Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005606.1 Hibiscus syriacus cultivar Beakdansim tig00013040_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: 3509357
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 11
Found at i:1326611 original size:45 final size:45
Alignment explanation
Indices: 1326547--1326802 Score: 219
Period size: 45 Copynumber: 5.7 Consensus size: 45
1326537 ATAAAAGAAT
* *** * *
1326547 AATGCATATGGGTACATTATTGGCATG-AAAGGATGCCATAGTTGA
1 AATGCATATGGGTGCATTATCAACA-GAAAAGGATACCAGAGTTGA
* * *
1326592 AATGCATATGGGTGCATTATCAACAGAAAAGTATACTAGCGTTGA
1 AATGCATATGGGTGCATTATCAACAGAAAAGGATACCAGAGTTGA
* * *
1326637 AATGCATATGGGTGCATTATCAACATAACAA-TATACTAGAGTTGA
1 AATGCATATGGGTGCATTATCAACAGAA-AAGGATACCAGAGTTGA
* * * * ** *
1326682 AATGTATATGTGTACATTATCAACAGAAAAGTATATTATAGTTGA
1 AATGCATATGGGTGCATTATCAACAGAAAAGGATACCAGAGTTGA
* ** * * ** *
1326727 AATGTATATGGGTATATTATCAACATAAAAGTATATTATAGTTGA
1 AATGCATATGGGTGCATTATCAACAGAAAAGGATACCAGAGTTGA
* *
1326772 AATGCATATGGGTGAATTATCAACAAAAAAG
1 AATGCATATGGGTGCATTATCAACAGAAAAG
1326803 ATGTTAAAAC
Statistics
Matches: 184, Mismatches: 24, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
44 3 0.02
45 179 0.97
46 2 0.01
ACGTcount: A:0.40, C:0.10, G:0.20, T:0.30
Consensus pattern (45 bp):
AATGCATATGGGTGCATTATCAACAGAAAAGGATACCAGAGTTGA
Found at i:1326700 original size:90 final size:90
Alignment explanation
Indices: 1326547--1326802 Score: 300
Period size: 90 Copynumber: 2.8 Consensus size: 90
1326537 ATAAAAGAAT
*** * * * * * *
1326547 AATGCATATGGGTACATTATTGGCATGAAAGGATGCCATAGTTGAAATGCATATGGGTGCATTAT
1 AATGCATATGGGTACATTATCAACATAAAAGTATACTAGAGTTGAAATGCATATGGGTACATTAT
*
1326612 CAACAGAAAAGTATACTAGCGTTGA
66 CAACAGAAAAGTATACTAGAGTTGA
* * *
1326637 AATGCATATGGGTGCATTATCAACATAACAA-TATACTAGAGTTGAAATGTATATGTGTACATTA
1 AATGCATATGGGTACATTATCAACATAA-AAGTATACTAGAGTTGAAATGCATATGGGTACATTA
* *
1326701 TCAACAGAAAAGTATATTATAGTTGA
65 TCAACAGAAAAGTATACTAGAGTTGA
* * * *
1326727 AATGTATATGGGTATATTATCAACATAAAAGTATATTATAGTTGAAATGCATATGGGTGA-ATTA
1 AATGCATATGGGTACATTATCAACATAAAAGTATACTAGAGTTGAAATGCATATGGGT-ACATTA
*
1326791 TCAACAAAAAAG
65 TCAACAGAAAAG
1326803 ATGTTAAAAC
Statistics
Matches: 140, Mismatches: 23, Indels: 6
0.83 0.14 0.04
Matches are distributed among these distances:
89 2 0.01
90 135 0.96
91 3 0.02
ACGTcount: A:0.40, C:0.10, G:0.20, T:0.30
Consensus pattern (90 bp):
AATGCATATGGGTACATTATCAACATAAAAGTATACTAGAGTTGAAATGCATATGGGTACATTAT
CAACAGAAAAGTATACTAGAGTTGA
Found at i:1326820 original size:45 final size:44
Alignment explanation
Indices: 1326586--1326810 Score: 220
Period size: 45 Copynumber: 5.0 Consensus size: 44
1326576 AGGATGCCAT
* * * *
1326586 AGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATACTAG
1 AGTTGAAATGCATATGGGTGAATTATCAACAAAAAAG-ATATTAA
* * * * * *
1326631 CGTTGAAATGCATATGGGTGCATTATCAACATAACAATATACTAG
1 AGTTGAAATGCATATGGGTGAATTATCAACA-AAAAAGATATTAA
* * * *
1326676 AGTTGAAATGTATATGTGT-ACATTATCAACAGAAAAGTATATTAT
1 AGTTGAAATGCATATGGGTGA-ATTATCAACAAAAAAG-ATATTAA
* * *
1326721 AGTTGAAATGTATATGGGT-ATATTATCAACATAAAAGTATATTAT
1 AGTTGAAATGCATATGGGTGA-ATTATCAACAAAAAAG-ATATTAA
*
1326766 AGTTGAAATGCATATGGGTGAATTATCAACAAAAAAGATGTTAA
1 AGTTGAAATGCATATGGGTGAATTATCAACAAAAAAGATATTAA
1326810 A
1 A
1326811 ACTTAAAATG
Statistics
Matches: 156, Mismatches: 20, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
44 9 0.06
45 143 0.92
46 4 0.03
ACGTcount: A:0.42, C:0.09, G:0.18, T:0.31
Consensus pattern (44 bp):
AGTTGAAATGCATATGGGTGAATTATCAACAAAAAAGATATTAA
Found at i:1326835 original size:90 final size:86
Alignment explanation
Indices: 1326584--1326845 Score: 242
Period size: 90 Copynumber: 2.9 Consensus size: 86
1326574 AAAGGATGCC
* * * * *
1326584 ATAGTTGAAATGCATATGGGTGCATTATCAACAGAAAAG-TATACTAGCGTTGAAATGCATATGG
1 ATAGTTGAAATGCATATGGGTGAATTATCAACAGAAAAGATTTA-AAAC-TTGAAATGTATATGG
1326648 GTGCATTATCAACATAACAATATACT
64 GT--ATTATCAACATAA-AATATACT
* * * * *
1326674 AGAGTTGAAATGTATATGTGT-ACATTATCAACAGAAAAGTATATT-ATAGTTGAAATGTATATG
1 ATAGTTGAAATGCATATGGGTGA-ATTATCAACAGAAAAG-AT-TTAAAACTTGAAATGTATATG
*
1326737 GGTATATTATCAACATAAAAGTATATT
63 GG--TATTATCAACATAAAA-TATACT
* *
1326764 ATAGTTGAAATGCATATGGGTGAATTATCAACAAAAAAGATGTTAAAACTTAAAATGTATAATGA
1 ATAGTTGAAATGCATATGGGTGAATTATCAACAGAAAAGAT-TTAAAACTTGAAATGTAT-ATG-
* *
1326829 AGTATTATAAACATAAA
63 GGTATTATCAACATAAA
1326846 TAGAGGTTAC
Statistics
Matches: 140, Mismatches: 21, Indels: 22
0.77 0.11 0.12
Matches are distributed among these distances:
89 6 0.04
90 126 0.90
91 4 0.03
92 3 0.02
93 1 0.01
ACGTcount: A:0.44, C:0.08, G:0.17, T:0.31
Consensus pattern (86 bp):
ATAGTTGAAATGCATATGGGTGAATTATCAACAGAAAAGATTTAAAACTTGAAATGTATATGGGT
ATTATCAACATAAAATATACT
Found at i:1326836 original size:135 final size:134
Alignment explanation
Indices: 1326584--1326841 Score: 313
Period size: 135 Copynumber: 1.9 Consensus size: 134
1326574 AAAGGATGCC
* *
1326584 ATAGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATACTAGCGTTGAAATGCATATGGG
1 ATAGTTGAAATGCATATGGGTACATTATCAACAGAAAAGTATACTAGAGTTGAAATGCATATGGG
* * * * * * * *
1326649 TGCATTATCAACATAACAATATACTAGAGTTGAAATGTATATGTGTACATTATCAACAGAAAAGT
66 TGAATTATCAACATAAAAAGATACTAAACTTAAAATGTATATGAGTA-ATTATAAACAGAAAAGT
1326714 ATATT
130 ATATT
* * * * *
1326719 ATAGTTGAAATGTATATGGGTATATTATCAACATAAAAGTATATTATAGTTGAAATGCATATGGG
1 ATAGTTGAAATGCATATGGGTACATTATCAACAGAAAAGTATACTAGAGTTGAAATGCATATGGG
**
1326784 TGAATTATCAACA-AAAAAGATGTTAAAACTTAAAATGTATAATGAAGT-ATTATAAACA
66 TGAATTATCAACATAAAAAGATACT-AAACTTAAAATGTAT-ATG-AGTAATTATAAACA
1326842 TAAATAGAGG
Statistics
Matches: 103, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
134 7 0.07
135 91 0.88
136 3 0.03
137 2 0.02
ACGTcount: A:0.43, C:0.09, G:0.17, T:0.31
Consensus pattern (134 bp):
ATAGTTGAAATGCATATGGGTACATTATCAACAGAAAAGTATACTAGAGTTGAAATGCATATGGG
TGAATTATCAACATAAAAAGATACTAAACTTAAAATGTATATGAGTAATTATAAACAGAAAAGTA
TATT
Found at i:1332974 original size:79 final size:79
Alignment explanation
Indices: 1332832--1332982 Score: 196
Period size: 79 Copynumber: 1.9 Consensus size: 79
1332822 AAAACAAATG
* * * *
1332832 TAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTAGAGTGTATATGG
1 TAAAAGAATAATGCATATGAGTGCATTATTGGCATGAAAAGATGCCATAGCTAGAATGCATATGG
1332897 GTACATTGTAAGCA
66 GTACATTGTAAGCA
* * * * *
1332911 TAAAAGAATAATTCATATTAGTGCATTATTGGCTTGAAAAGATGCCATTG-TTGAAATGCATATG
1 TAAAAGAATAATGCATATGAGTGCATTATTGGCATGAAAAGATGCCATAGCTAG-AATGCATATG
*
1332975 GGTGCATT
65 GGTACATT
1332983 ATCAACAGAA
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
78 2 0.03
79 59 0.97
ACGTcount: A:0.35, C:0.10, G:0.24, T:0.31
Consensus pattern (79 bp):
TAAAAGAATAATGCATATGAGTGCATTATTGGCATGAAAAGATGCCATAGCTAGAATGCATATGG
GTACATTGTAAGCA
Found at i:1333193 original size:45 final size:45
Alignment explanation
Indices: 1332960--1333175 Score: 344
Period size: 45 Copynumber: 4.8 Consensus size: 45
1332950 AGATGCCATT
1332960 GTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATACTAGA
1 GTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATACTAGA
**
1333005 GTTGAAATGCATATGGGTGCATTATCAACAGAACGGTATACTAGA
1 GTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATACTAGA
* * *
1333050 GTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACTATA
1 GTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATACTAGA
* * *
1333095 GTTGAAATGTATATGGGTAG-ATTATCAACATAAAAGTATACTATA
1 GTTGAAATGCATATGGGT-GCATTATCAACAGAAAAGTATACTAGA
1333140 GTTGAAATGCATATGGGTGCATTATCAACAGAAAAG
1 GTTGAAATGCATATGGGTGCATTATCAACAGAAAAG
1333176 ATGTTAAAAC
Statistics
Matches: 158, Mismatches: 11, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
44 1 0.01
45 157 0.99
ACGTcount: A:0.40, C:0.10, G:0.21, T:0.29
Consensus pattern (45 bp):
GTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATACTAGA
Found at i:1333209 original size:135 final size:135
Alignment explanation
Indices: 1332960--1333214 Score: 336
Period size: 135 Copynumber: 1.9 Consensus size: 135
1332950 AGATGCCATT
1332960 GTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATACTAGAGTTGAAATGCATATGGGTGC
1 GTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATACTAGAGTTGAAATGCATATGGGTGC
** * * * ** *
1333025 ATTATCAACAGAACGGTATACTAGAGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATA
66 ATTATCAACAGAAAAGTATACTAAACTTAAAATGTATATGAATACATTATAAACAGAAAAGTATA
1333090 CTATA
131 CTATA
* * *
1333095 GTTGAAATGTATATGGGTAG-ATTATCAACATAAAAGTATACTATAGTTGAAATGCATATGGGTG
1 GTTGAAATGCATATGGGT-GCATTATCAACAGAAAAGTATACTAGAGTTGAAATGCATATGGGTG
** *
1333159 CATTATCAACAGAAAAG-ATGTTAAAACTTAAAATGTATAATGAAT-TATTATAAACA
65 CATTATCAACAGAAAAGTATACT-AAACTTAAAATGTAT-ATGAATACATTATAAACA
1333215 TAAATGGAGG
Statistics
Matches: 103, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
134 3 0.03
135 95 0.92
136 5 0.05
ACGTcount: A:0.42, C:0.09, G:0.19, T:0.30
Consensus pattern (135 bp):
GTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATACTAGAGTTGAAATGCATATGGGTGC
ATTATCAACAGAAAAGTATACTAAACTTAAAATGTATATGAATACATTATAAACAGAAAAGTATA
CTATA
Found at i:1339205 original size:44 final size:44
Alignment explanation
Indices: 1339168--1339536 Score: 465
Period size: 44 Copynumber: 8.4 Consensus size: 44
1339158 AATAAATGAA
* *
1339168 AATGCATTATTGGCATAAAGGTGCCATAAATGAAAATACATAAC
1 AATGCATTATTGGCAGAAAGGTGCCATAAATGAAAATGCATAAC
* * * **
1339212 AGTGCATTATTGGCATAAAGGTGCCATAAATG-GAATAAATAAC
1 AATGCATTATTGGCAGAAAGGTGCCATAAATGAAAATGCATAAC
* * *
1339255 AATGCATTATTGGCATAAATGT-CCATAAATAAAAATGCATAAC
1 AATGCATTATTGGCAGAAAGGTGCCATAAATGAAAATGCATAAC
** * * * *
1339298 GGTGCATTATTGGCAGAAAGATGTCATAAATGATAATGCATTAC
1 AATGCATTATTGGCAGAAAGGTGCCATAAATGAAAATGCATAAC
* *
1339342 AGTGCATTATTGGCAGAAACGTGCCATAAATGAAAATGCATAAC
1 AATGCATTATTGGCAGAAAGGTGCCATAAATGAAAATGCATAAC
** *
1339386 GGTGCATTATTGGCATAAAGGTGCCATAAATGAAAATGCATAA-
1 AATGCATTATTGGCAGAAAGGTGCCATAAATGAAAATGCATAAC
* * *
1339429 AAGTGCATTATTGGAAGAAAAGTTCCATAAATGAAAATGCATAAC
1 AA-TGCATTATTGGCAGAAAGGTGCCATAAATGAAAATGCATAAC
* *
1339474 GATGCATTATTGGAAGAAAGGTGCCATAAATGAAAATGCATAAC
1 AATGCATTATTGGCAGAAAGGTGCCATAAATGAAAATGCATAAC
*
1339518 AATACATTATTGGCAGAAA
1 AATGCATTATTGGCAGAAA
1339537 ATGTGTCACT
Statistics
Matches: 282, Mismatches: 39, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
42 8 0.03
43 54 0.19
44 219 0.78
45 1 0.00
ACGTcount: A:0.43, C:0.12, G:0.19, T:0.25
Consensus pattern (44 bp):
AATGCATTATTGGCAGAAAGGTGCCATAAATGAAAATGCATAAC
Found at i:1345110 original size:38 final size:38
Alignment explanation
Indices: 1345051--1345124 Score: 121
Period size: 38 Copynumber: 1.9 Consensus size: 38
1345041 GGTGCTCAAG
* * *
1345051 CGACTCCTTACGTCACGTTCCTTTCTCTATATGAACAA
1 CGACTCCTCACATCACATTCCTTTCTCTATATGAACAA
1345089 CGACTCCTCACATCACATTCCTTTCTCTATATGAAC
1 CGACTCCTCACATCACATTCCTTTCTCTATATGAAC
1345125 CTACGCATGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.24, C:0.34, G:0.08, T:0.34
Consensus pattern (38 bp):
CGACTCCTCACATCACATTCCTTTCTCTATATGAACAA
Found at i:1346234 original size:22 final size:22
Alignment explanation
Indices: 1346206--1346253 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
1346196 GTTAATATAC
*
1346206 ATACTCAAAATTTATTCCACTT
1 ATACTCAAAAATTATTCCACTT
1346228 ATACTCAAAAATTATTCCACTT
1 ATACTCAAAAATTATTCCACTT
1346250 ATAC
1 ATAC
1346254 AAATGGAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.40, C:0.23, G:0.00, T:0.38
Consensus pattern (22 bp):
ATACTCAAAAATTATTCCACTT
Found at i:1351446 original size:139 final size:138
Alignment explanation
Indices: 1351277--1351545 Score: 430
Period size: 139 Copynumber: 1.9 Consensus size: 138
1351267 ATAATATATG
*
1351277 GATTCCAACGGTCTCAACTTCTCTTGTAATCCTTTTAAAACTTCTGATAGATTCCTCTAATTCAT
1 GATTCCAACGGTCTCAACTTCTCTTGTAATCCTTTTAAAACTTCTGATAGATTCCTCTAATTCAA
* * *
1351342 TAACCTCATTAAACTTTCGAACATTTCATCCACATAATGGAGGAAAATCCCTTACAGCTTCAACC
66 TAACCTCATTAAAATTTCGAACATTTCATCCACAGAATGGAGGAAAATCCCTTACAACTTCAACC
1351407 ATTTGATA
131 ATTTGATA
* * *
1351415 GATTCTCATCGGTCTCAACTTCTTTTGTAATCCTTTTAAACCTTCTGATAGATTCCTCTAATTCA
1 GATTC-CAACGGTCTCAACTTCTCTTGTAATCCTTTTAAAACTTCTGATAGATTCCTCTAATTCA
* * * *
1351480 ATAACCTCATTAAAATTTGGGACATTTCTTCCATAGAATGGAGGAAAATCCCTTACAACTTCAAC
65 ATAACCTCATTAAAATTTCGAACATTTCATCCACAGAATGGAGGAAAATCCCTTACAACTTCAAC
1351545 C
130 C
1351546 CTTTTAGGGT
Statistics
Matches: 119, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
138 5 0.04
139 114 0.96
ACGTcount: A:0.30, C:0.24, G:0.10, T:0.35
Consensus pattern (138 bp):
GATTCCAACGGTCTCAACTTCTCTTGTAATCCTTTTAAAACTTCTGATAGATTCCTCTAATTCAA
TAACCTCATTAAAATTTCGAACATTTCATCCACAGAATGGAGGAAAATCCCTTACAACTTCAACC
ATTTGATA
Found at i:1352646 original size:15 final size:15
Alignment explanation
Indices: 1352626--1352655 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1352616 TTCATTTCAT
*
1352626 TTTCATATTCTTTTC
1 TTTCATATACTTTTC
1352641 TTTCATATACTTTTC
1 TTTCATATACTTTTC
1352656 ATAACTTTCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.20, G:0.00, T:0.63
Consensus pattern (15 bp):
TTTCATATACTTTTC
Found at i:1354505 original size:18 final size:19
Alignment explanation
Indices: 1354479--1354522 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
1354469 AAAACCAGTA
* *
1354479 AAAAGATACATATAT-TTT
1 AAAACATACATATATATTC
1354497 AAAACATACATATATATTC
1 AAAACATACATATATATTC
1354516 AAAACAT
1 AAAACAT
1354523 GAAAACTACC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 14 0.61
19 9 0.39
ACGTcount: A:0.55, C:0.11, G:0.02, T:0.32
Consensus pattern (19 bp):
AAAACATACATATATATTC
Found at i:1359154 original size:24 final size:24
Alignment explanation
Indices: 1359117--1359180 Score: 83
Period size: 24 Copynumber: 2.7 Consensus size: 24
1359107 CATATCAGAA
*
1359117 ATCAGAACAAAATTCAGGTTATGC
1 ATCAGAACAAAATTCAGGTCATGC
* * *
1359141 ATCAGAATAGAATTCAGGTCATGT
1 ATCAGAACAAAATTCAGGTCATGC
*
1359165 ATCAGAACATAATTCA
1 ATCAGAACAAAATTCA
1359181 AGTCGAAAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.27
Consensus pattern (24 bp):
ATCAGAACAAAATTCAGGTCATGC
Found at i:1361161 original size:34 final size:34
Alignment explanation
Indices: 1361117--1361215 Score: 96
Period size: 34 Copynumber: 2.9 Consensus size: 34
1361107 CTAAAATCAT
1361117 ATATCTTTTAATATTCAAATTTAAACATATAAT-A
1 ATATCTTTTAATATTCAAATTTAAA-ATATAATAA
* * *
1361151 ATATATTTTAAT-TTAAAATATTCAAAAGAT-ATAA
1 ATATCTTTTAATATTCAAAT-TT-AAAATATAATAA
* *
1361185 ATATCTTTTAGTATTCAAACTTAAAAATATA
1 ATATCTTTTAATATTCAAA-TTTAAAATATA
1361216 TTATTTTAAT
Statistics
Matches: 51, Mismatches: 8, Indels: 11
0.73 0.11 0.16
Matches are distributed among these distances:
33 8 0.16
34 33 0.65
35 9 0.18
36 1 0.02
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.42
Consensus pattern (34 bp):
ATATCTTTTAATATTCAAATTTAAAATATAATAA
Found at i:1361273 original size:64 final size:68
Alignment explanation
Indices: 1361117--1361283 Score: 200
Period size: 64 Copynumber: 2.5 Consensus size: 68
1361107 CTAAAATCAT
*
1361117 ATATCTTTTAATATTCAAATTTAAACATATAATAATATATTTTAATTTAAAATATTCAAAAGATA
1 ATATCTTTTAATATTCAAACTTAAACATATAATAATATATTTTAATTTAAAATATTCAAAAGATA
1361182 TAA
66 TAA
* * *
1361185 ATATCTTTTAGTATTCAAACTTAAA-A-AT-AT-AT-TATTTTAATTTGAAATATTTAAAATGAT
1 ATATCTTTTAATATTCAAACTTAAACATATAATAATATATTTTAATTTAAAATATTCAAAA-GAT
1361245 ATAA
65 ATAA
* * * * * *
1361249 TTATCTTTTAAAATGCAAAGTTAAATAGATAATAA
1 ATATCTTTTAATATTCAAACTTAAACATATAATAA
1361284 AATAGTATTT
Statistics
Matches: 85, Mismatches: 9, Indels: 10
0.82 0.09 0.10
Matches are distributed among these distances:
63 22 0.26
64 29 0.34
65 3 0.04
66 4 0.05
67 3 0.04
68 24 0.28
ACGTcount: A:0.48, C:0.05, G:0.04, T:0.43
Consensus pattern (68 bp):
ATATCTTTTAATATTCAAACTTAAACATATAATAATATATTTTAATTTAAAATATTCAAAAGATA
TAA
Found at i:1364887 original size:137 final size:137
Alignment explanation
Indices: 1364636--1364890 Score: 370
Period size: 137 Copynumber: 1.9 Consensus size: 137
1364626 TGTATACGAT
* *
1364636 GGTTATCGATCGATTTTGTTTAATGCGTATGTTGCATTTTCGTATCAGTACTATGTGTACTTTCG
1 GGTTATCGATCGATTTTGTTTAATGCATATGTTGCATTTTCGTATCAGTACTATATGTACTTTCG
* *
1364701 ACACTAGATGTGCAACCATGGTATTCATAATGAGTTTGTGAATTGCCATTTCGACATACATTTGT
66 ACACTAGATGTGCAACAATGGAATTCATAATGAGTTTGTGAATTGCCATTTCGACATACATTTGT
1364766 GTATGAA
131 GTATGAA
* * * *
1364773 GGTTATCGATTGATTTTGTTTAATGCATATGTTGCATTTTTGTATTAGTACTATATTTACTTTCG
1 GGTTATCGATCGATTTTGTTTAATGCATATGTTGCATTTTCGTATCAGTACTATATGTACTTTCG
* * * *
1364838 GCACTATG-TGTGCATCAATTGAATTCATAAT-AGGTTTGTGAATTTCCATTTCG
66 ACACTA-GATGTGCAACAATGGAATTCATAATGA-GTTTGTGAATTGCCATTTCG
1364891 GCACTTAGGT
Statistics
Matches: 104, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
136 1 0.01
137 102 0.98
138 1 0.01
ACGTcount: A:0.24, C:0.13, G:0.19, T:0.43
Consensus pattern (137 bp):
GGTTATCGATCGATTTTGTTTAATGCATATGTTGCATTTTCGTATCAGTACTATATGTACTTTCG
ACACTAGATGTGCAACAATGGAATTCATAATGAGTTTGTGAATTGCCATTTCGACATACATTTGT
GTATGAA
Found at i:1371406 original size:137 final size:137
Alignment explanation
Indices: 1371155--1371408 Score: 402
Period size: 137 Copynumber: 1.9 Consensus size: 137
1371145 TGTATAAGAT
* * *
1371155 GGTTATCGATCGATTTTGTTTAATGCATATGTTGGATTTTCGTAATAGTACTATGTGTACTTTTG
1 GGTTATCGATCGATTTTGTTCAATGCATATGTTGCATTTTCGTAATAGTACTATATGTACTTTTG
* *
1371220 GCACTAGATGTGCAACCATGGTATTCATAATGAGTTTGTAAATTACCATTTCGACATACATTTGT
66 GCACTAGATGTGCAACCATGGAATTCATAATAAGTTTGTAAATTACCATTTCGACATACATTTGT
1371285 GTCTGAA
131 GTCTGAA
* *
1371292 GGTTATCGATCGATTTTGTTCAATGCATATGTTTCATTTTCGTATTAGTACTATATGTACTTTTG
1 GGTTATCGATCGATTTTGTTCAATGCATATGTTGCATTTTCGTAATAGTACTATATGTACTTTTG
* * *
1371357 GCACTATG-TGTGCATCCATGGAATTCATAATAAGTTTGTGAATTTCCATTTC
66 GCACTA-GATGTGCAACCATGGAATTCATAATAAGTTTGTAAATTACCATTTC
1371409 AGCACTTAGG
Statistics
Matches: 106, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
137 105 0.99
138 1 0.01
ACGTcount: A:0.25, C:0.14, G:0.19, T:0.43
Consensus pattern (137 bp):
GGTTATCGATCGATTTTGTTCAATGCATATGTTGCATTTTCGTAATAGTACTATATGTACTTTTG
GCACTAGATGTGCAACCATGGAATTCATAATAAGTTTGTAAATTACCATTTCGACATACATTTGT
GTCTGAA
Found at i:1392495 original size:59 final size:59
Alignment explanation
Indices: 1392423--1392577 Score: 260
Period size: 58 Copynumber: 2.6 Consensus size: 59
1392413 TTCCCATAAG
*
1392423 GAAATTCATACACTTAGTATGAATCTCTTAACCTTTTTGT-ACACAAAGTGCCCAATACA
1 GAAATTCATACACTTAGTATGAATTTCTTAA-CTTTTTGTCACACAAAGTGCCCAATACA
* *
1392482 GAAATTCATACACTTAGTATGAATTTCTTAACTTTTT-TCACACGAAGTGCCCAATACG
1 GAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGTCACACAAAGTGCCCAATACA
1392540 GAAATTCATACACTTAGTATGAATTTCTTAACTTTTTG
1 GAAATTCATACACTTAGTATGAATTTCTTAACTTTTTG
1392578 CGCACTTAGT
Statistics
Matches: 91, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
57 1 0.01
58 60 0.66
59 30 0.33
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.36
Consensus pattern (59 bp):
GAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGTCACACAAAGTGCCCAATACA
Found at i:1392828 original size:28 final size:28
Alignment explanation
Indices: 1392797--1392862 Score: 123
Period size: 28 Copynumber: 2.4 Consensus size: 28
1392787 ACATACATGT
1392797 ACAATATCAATTATTAGTATATTTCCTA
1 ACAATATCAATTATTAGTATATTTCCTA
*
1392825 ACAATATCAATTGTTAGTATATTTCCTA
1 ACAATATCAATTATTAGTATATTTCCTA
1392853 ACAATATCAA
1 ACAATATCAA
1392863 GAGTACCTAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.41, C:0.15, G:0.05, T:0.39
Consensus pattern (28 bp):
ACAATATCAATTATTAGTATATTTCCTA
Found at i:1393043 original size:20 final size:21
Alignment explanation
Indices: 1393018--1393069 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
1393008 CTGTTTTGAA
*
1393018 TGGTATCGATACCTTCCC-TT
1 TGGTATCGATACCTCCCCATT
1393038 TGGTATCGATA-CTCCCCATT
1 TGGTATCGATACCTCCCCATT
*
1393058 CGGTATCGATAC
1 TGGTATCGATAC
1393070 TGATTGAAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 5 0.18
20 23 0.82
ACGTcount: A:0.19, C:0.29, G:0.17, T:0.35
Consensus pattern (21 bp):
TGGTATCGATACCTCCCCATT
Found at i:1397015 original size:18 final size:18
Alignment explanation
Indices: 1396992--1397026 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
1396982 GTTGCAGCGA
1396992 TTGATCTCTCTGATTGTG
1 TTGATCTCTCTGATTGTG
1397010 TTGATCTCTCTGATTGT
1 TTGATCTCTCTGATTGT
1397027 AATAATCTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.11, C:0.17, G:0.20, T:0.51
Consensus pattern (18 bp):
TTGATCTCTCTGATTGTG
Found at i:1397034 original size:18 final size:18
Alignment explanation
Indices: 1396995--1397034 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
1396985 GCAGCGATTG
** *
1396995 ATCTCTCTGATTGTGTTG
1 ATCTCTCTGATTGTAATA
1397013 ATCTCTCTGATTGTAATA
1 ATCTCTCTGATTGTAATA
1397031 ATCT
1 ATCT
1397035 ATCTCCTGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.20, C:0.17, G:0.15, T:0.47
Consensus pattern (18 bp):
ATCTCTCTGATTGTAATA
Found at i:1398292 original size:23 final size:25
Alignment explanation
Indices: 1398245--1398293 Score: 66
Period size: 23 Copynumber: 2.0 Consensus size: 25
1398235 AATATTTTTT
*
1398245 TATAAAACATTTCAATTAAAATTAA
1 TATAAAACATTACAATTAAAATTAA
*
1398270 TATAAAACA-TAC-ATTAAATTTAA
1 TATAAAACATTACAATTAAAATTAA
1398293 T
1 T
1398294 TACATAACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 11 0.50
24 2 0.09
25 9 0.41
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (25 bp):
TATAAAACATTACAATTAAAATTAA
Found at i:1398918 original size:58 final size:58
Alignment explanation
Indices: 1398754--1398911 Score: 244
Period size: 58 Copynumber: 2.7 Consensus size: 58
1398744 CATATTTCCC
* * *
1398754 ATACAGAAATTCATACACTTAGTATGAATCTCTTAACCTTTTTGCACGCAAAGTGCCCA
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAA-CTTTTTGCACACAAAGTGCCCA
* * *
1398813 ATATGGAAATTGATACACATAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCA
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCA
*
1398871 ATACGGAAATTCATACACTTGGTATGAATTTCTTAACTTTT
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTT
1398912 GCCACACTGA
Statistics
Matches: 89, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
58 58 0.65
59 31 0.35
ACGTcount: A:0.34, C:0.19, G:0.13, T:0.34
Consensus pattern (58 bp):
ATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCA
Found at i:1400396 original size:44 final size:44
Alignment explanation
Indices: 1400329--1400412 Score: 134
Period size: 44 Copynumber: 1.9 Consensus size: 44
1400319 GTCTAATTCT
*
1400329 ATGTTTGAGCTATTACTAACTTTTCCAACTTATTTCCTAAGATA
1 ATGTTGGAGCTATTACTAACTTTTCCAACTTATTTCCTAAGATA
*
1400373 ATGTTGGATCTATTAC-AAGCTTTTCCAACTTATTTCCTAA
1 ATGTTGGAGCTATTACTAA-CTTTTCCAACTTATTTCCTAA
1400413 TTTTTATTTC
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
43 2 0.05
44 35 0.95
ACGTcount: A:0.29, C:0.19, G:0.10, T:0.43
Consensus pattern (44 bp):
ATGTTGGAGCTATTACTAACTTTTCCAACTTATTTCCTAAGATA
Found at i:1404315 original size:21 final size:19
Alignment explanation
Indices: 1404287--1404333 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
1404277 TCATTGAATC
1404287 ATTA-TTCTTAGCTCCTTAAT
1 ATTAGTTCTTAGCT--TTAAT
1404307 ATTAGTTCTTAGCTTTAAT
1 ATTAGTTCTTAGCTTTAAT
1404326 ACTTAGTT
1 A-TTAGTT
1404334 GGATTAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.24
20 10 0.40
21 9 0.36
ACGTcount: A:0.26, C:0.15, G:0.09, T:0.51
Consensus pattern (19 bp):
ATTAGTTCTTAGCTTTAAT
Found at i:1411674 original size:13 final size:13
Alignment explanation
Indices: 1411656--1411689 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
1411646 CATATTTTCC
*
1411656 TTAGCTTGGACTT
1 TTAGCTTAGACTT
1411669 TTAGCTTAGACTT
1 TTAGCTTAGACTT
1411682 TTAGCTTA
1 TTAGCTTA
1411690 TTCACTAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.21, C:0.15, G:0.18, T:0.47
Consensus pattern (13 bp):
TTAGCTTAGACTT
Found at i:1423042 original size:20 final size:21
Alignment explanation
Indices: 1422995--1423042 Score: 64
Period size: 19 Copynumber: 2.4 Consensus size: 21
1422985 CCGTAAAGAA
*
1422995 AACAAAGAGAAGAAAAAGTGC
1 AACAAAGAGAAAAAAAAGTGC
1423016 AAC-AAGA-AAAAAAAAGTGC
1 AACAAAGAGAAAAAAAAGTGC
*
1423035 AGCAAAGA
1 AACAAAGA
1423043 CTCCAAGTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 13 0.54
20 8 0.33
21 3 0.12
ACGTcount: A:0.65, C:0.10, G:0.21, T:0.04
Consensus pattern (21 bp):
AACAAAGAGAAAAAAAAGTGC
Found at i:1442613 original size:20 final size:20
Alignment explanation
Indices: 1442604--1442645 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
1442594 TTAAATTCTT
1442604 ATTTAATTAATTCAAATTAA
1 ATTTAATTAATTCAAATTAA
1442624 ATTTAATTAATTCAAATTAA
1 ATTTAATTAATTCAAATTAA
1442644 AT
1 AT
1442646 ATCCATTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (20 bp):
ATTTAATTAATTCAAATTAA
Found at i:1442708 original size:77 final size:78
Alignment explanation
Indices: 1442624--1442767 Score: 204
Period size: 78 Copynumber: 1.9 Consensus size: 78
1442614 TTCAAATTAA
*
1442624 ATTTAATTAATTCAAATTAAATA-TCCATT-AAAGAATTATAATTC-GAATTACACTCTTTAATG
1 ATTTAATTAATTCAAATTAAA-ACCCCATTAAAAGAATTATAA-TCAGAATTACACTCTTTAATG
1442686 TTTATTTAAATTCTT
64 TTTATTTAAATTCTT
* * * *
1442701 ATTTAATTATTTCAAATTAAAACCCCATTAAAAGAGTTGTAATCAGAATTACATTCTTTAATGTT
1 ATTTAATTAATTCAAATTAAAACCCCATTAAAAGAATTATAATCAGAATTACACTCTTTAATGTT
1442766 TA
66 TA
1442768 CTTACTATAT
Statistics
Matches: 59, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
76 1 0.02
77 27 0.46
78 31 0.53
ACGTcount: A:0.40, C:0.11, G:0.06, T:0.43
Consensus pattern (78 bp):
ATTTAATTAATTCAAATTAAAACCCCATTAAAAGAATTATAATCAGAATTACACTCTTTAATGTT
TATTTAAATTCTT
Found at i:1446258 original size:23 final size:23
Alignment explanation
Indices: 1446232--1446282 Score: 102
Period size: 23 Copynumber: 2.2 Consensus size: 23
1446222 CTCTTAACAG
1446232 CCTGTAAAGTAGGTACATCATGT
1 CCTGTAAAGTAGGTACATCATGT
1446255 CCTGTAAAGTAGGTACATCATGT
1 CCTGTAAAGTAGGTACATCATGT
1446278 CCTGT
1 CCTGT
1446283 GATGATTATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (23 bp):
CCTGTAAAGTAGGTACATCATGT
Found at i:1451771 original size:56 final size:56
Alignment explanation
Indices: 1451685--1451797 Score: 226
Period size: 56 Copynumber: 2.0 Consensus size: 56
1451675 ACTCAACTAG
1451685 GAAAAACTCCAAGGGGCAATGTTATTTGGCTAAAAATTTATTCTCTCTATCTTAGC
1 GAAAAACTCCAAGGGGCAATGTTATTTGGCTAAAAATTTATTCTCTCTATCTTAGC
1451741 GAAAAACTCCAAGGGGCAATGTTATTTGGCTAAAAATTTATTCTCTCTATCTTAGC
1 GAAAAACTCCAAGGGGCAATGTTATTTGGCTAAAAATTTATTCTCTCTATCTTAGC
1451797 G
1 G
1451798 CCAACATGAA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.34
Consensus pattern (56 bp):
GAAAAACTCCAAGGGGCAATGTTATTTGGCTAAAAATTTATTCTCTCTATCTTAGC
Found at i:1459493 original size:356 final size:353
Alignment explanation
Indices: 1458819--1459527 Score: 1366
Period size: 356 Copynumber: 2.0 Consensus size: 353
1458809 ATTGGATTAT
1458819 TCTACTGTAATTACACTAGAAGAAATTAAAATTCAACCAAATTTATGGTACAAGGAATAACCATT
1 TCTACTGTAATTACACTAGAAGAAATTAAAATTCAACCAAATTTATGGTACAAGGAATAACCATT
1458884 GAAGATATTAGGTTATGGAGTCATGGAGCTAAGAAATAAGATGATTTCACTTATAATTTTTTTTT
66 GAAGATATTAGGTTATGGAGTCATGGAGCTAAGAAATAAGATGATTTCACTTATAATTTTTTTTT
1458949 GGTAGAATAACAAGTTGAGAAGCGACCTTGGAACGATAAGAGATATGAAAAATAGTTTCCTCATA
131 GGTAGAATAACAAGTTGAGAAGCGACCTTGGAACGATAAGAGATATGAAAAATAGTTTCCTCATA
1459014 TTTTCACTTCAGGTATGTAAATACATATGGAAAATTCGAGGATGGATTTTTTTAATTGGGAAGAA
196 TTTTCACTTCAGGTATGTAAATACATATGGAAAATTCGAGGATGGATTTTTTTAATTGGGAAGAA
1459079 TTGTAATTCTCCAAATTTTGGTTAGTGACTAAACTATAAGTTTTGAAAGTTTGATGGCTAAAGAA
261 TTGTAATTCTCCAAATTTTGGTTAGTGACTAAACTATAAGTTTTGAAAGTTTGATGGCTAAAGAA
1459144 TAAACTTTGTAAAAG-TTAGAGACCAAA
326 TAAACTTTGTAAAAGTTTAGAGACCAAA
1459171 TCTACTGTAATTACACTAGAAGAAATTAAAATTCAACCAAATTTATGGTACAAGGAATAACCATT
1 TCTACTGTAATTACACTAGAAGAAATTAAAATTCAACCAAATTTATGGTACAAGGAATAACCATT
*
1459236 GAAGATATTAGTTTATGGAGTCATGGAGCTAAGAAATAAGATGATTTCACTTATAATTTTTTTTT
66 GAAGATATTAGGTTATGGAGTCATGGAGCTAAGAAATAAGATGATTTCACTTATAATTTTTTTTT
1459301 GGTAGAATAACAAAGTTGAGGAAGCGACCTTGGAACGATAAGAAGATATGAAAAAATAGTTTCCT
131 GGTAGAATAAC-AAGTTGA-GAAGCGACCTTGGAACGATAAG-AGATATG-AAAAATAGTTTCCT
1459366 CATATTTTCACTTCAGGTATGTAAATACATATGGAAAATTCGAGGATGGATTTTTTTAATTGGGA
192 CATATTTTCACTTCAGGTATGTAAATACATATGGAAAATTCGAGGATGGATTTTTTTAATTGGGA
1459431 AGAATTGTAATTCTCCAAATTTTGGTTAGTGACTAAACTATAAGTTTTGAAAGTTTGATGGCTAA
257 AGAATTGTAATTCTCCAAATTTTGGTTAGTGACTAAACTATAAGTTTTGAAAGTTTGATGGCTAA
1459496 AGAATAAACTTTGTAAAAGTTTAGAGACCAAA
322 AGAATAAACTTTGTAAAAGTTTAGAGACCAAA
1459528 AATATATTTT
Statistics
Matches: 351, Mismatches: 1, Indels: 5
0.98 0.00 0.01
Matches are distributed among these distances:
352 140 0.40
353 7 0.02
354 22 0.06
355 7 0.02
356 163 0.46
357 12 0.03
ACGTcount: A:0.39, C:0.10, G:0.18, T:0.33
Consensus pattern (353 bp):
TCTACTGTAATTACACTAGAAGAAATTAAAATTCAACCAAATTTATGGTACAAGGAATAACCATT
GAAGATATTAGGTTATGGAGTCATGGAGCTAAGAAATAAGATGATTTCACTTATAATTTTTTTTT
GGTAGAATAACAAGTTGAGAAGCGACCTTGGAACGATAAGAGATATGAAAAATAGTTTCCTCATA
TTTTCACTTCAGGTATGTAAATACATATGGAAAATTCGAGGATGGATTTTTTTAATTGGGAAGAA
TTGTAATTCTCCAAATTTTGGTTAGTGACTAAACTATAAGTTTTGAAAGTTTGATGGCTAAAGAA
TAAACTTTGTAAAAGTTTAGAGACCAAA
Found at i:1480849 original size:21 final size:20
Alignment explanation
Indices: 1480811--1480852 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
1480801 AATTAATCCT
1480811 ACTAAGTATTAAAGCTAAGA
1 ACTAAGTATTAAAGCTAAGA
1480831 ACTAA-TATTAAGGAGCTAAGA
1 ACTAAGTATTAA--AGCTAAGA
1480852 A
1 A
1480853 ATATGAATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 5 0.25
21 9 0.45
ACGTcount: A:0.50, C:0.10, G:0.17, T:0.24
Consensus pattern (20 bp):
ACTAAGTATTAAAGCTAAGA
Found at i:1485897 original size:27 final size:27
Alignment explanation
Indices: 1485827--1485897 Score: 108
Period size: 27 Copynumber: 2.6 Consensus size: 27
1485817 TACTGTAATA
**
1485827 TACTCCTTGA-TCCTTGGGGTTTCTCAG
1 TACTCCTT-ACTCCTTCTGGTTTCTCAG
1485854 TACTCCTTACTCCTTCTGGTTTCTCAG
1 TACTCCTTACTCCTTCTGGTTTCTCAG
1485881 TACTCCTTACTCCTTCT
1 TACTCCTTACTCCTTCT
1485898 CTTACTTTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
26 1 0.02
27 40 0.98
ACGTcount: A:0.11, C:0.32, G:0.13, T:0.44
Consensus pattern (27 bp):
TACTCCTTACTCCTTCTGGTTTCTCAG
Found at i:1499377 original size:29 final size:28
Alignment explanation
Indices: 1499321--1499379 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 28
1499311 AGACAGAGAG
*
1499321 AATTAAAGACAAGATAAAAGAAGGTAAT
1 AATTAAAGACAAGAGAAAAGAAGGTAAT
*
1499349 AATTAAAGACAAAGAGATAAATAA-GTAAT
1 AATTAAAGAC-AAGAGA-AAAGAAGGTAAT
1499378 AA
1 AA
1499380 AGGAAATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 10 0.37
29 12 0.44
30 5 0.19
ACGTcount: A:0.63, C:0.03, G:0.15, T:0.19
Consensus pattern (28 bp):
AATTAAAGACAAGAGAAAAGAAGGTAAT
Found at i:1511448 original size:61 final size:61
Alignment explanation
Indices: 1511379--1511495 Score: 198
Period size: 61 Copynumber: 1.9 Consensus size: 61
1511369 TTCGCGCTGC
*
1511379 ATTTCGCGTTGCGATAGTTGAAAATCACGTTGCGATTTTCTATTTCGCGTTGCGATTTTCT
1 ATTTCGCGTTGCGATAGTTGAAAATCACGTTGCGATTTTCCATTTCGCGTTGCGATTTTCT
* * *
1511440 ATTTCGCGTTGTGATAGTTGAAAATCGCGTTGCGGTTTTCCATTTCGCGTTGCGAT
1 ATTTCGCGTTGCGATAGTTGAAAATCACGTTGCGATTTTCCATTTCGCGTTGCGAT
1511496 AGTTGAAAAT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
61 52 1.00
ACGTcount: A:0.17, C:0.18, G:0.24, T:0.41
Consensus pattern (61 bp):
ATTTCGCGTTGCGATAGTTGAAAATCACGTTGCGATTTTCCATTTCGCGTTGCGATTTTCT
Found at i:1511468 original size:41 final size:41
Alignment explanation
Indices: 1511426--1511662 Score: 293
Period size: 41 Copynumber: 5.8 Consensus size: 41
1511416 TTCTATTTCG
* * * *
1511426 CGTTGCGATTTTCTATTTCGCGTTGTGATAGT-TGAAAATCG-
1 CGTTGCGATTTTCCATTTCGCGTTGCGATAGTCT-ACAGT-GT
* * *
1511467 CGTTGCGGTTTTCCATTTCGCGTTGCGATAGT-TGAAAATCG-
1 CGTTGCGATTTTCCATTTCGCGTTGCGATAGTCT-ACAGT-GT
*
1511508 CGTTGCGGTTTTCCATTTCGCGTTGCGATAGTCTACAGTGT
1 CGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACAGTGT
*
1511549 CGTTGCGATTTTCCATTTTGCGTTGCGATAGTCTACAGTGT
1 CGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACAGTGT
*
1511590 CGTTGTGATTTTCCATTTCGCGTTGCGATAGTCTACAGTGT
1 CGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACAGTGT
* * *
1511631 CGTTGTGATTTTCTATTTCGTGTTGCGATAGT
1 CGTTGCGATTTTCCATTTCGCGTTGCGATAGT
1511663 TTTAAAAATG
Statistics
Matches: 183, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
40 1 0.01
41 181 0.99
42 1 0.01
ACGTcount: A:0.15, C:0.18, G:0.25, T:0.41
Consensus pattern (41 bp):
CGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACAGTGT
Found at i:1511469 original size:21 final size:21
Alignment explanation
Indices: 1511443--1511514 Score: 74
Period size: 21 Copynumber: 3.5 Consensus size: 21
1511433 ATTTTCTATT
*
1511443 TCGCGTTGTGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
* * ** **
1511464 TCGCGTTGCGGT-TTTCCATT
1 TCGCGTTGCGATAGTTGAAAA
1511484 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
1511505 TCGCGTTGCG
1 TCGCGTTGCG
1511515 GTTTTCCATT
Statistics
Matches: 37, Mismatches: 13, Indels: 2
0.71 0.25 0.04
Matches are distributed among these distances:
20 14 0.38
21 23 0.62
ACGTcount: A:0.18, C:0.18, G:0.29, T:0.35
Consensus pattern (21 bp):
TCGCGTTGCGATAGTTGAAAA
Found at i:1511554 original size:21 final size:21
Alignment explanation
Indices: 1511528--1511635 Score: 82
Period size: 21 Copynumber: 5.2 Consensus size: 21
1511518 TTCCATTTCG
1511528 CGTTGCGATAGTCTACAGTGT
1 CGTTGCGATAGTCTACAGTGT
* * * *
1511549 CGTTGCGAT--TTTCCATTTT
1 CGTTGCGATAGTCTACAGTGT
1511568 GCGTTGCGATAGTCTACAGTGT
1 -CGTTGCGATAGTCTACAGTGT
* * * *
1511590 CGTTGTGAT--TTTCCA-TTT
1 CGTTGCGATAGTCTACAGTGT
1511608 CGCGTTGCGATAGTCTACAGTGT
1 --CGTTGCGATAGTCTACAGTGT
1511631 CGTTG
1 CGTTG
1511636 TGATTTTCTA
Statistics
Matches: 63, Mismatches: 16, Indels: 16
0.66 0.17 0.17
Matches are distributed among these distances:
18 2 0.03
19 10 0.16
20 17 0.27
21 22 0.35
22 10 0.16
23 2 0.03
ACGTcount: A:0.15, C:0.19, G:0.26, T:0.40
Consensus pattern (21 bp):
CGTTGCGATAGTCTACAGTGT
Found at i:1511755 original size:6 final size:6
Alignment explanation
Indices: 1511744--1511776 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
1511734 GACACGTATT
*
1511744 ACCACG ACCACG ACCACG ACCATG ACCACG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACC
1511777 CGAGACGAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.33, C:0.48, G:0.15, T:0.03
Consensus pattern (6 bp):
ACCACG
Found at i:1512516 original size:6 final size:6
Alignment explanation
Indices: 1512505--1512531 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
1512495 TCTCGTCTCG
1512505 GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGT
1512532 AATACGTGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.15, G:0.52, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:1512683 original size:20 final size:20
Alignment explanation
Indices: 1512617--1512706 Score: 103
Period size: 20 Copynumber: 4.5 Consensus size: 20
1512607 TTTTAAAACT
1512617 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
* * **
1512637 ATCACAA--CGACACTGTAGACT
1 ATCGCAACGCGA-AATG--GAAA
1512658 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
1512678 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
1512698 ATCGCAACG
1 ATCGCAACG
1512707 ACACTGTAGA
Statistics
Matches: 57, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
18 3 0.05
19 3 0.05
20 37 0.65
21 8 0.14
22 3 0.05
23 3 0.05
ACGTcount: A:0.42, C:0.23, G:0.22, T:0.12
Consensus pattern (20 bp):
ATCGCAACGCGAAATGGAAA
Found at i:1512691 original size:61 final size:61
Alignment explanation
Indices: 1512617--1512747 Score: 235
Period size: 61 Copynumber: 2.1 Consensus size: 61
1512607 TTTTAAAACT
*
1512617 ATCGCAACGCGAAATGGAAAATCACAACGACACTGTAGACTATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAAATCACAACGACACTGTAGACTATCGCAACGCAAAATGGAAA
*
1512678 ATCGCAACGCGAAATGGAAAATCGCAACGACACTGTAGACTATCGCAACGCAAAATGGAAA
1 ATCGCAACGCGAAATGGAAAATCACAACGACACTGTAGACTATCGCAACGCAAAATGGAAA
*
1512739 ATCGAAACG
1 ATCGCAACG
1512748 ACACTGTAGA
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
61 67 1.00
ACGTcount: A:0.43, C:0.23, G:0.21, T:0.13
Consensus pattern (61 bp):
ATCGCAACGCGAAATGGAAAATCACAACGACACTGTAGACTATCGCAACGCAAAATGGAAA
Found at i:1512747 original size:20 final size:20
Alignment explanation
Indices: 1512617--1512787 Score: 96
Period size: 20 Copynumber: 8.4 Consensus size: 20
1512607 TTTTAAAACT
*
1512617 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCAAAATGGAAA
* * * **
1512637 ATCACAACG-ACACTGTAGACT
1 ATCGCAACGCAAAATG--GAAA
*
1512658 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCAAAATGGAAA
*
1512678 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCAAAATGGAAA
* * **
1512698 ATCGCAACG-ACACTGTAGACT
1 ATCGCAACGCAAAATG--GAAA
1512719 ATCGCAACGCAAAATGGAAA
1 ATCGCAACGCAAAATGGAAA
* * * **
1512739 ATCGAAACG-ACACTGTAGACT
1 ATCGCAACGCAAAATG--GAAA
*
1512760 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCAAAATGGAAA
*
1512780 ACCGCAAC
1 ATCGCAAC
1512788 AACACTGTAG
Statistics
Matches: 109, Mismatches: 33, Indels: 18
0.68 0.21 0.11
Matches are distributed among these distances:
19 10 0.09
20 58 0.53
21 31 0.28
22 10 0.09
ACGTcount: A:0.42, C:0.24, G:0.21, T:0.13
Consensus pattern (20 bp):
ATCGCAACGCAAAATGGAAA
Found at i:1512868 original size:61 final size:61
Alignment explanation
Indices: 1512617--1512870 Score: 221
Period size: 61 Copynumber: 4.1 Consensus size: 61
1512607 TTTTAAAACT
* * *
1512617 ATCGCAACGCGAAATGGAAAATCACAACGACACTGTAGACTATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAAATCGCAACGACACTGTAGACTATCGCAACGCAAAATAGAAA
*
1512678 ATCGCAACGCGAAATGGAAAATCGCAACGACACTGTAGACTATCGCAACGCAAAATGGAAA
1 ATCGCAACGCGAAATGGAAAATCGCAACGACACTGTAGACTATCGCAACGCAAAATAGAAA
* * ** * ** * * ***
1512739 ATCG-AA-ACGACACTGTAGACTATCGCAACG-CGAAATG--GAAAACCGCAACAACACTGTAGA
1 ATCGCAACGCGA-AATG--GAAAATCGCAACGAC--ACTGTAGACTATCGCAAC-GCAAAATAGA
**
1512799 CT
60 AA
* * *
1512801 ATCGCAACGTGAAATGGATAATCGCAACGACACTGTAGACTAGCGCAACGCAAAATAGAAA
1 ATCGCAACGCGAAATGGAAAATCGCAACGACACTGTAGACTATCGCAACGCAAAATAGAAA
*
1512862 ACCGCAACG
1 ATCGCAACG
1512871 ACACTGTAGA
Statistics
Matches: 149, Mismatches: 33, Indels: 22
0.73 0.16 0.11
Matches are distributed among these distances:
59 3 0.02
60 8 0.05
61 98 0.66
62 30 0.20
63 8 0.05
64 2 0.01
ACGTcount: A:0.42, C:0.24, G:0.21, T:0.13
Consensus pattern (61 bp):
ATCGCAACGCGAAATGGAAAATCGCAACGACACTGTAGACTATCGCAACGCAAAATAGAAA
Found at i:1512939 original size:41 final size:41
Alignment explanation
Indices: 1512678--1512911 Score: 369
Period size: 41 Copynumber: 5.7 Consensus size: 41
1512668 GAAATGGAAA
1512678 ATCGCAACGCGAAATGGAAAATCGCAACGACACTGTAGACT
1 ATCGCAACGCGAAATGGAAAATCGCAACGACACTGTAGACT
* *
1512719 ATCGCAACGCAAAATGGAAAATCGAAACGACACTGTAGACT
1 ATCGCAACGCGAAATGGAAAATCGCAACGACACTGTAGACT
* *
1512760 ATCGCAACGCGAAATGGAAAACCGCAACAACACTGTAGACT
1 ATCGCAACGCGAAATGGAAAATCGCAACGACACTGTAGACT
* *
1512801 ATCGCAACGTGAAATGGATAATCGCAACGACACTGTAGACT
1 ATCGCAACGCGAAATGGAAAATCGCAACGACACTGTAGACT
* * * *
1512842 AGCGCAACGCAAAATAGAAAACCGCAACGACACTGTAGACT
1 ATCGCAACGCGAAATGGAAAATCGCAACGACACTGTAGACT
*
1512883 ATCACAACGCGAAATGGAAAATCGCAACG
1 ATCGCAACGCGAAATGGAAAATCGCAACG
1512912 CGATTTTCAA
Statistics
Matches: 172, Mismatches: 21, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 172 1.00
ACGTcount: A:0.41, C:0.24, G:0.21, T:0.14
Consensus pattern (41 bp):
ATCGCAACGCGAAATGGAAAATCGCAACGACACTGTAGACT
Found at i:1526119 original size:21 final size:21
Alignment explanation
Indices: 1526095--1526134 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1526085 TTTTCAAAGG
1526095 CATGCACCGATGCATCAATTC
1 CATGCACCGATGCATCAATTC
*
1526116 CATGCATCGATGCATCAAT
1 CATGCACCGATGCATCAAT
1526135 GAACAAATTG
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:0.30, C:0.30, G:0.15, T:0.25
Consensus pattern (21 bp):
CATGCACCGATGCATCAATTC
Found at i:1526231 original size:64 final size:64
Alignment explanation
Indices: 1526095--1526260 Score: 178
Period size: 64 Copynumber: 2.5 Consensus size: 64
1526085 TTTTCAAAGG
* *
1526095 CATGCACCGATGCATCAATTCCATGCATCGATGCA-TCAATGAACAAATTGAAACATTGAATGCA
1 CATGCACCGATGCATC---TCCATGCATCGATGCACTC-ATGAACAAATTAAAACATCGAATGCA
1526159 TTC
62 TTC
*
1526162 CATGCACCGATGCATTCTCCATGCATCGATGCACTC-TGATTC-AATTAAAACATCGAATGCATT
1 CATGCACCGATGCA-TCTCCATGCATCGATGCACTCATGA-ACAAATTAAAACATCGAATGCATT
*
1526225 T
64 C
* *
1526226 GATGCATCGATGCA-CAATCCATGCATCGATGCACT
1 CATGCACCGATGCATC--TCCATGCATCGATGCACT
1526261 AGGCTATTTT
Statistics
Matches: 88, Mismatches: 6, Indels: 13
0.82 0.06 0.12
Matches are distributed among these distances:
62 1 0.01
64 52 0.59
65 17 0.19
66 2 0.02
67 14 0.16
68 2 0.02
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.27
Consensus pattern (64 bp):
CATGCACCGATGCATCTCCATGCATCGATGCACTCATGAACAAATTAAAACATCGAATGCATTC
Found at i:1526304 original size:17 final size:19
Alignment explanation
Indices: 1526276--1526324 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
1526266 ATTTTTCAAA
1526276 CATCGAATGCACT-TCA-TG
1 CATCG-ATGCACTCTCAGTG
*
1526294 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTCAGTG
*
1526313 CACCGATGCACT
1 CATCGATGCACT
1526325 AGGAGTCTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTCAGTG
Found at i:1532152 original size:24 final size:22
Alignment explanation
Indices: 1532124--1532203 Score: 83
Period size: 24 Copynumber: 3.5 Consensus size: 22
1532114 CACTTAACAA
1532124 TGCATCGATGCATCCCTTTGAATG
1 TGCATCGATGCAT-CC-TTGAATG
*
1532148 TGCATCGATGCATCC--GCATG
1 TGCATCGATGCATCCTTGAATG
*
1532168 ATGCACCGATGCATGCCTTGAATG
1 -TGCATCGATGCAT-CCTTGAATG
*
1532192 TGTATCGATGCA
1 TGCATCGATGCA
1532204 CAAGATCATG
Statistics
Matches: 47, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
20 4 0.09
21 12 0.26
22 2 0.04
23 12 0.26
24 17 0.36
ACGTcount: A:0.23, C:0.25, G:0.24, T:0.29
Consensus pattern (22 bp):
TGCATCGATGCATCCTTGAATG
Found at i:1534778 original size:21 final size:21
Alignment explanation
Indices: 1534754--1534793 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1534744 TTTTCAAAGG
1534754 CATGCACCGATGCATCAATAC
1 CATGCACCGATGCATCAATAC
*
1534775 CATGCATCGATGCATCAAT
1 CATGCACCGATGCATCAAT
1534794 GAATAAATTG
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:0.33, C:0.30, G:0.15, T:0.23
Consensus pattern (21 bp):
CATGCACCGATGCATCAATAC
Found at i:1534843 original size:19 final size:19
Alignment explanation
Indices: 1534819--1534857 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
1534809 TCGAAGGCAT
*
1534819 TCCATGCACCGATGGACTC
1 TCCATGCACCGATGCACTC
*
1534838 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
1534857 T
1 T
1534858 GATTCAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.21, C:0.36, G:0.18, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:1534883 original size:64 final size:65
Alignment explanation
Indices: 1534754--1534918 Score: 199
Period size: 64 Copynumber: 2.5 Consensus size: 65
1534744 TTTTCAAAGG
*
1534754 CATGCACCGATGCATCAATACCATGCATCGATGCA-TCAATGAATAAATTGAAACATCGAAGGCA
1 CATGCACCGATGCA-CAAT-CCATGCATCGATGCACTC-ATGAATAAATTAAAACATCGAAGGCA
1534818 TTC
63 TTC
* ** * * * *
1534821 CATGCACCGATGGACTCTCCATGCATCGATGCACTC-TGATTCAATTAAAACATCGAATGCATTT
1 CATGCACCGATGCACAATCCATGCATCGATGCACTCATGAATAAATTAAAACATCGAAGGCATTC
* *
1534885 GATGCATCGATGCACAATCCATGCATCGATGCAC
1 CATGCACCGATGCACAATCCATGCATCGATGCAC
1534919 CAGGCTATTT
Statistics
Matches: 84, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
64 52 0.62
65 15 0.18
66 4 0.05
67 13 0.15
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (65 bp):
CATGCACCGATGCACAATCCATGCATCGATGCACTCATGAATAAATTAAAACATCGAAGGCATTC
Found at i:1539143 original size:228 final size:228
Alignment explanation
Indices: 1538741--1539204 Score: 919
Period size: 228 Copynumber: 2.0 Consensus size: 228
1538731 TTAGCGCATG
*
1538741 ATGATTTTCATGCGTAGGTTCAGATAATGAAAAGGGCATAAAGTGAGTAGTCTCTCAAGCATCTT
1 ATGAATTTCATGCGTAGGTTCAGATAATGAAAAGGGCATAAAGTGAGTAGTCTCTCAAGCATCTT
1538806 TTTGGAGATTATATCTATTATCAGTATTAGTAATACATCTCAAATGTTCTCTTAACTTTTATTGG
66 TTTGGAGATTATATCTATTATCAGTATTAGTAATACATCTCAAATGTTCTCTTAACTTTTATTGG
1538871 ATTTTATATTATATATGTTTGTTTGCTTTATCGGATTTGTTTAAAAAGTCTATAATAGTAAACTA
131 ATTTTATATTATATATGTTTGTTTGCTTTATCGGATTTGTTTAAAAAGTCTATAATAGTAAACTA
1538936 GGATCATTTTATTTTGGGTATCTTTAGTTATAT
196 GGATCATTTTATTTTGGGTATCTTTAGTTATAT
1538969 ATGAATTTCATGCGTAGGTTCAGATAATGAAAAGGGCATAAAGTGAGTAGTCTCTCAAGCATCTT
1 ATGAATTTCATGCGTAGGTTCAGATAATGAAAAGGGCATAAAGTGAGTAGTCTCTCAAGCATCTT
1539034 TTTGGAGATTATATCTATTATCAGTATTAGTAATACATCTCAAATGTTCTCTTAACTTTTATTGG
66 TTTGGAGATTATATCTATTATCAGTATTAGTAATACATCTCAAATGTTCTCTTAACTTTTATTGG
1539099 ATTTTATATTATATATGTTTGTTTGCTTTATCGGATTTGTTTAAAAAGTCTATAATAGTAAACTA
131 ATTTTATATTATATATGTTTGTTTGCTTTATCGGATTTGTTTAAAAAGTCTATAATAGTAAACTA
1539164 GGATCATTTTATTTTGGGTATCTTTAGTTATAT
196 GGATCATTTTATTTTGGGTATCTTTAGTTATAT
1539197 ATGAATTT
1 ATGAATTT
1539205 ATGAATGAAT
Statistics
Matches: 235, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
228 235 1.00
ACGTcount: A:0.30, C:0.10, G:0.16, T:0.44
Consensus pattern (228 bp):
ATGAATTTCATGCGTAGGTTCAGATAATGAAAAGGGCATAAAGTGAGTAGTCTCTCAAGCATCTT
TTTGGAGATTATATCTATTATCAGTATTAGTAATACATCTCAAATGTTCTCTTAACTTTTATTGG
ATTTTATATTATATATGTTTGTTTGCTTTATCGGATTTGTTTAAAAAGTCTATAATAGTAAACTA
GGATCATTTTATTTTGGGTATCTTTAGTTATAT
Found at i:1557897 original size:21 final size:19
Alignment explanation
Indices: 1557859--1557904 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 19
1557849 TATTAATCCT
1557859 ACTAAGTATTAAAGCTAAGA
1 ACTAA-TATTAAAGCTAAGA
1557879 ACTAATATTAAGGAGCTAAGA
1 ACTAATATTAA--AGCTAAGA
1557900 A-TAAT
1 ACTAAT
1557905 GAATCAATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 9 0.38
21 9 0.38
ACGTcount: A:0.50, C:0.09, G:0.15, T:0.26
Consensus pattern (19 bp):
ACTAATATTAAAGCTAAGA
Found at i:1562757 original size:20 final size:19
Alignment explanation
Indices: 1562732--1562774 Score: 63
Period size: 17 Copynumber: 2.3 Consensus size: 19
1562722 TTAATAGTAG
1562732 ATAGTACTACCAAGTAAACC
1 ATAGTA-TACCAAGTAAACC
1562752 ATAG--TACCAAGTAAACC
1 ATAGTATACCAAGTAAACC
1562769 ATAGTA
1 ATAGTA
1562775 AATCAGTTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 17 0.81
20 4 0.19
ACGTcount: A:0.47, C:0.21, G:0.12, T:0.21
Consensus pattern (19 bp):
ATAGTATACCAAGTAAACC
Found at i:1562759 original size:17 final size:17
Alignment explanation
Indices: 1562739--1562774 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
1562729 TAGATAGTAC
1562739 TACCAAGTAAACCATAG
1 TACCAAGTAAACCATAG
1562756 TACCAAGTAAACCATAG
1 TACCAAGTAAACCATAG
1562773 TA
1 TA
1562775 AATCAGTTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.47, C:0.22, G:0.11, T:0.19
Consensus pattern (17 bp):
TACCAAGTAAACCATAG
Found at i:1567107 original size:69 final size:69
Alignment explanation
Indices: 1566996--1567133 Score: 276
Period size: 69 Copynumber: 2.0 Consensus size: 69
1566986 ACACCATATA
1566996 ATCTTTATCGAATTTCGATTGAACATGAACAAGGGCTTCTGTTAAAATCTTCTTTAAATTTCCAA
1 ATCTTTATCGAATTTCGATTGAACATGAACAAGGGCTTCTGTTAAAATCTTCTTTAAATTTCCAA
1567061 CCTC
66 CCTC
1567065 ATCTTTATCGAATTTCGATTGAACATGAACAAGGGCTTCTGTTAAAATCTTCTTTAAATTTCCAA
1 ATCTTTATCGAATTTCGATTGAACATGAACAAGGGCTTCTGTTAAAATCTTCTTTAAATTTCCAA
1567130 CCTC
66 CCTC
1567134 TCTCTTACAC
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 69 1.00
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38
Consensus pattern (69 bp):
ATCTTTATCGAATTTCGATTGAACATGAACAAGGGCTTCTGTTAAAATCTTCTTTAAATTTCCAA
CCTC
Found at i:1569552 original size:78 final size:75
Alignment explanation
Indices: 1569451--1569600 Score: 178
Period size: 78 Copynumber: 2.0 Consensus size: 75
1569441 TCTCGGTTAT
** * *
1569451 AGTAAACATTAAAAGAATGTAATTTTGATTACAACTTTTTTAAT-TAATATTTAATTTGGAATAA
1 AGTAAACATTAAAAGAATGTAATTGAGATTACAA-GTATTTAATGT-ATATTTAATTT-G-A-AA
1569515 TTAAATAAGATTTTA
61 TTAAATAAGATTTTA
* * *
1569530 AGTAAGCATT-AAAGATTGTAATTGAGATTATAAGTATTTAATGTATATTTAATTTGAAATTAAA
1 AGTAAACATTAAAAGAATGTAATTGAGATTACAAGTATTTAATGTATATTTAATTTGAAATTAAA
1569594 TAAGATT
66 TAAGATT
1569601 ATTTATTAAT
Statistics
Matches: 63, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
74 14 0.22
75 1 0.02
76 1 0.02
77 18 0.29
78 20 0.32
79 9 0.14
ACGTcount: A:0.44, C:0.03, G:0.11, T:0.42
Consensus pattern (75 bp):
AGTAAACATTAAAAGAATGTAATTGAGATTACAAGTATTTAATGTATATTTAATTTGAAATTAAA
TAAGATTTTA
Found at i:1579874 original size:29 final size:28
Alignment explanation
Indices: 1579820--1579878 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 28
1579810 ACATTAAGAC
*
1579820 AATTAAAGATAAGATAAAACAATGTAAT
1 AATTAAAGATAAGAGAAAACAATGTAAT
*
1579848 AATTAAAGATAAAGAGATAAA-TATGTAAT
1 AATTAAAGAT-AAGAGA-AAACAATGTAAT
1579877 AA
1 AA
1579879 AGAACATCTC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 10 0.37
29 14 0.52
30 3 0.11
ACGTcount: A:0.61, C:0.02, G:0.12, T:0.25
Consensus pattern (28 bp):
AATTAAAGATAAGAGAAAACAATGTAAT
Found at i:1581530 original size:23 final size:22
Alignment explanation
Indices: 1581476--1581531 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
1581466 GAAAGAGCTG
*
1581476 AAGGTAGCTGAACTGAGGCCAA
1 AAGGTAGCTGAACTGAAGCCAA
* *
1581498 AAGGTAGCTGAAGTGAAGCTAA
1 AAGGTAGCTGAACTGAAGCCAA
*
1581520 GATGGTAGCTGA
1 -AAGGTAGCTGA
1581532 GTAACTGGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 19 0.66
23 10 0.34
ACGTcount: A:0.36, C:0.12, G:0.34, T:0.18
Consensus pattern (22 bp):
AAGGTAGCTGAACTGAAGCCAA
Found at i:1595514 original size:76 final size:76
Alignment explanation
Indices: 1595381--1595522 Score: 187
Period size: 76 Copynumber: 1.9 Consensus size: 76
1595371 TTTAATTAAT
* * * * * *
1595381 TAAATTCTTATTTAATTAATTCAAATTAATATCCATTAAATACTTATAATCCGAATTACACTCTT
1 TAAACTCTTATTTAATTAATTCAAATTAAAACCCATGAAAGACTTATAATCAGAATTACACTCTT
1595446 TAACATTTATC
66 TAACATTTATC
* * *
1595457 TAAACTCTTATTTAATTAATTCAAATTAAAAACCCATGAAAGAGTT-TAATCATAATTACCCTCT
1 TAAACTCTTATTTAATTAATTCAAATT-AAAACCCATGAAAGACTTATAATCAGAATTACACTCT
1595521 TT
65 TT
1595523 TAATGTTTAC
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
76 43 0.77
77 13 0.23
ACGTcount: A:0.40, C:0.16, G:0.03, T:0.41
Consensus pattern (76 bp):
TAAACTCTTATTTAATTAATTCAAATTAAAACCCATGAAAGACTTATAATCAGAATTACACTCTT
TAACATTTATC
Found at i:1603619 original size:77 final size:78
Alignment explanation
Indices: 1603467--1603624 Score: 300
Period size: 77 Copynumber: 2.0 Consensus size: 78
1603457 CTTTTGAAGC
1603467 ATTATATGGAAGAAAATCGAACTTCAGTTAATTGGTATGAGTTGAAAGATCGAGTTATAATTGAT
1 ATTATATGGAAGAAAATCGAACTTCAGTTAATTGGTA-GAGTTGAAAGATCGAGTTATAATTGAT
1603532 CAAAATCTAACCAA
65 CAAAATCTAACCAA
1603546 ATTATATGGAAGAAAATCGAACTTCAGTTAATTGGTA-AGTTGAAAGATCGAGTTATAATTGATC
1 ATTATATGGAAGAAAATCGAACTTCAGTTAATTGGTAGAGTTGAAAGATCGAGTTATAATTGATC
1603610 AAAATCTAACCAA
66 AAAATCTAACCAA
1603623 AT
1 AT
1603625 AAGTATAAGA
Statistics
Matches: 79, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
77 42 0.53
79 37 0.47
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.30
Consensus pattern (78 bp):
ATTATATGGAAGAAAATCGAACTTCAGTTAATTGGTAGAGTTGAAAGATCGAGTTATAATTGATC
AAAATCTAACCAA
Found at i:1615116 original size:21 final size:19
Alignment explanation
Indices: 1615078--1615123 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 19
1615068 AATTAATCCT
1615078 ACTAAGTATTAAAGCTAAGA
1 ACTAA-TATTAAAGCTAAGA
1615098 ACTAATATTAAGGAGCTAAGA
1 ACTAATATTAA--AGCTAAGA
1615119 A-TAAT
1 ACTAAT
1615124 GATTCAATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 9 0.38
21 9 0.38
ACGTcount: A:0.50, C:0.09, G:0.15, T:0.26
Consensus pattern (19 bp):
ACTAATATTAAAGCTAAGA
Found at i:1625421 original size:21 final size:19
Alignment explanation
Indices: 1625383--1625428 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 19
1625373 AATTAATCCT
1625383 ACTAAGTATTAAAGCTAAGA
1 ACTAA-TATTAAAGCTAAGA
1625403 ACTAATATTAAGGAGCTAAGA
1 ACTAATATTAA--AGCTAAGA
1625424 A-TAAT
1 ACTAAT
1625429 GAATCAATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 9 0.38
21 9 0.38
ACGTcount: A:0.50, C:0.09, G:0.15, T:0.26
Consensus pattern (19 bp):
ACTAATATTAAAGCTAAGA
Found at i:1644844 original size:29 final size:28
Alignment explanation
Indices: 1644788--1644846 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 28
1644778 AGACTAAGAG
*
1644788 AATTAAAGACAAGATAAAACAAGGTAAT
1 AATTAAAGACAAGAGAAAACAAGGTAAT
*
1644816 AATTAAAGACAAAGAGATAAATAA-GTAAT
1 AATTAAAGAC-AAGAGA-AAACAAGGTAAT
1644845 AA
1 AA
1644847 ATGAAACAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 10 0.37
29 12 0.44
30 5 0.19
ACGTcount: A:0.63, C:0.05, G:0.14, T:0.19
Consensus pattern (28 bp):
AATTAAAGACAAGAGAAAACAAGGTAAT
Found at i:1661743 original size:24 final size:24
Alignment explanation
Indices: 1661696--1661743 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
1661686 TCGATGCATA
*
1661696 TTCAAAGGGATGCATCGAATCACT
1 TTCAAAGGGATGCAGCGAATCACT
1661720 TTCAAAGGGATGCAGC-AATGCACT
1 TTCAAAGGGATGCAGCGAAT-CACT
1661744 GTTAAGTGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 3 0.14
24 19 0.86
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.23
Consensus pattern (24 bp):
TTCAAAGGGATGCAGCGAATCACT
Found at i:1674978 original size:6 final size:6
Alignment explanation
Indices: 1674967--1675225 Score: 490
Period size: 6 Copynumber: 43.8 Consensus size: 6
1674957 AAGTGAGACG
1674967 GTGAGT GTGAGT GTGAGT GT--GT GTGAGT GTGAGT GTGA-- GTGAGT
1 GTGAGT GTGAGT GTGAGT GTGAGT GTGAGT GTGAGT GTGAGT GTGAGT
1675011 GTGAGT GTGAGT GTGAGT GTGAGT GTGAGT GTGAGT GTGAGT GTGAGT
1 GTGAGT GTGAGT GTGAGT GTGAGT GTGAGT GTGAGT GTGAGT GTGAGT
1675059 GTGAGT GTGAGT GTGAGT GTGAGT GTGAGT GTGAGT GTGAGT GTGAGT
1 GTGAGT GTGAGT GTGAGT GTGAGT GTGAGT GTGAGT GTGAGT GTGAGT
1675107 GTGAGT GTGAGT GTGAGT GTGAGT GTGAGT GTGAGT GTGAGT GTGAGT
1 GTGAGT GTGAGT GTGAGT GTGAGT GTGAGT GTGAGT GTGAGT GTGAGT
1675155 GTGAGT GTGAGT GTGAGT GTGAGT GTGAGT GTGAGT GTGAGT GTGAGT
1 GTGAGT GTGAGT GTGAGT GTGAGT GTGAGT GTGAGT GTGAGT GTGAGT
1675203 GTGAGT GTGAGT GTGAGT GTGAG
1 GTGAGT GTGAGT GTGAGT GTGAG
1675226 AGTAAGAGAG
Statistics
Matches: 249, Mismatches: 0, Indels: 8
0.97 0.00 0.03
Matches are distributed among these distances:
4 8 0.03
6 241 0.97
ACGTcount: A:0.17, C:0.00, G:0.50, T:0.33
Consensus pattern (6 bp):
GTGAGT
Found at i:1676764 original size:134 final size:134
Alignment explanation
Indices: 1676524--1676795 Score: 544
Period size: 134 Copynumber: 2.0 Consensus size: 134
1676514 TTGAAATTTA
1676524 TTTTTTATTCAAGGTCAATATTGAGATATAGAAGATATTATAAGCGGGTTAAAAATCGCGTTGAA
1 TTTTTTATTCAAGGTCAATATTGAGATATAGAAGATATTATAAGCGGGTTAAAAATCGCGTTGAA
1676589 TATGGTTCCAAAGCTTGTTTTGTGCATGAAGAAAATGTTAAAATGGTTTGGTGGGCATATTCGAG
66 TATGGTTCCAAAGCTTGTTTTGTGCATGAAGAAAATGTTAAAATGGTTTGGTGGGCATATTCGAG
1676654 GGGG
131 GGGG
1676658 TTTTTTATTCAAGGTCAATATTGAGATATAGAAGATATTATAAGCGGGTTAAAAATCGCGTTGAA
1 TTTTTTATTCAAGGTCAATATTGAGATATAGAAGATATTATAAGCGGGTTAAAAATCGCGTTGAA
1676723 TATGGTTCCAAAGCTTGTTTTGTGCATGAAGAAAATGTTAAAATGGTTTGGTGGGCATATTCGAG
66 TATGGTTCCAAAGCTTGTTTTGTGCATGAAGAAAATGTTAAAATGGTTTGGTGGGCATATTCGAG
1676788 GGGG
131 GGGG
1676792 TTTT
1 TTTT
1676796 CAGGTAGTTA
Statistics
Matches: 138, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
134 138 1.00
ACGTcount: A:0.31, C:0.08, G:0.26, T:0.35
Consensus pattern (134 bp):
TTTTTTATTCAAGGTCAATATTGAGATATAGAAGATATTATAAGCGGGTTAAAAATCGCGTTGAA
TATGGTTCCAAAGCTTGTTTTGTGCATGAAGAAAATGTTAAAATGGTTTGGTGGGCATATTCGAG
GGGG
Found at i:1680043 original size:23 final size:25
Alignment explanation
Indices: 1680017--1680067 Score: 70
Period size: 23 Copynumber: 2.1 Consensus size: 25
1680007 CTAAATTCAG
* *
1680017 AAAATACAAATAA-A-TAAATATAA
1 AAAATAAAAATAATATTAAAAATAA
1680040 AAAATAAAAATAATATTAAAAATAA
1 AAAATAAAAATAATATTAAAAATAA
1680065 AAA
1 AAA
1680068 TTGTAAAATG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 12 0.50
24 1 0.04
25 11 0.46
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (25 bp):
AAAATAAAAATAATATTAAAAATAA
Found at i:1680060 original size:18 final size:18
Alignment explanation
Indices: 1680024--1680068 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
1680014 CAGAAAATAC
*
1680024 AAATAAATA-AATATAAA
1 AAATAAAAATAATATAAA
*
1680041 AAATAAAAATAATATTAA
1 AAATAAAAATAATATAAA
1680059 AAATAAAAAT
1 AAATAAAAAT
1680069 TGTAAAATGG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 8 0.32
18 17 0.68
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (18 bp):
AAATAAAAATAATATAAA
Found at i:1683134 original size:184 final size:184
Alignment explanation
Indices: 1682825--1683184 Score: 641
Period size: 184 Copynumber: 2.0 Consensus size: 184
1682815 TTCCTGGCCA
* *
1682825 TAAATCAAAACAAATAATATCAGTAATTTACCAAAATTCCCGATAACGACACCAATTTGAAAAGC
1 TAAATCAAAACAAATAATATCAGTAATTTACCAAAATCCCCGACAACGACACCAATTTGAAAAGC
*
1682890 TTCGTAATTGTTAAATAAATAAGCCCTTTTTCTTAGATAAATAAGCTATAAATGCATAACAGAGA
66 TTCATAATTGTTAAATAAATAAGCCCTTTTTCTTAGATAAATAAGCTATAAATGCATAACAGAGA
*
1682955 AGAATGGGTCGATCCAGAAGGATTTGAAAATTTCTAATGTTGATTTGAATTGAT
131 AGAAGGGGTCGATCCAGAAGGATTTGAAAATTTCTAATGTTGATTTGAATTGAT
* *
1683009 TAAATCAAAACAAATAATATCAGTAATTTACCAAAATCCCCGACAACGGA-ACCAATTTTACAAG
1 TAAATCAAAACAAATAATATCAGTAATTTACCAAAATCCCCGACAAC-GACACCAATTTGAAAAG
*
1683073 CTTCATAATTGTTAAATAAATAAGCCCTTTTTCTTAGATAGATAAGCTATAAATGCATAACAGAG
65 CTTCATAATTGTTAAATAAATAAGCCCTTTTTCTTAGATAAATAAGCTATAAATGCATAACAGAG
1683138 AAGAAGGGGTCGATCCAGAAGGATTTGAAAATTTCTAATGTTGATTT
130 AAGAAGGGGTCGATCCAGAAGGATTTGAAAATTTCTAATGTTGATTT
1683185 AAAAATTTCT
Statistics
Matches: 168, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
184 166 0.99
185 2 0.01
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.30
Consensus pattern (184 bp):
TAAATCAAAACAAATAATATCAGTAATTTACCAAAATCCCCGACAACGACACCAATTTGAAAAGC
TTCATAATTGTTAAATAAATAAGCCCTTTTTCTTAGATAAATAAGCTATAAATGCATAACAGAGA
AGAAGGGGTCGATCCAGAAGGATTTGAAAATTTCTAATGTTGATTTGAATTGAT
Found at i:1683189 original size:21 final size:21
Alignment explanation
Indices: 1683159--1683205 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
1683149 GATCCAGAAG
*
1683159 GATTTGAAAATTTCTAATGTT
1 GATTTAAAAATTTCTAATGTT
1683180 GATTTAAAAATTTCTAATGTT
1 GATTTAAAAATTTCTAATGTT
1683201 GATTT
1 GATTT
1683206 GAATTTATCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.34, C:0.04, G:0.13, T:0.49
Consensus pattern (21 bp):
GATTTAAAAATTTCTAATGTT
Found at i:1686734 original size:25 final size:25
Alignment explanation
Indices: 1686697--1686754 Score: 89
Period size: 25 Copynumber: 2.3 Consensus size: 25
1686687 AGTGCGAATA
* *
1686697 TGCACTCCTGTATTAGTGCATTTGT
1 TGCACTCCAGTATTAGTGCATTTGC
*
1686722 TGCACTCCAGTATTAGTGCCTTTGC
1 TGCACTCCAGTATTAGTGCATTTGC
1686747 TGCACTCC
1 TGCACTCC
1686755 TATAGTAGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.16, C:0.28, G:0.19, T:0.38
Consensus pattern (25 bp):
TGCACTCCAGTATTAGTGCATTTGC
Found at i:1686763 original size:25 final size:25
Alignment explanation
Indices: 1686697--1686785 Score: 83
Period size: 25 Copynumber: 3.6 Consensus size: 25
1686687 AGTGCGAATA
* *
1686697 TGCACTCCTGTATTAGTGCATTTGT
1 TGCACTCCTATATTAGTGCATTTGC
*
1686722 TGCACTCC-AGTATTAGTGCCTTTGC
1 TGCACTCCTA-TATTAGTGCATTTGC
* * *
1686747 TGCACTCCTATAGTAGTACATATG-
1 TGCACTCCTATATTAGTGCATTTGC
* *
1686771 GGCACTCCTGTATTA
1 TGCACTCCTATATTA
1686786 ATACCTTTTG
Statistics
Matches: 52, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
24 12 0.23
25 39 0.75
26 1 0.02
ACGTcount: A:0.20, C:0.24, G:0.19, T:0.37
Consensus pattern (25 bp):
TGCACTCCTATATTAGTGCATTTGC
Found at i:1687840 original size:16 final size:16
Alignment explanation
Indices: 1687816--1687861 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 16
1687806 TTTTGGTTCA
*
1687816 GTTACTTTCAGTTTGG
1 GTTAATTTCAGTTTGG
*
1687832 GTTAATTTCAGATT-G
1 GTTAATTTCAGTTTGG
*
1687847 GTTAAATTCAGTTTG
1 GTTAATTTCAGTTTG
1687862 ATTTTGGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
15 13 0.52
16 12 0.48
ACGTcount: A:0.22, C:0.09, G:0.22, T:0.48
Consensus pattern (16 bp):
GTTAATTTCAGTTTGG
Found at i:1687851 original size:15 final size:16
Alignment explanation
Indices: 1687816--1687857 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
1687806 TTTTGGTTCA
* *
1687816 GTTACTTTCAGTTTGG
1 GTTAATTTCAGATTGG
1687832 GTTAATTTCAGATT-G
1 GTTAATTTCAGATTGG
*
1687847 GTTAAATTCAG
1 GTTAATTTCAG
1687858 TTTGATTTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
15 11 0.48
16 12 0.52
ACGTcount: A:0.24, C:0.10, G:0.21, T:0.45
Consensus pattern (16 bp):
GTTAATTTCAGATTGG
Found at i:1690764 original size:27 final size:27
Alignment explanation
Indices: 1690731--1690783 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
1690721 AATATTATGT
*
1690731 AATAAAAATAAAATGATTAAATTTAAC
1 AATAAAAACAAAATGATTAAATTTAAC
*
1690758 AATAAAAACAAAATTATTAAATTTAA
1 AATAAAAACAAAATGATTAAATTTAA
1690784 TTCGAAAAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.30
Consensus pattern (27 bp):
AATAAAAACAAAATGATTAAATTTAAC
Found at i:1691263 original size:13 final size:13
Alignment explanation
Indices: 1691245--1691285 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
1691235 TGATAAAAAT
1691245 AATATTTTAATAA
1 AATATTTTAATAA
1691258 AATA-TTTAA-AA
1 AATATTTTAATAA
*
1691269 TATATTATTAATAA
1 AATATT-TTAATAA
1691283 AAT
1 AAT
1691286 TTAAAATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
11 5 0.22
12 6 0.26
13 8 0.35
14 4 0.17
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
AATATTTTAATAA
Found at i:1691268 original size:25 final size:25
Alignment explanation
Indices: 1691238--1691299 Score: 83
Period size: 25 Copynumber: 2.5 Consensus size: 25
1691228 TTAATTTTGA
1691238 TAAAAATAATATT-TTAATAAAATAT
1 TAAAAATAATATTATTAATAAAAT-T
*
1691263 TTAAAAT-ATATTATTAATAAAATT
1 TAAAAATAATATTATTAATAAAATT
1691287 TAAAATATAATAT
1 TAAAA-ATAATAT
1691300 AATAATATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
24 10 0.31
25 18 0.56
26 4 0.12
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (25 bp):
TAAAAATAATATTATTAATAAAATT
Found at i:1691291 original size:23 final size:24
Alignment explanation
Indices: 1691240--1691308 Score: 83
Period size: 23 Copynumber: 3.0 Consensus size: 24
1691230 AATTTTGATA
1691240 AAAATAATATT-TTAATAAAATATTT
1 AAAAT-ATATTATTAAT-AAATATTT
1691265 AAAATATATTATTAATAAA-ATTT
1 AAAATATATTATTAATAAATATTT
*
1691288 AAAATATAATA-TAAT-AATATT
1 AAAATATATTATTAATAAATATT
1691309 ATTTTAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
21 2 0.05
22 7 0.17
23 14 0.34
24 8 0.20
25 10 0.24
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (24 bp):
AAAATATATTATTAATAAATATTT
Found at i:1691305 original size:25 final size:25
Alignment explanation
Indices: 1691238--1691333 Score: 72
Period size: 26 Copynumber: 3.8 Consensus size: 25
1691228 TTAATTTTGA
**
1691238 TAAAA-ATAATATTTTAATAAAATATT
1 TAAAATATAATATAATAAT-AAA-ATT
*
1691264 TAAAATAT-AT-TATTAATAAAATT
1 TAAAATATAATATAATAATAAAATT
* *
1691287 TAAAATATAATATAATAATATTATTT
1 TAAAATATAATATAATAATA-AAATT
** *
1691313 TAATTTTTAATATAATAATAA
1 TAAAATATAATATAATAATAA
1691334 TAATAATGTT
Statistics
Matches: 58, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
23 11 0.19
24 5 0.09
25 13 0.22
26 27 0.47
27 2 0.03
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (25 bp):
TAAAATATAATATAATAATAAAATT
Found at i:1691388 original size:22 final size:21
Alignment explanation
Indices: 1691353--1691417 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 21
1691343 TTTTAAACAA
* *
1691353 ATATTTAATATAATAAATAAT
1 ATATTTATTTTAATAAATAAT
*
1691374 ACTCA-TTATTTTAATAATATATT
1 A-T-ATTTATTTTAATAA-ATAAT
*
1691397 ATATTTGTTTTAATAAATAAT
1 ATATTTATTTTAATAAATAAT
1691418 TGGTATAATT
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
21 6 0.17
22 23 0.66
23 6 0.17
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.49
Consensus pattern (21 bp):
ATATTTATTTTAATAAATAAT
Found at i:1691487 original size:33 final size:31
Alignment explanation
Indices: 1691429--1691529 Score: 84
Period size: 30 Copynumber: 3.3 Consensus size: 31
1691419 GGTATAATTC
*
1691429 ATAATA-TTTTTATTTTAATAGAATATTATAA
1 ATAATATTTTTTATTTTAATAGAATA-TAGAA
1691460 TATTAATATTTTTTATTTATAA-A-AATATAGAA
1 -A-TAATATTTTTTATTT-TAATAGAATATAGAA
* ** * *
1691492 ATAATATTTTTAATAATAATATAA-ATATAA
1 ATAATATTTTTTATTTTAATAGAATATAGAA
1691522 ATAATATT
1 ATAATATT
1691530 AAATAAACTA
Statistics
Matches: 59, Mismatches: 5, Indels: 12
0.78 0.07 0.16
Matches are distributed among these distances:
29 3 0.05
30 26 0.44
31 3 0.05
32 5 0.08
33 9 0.15
34 10 0.17
35 3 0.05
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.49
Consensus pattern (31 bp):
ATAATATTTTTTATTTTAATAGAATATAGAA
Found at i:1691499 original size:30 final size:33
Alignment explanation
Indices: 1691429--1691502 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 33
1691419 GGTATAATTC
*
1691429 ATAATA-TTTTTATTTTAATAGAATATTATAAT
1 ATAATATTTTTTATTTTAATAGAATATTAGAAT
1691461 ATTAATATTTTTTATTTATAA-A-AATA-TAGAA-
1 A-TAATATTTTTTATTT-TAATAGAATATTAGAAT
1691492 ATAATATTTTT
1 ATAATATTTTT
1691503 AATAATAATA
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
30 10 0.26
31 1 0.03
32 5 0.13
33 9 0.24
34 10 0.26
35 3 0.08
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (33 bp):
ATAATATTTTTTATTTTAATAGAATATTAGAAT
Found at i:1691509 original size:23 final size:24
Alignment explanation
Indices: 1691473--1691518 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
1691463 TAATATTTTT
1691473 TATTTATAAAAAT-ATAGAAATAA
1 TATTTATAAAAATAATAGAAATAA
* * *
1691496 TATTTTTAATAATAATATAAATA
1 TATTTATAAAAATAATAGAAATA
1691519 TAAATAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (24 bp):
TATTTATAAAAATAATAGAAATAA
Found at i:1691779 original size:229 final size:233
Alignment explanation
Indices: 1691519--1691988 Score: 743
Period size: 229 Copynumber: 2.0 Consensus size: 233
1691509 AATATAAATA
* * *
1691519 TAAATAATATTAAATAAACTATTCAAATATTTTAAAAATAATTATATTGAGTTTTATAATAAATA
1 TAAATACTATTAAATAAACTATTCAAATATTTTAAAAATAATTATACTGAGATTTATAATAAATA
* *
1691584 ACATTATTTAGTATATTTAATTTTTATAATAAATATTTTT-AAAAAATATATCAATTATTGGAAA
66 ACATTATTTAGTATATTTAATTTGTATAATAAATATTTTTAAAAAAAT-TATCAATTATTGAAAA
* * *
1691648 ATGATTTATACAATATCATTCAAACTTTATAAAAATA-TTTTTTAAATATAATTCATTTTAC-GA
130 ATGATTTAAACAATATCATTCAAACATTATAAAAATATTTTTTTAAATATAATTCATTTTACAAA
* * *
1691711 AAAAAA-T-AGAAAATATTTTTTGTGAACATATGACCTT
195 AAAAAATTAAAAAAATAGTTTTTGTGAACATACGACCTT
*
1691748 TAAATACTATTAAATAAACTATTCTAATATTTTAAAAATAATTATACTGAGATTTATAATAAATA
1 TAAATACTATTAAATAAACTATTCAAATATTTTAAAAATAATTATACTGAGATTTATAATAAATA
** *
1691813 TTATTATTTAGTATATTTAATTTGTGTAATAAATATTTTTAAAAAAATTATCAATTATTGAAAAA
66 ACATTATTTAGTATATTTAATTTGTATAATAAATATTTTTAAAAAAATTATCAATTATTGAAAAA
*
1691878 TGATTTAAACAATATCATTCAAACATTATAAAAATATTTTTTTAAATGTAATTCATTTTACAAAA
131 TGATTTAAACAATATCATTCAAACATTATAAAAATATTTTTTTAAATATAATTCATTTTACAAAA
1691943 AAAAATTTAAAAAAATAGTTTTTGTGAACATACGACCTT
196 AAAAA-TTAAAAAAATAGTTTTTGTGAACATACGACCTT
1691982 TAAATAC
1 TAAATAC
1691989 GTGTAGTAGT
Statistics
Matches: 219, Mismatches: 16, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
229 147 0.67
230 30 0.14
231 7 0.03
233 1 0.00
234 34 0.16
ACGTcount: A:0.47, C:0.06, G:0.05, T:0.42
Consensus pattern (233 bp):
TAAATACTATTAAATAAACTATTCAAATATTTTAAAAATAATTATACTGAGATTTATAATAAATA
ACATTATTTAGTATATTTAATTTGTATAATAAATATTTTTAAAAAAATTATCAATTATTGAAAAA
TGATTTAAACAATATCATTCAAACATTATAAAAATATTTTTTTAAATATAATTCATTTTACAAAA
AAAAATTAAAAAAATAGTTTTTGTGAACATACGACCTT
Found at i:1693311 original size:38 final size:36
Alignment explanation
Indices: 1693269--1693340 Score: 92
Period size: 38 Copynumber: 1.9 Consensus size: 36
1693259 TTTTCGATAT
1693269 GAAGAATGTAACATTTTCGATTGTC-AACAAAAAAGTAC
1 GAAGAATGTAACATTTTCG---GTCTAACAAAAAAGTAC
* *
1693307 GAAGAATTTAGCATTTTCGGTCTAACAAAAAAGT
1 GAAGAATGTAACATTTTCGGTCTAACAAAAAAGT
1693341 TAGAAAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
35 3 0.10
36 11 0.35
38 17 0.55
ACGTcount: A:0.43, C:0.12, G:0.17, T:0.28
Consensus pattern (36 bp):
GAAGAATGTAACATTTTCGGTCTAACAAAAAAGTAC
Found at i:1697472 original size:15 final size:15
Alignment explanation
Indices: 1697431--1697475 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
1697421 AAAAATAATA
*
1697431 AATTTAATTATTGAT-
1 AATTTAATT-TTTATC
*
1697446 AATTTAAATTTTATC
1 AATTTAATTTTTATC
1697461 AATTTAATTTTTATC
1 AATTTAATTTTTATC
1697476 TTAATTCTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
14 4 0.15
15 22 0.85
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.56
Consensus pattern (15 bp):
AATTTAATTTTTATC
Found at i:1700186 original size:23 final size:24
Alignment explanation
Indices: 1700146--1700192 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
1700136 AAAAACTTTG
1700146 AAAAATATGTAAAC-AAAAATAAA
1 AAAAATATGTAAACAAAAAATAAA
* **
1700169 AAAAATATTTAATTAAAAAATAAA
1 AAAAATATGTAAACAAAAAATAAA
1700193 TTTTAATTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.23
Consensus pattern (24 bp):
AAAAATATGTAAACAAAAAATAAA
Found at i:1700187 original size:17 final size:16
Alignment explanation
Indices: 1700165--1700224 Score: 66
Period size: 17 Copynumber: 3.5 Consensus size: 16
1700155 TAAACAAAAA
1700165 TAAAAAAAATATTTAAT
1 TAAAAAAAA-ATTTAAT
1700182 TAAAAAATAAATTTTAAT
1 TAAAAAA-AAA-TTTAAT
* *
1700200 TTAAATAAAATTTAAT
1 TAAAAAAAAATTTAAT
1700216 TACAAAAAA
1 TA-AAAAAA
1700225 TCCATTCATA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
16 7 0.19
17 16 0.44
18 13 0.36
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (16 bp):
TAAAAAAAAATTTAAT
Found at i:1700188 original size:16 final size:16
Alignment explanation
Indices: 1700167--1700225 Score: 57
Period size: 16 Copynumber: 3.5 Consensus size: 16
1700157 AACAAAAATA
1700167 AAAAAAATATTTAATT
1 AAAAAAATATTTAATT
*
1700183 AAAAAATAAATTTTAATTT
1 AAAAAA-ATA-TTTAA-TT
*
1700202 AAATAAA-ATTTAATT
1 AAAAAAATATTTAATT
1700217 ACAAAAAAT
1 A-AAAAAAT
1700226 CCATTCATAT
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
15 3 0.09
16 16 0.46
17 3 0.09
18 6 0.17
19 7 0.20
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.36
Consensus pattern (16 bp):
AAAAAAATATTTAATT
Found at i:1700203 original size:19 final size:18
Alignment explanation
Indices: 1700166--1700224 Score: 61
Period size: 18 Copynumber: 3.3 Consensus size: 18
1700156 AAACAAAAAT
1700166 AAAAAAAATATTTAATTA
1 AAAAAAAATATTTAATTA
1700184 AAAAATAAAT-TTTAATT-
1 AAAAA-AAATATTTAATTA
* *
1700201 TAAATAAA-ATTTAATTA
1 AAAAAAAATATTTAATTA
1700218 CAAAAAA
1 -AAAAAA
1700225 TCCATTCATA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
16 10 0.30
17 3 0.09
18 16 0.48
19 4 0.12
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (18 bp):
AAAAAAAATATTTAATTA
Found at i:1702837 original size:47 final size:46
Alignment explanation
Indices: 1702778--1702946 Score: 202
Period size: 47 Copynumber: 3.7 Consensus size: 46
1702768 AAATCTTTTT
1702778 CCATTT-ATTCCATAAGCTCGTAAGCTTATTTTACCAAAATACTTA
1 CCATTTAATTCCATAAGCTCGTAAGCTTATTTTACCAAAATACTTA
* *
1702823 CCATTTAAATTCCATAAGCTCATAAGCTTATTTTATACAAAATACTTA
1 CCATTT-AATTCCATAAGCTCGTAAGCTTATTTTA-CCAAAATACTTA
* * *
1702871 CCATTTAA-TCTCATAAGCTCGTAAGCTTATTTTACCCATATACTTG
1 CCATTTAATTC-CATAAGCTCGTAAGCTTATTTTACCAAAATACTTA
* * * *
1702917 TCA-TT-ATTCCAAAAGGTCATAAGCTTATTT
1 CCATTTAATTCCATAAGCTCGTAAGCTTATTT
1702947 GTATACTTAC
Statistics
Matches: 108, Mismatches: 11, Indels: 11
0.83 0.08 0.08
Matches are distributed among these distances:
44 19 0.18
45 10 0.09
46 12 0.11
47 50 0.46
48 17 0.16
ACGTcount: A:0.34, C:0.21, G:0.07, T:0.38
Consensus pattern (46 bp):
CCATTTAATTCCATAAGCTCGTAAGCTTATTTTACCAAAATACTTA
Found at i:1703095 original size:40 final size:40
Alignment explanation
Indices: 1703051--1703172 Score: 208
Period size: 40 Copynumber: 3.0 Consensus size: 40
1703041 ACCGTAGTGC
* *
1703051 TACACATAAGGTCTTGCCCATCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
* *
1703091 TACACACAAGTTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1703131 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1703171 TA
1 TA
1703173 TAAACCTGCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 76 1.00
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.25
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
Found at i:1706921 original size:29 final size:28
Alignment explanation
Indices: 1706870--1706974 Score: 115
Period size: 29 Copynumber: 3.6 Consensus size: 28
1706860 GCATCTCTCA
*
1706870 TTTCATTTTTTTTCTT-TTTCTTTTTCTT
1 TTTC-TTTTTTTTTTTCTTTCTTTTTCTT
1706898 TTT-TTCTTTCTTTTTTCTTTCTTTTTCTT
1 TTTCTT-TTT-TTTTTTCTTTCTTTTTCTT
1706927 TTTCTTTTTTTTTCTTCTTTCTTTTTCTGT
1 TTTCTTTTTTTTT-TTCTTTCTTTTTCT-T
* * *
1706957 TTCCTTTTTCTTCTTCTT
1 TTTCTTTTTTTTTTTCTT
1706975 CTATTATTTT
Statistics
Matches: 67, Mismatches: 4, Indels: 11
0.82 0.05 0.13
Matches are distributed among these distances:
26 2 0.03
27 3 0.04
28 12 0.18
29 37 0.55
30 13 0.19
ACGTcount: A:0.01, C:0.18, G:0.01, T:0.80
Consensus pattern (28 bp):
TTTCTTTTTTTTTTTCTTTCTTTTTCTT
Found at i:1706924 original size:35 final size:35
Alignment explanation
Indices: 1706875--1706987 Score: 138
Period size: 35 Copynumber: 3.2 Consensus size: 35
1706865 TCTCATTTCA
1706875 TTTTTTTTCTTTTTCTTTTTCTTTTTTTCT-TTCT
1 TTTTTTTTCTTTTTCTTTTTCTTTTTTTCTATTCT
* *
1706909 TTTTTCTTTCTTTTTCTTTTTCTTTTTTTTTCTTCT
1 TTTTT-TTTCTTTTTCTTTTTCTTTTTTTCTATTCT
* * * *
1706945 TTCTTTTTCTGTTTCCTTTTTCTTCTTCTTCTATTAT
1 TTTTTTTTCT-TTTTCTTTTTCTT-TTTTTCTATTCT
1706982 TTTTTT
1 TTTTTT
1706988 ATGTCATCTG
Statistics
Matches: 67, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
34 5 0.07
35 29 0.43
36 20 0.30
37 13 0.19
ACGTcount: A:0.02, C:0.17, G:0.01, T:0.81
Consensus pattern (35 bp):
TTTTTTTTCTTTTTCTTTTTCTTTTTTTCTATTCT
Found at i:1706976 original size:6 final size:6
Alignment explanation
Indices: 1706878--1706974 Score: 112
Period size: 6 Copynumber: 16.3 Consensus size: 6
1706868 CATTTCATTT
*
1706878 TTTTTC TTTTTC TTTTTC TTTTT- TTCTTTC TTTTT- TCTTTC TTTTTC
1 TTTTTC TTTTTC TTTTTC TTTTTC TT-TTTC TTTTTC TTTTTC TTTTTC
* *
1706925 TTTTTC -TTTT- TTTTTC TTCTTTC TTTTTC TGTTTCC TTTTTC TTCTTC
1 TTTTTC TTTTTC TTTTTC TT-TTTC TTTTTC T-TTTTC TTTTTC TTTTTC
1706973 TT
1 TT
1706975 CTATTATTTT
Statistics
Matches: 79, Mismatches: 5, Indels: 14
0.81 0.05 0.14
Matches are distributed among these distances:
5 14 0.18
6 52 0.66
7 13 0.16
ACGTcount: A:0.00, C:0.19, G:0.01, T:0.80
Consensus pattern (6 bp):
TTTTTC
Found at i:1709327 original size:22 final size:23
Alignment explanation
Indices: 1709296--1709351 Score: 78
Period size: 22 Copynumber: 2.5 Consensus size: 23
1709286 AAGATTTTTT
* *
1709296 ATGAATAGTGATGAACAGTA-CC
1 ATGAACAGTGATGAACAATACCC
*
1709318 GTGAACAGTGATGAACAATACCC
1 ATGAACAGTGATGAACAATACCC
1709341 ATGAACAGTGA
1 ATGAACAGTGA
1709352 ACAATGTACC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 17 0.59
23 12 0.41
ACGTcount: A:0.41, C:0.16, G:0.23, T:0.20
Consensus pattern (23 bp):
ATGAACAGTGATGAACAATACCC
Found at i:1709899 original size:47 final size:45
Alignment explanation
Indices: 1709831--1710002 Score: 229
Period size: 47 Copynumber: 3.8 Consensus size: 45
1709821 ATAAAATATT
*
1709831 TTACCATTTATCCCATAAGCTCGTAAGCTTATTTTACCAAAATAC
1 TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATAC
* *
1709876 TTACCATTTAAATTCCATAAGCTCATAAGCTTATTTTATACAAAATAC
1 TTACCATTT--ATTCCATAAGCTCGTAAGCTTATTTTA-CCAAAATAC
* * *
1709924 TTACCATTTAATCTCATAAGCTCGTAAGCTTATTTTACCCATATAC
1 TTACCATTTATTC-CATAAGCTCGTAAGCTTATTTTACCAAAATAC
* *
1709970 TTGCCA-TTATTCCAAAAGCTCGTAAGCTTATTT
1 TTACCATTTATTCCATAAGCTCGTAAGCTTATTT
1710003 GTATGCTTAC
Statistics
Matches: 112, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
44 20 0.18
45 14 0.12
46 14 0.12
47 47 0.42
48 17 0.15
ACGTcount: A:0.33, C:0.22, G:0.07, T:0.38
Consensus pattern (45 bp):
TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATAC
Found at i:1709942 original size:94 final size:90
Alignment explanation
Indices: 1709831--1710002 Score: 254
Period size: 94 Copynumber: 1.9 Consensus size: 90
1709821 ATAAAATATT
*
1709831 TTACCATTTATCCCATAAGCTCGTAAGCTTATTTTACCAAAATACTTACCATTTAAATTCCATAA
1 TTACCATTTATCCCATAAGCTCGTAAGCTTATTTTACCAAAATACTTACCA-TT--ATTCCAAAA
1709896 GCTCATAAGCTTATTTTATACAAAATAC
63 GCTCATAAGCTTATTTTATACAAAATAC
* * * *
1709924 TTACCATTTAATCTCATAAGCTCGTAAGCTTATTTTACCCATATACTTGCCATTATTCCAAAAGC
1 TTACCATTT-ATCCCATAAGCTCGTAAGCTTATTTTACCAAAATACTTACCATTATTCCAAAAGC
*
1709989 TCGTAAGCTTATTT
65 TCATAAGCTTATTT
1710003 GTATGCTTAC
Statistics
Matches: 72, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
91 23 0.32
93 11 0.15
94 38 0.53
ACGTcount: A:0.33, C:0.22, G:0.07, T:0.38
Consensus pattern (90 bp):
TTACCATTTATCCCATAAGCTCGTAAGCTTATTTTACCAAAATACTTACCATTATTCCAAAAGCT
CATAAGCTTATTTTATACAAAATAC
Found at i:1710164 original size:40 final size:40
Alignment explanation
Indices: 1710107--1710228 Score: 201
Period size: 40 Copynumber: 3.0 Consensus size: 40
1710097 ACCGTAGTGC
* *
1710107 TACACATAAGGTCGTGCCCACCATATACACCAAAGTGTAT
1 TACACATAAGGTTGTGCCCACCATATACACCGAAGTGTAT
1710147 TACACATAAGGTTGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTTGTGCCCACCATATACACCGAAGTGTAT
*
1710187 TACACATAA-TTTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTT-GTGCCCACCATATACACCGAAGTGTAT
1710227 TA
1 TA
1710229 TAAACCTGCA
Statistics
Matches: 78, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
39 2 0.03
40 76 0.97
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.25
Consensus pattern (40 bp):
TACACATAAGGTTGTGCCCACCATATACACCGAAGTGTAT
Found at i:1717772 original size:15 final size:15
Alignment explanation
Indices: 1717746--1717793 Score: 51
Period size: 17 Copynumber: 3.0 Consensus size: 15
1717736 TTTAAACATC
*
1717746 CAAACAAATCCAAAGT
1 CAAAC-AATCCAAAAT
*
1717762 CTAACAATCCACAAAAT
1 CAAACAAT-C-CAAAAT
1717779 CAAACAATCCAAAAT
1 CAAACAATCCAAAAT
1717794 ATTCAAAATG
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
15 9 0.33
16 6 0.22
17 12 0.44
ACGTcount: A:0.56, C:0.27, G:0.02, T:0.15
Consensus pattern (15 bp):
CAAACAATCCAAAAT
Found at i:1726007 original size:3 final size:3
Alignment explanation
Indices: 1725999--1726030 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
1725989 TTGTTCTCTA
1725999 TTC TTC TTC TTC TTC TTC TTC TTC TTC -TC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1726031 CCCGTACCCT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TTC
Found at i:1726784 original size:16 final size:16
Alignment explanation
Indices: 1726763--1726800 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
1726753 AAATTTATAG
1726763 TACTTTTGAGCATTAT
1 TACTTTTGAGCATTAT
*
1726779 TACTTTTGAGTATTAT
1 TACTTTTGAGCATTAT
1726795 TACTTT
1 TACTTT
1726801 AGATAAGTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.24, C:0.11, G:0.11, T:0.55
Consensus pattern (16 bp):
TACTTTTGAGCATTAT
Found at i:1727479 original size:136 final size:137
Alignment explanation
Indices: 1727253--1727515 Score: 352
Period size: 136 Copynumber: 1.9 Consensus size: 137
1727243 ATACAATGTA
* ** * * * *
1727253 TATGATGGTTATCGATCGATTTTGTTTAATGCATATGTTGCATTTTCGTATCAGTATTATGTGTA
1 TATGAAGGTTATCGATCGATTTTGCATAATGCACATGTTGCATTCTCGTATCAGTACTATATGTA
* * *
1727318 CTTTCGGCACTAGATGTGCAACCATGGTATTCATAATAAGTTTTTTAATTAT-CATTTCGACATA
66 CTTTCGGCACTAGATGTGCAACCATGGAATTCATAATAAGTTTGTGAATT-TCCATTTCGACATA
1727382 TATTTCTG
130 TATTTCTG
* *
1727390 TATGAAGGTTTTCGATCGATTTTGCATAATGCACATG-TGCATTCTCGTATTAGTACTATATGTA
1 TATGAAGGTTATCGATCGATTTTGCATAATGCACATGTTGCATTCTCGTATCAGTACTATATGTA
* * *
1727454 CTTTTGGTACTATG-TGTGCATCCATGGAATTCATAATAAGTTTGTGAATTTCCATTTCGACA
66 CTTTCGGCACTA-GATGTGCAACCATGGAATTCATAATAAGTTTGTGAATTTCCATTTCGACA
1727516 CTTAGGTGCA
Statistics
Matches: 109, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
135 1 0.01
136 75 0.69
137 33 0.30
ACGTcount: A:0.26, C:0.14, G:0.17, T:0.43
Consensus pattern (137 bp):
TATGAAGGTTATCGATCGATTTTGCATAATGCACATGTTGCATTCTCGTATCAGTACTATATGTA
CTTTCGGCACTAGATGTGCAACCATGGAATTCATAATAAGTTTGTGAATTTCCATTTCGACATAT
ATTTCTG
Found at i:1731481 original size:55 final size:55
Alignment explanation
Indices: 1731413--1732004 Score: 794
Period size: 55 Copynumber: 10.8 Consensus size: 55
1731403 ATTTAATGTA
* * *
1731413 TATGTGTGCAACCCCACGGAATTCATAGTGAGTTTATGAATTTCCGTAGTGGCAC
1 TATGTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCAC
* * * * *
1731468 TTTGTGTGTAACCCCACAAAATTCATAATTAGTTTATGAATTTCTGTATTGGCAC
1 TATGTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCAC
*
1731523 TATGTGTGCAACCCCACGAAATTCATAATGAGTTTATGAGTTTCCGTATTGGCAC
1 TATGTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCAC
* *
1731578 TAAGTGTGCAACCCCACGAAATTCATAATGAGTTTATGACTTTCCGTATTGGCAC
1 TATGTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCAC
*
1731633 TATGT-TGGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGTAC
1 TATGTGT-GCAACCCCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCAC
*
1731688 TATTTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCAC
1 TATGTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCAC
* *
1731743 TATGTGTGCATCCCCACGAAATTCATAATGAGTTTATTAATTTCCGTATTGGCAC
1 TATGTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCAC
* * * * * *
1731798 TATGTATGCAACCCCATGAAATTCATAACGAGTTTATGAATTTCTGTATCGGTAC
1 TATGTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCAC
* * *
1731853 TGTGTGTGCAACCCCACAAAATTCATAATGAGTTCATGAATTTCCGTATTGGCAC
1 TATGTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCAC
* * * * * * ** * *
1731908 TATATGTGCAA-CCTACGTATTTCACAATGAGTTTGTGAATGACCGTATCGACAC
1 TATGTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCAC
* * * * * *
1731962 TATATGTGC-ACCCCAGGGATTTCAAAATGAGTTTGTGAATTTC
1 TATGTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTC
1732005 TATTTTGGTA
Statistics
Matches: 474, Mismatches: 60, Indels: 7
0.88 0.11 0.01
Matches are distributed among these distances:
53 1 0.00
54 68 0.14
55 404 0.85
56 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (55 bp):
TATGTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCAC
Found at i:1735768 original size:23 final size:23
Alignment explanation
Indices: 1735742--1735785 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
1735732 GCATATAAAA
*
1735742 GATAGTTCGGTTGTATGGAGTAC
1 GATAGTTCAGTTGTATGGAGTAC
1735765 GATAGTTCAGTTGTATGGAGT
1 GATAGTTCAGTTGTATGGAGT
1735786 GCCAGTATCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.23, C:0.07, G:0.34, T:0.36
Consensus pattern (23 bp):
GATAGTTCAGTTGTATGGAGTAC
Found at i:1737467 original size:55 final size:55
Alignment explanation
Indices: 1737373--1738018 Score: 920
Period size: 55 Copynumber: 11.8 Consensus size: 55
1737363 GTTTAATGTA
1737373 TATGTGTGCAACCCCACG-AATTCATAATGAGTTTATGAATTTCCGTATTGGCAC
1 TATGTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCAC
* * *
1737427 TATGTGTGCAACCCCATGAAATTTATAATTAGTTTATGAATTTCCGTATTGGCAC
1 TATGTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCAC
* * *
1737482 TATGTCTGCAACCCCACGAAATTTATAATGAGTTTATGAATTTCTGTATTGGCAC
1 TATGTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCAC
*
1737537 TATGTGTGCAACCCCACGAAATTTATAATGAGTTTATGAATTTCCGTATTGGCAC
1 TATGTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCAC
*
1737592 TATGTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCAT
1 TATGTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCAC
* *
1737647 TATGTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCCATATTGGTAC
1 TATGTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCAC
* * *
1737702 TATTTGTGCATCCCCACGAAATTCATAATGAATTTATGAATTTCCGTATTGGCAC
1 TATGTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCAC
* * ** *
1737757 TATGTGTGCATCCCCACGAAATTCATAACGAGTTTATGAATTTATGTATTTGCAC
1 TATGTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCAC
* * * *
1737812 TATGTATGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCTGTATCGGTAC
1 TATGTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCAC
* *
1737867 TATGTGTGCAACCCCACGAAATTCATAATGAGTTCATGAATTTCCGTATTGGCGC
1 TATGTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCAC
* * * * * ** **
1737922 TATGTGTGCAA-CCTACGTAATTCACAATTAGTTTGTGAATGACCGTACCGGCAC
1 TATGTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCAC
* * * * * *
1737976 TATATGTGC-ACCCCAAGGATTTCAAAATGAGTTTGTGAATTTC
1 TATGTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTC
1738019 TATTTTGGCA
Statistics
Matches: 532, Mismatches: 58, Indels: 4
0.90 0.10 0.01
Matches are distributed among these distances:
53 1 0.00
54 81 0.15
55 450 0.85
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (55 bp):
TATGTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCAC
Found at i:1738361 original size:2 final size:2
Alignment explanation
Indices: 1738354--1738380 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1738344 GATGTGTTTA
1738354 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1738381 ATTGAAGAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1742886 original size:136 final size:137
Alignment explanation
Indices: 1742666--1742918 Score: 357
Period size: 136 Copynumber: 1.9 Consensus size: 137
1742656 TGTATATGAT
* * * *
1742666 GGTTATCGATCGATTTGGTTTAATACTTATGTTGCATTTTCGTATCAGTACTATGTGTATTTTCG
1 GGTTATCGATCGATTTGGTTTAATACATATGTTGCATTTTCGTATCAGTAATATATGTACTTTCG
* *
1742731 ACACTAGATGTGCAACCATGGTATTCATAATGAGTTTGTGAATTACCATTTCGACATACATTTGT
66 ACACTAGATGTGCAACCATGGAATTCATAATAAGTTTGTGAATTACCATTTCGACATACATTTGT
1742796 GTTTGAA
131 GTTTGAA
* * * * * *
1742803 GGTTATTGATCGCTTTTGTTTAATGCATATG-TGCATTTTCGTATTAGTAATATATGTGCTTTCG
1 GGTTATCGATCGATTTGGTTTAATACATATGTTGCATTTTCGTATCAGTAATATATGTACTTTCG
* *
1742867 ACACTATG-TGTGCATCCATGGAATTCATAATAAGTTTGTGAATTTCCATTTC
66 ACACTA-GATGTGCAACCATGGAATTCATAATAAGTTTGTGAATTACCATTTC
1742919 AACACTTAGG
Statistics
Matches: 101, Mismatches: 14, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
136 74 0.73
137 27 0.27
ACGTcount: A:0.25, C:0.14, G:0.19, T:0.43
Consensus pattern (137 bp):
GGTTATCGATCGATTTGGTTTAATACATATGTTGCATTTTCGTATCAGTAATATATGTACTTTCG
ACACTAGATGTGCAACCATGGAATTCATAATAAGTTTGTGAATTACCATTTCGACATACATTTGT
GTTTGAA
Found at i:1744042 original size:2 final size:2
Alignment explanation
Indices: 1743999--1744030 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
1743989 TTTTGATCAA
1743999 AT AT AT A- AT AT -T 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
1744031 TAATGTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 26 0.93
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1747446 original size:2 final size:2
Alignment explanation
Indices: 1747439--1747501 Score: 119
Period size: 2 Copynumber: 32.0 Consensus size: 2
1747429 GTAGTCCTTT
1747439 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1747481 TA TA TA TA TA TA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA
1747502 ACCCATGTTT
Statistics
Matches: 60, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 59 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:1749260 original size:21 final size:21
Alignment explanation
Indices: 1749234--1749273 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1749224 AATTTTTTAT
*
1749234 TTTTTGTGTTATCTTTCATCC
1 TTTTTGTGTTATATTTCATCC
*
1749255 TTTTTGTGTTGTATTTCAT
1 TTTTTGTGTTATATTTCAT
1749274 TGACATGACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.12, G:0.12, T:0.65
Consensus pattern (21 bp):
TTTTTGTGTTATATTTCATCC
Found at i:1753118 original size:25 final size:25
Alignment explanation
Indices: 1753076--1753137 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 25
1753066 AAAGGGCAAT
1753076 ATTTTCTCAAAATTTTTT-ATTAAAC
1 ATTTT-TCAAAATTTTTTAATTAAAC
* *
1753101 ATTTTTCAAAATTCTTTTAATTGATC
1 ATTTTTCAAAATT-TTTTAATTAAAC
1753127 -TTTTTCAAAAT
1 ATTTTTCAAAAT
1753138 GTGAGAATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
24 8 0.24
25 20 0.61
26 5 0.15
ACGTcount: A:0.34, C:0.11, G:0.02, T:0.53
Consensus pattern (25 bp):
ATTTTTCAAAATTTTTTAATTAAAC
Found at i:1757213 original size:21 final size:21
Alignment explanation
Indices: 1757189--1757229 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
1757179 CCTTTAGGAC
*
1757189 AAATATATGGTTATTCGGGAT
1 AAATATATGGTCATTCGGGAT
* *
1757210 AAATATGTGGTCCTTCGGGA
1 AAATATATGGTCATTCGGGA
1757230 AACATTCTAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.29, C:0.10, G:0.27, T:0.34
Consensus pattern (21 bp):
AAATATATGGTCATTCGGGAT
Found at i:1758005 original size:16 final size:17
Alignment explanation
Indices: 1757976--1758011 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
1757966 TAATTTTAGT
1757976 TGTTTTGTAAAAGTAAA
1 TGTTTTGTAAAAGTAAA
*
1757993 TGTTTTG-AAAAGTCAA
1 TGTTTTGTAAAAGTAAA
1758009 TGT
1 TGT
1758012 GACACCTCGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.36, C:0.03, G:0.19, T:0.42
Consensus pattern (17 bp):
TGTTTTGTAAAAGTAAA
Done.