Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000686.1 Hibiscus syriacus cultivar Beakdansim tig00001340_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1443669
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 6
Found at i:493545 original size:23 final size:21
Alignment explanation
Indices: 493493--493554 Score: 81
Period size: 23 Copynumber: 2.9 Consensus size: 21
493483 TTTTGGTGTA
*
493493 GAGGGAATCGA-TCCCCCCTT
1 GAGGGAACCGATTCCCCCCTT
*
493513 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGATTCCCCCCTT
493534 GAAGGGGAACCGATTCCCCCC
1 G-A-GGGAACCGATTCCCCCC
493555 ACAGGGGAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
20 10 0.28
21 9 0.25
22 1 0.03
23 16 0.44
ACGTcount: A:0.21, C:0.35, G:0.26, T:0.18
Consensus pattern (21 bp):
GAGGGAACCGATTCCCCCCTT
Found at i:499071 original size:34 final size:34
Alignment explanation
Indices: 499028--499096 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
499018 CATTTATTGT
499028 ATGCAAACTATATAATAATGATTAGAAATAATTC
1 ATGCAAACTATATAATAATGATTAGAAATAATTC
499062 ATGCAAACTATATAATAATGATTAGAAATAATTC
1 ATGCAAACTATATAATAATGATTAGAAATAATTC
499096 A
1 A
499097 ATATATAACA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.51, C:0.09, G:0.09, T:0.32
Consensus pattern (34 bp):
ATGCAAACTATATAATAATGATTAGAAATAATTC
Found at i:499347 original size:79 final size:79
Alignment explanation
Indices: 499211--499424 Score: 347
Period size: 79 Copynumber: 2.7 Consensus size: 79
499201 AAAACAAATG
* *
499211 AAAAAAATAATGCATATGGGTGCATTATTGGCAAGAAAGGATGCCATAGTTGAAATGTATATGGG
1 AAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGTTGAAATGTATATGGG
499276 TACATTGTCAACAT
66 TACATTGTCAACAT
* * *
499290 AAAAGAATAATTCATATGAGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGTATATGGG
1 AAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGTTGAAATGTATATGGG
* *
499355 TACTTTGTCAGCAT
66 TACATTGTCAACAT
* *
499369 AAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATACCATCGTTGAAAT
1 AAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGTTGAAAT
499425 ACAATGGGGT
Statistics
Matches: 123, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
79 123 1.00
ACGTcount: A:0.38, C:0.11, G:0.23, T:0.29
Consensus pattern (79 bp):
AAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGTTGAAATGTATATGGG
TACATTGTCAACAT
Found at i:503312 original size:111 final size:110
Alignment explanation
Indices: 503188--503395 Score: 299
Period size: 110 Copynumber: 1.9 Consensus size: 110
503178 TATGCCACTA
* * * *
503188 ATGAAAGTTATCGATCGATTTTGTTTAATGCATAATGGTGCATTTTTGACATAAAAAGTGCCTCT
1 ATGAAAGTTATCGATCAATTTTGTTTAATGCATAA-GATGCATTTTCGACATAAAAAGTGCCACT
* * *
503253 CAAGGTATTCGTAAAAGGTGAATTACCGTTTCGACATACTTCGTGT
65 CAAGGTATTCATAAAAGGTGAATGACCATTTCGACATACTTCGTGT
* * *
503299 ATGAAAGTTATCGATCAATTTTGTTTAATGCATAAGATGCATTTTCGGCATAAAAGGTGTCACTC
1 ATGAAAGTTATCGATCAATTTTGTTTAATGCATAAGATGCATTTTCGACATAAAAAGTGCCACTC
* *
503364 ATGGTGTTCATAAAAGGTGAATGACCATTTCG
66 AAGGTATTCATAAAAGGTGAATGACCATTTCG
503396 GTGCTTTGGT
Statistics
Matches: 85, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
110 51 0.60
111 34 0.40
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.35
Consensus pattern (110 bp):
ATGAAAGTTATCGATCAATTTTGTTTAATGCATAAGATGCATTTTCGACATAAAAAGTGCCACTC
AAGGTATTCATAAAAGGTGAATGACCATTTCGACATACTTCGTGT
Found at i:507332 original size:21 final size:21
Alignment explanation
Indices: 507308--507383 Score: 82
Period size: 21 Copynumber: 3.6 Consensus size: 21
507298 ATATTGAGGT
*
507308 ACTTCATCTAGTTACCAAGGA
1 ACTTCATCTACTTACCAAGGA
* *
507329 ACTTTATCTACTTACCAAGGT
1 ACTTCATCTACTTACCAAGGA
* * *
507350 ACTTCTTCTACTTACTAAGTTA
1 ACTTCATCTACTTACCAAG-GA
507372 A-TTCATCTACTT
1 ACTTCATCTACTT
507384 TCACTTATTA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
21 44 0.98
22 1 0.02
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.39
Consensus pattern (21 bp):
ACTTCATCTACTTACCAAGGA
Found at i:507511 original size:15 final size:15
Alignment explanation
Indices: 507491--507523 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
507481 AGGTAATTCA
507491 TCTATTTCCA-CTTAT
1 TCTA-TTCCATCTTAT
507506 TCTATTCCATCTTAT
1 TCTATTCCATCTTAT
507521 TCT
1 TCT
507524 GAGGATATAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.18, C:0.27, G:0.00, T:0.55
Consensus pattern (15 bp):
TCTATTCCATCTTAT
Found at i:508942 original size:2 final size:2
Alignment explanation
Indices: 508935--508963 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
508925 GAGATTTCTG
508935 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
508964 CCCATTCTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:509169 original size:36 final size:36
Alignment explanation
Indices: 509105--509183 Score: 86
Period size: 36 Copynumber: 2.2 Consensus size: 36
509095 GGCAAGAATA
* * * * *
509105 AAAACTATGAAAAGGACATATGAGGCAATCACGAAG
1 AAAACCATGAAAAAGACATATAAAGCAATCACAAAG
* *
509141 AAAACCATGAAAAAGTCATATAAAGCAATGACAAAG
1 AAAACCATGAAAAAGACATATAAAGCAATCACAAAG
*
509177 AAGACCA
1 AAAACCA
509184 ATAGTGGTTG
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.54, C:0.15, G:0.18, T:0.13
Consensus pattern (36 bp):
AAAACCATGAAAAAGACATATAAAGCAATCACAAAG
Found at i:512193 original size:95 final size:96
Alignment explanation
Indices: 512046--512243 Score: 258
Period size: 95 Copynumber: 2.1 Consensus size: 96
512036 AGTAGTATCA
* * * ** *
512046 ATACCATTGTAAGGGTATCGATACCAAGCAAACATCGAATCTAATTTTGGTATCGATAC-CGTAA
1 ATACCATGGTAAGGGTATCGATACCAAGAAAACATCAAAGATAATTTTGGTATCGATACTAG-AA
* *
512110 GGGGGTATCAG-TGCCATAGTATAGTAGTAATG
65 GGGGGTAT-AGATACCATAGTATAGAAGTAATG
*
512142 ATACCATGGTAAGGGTATCGATTCC-AGAAAACATCAAAGATAATTTTGGTATCGATACTAGAAG
1 ATACCATGGTAAGGGTATCGATACCAAGAAAACATCAAAGATAATTTTGGTATCGATACTAGAAG
* *
512206 GGGGTATTGATACCATAGTATAGAAGTATTG
66 GGGGTATAGATACCATAGTATAGAAGTAATG
512237 ATACCAT
1 ATACCAT
512244 ATTATAGAAG
Statistics
Matches: 89, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
94 1 0.01
95 64 0.72
96 24 0.27
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (96 bp):
ATACCATGGTAAGGGTATCGATACCAAGAAAACATCAAAGATAATTTTGGTATCGATACTAGAAG
GGGGTATAGATACCATAGTATAGAAGTAATG
Found at i:512235 original size:22 final size:22
Alignment explanation
Indices: 512209--512262 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 22
512199 CTAGAAGGGG
512209 GTATTGATACCATAGTATAGAA
1 GTATTGATACCATAGTATAGAA
*
512231 GTATTGATACCATATTATAGAA
1 GTATTGATACCATAGTATAGAA
* *
512253 GAATCGATAC
1 GTATTGATAC
512263 TGGAAGGATG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.41, C:0.11, G:0.17, T:0.31
Consensus pattern (22 bp):
GTATTGATACCATAGTATAGAA
Found at i:512740 original size:46 final size:46
Alignment explanation
Indices: 512280--512732 Score: 717
Period size: 46 Copynumber: 9.8 Consensus size: 46
512270 ATGCATTAAG
512280 GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAT
1 GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAT
* *
512326 GCATGAAAGGATACATTAAGGCATGAAAGGATTCCATAACTAAAAT
1 GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAT
* *
512372 ACATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACCAAAAT
1 GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAT
* *
512418 GCATGAAAGGATGTATTAAGGCTTGAAAGGATGCCATAACTAAAAT
1 GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAT
* * * *
512464 GCATGAAATGATGCATTAAGGCATGAAATGATGTCATATCTAAAAT
1 GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAT
*
512510 GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATATCTAAAAT
1 GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAT
* * ** * *
512556 GCATGGAATGATGCATTAAGGCATGTCATGATGCCATATCTAAAAT
1 GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAT
*
512602 GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATATCTAAAAT
1 GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAT
*
512648 GCATGAAAGGATGCATTAAGGCATGAAAGGATTCCATAACTAAAAT
1 GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAT
* *
512694 GCATGGAAGTATGCATTAAGGCATGAAAGGATGCCATAA
1 GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAA
512733 TTTAAATGTA
Statistics
Matches: 373, Mismatches: 34, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 373 1.00
ACGTcount: A:0.42, C:0.13, G:0.23, T:0.23
Consensus pattern (46 bp):
GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAT
Found at i:517097 original size:2 final size:2
Alignment explanation
Indices: 517090--517141 Score: 86
Period size: 2 Copynumber: 26.0 Consensus size: 2
517080 TTGTATTTTG
* *
517090 AT AT AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
517132 AT AT AT AT AT
1 AT AT AT AT AT
517142 CTGTGTGTGT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:519213 original size:156 final size:158
Alignment explanation
Indices: 518893--519226 Score: 523
Period size: 156 Copynumber: 2.1 Consensus size: 158
518883 TATGGGTGTG
* * *
518893 GGCATGAAAGGATGTCATAGCTGAAATGTACATGGGTACATTGTCAATATAAAAGAATAATGCAT
1 GGCATGAAAGGATGCCATAGCTGAAATATACATGGGTACATTGTCAACATAAAAGAATAATGCAT
* *
518958 ATGGGTGCATTATGGGCATGACAAGATGTCATAGCTGAAATGTATATGGGTACGTTGTCAGCATA
66 ATGGGTGCATTATGGGCATGACAAGATGCCATAGCTGAAATGTATATGGGTACATTGTCAGCATA
519023 AAAGAATAATGCATATGAGTGCATTATT
131 AAAGAATAATGCATATGAGTGCATTATT
* * * *
519051 GTCATGAAAGGATGCCATAGCT-AAA-ATATATGGGTACATTGTGAGCATAAAAGAATAATGCAT
1 GGCATGAAAGGATGCCATAGCTGAAATATACATGGGTACATTGTCAACATAAAAGAATAATGCAT
519114 ATGGGTGCATTATGGGCATGA-AAGGATGCCATAGCT-AAGATGTATATGGGTACATTGTCAGCA
66 ATGGGTGCATTATGGGCATGACAA-GATGCCATAGCTGAA-ATGTATATGGGTACATTGTCAGCA
*
519177 TAAAAGAATAATGCATATGGGTGCATTATT
129 TAAAAGAATAATGCATATGAGTGCATTATT
*
519207 GGCATGAAATGATGCCATAG
1 GGCATGAAAGGATGCCATAG
519227 TTTAAATGCA
Statistics
Matches: 162, Mismatches: 12, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
155 4 0.02
156 135 0.83
157 3 0.02
158 20 0.12
ACGTcount: A:0.36, C:0.11, G:0.25, T:0.28
Consensus pattern (158 bp):
GGCATGAAAGGATGCCATAGCTGAAATATACATGGGTACATTGTCAACATAAAAGAATAATGCAT
ATGGGTGCATTATGGGCATGACAAGATGCCATAGCTGAAATGTATATGGGTACATTGTCAGCATA
AAAGAATAATGCATATGAGTGCATTATT
Found at i:519261 original size:79 final size:79
Alignment explanation
Indices: 518868--519240 Score: 512
Period size: 79 Copynumber: 4.8 Consensus size: 79
518858 AAAACGAATG
* * *
518868 TAAAAGAATAATGTATATGGGTG-----TGGGCATGAAAGGATGTCATAGCTGAAATGTACATGG
1 TAAAAGAATAATGCATATGGGTGCATTATGGGCATGAAAGGATGCCATAGCTGAAATGTATATGG
**
518928 GTACATTGTCAATA
66 GTACATTGTCAGCA
*
518942 TAAAAGAATAATGCATATGGGTGCATTATGGGCATGACAA-GATGTCATAGCTGAAATGTATATG
1 TAAAAGAATAATGCATATGGGTGCATTATGGGCATGA-AAGGATGCCATAGCTGAAATGTATATG
*
519006 GGTACGTTGTCAGCA
65 GGTACATTGTCAGCA
* * * *
519021 TAAAAGAATAATGCATATGAGTGCATTATTGTCATGAAAGGATGCCATAGCT-AAA-ATATATGG
1 TAAAAGAATAATGCATATGGGTGCATTATGGGCATGAAAGGATGCCATAGCTGAAATGTATATGG
*
519084 GTACATTGTGAGCA
66 GTACATTGTCAGCA
519098 TAAAAGAATAATGCATATGGGTGCATTATGGGCATGAAAGGATGCCATAGCT-AAGATGTATATG
1 TAAAAGAATAATGCATATGGGTGCATTATGGGCATGAAAGGATGCCATAGCTGAA-ATGTATATG
519162 GGTACATTGTCAGCA
65 GGTACATTGTCAGCA
* * * * *
519177 TAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAATGATGCCATAGTTTAAATGCATATG
1 TAAAAGAATAATGCATATGGGTGCATTATGGGCATGAAAGGATGCCATAGCTGAAATGTATATG
519241 TGTGCATTAT
Statistics
Matches: 268, Mismatches: 21, Indels: 15
0.88 0.07 0.05
Matches are distributed among these distances:
74 22 0.08
77 70 0.26
78 6 0.02
79 166 0.62
80 4 0.01
ACGTcount: A:0.36, C:0.10, G:0.25, T:0.28
Consensus pattern (79 bp):
TAAAAGAATAATGCATATGGGTGCATTATGGGCATGAAAGGATGCCATAGCTGAAATGTATATGG
GTACATTGTCAGCA
Found at i:519279 original size:45 final size:45
Alignment explanation
Indices: 519223--519442 Score: 269
Period size: 45 Copynumber: 4.9 Consensus size: 45
519213 AAATGATGCC
* * * * * *
519223 ATAGTTTAAATGCATATGTGTGCATTATCAACACAAAAGTATGCA
1 ATAGTTGAAATGTATATGGGTGCATTATCAACAGAAAAGTATACT
* *
519268 AAAGTTGAAATGTATATGGGTGCATTATCAACAGAAAAATATACT
1 ATAGTTGAAATGTATATGGGTGCATTATCAACAGAAAAGTATACT
* * * *
519313 AGAGTTGAAACGTATATGGGTACATTATCAACAGAAAAGTATACG
1 ATAGTTGAAATGTATATGGGTGCATTATCAACAGAAAAGTATACT
* * * *
519358 ATGGTTGAAATGTATATGGATACATTATCAACATAAAAGTATACT
1 ATAGTTGAAATGTATATGGGTGCATTATCAACAGAAAAGTATACT
* * *
519403 ATAGTTGAAATGCATATGGGTGCCTTATCAACAAAAAAGT
1 ATAGTTGAAATGTATATGGGTGCATTATCAACAGAAAAGT
519443 TGTTAGAATT
Statistics
Matches: 150, Mismatches: 25, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 150 1.00
ACGTcount: A:0.42, C:0.11, G:0.18, T:0.29
Consensus pattern (45 bp):
ATAGTTGAAATGTATATGGGTGCATTATCAACAGAAAAGTATACT
Found at i:523574 original size:301 final size:300
Alignment explanation
Indices: 523009--523610 Score: 1143
Period size: 301 Copynumber: 2.0 Consensus size: 300
522999 AAGAAGAGAT
523009 GATAGATGCGTATATACGGGGAAGGCTTTATATTCCAGTTGATGATGATCTAAGGAGAGATATTC
1 GATAGATGCGTATATACGGGGAAGGCTTTATATTCCAGTTGATGATGATCTAAGGAGAGATATTC
523074 TTTACAAAGCCCATTATAGCCCTTTGACTATGCATCTAGGCGGGAATAAGATGTATCAAGACTTG
66 TTTACAAAGCCCATTATAGCCCTTTGACTATGCATCTAGGCGGGAATAAGATGTATCAAGACTTG
*
523139 AAGAGTCGTTATTGGTGGCCTGGAATGAAAAGAGCAGTAACAGAATTTATAGCTATATGTTTATC
131 AAGAGTCATTATTGGTGGCCTGGAATGAAAAGAGCAGTAACAGAATTTATAGCTATATGTTTATC
* *
523204 ATGTCAGCAAGTGAAAACTGAGCATCAGGTGCCATCCAGATTACTGTAGCCTATATCTATTCCTG
196 ATGTCAGCAAGTGAAAACTGAGCATCAGGTACCATCCAGATTACTGCAGCCTATATCTATTCCTG
523269 AATGGAAGTGTGAACGAGTAACAATGGA-TTTATTTTGGG
261 AATGGAAGTGTGAACGAGTAACAATGGATTTTATTTTGGG
523308 GATAGATGCGTATATTACCGGGGAAGGCTTTATATTCCAGTTGATGATGATCTAAGGAGAGATAT
1 GATAGATGCGTATA-TA-CGGGGAAGGCTTTATATTCCAGTTGATGATGATCTAAGGAGAGATAT
523373 TCTTTACAAAGCCCATTATAGCCCTTTGACTATGCATCTAGGCGGGAATAAGATGTATCAAGACT
64 TCTTTACAAAGCCCATTATAGCCCTTTGACTATGCATCTAGGCGGGAATAAGATGTATCAAGACT
523438 TGAAGAGTCATTATTGGTGGCCTGGAATGAAAAGAGCAGTAACAGAATTTATAGCTATATGTTTA
129 TGAAGAGTCATTATTGGTGGCCTGGAATGAAAAGAGCAGTAACAGAATTTATAGCTATATGTTTA
*
523503 TCATGTCAGCAAGTGAAAACTGAGCATCAGGTACCATCCAGATTACTGCAGCCTATATCTATTCT
194 TCATGTCAGCAAGTGAAAACTGAGCATCAGGTACCATCCAGATTACTGCAGCCTATATCTATTCC
523568 TGAATGGAAGTGTGAACGAGTAACAATGGATTTTATTTTGGG
259 TGAATGGAAGTGTGAACGAGTAACAATGGATTTTATTTTGGG
523610 G
1 G
523611 TTACCGTTGT
Statistics
Matches: 296, Mismatches: 4, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
299 14 0.05
300 2 0.01
301 268 0.91
302 12 0.04
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.30
Consensus pattern (300 bp):
GATAGATGCGTATATACGGGGAAGGCTTTATATTCCAGTTGATGATGATCTAAGGAGAGATATTC
TTTACAAAGCCCATTATAGCCCTTTGACTATGCATCTAGGCGGGAATAAGATGTATCAAGACTTG
AAGAGTCATTATTGGTGGCCTGGAATGAAAAGAGCAGTAACAGAATTTATAGCTATATGTTTATC
ATGTCAGCAAGTGAAAACTGAGCATCAGGTACCATCCAGATTACTGCAGCCTATATCTATTCCTG
AATGGAAGTGTGAACGAGTAACAATGGATTTTATTTTGGG
Found at i:524891 original size:9 final size:9
Alignment explanation
Indices: 524877--524969 Score: 78
Period size: 9 Copynumber: 9.7 Consensus size: 9
524867 GTGGCTGGAA
524877 ACCGGTTTG
1 ACCGGTTTG
*
524886 ACCGGTTTCAA
1 ACCGGTTT--G
*
524897 ACTGGTTCTG
1 ACCGGTT-TG
524907 ACCGGTTTG
1 ACCGGTTTG
*
524916 ACCGGTTTCA
1 ACCGGTTT-G
*
524926 ACCGGTTCG
1 ACCGGTTTG
524935 AACCGGTTTG
1 -ACCGGTTTG
*
524945 ACCGGTCTG
1 ACCGGTTTG
*
524954 AATCGGTTTG
1 -ACCGGTTTG
524964 ACCGGT
1 ACCGGT
524970 CGACCCGACC
Statistics
Matches: 66, Mismatches: 12, Indels: 12
0.73 0.13 0.13
Matches are distributed among these distances:
9 31 0.47
10 28 0.42
11 6 0.09
12 1 0.02
ACGTcount: A:0.16, C:0.25, G:0.29, T:0.30
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:524942 original size:29 final size:31
Alignment explanation
Indices: 524876--524950 Score: 120
Period size: 29 Copynumber: 2.5 Consensus size: 31
524866 AGTGGCTGGA
*
524876 AACCGGTTTGACCGGTTTCAAACTGGTTCTG
1 AACCGGTTTGACCGGTTTCAAACCGGTTCTG
524907 -ACCGGTTTGACCGGTTTC-AACCGGTTC-G
1 AACCGGTTTGACCGGTTTCAAACCGGTTCTG
524935 AACCGGTTTGACCGGT
1 AACCGGTTTGACCGGT
524951 CTGAATCGGT
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 1 0.02
29 23 0.55
30 18 0.43
ACGTcount: A:0.17, C:0.25, G:0.28, T:0.29
Consensus pattern (31 bp):
AACCGGTTTGACCGGTTTCAAACCGGTTCTG
Found at i:524960 original size:29 final size:28
Alignment explanation
Indices: 524877--524969 Score: 114
Period size: 29 Copynumber: 3.2 Consensus size: 28
524867 GTGGCTGGAA
524877 ACCGGTTTGACCGGTTTCAAACTGGTTCTG
1 ACCGGTTTGACCGGTTTCAAAC-GGTTC-G
*
524907 ACCGGTTTGACCGGTTTCAACCGGTTCG
1 ACCGGTTTGACCGGTTTCAAACGGTTCG
* * * *
524935 AACCGGTTTGACCGGTCTGAATCGGTTTG
1 -ACCGGTTTGACCGGTTTCAAACGGTTCG
524964 ACCGGT
1 ACCGGT
524970 CGACCCGACC
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
28 7 0.12
29 29 0.51
30 21 0.37
ACGTcount: A:0.16, C:0.25, G:0.29, T:0.30
Consensus pattern (28 bp):
ACCGGTTTGACCGGTTTCAAACGGTTCG
Found at i:524970 original size:19 final size:19
Alignment explanation
Indices: 524876--524970 Score: 86
Period size: 19 Copynumber: 4.9 Consensus size: 19
524866 AGTGGCTGGA
* *
524876 AACCGGTTTGACCGGTTTCA
1 AACCGGTTTGACCGGTCT-G
* *
524896 AACTGGTTCTGACCGGTTTG
1 AACCGGTT-TGACCGGTCTG
*
524916 -ACCGGTTTCAACCGGT-TCG
1 AACCGGTTT-GACCGGTCT-G
524935 AACCGGTTTGACCGGTCTG
1 AACCGGTTTGACCGGTCTG
*
524954 AATCGGTTTGACCGGTC
1 AACCGGTTTGACCGGTC
524971 GACCCGACCG
Statistics
Matches: 64, Mismatches: 6, Indels: 11
0.79 0.07 0.14
Matches are distributed among these distances:
18 2 0.03
19 36 0.56
20 16 0.25
21 10 0.16
ACGTcount: A:0.17, C:0.25, G:0.28, T:0.29
Consensus pattern (19 bp):
AACCGGTTTGACCGGTCTG
Found at i:525001 original size:20 final size:21
Alignment explanation
Indices: 524974--525025 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
524964 ACCGGTCGAC
524974 CCGA-CCGACCGTTGA-CCGA
1 CCGACCCGACCGTTGACCCGA
*
524993 CCGACCCGA-CATTGACCCGA
1 CCGACCCGACCGTTGACCCGA
525013 CCGACCCGACCGT
1 CCGACCCGACCGT
525026 GACTTCTTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 9 0.32
20 17 0.61
21 2 0.07
ACGTcount: A:0.21, C:0.46, G:0.23, T:0.10
Consensus pattern (21 bp):
CCGACCCGACCGTTGACCCGA
Found at i:532035 original size:9 final size:9
Alignment explanation
Indices: 532021--532118 Score: 72
Period size: 9 Copynumber: 10.3 Consensus size: 9
532011 GCTGCTGGAA
532021 ACCGGTTTG
1 ACCGGTTTG
*
532030 ACCGGTTTTCA
1 ACCGG-TTT-G
532041 ACCGGTTCTG
1 ACCGGTT-TG
532051 ACCGGTTTG
1 ACCGGTTTG
*
532060 ACC-GTTTCA
1 ACCGGTTT-G
*
532069 ACCGGTTCG
1 ACCGGTTTG
*
532078 AACGGTTTG
1 ACCGGTTTG
*
532087 ACCGGTCTG
1 ACCGGTTTG
*
532096 AATCGGTTTTG
1 -ACCGG-TTTG
*
532107 ACCGGTCTG
1 ACCGGTTTG
532116 ACC
1 ACC
532119 CGACCCGACC
Statistics
Matches: 69, Mismatches: 13, Indels: 14
0.72 0.14 0.15
Matches are distributed among these distances:
8 4 0.06
9 33 0.48
10 23 0.33
11 9 0.13
ACGTcount: A:0.15, C:0.27, G:0.28, T:0.31
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:532045 original size:20 final size:21
Alignment explanation
Indices: 532020--532058 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
532010 GGCTGCTGGA
532020 AACCGGTT-TGACCGGTTTTC
1 AACCGGTTCTGACCGGTTTTC
532040 AACCGGTTCTGACCGGTTT
1 AACCGGTTCTGACCGGTTT
532059 GACCGTTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.15, C:0.26, G:0.26, T:0.33
Consensus pattern (21 bp):
AACCGGTTCTGACCGGTTTTC
Found at i:532076 original size:28 final size:29
Alignment explanation
Indices: 532021--532118 Score: 119
Period size: 28 Copynumber: 3.4 Consensus size: 29
532011 GCTGCTGGAA
532021 ACCGGTTTGACCGGTTTTCAACCGGTTCTG
1 ACCGGTTTGACCGG-TTTCAACCGGTTCTG
532051 ACCGGTTTGACC-GTTTCAACCGGTTC-G
1 ACCGGTTTGACCGGTTTCAACCGGTTCTG
* * * * *
532078 AACGGTTTGACCGGTCTGAATCGGTTTTG
1 ACCGGTTTGACCGGTTTCAACCGGTTCTG
*
532107 ACCGGTCTGACC
1 ACCGGTTTGACC
532119 CGACCCGACC
Statistics
Matches: 59, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
27 12 0.20
28 23 0.39
29 12 0.20
30 12 0.20
ACGTcount: A:0.15, C:0.27, G:0.28, T:0.31
Consensus pattern (29 bp):
ACCGGTTTGACCGGTTTCAACCGGTTCTG
Found at i:532125 original size:5 final size:5
Alignment explanation
Indices: 532115--532167 Score: 52
Period size: 5 Copynumber: 9.8 Consensus size: 5
532105 TGACCGGTCT
* *
532115 GACCC GACCC GACCGTT GACCC GACCC GACCC GACCGTT GACCC GACCC
1 GACCC GACCC GACC--C GACCC GACCC GACCC GACC--C GACCC GACCC
532164 GACC
1 GACC
532168 GTTGACCGTT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
5 32 0.80
7 8 0.20
ACGTcount: A:0.19, C:0.51, G:0.23, T:0.08
Consensus pattern (5 bp):
GACCC
Found at i:532136 original size:17 final size:17
Alignment explanation
Indices: 532114--532174 Score: 77
Period size: 17 Copynumber: 3.3 Consensus size: 17
532104 TTGACCGGTC
532114 TGACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
532131 TGACCCGACCCGACCCGACCGT
1 T-----GACCCGACCCGACCGT
532153 TGACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
532170 TGACC
1 TGACC
532175 GTTGACCGTT
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
17 22 0.56
22 17 0.44
ACGTcount: A:0.18, C:0.48, G:0.23, T:0.11
Consensus pattern (17 bp):
TGACCCGACCCGACCGT
Found at i:532141 original size:22 final size:22
Alignment explanation
Indices: 532115--532181 Score: 107
Period size: 22 Copynumber: 3.0 Consensus size: 22
532105 TGACCGGTCT
532115 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
532137 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
*
532159 GACCCGACCGTTGACCGTTGACC
1 GACCCGACC--CGACCGTTGACC
532182 GTTGACCGTT
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
22 31 0.74
24 11 0.26
ACGTcount: A:0.18, C:0.46, G:0.24, T:0.12
Consensus pattern (22 bp):
GACCCGACCCGACCGTTGACCC
Found at i:532174 original size:7 final size:7
Alignment explanation
Indices: 532164--532194 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
532154 GACCCGACCC
532164 GACCGTT
1 GACCGTT
532171 GACCGTT
1 GACCGTT
532178 GACCGTT
1 GACCGTT
532185 GACCGTT
1 GACCGTT
532192 GAC
1 GAC
532195 TTTCTTTGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.16, C:0.29, G:0.29, T:0.26
Consensus pattern (7 bp):
GACCGTT
Found at i:533112 original size:62 final size:62
Alignment explanation
Indices: 533046--533167 Score: 151
Period size: 62 Copynumber: 2.0 Consensus size: 62
533036 CTAATGTGAC
* * *
533046 TCTTAGGTAGG-CTCTGCGGCCCTGAGATC-ATCTCGGGTAGGCCCTGC-GGCCCTAAGATGTGT
1 TCTTAGGTAGGCCTC-ACGGCCCCGAAATCTATCT-GGGTAGGCCCT-CAGGCCCTAAGATGTGT
* *
533108 TCTTAGGTAGGCCTCACGGCCCCGAAATCTATCTTGGTAGGCTCTCAGGCCCTAAGATGT
1 TCTTAGGTAGGCCTCACGGCCCCGAAATCTATCTGGGTAGGCCCTCAGGCCCTAAGATGT
533168 TCCCTTAGGG
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
61 1 0.02
62 44 0.85
63 7 0.13
ACGTcount: A:0.17, C:0.28, G:0.29, T:0.26
Consensus pattern (62 bp):
TCTTAGGTAGGCCTCACGGCCCCGAAATCTATCTGGGTAGGCCCTCAGGCCCTAAGATGTGT
Found at i:535054 original size:21 final size:20
Alignment explanation
Indices: 535001--535063 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 20
534991 TGATATATTA
535001 AGGGGCTATCGATATCCTAA-T
1 AGGGG-TATCGATA-CCTAAGT
535022 AGGGTAGTATCGATACCATAAGT
1 AGGG--GTATCGATACC-TAAGT
535045 AGGGGTATCGATACCTAAG
1 AGGGGTATCGATACCTAAG
535064 GGCTAGAAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
20 4 0.11
21 17 0.45
22 11 0.29
23 6 0.16
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.25
Consensus pattern (20 bp):
AGGGGTATCGATACCTAAGT
Found at i:535801 original size:79 final size:79
Alignment explanation
Indices: 535639--535801 Score: 229
Period size: 79 Copynumber: 2.1 Consensus size: 79
535629 AAACGAATGT
* *
535639 AAAAGAATAATGCATATGGGTGCATTATGGGCATGAAAGGATGCCATAGCTGAAATGTATATGGG
1 AAAAGAATAATGCATATGGGTGCAATATGGGCATGAAAGGATGCCATAGCTGAAATGCATATGGG
* * *
535704 TACATTCTCAGCAT
66 TACATTATCAACAG
* * * *
535718 AAAAGAATAATGCATATGGGTGTAATATGGGCATGAAAGGATGTCATAGTTGAAATGCGTATGGG
1 AAAAGAATAATGCATATGGGTGCAATATGGGCATGAAAGGATGCCATAGCTGAAATGCATATGGG
535783 -AGCATTATCAACAG
66 TA-CATTATCAACAG
535797 AAAAG
1 AAAAG
535802 TATGCTAAAG
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
78 1 0.01
79 73 0.99
ACGTcount: A:0.38, C:0.10, G:0.26, T:0.25
Consensus pattern (79 bp):
AAAAGAATAATGCATATGGGTGCAATATGGGCATGAAAGGATGCCATAGCTGAAATGCATATGGG
TACATTATCAACAG
Found at i:535814 original size:45 final size:45
Alignment explanation
Indices: 535763--535981 Score: 303
Period size: 45 Copynumber: 4.9 Consensus size: 45
535753 AAAGGATGTC
* * *
535763 ATAGTTGAAATGCGTATGGGAGCATTATCAACAGAAAAGTATGCT
1 ATAGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATACT
* *
535808 AAAGTTGAAATTCATATGGGTGCATTATCAACAGAAAAGTATACT
1 ATAGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATACT
** ** *
535853 GGAGTTGAAATATATATGGGTGCATTATCAACAGAAAAATATACT
1 ATAGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATACT
* * *
535898 ATGGTTGAAATGCATATGGGTACATTATCAACATAAAAGTATACT
1 ATAGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATACT
* *
535943 ATAGTTGAAATGCATATGGGTGCCTTATCAATAGAAAAG
1 ATAGTTGAAATGCATATGGGTGCATTATCAACAGAAAAG
535982 ATGTTAGGAT
Statistics
Matches: 151, Mismatches: 23, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 151 1.00
ACGTcount: A:0.40, C:0.11, G:0.21, T:0.29
Consensus pattern (45 bp):
ATAGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATACT
Found at i:541362 original size:21 final size:21
Alignment explanation
Indices: 541336--541389 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
541326 TTTCTATAAA
*
541336 AAGGATTGATCCCTTGGTCGG
1 AAGGATTGATCCCTTGGCCGG
541357 AAGGATTGATCCCTTGGCCGG
1 AAGGATTGATCCCTTGGCCGG
541378 AAGGATTGATCC
1 AAGGATTGATCC
541390 GAAACTCACT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.22, C:0.20, G:0.31, T:0.26
Consensus pattern (21 bp):
AAGGATTGATCCCTTGGCCGG
Found at i:541449 original size:21 final size:21
Alignment explanation
Indices: 541412--541461 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
541402 TTTGCTTATA
* * *
541412 ATCGAT-CCCTGTGAAAAATG
1 ATCGATCCCCTCTAAAAAAAG
541432 ATCGATCCCCTCTAAAAAAAG
1 ATCGATCCCCTCTAAAAAAAG
541453 ATCGATCCC
1 ATCGATCCC
541462 TTCGTTTTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 6 0.23
21 20 0.77
ACGTcount: A:0.36, C:0.28, G:0.14, T:0.22
Consensus pattern (21 bp):
ATCGATCCCCTCTAAAAAAAG
Found at i:545395 original size:27 final size:26
Alignment explanation
Indices: 545365--545421 Score: 73
Period size: 24 Copynumber: 2.2 Consensus size: 26
545355 ATTTTGAAGT
545365 AATAAAAATCTTATTTAATTATTCTGA
1 AATAAAAA-CTTATTTAATTATTCTGA
*
545392 AAT--AAAGTTATTTAATTATTCTGA
1 AATAAAAACTTATTTAATTATTCTGA
*
545416 ATTAAA
1 AATAAA
545422 TATTCATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 19 0.73
25 3 0.12
26 1 0.04
27 3 0.12
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (26 bp):
AATAAAAACTTATTTAATTATTCTGA
Found at i:545407 original size:24 final size:24
Alignment explanation
Indices: 545375--545421 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
545365 AATAAAAATC
545375 TTATTTAATTATTCTGAAATAAAG
1 TTATTTAATTATTCTGAAATAAAG
*
545399 TTATTTAATTATTCTGAATTAAA
1 TTATTTAATTATTCTGAAATAAA
545422 TATTCATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.49
Consensus pattern (24 bp):
TTATTTAATTATTCTGAAATAAAG
Found at i:547817 original size:40 final size:40
Alignment explanation
Indices: 547762--547920 Score: 273
Period size: 40 Copynumber: 4.0 Consensus size: 40
547752 AGATTTATAG
547762 TACACTTCGGTGTATATGGTGGGCACGACCTTATGTGTAA
1 TACACTTCGGTGTATATGGTGGGCACGACCTTATGTGTAA
547802 TACACTTCGGTGTATATGGTGGGCACGACCTTATGTGTAA
1 TACACTTCGGTGTATATGGTGGGCACGACCTTATGTGTAA
*
547842 TATACTTCGGTGTATATGGTGGGCACGACCTTATGTGTAA
1 TACACTTCGGTGTATATGGTGGGCACGACCTTATGTGTAA
* * * *
547882 AAGAATTCGGTGTATATGGTGGACACGACCTTATGTGTA
1 TACACTTCGGTGTATATGGTGGGCACGACCTTATGTGTA
547921 GCACTACGGT
Statistics
Matches: 114, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 114 1.00
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.33
Consensus pattern (40 bp):
TACACTTCGGTGTATATGGTGGGCACGACCTTATGTGTAA
Found at i:548095 original size:22 final size:22
Alignment explanation
Indices: 548069--548137 Score: 56
Period size: 22 Copynumber: 3.1 Consensus size: 22
548059 TATATTGGTA
548069 AAATAAGCTTACGAGCTTATGG
1 AAATAAGCTTACGAGCTTATGG
*
548091 AAATAATG-GTA--AG-TATATTGG
1 AAATAA-GCTTACGAGCT-TA-TGG
548112 TAAAATAAGCTTACGAGCTTATGG
1 --AAATAAGCTTACGAGCTTATGG
548136 AA
1 AA
548138 TAAATGGTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 18
0.64 0.04 0.32
Matches are distributed among these distances:
19 1 0.03
20 4 0.11
21 3 0.08
22 11 0.31
23 9 0.25
24 3 0.08
25 4 0.11
26 1 0.03
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.29
Consensus pattern (22 bp):
AAATAAGCTTACGAGCTTATGG
Found at i:548186 original size:45 final size:45
Alignment explanation
Indices: 548024--548188 Score: 244
Period size: 45 Copynumber: 3.7 Consensus size: 45
548014 GGTAAACATG
* *
548024 AAAATAAGCTTACGAGCTTATGGAAT-AATGGCACGTATATTGGT
1 AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGT
548068 AAAATAAGCTTACGAGCTTATGGAA-ATAATGGTAAGTATATTGGT
1 AAAATAAGCTTACGAGCTTATGGAATA-AATGGTAAGTATATTGGT
*
548113 AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATTTTGGT
1 AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGT
* * * *
548158 ATAATAAGCTTACAAGCTCATGGGATAAATG
1 AAAATAAGCTTACGAGCTTATGGAATAAATG
548189 ATGATAAATT
Statistics
Matches: 111, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
44 25 0.23
45 85 0.77
46 1 0.01
ACGTcount: A:0.39, C:0.09, G:0.22, T:0.30
Consensus pattern (45 bp):
AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGT
Found at i:552481 original size:54 final size:53
Alignment explanation
Indices: 552410--552751 Score: 389
Period size: 54 Copynumber: 6.3 Consensus size: 53
552400 TATAAGTTCT
* * ** *
552410 TGGGGTGCACACGTAGTGTCGATATAGTCGTTCATAAACTTATTATGGATTCTG
1 TGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACTTATTATGAATT-TG
* * *
552464 TGGGTTGCACACTTAGTGCCGATATGATCGTTCATAAACTTATTATGAATTATG
1 TGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACTTATTATGAATT-TG
* *
552518 TGGGTTGCACACTTAGTCTCGATACGGTCGTTTATAAACTTATTATGAATTTCG
1 TGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACTTATTATGAATTT-G
* * *
552572 TGGGTTGCACACTTTGTGTCGAGACGGTCGTTCATAAACTTATTATGAATTCTT
1 TGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACTTATTATGAATT-TG
* * * *
552626 TGGATTGCACACTTAGTGTCAATACAGTC-TCTCATAAATTTATTATGAATTTCG
1 TGGGTTGCACACTTAGTGTCGATACGGTCGT-TCATAAACTTATTATGAATTT-G
* * * * * *
552680 TGGGTTTCACACTTTGTGACGGTATGGTCGTTCATAAACTTGTTATGAATTTCG
1 TGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACTTATTATGAATTT-G
* *
552734 TGGGTTGTACATTTAGTG
1 TGGGTTGCACACTTAGTG
552752 GTTACTCCTT
Statistics
Matches: 245, Mismatches: 38, Indels: 10
0.84 0.13 0.03
Matches are distributed among these distances:
53 3 0.01
54 240 0.98
55 2 0.01
ACGTcount: A:0.24, C:0.15, G:0.22, T:0.39
Consensus pattern (53 bp):
TGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACTTATTATGAATTTG
Found at i:558791 original size:20 final size:19
Alignment explanation
Indices: 558768--558813 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
558758 ACAGTAGAAG
*
558768 TACTATTAATACAATATCGA
1 TACTATTAATACAATA-CAA
* *
558788 TACTATTTATACAGTACAA
1 TACTATTAATACAATACAA
558807 TACTATT
1 TACTATT
558814 CATAAAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.41, C:0.15, G:0.04, T:0.39
Consensus pattern (19 bp):
TACTATTAATACAATACAA
Found at i:559985 original size:19 final size:19
Alignment explanation
Indices: 559948--559995 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
559938 ATATACGAGT
*
559948 ATTTAACATACAAATTCAA
1 ATTTAACATACAAAGTCAA
* *
559967 ATTTTACATATAAAGTCAA
1 ATTTAACATACAAAGTCAA
* *
559986 CTTAAACATA
1 ATTTAACATA
559996 AGTTACCTAA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.50, C:0.15, G:0.02, T:0.33
Consensus pattern (19 bp):
ATTTAACATACAAAGTCAA
Found at i:561818 original size:21 final size:21
Alignment explanation
Indices: 561794--561833 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
561784 ATCCTTCTAA
* *
561794 CTAATGGATCGATCTTTTCCC
1 CTAAGGGATCAATCTTTTCCC
*
561815 CTAAGGGATCAATTTTTTC
1 CTAAGGGATCAATCTTTTC
561834 TGCAAAAGTG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.40
Consensus pattern (21 bp):
CTAAGGGATCAATCTTTTCCC
Found at i:569041 original size:22 final size:21
Alignment explanation
Indices: 568998--569042 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
568988 GTTTGTTATT
* *
568998 ATATATATGTTTTTATCGTGA
1 ATATATATGTGTTTATCATGA
*
569019 ATATATATGATGTTTATTATGA
1 ATATATATG-TGTTTATCATGA
569041 AT
1 AT
569043 GTTACTTCGG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.33, C:0.02, G:0.13, T:0.51
Consensus pattern (21 bp):
ATATATATGTGTTTATCATGA
Found at i:583809 original size:20 final size:20
Alignment explanation
Indices: 583784--583821 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
583774 AGCAATATAC
583784 CTACTTTAGAACCTAAGAAT
1 CTACTTTAGAACCTAAGAAT
583804 CTACTTTAGAACCTAAGA
1 CTACTTTAGAACCTAAGA
583822 TTCGGAGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.29
Consensus pattern (20 bp):
CTACTTTAGAACCTAAGAAT
Found at i:590273 original size:95 final size:95
Alignment explanation
Indices: 590137--590347 Score: 237
Period size: 95 Copynumber: 2.2 Consensus size: 95
590127 ATACCGCCAA
* * * *
590137 GGTAGTATCGATACCATGGTAAGGGTATCAATACCATGCAACATCGAATATAAAATTGGA-ATCG
1 GGTAGTATCGATACCATGGTAAGGGCATCAATACCAAGCAACATCAAACATAAAATT-GATATCG
590201 ATACCGAAAGAGGGTATC-AGTACCATAGTAT
65 ATACCGAAAGAGGGTATCTA-TACCATAGTAT
* * * * * * *
590232 GGTAGTATTGATACCATGGTAAGGGCATCGATACTAAGCAACTTCAAACCTAAACTTTATATCGA
1 GGTAGTATCGATACCATGGTAAGGGCATCAATACCAAGCAACATCAAACATAAAATTGATATCGA
* *
590297 TACCGTAAGGGGGTATCTATACCATAGTAT
66 TACCGAAAGAGGGTATCTATACCATAGTAT
* * * *
590327 TGAAGTATCGGTACCAGGGTA
1 GGTAGTATCGATACCATGGTA
590348 GTAGTATCGA
Statistics
Matches: 96, Mismatches: 18, Indels: 4
0.81 0.15 0.03
Matches are distributed among these distances:
94 1 0.01
95 94 0.98
96 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.26
Consensus pattern (95 bp):
GGTAGTATCGATACCATGGTAAGGGCATCAATACCAAGCAACATCAAACATAAAATTGATATCGA
TACCGAAAGAGGGTATCTATACCATAGTAT
Found at i:592057 original size:59 final size:59
Alignment explanation
Indices: 590645--592050 Score: 2016
Period size: 59 Copynumber: 23.9 Consensus size: 59
590635 TTACAAAAAA
* * ** *
590645 GGCACTTTGTGTGCTAAAATGTCAAGAAATTCATACTAAGTGTATGAATTTCCATATAG
1 GGCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCCATATAG
* * *
590704 GGCACATCGTGTGCTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTTCATATCG
1 GGCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCCATATAG
* * * *
590763 GGTA-TTTGTGTTCTAACATGAGAAGAAATTCATACTAAGTGTATGAATTTCCATATAG
1 GGCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCCATATAG
* *
590821 GGCACTTTGTGTGCTAACATGAGAAAGAATTCATACTAAGTGTATGAATTTCCATATAG
1 GGCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCCATATAG
590880 GGCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCCATATAG
1 GGCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCCATATAG
*
590939 GGCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTGTGTGAATTTCCATATAG
1 GGCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCCATATAG
* * * * *
590998 GGCACTTCATGTGCTAACATGAGAATGAGTTTATACTAAGTGTATGAATTTCTATATAG
1 GGCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCCATATAG
* * * *
591057 AGCACTTCGTGTGCTAACATGAGACGAAATTCATACTAAGTGTATGAATTTCCATATAA
1 GGCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCCATATAG
* *
591116 GGCTCTTCGTGTGCTAACATGAGAAGGAATTCATACTGAGTGTATGAATTTCCATATAG
1 GGCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCCATATAG
* * *
591175 GGCACTTCGTGTGATAACATGAGAAGGAATTCATACTAAGTATAAGAATTTCCATATAG
1 GGCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCCATATAG
591234 GGCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCCATATAG
1 GGCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCCATATAG
* * * * * * * *
591293 GACACTTCGTGTCCTAACATGAAAAGGAATTCATTCTAAGTTTATAAACTTCCATACAG
1 GGCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCCATATAG
* *
591352 GGCACTTCGTGTGCTAACATGAGAAGGAATT-AGTACCAAGTGTATAAATTTCCATATAG
1 GGCACTTCGTGTGCTAACATGAGAAGGAATTCA-TACTAAGTGTATGAATTTCCATATAG
*
591411 GGCACTTCGTGTGCTAACATGATAAGGAATTCATACTAAGTGTATGAATTTCCATATAG
1 GGCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCCATATAG
* * * *
591470 GGTAATTCGTGTGCTAACATGAGAAGAAATTCATACTAAGCGTATGAATTTCCATATAG
1 GGCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCCATATAG
** * *
591529 GGCACTTCGTGTGCTAATGTGTGAAGGAATTCATACTAAGTGTATGAATTTCGATATAG
1 GGCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCCATATAG
* * * * * *
591588 GGTACTTCATGTGCTAACATGAGAATGAATTCATGCTAAGTTTATGAACTTCCATATAG
1 GGCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCCATATAG
*
591647 GGCACTTCGTGTGCTAACATGAGAAGGAATTC--A-TAAGTGTATGAATTTCTATATAG
1 GGCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCCATATAG
* * *
591703 GGCACTTCGTGTGCTAACATTAGAAGAAATTCATACTAAGTGTATGAATTTTCATATAG
1 GGCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCCATATAG
* * * * * *
591762 GGTACTTTGTGTGCTAACATGAGTAGAAATTCATACTAAGTGTATGAATTTCAATATAT
1 GGCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCCATATAG
* *
591821 GGCA-TTCCGTGTGCTAACATGAGAAGAAATTCATACTAAGTGTATGAATTTCTATATAG
1 GGCACTT-CGTGTGCTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCCATATAG
* *
591880 GGCACTTCGTGTGCTAACATGAGAAGGAATTCATACGAAGTGTATGAATTTCTATATAG
1 GGCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCCATATAG
* * * * * * *
591939 GGCACTTCGTGTGGTAAAATGATAAGAAAATCATACTAAGTGTATGAATTTCCAGATGG
1 GGCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCCATATAG
* * * * *
591998 GGCACCTT-GTGTGCTAAAATTATAAGAAATTCATGCTAAGTGTATGAATTTCC
1 GGCA-CTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCC
592051 GTATGGGATA
Statistics
Matches: 1207, Mismatches: 131, Indels: 18
0.89 0.10 0.01
Matches are distributed among these distances:
56 50 0.04
58 55 0.05
59 1096 0.91
60 6 0.00
ACGTcount: A:0.33, C:0.14, G:0.21, T:0.32
Consensus pattern (59 bp):
GGCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCCATATAG
Found at i:592532 original size:81 final size:81
Alignment explanation
Indices: 592388--592701 Score: 414
Period size: 81 Copynumber: 3.9 Consensus size: 81
592378 ACTATTCCAT
* * * * ** *
592388 GTAAAAGAATAATAGTCTAGTTATGCATTTGACAGAAAGGTGTCAATTATTCCAATTATATGAAC
1 GTAAAAGAATAATAGCCTAGTTGTGCATTTGACAGAAATGTGTCAATTATGCCAGCTAGATGAAC
592453 GGTTAAGTACCATTGA
66 GGTTAAGTACCATTGA
592469 GTAAAAGAATAATAGCCTAGTTGTGCATTTGACAGAAATGTGTCAATTATGCCAGCTAGATGAAC
1 GTAAAAGAATAATAGCCTAGTTGTGCATTTGACAGAAATGTGTCAATTATGCCAGCTAGATGAAC
592534 GGTTAAGTACCATTGA
66 GGTTAAGTACCATTGA
* *
592550 CTAAAAGAATAATAGCCTAGTTGTGAATTTGACAGAAATGTGTCAATTATGCCAGCTAGATGAAC
1 GTAAAAGAATAATAGCCTAGTTGTGCATTTGACAGAAATGTGTCAATTATGCCAGCTAGATGAAC
* * *
592615 GATTAAGTAACGTTGA
66 GGTTAAGTACCATTGA
* * * * * * * * *
592631 GTAAAAGGATAATAGCGTAGCTGTGCATTCGACATAAA-GTTGACAATTATGCAAGTTAGAGGAA
1 GTAAAAGAATAATAGCCTAGTTGTGCATTTGACAGAAATG-TGTCAATTATGCCAGCTAGATGAA
*
592695 TGGTTAA
65 CGGTTAA
592702 ACATTGTTGA
Statistics
Matches: 207, Mismatches: 25, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
80 1 0.00
81 206 1.00
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.29
Consensus pattern (81 bp):
GTAAAAGAATAATAGCCTAGTTGTGCATTTGACAGAAATGTGTCAATTATGCCAGCTAGATGAAC
GGTTAAGTACCATTGA
Found at i:592810 original size:2 final size:2
Alignment explanation
Indices: 592803--592833 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
592793 ATATGAAGGA
592803 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
592834 ATGTTCAACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:595204 original size:2 final size:2
Alignment explanation
Indices: 595192--595230 Score: 69
Period size: 2 Copynumber: 19.0 Consensus size: 2
595182 GAAGAGAATG
595192 AT AT CAT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
595231 TGGTTAATGT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 34 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:595655 original size:59 final size:59
Alignment explanation
Indices: 595558--596571 Score: 1438
Period size: 59 Copynumber: 17.2 Consensus size: 59
595548 ATGAACTTTA
* * *
595558 TGTGATAACATGAGAAAGAATTCATACTAAGTGTATGAACTTCCATATAGGGCACTTCG
1 TGTGCTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCG
595617 TGTGCTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCG
1 TGTGCTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCG
* * *
595676 TGTGCTAGCATGAGAAGGAATTCATACTAAGTGTATAAATTTCCATATAGGGCACTTCC
1 TGTGCTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCG
* * * *
595735 TGTGCTAACATGAAAAGGAATTCATACTAAATGTATGAACTTCCACATAGGGCACTTCG
1 TGTGCTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCG
* * * * *
595794 TCTGCTAACATGAGAAGGGATTCATACTAAGTGTATGAATTTTCATATAAGGCACTTCA
1 TGTGCTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCG
** * * *
595853 TGTGCTAACATGAGAAAAAAATTCATAATAAGTGTTTGAATTTCCATATAGGGCATTTCG
1 TGTGCTAACATGAG-AAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCG
*
595913 TGTGCTAACATCAGAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCG
1 TGTGCTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCG
* * * * *
595972 TGTGCTAACATCAGAAGGAATTAATACTAAGTGTATGAATTTCCAGATAGAGCACTTCT
1 TGTGCTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCG
* ** * * * *
596031 TGTGCTAACATGATAAAAAATTCATAATAAGTGTTTGAATTTCCATATAGGGCATTTTG
1 TGTGCTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCG
* * * *
596090 TGTGCTAACATCAGAAGGAATTTATACTAAGTGTATGAATTTCCATTTAGGGCACTTCA
1 TGTGCTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCG
* * * * *
596149 TGTGCTAACATGAGAAGGAATTCATACTATGTGTATAAATTTACATAGAGGGTACTTCG
1 TGTGCTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCG
* * * *
596208 TGTGCTAACATGAGAAGGAATTCATACTAAATATATGAATTTCCATATAGGGAACTTCA
1 TGTGCTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCG
* * * *
596267 TGTGATAACATGAGAAAGAATTCATACTAAGTGTATGAACTTCCATATAGGGCACTTTG
1 TGTGCTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCG
* * * *
596326 TGTGCTACCATGAGAAGGAATTCATACTAAGTGTATGACTTTACATATAGGGCACTTTG
1 TGTGCTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCG
*
596385 TGTGCTAACATGAG-AGGAAATTCATACTAAGTGTATGAATTTCCATATAGTGG-ACTTTG
1 TGTGCTAACATGAGAAGG-AATTCATACTAAGTGTATGAATTTCCATATAG-GGCACTTCG
* * *
596444 TGTGCTAACATGAGAAGGAATTCATACTAAGTGTATAAATTTCCATAAAGGGCACTTCC
1 TGTGCTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCG
* * *
596503 TGTGCTAATATGAGAAGGAATTCATACTAAGTGTATGAACTTCCACATAGGGCACTTCG
1 TGTGCTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCG
596562 TGTGCTAACA
1 TGTGCTAACA
596572 ATATGAATTT
Statistics
Matches: 840, Mismatches: 110, Indels: 10
0.88 0.11 0.01
Matches are distributed among these distances:
58 5 0.01
59 781 0.93
60 54 0.06
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (59 bp):
TGTGCTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCG
Found at i:596590 original size:37 final size:37
Alignment explanation
Indices: 596536--596608 Score: 119
Period size: 37 Copynumber: 2.0 Consensus size: 37
596526 ATACTAAGTG
*
596536 TATGAACTTCCACATAGGGCACTTCGTGTGCTAACAA
1 TATGAACTTCCACATAGGGCACTTCATGTGCTAACAA
* *
596573 TATGAATTTCCATATAGGGCACTTCATGTGCTAACA
1 TATGAACTTCCACATAGGGCACTTCATGTGCTAACA
596609 TGAGAAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (37 bp):
TATGAACTTCCACATAGGGCACTTCATGTGCTAACAA
Found at i:596661 original size:98 final size:96
Alignment explanation
Indices: 596481--596669 Score: 279
Period size: 98 Copynumber: 1.9 Consensus size: 96
596471 TAAGTGTATA
* * **
596481 AATTTCCATAAAGGGCACTTCCTGTGCTAATATGAGAAGGAATTCATACTAAGTGTATGAACTTC
1 AATTTCCATAAAGGGCACTTCATGTGCTAACATGAGAAAAAATTCATACTAAGTGTATGAACTTC
596546 CACATAGGGCACTTCGTGTGCTAACAATATG
66 CACATAGGGCACTTCGTGTGCTAACAATATG
* * *
596577 AATTTCCATATAGGGCACTTCATGTGCTAACATGAGAAAAAAAATTCATACTAAGTGTTTGAATT
1 AATTTCCATAAAGGGCACTTCATGTGCTAACATGAG--AAAAAATTCATACTAAGTGTATGAACT
* *
596642 TCCATATAGGGCATTTCGTGTGCTAACA
64 TCCACATAGGGCACTTCGTGTGCTAACA
596670 TCAGAAGGAA
Statistics
Matches: 82, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
96 33 0.40
98 49 0.60
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (96 bp):
AATTTCCATAAAGGGCACTTCATGTGCTAACATGAGAAAAAATTCATACTAAGTGTATGAACTTC
CACATAGGGCACTTCGTGTGCTAACAATATG
Found at i:596704 original size:157 final size:155
Alignment explanation
Indices: 596418--596728 Score: 453
Period size: 157 Copynumber: 2.0 Consensus size: 155
596408 ATACTAAGTG
** **
596418 TATGAATTTCCATATAGTGGACTTTGTGTGCTAACATGAGAAGGAATTCATACTAAGTGTATAAA
1 TATGAATTTCCATATAGTGGACTTCATGTGCTAACATGAGAAAAAATTCATACTAAGTGTATAAA
* *
596483 TTTCCATAAAGGGCACTTCCTGTGCTAATATGAGAAGGAATTCATACTAAGTGTATGAACTTCCA
66 TTTCCATAAAGGGCACTTCCTGTGCTAACATCAGAAGGAATTCATACTAAGTGTATGAACTTCCA
*
596548 CATAGGGCACTTCGTGTGCTAACAA
131 AATAGGGCACTTCGTGTGCTAACAA
*
596573 TATGAATTTCCATATAG-GGCACTTCATGTGCTAACATGAGAAAAAAAATTCATACTAAGTGTTT
1 TATGAATTTCCATATAGTGG-ACTTCATGTGCTAACATGAG--AAAAAATTCATACTAAGTGTAT
* * * * *
596637 GAATTTCCATATAGGGCATTTCGTGTGCTAACATCAGAAGGAATTCATACTAAGTGTATGAATTT
63 AAATTTCCATAAAGGGCACTTCCTGTGCTAACATCAGAAGGAATTCATACTAAGTGTATGAACTT
* *
596702 CCAAATAGGGCACTTCTTTTGCTAACA
128 CCAAATAGGGCACTTCGTGTGCTAACA
596729 TCAGAAAAAA
Statistics
Matches: 138, Mismatches: 15, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
154 2 0.01
155 35 0.25
157 101 0.73
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.32
Consensus pattern (155 bp):
TATGAATTTCCATATAGTGGACTTCATGTGCTAACATGAGAAAAAATTCATACTAAGTGTATAAA
TTTCCATAAAGGGCACTTCCTGTGCTAACATCAGAAGGAATTCATACTAAGTGTATGAACTTCCA
AATAGGGCACTTCGTGTGCTAACAA
Found at i:596710 original size:59 final size:59
Alignment explanation
Indices: 596573--597712 Score: 1566
Period size: 59 Copynumber: 19.3 Consensus size: 59
596563 GTGCTAACAA
* **
596573 TATGAATTTCCATATAGGGCACTTCATGTGCTAACATGAGAAAAAAAATTCATACTAAGTG
1 TATGAATTTCCATATAGGGCACTTCGTGTGCTAACATGAG--AAGGAATTCATACTAAGTG
* * *
596634 TTTGAATTTCCATATAGGGCATTTCGTGTGCTAACATCAGAAGGAATTCATACTAAGTG
1 TATGAATTTCCATATAGGGCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTG
* * * * ** *
596693 TATGAATTTCCAAATAGGGCACTTCTTTTGCTAACATCAGAAAAAATTCATAATAAGTG
1 TATGAATTTCCATATAGGGCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTG
* * * * * *
596752 TTTGAATTTACAAATAGGGCATTTTGTGTGCTAACATCAGAAGGAATTCATACTAAGTG
1 TATGAATTTCCATATAGGGCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTG
* * * *
596811 TATGAATTTCCATTTAGGGCACTTCATGTTCTAACATGAGAAGGAATTCATACTATGTG
1 TATGAATTTCCATATAGGGCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTG
* * ** *
596870 TATGAATTTACATAGAGGGTGCTTCGTGTGCTAACATGAGAAGGAATTCATACTAAATG
1 TATGAATTTCCATATAGGGCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTG
* * * *
596929 TATGAATTTCCATATAGGGAACTTCATGTGATAACATGAGAAAGAATTCATACTAAGTG
1 TATGAATTTCCATATAGGGCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTG
* * *
596988 TACGAACTTCCATATAGGGCACTTCGTGTGCTAACATGAGAAGGAATTCCTACTAAGTG
1 TATGAATTTCCATATAGGGCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTG
* *
597047 TATGACTTTCCATATAGGGCACTTCGTGTGCTAACATGAG-AGGAAATTCATACAAAGTG
1 TATGAATTTCCATATAGGGCACTTCGTGTGCTAACATGAGAAGG-AATTCATACTAAGTG
* *
597106 TATGAATTTCCATATAGGGCACTTTGTGTGCAAACATGAGAAGGAATTCATACTAAGTG
1 TATGAATTTCCATATAGGGCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTG
* * * * *
597165 TATAAATTTCCATACAGGGCACTTCCTTTCCTAACATGAGAAGGAATTCATACTAAGTG
1 TATGAATTTCCATATAGGGCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTG
* * * * *
597224 TTTGAACTTCCACATAGGGCACATCGTGTGCTAACAAT-AGAATGG-ATTCATACTAATTG
1 TATGAATTTCCATATAGGGCACTTCGTGTGCTAAC-ATGAGAA-GGAATTCATACTAAGTG
* * ** *
597283 TATGAATTTCTATATAGGGCACTTCATGTGCTAACATGAGAAAAAATTAATACTAAGTG
1 TATGAATTTCCATATAGGGCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTG
* * * *
597342 TTTGAATTTCCATACAGGGCATTTCGTGTGCTAACATCAGAAGGAATTCATACTAAGTG
1 TATGAATTTCCATATAGGGCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTG
**
597401 TATGAATTTCCATATAGATCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTG
1 TATGAATTTCCATATAGGGCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTG
*
597460 TATGAATTTCCATATAGGGCACTTCGTGTGCTAATATGAGAAGGAATTCATACTAAGTG
1 TATGAATTTCCATATAGGGCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTG
* * **
597519 TATGAATTTTCATATAAGGCACTTCGTGTGCTAACATGAGAAAAAATTCATACTAAGTG
1 TATGAATTTCCATATAGGGCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTG
* * * * *
597578 TTTGAATTTGCATATAGGGCATTTCGTGTGGTAACATCAGAAGGAATTCATACTAAGTG
1 TATGAATTTCCATATAGGGCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTG
* *
597637 TATGAATTTTCATATAGGGCACTTCGTGTGCTATCATGAGAAGGAATTCATACTAAGTG
1 TATGAATTTCCATATAGGGCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTG
597696 TATGAATTTCCATATAG
1 TATGAATTTCCATATAG
597713 AGCATGATAA
Statistics
Matches: 942, Mismatches: 131, Indels: 14
0.87 0.12 0.01
Matches are distributed among these distances:
58 5 0.01
59 894 0.95
60 7 0.01
61 36 0.04
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (59 bp):
TATGAATTTCCATATAGGGCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTG
Found at i:606922 original size:20 final size:20
Alignment explanation
Indices: 606897--606938 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
606887 CTAAAATACA
*
606897 ATTTAGAATCATATAGATGC
1 ATTTAGAAGCATATAGATGC
* *
606917 ATTTAGAAGCATTTAGTTGC
1 ATTTAGAAGCATATAGATGC
606937 AT
1 AT
606939 ATGGTGGATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.38
Consensus pattern (20 bp):
ATTTAGAAGCATATAGATGC
Found at i:608773 original size:59 final size:59
Alignment explanation
Indices: 608677--609215 Score: 747
Period size: 59 Copynumber: 9.1 Consensus size: 59
608667 GCACTTCTTA
** * * *
608677 TGCTAACATGAGAAAAAATTCATAATAAGTGTTTGAATTTCCATATAGGGAATTTCGTG
1 TGCTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGAACTTCGTG
* *
608736 TGCTAACATCAGAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCGTG
1 TGCTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGAACTTCGTG
* * * * * **
608795 TGCTAAAATGAGAAGGAATCCATACTATGTGTATGAATTTACATAGAGGGTTCTTCGTG
1 TGCTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGAACTTCGTG
* *
608854 TGCTAACATGAGAAGGAATTCATACTAAATGTATGAATTTCCATATAGGGAACTTCATG
1 TGCTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGAACTTCGTG
* * * * *
608913 TGATAACATGAGAAAGAATTCATACTAAGTGTACGAACTTCCATATAGGGCACTTCGTG
1 TGCTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGAACTTCGTG
* * * * *
608972 TGCTAACATGAGAAGGAATTAATACTAAGTGTATGACTTTACATATAGGGCACTTTGTG
1 TGCTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGAACTTCGTG
* * *
609031 TGCTAACATGAG-AGGAAATTCATACTAAGTGTATGAATTTCCATATAGTGCACTTTGTG
1 TGCTAACATGAGAAGG-AATTCATACTAAGTGTATGAATTTCCATATAGGGAACTTCGTG
* * *
609090 TGCTAACATGAGAAGGAATTCATACTAAGTGTATAAATTTCCATATAGGGCACTTCCTG
1 TGCTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGAACTTCGTG
* * *
609149 TGCTAACATGAGAAGGAATTCATACTAAGTGTATGAACTTCCACATAGGGCACTTCGTG
1 TGCTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGAACTTCGTG
609208 TGCTAACA
1 TGCTAACA
609216 ATATGAATTT
Statistics
Matches: 427, Mismatches: 51, Indels: 4
0.89 0.11 0.01
Matches are distributed among these distances:
58 3 0.01
59 421 0.99
60 3 0.01
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (59 bp):
TGCTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGAACTTCGTG
Found at i:608973 original size:177 final size:177
Alignment explanation
Indices: 608667--610756 Score: 1696
Period size: 177 Copynumber: 11.6 Consensus size: 177
608657 CGCAGACATA
* * ** * * * *
608667 GCACTTCTTATGCTAACATGAGAAAAAATTCATAATAAGTGTTTGAATTTCCATATAGGGAATTT
1 GCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTT
* * *
608732 CGTGTGCTAACATCAGAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTG
66 CATGTGCTAACATGAGAAAGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTG
* * * * *
608797 CTAAAATGAGAAGGAATCCATACTATGTGTATGAATTTACATAGAGG
131 CTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCCATATAGG
** * *
608844 GTTCTTCGTGTGCTAACATGAGAAGGAATTCATACTAAATGTATGAATTTCCATATAGGGAACTT
1 GCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTT
* * *
608909 CATGTGATAACATGAGAAAGAATTCATACTAAGTGTACGAACTTCCATATAGGGCACTTCGTGTG
66 CATGTGCTAACATGAGAAAGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTG
* * *
608974 CTAACATGAGAAGGAATTAATACTAAGTGTATGACTTTACATATAGG
131 CTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCCATATAGG
* *
609021 GCACTTTGTGTGCTAACATGAG-AGGAAATTCATACTAAGTGTATGAATTTCCATATAGTGCACT
1 GCACTTCGTGTGCTAACATGAGAAGG-AATTCATACTAAGTGTATGAATTTCCATATAGGGCACT
** * * *
609085 TTGTGTGCTAACATGAGAAGGAATTCATACTAAGTGTATAAATTTCCATATAGGGCACTTCCTGT
65 TCATGTGCTAACATGAGAAAGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGT
* *
609150 GCTAACATGAGAAGGAATTCATACTAAGTGTATGAACTTCCACATAGG
130 GCTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCCATATAGG
* * * * ** * *
609198 GCACTTCGTGTGCTAACA--A-TATGAATTTCCATA-T-AGGGCACTTCATGTGCTAACATGAGA
1 GCACTTCGTGTGCTAACATGAGAAGGAA-TT-CATACTAAGTGTA-TGAAT-T--T-CCAT-ATA
**** * * * *** * * ***
609258 AAAAAATTCA--TACT-A-A-GTGTTTGAATTTCCATA-T-AG-G---GAATTT-CGTGT-GCTA
58 GGGCACTTCATGTGCTAACATGAGAAAGAA-TT-CATACTAAGTGTATGAATTTCCATATAGGGC
* * * * * * * * * *** * * *
609310 ACATCAGAAG-GAATTCATACTAAGTGTATGAATTTCCATA-T-AGGGCACTTCGTGTGCTAAAA
121 ACTTC-G-TGTG--CT-A-AC-ATGAGAAGGAA-TT-CATACTAAGTGTA-TGAAT-TTC-CATA
609372 TGAGAAG
174 T-AG--G
* * * * ** * * * * *
609379 GAATTCATACTATGCGTATGAATTTACAT-AGAGGGTGCTTCGTGTGCTAACATGAGAAGGAA-T
1 G----C--ACT-T-CGTGTG--CTAACATGAGAAGG-AATTC--ATACT-A-A-GTGTATGAATT
* * * * ** * *** *
609442 T-CATACTAAATGTATGAATTTCCATATAGGGAACTTCATGTGATAACATGAGAAAGA-ATTCAT
50 TCCATA-T--A-G--GGCACTT-CATGT-GCTAA---CA--TGAGAA-A-GA-ATTCATACT-A-
* * ** * *
609505 ACT-AAGTGTACGAACTTCCATATAGGGCACTTCGTGTGCTAACATGAGAAGAAATTCATACTAA
97 AGTGTA-TG-A--ATTTC-CATATAGGGCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAA
*
609569 GTGTATGACTTTCCATATAGG
157 GTGTATGAATTTCCATATAGG
*
609590 GCACTTCGTGTGCTAACATGAG-AGGAAATTCATACTAAGTGCATGAATTTCCATATAGGGCACT
1 GCACTTCGTGTGCTAACATGAGAAGG-AATTCATACTAAGTGTATGAATTTCCATATAGGGCACT
** * * * *
609654 TTGTGTGCAAACATGAGAAAGAATTCATACTAAGTGCATAAATTTCCATATAGGGCACTTCCTGT
65 TCATGTGCTAACATGAGAAAGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGT
* * * * * *
609719 GCTAACATGAGATGGAATTCATTCTATGTTTATGAACTTCCACATAGG
130 GCTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCCATATAGG
* * *
609767 GCACATCGTGTGCTAACAAGAGAAGGGATTCATACTAAGTGTATGAATTTCCATATAGGGCACTT
1 GCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTT
* * * *
609832 CATGTGCTAACATGAGAAAAAATTCATACTAAGTGTTTGAATTTCCATACAGGGCATTTCGTGTG
66 CATGTGCTAACATGAGAAAGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTG
* *
609897 CTAACGTCAGAAGGAATTCATACTAAGTGTATGAATTTCCATATAGG
131 CTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCCATATAGG
* * *
609944 GCACTTCGCGTGCTAACATGAGAAGGAATTCATACTAAGTGTATGATTTTCCACATAGGGCACTT
1 GCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTT
* * * *
610009 CGTGTGCTAACATCAGAAGGAATTCATACTAAGTGTATGAATTTCCATATAGTGCACTTCGTGTG
66 CATGTGCTAACATGAGAAAGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTG
* *
610074 CTAACATGAGAAGGAATTCATACTAAGTGTATGAACTTCCACATAGG
131 CTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCCATATAGG
* *
610121 GCACTTCGTGTGCTAACATGAGAATGAATTCATACTAAGTGTATGAATTTCCATAAAGGGCACTT
1 GCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTT
* ** * * *
610186 CATGTGCTAACATGAGAAAAAATTCATAAGAAGTGTTTGAATTTTCATATAGGGCATTTCGTGTG
66 CATGTGCTAACATGAGAAAGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTG
* * *
610251 CTAACATCAGAAGAAATTTATACTAAGTGTATGAATTTCCATATAGG
131 CTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCCATATAGG
* * *
610298 GCACTTCATGTGCTAACATGAGAAGGAATTCATACTAAGTGTAAT-AACTTCCACATAGGGCACT
1 GCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTGT-ATGAATTTCCATATAGGGCACT
* * * * * *
610362 TCTTGAGCTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCCATATACGGTACTTCATGT
65 TCATGTGCTAACATGAGAAAGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGT
** *
610427 GCTAACATGAGAAAAAATTCATACTAAGTGTTTGAATTTCCATATAGG
130 GCTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCCATATAGG
* * * *
610475 GCATTTC--GTG-TAACATTAGAAGGAATTCATACTAAGTGTTTGAATTTCCATATAGGGCATTT
1 GCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTT
* * * * *
610537 CGTGTGCTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTACATAGAGGGTACTTCGTGTG
66 CATGTGCTAACATGAGAAAGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTG
* *
610602 CTAACATGAGAATGAATTCATACTAAATGTATGAATTTCCATATAGG
131 CTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCCATATAGG
* * * * * * *
610649 GTACTTCGTGTGCTAAAATGATAAGAAATTCATACTATGTGTATTAATTTCCAGAT-GGGTCACA
1 GCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGG-CAC-
* * * *
610713 TT--TGTGCTAAAATGA-TAAGAAATTCGTACTAAGTATATGAATTT
64 TTCATGTGCTAACATGAGAAAG-AATTCATACTAAGTGTATGAATTT
610757 TCTTATGGGA
Statistics
Matches: 1521, Mismatches: 292, Indels: 201
0.76 0.14 0.10
Matches are distributed among these distances:
169 5 0.00
170 4 0.00
171 6 0.00
172 1 0.00
173 2 0.00
174 161 0.11
175 32 0.02
176 56 0.04
177 1058 0.70
178 16 0.01
179 5 0.00
180 6 0.00
181 5 0.00
182 4 0.00
183 4 0.00
184 1 0.00
185 6 0.00
187 5 0.00
188 1 0.00
189 5 0.00
190 3 0.00
191 7 0.00
192 9 0.01
193 3 0.00
194 4 0.00
195 2 0.00
196 7 0.00
197 8 0.01
198 9 0.01
199 6 0.00
200 1 0.00
201 10 0.01
202 3 0.00
203 5 0.00
204 1 0.00
205 3 0.00
206 1 0.00
207 1 0.00
209 2 0.00
210 2 0.00
211 4 0.00
212 1 0.00
213 3 0.00
214 3 0.00
215 6 0.00
216 5 0.00
217 11 0.01
218 3 0.00
219 1 0.00
220 3 0.00
221 1 0.00
222 5 0.00
223 5 0.00
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (177 bp):
GCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTT
CATGTGCTAACATGAGAAAGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTG
CTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCCATATAGG
Found at i:609234 original size:37 final size:37
Alignment explanation
Indices: 609180--609252 Score: 119
Period size: 37 Copynumber: 2.0 Consensus size: 37
609170 ATACTAAGTG
*
609180 TATGAACTTCCACATAGGGCACTTCGTGTGCTAACAA
1 TATGAACTTCCACATAGGGCACTTCATGTGCTAACAA
* *
609217 TATGAATTTCCATATAGGGCACTTCATGTGCTAACA
1 TATGAACTTCCACATAGGGCACTTCATGTGCTAACA
609253 TGAGAAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (37 bp):
TATGAACTTCCACATAGGGCACTTCATGTGCTAACAA
Found at i:609308 original size:97 final size:96
Alignment explanation
Indices: 609125--609312 Score: 295
Period size: 97 Copynumber: 1.9 Consensus size: 96
609115 TAAGTGTATA
* **
609125 AATTTCCATATAGGGCACTTCCTGTGCTAACATGAGAAGGAATTCATACTAAGTGTATGAACTTC
1 AATTTCCATATAGGGCACTTCATGTGCTAACATGAGAAAAAATTCATACTAAGTGTATGAACTTC
*
609190 CACATAGGGCACTTCGTGTGCTAACAATATG
66 CACATAGGGAACTTCGTGTGCTAACAATATG
* *
609221 AATTTCCATATAGGGCACTTCATGTGCTAACATGAGAAAAAAATTCATACTAAGTGTTTGAATTT
1 AATTTCCATATAGGGCACTTCATGTGCTAACATGAG-AAAAAATTCATACTAAGTGTATGAACTT
* *
609286 CCATATAGGGAATTTCGTGTGCTAACA
65 CCACATAGGGAACTTCGTGTGCTAACA
609313 TCAGAAGGAA
Statistics
Matches: 83, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
96 35 0.42
97 48 0.58
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.31
Consensus pattern (96 bp):
AATTTCCATATAGGGCACTTCATGTGCTAACATGAGAAAAAATTCATACTAAGTGTATGAACTTC
CACATAGGGAACTTCGTGTGCTAACAATATG
Found at i:609347 original size:156 final size:155
Alignment explanation
Indices: 609062--609369 Score: 490
Period size: 156 Copynumber: 2.0 Consensus size: 155
609052 ATACTAAGTG
* ** **
609062 TATGAATTTCCATATAGTGCACTTTGTGTGCTAACATGAGAAGGAATTCATACTAAGTGTATAAA
1 TATGAATTTCCATATAGGGCACTTCATGTGCTAACATGAGAAAAAATTCATACTAAGTGTATAAA
* *
609127 TTTCCATATAGGGCACTTCCTGTGCTAACATGAGAAGGAATTCATACTAAGTGTATGAACTTCCA
66 TTTCCATATAGGGAACTTCCTGTGCTAACATCAGAAGGAATTCATACTAAGTGTATGAACTTCCA
609192 CATAGGGCACTTCGTGTGCTAACAA
131 CATAGGGCACTTCGTGTGCTAACAA
* *
609217 TATGAATTTCCATATAGGGCACTTCATGTGCTAACATGAGAAAAAAATTCATACTAAGTGTTTGA
1 TATGAATTTCCATATAGGGCACTTCATGTGCTAACATGAG-AAAAAATTCATACTAAGTGTATAA
* * *
609282 ATTTCCATATAGGGAATTTCGTGTGCTAACATCAGAAGGAATTCATACTAAGTGTATGAATTTCC
65 ATTTCCATATAGGGAACTTCCTGTGCTAACATCAGAAGGAATTCATACTAAGTGTATGAACTTCC
*
609347 ATATAGGGCACTTCGTGTGCTAA
130 ACATAGGGCACTTCGTGTGCTAA
609370 AATGAGAAGG
Statistics
Matches: 139, Mismatches: 13, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
155 37 0.27
156 102 0.73
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.32
Consensus pattern (155 bp):
TATGAATTTCCATATAGGGCACTTCATGTGCTAACATGAGAAAAAATTCATACTAAGTGTATAAA
TTTCCATATAGGGAACTTCCTGTGCTAACATCAGAAGGAATTCATACTAAGTGTATGAACTTCCA
CATAGGGCACTTCGTGTGCTAACAA
Found at i:609349 original size:59 final size:59
Alignment explanation
Indices: 609217--610756 Score: 2088
Period size: 59 Copynumber: 26.2 Consensus size: 59
609207 GTGCTAACAA
* **
609217 TATGAATTTCCATATAGGGCACTTCATGTGCTAACATGAGAAAAAAATTCATACTAAGTG
1 TATGAATTTCCATATAGGGCACTTCGTGTGCTAACATGAG-AAGGAATTCATACTAAGTG
* * * *
609277 TTTGAATTTCCATATAGGGAATTTCGTGTGCTAACATCAGAAGGAATTCATACTAAGTG
1 TATGAATTTCCATATAGGGCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTG
* * *
609336 TATGAATTTCCATATAGGGCACTTCGTGTGCTAAAATGAGAAGGAATTCATACTATGCG
1 TATGAATTTCCATATAGGGCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTG
* * ** *
609395 TATGAATTTACATAGAGGGTGCTTCGTGTGCTAACATGAGAAGGAATTCATACTAAATG
1 TATGAATTTCCATATAGGGCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTG
* * * *
609454 TATGAATTTCCATATAGGGAACTTCATGTGATAACATGAGAAAGAATTCATACTAAGTG
1 TATGAATTTCCATATAGGGCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTG
* * *
609513 TACGAACTTCCATATAGGGCACTTCGTGTGCTAACATGAGAAGAAATTCATACTAAGTG
1 TATGAATTTCCATATAGGGCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTG
*
609572 TATGACTTTCCATATAGGGCACTTCGTGTGCTAACATGAG-AGGAAATTCATACTAAGTG
1 TATGAATTTCCATATAGGGCACTTCGTGTGCTAACATGAGAAGG-AATTCATACTAAGTG
* * * *
609631 CATGAATTTCCATATAGGGCACTTTGTGTGCAAACATGAGAAAGAATTCATACTAAGTG
1 TATGAATTTCCATATAGGGCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTG
* * * * * * *
609690 CATAAATTTCCATATAGGGCACTTCCTGTGCTAACATGAGATGGAATTCATTCTATGTT
1 TATGAATTTCCATATAGGGCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTG
* * * * *
609749 TATGAACTTCCACATAGGGCACATCGTGTGCTAACAAGAGAAGGGATTCATACTAAGTG
1 TATGAATTTCCATATAGGGCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTG
* **
609808 TATGAATTTCCATATAGGGCACTTCATGTGCTAACATGAGAAAAAATTCATACTAAGTG
1 TATGAATTTCCATATAGGGCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTG
* * * * *
609867 TTTGAATTTCCATACAGGGCATTTCGTGTGCTAACGTCAGAAGGAATTCATACTAAGTG
1 TATGAATTTCCATATAGGGCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTG
*
609926 TATGAATTTCCATATAGGGCACTTCGCGTGCTAACATGAGAAGGAATTCATACTAAGTG
1 TATGAATTTCCATATAGGGCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTG
* * *
609985 TATGATTTTCCACATAGGGCACTTCGTGTGCTAACATCAGAAGGAATTCATACTAAGTG
1 TATGAATTTCCATATAGGGCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTG
*
610044 TATGAATTTCCATATAGTGCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTG
1 TATGAATTTCCATATAGGGCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTG
* * *
610103 TATGAACTTCCACATAGGGCACTTCGTGTGCTAACATGAGAATGAATTCATACTAAGTG
1 TATGAATTTCCATATAGGGCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTG
* * ** **
610162 TATGAATTTCCATAAAGGGCACTTCATGTGCTAACATGAGAAAAAATTCATAAGAAGTG
1 TATGAATTTCCATATAGGGCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTG
* * * * * *
610221 TTTGAATTTTCATATAGGGCATTTCGTGTGCTAACATCAGAAGAAATTTATACTAAGTG
1 TATGAATTTCCATATAGGGCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTG
*
610280 TATGAATTTCCATATAGGGCACTTCATGTGCTAACATGAGAAGGAATTCATACTAAGTG
1 TATGAATTTCCATATAGGGCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTG
* * * *
610339 TAAT-AACTTCCACATAGGGCACTTCTTGAGCTAACATGAGAAGGAATTCATACTAAGTG
1 T-ATGAATTTCCATATAGGGCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTG
* * * **
610398 TATGAATTTCCATATACGGTACTTCATGTGCTAACATGAGAAAAAATTCATACTAAGTG
1 TATGAATTTCCATATAGGGCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTG
* * *
610457 TTTGAATTTCCATATAGGGCATTTC--GTG-TAACATTAGAAGGAATTCATACTAAGTG
1 TATGAATTTCCATATAGGGCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTG
* *
610513 TTTGAATTTCCATATAGGGCATTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTG
1 TATGAATTTCCATATAGGGCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTG
* * * * *
610572 TATGAATTTACATAGAGGGTACTTCGTGTGCTAACATGAGAATGAATTCATACTAAATG
1 TATGAATTTCCATATAGGGCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTG
* * * * *
610631 TATGAATTTCCATATAGGGTACTTCGTGTGCTAAAATGATAAGAAATTCATACTATGTG
1 TATGAATTTCCATATAGGGCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTG
* * * * * * *
610690 TATTAATTTCCAGAT-GGGTCACATT--TGTGCTAAAATGATAAGAAATTCGTACTAAGTA
1 TATGAATTTCCATATAGGG-CAC-TTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTG
610748 TATGAATTT
1 TATGAATTT
610757 TCTTATGGGA
Statistics
Matches: 1303, Mismatches: 168, Indels: 20
0.87 0.11 0.01
Matches are distributed among these distances:
56 50 0.04
57 3 0.00
58 48 0.04
59 1161 0.89
60 41 0.03
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (59 bp):
TATGAATTTCCATATAGGGCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTG
Found at i:612313 original size:95 final size:95
Alignment explanation
Indices: 612131--612336 Score: 207
Period size: 95 Copynumber: 2.2 Consensus size: 95
612121 TTATACCATA
* * ** *
612131 GTAAGGGGTATCGATACCTAGAAACATCGAATCTAATTTTGGTATTGATACCGGTATGGGGTATC
1 GTAA-GGGTATCGATACCTAGAAACATCGAACCTAATTTTGGTATCGATACCGCAAAGGGGTATC
* * * *
612196 GGTGCCATAGTAGGGTAGTATCGCTACCAAG
65 GGTACCAAAGTAGAGAAGTATCGCTACCAAG
* * * *
612227 GTAAGGGTATCGATACCTAGCAATATCGAACCTATTTTTGGTATCGATA-CGCAAAGGGAGTATT
1 GTAAGGGTATCGATACCTAGAAACATCGAACCTAATTTTGGTATCGATACCGCAAAGGG-GTATC
* * * * *
612291 GGTACCAAAGTATAGAATTATCGGTATCATG
65 GGTACCAAAGTAGAGAAGTATCGCTACCAAG
* *
612322 GTATGGGTATTGATA
1 GTAAGGGTATCGATA
612337 GTGATGAGCC
Statistics
Matches: 89, Mismatches: 20, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
94 6 0.07
95 79 0.89
96 4 0.04
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (95 bp):
GTAAGGGTATCGATACCTAGAAACATCGAACCTAATTTTGGTATCGATACCGCAAAGGGGTATCG
GTACCAAAGTAGAGAAGTATCGCTACCAAG
Found at i:612744 original size:27 final size:27
Alignment explanation
Indices: 612714--612801 Score: 67
Period size: 27 Copynumber: 3.2 Consensus size: 27
612704 TAAGTTGATG
612714 AATCACCGTACAAGCACTTAGGTGCAT
1 AATCACCGTACAAGCACTTAGGTGCAT
* * * *
612741 AATCA-TG-A-AATTCATCATAAGTTG-AT
1 AATCACCGTACAA-GCA-C-TTAGGTGCAT
612767 GAATCACCGTACAAGCACTTAGTGTGCAT
1 -AATCACCGTACAAGCACTTAG-GTGCAT
612796 AATCAC
1 AATCAC
612802 AAAATTCATC
Statistics
Matches: 44, Mismatches: 8, Indels: 17
0.64 0.12 0.25
Matches are distributed among these distances:
24 2 0.05
25 3 0.07
26 4 0.09
27 18 0.41
28 10 0.23
29 5 0.11
30 2 0.05
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.26
Consensus pattern (27 bp):
AATCACCGTACAAGCACTTAGGTGCAT
Found at i:612910 original size:28 final size:28
Alignment explanation
Indices: 612768--612966 Score: 89
Period size: 28 Copynumber: 7.2 Consensus size: 28
612758 TAAGTTGATG
* *
612768 AATCACCGTACAAGCACTTAGTGTGCAT
1 AATCACCATACATGCACTTAGTGTGCAT
* * *
612796 AATCA-CA-AAATTCATCATAAGT-TG-AT
1 AATCACCATACATGCA-C-TTAGTGTGCAT
*
612822 GAATCACCATACACGCACTTAGTGTGCAT
1 -AATCACCATACATGCACTTAGTGTGCAT
* * *
612851 AAT-AACATA-ATTCATCATAAGT-TG-AT
1 AATCACCATACATGCA-C-TTAGTGTGCAT
*
612877 GAATCACCATACAGGCACTTAGTGTGCAT
1 -AATCACCATACATGCACTTAGTGTGCAT
* * *
612906 AATCACGGAATTCAT-CA-TAAGT-TG-AT
1 AATCAC--CATACATGCACTTAGTGTGCAT
* * *
612932 GAATCATCGTACAAGCACTTAGTGTGCAT
1 -AATCACCATACATGCACTTAGTGTGCAT
612961 AATCAC
1 AATCAC
612967 GGAATTCATT
Statistics
Matches: 122, Mismatches: 28, Indels: 42
0.64 0.15 0.22
Matches are distributed among these distances:
25 3 0.02
26 15 0.12
27 39 0.32
28 46 0.38
29 15 0.12
30 4 0.03
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.28
Consensus pattern (28 bp):
AATCACCATACATGCACTTAGTGTGCAT
Found at i:612992 original size:27 final size:27
Alignment explanation
Indices: 612906--612993 Score: 74
Period size: 27 Copynumber: 3.2 Consensus size: 27
612896 TAGTGTGCAT
*
612906 AATCACGGAATTCATCATAAGTTGATG
1 AATCACGGAATTCATTATAAGTTGATG
* ** *
612933 AATCATCGTACAAGCACT-T-AGTGTGCAT-
1 AATCA-CGGA-ATTCATTATAAGT-TG-ATG
612961 AATCACGGAATTCATTATAAGTTGATG
1 AATCACGGAATTCATTATAAGTTGATG
612988 AATCAC
1 AATCAC
612994 CGTACATGCA
Statistics
Matches: 45, Mismatches: 9, Indels: 14
0.66 0.13 0.21
Matches are distributed among these distances:
26 6 0.13
27 20 0.44
28 14 0.31
29 5 0.11
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (27 bp):
AATCACGGAATTCATTATAAGTTGATG
Found at i:613068 original size:55 final size:55
Alignment explanation
Indices: 612675--613043 Score: 555
Period size: 55 Copynumber: 6.7 Consensus size: 55
612665 TACTACAGGC
612675 CTTAGTGTGCATAATCAC-AGAATTCATCATAAGTTGATGAATCACCGTACAAGCA
1 CTTAGTGTGCATAATCACGA-AATTCATCATAAGTTGATGAATCACCGTACAAGCA
*
612730 CTTAG-GTGCATAATCATGAAATTCATCATAAGTTGATGAATCACCGTACAAGCA
1 CTTAGTGTGCATAATCACGAAATTCATCATAAGTTGATGAATCACCGTACAAGCA
* * *
612784 CTTAGTGTGCATAATCACAAAATTCATCATAAGTTGATGAATCACCATACACGCA
1 CTTAGTGTGCATAATCACGAAATTCATCATAAGTTGATGAATCACCGTACAAGCA
* * *
612839 CTTAGTGTGCATAATAAC-ATAATTCATCATAAGTTGATGAATCACCATACAGGCA
1 CTTAGTGTGCATAATCACGA-AATTCATCATAAGTTGATGAATCACCGTACAAGCA
* *
612894 CTTAGTGTGCATAATCACGGAATTCATCATAAGTTGATGAATCATCGTACAAGCA
1 CTTAGTGTGCATAATCACGAAATTCATCATAAGTTGATGAATCACCGTACAAGCA
* * *
612949 CTTAGTGTGCATAATCACGGAATTCATTATAAGTTGATGAATCACCGTACATGCA
1 CTTAGTGTGCATAATCACGAAATTCATCATAAGTTGATGAATCACCGTACAAGCA
* * * *
613004 CATCGTGTGCATATTCACGAAATTCATCATGAGTTGATGA
1 CTTAGTGTGCATAATCACGAAATTCATCATAAGTTGATGA
613044 TTTTCTGTAT
Statistics
Matches: 289, Mismatches: 21, Indels: 8
0.91 0.07 0.03
Matches are distributed among these distances:
54 52 0.18
55 237 0.82
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.29
Consensus pattern (55 bp):
CTTAGTGTGCATAATCACGAAATTCATCATAAGTTGATGAATCACCGTACAAGCA
Found at i:617812 original size:73 final size:74
Alignment explanation
Indices: 617655--617819 Score: 188
Period size: 73 Copynumber: 2.2 Consensus size: 74
617645 CTTATGAGGT
* * *
617655 AGTATCGATACCATAATAAGGGGTATCGATACCTAGAAACATCGAATCTAATTTTAGTATCAATA
1 AGTATCGGTACCATAGTAAGGGGTATCGATACCTAGAAACATCGAACCTAATTTTAGTATCAATA
***
617720 CCGGCATGG
66 CCCAAATGG
* * * * * * * *
617729 GGTATTGGTACCATAGTAA-GGGTATCGATATCTGGCAACATCGAACCTATTTTTGGTATCGATA
1 AGTATCGGTACCATAGTAAGGGGTATCGATACCTAGAAACATCGAACCTAATTTTAGTATCAATA
617793 CCCAAATGG
66 CCCAAATGG
*
617802 ATTATCGGTACCATAGTA
1 AGTATCGGTACCATAGTA
617820 TAGAAGTATT
Statistics
Matches: 74, Mismatches: 17, Indels: 1
0.80 0.18 0.01
Matches are distributed among these distances:
73 59 0.80
74 15 0.20
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.29
Consensus pattern (74 bp):
AGTATCGGTACCATAGTAAGGGGTATCGATACCTAGAAACATCGAACCTAATTTTAGTATCAATA
CCCAAATGG
Found at i:618252 original size:55 final size:55
Alignment explanation
Indices: 618187--618511 Score: 436
Period size: 55 Copynumber: 5.9 Consensus size: 55
618177 CTATGTGTAC
* * *
618187 TACAGGCACTTAGTGTGCATAATCTCAGAATTGATCATAAGTTGATGAATCACCG
1 TACAGGCACTTAGTGTGCATAATCACGGAATTCATCATAAGTTGATGAATCACCG
* * * *
618242 TACAGGCACTTAGTGTACATAATCATGGATTTCATCATAAGTTGATGAATCACTG
1 TACAGGCACTTAGTGTGCATAATCACGGAATTCATCATAAGTTGATGAATCACCG
* * * * * **
618297 CACAGGCACTTAGTGTGCATAAGCACGAAATCCATCATAAGTTAATGAATCATTG
1 TACAGGCACTTAGTGTGCATAATCACGGAATTCATCATAAGTTGATGAATCACCG
* * **
618352 TACAAGCACTTAGTGTGCATAATCACGGAATTCATCGTAAGTTGATGAATCGTCG
1 TACAGGCACTTAGTGTGCATAATCACGGAATTCATCATAAGTTGATGAATCACCG
*
618407 TACAGGCACTTAGTGTGCATAATTACGGAATTCATCATAAGTTGATGAATCACCG
1 TACAGGCACTTAGTGTGCATAATCACGGAATTCATCATAAGTTGATGAATCACCG
* **
618462 TACAGGCACTTCA-TGTGCATATTCACGGAATTCATCACGAGTTGATGAAT
1 TACAGGCACTT-AGTGTGCATAATCACGGAATTCATCATAAGTTGATGAAT
618512 GTCTGAATAG
Statistics
Matches: 235, Mismatches: 34, Indels: 2
0.87 0.13 0.01
Matches are distributed among these distances:
55 234 1.00
56 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (55 bp):
TACAGGCACTTAGTGTGCATAATCACGGAATTCATCATAAGTTGATGAATCACCG
Found at i:635564 original size:9 final size:9
Alignment explanation
Indices: 635550--635584 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
635540 ATGAGGGGTT
*
635550 TAAAAATAG
1 TAAAAATAA
635559 TAAAAATAA
1 TAAAAATAA
635568 T-AAAATAA
1 TAAAAATAA
635576 TAAAAATAA
1 TAAAAATAA
635585 ATAATAATGG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
8 8 0.33
9 16 0.67
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (9 bp):
TAAAAATAA
Found at i:635572 original size:17 final size:17
Alignment explanation
Indices: 635552--635584 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
635542 GAGGGGTTTA
*
635552 AAAATAGTAAAAATAAT
1 AAAATAATAAAAATAAT
635569 AAAATAATAAAAATAA
1 AAAATAATAAAAATAA
635585 ATAATAATGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (17 bp):
AAAATAATAAAAATAAT
Found at i:636773 original size:16 final size:16
Alignment explanation
Indices: 636734--636774 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
636724 CGAGTACCGT
*
636734 TGAGCACCACTAACGA
1 TGAGCACTACTAACGA
636750 TGAGCACTACTAACGA
1 TGAGCACTACTAACGA
636766 TGAGCACTA
1 TGAGCACTA
636775 ATGAACATCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.37, C:0.27, G:0.20, T:0.17
Consensus pattern (16 bp):
TGAGCACTACTAACGA
Found at i:638694 original size:17 final size:16
Alignment explanation
Indices: 638626--638696 Score: 63
Period size: 18 Copynumber: 4.2 Consensus size: 16
638616 ATTCATGGAT
638626 CTAGTTCATTGAATAAA
1 CTAGTTCATT-AATAAA
*
638643 GTTAGTTCATTAATTAAA
1 -CTAGTTCATTAA-TAAA
* *
638661 GTAG-TCATTCATCAAA
1 CTAGTTCATTAAT-AAA
638677 CTAGTTCATTTAATAAA
1 CTAGTTCA-TTAATAAA
638694 CTA
1 CTA
638697 ACTCTTAATT
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
15 1 0.02
16 12 0.27
17 14 0.32
18 17 0.39
ACGTcount: A:0.39, C:0.13, G:0.10, T:0.38
Consensus pattern (16 bp):
CTAGTTCATTAATAAA
Found at i:644230 original size:17 final size:17
Alignment explanation
Indices: 644190--644257 Score: 75
Period size: 17 Copynumber: 3.9 Consensus size: 17
644180 TTCATGCATC
644190 TAGTTCATTGAA-TAAAG
1 TAGTTCATT-AATTAAAG
644207 TTAGTTCATTAATTAAAG
1 -TAGTTCATTAATTAAAG
* *
644225 TAGTTCATTCATCAAAG
1 TAGTTCATTAATTAAAG
*
644242 CAGTTCATTTAATTAA
1 TAGTTCA-TTAATTAA
644258 CTAACTCTTA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
17 23 0.53
18 20 0.47
ACGTcount: A:0.38, C:0.10, G:0.12, T:0.40
Consensus pattern (17 bp):
TAGTTCATTAATTAAAG
Found at i:645526 original size:22 final size:22
Alignment explanation
Indices: 645498--645547 Score: 100
Period size: 22 Copynumber: 2.3 Consensus size: 22
645488 CCACACTTCT
645498 TTCATTTACAATACACTTCAAC
1 TTCATTTACAATACACTTCAAC
645520 TTCATTTACAATACACTTCAAC
1 TTCATTTACAATACACTTCAAC
645542 TTCATT
1 TTCATT
645548 CTATCATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.34, C:0.26, G:0.00, T:0.40
Consensus pattern (22 bp):
TTCATTTACAATACACTTCAAC
Found at i:646665 original size:246 final size:245
Alignment explanation
Indices: 646224--647249 Score: 1065
Period size: 246 Copynumber: 4.3 Consensus size: 245
646214 GGGTATCGCC
* * * *
646224 TCCATCGACATTGTCGAAATTGAAATCTTTAGATGACCCGAGAGTGATGGTTCGGTTCTTGTGGT
1 TCCATCAACATTGTCAAAATTGAAATCTTTAGATGACCCGAGAGTGATGGATCGGTTCTTATGGT
* * * * * *
646289 GCTGTGGTCTGCCTTCTGTATCGGCTGGAGGCCTTTCTGGTGTTTCGATGTATGTTTCACCAACA
66 GCTGTGGTCTGCCTTCTGTATCAGCTGGAAGTCTTTCTGGTCTTTCAATGTATATTTCACCAACA
** *
646354 TGACATTCGTAAGTTTCCACCAACTTAGTAGCGTTTTCTTCTTTCTGTCTTGCTGTTTCATTCCG
131 CAACATTCATAAGTTTCCACCAACTTAGTAGCGTTTTCTTCTTTCTGTCTTGCTG-TTCATTCCG
* *
646419 TAGAGATTCTGCTGCAGCTTCATACAG-TGTCGATGTCTCGATTTCCACACA
195 TAGAGATTCTGCTGCAGCTTCAGA-AGATGTCGCTGTCTCGATTTCCACACA
* *
646470 TTCATCAACATTGTCAAAATTGAAATCTTTAGATGACCCAAGAGTGATGGATCGGTTCTTATGGT
1 TCCATCAACATTGTCAAAATTGAAATCTTTAGATGACCCGAGAGTGATGGATCGGTTCTTATGGT
* * *
646535 GATGTGGTCTGCCTTCGGTATCAGCTGGAAGTCTTTCTGTTCTTTCAATGTATATTTCACCAACA
66 GCTGTGGTCTGCCTTCTGTATCAGCTGGAAGTCTTTCTGGTCTTTCAATGTATATTTCACCAACA
*
646600 CAACATTCATAAGTTTCCACCAACTTAGTAGCGTTTTCTTCTTTCCGTCTTGCTGCTTCATTCCG
131 CAACATTCATAAGTTTCCACCAACTTAGTAGCGTTTTCTTCTTTCTGTCTTGCTG-TTCATTCCG
* *
646665 TAGAGATTCCGCTGCAGCTTCAGATGATGTCGCTGTCTCGATTTCCACACA
195 TAGAGATTCTGCTGCAGCTTCAGAAGATGTCGCTGTCTCGATTTCCACACA
* *
646716 TCCATCAACATTGTCAAAATTGAAATCTTTAGAAGATCCGAGAGTGATGGATCGGTTCTTATGGT
1 TCCATCAACATTGTCAAAATTGAAATCTTTAGATGACCCGAGAGTGATGGATCGGTTCTTATGGT
* * * * * *
646781 GCTGTGGTCTGCCTTCCGTATCAGCTTGAGGTATTTCTGGTCTTTCAATGAACATTT--CC-AC-
66 GCTGTGGTCTGCCTTCTGTATCAGCTGGAAGTCTTTCTGGTCTTTCAATGTATATTTCACCAACA
* * * * *
646842 CATC-TT--T--G--T--AGC-A-TT--T-TCTTCTTTCTGTCTTTCTG-CTT--TATTCA----
131 CAACATTCATAAGTTTCCACCAACTTAGTAGCGT-TTTCT-TCTTTCTGTCTTGCTGTTCATTCC
* *
646886 GTAGAGATTCTGCTGCAGCTTCAG-AGAGTATCGCTGTCTC-AGTTTCTACACA
194 GTAGAGATTCTGCTGCAGCTTCAGAAGA-TGTCGCTGTCTCGA-TTTCCACACA
646938 TCCATCAACATAT-TCAAAATTGAAATCTTTAGATGACCCGAGAGTGATGGATCGGTTCTTATGG
1 TCCATCAACAT-TGTCAAAATTGAAATCTTTAGATGACCCGAGAGTGATGGATCGGTTCTTATGG
* * * * * ** * *
647002 TGCCGTAGTCTGCCTTCTGTATTAGCTAG-AGTTTTTTCTCCTCTTTCGATGTATGTTTCACCAA
65 TGCTGTGGTCTGCCTTCTGTATCAGCTGGAAG-TCTTTCTGGTCTTTCAATGTATATTTCACCAA
** * * * * * * *
647066 TTCGACATTCATAAATTTCCACCAAATTGGTAGCGTTTTCTCCTTTCTGTTTTGCAGTTGCATTC
129 CACAACATTCATAAGTTTCCACCAACTTAGTAGCGTTTTCTTCTTTCTGTCTTGCTGTT-CATTC
** * ** * * *
647131 CGTAGAGATTCTGCCACGGCTTTGGATAGGCT-TC-CTGTCTCAACTTCCACACA
193 CGTAGAGATTCTGCTGCAGCTTCAGA-A-GATGTCGCTGTCTCGATTTCCACACA
* * * * * **
647184 TCCATGAACGTTATCAAAATTGAATTCTTTAGCA-GACCCAAGAGTGATGGATATGTTCTTATGG
1 TCCATCAACATTGTCAAAATTGAAATCTTTAG-ATGACCCGAGAGTGATGGATCGGTTCTTATGG
647248 TG
65 TG
647250 TTGCGGTTTT
Statistics
Matches: 655, Mismatches: 86, Indels: 78
0.80 0.11 0.10
Matches are distributed among these distances:
221 4 0.01
222 146 0.22
223 1 0.00
224 2 0.00
225 1 0.00
226 6 0.01
227 3 0.00
228 2 0.00
229 10 0.02
230 7 0.01
231 2 0.00
232 1 0.00
233 3 0.00
235 3 0.00
236 1 0.00
237 3 0.00
238 7 0.01
239 9 0.01
240 2 0.00
241 4 0.01
242 5 0.01
243 2 0.00
244 2 0.00
245 2 0.00
246 420 0.64
247 4 0.01
248 2 0.00
249 1 0.00
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.37
Consensus pattern (245 bp):
TCCATCAACATTGTCAAAATTGAAATCTTTAGATGACCCGAGAGTGATGGATCGGTTCTTATGGT
GCTGTGGTCTGCCTTCTGTATCAGCTGGAAGTCTTTCTGGTCTTTCAATGTATATTTCACCAACA
CAACATTCATAAGTTTCCACCAACTTAGTAGCGTTTTCTTCTTTCTGTCTTGCTGTTCATTCCGT
AGAGATTCTGCTGCAGCTTCAGAAGATGTCGCTGTCTCGATTTCCACACA
Found at i:646999 original size:222 final size:222
Alignment explanation
Indices: 646613--647028 Score: 640
Period size: 222 Copynumber: 1.9 Consensus size: 222
646603 CATTCATAAG
* *
646613 TTTCCACCAACTTAGTAGCGTTTTCTTCTTTCCGTCTTGCTGCTTCATTCCGTAGAGATTCCGCT
1 TTTCCACCAACTTAGTAGCATTTTCTTCTTTCCGTCTTGCTGCTTCATTCAGTAGAGATTCCGCT
*
646678 GCAGCTTCAGATGATGTCGCTGTCTCGATTTCCACACATCCATCAACATTGTCAAAATTGAAATC
66 GCAGCTTCAGATGATATCGCTGTCTCGATTTCCACACATCCATCAACATTGTCAAAATTGAAATC
* * *
646743 TTTAGAAGATCCGAGAGTGATGGATCGGTTCTTATGGTGCTGTGGTCTGCCTTCCGTATCAGCTT
131 TTTAGAAGACCCGAGAGTGATGGATCGGTTCTTATGGTGCCGTAGTCTGCCTTCCGTATCAGCTT
646808 GAGGTATTTCTGGTCTTTCAATGAACA
196 GAGGTATTTCTGGTCTTTCAATGAACA
* * * * * *
646835 TTTCCACCATCTTTGTAGCATTTTCTTCTTTCTGTCTTTCTGCTTTATTCAGTAGAGATTCTGCT
1 TTTCCACCAACTTAGTAGCATTTTCTTCTTTCCGTCTTGCTGCTTCATTCAGTAGAGATTCCGCT
*
646900 GCAGCTTCAGA-GAGTATCGCTGTCTC-AGTTTCTACACATCCATCAACATAT-TCAAAATTGAA
66 GCAGCTTCAGATGA-TATCGCTGTCTCGA-TTTCCACACATCCATCAACAT-TGTCAAAATTGAA
* * *
646962 ATCTTTAGATGACCCGAGAGTGATGGATCGGTTCTTATGGTGCCGTAGTCTGCCTTCTGTATTAG
128 ATCTTTAGAAGACCCGAGAGTGATGGATCGGTTCTTATGGTGCCGTAGTCTGCCTTCCGTATCAG
647027 CT
193 CT
647029 AGAGTTTTTT
Statistics
Matches: 175, Mismatches: 16, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
221 3 0.02
222 171 0.98
223 1 0.01
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.37
Consensus pattern (222 bp):
TTTCCACCAACTTAGTAGCATTTTCTTCTTTCCGTCTTGCTGCTTCATTCAGTAGAGATTCCGCT
GCAGCTTCAGATGATATCGCTGTCTCGATTTCCACACATCCATCAACATTGTCAAAATTGAAATC
TTTAGAAGACCCGAGAGTGATGGATCGGTTCTTATGGTGCCGTAGTCTGCCTTCCGTATCAGCTT
GAGGTATTTCTGGTCTTTCAATGAACA
Found at i:647244 original size:468 final size:468
Alignment explanation
Indices: 646367--647249 Score: 1195
Period size: 468 Copynumber: 1.9 Consensus size: 468
646357 CATTCGTAAG
* *
646367 TTTCCACCAACTTAGTAGCGTTTTCTTCTTTCTGTCTTGCTGTTTCATTCCGTAGAGATTCTGCT
1 TTTCCACCAACTTAGTAGCATTTTCTTCTTTCTGTCTTGCTGTTTCATTCAGTAGAGATTCTGCT
* * *
646432 GCAGCTTCATACAGTGTCGATGTCTCGATTTCCACACATTCATCAACATTGTCAAAATTGAAATC
66 GCAGCTTCAGACAGTATCGATGTCTCGATTTCCACACATCCATCAACATTGTCAAAATTGAAATC
* * *
646497 TTTAGATGACCCAAGAGTGATGGATCGGTTCTTATGGTGATGTGGTCTGCCTTCGGTATCAGCTG
131 TTTAGATGACCCAAGAGTGATGGATCGGTTCTTATGGTGACGTAGTCTGCCTTCGGTATCAGCTA
** * *
646562 GAAGTCTTTCTGTTCTTTCAATGTATATTTCACCAACACAACATTCATAAGTTTCCACCAACTTA
196 GAAGTCTTTCTCCTCTTTCAATGTATATTTCACCAACACAACATTCATAAATTTCCACCAAATTA
* * **
646627 GTAGCGTTTTCTTCTTTCCGTCTTGCTGCTTCATTCCGTAGAGATTCCGCTGCAGCTTCAGATGA
261 GTAGCGTTTTCTCCTTTCCGTCTTGCAGCTTCATTCCGTAGAGATTCCGCCACAGCTTCAGATGA
* * * * *
646692 TGTCGCTGTCTCGATTTCCACACATCCATCAACATTGTCAAAATTGAAATCTTTAGAAGATCCGA
326 TGTCGCTGTCTCAACTTCCACACATCCATCAACATTATCAAAATTGAAATCTTTAGAAGACCCAA
*
646757 GAGTGATGGATCGGTTCTTATGGTGCTGTGGTCTGCCTTCCGTATCAGCTTGAGGTATTTCTGGT
391 GAGTGATGGATAGGTTCTTATGGTGCTGTGGTCTGCCTTCCGTATCAGCTTGAGGTATTTCTGGT
646822 CTTTCAATGAACA
456 CTTTCAATGAACA
* * *
646835 TTTCCACCATCTTTGTAGCATTTTCTTCTTTCTGTCTTTCTGCTTT-ATTCAGTAGAGATTCTGC
1 TTTCCACCAACTTAGTAGCATTTTCTTCTTTCTGTCTTGCTG-TTTCATTCAGTAGAGATTCTGC
* * *
646899 TGCAGCTTCAGAGAGTATCGCTGTCTC-AGTTTCTACACATCCATCAACATAT-TCAAAATTGAA
65 TGCAGCTTCAGACAGTATCGATGTCTCGA-TTTCCACACATCCATCAACAT-TGTCAAAATTGAA
* * * *
646962 ATCTTTAGATGACCCGAGAGTGATGGATCGGTTCTTATGGTGCCGTAGTCTGCCTTCTGTATTAG
128 ATCTTTAGATGACCCAAGAGTGATGGATCGGTTCTTATGGTGACGTAGTCTGCCTTCGGTATCAG
* * * ** *
647027 CTAG-AGTTTTTTCTCCTCTTTCGATGTATGTTTCACCAATTCGACATTCATAAATTTCCACCAA
193 CTAGAAG-TCTTTCTCCTCTTTCAATGTATATTTCACCAACACAACATTCATAAATTTCCACCAA
* * * * * **
647091 ATTGGTAGCGTTTTCTCCTTTCTGTTTTGCAG-TTGCATTCCGTAGAGATTCTGCCACGGCTTTG
257 ATTAGTAGCGTTTTCTCCTTTCCGTCTTGCAGCTT-CATTCCGTAGAGATTCCGCCACAGCTTCA
* * * * *
647155 GAT-AGGCTTC-CTGTCTCAACTTCCACACATCCATGAACGTTATCAAAATTGAATTCTTTAGCA
321 GATGATG--TCGCTGTCTCAACTTCCACACATCCATCAACATTATCAAAATTGAAATCTTTAGAA
*
647218 GACCCAAGAGTGATGGATATGTTCTTATGGTG
384 GACCCAAGAGTGATGGATAGGTTCTTATGGTG
647250 TTGCGGTTTT
Statistics
Matches: 357, Mismatches: 51, Indels: 14
0.85 0.12 0.03
Matches are distributed among these distances:
467 7 0.02
468 344 0.96
469 6 0.02
ACGTcount: A:0.22, C:0.22, G:0.18, T:0.37
Consensus pattern (468 bp):
TTTCCACCAACTTAGTAGCATTTTCTTCTTTCTGTCTTGCTGTTTCATTCAGTAGAGATTCTGCT
GCAGCTTCAGACAGTATCGATGTCTCGATTTCCACACATCCATCAACATTGTCAAAATTGAAATC
TTTAGATGACCCAAGAGTGATGGATCGGTTCTTATGGTGACGTAGTCTGCCTTCGGTATCAGCTA
GAAGTCTTTCTCCTCTTTCAATGTATATTTCACCAACACAACATTCATAAATTTCCACCAAATTA
GTAGCGTTTTCTCCTTTCCGTCTTGCAGCTTCATTCCGTAGAGATTCCGCCACAGCTTCAGATGA
TGTCGCTGTCTCAACTTCCACACATCCATCAACATTATCAAAATTGAAATCTTTAGAAGACCCAA
GAGTGATGGATAGGTTCTTATGGTGCTGTGGTCTGCCTTCCGTATCAGCTTGAGGTATTTCTGGT
CTTTCAATGAACA
Found at i:658295 original size:2 final size:2
Alignment explanation
Indices: 658288--658329 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
658278 ATTCTTATGA
658288 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
658330 GGTCGCTACC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:665026 original size:20 final size:20
Alignment explanation
Indices: 664997--665035 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
664987 ATTTAACCAC
*
664997 ATGCAACTATATGCTCCTAA
1 ATGCAACTATATGATCCTAA
*
665017 ATGCATCTATATGATCCTA
1 ATGCAACTATATGATCCTA
665036 TATGAGCTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.23, G:0.10, T:0.33
Consensus pattern (20 bp):
ATGCAACTATATGATCCTAA
Found at i:672939 original size:23 final size:23
Alignment explanation
Indices: 672875--672939 Score: 85
Period size: 23 Copynumber: 2.8 Consensus size: 23
672865 CTTATATGGA
*
672875 ACTTCGATGCATTTCTACGCGGC
1 ACTTCGGTGCATTTCTACGCGGC
* * *
672898 ACTACGGTGCAATTCTACGTGGC
1 ACTTCGGTGCATTTCTACGCGGC
*
672921 ACTTCGGTGCATTTATACG
1 ACTTCGGTGCATTTCTACG
672940 AGCGATGGTG
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.20, C:0.26, G:0.23, T:0.31
Consensus pattern (23 bp):
ACTTCGGTGCATTTCTACGCGGC
Found at i:676360 original size:18 final size:18
Alignment explanation
Indices: 676330--676380 Score: 68
Period size: 19 Copynumber: 2.8 Consensus size: 18
676320 ATTGTTCAGT
676330 GTGCATCGATGCACAGGAA
1 GTGCATCGATGCACAGG-A
*
676349 GTGCAT-GATGCATAAGGA
1 GTGCATCGATGCA-CAGGA
676367 GTGCATCGATGCAC
1 GTGCATCGATGCAC
676381 CTCCTTAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
18 13 0.46
19 15 0.54
ACGTcount: A:0.29, C:0.20, G:0.31, T:0.20
Consensus pattern (18 bp):
GTGCATCGATGCACAGGA
Found at i:677588 original size:4 final size:4
Alignment explanation
Indices: 677561--677610 Score: 64
Period size: 4 Copynumber: 12.5 Consensus size: 4
677551 AGGTAAAATG
* * * *
677561 ATAT ATAA ATAA ATAA ATAA ATAT ATAT ATAT ATAT ATAT ATAT ATAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
677609 AT
1 AT
677611 GAAGATGAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 44 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (4 bp):
ATAT
Found at i:678075 original size:23 final size:23
Alignment explanation
Indices: 678042--678109 Score: 82
Period size: 23 Copynumber: 3.0 Consensus size: 23
678032 AACCTTATAT
678042 GGCACTTCGGTGCATTTCTACGC
1 GGCACTTCGGTGCATTTCTACGC
* * * *
678065 GGCACTACGGTGTAATTCTACGT
1 GGCACTTCGGTGCATTTCTACGC
* *
678088 GGCACTTCAGTGCATTTATACG
1 GGCACTTCGGTGCATTTCTACG
678110 AGATGTGGTA
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.19, C:0.25, G:0.25, T:0.31
Consensus pattern (23 bp):
GGCACTTCGGTGCATTTCTACGC
Found at i:682823 original size:12 final size:12
Alignment explanation
Indices: 682806--682835 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
682796 TTCGATATGC
682806 CCACTTCTTGAT
1 CCACTTCTTGAT
682818 CCACTTCTTGAT
1 CCACTTCTTGAT
682830 CCACTT
1 CCACTT
682836 TCTCACCTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.17, C:0.37, G:0.07, T:0.40
Consensus pattern (12 bp):
CCACTTCTTGAT
Found at i:684493 original size:30 final size:30
Alignment explanation
Indices: 684376--684495 Score: 181
Period size: 30 Copynumber: 4.1 Consensus size: 30
684366 GTTCTTTGTG
* *
684376 AGTTGT-T-TGTCTCCCAAATGCTCCACCT
1 AGTTGTATATGTCTTCCAAATGCTCCACCA
* * *
684404 AGTTGTATATGTATTCCGAATGCTCCACTA
1 AGTTGTATATGTCTTCCAAATGCTCCACCA
684434 AGTTGTATATGTCTTCCAAATGCTCCACCA
1 AGTTGTATATGTCTTCCAAATGCTCCACCA
684464 AGTTGTATATGTCTTCCAAATGCTCCACCA
1 AGTTGTATATGTCTTCCAAATGCTCCACCA
684494 AG
1 AG
684496 ATGTCTAAAC
Statistics
Matches: 82, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
28 6 0.07
29 1 0.01
30 75 0.91
ACGTcount: A:0.25, C:0.26, G:0.15, T:0.34
Consensus pattern (30 bp):
AGTTGTATATGTCTTCCAAATGCTCCACCA
Found at i:684520 original size:60 final size:59
Alignment explanation
Indices: 684392--684507 Score: 142
Period size: 60 Copynumber: 1.9 Consensus size: 59
684382 TTGTCTCCCA
* * * * * *
684392 AATGCTCCACCTAGTTGTATATGTATTCCGAATGCTCCACTAAGTTGTATATGTCTTCC
1 AATGCTCCACCAAGTTGTATATGTATTCCAAATGCTCCACCAAGTTCTAAACGTCTTCC
*
684451 AAATGCTCCACCAAGTTGTATATGTCTTCCAAATGCTCCACCAAGATGTCTAAACGT
1 -AATGCTCCACCAAGTTGTATATGTATTCCAAATGCTCCACCAAG-T-TCTAAACGT
684508 GTATCATGCT
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
60 40 0.85
61 1 0.02
62 6 0.13
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.33
Consensus pattern (59 bp):
AATGCTCCACCAAGTTGTATATGTATTCCAAATGCTCCACCAAGTTCTAAACGTCTTCC
Found at i:690534 original size:8 final size:8
Alignment explanation
Indices: 690521--690554 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
690511 CTTGGCTTGC
690521 TTTCTCTT
1 TTTCTCTT
690529 TTTCTCTT
1 TTTCTCTT
*
690537 TTTTTCTT
1 TTTCTCTT
*
690545 TTTTTCTT
1 TTTCTCTT
690553 TT
1 TT
690555 CTTCTTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (8 bp):
TTTCTCTT
Found at i:690546 original size:16 final size:16
Alignment explanation
Indices: 690525--690584 Score: 61
Period size: 16 Copynumber: 3.9 Consensus size: 16
690515 GCTTGCTTTC
690525 TCTTTTTCTCTTTTTT
1 TCTTTTTCTCTTTTTT
* *
690541 TCTTTTTTTCTTTTCT
1 TCTTTTTCTCTTTTTT
***
690557 TC-TTTTCTGAATTTT
1 TCTTTTTCTCTTTTTT
690572 TCTTTTTCT-TTTT
1 TCTTTTTCTCTTTT
690585 GTGTTTTTCT
Statistics
Matches: 34, Mismatches: 9, Indels: 3
0.74 0.20 0.07
Matches are distributed among these distances:
15 12 0.35
16 22 0.65
ACGTcount: A:0.03, C:0.17, G:0.02, T:0.78
Consensus pattern (16 bp):
TCTTTTTCTCTTTTTT
Found at i:690893 original size:21 final size:21
Alignment explanation
Indices: 690854--690893 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
690844 AAGGAAGATT
*
690854 AATGAAATGATAAAGATAAGG
1 AATGAAATGATAAAAATAAGG
690875 AATGAAATGA-AATAAATAA
1 AATGAAATGATAA-AAATAA
690894 ATGATAGAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.62, C:0.00, G:0.17, T:0.20
Consensus pattern (21 bp):
AATGAAATGATAAAAATAAGG
Found at i:690942 original size:22 final size:21
Alignment explanation
Indices: 690916--690956 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
690906 GCTGCAAAAT
*
690916 TGATGGTTTTGATGGATGAAGA
1 TGATGGTGTTGAT-GATGAAGA
690938 TGATGGTGTTGATGATGAA
1 TGATGGTGTTGATGATGAA
690957 ATGGAGATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.27, C:0.00, G:0.37, T:0.37
Consensus pattern (21 bp):
TGATGGTGTTGATGATGAAGA
Found at i:694826 original size:22 final size:20
Alignment explanation
Indices: 694789--694833 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 20
694779 CCATCTCCAT
694789 TTCATCATCAACACCATCATA
1 TTCATCATCAACACCATCA-A
*
694810 TTCATCCATCAAGACCATCAA
1 TTCAT-CATCAACACCATCAA
694831 TTC
1 TTC
694834 TGCAGCCATC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.36, C:0.33, G:0.02, T:0.29
Consensus pattern (20 bp):
TTCATCATCAACACCATCAA
Found at i:699814 original size:264 final size:264
Alignment explanation
Indices: 699344--699877 Score: 915
Period size: 264 Copynumber: 2.0 Consensus size: 264
699334 TTCTTCTTTG
* * * *
699344 GCGTGTTTGAGATACAACAACAACACCATCTCTATTTCATCATTAACACCATCATCTTCATCCAT
1 GCGTGTTTGAGATACAACAACAAAACCATATCCATTTCATCATCAACACCATCATCTTCATCCAT
* * * *
699409 CAAGACCATTCATTCCGCATCTATCTCTATCCTTTATTTATTTCATTTCATTCCTTATCTCTATC
66 CAAGACCATACATTCCGCAACCATCTCTATCCTTTATTTATTTCATTTAATTCCTTATCTCTATC
699474 ATTTCATTAATCTTCCTTTATTAATCATTTTCCTTTTATTATCTATGTTGCAGCCAAGCTTATAA
131 ATTTCATTAATCTTCCTTTATTAATCATTTTCCTTTTATTATCTATGTTGCAGCCAAGCTTATAA
* *
699539 TTCAAGGACATCAGTACTTGTTAATCCTAGATCGGGACACAATAAGTCTATCTACTATCTTCTCC
196 TTCAAGGACATCAGTACTTGTCAATCCTAGATCGGGACACAATAAGGCTATCTACTATCTTCTCC
699604 CAAA
261 CAAA
699608 GCGTGTTTGAGATACAACAACAAAACCATATCCATTTCATCATCAACACCATCATCTTCATCCAT
1 GCGTGTTTGAGATACAACAACAAAACCATATCCATTTCATCATCAACACCATCATCTTCATCCAT
** *
699673 CAAGACCATAGTTTCCGCAACCATCTCTATCCTTTATTTATTTCATTTAATTCCTTATCTTTATC
66 CAAGACCATACATTCCGCAACCATCTCTATCCTTTATTTATTTCATTTAATTCCTTATCTCTATC
*
699738 ATTTCATTAATCTTCCTTTATTAATCATTTTCCTTTTCTTATCTATGTTGCAGCCAAGCTTATAA
131 ATTTCATTAATCTTCCTTTATTAATCATTTTCCTTTTATTATCTATGTTGCAGCCAAGCTTATAA
* *
699803 TTCAAGGACATCAGTACTTGTCAATCCTATATCGGGACACAATAAGGCTATCTACTCTCTTCTCC
196 TTCAAGGACATCAGTACTTGTCAATCCTAGATCGGGACACAATAAGGCTATCTACTATCTTCTCC
699868 CAAA
261 CAAA
*
699872 TCGTGT
1 GCGTGT
699878 AGATCACCTT
Statistics
Matches: 253, Mismatches: 17, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
264 253 1.00
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.38
Consensus pattern (264 bp):
GCGTGTTTGAGATACAACAACAAAACCATATCCATTTCATCATCAACACCATCATCTTCATCCAT
CAAGACCATACATTCCGCAACCATCTCTATCCTTTATTTATTTCATTTAATTCCTTATCTCTATC
ATTTCATTAATCTTCCTTTATTAATCATTTTCCTTTTATTATCTATGTTGCAGCCAAGCTTATAA
TTCAAGGACATCAGTACTTGTCAATCCTAGATCGGGACACAATAAGGCTATCTACTATCTTCTCC
CAAA
Found at i:701332 original size:22 final size:21
Alignment explanation
Indices: 701295--701335 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
701285 CCATCTCCAT
701295 TTCATCATCAACACCATCATC
1 TTCATCATCAACACCATCATC
*
701316 TTCATCCATCAAGACCATCA
1 TTCAT-CATCAACACCATCA
701336 ATTCCACAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.34, C:0.37, G:0.02, T:0.27
Consensus pattern (21 bp):
TTCATCATCAACACCATCATC
Found at i:701418 original size:18 final size:17
Alignment explanation
Indices: 701397--701430 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
701387 TCTTTATCAT
*
701397 TTAATTAATCTTCCTTTA
1 TTAATCAAT-TTCCTTTA
701415 TTAATCAATTTCCTTT
1 TTAATCAATTTCCTTT
701431 TCTTATCTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.26, C:0.18, G:0.00, T:0.56
Consensus pattern (17 bp):
TTAATCAATTTCCTTTA
Found at i:701682 original size:26 final size:27
Alignment explanation
Indices: 701653--701707 Score: 69
Period size: 26 Copynumber: 2.0 Consensus size: 27
701643 AAAAAAGAAA
701653 AGAAAAGACA-AAAAG-AAGAAAAATTC
1 AGAAAAGA-AGAAAAGAAAGAAAAATTC
*
701679 AGAATAGAAGAAAAGAAAAGAAAAATTC
1 AGAAAAGAAGAAAAG-AAAGAAAAATTC
701707 A
1 A
701708 AAATGAGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
25 1 0.04
26 12 0.48
28 12 0.48
ACGTcount: A:0.69, C:0.05, G:0.16, T:0.09
Consensus pattern (27 bp):
AGAAAAGAAGAAAAGAAAGAAAAATTC
Found at i:704643 original size:23 final size:23
Alignment explanation
Indices: 704617--704664 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
704607 CATATACTTA
704617 GTTTATTTCTTTATGTTATGCAT
1 GTTTATTTCTTTATGTTATGCAT
704640 GTTTATTTCTTTATGTTATGCAT
1 GTTTATTTCTTTATGTTATGCAT
704663 GT
1 GT
704665 AGGCACATTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.17, C:0.08, G:0.15, T:0.60
Consensus pattern (23 bp):
GTTTATTTCTTTATGTTATGCAT
Found at i:710716 original size:18 final size:17
Alignment explanation
Indices: 710693--710742 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 17
710683 GCATCATTCC
710693 TTTTCTTCTTTTCTGAAT
1 TTTTCTTCTTTT-TGAAT
**
710711 TTTTCTTCTTTTTGTCT
1 TTTTCTTCTTTTTGAAT
710728 TTTTCATTCTTTTTG
1 TTTTC-TTCTTTTTG
710743 CACTCCGATT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.28
18 21 0.72
ACGTcount: A:0.06, C:0.16, G:0.06, T:0.72
Consensus pattern (17 bp):
TTTTCTTCTTTTTGAAT
Found at i:712565 original size:22 final size:21
Alignment explanation
Indices: 712528--712568 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
712518 CCATCTCCAT
712528 TTCATCATCAACACCATCATC
1 TTCATCATCAACACCATCATC
*
712549 TTCATCCATCAAGACCATCA
1 TTCAT-CATCAACACCATCA
712569 ATTTCGCAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.34, C:0.37, G:0.02, T:0.27
Consensus pattern (21 bp):
TTCATCATCAACACCATCATC
Found at i:712942 original size:26 final size:27
Alignment explanation
Indices: 712879--712947 Score: 81
Period size: 28 Copynumber: 2.6 Consensus size: 27
712869 AAAAAAGAAA
* *
712879 AGAAAAGACAAAA-AGAAGAAAAATTC
1 AGAAAAGAGAAAAGAAAAGAAAAATTC
*
712905 AGAATAGAAGAAAAGAAAAGAAAAATTC
1 AGAAAAG-AGAAAAGAAAAGAAAAATTC
712933 A-AAAAGAG-AAAGAAA
1 AGAAAAGAGAAAAGAAA
712948 GCCAAGGAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
25 7 0.19
26 8 0.22
27 9 0.24
28 13 0.35
ACGTcount: A:0.71, C:0.04, G:0.17, T:0.07
Consensus pattern (27 bp):
AGAAAAGAGAAAAGAAAAGAAAAATTC
Found at i:717056 original size:22 final size:21
Alignment explanation
Indices: 717019--717059 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
717009 CCATCTCTAT
717019 TTCATCATCAACACCATCATC
1 TTCATCATCAACACCATCATC
*
717040 TTCATCCATCAAGACCATCA
1 TTCAT-CATCAACACCATCA
717060 ATTCCGCAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.34, C:0.37, G:0.02, T:0.27
Consensus pattern (21 bp):
TTCATCATCAACACCATCATC
Found at i:718694 original size:22 final size:21
Alignment explanation
Indices: 718657--718697 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
718647 CCATCTCCAT
718657 TTCATCATCAACACCATCATC
1 TTCATCATCAACACCATCATC
*
718678 TTCATCCATCAAGACCATCA
1 TTCAT-CATCAACACCATCA
718698 ATTCCGCAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.34, C:0.37, G:0.02, T:0.27
Consensus pattern (21 bp):
TTCATCATCAACACCATCATC
Found at i:720334 original size:22 final size:21
Alignment explanation
Indices: 720297--720338 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
720287 CCATCTCTAT
720297 TTCATCATCAACACCATCAAC
1 TTCATCATCAACACCATCAAC
*
720318 TTCATCCATCAAGACCATCAA
1 TTCAT-CATCAACACCATCAA
720339 TTCCATAACC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.38, C:0.36, G:0.02, T:0.24
Consensus pattern (21 bp):
TTCATCATCAACACCATCAAC
Found at i:720673 original size:18 final size:18
Alignment explanation
Indices: 720650--720716 Score: 61
Period size: 18 Copynumber: 3.8 Consensus size: 18
720640 AATTGGAGTG
720650 CAAAAAGAAAGAAAAAGA
1 CAAAAAGAAAGAAAAAGA
**
720668 CAAAAAG-AAGAAAAATT
1 CAAAAAGAAAGAAAAAGA
720685 CAGAAAA-AAAG-AAAAGTA
1 CA-AAAAGAAAGAAAAAG-A
720703 -AAAAAGAAAAGAAA
1 CAAAAAG-AAAGAAA
720717 TTAAAAAAGA
Statistics
Matches: 39, Mismatches: 4, Indels: 11
0.72 0.07 0.20
Matches are distributed among these distances:
16 4 0.10
17 15 0.38
18 18 0.46
19 2 0.05
ACGTcount: A:0.76, C:0.04, G:0.15, T:0.04
Consensus pattern (18 bp):
CAAAAAGAAAGAAAAAGA
Found at i:720705 original size:13 final size:13
Alignment explanation
Indices: 720689--720713 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
720679 AAAATTCAGA
720689 AAAAAAGAAAAGT
1 AAAAAAGAAAAGT
720702 AAAAAAGAAAAG
1 AAAAAAGAAAAG
720714 AAATTAAAAA
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:0.80, C:0.00, G:0.16, T:0.04
Consensus pattern (13 bp):
AAAAAAGAAAAGT
Found at i:720723 original size:17 final size:17
Alignment explanation
Indices: 720669--720726 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
720659 AGAAAAAGAC
*
720669 AAAAAGAAGAA-AAATTC
1 AAAAAGAA-AAGAAATTA
* *
720686 AGAAA-AAAAGAAAAGTA
1 AAAAAGAAAAG-AAATTA
720703 AAAAAGAAAAGAAATTA
1 AAAAAGAAAAGAAATTA
720720 AAAAAGA
1 AAAAAGA
720727 GAAAACAAGC
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
15 2 0.06
16 2 0.06
17 24 0.73
18 5 0.15
ACGTcount: A:0.76, C:0.02, G:0.14, T:0.09
Consensus pattern (17 bp):
AAAAAGAAAAGAAATTA
Found at i:725467 original size:21 final size:21
Alignment explanation
Indices: 725441--725480 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
725431 CCATCTCCAT
725441 TTCATCATCAACACCATCATC
1 TTCATCATCAACACCATCATC
*
725462 TTCATCATCAAGACCATCA
1 TTCATCATCAACACCATCA
725481 ATTCCGCAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.35, C:0.35, G:0.03, T:0.28
Consensus pattern (21 bp):
TTCATCATCAACACCATCATC
Found at i:726243 original size:24 final size:24
Alignment explanation
Indices: 726206--726251 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
726196 ACTAAAGGAA
* *
726206 GTGACTTTTCAAGAGCCAAGAGGT
1 GTGACTATTCAAGAGCAAAGAGGT
*
726230 GTGACTATTGAAGAGCAAAGAG
1 GTGACTATTCAAGAGCAAAGAG
726252 TGGTAATTCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.35, C:0.13, G:0.30, T:0.22
Consensus pattern (24 bp):
GTGACTATTCAAGAGCAAAGAGGT
Found at i:727170 original size:22 final size:21
Alignment explanation
Indices: 727142--727182 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
727132 GATGCGAAAT
727142 TGATGGTCTTGATGGATGAAGA
1 TGATGGTCTTGAT-GATGAAGA
*
727164 TGATGGTGTTGATGATGAA
1 TGATGGTCTTGATGATGAA
727183 ATGGAGATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.27, C:0.02, G:0.37, T:0.34
Consensus pattern (21 bp):
TGATGGTCTTGATGATGAAGA
Found at i:728346 original size:27 final size:27
Alignment explanation
Indices: 728316--728368 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
728306 AGAAATAAAC
* *
728316 TAAGTATATGAACTATAATGTATAATT
1 TAAGAATATGAACTATAATATATAATT
*
728343 TAAGAATATGAACTATAGTATATAAT
1 TAAGAATATGAACTATAATATATAAT
728369 AACTTATATC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.47, C:0.04, G:0.11, T:0.38
Consensus pattern (27 bp):
TAAGAATATGAACTATAATATATAATT
Found at i:730754 original size:23 final size:24
Alignment explanation
Indices: 730728--730775 Score: 89
Period size: 23 Copynumber: 2.0 Consensus size: 24
730718 GCCCCATTTC
730728 CGCCTCTGATGAAC-CGACGATCT
1 CGCCTCTGATGAACTCGACGATCT
730751 CGCCTCTGATGAACTCGACGATCT
1 CGCCTCTGATGAACTCGACGATCT
730775 C
1 C
730776 CATCTCTTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 14 0.58
24 10 0.42
ACGTcount: A:0.21, C:0.35, G:0.21, T:0.23
Consensus pattern (24 bp):
CGCCTCTGATGAACTCGACGATCT
Found at i:734062 original size:2 final size:2
Alignment explanation
Indices: 734055--734086 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
734045 TCAATCTACA
734055 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
734087 TTTACGAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:734317 original size:26 final size:26
Alignment explanation
Indices: 734265--734318 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 26
734255 AAATGAGCGT
* * *
734265 CATAAATGTGTGTCATAAATATGTGA
1 CATAAATGCGCGTCATAAATATATGA
* *
734291 CATAAATGCGCGTCATAGATTTATGA
1 CATAAATGCGCGTCATAAATATATGA
734317 CA
1 CA
734319 CACAATTGCG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.31
Consensus pattern (26 bp):
CATAAATGCGCGTCATAAATATATGA
Found at i:734737 original size:2 final size:2
Alignment explanation
Indices: 734730--734754 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
734720 CACATTAAGT
734730 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
734755 TTATGAGGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:737368 original size:13 final size:13
Alignment explanation
Indices: 737350--737383 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
737340 AGGAGTAGAC
737350 CGGTTCAGAGTAA
1 CGGTTCAGAGTAA
737363 CGGTTCAGAGTAA
1 CGGTTCAGAGTAA
*
737376 AGGTTCAG
1 CGGTTCAG
737384 CTAAATCTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.29, C:0.15, G:0.32, T:0.24
Consensus pattern (13 bp):
CGGTTCAGAGTAA
Found at i:738886 original size:20 final size:20
Alignment explanation
Indices: 738863--738905 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
738853 GAGCTCCTAT
738863 AATGGTTAAGGATATCCACA
1 AATGGTTAAGGATATCCACA
738883 AATGGTTAAGGATATCCACA
1 AATGGTTAAGGATATCCACA
738903 AAT
1 AAT
738906 TAAAGGACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.42, C:0.14, G:0.19, T:0.26
Consensus pattern (20 bp):
AATGGTTAAGGATATCCACA
Found at i:741284 original size:23 final size:23
Alignment explanation
Indices: 741241--741284 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
741231 TTTCTTTATT
* *
741241 GGATTTTTTCTTATATTATTTTG
1 GGATTTTTTATTATATAATTTTG
741264 GGATTATTTTATT-TATAATTT
1 GGATT-TTTTATTATATAATTT
741285 GAGACTTTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 12 0.67
24 6 0.33
ACGTcount: A:0.23, C:0.02, G:0.11, T:0.64
Consensus pattern (23 bp):
GGATTTTTTATTATATAATTTTG
Found at i:748610 original size:32 final size:32
Alignment explanation
Indices: 748582--748653 Score: 144
Period size: 32 Copynumber: 2.2 Consensus size: 32
748572 TTTTTGGCGA
748582 ACGTTAGCGTAACCAAAACCCAACTTTGGTGT
1 ACGTTAGCGTAACCAAAACCCAACTTTGGTGT
748614 ACGTTAGCGTAACCAAAACCCAACTTTGGTGT
1 ACGTTAGCGTAACCAAAACCCAACTTTGGTGT
748646 ACGTTAGC
1 ACGTTAGC
748654 ATCTCCCAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (32 bp):
ACGTTAGCGTAACCAAAACCCAACTTTGGTGT
Found at i:751007 original size:15 final size:15
Alignment explanation
Indices: 750980--751024 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
750970 ATGTTCCATG
*
750980 AAAAAAATGAAAAAT
1 AAAAAAATAAAAAAT
**
750995 ACGAAAATAAAAAAAT
1 AAAAAAAT-AAAAAAT
751011 AAAAAAATAAAAAA
1 AAAAAAATAAAAAA
751025 GCAAAAAAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
15 12 0.50
16 12 0.50
ACGTcount: A:0.82, C:0.02, G:0.04, T:0.11
Consensus pattern (15 bp):
AAAAAAATAAAAAAT
Found at i:751009 original size:8 final size:8
Alignment explanation
Indices: 750980--751024 Score: 56
Period size: 8 Copynumber: 5.8 Consensus size: 8
750970 ATGTTCCATG
750980 AAAAAAAT
1 AAAAAAAT
*
750988 -GAAAAAT
1 AAAAAAAT
**
750995 ACGAAAAT
1 AAAAAAAT
751003 AAAAAAAT
1 AAAAAAAT
751011 AAAAAAAT
1 AAAAAAAT
751019 AAAAAA
1 AAAAAA
751025 GCAAAAAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
7 6 0.19
8 25 0.81
ACGTcount: A:0.82, C:0.02, G:0.04, T:0.11
Consensus pattern (8 bp):
AAAAAAAT
Done.