanation
Indices: 1507063--1507112 Score: 57
Period size: 14 Copynumber: 3.8 Consensus size: 13
1507053 TTATCTATCC
*
1507063 CTTCTTTCTTTTT
1 CTTCTTTTTTTTT
* *
1507076 -TTCTGTTTTCTT
1 CTTCTTTTTTTTT
1507088 CTTCTCTTTTTTTT
1 CTTCT-TTTTTTTT
1507102 CTTCTTTTTTT
1 CTTCTTTTTTT
1507113 AGTGTGGTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
12 9 0.30
13 10 0.33
14 11 0.37
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.78
Consensus pattern (13 bp):
CTTCTTTTTTTTT
Found at i:1507109 original size:25 final size:22
Alignment explanation
Indices: 1507063--1507104 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
1507053 TTATCTATCC
*
1507063 CTTCTTTCTTTTTTTCTGTTTT
1 CTTCTTTCTTTTTTTCTCTTTT
1507085 CTTCTTCTCTTTTTTT-TCTT
1 CTTCTT-TCTTTTTTTCTCTT
1507105 CTTTTTTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.00, C:0.21, G:0.02, T:0.76
Consensus pattern (22 bp):
CTTCTTTCTTTTTTTCTCTTTT
Found at i:1509247 original size:15 final size:15
Alignment explanation
Indices: 1509229--1509266 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
1509219 AAATAAAAAT
1509229 TAATAATATAAATAA
1 TAATAATATAAATAA
* *
1509244 TAATAATATTAATAT
1 TAATAATATAAATAA
1509259 TAATAATA
1 TAATAATA
1509267 ACCTAGACAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
TAATAATATAAATAA
Found at i:1509851 original size:257 final size:258
Alignment explanation
Indices: 1509390--1510022 Score: 891
Period size: 257 Copynumber: 2.5 Consensus size: 258
1509380 GTCTCAAGTG
* * * *
1509390 AGACTGACAGATAACTCGAAGGATTTAATCATCATGCTCGAAAGATTTACTTATGGCCCGAAGGA
1 AGACTGACAGATGACCCGAAGGATTTAATCATCATGCTCGAAAGATTTACTGATGGCCCGAAGAA
* * *
1509455 CTTACAAATTTTTGAAGTAGTTTACT-GGTAAGAAACTTTGAAAATTGCTTTCTTACTTTTCAAA
66 CTTACAAATTTTCGAAATAGTTTACTAGGTAAGAAACTTTGGAAATTGCTTTCTTACTTTTCAAA
* **
1509519 AATTTCATTTTCAGAAAACATTAAATGAGAAACTTTGAAACTCACTTTCTCATTTTTTGAAAATA
131 AATTTCATTTTCAGAAAACACTAAATGAGAAACTTTGAAACTCACTTTCTCATTTTTCAAAAATA
* * * *
1509584 ATGGGGAAACATC-CTTCCCAAAGGTCTTATAGATGGCCCGAAGGACTTATCACCTTACTTGAA
196 ATGGGGAAACAACTC-GCCCAAAGGTCTTATAGATGGCCAGAAGGACTTATCACCTTACTCGAA
*
1509647 AGACTGACAGATGACCCGAAGGATTTAATCCTCATGCTCGAAAGATTTACTGATGGCCCGAAGAA
1 AGACTGACAGATGACCCGAAGGATTTAATCATCATGCTCGAAAGATTTACTGATGGCCCGAAGAA
* * *
1509712 CTTATAAATTTTGGAAATAGTTTACTATGTAAGAAACTTTGGAAATTGCTTTCTTACTTTTCAAA
66 CTTACAAATTTTCGAAATAGTTTACTAGGTAAGAAACTTTGGAAATTGCTTTCTTACTTTTCAAA
*
1509777 AA-TTCATTTTCAGAAAACACTATATGAGAAACTTTGGAAA-TCACTTTCTCATTTTTCAAAAAT
131 AATTTCATTTTCAGAAAACACTAAATGAGAAACTTT-GAAACTCACTTTCTCATTTTTCAAAAAT
* * * * * * *
1509840 CATGTGGAAACAACTCGCCCGAGGGTCTTATAGATGGCTAGAAGGACTTATCATCTTGCTCGAA
195 AATGGGGAAACAACTCGCCCAAAGGTCTTATAGATGGCCAGAAGGACTTATCACCTTACTCGAA
* * * * * *
1509904 AAACTGACAAATGACCCGAAAGATTTAATCATCATGCTCAAAAGACTTACTGATGGCCTGAA-AG
1 AGACTGACAGATGACCCGAAGGATTTAATCATCATGCTCGAAAGATTTACTGATGGCCCGAAGA-
*
1509968 ACTTACAAATTTTCGAAATAATTTACTAGGTAAGAAACTTTGG-AATTCGCTTTCT
65 ACTTACAAATTTTCGAAATAGTTTACTAGGTAAGAAACTTTGGAAATT-GCTTTCT
1510023 CATTTTATGA
Statistics
Matches: 335, Mismatches: 36, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
256 5 0.01
257 287 0.86
258 43 0.13
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.32
Consensus pattern (258 bp):
AGACTGACAGATGACCCGAAGGATTTAATCATCATGCTCGAAAGATTTACTGATGGCCCGAAGAA
CTTACAAATTTTCGAAATAGTTTACTAGGTAAGAAACTTTGGAAATTGCTTTCTTACTTTTCAAA
AATTTCATTTTCAGAAAACACTAAATGAGAAACTTTGAAACTCACTTTCTCATTTTTCAAAAATA
ATGGGGAAACAACTCGCCCAAAGGTCTTATAGATGGCCAGAAGGACTTATCACCTTACTCGAA
Found at i:1510138 original size:197 final size:196
Alignment explanation
Indices: 1509803--1510232 Score: 630
Period size: 197 Copynumber: 2.2 Consensus size: 196
1509793 ACACTATATG
*
1509803 AGAAACTTTGGAAATCACTTTCTCATTTTTCAAAAATCATGTGGAAACAACTCGCCCGAGGGTCT
1 AGAAACTTTGGAAATCACTTTCTCATTTTTCAAAAATCATGTGGAAACAACTCGCCCGAAGGTCT
* *
1509868 TATAGATGGCTAGAAGGACTTATCATCTTGCTCGAAAAACTGACAAATGACCCGAAAGATTTAAT
66 TATAGATGGCTAGAAGGACTTATCATCTTGCTCGAAAAACTAACAAATGACCCGAAAGATTTAAG
* *
1509933 CATCATGCTCAAAAGACTTACTGATGGCCTGAAA-GACTTACAAATTTTCGAAATAATTTACTAG
131 CATCATGCTCAAAAGACTTACTAATGGCC-CAAATGACTTACAAATTTTCGAAATAATTTACT-G
1509997 GTA
194 GTA
* * * * *
1510000 AGAAACTTTGGAATTCGCTTTCTCATTTTAT-GAAAATCATGTGGAAACATCTTGCCCGAAGGTC
1 AGAAACTTTGGAAATCACTTTCTCATTTT-TCAAAAATCATGTGGAAACAACTCGCCCGAAGGTC
* * * * *
1510064 TTATAGATGGCTCGAATGACTTATCATCTTGCTCGAAAGACTAACAGATGACCCGAAGGATTTAA
65 TTATAGATGGCTAGAAGGACTTATCATCTTGCTCGAAAAACTAACAAATGACCCGAAAGATTTAA
* *
1510129 GCATCATGCTCGAAAGACTTACTAATGGCCCAAATGACTTACAAATTTTGGAAATAATTTACTGG
130 GCATCATGCTCAAAAGACTTACTAATGGCCCAAATGACTTACAAATTTTCGAAATAATTTACTGG
1510194 TA
195 TA
* * * *
1510196 AGAAAATTTGGAAATCTCTTTCTTACTTTTCAAAAAT
1 AGAAACTTTGGAAATCACTTTCTCATTTTTCAAAAAT
1510233 TTCATTTTCT
Statistics
Matches: 207, Mismatches: 23, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
195 1 0.00
196 36 0.17
197 169 0.82
198 1 0.00
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (196 bp):
AGAAACTTTGGAAATCACTTTCTCATTTTTCAAAAATCATGTGGAAACAACTCGCCCGAAGGTCT
TATAGATGGCTAGAAGGACTTATCATCTTGCTCGAAAAACTAACAAATGACCCGAAAGATTTAAG
CATCATGCTCAAAAGACTTACTAATGGCCCAAATGACTTACAAATTTTCGAAATAATTTACTGGT
A
Found at i:1511869 original size:144 final size:145
Alignment explanation
Indices: 1511679--1511967 Score: 571
Period size: 144 Copynumber: 2.0 Consensus size: 145
1511669 ATGAAGCAAC
1511679 TAACATATTCAATTGCTAGACTTTTTGGAACACTTCCATTTCAGTTCTCTGAAATCTTTCATTTG
1 TAACATATTCAATTGCTAGACTTTTTGGAACACTTCCATTTCAGTTCTCTGAAATCTTTCATTTG
1511744 TTCAAGCTTTTTAGACTCCTCTAACAAAGACAGTGTAGAAATATCGGTCCAAAAATGATATTCCT
66 TTCAAGCTTTTTAGACTCCTCTAACAAAGACAGTGTAGAAATATCGGTCCAAAAATGATATTCCT
1511809 AAATACTGGTGTGGA
131 AAATACTGGTGTGGA
1511824 TAACATATTCAATTGCTAGAC-TTTTGGAACACTTCCATTTCAGTTCTCTGAAATCTTTCATTTG
1 TAACATATTCAATTGCTAGACTTTTTGGAACACTTCCATTTCAGTTCTCTGAAATCTTTCATTTG
1511888 TTCAAGCTTTTTAGACTCCTCTAACAAAGACAGTGTAGAAATATCGGTCCAAAAATGATATTCCT
66 TTCAAGCTTTTTAGACTCCTCTAACAAAGACAGTGTAGAAATATCGGTCCAAAAATGATATTCCT
1511953 AAATACTGGTGTGGA
131 AAATACTGGTGTGGA
1511968 ATTGACTATA
Statistics
Matches: 144, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
144 123 0.85
145 21 0.15
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.36
Consensus pattern (145 bp):
TAACATATTCAATTGCTAGACTTTTTGGAACACTTCCATTTCAGTTCTCTGAAATCTTTCATTTG
TTCAAGCTTTTTAGACTCCTCTAACAAAGACAGTGTAGAAATATCGGTCCAAAAATGATATTCCT
AAATACTGGTGTGGA
Found at i:1516445 original size:36 final size:35
Alignment explanation
Indices: 1516352--1516462 Score: 161
Period size: 35 Copynumber: 3.2 Consensus size: 35
1516342 TTGGTGGTTA
* * *
1516352 TATAGGCGTGAAATGGTGATAGAAGATGGTAATGA
1 TATAGGCGTGAAATGGTGATGGAAGATGGTGATGT
* *
1516387 TATAGGCGTGCAATGGTAATGGAAGATGGTGATGT
1 TATAGGCGTGAAATGGTGATGGAAGATGGTGATGT
1516422 TATAGGCGTGAAAATGGTGATGGAAGATGGTGATGT
1 TATAGGCGTG-AAATGGTGATGGAAGATGGTGATGT
1516458 T-TAGG
1 TATAGG
1516463 TAGTATCTTA
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
35 44 0.65
36 24 0.35
ACGTcount: A:0.32, C:0.04, G:0.37, T:0.28
Consensus pattern (35 bp):
TATAGGCGTGAAATGGTGATGGAAGATGGTGATGT
Found at i:1519945 original size:30 final size:30
Alignment explanation
Indices: 1519909--1519970 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
1519899 AAATAAAAGT
1519909 AAATAAAAAACCTTACCAGAACACTCACAA
1 AAATAAAAAACCTTACCAGAACACTCACAA
1519939 AAATAAAAAACCTTACCAGAACACTCACAA
1 AAATAAAAAACCTTACCAGAACACTCACAA
1519969 AA
1 AA
1519971 CCTCACTTGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.58, C:0.26, G:0.03, T:0.13
Consensus pattern (30 bp):
AAATAAAAAACCTTACCAGAACACTCACAA
Found at i:1520284 original size:16 final size:16
Alignment explanation
Indices: 1520251--1520299 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
1520241 TAAGGTAATG
1520251 GAATAAGAATAGATGAAA
1 GAATAAGAA-A-ATGAAA
1520269 GAATAAGAAAATGAAA
1 GAATAAGAAAATGAAA
* * *
1520285 TAGTAAGAAAGTGAA
1 GAATAAGAAAATGAA
1520300 GATAACTTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
16 18 0.64
17 1 0.04
18 9 0.32
ACGTcount: A:0.61, C:0.00, G:0.22, T:0.16
Consensus pattern (16 bp):
GAATAAGAAAATGAAA
Found at i:1520524 original size:13 final size:13
Alignment explanation
Indices: 1520508--1520548 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
1520498 AGTCTTTTTC
1520508 TTTTCTTTTTTGT
1 TTTTCTTTTTTGT
* *
1520521 TTTTCTTCTTTCT
1 TTTTCTTTTTTGT
1520534 TTTTCTCTTTTTGT
1 TTTTCT-TTTTTGT
1520548 T
1 T
1520549 GCTTTTGTTG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
13 17 0.74
14 6 0.26
ACGTcount: A:0.00, C:0.15, G:0.05, T:0.80
Consensus pattern (13 bp):
TTTTCTTTTTTGT
Found at i:1520544 original size:27 final size:24
Alignment explanation
Indices: 1520500--1520548 Score: 71
Period size: 27 Copynumber: 1.9 Consensus size: 24
1520490 GATGTAGGAG
1520500 TCTTTTTCTTTTCTTTTTTGTTTT
1 TCTTTTTCTTTTCTTTTTTGTTTT
1520524 TCTTCTTTCTTTTTCTCTTTTTGTT
1 TCTT-TTTC-TTTTCT-TTTTTGTT
1520549 GCTTTTGTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 4 0.18
25 4 0.18
26 6 0.27
27 8 0.36
ACGTcount: A:0.00, C:0.16, G:0.04, T:0.80
Consensus pattern (24 bp):
TCTTTTTCTTTTCTTTTTTGTTTT
Found at i:1520896 original size:11 final size:11
Alignment explanation
Indices: 1520880--1520908 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
1520870 GAATGCCTTG
1520880 ATGATGATTGA
1 ATGATGATTGA
1520891 ATGATGATTGA
1 ATGATGATTGA
1520902 ATGATGA
1 ATGATGA
1520909 ATAGATGGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.28, T:0.34
Consensus pattern (11 bp):
ATGATGATTGA
Found at i:1521027 original size:36 final size:35
Alignment explanation
Indices: 1520934--1521044 Score: 161
Period size: 35 Copynumber: 3.2 Consensus size: 35
1520924 TTGGTGGTTA
* * * *
1520934 TATAGGCGTGAAATGGTGATAGAAGATGGTAATGA
1 TATAGGCGTGAAATGGTAATGGAAGATGGTGATGT
*
1520969 TATAGGCGTGCAATGGTAATGGAAGATGGTGATGT
1 TATAGGCGTGAAATGGTAATGGAAGATGGTGATGT
1521004 TATAGGCGTGAAAATGGTAATGGAAGATGGTGATGT
1 TATAGGCGTG-AAATGGTAATGGAAGATGGTGATGT
1521040 T-TAGG
1 TATAGG
1521045 TAGTATCTTA
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
35 44 0.64
36 25 0.36
ACGTcount: A:0.32, C:0.04, G:0.36, T:0.28
Consensus pattern (35 bp):
TATAGGCGTGAAATGGTAATGGAAGATGGTGATGT
Found at i:1523251 original size:36 final size:35
Alignment explanation
Indices: 1523158--1523268 Score: 152
Period size: 35 Copynumber: 3.2 Consensus size: 35
1523148 TTGGTGGTTA
* * * *
1523158 TATAGGCATGAAATGGTGATAGAAGATGGTAATGA
1 TATAGGCGTGAAATGGTGATGGAAGATGGTGATGT
* *
1523193 TATAGGCGTGCAATGGTAATGGAAGATGGTGATGT
1 TATAGGCGTGAAATGGTGATGGAAGATGGTGATGT
1523228 TATAGGCGTGAAAATGGTGATGGAAGATGGTGATGT
1 TATAGGCGTG-AAATGGTGATGGAAGATGGTGATGT
1523264 T-TAGG
1 TATAGG
1523269 TAGTATCTTA
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
35 43 0.64
36 24 0.36
ACGTcount: A:0.32, C:0.04, G:0.36, T:0.28
Consensus pattern (35 bp):
TATAGGCGTGAAATGGTGATGGAAGATGGTGATGT
Found at i:1526803 original size:12 final size:11
Alignment explanation
Indices: 1526779--1526817 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
1526769 TGATGGGGAT
*
1526779 ATAAAAAAATA
1 ATAAAATAATA
1526790 ATAAAATTAATA
1 ATAAAA-TAATA
1526802 ATATAAATAATA
1 ATA-AAATAATA
1526814 ATAA
1 ATAA
1526818 TTATTATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
11 7 0.28
12 15 0.60
13 3 0.12
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
ATAAAATAATA
Found at i:1526823 original size:25 final size:26
Alignment explanation
Indices: 1526777--1526848 Score: 67
Period size: 28 Copynumber: 2.7 Consensus size: 26
1526767 GCTGATGGGG
*
1526777 ATATAAAAAAATAATAA-AATTA-ATA
1 ATAT-AAATAATAATAATAATTATATA
* *
1526802 ATATAAATAATAATAATTATTATTATT
1 ATATAAATAATAATAATAATTA-TATA
*
1526829 ATAATAAATATTAATAATAA
1 AT-ATAAATAATAATAATAA
1526849 CATGGACAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
24 11 0.29
25 8 0.21
27 4 0.11
28 15 0.39
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (26 bp):
ATATAAATAATAATAATAATTATATA
Found at i:1529640 original size:10 final size:10
Alignment explanation
Indices: 1529625--1529654 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
1529615 CACATGGGGC
1529625 TAAATTAAAA
1 TAAATTAAAA
1529635 TAAATTAAAA
1 TAAATTAAAA
1529645 TAAATTAAAA
1 TAAATTAAAA
1529655 CTACATGGCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (10 bp):
TAAATTAAAA
Found at i:1534558 original size:103 final size:103
Alignment explanation
Indices: 1534379--1534591 Score: 383
Period size: 103 Copynumber: 2.1 Consensus size: 103
1534369 GGGTCTACGC
1534379 GGTCCTTCGAGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
1 GGTCCTTCGAGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
* *
1534444 CCTTGGCATATGTATATGATTCTTAAGGAATGATATGT
66 CCCTAGCATATGTATATGATTCTTAAGGAATGATATGT
1534482 GGTCCTTC-AGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGA
1 GGTCCTTCGA-GACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGA
*
1534546 TCCCTAGTATATGTATATGATTCTTAAGGAATGATATGT
65 TCCCTAGCATATGTATATGATTCTTAAGGAATGATATGT
1534585 GGTCCTT
1 GGTCCTT
1534592 ATGGATATTA
Statistics
Matches: 106, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
102 1 0.01
103 105 0.99
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.36
Consensus pattern (103 bp):
GGTCCTTCGAGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
CCCTAGCATATGTATATGATTCTTAAGGAATGATATGT
Found at i:1534642 original size:23 final size:23
Alignment explanation
Indices: 1534608--1534675 Score: 86
Period size: 23 Copynumber: 3.0 Consensus size: 23
1534598 ATTATTATAT
1534608 GGCACTAC-GGTGCAATTCTACGC
1 GGCACT-CTGGTGCAATTCTACGC
*
1534631 GGCACTCTGGTGCAATTCTACGT
1 GGCACTCTGGTGCAATTCTACGC
*
1534654 GGCACT-TCGGTGCAATTATACG
1 GGCACTCT-GGTGCAATTCTACG
1534676 AGTTGTGGTG
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
22 2 0.05
23 39 0.95
ACGTcount: A:0.21, C:0.26, G:0.26, T:0.26
Consensus pattern (23 bp):
GGCACTCTGGTGCAATTCTACGC
Found at i:1539788 original size:103 final size:103
Alignment explanation
Indices: 1539604--1539821 Score: 382
Period size: 103 Copynumber: 2.1 Consensus size: 103
1539594 GTCGAGGGTC
* * *
1539604 TATGCGGTCCTTTGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATACATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* *
1539669 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
1539707 TATGTGGTCCTTCGGGACATACATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATACATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
1539772 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
1539810 TATGTGGTCCTT
1 TATGTGGTCCTT
1539822 ATGGACATTA
Statistics
Matches: 109, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 109 1.00
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.36
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATACATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
Found at i:1539871 original size:23 final size:23
Alignment explanation
Indices: 1539838--1539905 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
1539828 ATTATTATAT
1539838 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* * *
1539861 GGCACTCCGGTGTAATTCTACGT
1 GGCACTACGGTGCAATTCTACGC
* *
1539884 GGCACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTCTACG
1539906 AGCTGTGGTG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.21, C:0.26, G:0.26, T:0.26
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:1542283 original size:26 final size:26
Alignment explanation
Indices: 1542243--1542292 Score: 84
Period size: 26 Copynumber: 1.9 Consensus size: 26
1542233 CTAACCTCCC
1542243 ACAATTCTTTCTAATTAGACGATGAT
1 ACAATTCTTTCTAATTAGACGATGAT
1542269 ACAATTTCTTT-TAATTAGACGATG
1 ACAA-TTCTTTCTAATTAGACGATG
1542293 CGTGTCATCG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 17 0.74
27 6 0.26
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.40
Consensus pattern (26 bp):
ACAATTCTTTCTAATTAGACGATGAT
Found at i:1553943 original size:29 final size:29
Alignment explanation
Indices: 1553901--1553959 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
1553891 ATTTTCACCT
*
1553901 AACTAAATTGATGTATGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
1553930 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
1553959 A
1 A
1553960 TTAATTTAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.47, C:0.14, G:0.14, T:0.25
Consensus pattern (29 bp):
AACTAAATTGATGTAAGCAATGACATCAA
Found at i:1555872 original size:2 final size:2
Alignment explanation
Indices: 1555865--1555892 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1555855 ATTATTTAAA
1555865 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
1555893 TTATTTATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1555948 original size:16 final size:17
Alignment explanation
Indices: 1555929--1555971 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
1555919 ATAAAAAGTA
1555929 ATAATAAATTAATA-TT
1 ATAATAAATTAATATTT
1555945 ATAAATAAA-TAATATTT
1 AT-AATAAATTAATATTT
*
1555962 AAAATAAATT
1 ATAATAAATT
1555972 TAAAAGTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
16 13 0.57
17 10 0.43
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATAATAAATTAATATTT
Found at i:1557207 original size:3 final size:3
Alignment explanation
Indices: 1557199--1557252 Score: 72
Period size: 3 Copynumber: 17.3 Consensus size: 3
1557189 GGCTTGTAAT
**
1557199 TAA TAA TAAA TAA TAA TAA TAA TAAA TAA TAA TAA TAA TAA TTT TAA
1 TAA TAA T-AA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA
1557246 TAA TAA T
1 TAA TAA T
1557253 TTAAGAAAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
3 39 0.87
4 6 0.13
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:1557217 original size:13 final size:13
Alignment explanation
Indices: 1557199--1557240 Score: 61
Period size: 13 Copynumber: 3.3 Consensus size: 13
1557189 GGCTTGTAAT
1557199 TAATAATAA-ATAA
1 TAATAATAATA-AA
1557212 TAATAATAATAAA
1 TAATAATAATAAA
1557225 TAATAATAAT-AA
1 TAATAATAATAAA
1557237 TAAT
1 TAAT
1557241 TTTAATAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.21
13 21 0.75
14 1 0.04
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
TAATAATAATAAA
Found at i:1557220 original size:16 final size:16
Alignment explanation
Indices: 1557199--1557252 Score: 83
Period size: 16 Copynumber: 3.4 Consensus size: 16
1557189 GGCTTGTAAT
1557199 TAATAATAAATAATAA
1 TAATAATAAATAATAA
1557215 TAATAATAAATAATAA
1 TAATAATAAATAATAA
**
1557231 TAATAAT-AATTTTAA
1 TAATAATAAATAATAA
1557246 TAATAAT
1 TAATAAT
1557253 TTAAGAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
15 13 0.36
16 23 0.64
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
TAATAATAAATAATAA
Found at i:1558297 original size:76 final size:76
Alignment explanation
Indices: 1557405--1558270 Score: 1615
Period size: 76 Copynumber: 11.4 Consensus size: 76
1557395 GAGGTCTTAA
1557405 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
*
1557470 AAGCTTTTTGG
66 AGGCTTTTTGG
* *
1557481 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCACAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1557546 AGGCTTTTTGG
66 AGGCTTTTTGG
*
1557557 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1557622 AGGCTTTTTGG
66 AGGCTTTTTGG
*
1557633 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAATATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1557698 AGGCTTTTTGG
66 AGGCTTTTTGG
1557709 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1557774 AGGCTTTTTGG
66 AGGCTTTTTGG
** *
1557785 AAACATCATGCACTATAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1557850 AGGCTTTTTGG
66 AGGCTTTTTGG
1557861 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1557926 AGGCTTTTTGG
66 AGGCTTTTTGG
* * *
1557937 AAACATCATGTACTGCAGGACTTACAGATGACCCTAAGGCTTTAAAAATATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1558002 AGGCTTTTTGG
66 AGGCTTTTTGG
1558013 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1558078 AGGCTTTTTGG
66 AGGCTTTTTGG
1558089 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1558154 AGGCTTTTTGG
66 AGGCTTTTTGG
*
1558165 AAACATCATGCACTACAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1558230 AGGCTTTTTGG
66 AGGCTTTTTGG
*
1558241 AAACATCATGCACTGCATGACTTACAGATG
1 AAACATCATGCACTGCAGGACTTACAGATG
1558271 TGGGAAATAG
Statistics
Matches: 768, Mismatches: 22, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 768 1.00
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.23
Consensus pattern (76 bp):
AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
AGGCTTTTTGG
Found at i:1558559 original size:170 final size:171
Alignment explanation
Indices: 1558267--1558606 Score: 567
Period size: 170 Copynumber: 2.0 Consensus size: 171
1558257 ATGACTTACA
*
1558267 GATGTGGGAAATAGTTTATTAAGTAAAAAAACTAAGAAAATCATTTTCTTACTTTTCAACAATTT
1 GATGTGGGAAATAGTTTACTAAGTAAAAAAACTAAGAAAATCATTTTCTTACTTTTCAACAATTT
* **
1558332 CATTTTCAGAAATGATTGAATGAGAAACTATGAAAATCGTTTTCTCATTA-TTTTTTTTTCAAAA
66 CATTTTCAGAAAAGATAAAATGAGAAACTATGAAAATCGTTTTCTCATTATTTTTTTTTTCAAAA
*
1558396 TAACATGTTGACTGGGTAACCTGCCCCAATCTCAAGATAAG
131 TAACATGTTGACTGGGTAACATGCCCCAATCTCAAGATAAG
* *
1558437 GATGTTGGAAATAGTTTACTAAGTAAAAAAACTAAGAAAATCGTTTTCTTACTTTTCAACAATTT
1 GATGTGGGAAATAGTTTACTAAGTAAAAAAACTAAGAAAATCATTTTCTTACTTTTCAACAATTT
* *
1558502 CATTTT-AGAAAAGATAAAATGAGAAACTATGAAAATCGTTTTCTCATTCTGTTTTTTTTTTAAA
66 CATTTTCAGAAAAGATAAAATGAGAAACTATGAAAATCGTTTTCTCATTAT-TTTTTTTTTCAAA
*
1558566 ATAACATGTTGATTGGGTAACATGCCCCAATCTCAAGATAA
130 ATAACATGTTGACTGGGTAACATGCCCCAATCTCAAGATAA
1558607 TGCTAATTTT
Statistics
Matches: 158, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
169 39 0.25
170 68 0.43
171 51 0.32
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (171 bp):
GATGTGGGAAATAGTTTACTAAGTAAAAAAACTAAGAAAATCATTTTCTTACTTTTCAACAATTT
CATTTTCAGAAAAGATAAAATGAGAAACTATGAAAATCGTTTTCTCATTATTTTTTTTTTCAAAA
TAACATGTTGACTGGGTAACATGCCCCAATCTCAAGATAAG
Found at i:1559620 original size:40 final size:41
Alignment explanation
Indices: 1559564--1559651 Score: 160
Period size: 40 Copynumber: 2.2 Consensus size: 41
1559554 TTTCATGTGG
1559564 TTTCTGTCGAGATGTAAAACACTTGACAACACATTCATCCT
1 TTTCTGTCGAGATGTAAAACACTTGACAACACATTCATCCT
*
1559605 TTTCTGTTG-GATGTAAAACACTTGACAACACATTCATCCT
1 TTTCTGTCGAGATGTAAAACACTTGACAACACATTCATCCT
1559645 TTTCTGT
1 TTTCTGT
1559652 GGCTTCTGCT
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
40 38 0.83
41 8 0.17
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.36
Consensus pattern (41 bp):
TTTCTGTCGAGATGTAAAACACTTGACAACACATTCATCCT
Found at i:1561991 original size:114 final size:114
Alignment explanation
Indices: 1561791--1562010 Score: 386
Period size: 114 Copynumber: 1.9 Consensus size: 114
1561781 GATCATGCAG
* * *
1561791 TTCATCTTTCAATTCCAATGATTGGTTTTGGGGTTCCTACCGAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
*
1561856 ACACTTCCAGAAGATGCTATTGGATCTCCTTATTTCTACTATGAGTAAA
66 ACACTTCCAGAAGATGCTATTGGAGCTCCTTATTTCTACTATGAGTAAA
*
1561905 TTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTTATACCAAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
*
1561970 ACACTTCCAGAAGATGCTATTGGGGCTCCTTATTTCTACTA
66 ACACTTCCAGAAGATGCTATTGGAGCTCCTTATTTCTACTA
1562011 CGAGAACATG
Statistics
Matches: 100, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
114 100 1.00
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (114 bp):
TTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
ACACTTCCAGAAGATGCTATTGGAGCTCCTTATTTCTACTATGAGTAAA
Found at i:1564055 original size:7 final size:7
Alignment explanation
Indices: 1564038--1564093 Score: 60
Period size: 7 Copynumber: 7.7 Consensus size: 7
1564028 ATTTCTCCCA
1564038 TTTTTCTT
1 TTTTTC-T
1564046 TTTTTCT
1 TTTTTCT
1564053 TTTTTCT
1 TTTTTCT
1564060 CTTTTT-T
1 -TTTTTCT
*
1564067 TTTCTTTT
1 TTT-TTCT
1564075 TTTTTCT
1 TTTTTCT
*
1564082 GTTTTCT
1 TTTTTCT
1564089 TTTTT
1 TTTTT
1564094 TGCTGGATTT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
6 3 0.07
7 24 0.57
8 15 0.36
ACGTcount: A:0.00, C:0.12, G:0.02, T:0.86
Consensus pattern (7 bp):
TTTTTCT
Found at i:1564065 original size:10 final size:10
Alignment explanation
Indices: 1564044--1564091 Score: 62
Period size: 10 Copynumber: 4.7 Consensus size: 10
1564034 CCCATTTTTC
1564044 TTTTTTTC-T
1 TTTTTTTCTT
*
1564053 TTTTTCTCTT
1 TTTTTTTCTT
1564063 TTTTTTTCTT
1 TTTTTTTCTT
1564073 TTTTTTTCTGT
1 TTTTTTTCT-T
1564084 TTTCTTTT
1 TTT-TTTT
1564092 TTTGCTGGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
9 7 0.21
10 19 0.56
11 4 0.12
12 4 0.12
ACGTcount: A:0.00, C:0.12, G:0.02, T:0.85
Consensus pattern (10 bp):
TTTTTTTCTT
Found at i:1564069 original size:12 final size:12
Alignment explanation
Indices: 1564052--1564092 Score: 50
Period size: 11 Copynumber: 3.5 Consensus size: 12
1564042 TCTTTTTTTC
1564052 TTTTTTCTC-TT
1 TTTTTTCTCTTT
1564063 TTTTTT-TCTTT
1 TTTTTTCTCTTT
*
1564074 TTTTTTCTGTTT
1 TTTTTTCTCTTT
1564086 TCTTTTT
1 T-TTTTT
1564093 TTGCTGGATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
10 2 0.08
11 14 0.54
12 5 0.19
13 5 0.19
ACGTcount: A:0.00, C:0.12, G:0.02, T:0.85
Consensus pattern (12 bp):
TTTTTTCTCTTT
Found at i:1564076 original size:27 final size:27
Alignment explanation
Indices: 1564038--1564094 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 27
1564028 ATTTCTCCCA
1564038 TTTTTCTTTTTTTCTT-T-TTTCTCTTTT
1 TTTTTCTTTTTTT-TTCTGTTT-TCTTTT
1564065 TTTTTCTTTTTTTTTCTGTTTTCTTTT
1 TTTTTCTTTTTTTTTCTGTTTTCTTTT
1564092 TTT
1 TTT
1564095 GCTGGATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
26 2 0.07
27 23 0.82
28 3 0.11
ACGTcount: A:0.00, C:0.12, G:0.02, T:0.86
Consensus pattern (27 bp):
TTTTTCTTTTTTTTTCTGTTTTCTTTT
Found at i:1564080 original size:37 final size:38
Alignment explanation
Indices: 1564038--1564120 Score: 100
Period size: 36 Copynumber: 2.2 Consensus size: 38
1564028 ATTTCTCCCA
***
1564038 TTTTTCTTTTTTTCTTTTTTCT-CTTTTTTTTTCTTT-T
1 TTTTTCTTTTTTTCTTTTTT-TGCTGGATTTTTCTTTAT
*
1564075 TTTTTC-TGTTTTCTTTTTTTGCTGGATTTTTCTTTAT
1 TTTTTCTTTTTTTCTTTTTTTGCTGGATTTTTCTTTAT
1564112 TTTTTCTTT
1 TTTTTCTTT
1564121 GTTGGATGAG
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
35 1 0.03
36 23 0.61
37 13 0.34
38 1 0.03
ACGTcount: A:0.02, C:0.12, G:0.05, T:0.81
Consensus pattern (38 bp):
TTTTTCTTTTTTTCTTTTTTTGCTGGATTTTTCTTTAT
Found at i:1569069 original size:15 final size:16
Alignment explanation
Indices: 1569049--1569083 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
1569039 ATAAATAAAT
1569049 AAAATAAAAAGT-ATA
1 AAAATAAAAAGTAATA
*
1569064 AAAATAATAAGTAATA
1 AAAATAAAAAGTAATA
1569080 AAAA
1 AAAA
1569084 ATTTGAAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.20
Consensus pattern (16 bp):
AAAATAAAAAGTAATA
Found at i:1569709 original size:21 final size:22
Alignment explanation
Indices: 1569685--1569728 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
1569675 AAACATTTTC
1569685 TTAAGATAATAA-AAATTTATT
1 TTAAGATAATAAGAAATTTATT
* * *
1569706 TTAATATAGTAAGATATTTATT
1 TTAAGATAATAAGAAATTTATT
1569728 T
1 T
1569729 ATTCAAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (22 bp):
TTAAGATAATAAGAAATTTATT
Found at i:1569944 original size:2 final size:2
Alignment explanation
Indices: 1569937--1569980 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
1569927 ATTATTTAAA
*
1569937 AT AT AT AT AT AT AT AT AA 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
1569979 AT
1 AT
1569981 TTATGTGACT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1570010 original size:17 final size:17
Alignment explanation
Indices: 1569990--1570023 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
1569980 TTTATGTGAC
1569990 TAATATGAAAA-TAATAA
1 TAATAT-AAAAGTAATAA
1570007 TAATATAAAAGTAATAA
1 TAATATAAAAGTAATAA
1570024 CAAATTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (17 bp):
TAATATAAAAGTAATAA
Found at i:1570048 original size:16 final size:16
Alignment explanation
Indices: 1570029--1570061 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1570019 AATAACAAAT
1570029 TAATA-TTATAAATAAA
1 TAATATTTA-AAATAAA
1570045 TAATATTTAAAATAAA
1 TAATATTTAAAATAAA
1570061 T
1 T
1570062 TTAAAAGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.81
17 3 0.19
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
TAATATTTAAAATAAA
Found at i:1571318 original size:12 final size:12
Alignment explanation
Indices: 1571275--1571334 Score: 59
Period size: 12 Copynumber: 5.0 Consensus size: 12
1571265 GGCTTGTAAT
1571275 TAATAATAATTAA
1 TAATAAT-ATTAA
*
1571288 TAATAATAATAA
1 TAATAATATTAA
*
1571300 TAATAATAATAA
1 TAATAATATTAA
** *
1571312 TTTTAATTTTAA
1 TAATAATATTAA
1571324 TAATAAT-TTAA
1 TAATAATATTAA
1571335 GAAAAATGAA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
11 4 0.10
12 29 0.73
13 7 0.17
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
TAATAATATTAA
Found at i:1571330 original size:3 final size:3
Alignment explanation
Indices: 1571275--1571312 Score: 67
Period size: 3 Copynumber: 12.3 Consensus size: 3
1571265 GGCTTGTAAT
1571275 TAA TAA TAA TTAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1571313 TTTAATTTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 31 0.91
4 3 0.09
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:1576416 original size:3 final size:3
Alignment explanation
Indices: 1576408--1576448 Score: 57
Period size: 3 Copynumber: 13.7 Consensus size: 3
1576398 TAACATATGT
*
1576408 TAA TAA TAA TAA TAA TAA TAA T-T TAA TTAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TA
1576449 TTTTTTATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 1 0.03
3 30 0.88
4 3 0.09
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:1577564 original size:22 final size:23
Alignment explanation
Indices: 1577531--1577578 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
1577521 TTAATTTATA
1577531 AAACGTTAAATTATAAAATA-TT
1 AAACGTTAAATTATAAAATAGTT
*
1577553 AAACG-TATAATTATAAATTAGTT
1 AAACGTTA-AATTATAAAATAGTT
1577576 AAA
1 AAA
1577579 AATTAAATGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 2 0.09
22 16 0.70
23 5 0.22
ACGTcount: A:0.54, C:0.04, G:0.06, T:0.35
Consensus pattern (23 bp):
AAACGTTAAATTATAAAATAGTT
Found at i:1579944 original size:21 final size:20
Alignment explanation
Indices: 1579914--1579958 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
1579904 ATTAAATCAC
1579914 TAAACTAAAAGGGAATAAAT
1 TAAACTAAAAGGGAATAAAT
**
1579934 TAAACATAAAAGGGGCTAAAT
1 TAAAC-TAAAAGGGAATAAAT
1579955 TAAA
1 TAAA
1579959 ACAAATCGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 5 0.23
21 17 0.77
ACGTcount: A:0.58, C:0.07, G:0.16, T:0.20
Consensus pattern (20 bp):
TAAACTAAAAGGGAATAAAT
Found at i:1581731 original size:21 final size:21
Alignment explanation
Indices: 1581705--1581760 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
1581695 TTATGGATAG
*
1581705 CTCGAAGGACTTATCATATTT
1 CTCGAAAGACTTATCATATTT
*
1581726 CTCGAAAGACTTATCATCTTT
1 CTCGAAAGACTTATCATATTT
1581747 CTCGAAAGACTTAT
1 CTCGAAAGACTTAT
1581761 AGATGACCCG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.30, C:0.21, G:0.12, T:0.36
Consensus pattern (21 bp):
CTCGAAAGACTTATCATATTT
Found at i:1582029 original size:39 final size:39
Alignment explanation
Indices: 1581961--1582363 Score: 623
Period size: 39 Copynumber: 10.4 Consensus size: 39
1581951 TAAAAAAATA
* *
1581961 ATCTCAAGTGAGAT-AAATCTTCTATTTCGAGTGAAACT
1 ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAACT
*
1581999 ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTAAAACT
1 ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAACT
*
1582038 ATCTCAAGCGAGATAAAAATCTTCTGTTTCGAATGAAACT
1 ATCTCAAGCGAGAT-AAAATCTTCTGTTTCGAGTGAAACT
* *
1582078 ATCTCAAGAGAGATAAAATCTTCTGTTTCTAGTGAAACT
1 ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAACT
* *
1582117 ATCTCAAGTGTGATAAAATCTTCTGTTTCGAGTGAAACT
1 ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAACT
*
1582156 ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAATT
1 ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAACT
*
1582195 ATCTCAAGCGAGATAAAATCTTTTGTTTCGAGTGAAACT
1 ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAACT
* *
1582234 ATCTCAAGCGAGATAAAATCTTCTATTTCGAATGAAA-T
1 ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAACT
* * *
1582272 AATCTTAAGTGAGATAAAATCTTCTGTTTCGAGTGAAATT
1 -ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAACT
1582312 ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAA-T
1 ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAACT
*
1582350 TTCTCAAGCGAGAT
1 ATCTCAAGCGAGAT
1582364 GTTTATCCCT
Statistics
Matches: 335, Mismatches: 26, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
38 28 0.08
39 270 0.81
40 37 0.11
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.33
Consensus pattern (39 bp):
ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAACT
Found at i:1582049 original size:19 final size:20
Alignment explanation
Indices: 1581994--1582055 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
1581984 ATTTCGAGTG
1581994 AAACTATCTCAAGCGAGATA
1 AAACTATCTCAAGCGAGATA
****
1582014 AAATCT-TCTGTTTCGAG-TA
1 AAA-CTATCTCAAGCGAGATA
1582033 AAACTATCTCAAGCGAGATA
1 AAACTATCTCAAGCGAGATA
1582053 AAA
1 AAA
1582056 ATCTTCTGTT
Statistics
Matches: 31, Mismatches: 8, Indels: 6
0.69 0.18 0.13
Matches are distributed among these distances:
18 2 0.06
19 12 0.39
20 15 0.48
21 2 0.06
ACGTcount: A:0.42, C:0.18, G:0.15, T:0.26
Consensus pattern (20 bp):
AAACTATCTCAAGCGAGATA
Found at i:1582159 original size:22 final size:22
Alignment explanation
Indices: 1582095--1582159 Score: 52
Period size: 22 Copynumber: 3.2 Consensus size: 22
1582085 GAGAGATAAA
*
1582095 ATCTTCTGTTTCTAGTGAAACT
1 ATCTTCTGTTTCGAGTGAAACT
* *
1582117 ATC-TCAAGTGT-GA-T-AAA--
1 ATCTTC-TGTTTCGAGTGAAACT
1582134 ATCTTCTGTTTCGAGTGAAACT
1 ATCTTCTGTTTCGAGTGAAACT
1582156 ATCT
1 ATCT
1582160 CAAGCGAGAT
Statistics
Matches: 31, Mismatches: 5, Indels: 14
0.62 0.10 0.28
Matches are distributed among these distances:
17 6 0.19
18 4 0.13
19 4 0.13
20 4 0.13
21 3 0.10
22 10 0.32
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (22 bp):
ATCTTCTGTTTCGAGTGAAACT
Found at i:1582545 original size:42 final size:41
Alignment explanation
Indices: 1582448--1582553 Score: 124
Period size: 42 Copynumber: 2.6 Consensus size: 41
1582438 CCTGAAGGTG
* * *
1582448 TTATGGATGGCCCGAATGACTTATCATCATGCTCGAAAGAC
1 TTATAGATGGCCCGAAGGACTTAGCATCATGCTCGAAAGAC
* * *
1582489 TTATAAATGACCCGAAGGATTTAAGCATCATGCTCGAAAGAC
1 TTATAGATGGCCCGAAGGACTT-AGCATCATGCTCGAAAGAC
*
1582531 TTACT-GATGGCCCGAAGAACTTA
1 TTA-TAGATGGCCCGAAGGACTTA
1582554 CTCATCAAGA
Statistics
Matches: 53, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
41 18 0.34
42 34 0.64
43 1 0.02
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (41 bp):
TTATAGATGGCCCGAAGGACTTAGCATCATGCTCGAAAGAC
Found at i:1582684 original size:57 final size:57
Alignment explanation
Indices: 1582612--1582778 Score: 191
Period size: 57 Copynumber: 2.9 Consensus size: 57
1582602 GTTTTCAGTT
*
1582612 ATCATCAAGAAACCCCTAAAAATTAGACTTAATTTCTTTAAAAATTCTTTGGAAAT-A
1 ATCATCAAGAAACCCCT-AAAATTAGACTTAATTTCTTTAAAAATTCATTGGAAATCA
*
1582669 ATCATCAAGAAACCCCTAAAATTATGA-TTAACTTCTTTTAAAAATTCATTGGAAATCA
1 ATCATCAAGAAACCCCTAAAATTA-GACTTAATTTC-TTTAAAAATTCATTGGAAATCA
* * * * * *
1582727 TTC-TCAAGAAACCCCTGAAAATCAGGCTTAGTTTC--TAAAAACTCATTTGAAA
1 ATCATCAAGAAACCCCT-AAAATTAGACTTAATTTCTTTAAAAATTCATTGGAAA
1582779 ATATAATGTC
Statistics
Matches: 96, Mismatches: 9, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
55 15 0.16
56 14 0.15
57 52 0.54
58 15 0.16
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.32
Consensus pattern (57 bp):
ATCATCAAGAAACCCCTAAAATTAGACTTAATTTCTTTAAAAATTCATTGGAAATCA
Found at i:1584723 original size:4 final size:4
Alignment explanation
Indices: 1584714--1584864 Score: 64
Period size: 4 Copynumber: 35.8 Consensus size: 4
1584704 TTTTATATGT
1584714 TTTC TTTC TTATTC TTT- -TTC TTTC TTTC TTTC TTT- TTTC TTTTC TTTTGC
1 TTTC TTTC -T-TTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC -TTTC -TTT-C
* *
1584764 TTTC TTTTGC TCTC TCTTC -TT- TTTC TTTC TTTTGC TTTA TTT- TTCTC
1 TTTC -TTT-C TTTC T-TTC TTTC TTTC TTTC -TTT-C TTTC TTTC TT-TC
* * * *
1584811 TCTC TTTGAC TTTC TTCTC TTTA TCTTC TTTT TTTC TTT- TTTC TCTC
1 TTTC TTT--C TTTC TT-TC TTTC T-TTC TTTC TTTC TTTC TTTC TTTC
1584858 TTTC TTT
1 TTTC TTT
1584865 TCTGTGTTGT
Statistics
Matches: 115, Mismatches: 11, Indels: 42
0.68 0.07 0.25
Matches are distributed among these distances:
2 2 0.02
3 12 0.10
4 57 0.50
5 34 0.30
6 10 0.09
ACGTcount: A:0.03, C:0.23, G:0.03, T:0.72
Consensus pattern (4 bp):
TTTC
Found at i:1584732 original size:16 final size:15
Alignment explanation
Indices: 1584713--1584867 Score: 77
Period size: 16 Copynumber: 10.0 Consensus size: 15
1584703 GTTTTATATG
1584713 TTTTCTTTCTTATTCT
1 TTTTCTTTCTT-TTCT
1584729 TTTTCTTTC-TTTCT
1 TTTTCTTTCTTTTCT
*
1584743 TTCTTTTTTCTTTTCT
1 TT-TTCTTTCTTTTCT
*
1584759 TTTGCTTTCTTTTGCT
1 TTTTCTTTCTTTT-CT
* *
1584775 CTCTC-TTCTTTT-T
1 TTTTCTTTCTTTTCT
* *
1584788 CTTTCTTT-TGCTTTAT
1 TTTTCTTTCT--TTTCT
* **
1584804 TTTTCTCTCTCTTTGA
1 TTTTCTTTCT-TTTCT
*
1584820 CTTTCTTCTCTTTATCT
1 TTTTCTT-TCTTT-TCT
*
1584837 TCTTTTTTTCTTTT-T
1 T-TTTCTTTCTTTTCT
*
1584852 TCTCTCTTTCTTTTCT
1 T-TTTCTTTCTTTTCT
1584868 GTGTTGTCAA
Statistics
Matches: 108, Mismatches: 19, Indels: 24
0.72 0.13 0.16
Matches are distributed among these distances:
13 6 0.06
14 8 0.07
15 39 0.36
16 40 0.37
17 10 0.09
18 5 0.05
ACGTcount: A:0.03, C:0.23, G:0.03, T:0.72
Consensus pattern (15 bp):
TTTTCTTTCTTTTCT
Found at i:1584767 original size:10 final size:10
Alignment explanation
Indices: 1584725--1584826 Score: 56
Period size: 10 Copynumber: 10.5 Consensus size: 10
1584715 TTCTTTCTTA
*
1584725 TTCTTTTTCT
1 TTCTTTTGCT
1584735 TTC-TTT-CT
1 TTCTTTTGCT
*
1584743 TTCTTTTTTCTT
1 TTC-TTTTGC-T
1584755 TTCTTTTGCT
1 TTCTTTTGCT
1584765 TTCTTTTGC-
1 TTCTTTTGCT
*
1584774 -TC-TCT-C-
1 TTCTTTTGCT
*
1584780 TTCTTTTTCT
1 TTCTTTTGCT
1584790 TTCTTTTGCT
1 TTCTTTTGCT
* *
1584800 TTATTTTTCT
1 TTCTTTTGCT
*
1584810 CTCTCTTTGACT
1 TTCT-TTTG-CT
1584822 TTCTT
1 TTCTT
1584827 CTCTTTATCT
Statistics
Matches: 72, Mismatches: 10, Indels: 19
0.71 0.10 0.19
Matches are distributed among these distances:
6 1 0.01
7 4 0.06
8 9 0.12
9 4 0.06
10 35 0.49
11 10 0.14
12 9 0.12
ACGTcount: A:0.02, C:0.23, G:0.04, T:0.72
Consensus pattern (10 bp):
TTCTTTTGCT
Found at i:1584797 original size:35 final size:35
Alignment explanation
Indices: 1584713--1584816 Score: 124
Period size: 35 Copynumber: 2.9 Consensus size: 35
1584703 GTTTTATATG
*
1584713 TTTTCTTTCTTATT-CTTTTTCTTTCTTTCT-TTCTT
1 TTTTCTTTCTT-TTGCTTTTT-TTTCTCTCTCTTCTT
*
1584748 TTTTCTTTTCTTTTGCTTTCTTTTGCTCTCTCTTC-T
1 TTTTC-TTTCTTTTGCTTT-TTTTTCTCTCTCTTCTT
1584784 TTTTCTTTCTTTTGCTTTATTTTTCTCTCTCTT
1 TTTTCTTTCTTTTGCTTT-TTTTTCTCTCTCTT
1584817 TGACTTTCTT
Statistics
Matches: 61, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
35 33 0.54
36 23 0.38
37 5 0.08
ACGTcount: A:0.02, C:0.22, G:0.03, T:0.73
Consensus pattern (35 bp):
TTTTCTTTCTTTTGCTTTTTTTTCTCTCTCTTCTT
Found at i:1584817 original size:47 final size:44
Alignment explanation
Indices: 1584730--1584860 Score: 103
Period size: 46 Copynumber: 2.9 Consensus size: 44
1584720 TCTTATTCTT
* * *
1584730 TTTCTT-TCTTTCT-TTCTTTTTTCTTTTCTTTTGCTTTCTTTTG-C
1 TTTCTTCTCTTTATCTTCTTTTTT-TATT-TTTT-CTCTCTTTTGAC
1584774 TCTCTCTTCT-TTT-TCTTTCTTTTGCTTTA-TTTTTCTCTCTCTTTGAC
1 T-T-TCTTCTCTTTATC-TTCTTTT--TTTATTTTTTCTCTCT-TTTGAC
*
1584821 TTTCTTCTCTTTATCTTCTTTTTTTCTTTTTTCTCTCTTT
1 TTTCTTCTCTTTATCTTCTTTTTTTATTTTTTCTCTCTTT
1584861 CTTTTCTGTG
Statistics
Matches: 72, Mismatches: 3, Indels: 24
0.73 0.03 0.24
Matches are distributed among these distances:
44 6 0.08
45 24 0.33
46 26 0.36
47 13 0.18
48 1 0.01
49 2 0.03
ACGTcount: A:0.02, C:0.23, G:0.03, T:0.72
Consensus pattern (44 bp):
TTTCTTCTCTTTATCTTCTTTTTTTATTTTTTCTCTCTTTTGAC
Found at i:1588352 original size:26 final size:26
Alignment explanation
Indices: 1588323--1588376 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
1588313 AAATAACTAA
*
1588323 AATAACAAATTAAAA-AAACA-ATATAC
1 AATAA-AAA-TAAAATAAACATAAATAC
1588349 AATAAAAATAAAATAAACATAAATAC
1 AATAAAAATAAAATAAACATAAATAC
1588375 AA
1 AA
1588377 GGACCTAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
24 5 0.20
25 8 0.32
26 12 0.48
ACGTcount: A:0.72, C:0.09, G:0.00, T:0.19
Consensus pattern (26 bp):
AATAAAAATAAAATAAACATAAATAC
Found at i:1588434 original size:20 final size:20
Alignment explanation
Indices: 1588405--1588454 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 20
1588395 ATTAAATCAC
*
1588405 TAAACTAAAAGGGAATAAAT
1 TAAACAAAAAGGGAATAAAT
*
1588425 TAAACAAAAAAGGGACTAAAT
1 TAAAC-AAAAAGGGAATAAAT
1588446 TAAAACAAA
1 T-AAACAAA
1588455 TCAAAATTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 5 0.19
21 17 0.65
22 4 0.15
ACGTcount: A:0.64, C:0.08, G:0.12, T:0.16
Consensus pattern (20 bp):
TAAACAAAAAGGGAATAAAT
Found at i:1588437 original size:21 final size:22
Alignment explanation
Indices: 1588411--1588454 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
1588401 TCACTAAACT
1588411 AAAAGGGAATAAATT-AAACAA
1 AAAAGGGAATAAATTAAAACAA
*
1588432 AAAAGGGACTAAATTAAAACAA
1 AAAAGGGAATAAATTAAAACAA
1588454 A
1 A
1588455 TCAAAATTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.66, C:0.07, G:0.14, T:0.14
Consensus pattern (22 bp):
AAAAGGGAATAAATTAAAACAA
Found at i:1589571 original size:48 final size:48
Alignment explanation
Indices: 1589500--1589600 Score: 202
Period size: 48 Copynumber: 2.1 Consensus size: 48
1589490 GCTTGGTGTC
1589500 GTGCTGGAGGAATCGACACTAATTGGGGCAGTGGGTGATGCTAGTTGA
1 GTGCTGGAGGAATCGACACTAATTGGGGCAGTGGGTGATGCTAGTTGA
1589548 GTGCTGGAGGAATCGACACTAATTGGGGCAGTGGGTGATGCTAGTTGA
1 GTGCTGGAGGAATCGACACTAATTGGGGCAGTGGGTGATGCTAGTTGA
1589596 GTGCT
1 GTGCT
1589601 TACTGGGTCG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 53 1.00
ACGTcount: A:0.22, C:0.13, G:0.40, T:0.26
Consensus pattern (48 bp):
GTGCTGGAGGAATCGACACTAATTGGGGCAGTGGGTGATGCTAGTTGA
Found at i:1589733 original size:24 final size:23
Alignment explanation
Indices: 1589687--1589734 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 23
1589677 GATTCGGGTT
*
1589687 TTGTAAAGGGTTTCGGGTCTTGG
1 TTGTAAAGGGTTTCGGGTATTGG
1589710 TTGTAAAATGGGTTT-GGGTATTGG
1 TTGT-AAA-GGGTTTCGGGTATTGG
1589734 T
1 T
1589735 CTTAGGTTGG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 4 0.18
24 12 0.55
25 6 0.27
ACGTcount: A:0.17, C:0.04, G:0.38, T:0.42
Consensus pattern (23 bp):
TTGTAAAGGGTTTCGGGTATTGG
Found at i:1590362 original size:14 final size:14
Alignment explanation
Indices: 1590343--1590372 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1590333 TCGTTTAGTA
*
1590343 TTTTATAATTTAAT
1 TTTTATAAATTAAT
1590357 TTTTATAAATTAAT
1 TTTTATAAATTAAT
1590371 TT
1 TT
1590373 AATGGTGCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
TTTTATAAATTAAT
Found at i:1603231 original size:18 final size:18
Alignment explanation
Indices: 1603208--1603248 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
1603198 ATTTAAAATC
*
1603208 ATAAAAATGTATTTTGTA
1 ATAAAAAGGTATTTTGTA
1603226 ATAAAAAGGTATTTTGTA
1 ATAAAAAGGTATTTTGTA
1603244 ATAAA
1 ATAAA
1603249 GTGAATATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.49, C:0.00, G:0.12, T:0.39
Consensus pattern (18 bp):
ATAAAAAGGTATTTTGTA
Found at i:1603450 original size:36 final size:36
Alignment explanation
Indices: 1603410--1603480 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
1603400 TTTATAGGTT
*
1603410 AATTGGTTGTTTTTCGTTTAATTTTTTCAGAATTAA
1 AATTGGTTATTTTTCGTTTAATTTTTTCAGAATTAA
*
1603446 AATTGGTTATTTTTCGTTTAATTTTTTCATAATTA
1 AATTGGTTATTTTTCGTTTAATTTTTTCAGAATTA
1603481 GATTTGACAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.25, C:0.06, G:0.11, T:0.58
Consensus pattern (36 bp):
AATTGGTTATTTTTCGTTTAATTTTTTCAGAATTAA
Found at i:1604510 original size:41 final size:41
Alignment explanation
Indices: 1604460--1604586 Score: 155
Period size: 41 Copynumber: 3.1 Consensus size: 41
1604450 CTTTCATGGT
*
1604460 GTTTGTATACAAACGCCGCTATAAACTTGTACTTTAGTGGC
1 GTTTATATACAAACGCCGCTATAAACTTGTACTTTAGTGGC
* * * * * *
1604501 GTTTATATACAAATGCCACCATAGACTCGTACTTTAGTGGT
1 GTTTATATACAAACGCCGCTATAAACTTGTACTTTAGTGGC
* * * *
1604542 GTTTTTATACAAACACCGCTATATACTTATACTTTAGTGGC
1 GTTTATATACAAACGCCGCTATAAACTTGTACTTTAGTGGC
1604583 GTTT
1 GTTT
1604587 TTGTTCAAAC
Statistics
Matches: 70, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
41 70 1.00
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.37
Consensus pattern (41 bp):
GTTTATATACAAACGCCGCTATAAACTTGTACTTTAGTGGC
Found at i:1610255 original size:21 final size:21
Alignment explanation
Indices: 1610231--1610278 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
1610221 ATTTATTATA
*
1610231 ATGGATTTAAAGTTGGTTTTT
1 ATGGATTTAAAGTTGGTTGTT
*
1610252 ATGGATTTAAAGTTTGTTGTT
1 ATGGATTTAAAGTTGGTTGTT
1610273 ATGGAT
1 ATGGAT
1610279 GTTATTTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (21 bp):
ATGGATTTAAAGTTGGTTGTT
Found at i:1610560 original size:44 final size:43
Alignment explanation
Indices: 1610512--1610649 Score: 116
Period size: 44 Copynumber: 3.2 Consensus size: 43
1610502 ATTTTAATTT
1610512 ACAAACGCCGCTATATGTCACAACCTTTACCGACATTTTTGGGA
1 ACAAACGCCGCTATATGTCACAACCTTTACCG-CATTTTTGGGA
** * * * * *****
1610556 ACAAACGCAACTATATGTCATAACATTTAGCGGCAGTTTAATTT
1 ACAAACGCCGCTATATGTCACAACCTTTA-CCGCATTTTTGGGA
* * * *
1610600 ACAAACGTCGTTATACGTCACAACCTTTATCG-ATTTTTGGGA
1 ACAAACGCCGCTATATGTCACAACCTTTACCGCATTTTTGGGA
1610642 ACAAACGC
1 ACAAACGC
1610650 AACTATATCA
Statistics
Matches: 66, Mismatches: 27, Indels: 4
0.68 0.28 0.04
Matches are distributed among these distances:
42 11 0.17
43 1 0.02
44 52 0.79
45 2 0.03
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (43 bp):
ACAAACGCCGCTATATGTCACAACCTTTACCGCATTTTTGGGA
Found at i:1610606 original size:88 final size:84
Alignment explanation
Indices: 1610504--1610688 Score: 275
Period size: 88 Copynumber: 2.2 Consensus size: 84
1610494 ATAACGACAT
*
1610504 TTTAATTTACAAACGCCGCTATATGTCACAACCTTTACCGACATTTTTGGGAACAAACGCAACTA
1 TTTAATTTACAAACGCCGCTATACGTCACAACCTTTACCG--ATTTTTGGGAACAAACGCAACTA
1610569 TATGTCATAACATTTAGCGGCAG
64 TA--TCATAACATTTAGCGGCAG
* * *
1610592 TTTAATTTACAAACGTCGTTATACGTCACAACCTTTATCGATTTTTGGGAACAAACGCAACTATA
1 TTTAATTTACAAACGCCGCTATACGTCACAACCTTTACCGATTTTTGGGAACAAACGCAACTATA
*
1610657 TCATAACATTTAGCGGCGG
66 TCATAACATTTAGCGGCAG
1610676 TTT--TTTACAAACG
1 TTTAATTTACAAACG
1610689 TCACAAAAGA
Statistics
Matches: 92, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
82 10 0.11
84 21 0.23
86 25 0.27
88 36 0.39
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32
Consensus pattern (84 bp):
TTTAATTTACAAACGCCGCTATACGTCACAACCTTTACCGATTTTTGGGAACAAACGCAACTATA
TCATAACATTTAGCGGCAG
Found at i:1613205 original size:18 final size:19
Alignment explanation
Indices: 1613182--1613238 Score: 55
Period size: 17 Copynumber: 3.0 Consensus size: 19
1613172 TTCTTATTAC
*
1613182 TTTATTTTCTTTATATA-T
1 TTTATTTTATTTATATATT
*
1613200 TTTA-TTTATTTATCTATT
1 TTTATTTTATTTATATATT
*
1613218 TTTATTTAGTATGTATATATT
1 TTTATTT--TATTTATATATT
1613239 ATTTTCACTA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
17 10 0.32
18 9 0.29
19 2 0.06
21 10 0.32
ACGTcount: A:0.25, C:0.04, G:0.04, T:0.68
Consensus pattern (19 bp):
TTTATTTTATTTATATATT
Found at i:1613211 original size:17 final size:18
Alignment explanation
Indices: 1613191--1613225 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1613181 CTTTATTTTC
1613191 TTTATATA-TTTTATTTA
1 TTTATATATTTTTATTTA
*
1613208 TTTATCTATTTTTATTTA
1 TTTATATATTTTTATTTA
1613226 GTATGTATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTATATATTTTTATTTA
Found at i:1613305 original size:9 final size:9
Alignment explanation
Indices: 1613291--1613330 Score: 57
Period size: 8 Copynumber: 4.7 Consensus size: 9
1613281 TTTTCTTGAC
*
1613291 TTTATTTTG
1 TTTATTTTA
1613300 TTTATTTTA
1 TTTATTTTA
1613309 TTTA-TTTA
1 TTTATTTTA
1613317 TTTA-TTTA
1 TTTATTTTA
1613325 TTTATT
1 TTTATT
1613331 CATTTTTTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
8 16 0.55
9 13 0.45
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.78
Consensus pattern (9 bp):
TTTATTTTA
Found at i:1613314 original size:4 final size:4
Alignment explanation
Indices: 1613300--1613342 Score: 61
Period size: 4 Copynumber: 10.8 Consensus size: 4
1613290 CTTTATTTTG
*
1613300 TTTA TTTTA TTTA TTTA TTTA TTTA TTTA TTCA TTT- TTTA TTT
1 TTTA -TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
1613343 CGTTTCTTCA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
3 3 0.09
4 28 0.80
5 4 0.11
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:1618941 original size:86 final size:85
Alignment explanation
Indices: 1618648--1619242 Score: 768
Period size: 86 Copynumber: 7.0 Consensus size: 85
1618638 CCTATTTGAG
* *
1618648 GCATAGCTCAAGGCGAGAAGGGCTATCTGCCAACAAAAGACCTTTGAGTTCGATTACACTCAGCT
1 GCATAGCTCAAGGCGAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTCAGCT
1618713 CAAAGGCACATCCAATTTACA
66 CAAAGGCACAT-CAATTTACA
* * * *
1618734 GCATAACTCAAGGCGAGAAGGGTTATCTGTCAAC-CAAGACCTTTGAGTTCGATTACACTCAGCT
1 GCATAGCTCAAGGCGAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTCAGCT
* *
1618798 CAAAGGAACATC-ATTTGCA
66 CAAAGGCACATCAATTTACA
* * * *
1618817 GTATAGCTCAAGGCGAGAAGGGCTATCTGCCAATAAAAGACCTTCGAGTTCGATAACACTCAGCT
1 GCATAGCTCAAGGCGAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTCAGCT
*
1618882 CAAAGGCATATCAAATTTACA
66 CAAAGGCACATC-AATTTACA
* * * *
1618903 ACATAGCTCAAGGCGATAAGGGCTATTTGCCAACAAAAGACCTTCGAGTTCGATTACACTCAGCT
1 GCATAGCTCAAGGCGAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTCAGCT
1618968 CAAAGGCACATCAAATTTACA
66 CAAAGGCACATC-AATTTACA
* * * * *
1618989 TCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAAGACCTTCGAGTTCGTTTACACTAAACT
1 GCATAGCTCAAGGCGAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTCAGCT
1619054 CAAAGGCACATC-ATTTACA
66 CAAAGGCACATCAATTTACA
* * * * * * * *
1619073 GTATAACTCAAGGCTAGAAGGGTTATCTGTCAA-AAAAGACATTCGTGTTTGATTACACTCAACT
1 GCATAGCTCAAGGCGAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTCAGCT
*
1619137 CAAAGGCACATC-ATTTGCA
66 CAAAGGCACATCAATTTACA
* * * * * *
1619156 GCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGGCCTTTGAGTTCGACTGCACTCAGCT
1 GCATAGCTCAAGGCGAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTCAGCT
**
1619221 CAAAGGCATGTCAAATTTACA
66 CAAAGGCACATC-AATTTACA
1619242 G
1 G
1619243 TATATCTTAA
Statistics
Matches: 448, Mismatches: 55, Indels: 12
0.87 0.11 0.02
Matches are distributed among these distances:
83 110 0.25
84 107 0.24
85 39 0.09
86 192 0.43
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.24
Consensus pattern (85 bp):
GCATAGCTCAAGGCGAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTCAGCT
CAAAGGCACATCAATTTACA
Found at i:1619112 original size:255 final size:253
Alignment explanation
Indices: 1618649--1619242 Score: 857
Period size: 255 Copynumber: 2.3 Consensus size: 253
1618639 CTATTTGAGG
1618649 CATAGCTCAAGGCGAGAAGGGCTATCTGCCAACAAAAGACCTTTGAGTTCGATTACACTCAGCTC
1 CATAGCTCAAGGCGAGAAGGGCTATCTGCCAACAAAAGACCTTTGAGTTCGATTACACTCAGCTC
* * *
1618714 AAAGGCACATCCAATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACCAAGACCTTTG
66 AAAGGCACATCAAATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCG
* * * *
1618779 AGTTCGATTACACTCAGCTCAAAGGAACATCATTTGCAGTATAGCTCAAGGCGAGAAGGGCTATC
131 AGTTCGATTACACTAAACTCAAAGGAACATCATTTACAGTATAACTCAAGGCGAGAAGGGCTATC
* * *
1618844 TGCCAATAAAAGACCTTCGAGTTCGATAACACTCAGCTCAAAGGCATATCAAATTTACAA
196 TGCCAATAAAAGACATTCGAGTTCGATAACACTCAACTCAAAGGCACATC--ATTTACAA
* * *
1618904 CATAGCTCAAGGCGATAAGGGCTATTTGCCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTC
1 CATAGCTCAAGGCGAGAAGGGCTATCTGCCAACAAAAGACCTTTGAGTTCGATTACACTCAGCTC
* *
1618969 AAAGGCACATCAAATTTACATCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAAGACCTTC
66 AAAGGCACATCAAATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAAC-AAAGACCTTC
* * * *
1619034 GAGTTCGTTTACACTAAACTCAAAGGCACATCATTTACAGTATAACTCAAGGCTAGAAGGGTTAT
130 GAGTTCGATTACACTAAACTCAAAGGAACATCATTTACAGTATAACTCAAGGCGAGAAGGGCTAT
* * * * * *
1619099 CTGTCAA-AAAAGACATTCGTGTTTGATTACACTCAACTCAAAGGCACATCATTTGCAG
195 CTGCCAATAAAAGACATTCGAGTTCGATAACACTCAACTCAAAGGCACATCATTTACAA
* * * * * *
1619157 CATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGGCCTTTGAGTTCGACTGCACTCAGCTC
1 CATAGCTCAAGGCGAGAAGGGCTATCTGCCAACAAAAGACCTTTGAGTTCGATTACACTCAGCTC
**
1619222 AAAGGCATGTCAAATTTACAG
66 AAAGGCACATCAAATTTACAG
1619243 TATATCTTAA
Statistics
Matches: 301, Mismatches: 37, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
253 80 0.27
255 150 0.50
256 71 0.24
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.24
Consensus pattern (253 bp):
CATAGCTCAAGGCGAGAAGGGCTATCTGCCAACAAAAGACCTTTGAGTTCGATTACACTCAGCTC
AAAGGCACATCAAATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCG
AGTTCGATTACACTAAACTCAAAGGAACATCATTTACAGTATAACTCAAGGCGAGAAGGGCTATC
TGCCAATAAAAGACATTCGAGTTCGATAACACTCAACTCAAAGGCACATCATTTACAA
Found at i:1619271 original size:169 final size:169
Alignment explanation
Indices: 1618648--1619242 Score: 798
Period size: 169 Copynumber: 3.5 Consensus size: 169
1618638 CCTATTTGAG
*
1618648 GCATAGCTCAAGGCGAGAAGGGCTATCTGCCAACAAAAGACCTTTGAGTTCGATTACACTCAGCT
1 GCATAGCTCAAGGCGAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTCAGCT
* * ** *
1618713 CAAAGGCACATCCAATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACCAAGACCTTT
66 CAAAGGCACATCAAATTTACAGCATAACTCAAGGCGAGAAGGGCTATCTGTCAAAAAAGACCTTC
*
1618778 GAGTTCGATTACACTCAGCTCAAAGGAACATCATTTGCA
131 GAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCA
* * *
1618817 GTATAGCTCAAGGCGAGAAGGGCTATCTGCCAATAAAAGACCTTCGAGTTCGATAACACTCAGCT
1 GCATAGCTCAAGGCGAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTCAGCT
* * * * * *
1618882 CAAAGGCATATCAAATTTACAACATAGCTCAAGGCGATAAGGGCTATTTGCCAACAAAAGACCTT
66 CAAAGGCACATCAAATTTACAGCATAACTCAAGGCGAGAAGGGCTATCTGTCAA-AAAAGACCTT
*
1618947 CGAGTTCGATTACACTCAGCTCAAAGGCACATCAAATTTACA
130 CGAGTTCGATTACACTCAGCTCAAAGGCACATC--ATTTGCA
* * * * * *
1618989 TCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAAGACCTTCGAGTTCGTTTACACTAAACT
1 GCATAGCTCAAGGCGAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTCAGCT
* * * *
1619054 CAAAGGCACATC--ATTTACAGTATAACTCAAGGCTAGAAGGGTTATCTGTCAAAAAAGACATTC
66 CAAAGGCACATCAAATTTACAGCATAACTCAAGGCGAGAAGGGCTATCTGTCAAAAAAGACCTTC
* * *
1619117 GTGTTTGATTACACTCAACTCAAAGGCACATCATTTGCA
131 GAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCA
* * * * * * *
1619156 GCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGGCCTTTGAGTTCGACTGCACTCAGCT
1 GCATAGCTCAAGGCGAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTCAGCT
**
1619221 CAAAGGCATGTCAAATTTACAG
66 CAAAGGCACATCAAATTTACAG
1619243 TATATCTTAA
Statistics
Matches: 368, Mismatches: 53, Indels: 10
0.85 0.12 0.02
Matches are distributed among these distances:
167 70 0.19
169 154 0.42
170 71 0.19
172 73 0.20
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.24
Consensus pattern (169 bp):
GCATAGCTCAAGGCGAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTCAGCT
CAAAGGCACATCAAATTTACAGCATAACTCAAGGCGAGAAGGGCTATCTGTCAAAAAAGACCTTC
GAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCA
Found at i:1619654 original size:16 final size:16
Alignment explanation
Indices: 1619629--1619663 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
1619619 ATTGACCCAA
1619629 CTTCACGACGAAATAT
1 CTTCACGACGAAATAT
* *
1619645 CTTCATGACGAAGTAT
1 CTTCACGACGAAATAT
1619661 CTT
1 CTT
1619664 GAGCCAGAAG
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:0.31, C:0.23, G:0.14, T:0.31
Consensus pattern (16 bp):
CTTCACGACGAAATAT
Found at i:1620009 original size:2 final size:2
Alignment explanation
Indices: 1620002--1620035 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1619992 AATTAAAAGC
1620002 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
1620036 GTATTATTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1621167 original size:25 final size:26
Alignment explanation
Indices: 1621139--1621195 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
1621129 TTCTTTCTTA
1621139 ATTTATTCATTTCA-TTTTTATTAGT
1 ATTTATTCATTTCATTTTTTATTAGT
1621164 ATTTATTCATTTCATTTTTTATTAGT
1 ATTTATTCATTTCATTTTTTATTAGT
1621190 ATTTAT
1 ATTTAT
1621196 ATATATTTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 14 0.45
26 17 0.55
ACGTcount: A:0.25, C:0.07, G:0.04, T:0.65
Consensus pattern (26 bp):
ATTTATTCATTTCATTTTTTATTAGT
Found at i:1621423 original size:13 final size:12
Alignment explanation
Indices: 1621390--1621559 Score: 60
Period size: 13 Copynumber: 13.0 Consensus size: 12
1621380 TTCTATACTC
*
1621390 TATTTATTTCATT
1 TATTT-TTTTATT
* *
1621403 TGTTTTTTTTTT
1 TATTTTTTTATT
*
1621415 TACTTTTTTTGTT
1 TA-TTTTTTTATT
1621428 TATTTTATTTATT
1 TATTTT-TTTATT
*
1621441 TATTTTCTTCATT
1 TATTTT-TTTATT
1621454 T-TTTATTTTAATT
1 TATTT-TTTT-ATT
*
1621467 T-TTTCATTGTCATTT
1 TATTT--TT-TTA-TT
*
1621482 TGTTTATTTTATT
1 TATTT-TTTTATT
* *
1621495 TACTTTTTATCTT
1 TA-TTTTTTTATT
1621508 TATTTATTTTA--
1 TATTT-TTTTATT
*
1621519 TATTTTTCTTTTT
1 TATTTTT-TTATT
1621532 TATTTTTCTTTATT
1 TA-TTTT-TTTATT
1621546 TCATTTGTTTTATT
1 T-ATTT-TTTTATT
1621560 ACCTTTTTGT
Statistics
Matches: 122, Mismatches: 18, Indels: 33
0.71 0.10 0.19
Matches are distributed among these distances:
10 2 0.02
11 7 0.06
12 18 0.15
13 55 0.45
14 27 0.22
15 10 0.08
16 3 0.02
ACGTcount: A:0.15, C:0.06, G:0.03, T:0.75
Consensus pattern (12 bp):
TATTTTTTTATT
Found at i:1621433 original size:9 final size:9
Alignment explanation
Indices: 1621390--1621559 Score: 75
Period size: 9 Copynumber: 18.4 Consensus size: 9
1621380 TTCTATACTC
1621390 TATTTATTT
1 TATTTATTT
* *
1621399 CATTTGTTT
1 TATTTATTT
1621408 T-TTT-TTT
1 TATTTATTT
1621415 TACTTT-TTT
1 TA-TTTATTT
*
1621424 TGTTTATTT
1 TATTTATTT
1621433 TATTTA-TT
1 TATTTATTT
*
1621441 TATTTTCTTCAT
1 TA-TTTATT--T
*
1621453 TTTTTATTT
1 TATTTATTT
1621462 TAATTT-TTT
1 T-ATTTATTT
*
1621471 CATTGTCATTT
1 TATT-T-ATTT
*
1621482 TGTTTATTT
1 TATTTATTT
*
1621491 TATTTA-CT
1 TATTTATTT
1621499 T-TTTATCTT
1 TATTTAT-TT
1621508 TATTTATTT
1 TATTTATTT
*
1621517 TATATTTTTCT
1 TAT-TTATT-T
*
1621528 TTTTTATTTT
1 TATTTA-TTT
*
1621538 TCTTTATTT
1 TATTTATTT
* *
1621547 CATTTGTTT
1 TATTTATTT
1621556 TATT
1 TATT
1621560 ACCTTTTTGT
Statistics
Matches: 121, Mismatches: 23, Indels: 34
0.68 0.13 0.19
Matches are distributed among these distances:
7 8 0.07
8 15 0.12
9 59 0.49
10 22 0.18
11 15 0.12
12 2 0.02
ACGTcount: A:0.15, C:0.06, G:0.03, T:0.75
Consensus pattern (9 bp):
TATTTATTT
Found at i:1621456 original size:34 final size:34
Alignment explanation
Indices: 1621392--1621457 Score: 80
Period size: 34 Copynumber: 1.9 Consensus size: 34
1621382 CTATACTCTA
* * *
1621392 TTTATTTCATTTGTTTTTTTTTTTACTTTTTTTG
1 TTTATTTCATTTATTTTTTTCTTCACTTTTTTTG
*
1621426 TTTATTTTATTTATTTATTTTCTTCA-TTTTTT
1 TTTATTTCATTTATTT-TTTTCTTCACTTTTTT
1621458 ATTTTAATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
34 20 0.74
35 7 0.26
ACGTcount: A:0.12, C:0.06, G:0.03, T:0.79
Consensus pattern (34 bp):
TTTATTTCATTTATTTTTTTCTTCACTTTTTTTG
Found at i:1621458 original size:29 final size:29
Alignment explanation
Indices: 1621421--1621496 Score: 86
Period size: 29 Copynumber: 2.6 Consensus size: 29
1621411 TTTTTACTTT
*
1621421 TTTTGTTTATTTTATTTATTT-ATTTTC-
1 TTTTGTTTATTTTATTTATTTCATTGTCA
*
1621448 TTCATTTTTTATTTTAATTT-TTTCATTGTCA
1 TT--TTGTTTATTTT-ATTTATTTCATTGTCA
1621479 TTTTGTTTATTTTATTTA
1 TTTTGTTTATTTTATTTA
1621497 CTTTTTATCT
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
27 2 0.05
28 4 0.10
29 23 0.57
30 9 0.22
31 2 0.05
ACGTcount: A:0.17, C:0.05, G:0.04, T:0.74
Consensus pattern (29 bp):
TTTTGTTTATTTTATTTATTTCATTGTCA
Found at i:1621472 original size:21 final size:20
Alignment explanation
Indices: 1621435--1621474 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
1621425 GTTTATTTTA
1621435 TTTATTTATTTTCTTCATTT
1 TTTATTTATTTTCTTCATTT
1621455 TTTATTTTAATTTT-TTCATT
1 TTTA-TTT-ATTTTCTTCATT
1621475 GTCATTTTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 9 0.50
22 5 0.28
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.75
Consensus pattern (20 bp):
TTTATTTATTTTCTTCATTT
Found at i:1621511 original size:17 final size:15
Alignment explanation
Indices: 1621426--1621537 Score: 74
Period size: 16 Copynumber: 7.5 Consensus size: 15
1621416 ACTTTTTTTG
1621426 TTTATTTTATTTA--
1 TTTATTTTATTTATT
* *
1621439 TTTATTTTCTTCATTT
1 TTTATTTTATTTA-TT
*
1621455 TTTATTTTAATT-TT
1 TTTATTTTATTTATT
* * *
1621469 TTCATTGTCATTT-TG
1 TTTATT-TTATTTATT
1621484 TTTATTTTATTTACTT
1 TTTATTTTATTTA-TT
1621500 TTTATCTTTATTTATT
1 TTTAT-TTTATTTATT
*
1621516 TTATATTTT-TCT-TT
1 TT-TATTTTATTTATT
1621530 TTTATTTT
1 TTTATTTT
1621538 TCTTTATTTC
Statistics
Matches: 78, Mismatches: 13, Indels: 16
0.73 0.12 0.15
Matches are distributed among these distances:
13 17 0.22
14 16 0.21
15 12 0.15
16 22 0.28
17 11 0.14
ACGTcount: A:0.17, C:0.06, G:0.02, T:0.75
Consensus pattern (15 bp):
TTTATTTTATTTATT
Found at i:1621515 original size:21 final size:20
Alignment explanation
Indices: 1621479--1621536 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 20
1621469 TTCATTGTCA
*
1621479 TTTTGTTTATTTTATTTACT-T
1 TTTTCTTTA-TTTATTTA-TAT
1621500 TTTATCTTTATTTATTTTATAT
1 TTT-TCTTTATTTA-TTTATAT
1621522 TTTTCTTT-TTTATTT
1 TTTTCTTTATTTATTT
1621537 TTCTTTATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
19 3 0.09
20 4 0.12
21 13 0.39
22 13 0.39
ACGTcount: A:0.16, C:0.05, G:0.02, T:0.78
Consensus pattern (20 bp):
TTTTCTTTATTTATTTATAT
Found at i:1622039 original size:20 final size:20
Alignment explanation
Indices: 1622014--1622071 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 20
1622004 TTCTCTCTAG
*
1622014 GGTTTTGTTTAAGGTCTTTA
1 GGTTTTGTTCAAGGTCTTTA
* *
1622034 GGTTTTGTTCATGTTCTTTA
1 GGTTTTGTTCAAGGTCTTTA
* *
1622054 GG-TCTGTTCATGGTCTTT
1 GGTTTTGTTCAAGGTCTTT
1622072 CATTGAACAA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
19 14 0.42
20 19 0.58
ACGTcount: A:0.10, C:0.10, G:0.24, T:0.55
Consensus pattern (20 bp):
GGTTTTGTTCAAGGTCTTTA
Found at i:1622063 original size:19 final size:20
Alignment explanation
Indices: 1622026--1622071 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
1622016 TTTTGTTTAA
*
1622026 GGTCTTTAGGTTTTGTTCAT
1 GGTCTTTAGGTTCTGTTCAT
*
1622046 GTTCTTTAGG-TCTGTTCAT
1 GGTCTTTAGGTTCTGTTCAT
1622065 GGTCTTT
1 GGTCTTT
1622072 CATTGAACAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 14 0.61
20 9 0.39
ACGTcount: A:0.09, C:0.13, G:0.24, T:0.54
Consensus pattern (20 bp):
GGTCTTTAGGTTCTGTTCAT
Found at i:1622211 original size:33 final size:33
Alignment explanation
Indices: 1622169--1622235 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
1622159 TCAAACGTAC
1622169 AAGTGTCGTTCTTGGTCTCCTTCCCCCACTGGG
1 AAGTGTCGTTCTTGGTCTCCTTCCCCCACTGGG
* *
1622202 AAGTGTCGTTCTTGGTCTCCTTCCTCCGCTGGG
1 AAGTGTCGTTCTTGGTCTCCTTCCCCCACTGGG
1622235 A
1 A
1622236 GAGACCCCTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.09, C:0.31, G:0.25, T:0.34
Consensus pattern (33 bp):
AAGTGTCGTTCTTGGTCTCCTTCCCCCACTGGG
Found at i:1627342 original size:27 final size:23
Alignment explanation
Indices: 1627280--1627342 Score: 72
Period size: 23 Copynumber: 2.6 Consensus size: 23
1627270 GTTTCGCACA
*
1627280 TCTGAATGATTCAACAAAATAGT
1 TCTGAATGATTCAACAAAATAAT
*
1627303 GCTGAATGATTCAACACATAAGTACAT
1 TCTGAATGATTCAACA-A-AA-TA-AT
1627330 TCTGAATGATTCA
1 TCTGAATGATTCA
1627343 GAGCCATTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
23 15 0.45
24 1 0.03
25 2 0.06
26 2 0.06
27 13 0.39
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.30
Consensus pattern (23 bp):
TCTGAATGATTCAACAAAATAAT
Found at i:1628107 original size:20 final size:20
Alignment explanation
Indices: 1628084--1628171 Score: 95
Period size: 20 Copynumber: 4.3 Consensus size: 20
1628074 GTTTCCAAAT
*
1628084 TCGCAACGCGAATATGTAAA
1 TCGCAACGCGAATTTGTAAA
** * **
1628104 TCGCATTGCGATTTTCCAAA
1 TCGCAACGCGAATTTGTAAA
* *
1628124 TTCGCAACGTGAATCTGTAAA
1 -TCGCAACGCGAATTTGTAAA
1628145 TCGCAACGCGAATTTGTAAA
1 TCGCAACGCGAATTTGTAAA
1628165 TCGCAAC
1 TCGCAAC
1628172 ACAGAAGCCA
Statistics
Matches: 52, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
20 39 0.75
21 13 0.25
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (20 bp):
TCGCAACGCGAATTTGTAAA
Found at i:1628188 original size:20 final size:19
Alignment explanation
Indices: 1628165--1628304 Score: 113
Period size: 20 Copynumber: 7.0 Consensus size: 19
1628155 AATTTGTAAA
*
1628165 TCGCAACACAGAAGCCAAAT
1 TCGCAACAC-GAAGTCAAAT
*
1628185 TCGCAACGCGATAGTCAAAT
1 TCGCAACACGA-AGTCAAAT
*
1628205 TCGCAACACAAAAGTCAAAT
1 TCGCAACAC-GAAGTCAAAT
**
1628225 TCGCAATGCGAATTTGT-AAA-
1 TCGCAACACGAA---GTCAAAT
1628245 TCGCAACACAGAAGTCAAAT
1 TCGCAACAC-GAAGTCAAAT
*
1628265 TCGCAACGCGATAGTCAAAT
1 TCGCAACACGA-AGTCAAAT
**
1628285 TCGCAATGCGAAAGTCAAAT
1 TCGCAACACG-AAGTCAAAT
1628305 GTTTTTATGC
Statistics
Matches: 99, Mismatches: 11, Indels: 20
0.76 0.08 0.15
Matches are distributed among these distances:
18 2 0.02
19 9 0.09
20 78 0.79
21 8 0.08
22 2 0.02
ACGTcount: A:0.41, C:0.24, G:0.17, T:0.19
Consensus pattern (19 bp):
TCGCAACACGAAGTCAAAT
Found at i:1628189 original size:40 final size:40
Alignment explanation
Indices: 1628145--1628275 Score: 194
Period size: 40 Copynumber: 3.3 Consensus size: 40
1628135 AATCTGTAAA
*
1628145 TCGCAACGCGAATTTGTAAATCGCAACACAGAAGCCAAAT
1 TCGCAACGCGAATTTGTAAATCGCAACACAGAAGTCAAAT
* *
1628185 TCGCAACGCG-A-TAGTCAAATTCGCAACACAAAAGTCAAAT
1 TCGCAACGCGAATTTGT-AAA-TCGCAACACAGAAGTCAAAT
*
1628225 TCGCAATGCGAATTTGTAAATCGCAACACAGAAGTCAAAT
1 TCGCAACGCGAATTTGTAAATCGCAACACAGAAGTCAAAT
1628265 TCGCAACGCGA
1 TCGCAACGCGA
1628276 TAGTCAAATT
Statistics
Matches: 80, Mismatches: 7, Indels: 8
0.84 0.07 0.08
Matches are distributed among these distances:
38 3 0.04
39 4 0.05
40 66 0.82
41 4 0.05
42 3 0.04
ACGTcount: A:0.40, C:0.24, G:0.18, T:0.18
Consensus pattern (40 bp):
TCGCAACGCGAATTTGTAAATCGCAACACAGAAGTCAAAT
Found at i:1628236 original size:80 final size:80
Alignment explanation
Indices: 1628145--1628304 Score: 275
Period size: 80 Copynumber: 2.0 Consensus size: 80
1628135 AATCTGTAAA
1628145 TCGCAACGCGAATTTGTAAATCGCAACACAGAAGCCAAATTCGCAACGCGATAGTCAAATTCGCA
1 TCGCAACGCGAATTTGTAAATCGCAACACAGAAGCCAAATTCGCAACGCGATAGTCAAATTCGCA
1628210 ACACAAAAGTCAAAT
66 ACACAAAAGTCAAAT
* *
1628225 TCGCAATGCGAATTTGTAAATCGCAACACAGAAGTCAAATTCGCAACGCGATAGTCAAATTCGCA
1 TCGCAACGCGAATTTGTAAATCGCAACACAGAAGCCAAATTCGCAACGCGATAGTCAAATTCGCA
** *
1628290 ATGCGAAAGTCAAAT
66 ACACAAAAGTCAAAT
1628305 GTTTTTATGC
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
80 75 1.00
ACGTcount: A:0.40, C:0.23, G:0.17, T:0.19
Consensus pattern (80 bp):
TCGCAACGCGAATTTGTAAATCGCAACACAGAAGCCAAATTCGCAACGCGATAGTCAAATTCGCA
ACACAAAAGTCAAAT
Done.