Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold171
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: 2364178
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.28
Warning! 278680 characters in sequence are not A, C, G, or T
File 3 of 13
Found at i:354124 original size:19 final size:19
Alignment explanation
Indices: 354089--354141 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
354079 TTTTTGATTT
*
354089 TTTGATTTTTGATTTTTTTA
1 TTTGATTATT-ATTTTTTTA
*
354109 TTTGATTATTATTTTTTTG
1 TTTGATTATTATTTTTTTA
*
354128 TTTTATTATT-TTTT
1 TTTGATTATTATTTT
354142 AATTTTATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
18 4 0.13
19 17 0.57
20 9 0.30
ACGTcount: A:0.15, C:0.00, G:0.08, T:0.77
Consensus pattern (19 bp):
TTTGATTATTATTTTTTTA
Found at i:354139 original size:13 final size:14
Alignment explanation
Indices: 354080--354139 Score: 54
Period size: 13 Copynumber: 4.3 Consensus size: 14
354070 CTTTTTTAAT
354080 TTTTGATTTT-TTGA
1 TTTTGATTTTATT-A
*
354094 TTTTTGATTTTTTTA
1 -TTTTGATTTTATTA
*
354109 -TTTGATTATTATTT
1 TTTTGATT-TTATTA
354123 TTTTG-TTTTATTA
1 TTTTGATTTTATTA
354136 TTTT
1 TTTT
354140 TTAATTTTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
13 16 0.41
14 6 0.15
15 15 0.38
16 2 0.05
ACGTcount: A:0.15, C:0.00, G:0.08, T:0.77
Consensus pattern (14 bp):
TTTTGATTTTATTA
Found at i:354147 original size:16 final size:16
Alignment explanation
Indices: 354071--354149 Score: 63
Period size: 16 Copynumber: 4.9 Consensus size: 16
354061 TTTCTTTTTC
354071 TTTTTTAATTTT-TGA
1 TTTTTTAATTTTATGA
*
354086 TTTTTTGATTTT-TGA
1 TTTTTTAATTTTATGA
* *
354101 TTTTTTTATTTGATTATTA
1 -TTTTTTAATT--TTATGA
** *
354120 TTTTTTTGTTTTATTA
1 TTTTTTAATTTTATGA
354136 TTTTTTAATTTTAT
1 TTTTTTAATTTTAT
354150 ATAAAAAAGA
Statistics
Matches: 52, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
15 14 0.27
16 26 0.50
18 10 0.19
19 2 0.04
ACGTcount: A:0.18, C:0.00, G:0.06, T:0.76
Consensus pattern (16 bp):
TTTTTTAATTTTATGA
Found at i:359542 original size:18 final size:18
Alignment explanation
Indices: 359521--359560 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
359511 ATTACAAGAA
359521 AAAAAAAGAAGAAAAATG
1 AAAAAAAGAAGAAAAATG
***
359539 AAAAGGGGAAGAAAAATG
1 AAAAAAAGAAGAAAAATG
359557 AAAA
1 AAAA
359561 GGAAAAGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.72, C:0.00, G:0.23, T:0.05
Consensus pattern (18 bp):
AAAAAAAGAAGAAAAATG
Found at i:359561 original size:18 final size:18
Alignment explanation
Indices: 359527--359572 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
359517 AGAAAAAAAA
359527 AGAAGAAAAATGAAAAGG
1 AGAAGAAAAATGAAAAGG
*
359545 GGAAGAAAAATGAAAAGG
1 AGAAGAAAAATGAAAAGG
*
359563 AAAAGAAAAA
1 AGAAGAAAAA
359573 AAAACAAAGC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.70, C:0.00, G:0.26, T:0.04
Consensus pattern (18 bp):
AGAAGAAAAATGAAAAGG
Found at i:360919 original size:141 final size:142
Alignment explanation
Indices: 360649--360921 Score: 394
Period size: 142 Copynumber: 1.9 Consensus size: 142
360639 CTTAGTCATC
* *
360649 TTTTTCAGATTTCCATCATTCCTATGGTTTTTCGTACGGGTATAGAAATCTTCAAAACTTTTCGT
1 TTTTTCAGATTTCAATCATTCCTATGGTTTTCCGTACGGGTATAGAAATCTTCAAAACTTTTCGT
*
360714 ATCTTTTCGATTCTCCATTAAGGTACAAAATGAATTTTTTTGGAAATTAAAAATTAAATAAAAAT
66 ATCTTTTAGATTCTCCATTAAGGTACAAAATGAATTTTTTTGGAAATTAAAAATTAAATAAAAAT
360779 TATTGTCTTAAT
131 TATTGTCTTAAT
* *
360791 TTTTTGAGATTTCTAAT-ATTCCTATGGTTTTCCGTAGGGGTATAGAAATCTTCAAAACTTTT-G
1 TTTTTCAGATTTC-AATCATTCCTATGGTTTTCCGTACGGGTATAGAAATCTTCAAAACTTTTCG
** * *
360854 TATCTTTTTAG-TTCTCTGTTAAGGT-CTGAAATTAA-TTTTTTGGAAATTAAAAAATTAAATAA
65 TATC-TTTTAGATTCTCCATTAAGGTAC-AAAATGAATTTTTTTGGAAATT-AAAAATTAAATAA
360916 AAATTA
127 AAATTA
360922 AATAAAAATT
Statistics
Matches: 118, Mismatches: 9, Indels: 9
0.87 0.07 0.07
Matches are distributed among these distances:
140 14 0.12
141 42 0.36
142 60 0.51
143 2 0.02
ACGTcount: A:0.33, C:0.11, G:0.12, T:0.44
Consensus pattern (142 bp):
TTTTTCAGATTTCAATCATTCCTATGGTTTTCCGTACGGGTATAGAAATCTTCAAAACTTTTCGT
ATCTTTTAGATTCTCCATTAAGGTACAAAATGAATTTTTTTGGAAATTAAAAATTAAATAAAAAT
TATTGTCTTAAT
Found at i:360928 original size:10 final size:11
Alignment explanation
Indices: 360903--360932 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
360893 TTGGAAATTA
360903 AAAAATTAAAT
1 AAAAATTAAAT
360914 AAAAATTAAAT
1 AAAAATTAAAT
360925 AAAAATTA
1 AAAAATTA
360933 TTGTCTTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (11 bp):
AAAAATTAAAT
Found at i:361914 original size:150 final size:150
Alignment explanation
Indices: 361712--362016 Score: 461
Period size: 150 Copynumber: 2.0 Consensus size: 150
361702 TGTTTGCATA
* * * * *
361712 TTTCCCGAAACCTAGTCTTATAAAACTATCGGGTCTACTTCTACGTCGAAGGTACAAATTAGGAG
1 TTTCTCGAAACCTAGTCCTATAAAACTATCGAGTCTACTTCTACGCCAAAGGTACAAATTAGGAG
* *
361777 TAGGTTT-TTTTCATCTTTTTAAGTTCTCTAGGAT-TGTTGAGCACTTTTATGTCGATGGTAGGT
66 TAGGTTTGTTTTCATC-TTTTAAATCCTCTAGGATCT-TTGAGCACTTTTATGTCGATGGTAGGT
361840 CTTAGAGAGATCCTAATAAAGT
129 CTTAGAGAGATCCTAATAAAGT
* * * *
361862 TTTCTCGAAATCTGGTCCTATAAAACTATCGAGTCTGCTTCTACGCCAAAGGTACGAATTAGGAG
1 TTTCTCGAAACCTAGTCCTATAAAACTATCGAGTCTACTTCTACGCCAAAGGTACAAATTAGGAG
361927 TAGGTTTGTTTTCATCTTTTAAATCCTCTAGGATCTTTGAGCACTTTTATGTCGATGGTAGGTCT
66 TAGGTTTGTTTTCATCTTTTAAATCCTCTAGGATCTTTGAGCACTTTTATGTCGATGGTAGGTCT
* *
361992 TAGAGATATCTTAATAAAGT
131 TAGAGAGATCCTAATAAAGT
362012 TTTCT
1 TTTCT
362017 TCTGAACTGA
Statistics
Matches: 140, Mismatches: 13, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
150 131 0.94
151 9 0.06
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.38
Consensus pattern (150 bp):
TTTCTCGAAACCTAGTCCTATAAAACTATCGAGTCTACTTCTACGCCAAAGGTACAAATTAGGAG
TAGGTTTGTTTTCATCTTTTAAATCCTCTAGGATCTTTGAGCACTTTTATGTCGATGGTAGGTCT
TAGAGAGATCCTAATAAAGT
Found at i:363058 original size:21 final size:20
Alignment explanation
Indices: 363032--363084 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 20
363022 CATTCTGGAA
363032 AATGTATCGATACA-TACTAGC
1 AATGTATCGATACATTACT--C
*
363053 AATGTATCCATACATTACTC
1 AATGTATCGATACATTACTC
*
363073 ATTGTATCGATA
1 AATGTATCGATA
363085 TATTCTGGGT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 11 0.39
21 13 0.46
22 4 0.14
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.34
Consensus pattern (20 bp):
AATGTATCGATACATTACTC
Found at i:365592 original size:80 final size:80
Alignment explanation
Indices: 365491--365707 Score: 256
Period size: 80 Copynumber: 2.7 Consensus size: 80
365481 TAAAGCATTG
* * * * * *
365491 AATTTTTTATCTCCGGTGATACTCCAACCCCACTATCTCTGAAAGGATACTCCAACCTTGTTATT
1 AATTTTTCATCTCTGGGGATACTCCAACCCCACCATCTCTGAAGGGATACTCCAACCTTATTATT
365556 ACTTCTAAAACGCTA
66 ACTTCTAAAACGCTA
* * * * * * *
365571 AATTTTTCATCTCTGGGGATACTTCAATCCCACCATCTCCGAAGGGACATTCCAACCCTATTTTT
1 AATTTTTCATCTCTGGGGATACTCCAACCCCACCATCTCTGAAGGGATACTCCAACCTTATTATT
* *
365636 ACTTCTAAAATGCTG
66 ACTTCTAAAACGCTA
* * * *
365651 AATTTTTCATCTTTAGGGATACTCCAACCCCACCATCTCT-AAGGGGTACTCCTACCT
1 AATTTTTCATCTCTGGGGATACTCCAACCCCACCATCTCTGAAGGGATACTCCAACCT
365708 CGTATTCTGA
Statistics
Matches: 112, Mismatches: 25, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
79 12 0.11
80 100 0.89
ACGTcount: A:0.27, C:0.29, G:0.12, T:0.33
Consensus pattern (80 bp):
AATTTTTCATCTCTGGGGATACTCCAACCCCACCATCTCTGAAGGGATACTCCAACCTTATTATT
ACTTCTAAAACGCTA
Found at i:370936 original size:13 final size:13
Alignment explanation
Indices: 370918--370943 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
370908 CATTTTGGGA
370918 TGTATCGATACAT
1 TGTATCGATACAT
370931 TGTATCGATACAT
1 TGTATCGATACAT
370944 CTTGTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:370940 original size:33 final size:32
Alignment explanation
Indices: 370898--370961 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
370888 TACAAGCTAA
*
370898 TGTATCGATACATTTTGGGATGTATCGATACAT
1 TGTATCGATACATCTTGGG-TGTATCGATACAT
*
370931 TGTATCGATACATCTTGTGTGTATCGATACA
1 TGTATCGATACATCTTGGGTGTATCGATACA
370962 AACAGTTAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.39
Consensus pattern (32 bp):
TGTATCGATACATCTTGGGTGTATCGATACAT
Found at i:371061 original size:13 final size:13
Alignment explanation
Indices: 371043--371067 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
371033 ACATTTGGTC
371043 ATGTATCGATACA
1 ATGTATCGATACA
371056 ATGTATCGATAC
1 ATGTATCGATAC
371068 TGTGCATTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:373781 original size:15 final size:16
Alignment explanation
Indices: 373752--373781 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
373742 AACATCAAAC
373752 ATCACAAAATCATAAA
1 ATCACAAAATCATAAA
373768 ATCACAAAAT-ATAA
1 ATCACAAAATCATAA
373782 TCAAATAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.63, C:0.17, G:0.00, T:0.20
Consensus pattern (16 bp):
ATCACAAAATCATAAA
Found at i:386477 original size:13 final size:13
Alignment explanation
Indices: 386459--386483 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
386449 ACATTTGGTC
386459 ATGTATCGATACA
1 ATGTATCGATACA
386472 ATGTATCGATAC
1 ATGTATCGATAC
386484 TGTGCATTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:390670 original size:61 final size:61
Alignment explanation
Indices: 390605--390749 Score: 157
Period size: 61 Copynumber: 2.4 Consensus size: 61
390595 TGGGAAAAAC
* * * * *
390605 GCCAATATGCTGATTCAAGGTCAGCGACGT-TGGACTTAAAGATGCGAAGAATGATAAAGGT
1 GCCAATATGCTGATTCAAGGCCAGCAACATCAGG-CTTAAAGATGAGAAGAATGATAAAGGT
* * * * * * *
390666 GCCAATATGCTAATTCACGACCAGCAATATCAGGCTTGAAGTTGAGAATAATGATAAAGGT
1 GCCAATATGCTGATTCAAGGCCAGCAACATCAGGCTTAAAGATGAGAAGAATGATAAAGGT
*
390727 GCCAATATGTTGATTCAAGGCCA
1 GCCAATATGCTGATTCAAGGCCA
390750 ATGATATTAG
Statistics
Matches: 67, Mismatches: 16, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
61 65 0.97
62 2 0.03
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.24
Consensus pattern (61 bp):
GCCAATATGCTGATTCAAGGCCAGCAACATCAGGCTTAAAGATGAGAAGAATGATAAAGGT
Found at i:390811 original size:52 final size:52
Alignment explanation
Indices: 390755--390868 Score: 138
Period size: 52 Copynumber: 2.2 Consensus size: 52
390745 GGCCAATGAT
* ** *
390755 ATTAGGCTTAAAGATGCGAAAAATGCCAATGTGCTGATTCACGATCAGCGAC
1 ATTAGGCTTAAAGATGAGAAAAACACCAATGTGCTGATTCAAGATCAGCGAC
* * * * *
390807 ATTAGACTTGAAGATGAGAAGAGCACCAATGTGCTGATTCAAGATCAGTGAC
1 ATTAGGCTTAAAGATGAGAAAAACACCAATGTGCTGATTCAAGATCAGCGAC
*
390859 ATTGGGCTTA
1 ATTAGGCTTA
390869 GGAATGTTAA
Statistics
Matches: 50, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.25
Consensus pattern (52 bp):
ATTAGGCTTAAAGATGAGAAAAACACCAATGTGCTGATTCAAGATCAGCGAC
Found at i:391358 original size:52 final size:51
Alignment explanation
Indices: 391271--391376 Score: 194
Period size: 52 Copynumber: 2.1 Consensus size: 51
391261 TTTTACTATT
391271 CATCACTATTCATCACTGTCATGTATCGATACATTATGAATAGTATCGATA
1 CATCACTATTCATCACTGTCATGTATCGATACATTATGAATAGTATCGATA
*
391322 CATCACTATTTATCACTGTTCATGTATCGATACATTATGAATAGTATCGATA
1 CATCACTATTCATCACTG-TCATGTATCGATACATTATGAATAGTATCGATA
391374 CAT
1 CAT
391377 TGATCCAACG
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
51 17 0.32
52 36 0.68
ACGTcount: A:0.33, C:0.19, G:0.11, T:0.37
Consensus pattern (51 bp):
CATCACTATTCATCACTGTCATGTATCGATACATTATGAATAGTATCGATA
Found at i:393502 original size:21 final size:21
Alignment explanation
Indices: 393460--393519 Score: 72
Period size: 21 Copynumber: 2.9 Consensus size: 21
393450 GAATTAGAGG
393460 AGAAAATGAATGAGTTAGAAA
1 AGAAAATGAATGAGTTAGAAA
393481 AGAAAA-GAAATGAGTT-GCAAA
1 AGAAAATG-AATGAGTTAG-AAA
393502 ATGAAAATG-ATGAGTTAG
1 A-GAAAATGAATGAGTTAG
393520 CTAATAAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
20 2 0.06
21 25 0.74
22 6 0.18
23 1 0.03
ACGTcount: A:0.53, C:0.02, G:0.25, T:0.20
Consensus pattern (21 bp):
AGAAAATGAATGAGTTAGAAA
Found at i:400588 original size:928 final size:927
Alignment explanation
Indices: 398794--400648 Score: 3593
Period size: 928 Copynumber: 2.0 Consensus size: 927
398784 ATAACAAGCA
398794 TGATGACAACCATGAACCAAGGTTGCCTAAATAATGATCTTGAGATGGATTTCTAACAATAAACA
1 TGATGACAACCATGAACCAAGGTTGCCTAAATAATGATCTTGAGATGGATTTCTAACAATAAACA
398859 GAATTATTGATGCAAGAACAGAAATTGAAAGAAGCAGAAAAAAATAACAAAATGGAATAGATTAG
66 GAATTATTGATGCAAGAACAGAAATTGAAAGAAGCAGAAAAAAATAACAAAATGGAATAGATTAG
* *
398924 AGATGGAGGATGGCGCCACAATCACAAGATTGATAAGCCAAAAGGATTGATCGCCACAAGAGTCT
131 AGATGAAGGATGGCGCCACAATCACAAGATTGATAAGCCAAAAGGAATGATCGCCACAAGAGTCT
*
398989 TGGCCTCTTGATAAGATCCAGAAAAATTGGCTCACTCAAGAACCTAAGAGTCACACTCTCACACA
196 TGGCCTCTTGATAAGATCCAGAAAAATTGGCTCACTCAAGAACCTAAGAATCACACTCTCACACA
*
399054 AAATGTGTTTTCTGCAAATATGAATGTCTGCCCCTTCCAAATCTGTTTACAAGAGCTTATATATG
261 AAATGTGTTTTCTGCAAATATGAATGTCTGCCCCCTCCAAATCTGTTTACAAGAGCTTATATATG
399119 CCCTCATAAGCCATAGTTAACACAAACCCTAAGGGGCTTATTATGCTAACAAGCCCAACTCTTAC
326 CCCTCATAAGCCATAGTTAACACAAACCCTAAGGGGCTTATTATGCTAACAAGCCCAACTCTTAC
399184 TTAAACCCAAATAACAAGTTTCTATGCTAAATAAAGCCCAAAGCAAGTCACAACCAGCAGGCCCT
391 TTAAACCCAAATAACAAGTTTCTATGCTAAATAAAGCCCAAAGCAAGTCACAACCAGCAGGCCCT
*
399249 TTATTACAAAATAACCCAAGTCCTAATTGAATCCATTGGAGCCCATATCTTCTAAATATATGCAA
456 TTATTACAAAATAACCCAAGTCCTAATTGAATCCATTGGAGCCCATATCTTCCAAATATATGCAA
*
399314 TTAACTAGCTTGGGCTCTTCTAACTCCATATTGGGTCTACTTTCAAATAGGCCAGCAACCATCTT
521 TTAACTAGCTTGGGCTCTTCTAACTCCAGATTGGGTCTACTTTCAAATAGGCCAGCAACCATCTT
399379 CTCTAGGTCTTCCTTTATCCTCTTTGCCTTTGCCCTCGTTATTGGTCCTTGAAATCCTTCCAACG
586 CTCTAGGTCTTCCTTTATCCTCTTTGCCTTTGCCCTCGTTATTGGTCCTTGAAATCCTTCCAACG
399444 CCTTCAGGTCTTTGTCTTCAATGGACCTTCCTTGGTTTTCATCAACCCCTCCTTCTTCAAGAGAA
651 CCTTCAGGTCTTTGTCTTCAATGGACCTTCCTTGGTTTTCATCAACCCCTCCTTCTTCAAGAGAA
*
399509 TTCGTCCTCGAATTTGGCTCTTCATCGCCTACATCAAAGAGAGATAAATCAGATACATTAAAAGT
716 TTCGTCCTCGAATTTGGCTCTTCATCACCTACATCAAAGAGAGATAAATCAGATACATTAAAAGT
399574 AGCACTAACACCATACTCACCTGGTAAGTCCACTTTGTATGCATTATCCCCAATTCTCTCTAACA
781 AGCACTAACACCATACTCACCTGGTAAGTCCACTTTGTATGCATTATCCCCAATTCTCTCTAACA
399639 CTTGGAATGGTCCATCCCCTCTTGGTTGAAGCTTGGACTTCCTTTGCATTGGAAACCTTTCCTTG
846 CTTGGAATGGTCCATCCCCTCTTGGTTGAAGCTTGGACTTCCTTTGCATTGGAAACCTTTCCTTG
399704 CACATATGTACCCAAAC
911 CACATATGTACCCAAAC
399721 TGATGACAACCATGAACCAAGGTTGCCTAAATAATGATCTTGAGATGGATTTCTAACAATAAACA
1 TGATGACAACCATGAACCAAGGTTGCCTAAATAATGATCTTGAGATGGATTTCTAACAATAAACA
399786 GAATTATTGATGCAAGAACAGAAATTGAAAGAAGCAGAAAAAAATAACAAAATGGAATAGATTAG
66 GAATTATTGATGCAAGAACAGAAATTGAAAGAAGCAGAAAAAAATAACAAAATGGAATAGATTAG
399851 AGATGAAGGATGGCGCCACAATCACAAGATTGATAAGCCAAAAGGAATGATCGCCACAAGAGTCT
131 AGATGAAGGATGGCGCCACAATCACAAGATTGATAAGCCAAAAGGAATGATCGCCACAAGAGTCT
399916 TGGCCTCTTGATAAGATCCAGAAAAATTGGCTCACTCAAGAACCTAAGAATCACACTCTCACACA
196 TGGCCTCTTGATAAGATCCAGAAAAATTGGCTCACTCAAGAACCTAAGAATCACACTCTCACACA
399981 AAATGTGTTTTCTGCAAATATGAATGTCTGCCCCCTCCAAATCTGTTTACAAGAGCTTATATATG
261 AAATGTGTTTTCTGCAAATATGAATGTCTGCCCCCTCCAAATCTGTTTACAAGAGCTTATATATG
*
400046 CCCTCATAAGCCATAGTTAACACAAACCCTAAGGGGCTTATTATGTTAACAAGCCCAACTCTTAC
326 CCCTCATAAGCCATAGTTAACACAAACCCTAAGGGGCTTATTATGCTAACAAGCCCAACTCTTAC
*
400111 TTAAACCCAAATAACAAGTTTTTTATGCTAAATAAAGCCCAAAGCAAGTCACAACCAGCAGGCCC
391 TTAAACCCAAATAACAAG-TTTCTATGCTAAATAAAGCCCAAAGCAAGTCACAACCAGCAGGCCC
400176 TTTATTACAAAATAACCCAAGTCCTAATTGAATCCATTGGAGCCCATATCTTCCAAATATATGCA
455 TTTATTACAAAATAACCCAAGTCCTAATTGAATCCATTGGAGCCCATATCTTCCAAATATATGCA
400241 ATTAACTAGCTTGGGCTCTTCTAACTCCAGATTGGGTCTACTTTCAAATAGGCCAGCAACCATCT
520 ATTAACTAGCTTGGGCTCTTCTAACTCCAGATTGGGTCTACTTTCAAATAGGCCAGCAACCATCT
*
400306 TCTCTAGGTCTTCCTTTATCCTCTTTGCCTTTGCCCTTGTTATTGGTCCTTGAAATCCTTCCAAC
585 TCTCTAGGTCTTCCTTTATCCTCTTTGCCTTTGCCCTCGTTATTGGTCCTTGAAATCCTTCCAAC
400371 GCCTTCAGGTCTTTGTCTTCAATGGACCTTCCTTGGTTTTCATCAACCCCTCCTTCTTCAAGAGA
650 GCCTTCAGGTCTTTGTCTTCAATGGACCTTCCTTGGTTTTCATCAACCCCTCCTTCTTCAAGAGA
*
400436 ATTCGTCCTCGAATTTGGCTCTTCATCACCTACATTAAAGAGAGATAAATCAGATACATTAAAAG
715 ATTCGTCCTCGAATTTGGCTCTTCATCACCTACATCAAAGAGAGATAAATCAGATACATTAAAAG
400501 TAGCACTAACACCATACTCACCTGGTAAGTCCACTTTGTATGCATTATCCCCAATTCTCTCTAAC
780 TAGCACTAACACCATACTCACCTGGTAAGTCCACTTTGTATGCATTATCCCCAATTCTCTCTAAC
400566 ACTTGGAATGGTCCATCCCCTCTTGGTTGAAGCTTGGACTTCCTTTGCATTGGAAACCTTTCCTT
845 ACTTGGAATGGTCCATCCCCTCTTGGTTGAAGCTTGGACTTCCTTTGCATTGGAAACCTTTCCTT
*
400631 GCGCATATGTACCCAAAC
910 GCACATATGTACCCAAAC
400649 CCAATCTCCA
Statistics
Matches: 915, Mismatches: 12, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
927 403 0.44
928 512 0.56
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.28
Consensus pattern (927 bp):
TGATGACAACCATGAACCAAGGTTGCCTAAATAATGATCTTGAGATGGATTTCTAACAATAAACA
GAATTATTGATGCAAGAACAGAAATTGAAAGAAGCAGAAAAAAATAACAAAATGGAATAGATTAG
AGATGAAGGATGGCGCCACAATCACAAGATTGATAAGCCAAAAGGAATGATCGCCACAAGAGTCT
TGGCCTCTTGATAAGATCCAGAAAAATTGGCTCACTCAAGAACCTAAGAATCACACTCTCACACA
AAATGTGTTTTCTGCAAATATGAATGTCTGCCCCCTCCAAATCTGTTTACAAGAGCTTATATATG
CCCTCATAAGCCATAGTTAACACAAACCCTAAGGGGCTTATTATGCTAACAAGCCCAACTCTTAC
TTAAACCCAAATAACAAGTTTCTATGCTAAATAAAGCCCAAAGCAAGTCACAACCAGCAGGCCCT
TTATTACAAAATAACCCAAGTCCTAATTGAATCCATTGGAGCCCATATCTTCCAAATATATGCAA
TTAACTAGCTTGGGCTCTTCTAACTCCAGATTGGGTCTACTTTCAAATAGGCCAGCAACCATCTT
CTCTAGGTCTTCCTTTATCCTCTTTGCCTTTGCCCTCGTTATTGGTCCTTGAAATCCTTCCAACG
CCTTCAGGTCTTTGTCTTCAATGGACCTTCCTTGGTTTTCATCAACCCCTCCTTCTTCAAGAGAA
TTCGTCCTCGAATTTGGCTCTTCATCACCTACATCAAAGAGAGATAAATCAGATACATTAAAAGT
AGCACTAACACCATACTCACCTGGTAAGTCCACTTTGTATGCATTATCCCCAATTCTCTCTAACA
CTTGGAATGGTCCATCCCCTCTTGGTTGAAGCTTGGACTTCCTTTGCATTGGAAACCTTTCCTTG
CACATATGTACCCAAAC
Found at i:404749 original size:42 final size:42
Alignment explanation
Indices: 404694--404812 Score: 193
Period size: 42 Copynumber: 2.8 Consensus size: 42
404684 TTCTTCTCTC
* *
404694 CTCCTCCTGTCATCCCTCCTCTCTCTATTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
*
404736 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
* *
404778 CTCCTCCTATCATCCCTCCTCTCTCTTCTTTCTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCT
404813 TTGAGGGCTA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.08, C:0.46, G:0.03, T:0.43
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
Found at i:404753 original size:12 final size:11
Alignment explanation
Indices: 404727--404802 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
404717 TCTATTATCT
*
404727 CTCCTGTCTCTC
1 CTCCTATCTC-C
404739 CTCCTATCATCC
1 CTCCTATC-TCC
404751 CTCCTATCT--
1 CTCCTATCTCC
*
404760 CTACTATCT--
1 CTCCTATCTCC
*
404769 CTCCTGTCTCTC
1 CTCCTATCTC-C
404781 CTCCTATCATCC
1 CTCCTATC-TCC
*
404793 CTCCTCTCTC
1 CTCCTATCTC
404803 TTCTTTCTCT
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 3 0.06
12 31 0.58
13 4 0.08
ACGTcount: A:0.09, C:0.49, G:0.03, T:0.39
Consensus pattern (11 bp):
CTCCTATCTCC
Found at i:404754 original size:24 final size:24
Alignment explanation
Indices: 404718--404803 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
404708 CCTCCTCTCT
* *
404718 CTATTATCTCTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
* *
404742 CTATCATCCCTCC--TATCT-CTA
1 CTATCATCCCTCCTGTCTCTCCTC
404763 CTATC-T--CTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
*
404784 CTATCATCCCTCCTCTCTCT
1 CTATCATCCCTCCTGTCTCT
404804 TCTTTCTCTT
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 4 0.08
20 5 0.10
21 14 0.29
22 5 0.10
24 21 0.43
ACGTcount: A:0.10, C:0.45, G:0.02, T:0.42
Consensus pattern (24 bp):
CTATCATCCCTCCTGTCTCTCCTC
Found at i:404778 original size:18 final size:18
Alignment explanation
Indices: 404709--404779 Score: 52
Period size: 18 Copynumber: 3.6 Consensus size: 18
404699 CCTGTCATCC
* *
404709 CTCCTCTCTCTATTATCT
1 CTCCTGTCTCTACTATCT
*
404727 CTCCTGTCTCTCCTCCTATCAT
1 CTCCTG--TCT-CTACTATC-T
*
404749 CCCTCCTATCTCTACTATCT
1 --CTCCTGTCTCTACTATCT
404769 CTCCTGTCTCT
1 CTCCTGTCTCT
404780 CCTCCTATCA
Statistics
Matches: 41, Mismatches: 6, Indels: 12
0.69 0.10 0.20
Matches are distributed among these distances:
18 15 0.37
20 4 0.10
21 13 0.32
22 4 0.10
24 5 0.12
ACGTcount: A:0.10, C:0.44, G:0.03, T:0.44
Consensus pattern (18 bp):
CTCCTGTCTCTACTATCT
Found at i:410487 original size:18 final size:18
Alignment explanation
Indices: 410444--410493 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
410434 TCCATCTTCT
410444 TCTCTCCTCT-TCCTATCA
1 TCTCTCCTCTCT-CTATCA
*
410462 TC-CATCCTCTCTCTATTA
1 TCTC-TCCTCTCTCTATCA
*
410480 TCTCTCCTGTCTCT
1 TCTCTCCTCTCTCT
410494 CCTCTTATCA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
17 1 0.04
18 24 0.89
19 2 0.07
ACGTcount: A:0.10, C:0.42, G:0.02, T:0.46
Consensus pattern (18 bp):
TCTCTCCTCTCTCTATCA
Found at i:410516 original size:24 final size:23
Alignment explanation
Indices: 410468--410559 Score: 88
Period size: 24 Copynumber: 4.2 Consensus size: 23
410458 ATCATCCATC
* *
410468 CTCT-CTCTATTATCTCTCCTGT
1 CTCTCCTCTATCATCCCTCCTGT
*
410490 CTCTCCTCTTATCATCCCTCCTAT
1 CTCTCCTC-TATCATCCCTCCTGT
410514 CTCT--TCTATC-T--CTCCTGT
1 CTCTCCTCTATCATCCCTCCTGT
*
410532 CTCTCCTCCTATCATCCCTCCTCT
1 CTCTCCT-CTATCATCCCTCCTGT
410556 CTCT
1 CTCT
410560 TCTTTCTCTT
Statistics
Matches: 57, Mismatches: 5, Indels: 14
0.75 0.07 0.18
Matches are distributed among these distances:
18 10 0.18
20 2 0.04
21 9 0.16
22 7 0.12
23 3 0.05
24 26 0.46
ACGTcount: A:0.09, C:0.45, G:0.02, T:0.45
Consensus pattern (23 bp):
CTCTCCTCTATCATCCCTCCTGT
Found at i:410517 original size:42 final size:42
Alignment explanation
Indices: 410454--410568 Score: 178
Period size: 42 Copynumber: 2.7 Consensus size: 42
410444 TCTCTCCTCT
*
410454 TCCTATCATCCATCCTCTCTCTAT-TATCTCTCCTGTCTCTCC
1 TCCTATCATCCCTCCTCTCTCT-TCTATCTCTCCTGTCTCTCC
* *
410496 TCTTATCATCCCTCCTATCTCTTCTATCTCTCCTGTCTCTCC
1 TCCTATCATCCCTCCTCTCTCTTCTATCTCTCCTGTCTCTCC
*
410538 TCCTATCATCCCTCCTCTCTCTTCTTTCTCT
1 TCCTATCATCCCTCCTCTCTCTTCTATCTCT
410569 TTGAGGGCTA
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
41 1 0.02
42 65 0.98
ACGTcount: A:0.10, C:0.43, G:0.02, T:0.45
Consensus pattern (42 bp):
TCCTATCATCCCTCCTCTCTCTTCTATCTCTCCTGTCTCTCC
Found at i:415284 original size:20 final size:20
Alignment explanation
Indices: 415259--415333 Score: 105
Period size: 20 Copynumber: 3.8 Consensus size: 20
415249 TTTTACCCAG
415259 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
415279 ATGTATCGGTACATGTATGA
1 ATGTATCGATACATTTTTCA
*
415299 ATGTATTGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
415319 ATGTATCGATACATT
1 ATGTATCGATACATT
415334 CTTTTTCTTA
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.31, C:0.12, G:0.15, T:0.43
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:418169 original size:52 final size:51
Alignment explanation
Indices: 418091--418191 Score: 139
Period size: 52 Copynumber: 2.0 Consensus size: 51
418081 TGAATTGAAT
* * *
418091 TTAAAGATGATAAGGTACCAATGTGCTGATTCAAGGCTAGCAACATTGGTC
1 TTAAAGATGAAAAGGTACCAACGTGCTGATCCAAGGCTAGCAACATTGGTC
* * *
418142 TTAAAGATGACAAAGGTGCCAACGTGCTGATCCAAGGTTAGTAACATTGG
1 TTAAAGATGA-AAAGGTACCAACGTGCTGATCCAAGGCTAGCAACATTGG
418192 AACGAAAGAT
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
51 10 0.23
52 33 0.77
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.26
Consensus pattern (51 bp):
TTAAAGATGAAAAGGTACCAACGTGCTGATCCAAGGCTAGCAACATTGGTC
Found at i:418200 original size:52 final size:52
Alignment explanation
Indices: 418093--418207 Score: 135
Period size: 52 Copynumber: 2.2 Consensus size: 52
418083 AATTGAATTT
* * * * *
418093 AAAGATGA-TAAGGTACCAATGTGCTGATTCAAGGCTAGCAACATTGGTCTT
1 AAAGATGACAAAGGTACCAACGTGCTGATCCAAGGCTAGCAACATTGGACTG
* * *
418144 AAAGATGACAAAGGTGCCAACGTGCTGATCCAAGGTTAGTAACATTGGAAC-G
1 AAAGATGACAAAGGTACCAACGTGCTGATCCAAGGCTAGCAACATTGG-ACTG
418196 AAAGATGACAAA
1 AAAGATGACAAA
418208 TTTTGGCAAG
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
51 8 0.15
52 45 0.83
53 1 0.02
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.22
Consensus pattern (52 bp):
AAAGATGACAAAGGTACCAACGTGCTGATCCAAGGCTAGCAACATTGGACTG
Found at i:421683 original size:20 final size:20
Alignment explanation
Indices: 421632--421688 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
421622 CAAATGTATG
* *
421632 TATCGATACATGTGTGAATA
1 TATCGATACATTTGTCAATA
* *
421652 TATTGATACATTTTTCAATA
1 TATCGATACATTTGTCAATA
421672 TATCGATACATTCTGTC
1 TATCGATACATT-TGTC
421689 TTTTTACCCA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 27 0.90
21 3 0.10
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.42
Consensus pattern (20 bp):
TATCGATACATTTGTCAATA
Found at i:435725 original size:10 final size:10
Alignment explanation
Indices: 435706--435776 Score: 99
Period size: 10 Copynumber: 7.0 Consensus size: 10
435696 CTCAAAAAGC
435706 AAAACAAAAA
1 AAAACAAAAA
435716 AAAAGCAAAAA
1 AAAA-CAAAAA
435727 AAAACAAAAA
1 AAAACAAAAA
435737 AAAACAAAAA
1 AAAACAAAAA
*
435747 AAAA-AAGAA
1 AAAACAAAAA
*
435756 AAACCAAAAA
1 AAAACAAAAA
435766 AAATACAAAAA
1 AAA-ACAAAAA
435777 GGGAGGGGCC
Statistics
Matches: 54, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
9 7 0.13
10 31 0.57
11 16 0.30
ACGTcount: A:0.86, C:0.10, G:0.03, T:0.01
Consensus pattern (10 bp):
AAAACAAAAA
Found at i:435776 original size:1 final size:1
Alignment explanation
Indices: 435706--435768 Score: 54
Period size: 1 Copynumber: 63.0 Consensus size: 1
435696 CTCAAAAAGC
* ** * * * **
435706 AAAACAAAAAAAAAGCAAAAAAAAACAAAAAAAAACAAAAAAAAAAAGAAAAACCAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
435769 TACAAAAAGG
Statistics
Matches: 49, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 49 1.00
ACGTcount: A:0.87, C:0.10, G:0.03, T:0.00
Consensus pattern (1 bp):
A
Found at i:437011 original size:14 final size:13
Alignment explanation
Indices: 436968--437015 Score: 62
Period size: 13 Copynumber: 3.7 Consensus size: 13
436958 CATTAAGAGC
436968 TTTTGTCAAAAAT
1 TTTTGTCAAAAAT
*
436981 GTTTGTCAAAAA-
1 TTTTGTCAAAAAT
*
436993 CTTTGTCAAGAAAT
1 TTTTGTCAA-AAAT
437007 TTTTGTCAA
1 TTTTGTCAA
437016 TATGACACCT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
12 8 0.27
13 14 0.47
14 8 0.27
ACGTcount: A:0.35, C:0.10, G:0.12, T:0.42
Consensus pattern (13 bp):
TTTTGTCAAAAAT
Found at i:437090 original size:28 final size:28
Alignment explanation
Indices: 437024--437476 Score: 369
Period size: 28 Copynumber: 15.8 Consensus size: 28
437014 AATATGACAC
* * *
437024 CTTTTCAAAGCCCTCGAGTTAGTGGCATT
1 CTTTTCAAAGCCCACAAGTCAGTGGCA-T
* * * *
437053 CCTTTCCAAAGCTCGCAAGTCAGTGACAT
1 -CTTTTCAAAGCCCACAAGTCAGTGGCAT
*
437082 CTTTTCAAAGCCCACAAGTCAGTGGCACC
1 CTTTTCAAAGCCCACAAGTCAGTGGCA-T
* *
437111 CTTTT-AAAGCCCATAAGTCTGTGGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
437138 CCTTTT-AAAGCCCACAAGTCAGTGGCAT
1 -CTTTTCAAAGCCCACAAGTCAGTGGCAT
*
437166 CCCTTTTCAAAGCCCACAAGTCAATGGCAT
1 --CTTTTCAAAGCCCACAAGTCAGTGGCAT
* * *
437196 CCTTTCAGAGCCCACAAGCCAGTGGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
*
437224 CCTTTT-AGAGCCCACAAG-CTAGTGGCAT
1 -CTTTTCAAAGCCCACAAGTC-AGTGGCAT
* * * *
437252 CCTTTCAGAGCCCACAAGTTAGTGGCAACC
1 CTTTTCAAAGCCCACAAGTCAGTGGC-A-T
** ***
437282 CTTTTCAAAGCCCACAAACCAGTGGTGC
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
**** *
437310 CTTTTCAAAGCATGTAAGCCAGTGGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
*
437338 CCTTTCAAAGCCCACAAGTCAGTGGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
* *
437366 CCTTTCAAAGCCCGCAAGTCAGTGGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
* * *
437394 -TCTTTCAAAGCCCCCAAGTCAGTAGCAC
1 CT-TTTCAAAGCCCACAAGTCAGTGGCAT
* * *
437422 CTTTTCAATGTCCACAAGTC-GATGGCAAC
1 CTTTTCAAAGCCCACAAGTCAG-TGGC-AT
*
437451 CTCTTCTAAAGCCCACATAGGTCAGT
1 CTTTTC-AAAGCCCACA-A-GTCAGT
437477 CGTAACCCTT
Statistics
Matches: 347, Mismatches: 58, Indels: 34
0.79 0.13 0.08
Matches are distributed among these distances:
27 6 0.02
28 240 0.69
29 25 0.07
30 70 0.20
31 1 0.00
32 4 0.01
33 1 0.00
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (28 bp):
CTTTTCAAAGCCCACAAGTCAGTGGCAT
Found at i:437150 original size:56 final size:56
Alignment explanation
Indices: 437023--437530 Score: 371
Period size: 56 Copynumber: 8.8 Consensus size: 56
437013 CAATATGACA
* * * * * * * *
437023 CCTTTTCAAAGCCCTCGAGTTAGTGGCATTCCTTTCCAAAGCTCGCAAGTCAGTGACAT
1 CCTTTT-AAAGCCCACAAGTCAGTGGCA-CCCTTT-TAAAGCCCACAAGTCAGTGGCAT
* *
437082 -CTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCATAAGTCTGTGGCAT
1 CCTTTT-AAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGTGGCAT
*
437138 CCTTTTAAAGCCCACAAGTCAGTGGCATCCCTTTTCAAAGCCCACAAGTCAATGGCAT
1 CCTTTTAAAGCCCACAAGTCAGTGGCA-CCCTTTT-AAAGCCCACAAGTCAGTGGCAT
* * * * *
437196 CCTTTCAGAGCCCACAAGCCAGTGGCATCCTTTTAGAGCCCACAAG-CTAGTGGCAT
1 CCTTTTAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTC-AGTGGCAT
* * * **
437252 CCTTTCAGAGCCCACAAGTTAGTGGCAACCCTTTTCAAAGCCCACAAACCAGTGG--T
1 CCTTTTAAAGCCCACAAGTCAGTGGC-ACCCTTTT-AAAGCCCACAAGTCAGTGGCAT
**** * * *
437308 GCCTTTTCAAAGCATGTAAGCCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCAT
1 -CCTTTT-AAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGTGGCAT
* * ** * * *
437366 CCTTTCAAAGCCCGCAAGTCAGTGGCATTCTTTCAAAGCCCCCAAGTCAGTAGCA-
1 CCTTTTAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGTGGCAT
* * * ** *
437421 CCTTTTCAATGTCCACAAGTC-GATGGCAACCTCTTCTAAAGCCCACATAGGTCAGTCGTAAC
1 CCTTTT-AAAGCCCACAAGTCAG-TGGC-ACC-CTTTTAAAGCCCACA-A-GTCAGT-GGCAT
* ** *
437483 CCTTCTAAAGCCCACACAAGTTGGTGGCAACCTTCTCTAAAGCCCACA
1 CCTTTTAAAG-CC-CACAAGTCAGTGGCACCCTT-T-TAAAGCCCACA
437531 CGAGTTAGTG
Statistics
Matches: 363, Mismatches: 62, Indels: 44
0.77 0.13 0.09
Matches are distributed among these distances:
55 7 0.02
56 155 0.43
57 47 0.13
58 108 0.30
59 2 0.01
60 6 0.02
61 7 0.02
62 8 0.02
63 22 0.06
64 1 0.00
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.24
Consensus pattern (56 bp):
CCTTTTAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGTGGCAT
Found at i:437186 original size:114 final size:114
Alignment explanation
Indices: 437026--437467 Score: 446
Period size: 114 Copynumber: 3.9 Consensus size: 114
437016 TATGACACCT
* * * * * * * *
437026 TTTCAAAGCCCTCGAGTTAGTGGCATTCCTTTCCAAAGCTCGCAAGTCAGTGACATCTTTTCAAA
1 TTTCAAAGCCCACAAGTCAGTGGCATCCCTTTTCAAAGCCCACAAGTCAGTGACACCTTTTCAAA
* *
437091 GCCCACAAGTCAGTGGCACCCTTTTAAAGCCCATAAGTCTGTGGCATCC
66 GCCCACAAGCCAGTGGCACCCTTTTAAAGCCCACAAGTCTGTGGCATCC
* * * *
437140 TTTTAAAGCCCACAAGTCAGTGGCATCCCTTTTCAAAGCCCACAAGTCAATGGCATCC-TTTCAG
1 TTTCAAAGCCCACAAGTCAGTGGCATCCCTTTTCAAAGCCCACAAGTCAGTGACA-CCTTTTCAA
* *
437204 AGCCCACAAGCCAGTGGCATCCTTTTAGAGCCCACAAG-CTAGTGGCATCC
65 AGCCCACAAGCCAGTGGCACCCTTTTAAAGCCCACAAGTCT-GTGGCATCC
* * * ** ***
437254 TTTCAGAGCCCACAAGTTAGTGGCAACCCTTTTCAAAGCCCACAAACCAGTGGTGCCTTTTCAAA
1 TTTCAAAGCCCACAAGTCAGTGGCATCCCTTTTCAAAGCCCACAAGTCAGTGACACCTTTTCAAA
**** * * *
437319 GCATGTAAGCCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCC
66 GCCCACAAGCCAGTGGCACCCTTTTAAAGCCCACAAGTCTGTGGCATCC
* * *
437368 TTTCAAAGCCCGCAAGTCAGTGGCAT-TC-TTTCAAAGCCCCCAAGTCAGT-AGCACCTTTTCAA
1 TTTCAAAGCCCACAAGTCAGTGGCATCCCTTTTCAAAGCCCACAAGTCAGTGA-CACCTTTTCAA
* * * *
437430 TGTCCACAAGTC-GATGGCAACCTCTTCTAAAGCCCACA
65 AGCCCACAAGCCAG-TGGC-ACC-CTTTTAAAGCCCACA
437468 TAGGTCAGTC
Statistics
Matches: 266, Mismatches: 54, Indels: 16
0.79 0.16 0.05
Matches are distributed among these distances:
111 1 0.00
112 36 0.14
113 7 0.03
114 220 0.83
115 2 0.01
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.24
Consensus pattern (114 bp):
TTTCAAAGCCCACAAGTCAGTGGCATCCCTTTTCAAAGCCCACAAGTCAGTGACACCTTTTCAAA
GCCCACAAGCCAGTGGCACCCTTTTAAAGCCCACAAGTCTGTGGCATCC
Found at i:437527 original size:32 final size:32
Alignment explanation
Indices: 437094--437551 Score: 125
Period size: 28 Copynumber: 15.7 Consensus size: 32
437084 TTTCAAAGCC
*
437094 CACAAGTCAGTGGCACCCTT-T-TAAAG-CC-
1 CACAAGTCAGTGGCAACCTTCTCTAAAGCCCA
* * *
437122 CATAAGTCTGTGGCATCCTT-T-TAAAG-CC-
1 CACAAGTCAGTGGCAACCTTCTCTAAAGCCCA
* *
437150 CACAAGTCAGTGGCATCCCTTTTC-AAAG-CC-
1 CACAAGTCAGTGGCA-ACCTTCTCTAAAGCCCA
* * *
437180 CACAAGTCAATGGCATCCTT-TC-AGAG-CC-
1 CACAAGTCAGTGGCAACCTTCTCTAAAGCCCA
* * *
437208 CACAAGCCAGTGGCATCCTT-T-TAGAG-CC-
1 CACAAGTCAGTGGCAACCTTCTCTAAAGCCCA
* *
437236 CACAAG-CTAGTGGCATCCTT-TC-AGAG-CC-
1 CACAAGTC-AGTGGCAACCTTCTCTAAAGCCCA
* *
437264 CACAAGTTAGTGGCAACCCTTTTC-AAAGCCCA
1 CACAAGTCAGTGGCAA-CCTTCTCTAAAGCCCA
* ** *
437296 CA-AA-CCAGTGG-TGCCTTTTC-AAAG--CA
1 CACAAGTCAGTGGCAACCTTCTCTAAAGCCCA
*** * *
437322 TGTAAGCCAGTGGCATCCTT-TC-AAAG-CC-
1 CACAAGTCAGTGGCAACCTTCTCTAAAGCCCA
*
437350 CACAAGTCAGTGGCATCCTT-TC-AAAG-CC-
1 CACAAGTCAGTGGCAACCTTCTCTAAAGCCCA
* **
437378 CGCAAGTCAGTGGCATTCTT-TC-AAAGCCC-
1 CACAAGTCAGTGGCAACCTTCTCTAAAGCCCA
* * * *
437407 C-CAAGTCAGTAGC-ACCTTTTC-AATG-TC-
1 CACAAGTCAGTGGCAACCTTCTCTAAAGCCCA
437434 CACAAGTC-GATGGCAACC-TCTTCTAAAGCCCA
1 CACAAGTCAG-TGGCAACCTTC-TCTAAAGCCCA
* * * * *
437466 CATAGGTCAGTCGTAACCCT-TCTAAAGCCCA
1 CACAAGTCAGTGGCAACCTTCTCTAAAGCCCA
**
437497 CACAAGTTGGTGGCAACCTTCTCTAAAGCCCA
1 CACAAGTCAGTGGCAACCTTCTCTAAAGCCCA
* * *
437529 CACGAGTTAGTGGAAACCCTTCT
1 CACAAGTCAGTGGCAA-CCTTCT
437552 AAACCTAATG
Statistics
Matches: 351, Mismatches: 51, Indels: 51
0.77 0.11 0.11
Matches are distributed among these distances:
26 2 0.01
27 9 0.03
28 206 0.59
29 25 0.07
30 34 0.10
31 29 0.08
32 38 0.11
33 8 0.02
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (32 bp):
CACAAGTCAGTGGCAACCTTCTCTAAAGCCCA
Found at i:437547 original size:63 final size:63
Alignment explanation
Indices: 437434--437554 Score: 156
Period size: 63 Copynumber: 1.9 Consensus size: 63
437424 TTTCAATGTC
* *
437434 CACAAGTCGATGGCAACCTCTTCTAAAGCCCACATAGGTCAGTCGTAACCCTTCTAAAGCCCA
1 CACAAGTCGATGGCAACCTCTTCTAAAGCCCACAGAGGTCAGTCGAAACCCTTCTAAAGCCCA
* * * *
437497 CACAAGTTGGTGGCAACCT-TCTCTAAAGCCCACACGA-GTTAGTGGAAACCCTTCTAAA
1 CACAAGTCGATGGCAACCTCT-TCTAAAGCCCACA-GAGGTCAGTCGAAACCCTTCTAAA
437555 CCTAATGTCG
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
62 1 0.02
63 48 0.96
64 1 0.02
ACGTcount: A:0.31, C:0.31, G:0.17, T:0.21
Consensus pattern (63 bp):
CACAAGTCGATGGCAACCTCTTCTAAAGCCCACAGAGGTCAGTCGAAACCCTTCTAAAGCCCA
Found at i:438528 original size:20 final size:20
Alignment explanation
Indices: 438505--438543 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
438495 GATGTATCGA
*
438505 TTTTTCAATGTATCAATACT
1 TTTTTCAATATATCAATACT
*
438525 TTTTTCAATATATCGATAC
1 TTTTTCAATATATCAATAC
438544 ATTCTAATTT
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:0.31, C:0.15, G:0.05, T:0.49
Consensus pattern (20 bp):
TTTTTCAATATATCAATACT
Found at i:443637 original size:42 final size:42
Alignment explanation
Indices: 443557--443637 Score: 110
Period size: 42 Copynumber: 1.9 Consensus size: 42
443547 TCACTCTTCC
* *
443557 ATCTTCTTCTCTCCTCCTCCGATCATCCCTCATCTCTCTATT
1 ATCTTCTTATCTCCTCCTCCGATCATCCCTCATATCTCTATT
* *
443599 ATCTCTCTTATCT-CTCCTCCTATCATCCCTCCTATCTCT
1 ATCT-TCTTATCTCCTCCTCCGATCATCCCTCATATCTCT
443638 TCTTCTTTCT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 27 0.79
43 7 0.21
ACGTcount: A:0.12, C:0.43, G:0.01, T:0.43
Consensus pattern (42 bp):
ATCTTCTTATCTCCTCCTCCGATCATCCCTCATATCTCTATT
Found at i:446205 original size:108 final size:108
Alignment explanation
Indices: 446016--446233 Score: 348
Period size: 108 Copynumber: 2.0 Consensus size: 108
446006 CTTCTAACTC
* *
446016 CAAATTAGGTCCACTTTCAAATAGACCAGCAACCATTTTCTCTAGGTCTCCCTTTATCCGTTTTG
1 CAAATAAGGTCCACTTTCAAATAGACCAGCAACCATTTTCTCTAGGTCTCCCTTTATCCGTTATG
*
446081 CCTTTGCCCTCATCATTGGTCCTTGAAACATTTCCAATGCCTT
66 CCTTTGCCCTCATCATTAGTCCTTGAAACATTTCCAATGCCTT
**
446124 CAAATAAGGTCCACTTTCAAATAGGGCAGCAACCATTTTCTCTAGGTCTCCCTTTATCC-TCTAT
1 CAAATAAGGTCCACTTTCAAATAGACCAGCAACCATTTTCTCTAGGTCTCCCTTTATCCGT-TAT
* * *
446188 GCCTTTGCCCTCGTCATTAGTCCTTGAAACCTTTCTAATGCCTT
65 GCCTTTGCCCTCATCATTAGTCCTTGAAACATTTCCAATGCCTT
446232 CA
1 CA
446234 GGCCTTTGTC
Statistics
Matches: 101, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
107 1 0.01
108 100 0.99
ACGTcount: A:0.22, C:0.30, G:0.12, T:0.35
Consensus pattern (108 bp):
CAAATAAGGTCCACTTTCAAATAGACCAGCAACCATTTTCTCTAGGTCTCCCTTTATCCGTTATG
CCTTTGCCCTCATCATTAGTCCTTGAAACATTTCCAATGCCTT
Found at i:447406 original size:273 final size:274
Alignment explanation
Indices: 446918--447463 Score: 1058
Period size: 273 Copynumber: 2.0 Consensus size: 274
446908 AATCAACAAG
446918 AGAGGTTGCGTGGAAAATGTATTTTGATGGGGTGTCAAATGCATTGGGCCACGGAATAAGGGCAA
1 AGAGGTTGCGTGGAAAATGTATTTTGATGGGGTGTCAAATGCATTGGGCCACGGAATAAGGGCAA
446983 TCTTGATATCTCCAAAAGGAGATTATTACCCCTTCACGACCCAGATAAATTTTGATTACACTAAT
66 TCTTGATATCTCCAAAAGGAGATTATTACCCCTTCACGACCCAGATAAATTTTGATTACACTAAT
447048 AATGTGGCGAAATATGAGGCCTGCGTTATGGGGCTTCATGCAACTACGGAAAGGAGAGCCCAAAT
131 AATGTGGCGAAATATGAGGCCTGCGTTATGGGGCTTCATGCAACTACGGAAAGGAGAGCCCAAAT
447113 ACGGTCTACGAAAATTCAGCCTTGGTAATTTATCAATTACGAGGAGAATAGGAAACGAGAGATAC
196 ACGGTCTACGAAAATTCAGCCTTGGTAATTTATCAATTACGAGGAGAATAGGAAACGAGAGATAC
447178 AAGGCTTCAGCAAA
261 AAGGCTTCAGCAAA
447192 AGAGGTTGCGTGGAAAATGTATTTTGATGGGGTGTCAAATGCATTGGGCCACGGAATAA-GGCAA
1 AGAGGTTGCGTGGAAAATGTATTTTGATGGGGTGTCAAATGCATTGGGCCACGGAATAAGGGCAA
447256 TCTTGATATCTCCAAAAGGAGATTATTACCCCTTCACGACCCAGATAAATTTTGATTACACTAAT
66 TCTTGATATCTCCAAAAGGAGATTATTACCCCTTCACGACCCAGATAAATTTTGATTACACTAAT
* * *
447321 AATGTGGCGGAATATGAGGCCTGCGTTATGGGGCTTCATGCAGCTGCGGAAAGGAGAGCCCAAAT
131 AATGTGGCGAAATATGAGGCCTGCGTTATGGGGCTTCATGCAACTACGGAAAGGAGAGCCCAAAT
447386 ACGGTCTACGAAAATTCAGCCTTGGTAATTTATCAATTACGAGGAGAATAGGAAACGAGAGATAC
196 ACGGTCTACGAAAATTCAGCCTTGGTAATTTATCAATTACGAGGAGAATAGGAAACGAGAGATAC
447451 AAGGCTTCAGCAA
261 AAGGCTTCAGCAA
447464 TATAAAAAGC
Statistics
Matches: 269, Mismatches: 3, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
273 210 0.78
274 59 0.22
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (274 bp):
AGAGGTTGCGTGGAAAATGTATTTTGATGGGGTGTCAAATGCATTGGGCCACGGAATAAGGGCAA
TCTTGATATCTCCAAAAGGAGATTATTACCCCTTCACGACCCAGATAAATTTTGATTACACTAAT
AATGTGGCGAAATATGAGGCCTGCGTTATGGGGCTTCATGCAACTACGGAAAGGAGAGCCCAAAT
ACGGTCTACGAAAATTCAGCCTTGGTAATTTATCAATTACGAGGAGAATAGGAAACGAGAGATAC
AAGGCTTCAGCAAA
Found at i:448944 original size:3 final size:3
Alignment explanation
Indices: 448936--448970 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
448926 TCCCTAAACA
448936 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
448971 ACAAAAAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:450481 original size:83 final size:84
Alignment explanation
Indices: 450301--450530 Score: 203
Period size: 83 Copynumber: 2.7 Consensus size: 84
450291 TGAGGCCTAG
* * * *
450301 GAGACCTCTTTTATCTTTTGTCTGCCTATTAGCTCAGGCCCGAGAGACTCATTTATCTTTTGTCT
1 GAGACTTC-TTTATATTTTGTCTGCCTATTAGCTCAGACCCGAAAGACTCATTTATCTTTTGTCT
* *
450366 GCCCGTCGACTCAAAAACAA
65 ACCCATCGACTCAAAAACAA
* * * * * *
450386 AAGACTTTTTTATATTTTGTCTGCCTGTTGGCTCAGACTCGAAAGATTC-TTTATCTTTTGTCTA
1 GAGACTTCTTTATATTTTGTCTGCCTATTAGCTCAGACCCGAAAGACTCATTTATCTTTTGTCTA
* ** *
450450 CCCATCGACTCAGACCCGA
66 CCCATCGACTCAAAAACAA
** * * ** * **
450469 GAGACTTCTTTATCGTTTGT-TGGCCCATCAGCTCAGATTCGGAAGACTTTTTTATCTTTTGT
1 GAGACTTCTTTATATTTTGTCT-GCCTATTAGCTCAGACCCGAAAGACTCATTTATCTTTTGT
450531 GTGCCCGTCG
Statistics
Matches: 115, Mismatches: 28, Indels: 5
0.78 0.19 0.03
Matches are distributed among these distances:
82 1 0.01
83 63 0.55
84 46 0.40
85 5 0.04
ACGTcount: A:0.21, C:0.24, G:0.17, T:0.38
Consensus pattern (84 bp):
GAGACTTCTTTATATTTTGTCTGCCTATTAGCTCAGACCCGAAAGACTCATTTATCTTTTGTCTA
CCCATCGACTCAAAAACAA
Found at i:450481 original size:125 final size:127
Alignment explanation
Indices: 450310--450741 Score: 323
Period size: 125 Copynumber: 3.4 Consensus size: 127
450300 GGAGACCTCT
* * * *
450310 TTTATCTTTTGTCTGCCTAT-TAGCTCAGGCCCGAGAGAC-TCATTTATCTTTTGTCTGCCCGTC
1 TTTATCTTTTGTCTACCCATCGAGCTCAGACCCGAGAGACTTC-TTTATCTTTTGTCTGCCCGTC
*
450373 GACTCAAAAACAAAAGACTTTTTTATATTTTGTCTGCCTGTTGGCTCAGACTCGAAAGA-TTC
65 GACTCAAAAACAAAAGACTTTTTTATATTTTGTCTGCCTGTCGGCTCAGACTCGAAAGACTTC
* *
450435 TTTATCTTTTGTCTACCCATCGA-CTCAGACCCGAGAGACTTCTTTATCGTTTGT-TGGCCCATC
1 TTTATCTTTTGTCTACCCATCGAGCTCAGACCCGAGAGACTTCTTTATCTTTTGTCT-GCCCGTC
* ** ** * * * * * *
450498 -AGCTCAGATTCGGAAGACTTTTTTATCTTTTGTGTGCCCGTCGGCTAAG-GTCCGAGAGACTTC
65 GA-CTCAAAAACAAAAGACTTTTTTATATTTTGTCTGCCTGTCGGCTCAGACT-CGAAAGACTTC
* * ** * * * * *
450561 TTCATCTTTTTGTTTACCTGTC-AGCTCAAACCCGGGAGACTCCTATATCCTTTGTCTGCCCGTC
1 TTTATC-TTTTGTCTACCCATCGAGCTCAGACCCGAGAGACTTCTTTATCTTTTGTCTGCCCGTC
* * ** * * * * *
450625 GGCT-TAAGCCTAAGATACTTCTTTATCTTTTTGTCTGCCTGTCAGCTCAGACTC-AAGAGACTT
65 GACTCAAAAAC-AAAAGACTTTTTTAT-ATTTTGTCTGCCTGTCGGCTCAGACTCGAA-AGACTT
450688 C
127 C
* * * * *
450689 TTTATC-TTTGT-TGCCCATTG-GCTCAGGCTCGAGAGACTTCTTCATCTCTTTGT
1 TTTATCTTTTGTCTACCCATCGAGCTCAGACCCGAGAGACTTCTTTATCT-TTTGT
450742 TAGCCCATCG
Statistics
Matches: 233, Mismatches: 58, Indels: 31
0.72 0.18 0.10
Matches are distributed among these distances:
124 3 0.01
125 116 0.50
126 24 0.10
127 57 0.24
128 32 0.14
129 1 0.00
ACGTcount: A:0.19, C:0.25, G:0.18, T:0.38
Consensus pattern (127 bp):
TTTATCTTTTGTCTACCCATCGAGCTCAGACCCGAGAGACTTCTTTATCTTTTGTCTGCCCGTCG
ACTCAAAAACAAAAGACTTTTTTATATTTTGTCTGCCTGTCGGCTCAGACTCGAAAGACTTC
Found at i:450615 original size:85 final size:83
Alignment explanation
Indices: 450521--450742 Score: 232
Period size: 85 Copynumber: 2.6 Consensus size: 83
450511 AAGACTTTTT
*
450521 TATCTTTTGTGTGCCCGTCGGCTAAGGTCCGAGAGACTTCTTCATCTTTTTGTTTACCTGTCAGC
1 TATCCTTTGT-TGCCCGTCGGCTAAGG-CCGAGAGACTTCTTCATCTTTTTGTTTACCTGTCAGC
**
450586 TCAAACCCGGGAGACTCCTA
64 TCAAACCCAAGAGACTCCTA
* * * * *
450606 TATCCTTTGTCTGCCCGTCGGCTTAA-GCCTAAGATACTTCTTTATCTTTTTGTCTGCCTGTCAG
1 TATCCTTTGT-TGCCCGTCGGC-TAAGGCC-GAGAGACTTCTTCATCTTTTTGTTTACCTGTCAG
* * * *
450670 CTCAGACTCAAGAGACTTCTT
63 CTCAAACCCAAGAGACTCCTA
* * * *
450691 TAT-CTTTGTTGCCCATTGGCTCAGGCTCGAGAGACTTCTTCATCTCTTTGTT
1 TATCCTTTGTTGCCCGTCGGCTAAGGC-CGAGAGACTTCTTCATCTTTTTGTT
450743 AGCCCATCGG
Statistics
Matches: 112, Mismatches: 21, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
82 2 0.02
83 30 0.27
84 9 0.08
85 68 0.61
86 3 0.03
ACGTcount: A:0.17, C:0.27, G:0.19, T:0.38
Consensus pattern (83 bp):
TATCCTTTGTTGCCCGTCGGCTAAGGCCGAGAGACTTCTTCATCTTTTTGTTTACCTGTCAGCTC
AAACCCAAGAGACTCCTA
Found at i:450755 original size:43 final size:43
Alignment explanation
Indices: 450301--450757 Score: 237
Period size: 42 Copynumber: 10.9 Consensus size: 43
450291 TGAGGCCTAG
* * ** * *
450301 GAGACCTCTTTTATCT-TTTGTCTGCCTATTAGCTCAGGCCCGA
1 GAGACTTC-TTTATCTCTTTGTCTGCCCATCGGCTCAGACTCGA
* * * ** *
450344 GAGAC-TCATTTATCT-TTTGTCTGCCCGTCGACTCAAAAACAA
1 GAGACTTC-TTTATCTCTTTGTCTGCCCATCGGCTCAGACTCGA
* * * ** *
450386 AAGACTTTTTTATAT-TTTGTCTGCCTGTTGGCTCAGACTCGA
1 GAGACTTCTTTATCTCTTTGTCTGCCCATCGGCTCAGACTCGA
* * * *
450428 AAGA-TTCTTTATCT-TTTGTCTACCCATCGACTCAGACCCGA
1 GAGACTTCTTTATCTCTTTGTCTGCCCATCGGCTCAGACTCGA
* * *
450469 GAGACTTCTTTATC-GTTTGT-TGGCCCATCAGCTCAGATTCG-
1 GAGACTTCTTTATCTCTTTGTCT-GCCCATCGGCTCAGACTCGA
* * * * *
450510 GAAGACTTTTTTATCT-TTTGTGTGCCCGTCGGCTAAG-GTCCGA
1 G-AGACTTCTTTATCTCTTTGTCTGCCCATCGGCTCAGACT-CGA
* * * * ** * * * *
450553 GAGACTTCTTCATCTTTTTGTTTACCTGTCAGCTCAAACCCGG
1 GAGACTTCTTTATCTCTTTGTCTGCCCATCGGCTCAGACTCGA
* * * * * *
450596 GAGACTCCTATATC-CTTTGTCTGCCCGTCGGCTTAAGCCT-AA
1 GAGACTTCTTTATCTCTTTGTCTGCCCATCGGC-TCAGACTCGA
* * ** * *
450638 GATACTTCTTTATCTTTTTGTCTGCCTGTCAGCTCAGACTCAA
1 GAGACTTCTTTATCTCTTTGTCTGCCCATCGGCTCAGACTCGA
* *
450681 GAGACTTCTTTA--TCTTTGT-TGCCCATTGGCTCAGGCTCGA
1 GAGACTTCTTTATCTCTTTGTCTGCCCATCGGCTCAGACTCGA
*
450721 GAGACTTCTTCATCTCTTTGT-TAGCCCATCGGCTCAG
1 GAGACTTCTTTATCTCTTTGTCT-GCCCATCGGCTCAG
450758 TCTTGGGAAA
Statistics
Matches: 314, Mismatches: 83, Indels: 34
0.73 0.19 0.08
Matches are distributed among these distances:
40 26 0.08
41 41 0.13
42 167 0.53
43 80 0.25
ACGTcount: A:0.19, C:0.26, G:0.18, T:0.37
Consensus pattern (43 bp):
GAGACTTCTTTATCTCTTTGTCTGCCCATCGGCTCAGACTCGA
Found at i:452283 original size:163 final size:161
Alignment explanation
Indices: 451940--452366 Score: 454
Period size: 163 Copynumber: 2.6 Consensus size: 161
451930 CAAAATTTTC
* * * * * *
451940 CAAATATTATCATTTAAATAGTATCAAATTAGTTTTGAAAAATTCTTTTTATTTCATGAGTTGTT
1 CAAATATTATTATTTAATTAATATTAAATTAGTTTTGAAAAATT-GTTAT-TTTCATGAGTT-TT
* * * *
452005 -AATTTTCTTTTGAAAATCCCCTTATTTTCAAAATACAGAGTTTTTTTCTCCTGTAAATTTTTTC
63 GAATTTTC-TTTGAAATTCTCC-TATTTTCGAAATACAGAATTTTTTTCTCCTGTAAATTTTTTC
452069 GAGAGGATTTTCAAGGTTTTTAATTTTTAAAATCCAT
126 GAGAGGATTTTCAA-GTTTTTAATTTTTAAAATCCAT
* * *
452106 AAAATATTATTATTTAATTAATATTAAATCAGTTTTCAAAAATTGTTCATTTTCATGAGTTTTGA
1 CAAATATTATTATTTAATTAATATTAAATTAGTTTTGAAAAATTGTT-ATTTTCATGAGTTTTGA
452171 ATTTTC-TTGAAATTCTCCTATTTTCGAAATAC-GAATTTTTCTAT-TCC-GTAAATATTTTTC-
65 ATTTTCTTTGAAATTCTCCTATTTTCGAAATACAGAATTTTT-T-TCTCCTGTAAAT-TTTTTCG
* *
452231 AGGGAGATTTTTCTTAA-TTTTTAATTTTTAAAATTCAT
127 AGAG-GA-TTTTC--AAGTTTTTAATTTTTAAAATCCAT
* * *
452269 CAAATATCATTATTTAATTCATATTAAATTATTTTTGAAAAATTAAGTTATTTTCATGAGTTTTG
1 CAAATATTATTATTTAATTAATATTAAATTAGTTTTGAAAAATT--GTTATTTTCATGAGTTTTG
* * *
452334 AATTTTTTCTTTGAAGTTTTCCTTTTTTCGAAA
64 AA--TTTTCTTTGAAATTCTCCTATTTTCGAAA
452367 AACTGAGTTT
Statistics
Matches: 223, Mismatches: 24, Indels: 27
0.81 0.09 0.10
Matches are distributed among these distances:
161 16 0.07
162 25 0.11
163 74 0.33
164 20 0.09
165 25 0.11
166 43 0.19
167 20 0.09
ACGTcount: A:0.32, C:0.10, G:0.09, T:0.49
Consensus pattern (161 bp):
CAAATATTATTATTTAATTAATATTAAATTAGTTTTGAAAAATTGTTATTTTCATGAGTTTTGAA
TTTTCTTTGAAATTCTCCTATTTTCGAAATACAGAATTTTTTTCTCCTGTAAATTTTTTCGAGAG
GATTTTCAAGTTTTTAATTTTTAAAATCCAT
Found at i:454173 original size:163 final size:162
Alignment explanation
Indices: 453624--454239 Score: 665
Period size: 164 Copynumber: 3.8 Consensus size: 162
453614 TTCCATATTA
* * * **
453624 ATCATTTTTTAATCTTTTATATTCCTATGGGGGTTCGTAGAGGTATAAAAGACTTCAAAAAAATT
1 ATCATTTTTTAATCTTTTATATTCCTATGGGGGTCCGTAGGGGTATAAAAGATTTCAAAAACTTT
* * ** *
453689 TCGTATCTTTTCGGGTTTCCATTAAGGTACAAAATGATATTTTTAAAAAATAAATAAATTAAATT
66 TCATATCTTTTCGGGTTTCCATTAAGATACAAAATGATATTTTCGAAAAACAAATAAATTAAATT
* * * *
453754 AAATTAATACTTTCATAATTGAAATAAATATTA
131 AAATTAATACTTTCATAA-TCAAAGAAATCTTT
* * * *
453787 ATCATTTTTCTAATCTTTTATATTCTTATGAGGGTCCGTAGGGGTATAAAATATTTTAAAAACTT
1 ATCATTTTT-TAATCTTTTATATTCCTATGGGGGTCCGTAGGGGTATAAAAGATTTCAAAAACTT
* * * * *
453852 TTCATATTTTTTCGAGTTTCCATTAAGGTACAAAAAGGTACTTTTC-AAAAACAAATAAATTAAA
65 TTCATATCTTTTCGGGTTTCCATTAAGATACAAAATGATA-TTTTCGAAAAACAAATAAATTAAA
* *
453916 TTAAATTAATACTTTCATAACCGAAAGGAA-C--T
129 TTAAATTAATACTTTCATAATC-AAAGAAATCTTT
*
453948 ATAATTTTTT-ATCTTTTATATTCCTATGGGGGTCCGTAGGGAGTATAAAAGATTTCAAAAACTT
1 ATCATTTTTTAATCTTTTATATTCCTATGGGGGTCCGTAGGG-GTATAAAAGATTTCAAAAACTT
* * * * * *
454012 TTCATAT-TATTTCAGGCTTCTATTAAGATACGAAATGATATTTTCGAAATA-AAACAAATTAAA
65 TTCATATCT-TTTCGGGTTTCCATTAAGATACAAAATGATATTTTCGAAAAACAAATAAATTAAA
* * *
454075 GTAAATTAACACTTTCGTAATC-AAGACAATCTTTT
129 TTAAATTAATACTTTCATAATCAAAGA-AATC-TTT
* * * * *
454110 GTCACTTTTTTAATCTTTTATATTCCTATAGGGGTTCGTAGGGGTATAAAAGGTTTTAAAAACTT
1 ATCA-TTTTTTAATCTTTTATATTCCTATGGGGGTCCGTAGGGGTATAAAAGATTTCAAAAACTT
* * * * *
454175 TTCATATCTTTTCGGGTTTCTATTAA-AGTACGAAATGATATTTTCGAGAAAGAGATTAAATTAA
65 TTCATATCTTTTCGGGTTTCCATTAAGA-TACAAAATGATATTTTCGAAAAACA-AATAAATTAA
454239 A
128 A
454240 CCTATGAAAT
Statistics
Matches: 382, Mismatches: 54, Indels: 32
0.82 0.12 0.07
Matches are distributed among these distances:
157 3 0.01
158 2 0.01
159 65 0.17
160 55 0.14
161 8 0.02
162 4 0.01
163 78 0.20
164 154 0.40
165 13 0.03
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.39
Consensus pattern (162 bp):
ATCATTTTTTAATCTTTTATATTCCTATGGGGGTCCGTAGGGGTATAAAAGATTTCAAAAACTTT
TCATATCTTTTCGGGTTTCCATTAAGATACAAAATGATATTTTCGAAAAACAAATAAATTAAATT
AAATTAATACTTTCATAATCAAAGAAATCTTT
Found at i:458225 original size:21 final size:22
Alignment explanation
Indices: 458201--458245 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
458191 TATATTTTTA
* *
458201 TTTTTTATTATT-AAAAGTATT
1 TTTTTTAATATTGAAAAATATT
458222 TTTTTTAATATTGAAAAATATT
1 TTTTTTAATATTGAAAAATATT
458244 TT
1 TT
458246 AATTGAATCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (22 bp):
TTTTTTAATATTGAAAAATATT
Found at i:459096 original size:6 final size:6
Alignment explanation
Indices: 459085--459114 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
459075 TTTTTCCTCG
459085 TCTTGT TCTTGT TCTTGT TCTTGT T-TTGT T
1 TCTTGT TCTTGT TCTTGT TCTTGT TCTTGT T
459115 ACTGATCATC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.21
6 19 0.79
ACGTcount: A:0.00, C:0.13, G:0.17, T:0.70
Consensus pattern (6 bp):
TCTTGT
Found at i:464012 original size:28 final size:25
Alignment explanation
Indices: 463966--464017 Score: 68
Period size: 28 Copynumber: 2.0 Consensus size: 25
463956 ATAGAAGTTT
463966 TTATTTTTTAAAAAGTATTTCCAAA
1 TTATTTTTTAAAAAGTATTTCCAAA
*
463991 TTATTATTTTGAAAAGGATATTTCCAA
1 TTATT-TTTT-AAAAAG-TATTTCCAA
464018 GTTAAAGACA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 5 0.22
26 4 0.17
27 5 0.22
28 9 0.39
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (25 bp):
TTATTTTTTAAAAAGTATTTCCAAA
Found at i:465923 original size:12 final size:11
Alignment explanation
Indices: 465901--465976 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
465891 AGAGAAAGAA
*
465901 GAGAGAGGAGG
1 GAGATAGGAGG
465912 GATGATAGGAGG
1 GA-GATAGGAGG
*
465924 AGAGACAGGA--
1 -GAGATAGGAGG
*
465934 GAGATAGTA--
1 GAGATAGGAGG
465943 GAGATAGGAGG
1 GAGATAGGAGG
465954 GATGATAGGAGG
1 GA-GATAGGAGG
*
465966 AGAGACAGGAG
1 -GAGATAGGAG
465977 AGATAATAGA
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 4 0.08
12 30 0.57
13 4 0.08
ACGTcount: A:0.39, C:0.03, G:0.49, T:0.09
Consensus pattern (11 bp):
GAGATAGGAGG
Found at i:465933 original size:24 final size:24
Alignment explanation
Indices: 465900--465985 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
465890 AAGAGAAAGA
*
465900 AGAGAGAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
*
465924 AGAGACAGGA--GA-GAT---AGT
1 AGAGACAGGAGGGATGATAGGAGG
*
465942 AGAGATAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
* *
465966 AGAGACAGGAGAGATAATAG
1 AGAGACAGGAGGGATGATAG
465986 AGAGAGGAGG
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 11 0.22
20 2 0.04
21 6 0.12
22 2 0.04
24 28 0.57
ACGTcount: A:0.42, C:0.02, G:0.45, T:0.10
Consensus pattern (24 bp):
AGAGACAGGAGGGATGATAGGAGG
Found at i:465952 original size:42 final size:42
Alignment explanation
Indices: 465891--466009 Score: 193
Period size: 42 Copynumber: 2.8 Consensus size: 42
465881 TAGCCCTCAA
* *
465891 AGAGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
*
465933 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
* *
465975 AGAGATAATAGAGAGAGGAGGGATGACAGGAGGAG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAG
466010 GAGAGAAGAA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.43, C:0.03, G:0.46, T:0.08
Consensus pattern (42 bp):
AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
Found at i:476875 original size:34 final size:35
Alignment explanation
Indices: 476811--476881 Score: 117
Period size: 34 Copynumber: 2.1 Consensus size: 35
476801 CAATGTCTAG
476811 TTGCTCTTTAAATCTTGTAAATGTGGTTTTATGTA
1 TTGCTCTTTAAATCTTGTAAATGTGGTTTTATGTA
* *
476846 TTGCTCTTTGAATCTTGT-ATTGTGGTTTTATGTA
1 TTGCTCTTTAAATCTTGTAAATGTGGTTTTATGTA
476880 TT
1 TT
476882 TCTAATTCTA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
34 17 0.50
35 17 0.50
ACGTcount: A:0.18, C:0.08, G:0.18, T:0.55
Consensus pattern (35 bp):
TTGCTCTTTAAATCTTGTAAATGTGGTTTTATGTA
Found at i:480460 original size:164 final size:165
Alignment explanation
Indices: 480099--480522 Score: 589
Period size: 164 Copynumber: 2.6 Consensus size: 165
480089 GTAAGGACTA
* * *
480099 AAATGAAATTGTTAAAAGTTTAAGGATTAAATTGCAAATTTTAGTTTTTAGAGGTAAAATCATCA
1 AAATGAAATTTTTAAAAGTTTAGGGATTAAATAGCAAATTTTAGTTTTTAGAGGTAAAATCATCA
* * * *
480164 TTTTGGTTATTTTTAAAGATTTCTATTATTCCAATGGCATTCTATAGGGGTACAGAAATTTTTAA
66 TTTTAGTTATTTTTAAAGATTTCTATTA-TCCAATGGCATTCTATAAGGGTACAAAAATTTTCAA
* *** *
480229 AACTTTTTGTATCCTCTCAGTTTTTCATTGGGTATG
130 AACTTTTCGTATCCTCTCAGTTTTTCATCAAGTACG
* * *
480265 AAATGAAATTTTTAAAAGTTTAGGCATTAAATAGTAAATTTTAGTTTTTAGAGGTAAAAGCATCA
1 AAATGAAATTTTTAAAAGTTTAGGGATTAAATAGCAAATTTTAGTTTTTAGAGGTAAAATCATCA
* * * *
480330 TTTTAGTTATTTTT-AAGATTTCTATTATCCTATGGCCTTCTATAAGGTTATAAAAATTTTCAAA
66 TTTTAGTTATTTTTAAAGATTTCTATTATCCAATGGCATTCTATAAGGGTACAAAAATTTTCAAA
* * **
480394 ACTTTTCGTATCCTTTCGGTTTTTTGTCAAGTACG
131 ACTTTTCGTATCCTCTCAGTTTTTCATCAAGTACG
* *
480429 AAATGAAATTTTTAAAAGTTTGGGGATTAAATAGCAAATTTTAGTTTTTAAAGGTAAAATCATCA
1 AAATGAAATTTTTAAAAGTTTAGGGATTAAATAGCAAATTTTAGTTTTTAGAGGTAAAATCATCA
**
480494 TTTTAGGCATTTTTAAAGATTTCTATTAT
66 TTTTAGTTATTTTTAAAGATTTCTATTAT
480523 TTCTGCAGTT
Statistics
Matches: 227, Mismatches: 30, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
164 128 0.56
165 27 0.12
166 72 0.32
ACGTcount: A:0.33, C:0.09, G:0.14, T:0.43
Consensus pattern (165 bp):
AAATGAAATTTTTAAAAGTTTAGGGATTAAATAGCAAATTTTAGTTTTTAGAGGTAAAATCATCA
TTTTAGTTATTTTTAAAGATTTCTATTATCCAATGGCATTCTATAAGGGTACAAAAATTTTCAAA
ACTTTTCGTATCCTCTCAGTTTTTCATCAAGTACG
Found at i:480634 original size:164 final size:165
Alignment explanation
Indices: 480099--480624 Score: 559
Period size: 164 Copynumber: 3.2 Consensus size: 165
480089 GTAAGGACTA
* * * *
480099 AAATGAAATTGTTAAAAGTTTA-AGGATTAAATTGCAAATTTTAGTTTTTAGAGGTAAAATCATC
1 AAATGAAATTTTTAAAAGTTTAGGGGCTTAAATAGCAAATTTTAGTTTTTAGAGGTAAAATCATC
* * * *
480163 ATTTT-GGTTATTTTTAAAGATTTCTATTATTCCAATGGCA-TTCTATAGGGGTACAGAAATTTT
66 ATTTTAGG-TATTTTTAAAGATTTCTATTATTTC--TGGCATTTTTTTA-GGGTATAGAAATTTT
* ** * *
480226 TAAAACTTTTTGTATCCTC-TCAGTTTTTCATTGGGTATG
127 CAAAACTTTTTGTATCCTCTTCA-TTTTTTGTTAGGTACG
* *
480265 AAATGAAATTTTTAAAAGTTTA--GGCATTAAATAGTAAATTTTAGTTTTTAGAGGTAAAAGCAT
1 AAATGAAATTTTTAAAAGTTTAGGGGC-TTAAATAGCAAATTTTAGTTTTTAGAGGTAAAATCAT
* * * * * * * * *
480328 CATTTTAGTTATTTTT-AAGATTTCTATTATCCTATGGCCTTCTATAAGGTTATAAAAATTTTCA
65 CATTTTAGGTATTTTTAAAGATTTCTATTAT-TTCTGGCATTTTTTTAGGGTATAGAAATTTTCA
* * * *
480392 AAACTTTTCGTATCCT-TTCGGTTTTTTGTCAAGTACG
129 AAACTTTTTGTATCCTCTTC-ATTTTTTGTTAGGTACG
* *
480429 AAATGAAATTTTTAAAAGTTT-GGGGATTAAATAGCAAATTTTAGTTTTTAAAGGTAAAATCATC
1 AAATGAAATTTTTAAAAGTTTAGGGGCTTAAATAGCAAATTTTAGTTTTTAGAGGTAAAATCATC
*
480493 ATTTTAGGCATTTTTAAAGATTTCTATTATTTCT-GCAGTTTTTTTAGGAGTATAGAAATTTTCA
66 ATTTTAGGTATTTTTAAAGATTTCTATTATTTCTGGCA-TTTTTTTAGG-GTATAGAAATTTTCA
* * *
480557 ATACTTTTTGTATCCTCTTTATTTTTTGTTAGGTACA
129 AAACTTTTTGTATCCTCTTCATTTTTTGTTAGGTACG
* * *
480594 AAATAAAATTTTCAAAATTTTAGGGGCTTAA
1 AAATGAAATTTTTAAAAGTTTAGGGGCTTAA
480625 TTGAAATTTT
Statistics
Matches: 295, Mismatches: 52, Indels: 26
0.79 0.14 0.07
Matches are distributed among these distances:
163 2 0.01
164 122 0.41
165 92 0.31
166 78 0.26
167 1 0.00
ACGTcount: A:0.33, C:0.09, G:0.14, T:0.44
Consensus pattern (165 bp):
AAATGAAATTTTTAAAAGTTTAGGGGCTTAAATAGCAAATTTTAGTTTTTAGAGGTAAAATCATC
ATTTTAGGTATTTTTAAAGATTTCTATTATTTCTGGCATTTTTTTAGGGTATAGAAATTTTCAAA
ACTTTTTGTATCCTCTTCATTTTTTGTTAGGTACG
Found at i:481080 original size:152 final size:151
Alignment explanation
Indices: 480850--481310 Score: 500
Period size: 152 Copynumber: 3.0 Consensus size: 151
480840 GTCCTTTAAG
* * * * * *
480850 ATTACTAAGATACTATCATGTTAAAGGTATACCCCA-AGGTATTTTTGTAATTCTTTAAAAATCA
1 ATTACCAAGATACTTTCATGTTAAAGGTATACCCTAGAGGCATTTTCGTAATT-TTT-AAAACCA
* * * * *
480914 TGCCCTAGGTTGTCAACGAGATGCTTTTATGCCAAAGGCATGCATTTAGGATAGGTTCATCCCAT
64 AGTCTTAAGTTGTCAACGAGATGCTTTTATGCCAAAGGCGTGCATTTAGGATAGGTTCATCCCAT
*
480979 TTATGGTCATTTTTAAGTCCTTT
129 TTATGATCATTTTTAAGTCCTTT
* *
481002 ATTACCAAGATACTTTCATGTTAAAAGTATACCCTAGAGGCATTTTCGTAATATTTTAGAACCAA
1 ATTACCAAGATACTTTCATGTTAAAGGTATACCCTAGAGGCATTTTCGTAAT-TTTTAAAACCAA
* * * * *
481067 GTCTTAAGTTGTCATCGGGATGCTTTTATGCTAAAGGTGTGCATTTTA-GATAGGTTCATCCTAT
65 GTCTTAAGTTGTCAACGAGATGCTTTTATGCCAAAGGCGTGCA-TTTAGGATAGGTTCATCCCAT
481131 TTATGATCATTTTTAAGT-CTTAT
129 TTATGATCATTTTTAAGTCCTT-T
* ** ** * * *
481154 GGGTTACCAAGATACTTTCACATTAAAGGTATAAGCTAG-GAGCATTTACATAATTTTTCTATAA
1 --ATTACCAAGATACTTTCATGTTAAAGGTATACCCTAGAG-GCATTTTCGTAA-TTTT-TAAAA
* * * *
481218 CTAAGTCTTAAGTTGTC-ACTAGGATGCTTTTATACCAAATGCGTGCATTTAGGATAGGTTCATC
61 CCAAGTCTTAAGTTGTCAACGA-GATGCTTTTATGCCAAAGGCGTGCATTTAGGATAGGTTCATC
481282 CCATTTATGATCATTTTTAAAGTCCTTT
125 CCATTTATGATCATTTTT-AAGTCCTTT
481310 A
1 A
481311 GGGTTACTAG
Statistics
Matches: 258, Mismatches: 38, Indels: 24
0.81 0.12 0.08
Matches are distributed among these distances:
151 3 0.01
152 105 0.41
153 21 0.08
154 50 0.19
155 71 0.28
156 5 0.02
157 3 0.01
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.38
Consensus pattern (151 bp):
ATTACCAAGATACTTTCATGTTAAAGGTATACCCTAGAGGCATTTTCGTAATTTTTAAAACCAAG
TCTTAAGTTGTCAACGAGATGCTTTTATGCCAAAGGCGTGCATTTAGGATAGGTTCATCCCATTT
ATGATCATTTTTAAGTCCTTT
Found at i:481274 original size:155 final size:152
Alignment explanation
Indices: 480933--481310 Score: 485
Period size: 155 Copynumber: 2.5 Consensus size: 152
480923 TTGTCAACGA
* *
480933 GATGCTTTTATGCCAAAGGCATGCATTTAGGATAGGTTCATCCCATTTATGGTCATTTTTAAGTC
1 GATGCTTTTATGCCAAAGGCGTGCATTTAGGATAGGTTCATCCCATTTATGATCATTTTTAAGTC
** * * *
480998 CTTTATTACCAAGATACTTTCATGTTAAAAGTATACCCTAGAGGCATTTTCGTAATATTTTAGAA
66 CTTTATTACCAAGATACTTTCACATTAAAAGTATAACCTAGAGGCATTTACATAATATTTTAGAA
*
481063 CCAAGTCTTAAGTTGTCATCGG
131 CCAAGTCTTAAGTTGTCATCAG
* * *
481085 GATGCTTTTATGCTAAAGGTGTGCATTTTA-GATAGGTTCATCCTATTTATGATCATTTTTAAGT
1 GATGCTTTTATGCCAAAGGCGTGCA-TTTAGGATAGGTTCATCCCATTTATGATCATTTTTAAGT
* * * *
481149 -CTTATGGGTTACCAAGATACTTTCACATTAAAGGTATAAGCTAG-GAGCATTTACATAATTTTT
65 CCTT-T--ATTACCAAGATACTTTCACATTAAAAGTATAACCTAGAG-GCATTTACATAATATTT
* *
481212 CTATAACTAAGTCTTAAGTTGTCA-CTAG
126 -TAGAACCAAGTCTTAAGTTGTCATC-AG
* *
481240 GATGCTTTTATACCAAATGCGTGCATTTAGGATAGGTTCATCCCATTTATGATCATTTTTAAAGT
1 GATGCTTTTATGCCAAAGGCGTGCATTTAGGATAGGTTCATCCCATTTATGATCATTTTT-AAGT
481305 CCTTTA
65 CCTTTA
481311 GGGTTACTAG
Statistics
Matches: 193, Mismatches: 23, Indels: 18
0.82 0.10 0.08
Matches are distributed among these distances:
151 3 0.02
152 55 0.28
153 5 0.03
154 50 0.26
155 72 0.37
156 5 0.03
157 3 0.02
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.39
Consensus pattern (152 bp):
GATGCTTTTATGCCAAAGGCGTGCATTTAGGATAGGTTCATCCCATTTATGATCATTTTTAAGTC
CTTTATTACCAAGATACTTTCACATTAAAAGTATAACCTAGAGGCATTTACATAATATTTTAGAA
CCAAGTCTTAAGTTGTCATCAG
Found at i:481700 original size:34 final size:34
Alignment explanation
Indices: 481661--481790 Score: 147
Period size: 34 Copynumber: 3.9 Consensus size: 34
481651 GCATTTCTTT
* *
481661 TTAAAGTCCTCAACTTCGTGGCAACCTTTTTCTG
1 TTAAAGTCCACAACTCCGTGGCAACCTTTTTCTG
* * *
481695 TTAAAGTCCACAACTCCGAGGCAACTTTTTTTTG
1 TTAAAGTCCACAACTCCGTGGCAACCTTTTTCTG
* *
481729 TTAAAGTCCACAACTCCGTGGC-ACC-TTTCCTT
1 TTAAAGTCCACAACTCCGTGGCAACCTTTTTCTG
* ** *
481761 TTTAAGTCCACAACTATGTGGCACCCTTTT
1 TTAAAGTCCACAACTCCGTGGCAACCTTTT
481791 AAAGCCCACA
Statistics
Matches: 80, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
32 23 0.29
33 4 0.05
34 53 0.66
ACGTcount: A:0.23, C:0.28, G:0.14, T:0.35
Consensus pattern (34 bp):
TTAAAGTCCACAACTCCGTGGCAACCTTTTTCTG
Found at i:481854 original size:32 final size:31
Alignment explanation
Indices: 481778--482648 Score: 495
Period size: 32 Copynumber: 28.8 Consensus size: 31
481768 CCACAACTAT
*
481778 GTGGCACCCTTT-TAAAG-CC-CACAAGTTA
1 GTGGCACCCTTTCTAAAGCCCACACAAGTCA
* * * *
481806 GTAGCACTCTTCTCTAAAGCCCATACAAGTCG
1 GTGGCACCCTT-TCTAAAGCCCACACAAGTCA
*
481838 GTGGCAACCCTTTCTAAAGTCCACACAAGTCA
1 GTGGC-ACCCTTTCTAAAGCCCACACAAGTCA
* **
481870 GTGGCAACCCCCTTC-AAAGCCCACACAAGTTG
1 GTGGC-A-CCCTTTCTAAAGCCCACACAAGTCA
** * * **
481902 GTGGCATCTTTTTTCCAAAG-CC-TATGAGTCA
1 GTGGCA-C-CCTTTCTAAAGCCCACACAAGTCA
*
481933 GTGGCACCCTTTC-AAAG-CC-CACAAGTTA
1 GTGGCACCCTTTCTAAAGCCCACACAAGTCA
*
481961 GTGGCACCC-TTCCAAAG-CC-CACAAGTCA
1 GTGGCACCCTTTCTAAAGCCCACACAAGTCA
* * *
481989 ATGACACCCTTT-TCAAAG-CC-CATAAGTCA
1 GTGGCACCCTTTCT-AAAGCCCACACAAGTCA
*** * *
482018 GTGGCTTTC-TTCCAAAG-CC-CACAAGTTA
1 GTGGCACCCTTTCTAAAGCCCACACAAGTCA
** *
482046 GTGGCTTCC-TTCCAAAG-CC-CACAAGTCA
1 GTGGCACCCTTTCTAAAGCCCACACAAGTCA
* * **
482074 GTTGCA-CCTTTCTAAAGCTCACACAAGTTG
1 GTGGCACCCTTTCTAAAGCCCACACAAGTCA
*
482104 GTGGCAACCCTTTCTAAAGTCCACACAAGTCA
1 GTGGC-ACCCTTTCTAAAGCCCACACAAGTCA
* **
482136 GTGGCAACCCTCTTC-AAAGCCCACATAAGTTG
1 GTGGC-ACCCT-TTCTAAAGCCCACACAAGTCA
** *
482168 GTGGCATCTTTTTTTTAAAG-CC-CACAAGTCA
1 GTGGCA-C-CCTTTCTAAAGCCCACACAAGTCA
* *
482199 ATGGCACCCTTAC-AAAG-CC-CACAAGTCA
1 GTGGCACCCTTTCTAAAGCCCACACAAGTCA
* *
482227 GTGGCACTCTTT-TCAAAG-CC-CATAAGTCA
1 GTGGCACCCTTTCT-AAAGCCCACACAAGTCA
** *
482256 GTGGCTTCC-TTCCAAAG-CC-CACAAGTCA
1 GTGGCACCCTTTCTAAAGCCCACACAAGTCA
* *
482284 GTAGCACCCTTT-TAAAGCCCACGCAAGTCA
1 GTGGCACCCTTTCTAAAGCCCACACAAGTCA
* * *
482314 GTGGCAACCCTTTCCAAAGTCCACACAAGTCG
1 GTGGC-ACCCTTTCTAAAGCCCACACAAGTCA
* * **
482346 GTGGCAACCCCCTTC-AAAGCCCATACAAGTTG
1 GTGGC-A-CCCTTTCTAAAGCCCACACAAGTCA
** * * *
482378 GTGGCATCTTTTTTTTTCAAAG--CTCACGAGTCA
1 GTGGCA-C--CCTTTCT-AAAGCCCACACAAGTCA
482411 GTGGCACCCTTTC-AAAG-CC-CACAAGTCA
1 GTGGCACCCTTTCTAAAGCCCACACAAGTCA
*
482439 GTGGCACCC-TTCCAAAG-CC-CACAAGTCA
1 GTGGCACCCTTTCTAAAGCCCACACAAGTCA
** * *
482467 GTGGCTTCC-TTCCAAAGCCCACACAAGTCG
1 GTGGCACCCTTTCTAAAGCCCACACAAGTCA
* *
482497 GTGGCACCCTCTCTAAAGCCCACACAAG-CTG
1 GTGGCACCCTTTCTAAAGCCCACACAAGTC-A
* *
482528 GTGGCAACCTTTTCTAAAGCCCACACAAG-CTG
1 GTGGC-ACCCTTTCTAAAGCCCACACAAGTC-A
* **
482560 GTGGCAACCTTTTCTAAAGCCCACACAAGTTG
1 GTGGC-ACCCTTTCTAAAGCCCACACAAGTCA
* **
482592 GTGGCACCTTTCTCTAAAGCCCACACAAGTTG
1 GTGGCACCCTT-TCTAAAGCCCACACAAGTCA
*
482624 GTGGCACCTTTCTCTAAAGCCCACA
1 GTGGCACCCTT-TCTAAAGCCCACA
482649 TAAGCTGGTG
Statistics
Matches: 683, Mismatches: 117, Indels: 82
0.77 0.13 0.09
Matches are distributed among these distances:
27 8 0.01
28 203 0.30
29 55 0.08
30 49 0.07
31 64 0.09
32 257 0.38
33 43 0.06
35 4 0.01
ACGTcount: A:0.28, C:0.32, G:0.17, T:0.23
Consensus pattern (31 bp):
GTGGCACCCTTTCTAAAGCCCACACAAGTCA
Found at i:482015 original size:29 final size:28
Alignment explanation
Indices: 481778--482520 Score: 525
Period size: 28 Copynumber: 24.8 Consensus size: 28
481768 CCACAACTAT
* *
481778 GTGGCACCCTTTTAAAGCCCACAAGTTA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* * *
481806 GTAGCACTCTTCTCTAAAGCCCATACAAGTCG
1 GTGGCACCCTT-TC-AAAGCCC--ACAAGTCA
481838 GTGGCAACCCTTTCTAAAGTCCACACAAGTCA
1 GTGGC-ACCCTTTC-AAAG-CC-CACAAGTCA
* **
481870 GTGGCAACCCCCTTCAAAGCCCACACAAGTTG
1 GTGGC-A-CCCTTTCAAAG-CC-CACAAGTCA
** * **
481902 GTGGCATCTTTTTTCCAAAGCCTATGAGTCA
1 GTGGCA-C-CCTTT-CAAAGCCCACAAGTCA
*
481933 GTGGCACCCTTTCAAAGCCCACAAGTTA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
*
481961 GTGGCACCCTTCCAAAGCCCACAAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* * *
481989 ATGACACCCTTTTCAAAGCCCATAAGTCA
1 GTGGCACCC-TTTCAAAGCCCACAAGTCA
*** * *
482018 GTGGCTTTCTTCCAAAGCCCACAAGTTA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
** *
482046 GTGGCTTCCTTCCAAAGCCCACAAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* **
482074 GTTGCA-CCTTTCTAAAGCTCACACAAGTTG
1 GTGGCACCCTTTC-AAAGC-C-CACAAGTCA
482104 GTGGCAACCCTTTCTAAAGTCCACACAAGTCA
1 GTGGC-ACCCTTTC-AAAG-CC-CACAAGTCA
**
482136 GTGGCAACCCTCTTCAAAGCCCACATAAGTTG
1 GTGGC-ACCCT-TTCAAAGCCCAC--AAGTCA
** *
482168 GTGGCATCTTTTTTTTAAAGCCCACAAGTCA
1 GTGGCA-C--CCTTTCAAAGCCCACAAGTCA
* *
482199 ATGGCACCCTTACAAAGCCCACAAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* *
482227 GTGGCACTCTTTTCAAAGCCCATAAGTCA
1 GTGGCAC-CCTTTCAAAGCCCACAAGTCA
** *
482256 GTGGCTTCCTTCCAAAGCCCACAAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* *
482284 GTAGCACCCTTTTAAAGCCCACGCAAGTCA
1 GTGGCACCCTTTCAAAGCCCA--CAAGTCA
*
482314 GTGGCAACCCTTTCCAAAGTCCACACAAGTCG
1 GTGGC-ACCCTTT-CAAAG-CC-CACAAGTCA
* **
482346 GTGGCAACCCCCTTCAAAGCCCATACAAGTTG
1 GTGGC-A-CCCTTTCAAAGCCC--ACAAGTCA
** * *
482378 GTGGCATCTTTTTTTTTCAAAGCTCACGAGTCA
1 GTGGCA-C----CCTTTCAAAGCCCACAAGTCA
482411 GTGGCACCCTTTCAAAGCCCACAAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
*
482439 GTGGCACCCTTCCAAAGCCCACAAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
** * *
482467 GTGGCTTCCTTCCAAAGCCCACACAAGTCG
1 GTGGCACCCTTTCAAAG-CC-CACAAGTCA
*
482497 GTGGCACCCTCTCTAAAGCCCACA
1 GTGGCACCCTTTC-AAAGCCCACA
482521 CAAGCTGGTG
Statistics
Matches: 573, Mismatches: 102, Indels: 79
0.76 0.14 0.10
Matches are distributed among these distances:
27 5 0.01
28 221 0.39
29 55 0.10
30 54 0.09
31 40 0.07
32 134 0.23
33 51 0.09
34 4 0.01
35 9 0.02
ACGTcount: A:0.28, C:0.32, G:0.17, T:0.23
Consensus pattern (28 bp):
GTGGCACCCTTTCAAAGCCCACAAGTCA
Found at i:482192 original size:210 final size:210
Alignment explanation
Indices: 481779--482616 Score: 914
Period size: 210 Copynumber: 4.0 Consensus size: 210
481769 CACAACTATG
* * * *
481779 TGGCACCCTTTTAAAGCCCACAAGTTAGTAGCACTCTTCTCTAAAGCCCATACAAGTCGGTGGCA
1 TGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTC-C-AAAGCCC--ACAAGTCAGTGGC-
** * * *
481844 ACCCTTTCTAAAGTCCACACAAGTCAGTGGCAACCCCCTTC-AAAGCCCACACAAGTTGGTGGCA
61 TTCC-TTCCAAAG-CC-CACAAGTCAGTAGC-A-CCCTTTCTAAAGCCCACACAAGTTGGTGGCA
* ** * * ** * *
481908 TCTTTTTTCCAAAG-CC-TATGAGTCAGTGGC-ACCCT-TTCAAAG-CC-CACAAGTTAGTGGCA
121 AC-CCTTTCTAAAGTCCACACAAGTCGGTGGCAACCCTCTTCAAAGCCCACACAAGTTGGTGGCA
** **
481967 -C--CCTTCCAAAGCCCACAAGTCAA
185 TCTTTTTTTTAAAGCCCACAAGTCAA
* * ** *
481990 TGACACCCTTTTCAAAGCCCATAAGTCAGTGGCTTTCTTCCAAAGCCCACAAGTTAGTGGCTTCC
1 TGGCACCC-TTTCAAAGCCCACAAGTCAGTGGCACTCTTCCAAAGCCCACAAGTCAGTGGCTTCC
* *
482055 TTCCAAAGCCCACAAGTCAGTTGCA-CCTTTCTAAAGCTCACACAAGTTGGTGGCAACCCTTTCT
65 TTCCAAAGCCCACAAGTCAGTAGCACCCTTTCTAAAGCCCACACAAGTTGGTGGCAACCCTTTCT
* *
482119 AAAGTCCACACAAGTCAGTGGCAACCCTCTTCAAAGCCCACATAAGTTGGTGGCATCTTTTTTTT
130 AAAGTCCACACAAGTCGGTGGCAACCCTCTTCAAAGCCCACACAAGTTGGTGGCATCTTTTTTTT
482184 AAAGCCCACAAGTCAA
195 AAAGCCCACAAGTCAA
* * *
482200 TGGCACCCTTACAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCATAAGTCAGTGGCTTCC
1 TGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTC-TTCCAAAGCCCACAAGTCAGTGGCTTCC
* ** *
482265 TTCCAAAGCCCACAAGTCAGTAGCACCCTTT-TAAAGCCCACGCAAGTCAGTGGCAACCCTTTCC
65 TTCCAAAGCCCACAAGTCAGTAGCACCCTTTCTAAAGCCCACACAAGTTGGTGGCAACCCTTTCT
* *
482329 AAAGTCCACACAAGTCGGTGGCAACCCCCTTCAAAGCCCATACAAGTTGGTGGCATCTTTTTTTT
130 AAAGTCCACACAAGTCGGTGGCAACCCTCTTCAAAGCCCACACAAGTTGGTGGCATC-TTTTTTT
* * *
482394 TCAAAGCTCACGAGTCAG
194 T-AAAGCCCACAAGTCAA
*
482412 TGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTCCAAAGCCCACAAGTCAGTGGCTTCCT
1 TGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTCCAAAGCCCACAAGTCAGTGGCTTCCT
* * * * *
482477 TCCAAAGCCCACACAAGTCGGTGGCACCCTCTCTAAAGCCCACACAAGCTGGTGGCAACCTTTTC
66 TCCAAAG-CC-CACAAGTCAGTAGCACCCTTTCTAAAGCCCACACAAGTTGGTGGCAACCCTTTC
* * * *
482542 TAAAGCCCACACAAG-CTGGTGGCAA-CCTTTTCTAAAGCCCACACAAGTTGGTGGCA-CCTTTC
129 TAAAGTCCACACAAGTC-GGTGGCAACCCTCTTC-AAAGCCCACACAAGTTGGTGGCATCTTTTT
*
482604 TCTAAAGCCCACA
192 TTTAAAGCCCACA
482617 CAAGTTGGTG
Statistics
Matches: 536, Mismatches: 71, Indels: 40
0.83 0.11 0.06
Matches are distributed among these distances:
201 13 0.02
202 25 0.05
203 12 0.02
204 18 0.03
205 9 0.02
206 9 0.02
207 15 0.03
208 12 0.02
209 24 0.04
210 162 0.30
211 63 0.12
212 79 0.15
213 25 0.05
214 70 0.13
ACGTcount: A:0.28, C:0.32, G:0.17, T:0.23
Consensus pattern (210 bp):
TGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTCCAAAGCCCACAAGTCAGTGGCTTCCT
TCCAAAGCCCACAAGTCAGTAGCACCCTTTCTAAAGCCCACACAAGTTGGTGGCAACCCTTTCTA
AAGTCCACACAAGTCGGTGGCAACCCTCTTCAAAGCCCACACAAGTTGGTGGCATCTTTTTTTTA
AAGCCCACAAGTCAA
Found at i:482303 original size:266 final size:268
Alignment explanation
Indices: 481791--482305 Score: 730
Period size: 266 Copynumber: 1.9 Consensus size: 268
481781 GCACCCTTTT
* *
481791 AAAGCCCACAAGTTAGTAGCACTCTTCTCTAAAGCCCATACAAGTCGGTGGCAACCCTTTCTAAA
1 AAAGCCCACAAGTCAGTAGCACTCTTCTCTAAAGCCCACACAAGTCGGTGGCAACCCTTTCTAAA
481856 GTCCACACAAGTCAGTGGCAACCCCCTTCAAAGCCCACACAAGTTGGTGGCATCTTTTTTCCAAA
66 GTCCACACAAGTCAGTGGCAACCCCCTTCAAAGCCCACACAAGTTGGTGGCATCTTTTTTCCAAA
* ** * * *
481921 GCCTATGAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCACCCTTCCAAAGCCCACAAG
131 GCCCACAAGTCAATGGCACCCTTACAAAGCCCACAAGTCAGTGGCACCCTTCCAAAGCCCACAAG
* * * ***
481986 TCAATGACACCCTTTTCAAAGCCCATAAGTCAGTGGCTTTCTTCCAAAGCCCACAAGTTAGTGGC
196 TCAATGACACCCTTTCCAAAGCCCACAAGTCAGTAGCACCCTTCCAAAGCCCACAAGTTAGTGGC
482051 TTCCTTCC
261 TTCCTTCC
* * *
482059 AAAGCCCACAAGTCAGTTGCAC-CTT-TCTAAAGCTCACACAAGTTGGTGGCAACCCTTTCTAAA
1 AAAGCCCACAAGTCAGTAGCACTCTTCTCTAAAGCCCACACAAGTCGGTGGCAACCCTTTCTAAA
* * **
482122 GTCCACACAAGTCAGTGGCAACCCTCTTCAAAGCCCACATAAGTTGGTGGCATCTTTTTTTTAAA
66 GTCCACACAAGTCAGTGGCAACCCCCTTCAAAGCCCACACAAGTTGGTGGCATCTTTTTTCCAAA
* * *
482187 GCCCACAAGTCAATGGCACCCTTACAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCATAA
131 GCCCACAAGTCAATGGCACCCTTACAAAGCCCACAAGTCAGTGGCAC-CCTTCCAAAGCCCACAA
* * ** **
482252 GTCAGTGGCTTCC-TTCCAAAGCCCACAAGTCAGTAGCACCCTTTTAAAGCCCAC
195 GTCAATGACACCCTTTCCAAAGCCCACAAGTCAGTAGCACCCTTCCAAAGCCCAC
482306 GCAAGTCAGT
Statistics
Matches: 216, Mismatches: 30, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
266 170 0.79
267 26 0.12
268 20 0.09
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (268 bp):
AAAGCCCACAAGTCAGTAGCACTCTTCTCTAAAGCCCACACAAGTCGGTGGCAACCCTTTCTAAA
GTCCACACAAGTCAGTGGCAACCCCCTTCAAAGCCCACACAAGTTGGTGGCATCTTTTTTCCAAA
GCCCACAAGTCAATGGCACCCTTACAAAGCCCACAAGTCAGTGGCACCCTTCCAAAGCCCACAAG
TCAATGACACCCTTTCCAAAGCCCACAAGTCAGTAGCACCCTTCCAAAGCCCACAAGTTAGTGGC
TTCCTTCC
Found at i:482413 original size:155 final size:150
Alignment explanation
Indices: 482236--482533 Score: 400
Period size: 155 Copynumber: 2.0 Consensus size: 150
482226 AGTGGCACTC
* ** **
482236 TTTTCAAAGCCCATAAGTCAGTGGCTTCCTTCCAAAGCCCACAAGTCAGTAGCACCCTTTTAAAG
1 TTTTCAAAGCCCACAAGTCAGTGGCACCCTTCCAAAGCCCACAAGTCAGTAGCACCCTTCCAAAG
*
482301 CCCACGCAAGTCAGTGGCAACCCTTTCCAAAGTCCACACAAGTCGGTGGCAACCCCCT-TCAAAG
66 CCCA--CAAGTCAGTGGC-ACCC-TTCCAAAGCCCACACAAGTCGGTGGC-ACCCCCTCT-AAAG
* *
482365 CCCATACAAGTTGGTGGCATCTTTTT
125 CCCACACAAGCTGGTGGCATCTTTTT
* * * *
482391 TTTTCAAAGCTCACGAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTCCAAAG
1 TTTTCAAAGCCCACAAGTCAGTGGCACCCTTCCAAAGCCCACAAGTCAGTAGCACCCTTCCAAAG
** *
482456 CCCACAAGTCAGTGGCTTCCTTCCAAAGCCCACACAAGTCGGTGGCACCCTCTCTAAAGCCCACA
66 CCCACAAGTCAGTGGCACCCTTCCAAAGCCCACACAAGTCGGTGGCACCCCCTCTAAAGCCCACA
482521 CAAGCTGGTGGCA
131 CAAGCTGGTGGCA
482534 ACCTTTTCTA
Statistics
Matches: 127, Mismatches: 15, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
150 27 0.21
151 26 0.20
152 2 0.02
153 12 0.09
155 60 0.47
ACGTcount: A:0.27, C:0.33, G:0.18, T:0.21
Consensus pattern (150 bp):
TTTTCAAAGCCCACAAGTCAGTGGCACCCTTCCAAAGCCCACAAGTCAGTAGCACCCTTCCAAAG
CCCACAAGTCAGTGGCACCCTTCCAAAGCCCACACAAGTCGGTGGCACCCCCTCTAAAGCCCACA
CAAGCTGGTGGCATCTTTTT
Found at i:482452 original size:183 final size:183
Alignment explanation
Indices: 482030--482565 Score: 502
Period size: 182 Copynumber: 2.9 Consensus size: 183
482020 GGCTTTCTTC
* * * * * *
482030 CAAAGCCCACAAGTTAGTGGC-TTCCTTCCAAAGCCCACAAGTCAGTTGCACCTTTCTAAAGCTC
1 CAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTCCAAAGC-C
** * * * *
482094 ACACAAGTTGGTGGCAACCCTTTCTAAAGTCCACACAAGTCAGTGGCAACCCTCTTCAAAGCCCA
65 -CACAAGTCAGTAGC-ACCC-TTCCAAAGCCCACACAAGTCAGTGGC-ACCCTCTCCAAAGCCCA
* * * *** * ** ** *
482159 CATAAGTTGGTGGCATCTTTTTTTTAAAG-CC-CACAAG-TCAATGGCA-C----CCTTA
126 CACAAGCTGGTGGCAAC-CCCTTCTAAAGCCCACACAAGCT-GGTGGCATCTTTTTTTTT
* * **
482211 CAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCATAAGTCAGTGGCTTCCTTCCAAAGCCC
1 CAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTCCAAAGCCC
** * * *
482276 ACAAGTCAGTAGCACCCTTTTAAAGCCCACGCAAGTCAGTGGCAACCCTTTCCAAAGTCCACACA
66 ACAAGTCAGTAGCACCCTTCCAAAGCCCACACAAGTCAGTGGC-ACCCTCTCCAAAGCCCACACA
* *
482341 AG-TCGGTGGCAACCCCCTTC-AAAGCCCATACAAGTTGGTGGCATCTTTTTTTTT
130 AGCT-GGTGGCAA-CCCCTTCTAAAGCCCACACAAGCTGGTGGCATCTTTTTTTTT
* *
482395 CAAAGCTCACGAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACCCTTCCAAAGCCC
1 CAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTCCAAAGCCC
* ** * *
482459 ACAAGTCAGTGGCTTCCTTCCAAAGCCCACACAAGTCGGTGGCACCCTCTCTAAAGCCCACACAA
66 ACAAGTCAGTAGCACCCTTCCAAAGCCCACACAAGTCAGTGGCACCCTCTCCAAAGCCCACACAA
**
482524 GCTGGTGGCAACCTTTTCTAAAGCCCACACAAGCTGGTGGCA
131 GCTGGTGGCAACCCCTTCTAAAGCCCACACAAGCTGGTGGCA
482566 ACCTTTTCTA
Statistics
Matches: 291, Mismatches: 51, Indels: 25
0.79 0.14 0.07
Matches are distributed among these distances:
177 5 0.02
178 54 0.19
179 15 0.05
180 13 0.04
181 26 0.09
182 81 0.28
183 74 0.25
184 23 0.08
ACGTcount: A:0.28, C:0.32, G:0.18, T:0.22
Consensus pattern (183 bp):
CAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTCCAAAGCCC
ACAAGTCAGTAGCACCCTTCCAAAGCCCACACAAGTCAGTGGCACCCTCTCCAAAGCCCACACAA
GCTGGTGGCAACCCCTTCTAAAGCCCACACAAGCTGGTGGCATCTTTTTTTTT
Found at i:482626 original size:96 final size:97
Alignment explanation
Indices: 482480--482711 Score: 328
Period size: 96 Copynumber: 2.4 Consensus size: 97
482470 GCTTCCTTCC
* *
482480 AAAGCCCACACAAGTCGGTGGCACCCTCTCTAAAGCCCACACAAGCTGGTGGCAACCTTT-TCTA
1 AAAGCCCACACAAGTTGGTGGCACCTTCTCTAAAGCCCACACAAGCTGGTGGC-ACCTTTCTCTA
482544 AAGCCCACACAAGCTGGTGGCAACCT-TT-TCT
65 AAGCCCACACAAGCTGGTGGCAACCTCTTCTCT
*
482575 AAAGCCCACACAAGTTGGTGGCACCTTTCTCTAAAGCCCACACAAGTTGGTGGCACCTTTCTCTA
1 AAAGCCCACACAAGTTGGTGGCACC-TTCTCTAAAGCCCACACAAGCTGGTGGCACCTTTCTCTA
*
482640 AAGCCCACATAAGCTGGTGGCAACCTCTTCTCT
65 AAGCCCACACAAGCTGGTGGCAACCTCTTCTCT
* ** * *
482673 AAGGCTTACACAAGCTGGTGGCATCTTCTTCT-AAGCCCA
1 AAAGCCCACACAAGTTGGTGGCACCTTC-TCTAAAGCCCA
482712 ATGTCGCTGG
Statistics
Matches: 123, Mismatches: 9, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
95 30 0.24
96 55 0.45
97 12 0.10
98 26 0.21
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.23
Consensus pattern (97 bp):
AAAGCCCACACAAGTTGGTGGCACCTTCTCTAAAGCCCACACAAGCTGGTGGCACCTTTCTCTAA
AGCCCACACAAGCTGGTGGCAACCTCTTCTCT
Found at i:482658 original size:32 final size:32
Alignment explanation
Indices: 482480--482711 Score: 296
Period size: 32 Copynumber: 7.2 Consensus size: 32
482470 GCTTCCTTCC
*
482480 AAAGCCCACACAAG-TCGGTGGCACC-CTCTCT
1 AAAGCCCACACAAGCT-GGTGGCACCTTTCTCT
482511 AAAGCCCACACAAGCTGGTGGCAACCTTT-TCT
1 AAAGCCCACACAAGCTGGTGGC-ACCTTTCTCT
482543 AAAGCCCACACAAGCTGGTGGCAACCTTT-TCT
1 AAAGCCCACACAAGCTGGTGGC-ACCTTTCTCT
*
482575 AAAGCCCACACAAGTTGGTGGCACCTTTCTCT
1 AAAGCCCACACAAGCTGGTGGCACCTTTCTCT
*
482607 AAAGCCCACACAAGTTGGTGGCACCTTTCTCT
1 AAAGCCCACACAAGCTGGTGGCACCTTTCTCT
*
482639 AAAGCCCACATAAGCTGGTGGCAACCTCTTCTCT
1 AAAGCCCACACAAGCTGGTGGC-ACCT-TTCTCT
* ** *
482673 AAGGCTTACACAAGCTGGTGGCATC-TTCTTCT
1 AAAGCCCACACAAGCTGGTGGCACCTTTC-TCT
482705 -AAGCCCA
1 AAAGCCCA
482712 ATGTCGCTGG
Statistics
Matches: 182, Mismatches: 12, Indels: 14
0.88 0.06 0.07
Matches are distributed among these distances:
31 33 0.18
32 118 0.65
33 7 0.04
34 24 0.13
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.23
Consensus pattern (32 bp):
AAAGCCCACACAAGCTGGTGGCACCTTTCTCT
Found at i:482848 original size:113 final size:113
Alignment explanation
Indices: 482699--482960 Score: 317
Period size: 113 Copynumber: 2.3 Consensus size: 113
482689 GGTGGCATCT
* * *
482699 TCTTCTAAGCCCAATGTCGCTGGCCTTGAATCAGCATACTGGTGCCTTTGTCATCTTTAAGTCAA
1 TCTT-TAAGCCTAATGTCACTGGCCTTGAATCAGCATACTGGTGACTTTGTCATCTTTAAGTCAA
* * * *
482764 ATATCACTGGCTTTGAATCAACATATCGGCACGTTTATCATTCTTCTAA
65 ATATCACTGGCCTTGAATCAACATATCAGCACGTTTATCATGCTTCGAA
* * * ** *
482813 TCTTTAAGCCTAATGTCATTGGCCTTGGATTAGCATTTTGGTGACTTTGTCATCTTTAAGTCTAA
1 TCTTTAAGCCTAATGTCACTGGCCTTGAATCAGCATACTGGTGACTTTGTCATCTTTAAGTCAAA
* * * *
482878 TATCGCTGGCCTTGAATCAACATATTAGCACTTTTATCATGCTTCGCA
66 TATCACTGGCCTTGAATCAACATATCAGCACGTTTATCATGCTTCGAA
* * * **
482926 TCCTTAAGTCTAATGTCGCTAACCTTGAATCAGCA
1 TCTTTAAGCCTAATGTCACTGGCCTTGAATCAGCA
482961 CATTGGCACT
Statistics
Matches: 123, Mismatches: 25, Indels: 1
0.83 0.17 0.01
Matches are distributed among these distances:
113 119 0.97
114 4 0.03
ACGTcount: A:0.24, C:0.23, G:0.16, T:0.37
Consensus pattern (113 bp):
TCTTTAAGCCTAATGTCACTGGCCTTGAATCAGCATACTGGTGACTTTGTCATCTTTAAGTCAAA
TATCACTGGCCTTGAATCAACATATCAGCACGTTTATCATGCTTCGAA
Found at i:482994 original size:61 final size:61
Alignment explanation
Indices: 482862--483002 Score: 156
Period size: 61 Copynumber: 2.3 Consensus size: 61
482852 GGTGACTTTG
* ** * * * *
482862 TCATCTTTAAGTCTAATATCGCTGGCCTTGAATCAACATATTAGCACTTTTATCATGCTTC
1 TCATCTTTAAGTCTAATGTCGCTAACCTTGAATCAACACATTAGCACTCTTATCATCCTTA
* * * * * *
482923 GCATCCTTAAGTCTAATGTCGCTAACCTTGAATCAGCACATTGGCACTCTTCTTATCCTTA
1 TCATCTTTAAGTCTAATGTCGCTAACCTTGAATCAACACATTAGCACTCTTATCATCCTTA
*
482984 TCATCTTTAAGTCCAATGT
1 TCATCTTTAAGTCTAATGT
483003 TACAGGCCTT
Statistics
Matches: 64, Mismatches: 16, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
61 64 1.00
ACGTcount: A:0.26, C:0.25, G:0.12, T:0.38
Consensus pattern (61 bp):
TCATCTTTAAGTCTAATGTCGCTAACCTTGAATCAACACATTAGCACTCTTATCATCCTTA
Found at i:493233 original size:156 final size:157
Alignment explanation
Indices: 492973--493571 Score: 682
Period size: 156 Copynumber: 3.8 Consensus size: 157
492963 ATTTTCATAT
* *
492973 CAAAGGTGTTCATTTAGGATAGGTTCATCCCATTTATGATCATTTTTAAGTCTTTTAGAGTTA-T
1 CAAAGGTGTGCATTTAGGATAGGTTCATCCCATTTATGATCATTTTTAAGTCCTTTAGAGTTACT
* * * * *
493037 TGAGATACTTTCCCGTTGAAGGTATA-CCTAAGGGGTATTTTCATAATTTT-CTTAAAACCAAGT
66 CGA-ATACTTTCACATCGAAGGTATACCCTAA-GGGTATTTTCATAATTTTACTTAGAACCAAGT
* *
493100 CCTAAGTTGTCATTGGGATGCTCTTATGC
129 CCTAGGTTGTCATTGGGATGCTTTTATGC
* *
493129 CAAAGGTGTGCATTTAGGATAGGTTCATCCCATTTATGATCATTTTTAAGTCTTTTAGGGTTACT
1 CAAAGGTGTGCATTTAGGATAGGTTCATCCCATTTATGATCATTTTTAAGTCCTTTAGAGTTACT
* * * * * *
493194 CGAACACTTTCATAACGAAAGTATACCCTAAGGGCATTTTCATAATTTT-TTTAGAACCAAGTCC
66 CGAATACTTTCACATCGAAGGTATACCCTAAGGGTATTTTCATAATTTTACTTAGAACCAAGTCC
*
493258 TAGGTTGTCATTGGGATGATTTTATGC
131 TAGGTTGTCATTGGGATGCTTTTATGC
*
493285 CAAAGGTGTGCATTTAGGATAAGTTCATCCCATTTATGATCATATTTGT-A-TCCTTTA-AGGTT
1 CAAAGGTGTGCATTTAGGATAGGTTCATCCCATTTATGATCAT-TTT-TAAGTCCTTTAGA-GTT
** * * **
493347 AACAAGAA-ACTTTCACATCGAACGTATACCTTAAGGGTATTTTTGTAATTTTAC-TAGAACCAA
63 -ACTCGAATACTTTCACATCGAAGGTATACCCTAAGGGTATTTTCATAATTTTACTTAGAACCAA
* ** *
493410 G-CCTTAGGTTGTAACCGAGATGCTTTTATGC
127 GTCC-TAGGTTGTCATTGGGATGCTTTTATGC
* * * *
493441 CAAAAGTGTGCATTTAGGATAGGTTCATCCCATTTATAATCATTTTTATGTCCTTTACAGTTAC-
1 CAAAGGTGTGCATTTAGGATAGGTTCATCCCATTTATGATCATTTTTAAGTCCTTTAGAGTTACT
** * * *
493505 CAGAATACTTTCATGTCGAAGGTATATCCT-AGGGATATTTTGATAATTTTGCATTAGAACCAAG
66 C-GAATACTTTCACATCGAAGGTATACCCTAAGGG-TATTTTCATAATTTTAC-TTAGAACCAAG
493569 TCC
128 TCC
493572 AATGCAATTA
Statistics
Matches: 379, Mismatches: 47, Indels: 31
0.83 0.10 0.07
Matches are distributed among these distances:
154 1 0.00
155 14 0.04
156 333 0.88
157 18 0.05
158 11 0.03
159 2 0.01
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (157 bp):
CAAAGGTGTGCATTTAGGATAGGTTCATCCCATTTATGATCATTTTTAAGTCCTTTAGAGTTACT
CGAATACTTTCACATCGAAGGTATACCCTAAGGGTATTTTCATAATTTTACTTAGAACCAAGTCC
TAGGTTGTCATTGGGATGCTTTTATGC
Found at i:495765 original size:12 final size:11
Alignment explanation
Indices: 495743--495818 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
495733 AGAGAAAGAA
*
495743 GAGAGAGGAGG
1 GAGATAGGAGG
495754 GATGATAGGAGG
1 GA-GATAGGAGG
*
495766 AGAGACAGGA--
1 -GAGATAGGAGG
*
495776 GAGATAGTA--
1 GAGATAGGAGG
495785 GAGATAGGAGG
1 GAGATAGGAGG
495796 GATGATAGGAGG
1 GA-GATAGGAGG
*
495808 AGAGACAGGAG
1 -GAGATAGGAG
495819 AGATAATAGA
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 4 0.08
12 30 0.57
13 4 0.08
ACGTcount: A:0.39, C:0.03, G:0.49, T:0.09
Consensus pattern (11 bp):
GAGATAGGAGG
Found at i:495775 original size:24 final size:24
Alignment explanation
Indices: 495742--495827 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
495732 AAGAGAAAGA
*
495742 AGAGAGAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
*
495766 AGAGACAGGA--GA-GAT---AGT
1 AGAGACAGGAGGGATGATAGGAGG
*
495784 AGAGATAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
* *
495808 AGAGACAGGAGAGATAATAG
1 AGAGACAGGAGGGATGATAG
495828 AGAGAGGAGA
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 11 0.22
20 2 0.04
21 6 0.12
22 2 0.04
24 28 0.57
ACGTcount: A:0.42, C:0.02, G:0.45, T:0.10
Consensus pattern (24 bp):
AGAGACAGGAGGGATGATAGGAGG
Found at i:495777 original size:9 final size:9
Alignment explanation
Indices: 495763--495840 Score: 54
Period size: 9 Copynumber: 9.0 Consensus size: 9
495753 GGATGATAGG
*
495763 AGGAGAGAC
1 AGGAGAGAT
495772 AGGAGAGAT
1 AGGAGAGAT
*
495781 AGTAGAGAT
1 AGGAGAGAT
*
495790 AGGAGGGAT
1 AGGAGAGAT
* *
495799 --GATAG-G
1 AGGAGAGAT
*
495805 AGGAGAGAC
1 AGGAGAGAT
495814 AGGAGAGAT
1 AGGAGAGAT
** *
495823 AATAGAGAG
1 AGGAGAGAT
495832 AGGAGAGAT
1 AGGAGAGAT
495841 GACATGAGGA
Statistics
Matches: 50, Mismatches: 16, Indels: 6
0.69 0.22 0.08
Matches are distributed among these distances:
7 3 0.06
8 4 0.08
9 43 0.86
ACGTcount: A:0.44, C:0.03, G:0.44, T:0.10
Consensus pattern (9 bp):
AGGAGAGAT
Found at i:495793 original size:18 final size:18
Alignment explanation
Indices: 495766--495840 Score: 60
Period size: 18 Copynumber: 3.8 Consensus size: 18
495756 TGATAGGAGG
495766 AGAGACAGGAGAGATAGT
1 AGAGACAGGAGAGATAGT
* *
495784 AGAGATAGGAGGGATGATAGGAGG
1 AGAGACAGGA--GA-GAT---AGT
*
495808 AGAGACAGGAGAGATAAT
1 AGAGACAGGAGAGATAGT
*
495826 AGAGAGAGGAGAGAT
1 AGAGACAGGAGAGAT
495841 GACATGAGGA
Statistics
Matches: 45, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
18 24 0.53
20 2 0.04
21 6 0.13
22 2 0.04
24 11 0.24
ACGTcount: A:0.44, C:0.03, G:0.43, T:0.11
Consensus pattern (18 bp):
AGAGACAGGAGAGATAGT
Found at i:495794 original size:42 final size:42
Alignment explanation
Indices: 495733--495857 Score: 178
Period size: 42 Copynumber: 2.9 Consensus size: 42
495723 TAGCCCTCAA
* *
495733 AGAGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
*
495775 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
* *
495817 AGAGATAATAGAGAGAGGAGAGATGACATGAGGAGGAGAGA
1 AGAGATAGTAGAGAGAGGAGGGATG--AT-AGGAGGAGAGA
495858 AGAAGATGGA
Statistics
Matches: 74, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
42 61 0.82
44 2 0.03
45 11 0.15
ACGTcount: A:0.44, C:0.02, G:0.45, T:0.09
Consensus pattern (42 bp):
AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
Found at i:495852 original size:18 final size:18
Alignment explanation
Indices: 495808--495857 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
495798 TGATAGGAGG
*
495808 AGAGACAGGAGAGATAAT
1 AGAGAGAGGAGAGATAAT
495826 AGAGAGAGGAGAGATGACAT
1 AGAGAGAGGAGAGAT-A-AT
495846 -GAG-GAGGAGAGA
1 AGAGAGAGGAGAGA
495858 AGAAGATGGA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 23 0.79
19 4 0.14
20 2 0.07
ACGTcount: A:0.46, C:0.04, G:0.42, T:0.08
Consensus pattern (18 bp):
AGAGAGAGGAGAGATAAT
Found at i:503184 original size:42 final size:42
Alignment explanation
Indices: 503129--503247 Score: 193
Period size: 42 Copynumber: 2.8 Consensus size: 42
503119 TTCTTCTCTC
* *
503129 CTCCTCCTGTCATCCCTCCTCTCTCTATTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
*
503171 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
* *
503213 CTCCTCCTATCATCCCTCCTCTCTCTTCTTTCTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCT
503248 TTGAGGGCTA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.08, C:0.46, G:0.03, T:0.43
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
Found at i:503188 original size:12 final size:11
Alignment explanation
Indices: 503162--503237 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
503152 TCTATTATCT
*
503162 CTCCTGTCTCTC
1 CTCCTATCTC-C
503174 CTCCTATCATCC
1 CTCCTATC-TCC
503186 CTCCTATCT--
1 CTCCTATCTCC
*
503195 CTACTATCT--
1 CTCCTATCTCC
*
503204 CTCCTGTCTCTC
1 CTCCTATCTC-C
503216 CTCCTATCATCC
1 CTCCTATC-TCC
*
503228 CTCCTCTCTC
1 CTCCTATCTC
503238 TTCTTTCTCT
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 3 0.06
12 31 0.58
13 4 0.08
ACGTcount: A:0.09, C:0.49, G:0.03, T:0.39
Consensus pattern (11 bp):
CTCCTATCTCC
Found at i:503189 original size:24 final size:24
Alignment explanation
Indices: 503153--503238 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
503143 CCTCCTCTCT
* *
503153 CTATTATCTCTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
* *
503177 CTATCATCCCTCC--TATCT-CTA
1 CTATCATCCCTCCTGTCTCTCCTC
503198 CTATC-T--CTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
*
503219 CTATCATCCCTCCTCTCTCT
1 CTATCATCCCTCCTGTCTCT
503239 TCTTTCTCTT
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 4 0.08
20 5 0.10
21 14 0.29
22 5 0.10
24 21 0.43
ACGTcount: A:0.10, C:0.45, G:0.02, T:0.42
Consensus pattern (24 bp):
CTATCATCCCTCCTGTCTCTCCTC
Found at i:503213 original size:18 final size:18
Alignment explanation
Indices: 503144--503214 Score: 52
Period size: 18 Copynumber: 3.6 Consensus size: 18
503134 CCTGTCATCC
* *
503144 CTCCTCTCTCTATTATCT
1 CTCCTGTCTCTACTATCT
*
503162 CTCCTGTCTCTCCTCCTATCAT
1 CTCCTG--TCT-CTACTATC-T
*
503184 CCCTCCTATCTCTACTATCT
1 --CTCCTGTCTCTACTATCT
503204 CTCCTGTCTCT
1 CTCCTGTCTCT
503215 CCTCCTATCA
Statistics
Matches: 41, Mismatches: 6, Indels: 12
0.69 0.10 0.20
Matches are distributed among these distances:
18 15 0.37
20 4 0.10
21 13 0.32
22 4 0.10
24 5 0.12
ACGTcount: A:0.10, C:0.44, G:0.03, T:0.44
Consensus pattern (18 bp):
CTCCTGTCTCTACTATCT
Found at i:510281 original size:51 final size:51
Alignment explanation
Indices: 510200--510315 Score: 178
Period size: 51 Copynumber: 2.3 Consensus size: 51
510190 TTTTCGAGGG
* *
510200 GATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTCTCCACAATCGGA
1 GATACTCCAACCCCGATTTTATTTCCAAAACACCAATTCTCCACAATCGGA
* * * *
510251 GATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTTTCACAATCGGG
1 GATACTCCAACCCCGATTTTATTTCCAAAACACCAATTCTCCACAATCGGA
510302 GATACTCCAACCCC
1 GATACTCCAACCCC
510316 ATTATTTCAT
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 58 1.00
ACGTcount: A:0.31, C:0.32, G:0.09, T:0.28
Consensus pattern (51 bp):
GATACTCCAACCCCGATTTTATTTCCAAAACACCAATTCTCCACAATCGGA
Found at i:510314 original size:158 final size:157
Alignment explanation
Indices: 510088--510479 Score: 534
Period size: 158 Copynumber: 2.5 Consensus size: 157
510078 ATTTTTTATC
*
510088 TCGGGGATACTCAAACTCCGATTTTATTTCCAAAACACCAATTTTTCACAATCAGGGATACTCTA
1 TCGGGGATACTCAAACTCCGATTTTATTTCCAAAACACCAATTTTTCACAATCAGGGATACTCCA
* * * *
510153 ACCCCGTTATTTCATTGTGGATACTCCAACCCCCTTATTTTCGAGGGGATACTCCAACCCCGGTT
66 ACCCCGTTATTTCATCGGGGATACTCCAACCCCCTTATTTCCGA-GGGATACTCCAACCCCGGCT
*
510218 TTATTTCTAAAACACCAA-TTCTCCACAA
130 TTATTTCCAAAACACCAATTTCT-CACAA
* * *
510246 TCGGAGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTTTCACAATCGGGGATACTCCA
1 TCGGGGATACTCAAACTCCGATTTTATTTCCAAAACACCAATTTTTCACAATCAGGGATACTCCA
* *
510311 ACCCCATTATTTCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGATACTCCAACCCCGGCTT
66 ACCCCGTTATTTCATCGGGGATACTCCAACCCCCTTATTTCCGAGGGATACTCCAACCCCGGCTT
* ***
510376 TATTTCCAAAATATTGATTTCTCACAA
131 TATTTCCAAAACACCAATTTCTCACAA
** * ** * * * * *
510403 TCGGGGATACTTTAACCCCGACCTTATTTCTAAATCATCGATTTTTCACAATCAGGGATACTTCA
1 TCGGGGATACTCAAACTCCGATTTTATTTCCAAAACACCAATTTTTCACAATCAGGGATACTCCA
510468 ACCCCGTTATTT
66 ACCCCGTTATTT
510480 TCGAGGGAAT
Statistics
Matches: 205, Mismatches: 28, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
157 101 0.49
158 104 0.51
ACGTcount: A:0.28, C:0.28, G:0.12, T:0.31
Consensus pattern (157 bp):
TCGGGGATACTCAAACTCCGATTTTATTTCCAAAACACCAATTTTTCACAATCAGGGATACTCCA
ACCCCGTTATTTCATCGGGGATACTCCAACCCCCTTATTTCCGAGGGATACTCCAACCCCGGCTT
TATTTCCAAAACACCAATTTCTCACAA
Found at i:510328 original size:28 final size:28
Alignment explanation
Indices: 510296--510370 Score: 118
Period size: 28 Copynumber: 2.7 Consensus size: 28
510286 ATTTTTCACA
510296 ATCGGGGATACTCCAACCCCATTATTTC
1 ATCGGGGATACTCCAACCCCATTATTTC
*
510324 ATCGGGGATACTCCAACCCCGTTATTTC
1 ATCGGGGATACTCCAACCCCATTATTTC
510352 --CGAGGGATACTCCAACCCC
1 ATCG-GGGATACTCCAACCCC
510371 GGCTTTATTT
Statistics
Matches: 45, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
26 2 0.04
27 16 0.36
28 27 0.60
ACGTcount: A:0.24, C:0.35, G:0.17, T:0.24
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCATTATTTC
Found at i:510431 original size:51 final size:51
Alignment explanation
Indices: 510354--510473 Score: 152
Period size: 51 Copynumber: 2.4 Consensus size: 51
510344 GTTATTTCCG
* * * *
510354 AGGGATACTCCAACCCCGGCTTTATTTCCAAAAT-ATTGATTTCTCACAATC
1 AGGGATACTTCAACCCCGACCTTATTT-CAAAATCATCGATTTCTCACAATC
* * * *
510405 GGGGATACTTTAACCCCGACCTTATTTCTAAATCATCGATTTTTCACAATC
1 AGGGATACTTCAACCCCGACCTTATTTCAAAATCATCGATTTCTCACAATC
510456 AGGGATACTTCAACCCCG
1 AGGGATACTTCAACCCCG
510474 TTATTTTCGA
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
50 5 0.09
51 53 0.91
ACGTcount: A:0.28, C:0.28, G:0.13, T:0.31
Consensus pattern (51 bp):
AGGGATACTTCAACCCCGACCTTATTTCAAAATCATCGATTTCTCACAATC
Found at i:510461 original size:157 final size:158
Alignment explanation
Indices: 510088--510479 Score: 500
Period size: 157 Copynumber: 2.5 Consensus size: 158
510078 ATTTTTTATC
* * * ** *
510088 TCGGGGATACTCAAACTCCGATTTTATTTCCAAAACACCAATTTTTCACAATCAGGGATACTCTA
1 TCGGAGATACTCCAACCCCGACCTTATTTCCAAAACACCAATTTTTCACAATCAGGGATACTCCA
* * * *
510153 ACCCCGTTATTTCATTGTGGATACTCCAACCCCCTTATTTTCGAGGGGATACTCCAACCCCGGTT
66 ACCCCGTTATTTCATCGGGGATACTCCAACCCCCTTATTTCCGAGGGGATACTCCAACCCCGGCT
*
510218 TTATTTCTAAAACACCAATTCTCCACAA
131 TTATTTCCAAAACACCAATTCTCCACAA
* ** *
510246 TCGGAGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTTTCACAATCGGGGATACTCCA
1 TCGGAGATACTCCAACCCCGACCTTATTTCCAAAACACCAATTTTTCACAATCAGGGATACTCCA
* *
510311 ACCCCATTATTTCATCGGGGATACTCCAACCCCGTTATTTCCGA-GGGATACTCCAACCCCGGCT
66 ACCCCGTTATTTCATCGGGGATACTCCAACCCCCTTATTTCCGAGGGGATACTCCAACCCCGGCT
* ***
510375 TTATTTCCAAAATATTGATT-TCTCACAA
131 TTATTTCCAAAACACCAATTCTC-CACAA
* ** * * * * *
510403 TCGGGGATACTTTAACCCCGACCTTATTTCTAAATCATCGATTTTTCACAATCAGGGATACTTCA
1 TCGGAGATACTCCAACCCCGACCTTATTTCCAAAACACCAATTTTTCACAATCAGGGATACTCCA
510468 ACCCCGTTATTT
66 ACCCCGTTATTT
510480 TCGAGGGAAT
Statistics
Matches: 205, Mismatches: 28, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
156 2 0.01
157 103 0.50
158 100 0.49
ACGTcount: A:0.28, C:0.28, G:0.12, T:0.31
Consensus pattern (158 bp):
TCGGAGATACTCCAACCCCGACCTTATTTCCAAAACACCAATTTTTCACAATCAGGGATACTCCA
ACCCCGTTATTTCATCGGGGATACTCCAACCCCCTTATTTCCGAGGGGATACTCCAACCCCGGCT
TTATTTCCAAAACACCAATTCTCCACAA
Found at i:510550 original size:79 final size:79
Alignment explanation
Indices: 510445--510634 Score: 247
Period size: 79 Copynumber: 2.4 Consensus size: 79
510435 AATCATCGAT
* * * * *
510445 TTTTC-ACAATCAGGGATACTTCAACCCCGTTATTTTCGAGGGAATGCTCCAATCCCGATTTTAT
1 TTTTCTACAATCGGGGATACTCCAACCCCGTTATTTTCAAGGGAATACTCCAACCCCGATTTTAT
*
510509 TTTCAAAATACCGA
66 TCTCAAAATACCGA
*
510523 TTTTCTACAATCGGGGATACTCCAACCCCGTTATTTTCAAGGGGATACTCCAACCCCGATTTTAT
1 TTTTCTACAATCGGGGATACTCCAACCCCGTTATTTTCAAGGGAATACTCCAACCCCGATTTTAT
**
510588 TCTCAAAATGTCGA
66 TCTCAAAATACCGA
* * * *
510602 TTTCCTATAATTAGGGGATACTCCAGCCCCGTT
1 TTTTCTACAA-TCGGGGATACTCCAACCCCGTT
510635 GTCATCTCCA
Statistics
Matches: 97, Mismatches: 13, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
78 5 0.05
79 72 0.74
80 20 0.21
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.33
Consensus pattern (79 bp):
TTTTCTACAATCGGGGATACTCCAACCCCGTTATTTTCAAGGGAATACTCCAACCCCGATTTTAT
TCTCAAAATACCGA
Found at i:512383 original size:315 final size:315
Alignment explanation
Indices: 511811--512440 Score: 1179
Period size: 315 Copynumber: 2.0 Consensus size: 315
511801 AAGGAGGGGT
511811 TGATGAAAACCAAGGAAGGTCCATTGAAGACAAAGACCTGAAGGCGTTGGAAGGAATTCAAGGAC
1 TGATGAAAACCAAGGAAGGTCCATTGAAGACAAAGACCTGAAGGCGTTGGAAGGAATTCAAGGAC
*
511876 CAATAACAAGGGCAAAGGCAAAGAGGATAAAGGAAGACCTAGAGAAGATGGTTGCTGGCCTATTT
66 CAATAACAAGGGCAAAGGCAAAGAGGATAAAGGAAGACCTAGAGAAGATGGTTGCTAGCCTATTT
* * *
511941 GAAAGTAGACCCAATTTGGAGTTAGAAGAGCCCAAGCTAGTTAATTGCATATATTTGGAAGATAT
131 GAAAGTAAACACAATTTGGAGTTAGAAGAACCCAAGCTAGTTAATTGCATATATTTGGAAGATAT
*
512006 GGGCTCCAATGGATTGAATTAGGACTTGGGTTATTTTGTAATAAAGGGCCTGTTGGTTGTGACTT
196 GGGCTCCAATGGATTGAATTAGGACTTGGGTTATTTTGTAATAAAGGGCCTGCTGGTTGTGACTT
512071 GCTTTGGGCTTTATTTAGCATAAAAACTTGTTATTTGGGTTTAAGTAAGAGTTGG
261 GCTTTGGGCTTTATTTAGCATAAAAACTTGTTATTTGGGTTTAAGTAAGAGTTGG
*
512126 TGATGAAAACCAAGGAAGGTCCATTGAAGACAAAGACCTGAAGGCGTTGGAAGGATTTCAAGGAC
1 TGATGAAAACCAAGGAAGGTCCATTGAAGACAAAGACCTGAAGGCGTTGGAAGGAATTCAAGGAC
**
512191 CAATAATGAGGGCAAAGGCAAAGAGGATAAAGGAAGACCTAGAGAAGATGGTTGCTAGCCTATTT
66 CAATAACAAGGGCAAAGGCAAAGAGGATAAAGGAAGACCTAGAGAAGATGGTTGCTAGCCTATTT
512256 GAAAGTAAACACAATTTGGAGTTAGAAGAACCCAAGCTAGTTAATTGCATATATTTGGAAGATAT
131 GAAAGTAAACACAATTTGGAGTTAGAAGAACCCAAGCTAGTTAATTGCATATATTTGGAAGATAT
512321 GGGCTCCAATGGATTGAATTAGGACTTGGGTTATTTTGTAATAAAGGGCCTGCTGGTTGTGACTT
196 GGGCTCCAATGGATTGAATTAGGACTTGGGTTATTTTGTAATAAAGGGCCTGCTGGTTGTGACTT
*
512386 GCTTTGGGCTTTATTTAGCATAAAAACTTGTTATTTGGGTTTATGTAAGAGTTGG
261 GCTTTGGGCTTTATTTAGCATAAAAACTTGTTATTTGGGTTTAAGTAAGAGTTGG
512441 GCTTGTTAGC
Statistics
Matches: 306, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
315 306 1.00
ACGTcount: A:0.33, C:0.12, G:0.27, T:0.28
Consensus pattern (315 bp):
TGATGAAAACCAAGGAAGGTCCATTGAAGACAAAGACCTGAAGGCGTTGGAAGGAATTCAAGGAC
CAATAACAAGGGCAAAGGCAAAGAGGATAAAGGAAGACCTAGAGAAGATGGTTGCTAGCCTATTT
GAAAGTAAACACAATTTGGAGTTAGAAGAACCCAAGCTAGTTAATTGCATATATTTGGAAGATAT
GGGCTCCAATGGATTGAATTAGGACTTGGGTTATTTTGTAATAAAGGGCCTGCTGGTTGTGACTT
GCTTTGGGCTTTATTTAGCATAAAAACTTGTTATTTGGGTTTAAGTAAGAGTTGG
Found at i:512990 original size:17 final size:15
Alignment explanation
Indices: 512967--513003 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
512957 AAGAATACAA
512967 AAAAAAAAAAGAGAG
1 AAAAAAAAAAGAGAG
*
512982 AAAACAAAAAGAGAG
1 AAAAAAAAAAGAGAG
512997 AAAAAAA
1 AAAAAAA
513004 GCCAGCATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.81, C:0.03, G:0.16, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAGAGAG
Found at i:513772 original size:12 final size:11
Alignment explanation
Indices: 513750--513825 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
513740 AGAGAAAGAA
*
513750 GAGAGAGGAGG
1 GAGATAGGAGG
513761 GATGATAGGAGG
1 GA-GATAGGAGG
*
513773 AGAGACAGGA--
1 -GAGATAGGAGG
*
513783 GAGATAGTA--
1 GAGATAGGAGG
513792 GAGATAGGAGG
1 GAGATAGGAGG
513803 GATGATAGGAGG
1 GA-GATAGGAGG
*
513815 AGAGACAGGAG
1 -GAGATAGGAG
513826 AGATAATAGA
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 4 0.08
12 30 0.57
13 4 0.08
ACGTcount: A:0.39, C:0.03, G:0.49, T:0.09
Consensus pattern (11 bp):
GAGATAGGAGG
Found at i:513782 original size:24 final size:24
Alignment explanation
Indices: 513749--513834 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
513739 AAGAGAAAGA
*
513749 AGAGAGAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
*
513773 AGAGACAGGA--GA-GAT---AGT
1 AGAGACAGGAGGGATGATAGGAGG
*
513791 AGAGATAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
* *
513815 AGAGACAGGAGAGATAATAG
1 AGAGACAGGAGGGATGATAG
513835 AGAGAGGAGG
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 11 0.22
20 2 0.04
21 6 0.12
22 2 0.04
24 28 0.57
ACGTcount: A:0.42, C:0.02, G:0.45, T:0.10
Consensus pattern (24 bp):
AGAGACAGGAGGGATGATAGGAGG
Found at i:513801 original size:42 final size:42
Alignment explanation
Indices: 513740--513858 Score: 193
Period size: 42 Copynumber: 2.8 Consensus size: 42
513730 TAGCCCTCAA
* *
513740 AGAGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
*
513782 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
* *
513824 AGAGATAATAGAGAGAGGAGGGATGACAGGAGGAG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAG
513859 GAGAGAAGAA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.43, C:0.03, G:0.46, T:0.08
Consensus pattern (42 bp):
AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
Found at i:516461 original size:12 final size:11
Alignment explanation
Indices: 516442--516517 Score: 70
Period size: 12 Copynumber: 6.9 Consensus size: 11
516432 AGAGAAAGAA
516442 GAGATAGGAGG
1 GAGATAGGAGG
516453 GATGATAGGAGG
1 GA-GATAGGAGG
*
516465 AGAGATA--AGA
1 -GAGATAGGAGG
*
516475 GAGATAGTA--
1 GAGATAGGAGG
516484 GAGATAGGAGG
1 GAGATAGGAGG
516495 GATGATAGGAGG
1 GA-GATAGGAGG
516507 AGAGATAGGAG
1 -GAGATAGGAG
516518 AGATAATAGA
Statistics
Matches: 55, Mismatches: 2, Indels: 15
0.76 0.03 0.21
Matches are distributed among these distances:
9 14 0.25
10 2 0.04
11 5 0.09
12 30 0.55
13 4 0.07
ACGTcount: A:0.41, C:0.00, G:0.46, T:0.13
Consensus pattern (11 bp):
GAGATAGGAGG
Found at i:516488 original size:42 final size:42
Alignment explanation
Indices: 516432--516563 Score: 185
Period size: 42 Copynumber: 3.1 Consensus size: 42
516422 TAGCCCTCAA
* *
516432 AGAGAAAGAAGAGATAGGAGGGATGATAGGAGGAGAGATAAG
1 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGATAAG
*
516474 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGATAGG
1 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGATAAG
* * * *
516516 AGAGATAATAGAGAGAGGAGGGATGACAGGAGGAGGAGAGAAG
1 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGA-GAGATAAG
516559 A-AGAT
1 AGAGAT
516564 GGAAGAGTGA
Statistics
Matches: 81, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
42 74 0.91
43 7 0.09
ACGTcount: A:0.45, C:0.01, G:0.44, T:0.11
Consensus pattern (42 bp):
AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGATAAG
Found at i:516518 original size:9 final size:9
Alignment explanation
Indices: 516462--516522 Score: 56
Period size: 9 Copynumber: 7.1 Consensus size: 9
516452 GGATGATAGG
516462 AGGAGAGAT
1 AGGAGAGAT
*
516471 AAGAGAGAT
1 AGGAGAGAT
*
516480 AGTAGAGAT
1 AGGAGAGAT
*
516489 AGGAGGGAT
1 AGGAGAGAT
* *
516498 --GATAG-G
1 AGGAGAGAT
516504 AGGAGAGAT
1 AGGAGAGAT
516513 AGGAGAGAT
1 AGGAGAGAT
516522 A
1 A
516523 ATAGAGAGAG
Statistics
Matches: 39, Mismatches: 10, Indels: 6
0.71 0.18 0.11
Matches are distributed among these distances:
7 3 0.08
8 4 0.10
9 32 0.82
ACGTcount: A:0.44, C:0.00, G:0.43, T:0.13
Consensus pattern (9 bp):
AGGAGAGAT
Found at i:516526 original size:12 final size:12
Alignment explanation
Indices: 516444--516531 Score: 59
Period size: 12 Copynumber: 7.9 Consensus size: 12
516434 AGAAAGAAGA
*
516444 GATAGGAGGGAT
1 GATAGGAGAGAT
516456 GATAGGAGGAGA-
1 GATAGGA-GAGAT
516468 GATA--AGAGA-
1 GATAGGAGAGAT
*
516477 GATA-G-TAGA-
1 GATAGGAGAGAT
*
516486 GATAGGAGGGAT
1 GATAGGAGAGAT
516498 GATAGGAGGAGA-
1 GATAGGA-GAGAT
516510 GATAGGAGAGAT
1 GATAGGAGAGAT
*
516522 AATA-GAGAGA
1 GATAGGAGAGA
516532 GGAGGGATGA
Statistics
Matches: 63, Mismatches: 6, Indels: 15
0.75 0.07 0.18
Matches are distributed among these distances:
9 15 0.24
10 2 0.03
11 12 0.19
12 28 0.44
13 6 0.10
ACGTcount: A:0.43, C:0.00, G:0.43, T:0.14
Consensus pattern (12 bp):
GATAGGAGAGAT
Found at i:527420 original size:42 final size:42
Alignment explanation
Indices: 527365--527483 Score: 184
Period size: 42 Copynumber: 2.8 Consensus size: 42
527355 TTCTTCTCTC
* * *
527365 CTCCTCCTGTCATCTCTCCTCTCTCTATTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
*
527407 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
* *
527449 CTCCTCCTATCATCCCTCCTCTCTCTTCTTTCTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCT
527484 TTGAGGGCTA
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 70 1.00
ACGTcount: A:0.08, C:0.45, G:0.03, T:0.44
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
Found at i:527424 original size:12 final size:11
Alignment explanation
Indices: 527398--527473 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
527388 TCTATTATCT
*
527398 CTCCTGTCTCTC
1 CTCCTATCTC-C
527410 CTCCTATCATCC
1 CTCCTATC-TCC
527422 CTCCTATCT--
1 CTCCTATCTCC
*
527431 CTACTATCT--
1 CTCCTATCTCC
*
527440 CTCCTGTCTCTC
1 CTCCTATCTC-C
527452 CTCCTATCATCC
1 CTCCTATC-TCC
*
527464 CTCCTCTCTC
1 CTCCTATCTC
527474 TTCTTTCTCT
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 3 0.06
12 31 0.58
13 4 0.08
ACGTcount: A:0.09, C:0.49, G:0.03, T:0.39
Consensus pattern (11 bp):
CTCCTATCTCC
Found at i:527425 original size:24 final size:24
Alignment explanation
Indices: 527389--527474 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
527379 TCTCCTCTCT
* *
527389 CTATTATCTCTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
* *
527413 CTATCATCCCTCC--TATCT-CTA
1 CTATCATCCCTCCTGTCTCTCCTC
527434 CTATC-T--CTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
*
527455 CTATCATCCCTCCTCTCTCT
1 CTATCATCCCTCCTGTCTCT
527475 TCTTTCTCTT
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 4 0.08
20 5 0.10
21 14 0.29
22 5 0.10
24 21 0.43
ACGTcount: A:0.10, C:0.45, G:0.02, T:0.42
Consensus pattern (24 bp):
CTATCATCCCTCCTGTCTCTCCTC
Found at i:527449 original size:9 final size:9
Alignment explanation
Indices: 527376--527453 Score: 54
Period size: 9 Copynumber: 9.0 Consensus size: 9
527366 TCCTCCTGTC
527376 ATCTCTCCT
1 ATCTCTCCT
* **
527385 CTCTCTATT
1 ATCTCTCCT
527394 ATCTCTCCT
1 ATCTCTCCT
*
527403 GTCTCTCCT
1 ATCTCTCCT
* *
527412 -CCTAT-C-
1 ATCTCTCCT
*
527418 ATCCCTCCT
1 ATCTCTCCT
*
527427 ATCTCTACT
1 ATCTCTCCT
527436 ATCTCTCCT
1 ATCTCTCCT
*
527445 GTCTCTCCT
1 ATCTCTCCT
527454 CCTATCATCC
Statistics
Matches: 50, Mismatches: 16, Indels: 6
0.69 0.22 0.08
Matches are distributed among these distances:
7 3 0.06
8 4 0.08
9 43 0.86
ACGTcount: A:0.10, C:0.44, G:0.03, T:0.44
Consensus pattern (9 bp):
ATCTCTCCT
Found at i:527449 original size:18 final size:18
Alignment explanation
Indices: 527376--527450 Score: 60
Period size: 18 Copynumber: 3.8 Consensus size: 18
527366 TCCTCCTGTC
* *
527376 ATCTCTCCTCTCTCTATT
1 ATCTCTCCTGTCTCTACT
*
527394 ATCTCTCCTGTCTCTCCTCCT
1 ATCTCTCCTG--TCT-CTACT
*
527415 ATCATCCCTCCTATCTCTACT
1 ATC-T--CTCCTGTCTCTACT
527436 ATCTCTCCTGTCTCT
1 ATCTCTCCTGTCTCT
527451 CCTCCTATCA
Statistics
Matches: 45, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
18 19 0.42
20 4 0.09
21 13 0.29
22 4 0.09
24 5 0.11
ACGTcount: A:0.11, C:0.43, G:0.03, T:0.44
Consensus pattern (18 bp):
ATCTCTCCTGTCTCTACT
Found at i:529811 original size:182 final size:181
Alignment explanation
Indices: 529504--529867 Score: 674
Period size: 182 Copynumber: 2.0 Consensus size: 181
529494 AATGAGGGGT
529504 TGATGAAAACCAAGGAAGGTCCATTGAATACAATGACCTGAAAGCATTGGAAGGGTTTCAAGGAC
1 TGATGAAAACCAAGGAAGGTCCATTGAATACAATGACCTGAAAGCATTGGAAGGGTTTCAAGGAC
*
529569 CAATGACGAGGGCAAAGGCAAAGAGGATAAAGGAAGACCTAGAGAAGATGGTTGCTGGCCTATTT
66 CAATGACGAGGGCAAAGGCAAAGAGGATAAAAGAAGACCTAGAGAAGATGGTTGCTGGCCTATTT
529634 GAAAGTAGACCCAATTTGGAGTTACAGGGAGCCCAAGCTAGTTAATTGCATA
131 GAAAGTAGACCCAATTTGGAGTTACA-GGAGCCCAAGCTAGTTAATTGCATA
* * *
529686 TGATGAAAGCCAAGGAAGGTCCATTGAATACAATGACCTGAAGGCATTGGAAGGGTTTCGAGGAC
1 TGATGAAAACCAAGGAAGGTCCATTGAATACAATGACCTGAAAGCATTGGAAGGGTTTCAAGGAC
529751 CAATGACGAGGGCAAAGGCAAAGAGGATAAAAGAAGACCTAGAGAAGATGGTTGCTGGCCTATTT
66 CAATGACGAGGGCAAAGGCAAAGAGGATAAAAGAAGACCTAGAGAAGATGGTTGCTGGCCTATTT
*
529816 GAAAGTAGACCCAATTTGGAGTTAGAGGAGCCCAAGCTAGTTAATTGCATA
131 GAAAGTAGACCCAATTTGGAGTTACAGGAGCCCAAGCTAGTTAATTGCATA
529867 T
1 T
529868 ATTTGGAAGG
Statistics
Matches: 177, Mismatches: 5, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
181 26 0.15
182 151 0.85
ACGTcount: A:0.36, C:0.15, G:0.29, T:0.20
Consensus pattern (181 bp):
TGATGAAAACCAAGGAAGGTCCATTGAATACAATGACCTGAAAGCATTGGAAGGGTTTCAAGGAC
CAATGACGAGGGCAAAGGCAAAGAGGATAAAAGAAGACCTAGAGAAGATGGTTGCTGGCCTATTT
GAAAGTAGACCCAATTTGGAGTTACAGGAGCCCAAGCTAGTTAATTGCATA
Found at i:535629 original size:42 final size:42
Alignment explanation
Indices: 535574--535692 Score: 193
Period size: 42 Copynumber: 2.8 Consensus size: 42
535564 TTCTTCTCTC
* *
535574 CTCCTCCTGTCATCCCTCCTCTCTCTATTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
*
535616 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
* *
535658 CTCCTCCTATCATCCCTCCTCTCTCTTCTTTCTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCT
535693 TTGAGGGCTA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.08, C:0.46, G:0.03, T:0.43
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
Found at i:535633 original size:12 final size:11
Alignment explanation
Indices: 535607--535682 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
535597 TCTATTATCT
*
535607 CTCCTGTCTCTC
1 CTCCTATCTC-C
535619 CTCCTATCATCC
1 CTCCTATC-TCC
535631 CTCCTATCT--
1 CTCCTATCTCC
*
535640 CTACTATCT--
1 CTCCTATCTCC
*
535649 CTCCTGTCTCTC
1 CTCCTATCTC-C
535661 CTCCTATCATCC
1 CTCCTATC-TCC
*
535673 CTCCTCTCTC
1 CTCCTATCTC
535683 TTCTTTCTCT
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 3 0.06
12 31 0.58
13 4 0.08
ACGTcount: A:0.09, C:0.49, G:0.03, T:0.39
Consensus pattern (11 bp):
CTCCTATCTCC
Found at i:535634 original size:24 final size:24
Alignment explanation
Indices: 535598--535683 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
535588 CCTCCTCTCT
* *
535598 CTATTATCTCTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
* *
535622 CTATCATCCCTCC--TATCT-CTA
1 CTATCATCCCTCCTGTCTCTCCTC
535643 CTATC-T--CTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
*
535664 CTATCATCCCTCCTCTCTCT
1 CTATCATCCCTCCTGTCTCT
535684 TCTTTCTCTT
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 4 0.08
20 5 0.10
21 14 0.29
22 5 0.10
24 21 0.43
ACGTcount: A:0.10, C:0.45, G:0.02, T:0.42
Consensus pattern (24 bp):
CTATCATCCCTCCTGTCTCTCCTC
Found at i:535658 original size:18 final size:18
Alignment explanation
Indices: 535589--535659 Score: 52
Period size: 18 Copynumber: 3.6 Consensus size: 18
535579 CCTGTCATCC
* *
535589 CTCCTCTCTCTATTATCT
1 CTCCTGTCTCTACTATCT
*
535607 CTCCTGTCTCTCCTCCTATCAT
1 CTCCTG--TCT-CTACTATC-T
*
535629 CCCTCCTATCTCTACTATCT
1 --CTCCTGTCTCTACTATCT
535649 CTCCTGTCTCT
1 CTCCTGTCTCT
535660 CCTCCTATCA
Statistics
Matches: 41, Mismatches: 6, Indels: 12
0.69 0.10 0.20
Matches are distributed among these distances:
18 15 0.37
20 4 0.10
21 13 0.32
22 4 0.10
24 5 0.12
ACGTcount: A:0.10, C:0.44, G:0.03, T:0.44
Consensus pattern (18 bp):
CTCCTGTCTCTACTATCT
Found at i:537353 original size:83 final size:83
Alignment explanation
Indices: 537228--537393 Score: 271
Period size: 83 Copynumber: 2.0 Consensus size: 83
537218 ATCCTCTTTG
* * *
537228 CCTTTGCCCTCGTTATTGGTCCTTGAAATCCTTCCAACGCCTTCAGGTCTTTGTCTTGAATGGAC
1 CCTTTGCCCTCGTCATTGGTCCTTGAAATCCTTCCAACGCCTTCAGGTCGTTGTCTTCAATGGAC
*
537293 CTTCCTTGGTTTTCATCA
66 CTTCCTTGGTTCTCATCA
*
537311 CCTTTGCCCTCGTCATTGGTCCTTGAAA-CCTTCCCAATGCCTTCAGGTCGTTGTCTTCAATGGA
1 CCTTTGCCCTCGTCATTGGTCCTTGAAATCCTT-CCAACGCCTTCAGGTCGTTGTCTTCAATGGA
537375 CCTTCCTTGGTTCTCATCA
65 CCTTCCTTGGTTCTCATCA
537394 ATGTTCATGC
Statistics
Matches: 77, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
82 4 0.05
83 73 0.95
ACGTcount: A:0.14, C:0.31, G:0.17, T:0.38
Consensus pattern (83 bp):
CCTTTGCCCTCGTCATTGGTCCTTGAAATCCTTCCAACGCCTTCAGGTCGTTGTCTTCAATGGAC
CTTCCTTGGTTCTCATCA
Found at i:538154 original size:38 final size:38
Alignment explanation
Indices: 538112--538213 Score: 188
Period size: 38 Copynumber: 2.7 Consensus size: 38
538102 TTGGGTCATT
538112 CAGACAAGGAAGTTACAATTTTTCAAACCCTTTCTGTC
1 CAGACAAGGAAGTTACAATTTTTCAAACCCTTTCTGTC
*
538150 CAGACAAGGAAATTACAATTTTTCAAACCCTTTCTGTC
1 CAGACAAGGAAGTTACAATTTTTCAAACCCTTTCTGTC
538188 CAGACAAGGAAGTTACAA-TTTTCAAA
1 CAGACAAGGAAGTTACAATTTTTCAAA
538214 GCTTATGTAA
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
37 8 0.13
38 54 0.87
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.29
Consensus pattern (38 bp):
CAGACAAGGAAGTTACAATTTTTCAAACCCTTTCTGTC
Found at i:547702 original size:28 final size:29
Alignment explanation
Indices: 547659--547740 Score: 98
Period size: 28 Copynumber: 2.9 Consensus size: 29
547649 ATTGACAAAT
* *
547659 AAGAAAGATC-AAGGAAGTGAAATCAA-C
1 AAGAAATATCAAAGGAAATGAAATCAAGC
*
547686 AAGAAATATGAAAGGAAATGAAAT-AAGC
1 AAGAAATATCAAAGGAAATGAAATCAAGC
* *
547714 AAGAAATTTCAAAGGAAAAGAAATCAA
1 AAGAAATATCAAAGGAAATGAAATCAA
547741 TAAAGAATAA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
27 10 0.22
28 34 0.74
29 2 0.04
ACGTcount: A:0.60, C:0.07, G:0.20, T:0.13
Consensus pattern (29 bp):
AAGAAATATCAAAGGAAATGAAATCAAGC
Found at i:555825 original size:12 final size:11
Alignment explanation
Indices: 555803--555878 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
555793 AGAGAAAGAA
*
555803 GAGAGAGGAGG
1 GAGATAGGAGG
555814 GATGATAGGAGG
1 GA-GATAGGAGG
*
555826 AGAGACAGGA--
1 -GAGATAGGAGG
*
555836 GAGATAGTA--
1 GAGATAGGAGG
555845 GAGATAGGAGG
1 GAGATAGGAGG
555856 GATGATAGGAGG
1 GA-GATAGGAGG
*
555868 AGAGACAGGAG
1 -GAGATAGGAG
555879 AGATAATAGA
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 4 0.08
12 30 0.57
13 4 0.08
ACGTcount: A:0.39, C:0.03, G:0.49, T:0.09
Consensus pattern (11 bp):
GAGATAGGAGG
Found at i:555835 original size:24 final size:24
Alignment explanation
Indices: 555802--555887 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
555792 AAGAGAAAGA
*
555802 AGAGAGAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
*
555826 AGAGACAGGA--GA-GAT---AGT
1 AGAGACAGGAGGGATGATAGGAGG
*
555844 AGAGATAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
* *
555868 AGAGACAGGAGAGATAATAG
1 AGAGACAGGAGGGATGATAG
555888 AGAGAGGAGG
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 11 0.22
20 2 0.04
21 6 0.12
22 2 0.04
24 28 0.57
ACGTcount: A:0.42, C:0.02, G:0.45, T:0.10
Consensus pattern (24 bp):
AGAGACAGGAGGGATGATAGGAGG
Found at i:555854 original size:42 final size:42
Alignment explanation
Indices: 555793--555911 Score: 193
Period size: 42 Copynumber: 2.8 Consensus size: 42
555783 TAGCCCTCAA
* *
555793 AGAGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
*
555835 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
* *
555877 AGAGATAATAGAGAGAGGAGGGATGACAGGAGGAG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAG
555912 GAGAGAAGAA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.43, C:0.03, G:0.46, T:0.08
Consensus pattern (42 bp):
AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
Found at i:560748 original size:290 final size:290
Alignment explanation
Indices: 560228--560808 Score: 1162
Period size: 290 Copynumber: 2.0 Consensus size: 290
560218 GAAGACAAAG
560228 ACCTGAAGGCGTTGGAAGGATTTCAAGGACCAATAACGAGGGCAAAGGCAAAGAGGATAAAGGAA
1 ACCTGAAGGCGTTGGAAGGATTTCAAGGACCAATAACGAGGGCAAAGGCAAAGAGGATAAAGGAA
560293 GACCTAGAGAAGATGGTTGCTGGCCTATTTGAAAGTAGACCCAATCTGGAGTTAGAAGAGCCCAA
66 GACCTAGAGAAGATGGTTGCTGGCCTATTTGAAAGTAGACCCAATCTGGAGTTAGAAGAGCCCAA
560358 GCTAGTTAATTGCATATATTTGGAAGATATGGGCTCCAATGGATTCAATTAGGACTTGGGTTATT
131 GCTAGTTAATTGCATATATTTGGAAGATATGGGCTCCAATGGATTCAATTAGGACTTGGGTTATT
560423 TTGTAATAAAGGGCCTGCTGGTTGTGACTTGCTTTGGGCTTTATTTAGCATAAAAACTTGTTATT
196 TTGTAATAAAGGGCCTGCTGGTTGTGACTTGCTTTGGGCTTTATTTAGCATAAAAACTTGTTATT
560488 TGGGTTTAAGTAAGAGTTGGGCTTGTTAGC
261 TGGGTTTAAGTAAGAGTTGGGCTTGTTAGC
560518 ACCTGAAGGCGTTGGAAGGATTTCAAGGACCAATAACGAGGGCAAAGGCAAAGAGGATAAAGGAA
1 ACCTGAAGGCGTTGGAAGGATTTCAAGGACCAATAACGAGGGCAAAGGCAAAGAGGATAAAGGAA
560583 GACCTAGAGAAGATGGTTGCTGGCCTATTTGAAAGTAGACCCAATCTGGAGTTAGAAGAGCCCAA
66 GACCTAGAGAAGATGGTTGCTGGCCTATTTGAAAGTAGACCCAATCTGGAGTTAGAAGAGCCCAA
560648 GCTAGTTAATTGCATATATTTGGAAGATATGGGCTCCAATGGATTCAATTAGGACTTGGGTTATT
131 GCTAGTTAATTGCATATATTTGGAAGATATGGGCTCCAATGGATTCAATTAGGACTTGGGTTATT
560713 TTGTAATAAAGGGCCTGCTGGTTGTGACTTGCTTTGGGCTTTATTTAGCATAAAAACTTGTTATT
196 TTGTAATAAAGGGCCTGCTGGTTGTGACTTGCTTTGGGCTTTATTTAGCATAAAAACTTGTTATT
560778 TGGGTTTAAGTAAGAGTTGGGCTTGTTAGC
261 TGGGTTTAAGTAAGAGTTGGGCTTGTTAGC
560808 A
1 A
560809 TAATAAGCCC
Statistics
Matches: 291, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
290 291 1.00
ACGTcount: A:0.30, C:0.13, G:0.28, T:0.29
Consensus pattern (290 bp):
ACCTGAAGGCGTTGGAAGGATTTCAAGGACCAATAACGAGGGCAAAGGCAAAGAGGATAAAGGAA
GACCTAGAGAAGATGGTTGCTGGCCTATTTGAAAGTAGACCCAATCTGGAGTTAGAAGAGCCCAA
GCTAGTTAATTGCATATATTTGGAAGATATGGGCTCCAATGGATTCAATTAGGACTTGGGTTATT
TTGTAATAAAGGGCCTGCTGGTTGTGACTTGCTTTGGGCTTTATTTAGCATAAAAACTTGTTATT
TGGGTTTAAGTAAGAGTTGGGCTTGTTAGC
Found at i:563187 original size:42 final size:42
Alignment explanation
Indices: 563131--563249 Score: 193
Period size: 42 Copynumber: 2.8 Consensus size: 42
563121 TTCTTCTCTC
* *
563131 CTCCTCCTGTCATCCCTCCTCTCTCTATTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
*
563173 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
* *
563215 CTCCTCCTATCATCCCTCCTCTCTCTTCTTTCTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCT
563250 TTGAGGGCTA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.08, C:0.46, G:0.03, T:0.43
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
Found at i:563190 original size:12 final size:11
Alignment explanation
Indices: 563164--563239 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
563154 TCTATTATCT
*
563164 CTCCTGTCTCTC
1 CTCCTATCTC-C
563176 CTCCTATCATCC
1 CTCCTATC-TCC
563188 CTCCTATCT--
1 CTCCTATCTCC
*
563197 CTACTATCT--
1 CTCCTATCTCC
*
563206 CTCCTGTCTCTC
1 CTCCTATCTC-C
563218 CTCCTATCATCC
1 CTCCTATC-TCC
*
563230 CTCCTCTCTC
1 CTCCTATCTC
563240 TTCTTTCTCT
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 3 0.06
12 31 0.58
13 4 0.08
ACGTcount: A:0.09, C:0.49, G:0.03, T:0.39
Consensus pattern (11 bp):
CTCCTATCTCC
Found at i:563191 original size:24 final size:24
Alignment explanation
Indices: 563155--563240 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
563145 CCTCCTCTCT
* *
563155 CTATTATCTCTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
* *
563179 CTATCATCCCTCC--TATCT-CTA
1 CTATCATCCCTCCTGTCTCTCCTC
563200 CTATC-T--CTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
*
563221 CTATCATCCCTCCTCTCTCT
1 CTATCATCCCTCCTGTCTCT
563241 TCTTTCTCTT
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 4 0.08
20 5 0.10
21 14 0.29
22 5 0.10
24 21 0.43
ACGTcount: A:0.10, C:0.45, G:0.02, T:0.42
Consensus pattern (24 bp):
CTATCATCCCTCCTGTCTCTCCTC
Found at i:563215 original size:18 final size:18
Alignment explanation
Indices: 563146--563216 Score: 52
Period size: 18 Copynumber: 3.6 Consensus size: 18
563136 CCTGTCATCC
* *
563146 CTCCTCTCTCTATTATCT
1 CTCCTGTCTCTACTATCT
*
563164 CTCCTGTCTCTCCTCCTATCAT
1 CTCCTG--TCT-CTACTATC-T
*
563186 CCCTCCTATCTCTACTATCT
1 --CTCCTGTCTCTACTATCT
563206 CTCCTGTCTCT
1 CTCCTGTCTCT
563217 CCTCCTATCA
Statistics
Matches: 41, Mismatches: 6, Indels: 12
0.69 0.10 0.20
Matches are distributed among these distances:
18 15 0.37
20 4 0.10
21 13 0.32
22 4 0.10
24 5 0.12
ACGTcount: A:0.10, C:0.44, G:0.03, T:0.44
Consensus pattern (18 bp):
CTCCTGTCTCTACTATCT
Found at i:567060 original size:42 final size:42
Alignment explanation
Indices: 567005--567123 Score: 184
Period size: 42 Copynumber: 2.8 Consensus size: 42
566995 TTCTTCTCTC
* * *
567005 CTCCTCCTGTCATCTCTCCTCTCTCTATTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
*
567047 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
* *
567089 CTCCTCCTATCATCCCTCCTCTCTCTTCTTTCTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCT
567124 TTGAGGGCTA
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 70 1.00
ACGTcount: A:0.08, C:0.45, G:0.03, T:0.44
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
Done.