Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold27
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: 2789374
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 115785 characters in sequence are not A, C, G, or T
File 9 of 16
Found at i:1466337 original size:13 final size:13
Alignment explanation
Indices: 1466319--1466345 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1466309 ACAACATTCC
1466319 TTGTATCGATACA
1 TTGTATCGATACA
1466332 TTGTATCGATACA
1 TTGTATCGATACA
1466345 T
1 T
1466346 GGGTTACTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1468238 original size:22 final size:22
Alignment explanation
Indices: 1468209--1468264 Score: 78
Period size: 22 Copynumber: 2.5 Consensus size: 22
1468199 AGATTTGACA
*
1468209 AAGAGGGAGAAATGT-TTTGATT
1 AAGAGGGAGAAAT-TCTTTAATT
*
1468231 AAGGGGGAGAAATTCTTTAATT
1 AAGAGGGAGAAATTCTTTAATT
1468253 AAGAGGGAGAAA
1 AAGAGGGAGAAA
1468265 AACAAAAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
21 1 0.03
22 29 0.97
ACGTcount: A:0.41, C:0.02, G:0.32, T:0.25
Consensus pattern (22 bp):
AAGAGGGAGAAATTCTTTAATT
Found at i:1468825 original size:13 final size:13
Alignment explanation
Indices: 1468807--1468831 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1468797 GCATTATGCT
1468807 TTGTATCGATACA
1 TTGTATCGATACA
1468820 TTGTATCGATAC
1 TTGTATCGATAC
1468832 CTGTTCATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.40
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1468863 original size:20 final size:19
Alignment explanation
Indices: 1468817--1468872 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
1468807 TTGTATCGAT
* *
1468817 ACATTGTATCGATACCTGT
1 ACATTGTATCGATACATGG
*
1468836 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGG
1468855 ACAATTGTATCGATACAT
1 AC-ATTGTATCGATACAT
1468873 AAAATTGGCA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:1471065 original size:314 final size:315
Alignment explanation
Indices: 1470494--1471129 Score: 1111
Period size: 314 Copynumber: 2.0 Consensus size: 315
1470484 ATCACTGTAT
1470494 ATTTTTACCAATACTTGTGCAATATTTATATTGATATTCACTTTAAAAAAATCCAAAAAATGTTG
1 ATTTTTACCAATACTTGTGCAATATTTATATTGATATTCACTTTAAAAAAATCCAAAAAATGTTG
1470559 AAAAAGTTCATGTTAAGATTTTATACCACAAGGTGTTAAGTTGTGAATTTACTGATTAATTTCAA
66 AAAAAGTTCATGTTAAGATTTTATACCACAAGGTGTTAAGTTGTGAATTTAC-GATTAATTTCAA
*
1470624 AATTTTCACAACAGTGCAAGTTTCTATCTCGTGAACATATTTTTGATAAACTTGTCTCGATTACT
130 AATTTTCACAACAGCGCAAGTTTCTATCTCGTGAACATATTTTTGATAAACTTGTCTCGATTACT
*
1470689 GAATTTTTTTATCAATAAGTATTTTGGTAAGTACATTGAGCTTGATTTGATCTTTTAAACTCAAT
195 GAATTTTTTTATCAATAAGTATTTTGGTAAGTACATTGAGCTTGATTTGATCTTGTAAACTCAAT
1470754 CTTGCATGGAATTTTGTTCAAATCATGTTAGTACAAAGTTTTCGGTTTCGTAAGGC
260 CTTGCATGGAATTTTGTTCAAATCATGTTAGTACAAAGTTTTCGGTTTCGTAAGGC
1470810 ATTTTTACCAATACTTGTGCAATATTTATATTGATATTCACTTT-AAAAAATCCAAAAAATGTTG
1 ATTTTTACCAATACTTGTGCAATATTTATATTGATATTCACTTTAAAAAAATCCAAAAAATGTTG
1470874 AAAAAGTTCATGTT-AGCATTTTATACCACAAGGTGTTAAGTTGTGAATTTTA-GATTAATTTTC
66 AAAAAGTTCATGTTAAG-ATTTTATACCACAAGGTGTTAAGTTGTGAA-TTTACGATTAA-TTTC
* * *
1470937 -AAATTTTCACAATAGCGCAAGTTTCTATCTC-TCTAACATTTTTTTGATAAACTTGTCTCGATT
128 AAAATTTTCACAACAGCGCAAGTTTCTATCTCGT-GAACATATTTTTGATAAACTTGTCTCGATT
* *
1471000 ACTGAATTTTTTTATCAATAAGTATTTTGGTAAGTACATTTAGCTTTATTTGATCTTGTAAACTC
192 ACTGAATTTTTTTATCAATAAGTATTTTGGTAAGTACATTGAGCTTGATTTGATCTTGTAAACTC
* *
1471065 AATCTTGCTTGGAATTTTGTTCAAATCATGTTAGTATAAAGTTTTCGGTTTCGTAAGGC
257 AATCTTGCATGGAATTTTGTTCAAATCATGTTAGTACAAAGTTTTCGGTTTCGTAAGGC
1471124 ATTTTT
1 ATTTTT
1471130 CGTAAAATCT
Statistics
Matches: 307, Mismatches: 9, Indels: 10
0.94 0.03 0.03
Matches are distributed among these distances:
313 1 0.00
314 190 0.62
315 68 0.22
316 48 0.16
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.42
Consensus pattern (315 bp):
ATTTTTACCAATACTTGTGCAATATTTATATTGATATTCACTTTAAAAAAATCCAAAAAATGTTG
AAAAAGTTCATGTTAAGATTTTATACCACAAGGTGTTAAGTTGTGAATTTACGATTAATTTCAAA
ATTTTCACAACAGCGCAAGTTTCTATCTCGTGAACATATTTTTGATAAACTTGTCTCGATTACTG
AATTTTTTTATCAATAAGTATTTTGGTAAGTACATTGAGCTTGATTTGATCTTGTAAACTCAATC
TTGCATGGAATTTTGTTCAAATCATGTTAGTACAAAGTTTTCGGTTTCGTAAGGC
Found at i:1475922 original size:20 final size:21
Alignment explanation
Indices: 1475892--1475930 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
1475882 GCTCAAAATT
1475892 AATAGATGTATCGATACATTG
1 AATAGATGTATCGATACATTG
1475913 AATA-ATGTATCGATACAT
1 AATAGATGTATCGATACAT
1475931 CTAGGTCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.41, C:0.10, G:0.15, T:0.33
Consensus pattern (21 bp):
AATAGATGTATCGATACATTG
Found at i:1483384 original size:165 final size:167
Alignment explanation
Indices: 1483182--1483576 Score: 425
Period size: 167 Copynumber: 2.4 Consensus size: 167
1483172 TTCAAGCATC
* * * * * * * *
1483182 AAAATTCTTCAAATATTATAATTTAAATCCCATTAAATTAGTTTTGAAAAATTCTTTTTATTTT-
1 AAAATTCATAAAATATTATTATTTAATTCACATTAAATCAGTTTTGAAAAATTC-ATTCATTTTC
* * * *
1483246 -TTGAGTTATT-AGTTTTCT-TTTGAAATTCTTCTTATTTTC-AAATTACAT-G-GTTTTCTTCT
65 ATAG-GTTATTGAATTTTCTCTTTGAAATT-TCCTTATTTTCGAAA--A-ATGGAGTTTTCTACT
**
1483305 CTGT-AA-GTTTTTTGGGAGGA-TTTTCAT-GGTTTTAAAATTTTT
125 CCATAAATGTTTTTTGGGA-GATTTTTCATAGG--TTAAAATTTTT
*
1483347 AAAATTCATAAAATATTATTATTTAATTCATATTAAATCAGTTTTGAAAAATTCATTCATTTTCA
1 AAAATTCATAAAATATTATTATTTAATTCACATTAAATCAGTTTTGAAAAATTCATTCATTTTCA
* *
1483412 TAGGTTTTTGAATTTTTTCTTTGAAATTTCCTTATTTTCGAAAAATGGAGTTTTCTACTCCATAA
66 TAGGTTATTGAATTTTCTCTTTGAAATTTCCTTATTTTCGAAAAATGGAGTTTTCTACTCCATAA
* * *
1483477 ATTTTTTTTGGGAGATTTTTCTTAGGTTATAATTTTT
131 ATGTTTTTTGGGAGATTTTTCATAGGTTAAAATTTTT
* * *
1483514 AAAATTCATTAAATATAATTATTTAATTCACATTAAGTCAGTTTTGAAAAATTCATTCATTTT
1 AAAATTCATAAAATATTATTATTTAATTCACATTAAATCAGTTTTGAAAAATTCATTCATTTT
1483577 TGATTTTTTC
Statistics
Matches: 195, Mismatches: 24, Indels: 20
0.82 0.10 0.08
Matches are distributed among these distances:
164 9 0.05
165 54 0.28
166 29 0.15
167 85 0.44
168 16 0.08
169 2 0.01
ACGTcount: A:0.31, C:0.09, G:0.09, T:0.50
Consensus pattern (167 bp):
AAAATTCATAAAATATTATTATTTAATTCACATTAAATCAGTTTTGAAAAATTCATTCATTTTCA
TAGGTTATTGAATTTTCTCTTTGAAATTTCCTTATTTTCGAAAAATGGAGTTTTCTACTCCATAA
ATGTTTTTTGGGAGATTTTTCATAGGTTAAAATTTTT
Found at i:1483609 original size:156 final size:160
Alignment explanation
Indices: 1483312--1483722 Score: 433
Period size: 156 Copynumber: 2.5 Consensus size: 160
1483302 TCTCTGTAAG
* * *
1483312 TTTTTTGGGAGGATTTTCAT-GGTTTTAAAATTTTTAAAATTCATAAAATATTATTATTTAATTC
1 TTTTTGGGGA-GATTTTCTTAGG-TTTAAAATTTTTAAAATTCATTAAATATTATTATTTAATTC
* * *
1483376 ATATTAAATCAGTTTTGAAAAATTCATTCATTTTCATAGGTTTTTGAATTTTTTCTTTGAAATTT
64 ACATTAAATCAGTTTTG-AAAA---ATTCA-TTTCA-A-GTTTTTGAATTTTTTCTTTAAAATCT
** * *
1483441 CCTTATTTTCGAAAAATGGAGTTTTCTACTCCATAAATT
122 CCTTATTTTCGAAAAACCGAGTTTTCTAATCCATAAATA
* * *
1483480 TTTTTTGGGAGATTTTTCTTAGG-TTATAATTTTTAAAATTCATTAAATATAATTATTTAATTCA
1 TTTTTGGGGAGA-TTTTCTTAGGTTTAAAATTTTTAAAATTCATTAAATATTATTATTTAATTCA
*
1483544 CATTAAGTCAGTTTTGAAAAATTCA-TTC-A-TTTTTG-ATTTTTTCTTTAAAATCTCCTT-TTT
65 CATTAAATCAGTTTTGAAAAATTCATTTCAAGTTTTTGAATTTTTTCTTTAAAATCTCCTTATTT
* *
1483604 CTCGAAAAACCTATTTTTCTAATCCATAAATA
130 -TCGAAAAACCGAGTTTTCTAATCCATAAATA
* * * * * **
1483636 TTTTTGGGGGGATTTTCTTTGGTTTAAAATTTTTAGAATTCATCT-AATATTGTCATTTAATTTT
1 TTTTTGGGGAGATTTTCTTAGGTTTAAAATTTTTAAAATTCAT-TAAATATTATTATTTAATTCA
*
1483700 CATTAAATTAGTTTTTGAAAAAT
65 CATTAAATCAG-TTTTGAAAAAT
1483723 CAATTTATTT
Statistics
Matches: 211, Mismatches: 26, Indels: 23
0.81 0.10 0.09
Matches are distributed among these distances:
155 12 0.06
156 96 0.45
157 18 0.09
159 1 0.00
161 3 0.01
163 5 0.02
166 4 0.02
167 54 0.26
168 16 0.08
169 2 0.01
ACGTcount: A:0.31, C:0.09, G:0.10, T:0.50
Consensus pattern (160 bp):
TTTTTGGGGAGATTTTCTTAGGTTTAAAATTTTTAAAATTCATTAAATATTATTATTTAATTCAC
ATTAAATCAGTTTTGAAAAATTCATTTCAAGTTTTTGAATTTTTTCTTTAAAATCTCCTTATTTT
CGAAAAACCGAGTTTTCTAATCCATAAATA
Found at i:1484880 original size:22 final size:21
Alignment explanation
Indices: 1484854--1484896 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
1484844 ATAATAAAAC
*
1484854 AAAAAATCAAGAAAATTTAAAT
1 AAAAAA-CAAAAAAATTTAAAT
1484876 AAAAAACAAAAAAATTTAAAT
1 AAAAAACAAAAAAATTTAAAT
1484897 TTCAAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.72, C:0.05, G:0.02, T:0.21
Consensus pattern (21 bp):
AAAAAACAAAAAAATTTAAAT
Found at i:1486569 original size:80 final size:78
Alignment explanation
Indices: 1486391--1486799 Score: 351
Period size: 79 Copynumber: 5.2 Consensus size: 78
1486381 CTATAATCGA
* * * *
1486391 GGATACT-CAACCCCGTTATTTCTGAGGGGATACTCCAACCCCAGTTTTTTTTCCAAAACACTAA
1 GGATACTCCAACCCCATTATTTCTGAGGGGATACTCCAACCCCGGTTTTATTTCCAAAACATTAA
*
1486455 CTTTTCACAATTG
66 TTTTTCACAATTG
* * * ** ** * *
1486468 AGGATACTCCCACCCTATTATTTTTGAGGGGATACTCCAAACCTTGGCCTTATTTCTAAAATATT
1 -GGATACTCCAACCCCATTATTTCTGAGGGGATACTCC-AACCCCGGTTTTATTTCCAAAACATT
*
1486533 GATTTTTCACAATTAG
64 AATTTTTCACAATT-G
* * * * *
1486549 GGATACTCCAACCCCGTTATTTTTGAGGAGATACTCCAACCCCGATTTTATTTCCAAAACATCAA
1 GGATACTCCAACCCCATTATTTCTGAGGGGATACTCCAACCCCGGTTTTATTTCCAAAACATTAA
* *
1486614 TTTTTCACCATCGG
66 TTTTTCACAAT-TG
** * * * **
1486628 GGATACTCCAACCTTATTATTTCTGAGGGGATACTCCAA-CCCAGCTTTATTTCTAAAACATCGA
1 GGATACTCCAACCCCATTATTTCTGAGGGGATACTCCAACCCCGGTTTTATTTCCAAAACATTAA
* * *
1486692 -TCTTCTATAATCG
66 TTTTTC-ACAATTG
* * * *
1486705 AGGATACTCCAACCCCCATTATTTCCT-AGAGGATACACTAACCCC-GTTTTGTTTCCAAAACAT
1 -GGATACTCCAA-CCCCATTATTT-CTGAGGGGATACTCCAACCCCGGTTTTATTTCCAAAACAT
* * *
1486768 CAATTTTCCACCATTGG
63 TAATTTTTCACAATT-G
1486785 GGATACTCCAACCCC
1 GGATACTCCAACCCC
1486800 GTTTTTATCT
Statistics
Matches: 262, Mismatches: 58, Indels: 22
0.77 0.17 0.06
Matches are distributed among these distances:
77 5 0.02
78 45 0.17
79 140 0.53
80 71 0.27
81 1 0.00
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.32
Consensus pattern (78 bp):
GGATACTCCAACCCCATTATTTCTGAGGGGATACTCCAACCCCGGTTTTATTTCCAAAACATTAA
TTTTTCACAATTG
Found at i:1486768 original size:157 final size:156
Alignment explanation
Indices: 1486379--1486798 Score: 492
Period size: 159 Copynumber: 2.7 Consensus size: 156
1486369 ATACCAAAAA
* *
1486379 TTCTATAATCGAGGATACT-CAACCCCGTTATTTCTGAGGGGATACTCCAACCCCAGTTTTTTTT
1 TTCTATAATCGAGGATACTCCAACCCCGTTATTTCT-AGAGGATACTCCAACCCC-GTTTTATTT
* * * * *
1486443 CCAAAACA-CTAACTTTTCACAATTGAGGATACTCCCACCCTATTATTTTTGAGGGGATACTCCA
64 CCAAAACATC-AATTTTTCACCATTGGGGATACTCCAACCCTATTATTTCTGAGGGGATACTCCA
** * *
1486507 AACCTTGGCCTTATTTCTAAAATATTGAT
128 AACCTCAGCCTTATTTCTAAAACATCGAT
* * * *
1486536 TTTTCACAAT-TAGGGATACTCCAACCCCGTTATTT-TTGAGGAGATACTCCAACCCCGATTTTA
1 TTCT-ATAATCGA-GGATACTCCAACCCCGTTATTTCTAGA-G-GATACTCCAACCCCG-TTTTA
* *
1486599 TTTCCAAAACATCAATTTTTCACCATCGGGGATACTCCAACCTTATTATTTCTGAGGGGATACTC
61 TTTCCAAAACATCAATTTTTCACCATTGGGGATACTCCAACCCTATTATTTCTGAGGGGATACTC
*
1486664 C-AACC-CAGCTTTATTTCTAAAACATCGAT
126 CAAACCTCAGCCTTATTTCTAAAACATCGAT
* * * *
1486693 CTTCTATAATCGAGGATACTCCAACCCCCATTATTTCCTAGAGGATACACTAACCCCGTTTTGTT
1 -TTCTATAATCGAGGATACTCCAA-CCCCGTTATTT-CTAGAGGATACTCCAACCCCGTTTTATT
*
1486758 TCCAAAACATCAATTTTCCACCATTGGGGATACTCCAACCC
63 TCCAAAACATCAATTTTTCACCATTGGGGATACTCCAACCC
1486799 CGTTTTTATC
Statistics
Matches: 222, Mismatches: 29, Indels: 24
0.81 0.11 0.09
Matches are distributed among these distances:
157 83 0.37
158 45 0.20
159 90 0.41
160 4 0.02
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (156 bp):
TTCTATAATCGAGGATACTCCAACCCCGTTATTTCTAGAGGATACTCCAACCCCGTTTTATTTCC
AAAACATCAATTTTTCACCATTGGGGATACTCCAACCCTATTATTTCTGAGGGGATACTCCAAAC
CTCAGCCTTATTTCTAAAACATCGAT
Found at i:1492261 original size:18 final size:17
Alignment explanation
Indices: 1492210--1492262 Score: 58
Period size: 16 Copynumber: 3.1 Consensus size: 17
1492200 ATGAAGAAGT
1492210 AAAACGAAA-AACAAAAA
1 AAAACGAAAGAA-AAAAA
1492227 AAAA-G-AAGAAAACAAA
1 AAAACGAAAGAAAA-AAA
1492243 AAAACGAAATGAAAAAAA
1 AAAACGAAA-GAAAAAAA
1492261 AA
1 AA
1492263 GTGCAAAAGC
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
15 4 0.13
16 10 0.32
17 5 0.16
18 7 0.23
19 5 0.16
ACGTcount: A:0.81, C:0.08, G:0.09, T:0.02
Consensus pattern (17 bp):
AAAACGAAAGAAAAAAA
Found at i:1493558 original size:32 final size:32
Alignment explanation
Indices: 1493521--1493736 Score: 264
Period size: 32 Copynumber: 6.9 Consensus size: 32
1493511 TCTTTTTTCA
* *
1493521 AAAGTCCACAACTTAGTGGCATCTCTTTTCCC
1 AAAGTCCACGACTCAGTGGCATCTCTTTTCCC
* * *
1493553 AAAGTCCACAACTCAGTGGCATCTGTTTT-TC
1 AAAGTCCACGACTCAGTGGCATCTCTTTTCCC
* * *
1493584 AAAGTCCACGACTTAGTGGCATCTTTTTTCTC
1 AAAGTCCACGACTCAGTGGCATCTCTTTTCCC
*
1493616 AAAGTCCATGACTCAGTGGCATCTCTTTTCCC
1 AAAGTCCACGACTCAGTGGCATCTCTTTTCCC
* * *
1493648 AAAGTCCCCGACTCAGAGGCA--TCTTTTCTTC
1 AAAGTCCACGACTCAGTGGCATCTCTTTTC-CC
1493679 AAAGTCCACGACTCAGTGGCATCTCTTTT-CC
1 AAAGTCCACGACTCAGTGGCATCTCTTTTCCC
*
1493710 -AAGTCCATGACTCAGTGGCATC-CTTTT
1 AAAGTCCACGACTCAGTGGCATCTCTTTT
1493737 TCTTTTTTAA
Statistics
Matches: 162, Mismatches: 18, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
29 5 0.03
30 28 0.17
31 48 0.30
32 75 0.46
33 6 0.04
ACGTcount: A:0.23, C:0.29, G:0.16, T:0.32
Consensus pattern (32 bp):
AAAGTCCACGACTCAGTGGCATCTCTTTTCCC
Found at i:1493619 original size:63 final size:62
Alignment explanation
Indices: 1493510--1493739 Score: 282
Period size: 63 Copynumber: 3.7 Consensus size: 62
1493500 CAATCTTTAG
* * * * *
1493510 ATCTTTTTTCAAAAGTCCACAACTTAGTGGCATCTCTTTTCCCAAAGTCCACAACTCAGTGGC
1 ATCTTTTTTC-AAAGTCCACGACTCAGTGGCATCTTTTTTCTCAAAGTCCACGACTCAGTGGC
* *
1493573 ATCTGTTTTTCAAAGTCCACGACTTAGTGGCATCTTTTTTCTCAAAGTCCATGACTCAGTGGC
1 ATCT-TTTTTCAAAGTCCACGACTCAGTGGCATCTTTTTTCTCAAAGTCCACGACTCAGTGGC
* * * *
1493636 ATCTCTTTTCCCAAAGTCCCCGACTCAGAGGCATCTTTTCT-TCAAAGTCCACGACTCAGTGGC
1 ATCT-TTTT-TCAAAGTCCACGACTCAGTGGCATCTTTTTTCTCAAAGTCCACGACTCAGTGGC
* * * *
1493699 ATCTCTTTTCCAAGTCCATGACTCAGTGGCATCCTTTTTCT
1 ATCTTTTTTCAAAGTCCACGACTCAGTGGCATCTTTTTTCT
1493740 TTTTTAAGTT
Statistics
Matches: 144, Mismatches: 20, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
61 24 0.17
62 4 0.03
63 84 0.58
64 32 0.22
ACGTcount: A:0.23, C:0.29, G:0.15, T:0.34
Consensus pattern (62 bp):
ATCTTTTTTCAAAGTCCACGACTCAGTGGCATCTTTTTTCTCAAAGTCCACGACTCAGTGGC
Found at i:1493621 original size:95 final size:94
Alignment explanation
Indices: 1493510--1493736 Score: 334
Period size: 95 Copynumber: 2.4 Consensus size: 94
1493500 CAATCTTTAG
* ** * *
1493510 ATCTTTTTTCAAAAGTCCACAACTTAGTGGCATCTCTTTTCCCAAAGTCCACAACTCAGTGGCAT
1 ATCTTTTTTCCAAAGTCCATGACTCAGTGGCATCTCTTTTCCCAAAGTCCACAACTCAGAGGCAT
*
1493575 CTGTTT-TTCAAAGTCCACGACTTAGTGGC
66 CT-TTTCTTCAAAGTCCACGACTCAGTGGC
* *
1493604 ATCTTTTTTCTCAAAGTCCATGACTCAGTGGCATCTCTTTTCCCAAAGTCCCCGACTCAGAGGCA
1 ATCTTTTTTC-CAAAGTCCATGACTCAGTGGCATCTCTTTTCCCAAAGTCCACAACTCAGAGGCA
1493669 TCTTTTCTTCAAAGTCCACGACTCAGTGGC
65 TCTTTTCTTCAAAGTCCACGACTCAGTGGC
*
1493699 ATCTCTTTTCC-AAGTCCATGACTCAGTGGCATC-CTTTT
1 ATCTTTTTTCCAAAGTCCATGACTCAGTGGCATCTCTTTT
1493737 TCTTTTTTAA
Statistics
Matches: 122, Mismatches: 9, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
92 5 0.04
93 22 0.18
94 14 0.11
95 81 0.66
ACGTcount: A:0.23, C:0.29, G:0.15, T:0.33
Consensus pattern (94 bp):
ATCTTTTTTCCAAAGTCCATGACTCAGTGGCATCTCTTTTCCCAAAGTCCACAACTCAGAGGCAT
CTTTTCTTCAAAGTCCACGACTCAGTGGC
Found at i:1493823 original size:27 final size:26
Alignment explanation
Indices: 1493775--1493831 Score: 80
Period size: 27 Copynumber: 2.2 Consensus size: 26
1493765 CTCTTTTTCT
*
1493775 TTTTAAGTCCGCAACTTTGTGGCACCC
1 TTTTAAGTCCACAACTTTGTGGCA-CC
1493802 TTTTAAGTCCACAA-TTTCGTGGCACC
1 TTTTAAGTCCACAACTTT-GTGGCACC
1493828 TTTT
1 TTTT
1493832 CCTTTTAAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 9 0.32
27 19 0.68
ACGTcount: A:0.19, C:0.26, G:0.16, T:0.39
Consensus pattern (26 bp):
TTTTAAGTCCACAACTTTGTGGCACC
Found at i:1493836 original size:32 final size:32
Alignment explanation
Indices: 1493741--1494081 Score: 219
Period size: 32 Copynumber: 10.9 Consensus size: 32
1493731 CCTTTTTCTT
* * * * *
1493741 TTTTAAGTTCACAATTTCTTAGCACTCTTTTTCT
1 TTTTAAGTCCACAACTTCGTGGCAC-C-TTTTCC
* *
1493775 TTTTAAGTCCGCAACTTTGTGGCA-C----CC
1 TTTTAAGTCCACAACTTCGTGGCACCTTTTCC
*
1493802 TTTTAAGTCCACAATTTCGTGGCACCTTTTCC
1 TTTTAAGTCCACAACTTCGTGGCACCTTTTCC
* * * *
1493834 TTTTAAGTCGACAACTCCATGGCACCTTTTCT
1 TTTTAAGTCCACAACTTCGTGGCACCTTTTCC
* * *
1493866 TTTTAAGTCCACAACTCCATGGTACCTTTTTTCC
1 TTTTAAGTCCACAACTTCGTGGCACC--TTTTCC
*
1493900 TTTTAAGTCCACAACTCCGTGGCACC--TT--
1 TTTTAAGTCCACAACTTCGTGGCACCTTTTCC
* * *
1493928 TTTGAAGTCCATAACTTCGTTGCACCTTTTTCC
1 TTTTAAGTCCACAACTTCGTGGCACC-TTTTCC
**
1493961 -TTTAAGTCCACAAC-TCTGTGGCATGTTTTCC
1 TTTTAAGTCCACAACTTC-GTGGCACCTTTTCC
* *** *
1493992 TTTTAAGCCCACAAC-TCAGTGGTGTCTCTT-C
1 TTTTAAGTCCACAACTTC-GTGGCACCTTTTCC
* * *
1494023 -TCTAAGTCCACAAC-TCTATGGCACCTTTT-T
1 TTTTAAGTCCACAACTTC-GTGGCACCTTTTCC
* *
1494053 TTTTAAGTCCAGAACTCCGTGGCACCTTT
1 TTTTAAGTCCACAACTTCGTGGCACCTTT
1494082 CTCTTTCTCA
Statistics
Matches: 243, Mismatches: 48, Indels: 35
0.75 0.15 0.11
Matches are distributed among these distances:
27 22 0.09
28 23 0.09
30 23 0.09
31 33 0.14
32 95 0.39
34 47 0.19
ACGTcount: A:0.20, C:0.28, G:0.13, T:0.39
Consensus pattern (32 bp):
TTTTAAGTCCACAACTTCGTGGCACCTTTTCC
Found at i:1493864 original size:126 final size:128
Alignment explanation
Indices: 1493725--1494008 Score: 312
Period size: 126 Copynumber: 2.2 Consensus size: 128
1493715 CATGACTCAG
* * * * * *
1493725 TGGCATCCTTTTTCTTTTTTAAGTTCACAATTTCTTAGCA-CTCTTTTTCTTTTTAAGTCCGCAA
1 TGGCATCCTTTTTC-TTTTTAAGTCCACAACTCCATAGCACCT-TTTTTCCTTTTAAGTCCACAA
** * *
1493789 CTTTGTGGCACCCTTTT-AAGTCCACAATTTCGTGGCACC-TTTTCCTTTTAAGTCGACAACTCC
64 CTCCGTGGCACCCTTTTGAAGTCCACAACTTCGTGGCACCTTTTTCC-TTTAAGTCCACAACTCC
1493852 A
128 A
* *
1493853 TGGCA-CC-TTTTCTTTTTAAGTCCACAACTCCATGGTACCTTTTTTCCTTTTAAGTCCACAACT
1 TGGCATCCTTTTTCTTTTTAAGTCCACAACTCCATAGCACCTTTTTTCCTTTTAAGTCCACAACT
* * * **
1493916 CCGTGGCACCTTTTTGAAGTCCATAACTTCGTTGCACCTTTTTCCTTTAAGTCCACAACTCTG
66 CCGTGGCACCCTTTTGAAGTCCACAACTTCGTGGCACCTTTTTCCTTTAAGTCCACAACTCCA
* * *
1493979 TGGCAT--GTTTTCCTTTTAAGCCCACAACTC
1 TGGCATCCTTTTTCTTTTTAAGTCCACAACTC
1494009 AGTGGTGTCT
Statistics
Matches: 132, Mismatches: 19, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
125 52 0.39
126 67 0.51
127 8 0.06
128 5 0.04
ACGTcount: A:0.20, C:0.28, G:0.12, T:0.40
Consensus pattern (128 bp):
TGGCATCCTTTTTCTTTTTAAGTCCACAACTCCATAGCACCTTTTTTCCTTTTAAGTCCACAACT
CCGTGGCACCCTTTTGAAGTCCACAACTTCGTGGCACCTTTTTCCTTTAAGTCCACAACTCCA
Found at i:1493927 original size:26 final size:27
Alignment explanation
Indices: 1493898--1493957 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 27
1493888 TACCTTTTTT
1493898 CCTTTT-AAGTCCACAACTCCGTGGCA
1 CCTTTTGAAGTCCACAACTCCGTGGCA
* * *
1493924 CCTTTTTGAAGTCCATAACTTCGTTGCA
1 CC-TTTTGAAGTCCACAACTCCGTGGCA
1493952 CCTTTT
1 CCTTTT
1493958 TCCTTTAAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 2 0.07
27 8 0.28
28 19 0.66
ACGTcount: A:0.20, C:0.30, G:0.13, T:0.37
Consensus pattern (27 bp):
CCTTTTGAAGTCCACAACTCCGTGGCA
Found at i:1494030 original size:94 final size:91
Alignment explanation
Indices: 1493838--1494229 Score: 271
Period size: 94 Copynumber: 4.3 Consensus size: 91
1493828 TTTTCCTTTT
* * * * * *
1493838 AAGTCGACAACTCCATGGCACCTTTTCTTTTTAAGTCCACAACTCCATGGTACCTTTTTTCCTTT
1 AAGTCCACAACTCTATGGCACCTTTT-TCTTTAAGTCCACAACTCCGTGG--CATGTTTTCCTTT
* * *
1493903 TAAGTCCACAACTCCGTGGCACCTTTTTG
63 TAAGCCCACAACTCAGTGGCACCTTTCTG
* *
1493932 AAGTCCATAACTTCGT-T-GCACCTTTTTCCTTTAAGTCCACAACTCTGTGGCATGTTTTCCTTT
1 AAGTCCACAAC-TC-TATGGCACCTTTTT-CTTTAAGTCCACAACTCCGTGGCATGTTTTCCTTT
**
1493995 TAAGCCCACAACTCAGTGGTGTCTCTTCTCT-
63 TAAGCCCACAACTCAGTGG-CAC-CTT-TCTG
* * **
1494026 AAGTCCACAACTCTATGGCACCTTTTTTTTTAAGTCCAGAACTCCGTGGCA-CCTTTCTCTTTCT
1 AAGTCCACAACTCTATGGCACCTTTTTCTTTAAGTCCACAACTCCGTGGCATGTTTTC-CTTT-T
*
1494090 CAGAGCCCACAACTCTGTGGCACTCTTT-T-
64 -A-AGCCCACAACTCAGTGGCAC-CTTTCTG
* * ** *
1494119 AAGTCCACAACTCCATGGCA-C--TCT-TTTAAGTCCACAACT-C-T---ATGGATCCCTTTTAA
1 AAGTCCACAACTCTATGGCACCTTTTTCTTTAAGTCCACAACTCCGTGGCATGTTTTCCTTTTAA
* *
1494175 GTCCACAACTCCA-TGACACCCTTT-T-
66 GCCCACAACT-CAGTGGCA-CCTTTCTG
* *
1494200 AAGTCTACAACTCTGTGGCACCTTTTTCTT
1 AAGTCCACAACTCTATGGCACCTTTTTCTT
1494230 CTCAAAGCCC
Statistics
Matches: 243, Mismatches: 36, Indels: 47
0.75 0.11 0.14
Matches are distributed among these distances:
81 36 0.15
82 4 0.02
83 1 0.00
84 7 0.03
85 4 0.02
87 1 0.00
88 1 0.00
89 14 0.06
90 2 0.01
92 34 0.14
93 50 0.21
94 62 0.26
95 11 0.05
96 16 0.07
ACGTcount: A:0.22, C:0.30, G:0.13, T:0.35
Consensus pattern (91 bp):
AAGTCCACAACTCTATGGCACCTTTTTCTTTAAGTCCACAACTCCGTGGCATGTTTTCCTTTTAA
GCCCACAACTCAGTGGCACCTTTCTG
Found at i:1494056 original size:126 final size:124
Alignment explanation
Indices: 1493794--1494225 Score: 323
Period size: 126 Copynumber: 3.6 Consensus size: 124
1493784 CGCAACTTTG
* * * **
1493794 TGGCACCCTTTTAAGTCCACAATTTCGTGGCACC-TTTTCCTTTTAAGTCGACAACTCCATGGCA
1 TGGCACCTTTTTAAGTCCACAACTTCGTGGCACCTTTTTCC-TTTAAGTCCACAACTCTGTGGCA
* * * * * *
1493858 CCTTTTCTTTTTAAGTCCACAACTCCATGGTACCTTTTTTCCTTTTAAGTCCACAACTCCG
65 CCTTTTCCTTTTAAGCCCACAACTCCATGGTA-CTCTCTTCCTTCTAAGTCCACAACTCCA
* *
1493919 TGGCACCTTTTTGAAGTCCATAACTTCGTTGCACCTTTTTCCTTTAAGTCCACAACTCTGTGGCA
1 TGGCACCTTTTT-AAGTCCACAACTTCGTGGCACCTTTTTCCTTTAAGTCCACAACTCTGTGGCA
** * *
1493984 TGTTTTCCTTTTAAGCCCACAACT-CAGTGGT-GTCTCTT-C-TCTAAGTCCACAACTCTA
65 CCTTTTCCTTTTAAGCCCACAACTCCA-TGGTACTCTCTTCCTTCTAAGTCCACAACTCCA
* * * * *
1494041 TGGCACCTTTTTTTTTAAGTCCAGAACTCCGTGGCACCTTTCTCTTTCTCAGAGCCCACAACTCT
1 TGGCACC----TTTTTAAGTCCACAACTTCGTGGCACCTTTTTCCTT-T-A-AGTCCACAACTCT
* * *
1494106 GTGGCA-C---T-CTTTTAAGTCCACAACTCCATGG--CACTC-T--TT-TAAGTCCACAACTCT
59 GTGGCACCTTTTCCTTTTAAGCCCACAACTCCATGGTACTCTCTTCCTTCTAAGTCCACAACTCC
1494160 A
124 A
* * * * * *
1494161 TGG-ATCCCTTTTAAGTCCACAACTCCATGACACC-----CTTTTAAGTCTACAACTCTGTGGCA
1 TGGCA-CCTTTTTAAGTCCACAACTTCGTGGCACCTTTTTCCTTTAAGTCCACAACTCTGTGGCA
1494220 CCTTTT
65 CCTTTT
1494226 TCTTCTCAAA
Statistics
Matches: 257, Mismatches: 33, Indels: 47
0.76 0.10 0.14
Matches are distributed among these distances:
108 17 0.07
109 2 0.01
110 1 0.00
111 4 0.02
112 1 0.00
116 23 0.09
119 1 0.00
120 21 0.08
121 2 0.01
122 25 0.10
123 20 0.08
124 7 0.03
125 39 0.15
126 69 0.27
127 7 0.03
128 18 0.07
ACGTcount: A:0.21, C:0.30, G:0.13, T:0.35
Consensus pattern (124 bp):
TGGCACCTTTTTAAGTCCACAACTTCGTGGCACCTTTTTCCTTTAAGTCCACAACTCTGTGGCAC
CTTTTCCTTTTAAGCCCACAACTCCATGGTACTCTCTTCCTTCTAAGTCCACAACTCCA
Found at i:1494102 original size:66 final size:64
Alignment explanation
Indices: 1493700--1494225 Score: 296
Period size: 62 Copynumber: 8.5 Consensus size: 64
1493690 CTCAGTGGCA
** * * * * * *
1493700 TCTCTTTTCCAAGTCCATGACTCAGTGGCATCCTTTTTCTTTTTTAAGTTCACAATTTCTTAGCA
1 TCTCTTTT--AAGTCCACAACTCTGTGGCA-CC-TTTTC-TTTTTAAGTCCACAACTCCGTGGCA
1493765 CTCTT
61 C-CTT
* * * * *
1493770 TTTCTTTTTAAGTCCGCAACTTTGTGGCACC----C-TTTTAAGTCCACAATTTCGTGGCACCTT
1 TCTC-TTTTAAGTCCACAACTCTGTGGCACCTTTTCTTTTTAAGTCCACAACTCCGTGGCACCTT
* ** * *
1493830 T-TCCTTTTAAGTCGACAACTCCATGGCACCTTTTCTTTTTAAGTCCACAACTCCATGGTACCTT
1 TCT-CTTTTAAGTCCACAACTCTGTGGCACCTTTTCTTTTTAAGTCCACAACTCCGTGGCACC-T
1493894 T
64 T
* * * * * *
1493895 TTTCCTTTTAAGTCCACAACTCCGTGGCACC---T-TTTTGAAGTCCATAACTTCGTTGCACCTT
1 TCT-CTTTTAAGTCCACAACTCTGTGGCACCTTTTCTTTTTAAGTCCACAACTCCGTGGCACCTT
* * ** * * * *
1493956 TTTCCTTTAAGTCCACAACTCTGTGGCATGTTTTCCTTTTAAGCCCACAACTCAGTGG----TG
1 TCTCTTTTAAGTCCACAACTCTGTGGCACCTTTTCTTTTTAAGTCCACAACTCCGTGGCACCTT
* *
1494016 TCTCTTCTCTAAGTCCACAACTCTATGGCACCTTTT-TTTTTAAGTCCAGAACTCCGTGGCACCT
1 TCTCTT-T-TAAGTCCACAACTCTGTGGCACCTTTTCTTTTTAAGTCCACAACTCCGTGGCACCT
1494080 T
64 T
* *
1494081 TCTCTTTCTCAGAGCCCACAACTCTGTGGCA-C---TC-TTTTAAGTCCACAACTCCATGGCA--
1 TCTCTTT-T-A-AGTCCACAACTCTGTGGCACCTTTTCTTTTTAAGTCCACAACTCCGTGGCACC
1494139 --
63 TT
* * *
1494139 -CTCTTTTAAGTCCACAACTCTATGG-ATCC----C-TTTTAAGTCCACAACTCCATGACA-C--
1 TCTCTTTTAAGTCCACAACTCTGTGGCA-CCTTTTCTTTTTAAGTCCACAACTCCGTGGCACCTT
*
1494194 -C-CTTTTAAGTCTACAACTCTGTGGCACCTTTT
1 TCTCTTTTAAGTCCACAACTCTGTGGCACCTTTT
1494226 TCTTCTCAAA
Statistics
Matches: 369, Mismatches: 57, Indels: 72
0.74 0.11 0.14
Matches are distributed among these distances:
53 1 0.00
54 62 0.17
55 4 0.01
56 1 0.00
57 6 0.02
59 22 0.06
60 33 0.09
61 47 0.13
62 68 0.18
63 4 0.01
64 41 0.11
65 12 0.03
66 44 0.12
68 2 0.01
69 15 0.04
70 3 0.01
71 4 0.01
ACGTcount: A:0.21, C:0.29, G:0.13, T:0.37
Consensus pattern (64 bp):
TCTCTTTTAAGTCCACAACTCTGTGGCACCTTTTCTTTTTAAGTCCACAACTCCGTGGCACCTT
Found at i:1494110 original size:35 final size:31
Alignment explanation
Indices: 1493820--1494118 Score: 110
Period size: 32 Copynumber: 9.4 Consensus size: 31
1493810 CCACAATTTC
* * *
1493820 GTGGCACCTTTTCCTTTT-AAGTCGACAACTCC
1 GTGGCACCTTTT--TTTTCAAGCCCACAACTCT
* * * *
1493852 ATGGCACCTTTTCTTTTTAAGTCCACAACTCC
1 GTGGCACCTTTT-TTTTCAAGCCCACAACTCT
* * * * *
1493884 ATGGTACCTTTTTTCCTTTTAAGTCCACAACTCC
1 GTGGCACC-TTTTT--TTTCAAGCCCACAACTCT
* * *
1493918 GTGGCACC---TTTTTGAAGTCCATAACT-T
1 GTGGCACCTTTTTTTTCAAGCCCACAACTCT
* *
1493945 CGTTGCACCTTTTTCCTTT-AAGTCCACAACTCT
1 -GTGGCACCTTTTT--TTTCAAGCCCACAACTCT
** *
1493978 GTGGCATGTTTTCCTTTT-AAGCCCACAACTCA
1 GTGGCACCTTTT--TTTTCAAGCCCACAACTCT
*** * * * *
1494010 GTGGTGTCTCTTCTCT-AAGTCCACAACTCT
1 GTGGCACCTTTTTTTTCAAGCCCACAACTCT
* * * * *
1494040 ATGGCACCTTTTTTTTTAAGTCCAGAACTCC
1 GTGGCACCTTTTTTTTCAAGCCCACAACTCT
1494071 GTGGCACCTTTCTCTTTCTCAGAGCCCACAACTCT
1 GTGGCACCTTT-T-TTT-TCA-AGCCCACAACTCT
1494106 GTGGCACTCTTTT
1 GTGGCAC-CTTTT
1494119 AAGTCCACAA
Statistics
Matches: 211, Mismatches: 37, Indels: 35
0.75 0.13 0.12
Matches are distributed among these distances:
28 21 0.10
30 25 0.12
31 29 0.14
32 76 0.36
33 11 0.05
34 27 0.13
35 18 0.09
36 4 0.02
ACGTcount: A:0.19, C:0.30, G:0.14, T:0.37
Consensus pattern (31 bp):
GTGGCACCTTTTTTTTCAAGCCCACAACTCT
Found at i:1494128 original size:27 final size:27
Alignment explanation
Indices: 1493899--1494225 Score: 158
Period size: 27 Copynumber: 11.2 Consensus size: 27
1493889 ACCTTTTTTC
*
1493899 CTTTTAAGTCCACAACTCCGTGGCAC-
1 CTTTTAAGTCCACAACTCTGTGGCACT
* *
1493925 CTTTTTGAAGTCCATAACT-TCGTTGCACCTTTTT
1 C-TTTT-AAGTCCACAACTCT-GTGGCA-C----T
* *
1493959 CCTTTAAGTCCACAACTCTGTGGCATGTTTT
1 CTTTTAAGTCCACAACTCTGTGGCA----CT
* * **
1493990 CCTTTTAAGCCCACAACTCAGTGGTGTCT
1 -CTTTTAAGTCCACAACTCTGTGG-CACT
*
1494019 CTTCTCTAAGTCCACAACTCTATGGCACCTTTT
1 CTT-T-TAAGTCCACAACTCTGTGGCA-C---T
* * *
1494052 TTTTTAAGTCCAGAACTCCGTGGCACCTTTCT
1 CTTTTAAGTCCACAACTCTGTGGCA-----CT
*
1494084 CTTTCTCAGAGCCCACAACTCTGTGGCACT
1 CTTT-T-A-AGTCCACAACTCTGTGGCACT
**
1494114 CTTTTAAGTCCACAACTCCATGGCACT
1 CTTTTAAGTCCACAACTCTGTGGCACT
* *
1494141 CTTTTAAGTCCACAACTCTATGG-ATCC
1 CTTTTAAGTCCACAACTCTGTGGCA-CT
** * *
1494168 CTTTTAAGTCCACAACTCCATGACACC
1 CTTTTAAGTCCACAACTCTGTGGCACT
*
1494195 CTTTTAAGTCTACAACTCTGTGGCAC-
1 CTTTTAAGTCCACAACTCTGTGGCACT
1494221 CTTTT
1 CTTTT
1494226 TCTTCTCAAA
Statistics
Matches: 232, Mismatches: 39, Indels: 60
0.70 0.12 0.18
Matches are distributed among these distances:
26 7 0.03
27 90 0.39
28 21 0.09
29 4 0.02
30 23 0.10
31 19 0.08
32 41 0.18
33 8 0.03
34 2 0.01
35 17 0.07
ACGTcount: A:0.22, C:0.31, G:0.13, T:0.35
Consensus pattern (27 bp):
CTTTTAAGTCCACAACTCTGTGGCACT
Found at i:1494172 original size:54 final size:54
Alignment explanation
Indices: 1494096--1494226 Score: 183
Period size: 54 Copynumber: 2.4 Consensus size: 54
1494086 TTCTCAGAGC
* * * *
1494096 CCACAACTCTGTGGCACTCTTTTAAGTCCACAACTCCATGGCACTCTTTTAAGT
1 CCACAACTCTATGGCACCCTTTTAAGTCCACAACTCCATGACACCCTTTTAAGT
1494150 CCACAACTCTATGG-ATCCCTTTTAAGTCCACAACTCCATGACACCCTTTTAAGT
1 CCACAACTCTATGGCA-CCCTTTTAAGTCCACAACTCCATGACACCCTTTTAAGT
* * *
1494204 CTACAACTCTGTGGCACCTTTTT
1 CCACAACTCTATGGCACCCTTTT
1494227 CTTCTCAAAG
Statistics
Matches: 68, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
53 1 0.01
54 66 0.97
55 1 0.01
ACGTcount: A:0.24, C:0.32, G:0.11, T:0.32
Consensus pattern (54 bp):
CCACAACTCTATGGCACCCTTTTAAGTCCACAACTCCATGACACCCTTTTAAGT
Found at i:1494499 original size:32 final size:32
Alignment explanation
Indices: 1494463--1494612 Score: 164
Period size: 32 Copynumber: 4.7 Consensus size: 32
1494453 AACCTTTTAC
* *
1494463 AAAGCCCACATAAGTTGGTGGCATCCCTTTCT
1 AAAGCCCACACAAGTTGGTGGCAACCCTTTCT
* *
1494495 AAAGCCCACACAAGTTGGTGGCAACCTTTTTT
1 AAAGCCCACACAAGTTGGTGGCAACCCTTTCT
* *
1494527 AAAGCCCACATAAGTTGGTGGCAA-CCTTCTTT
1 AAAGCCCACACAAGTTGGTGGCAACCCTT-TCT
* *
1494559 AAAGGTCCCA-A-AAGTCGGTGGCAACCTTTTC-
1 AAA-G-CCCACACAAGTTGGTGGCAACCCTTTCT
*
1494590 AAAACCCACACAAGTTGGTGGCA
1 AAAGCCCACACAAGTTGGTGGCA
1494613 TTTCCTTATA
Statistics
Matches: 101, Mismatches: 11, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
29 4 0.04
30 1 0.01
31 17 0.17
32 70 0.69
33 5 0.05
34 4 0.04
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (32 bp):
AAAGCCCACACAAGTTGGTGGCAACCCTTTCT
Found at i:1494531 original size:64 final size:65
Alignment explanation
Indices: 1494453--1494613 Score: 206
Period size: 64 Copynumber: 2.5 Consensus size: 65
1494443 CCAGTGGAGA
* * *
1494453 AACCTTTTACAAAGCCCACATAAGTTGGTGGCATCCCTT-TCTAAA-G-CCCACACAAGTTGGTG
1 AACCTTTTTCAAAGCCCACATAAGTTGGTGGCATACCTTCTCTAAAGGTCCCA-A-AAGTCGGTG
1494515 GC
64 GC
* *
1494517 AACCTTTTTTAAAGCCCACATAAGTTGGTGGCA-ACCTTCTTTAAAGGTCCCAAAAGTCGGTGGC
1 AACCTTTTTCAAAGCCCACATAAGTTGGTGGCATACCTTCTCTAAAGGTCCCAAAAGTCGGTGGC
* *
1494581 AACC-TTTTCAAAACCCACACAAGTTGGTGGCAT
1 AACCTTTTTCAAAGCCCACATAAGTTGGTGGCAT
1494614 TTCCTTATAA
Statistics
Matches: 85, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
63 29 0.34
64 50 0.59
65 2 0.02
66 4 0.05
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (65 bp):
AACCTTTTTCAAAGCCCACATAAGTTGGTGGCATACCTTCTCTAAAGGTCCCAAAAGTCGGTGGC
Found at i:1494736 original size:52 final size:52
Alignment explanation
Indices: 1494653--1495070 Score: 299
Period size: 52 Copynumber: 8.0 Consensus size: 52
1494643 AATCAACACA
* * *
1494653 TTGGCACCTTTAAGTCCAATATCGCTAGCCTTAAATCAGCATATTGGCCCCT
1 TTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCT
* * *
1494705 TTGGCACCTTTAAATCCAATATCGCTGGCCTTGAATTAGTATATTGGCACCT
1 TTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCT
** * * * *
1494757 TTTCCATCTTTAAGTCTAATGTCGCTGGCCTTGAATCAGCACATTGGCATCCT
1 TTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CCT
** * * * * *
1494810 TAT--CATGTTAAAGTCTAATGTCGCTAGCCTTGAATCAGCATATTGGCATCT
1 T-TGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCT
*** * * * * * * *
1494861 TTAATATCC-CTAAGCCCAATGTCGCTGGCCTTGAATTAGCACATTAGCATTCT
1 TTGGCA-CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CCT
* * * * * * * * *
1494914 TCT--CATCTTCAAGTCTAATGTTGCTGGCCGTGAATCAGCACATTGACA-TT
1 T-TGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCT
* * * * * *
1494964 CTTCGCACCTTTAAGCCCAATATCACTAGCCTTGAATCAACATATTGGCGCCT
1 -TTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCT
* * * * *
1495017 TTGTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATTAGCACATTGGCACCT
1 TTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCT
1495069 TT
1 TT
1495071 AAGCCCAATA
Statistics
Matches: 286, Mismatches: 68, Indels: 24
0.76 0.18 0.06
Matches are distributed among these distances:
50 3 0.01
51 5 0.02
52 267 0.93
53 9 0.03
54 2 0.01
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.33
Consensus pattern (52 bp):
TTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCT
Found at i:1494840 original size:104 final size:104
Alignment explanation
Indices: 1494660--1495070 Score: 348
Period size: 104 Copynumber: 4.0 Consensus size: 104
1494650 ACATTGGCAC
* * * * * * * *
1494660 CTTTAAGTCCAATATCGCTAGCCTTAAATCAGCATATTGGC-CCCTT-TGGCACCTTTAAA-TCC
1 CTTTAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCCTTAT--CATC-TTAAAGTCT
* * * *
1494722 AATATCGCTGGCCTTGAATTAGTATATTGGCACCTTTTCCAT
63 AATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTTCCAT
* * *
1494764 CTTTAAGTCTAATGTCGCTGGCCTTGAATCAGCACATTGGCATCCTTATCATGTTAAAGTCTAAT
1 CTTTAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCCTTATCATCTTAAAGTCTAAT
* * * ***
1494829 GTCGCTAGCCTTGAATCAGCATATTGGCATCTTTAATAT
66 GTCGCTGGCCTTGAATCAGCACATTGGCACCTTTTCCAT
** * * * * *
1494868 CCCTAAGCCCAATGTCGCTGGCCTTGAATTAGCACATTAGCATTCTTCTCATCTTCAAGTCTAAT
1 CTTTAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCCTTATCATCTTAAAGTCTAAT
* * * *
1494933 GTTGCTGGCCGTGAATCAGCACATT-G-ACATTCTTCGCAC
66 GTCGCTGGCCTTGAATCAGCACATTGGCACCTT-TTC-CAT
* * * * * * * * *
1494972 CTTTAAGCCCAATATCACTAGCCTTGAATCAACATATTGGC-GCCTTTGTCATCTTTAAGTCCAA
1 CTTTAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCC-TTATCATCTTAAAGTCTAA
*
1495036 TGTCGCTGGCCTTGAATTAGCACATTGGCACCTTT
65 TGTCGCTGGCCTTGAATCAGCACATTGGCACCTTT
1495071 AAGCCCAATA
Statistics
Matches: 244, Mismatches: 55, Indels: 15
0.78 0.18 0.05
Matches are distributed among these distances:
102 3 0.01
103 8 0.03
104 222 0.91
105 6 0.02
106 5 0.02
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.34
Consensus pattern (104 bp):
CTTTAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCCTTATCATCTTAAAGTCTAAT
GTCGCTGGCCTTGAATCAGCACATTGGCACCTTTTCCAT
Found at i:1494921 original size:156 final size:155
Alignment explanation
Indices: 1494656--1495066 Score: 423
Period size: 156 Copynumber: 2.6 Consensus size: 155
1494646 CAACACATTG
* * * * * * ** * **
1494656 GCACCTTTAAGTCCAATATCGCTAGCCTTAAATCAGCATATTGGCCCCTTTGGCA-CCTTTAAAT
1 GCACCTTAAAGCCCAATATCACTAGCCTTGAATCAACATATTGGCACCTTTATCATCC-CTAAGC
* * * * *
1494720 CCAATATCGCTGGCCTTGAATTAGTATATTGGCACCTTTTCCATCTTTAAGTCTAATGTCGCTGG
65 CCAATGTCGCTGGCCTTGAATTAGCACATTAGCA-CTTTTCCATCTTCAAGTCTAATGTCGCTGG
* *
1494785 CCTTGAATCAGCACATTGGCATCCTTA
129 CCGTGAATCAGCACATTGACATCCTTA
* ** * * * * * *
1494812 TCATGTTAAAGTCTAATGTCGCTAGCCTTGAATCAGCATATTGGCATCTTTAAT-ATCCCTAAGC
1 GCACCTTAAAGCCCAATATCACTAGCCTTGAATCAACATATTGGCACCTTT-ATCATCCCTAAGC
*
1494876 CCAATGTCGCTGGCCTTGAATTAGCACATTAGCA-TTCTTCTCATCTTCAAGTCTAATGTTGCTG
65 CCAATGTCGCTGGCCTTGAATTAGCACATTAGCACTT-TTC-CATCTTCAAGTCTAATGTCGCTG
* *
1494940 GCCGTGAATCAGCACATTGACATTCTTC
128 GCCGTGAATCAGCACATTGACATCCTTA
* * * ** *
1494968 GCACCTTTAAGCCCAATATCACTAGCCTTGAATCAACATATTGGCGCCTTTGTCATCTTTAAGTC
1 GCACCTTAAAGCCCAATATCACTAGCCTTGAATCAACATATTGGCACCTTTATCATCCCTAAGCC
*
1495033 CAATGTCGCTGGCCTTGAATTAGCACATTGGCAC
66 CAATGTCGCTGGCCTTGAATTAGCACATTAGCAC
1495067 CTTTAAGCCC
Statistics
Matches: 209, Mismatches: 40, Indels: 11
0.80 0.15 0.04
Matches are distributed among these distances:
154 2 0.01
155 4 0.02
156 201 0.96
157 2 0.01
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.33
Consensus pattern (155 bp):
GCACCTTAAAGCCCAATATCACTAGCCTTGAATCAACATATTGGCACCTTTATCATCCCTAAGCC
CAATGTCGCTGGCCTTGAATTAGCACATTAGCACTTTTCCATCTTCAAGTCTAATGTCGCTGGCC
GTGAATCAGCACATTGACATCCTTA
Found at i:1495106 original size:43 final size:43
Alignment explanation
Indices: 1495024--1495106 Score: 112
Period size: 43 Copynumber: 1.9 Consensus size: 43
1495014 CCTTTGTCAT
* * * * *
1495024 CTTTAAGTCCAATGTCGCTGGCCTTGAATTAGCACATTGGCAC
1 CTTTAAGCCCAATATCGCTGGCCTTAAATCAACACATTGGCAC
*
1495067 CTTTAAGCCCAATATCGCTGGCCTTAAATCAACATATTGG
1 CTTTAAGCCCAATATCGCTGGCCTTAAATCAACACATTGG
1495107 TATTTTTATC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (43 bp):
CTTTAAGCCCAATATCGCTGGCCTTAAATCAACACATTGGCAC
Found at i:1495787 original size:15 final size:15
Alignment explanation
Indices: 1495769--1495853 Score: 77
Period size: 15 Copynumber: 5.6 Consensus size: 15
1495759 ATAAAAATAT
*
1495769 AATAATAAAATCAAA
1 AATAAAAAAATCAAA
1495784 AATAAAAAAA--AATTA
1 AATAAAAAAATCAA--A
1495799 AATAAAAAAATTCAAA
1 AATAAAAAAA-TCAAA
** *
1495815 TTTAAAAAAAAT-ACA
1 AAT-AAAAAAATCAAA
1495830 AATAAAAAAATCAAA
1 AATAAAAAAATCAAA
1495845 AATAAAAAA
1 AATAAAAAA
1495854 TATAACTAAT
Statistics
Matches: 56, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
13 2 0.04
14 8 0.14
15 34 0.61
16 3 0.05
17 7 0.12
18 2 0.04
ACGTcount: A:0.76, C:0.05, G:0.00, T:0.19
Consensus pattern (15 bp):
AATAAAAAAATCAAA
Found at i:1495788 original size:18 final size:18
Alignment explanation
Indices: 1495752--1495796 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
1495742 ATTATCTTTG
1495752 ATAAAAAATAAAAATATA
1 ATAAAAAATAAAAATATA
1495770 ATAATAAAATCAAAAATA-A
1 ATAA-AAAAT-AAAAATATA
1495789 A-AAAAAAT
1 ATAAAAAAT
1495797 TAAATAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 5 0.20
18 6 0.24
19 7 0.28
20 7 0.28
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (18 bp):
ATAAAAAATAAAAATATA
Found at i:1495803 original size:30 final size:30
Alignment explanation
Indices: 1495755--1495853 Score: 110
Period size: 31 Copynumber: 3.2 Consensus size: 30
1495745 ATCTTTGATA
* *
1495755 AAAAATAAAAATATAATAATAAAATCAAAAAT
1 AAAAA-AAAATTA-AATAAAAAAATCAAAAAT
*
1495787 AAAAAAAAATTAAATAAAAAAATTC-AAATT
1 AAAAAAAAATTAAATAAAAAAA-TCAAAAAT
* *
1495817 TAAAAAAAATACAAATAAAAAAATCAAAAAT
1 AAAAAAAAAT-TAAATAAAAAAATCAAAAAT
1495848 AAAAAA
1 AAAAAA
1495854 TATAACTAAT
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
30 24 0.42
31 28 0.49
32 5 0.09
ACGTcount: A:0.77, C:0.04, G:0.00, T:0.19
Consensus pattern (30 bp):
AAAAAAAAATTAAATAAAAAAATCAAAAAT
Found at i:1495833 original size:31 final size:29
Alignment explanation
Indices: 1495761--1495853 Score: 107
Period size: 30 Copynumber: 3.1 Consensus size: 29
1495751 GATAAAAAAT
*
1495761 AAAAAT-ATAATAATAAAATCAAAAATAAAA
1 AAAAATCA-AATAAAAAAATCAAAAAT-AAA
* **
1495791 AAAAATTAAATAAAAAAATTCAAATTTAAA
1 AAAAATCAAATAAAAAAA-TCAAAAATAAA
1495821 AAAAATACAAATAAAAAAATCAAAAATAAA
1 AAAAAT-CAAATAAAAAAATCAAAAATAAA
1495851 AAA
1 AAA
1495854 TATAACTAAT
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
30 36 0.67
31 18 0.33
ACGTcount: A:0.76, C:0.04, G:0.00, T:0.19
Consensus pattern (29 bp):
AAAAATCAAATAAAAAAATCAAAAATAAA
Found at i:1497686 original size:79 final size:78
Alignment explanation
Indices: 1497517--1497935 Score: 384
Period size: 79 Copynumber: 5.4 Consensus size: 78
1497507 AAACTATCAA
* * * * *
1497517 AATTTTT-ATAATCGGGGATACTCAACCCCGTTATTTCTGAGGAGATACTCCAACCCT-AATTTT
1 AATTTTTCACAATCGGGGATACTCAAACCCGTTATTTCTGAGGGGATACTCCAACCCTGACTTTA
1497580 TTTCCAAAACATC
66 TTTCCAAAACATC
* * * * * * * *
1497593 GACTTTTCATAATCGGGGATACTCTAAACCCATTATTTTTGAGGGGATACTCTAACCCTGGCCTT
1 AATTTTTCACAATCGGGGATACTC-AAACCCGTTATTTCTGAGGGGATACTCCAACCCTGACTTT
*
1497658 ATTTCTAAAACATC
65 ATTTCCAAAACATC
* * *
1497672 AATTTTTCACAATCGAGGAT-CTCTAACCCTGTTATTTCTGAGGGGATACTCCAACCCTGATTTT
1 AATTTTTCACAATCGGGGATACTCAAACCC-GTTATTTCTGAGGGGATACTCCAACCCTGACTTT
1497736 ATTTCCAAAACA-C
65 ATTTCCAAAACATC
** * * * ** *
1497749 TAATTTTTTGCCATCGAGGATACTCCAACCTTATTATTTCTGAGGGGATACTCCAACCCTGGCTT
1 -AATTTTTCACAATCGGGGATACTCAAACC-CGTTATTTCTGAGGGGATACTCCAACCCTGACTT
*
1497814 TATTTCTAAAACATC
64 TATTTCCAAAACATC
* * * * * *
1497829 GATCTTCCACAATCGGGGATACTCCAACCCCGTTATTTCCT-AGAGGATACTCCAACCCCGA-TT
1 AATTTTTCACAATCGGGGATACT-CAAACCCGTTATTT-CTGAGGGGATACTCCAACCCTGACTT
*
1497892 T-GTTCCAAAACATC
64 TATTTCCAAAACATC
* * * * * *
1497906 GATTTTCCACCATTGGAGATACTCCAACCC
1 AATTTTTCACAATCGGGGATACTCAAACCC
1497936 CATTTTTATC
Statistics
Matches: 278, Mismatches: 55, Indels: 20
0.79 0.16 0.06
Matches are distributed among these distances:
76 10 0.04
77 52 0.19
78 91 0.33
79 118 0.42
80 7 0.03
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (78 bp):
AATTTTTCACAATCGGGGATACTCAAACCCGTTATTTCTGAGGGGATACTCCAACCCTGACTTTA
TTTCCAAAACATC
Found at i:1497799 original size:157 final size:156
Alignment explanation
Indices: 1497517--1497912 Score: 484
Period size: 157 Copynumber: 2.5 Consensus size: 156
1497507 AAACTATCAA
* * *
1497517 AATTTTT-ATAATCGGGGATACTCAACCCCGTTATTTCTGAGGAGATACTCCAACCCTAATTTTT
1 AATTTTTCACAATCGGGGATACTCAACCCCGTTATTTCTGAGGGGATACTCCAACCCTGATTTTT
* * * *
1497581 TTCCAAAACATCGACTTTTCATAATCGGGGATACTCTAAACCCATTATTTTTGAGGGGATACTCT
66 TTCCAAAACATCGAATTTTCATAATCGAGGATACTCTAAACCCATTATTTCTGAGGGGATACTCC
1497646 AACCCTGGCCTTATTTCTAAAACATC
131 AACCCTGGCCTTATTTCTAAAACATC
* *
1497672 AATTTTTCACAATCGAGGAT-CTCTAACCCTGTTATTTCTGAGGGGATACTCCAACCCTGATTTT
1 AATTTTTCACAATCGGGGATACTC-AACCCCGTTATTTCTGAGGGGATACTCCAACCCTGATTTT
* * * * *
1497736 ATTTCCAAAACA-CTAATTTT-TTGCCATCGAGGATACTC-CAACCTTATTATTTCTGAGGGGAT
65 -TTTCCAAAACATCGAATTTTCAT--AATCGAGGATACTCTAAACC-CATTATTTCTGAGGGGAT
*
1497798 ACTCCAACCCTGGCTTTATTTCTAAAACATC
126 ACTCCAACCCTGGCCTTATTTCTAAAACATC
* * * * *
1497829 GATCTTCCACAATCGGGGATACTCCAACCCCGTTATTTCCT-AGAGGATACTCCAACCCCGA-TT
1 AATTTTTCACAATCGGGGATACT-CAACCCCGTTATTT-CTGAGGGGATACTCCAACCCTGATTT
*
1497892 TGTTCCAAAACATCG-ATTTTC
64 TTTTCCAAAACATCGAATTTTC
1497913 CACCATTGGA
Statistics
Matches: 206, Mismatches: 24, Indels: 20
0.82 0.10 0.08
Matches are distributed among these distances:
155 11 0.05
156 72 0.35
157 88 0.43
158 32 0.16
159 3 0.01
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (156 bp):
AATTTTTCACAATCGGGGATACTCAACCCCGTTATTTCTGAGGGGATACTCCAACCCTGATTTTT
TTCCAAAACATCGAATTTTCATAATCGAGGATACTCTAAACCCATTATTTCTGAGGGGATACTCC
AACCCTGGCCTTATTTCTAAAACATC
Found at i:1509210 original size:58 final size:58
Alignment explanation
Indices: 1509131--1509256 Score: 155
Period size: 58 Copynumber: 2.2 Consensus size: 58
1509121 TGGTGGCATC
* * ** * *
1509131 CCTTTCCAAACCCAATGTTGTTGGCCTTGAA-CTAACATATTGGCACTTGTCAAATCTT
1 CCTTTTCAAACCCAATATTGTTGAACTTGAATC-AACACATTGGCACTCGTCAAATCTT
* * *
1509189 CCTTTTCAAGCCCAATATTGTTGAACTTGAATCAACACATTGGCACTCGTCAAGTTTT
1 CCTTTTCAAACCCAATATTGTTGAACTTGAATCAACACATTGGCACTCGTCAAATCTT
1509247 CCTTTTCAAA
1 CCTTTTCAAA
1509257 GTCTAATGTC
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
58 56 0.98
59 1 0.02
ACGTcount: A:0.27, C:0.25, G:0.13, T:0.35
Consensus pattern (58 bp):
CCTTTTCAAACCCAATATTGTTGAACTTGAATCAACACATTGGCACTCGTCAAATCTT
Found at i:1509400 original size:52 final size:52
Alignment explanation
Indices: 1509344--1509444 Score: 123
Period size: 52 Copynumber: 1.9 Consensus size: 52
1509334 ACACATTGTT
*
1509344 ACCTTCACCATCTTTAAGT-TCAATATCGCTCGCATTGAATCAGCATATTTGC
1 ACCTTCACCATCTTGAAGTCT-AATATCGCTCGCATTGAATCAGCATATTTGC
* * * * * *
1509396 ACCTTTATCATCTTGAAGTCTGATATCGCTGGCCTTGAATCAGTATATT
1 ACCTTCACCATCTTGAAGTCTAATATCGCTCGCATTGAATCAGCATATT
1509445 AGCATCTTTG
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
52 40 0.98
53 1 0.02
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.37
Consensus pattern (52 bp):
ACCTTCACCATCTTGAAGTCTAATATCGCTCGCATTGAATCAGCATATTTGC
Found at i:1509536 original size:52 final size:53
Alignment explanation
Indices: 1509461--1509605 Score: 152
Period size: 52 Copynumber: 2.8 Consensus size: 53
1509451 TTTGACATTC
* * * * *
1509461 CTAAGCCCAATGTCGTTGACCTTAAATCAACACATTGGCATTC-TTCTCATCT
1 CTAAGCCTAATGTCGCTGGCCTTAAATCAACATATTGGCATTCTTTCTCACCT
* * *
1509513 -TCAAGTCTAATGTCGCTGGCCTTAAGTCAACATATTGGC-TTCTTTGTCACCT
1 CT-AAGCCTAATGTCGCTGGCCTTAAATCAACATATTGGCATTCTTTCTCACCT
* * * *
1509565 CTAAGCCTAATATCGCTAGCCTTGAATCAGCATATTGGCAT
1 CTAAGCCTAATGTCGCTGGCCTTAAATCAACATATTGGCAT
1509606 CAATATCATT
Statistics
Matches: 75, Mismatches: 14, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
51 4 0.05
52 69 0.92
53 2 0.03
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.33
Consensus pattern (53 bp):
CTAAGCCTAATGTCGCTGGCCTTAAATCAACATATTGGCATTCTTTCTCACCT
Found at i:1509661 original size:61 final size:61
Alignment explanation
Indices: 1509566--1509685 Score: 179
Period size: 61 Copynumber: 2.0 Consensus size: 61
1509556 TTGTCACCTC
* *
1509566 TAAGCCTAATATCGCTAGCCTTGAATCAGCATATTGGCATCAATATCATTCTTCTCATCTT
1 TAAGCCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCAATATCATTCTTCTCATCTT
** *
1509627 TAAGCCCAATATCGCTAG-CTGTGAATCAGCATATTGGCACCTTTATCATTTTTCTCATC
1 TAAGCCCAATATCGCTAGCCT-TGAATCAGCATATTGGCACCAATATCATTCTTCTCATC
1509686 CTTATCATCT
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
60 2 0.04
61 51 0.96
ACGTcount: A:0.27, C:0.25, G:0.12, T:0.36
Consensus pattern (61 bp):
TAAGCCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCAATATCATTCTTCTCATCTT
Found at i:1510356 original size:19 final size:21
Alignment explanation
Indices: 1510308--1510363 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
1510298 AATTTTTACA
1510308 ATTTGTATCGATACAAACAGT
1 ATTTGTATCGATACAAACAGT
** *
1510329 AAATGTATCGATACATA-AGT
1 ATTTGTATCGATACAAACAGT
1510349 -TTTGTATCGATACAA
1 ATTTGTATCGATACAA
1510364 TATATTAATA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
19 12 0.41
20 3 0.10
21 14 0.48
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.34
Consensus pattern (21 bp):
ATTTGTATCGATACAAACAGT
Found at i:1513920 original size:14 final size:15
Alignment explanation
Indices: 1513901--1513929 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
1513891 GCAGAAGTGT
1513901 GAAAAAAAA-AGAAA
1 GAAAAAAAAGAGAAA
1513915 GAAAAAAAAGAGAAA
1 GAAAAAAAAGAGAAA
1513930 AAACAAGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (15 bp):
GAAAAAAAAGAGAAA
Found at i:1514634 original size:21 final size:21
Alignment explanation
Indices: 1514608--1514658 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
1514598 GGATTGAAAT
1514608 GCAATTTTGAAAAGTTTAAGG
1 GCAATTTTGAAAAGTTTAAGG
1514629 GCAATTTTGAAAAGTTTAAGG
1 GCAATTTTGAAAAGTTTAAGG
*
1514650 ACAATTTTG
1 GCAATTTTG
1514659 CAAATAGGGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.37, C:0.06, G:0.22, T:0.35
Consensus pattern (21 bp):
GCAATTTTGAAAAGTTTAAGG
Found at i:1515963 original size:34 final size:35
Alignment explanation
Indices: 1515925--1515991 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
1515915 CCTTACAACA
1515925 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
1515959 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
1515992 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:1516488 original size:13 final size:13
Alignment explanation
Indices: 1516470--1516495 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1516460 CTATTTATGA
1516470 TGTATCGATACAC
1 TGTATCGATACAC
1516483 TGTATCGATACAC
1 TGTATCGATACAC
1516496 ACAAATATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:1516555 original size:21 final size:22
Alignment explanation
Indices: 1516524--1516578 Score: 103
Period size: 21 Copynumber: 2.5 Consensus size: 22
1516514 ATGAATAGTG
1516524 ATGAACAGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
1516546 ATGAA-AGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
1516567 ATGAACAGTGAT
1 ATGAACAGTGAT
1516579 TAACAGTGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 21 0.66
22 11 0.34
ACGTcount: A:0.38, C:0.11, G:0.24, T:0.27
Consensus pattern (22 bp):
ATGAACAGTGATGTATCGATAC
Found at i:1516585 original size:10 final size:10
Alignment explanation
Indices: 1516567--1516597 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
1516557 GTATCGATAC
1516567 ATGAACAGTG
1 ATGAACAGTG
*
1516577 ATTAACAGTG
1 ATGAACAGTG
1516587 ATGAACAGTG
1 ATGAACAGTG
1516597 A
1 A
1516598 AAATGAGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.42, C:0.10, G:0.26, T:0.23
Consensus pattern (10 bp):
ATGAACAGTG
Found at i:1516685 original size:53 final size:53
Alignment explanation
Indices: 1516621--1516757 Score: 247
Period size: 53 Copynumber: 2.6 Consensus size: 53
1516611 CTACTTCCAA
1516621 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
* *
1516674 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGTCC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
1516727 TGTATCGATACATATTTGTGTGTATCGATAC
1 TGTATCGATACATATTT-TGTGTATCGATAC
1516758 TATGCAATTT
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
53 67 0.84
54 13 0.16
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (53 bp):
TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
Found at i:1516790 original size:20 final size:20
Alignment explanation
Indices: 1516727--1516797 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
1516717 GCCAATGTCC
**
1516727 TGTATCGATACATATTTGTG
1 TGTATCGATACATATTAATG
* *
1516747 TGTATCGATAC-TATGCAATT
1 TGTATCGATACATAT-TAATG
1516767 TGTATCGATACAT-TTAAATG
1 TGTATCGATACATATT-AATG
1516787 TGTATCGATAC
1 TGTATCGATAC
1516798 TTTTCAGGGT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
19 3 0.07
20 38 0.90
21 1 0.02
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.41
Consensus pattern (20 bp):
TGTATCGATACATATTAATG
Found at i:1523802 original size:32 final size:32
Alignment explanation
Indices: 1523761--1523838 Score: 147
Period size: 32 Copynumber: 2.4 Consensus size: 32
1523751 AATTATTCAT
1523761 TGTATCGATACATTATAGGTTTTTGACCCAAA
1 TGTATCGATACATTATAGGTTTTTGACCCAAA
*
1523793 TGTATCGATACATTATAGGTTTTTGACCTAAA
1 TGTATCGATACATTATAGGTTTTTGACCCAAA
1523825 TGTATCGATACATT
1 TGTATCGATACATT
1523839 CTTCAATGTA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 45 1.00
ACGTcount: A:0.31, C:0.14, G:0.15, T:0.40
Consensus pattern (32 bp):
TGTATCGATACATTATAGGTTTTTGACCCAAA
Found at i:1523808 original size:52 final size:51
Alignment explanation
Indices: 1523687--1523808 Score: 154
Period size: 51 Copynumber: 2.4 Consensus size: 51
1523677 TCTAGAAAGA
* * * * *
1523687 AAATGTATCAATATATTTTTTATTATATCGATACATTCTGGGTTTTGACCC
1 AAATGTATCGATAAATTATTCATTATATCGATACATTATGGGTTTTGACCC
* * *
1523738 AAATGTATTGATAAATTATTCATTGTATCGATACATTATAGGTTTTTGACCC
1 AAATGTATCGATAAATTATTCATTATATCGATACATTAT-GGGTTTTGACCC
*
1523790 AAATGTATCGATACATTAT
1 AAATGTATCGATAAATTAT
1523809 AGGTTTTTGA
Statistics
Matches: 60, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
51 32 0.53
52 28 0.47
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (51 bp):
AAATGTATCGATAAATTATTCATTATATCGATACATTATGGGTTTTGACCC
Found at i:1526385 original size:78 final size:77
Alignment explanation
Indices: 1526187--1526517 Score: 310
Period size: 79 Copynumber: 4.2 Consensus size: 77
1526177 TTTCATTTTA
* * * * * * *
1526187 GGGGATACTCTAATCCCATCAATTCCGAGGGGATACTCCAAACTCGTTTTTATTTCCAAAATATC
1 GGGGATACTC-AACCCCATCATTTCTGAGGGGATACTCCAACCCCATTTTTATTTTCAAAATAT-
* *
1526252 AAATTTTTTATCAT-
64 TAATTTTTCATC-TC
* * * ** *
1526266 GAGAATACTGCAACCCTATTGTTT-TCGAGGGGATACTCCAACCCCATTTTTAGTTTCAAAATAT
1 GGGGATACT-CAACCCCATCATTTCT-GAGGGGATACTCCAACCCCATTTTTATTTTCAAAATAT
1526330 TAATTTTTCATCTC
64 TAATTTTTCATCTC
* * * *
1526344 GGGGATACTCAAACCTCATTATTTCTGAGGAGATACTCCAACCCCATTTTTATTTTCAAAATATC
1 GGGGATACTC-AACCCCATCATTTCTGAGGGGATACTCCAACCCCATTTTTATTTTCAAAATATT
* *
1526409 AATTTTTCACCATT
65 AATTTTTCATC-TC
** *
1526423 GGGGATACTTCAACCCCATCATTT-TCGAGGGGATACTCCAACCCTGTTTTCATTTTCAAAATAT
1 GGGGATAC-TCAACCCCATCATTTCT-GAGGGGATACTCCAACCCCATTTTTATTTTCAAAATAT
1526487 TAAATTTTTTCAT-TC
64 T-AA-TTTTTCATCTC
1526502 GGGGATACTCCAACCC
1 GGGGATACT-CAACCC
1526518 TGACTATTAC
Statistics
Matches: 207, Mismatches: 34, Indels: 22
0.79 0.13 0.08
Matches are distributed among these distances:
77 2 0.01
78 75 0.36
79 118 0.57
80 5 0.02
81 7 0.03
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.36
Consensus pattern (77 bp):
GGGGATACTCAACCCCATCATTTCTGAGGGGATACTCCAACCCCATTTTTATTTTCAAAATATTA
ATTTTTCATCTC
Found at i:1526460 original size:157 final size:157
Alignment explanation
Indices: 1526187--1526517 Score: 407
Period size: 157 Copynumber: 2.1 Consensus size: 157
1526177 TTTCATTTTA
* * * *
1526187 GGGGATACTCTAATCCCATCAATTCCGAGGGGATACTCCAAACTCGTTTTTATTTCCAAAATATC
1 GGGGATACTC-AAACCCATCAATTCCGAGGAGATACTCCAAACCCATTTTTATTTCCAAAATATC
* * * ** *
1526252 AAATTTTTTATCATGAGAATACTGCAACCCTATTGTTTTCGAGGGGATACTCCAACCCCATTTTT
65 AAATTTTTCACCATGAGAATACTGCAACCCCATCATTTTCGAGGGGATACTCCAACCCCATTTTC
1526317 AGTTTCAAAATATT-AA-TTTTTCATCTC
130 AGTTTCAAAATATTAAATTTTTTCAT-TC
* * * * *
1526344 GGGGATACTCAAACCTCATTATTTCTGAGGAGATACTCCAACCCCATTTTTATTTTCAAAATATC
1 GGGGATACTCAAACC-CATCAATTCCGAGGAGATACTCCAAACCCATTTTTATTTCCAAAATATC
* * * **
1526409 -AATTTTTCACCATTGGGGATACTTCAACCCCATCATTTTCGAGGGGATACTCCAACCCTGTTTT
65 AAATTTTTCACCA-TGAGAATACTGCAACCCCATCATTTTCGAGGGGATACTCCAACCCCATTTT
*
1526473 CATTTTCAAAATATTAAATTTTTTCATTC
129 CAGTTTCAAAATATTAAATTTTTTCATTC
*
1526502 GGGGATACTCCAACCC
1 GGGGATACTCAAACCC
1526518 TGACTATTAC
Statistics
Matches: 148, Mismatches: 22, Indels: 8
0.83 0.12 0.04
Matches are distributed among these distances:
156 14 0.09
157 108 0.73
158 18 0.12
159 8 0.05
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.36
Consensus pattern (157 bp):
GGGGATACTCAAACCCATCAATTCCGAGGAGATACTCCAAACCCATTTTTATTTCCAAAATATCA
AATTTTTCACCATGAGAATACTGCAACCCCATCATTTTCGAGGGGATACTCCAACCCCATTTTCA
GTTTCAAAATATTAAATTTTTTCATTC
Found at i:1533134 original size:81 final size:81
Alignment explanation
Indices: 1532955--1533142 Score: 222
Period size: 81 Copynumber: 2.3 Consensus size: 81
1532945 TGGTTAGCCC
* *
1532955 TTCACTCTTTGTTGACTTGTTAGTTTCATCTTGGTCAACCTTTTTCAATTGTTAAGCTTTCGATT
1 TTCACTCTTTGTTGACTTGTTGGTTTCATCTTGATCAACCTTTTTCAATTGTTAAGCTTTCGATT
1533020 TCATCCCAGTCAACCA
66 TCATCCCAGTCAACCA
* * * * *
1533036 TTCACTATTTGTTGACTTGTTGGTTTCATCTTGATTAA-CTTTTCTCAATTGTTGA-CTTGTTGG
1 TTCACTCTTTGTTGACTTGTTGGTTTCATCTTGATCAACCTTTT-TCAATTGTTAAGCTT-TCGA
*
1533099 TTTCATCCTAGTCAA-CA
64 TTTCATCCCAGTCAACCA
* *
1533116 TTTCATTCTTT-TTCGACTTATTGGTTT
1 -TTCACTCTTTGTT-GACTTGTTGGTTT
1533143 TGTCCTAATC
Statistics
Matches: 92, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
80 12 0.13
81 80 0.87
ACGTcount: A:0.18, C:0.20, G:0.13, T:0.49
Consensus pattern (81 bp):
TTCACTCTTTGTTGACTTGTTGGTTTCATCTTGATCAACCTTTTTCAATTGTTAAGCTTTCGATT
TCATCCCAGTCAACCA
Found at i:1534183 original size:20 final size:21
Alignment explanation
Indices: 1534139--1534212 Score: 80
Period size: 21 Copynumber: 3.6 Consensus size: 21
1534129 TTCAACAAAT
* *
1534139 TGTATCGATACA-ATAGGGTAA
1 TGTATCGATACATA-AGTGAAA
1534160 TGTATCGATACATAAGTG-AA
1 TGTATCGATACATAAGTGAAA
***
1534180 TGTATCGATACATGTTTGAAA
1 TGTATCGATACATAAGTGAAA
1534201 TGTATCGATACA
1 TGTATCGATACA
1534213 AGACCACGTC
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
20 17 0.36
21 29 0.62
22 1 0.02
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.32
Consensus pattern (21 bp):
TGTATCGATACATAAGTGAAA
Found at i:1540095 original size:155 final size:154
Alignment explanation
Indices: 1539651--1540103 Score: 434
Period size: 155 Copynumber: 2.9 Consensus size: 154
1539641 AAGTACCCCC
** * * * * ** *
1539651 ATAATTTTCCCTAAAATCAAATCCTAGCTCGTCACCAGGTTACTTTTATGCCACAGGTATACATT
1 ATAATTTTTTCTAAAATCGAATCCTAGGTGGTCACCATGTGCCTTTTATGCCAAAGGTATACATT
* * * *
1539716 TAGGATAGGTTCATCCTTTTATGATCCTTTCTGT-TCTTTAGGGTT-GCTGGAATACTTTAATAT
66 TAGGATAGGTTCATCCTTTTATGATCCTTTCTGTCT-TTTAGGGTTATC-GGGATACTTTTACAT
* *
1539779 CGAACGTATACCCTAAGGGCATTTTG
129 CGAAGGTATACCTTAAGGGCATTTTG
* * * *
1539805 ATAGTTTTTTCTAAAATCGAATCCTAGGTGGTCACCATGTGCCTTTTATGTCGAAGGTATGCATT
1 ATAATTTTTTCTAAAATCGAATCCTAGGTGGTCACCATGTGCCTTTTATGCCAAAGGTATACATT
* ** * **
1539870 TAGGATAGGTTCATCATTTTATGATTTTTTCGTGTCCTTTAGGGTTATCAAGATA-TTTTCACAT
66 TAGGATAGGTTCATCCTTTTATGATCCTTTC-TGTCTTTTAGGGTTATCGGGATACTTTT-ACAT
** * *
1539934 TAAAGGTATATCTTAAGGGTATTTTG
129 CGAAGGTATACCTTAAGGGCATTTTG
* ** * * * *
1539960 GTAATTTTATT-TAGGATCGAATCCTAGG-GTGTCA--TTGAGTCGCTTTTATGCCAAATGTGTA
1 ATAATTTT-TTCTAAAATCGAATCCTAGGTG-GTCACCATGTG-C-CTTTTATGCCAAAGGTATA
*
1540021 CTTTTAGGATAGGTTCATCCTTTTATGATCCTTTCATGTCTTTTAGGGTTATCGGGATACTTTTA
62 CATTTAGGATAGGTTCATCCTTTTATGATCCTTTC-TGTCTTTTAGGGTTATCGGGATACTTTTA
*
1540086 CGTCGAAGGTATACCTTA
126 CATCGAAGGTATACCTTA
1540104 TAGACATTTG
Statistics
Matches: 238, Mismatches: 52, Indels: 17
0.78 0.17 0.06
Matches are distributed among these distances:
153 3 0.01
154 85 0.36
155 143 0.60
156 7 0.03
ACGTcount: A:0.25, C:0.16, G:0.19, T:0.41
Consensus pattern (154 bp):
ATAATTTTTTCTAAAATCGAATCCTAGGTGGTCACCATGTGCCTTTTATGCCAAAGGTATACATT
TAGGATAGGTTCATCCTTTTATGATCCTTTCTGTCTTTTAGGGTTATCGGGATACTTTTACATCG
AAGGTATACCTTAAGGGCATTTTG
Found at i:1549687 original size:13 final size:13
Alignment explanation
Indices: 1549669--1549693 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1549659 ACATCTTGCT
1549669 TTGTATCGATACG
1 TTGTATCGATACG
1549682 TTGTATCGATAC
1 TTGTATCGATAC
1549694 ATGCTCACTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.40
Consensus pattern (13 bp):
TTGTATCGATACG
Found at i:1549707 original size:19 final size:20
Alignment explanation
Indices: 1549683--1549735 Score: 72
Period size: 19 Copynumber: 2.7 Consensus size: 20
1549673 ATCGATACGT
*
1549683 TGTATCGATACATGCTC-AC
1 TGTATCGATACATGCACAAC
* *
1549702 TGTATCGATACATGGACAAT
1 TGTATCGATACATGCACAAC
1549722 TGTATCGATACATG
1 TGTATCGATACATG
1549736 AAACTGGTAG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (20 bp):
TGTATCGATACATGCACAAC
Found at i:1549801 original size:13 final size:13
Alignment explanation
Indices: 1549780--1549810 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1549770 CGATACATGG
*
1549780 TACAATGTATCGA
1 TACATTGTATCGA
1549793 TACATTGTATCGA
1 TACATTGTATCGA
1549806 TACAT
1 TACAT
1549811 AATGAAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:1549801 original size:33 final size:33
Alignment explanation
Indices: 1549764--1549830 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 33
1549754 CTATCACTAT
**
1549764 TTGTATCGATACATGGT-ACAATGTATCGATACA
1 TTGTATCGATACATAATGA-AATGTATCGATACA
1549797 TTGTATCGATACATAATGAAATGTATCGATACA
1 TTGTATCGATACATAATGAAATGTATCGATACA
1549830 T
1 T
1549831 AGCTTGTAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 30 0.97
34 1 0.03
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.34
Consensus pattern (33 bp):
TTGTATCGATACATAATGAAATGTATCGATACA
Found at i:1555841 original size:13 final size:13
Alignment explanation
Indices: 1555823--1555848 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1555813 ACAACATTCC
1555823 TTGTATCGATACA
1 TTGTATCGATACA
1555836 TTGTATCGATACA
1 TTGTATCGATACA
1555849 GTGGGTACTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1556015 original size:20 final size:21
Alignment explanation
Indices: 1555971--1556016 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
1555961 AATTTTCCAT
1555971 AAATTTTCACTTTTTCACTTCA
1 AAATTTTCACTTTTTCAC-TCA
1555993 AAATGTTTCA-TTTTTCA-TCA
1 AAAT-TTTCACTTTTTCACTCA
1556013 AAAT
1 AAAT
1556017 CATCAACAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 7 0.30
22 11 0.48
23 5 0.22
ACGTcount: A:0.33, C:0.17, G:0.02, T:0.48
Consensus pattern (21 bp):
AAATTTTCACTTTTTCACTCA
Found at i:1557805 original size:51 final size:52
Alignment explanation
Indices: 1557740--1557837 Score: 164
Period size: 51 Copynumber: 1.9 Consensus size: 52
1557730 TTAAGGGGGA
*
1557740 GAAATTTTTTTGAGAAATTCCTTAATTAAAGG-GGAGAAAAATGAAAAACTTT
1 GAAATTTTTTTGAGAAATTCCTCAATT-AAGGAGGAGAAAAATGAAAAACTTT
1557792 GAAA-TTTTTTGAGAAATTCCTCAATTAAGGAGGAGAAAAATGAAAA
1 GAAATTTTTTTGAGAAATTCCTCAATTAAGGAGGAGAAAAATGAAAA
1557838 CTTAAAAACT
Statistics
Matches: 44, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
50 4 0.09
51 36 0.82
52 4 0.09
ACGTcount: A:0.46, C:0.06, G:0.18, T:0.30
Consensus pattern (52 bp):
GAAATTTTTTTGAGAAATTCCTCAATTAAGGAGGAGAAAAATGAAAAACTTT
Found at i:1558394 original size:19 final size:20
Alignment explanation
Indices: 1558372--1558424 Score: 72
Period size: 19 Copynumber: 2.7 Consensus size: 20
1558362 CATCTTGCTT
*
1558372 TGTATCGATACATGCTC-AC
1 TGTATCGATACATGCACAAC
* *
1558391 TGTATCGATACATGGACAAT
1 TGTATCGATACATGCACAAC
1558411 TGTATCGATACATG
1 TGTATCGATACATG
1558425 AAAATGACAG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (20 bp):
TGTATCGATACATGCACAAC
Found at i:1558504 original size:20 final size:20
Alignment explanation
Indices: 1558454--1558518 Score: 65
Period size: 20 Copynumber: 3.6 Consensus size: 20
1558444 TATCACTATT
1558454 TGTATCGATACATGATACAA
1 TGTATCGATACATGATACAA
1558474 T-TATCGATAC---AT----
1 TGTATCGATACATGATACAA
1558486 TGTATCGATACATGATACAA
1 TGTATCGATACATGATACAA
*
1558506 TGTATTGATACAT
1 TGTATCGATACAT
1558519 TGTATCGATA
Statistics
Matches: 36, Mismatches: 1, Indels: 16
0.68 0.02 0.30
Matches are distributed among these distances:
12 1 0.03
13 9 0.25
16 4 0.11
19 9 0.25
20 13 0.36
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (20 bp):
TGTATCGATACATGATACAA
Found at i:1558521 original size:33 final size:32
Alignment explanation
Indices: 1558453--1558528 Score: 134
Period size: 32 Copynumber: 2.3 Consensus size: 32
1558443 CTATCACTAT
1558453 TTGTATCGATACATGATACAATTATCGATACA
1 TTGTATCGATACATGATACAATTATCGATACA
*
1558485 TTGTATCGATACATGATACAATGTATTGATACA
1 TTGTATCGATACATGATACAAT-TATCGATACA
1558518 TTGTATCGATA
1 TTGTATCGATA
1558529 TATAATGAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
32 22 0.52
33 20 0.48
ACGTcount: A:0.36, C:0.13, G:0.14, T:0.37
Consensus pattern (32 bp):
TTGTATCGATACATGATACAATTATCGATACA
Found at i:1558541 original size:33 final size:33
Alignment explanation
Indices: 1558453--1558551 Score: 139
Period size: 33 Copynumber: 3.0 Consensus size: 33
1558443 CTATCACTAT
1558453 TTGTATCGATACATGATACAAT-TATCGATACA
1 TTGTATCGATACATGATACAATGTATCGATACA
*
1558485 TTGTATCGATACATGATACAATGTATTGATACA
1 TTGTATCGATACATGATACAATGTATCGATACA
* * *
1558518 TTGTATCGATATATAATGA-AATGTATCAATACA
1 TTGTATCGATACATGAT-ACAATGTATCGATACA
1558551 T
1 T
1558552 AGCTTGTAAC
Statistics
Matches: 60, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
32 22 0.37
33 37 0.62
34 1 0.02
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.36
Consensus pattern (33 bp):
TTGTATCGATACATGATACAATGTATCGATACA
Found at i:1561302 original size:164 final size:164
Alignment explanation
Indices: 1560977--1561335 Score: 463
Period size: 164 Copynumber: 2.2 Consensus size: 164
1560967 GATTTTCATG
* *
1560977 GATTTAAAATTTTTAAAATTCATTAAATATTATTATTTAATTCATATTAAATCAGTTTTCAAAAT
1 GATTTAAAATTTTTAAAATTCATCAAATATTATTATTTAATTCATATTAAATCAGTTTCCAAAAT
**
1561042 TCATTCATTTTCATGGGTTTTGAATTTTTTCCTTGAAATTCCCCTAGTTTCGAAAAACAGAGTTT
66 TCATTCATTTTCATAAGTTTTGAATTTTTTCCTTGAAATTCCCCTAGTTTCGAAAAACAGAGTTT
* * *
1561107 TCAACTTCATAAATTTTTTCAAGAGGATTTTTCTT
131 TCAACTCCATAAATGTTTTCAAGAAGATTTTT-TT
* ** * * *
1561142 GGTTTTTAA-TTTTAAAAATCATCAAATATTATTATTTTATTCA-ATTAAATTAGTTTCCAAAAA
1 GATTTAAAATTTTTAAAATTCATCAAATATTATTATTTAATTCATATTAAATCAGTTTCC-AAAA
* * **
1561205 TTCATTCATTTTCATAAGTTTTGAATTTTTT-CTTCGAAATTCCCCTATTTTCGAGAAATTGAGT
65 TTCATTCATTTTCATAAGTTTTGAATTTTTTCCTT-GAAATTCCCCTAGTTTCGAAAAACAGAGT
*** * *
1561269 TTTTTGCTCCGTAAATGTTTTCGAGAAGATTTTTTT
129 TTTCAACTCCATAAATGTTTTCAAGAAGATTTTTTT
*
1561305 GATTTAAAATTTTTAAAATTCATCTAATATT
1 GATTTAAAATTTTTAAAATTCATCAAATATT
1561336 GCTATTAAAC
Statistics
Matches: 164, Mismatches: 27, Indels: 7
0.83 0.14 0.04
Matches are distributed among these distances:
163 24 0.15
164 134 0.82
165 6 0.04
ACGTcount: A:0.32, C:0.11, G:0.09, T:0.48
Consensus pattern (164 bp):
GATTTAAAATTTTTAAAATTCATCAAATATTATTATTTAATTCATATTAAATCAGTTTCCAAAAT
TCATTCATTTTCATAAGTTTTGAATTTTTTCCTTGAAATTCCCCTAGTTTCGAAAAACAGAGTTT
TCAACTCCATAAATGTTTTCAAGAAGATTTTTTT
Found at i:1562695 original size:171 final size:167
Alignment explanation
Indices: 1562390--1562696 Score: 382
Period size: 171 Copynumber: 1.8 Consensus size: 167
1562380 TTGGAAAACA
* * *
1562390 TAGGAACTAAATTGCAAAAAACCCAAAAACTTTTCTTTGAATGATCTATGCTTGGCCAAATATTG
1 TAGGAACTAAATTACAAAAAACCCAAAAACTTTTCTTTGAATAATCCATGCTTGGCCAAATATTG
* * * * * ** * * *
1562455 ATGAGGATTTTTGCGATGTTTGGTTGTTGATTCTGAGTTGATTTCATACCTTGATATTTTATTTT
66 ATAAGGATTTTTGCCATGTTTGGCTGCTAATTCTGAACTAATTTCATACCTTGATAGTGTATTTT
1562520 TATGTTATTTGGGATTAAAATGCAAATTTAAAAATTT
131 TATGTTATTTGGGATTAAAATGCAAATTTAAAAATTT
*
1562557 TAGGAACTAAATTACAAAAAAAAACCCAAAAACTTTTCTTT-AAGTAATCCATGCTTGGCCGAAT
1 TAGGAACTAAATTAC---AAAAAACCCAAAAACTTTTCTTTGAA-TAATCCATGCTTGGCCAAAT
* * * * **
1562621 GTTGATAAGGCTTTTTTTCCATGTTTGGCTGCTAATTTTGAACTAATTTCATGTCTTGATAGTGT
62 ATTGATAAGG-ATTTTTGCCATGTTTGGCTGCTAATTCTGAACTAATTTCATACCTTGATAGTGT
1562686 ATTTTTATGTT
126 ATTTTTATGTT
1562697 GTTTTTGTTG
Statistics
Matches: 115, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
167 14 0.12
169 2 0.02
170 48 0.42
171 51 0.44
ACGTcount: A:0.31, C:0.12, G:0.16, T:0.41
Consensus pattern (167 bp):
TAGGAACTAAATTACAAAAAACCCAAAAACTTTTCTTTGAATAATCCATGCTTGGCCAAATATTG
ATAAGGATTTTTGCCATGTTTGGCTGCTAATTCTGAACTAATTTCATACCTTGATAGTGTATTTT
TATGTTATTTGGGATTAAAATGCAAATTTAAAAATTT
Found at i:1563328 original size:167 final size:164
Alignment explanation
Indices: 1562989--1563342 Score: 432
Period size: 167 Copynumber: 2.1 Consensus size: 164
1562979 TATAGAAATA
* **
1562989 TTTAAAAACTTTTCGTATCTTTTCGGGTTTCCATTAAGATAAGAAATGGTATTTTCTGAAAATGA
1 TTTAAAAACTTTTCGTATCTTTTCGGGTTGCCATTAAGATAAGAAATGGTATTTTCTGAAAACAA
* * **
1563054 ATAAATAAATCAAATTAATACTTTCATAATTGAAATAAATATTAATTATTTTTCTTAATCTTTTA
66 ATAAATAAATCAAATCAACACTTTCATAATCCAAATAAATATTAATTATTTTTCTTAATCTTTTA
* * *
1563119 TATTCCTATAGGGGACCGTAGGGGGATAAAAGAT
131 TATTCCTATAGGAGACCATAGGAGGATAAAAGAT
* * *
1563153 TTTAAAAACTTTCCGTATCTTTTCGGGTTGCTATTAAGGTACA-AAATGGTATTTT-TCGAAAAC
1 TTTAAAAACTTTTCGTATCTTTTCGGGTTGCCATTAAGATA-AGAAATGGTATTTTCT-GAAAAC
* *
1563216 AAATAAAATTAAATTAAATCAACACTTTCATAA-CCAAGATAAAT-TTAAATCTTTCTTTTC-TA
64 AAAT-AAA-TAAATCAAATCAACACTTTCATAATCCAA-ATAAATATT-AAT-TAT-TTTTCTTA
* *
1563278 ATCTTTTATATTCCTAT-GGTAGTCCATAGGAGTATAAAAGAT
123 ATCTTTTATATTCCTATAGG-AGACCATAGGAGGATAAAAGAT
1563320 TTTAAAAACTTTTCGTATCTTTT
1 TTTAAAAACTTTTCGTATCTTTT
1563343 TGAAATTCCA
Statistics
Matches: 163, Mismatches: 18, Indels: 15
0.83 0.09 0.08
Matches are distributed among these distances:
163 1 0.01
164 57 0.35
165 8 0.05
166 32 0.20
167 60 0.37
168 5 0.03
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (164 bp):
TTTAAAAACTTTTCGTATCTTTTCGGGTTGCCATTAAGATAAGAAATGGTATTTTCTGAAAACAA
ATAAATAAATCAAATCAACACTTTCATAATCCAAATAAATATTAATTATTTTTCTTAATCTTTTA
TATTCCTATAGGAGACCATAGGAGGATAAAAGAT
Found at i:1563779 original size:156 final size:154
Alignment explanation
Indices: 1563583--1564035 Score: 523
Period size: 156 Copynumber: 2.9 Consensus size: 154
1563573 CCCTTATGTT
* * * *
1563583 TTTAAATCCCTTAGGGGTATCGGGTACTTTCACGTCAAAGGTATCCCCTTGGAGTATTTTCATAA
1 TTTAAATCCCTTAGGGGTATCGAGTACTTTTATGTCAAAGGTATCCCCTTGGAGTATTTTCGTAA
* *
1563648 TTTTTTAGAACCAACTCCTAGGTCATCATCAGGTTCACTTTCATGCCGAAGGTAGATATTTAGGA
66 TTTTTTAGAACCAACTCCTAGGTCATC-TCAGGTTCGCTTTTATGCCGAAGGTAGATATTTAGGA
1563713 TAGGTTCATCCCTTTTAAAATCCTC
130 TAGGTTCATCCCTTTTAAAATCCTC
* ** * * *
1563738 TTTAAATCTCTTAGGGGGTATCGAGTACTTTTATGTCAAAGGTATCCTATAGGGGTATTTTTGTA
1 TTTAAATCCCTTA-GGGGTATCGAGTACTTTTATGTCAAAGGTATCCCCTTGGAGTATTTTCGTA
* * * * *
1563803 ATTTTTTAGAACCAACTTCTAGGTCATCGTCGGGTTTGTTTTTATGCCGAAGGTAGATATTTAGA
65 ATTTTTTAGAACCAACTCCTAGGTCATC-TCAGGTTCGCTTTTATGCCGAAGGTAGATATTTAGG
* ** *
1563868 ATAGGTTCATCCATTTTATGATCCTT
129 ATAGGTTCATCCCTTTTAAAATCCTC
* * * * * ** *
1563894 TTTAAGTCCCTTAAGGGTATCAAATACTTTTATGTCCAAGGTATCCCC-TAAAGGCATTTTCGTA
1 TTTAAATCCCTTAGGGGTATCGAGTACTTTTATGTCAAAGGTATCCCCTTGGA-GTATTTTCGTA
* * * * **
1563958 ATTTTCTAGAACCAACTCCTAGG-CTATCGCTAGGTCCGCTTTTATGCTGAAGGTAGGCATTTAG
65 ATTTTTTAGAACCAACTCCTAGGTC-ATCTC-AGGTTCGCTTTTATGCCGAAGGTAGATATTTAG
1564022 GATAGGTTCATCCC
128 GATAGGTTCATCCC
1564036 ATCTATGATC
Statistics
Matches: 246, Mismatches: 48, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
154 2 0.01
155 112 0.46
156 132 0.54
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (154 bp):
TTTAAATCCCTTAGGGGTATCGAGTACTTTTATGTCAAAGGTATCCCCTTGGAGTATTTTCGTAA
TTTTTTAGAACCAACTCCTAGGTCATCTCAGGTTCGCTTTTATGCCGAAGGTAGATATTTAGGAT
AGGTTCATCCCTTTTAAAATCCTC
Found at i:1564076 original size:155 final size:155
Alignment explanation
Indices: 1563597--1564136 Score: 538
Period size: 155 Copynumber: 3.5 Consensus size: 155
1563587 AATCCCTTAG
* * * * *
1563597 GGGTATCG-GGTACTTTCACGTCAAAGGTATCCCCT-TGGAGTATTTTCATAATTTTTTAGAACC
1 GGGTATCGAGATACTTTTATGTCAAAGGTATCCCCTAAGG-GTATTTTCGTAATTTTTTAGAACC
* * *
1563660 AACTCCTAGGTCATCATCAGGTTCACTTTCATGCCGAAGGTAGATATTTAGGATAGGTTCATCCC
65 AACTCCTAGGTCATCGTCAGGTTCGCTTTTATGCCGAAGGTAGATATTTAGGATAGGTTCATCCC
* ** * * *
1563725 TTTTAAAATCCTCTTTAAATCTCTTA
130 ATTTATGATCCTTTTTAATTCTTTTA
** * *
1563751 GGGGGTATCGAG-TACTTTTATGTCAAAGGTATCCTATAGGGGTATTTTTGTAATTTTTTAGAAC
1 --GGGTATCGAGATACTTTTATGTCAAAGGTATCCCCTAAGGGTATTTTCGTAATTTTTTAGAAC
* * * * *
1563815 CAACTTCTAGGTCATCGTCGGGTTTGTTTTTATGCCGAAGGTAGATATTTAGAATAGGTTCAT-C
64 CAACTCCTAGGTCATCGTCAGGTTCGCTTTTATGCCGAAGGTAGATATTTAGGATAGGTTCATCC
* * *
1563879 CATTTTATGATCCTTTTTAAGTCCCTTAA
129 CA-TTTATGATCCTTTTTAA-TTCTTTTA
* * * * *
1563908 GGGTATC-AAATACTTTTATGTCCAAGGTATCCCCTAAAGGCATTTTCGTAATTTTCTAGAACCA
1 GGGTATCGAGATACTTTTATGTCAAAGGTATCCCCTAAGGGTATTTTCGTAATTTTTTAGAACCA
* * **
1563972 ACTCCTAGG-CTATCG-CTAGGTCCGCTTTTATGCTGAAGGTAGGCATTTAGGATAGGTTCATCC
66 ACTCCTAGGTC-ATCGTC-AGGTTCGCTTTTATGCCGAAGGTAGATATTTAGGATAGGTTCATCC
* *
1564035 CATCTATGAT-CTTTTTATTTCTTTTA
129 CATTTATGATCCTTTTTAATTCTTTTA
* * * * * * * *
1564061 GGGTTACCGGGATACTTTCATATCGAAGGTATACCCTAAGGGTATTTTAGTAATTTTTTAGAGCC
1 GGG-TATCGAGATACTTTTATGTCAAAGGTATCCCCTAAGGGTATTTTCGTAATTTTTTAGAACC
*
1564126 AAGTCCTAGGT
65 AACTCCTAGGT
1564137 TACCAACGAG
Statistics
Matches: 313, Mismatches: 60, Indels: 22
0.79 0.15 0.06
Matches are distributed among these distances:
153 8 0.03
154 13 0.04
155 164 0.52
156 122 0.39
157 6 0.02
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.38
Consensus pattern (155 bp):
GGGTATCGAGATACTTTTATGTCAAAGGTATCCCCTAAGGGTATTTTCGTAATTTTTTAGAACCA
ACTCCTAGGTCATCGTCAGGTTCGCTTTTATGCCGAAGGTAGATATTTAGGATAGGTTCATCCCA
TTTATGATCCTTTTTAATTCTTTTA
Found at i:1567890 original size:13 final size:13
Alignment explanation
Indices: 1567872--1567896 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1567862 TTCAACAATT
1567872 TGTATCGATACAA
1 TGTATCGATACAA
1567885 TGTATCGATACA
1 TGTATCGATACA
1567897 TAAGTGTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1572524 original size:107 final size:107
Alignment explanation
Indices: 1572289--1572597 Score: 388
Period size: 107 Copynumber: 2.9 Consensus size: 107
1572279 TCGAAAGCTC
* * *
1572289 CAACAAGCACGAACAGTAGCTCCACAAAGTACCCGAAACCAGCAGCTTCAACAAGCAGTAGCTTC
1 CAACAAGCACGAACAGTAGCTCCACAAAGCACCCGAAACCAGCAGCTCCAACAAGCAGCAGCTTC
* ** * *
1572354 CACGGCAGC-ACGACAGCAACTTTAACAAGCCGCAGCTTTCG
66 CACGGCAGCAACGACAGCAGCTCCAACAAGCCACAACTTTCG
* ** * *
1572395 CAACAAGCACAAACAACAGCTCCATAAAGCACCCAAAACCAGCAGCTCCAACAAGCAGCAGCTTC
1 CAACAAGCACGAACAGTAGCTCCACAAAGCACCCGAAACCAGCAGCTCCAACAAGCAGCAGCTTC
* * *
1572460 CACAGTAGCAATGACAGCAGCTCCAACAAGCCACAAC-TTCTG
66 CACGGCAGCAACGACAGCAGCTCCAACAAGCCACAACTTTC-G
* * * *
1572502 CAACAAGCATGAATAGTAGCTCCACAAAACACTCGAAACCAGCAGCTCCAACAAGCAGCAGCTTC
1 CAACAAGCACGAACAGTAGCTCCACAAAGCACCCGAAACCAGCAGCTCCAACAAGCAGCAGCTTC
* * *
1572567 CACGGCAACAACAACAGTAGCTCCAACAAGC
66 CACGGCAGCAACGACAGCAGCTCCAACAAGC
1572598 ACGAATAACA
Statistics
Matches: 170, Mismatches: 31, Indels: 3
0.83 0.15 0.01
Matches are distributed among these distances:
106 67 0.39
107 103 0.61
ACGTcount: A:0.39, C:0.34, G:0.16, T:0.11
Consensus pattern (107 bp):
CAACAAGCACGAACAGTAGCTCCACAAAGCACCCGAAACCAGCAGCTCCAACAAGCAGCAGCTTC
CACGGCAGCAACGACAGCAGCTCCAACAAGCCACAACTTTCG
Found at i:1575522 original size:19 final size:19
Alignment explanation
Indices: 1575478--1575516 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
1575468 AAAAGACTAG
* *
1575478 AACTTTGCTTAATTTTCCT
1 AACTTTCCTTAATTTGCCT
1575497 AACTTTCCTTAATTTGCCT
1 AACTTTCCTTAATTTGCCT
1575516 A
1 A
1575517 TTTTTCTCTC
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:0.23, C:0.23, G:0.05, T:0.49
Consensus pattern (19 bp):
AACTTTCCTTAATTTGCCT
Found at i:1576823 original size:167 final size:166
Alignment explanation
Indices: 1576503--1576977 Score: 501
Period size: 167 Copynumber: 2.9 Consensus size: 166
1576493 AAAATTCATG
*
1576503 AAATAAATTGAATTTTTCAAAACTAATTT-AATGAGAGTTTAATGATAATATTAGATGAATTATA
1 AAATAAA-TGAATTTTTCAAAACTAATTTAAATG-GAGTCTAATGATAATATTAGATGAATTATA
* * ** **
1576567 AAAATTTTAAACAAAAAAAATCCTCTTGAAAACATTTCTGGAATAGAAAATTTGGTTTTCCGGAA
64 AAAATTTTAAACAAAAAAAATCCTCTAGAAAACATTTATGGAATAGAAAATTCAGTTTTCCAAAA
** * * *
1576632 ATAGGGGCATTTCAAGGAAAAAAATGAAAAACTTATGA
129 ATAGAAGAATTTCAAGAAAAAAAATAAAAAACTTATGA
* * * *
1576670 AAATAAATGAATTTTTCAAAACGAATTTAAATGGAGTCTAATGATGATGTTAGATGAATTTTAAA
1 AAATAAATGAATTTTTCAAAACTAATTTAAATGGAGTCTAATGATAATATTAGATGAATTATAAA
* * * * *
1576735 AATTTTATATCGAGAAAAAT-CTCTCAGAAACCATTTATGGAATAGAAAATTCAGTTTTTCAAAA
66 AATTTTA-AACAAAAAAAATCCTCT-AGAAAACATTTATGGAATAGAAAATTCAGTTTTCCAAAA
*
1576799 ATATAAGAATTTCAAGAAAAAAAATAAAAAACTTATGA
129 ATAGAAGAATTTCAAGAAAAAAAATAAAAAACTTATGA
* *
1576837 AAATAAATGAATTTTTCAAAACTAATTTAAAGGGAGTCTAATG-----A-CA-ATG--TT-TAAA
1 AAATAAATGAATTTTTCAAAACTAATTTAAATGGAGTCTAATGATAATATTAGATGAATTATAAA
* * * * **
1576892 AATTTTAAATCAAGAAAAATCTCCCT-GAAAACATTTATAGAATAGAAAACTCAGTTTT-CAGGA
66 AATTTTAAA-CAAAAAAAATC-CTCTAGAAAACATTTATGGAATAGAAAATTCAGTTTTCCAAAA
* *
1576955 ATAGAGGAATTTTAAAGAAAAAA
129 ATAGAAGAA-TTTCAAGAAAAAA
1576978 CCCATGAAAA
Statistics
Matches: 264, Mismatches: 37, Indels: 24
0.81 0.11 0.07
Matches are distributed among these distances:
156 11 0.04
157 61 0.23
158 2 0.01
159 3 0.01
160 3 0.01
161 1 0.00
166 59 0.22
167 124 0.47
ACGTcount: A:0.48, C:0.08, G:0.13, T:0.31
Consensus pattern (166 bp):
AAATAAATGAATTTTTCAAAACTAATTTAAATGGAGTCTAATGATAATATTAGATGAATTATAAA
AATTTTAAACAAAAAAAATCCTCTAGAAAACATTTATGGAATAGAAAATTCAGTTTTCCAAAAAT
AGAAGAATTTCAAGAAAAAAAATAAAAAACTTATGA
Found at i:1578289 original size:45 final size:44
Alignment explanation
Indices: 1578239--1578328 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 44
1578229 AGGCTAAATC
1578239 GATACAATCAAATGAGAACA-AAAAGGGTTTAACCAGGGTGGTAAT
1 GATACAATCAAAT-A-AACAGAAAAGGGTTTAACCAGGGTGGTAAT
* * *
1578284 GATACAGTCAAATAAAGATGAAAAGGGTTTGACCAGGGTGGTAAT
1 GATACAATCAAATAAACA-GAAAAGGGTTTAACCAGGGTGGTAAT
1578329 CAATATAGTC
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
43 3 0.08
44 1 0.03
45 36 0.90
ACGTcount: A:0.42, C:0.10, G:0.27, T:0.21
Consensus pattern (44 bp):
GATACAATCAAATAAACAGAAAAGGGTTTAACCAGGGTGGTAAT
Found at i:1578359 original size:46 final size:45
Alignment explanation
Indices: 1578259--1578366 Score: 137
Period size: 46 Copynumber: 2.4 Consensus size: 45
1578249 AATGAGAACA
* * *
1578259 AAAAGGGTTTAACCAGGGTGGTAATGATACAGTCAAATAAAGATG
1 AAAAGGGTTTGACCAGGGTGGTAATAATACAGTCAAAGAAAGATG
* *
1578304 AAAAGGGTTTGACCAGGGTGGTAATCAATATAGTCAAACGAACG-TG
1 AAAAGGGTTTGACCAGGGTGGTAAT-AATACAGTCAAA-GAAAGATG
*
1578350 AAAATGGTTTGACCAGG
1 AAAAGGGTTTGACCAGG
1578367 TCTTATCGCC
Statistics
Matches: 55, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
45 24 0.44
46 28 0.51
47 3 0.05
ACGTcount: A:0.39, C:0.11, G:0.28, T:0.22
Consensus pattern (45 bp):
AAAAGGGTTTGACCAGGGTGGTAATAATACAGTCAAAGAAAGATG
Found at i:1578493 original size:93 final size:95
Alignment explanation
Indices: 1578396--1578669 Score: 222
Period size: 94 Copynumber: 2.9 Consensus size: 95
1578386 AAATGAGGGT
* * * * *
1578396 AAAAAGGGTTTGACTAGGTCCTAACACCAATATAGTCAAATGATGG-TG-GAAAAGTTTGACTAG
1 AAAAAGAGTTTAACTAGGTCCTAACACCAATACAATCAAAT-AAGGATGAGAAAAGTTTGACTAG
*
1578459 GAC-TAAAGCC-ATCACAACCAAATAAAGGTA
65 GACTTAAAGCCAAT-ACAACCAAAGAAAGGTA
* ** * *
1578489 AAAAATAGTTTAACTAGGTCCTAATTCCAATACAATCAAATAAGGATGAGAAGAGTTTGAGTAGG
1 AAAAAGAGTTTAACTAGGTCCTAACACCAATACAATCAAATAAGGATGAGAAAAGTTTGACTAGG
* *
1578554 CCTTAATGCCAATACAACCAAAGAAAGGT-
66 ACTTAAAGCCAATACAACCAAAGAAAGGTA
* * * ** * * *
1578583 AAAAAGAGCTTGACCAGGAT--TAACACCAATACAGCCAAATAAAGG-TAAAAAAAAGTTTGACA
1 AAAAAGAGTTTAACTAGG-TCCTAACACCAATACAATCAAAT-AAGGAT-GAGAAAAGTTTGACT
* * * *
1578645 AGGTCCTAACGCCAATACAATCAAA
63 AGGACTTAAAGCCAATACAACCAAA
1578670 TGAGAGTAAA
Statistics
Matches: 144, Mismatches: 30, Indels: 13
0.77 0.16 0.07
Matches are distributed among these distances:
92 3 0.02
93 53 0.37
94 64 0.44
95 22 0.15
96 2 0.01
ACGTcount: A:0.45, C:0.17, G:0.18, T:0.20
Consensus pattern (95 bp):
AAAAAGAGTTTAACTAGGTCCTAACACCAATACAATCAAATAAGGATGAGAAAAGTTTGACTAGG
ACTTAAAGCCAATACAACCAAAGAAAGGTA
Found at i:1578590 original size:47 final size:48
Alignment explanation
Indices: 1578396--1578788 Score: 193
Period size: 48 Copynumber: 8.4 Consensus size: 48
1578386 AAATGAGGGT
* * * ** * *
1578396 AAAAAGGGTTTGACTAGGTCCTAACACCAATATAGTCAAATGATGGT-
1 AAAAAGAGTTTGACTAGGTCCTAACGCCAATACAACCAAATAAAGGTA
** * *
1578443 GGAAA-AGTTTGACTAGG-ACTAAAGCC-ATCACAACCAAATAAAGGTA
1 AAAAAGAGTTTGACTAGGTCCTAACGCCAAT-ACAACCAAATAAAGGTA
* * ** *
1578489 AAAAATAGTTTAACTAGGTCCTAATTCCAATACAATCAAAT-AAGG-A
1 AAAAAGAGTTTGACTAGGTCCTAACGCCAATACAACCAAATAAAGGTA
* * * * *
1578535 TGAGAAGAGTTTGAGTAGG-CCTTAATGCCAATACAACCAAAGAAAGGT-
1 -AAAAAGAGTTTGACTAGGTCC-TAACGCCAATACAACCAAATAAAGGTA
* * * *
1578583 AAAAAGAGCTTGACCAGGAT--TAACACCAATACAGCCAAATAAAGGTA
1 AAAAAGAGTTTGACTAGG-TCCTAACGCCAATACAACCAAATAAAGGTA
* * * *
1578630 AAAAAAAGTTTGACAAGGTCCTAACGCCAATACAATCAAAT-GAGAGTA
1 AAAAAGAGTTTGACTAGGTCCTAACGCCAATACAACCAAATAAAG-GTA
*** * * * * *** *
1578678 AATTTGAGTTTGACCAGGTCTTAATGCTAATACAGTGAAA-CAAGAGTA
1 AAAAAGAGTTTGACTAGGTCCTAACGCCAATACAACCAAATAAAG-GTA
*** * * * * **
1578726 AATTTGAGTTTGACTAGGTCTTAATGCTAATACAATCAAATATCGGT-
1 AAAAAGAGTTTGACTAGGTCCTAACGCCAATACAACCAAATAAAGGTA
1578773 AAAAAG-GTTTGACTAG
1 AAAAAGAGTTTGACTAG
1578789 ACCCCAATGC
Statistics
Matches: 267, Mismatches: 62, Indels: 35
0.73 0.17 0.10
Matches are distributed among these distances:
44 2 0.01
45 17 0.06
46 50 0.19
47 81 0.30
48 114 0.43
49 3 0.01
ACGTcount: A:0.42, C:0.15, G:0.19, T:0.24
Consensus pattern (48 bp):
AAAAAGAGTTTGACTAGGTCCTAACGCCAATACAACCAAATAAAGGTA
Found at i:1581378 original size:22 final size:24
Alignment explanation
Indices: 1581353--1581397 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 24
1581343 TGATTATATG
1581353 TTAACGTTAAT-TTTGA-ATTTAT
1 TTAACGTTAATATTTGATATTTAT
**
1581375 TTAATTTTAATATTTGATATTTA
1 TTAACGTTAATATTTGATATTTA
1581398 ATTATAATCT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 9 0.47
23 5 0.26
24 5 0.26
ACGTcount: A:0.33, C:0.02, G:0.07, T:0.58
Consensus pattern (24 bp):
TTAACGTTAATATTTGATATTTAT
Found at i:1582525 original size:155 final size:156
Alignment explanation
Indices: 1582120--1582712 Score: 622
Period size: 156 Copynumber: 3.8 Consensus size: 156
1582110 ATGCCCCTGT
* * * * *
1582120 GGGATACCTTT-GACATCAAAGTA-CTCGATACCACTAAAGGGCTTAAAAAGGATTATAGATA-G
1 GGGATA-CTTTCGACATGAAAGTATCTCGGTACCACTAAAGGACTTAAAAAGGACTATA-AAAGG
* * * ** * *
1582182 GATGAACCTATCCTAAATACCCACCTTCAGCATAAAAGCGAACTCGGTGACAACAAAGAACTCGA
64 GATGAACCTATCCTAAATACCCACCTTCAGCATAAAAGTGGACTCGGTGATAACCTAGGACTTGA
* * * * * *
1582247 TTTTGAAAACTTATGAAAATACCCCTAG
129 TTCTAAAAAATTACGAAAATACCTCAAG
* * * ** * *
1582275 GAGATATTTTTGATGTGAAAGTATCTTGGTACCCCTAAAGGACTTAAAAAGGACTATAAAAGGGA
1 GGGATACTTTCGACATGAAAGTATCTCGGTACCACTAAAGGACTTAAAAAGGACTATAAAAGGGA
** *
1582340 TGAACCTATCCTAAATACCCACCTTTGGCATAAAAGTGGACTCGATGATAACCTAGGACTTGATT
66 TGAACCTATCCTAAATACCCACCTTCAGCATAAAAGTGGACTCGGTGATAACCTAGGACTTGATT
*
1582405 CTAAAAAATTACGAAAATTCCTCAAG
131 CTAAAAAATTACGAAAATACCTCAAG
* *
1582431 GGGATACTTTCGACGTGAAAGTATCTCGGTACC-TTAAAGGACTTAAAAAGGACTATAAAAGGGA
1 GGGATACTTTCGACATGAAAGTATCTCGGTACCACTAAAGGACTTAAAAAGGACTATAAAAGGGA
* * * *
1582495 TGAACCTATCCTAAATATCCACCTTCGGCATAAAA-TCAGACTCGGTGATAACCTAAGACTTGAT
66 TGAACCTATCCTAAATACCCACCTTCAGCATAAAAGT-GGACTCGGTGATAACCTAGGACTTGAT
* * *
1582559 TCTAAAAAATTACAAAAATGCCCTTAA-
130 TCTAAAAAATTACGAAAAT-ACCTCAAG
* * * ** * * * *
1582586 GGGATACCTTCGGCATGAAAGTATCCCGGTACCGTTAAAGGATTTAAAAGGGATTATAAAAGGAA
1 GGGATACTTTCGACATGAAAGTATCTCGGTACCACTAAAGGACTTAAAAAGGACTATAAAAGGGA
* * * * * * *
1582651 TGACCCTATCTTAAATACCCATCTTCAGCATAAAACTGGACCCGGTGGTTACCTAGGACTTG
66 TGAACCTATCCTAAATACCCACCTTCAGCATAAAAGTGGACTCGGTGATAACCTAGGACTTG
1582713 GTTTCATAAC
Statistics
Matches: 371, Mismatches: 60, Indels: 13
0.84 0.14 0.03
Matches are distributed among these distances:
154 4 0.01
155 150 0.40
156 216 0.58
157 1 0.00
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.25
Consensus pattern (156 bp):
GGGATACTTTCGACATGAAAGTATCTCGGTACCACTAAAGGACTTAAAAAGGACTATAAAAGGGA
TGAACCTATCCTAAATACCCACCTTCAGCATAAAAGTGGACTCGGTGATAACCTAGGACTTGATT
CTAAAAAATTACGAAAATACCTCAAG
Found at i:1582684 original size:311 final size:311
Alignment explanation
Indices: 1582120--1582712 Score: 694
Period size: 311 Copynumber: 1.9 Consensus size: 311
1582110 ATGCCCCTGT
* * *
1582120 GGGATACCTTTGACATCAAAGTACTCGATACCACTAAAGGGCTTAAAAAGGATTATAGATAGGAT
1 GGGATACCTTTGACATCAAAGTACTCGATACCACTAAAGGACTTAAAAAGGACTATAGAAAGGAT
*
1582185 GAACCTATCCTAAATACCCACCTTCAGCATAAAAGCGAACTCGGTGACAACAAAGAACTCGATTT
66 GAACCTATCCTAAATACCCACCTTCAGCATAAAAGCGAACTCGGTGACAACAAAGAACTCGATTC
* * ** ** * ** **
1582250 TGAAAACTTATGAAAATACCCCTAGGAGATATTTTTGATGTGAAAGTATCTTGGTACCCCTAAAG
131 TAAAAAATTACAAAAATACCCCTAGGAGATACCTTCGACATGAAAGTATCCCGGTACCCCTAAAG
* ** *
1582315 GACTTAAAAAGGACTATAAAAGGGATGAACCTATCCTAAATACCCACCTTTGGCATAAAAGTGGA
196 GACTTAAAAAGGACTATAAAAGGAATGAACCTATCCTAAATACCCACCTTCAGCATAAAACTGGA
*
1582380 CTCGATGATAACCTAGGACTTGATTCTAAAAAATTACGAAAATTCCTCAAG
261 CCCGATGATAACCTAGGACTTGATTCTAAAAAATTACGAAAATTCCTCAAG
* * * *
1582431 GGGATA-CTTTCGACGTGAAAGTATCTCGGTACC-TTAAAGGACTTAAAAAGGACTATA-AAAGG
1 GGGATACCTTT-GACATCAAAGTA-CTCGATACCACTAAAGGACTTAAAAAGGACTATAGAAA-G
* * * * * *
1582493 GATGAACCTATCCTAAATATCCACCTTCGGCATAAAATC-AGACTCGGTGATAACCTAAG-ACTT
63 GATGAACCTATCCTAAATACCCACCTTCAGCATAAAAGCGA-ACTCGGTGACAA-CAAAGAACTC
* * * *
1582556 GATTCTAAAAAATTACAAAAATGCCCTTAAGG-GATACCTTCGGCATGAAAGTATCCCGGTACCG
126 GATTCTAAAAAATTACAAAAATACCCCT-AGGAGATACCTTCGACATGAAAGTATCCCGGTACCC
* * * * * * *
1582620 TTAAAGGATTTAAAAGGGATTATAAAAGGAATGACCCTATCTTAAATACCCATCTTCAGCATAAA
190 CTAAAGGACTTAAAAAGGACTATAAAAGGAATGAACCTATCCTAAATACCCACCTTCAGCATAAA
* * *
1582685 ACTGGACCCGGTGGTTACCTAGGACTTG
255 ACTGGACCCGATGATAACCTAGGACTTG
1582713 GTTTCATAAC
Statistics
Matches: 232, Mismatches: 44, Indels: 12
0.81 0.15 0.04
Matches are distributed among these distances:
310 7 0.03
311 210 0.91
312 15 0.06
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.25
Consensus pattern (311 bp):
GGGATACCTTTGACATCAAAGTACTCGATACCACTAAAGGACTTAAAAAGGACTATAGAAAGGAT
GAACCTATCCTAAATACCCACCTTCAGCATAAAAGCGAACTCGGTGACAACAAAGAACTCGATTC
TAAAAAATTACAAAAATACCCCTAGGAGATACCTTCGACATGAAAGTATCCCGGTACCCCTAAAG
GACTTAAAAAGGACTATAAAAGGAATGAACCTATCCTAAATACCCACCTTCAGCATAAAACTGGA
CCCGATGATAACCTAGGACTTGATTCTAAAAAATTACGAAAATTCCTCAAG
Found at i:1583213 original size:20 final size:20
Alignment explanation
Indices: 1583168--1583219 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
1583158 GTAGCCAAAC
* **
1583168 TTGTATCGATACACCAAGTA
1 TTGTATCGATACACAAAAAA
1583188 -TGTATCGATACACAAAAAA
1 TTGTATCGATACACAAAAAA
1583207 TTGTATCGATACA
1 TTGTATCGATACA
1583220 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 16 0.57
20 12 0.43
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.29
Consensus pattern (20 bp):
TTGTATCGATACACAAAAAA
Found at i:1588497 original size:52 final size:52
Alignment explanation
Indices: 1588412--1588536 Score: 223
Period size: 52 Copynumber: 2.4 Consensus size: 52
1588402 ATATGAAAAG
* *
1588412 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
*
1588464 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
1588516 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
1588537 AAGATCAGTG
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
Found at i:1588549 original size:52 final size:51
Alignment explanation
Indices: 1588412--1588556 Score: 211
Period size: 52 Copynumber: 2.8 Consensus size: 51
1588402 ATATGAAAAG
*
1588412 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
* *
1588464 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
*
1588516 TTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
1588557 ATGTATCGAT
Statistics
Matches: 85, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
51 2 0.02
52 83 0.98
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAAT
Found at i:1588563 original size:13 final size:13
Alignment explanation
Indices: 1588545--1588569 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1588535 CAAAGATCAG
1588545 TGTATCGATACAA
1 TGTATCGATACAA
1588558 TGTATCGATACA
1 TGTATCGATACA
1588570 TTTTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1588633 original size:13 final size:13
Alignment explanation
Indices: 1588615--1588639 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1588605 AAAAAAAATA
1588615 TGTATCGATACAT
1 TGTATCGATACAT
1588628 TGTATCGATACA
1 TGTATCGATACA
1588640 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1589572 original size:67 final size:68
Alignment explanation
Indices: 1589450--1589576 Score: 184
Period size: 67 Copynumber: 1.9 Consensus size: 68
1589440 ATTGGGTTTT
* * *
1589450 AAAGATGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATG
1 AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGAAGATG
1589515 AGA
66 AGA
* * * *
1589518 AAAG-TGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGA
1 AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGA
1589577 CGAAAAAGGA
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
67 48 0.92
68 4 0.08
ACGTcount: A:0.39, C:0.12, G:0.25, T:0.24
Consensus pattern (68 bp):
AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGAAGATG
AGA
Found at i:1589707 original size:49 final size:49
Alignment explanation
Indices: 1589590--1590411 Score: 1084
Period size: 49 Copynumber: 16.7 Consensus size: 49
1589580 AAAAGGATGT
*
1589590 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGC
* * *
1589642 CGATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
1589691 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
1589740 CAATATGCTGATTCAAGGCCAGCTATA-TGGACTTAATGGTGCAA-GTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG-AAGGTGC
* * *
1589788 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAAGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * * * *
1589837 CAATATACTGATTCAAGGCCAGCTATATTGGGCTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
1589886 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGC
* * *
1589938 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGC
* *
1589990 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
1590033 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
1590082 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
1590131 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
1590180 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
1590229 CAATGTGCTGAGTCAAGGCCAGCTACATTGGTCTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * * *
1590278 CAATATGCTGATTCAAGGCCAGCTATATTGGGCTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
1590327 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
1590376 CAATATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
1590412 GAAGGGTTGC
Statistics
Matches: 685, Mismatches: 73, Indels: 27
0.87 0.09 0.03
Matches are distributed among these distances:
43 40 0.06
47 1 0.00
48 41 0.06
49 474 0.69
50 1 0.00
51 1 0.00
52 127 0.19
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
Found at i:1590455 original size:33 final size:32
Alignment explanation
Indices: 1590404--1590505 Score: 147
Period size: 33 Copynumber: 3.2 Consensus size: 32
1590394 CCAGCTATAT
1590404 TGGGCTT--AGAAGGGTTGCCACCGACTTGTG
1 TGGGCTTGGAGAAGGGTTGCCACCGACTTGTG
* *
1590434 TGGGCTTGAGAGAATGGTTGCCACCAACTTGTG
1 TGGGCTTG-GAGAAGGGTTGCCACCGACTTGTG
1590467 TGGGCTTTGG-GAAGGGTTGCCACCGACTTGTG
1 TGGGC-TTGGAGAAGGGTTGCCACCGACTTGTG
1590499 TGGGCTT
1 TGGGCTT
1590506 TAGGAAGAGA
Statistics
Matches: 64, Mismatches: 4, Indels: 7
0.85 0.05 0.09
Matches are distributed among these distances:
30 7 0.11
31 2 0.03
32 25 0.39
33 27 0.42
34 3 0.05
ACGTcount: A:0.16, C:0.19, G:0.37, T:0.28
Consensus pattern (32 bp):
TGGGCTTGGAGAAGGGTTGCCACCGACTTGTG
Found at i:1590490 original size:32 final size:32
Alignment explanation
Indices: 1590412--1590512 Score: 150
Period size: 32 Copynumber: 3.1 Consensus size: 32
1590402 ATTGGGCTTA
1590412 GAAGGGTTGCCACCGACTTGTGTGGGC-TTGAG
1 GAAGGGTTGCCACCGACTTGTGTGGGCTTTG-G
* *
1590444 AGAATGGTTGCCACCAACTTGTGTGGGCTTTGG
1 -GAAGGGTTGCCACCGACTTGTGTGGGCTTTGG
*
1590477 GAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 GAAGGGTTGCCACCGACTTGTGTGGGCTTTGG
1590509 GAAG
1 GAAG
1590513 AGAGAAAGAT
Statistics
Matches: 62, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
32 33 0.53
33 26 0.42
34 3 0.05
ACGTcount: A:0.18, C:0.18, G:0.38, T:0.27
Consensus pattern (32 bp):
GAAGGGTTGCCACCGACTTGTGTGGGCTTTGG
Found at i:1590625 original size:34 final size:32
Alignment explanation
Indices: 1590517--1591344 Score: 549
Period size: 34 Copynumber: 25.6 Consensus size: 32
1590507 AGGAAGAGAG
* *
1590517 AAAGATGCCACGGAGTTGTGGACTTAAAAGGGAAA
1 AAAG-TGCCACGGAGTTGTGGGCTT-AAA-TGAAA
1590552 AAGAGTGCCACGGAGTTGTGGGCTTTAAA--AAA
1 AA-AGTGCCACGGAGTTGTGGGC-TTAAATGAAA
* *
1590584 AAGGTGCCACGGAGTTGTGGACTTGAAGATGAAA
1 AAAGTGCCACGGAGTTGTGGGCTT-AA-ATGAAA
1590618 AAAGTGCCACGGAGTTGTGGGC-T---T-AAA
1 AAAGTGCCACGGAGTTGTGGGCTTAAATGAAA
** *
1590645 AGGGTGCCACGGAGTTGTGGGCTTAGAAGGAAA
1 AAAGTGCCACGGAGTTGTGGGCTTA-AATGAAA
1590678 AAGAGTGCCACGGAGTTGTGGGCTT---T-AAA
1 AA-AGTGCCACGGAGTTGTGGGCTTAAATGAAA
*
1590707 AAGAGTGCCACGGAGTCGTGGGCTT---T-AAA
1 AA-AGTGCCACGGAGTTGTGGGCTTAAATGAAA
* * *
1590736 AAGAGTGCCACGGAGTCGTGGGCTTTGAAAAGAAG
1 AA-AGTGCCACGGAGTTGTGGGC-TT-AAATGAAA
* ** * *
1590771 AAGGTGCCACAAAGTTGTGGGCTTTGAAAAGAAG
1 AAAGTGCCACGGAGTTGTGGGC-TT-AAATGAAA
*
1590805 AAGGTGCCACGGAGTTGTGGGCTT---T--AA
1 AAAGTGCCACGGAGTTGTGGGCTTAAATGAAA
* * *
1590832 AGAGTGCCACGGAGTCGTGGGCTTTGAAAAGGGTAAA
1 AAAGTGCCACGGAGTTGTGGGC-TT--AAA-TG-AAA
*
1590869 AGAGTGCCACGGAGTTGTGGGCTTTAAATAGAAA
1 AAAGTGCCACGGAGTTGTGGGC-TTAAAT-GAAA
*
1590903 AAAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAA
1 AAAGTGCCACGGAGTTGTGGGC-TT-AAATGAAA
* *
1590937 AAGGTGCCACGGAGTTGTGGGCTTAAACG---
1 AAAGTGCCACGGAGTTGTGGGCTTAAATGAAA
* *
1590966 --GGTGCCACGGAGTTGTGGACTTAAAGATGAAA
1 AAAGTGCCACGGAGTTGTGGGCTT-AA-ATGAAA
* *
1590998 AAAGTGCCACAGAATTGTGGGCTT---T-AAA
1 AAAGTGCCACGGAGTTGTGGGCTTAAATGAAA
** *
1591026 AGGGTGCCACGGAGTTGTGGACTTAAAGATGAAA
1 AAAGTGCCACGGAGTTGTGGGCTT-AA-ATGAAA
*
1591060 AAAGTGCCACGGAATTGTGGGCTT---T-AAA
1 AAAGTGCCACGGAGTTGTGGGCTTAAATGAAA
** *
1591088 AGGGTGCCACGGAGTTGTGGACTTAAAGATGAAA
1 AAAGTGCCACGGAGTTGTGGGCTT-AA-ATGAAA
* * *
1591122 AAAGTGCCACGGAATTGTGGGCTTTAAAAGGGAA
1 AAAGTGCCACGGAGTTGTGGGC-TT-AAATGAAA
* * *
1591156 AAGGTGCCATGGAGTTGTGGGCTTTGAAAAGGGAAA
1 AAAGTGCCACGGAGTTGTGGGC-TT--AAA-TGAAA
* *
1591192 AAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGAAA
1 AA-AGTGCCACGGAGTTGTGGGC-TT-AAATGAAA
* *
1591227 AAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAG
1 AAA-GTGCCACGGAGTTGTGGGC-TT-AAATGAAA
* *
1591262 AAGGTGCCACGGAGTTGTGGGCTTTAAA-GGAA
1 AAAGTGCCACGGAGTTGTGGGC-TTAAATGAAA
* *
1591294 AAGGTGCCACGGAGTTGTGGGCTTTGAA-GAAA
1 AAAGTGCCACGGAGTTGTGGGC-TTAAATGAAA
* *
1591326 AAA-TGCCACTGAGTCGTGG
1 AAAGTGCCACGGAGTTGTGG
1591345 ATTTTGAGAC
Statistics
Matches: 662, Mismatches: 76, Indels: 114
0.78 0.09 0.13
Matches are distributed among these distances:
27 64 0.10
28 51 0.08
29 58 0.09
30 4 0.01
31 34 0.05
32 44 0.07
33 14 0.02
34 255 0.39
35 78 0.12
36 14 0.02
37 46 0.07
ACGTcount: A:0.32, C:0.13, G:0.34, T:0.21
Consensus pattern (32 bp):
AAAGTGCCACGGAGTTGTGGGCTTAAATGAAA
Found at i:1590919 original size:132 final size:129
Alignment explanation
Indices: 1590497--1591411 Score: 811
Period size: 132 Copynumber: 7.1 Consensus size: 129
1590487 CACCGACTTG
* * *
1590497 TGTGGGCTTTAGGAAGAGAGAAAGATGCCACGGAGTTGTGGAC-TT-AAAAGGGAAAAAGAGTGC
1 TGTGGGCTTTA--AA-AGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAA--GAAAAAG-GTGC
* * * *
1590560 CACGGAGTTGTGGGCTTTAAAAAAAAGGTGCCACGGAGTTGTGGAC-TTGAAGATGAAAAAAGTG
60 CACGGAGTTGTGGGCTTT--AAAAGA-GTGCCACGGAGTTGTGGGCTTTAAAGAT-AAAAGAGTG
1590624 CCACGGAGT
121 CCACGGAGT
* *
1590633 TGTGGGC-TTAAAAG-----GGTGCCACGGAGTTGTGGGCTTAG-AAGGAAAAAGAGTGCCACGG
1 TGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAG-GTGCCACGG
*
1590691 AGTTGTGGGCTTTAAAAAGAGTGCCACGGAGTCGTGGGCTTT----A-AAAAGAGTGCCACGGAG
65 AGTTGTGGGCTTT-AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAGATAAAAGAGTGCCACGGAG
1590751 T
129 T
* * ** *
1590752 CGTGGGCTTTGAAAAGAAGAAGGTGCCACAAAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGG
1 TGTGGGCTTT-AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACGG
* *
1590817 AGTTGTGGGCTTT-AAAGAGTGCCACGGAGTCGTGGGCTTTGAAAAGGGTAAAAGAGTGCCACGG
65 AGTTGTGGGCTTTAAAAGAGTGCCACGGAGTTGTGGGCTTT--AAA-GATAAAAGAGTGCCACGG
1590881 AGT
127 AGT
* *
1590884 TGTGGGCTTTAAATAGAAAAAAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGG
1 TGTGGGCTTTAAA-AGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACGG
* * * * * *
1590949 AGTTGTGGGC-TTAAACGGGTGCCACGGAGTTGTGGAC-TTAAAGATGAAAAAAGTGCCACAGAA
65 AGTTGTGGGCTTTAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAGAT-AAAAGAGTGCCACGGAG
1591012 T
129 T
* *
1591013 TGTGGGCTTTAAAAG-----GGTGCCACGGAGTTGTGGAC-TT-AAAGATGAAAAAAGTGCCACG
1 TGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAA-A-GAAAAAGGTGCCACG
* * * *
1591071 GAATTGTGGGCTTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAGATGAAAAAAGTGCCACGGA
64 GAGTTGTGGGCTTTAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAGAT-AAAAGAGTGCCACGGA
*
1591135 AT
128 GT
* *
1591137 TGTGGGCTTTAAAAGGGAAAAGGTGCCATGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCA
1 TGTGGGCTTTAAAA-GAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAA--GAAAAAG-GTGCCA
* *
1591202 CAGAGTTGTGGGCTTTAAAAAGAAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGA-AGAAG-
62 CGGAGTTGTGGGCTTT-AAAAG-----A-GTGCCACGGAGTTGTGGGCTTT--AAAGATAAAAGA
1591265 GTGCCACGGAGT
118 GTGCCACGGAGT
* * *
1591277 TGTGGGCTTT-AAAGGAAAAGGTGCCACGGAGTTGTGGGCTTTG--AAGAAAAA-ATGCCACTGA
1 TGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACGGA
* ** * * * * *
1591338 GTCGTGGATTTTGAGACAA-AATGCCACTGAGTCGTGGACTTTAAAGA-AAAAGA-TGCCACTGA
66 GTTGTGGGCTTT-A-A-AAGAGTGCCACGGAGTTGTGGGCTTTAAAGATAAAAGAGTGCCACGGA
1591400 GT
128 GT
* *
1591402 CGTGGACTTT
1 TGTGGGCTTT
1591412 GAGCAGAGAT
Statistics
Matches: 669, Mismatches: 62, Indels: 107
0.80 0.07 0.13
Matches are distributed among these distances:
119 23 0.03
120 2 0.00
121 9 0.01
122 3 0.00
123 42 0.06
124 110 0.16
125 36 0.05
126 73 0.11
127 44 0.07
128 8 0.01
129 31 0.05
130 18 0.03
131 10 0.01
132 131 0.20
133 23 0.03
134 13 0.02
135 3 0.00
136 9 0.01
138 29 0.04
139 3 0.00
140 39 0.06
141 5 0.01
143 5 0.01
ACGTcount: A:0.32, C:0.13, G:0.34, T:0.22
Consensus pattern (129 bp):
TGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACGGA
GTTGTGGGCTTTAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAGATAAAAGAGTGCCACGGAGT
Found at i:1591025 original size:62 final size:61
Alignment explanation
Indices: 1590522--1591344 Score: 725
Period size: 62 Copynumber: 12.8 Consensus size: 61
1590512 GAGAGAAAGA
* * *
1590522 TGCCACGGAGTTGTGGACTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAAAAG
1 TGCCACGGAGTTGTGGGCTTAAAA-TGAAAAA-AGTGCCACGGAGTTGTGGGCTTT---AAAAGG
1590587 G
61 G
* *
1590588 TGCCACGGAGTTGTGGACTTGAAGATGAAAAAAGTGCCACGGAGTTGTGGGC-TTAAAAGGG
1 TGCCACGGAGTTGTGGGCTT-AAAATGAAAAAAGTGCCACGGAGTTGTGGGCTTTAAAAGGG
* * *
1590649 TGCCACGGAGTTGTGGGCTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAG
1 TGCCACGGAGTTGTGGGCTTAAAATGAAAAA-AGTGCCACGGAGTTGTGGGCTTT-AAAAGGG
* *
1590712 TGCCACGGAGTCGTGGGCTT----T-AAAAAGAGTGCCACGGAGTCGTGGGCTTTGAAAAGAAGA
1 TGCCACGGAGTTGTGGGCTTAAAATGAAAAA-AGTGCCACGGAGTTGTGGGCTTT---AA-AAG-
1590772 AGG
60 -GG
** * * *
1590775 TGCCACAAAGTTGTGGGCTTTGAAAA-GAAGAAGGTGCCACGGAGTTGTGGGCTTT-AAAGAG
1 TGCCACGGAGTTGTGGGC-TT-AAAATGAAAAAAGTGCCACGGAGTTGTGGGCTTTAAAAGGG
* * *
1590836 TGCCACGGAGTCGTGGGCTTTGAAAAGGGTAAAAGAGTGCCACGGAGTTGTGGGCTTTAAATAGA
1 TGCCACGGAGTTGTGGGC-TT-AAAA-TG-AAAAAAGTGCCACGGAGTTGTGGGCTTTAAA-AG-
*
1590901 AAAAAG
60 ----GG
* * *
1590907 TGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGC-TTAAACGGG
1 TGCCACGGAGTTGTGGGC-TTAAAATGAAAAAAGTGCCACGGAGTTGTGGGCTTTAAAAGGG
* * *
1590968 TGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACAGAATTGTGGGCTTTAAAAGGG
1 TGCCACGGAGTTGTGGGCTTAAA-ATGAAAAAAGTGCCACGGAGTTGTGGGCTTTAAAAGGG
* *
1591030 TGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACGGAATTGTGGGCTTTAAAAGGG
1 TGCCACGGAGTTGTGGGCTTAAA-ATGAAAAAAGTGCCACGGAGTTGTGGGCTTTAAAAGGG
* *
1591092 TGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACGGAATTGTGGGCTTTAAAAGGGAAA
1 TGCCACGGAGTTGTGGGCTTAAA-ATGAAAAAAGTGCCACGGAGTTGTGGGCTTTAAAA--G---
1591157 AGG
60 -GG
* * *
1591160 TGCCATGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGA
1 TGCCACGGAGTTGTGGGC-TT-AAAA-TGAAAAA-AGTGCCACGGAGTTGTGGGCTTT-AAAAG-
1591225 AAAAAGG
60 -----GG
* * *
1591232 TGCCACGGAGTTGTGGGCTTTGAAAA-GAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAGGAAAA
1 TGCCACGGAGTTGTGGGC-TT-AAAATGAAAAAAGTGCCACGGAGTTGTGGGCTTT--A--AAAG
1591296 GG
60 GG
** * *
1591298 TGCCACGGAGTTGTGGGCTTTGAA-GAAAAAA-TGCCACTGAGTCGTGG
1 TGCCACGGAGTTGTGGGCTTAAAATGAAAAAAGTGCCACGGAGTTGTGG
1591345 ATTTTGAGAC
Statistics
Matches: 659, Mismatches: 54, Indels: 91
0.82 0.07 0.11
Matches are distributed among these distances:
58 28 0.04
60 16 0.02
61 114 0.17
62 130 0.20
63 59 0.09
64 38 0.06
65 24 0.04
66 49 0.07
67 8 0.01
68 62 0.09
69 29 0.04
70 21 0.03
71 43 0.07
72 38 0.06
ACGTcount: A:0.31, C:0.13, G:0.34, T:0.21
Consensus pattern (61 bp):
TGCCACGGAGTTGTGGGCTTAAAATGAAAAAAGTGCCACGGAGTTGTGGGCTTTAAAAGGG
Found at i:1591269 original size:106 final size:100
Alignment explanation
Indices: 1591029--1591334 Score: 330
Period size: 106 Copynumber: 3.1 Consensus size: 100
1591019 CTTTAAAAGG
* * * * *
1591029 GTGCCACGGAGTTGTGGAC-TTAAAGATGAAAAAAGTGCCACGGAATTGTGGGCTTT--A--AAA
1 GTGCCACGGAATTGTGGGCTTTAAA-A-GGAAAAGGTGCCACGGAGTTGTGGGCTTTAAAGGAAA
* * *
1591089 GGGTGCCACGGAGTTGTGGAC-TTAAAGATGAAAAAA
64 AGGTGCCACGGAGTTGTGGGCTTTAAAGAAGAAAAAA
*
1591125 GTGCCACGGAATTGTGGGCTTTAAAAGGGAAAAGGTGCCATGGAGTTGTGGGCTTTGAAAAGGGA
1 GTGCCACGGAATTGTGGGCTTTAAAA-GGAAAAGGTGCCACGGAGTTGTGGGCTTT--AAA-GG-
*
1591190 AAAAGAGTGCCACAGAGTTGTGGGCTTTAAA-AAGAAAAAA
61 AAAAG-GTGCCACGGAGTTGTGGGCTTTAAAGAAGAAAAAA
*
1591230 GGTGCCACGGAGTTGTGGGCTTTGAAAA-GAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAGGAA
1 -GTGCCACGGAATTGTGGGCTTT-AAAAGGAA-AAGGTGCCACGGAGTTGTGGGCTTTAAAGGAA
1591294 AAGGTGCCACGGAGTTGTGGGCTTT---GAAGAAAAAA
63 AAGGTGCCACGGAGTTGTGGGCTTTAAAGAAGAAAAAA
1591329 -TGCCAC
1 GTGCCAC
1591335 TGAGTCGTGG
Statistics
Matches: 181, Mismatches: 14, Indels: 29
0.81 0.06 0.13
Matches are distributed among these distances:
96 43 0.24
97 11 0.06
99 9 0.05
100 1 0.01
101 21 0.12
102 5 0.03
103 2 0.01
104 7 0.04
105 28 0.15
106 50 0.28
107 4 0.02
ACGTcount: A:0.33, C:0.12, G:0.34, T:0.21
Consensus pattern (100 bp):
GTGCCACGGAATTGTGGGCTTTAAAAGGAAAAGGTGCCACGGAGTTGTGGGCTTTAAAGGAAAAG
GTGCCACGGAGTTGTGGGCTTTAAAGAAGAAAAAA
Found at i:1591389 original size:93 final size:93
Alignment explanation
Indices: 1591188--1591476 Score: 285
Period size: 93 Copynumber: 3.0 Consensus size: 93
1591178 TTTGAAAAGG
* * * *
1591188 GAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGAAAAAAGGTGCCACGGAGTTGTGGGCTTT
1 GAAAAAG-GTGCCACAGAGTTGTGGGCTTT--GAAGAAAAAA--TGCCACTGAGTCGTGGACTTT
* * * *
1591253 GAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAA
61 G-AGA-AAGAA--TGCCACTGAGTCGTGGACTTTAAA
* * *
1591290 GGAAAAGGTGCCACGGAGTTGTGGGCTTTGAAGAAAAAATGCCACTGAGTCGTGGATTTTGAGAC
1 GAAAAAGGTGCCACAGAGTTGTGGGCTTTGAAGAAAAAATGCCACTGAGTCGTGGACTTTGAGA-
1591355 AA-AATGCCACTGAGTCGTGGACTTTAAA
65 AAGAATGCCACTGAGTCGTGGACTTTAAA
* * * * * * *
1591383 GAAAAAGATGCCACTGAGTCGTGGACTTTG-AGCAGAGATTGCCACTGAGTCGTGGACTTTGAGA
1 GAAAAAGGTGCCACAGAGTTGTGGGCTTTGAAG-AAAAAATGCCACTGAGTCGTGGACTTTGAGA
*
1591447 AGAGATTGCCACTGAGTCGTGGACTTTAAA
65 A-AGAATGCCACTGAGTCGTGGACTTTAAA
1591477 AAGGTATTTG
Statistics
Matches: 162, Mismatches: 22, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
92 3 0.02
93 74 0.46
94 25 0.15
95 2 0.01
96 4 0.02
97 18 0.11
99 9 0.06
101 21 0.13
102 6 0.04
ACGTcount: A:0.31, C:0.15, G:0.31, T:0.23
Consensus pattern (93 bp):
GAAAAAGGTGCCACAGAGTTGTGGGCTTTGAAGAAAAAATGCCACTGAGTCGTGGACTTTGAGAA
AGAATGCCACTGAGTCGTGGACTTTAAA
Found at i:1591399 original size:32 final size:32
Alignment explanation
Indices: 1591188--1591476 Score: 223
Period size: 31 Copynumber: 9.0 Consensus size: 32
1591178 TTTGAAAAGG
* * *
1591188 GAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAA
1 GAAAAAGA-TGCCACTGAGTCGTGGACTTT--AAA
* * * *
1591223 GAAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAA
1 G-AAAAAGATGCCACTGAGTCGTGGACTTT--AAA
* * * * *
1591258 GAAGAAGGTGCCACGGAGTTGTGGGCTTTAAA
1 GAAAAAGATGCCACTGAGTCGTGGACTTTAAA
* * * * * *
1591290 GGAAAAGGTGCCACGGAGTTGTGGGCTTTGAA
1 GAAAAAGATGCCACTGAGTCGTGGACTTTAAA
**
1591322 GAAAAA-ATGCCACTGAGTCGTGGA-TTTTGA
1 GAAAAAGATGCCACTGAGTCGTGGACTTTAAA
*
1591352 GACAAA-ATGCCACTGAGTCGTGGACTTTAAA
1 GAAAAAGATGCCACTGAGTCGTGGACTTTAAA
*
1591383 GAAAAAGATGCCACTGAGTCGTGGACTTT-GA
1 GAAAAAGATGCCACTGAGTCGTGGACTTTAAA
* * *
1591414 G-CAGAGATTGCCACTGAGTCGTGGACTTT-GA
1 GAAAAAGA-TGCCACTGAGTCGTGGACTTTAAA
*
1591445 G-AAGAGATTGCCACTGAGTCGTGGACTTTAAA
1 GAAAAAGA-TGCCACTGAGTCGTGGACTTTAAA
1591477 AAGGTATTTG
Statistics
Matches: 226, Mismatches: 23, Indels: 13
0.86 0.09 0.05
Matches are distributed among these distances:
30 31 0.14
31 76 0.34
32 60 0.27
34 27 0.12
35 26 0.12
36 6 0.03
ACGTcount: A:0.31, C:0.15, G:0.31, T:0.23
Consensus pattern (32 bp):
GAAAAAGATGCCACTGAGTCGTGGACTTTAAA
Found at i:1592441 original size:7 final size:8
Alignment explanation
Indices: 1592428--1592477 Score: 55
Period size: 8 Copynumber: 5.8 Consensus size: 8
1592418 GGGTTGTTCT
1592428 TTTTTTTC
1 TTTTTTTC
1592436 TTTTTTTC
1 TTTTTTTC
1592444 TTTTTTTGC
1 TTTTTTT-C
*
1592453 ATCTTTTTTG
1 -T-TTTTTTC
1592463 TTTTGTTTC
1 TTTT-TTTC
1592472 TTTTTT
1 TTTTTT
1592478 GGAAAAGAAC
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
8 20 0.56
9 9 0.25
10 1 0.03
11 6 0.17
ACGTcount: A:0.02, C:0.10, G:0.06, T:0.82
Consensus pattern (8 bp):
TTTTTTTC
Found at i:1592449 original size:16 final size:16
Alignment explanation
Indices: 1592428--1592477 Score: 55
Period size: 19 Copynumber: 2.9 Consensus size: 16
1592418 GGGTTGTTCT
1592428 TTTTTTTCTTTTTTTC
1 TTTTTTTCTTTTTTTC
*
1592444 TTTTTTTGCATCTTTTTTG
1 TTTTTTT-C-T-TTTTTTC
1592463 TTTTGTTTCTTTTTT
1 TTTT-TTTCTTTTTT
1592478 GGAAAAGAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
16 7 0.24
17 6 0.21
18 2 0.07
19 11 0.38
20 3 0.10
ACGTcount: A:0.02, C:0.10, G:0.06, T:0.82
Consensus pattern (16 bp):
TTTTTTTCTTTTTTTC
Found at i:1599735 original size:52 final size:52
Alignment explanation
Indices: 1599650--1599774 Score: 223
Period size: 52 Copynumber: 2.4 Consensus size: 52
1599640 ATATGAAAAG
* *
1599650 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
*
1599702 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
1599754 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
1599775 AAGATCAGTG
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
Found at i:1599787 original size:52 final size:51
Alignment explanation
Indices: 1599650--1599794 Score: 211
Period size: 52 Copynumber: 2.8 Consensus size: 51
1599640 ATATGAAAAG
*
1599650 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
* *
1599702 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
*
1599754 TTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
1599795 ATGTATCGAT
Statistics
Matches: 85, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
51 2 0.02
52 83 0.98
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAAT
Found at i:1599801 original size:13 final size:13
Alignment explanation
Indices: 1599783--1599807 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1599773 CAAAGATCAG
1599783 TGTATCGATACAA
1 TGTATCGATACAA
1599796 TGTATCGATACA
1 TGTATCGATACA
1599808 TGTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1599892 original size:13 final size:13
Alignment explanation
Indices: 1599874--1599898 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1599864 AAAAAAAATA
1599874 TGTATCGATACAT
1 TGTATCGATACAT
1599887 TGTATCGATACA
1 TGTATCGATACA
1599899 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1605501 original size:20 final size:20
Alignment explanation
Indices: 1605439--1605512 Score: 107
Period size: 20 Copynumber: 3.7 Consensus size: 20
1605429 CTACCACTAT
*
1605439 TTGTATCGATACATGGCACT
1 TTGTATCGATACATGGCACA
1605459 TTGTATCGATACATGGCACA
1 TTGTATCGATACATGGCACA
1605479 TTGTATCGATACATGAAG-A-A
1 TTGTATCGATACATG--GCACA
1605499 TTGTATCGATACAT
1 TTGTATCGATACAT
1605513 TGTCCAAAAT
Statistics
Matches: 51, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
20 49 0.96
21 1 0.02
22 1 0.02
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (20 bp):
TTGTATCGATACATGGCACA
Found at i:1610205 original size:16 final size:16
Alignment explanation
Indices: 1610180--1610216 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
1610170 AAAGGCTTTC
1610180 AAAATTTTTAATAGA-
1 AAAATTTTTAATAGAG
1610195 AAAAGTTTTTAATAGAG
1 AAAA-TTTTTAATAGAG
1610212 AAAAT
1 AAAAT
1610217 GTTGATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 4 0.20
16 12 0.60
17 4 0.20
ACGTcount: A:0.54, C:0.00, G:0.11, T:0.35
Consensus pattern (16 bp):
AAAATTTTTAATAGAG
Found at i:1611576 original size:20 final size:20
Alignment explanation
Indices: 1611551--1611589 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
1611541 TGAAAATTTT
1611551 CCAGAATGTATCGATACATC
1 CCAGAATGTATCGATACATC
*
1611571 CCAGAATGTATTGATACAT
1 CCAGAATGTATCGATACAT
1611590 TGAAAGATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.28
Consensus pattern (20 bp):
CCAGAATGTATCGATACATC
Found at i:1614237 original size:20 final size:20
Alignment explanation
Indices: 1614212--1614265 Score: 83
Period size: 20 Copynumber: 2.7 Consensus size: 20
1614202 CTACCACTGT
*
1614212 TTGTATCGATACATGACA-CA
1 TTGTATCGATACATGA-AGAA
1614232 TTGTATCGATACATGAAGAA
1 TTGTATCGATACATGAAGAA
1614252 TTGTATCGATACAT
1 TTGTATCGATACAT
1614266 TATCCCAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 1 0.03
20 31 0.97
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (20 bp):
TTGTATCGATACATGAAGAA
Found at i:1616456 original size:13 final size:13
Alignment explanation
Indices: 1616434--1616467 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
1616424 ATTTTCTTTA
1616434 TTTTTT-CTTTCT
1 TTTTTTGCTTTCT
*
1616446 TTTTTTGCTTTTT
1 TTTTTTGCTTTCT
1616459 TTTTTTGCT
1 TTTTTTGCT
1616468 GAGTTTTTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 6 0.30
13 14 0.70
ACGTcount: A:0.00, C:0.12, G:0.06, T:0.82
Consensus pattern (13 bp):
TTTTTTGCTTTCT
Found at i:1617253 original size:167 final size:166
Alignment explanation
Indices: 1617072--1617697 Score: 655
Period size: 166 Copynumber: 3.8 Consensus size: 166
1617062 AAAAATGGAT
* * * *
1617072 TTTCAACA-AAAAAAATCCAAAACTCATGAAAATGAATCAATTTTTTTATAACTGAATTAATATG
1 TTTCAA-AGAAAAAAATCAAAAACTCATGAAAATGAATGAA-TTTTTGAAAACTGAATTAATATG
* * * *
1617136 -AATCAAATGATGATGTTGATGAATTCTAAAAATTTAAAACCAAAAAAAATCCTCTCGAAAAAAA
64 AAAT-AAATAATAATGTTGATGAATTTTAAAAATTTAAAACCAAGAAAAATCCTCTCGAAAAAAA
*
1617200 TTTATGGAGTAGAAAAAACCATATTTAGAAAAAAAAGAG
128 TTTATGGAGTAGAAAAAACCATATTTCGAAAAAAAAGAG
* *
1617239 TTTCAAAGAAAAAAAATAAAAAACTCATGAAAATGACTGAATTTTTGAAAACTGAATTAATATGA
1 TTTCAAAG-AAAAAAATCAAAAACTCATGAAAATGAATGAATTTTTGAAAACTGAATTAATATGA
** * * * *
1617304 AATAAATAATGTTTTTTTATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCTCG-AAAAAAT
65 AATAAATAAT-AATGTTGATGAATTTTAAAAATTTAAAACCAAGAAAAATCCTCTCGAAAAAAAT
* * *
1617368 TTACGGAGTAGAAAATA-CAGCATTTCGAAAAAAAAGAAG
129 TTATGGAGTAGAAAAAACCA-TATTTCGAAAAAAAAG-AG
* * * * * * * * *
1617407 TTT-TAAGGAGAAAATCAAAAACTCATGAAAATGAATAAATATGTGAAAAATGGACTAATATGAA
1 TTTCAAAGAAAAAAATCAAAAACTCATGAAAATGAATGAATTTTTGAAAACTGAATTAATATGAA
* * * * * * *
1617471 ATAAATGATAATGTTTGATGATTTTTAAAAATTGAAAACCACGAAAAATCC-CCCTATAAAAATT
66 ATAAATAATAATG-TTGATGAATTTTAAAAATTTAAAACCAAGAAAAATCCTCTCGAAAAAAATT
* * *
1617535 TATAGAGTAGAAAACACCGTATTTCG-AAAAAAA-A-
130 TATGGAGTAGAAAAAACCATATTTCGAAAAAAAAGAG
* * *
1617569 TTTC-AAGAAAAAAATCAAAAGCACATGAAAATGAATGAATTTTTGAAAACTAAATTAATATGAA
1 TTTCAAAGAAAAAAATCAAAAACTCATGAAAATGAATGAATTTTTGAAAACTGAATTAATATGAA
* * * **
1617633 ATAAACAAAAATATTGGATGAATTTTAAAAA-TTAAGAATTAAGAAAAATCCTCTC-AAAAAAAT
66 ATAAATAATAATGTT-GATGAATTTTAAAAATTTAA-AACCAAGAAAAATCCTCTCGAAAAAAAT
1617696 TT
129 TT
1617698 CTTGAGAAGA
Statistics
Matches: 378, Mismatches: 68, Indels: 31
0.79 0.14 0.06
Matches are distributed among these distances:
161 5 0.01
162 96 0.25
163 3 0.01
165 10 0.03
166 117 0.31
167 73 0.19
168 74 0.20
ACGTcount: A:0.52, C:0.10, G:0.11, T:0.27
Consensus pattern (166 bp):
TTTCAAAGAAAAAAATCAAAAACTCATGAAAATGAATGAATTTTTGAAAACTGAATTAATATGAA
ATAAATAATAATGTTGATGAATTTTAAAAATTTAAAACCAAGAAAAATCCTCTCGAAAAAAATTT
ATGGAGTAGAAAAAACCATATTTCGAAAAAAAAGAG
Found at i:1619296 original size:42 final size:41
Alignment explanation
Indices: 1619099--1619371 Score: 149
Period size: 42 Copynumber: 6.5 Consensus size: 41
1619089 GTTTCCTAGG
* * * *
1619099 TCTGAGTCGATGGGCAAATAATAGATAAAAGAAGTCTCTCGGGA
1 TCTGAGCCGATGGGCAGATGATTGATAAAAG-AGTCTC-C-GGA
* * * * *
1619143 -CTAAGCCAATAGGCAGATGATGGATAAAGGAGTCTCCTAGG-
1 TCTGAGCCGATGGGCAGATGATTGATAAAAGAGTCTCC--GGA
* * * * ** * *
1619184 CCTAAGCGGATGAGCAGACAATTGATAAAGGAGTCTTCCGGG
1 TCTGAGCCGATGGGCAGATGATTGATAAAAGAGTC-TCCGGA
* ***
1619226 TCTGAGCCGATGGGCGGATGAAAAATAAAAGAGTCTCCTGGA
1 TCTGAGCCGATGGGCAGATGATTGATAAAAGAGTCTCC-GGA
* * * *
1619268 TCTGAGTCGATGGGTAGATGATTGATAAAGGAGTCTCTTAGG-
1 TCTGAGCCGATGGGCAGATGATTGATAAAAGAGTCTC--CGGA
* * *
1619310 TCTAAACCGATGGGCATATGATTGATAAAAGAAGTCTCCGAAGA
1 TCTGAGCCGATGGGCAGATGATTGATAAAAG-AGTCTCCG--GA
*
1619354 -CTGAGCCGATGGGTAGAT
1 TCTGAGCCGATGGGCAGAT
1619372 AAAAGATGAA
Statistics
Matches: 171, Mismatches: 47, Indels: 23
0.71 0.20 0.10
Matches are distributed among these distances:
41 7 0.04
42 116 0.68
43 48 0.28
ACGTcount: A:0.33, C:0.15, G:0.30, T:0.22
Consensus pattern (41 bp):
TCTGAGCCGATGGGCAGATGATTGATAAAAGAGTCTCCGGA
Found at i:1619388 original size:85 final size:84
Alignment explanation
Indices: 1619269--1619431 Score: 191
Period size: 85 Copynumber: 1.9 Consensus size: 84
1619259 TCTCCTGGAT
* * ** * ** * * * * *
1619269 CTGAGTCGATGGGTAGATGATTGATAAAGGAGTCTCTTAGGTCTAAACCGATGGGCATATGATTG
1 CTGAGCCGATGGGTAGATAAAAGATAAAGAAGTCTCCCAGGCCTAAACCGACGGGCAGACGAATG
1619334 ATAAAAGAAGTCTCCGAAGA
66 AT-AAAGAAGTCTCCGAAGA
* *
1619354 CTGAGCCGATGGGTAGATAAAAGATGAAGAAGTCTCCCAGGCCTAAACTGACGGGCAGACGAATG
1 CTGAGCCGATGGGTAGATAAAAGATAAAGAAGTCTCCCAGGCCTAAACCGACGGGCAGACGAATG
1619419 ATAAAGAAGTCTC
66 ATAAAGAAGTCTC
1619432 TCGAGTCTAA
Statistics
Matches: 64, Mismatches: 14, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
84 11 0.17
85 53 0.83
ACGTcount: A:0.34, C:0.16, G:0.28, T:0.21
Consensus pattern (84 bp):
CTGAGCCGATGGGTAGATAAAAGATAAAGAAGTCTCCCAGGCCTAAACCGACGGGCAGACGAATG
ATAAAGAAGTCTCCGAAGA
Found at i:1619501 original size:43 final size:42
Alignment explanation
Indices: 1619440--1619532 Score: 143
Period size: 43 Copynumber: 2.2 Consensus size: 42
1619430 TCTCGAGTCT
*
1619440 AAGTCTCTTAAGACTAAGCCAACGGGCAGATGATTGAT-ATAGG
1 AAGTCTCTTAAGACTAAGCCAACGGGCAGATGATGGATGA-A-G
*
1619483 AAGTCTCTTAAGACTAAGCCAATGGGCAGATGATGGATGAAG
1 AAGTCTCTTAAGACTAAGCCAACGGGCAGATGATGGATGAAG
1619525 AAGTCTCT
1 AAGTCTCT
1619533 CGGGCTGAAG
Statistics
Matches: 47, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
42 9 0.19
43 37 0.79
44 1 0.02
ACGTcount: A:0.34, C:0.16, G:0.26, T:0.24
Consensus pattern (42 bp):
AAGTCTCTTAAGACTAAGCCAACGGGCAGATGATGGATGAAG
Found at i:1619765 original size:42 final size:42
Alignment explanation
Indices: 1619719--1619836 Score: 116
Period size: 42 Copynumber: 2.8 Consensus size: 42
1619709 GCCGACGGGT
1619719 AGACGATTGATAAAAGAATCTCTCGGGTCTAAGCCAATGGGC
1 AGACGATTGATAAAAGAATCTCTCGGGTCTAAGCCAATGGGC
* * * * *
1619761 AGACGATGGATGAATAAGACTC-CT-GGGTCTGAGCCGATGGGT
1 AGACGATTGAT-AA-AAGAATCTCTCGGGTCTAAGCCAATGGGC
* * *
1619803 AAACGATTGAT-AAAGAAGTTTCTCGAGTCTAAGC
1 AGACGATTGATAAAAGAA-TCTCTCGGGTCTAAGC
1619837 TGACGGGCAA
Statistics
Matches: 60, Mismatches: 11, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
39 4 0.07
40 2 0.03
41 2 0.03
42 42 0.70
43 4 0.07
44 6 0.10
ACGTcount: A:0.32, C:0.17, G:0.28, T:0.23
Consensus pattern (42 bp):
AGACGATTGATAAAAGAATCTCTCGGGTCTAAGCCAATGGGC
Found at i:1620265 original size:48 final size:48
Alignment explanation
Indices: 1620213--1620844 Score: 650
Period size: 48 Copynumber: 13.3 Consensus size: 48
1620203 CCAAAATAGG
* * * *
1620213 AAGAGTTTGACCT-GGTCCTAACACTAATACAGTCAAATGAAGGAATAA
1 AAGAGTTTGA-CTAGGCCCTAACACCAATACAGTCAAACGAAGGAAGAA
* ** ** * *
1620261 AAGAGTTTGACCAAACCCTAATGCCAATACAATCAAACGAGGGAAGAA
1 AAGAGTTTGACTAGGCCCTAACACCAATACAGTCAAACGAAGGAAGAA
* * * * * *
1620309 AAGAGTTTAACTAAG-ACTAACACCAATATAGTCAAA-TAAGGAAAAA
1 AAGAGTTTGACTAGGCCCTAACACCAATACAGTCAAACGAAGGAAGAA
* * * *
1620355 AATAGTTTGACTAGACCCTAACACTAATACAGTCAAACGAAGGAAAAA
1 AAGAGTTTGACTAGGCCCTAACACCAATACAGTCAAACGAAGGAAGAA
* * * * *
1620403 AATAGTTTGACTAGACCCTAACA--AATAGAGTCAAATGAATGAAGAA
1 AAGAGTTTGACTAGGCCCTAACACCAATACAGTCAAACGAAGGAAGAA
* * * * * *
1620449 AAGGGTTTGACCAGGCCCTAACACTAATACAATCAAACGAGGGATGAA
1 AAGAGTTTGACTAGGCCCTAACACCAATACAGTCAAACGAAGGAAGAA
* * * *
1620497 AAGGGTTTGACTAGGCCCTAACACTAATACAATCAAACGAAGGTAGAA
1 AAGAGTTTGACTAGGCCCTAACACCAATACAGTCAAACGAAGGAAGAA
* * * * * *
1620545 AAGAGTTTGACCAAGCCCAAACACCAATATAATCAAACGAA-AAAGAA
1 AAGAGTTTGACTAGGCCCTAACACCAATACAGTCAAACGAAGGAAGAA
* * * *
1620592 AAGAGTTTGAATAAGCCCTAACACCAATACAGTTAAATG-AGGAAGAA
1 AAGAGTTTGACTAGGCCCTAACACCAATACAGTCAAACGAAGGAAGAA
* * *
1620639 AAGAGTTTGACTAGGCCCTAACACCAATACAGTCAAATGAGGGAAGGA
1 AAGAGTTTGACTAGGCCCTAACACCAATACAGTCAAACGAAGGAAGAA
* * * *
1620687 AAGAGTTTGACTAGGCCTTAACACCAATACATTCAAATGAGGGAAGAA
1 AAGAGTTTGACTAGGCCCTAACACCAATACAGTCAAACGAAGGAAGAA
* * * * *
1620735 AATAGTTTAACTAGGCCCTAACACCAATATAGTTAAACGAGGGAAGAA
1 AAGAGTTTGACTAGGCCCTAACACCAATACAGTCAAACGAAGGAAGAA
* *
1620783 AAGAGTTTGACTATGCCCTAACACCAATACAGTCAAAAG-AGGAAGAA
1 AAGAGTTTGACTAGGCCCTAACACCAATACAGTCAAACGAAGGAAGAA
*
1620830 AAGAGTTTGGCTAGG
1 AAGAGTTTGACTAGG
1620845 TACAGTCAAA
Statistics
Matches: 489, Mismatches: 88, Indels: 15
0.83 0.15 0.03
Matches are distributed among these distances:
46 57 0.12
47 132 0.27
48 300 0.61
ACGTcount: A:0.45, C:0.17, G:0.19, T:0.19
Consensus pattern (48 bp):
AAGAGTTTGACTAGGCCCTAACACCAATACAGTCAAACGAAGGAAGAA
Found at i:1620362 original size:142 final size:144
Alignment explanation
Indices: 1620213--1620838 Score: 667
Period size: 142 Copynumber: 4.4 Consensus size: 144
1620203 CCAAAATAGG
* * *
1620213 AAGAGTTTGACCT-GGTCCTAACACTAATACAGTCAAATGAAGGAATAAAAGAGTTTGACCAAAC
1 AAGAGTTTGA-CTAGGCCCTAACACTAATACAGTCAAACGAAGGAAGAAAAGAGTTTGACCAAAC
** * *
1620277 CCTAATGCCAATACAATCAAACGAGGGAAGAAAAGAGTTTAACTAAG-ACTAACACCAATATAGT
65 CCTAACACCAATACAATCAAACGAGGGAAGAAAAGAGTTTAACTAAGCCCTAACACCAATACAGT
* *
1620341 CAAA-TAAGGAAAAA
130 CAAACGAAGGAAGAA
* * * * * *
1620355 AATAGTTTGACTAGACCCTAACACTAATACAGTCAAACGAAGGAAAAAAATAGTTTGACTAGACC
1 AAGAGTTTGACTAGGCCCTAACACTAATACAGTCAAACGAAGGAAGAAAAGAGTTTGACCAAACC
* * * ** * * * * * *
1620420 CTAACA--AATAGAGTCAAATGAATGAAGAAAAGGGTTTGACCAGGCCCTAACACTAATACAATC
66 CTAACACCAATACAATCAAACGAGGGAAGAAAAGAGTTTAACTAAGCCCTAACACCAATACAGTC
* *
1620483 AAACGAGGGATGAA
131 AAACGAAGGAAGAA
* * * *
1620497 AAGGGTTTGACTAGGCCCTAACACTAATACAATCAAACGAAGGTAGAAAAGAGTTTGACCAAGCC
1 AAGAGTTTGACTAGGCCCTAACACTAATACAGTCAAACGAAGGAAGAAAAGAGTTTGACCAAACC
* * **
1620562 CAAACACCAATATAATCAAACGA-AAAAGAAAAGAGTTTGAA-TAAGCCCTAACACCAATACAGT
66 CTAACACCAATACAATCAAACGAGGGAAGAAAAGAGTTT-AACTAAGCCCTAACACCAATACAGT
* *
1620625 TAAATG-AGGAAGAA
130 CAAACGAAGGAAGAA
* * * * * **
1620639 AAGAGTTTGACTAGGCCCTAACACCAATACAGTCAAATGAGGGAAGGAAAGAGTTTGACTAGGCC
1 AAGAGTTTGACTAGGCCCTAACACTAATACAGTCAAACGAAGGAAGAAAAGAGTTTGACCAAACC
* * * * * * *
1620704 TTAACACCAATACATTCAAATGAGGGAAGAAAATAGTTTAACTAGGCCCTAACACCAATATAGTT
66 CTAACACCAATACAATCAAACGAGGGAAGAAAAGAGTTTAACTAAGCCCTAACACCAATACAGTC
*
1620769 AAACGAGGGAAGAA
131 AAACGAAGGAAGAA
* * *
1620783 AAGAGTTTGACTATGCCCTAACACCAATACAGTCAAAAG-AGGAAGAAAAGAGTTTG
1 AAGAGTTTGACTAGGCCCTAACACTAATACAGTCAAACGAAGGAAGAAAAGAGTTTG
1620839 GCTAGGTACA
Statistics
Matches: 397, Mismatches: 78, Indels: 17
0.81 0.16 0.03
Matches are distributed among these distances:
140 29 0.07
141 19 0.05
142 206 0.52
143 86 0.22
144 57 0.14
ACGTcount: A:0.45, C:0.17, G:0.19, T:0.19
Consensus pattern (144 bp):
AAGAGTTTGACTAGGCCCTAACACTAATACAGTCAAACGAAGGAAGAAAAGAGTTTGACCAAACC
CTAACACCAATACAATCAAACGAGGGAAGAAAAGAGTTTAACTAAGCCCTAACACCAATACAGTC
AAACGAAGGAAGAA
Found at i:1621197 original size:90 final size:90
Alignment explanation
Indices: 1621080--1621289 Score: 330
Period size: 90 Copynumber: 2.3 Consensus size: 90
1621070 TGCCTCGGTA
* * * *
1621080 AAATCAGGCTTTGTGATTCATCAATACCATCTAGTGGTTGGATGAAAGGGATATGATTAGGAATG
1 AAATTAGGCTTAGTGATGCATCAATACCATCTAATGGTTGGATGAAAGGGATATGATTAGGAATG
* *
1621145 TGTGGGCTACACCTTGCCCCAAAGG
66 TGTAGGCTACACCTTGCCACAAAGG
1621170 AAATTAGGCTTAGTGATGCATCAATACCATCTAATGGTTGGATGAAAGGGATATGATTAGGAATG
1 AAATTAGGCTTAGTGATGCATCAATACCATCTAATGGTTGGATGAAAGGGATATGATTAGGAATG
*
1621235 TGTAGGCTGCACCTTGCCACAAAGG
66 TGTAGGCTACACCTTGCCACAAAGG
* * *
1621260 AAACTAGGCATGGTGATGCATCAATACCAT
1 AAATTAGGCTTAGTGATGCATCAATACCAT
1621290 TTTCCTTGAA
Statistics
Matches: 110, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
90 110 1.00
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.27
Consensus pattern (90 bp):
AAATTAGGCTTAGTGATGCATCAATACCATCTAATGGTTGGATGAAAGGGATATGATTAGGAATG
TGTAGGCTACACCTTGCCACAAAGG
Found at i:1627163 original size:157 final size:153
Alignment explanation
Indices: 1626615--1627163 Score: 634
Period size: 157 Copynumber: 3.5 Consensus size: 153
1626605 AAGTACTCGA
* ** *
1626615 TACCCCTAAAAGACTTAAAAAAGATTATAGATGGGATGAACCTATCCTAAATACTCACCTTTGGC
1 TACCCCTAAAAGACTTAAAAAAGACTATA-AAAGGATGAACCTATCCTAAATACCCACCTTTGGC
* * *
1626680 ATAAAAAGCAGACTCGGTGACAACATAGGACTCGATTCTAAAAATTATGAAAATACCCTTAGGGG
65 ATAAAAA-CAGACCCGATGATAACATAGGACTCGATT-TAAAAATTATGAAAATACCCTTAGGGG
*
1626745 AT-TCTTTCGACATGAAAGTATCCTAG
128 ATATC-TTCGACGTGAAAGTATCCTAG
* * *
1626771 TAACCCTAAAAGACTTAAAAAAGATTACAAAATGGATGAACCTATCCTAAATACCCACCTTTGGC
1 TACCCCTAAAAGACTTAAAAAAGACTATAAAA-GGATGAACCTATCCTAAATACCCACCTTTGGC
* * * * *
1626836 ATAAAAAACAAACCAGATGATCACATAGGACTCGATTTTGGAAAATTATGAAAATACCCTTAAGG
65 AT-AAAAACAGACCCGATGATAACATAGGACTCGA-TTT-AAAAATTATGAAAATACCCTTAGGG
* *
1626901 GATACCTTCGACGTGAAAGTAT-CTCGG
127 GATATCTTCGACGTGAAAGTATCCT-AG
* * * *
1626928 TACCCCTAAAAGAGTTAAAAAGGACCATAAAAGGGATGAACCTATCCTAAATACCCACTTTTGGC
1 TACCCCTAAAAGACTTAAAAAAGACTATAAAA-GGATGAACCTATCCTAAATACCCACCTTTGGC
* * * * * * *
1626993 ATAAAAGCAGACCCGATGATAACCTAGGAATTGGTTATAAAAAAATTATAAAAATGCCCTTAGGG
65 ATAAAAACAGACCCGATGATAACATAGGACTCGATT-T--AAAAATTATGAAAATACCCTTAGGG
*
1627058 GATATCTTCGATGTGAAAGTATCCTAG
127 GATATCTTCGACGTGAAAGTATCCTAG
** * * * *
1627085 TACCCCTAAGGGACTTAAAAATGACTATAAAAGAAATGAACCTATCCTAAATACCCACATTCGGC
1 TACCCCTAAAAGACTTAAAAAAGACTATAAAAG-GATGAACCTATCCTAAATACCCACCTTTGGC
1627150 ATAAAAACAGACCC
65 ATAAAAACAGACCC
1627164 AATGGTTACC
Statistics
Matches: 334, Mismatches: 49, Indels: 19
0.83 0.12 0.05
Matches are distributed among these distances:
155 3 0.01
156 110 0.33
157 218 0.65
158 3 0.01
ACGTcount: A:0.41, C:0.20, G:0.16, T:0.24
Consensus pattern (153 bp):
TACCCCTAAAAGACTTAAAAAAGACTATAAAAGGATGAACCTATCCTAAATACCCACCTTTGGCA
TAAAAACAGACCCGATGATAACATAGGACTCGATTTAAAAATTATGAAAATACCCTTAGGGGATA
TCTTCGACGTGAAAGTATCCTAG
Found at i:1628866 original size:20 final size:22
Alignment explanation
Indices: 1628824--1628868 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
1628814 AAGTCTCCAA
* *
1628824 TTTCTTTGTATTTTTATGACAT
1 TTTCTTAGTATTTTCATGACAT
1628846 TTTCTTAGT-TTTTCATG-CAT
1 TTTCTTAGTATTTTCATGACAT
1628866 TTT
1 TTT
1628869 TTATGACATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 6 0.29
21 7 0.33
22 8 0.38
ACGTcount: A:0.16, C:0.11, G:0.09, T:0.64
Consensus pattern (22 bp):
TTTCTTAGTATTTTCATGACAT
Done.