Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 116 of 362
Found at i:38078991 original size:21 final size:21
Alignment explanation
Indices: 38078941--38078991 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 21
38078931 AAAGTGAGAG
*
38078941 AAAAAGAAAATGAAGAAAAGA
1 AAAAAGAAAAAGAAGAAAAGA
** *
38078962 AAATTGAAAAAGAA-AAAGCGA
1 AAAAAGAAAAAGAAGAAA-AGA
38078983 AAAAAGAAA
1 AAAAAGAAA
38078992 TTGAAAGAGA
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
20 3 0.13
21 20 0.87
ACGTcount: A:0.75, C:0.02, G:0.18, T:0.06
Consensus pattern (21 bp):
AAAAAGAAAAAGAAGAAAAGA
Found at i:38084281 original size:15 final size:15
Alignment explanation
Indices: 38084261--38084313 Score: 88
Period size: 15 Copynumber: 3.5 Consensus size: 15
38084251 CATGAAAACA
*
38084261 AAGATACAGAAGTCC
1 AAGATACAGAAATCC
*
38084276 AAGATAAAGAAATCC
1 AAGATACAGAAATCC
38084291 AAGATACAGAAATCC
1 AAGATACAGAAATCC
38084306 AAGATACA
1 AAGATACA
38084314 ATATCATAAG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 35 1.00
ACGTcount: A:0.55, C:0.17, G:0.15, T:0.13
Consensus pattern (15 bp):
AAGATACAGAAATCC
Found at i:38088266 original size:43 final size:42
Alignment explanation
Indices: 38088218--38088305 Score: 131
Period size: 43 Copynumber: 2.1 Consensus size: 42
38088208 ACATGTATCG
* *
38088218 CATCCATTATGAACTCAGACCACTCAACGAGCTCGGATGCTCA
1 CATCCATAATGAACTCAGACCACTCAACGAGCTCAGATGC-CA
* *
38088261 CATCCATAATGAACTCGGACCACTCAATGAGCTCAGATGCCA
1 CATCCATAATGAACTCAGACCACTCAACGAGCTCAGATGCCA
38088303 CAT
1 CAT
38088306 ATATCACAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
42 5 0.12
43 36 0.88
ACGTcount: A:0.32, C:0.32, G:0.16, T:0.20
Consensus pattern (42 bp):
CATCCATAATGAACTCAGACCACTCAACGAGCTCAGATGCCA
Found at i:38088325 original size:42 final size:43
Alignment explanation
Indices: 38088233--38088333 Score: 114
Period size: 42 Copynumber: 2.4 Consensus size: 43
38088223 ATTATGAACT
* * * ** *
38088233 CAGACCACTCAACGAGCTCGGATGCTCACATCCATAATGAACT
1 CAGACCACTCAATGAGCTCAGATGCTCACATACATAACAAACC
* * *
38088276 CGGACCACTCAATGAGCTCAGATGC-CACATATATCACAAACC
1 CAGACCACTCAATGAGCTCAGATGCTCACATACATAACAAACC
38088318 CAGACCACTCAATGAG
1 CAGACCACTCAATGAG
38088334 TTCGGACTTC
Statistics
Matches: 48, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
42 26 0.54
43 22 0.46
ACGTcount: A:0.35, C:0.33, G:0.16, T:0.17
Consensus pattern (43 bp):
CAGACCACTCAATGAGCTCAGATGCTCACATACATAACAAACC
Found at i:38088703 original size:49 final size:49
Alignment explanation
Indices: 38088643--38088740 Score: 187
Period size: 49 Copynumber: 2.0 Consensus size: 49
38088633 AGATTTCAAC
*
38088643 GATAAATAACAATAACATTAACAACATGCTTATTTCATCATACGAACTT
1 GATAAACAACAATAACATTAACAACATGCTTATTTCATCATACGAACTT
38088692 GATAAACAACAATAACATTAACAACATGCTTATTTCATCATACGAACTT
1 GATAAACAACAATAACATTAACAACATGCTTATTTCATCATACGAACTT
38088741 ACCTTGAATC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.45, C:0.19, G:0.06, T:0.30
Consensus pattern (49 bp):
GATAAACAACAATAACATTAACAACATGCTTATTTCATCATACGAACTT
Found at i:38090163 original size:23 final size:22
Alignment explanation
Indices: 38090129--38090187 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 22
38090119 CCTGAGCTGG
*
38090129 TGAACAGTAAGCTCTATTGAGT
1 TGAACAGTAAGCTCTATTGAGC
*
38090151 TGAATCAGTAAGCACTATTGAGC
1 TGAA-CAGTAAGCTCTATTGAGC
*
38090174 TGAACAATAAGCTC
1 TGAACAGTAAGCTC
38090188 ATACGAGCTA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
22 12 0.38
23 20 0.62
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.27
Consensus pattern (22 bp):
TGAACAGTAAGCTCTATTGAGC
Found at i:38090210 original size:23 final size:24
Alignment explanation
Indices: 38090181--38090266 Score: 83
Period size: 23 Copynumber: 3.7 Consensus size: 24
38090171 AGCTGAACAA
38090181 TAAGCT-CATACGAGCTAAAACGG
1 TAAGCTCCATACGAGCTAAAACGG
* *
38090204 TTAGCTCCAATA--AGCTGAAACGG
1 TAAGCTCC-ATACGAGCTAAAACGG
* *
38090227 TAAGCTCCA-ATGAGCTAAAAACAG
1 TAAGCTCCATACGAGCT-AAAACGG
38090251 TAAGCT-CATACGAGCT
1 TAAGCTCCATACGAGCT
38090267 GTGGTGAGTC
Statistics
Matches: 51, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
21 1 0.02
22 1 0.02
23 28 0.55
24 18 0.35
25 3 0.06
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.20
Consensus pattern (24 bp):
TAAGCTCCATACGAGCTAAAACGG
Found at i:38090253 original size:24 final size:23
Alignment explanation
Indices: 38090192--38090257 Score: 87
Period size: 23 Copynumber: 2.8 Consensus size: 23
38090182 AAGCTCATAC
*
38090192 GAGCTAAAACGGTTAGCTCCAAT
1 GAGCTAAAACGGTAAGCTCCAAT
* *
38090215 AAGCTGAAACGGTAAGCTCCAAT
1 GAGCTAAAACGGTAAGCTCCAAT
*
38090238 GAGCTAAAAACAGTAAGCTC
1 GAGCT-AAAACGGTAAGCTC
38090258 ATACGAGCTG
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
23 24 0.67
24 12 0.33
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.18
Consensus pattern (23 bp):
GAGCTAAAACGGTAAGCTCCAAT
Found at i:38092305 original size:33 final size:33
Alignment explanation
Indices: 38092261--38092324 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
38092251 AACATCAGCA
38092261 CACCATACATTGAAGCCGTCCATCCATGTACCT
1 CACCATACATTGAAGCCGTCCATCCATGTACCT
* * *
38092294 CACCATGCATTGAAGTCGTCCATGCATGTAC
1 CACCATACATTGAAGCCGTCCATCCATGTAC
38092325 ATTTGCATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.27, C:0.33, G:0.16, T:0.25
Consensus pattern (33 bp):
CACCATACATTGAAGCCGTCCATCCATGTACCT
Found at i:38093565 original size:15 final size:15
Alignment explanation
Indices: 38093527--38093568 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
38093517 TGCACTTCCC
38093527 AAAA-AAAAAT-ATA
1 AAAATAAAAATAATA
*
38093540 AAAATCCAAAATAATA
1 AAAAT-AAAAATAATA
38093556 AAAATAAAAATAA
1 AAAATAAAAATAA
38093569 AAGTAATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 4 0.17
15 12 0.50
16 8 0.33
ACGTcount: A:0.79, C:0.05, G:0.00, T:0.17
Consensus pattern (15 bp):
AAAATAAAAATAATA
Found at i:38093565 original size:22 final size:20
Alignment explanation
Indices: 38093525--38093566 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
38093515 CATGCACTTC
*
38093525 CCAAAAAAAAATATAAAAAT
1 CCAAAAAAAAAAATAAAAAT
38093545 CCAAAATAATAAAAATAAAAAT
1 CCAAAA-AA-AAAAATAAAAAT
38093567 AAAAGTAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 6 0.32
21 2 0.11
22 11 0.58
ACGTcount: A:0.74, C:0.10, G:0.00, T:0.17
Consensus pattern (20 bp):
CCAAAAAAAAAAATAAAAAT
Found at i:38095049 original size:20 final size:20
Alignment explanation
Indices: 38095019--38095057 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
38095009 GTCATTTATA
38095019 ATAAATTTTATAAT-TTTCT
1 ATAAATTTTATAATATTTCT
38095038 ATAAACTTTTATAATATTTC
1 ATAAA-TTTTATAATATTTC
38095058 ACATTCTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 9 0.50
21 4 0.22
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (20 bp):
ATAAATTTTATAATATTTCT
Found at i:38095564 original size:65 final size:65
Alignment explanation
Indices: 38095455--38095583 Score: 204
Period size: 65 Copynumber: 2.0 Consensus size: 65
38095445 ATGCTAACTA
* ** *
38095455 AAATGCTAATTTTTTATGATGTTGGTGTGACAATTTGCATGACAGTTCACGTGTACTTTATATTG
1 AAATACTAATTTTTTATGATGTTGGCATGACAACTTGCATGACAGTTCACGTGTACTTTATATTG
* *
38095520 AAATACTAATTTTTTATGATGTTGGCATGACAACTTGCATGACAGTTTACGTGTATTTTATATT
1 AAATACTAATTTTTTATGATGTTGGCATGACAACTTGCATGACAGTTCACGTGTACTTTATATT
38095584 AACATAACAC
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
65 58 1.00
ACGTcount: A:0.28, C:0.11, G:0.18, T:0.43
Consensus pattern (65 bp):
AAATACTAATTTTTTATGATGTTGGCATGACAACTTGCATGACAGTTCACGTGTACTTTATATTG
Found at i:38095654 original size:17 final size:15
Alignment explanation
Indices: 38095632--38095674 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 15
38095622 AAAATTTTAA
38095632 AAAATATAAATATATT
1 AAAATATAAA-ATATT
38095648 CAAAATATAAAATATT
1 -AAAATATAAAATATT
*
38095664 AAAAAATAAAA
1 AAAATATAAAA
38095675 AAACTAACAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 10 0.40
16 5 0.20
17 10 0.40
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (15 bp):
AAAATATAAAATATT
Found at i:38095676 original size:17 final size:17
Alignment explanation
Indices: 38095620--38095676 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
38095610 CACATCATCA
*
38095620 AAAAAATTTTAAAAAAT
1 AAAAAATATTAAAAAAT
* *
38095637 ATAAATATATT-CAAAAT
1 A-AAAAATATTAAAAAAT
*
38095654 ATAAAATATTAAAAAAT
1 AAAAAATATTAAAAAAT
38095671 AAAAAA
1 AAAAAA
38095677 ACTAACATAA
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
16 7 0.23
17 17 0.55
18 7 0.23
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (17 bp):
AAAAAATATTAAAAAAT
Found at i:38099307 original size:14 final size:13
Alignment explanation
Indices: 38099273--38099320 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 13
38099263 ATGCGAGTCT
38099273 ATGTTTTAAAAGC
1 ATGTTTTAAAAGC
38099286 ATGTTTTAAAAGTAC
1 ATGTTTTAAAAG--C
*
38099301 A-GTTTTATAAGC
1 ATGTTTTAAAAGC
38099313 TATGTTTT
1 -ATGTTTT
38099321 TGCGAGGTCT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
12 1 0.03
13 13 0.43
14 14 0.47
15 2 0.07
ACGTcount: A:0.33, C:0.06, G:0.15, T:0.46
Consensus pattern (13 bp):
ATGTTTTAAAAGC
Found at i:38102110 original size:47 final size:47
Alignment explanation
Indices: 38101980--38102150 Score: 175
Period size: 47 Copynumber: 3.6 Consensus size: 47
38101970 ATAGTAAAAC
* * * *
38101980 TATGGTCTTGCACA-TAGTCACATATCACATACCGAGGCCATAACCCAGC
1 TATGGTCTTACACAGTAG-CACATATCAC--ACCGATGCCATATCCCAGA
* * * * *
38102029 CATGGTCTTACAC-GGATCACATATCACACTGATGCCATATCCCAAA
1 TATGGTCTTACACAGTAGCACATATCACACCGATGCCATATCCCAGA
* *
38102075 TATGGTCTTATACAGTAGCACATATCACACCGATGCCATATCCCGGA
1 TATGGTCTTACACAGTAGCACATATCACACCGATGCCATATCCCAGA
* * *
38102122 TATGGTCTTATACGGAAGCACATATCACA
1 TATGGTCTTACACAGTAGCACATATCACA
38102151 TTTGTCCGAA
Statistics
Matches: 102, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
46 25 0.25
47 55 0.54
48 10 0.10
49 12 0.12
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.25
Consensus pattern (47 bp):
TATGGTCTTACACAGTAGCACATATCACACCGATGCCATATCCCAGA
Found at i:38102181 original size:52 final size:48
Alignment explanation
Indices: 38101998--38102204 Score: 177
Period size: 47 Copynumber: 4.2 Consensus size: 48
38101988 TGCACATAGT
* * ** * *
38101998 CACATATCACATACCGAGGCCATAACCCAGCCATGGTCTTACACGG-AT
1 CACATATCACAT-CCGAAGCCATAGCCCAGATATGGTCTTATACGGAAG
* * * * * *
38102046 CACATATCACA-CTGATGCCATATCCCAAATATGGTCTTATACAGTAG
1 CACATATCACATCCGAAGCCATAGCCCAGATATGGTCTTATACGGAAG
* * *
38102093 CACATATCACA-CCGATGCCATATCCCGGATATGGTCTTATACGGAAG
1 CACATATCACATCCGAAGCCATAGCCCAGATATGGTCTTATACGGAAG
* *
38102140 CACATATCACATTTGTCCGAAGCCATAGCCCAGCTATGGTCTTATACGGAAAT
1 CACATATCACA----TCCGAAGCCATAGCCCAGATATGGTCTTATACGG-AAG
*
38102193 CACATTTCACAT
1 CACATATCACAT
38102205 GCTGTCATGG
Statistics
Matches: 132, Mismatches: 20, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
46 25 0.19
47 54 0.41
48 11 0.08
49 1 0.01
52 29 0.22
53 12 0.09
ACGTcount: A:0.31, C:0.29, G:0.15, T:0.25
Consensus pattern (48 bp):
CACATATCACATCCGAAGCCATAGCCCAGATATGGTCTTATACGGAAG
Found at i:38104748 original size:15 final size:15
Alignment explanation
Indices: 38104719--38104758 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
38104709 AAGAAAACCG
*
38104719 AATAAAGAAATCCAA
1 AATAAAGAAACCCAA
* *
38104734 GATAGAGAAACCCAA
1 AATAAAGAAACCCAA
38104749 AATAAAGAAA
1 AATAAAGAAA
38104759 TCGAAATCCA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.65, C:0.12, G:0.12, T:0.10
Consensus pattern (15 bp):
AATAAAGAAACCCAA
Found at i:38108449 original size:46 final size:47
Alignment explanation
Indices: 38108398--38108501 Score: 165
Period size: 47 Copynumber: 2.2 Consensus size: 47
38108388 TTACACGGAT
* *
38108398 CACATATCACACTGATGCCATATCCC-AATATGGTCTTATACAGTAG
1 CACATATCACACCGATGCCATATCCCGAATATGGTCTTATACAGAAG
* *
38108444 CACATATCACACCGATGCCATATCCCGGATATGGTCTTATACGGAAG
1 CACATATCACACCGATGCCATATCCCGAATATGGTCTTATACAGAAG
38108491 CACATATCACA
1 CACATATCACA
38108502 TTTGTCCGAA
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
46 25 0.47
47 28 0.53
ACGTcount: A:0.33, C:0.28, G:0.14, T:0.25
Consensus pattern (47 bp):
CACATATCACACCGATGCCATATCCCGAATATGGTCTTATACAGAAG
Found at i:38108532 original size:52 final size:48
Alignment explanation
Indices: 38108350--38108555 Score: 177
Period size: 46 Copynumber: 4.2 Consensus size: 48
38108340 TGCACATAGT
* * ** * *
38108350 CACATATCACATACCGAGGCCATAACCCAGCCATGGTCTTACACGG-AT
1 CACATATCACAT-CCGAAGCCATAGCCCAGATATGGTCTTATACGGAAG
* * * * *
38108398 CACATATCACA-CTGATGCCATATCCCA-ATATGGTCTTATACAGTAG
1 CACATATCACATCCGAAGCCATAGCCCAGATATGGTCTTATACGGAAG
* * *
38108444 CACATATCACA-CCGATGCCATATCCCGGATATGGTCTTATACGGAAG
1 CACATATCACATCCGAAGCCATAGCCCAGATATGGTCTTATACGGAAG
* *
38108491 CACATATCACATTTGTCCGAAGCCATAGCCCAGCTATGGTCTTATACGGAAAT
1 CACATATCACA----TCCGAAGCCATAGCCCAGATATGGTCTTATACGG-AAG
*
38108544 CACATTTCACAT
1 CACATATCACAT
38108556 GCTGTCATGG
Statistics
Matches: 132, Mismatches: 18, Indels: 15
0.80 0.11 0.09
Matches are distributed among these distances:
45 12 0.09
46 39 0.30
47 28 0.21
48 11 0.08
49 1 0.01
52 29 0.22
53 12 0.09
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.25
Consensus pattern (48 bp):
CACATATCACATCCGAAGCCATAGCCCAGATATGGTCTTATACGGAAG
Found at i:38113182 original size:21 final size:22
Alignment explanation
Indices: 38113156--38113214 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
38113146 GTTTTAAGAA
*
38113156 TTGTTTTACTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
*
38113177 TTGTTTTAATATTTGTTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
38113199 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
38113215 GATTTATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 6 0.19
21 16 0.50
22 10 0.31
ACGTcount: A:0.22, C:0.02, G:0.07, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:38113229 original size:26 final size:24
Alignment explanation
Indices: 38113185--38113234 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
38113175 ATTTGTTTTA
*
38113185 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
38113209 ATATTTGATTTATTATATTTTTAAAT
1 ATATTTG-TTT-TTATATTTTTAAAT
38113235 TTTTTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:38116387 original size:33 final size:33
Alignment explanation
Indices: 38116349--38116411 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 33
38116339 ACATATCTTC
* *
38116349 CTAATTAAATTAATAATTTAATTAAGAATAACA
1 CTAATTAAATCAAAAATTTAATTAAGAATAACA
* * *
38116382 CTAATTCAATCAAAAATTTTATTAATAATA
1 CTAATTAAATCAAAAATTTAATTAAGAATA
38116412 TATATTCATA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 25 1.00
ACGTcount: A:0.52, C:0.08, G:0.02, T:0.38
Consensus pattern (33 bp):
CTAATTAAATCAAAAATTTAATTAAGAATAACA
Found at i:38116599 original size:6 final size:6
Alignment explanation
Indices: 38116588--38116623 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
38116578 TAGGGATAGA
38116588 GTTGGG GTTGGG GTTGGG GTTGGG GTTGGG GTTGGG
1 GTTGGG GTTGGG GTTGGG GTTGGG GTTGGG GTTGGG
38116624 TTAGGTGGGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.00, C:0.00, G:0.67, T:0.33
Consensus pattern (6 bp):
GTTGGG
Found at i:38130819 original size:41 final size:42
Alignment explanation
Indices: 38130774--38130935 Score: 120
Period size: 45 Copynumber: 3.7 Consensus size: 42
38130764 AAACCCAAAT
*
38130774 TCATTCACTGGCATT-TCACCTGCTAGGCTTGAAGCCTGATA-
1 TCATTCACCGGCATTATCACCTGCTAGGCTTGAAGCC-GATAG
*
38130815 TCATTTCACCGGCATTAT-AGCCTGCTAGGCTCGAAGGCCCGAATAG
1 TCA-TTCACCGGCATTATCA-CCTGCTAGGCTTGAA-G-CCG-ATAG
* **
38130861 T-ATATCACCGGCATTATAACCTGCTAGGCTCAAAGGCCCGAATAG
1 TCAT-TCACCGGCATTATCACCTGCTAGGCTTGAA-G-CCG-ATAG
*
38130906 T-ATATCACAGGCATTAT-AGCCTGCTAGGCT
1 TCAT-TCACCGGCATTATCA-CCTGCTAGGCT
38130936 CAAAGGCCCG
Statistics
Matches: 107, Mismatches: 4, Indels: 16
0.84 0.03 0.13
Matches are distributed among these distances:
41 3 0.03
42 12 0.11
43 15 0.14
44 4 0.04
45 71 0.66
46 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.27
Consensus pattern (42 bp):
TCATTCACCGGCATTATCACCTGCTAGGCTTGAAGCCGATAG
Found at i:38130875 original size:45 final size:45
Alignment explanation
Indices: 38130820--38130952 Score: 239
Period size: 45 Copynumber: 3.0 Consensus size: 45
38130810 TGATATCATT
*
38130820 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTATA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATA
*
38130865 TCACCGGCATTATAACCTGCTAGGCTCAAAGGCCCGAATAGTATA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATA
*
38130910 TCACAGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
38130953 CTGTACGATA
Statistics
Matches: 84, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 84 1.00
ACGTcount: A:0.29, C:0.26, G:0.23, T:0.22
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATA
Found at i:38131777 original size:47 final size:46
Alignment explanation
Indices: 38131707--38131895 Score: 290
Period size: 47 Copynumber: 4.0 Consensus size: 46
38131697 CTAGTATCAA
38131707 TTAACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAGC
1 TTAACTAAGTAACTTAT-CGGAAATATTAAGAGCAAATTTAACAAGC
*
38131754 TTAACTAAGTAACTTACTTGGAAATATTAAGAGCAAATTTAACAAGC
1 TTAACTAAGTAACTTA-TCGGAAATATTAAGAGCAAATTTAACAAGC
* *
38131801 TTAACTAAGTAACTTACCCGAAAATATTAAGAGCAAATTTAACAAGC
1 TTAACTAAGTAACTTA-TCGGAAATATTAAGAGCAAATTTAACAAGC
* *
38131848 TTAACTAAGTAACTTATTCGGAATTATTAAGAGC-AATTTATCAAGC
1 TTAACTAAGTAACTTA-TCGGAAATATTAAGAGCAAATTTAACAAGC
38131894 TT
1 TT
38131896 TAAATTCAAC
Statistics
Matches: 132, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
46 13 0.10
47 118 0.89
48 1 0.01
ACGTcount: A:0.43, C:0.14, G:0.12, T:0.30
Consensus pattern (46 bp):
TTAACTAAGTAACTTATCGGAAATATTAAGAGCAAATTTAACAAGC
Found at i:38138511 original size:45 final size:45
Alignment explanation
Indices: 38138414--38138619 Score: 310
Period size: 45 Copynumber: 4.6 Consensus size: 45
38138404 CGACATTTCA
* *
38138414 CCTGCTAGGCTCGAA-GCCCG-ATA-TCATTTCACAGGTATTATAG
1 CCTGCTAGGCTCGAAGGCCCGAATAGT-ATATCACAGGCATTATAG
*
38138457 CCTGCTAGGCTCGAAGGCCCGAATAGTATATCACCGGCATTATAG
1 CCTGCTAGGCTCGAAGGCCCGAATAGTATATCACAGGCATTATAG
* *
38138502 CTTGCTAGGCTCGAAGGCCCGAATAGTATATCACCGGCATTATAG
1 CCTGCTAGGCTCGAAGGCCCGAATAGTATATCACAGGCATTATAG
* *
38138547 CCTGCTAGGCTCAAAGGCCCGAATAGTAAATCACAGGCATTATAG
1 CCTGCTAGGCTCGAAGGCCCGAATAGTATATCACAGGCATTATAG
*
38138592 CCTGCTAGGCTCAAAGGCCCGAATAGTA
1 CCTGCTAGGCTCGAAGGCCCGAATAGTA
38138620 CTGTACGATA
Statistics
Matches: 152, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
43 15 0.10
44 5 0.03
45 131 0.86
46 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.23
Consensus pattern (45 bp):
CCTGCTAGGCTCGAAGGCCCGAATAGTATATCACAGGCATTATAG
Found at i:38139443 original size:47 final size:47
Alignment explanation
Indices: 38139374--38139562 Score: 299
Period size: 47 Copynumber: 4.0 Consensus size: 47
38139364 CTAGTATCAA
* *
38139374 TTAACTAACTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAGC
1 TTAACTAAGTAACTTACCCGGAAATATTAAGAGCAAATTTAACAAGC
*
38139421 TTAACTAAGTAACTTACCCGGAAATACTAAGAGCAAATTTAACAAGC
1 TTAACTAAGTAACTTACCCGGAAATATTAAGAGCAAATTTAACAAGC
**
38139468 TTAACTAAGTAACTTACGTGGAAATATTAAGAGCAAATTTAACAAGC
1 TTAACTAAGTAACTTACCCGGAAATATTAAGAGCAAATTTAACAAGC
* * *
38139515 TTAACTAAGTAACTTATCCGGAATTATTAAGAGC-AATTTATCAAGC
1 TTAACTAAGTAACTTACCCGGAAATATTAAGAGCAAATTTAACAAGC
38139561 TT
1 TT
38139563 TAAATTCAAC
Statistics
Matches: 131, Mismatches: 11, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
46 13 0.10
47 118 0.90
ACGTcount: A:0.43, C:0.16, G:0.13, T:0.29
Consensus pattern (47 bp):
TTAACTAAGTAACTTACCCGGAAATATTAAGAGCAAATTTAACAAGC
Found at i:38142482 original size:48 final size:48
Alignment explanation
Indices: 38142417--38143037 Score: 1044
Period size: 48 Copynumber: 12.9 Consensus size: 48
38142407 TATATATGTG
* * *
38142417 TGTGGTAAAGCCTAATGGCTAGTGTGAAATATGAATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
38142465 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* *
38142513 TGTGGTAAAGCTGAATAGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
*
38142561 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
*
38142609 TGTGGTAAAGCCGAATGGCTAATGTAAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
*
38142657 TGTGGTAAAGCCGAATGGCTAATGTAAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
38142705 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* *
38142753 TGTGGTAAAACCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
38142801 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* *
38142849 TGTGGTAAAGCCGAATGGCTACTGTGAAATATATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTG--A-A-ATATGTATGAGATATGTATA
* *
38142901 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGAATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* *
38142949 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGAATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* *
38142997 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAAGAGAT
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
38143038 GTGTGTATAT
Statistics
Matches: 547, Mismatches: 22, Indels: 8
0.95 0.04 0.01
Matches are distributed among these distances:
48 499 0.91
49 1 0.00
50 2 0.00
51 1 0.00
52 44 0.08
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.31
Consensus pattern (48 bp):
TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
Found at i:38142965 original size:28 final size:28
Alignment explanation
Indices: 38142933--38143013 Score: 70
Period size: 28 Copynumber: 3.2 Consensus size: 28
38142923 TGTGAAATAT
38142933 GAATGAGATATGTATATGTGGTAAAGCC
1 GAATGAGATATGTATATGTGGTAAAGCC
* ***
38142961 GAATG-GCTA-G----TGT-G-AAATAT
1 GAATGAGATATGTATATGTGGTAAAGCC
38142981 GAATGAGATATGTATATGTGGTAAAGCC
1 GAATGAGATATGTATATGTGGTAAAGCC
38143009 GAATG
1 GAATG
38143014 GCTAGTGTGA
Statistics
Matches: 37, Mismatches: 8, Indels: 16
0.61 0.13 0.26
Matches are distributed among these distances:
20 8 0.22
21 4 0.11
22 4 0.11
26 4 0.11
27 4 0.11
28 13 0.35
ACGTcount: A:0.36, C:0.06, G:0.30, T:0.28
Consensus pattern (28 bp):
GAATGAGATATGTATATGTGGTAAAGCC
Found at i:38143236 original size:37 final size:37
Alignment explanation
Indices: 38143178--38143280 Score: 154
Period size: 37 Copynumber: 2.8 Consensus size: 37
38143168 GGAAATATAT
38143178 TCCGGGCT-AGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGG-TAAGACCCGATGACTACGTGTGGAGATTATG
* *
38143215 TGCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
38143252 TCCGGGTAAGACCCGATAACTATGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
38143281 GGACTATTCG
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
36 1 0.02
37 59 0.98
ACGTcount: A:0.22, C:0.19, G:0.33, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:38149410 original size:19 final size:20
Alignment explanation
Indices: 38149371--38149410 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
38149361 AGTAGATAGA
* *
38149371 ATACTGAAACTACTGTAGTT
1 ATACCGAAACTACTCTAGTT
38149391 ATACCGAAACT-CTCTAGTT
1 ATACCGAAACTACTCTAGTT
38149410 A
1 A
38149411 GATTAAACTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.35, C:0.20, G:0.12, T:0.33
Consensus pattern (20 bp):
ATACCGAAACTACTCTAGTT
Found at i:38160857 original size:40 final size:40
Alignment explanation
Indices: 38160811--38161035 Score: 263
Period size: 40 Copynumber: 5.6 Consensus size: 40
38160801 CTTGCACAAG
* * * * * *
38160811 GCCTTCGGGTTTTAGCCCAGATGTGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCGCTAGCACAAAT
*
38160851 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCGCTAGCACAAAT
* *
38160891 GCCTTCGGGTTTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
38160931 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-GCTAGCACAAAT
* * * * *
38160971 GCCTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-GCTAGCACAAAT
*
38161012 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
38161036 CATTCAAATA
Statistics
Matches: 157, Mismatches: 26, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
39 1 0.01
40 126 0.80
41 30 0.19
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:38160906 original size:80 final size:80
Alignment explanation
Indices: 38160775--38161035 Score: 303
Period size: 80 Copynumber: 3.3 Consensus size: 80
38160765 CTCAAGTAAT
* * * * * * * *
38160775 CTTCGGGATTTAG-CCGGATATAACTACTTGCAC-AAGGCCTTCGGGTTTTAGCCCAGATGTGGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTTTTAGCCCGGATATAGT
*
38160838 CACTAGCATAAATGC
66 CACTAGCACAAATGC
* *
38160853 CTTCGGGACTTAGCCCGGATATAGTC-GCTAGCACAAATGCCTTCGGGTTTTAGCCCGGATATAA
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGCCTTCGGGTTTTAGCCCGGATATAG
*
38160917 TCGCTAGCACAAATGC
65 TCACTAGCACAAATGC
* * * * * * *
38160933 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACGAATGCCTTCGGATCTTAGTCCGGTTATAGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTTTTAGCCCGGATATAGT
*
38160998 CACCTAGCACAAAAGC
66 CA-CTAGCACAAATGC
38161014 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
38161036 CATTCAAATA
Statistics
Matches: 155, Mismatches: 23, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
78 12 0.08
79 16 0.10
80 94 0.61
81 33 0.21
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTTTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:38160996 original size:120 final size:120
Alignment explanation
Indices: 38160775--38161035 Score: 307
Period size: 120 Copynumber: 2.2 Consensus size: 120
38160765 CTCAAGTAAT
* * * *
38160775 CTTCGGGATTTAG-CCGGATATAACTACTTGCACAAGGCCTTCGGGTTTTAGCCCAGATGTGGTC
1 CTTCGGGATTTAGCCCGGATATAACTACTAGCACAAGGCCTTCGGGTCTTAGCCCAGATATAGTC
* * *
38160839 ACTAGCATAAATGCCTTCGGGACTTAGCCCGGATATAGTC-GCTAGCACAAATGC
66 ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACCTAGCACAAAAGC
* * * *
38160893 CTTCGGGTTTTAGCCCGGATATAA-TCGCTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
1 CTTCGGGATTTAGCCCGGATATAACT-ACTAGCAC-AAGGCCTTCGGGTCTTAGCCCAGATATAG
* * * *
38160957 -CAACTCGCACGAATGCCTTC-GGATCTTAGTCCGGTTATAGTCACCTAGCACAAAAGC
64 TC-ACTAGCACAAATGCCTTCGGGA-CTTAGCCCGGATATAGTCACCTAGCACAAAAGC
*
38161014 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGATTTAGCCCGGATAT
38161036 CATTCAAATA
Statistics
Matches: 120, Mismatches: 17, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
118 13 0.11
119 20 0.17
120 55 0.46
121 32 0.27
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (120 bp):
CTTCGGGATTTAGCCCGGATATAACTACTAGCACAAGGCCTTCGGGTCTTAGCCCAGATATAGTC
ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACCTAGCACAAAAGC
Found at i:38166416 original size:46 final size:46
Alignment explanation
Indices: 38166366--38166537 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
38166356 TGAGCATCCA
38166366 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCG
* * *
38166412 AACTCGTTGAGTTGAGTCCGAGTT--C-GA-GAGATGTAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCAA--ATG--TCCG
* * *
38166459 AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCG
* * *
38166505 AGCTCATTGAGTTGAGTCCAAGTTCACTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
38166538 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 1 0.01
43 7 0.07
44 1 0.01
45 2 0.02
46 58 0.55
47 27 0.25
48 2 0.02
49 1 0.01
50 6 0.06
51 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCG
Found at i:38166518 original size:93 final size:93
Alignment explanation
Indices: 38166359--38166529 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
38166349 GGATGGTTGA
* *
38166359 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCATTGAGT
*
38166424 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCAAGTTCGAGAGATGTAACTAG
* * * *
38166452 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAGCTCATTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCATTGAGT
38166517 TGAGTCCAAGTTC
66 TGAGTCCAAGTTC
38166530 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.28
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCATTGAGT
TGAGTCCAAGTTCGAGAGATGTAACTAG
Found at i:38171785 original size:40 final size:40
Alignment explanation
Indices: 38171739--38171963 Score: 290
Period size: 40 Copynumber: 5.6 Consensus size: 40
38171729 CTTGCACAAG
* * *
38171739 GCCTTCGGGTCTTAGCCCGGATGTGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
38171779 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
38171819 GCCTTCGGGTTTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
38171859 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * *
38171899 GCCTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAT
*
38171940 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
38171964 CATTCGAATA
Statistics
Matches: 159, Mismatches: 23, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
39 1 0.01
40 129 0.81
41 29 0.18
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:38171834 original size:80 final size:80
Alignment explanation
Indices: 38171703--38171963 Score: 312
Period size: 80 Copynumber: 3.3 Consensus size: 80
38171693 CTCAAGTAAT
* * * * * * *
38171703 CTTCGGGATTTAG-CCGGATATAACTACTTGCAC-AAGGCCTTCGGGTCTTAGCCCGGATGTGGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
*
38171766 CACTAGCATAAATGC
66 CACTAGCACAAATGC
* * *
38171781 CTTCGGGACTTAGCCCGGATATAGTC-GCTAGCACAAATGCCTTCGGGTTTTAGCCCGGATATAA
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
*
38171845 TCGCTAGCACAAATGC
65 TCACTAGCACAAATGC
* * * * * *
38171861 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACGAATGCCTTCGGATCTTAGTCCGGTTATAGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
*
38171926 CACCTAGCACAAAAGC
66 CA-CTAGCACAAATGC
38171942 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
38171964 CATTCGAATA
Statistics
Matches: 155, Mismatches: 23, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
78 12 0.08
79 16 0.10
80 94 0.61
81 33 0.21
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:38177046 original size:30 final size:30
Alignment explanation
Indices: 38177000--38177056 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
38176990 ATCCCGAGCC
38177000 TAGGGGCAAAAATGTAAATATGCAAAAGTT
1 TAGGGGCAAAAATGTAAATATGCAAAAGTT
* * * *
38177030 TAGGGGTAAAATTGTAATTTTGCAAAA
1 TAGGGGCAAAAATGTAAATATGCAAAA
38177057 ATTTGAGTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.44, C:0.05, G:0.23, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAAATATGCAAAAGTT
Found at i:38177531 original size:46 final size:46
Alignment explanation
Indices: 38177481--38177656 Score: 202
Period size: 46 Copynumber: 3.8 Consensus size: 46
38177471 TGGTTGAGCA
38177481 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
38177527 TCCGAACTCGTTGAGTTGAGTCCGAG-T---TTGTGAGATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCGAA-T--G
*
38177572 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
38177620 -CTCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
38177657 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 7, Indels: 24
0.78 0.05 0.17
Matches are distributed among these distances:
42 6 0.05
43 5 0.05
45 3 0.03
46 59 0.53
47 26 0.23
48 2 0.02
50 4 0.04
51 6 0.05
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:38177637 original size:93 final size:93
Alignment explanation
Indices: 38177478--38177647 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
38177468 GGATGGTTGA
*
38177478 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
38177543 TGAGTCCGAGTTTGTGAGATGTAACTAG
66 TGAGTCCGAGTTTGTGAGATGTAACTAG
*
38177571 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CTCGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTC-CGAACTCGTTGAG
38177635 TTGAGTCCGAGTT
65 TTGAGTCCGAGTT
38177648 CGCTTATGGG
Statistics
Matches: 74, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 1 0.01
93 73 0.99
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTTGTGAGATGTAACTAG
Found at i:38184734 original size:46 final size:46
Alignment explanation
Indices: 38184684--38184859 Score: 202
Period size: 46 Copynumber: 3.8 Consensus size: 46
38184674 TGGTTGAGAA
38184684 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
38184730 TCCGAACTCGTTGAGTTGAGTCCGAG-T---TTGTGAGATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCGAA-T--G
*
38184775 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
38184823 -CTCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
38184860 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 7, Indels: 24
0.78 0.05 0.17
Matches are distributed among these distances:
42 6 0.05
43 5 0.05
45 3 0.03
46 59 0.53
47 26 0.23
48 2 0.02
50 4 0.04
51 6 0.05
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:38188510 original size:93 final size:93
Alignment explanation
Indices: 38188398--38188566 Score: 293
Period size: 93 Copynumber: 1.8 Consensus size: 93
38188388 GCCCATAAGT
* * *
38188398 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
38188463 CGAGCTCGGATTCCTAATTACATCTCTC
66 CGAGCTCGGATTCCTAATTACATCTCTC
*
38188491 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
*
38188556 CGAGTTCGGAT
66 CGAGCTCGGAT
38188567 GCTCAACCAT
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
CGAGCTCGGATTCCTAATTACATCTCTC
Found at i:38188565 original size:46 final size:46
Alignment explanation
Indices: 38188390--38188565 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
38188380 TGTAACCCGC
* *
38188390 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
38188436 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATTC-CTAATT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC--A-T
* *** *
38188482 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
38188529 CCATAAGTGAACTCGAACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
38188566 TGCTCAACCA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 69 0.62
47 32 0.29
48 1 0.01
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:38199908 original size:20 final size:20
Alignment explanation
Indices: 38199862--38199908 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
38199852 GTAAGCTCGG
38199862 TTGAGCTCAAATGAGATGAA
1 TTGAGCTCAAATGAGATGAA
*** *
38199882 ACAAGCTCAAATGAGCTGAA
1 TTGAGCTCAAATGAGATGAA
38199902 TTGAGCT
1 TTGAGCT
38199909 GGATAGAGCT
Statistics
Matches: 20, Mismatches: 7, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.23
Consensus pattern (20 bp):
TTGAGCTCAAATGAGATGAA
Found at i:38204302 original size:41 final size:41
Alignment explanation
Indices: 38204257--38204393 Score: 111
Period size: 41 Copynumber: 3.2 Consensus size: 41
38204247 CACAAAGATA
38204257 CCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAAG
1 CCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAAG
* * * *
38204298 CCAAATCAGCTATGTCTTCGATCTGCTCTC--CGTCGAACA--TAGAGATG
1 CCAAAT---C-A--TCTTAGATTTGCT-TCAACGT-AAACACGT-GA-AAG
38204345 CCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAAG
1 CCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAAG
*
38204386 TCAAATCA
1 CCAAATCA
38204394 GCTATGTCTT
Statistics
Matches: 73, Mismatches: 9, Indels: 28
0.66 0.08 0.25
Matches are distributed among these distances:
40 2 0.03
41 30 0.41
42 5 0.07
43 2 0.03
44 2 0.03
45 2 0.03
46 5 0.07
47 23 0.32
48 2 0.03
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.27
Consensus pattern (41 bp):
CCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAAG
Found at i:38204383 original size:88 final size:88
Alignment explanation
Indices: 38204224--38204444 Score: 352
Period size: 88 Copynumber: 2.5 Consensus size: 88
38204214 CATGTCGATA
* * * * * *
38204224 TCTTTGATCGGCTCTCCGTCAAACACAAAGATACCAAATCATCTTAGATTTGCTTCAACGTAAAC
1 TCTTCGATCTGCTCTCCGTCGAACATAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAAC
38204289 ACGTGAAAGCCAAATCAGCTATG
66 ACGTGAAAGCCAAATCAGCTATG
38204312 TCTTCGATCTGCTCTCCGTCGAACATAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAAC
1 TCTTCGATCTGCTCTCCGTCGAACATAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAAC
*
38204377 ACGTGAAAGTCAAATCAGCTATG
66 ACGTGAAAGCCAAATCAGCTATG
* **
38204400 TCTTCGATCTGCTCTCCGTTGAACATAGAGATGTTAAATCATCTT
1 TCTTCGATCTGCTCTCCGTCGAACATAGAGATGCCAAATCATCTT
38204445 GGATGTGCCT
Statistics
Matches: 123, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
88 123 1.00
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (88 bp):
TCTTCGATCTGCTCTCCGTCGAACATAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAAC
ACGTGAAAGCCAAATCAGCTATG
Found at i:38204557 original size:45 final size:45
Alignment explanation
Indices: 38204478--38204825 Score: 340
Period size: 45 Copynumber: 7.9 Consensus size: 45
38204468 ATCTGCTACG
* * * * * *
38204478 TCTTCGATCTGCTCCCCGTCGAATATAGAAAGATAAGATCTGTCA
1 TCTTGGATCTACTCCCCGTCCATTACAGAGAGATAAGATCTGTCA
* *
38204523 TCTTGGATCTACTCTCCATCCATTACAGAGAGATAAGATCTGTCA
1 TCTTGGATCTACTCCCCGTCCATTACAGAGAGATAAGATCTGTCA
* *
38204568 TCTTGGATTTACTCCCCGTCCATTACGGAGAGATAAGATCTGTCA
1 TCTTGGATCTACTCCCCGTCCATTACAGAGAGATAAGATCTGTCA
*
38204613 TCTTGGATCTACTCCTCGTCCATTACAGAGAGATAAGATCTGTCA
1 TCTTGGATCTACTCCCCGTCCATTACAGAGAGATAAGATCTGTCA
* *
38204658 TCTTGGATCTGC-CCCCTGTCCATTACAGAGAGATAAGATCCGTCA
1 TCTTGGATCTACTCCCC-GTCCATTACAGAGAGATAAGATCTGTCA
* * * *
38204703 TCTTGGATCT--GCCCCG---A-T---GA-AGGTCAGATCTGTTA
1 TCTTGGATCTACTCCCCGTCCATTACAGAGAGATAAGATCTGTCA
* * * * * * * *
38204738 TGTCTTCGATCTGCTTCCTGTCGAATACAGAGAGATAAGATCTATTA
1 --TCTTGGATCTACTCCCCGTCCATTACAGAGAGATAAGATCTGTCA
* * *
38204785 TCTTGGATCTGCTCCCCGTCTATTTCAGAGAGATAAGATCT
1 TCTTGGATCTACTCCCCGTCCATTACAGAGAGATAAGATCT
38204826 ACTATTTTTG
Statistics
Matches: 254, Mismatches: 35, Indels: 28
0.80 0.11 0.09
Matches are distributed among these distances:
35 11 0.04
36 2 0.01
37 9 0.04
39 4 0.02
40 1 0.00
42 1 0.00
43 2 0.01
44 7 0.03
45 203 0.80
46 2 0.01
47 12 0.05
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (45 bp):
TCTTGGATCTACTCCCCGTCCATTACAGAGAGATAAGATCTGTCA
Found at i:38204826 original size:45 final size:45
Alignment explanation
Indices: 38204740--38204878 Score: 152
Period size: 45 Copynumber: 3.1 Consensus size: 45
38204730 ATCTGTTATG
* * * *
38204740 TCTTCGATCTGCTTCCTGTCGAATACAGAGAGATAAGATCTATTA
1 TCTTGGATCTGCTCCCCGTCGAATACAGAGAGATAAGATCTACTA
* * *
38204785 TCTTGGATCTGCTCCCCGTCTATTTCAGAGAGATAAGATCTACTA
1 TCTTGGATCTGCTCCCCGTCGAATACAGAGAGATAAGATCTACTA
* * * * * * *
38204830 TTTTTGATCTGTTCCCTGTCGAATACAGAGAAATAAGATATGCTA
1 TCTTGGATCTGCTCCCCGTCGAATACAGAGAGATAAGATCTACTA
38204875 TCTT
1 TCTT
38204879 CAACTTGTTC
Statistics
Matches: 76, Mismatches: 18, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
45 76 1.00
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.35
Consensus pattern (45 bp):
TCTTGGATCTGCTCCCCGTCGAATACAGAGAGATAAGATCTACTA
Found at i:38210371 original size:5 final size:5
Alignment explanation
Indices: 38210357--38210456 Score: 50
Period size: 5 Copynumber: 20.2 Consensus size: 5
38210347 TATATAAAAC
* * * * *
38210357 AATAT AATAT CATAT AACAT AATAA AATTT AAT-T ACATAT AATTT AA-A-
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT A-ATAT AATAT AATAT
* *
38210405 AATA- AATGAT AATA- AATAT AATAT GATGGAT AATAT AAAAAT AATAT
1 AATAT AAT-AT AATAT AATAT AATAT AAT--AT AATAT -AATAT AATAT
38210452 -ATAT A
1 AATAT A
38210457 TGTCATTTTA
Statistics
Matches: 72, Mismatches: 13, Indels: 20
0.69 0.12 0.19
Matches are distributed among these distances:
3 2 0.03
4 14 0.19
5 43 0.60
6 9 0.12
7 4 0.06
ACGTcount: A:0.58, C:0.03, G:0.04, T:0.35
Consensus pattern (5 bp):
AATAT
Found at i:38213598 original size:18 final size:20
Alignment explanation
Indices: 38213562--38213608 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
38213552 AGTTGTAAGT
38213562 ATATATATGTGAATAATTTG
1 ATATATATGTGAATAATTTG
* *
38213582 ATAT-TATGTGATTATTTTG
1 ATATATATGTGAATAATTTG
38213601 ATGATATA
1 AT-ATATA
38213609 ACATGTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (20 bp):
ATATATATGTGAATAATTTG
Found at i:38214133 original size:101 final size:101
Alignment explanation
Indices: 38213958--38214139 Score: 267
Period size: 101 Copynumber: 1.8 Consensus size: 101
38213948 CCGTTGTGAG
* * * * * *
38213958 TCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACTAGATTGATAGGTCGCATTTGTAGTAC
1 TCACGTGTGTAGTACTAACTGCAGGCTACTACGTGTACTAGATGGATAAGTCACATGTGTAGTAC
38214023 TAAGTGCAGGCTACTATGCGAACCCGTTAACTTTGA
66 TAAGTGCAGGCTACTATGCGAACCCGTTAACTTTGA
* * *
38214059 TCACGTGTGTAGTACTAACTGCATGCTACTACGTGTA-TCAGATGGTTAAGTCACGTGTGTAGTA
1 TCACGTGTGTAGTACTAACTGCAGGCTACTACGTGTACT-AGATGGATAAGTCACATGTGTAGTA
38214123 CTAAGTGCAGGCTACTA
65 CTAAGTGCAGGCTACTA
38214140 CATGTACCAG
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
100 1 0.01
101 70 0.99
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (101 bp):
TCACGTGTGTAGTACTAACTGCAGGCTACTACGTGTACTAGATGGATAAGTCACATGTGTAGTAC
TAAGTGCAGGCTACTATGCGAACCCGTTAACTTTGA
Found at i:38214197 original size:50 final size:50
Alignment explanation
Indices: 38213957--38214200 Score: 247
Period size: 50 Copynumber: 4.9 Consensus size: 50
38213947 TCCGTTGTGA
* *
38213957 GTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACTAGATTGATAG
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
* * * * * * * * *
38214007 GTCGCATTTGTAGTACTAAGTGCAGGCTACTATGCGAACCCG-TTAACTTTG
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA--TAG
* * * * * * *
38214058 ATCACGTGTGTAGTACTAACTGCATGCTACTACGTGTATCAGATGGTTAA
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
*
38214108 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTGATAG
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
* * * * *
38214158 GTCACATGTGTAGTACTAAGTGTATGCTACTATGCGTACCAGA
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
38214201 GAGCTTCGGT
Statistics
Matches: 150, Mismatches: 41, Indels: 6
0.76 0.21 0.03
Matches are distributed among these distances:
49 3 0.02
50 113 0.75
51 33 0.22
52 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.31
Consensus pattern (50 bp):
GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
Found at i:38217996 original size:33 final size:33
Alignment explanation
Indices: 38217948--38218017 Score: 122
Period size: 33 Copynumber: 2.1 Consensus size: 33
38217938 ACCCAACCTA
* *
38217948 AAACCAAACATTTTTATGCCTTAAAATGCATTC
1 AAACCAAAAAATTTTATGCCTTAAAATGCATTC
38217981 AAACCAAAAAATTTTATGCCTTAAAATGCATTC
1 AAACCAAAAAATTTTATGCCTTAAAATGCATTC
38218014 AAAC
1 AAAC
38218018 AAGTTCAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.44, C:0.20, G:0.06, T:0.30
Consensus pattern (33 bp):
AAACCAAAAAATTTTATGCCTTAAAATGCATTC
Found at i:38232725 original size:55 final size:55
Alignment explanation
Indices: 38232621--38232753 Score: 142
Period size: 55 Copynumber: 2.4 Consensus size: 55
38232611 GGCCGTGGGT
* * **
38232621 GAACCTGCCAAAATAACGCGGGCGTGCGACATGCCCATGCCTGGAAACTGTAGCC
1 GAACCTGCCAAAATAACACGGGCGTGCGACACGCCCATGCCAAGAAACTGTAGCC
* * * * **
38232676 GAACCTGTCAAATTAACAC-GGCTGTGCGACACGCCCATGCCAAGCAACTGTGGGT
1 GAACCTGCCAAAATAACACGGGC-GTGCGACACGCCCATGCCAAGAAACTGTAGCC
* *
38232731 GAACCTGCCAAAACAACATGGGC
1 GAACCTGCCAAAATAACACGGGC
38232754 TTGGACCTTC
Statistics
Matches: 62, Mismatches: 14, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
54 3 0.05
55 56 0.90
56 3 0.05
ACGTcount: A:0.29, C:0.30, G:0.26, T:0.15
Consensus pattern (55 bp):
GAACCTGCCAAAATAACACGGGCGTGCGACACGCCCATGCCAAGAAACTGTAGCC
Found at i:38232775 original size:20 final size:20
Alignment explanation
Indices: 38232750--38232793 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
38232740 AAAACAACAT
38232750 GGGCTTGGACCTTCATACAC
1 GGGCTTGGACCTTCATACAC
38232770 GGGCTTGGACCTTCATACAC
1 GGGCTTGGACCTTCATACAC
38232790 GGGC
1 GGGC
38232794 GTGGGAAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.18, C:0.30, G:0.30, T:0.23
Consensus pattern (20 bp):
GGGCTTGGACCTTCATACAC
Found at i:38239803 original size:22 final size:22
Alignment explanation
Indices: 38239778--38239824 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
38239768 GTTCAATTGG
38239778 TAATTTTAGTGAATAAAATGGT
1 TAATTTTAGTGAATAAAATGGT
38239800 TAATTTTAGTGAATAAAATGGT
1 TAATTTTAGTGAATAAAATGGT
38239822 TAA
1 TAA
38239825 GTGTTAGGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.43, C:0.00, G:0.17, T:0.40
Consensus pattern (22 bp):
TAATTTTAGTGAATAAAATGGT
Found at i:38240409 original size:19 final size:18
Alignment explanation
Indices: 38240370--38240409 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
38240360 ACCCCTATAG
*
38240370 TTTGAAAAATTTTCTATT
1 TTTGAAAAATTTTATATT
38240388 TTTGAAAAATTTTATATGT
1 TTTGAAAAATTTTATAT-T
38240407 TTT
1 TTT
38240410 TTATTTAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.33, C:0.03, G:0.07, T:0.57
Consensus pattern (18 bp):
TTTGAAAAATTTTATATT
Found at i:38241876 original size:21 final size:21
Alignment explanation
Indices: 38241850--38241895 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
38241840 CATGAGCGAG
*
38241850 CACATGGGCGTGT-GGAGTAGC
1 CACATGGGCATGTGGGA-TAGC
38241871 CACATGGGCATGTGGGATAGC
1 CACATGGGCATGTGGGATAGC
38241892 CACA
1 CACA
38241896 CGACCATGTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 20 0.87
22 3 0.13
ACGTcount: A:0.24, C:0.22, G:0.37, T:0.17
Consensus pattern (21 bp):
CACATGGGCATGTGGGATAGC
Found at i:38247482 original size:13 final size:13
Alignment explanation
Indices: 38247461--38247493 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
38247451 TAAATTATAC
*
38247461 ATATTAAAAATAT
1 ATATAAAAAATAT
38247474 ATATAAAAAATAT
1 ATATAAAAAATAT
38247487 A-ATAAAA
1 ATATAAAA
38247494 TGATACTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 6 0.32
13 13 0.68
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (13 bp):
ATATAAAAAATAT
Found at i:38248022 original size:35 final size:36
Alignment explanation
Indices: 38247982--38248052 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
38247972 TATCTACAGT
38247982 AAACTTATG-TTTTTTAATTTTATATAGATTATAGA
1 AAACTTATGTTTTTTTAATTTTATATAGATTATAGA
38248017 AAACTTATGTTTTTTTAATTTTATATAGATTATAGA
1 AAACTTATGTTTTTTTAATTTTATATAGATTATAGA
38248053 TTATATATGA
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 9 0.26
36 26 0.74
ACGTcount: A:0.37, C:0.03, G:0.08, T:0.52
Consensus pattern (36 bp):
AAACTTATGTTTTTTTAATTTTATATAGATTATAGA
Found at i:38256072 original size:746 final size:746
Alignment explanation
Indices: 38253806--38258940 Score: 9716
Period size: 746 Copynumber: 6.9 Consensus size: 746
38253796 AGATGTGTCA
* * * *
38253806 GTGTAAGACCATGCCTGGGACATGGCCTTGGCACCTTACCTCATGTTTGAGGCTTAATGAATATT
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCACCTTACCCCATGTTTGAGGCTTAATGAATATT
38253871 TGATAGTGTTCCAAATGGTTCAACGGTGAAAGTCATGATTTCAAGTTAACGAGGAAAGTATAACT
66 TGATAGTGTTCCAAATGGTTCAACGGTGAAAGTCATGATTTCAAGTTAACGAGGAAAGTATAACT
*
38253936 GTGTTGCGAGTAGTACTGGTACCTGTTTGGCATATATAGAATATGAGCCCAATTTTATGATATAC
131 GTGTTGCGAGTAGTACTGGTACCTGTTTGGTATATATAGAATATGAGCCCAATTTTATGATATAC
*
38254001 GATGTGTACTGAATATTAATGAGTAAGTTTTACTTATGCCCAATTGTATATTACGAGCTTGTTGT
196 GATGTGTACTGAATATTAATGAGTAAGTTTTACTTATGCCCAATTGTATATTACGAGCTTGTTGA
38254066 TGAATGGTAAAGTTATGTTGTAAATTTATTTATGTGAAACTTACTAAGCCTTATGCTTACTCCCT
261 TGAATGGTAAAGTTATGTTGTAAATTTATTTATGTGAAACTTACTAAGCCTTATGCTTACTCCCT
*
38254131 CTCCTTTTCATTTTCTTATAGTGCCACCTATCTAGCTCAAAGATCAATGGAAGTCAGAGATATCG
326 CTCCTTTTCATTTTCTTATAGTGCCGCCTATCTAGCTCAAAGATCAATGGAAGTCAGAGATATC-
* ** * *
38254196 GTCACACTATCAATCGAAGCATTCTTTATAGTTTGATTTATATTTTTGAATATGGCATGTATGGG
390 ATCACACTATCAATCGAAGCATTCGGTATAGTTTGATTTATATTTTTGAATATTGCATGTATAGG
*
38254261 GAACTAGACTT-CTGTTTTGTGTCATTATCAATTTGGCCAAATGTGTTGACTTGGGATAAATCTC
455 GAACTAGACTTGC-GTTTTGTGTCATTATCAATTTGGCCAAATGTATTGACTTGGGATAAATCTC
* * * *
38254325 TCATTTTGTATTAAGCTTCGAATGATGGTTATTTTTCATCTTGATTTATATACAAAGATATTATC
519 TCATTTTGTATTAAGCTTCGAATGATGGTTAATATTCATCTTGATTTATATACAAAGATGTTACC
*
38254390 TTCATAGATGAGTAAAATGCACACATGGAATGTTGTTTATTGTGGCTAAATTGGTTGCATAAGAT
584 TTCATAGATGAGTAAAATGCATACATGGAATGTTGTTTATTGTGGCTAAATTGGTTGCATAAGAT
* *
38254455 TGTCTTGTAAGACATGTTTGGGACATCCATCAACTACGAGATGTGTCAGTGTAAGACCATGTCTG
649 TGTCTTGTAAGACATGTTTGGGACATGCATCAGCTACGAGATGTGTCAGTGTAAGACCATGTCTG
38254520 AGACATAGCATCGACACAGACATGCTAGAGCTT
714 AGACATAGCATCGACACAGACATGCTAGAGCTT
38254553 GTGTAAGACCATGTCTGGGACATGGCATCGGCACCTTACCCCATGTTTGAGGCTTAATGAATATT
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCACCTTACCCCATGTTTGAGGCTTAATGAATATT
38254618 TGATAGTGTTCCAAATGGTTCAACGGTGAAAGTCATGATTTCAAGTTAACGAGGAAAGTATAACT
66 TGATAGTGTTCCAAATGGTTCAACGGTGAAAGTCATGATTTCAAGTTAACGAGGAAAGTATAACT
38254683 GTGTTGCGAGTAGTACTGGTACCTGTTTGGTATATATAGAATATGAGCCCAATTTTATGATATAC
131 GTGTTGCGAGTAGTACTGGTACCTGTTTGGTATATATAGAATATGAGCCCAATTTTATGATATAC
38254748 GATGTGTACTGAATATTAATGAGTAAGTTTTACTTATGCCCAATTGTATATTACGAGCTTGTTGA
196 GATGTGTACTGAATATTAATGAGTAAGTTTTACTTATGCCCAATTGTATATTACGAGCTTGTTGA
38254813 TGAATGGTAAAGTTATGTTGTAAATTTATTTATGTGAAACTTACTAAGCCTTATGCTTACTCCCT
261 TGAATGGTAAAGTTATGTTGTAAATTTATTTATGTGAAACTTACTAAGCCTTATGCTTACTCCCT
* *
38254878 CTCCTTTTCATTTTCTTATAGTGCCACCTATCTAGCTCAAGGATCAATGGAAGTCAGAGATATCG
326 CTCCTTTTCATTTTCTTATAGTGCCGCCTATCTAGCTCAAAGATCAATGGAAGTCAGAGATATC-
* *
38254943 ATCACACTATCAATCGAAGCATTCGGTATAGTTTGATTTATATTTTTGAATATGGCATGTATGGG
390 ATCACACTATCAATCGAAGCATTCGGTATAGTTTGATTTATATTTTTGAATATTGCATGTATAGG
* *
38255008 GAACTAGACTTGTGTTTTGTGTCATTATCAATTTGGCCAAATGTGTTGACTTGGGATAAATCTCT
455 GAACTAGACTTGCGTTTTGTGTCATTATCAATTTGGCCAAATGTATTGACTTGGGATAAATCTCT
38255073 CATTTTGTATTAAGCTTCGAATGATGGTTAATATTCATCTTGATTTATATACAAAGATGTTACCT
520 CATTTTGTATTAAGCTTCGAATGATGGTTAATATTCATCTTGATTTATATACAAAGATGTTACCT
38255138 TCATAGATGAGTAAAATGCATACATGGAATGTTGTTTATTGTGGCTAAATTGGTTGCATAAGATT
585 TCATAGATGAGTAAAATGCATACATGGAATGTTGTTTATTGTGGCTAAATTGGTTGCATAAGATT
38255203 GTCTTGTAAGACATGTTTGGGACATGCATCAGCTACGAGATGTGTCAGTGTAAGACCATGTCTGA
650 GTCTTGTAAGACATGTTTGGGACATGCATCAGCTACGAGATGTGTCAGTGTAAGACCATGTCTGA
38255268 GACATAGCATCGACACAGACATGCTAGAGCTT
715 GACATAGCATCGACACAGACATGCTAGAGCTT
* *
38255300 GTGTAAGACCATGTTTGGGACATGGCATCAGCACCTTACCCCATGTTTGAGGCTTAATGAATATT
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCACCTTACCCCATGTTTGAGGCTTAATGAATATT
38255365 TGATAGTGTTCCAAATGGTTCAACGGTGAAAGTCATGATTTCAAGTTAACGAGGAAAGTATAACT
66 TGATAGTGTTCCAAATGGTTCAACGGTGAAAGTCATGATTTCAAGTTAACGAGGAAAGTATAACT
38255430 GTGTTGCGAGTAGTACTGGTACCTGTTTGGTATATATAGAATATGAGCCCAATTTTATGATATAC
131 GTGTTGCGAGTAGTACTGGTACCTGTTTGGTATATATAGAATATGAGCCCAATTTTATGATATAC
38255495 GATGTGTACTGAATATTAATGAGTAAGTTTTACTTATGCCCAATTGTATATTACGAGCTTGTTGA
196 GATGTGTACTGAATATTAATGAGTAAGTTTTACTTATGCCCAATTGTATATTACGAGCTTGTTGA
38255560 TGAATGGTAAAGTTATGTTGTAAATTTATTTATGTGAAACTTACTAAGCCTTATGCTTACTCCCT
261 TGAATGGTAAAGTTATGTTGTAAATTTATTTATGTGAAACTTACTAAGCCTTATGCTTACTCCCT
38255625 CTCCTTTTCATTTTCTTATAGTGCCGCCTATCTAGCTCAAAGATCAATGGAAGTCAGAGATATCA
326 CTCCTTTTCATTTTCTTATAGTGCCGCCTATCTAGCTCAAAGATCAATGGAAGTCAGAGATATCA
*
38255690 TCACATTATCAATCGAAGCATTCGGTATAGTTTGATTTATATTTTTGAATATTGCATGTATAGGG
391 TCACACTATCAATCGAAGCATTCGGTATAGTTTGATTTATATTTTTGAATATTGCATGTATAGGG
38255755 AACTAGACTTGCGTTTTGTGTCATTATCAATTTGGCCAAATGTATTGACTTGGGATAAATCTCTC
456 AACTAGACTTGCGTTTTGTGTCATTATCAATTTGGCCAAATGTATTGACTTGGGATAAATCTCTC
*
38255820 ATTTTGTATTTAGCTTCGAATGATGGTTAATATTCATCTTGATTTATATACAAAGATGTTACCTT
521 ATTTTGTATTAAGCTTCGAATGATGGTTAATATTCATCTTGATTTATATACAAAGATGTTACCTT
38255885 CATAGATGAGTAAAATGCATACATGGAATGTTGTTTATTGTGGCTAAATTGGTTGCATAAGATTG
586 CATAGATGAGTAAAATGCATACATGGAATGTTGTTTATTGTGGCTAAATTGGTTGCATAAGATTG
38255950 TCTTGTAAGACATGTTTGGGACATGCATCAGCTACGAGATGTGTCAGTGTAAGACCATGTCTGAG
651 TCTTGTAAGACATGTTTGGGACATGCATCAGCTACGAGATGTGTCAGTGTAAGACCATGTCTGAG
38256015 ACATAGCATCGACACAGACATGCTAGAGCTT
716 ACATAGCATCGACACAGACATGCTAGAGCTT
38256046 GTGTAAGACCATGTCTGGGACATGGCATCGGCACCTTACCCCATGTTTGAGGCTTAATGAATATT
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCACCTTACCCCATGTTTGAGGCTTAATGAATATT
38256111 TGATAGTGTTCCAAATGGTTCAACGGTGAAAGTCATGATTTCAAGTTAACGAGGAAAGTATAACT
66 TGATAGTGTTCCAAATGGTTCAACGGTGAAAGTCATGATTTCAAGTTAACGAGGAAAGTATAACT
38256176 GTGTTGCGAGTAGTACTGGTACCTGTTTGGTATATATAGAATATGAGCCCAATTTTATGATATAC
131 GTGTTGCGAGTAGTACTGGTACCTGTTTGGTATATATAGAATATGAGCCCAATTTTATGATATAC
38256241 GATGTGTACTGAATATTAATGAGTAAGTTTTACTTATGCCCAATTGTATATTACGAGCTTGTTGA
196 GATGTGTACTGAATATTAATGAGTAAGTTTTACTTATGCCCAATTGTATATTACGAGCTTGTTGA
38256306 TGAATGGTAAAGTTATGTTGTAAATTTATTTATGTGAAACTTACTAAGCCTTATGCTTACTCCCT
261 TGAATGGTAAAGTTATGTTGTAAATTTATTTATGTGAAACTTACTAAGCCTTATGCTTACTCCCT
38256371 CTCCTTTTCATTTTCTTATAGTGCCGCCTATCTAGCTCAAAGATCAATGGAAGTCAGAGATATCA
326 CTCCTTTTCATTTTCTTATAGTGCCGCCTATCTAGCTCAAAGATCAATGGAAGTCAGAGATATCA
38256436 TCACACTATCAATCGAAGCATTCGGTATAGTTTGATTTATATTTTTGAATATTGCATGTATAGGG
391 TCACACTATCAATCGAAGCATTCGGTATAGTTTGATTTATATTTTTGAATATTGCATGTATAGGG
38256501 AACTAGACTTGCGTTTTGTGTCATTATCAATTTGGCCAAATGTATTGACTTGGGATAAATCTCTC
456 AACTAGACTTGCGTTTTGTGTCATTATCAATTTGGCCAAATGTATTGACTTGGGATAAATCTCTC
38256566 ATTTTGTATTAAGCTTCGAATGATGGTTAATATTCATCTTGATTTATATACAAAGATGTTACCTT
521 ATTTTGTATTAAGCTTCGAATGATGGTTAATATTCATCTTGATTTATATACAAAGATGTTACCTT
38256631 CATAGATGAGTAAAATGCATACATGGAATGTTGTTTATTGTGGCTAAATTGGTTGCATAAGATTG
586 CATAGATGAGTAAAATGCATACATGGAATGTTGTTTATTGTGGCTAAATTGGTTGCATAAGATTG
38256696 TCTTGTAAGACATGTTTGGGACATGCATCAGCTACGAGATGTGTCAGTGTAAGACCATGTCTGAG
651 TCTTGTAAGACATGTTTGGGACATGCATCAGCTACGAGATGTGTCAGTGTAAGACCATGTCTGAG
38256761 ACATAGCATCGACACAGACATGCTAGAGCTT
716 ACATAGCATCGACACAGACATGCTAGAGCTT
*
38256792 ATGTAAGACCATGTCTGGGACATGGCATCGGCACCTTACCCCATGTTTGAGGCTTAATGAATATT
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCACCTTACCCCATGTTTGAGGCTTAATGAATATT
*
38256857 TGATAGTGTTCCAAATGGTTCAACGGTGAAAGTCATGATTTCAAGTTAACAAGGAAAGTATAACT
66 TGATAGTGTTCCAAATGGTTCAACGGTGAAAGTCATGATTTCAAGTTAACGAGGAAAGTATAACT
*
38256922 GTGTTGCGAGTAGTACTGGTACCTGTTTGGTATATATAGAATATGAGCCCAAATTTATGATATAC
131 GTGTTGCGAGTAGTACTGGTACCTGTTTGGTATATATAGAATATGAGCCCAATTTTATGATATAC
* *
38256987 GATGTGTACTAAATATTAATGAGTAAGTTTTATTTATGCCCAATTGTATATTACGAGCTTGTTGA
196 GATGTGTACTGAATATTAATGAGTAAGTTTTACTTATGCCCAATTGTATATTACGAGCTTGTTGA
*
38257052 TGAATGGTAAAGTTATGTTGTAAATTTATTTATGTGAAACTTACTAAGCTTTATGCTTACAT-CC
261 TGAATGGTAAAGTTATGTTGTAAATTTATTTATGTGAAACTTACTAAGCCTTATGCTTAC-TCCC
38257116 TCTCCTTTTCATTTTCTTATAGTGCCGCCTATCTAGCTCAAAGATCAATGGAAGTCAGAGATATC
325 TCTCCTTTTCATTTTCTTATAGTGCCGCCTATCTAGCTCAAAGATCAATGGAAGTCAGAGATATC
*
38257181 ATCACATTATCAATCGAAGCATTCGGTATAGTTTGATTTATATTTTTGAATATTGCATGTATAGG
390 ATCACACTATCAATCGAAGCATTCGGTATAGTTTGATTTATATTTTTGAATATTGCATGTATAGG
38257246 GAACTAGACTTGCGTTTTGTGTCATTATCAATTTGGCCAAATGTATTGACTTGGGATAAATCTCT
455 GAACTAGACTTGCGTTTTGTGTCATTATCAATTTGGCCAAATGTATTGACTTGGGATAAATCTCT
*
38257311 CATTTTGTATTTAGCTTCGAATGATGGTTAATATTCATCTTGATTTATATACAAAGATGTTACCT
520 CATTTTGTATTAAGCTTCGAATGATGGTTAATATTCATCTTGATTTATATACAAAGATGTTACCT
38257376 TCATAGATGAGTAAAATGCATACATGGAATGTTGTTTATTGTGGCTAAATTGGTTGCATAAGATT
585 TCATAGATGAGTAAAATGCATACATGGAATGTTGTTTATTGTGGCTAAATTGGTTGCATAAGATT
38257441 GTCTTGTAAGACATGTTTGGGACATGCATCAGCTACGAGATGTGTCAGTGTAAGACCATGTCTGA
650 GTCTTGTAAGACATGTTTGGGACATGCATCAGCTACGAGATGTGTCAGTGTAAGACCATGTCTGA
38257506 GACATAGCATCGACACAGACATGCTAGAGCTT
715 GACATAGCATCGACACAGACATGCTAGAGCTT
38257538 GTGTAAGACCATGTCTGGGACATGGCATCGGCACCTTACCCCATGTTTGAGGCTTAATGAATATT
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCACCTTACCCCATGTTTGAGGCTTAATGAATATT
*
38257603 TGATATTGTTCCAAATGGTTCAACGGTGAAAGTCATGATTTCAAGTTAACGAGGAAAGTATAACT
66 TGATAGTGTTCCAAATGGTTCAACGGTGAAAGTCATGATTTCAAGTTAACGAGGAAAGTATAACT
38257668 GTGTTGCGAGTAGTACTGGTACCTGTTTGGTATATATAGAATATGAGCCCAATTTTATGATATAC
131 GTGTTGCGAGTAGTACTGGTACCTGTTTGGTATATATAGAATATGAGCCCAATTTTATGATATAC
38257733 GATGTGTACTGAATATTAATGAGTAAGTTTTACTTATGCCCAATTGTATATTACGAGCTTGTTGA
196 GATGTGTACTGAATATTAATGAGTAAGTTTTACTTATGCCCAATTGTATATTACGAGCTTGTTGA
38257798 TGAATGGTAAAGTTATGTTGTAAATTTATTTATGTGAAACTTACTAAGCCTTATGCTTACTCCCT
261 TGAATGGTAAAGTTATGTTGTAAATTTATTTATGTGAAACTTACTAAGCCTTATGCTTACTCCCT
*
38257863 CTCCTTTTCATTTTCTTATAGTGCCGCCTATCTAGCTCAAAGATCAATGGAAGTCAAAGATATCA
326 CTCCTTTTCATTTTCTTATAGTGCCGCCTATCTAGCTCAAAGATCAATGGAAGTCAGAGATATCA
38257928 TCACACTATCAATCGAAGCATTCGGTATAGTTTGATTTATATTTTTGAATATTGCATGTATAGGG
391 TCACACTATCAATCGAAGCATTCGGTATAGTTTGATTTATATTTTTGAATATTGCATGTATAGGG
*
38257993 AACTAGACTTGCGTTTTGTGTCATTATCAATTTTGCCAAATGTATTGACTTGGGATAAATCTCTC
456 AACTAGACTTGCGTTTTGTGTCATTATCAATTTGGCCAAATGTATTGACTTGGGATAAATCTCTC
38258058 ATTTTGTATTAAGCTTCGAATGATGGTTAATATTCATCTTGATTTATATACAAAGATGTTACCTT
521 ATTTTGTATTAAGCTTCGAATGATGGTTAATATTCATCTTGATTTATATACAAAGATGTTACCTT
38258123 CATAGATGAGTAAAATGCATACATGGAATGTTGTTTATTGTGGCTAAATTGGTTGCATAAGATTG
586 CATAGATGAGTAAAATGCATACATGGAATGTTGTTTATTGTGGCTAAATTGGTTGCATAAGATTG
38258188 TCTTGTAAGACATGTTTGGGACATGCATCAGCTACGAGATGTGTCAGTGTAAGACCATGTCTGAG
651 TCTTGTAAGACATGTTTGGGACATGCATCAGCTACGAGATGTGTCAGTGTAAGACCATGTCTGAG
38258253 ACATAGCATCGACACAGACATGCTAGAGCTT
716 ACATAGCATCGACACAGACATGCTAGAGCTT
* *
38258284 ATGTAAGACCATGTCTGGGACATGGCATCGGCACCTTACCCCATGTTTAAGGCTTAATGAATATT
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCACCTTACCCCATGTTTGAGGCTTAATGAATATT
*
38258349 TGATAGTGTTCCAAATGGTTCAACGGTGAAAGTCATGATTTCAAGTTAACAAGGAAAGTATAACT
66 TGATAGTGTTCCAAATGGTTCAACGGTGAAAGTCATGATTTCAAGTTAACGAGGAAAGTATAACT
*
38258414 GTGTTGCGAGTAGTACTGGTACCTGTTTGGTATATATAGAATATGAGCCCAAATTTATGATATAC
131 GTGTTGCGAGTAGTACTGGTACCTGTTTGGTATATATAGAATATGAGCCCAATTTTATGATATAC
* *
38258479 GATGTGTACTAAATATTAATGAGTAAGTTTTATTTATGCCCAATTGTATATTACGAGCTTGTTGA
196 GATGTGTACTGAATATTAATGAGTAAGTTTTACTTATGCCCAATTGTATATTACGAGCTTGTTGA
* *
38258544 TGAATGGTAAAGTTATGTTGTAAATTTATTTATGTGAAACTTACTAAGCTTTATGCTTACTTCCT
261 TGAATGGTAAAGTTATGTTGTAAATTTATTTATGTGAAACTTACTAAGCCTTATGCTTACTCCCT
* * *
38258609 CTCCTTTTCATTTTCTTATCGTGCCGCCTATCTAGCTCAAAGATCAACGAAAGTCAGAGATATCA
326 CTCCTTTTCATTTTCTTATAGTGCCGCCTATCTAGCTCAAAGATCAATGGAAGTCAGAGATATCA
38258674 TCACACTATCAATCGAAGCATTCGGTATAGTTTGATTTATATTTTTGAATATTGCATGTATAGGG
391 TCACACTATCAATCGAAGCATTCGGTATAGTTTGATTTATATTTTTGAATATTGCATGTATAGGG
*
38258739 AACTAGACTTGCGTTTTGTGTCATTATCAATTTGGCCAAATGTGTTGACTTGGGATAAATCTCTC
456 AACTAGACTTGCGTTTTGTGTCATTATCAATTTGGCCAAATGTATTGACTTGGGATAAATCTCTC
38258804 ATTTTGTATTAAGCTTCGAATGATGGTTAATATTCATCTTGATTTATATACAAAGATGTTACCTT
521 ATTTTGTATTAAGCTTCGAATGATGGTTAATATTCATCTTGATTTATATACAAAGATGTTACCTT
* * *
38258869 CATAGATGAGTAAAATGCACACATGGAATGTTGTTTATTGTGGCTGAATTGGTTGCATGAGATTG
586 CATAGATGAGTAAAATGCATACATGGAATGTTGTTTATTGTGGCTAAATTGGTTGCATAAGATTG
38258934 TCTTGTA
651 TCTTGTA
38258941 TTGGCTTTGT
Statistics
Matches: 4316, Mismatches: 69, Indels: 7
0.98 0.02 0.00
Matches are distributed among these distances:
745 1 0.00
746 3201 0.74
747 1114 0.26
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.36
Consensus pattern (746 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGGCACCTTACCCCATGTTTGAGGCTTAATGAATATT
TGATAGTGTTCCAAATGGTTCAACGGTGAAAGTCATGATTTCAAGTTAACGAGGAAAGTATAACT
GTGTTGCGAGTAGTACTGGTACCTGTTTGGTATATATAGAATATGAGCCCAATTTTATGATATAC
GATGTGTACTGAATATTAATGAGTAAGTTTTACTTATGCCCAATTGTATATTACGAGCTTGTTGA
TGAATGGTAAAGTTATGTTGTAAATTTATTTATGTGAAACTTACTAAGCCTTATGCTTACTCCCT
CTCCTTTTCATTTTCTTATAGTGCCGCCTATCTAGCTCAAAGATCAATGGAAGTCAGAGATATCA
TCACACTATCAATCGAAGCATTCGGTATAGTTTGATTTATATTTTTGAATATTGCATGTATAGGG
AACTAGACTTGCGTTTTGTGTCATTATCAATTTGGCCAAATGTATTGACTTGGGATAAATCTCTC
ATTTTGTATTAAGCTTCGAATGATGGTTAATATTCATCTTGATTTATATACAAAGATGTTACCTT
CATAGATGAGTAAAATGCATACATGGAATGTTGTTTATTGTGGCTAAATTGGTTGCATAAGATTG
TCTTGTAAGACATGTTTGGGACATGCATCAGCTACGAGATGTGTCAGTGTAAGACCATGTCTGAG
ACATAGCATCGACACAGACATGCTAGAGCTT
Found at i:38268276 original size:43 final size:43
Alignment explanation
Indices: 38268103--38268276 Score: 149
Period size: 43 Copynumber: 4.0 Consensus size: 43
38268093 CATAGGATTC
* * *
38268103 TGATATGTGATTTCGTGTAAGACCACGTTTGGGACGTTGGCAT
1 TGATATTTGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
* * ** * *
38268146 CGAT-TTGAGATTTACGTGTAAGACCAATTCTGGGACATCGGCAT
1 TGATATT-TGA-TTACGTGTAAGACCACGTCTGGGACGTTGGCAT
* * * *
38268190 CG-TATTTGATTTCGGGTAAGACC-CTATCTGGGACAG-TGGCAT
1 TGATATTTGATTACGTGTAAGACCAC-GTCTGGGAC-GTTGGCAT
* *
38268232 TGATATTTGATTACATGTAAGACCACGTCTGGGACGTTGACAT
1 TGATATTTGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
38268275 TG
1 TG
38268277 TACGAGCTTT
Statistics
Matches: 101, Mismatches: 22, Indels: 16
0.73 0.16 0.12
Matches are distributed among these distances:
42 28 0.28
43 41 0.41
44 32 0.32
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (43 bp):
TGATATTTGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
Found at i:38271211 original size:43 final size:43
Alignment explanation
Indices: 38271163--38271244 Score: 155
Period size: 43 Copynumber: 1.9 Consensus size: 43
38271153 ATCTCTCTCA
*
38271163 AGACTAATAACGTCTAACCCTAGGTTGATTAATTGAAATATTG
1 AGACTAATAACATCTAACCCTAGGTTGATTAATTGAAATATTG
38271206 AGACTAATAACATCTAACCCTAGGTTGATTAATTGAAAT
1 AGACTAATAACATCTAACCCTAGGTTGATTAATTGAAAT
38271245 CTTTTTAATT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.32
Consensus pattern (43 bp):
AGACTAATAACATCTAACCCTAGGTTGATTAATTGAAATATTG
Found at i:38275855 original size:64 final size:64
Alignment explanation
Indices: 38275775--38275958 Score: 201
Period size: 67 Copynumber: 2.8 Consensus size: 64
38275765 AGACATTATG
* *
38275775 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
38275839 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
38275904 AA
63 AA
* * * * *
38275906 AT-TGGCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
38275959 CGAACTATAT
Statistics
Matches: 98, Mismatches: 18, Indels: 9
0.78 0.14 0.07
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 17 0.17
67 32 0.33
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:38280288 original size:55 final size:54
Alignment explanation
Indices: 38280201--38280455 Score: 269
Period size: 55 Copynumber: 4.8 Consensus size: 54
38280191 ATTAGGGTTT
*
38280201 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAA-GTTTCTAAGGC
* * * * *
38280256 AAGGAAATCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTT--TCTAAGGC
* * *
38280311 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTC-TAAGGC
*
38280364 AAGGATACCATGTAAGACCATGTCAAGACATGGCAA-TGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
** * *
38280413 AAGGATACCACATAAGACCATGACAAGTCATGGCAA-TGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAG
38280456 GTACCCGCGT
Statistics
Matches: 171, Mismatches: 22, Indels: 20
0.80 0.10 0.09
Matches are distributed among these distances:
49 39 0.23
52 7 0.04
53 41 0.24
54 12 0.07
55 68 0.40
56 4 0.02
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
Found at i:38280407 original size:108 final size:110
Alignment explanation
Indices: 38280208--38280408 Score: 327
Period size: 108 Copynumber: 1.8 Consensus size: 110
38280198 TTTAAGGATA
*
38280208 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
*
38280273 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* *
38280318 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
*
38280380 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
38280409 TCAAAAGGAT
Statistics
Matches: 85, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
107 3 0.04
108 48 0.56
109 7 0.08
110 27 0.32
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.22
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:38280561 original size:23 final size:24
Alignment explanation
Indices: 38280524--38280568 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
38280514 AAGGTAAGGT
**
38280524 AAGGTAAGATGAGTT-ATGCTAAA
1 AAGGTAAGACAAGTTCATGCTAAA
38280547 AAGGTAAGACAAGTTCATGCTA
1 AAGGTAAGACAAGTTCATGCTA
38280569 GAAGAGCAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.42, C:0.09, G:0.24, T:0.24
Consensus pattern (24 bp):
AAGGTAAGACAAGTTCATGCTAAA
Found at i:38280668 original size:16 final size:16
Alignment explanation
Indices: 38280647--38280677 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
38280637 ATAAATTTGA
38280647 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
38280663 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
38280678 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:38291609 original size:43 final size:42
Alignment explanation
Indices: 38291474--38291609 Score: 105
Period size: 42 Copynumber: 3.2 Consensus size: 42
38291464 TGTGATTTCG
* * *
38291474 TGTAAGACCATGTCTGGGAC-GTTGGCATCA-ATTTGAGATTTACA
1 TGTAAGACCATGTATGGGACAG-CGACATCATATTT--GA-TTACA
* * *
38291518 TGTAAGACCATGTATGGGACATCGACATCATATTTGATTTCG
1 TGTAAGACCATGTATGGGACAGCGACATCATATTTGATTACA
* * * * * *
38291560 TATAAGACCCTGTTTGGGATAGGGGCATCGATATTTGATTACA
1 TGTAAGACCATGTATGGGACAGCGACATC-ATATTTGATTACA
38291603 TGTAAGA
1 TGTAAGA
38291610 TCACGTTTGG
Statistics
Matches: 73, Mismatches: 16, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
42 25 0.34
43 19 0.26
44 25 0.34
45 4 0.05
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (42 bp):
TGTAAGACCATGTATGGGACAGCGACATCATATTTGATTACA
Found at i:38302202 original size:45 final size:45
Alignment explanation
Indices: 38301988--38302208 Score: 177
Period size: 45 Copynumber: 5.0 Consensus size: 45
38301978 ATATCATACA
* ** * *
38301988 ATGCCAATGTCCCAGACGTGGTCTTACATGCTATCTC--ATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACGAAAACACATATATCG
* * * * *
38302031 ATGCCACTGTCCCAGATAG-GGTCTTACTCG-AATCA-A-ATA-CA
1 ATGCCAATGTCCCAGA-CGTGGTCTTACACGAAAACACATATATCG
** * * * * *
38302072 ATGCTGATGTCCCAGACATAGTCTTACACGTAACCACATAGATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACGAAAACACATATATCG
* * * *
38302117 ATGCCAACGTCCTAGATGTGGTCTTACACAAAAACACATATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACGAAAACACATATATCG
* *
38302162 ATGCCAATGTCCCAAACGTGGTCTTACACGAAAACACATATCTCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACGAAAACACATATATCG
38302207 AT
1 AT
38302209 CCTATGGTTT
Statistics
Matches: 137, Mismatches: 34, Indels: 12
0.75 0.19 0.07
Matches are distributed among these distances:
41 23 0.17
42 10 0.07
43 25 0.18
44 3 0.02
45 76 0.55
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (45 bp):
ATGCCAATGTCCCAGACGTGGTCTTACACGAAAACACATATATCG
Found at i:38303451 original size:17 final size:17
Alignment explanation
Indices: 38303426--38303459 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
38303416 CACATATCCC
*
38303426 TAACTTATTCTCTCATA
1 TAACATATTCTCTCATA
*
38303443 TAACATATTTTCTCATA
1 TAACATATTCTCTCATA
38303460 CTTATAACAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.21, G:0.00, T:0.47
Consensus pattern (17 bp):
TAACATATTCTCTCATA
Found at i:38307302 original size:198 final size:194
Alignment explanation
Indices: 38306940--38307335 Score: 621
Period size: 198 Copynumber: 2.0 Consensus size: 194
38306930 AGAATCTTAG
* *
38306940 TCTTTACTAATATTTCTAACCTTTCTTTGGGTACAAGACCAAACGTTTATGCCATAAGTAAGCAA
1 TCTTTACTAATATTTCTAACCTTTCTTTGGGTACAAGACCAAACATTTATGCCACAAGTAAGCAA
*
38307005 AATTTTCATTTAGCATACTACGCTAAATTCCAACATGATACGATCAACTAAGGATTCCACAAAGA
66 AATTTTCATTTAGCATACTACGCTAAATTCCAACATGATACGATCAACTAAGGATTACACAAAGA
* * *
38307070 CATTATCAAGTTTCAATTTATATAAGCCATCAATAAGACTTCCTGAACCTAATAAAAGTATTAT
131 CATTATCAAGTTTCAATTTATATAAACCATCAATAAGACTTCCTGAACCTAAGAAAACTATTAT
* *
38307134 TCTTTACTAATATTTTTAACCTTTCTTTGGGTACAAGACCCAAACATTTGTGCCACAAGTAAGCA
1 TCTTTACTAATATTTCTAACCTTTCTTTGGGTACAAGA-CCAAACATTTATGCCACAAGTAAGCA
* * * * * * *
38307199 GAATTTTCATTTTGCGTACTATGCTTAATTCCAACATGATATGATCAACATATAATGATTACACA
65 AAATTTTCATTTAGCATACTACGCTAAATTCCAACATGATACGATCAAC---TAAGGATTACACA
38307264 AAGACATTATCAAGTTTCAATTTATATAAACCATCAATAAGACTTCCTGAACCTAAGAAAACTAT
127 AAGACATTATCAAGTTTCAATTTATATAAACCATCAATAAGACTTCCTGAACCTAAGAAAACTAT
38307329 TAT
192 TAT
38307332 TCTT
1 TCTT
38307336 AAATAAACTA
Statistics
Matches: 183, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
194 37 0.20
195 66 0.36
198 80 0.44
ACGTcount: A:0.37, C:0.19, G:0.10, T:0.34
Consensus pattern (194 bp):
TCTTTACTAATATTTCTAACCTTTCTTTGGGTACAAGACCAAACATTTATGCCACAAGTAAGCAA
AATTTTCATTTAGCATACTACGCTAAATTCCAACATGATACGATCAACTAAGGATTACACAAAGA
CATTATCAAGTTTCAATTTATATAAACCATCAATAAGACTTCCTGAACCTAAGAAAACTATTAT
Found at i:38310623 original size:30 final size:32
Alignment explanation
Indices: 38310553--38310624 Score: 76
Period size: 30 Copynumber: 2.3 Consensus size: 32
38310543 ATGAAAATTA
* *
38310553 TAAAAAAATATAAATGAATTATTGAATTTATAT
1 TAAAAAAATATAAA-GAATTATTCAATATATAT
** *
38310586 TTTAAAAATCTAAA-AA-TATTCAATATATAT
1 TAAAAAAATATAAAGAATTATTCAATATATAT
38310616 TAAAAAAAT
1 TAAAAAAAT
38310625 TAAGAACTTT
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
30 19 0.59
31 2 0.06
33 11 0.34
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.38
Consensus pattern (32 bp):
TAAAAAAATATAAAGAATTATTCAATATATAT
Found at i:38320712 original size:37 final size:37
Alignment explanation
Indices: 38320662--38320734 Score: 146
Period size: 37 Copynumber: 2.0 Consensus size: 37
38320652 TTATTAGTAC
38320662 AATTGAAATGCATGTTAAAAGTAAACCAGAAGTTTAT
1 AATTGAAATGCATGTTAAAAGTAAACCAGAAGTTTAT
38320699 AATTGAAATGCATGTTAAAAGTAAACCAGAAGTTTA
1 AATTGAAATGCATGTTAAAAGTAAACCAGAAGTTTA
38320735 CTTATACAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.47, C:0.08, G:0.16, T:0.29
Consensus pattern (37 bp):
AATTGAAATGCATGTTAAAAGTAAACCAGAAGTTTAT
Found at i:38328219 original size:19 final size:21
Alignment explanation
Indices: 38328174--38328213 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
38328164 GATAAAATGT
*
38328174 ATAA-TTTATATATTTTTTAA
1 ATAATTTTATATATTTTATAA
38328194 ATAATTTTATA-ATTTTATAA
1 ATAATTTTATATATTTTATAA
38328214 TTATTTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
ATAATTTTATATATTTTATAA
Found at i:38333339 original size:18 final size:19
Alignment explanation
Indices: 38333306--38333341 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
38333296 TTAAATTTAG
*
38333306 TAAATTAATTGAATTATGT
1 TAAATTAAATGAATTATGT
38333325 TAAATTAAATG-ATTATG
1 TAAATTAAATGAATTATG
38333342 GTGCCAAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.44
Consensus pattern (19 bp):
TAAATTAAATGAATTATGT
Found at i:38333790 original size:68 final size:67
Alignment explanation
Indices: 38333718--38333867 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
38333708 CATCATGTGT
* * * *
38333718 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
38333780 ATGTAG
62 ATGTAG
** * *
38333786 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
38333851 AG
66 AG
38333853 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
38333868 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:38333823 original size:64 final size:64
Alignment explanation
Indices: 38333742--38333925 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
38333732 AGACATTATG
* *
38333742 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
38333806 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
38333871 AA
63 AA
* * * *
38333873 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
38333926 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:38342820 original size:24 final size:24
Alignment explanation
Indices: 38342793--38342842 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
38342783 CATGCATCGA
*
38342793 CATTCAAATCTGCACACATAGTGC
1 CATTCAAATCCGCACACATAGTGC
* *
38342817 CATTTAATTCCGCACACATAGTGC
1 CATTCAAATCCGCACACATAGTGC
38342841 CA
1 CA
38342843 ATGTTAACTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.32, C:0.30, G:0.12, T:0.26
Consensus pattern (24 bp):
CATTCAAATCCGCACACATAGTGC
Found at i:38342915 original size:94 final size:94
Alignment explanation
Indices: 38342798--38343173 Score: 662
Period size: 94 Copynumber: 4.0 Consensus size: 94
38342788 ATCGACATTC
* *
38342798 AAATCTGCACACATAGTGCCATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
38342863 GGCAATTTACTTAATTCAAATAGCATATA
66 GGCAATTTACTTAATTCAAATAGCATATA
* *
38342892 AAATCTGCACACAAAGTGACATTTAATTCAGTACACATAGTGCCAATGTTAACTCATTATAATAA
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
*
38342957 GGCAATTTACTTAATTCAAATAGCATATG
66 GGCAATTTACTTAATTCAAATAGCATATA
38342986 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
*
38343051 GGCAATTTACTTAATTCAAATAGCATGTA
66 GGCAATTTACTTAATTCAAATAGCATATA
* *
38343080 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCTTTATAATAT
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
* *
38343145 GGCAACTTACTTAATTCAAATAGCGTATA
66 GGCAATTTACTTAATTCAAATAGCATATA
38343174 CGGTCACATA
Statistics
Matches: 268, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
94 268 1.00
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.31
Consensus pattern (94 bp):
AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
GGCAATTTACTTAATTCAAATAGCATATA
Found at i:38344134 original size:122 final size:122
Alignment explanation
Indices: 38343917--38344162 Score: 483
Period size: 122 Copynumber: 2.0 Consensus size: 122
38343907 TAGATGGCCA
38343917 AATATACAATATCAATTATAATATCATTTTTAATTCATTTACACACATAGTTTCATCTCATGAAC
1 AATATACAATATCAATTATAATATCATTTTTAATTCATTTACACACATAGTTTCATCTCATGAAC
*
38343982 ACTTGACTGAATTTTTCCTAAACTAGTATAGCTTCACATCTATTTATAACATCATAT
66 ACTTGACCGAATTTTTCCTAAACTAGTATAGCTTCACATCTATTTATAACATCATAT
38344039 AATATACAATATCAATTATAATATCATTTTTAATTCATTTACACACATAGTTTCATCTCATGAAC
1 AATATACAATATCAATTATAATATCATTTTTAATTCATTTACACACATAGTTTCATCTCATGAAC
38344104 ACTTGACCGAATTTTTCCTAAACTAGTATAGCTTCACATCTATTTATAACATCATAT
66 ACTTGACCGAATTTTTCCTAAACTAGTATAGCTTCACATCTATTTATAACATCATAT
38344161 AA
1 AA
38344163 ATCCACATAT
Statistics
Matches: 123, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
122 123 1.00
ACGTcount: A:0.37, C:0.18, G:0.05, T:0.39
Consensus pattern (122 bp):
AATATACAATATCAATTATAATATCATTTTTAATTCATTTACACACATAGTTTCATCTCATGAAC
ACTTGACCGAATTTTTCCTAAACTAGTATAGCTTCACATCTATTTATAACATCATAT
Found at i:38357563 original size:37 final size:37
Alignment explanation
Indices: 38357513--38357591 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
38357503 TTATTACGAA
* *
38357513 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
38357550 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
38357587 GTCTT
1 GTCTT
38357592 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:38357787 original size:47 final size:47
Alignment explanation
Indices: 38357709--38358236 Score: 817
Period size: 47 Copynumber: 11.5 Consensus size: 47
38357699 CCCTTCGGGA
* * * * * * *
38357709 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
38357756 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38357803 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
38357850 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38357897 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
38357944 CTTATCAC-CATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
38357990 CTTAT-ACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38358036 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38358083 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG-
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38358129 CTTATCAC--ATATACACTTTCACATTCAT--CATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38358172 CTTATCAC--ATATACACTTTCACATTCAT--CATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38358215 CTTATCACATATATACACTTTC
1 CTTATCACATATATACACTTTC
38358237 TTGGCTGAAT
Statistics
Matches: 457, Mismatches: 19, Indels: 12
0.94 0.04 0.02
Matches are distributed among these distances:
42 13 0.03
43 50 0.11
44 20 0.04
45 14 0.03
46 93 0.20
47 267 0.58
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:38358118 original size:233 final size:226
Alignment explanation
Indices: 38357709--38358236 Score: 815
Period size: 233 Copynumber: 2.3 Consensus size: 226
38357699 CCCTTCGGGA
* * * * * * * *
38357709 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACA--TATACACTTTCACATTCATCA--TCGGCCATTAGGCCTTATCACACATATACAC
*
38357774 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
62 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATC
* *
38357839 GGCCATTAGGCCTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCA
127 GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG-CTTATCA
38357904 CATATATACACTTTCACATTCATCACATCGGCTATTAGGC
191 C--ATATACACTTTCACATTCAT--CATCGGCTATTAGGC
*
38357944 CTTATCACCATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTAT-ACACATATACACT
1 CTTATCA-CATATACACTTTCACATTCAT--CATCGGCCATTAGGCCTTATCACACATATACACT
*
38358008 TTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCG
63 TTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCG
38358073 GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCTTATCACA
128 GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCTTATCACA
38358138 TATACACTTTCACATTCATCATCGGCTATTAGGC
193 TATACACTTTCACATTCATCATCGGCTATTAGGC
*
38358172 CTTATCACATATACACTTTCACATTCATCATCGGCCATTAGGCCTTATCACATATATACACTTTC
1 CTTATCACATATACACTTTCACATTCATCATCGGCCATTAGGCCTTATCACACATATACACTTTC
38358237 TTGGCTGAAT
Statistics
Matches: 274, Mismatches: 15, Indels: 17
0.90 0.05 0.06
Matches are distributed among these distances:
225 19 0.07
226 15 0.05
227 21 0.08
228 22 0.08
230 20 0.07
232 8 0.03
233 129 0.47
234 29 0.11
235 7 0.03
236 4 0.01
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (226 bp):
CTTATCACATATACACTTTCACATTCATCATCGGCCATTAGGCCTTATCACACATATACACTTTC
ACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCC
ATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCTTATCACATAT
ACACTTTCACATTCATCATCGGCTATTAGGC
Found at i:38361807 original size:40 final size:40
Alignment explanation
Indices: 38361763--38361860 Score: 110
Period size: 40 Copynumber: 2.5 Consensus size: 40
38361753 ATGATTGCTA
* * *
38361763 TTCGGGACTTAGCCCGGATTTAGTAAC-TCGCACCAATGCC
1 TTCGGGACTTAGCCCGGATATAGTAACTTAGCA-CAAAGCC
* * *
38361803 TTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAAGCC
1 TTCGGGA-CTTAGCCCGGATATAGTAACTTAGCACAAAGCC
38361843 TTCGGGACTTAGCCCGGA
1 TTCGGGACTTAGCCCGGA
38361861 CATCATTCGA
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
39 3 0.06
40 38 0.79
41 7 0.15
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.26
Consensus pattern (40 bp):
TTCGGGACTTAGCCCGGATATAGTAACTTAGCACAAAGCC
Found at i:38362242 original size:29 final size:30
Alignment explanation
Indices: 38362170--38362244 Score: 102
Period size: 30 Copynumber: 2.5 Consensus size: 30
38362160 TAATCAACCA
*
38362170 CGCACACTTAGTGCCATGTACTTTAACACT
1 CGCACACTTAGTGCCATGCACTTTAACACT
38362200 CGCACACTTAGTGCCATGCA-TTTCAAGC-C-
1 CGCACACTTAGTGCCATGCACTTT-AA-CACT
38362229 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
38362245 ATCTCACAAC
Statistics
Matches: 42, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
29 19 0.45
30 22 0.52
31 1 0.02
ACGTcount: A:0.25, C:0.33, G:0.16, T:0.25
Consensus pattern (30 bp):
CGCACACTTAGTGCCATGCACTTTAACACT
Found at i:38362287 original size:43 final size:43
Alignment explanation
Indices: 38362226--38362328 Score: 197
Period size: 43 Copynumber: 2.4 Consensus size: 43
38362216 TGCATTTCAA
38362226 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
38362269 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
*
38362312 GCCTGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
38362329 TGAAAACCAA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 59 1.00
ACGTcount: A:0.26, C:0.35, G:0.16, T:0.23
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:38364249 original size:37 final size:37
Alignment explanation
Indices: 38364199--38364277 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
38364189 TTATTACGAA
* *
38364199 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
38364236 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
38364273 GTCTT
1 GTCTT
38364278 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:38364474 original size:47 final size:47
Alignment explanation
Indices: 38364396--38364934 Score: 898
Period size: 47 Copynumber: 11.5 Consensus size: 47
38364386 CCCTTCGGGA
* * * * * * *
38364396 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
38364443 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38364490 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
38364537 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
38364584 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
38364631 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
38364678 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38364725 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38364772 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38364819 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38364866 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38364913 CTTATCACATATATACACTTTC
1 CTTATCACATATATACACTTTC
38364935 TTGGCTGAAT
Statistics
Matches: 471, Mismatches: 21, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 471 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:38367414 original size:49 final size:48
Alignment explanation
Indices: 38367354--38367571 Score: 169
Period size: 48 Copynumber: 4.5 Consensus size: 48
38367344 GGGTGTCACA
* * * *
38367354 ATGTCCTAGACAGGTCTTACACTGGCTCTCATCTATCGGTGTCGATGCC
1 ATGTCCCAGACAGGTCTTACACTAGCTCTCATCTATCGATGCCGATG-C
* * * **
38367403 ATGTCCCAGACAGGTCTTACACTAGCT-TGCATATCTCGAAGTTGATGC
1 ATGTCCCAGACAGGTCTTACACTAGCTCT-CATCTATCGATGCCGATGC
* * * ** *
38367451 ATGTCCCAGACATGTCTTACAATAGCTCTC-GCT-TTAATACCGATGCC
1 ATGTCCCAGACAGGTCTTACACTAGCTCTCATCTATCGATGCCGATG-C
* * *
38367498 ATGTCCCAGACGTGGTCTTACACTGGCTCTCA--TATTG-TGGCCGATGC
1 ATGTCCCAGAC-AGGTCTTACACTAGCTCTCATCTATCGAT-GCCGATGC
*
38367545 ATGTCCCCAGACATGTCTTACACTAGC
1 ATGT-CCCAGACAGGTCTTACACTAGC
38367572 ACACATCCAT
Statistics
Matches: 135, Mismatches: 26, Indels: 18
0.75 0.15 0.10
Matches are distributed among these distances:
46 6 0.04
47 32 0.24
48 58 0.43
49 39 0.29
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.29
Consensus pattern (48 bp):
ATGTCCCAGACAGGTCTTACACTAGCTCTCATCTATCGATGCCGATGC
Found at i:38367554 original size:95 final size:95
Alignment explanation
Indices: 38367396--38367571 Score: 241
Period size: 95 Copynumber: 1.9 Consensus size: 95
38367386 CTATCGGTGT
**
38367396 CGATGCCATGTCCCAGACAGGTCTTACACTAGCTTGCATATCTCGAAGTTGATGCATGTCCCAGA
1 CGATGCCATGTCCCAGACAGGTCTTACACTAGCTTGCATATCTCGAAGCCGATGCATGTCCCAGA
38367461 CATGTCTTACAATAGCTCTCGCTTTAATAC
66 CATGTCTTACAATAGCTCTCGCTTTAATAC
* * **
38367491 CGATGCCATGTCCCAGACGTGGTCTTACACTGGCTCT-CATAT-T-GTGGCCGATGCATGTCCCC
1 CGATGCCATGTCCCAGAC-AGGTCTTACACTAGCT-TGCATATCTCGAAGCCGATGCATGT-CCC
*
38367553 AGACATGTCTTACACTAGC
63 AGACATGTCTTACAATAGC
38367572 ACACATCCAT
Statistics
Matches: 71, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
94 11 0.15
95 40 0.56
96 19 0.27
97 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (95 bp):
CGATGCCATGTCCCAGACAGGTCTTACACTAGCTTGCATATCTCGAAGCCGATGCATGTCCCAGA
CATGTCTTACAATAGCTCTCGCTTTAATAC
Found at i:38376846 original size:47 final size:47
Alignment explanation
Indices: 38376788--38376989 Score: 170
Period size: 47 Copynumber: 4.3 Consensus size: 47
38376778 TGCCGTGTCC
* **
38376788 CATGGTCTTACACTGGCTTAT-ATCTT-AATTCGATGCCATGTCCCAGA
1 CATGGTCTTACACTAGC-TATCATCTTGAAGCCGATG-CATGTCCCAGA
* * * *
38376835 CATGGTCTTACACT-GACTATCATCTTGTAGTCGACGTATGTCCCAGA
1 CATGGTCTTACACTAG-CTATCATCTTGAAGCCGATGCATGTCCCAGA
*
38376882 CAT-GTCTTACACTAGCT-T-ACTCTTGAAGCCGATGCATGTCCCAGG
1 CATGGTCTTACACTAGCTATCA-TCTTGAAGCCGATGCATGTCCCAGA
* * * *
38376927 CA-CGTCTTACACTAGC-ACTCGTC-TCAATGCCGATGCCATGTCCTAGA
1 CATGGTCTTACACTAGCTA-TCATCTTGAA-GCCGATG-CATGTCCCAGA
38376974 CATGGTCTTACACTAG
1 CATGGTCTTACACTAG
38376990 TTCACAAAAA
Statistics
Matches: 129, Mismatches: 14, Indels: 23
0.78 0.08 0.14
Matches are distributed among these distances:
44 1 0.01
45 39 0.30
46 26 0.20
47 45 0.35
48 18 0.14
ACGTcount: A:0.23, C:0.28, G:0.18, T:0.30
Consensus pattern (47 bp):
CATGGTCTTACACTAGCTATCATCTTGAAGCCGATGCATGTCCCAGA
Found at i:38384635 original size:630 final size:630
Alignment explanation
Indices: 38383433--38384692 Score: 2362
Period size: 630 Copynumber: 2.0 Consensus size: 630
38383423 GACACGCCCA
38383433 TGTGTAAAAACCTGAACATTCTATTTCTGACGTTAGCATTTCTTAAGGGTCACTGTAATATCCTG
1 TGTGTAAAAACCTGAACATTCTATTTCTGACGTTAGCATTTCTTAAGGGTCACTGTAATATCCTG
38383498 AATTAGGGCTTAATCGGAATAGTGGTTTCATGACCACAAATGCGAGATAGAAATAATTATTTTAT
66 AATTAGGGCTTAATCGGAATAGTGGTTTCATGACCACAAATGCGAGATAGAAATAATTATTTTAT
*
38383563 AATTATTTTGATGAATATGATATGATTGCATGATTGTGTGACAATTTCGTGATGAAATTCTATGC
131 AATTATTTTGATGAATATGATATGATTGCATGATTGTGTGAAAATTTCGTGATGAAATTCTATGC
*
38383628 CTAAAGTGTTTAAATTGAAAGTAGGGACTAAATCGAATAAGTTGCAAAATTTGCATTCTAGAAGT
196 CTAAAGTGTTTAAATTGAAAGTAAGGACTAAATCGAATAAGTTGCAAAATTTGCATTCTAGAAGT
38383693 TTTTAGTATGAAATTGCATTGAAATATTAATTAGGAGGTCTTAAATAGCAATTTGACCAATTTCT
261 TTTTAGTATGAAATTGCATTGAAATATTAATTAGGAGGTCTTAAATAGCAATTTGACCAATTTCT
38383758 AAGTCTATGGACAAAAATTGGACATGGATGGAATTTTTGGAAAGTTTAGTAGTAAGGGCATTTTG
326 AAGTCTATGGACAAAAATTGGACATGGATGGAATTTTTGGAAAGTTTAGTAGTAAGGGCATTTTG
38383823 GTCATTTAGTTATTAAAATGAATTAAAAACAAAATTAAAAGCCAATTTTTGTCCATCTTCTTCAT
391 GTCATTTAGTTATTAAAATGAATTAAAAACAAAATTAAAAGCCAATTTTTGTCCATCTTCTTCAT
* * *
38383888 TACGCTGAAATTTCAAGGGTTCTCCATTGTTAGGGTTTGTTTCAAGCTTCCAAGCTCCAAGTAAG
456 TACGCCGAAATTTCAAGGGTTCTCCATAGTTAGAGTTTGTTTCAAGCTTCCAAGCTCCAAGTAAG
38383953 TGATTCCAAGCCCCGTTTTTAATGTTCTTTACGTTTTTGGAATCTCGGTAGCTCGATTAAGCTTA
521 TGATTCCAAGCCCCGTTTTTAATGTTCTTTACGTTTTTGGAATCTCGGTAGCTCGATTAAGCTTA
*
38384018 TGTTAGTAATAATTCAACCTAGGGTTTATATTTGGAAAAATACCC
586 TGTTAGCAATAATTCAACCTAGGGTTTATATTTGGAAAAATACCC
* *
38384063 TGTGTAAAAACCTGAACATTCTGTTTCTGACGTTAGCATTTGTTAAGGGTCACTGTAATATCCTG
1 TGTGTAAAAACCTGAACATTCTATTTCTGACGTTAGCATTTCTTAAGGGTCACTGTAATATCCTG
** *
38384128 AATTAGGGCTTAATCGGAATAGTGGTTTTGTGGCCACAAAT-CTGAGATAGAAATAATTATTTTA
66 AATTAGGGCTTAATCGGAATAGTGGTTTCATGACCACAAATGC-GAGATAGAAATAATTATTTTA
*
38384192 TAATTATTTTGATGAATATGATATGATTGTATGATTGTGTGAAAATTTCGTGATGAAATTCTATG
130 TAATTATTTTGATGAATATGATATGATTGCATGATTGTGTGAAAATTTCGTGATGAAATTCTATG
38384257 CCTAAAGTGTTTAAATTGAAAGTAAGGACTAAATCGAATAAGTTGCAAAATTTGCATTCTAGAAG
195 CCTAAAGTGTTTAAATTGAAAGTAAGGACTAAATCGAATAAGTTGCAAAATTTGCATTCTAGAAG
38384322 TTTTTAGTATGAAATTGCATTGAAATATTAATTAGGAGGTCTTAAATAGCAATTTGACCAATTTC
260 TTTTTAGTATGAAATTGCATTGAAATATTAATTAGGAGGTCTTAAATAGCAATTTGACCAATTTC
38384387 TAAGTCTATGGACAAAAATTGGACATGGATGGAATTTTTGGAAAGTTTAGTAGTAAGGGCATTTT
325 TAAGTCTATGGACAAAAATTGGACATGGATGGAATTTTTGGAAAGTTTAGTAGTAAGGGCATTTT
38384452 GGTCATTTAGTTATTAAAATGAATTAAAAACAAAATTAAAAGCCAATTTTTGTCCATCTTCTTCA
390 GGTCATTTAGTTATTAAAATGAATTAAAAACAAAATTAAAAGCCAATTTTTGTCCATCTTCTTCA
* *
38384517 TTAGGCCGAAATTTCAAGGGTTCTTCATAGTTAGAGTTTGTTTCAAGCTTCCAAGCTCCATAGTA
455 TTACGCCGAAATTTCAAGGGTTCTCCATAGTTAGAGTTTGTTTCAAGCTTCCAAGCTCCA-AGTA
38384582 AGTGATTCCAAGCCCCG-TTTTAATGTTCTTTACGTTTTTGGAATCTCGGTAGCTCGATTAAGCT
519 AGTGATTCCAAGCCCCGTTTTTAATGTTCTTTACGTTTTTGGAATCTCGGTAGCTCGATTAAGCT
38384646 TATGTTAGCAATAATTCAACCTAGGGTTTATATTTGGAAAAATACCC
584 TATGTTAGCAATAATTCAACCTAGGGTTTATATTTGGAAAAATACCC
38384693 ATAGGTGAAA
Statistics
Matches: 614, Mismatches: 14, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
629 1 0.00
630 592 0.96
631 21 0.03
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.36
Consensus pattern (630 bp):
TGTGTAAAAACCTGAACATTCTATTTCTGACGTTAGCATTTCTTAAGGGTCACTGTAATATCCTG
AATTAGGGCTTAATCGGAATAGTGGTTTCATGACCACAAATGCGAGATAGAAATAATTATTTTAT
AATTATTTTGATGAATATGATATGATTGCATGATTGTGTGAAAATTTCGTGATGAAATTCTATGC
CTAAAGTGTTTAAATTGAAAGTAAGGACTAAATCGAATAAGTTGCAAAATTTGCATTCTAGAAGT
TTTTAGTATGAAATTGCATTGAAATATTAATTAGGAGGTCTTAAATAGCAATTTGACCAATTTCT
AAGTCTATGGACAAAAATTGGACATGGATGGAATTTTTGGAAAGTTTAGTAGTAAGGGCATTTTG
GTCATTTAGTTATTAAAATGAATTAAAAACAAAATTAAAAGCCAATTTTTGTCCATCTTCTTCAT
TACGCCGAAATTTCAAGGGTTCTCCATAGTTAGAGTTTGTTTCAAGCTTCCAAGCTCCAAGTAAG
TGATTCCAAGCCCCGTTTTTAATGTTCTTTACGTTTTTGGAATCTCGGTAGCTCGATTAAGCTTA
TGTTAGCAATAATTCAACCTAGGGTTTATATTTGGAAAAATACCC
Found at i:38385567 original size:93 final size:93
Alignment explanation
Indices: 38385408--38385578 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
38385398 GGATGGTTGA
* * * * *
38385408 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCATTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGGTCACTTATGGACGCGAACGTCCGAACTCGTTGAGT
38385473 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
38385501 GCATCCGAACTCGTTGAGTTGAGTCCGAGGTCACTTATGGACGCGAACG-CTCGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGGTCACTTATGGACGCGAACGTC-CGAACTCGTTGAG
38385565 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
38385579 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 1 0.01
93 70 0.99
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGGTCACTTATGGACGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:38385581 original size:46 final size:46
Alignment explanation
Indices: 38385411--38385583 Score: 174
Period size: 46 Copynumber: 3.7 Consensus size: 46
38385401 TGGTTGAGCA
* * *
38385411 TCCGAACTCGTTGAGTTGAGTCTGAGTTCATTTATGGATGCGAATG-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGA-GCGAACGC
* * * * * *
38385457 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAAATGTAAC-TAGGC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATGGAGCGAACGC
*
38385503 ATCCGAACTCGTTGAGTTGAGTCCGAGGTCACTTATGGACGCGAACGC
1 -TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGA-GCGAACGC
*
38385551 T-CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
38385584 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
45 3 0.03
46 63 0.61
47 34 0.33
48 4 0.04
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGAGCGAACGC
Found at i:38390996 original size:44 final size:43
Alignment explanation
Indices: 38390937--38391084 Score: 149
Period size: 43 Copynumber: 3.4 Consensus size: 43
38390927 AATGTGATAT
* * *
38390937 TCGGGCCTCA-GCCTAGCAAGCTTTAA-GCTGGTGA-ATAATATTA
1 TCGGGCTTCAGGCCTAGCAAGCTATAATGCCGGTGAGAT-A-A-TA
* *
38390980 TCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAGATAATA
1 TCGGGCTTCAGGCCTAGCAAGCTATAATGCCGGTGAGATAATA
* * * * *
38391023 TCGGGCTTCAGGCCTAGTAGGCTATAATGCCGATGAAATGATA
1 TCGGGCTTCAGGCCTAGCAAGCTATAATGCCGGTGAGATAATA
*
38391066 TCGGGCTTCAAGCCTAGCA
1 TCGGGCTTCAGGCCTAGCA
38391085 GGAGAAATGC
Statistics
Matches: 90, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
43 65 0.72
44 15 0.17
45 8 0.09
46 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (43 bp):
TCGGGCTTCAGGCCTAGCAAGCTATAATGCCGGTGAGATAATA
Found at i:38391025 original size:43 final size:43
Alignment explanation
Indices: 38390973--38391086 Score: 165
Period size: 43 Copynumber: 2.7 Consensus size: 43
38390963 GCTGGTGAAT
* * *
38390973 AATATTATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGA
1 AATAATATCGGGCTTCAGGCCTAGCAGGCTATAATGCCGATGA
* *
38391016 GATAATATCGGGCTTCAGGCCTAGTAGGCTATAATGCCGATGA
1 AATAATATCGGGCTTCAGGCCTAGCAGGCTATAATGCCGATGA
* *
38391059 AATGATATCGGGCTTCAAGCCTAGCAGG
1 AATAATATCGGGCTTCAGGCCTAGCAGG
38391087 AGAAATGCCA
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 62 1.00
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (43 bp):
AATAATATCGGGCTTCAGGCCTAGCAGGCTATAATGCCGATGA
Found at i:38405064 original size:20 final size:20
Alignment explanation
Indices: 38405023--38405064 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 20
38405013 ATAAATATAT
*
38405023 ATGTTATATATATTAACTTTA
1 ATGTTATATATAATAAC-TTA
38405044 ATGTATATATATAATAA-TTA
1 ATGT-TATATATAATAACTTA
38405064 A
1 A
38405065 AATGAATGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 4 0.21
21 4 0.21
22 11 0.58
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (20 bp):
ATGTTATATATAATAACTTA
Found at i:38407165 original size:17 final size:17
Alignment explanation
Indices: 38407115--38407167 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 17
38407105 ACGGCTTGGT
38407115 CACATGGGCATGTGTCA
1 CACATGGGCATGTGTCA
* * *
38407132 CACACGAGCA----ACA
1 CACATGGGCATGTGTCA
38407145 CACATGGGCATGTGTCA
1 CACATGGGCATGTGTCA
38407162 CACATG
1 CACATG
38407168 AGCGTGTGAC
Statistics
Matches: 26, Mismatches: 6, Indels: 8
0.65 0.15 0.20
Matches are distributed among these distances:
13 10 0.38
17 16 0.62
ACGTcount: A:0.30, C:0.28, G:0.25, T:0.17
Consensus pattern (17 bp):
CACATGGGCATGTGTCA
Found at i:38416111 original size:20 final size:20
Alignment explanation
Indices: 38416086--38416126 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
38416076 TCTACAGACC
*
38416086 AAAATTTTCAAA-ATTTTCCT
1 AAAATTTGCAAATA-TTTCCT
38416106 AAAATTTGCAAATATTTCCT
1 AAAATTTGCAAATATTTCCT
38416126 A
1 A
38416127 TTTAGTTCTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 18 0.95
21 1 0.05
ACGTcount: A:0.41, C:0.15, G:0.02, T:0.41
Consensus pattern (20 bp):
AAAATTTGCAAATATTTCCT
Found at i:38418453 original size:12 final size:13
Alignment explanation
Indices: 38418436--38418473 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
38418426 ATCCTGGAAT
38418436 ATTAAG-ACAAGA
1 ATTAAGAACAAGA
*
38418448 ATTAAGAACACATA
1 ATTAAGAACA-AGA
38418462 ATTAAGAACAAG
1 ATTAAGAACAAG
38418474 TCAAATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 6 0.27
13 4 0.18
14 12 0.55
ACGTcount: A:0.58, C:0.11, G:0.13, T:0.18
Consensus pattern (13 bp):
ATTAAGAACAAGA
Found at i:38424803 original size:12 final size:13
Alignment explanation
Indices: 38424767--38424804 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
38424757 AAATATTTGA
38424767 CTTGTTCTTAATT
1 CTTGTTCTTAATT
*
38424780 ATGTGTTCTTAATT
1 CT-TGTTCTTAATT
38424794 CTTG-TCTTAAT
1 CTTGTTCTTAAT
38424805 ATTCCAGGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 7 0.32
13 3 0.14
14 12 0.55
ACGTcount: A:0.18, C:0.13, G:0.11, T:0.58
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:38426700 original size:27 final size:27
Alignment explanation
Indices: 38426670--38426749 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
38426660 TTACAATAGG
38426670 AGGTTGGAGGAACCACCCAAATTTTTC
1 AGGTTGGAGGAACCACCCAAATTTTTC
** *
38426697 AGGTTGGAGGAACCACTTACAA---TGC
1 AGGTTGGAGGAACCACCCA-AATTTTTC
38426722 AGGTTGGAGGAACCACCCAAATTTTTC
1 AGGTTGGAGGAACCACCCAAATTTTTC
38426749 A
1 A
38426750 TAGGGAGGCC
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
24 2 0.05
25 19 0.44
27 20 0.47
28 2 0.05
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.24
Consensus pattern (27 bp):
AGGTTGGAGGAACCACCCAAATTTTTC
Found at i:38426730 original size:25 final size:25
Alignment explanation
Indices: 38426656--38426737 Score: 85
Period size: 25 Copynumber: 3.2 Consensus size: 25
38426646 CTTGCTTGGT
*
38426656 CCACTTACAATAGGAGGTTGGAGGAA
1 CCACTTACAAT-GCAGGTTGGAGGAA
** *
38426682 CCACCCA-AATTTTTCAGGTTGGAGGAA
1 CCACTTACAA---TGCAGGTTGGAGGAA
38426709 CCACTTACAATGCAGGTTGGAGGAA
1 CCACTTACAATGCAGGTTGGAGGAA
38426734 CCAC
1 CCAC
38426738 CCAAATTTTT
Statistics
Matches: 45, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
25 20 0.44
26 5 0.11
27 17 0.38
28 3 0.07
ACGTcount: A:0.32, C:0.22, G:0.26, T:0.21
Consensus pattern (25 bp):
CCACTTACAATGCAGGTTGGAGGAA
Found at i:38432405 original size:40 final size:40
Alignment explanation
Indices: 38432328--38432544 Score: 280
Period size: 40 Copynumber: 5.5 Consensus size: 40
38432318 AAACCAAGTA
* * * *
38432328 CCTTCGGAATTTAG-CCGGATATAGCT-ACTTGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
38432367 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
38432407 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
38432447 CCTTCGGGACTTAGCCCGGATATAGTAACTCGGACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
38432487 CCTTCGGG-CTTAGCCC-AAAATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
*
38432526 CCTTCTGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
38432545 GTATCATCTG
Statistics
Matches: 159, Mismatches: 14, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
38 2 0.01
39 43 0.27
40 114 0.72
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:38437835 original size:28 final size:28
Alignment explanation
Indices: 38437767--38437842 Score: 107
Period size: 28 Copynumber: 2.7 Consensus size: 28
38437757 ATCAAATATG
*
38437767 ACACTTAGTGTGCGAAATATTGAGAATA
1 ACACTTAGTGTGTGAAATATTGAGAATA
* *
38437795 ACACATAGTGTGTGAAATATTGAGAATG
1 ACACTTAGTGTGTGAAATATTGAGAATA
* *
38437823 GCACTTAGTGTGTTAAATAT
1 ACACTTAGTGTGTGAAATAT
38437843 CGAATGATTC
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.37, C:0.09, G:0.22, T:0.32
Consensus pattern (28 bp):
ACACTTAGTGTGTGAAATATTGAGAATA
Found at i:38440689 original size:26 final size:26
Alignment explanation
Indices: 38440660--38440711 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
38440650 AATACCTAAG
38440660 GAAAAATCCACCTAGACTTCACTTGT
1 GAAAAATCCACCTAGACTTCACTTGT
38440686 GAAAAATCCACCTAGACTTCACTTGT
1 GAAAAATCCACCTAGACTTCACTTGT
38440712 TATTTGAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.27, G:0.12, T:0.27
Consensus pattern (26 bp):
GAAAAATCCACCTAGACTTCACTTGT
Found at i:38453991 original size:19 final size:18
Alignment explanation
Indices: 38453944--38453996 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 18
38453934 AAAAATGATT
38453944 TTTATTTCTATTTAATAA
1 TTTATTTCTATTTAATAA
*
38453962 TTTATCATCTA-TTAATAA
1 TTTAT-TTCTATTTAATAA
38453980 TATTGATTTCTAATTTA
1 T-TT-ATTTCT-ATTTA
38453997 GTCCTTAGTC
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
18 13 0.46
19 9 0.32
20 3 0.11
21 3 0.11
ACGTcount: A:0.34, C:0.08, G:0.02, T:0.57
Consensus pattern (18 bp):
TTTATTTCTATTTAATAA
Found at i:38459454 original size:44 final size:44
Alignment explanation
Indices: 38459381--38459464 Score: 118
Period size: 44 Copynumber: 1.9 Consensus size: 44
38459371 TTGATATCTC
*
38459381 AAAGTCCATGGTTGTACCATGGCAATTAAGGAAGAATTGACGGA
1 AAAGTCCATGGTTGTAACATGGCAATTAAGGAAGAATTGACGGA
*
38459425 AAAGTCCAT-GTTGATAACAT-GCAATTTAAGGAGGAATTGA
1 AAAGTCCATGGTTG-TAACATGGCAA-TTAAGGAAGAATTGA
38459465 AGGTTAAGGA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
43 8 0.22
44 28 0.78
ACGTcount: A:0.38, C:0.12, G:0.25, T:0.25
Consensus pattern (44 bp):
AAAGTCCATGGTTGTAACATGGCAATTAAGGAAGAATTGACGGA
Found at i:38459669 original size:47 final size:47
Alignment explanation
Indices: 38459603--38459778 Score: 169
Period size: 47 Copynumber: 3.6 Consensus size: 47
38459593 GCATTGACAT
*
38459603 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGATAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
* * ** *
38459650 TAAGATAATGATATCATGTAAGACCATG---CCAATGCATGGCATTGATAAGTTCTA
1 TAAGATAAGGATACCATGTAAGACCATGTTTGGAA--CATGGCATT--T--G----G
*
38459704 TAAGATATGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGATAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
*
38459751 TAAGATAAGGATATCATGTAAGACCATG
1 TAAGATAAGGATACCATGTAAGACCATG
38459779 CGAAGGCATG
Statistics
Matches: 102, Mismatches: 14, Indels: 26
0.72 0.10 0.18
Matches are distributed among these distances:
44 2 0.02
46 9 0.09
47 51 0.50
48 1 0.01
50 1 0.01
51 1 0.01
53 1 0.01
54 25 0.25
55 9 0.09
57 2 0.02
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (47 bp):
TAAGATAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
Found at i:38459726 original size:101 final size:101
Alignment explanation
Indices: 38459603--38460049 Score: 443
Period size: 108 Copynumber: 4.3 Consensus size: 101
38459593 GCATTGACAT
*
38459603 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAATGATATCATG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATG
*
38459668 TAAGACCATGCCAATGCATGGCATTGATAAGTTCTA
66 TAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
* *
38459704 TAAGATATGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATG
*
38459769 TAAGACCATGCGAAGGCATGGCATTGATAAGTTCTA
66 TAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
* * * *** ** *
38459805 TAAGGCAAGGAAATCATGTAAGACCATGTCAAG-ACATGGCATTGATGAGTTACTATAAGGCAAA
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATT--TG-G-TAAGATAAGG-ATA
* *
38459869 GGTCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-A
61 --T--CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
* * * *** ** *
38459913 TAAGGCAAGGATACCATGAAAGAGCATGTCAAG-ACATGGCATTGATGAGTTACTATAAGGCAAA
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATT--TG-G-TAAGATAAGG-ATA
* * *
38459977 GGTCCCATGTAATACCATGCCAAGGCATGGCATTGGTGAGTTC-A
61 --T--CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
*
38460021 TAAGGCAAGGATACCATGTAAGACCATGT
1 TAAGACAAGGATACCATGTAAGACCATGT
38460050 CAAGACATGG
Statistics
Matches: 311, Mismatches: 26, Indels: 11
0.89 0.07 0.03
Matches are distributed among these distances:
100 10 0.03
101 121 0.39
102 2 0.01
103 1 0.00
104 8 0.03
105 2 0.01
107 1 0.00
108 131 0.42
109 35 0.11
ACGTcount: A:0.35, C:0.16, G:0.25, T:0.25
Consensus pattern (101 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATG
TAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
Found at i:38460073 original size:53 final size:54
Alignment explanation
Indices: 38459757--38460061 Score: 386
Period size: 55 Copynumber: 5.6 Consensus size: 54
38459747 TTGGTAAGAT
* * *
38459757 AAGGATATCATGTAAGACCATG-CGAAGGCATGGCATTGATAAGTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGTC-AAGACATGGCATTGATGAGTTCTATAAGGC
* *
38459811 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTT-CTATAAGGC
* * * *
38459866 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 -AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGC
* *
38459919 AAGGATACCATGAAAGAGCATGTCAAGACATGGCATTGATGAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTT-CTATAAGGC
* * * * *
38459974 AAAGG-TCCCATGTAATACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 -AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGC
38460027 AAGGATACCATGTAAGACCATGTCAAGACATGGCA
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCA
38460062 ATGGTAAGTT
Statistics
Matches: 217, Mismatches: 26, Indels: 17
0.83 0.10 0.07
Matches are distributed among these distances:
52 8 0.04
53 74 0.34
54 43 0.20
55 84 0.39
56 8 0.04
ACGTcount: A:0.35, C:0.17, G:0.26, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGC
Found at i:38460097 original size:108 final size:108
Alignment explanation
Indices: 38459765--38460061 Score: 513
Period size: 108 Copynumber: 2.7 Consensus size: 108
38459755 ATAAGGATAT
* * * * *
38459765 CATGTAAGACCATGCGAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGACC
1 CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGCAAGGATACCATGTAAGACC
38459830 ATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCC
65 ATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCC
* *
38459874 CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAAGGATACCATGAAAGAGCA
1 CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAAGGATACCATGTAAGACCA
38459939 TGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCC
66 TGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCC
*
38459982 CATGTAATACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAAGGATACCATGTAAGACCA
1 CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAAGGATACCATGTAAGACCA
38460047 TGTCAAGACATGGCA
66 TGTCAAGACATGGCA
38460062 ATGGTAAGTT
Statistics
Matches: 178, Mismatches: 10, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
108 143 0.80
109 35 0.20
ACGTcount: A:0.35, C:0.18, G:0.26, T:0.22
Consensus pattern (108 bp):
CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAAGGATACCATGTAAGACCA
TGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCC
Found at i:38460172 original size:58 final size:58
Alignment explanation
Indices: 38460082--38460199 Score: 236
Period size: 58 Copynumber: 2.0 Consensus size: 58
38460072 CAAAAAGGAA
38460082 AAGGTTCCCGAGTAATCCAAAGAGTAACTCAAAGAAACGACAAGGTGAGAACATGAAG
1 AAGGTTCCCGAGTAATCCAAAGAGTAACTCAAAGAAACGACAAGGTGAGAACATGAAG
38460140 AAGGTTCCCGAGTAATCCAAAGAGTAACTCAAAGAAACGACAAGGTGAGAACATGAAG
1 AAGGTTCCCGAGTAATCCAAAGAGTAACTCAAAGAAACGACAAGGTGAGAACATGAAG
38460198 AA
1 AA
38460200 TGAGTATTGT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 60 1.00
ACGTcount: A:0.46, C:0.17, G:0.24, T:0.14
Consensus pattern (58 bp):
AAGGTTCCCGAGTAATCCAAAGAGTAACTCAAAGAAACGACAAGGTGAGAACATGAAG
Found at i:38470281 original size:48 final size:48
Alignment explanation
Indices: 38470229--38470465 Score: 303
Period size: 48 Copynumber: 4.9 Consensus size: 48
38470219 GAATCCATAA
* * * *
38470229 ATCATCACTGATACCATGTCCCAGACATGCTCTTACACTGGCACACAT
1 ATCATCGCTGATGCCATGTCCCAGACATGGTCTTACACAGGCACACAT
* * *
38470277 ATCATTGCCGATGCCATGTCCCAGACATGGTCTTACGCAGGCACACAT
1 ATCATCGCTGATGCCATGTCCCAGACATGGTCTTACACAGGCACACAT
* * * * *
38470325 TTTATCGTTGATGCCATGTCCCAAACATGGTCTTACACAGGCACATAT
1 ATCATCGCTGATGCCATGTCCCAGACATGGTCTTACACAGGCACACAT
* * * *
38470373 ATCATCGCCGATACCATGTCCCAGACATGGTCTTACACAGGCATATAT
1 ATCATCGCTGATGCCATGTCCCAGACATGGTCTTACACAGGCACACAT
* * *
38470421 ATCATCTCTAATGCCATGTCCCAAACATGGTCTTACACAGGCACA
1 ATCATCGCTGATGCCATGTCCCAGACATGGTCTTACACAGGCACA
38470466 TTTACCACGG
Statistics
Matches: 161, Mismatches: 28, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 161 1.00
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.26
Consensus pattern (48 bp):
ATCATCGCTGATGCCATGTCCCAGACATGGTCTTACACAGGCACACAT
Found at i:38478132 original size:96 final size:96
Alignment explanation
Indices: 38477939--38478125 Score: 266
Period size: 96 Copynumber: 1.9 Consensus size: 96
38477929 TACATGAATC
* * * * *
38477939 CACATATCATTGTCGATGCCATGTCCCATACATGATCTAACACTGGCACACATATCATCGCCGAT
1 CACATATCATCGTCGATGCCATGTCCCACACATGATCTAACACAGGAACACATATCATCACCGAT
* *
38478004 TCCATGTCCCAAACATGGTCTTACACTAGCA
66 GCCATATCCCAAACATGGTCTTACACTAGCA
* * **
38478035 CACATATCATCGTCGATGCCATGTCCCACACATGGTCTTACACAGGAACATTTATCATCACCGAT
1 CACATATCATCGTCGATGCCATGTCCCACACATGATCTAACACAGGAACACATATCATCACCGAT
*
38478100 GCCATATCCCAGACATGGTCTTACAC
66 GCCATATCCCAAACATGGTCTTACAC
38478126 AGGCACATTT
Statistics
Matches: 79, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
96 79 1.00
ACGTcount: A:0.29, C:0.32, G:0.14, T:0.26
Consensus pattern (96 bp):
CACATATCATCGTCGATGCCATGTCCCACACATGATCTAACACAGGAACACATATCATCACCGAT
GCCATATCCCAAACATGGTCTTACACTAGCA
Done.