Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr7
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: 47983841
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869652 characters in sequence are not A, C, G, or T
File 150 of 153
Found at i:46961435 original size:18 final size:17
Alignment explanation
Indices: 46961407--46961450 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 17
46961397 CCAATCTCTT
46961407 TTTTCTCTTTTTCATTCTC
1 TTTT-TCTTTTTCATT-TC
*
46961426 TTTTTCTTTTTTGATTTC
1 TTTTTC-TTTTTCATTTC
46961444 TTTTTCT
1 TTTTTCT
46961451 GTCTTCCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 1 0.04
18 10 0.43
19 12 0.52
ACGTcount: A:0.05, C:0.18, G:0.02, T:0.75
Consensus pattern (17 bp):
TTTTTCTTTTTCATTTC
Found at i:46979249 original size:49 final size:47
Alignment explanation
Indices: 46979191--46979543 Score: 589
Period size: 47 Copynumber: 7.4 Consensus size: 47
46979181 ATTGATGTAC
* * * * *
46979191 AAGTATATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
46979238 AAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
46979287 AAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
46979336 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
46979383 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
46979430 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
* * *
46979477 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
*
46979524 AAGTGTATAAATGTGATAAG
1 AAGTGTATATATGTGATAAG
46979544 TCCCGAAGGG
Statistics
Matches: 295, Mismatches: 9, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
47 203 0.69
49 92 0.31
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
Found at i:46981723 original size:33 final size:34
Alignment explanation
Indices: 46981680--46981744 Score: 96
Period size: 33 Copynumber: 1.9 Consensus size: 34
46981670 TTAAACAAAT
* *
46981680 TAATTACTAACACTTATTTAAGTTGAACTAAAAA
1 TAATTACTAACACGTATTTAAGCTGAACTAAAAA
*
46981714 TAATT-CTAACACGTATTTGAGCTGAACTAAA
1 TAATTACTAACACGTATTTAAGCTGAACTAAA
46981745 TTTAATAAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 23 0.82
34 5 0.18
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (34 bp):
TAATTACTAACACGTATTTAAGCTGAACTAAAAA
Found at i:46985730 original size:18 final size:18
Alignment explanation
Indices: 46985707--46985741 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
46985697 CGTGAAGTTG
46985707 TGATTCTTAAAAGATTCA
1 TGATTCTTAAAAGATTCA
46985725 TGATTCTTAAAAGATTC
1 TGATTCTTAAAAGATTC
46985742 CCTCATTGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.40
Consensus pattern (18 bp):
TGATTCTTAAAAGATTCA
Found at i:46987128 original size:33 final size:34
Alignment explanation
Indices: 46987085--46987159 Score: 107
Period size: 33 Copynumber: 2.2 Consensus size: 34
46987075 GAGTTAGTTT
* * *
46987085 ATTAAATTTAGTTCAGCTTCAATAAGTGTTAG-A
1 ATTAATTTTAGTTCAACTTAAATAAGTGTTAGTA
*
46987118 CTTAATTTTAGTTCAACTTAAATAAGTGTTAGTA
1 ATTAATTTTAGTTCAACTTAAATAAGTGTTAGTA
46987152 ATTAATTT
1 ATTAATTT
46987160 GTTTAAATCT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
33 28 0.78
34 8 0.22
ACGTcount: A:0.36, C:0.08, G:0.12, T:0.44
Consensus pattern (34 bp):
ATTAATTTTAGTTCAACTTAAATAAGTGTTAGTA
Found at i:46990406 original size:39 final size:39
Alignment explanation
Indices: 46990348--46990480 Score: 232
Period size: 39 Copynumber: 3.4 Consensus size: 39
46990338 TAGACACTCG
* *
46990348 GATCTGAAACGGAACAGAAAATTAAACTTAGAA-CTAACA
1 GATCTGAAACGAAATAGAAAATTAAACTTAGAATC-AACA
46990387 GATCTGAAACGAAATAGAAAATTAAACTTAGAATCAACA
1 GATCTGAAACGAAATAGAAAATTAAACTTAGAATCAACA
46990426 GATCTGAAACGAAATAGAAAATTAAACTTAGAATCAACA
1 GATCTGAAACGAAATAGAAAATTAAACTTAGAATCAACA
46990465 GATCTGAAACGAAATA
1 GATCTGAAACGAAATA
46990481 CCCAAAACAA
Statistics
Matches: 91, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
39 90 0.99
40 1 0.01
ACGTcount: A:0.53, C:0.14, G:0.14, T:0.20
Consensus pattern (39 bp):
GATCTGAAACGAAATAGAAAATTAAACTTAGAATCAACA
Found at i:46997187 original size:16 final size:15
Alignment explanation
Indices: 46997168--46997197 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
46997158 AGTATCAATT
46997168 TTTGATTGGTGATGAC
1 TTTGATTGG-GATGAC
46997184 TTTGATTGGGATGA
1 TTTGATTGGGATGA
46997198 TGGTTTTAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.20, C:0.03, G:0.33, T:0.43
Consensus pattern (15 bp):
TTTGATTGGGATGAC
Found at i:47012735 original size:27 final size:27
Alignment explanation
Indices: 47012705--47012882 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
47012695 ATATTGAGTC
* * * *
47012705 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
47012732 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
47012759 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
47012787 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
47012814 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
47012841 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
47012868 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
47012883 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:47012844 original size:82 final size:81
Alignment explanation
Indices: 47012726--47012881 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
47012716 TGCTATATAA
* *
47012726 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
47012791 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
47012808 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
47012872 CACTTAGTGC
65 CACTTAGTGC
47012882 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:47024489 original size:40 final size:40
Alignment explanation
Indices: 47024441--47024708 Score: 473
Period size: 40 Copynumber: 6.7 Consensus size: 40
47024431 GCAAACACAT
* * *
47024441 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
47024481 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
47024521 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
47024561 TTGCCTTCGGGTCCTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
47024601 TTGCCTTCGGGTCCTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
47024641 TTGCCTTCGGGTCCTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
47024681 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
47024709 TCCAATGCTC
Statistics
Matches: 223, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 223 1.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:47031993 original size:27 final size:28
Alignment explanation
Indices: 47031963--47032029 Score: 84
Period size: 29 Copynumber: 2.4 Consensus size: 28
47031953 AACTGAAGGA
47031963 GAAAAAGAAAATG-AA-GAAAAGAAAATT
1 GAAAAAGAAAATGAAATGAAAA-AAAATT
* *
47031990 GAAAAAGAAATTGAAATTGAGAAAAAATT
1 GAAAAAGAAAATGAAA-TGAAAAAAAATT
47032019 GAAAAAGAAAA
1 GAAAAAGAAAA
47032030 AATGTTGAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
27 12 0.35
28 2 0.06
29 16 0.47
30 4 0.12
ACGTcount: A:0.69, C:0.00, G:0.18, T:0.13
Consensus pattern (28 bp):
GAAAAAGAAAATGAAATGAAAAAAAATT
Found at i:47032000 original size:12 final size:12
Alignment explanation
Indices: 47031963--47032005 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 12
47031953 AACTGAAGGA
*
47031963 GAAAAAGAAAAT
1 GAAAAAGAAATT
47031975 GAAGAAAAGAAAATT
1 G-A-AAAAG-AAATT
47031990 GAAAAAGAAATT
1 GAAAAAGAAATT
47032002 GAAA
1 GAAA
47032006 TTGAGAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
12 10 0.37
13 6 0.22
14 6 0.22
15 5 0.19
ACGTcount: A:0.70, C:0.00, G:0.19, T:0.12
Consensus pattern (12 bp):
GAAAAAGAAATT
Found at i:47032006 original size:18 final size:17
Alignment explanation
Indices: 47031985--47032022 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
47031975 GAAGAAAAGA
47031985 AAATTGAAAAAGAAATTG
1 AAATTGAAAAA-AAATTG
*
47032003 AAATTGAGAAAAAATTG
1 AAATTGAAAAAAAATTG
47032020 AAA
1 AAA
47032023 AAGAAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.63, C:0.00, G:0.16, T:0.21
Consensus pattern (17 bp):
AAATTGAAAAAAAATTG
Found at i:47032031 original size:17 final size:17
Alignment explanation
Indices: 47031990--47032045 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
47031980 AAAGAAAATT
**
47031990 GAAAAAGAAATTGAAATT
1 GAAAAA-AAATTGAAAAA
*
47032008 GAGAAAAAATTGAAAAA
1 GAAAAAAAATTGAAAAA
**
47032025 GAAAAAATGTTGAAAAA
1 GAAAAAAAATTGAAAAA
47032042 GAAA
1 GAAA
47032046 CGAGAGGAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
17 27 0.84
18 5 0.16
ACGTcount: A:0.66, C:0.00, G:0.18, T:0.16
Consensus pattern (17 bp):
GAAAAAAAATTGAAAAA
Found at i:47060585 original size:18 final size:20
Alignment explanation
Indices: 47060562--47060611 Score: 68
Period size: 18 Copynumber: 2.5 Consensus size: 20
47060552 AAAGGAAGAC
47060562 AGAAAAAGA-AATCAAAAA-
1 AGAAAAAGAGAATCAAAAAG
*
47060580 AGAAAAAGAGAATGAAAAAG
1 AGAAAAAGAGAATCAAAAAG
47060600 AGAAAAAAGAGA
1 AG-AAAAAGAGA
47060612 TTGAGAGTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 9 0.32
19 8 0.29
20 2 0.07
21 9 0.32
ACGTcount: A:0.74, C:0.02, G:0.20, T:0.04
Consensus pattern (20 bp):
AGAAAAAGAGAATCAAAAAG
Found at i:47071565 original size:395 final size:395
Alignment explanation
Indices: 47070835--47071584 Score: 1096
Period size: 395 Copynumber: 1.9 Consensus size: 395
47070825 ATTTGACAAA
* * *
47070835 GTGATACGAGTCACAAAGGCCCAACTCAAGCTCAAGAACGTGATGGGCTCAAATTACCACAGGGC
1 GTGATACGAGTCACAAAGGCCCAACCCAAGCCCAAGAACGTGATGGGCTCAAATTACCACAAGGC
* * * ** *
47070900 CCAATAATGAGGTCAAAGGCTAGGCAAATGCATACGAAACTAAATGGAACCATTCAAGAGTTCAT
66 CCAATAACGAGATCAAAGGCCAGAAAAATGCATACCAAACTAAATGGAACCATTCAAGAGTTCAT
* * *
47070965 TTGCAAGGCCTTAGATGTGTATACAAATGAAAAAGAAAATCAAGATTCACTTTCTTGCTTTCAAG
131 TAGCAAGGCCTTAGATGCGTACACAAATGAAAAAGAAAATCAAGATTCACTTTCTTGCTTTCAAG
47071030 AAAATCAAGAAACCGAATCTTGGTCCAATCTTGCTGTCTTCAGCGATTTCAAGAATCAAGAAAAT
196 AAAATCAAGAAACCGAATCTTGGTCCAATCTTGCTGTCTTCAGCGATTTCAAGAATCAAGAAAAT
* ** * *
47071095 CAAGATTTCAAATCTTGGAAATCTTGGCCCAAGAAACTGAATCTTGCAGCTAAGGCGCGTTGGAT
261 CAAGATTTCAAATCTTGGAAATATTGGCCCAAGAAACCAAATCTTGCAGCTAAAGCGCATTGGAT
*
47071160 CTCAGTTACGAGCATCAGCGAACCAATTTCAGGAGAAAACAGATCACAAATCCAAGTTCTTGAAG
326 CTCAGTTACGAGCATCAACGAACCAATTTCAGGAGAAAACAGATCACAAATCCAAGTTCTTGAAG
47071225 ACACG
391 ACACG
*
47071230 GTGATACGAGTCACAAAGGCCCAACCCAAGCCCAAGAACGTGATGGGCTCAAATTACCACAAGTC
1 GTGATACGAGTCACAAAGGCCCAACCCAAGCCCAAGAACGTGATGGGCTCAAATTACCACAAGGC
* ** * * * **
47071295 CCAATAACGAGATCAAAGGCCCGAAAAATGTGTTCCAAA-TGAAATGGGACCATTCAGGAGTTTG
66 CCAATAACGAGATCAAAGGCCAGAAAAATGCATACCAAACT-AAATGGAACCATTCAAGAGTTCA
* * * *
47071359 TTAGCAGGGCCTTAGATGCGTACATGAAA-GAAAGAGAAAATCAAGATTCACTTTCTTGTTTTCA
130 TTAGCAAGGCCTTAGATGCGTACA-CAAATGAAAAAGAAAATCAAGATTCACTTTCTTGCTTTCA
* *
47071423 AGCAAATCAAGAAACCGAATCTTGG-CCTAATCTTGCTGT-TTGGAGCGATTTCAAGAATCAAGA
194 AGAAAATCAAGAAACCGAATCTTGGTCC-AATCTTGCTGTCTT-CAGCGATTTCAAGAATCAAGA
* *
47071486 AAATCAAGATTTCAAATCTTGGAAATATTTGTCCAAGAAACCAAATCTTGCAG-TCAAAGCGCAT
257 AAATCAAGATTTCAAATCTTGGAAATATTGGCCCAAGAAACCAAATCTTGCAGCT-AAAGCGCAT
*
47071550 TGGATCTCCGTTACGAGCATCAACGAACCAATTTC
321 TGGATCTCAGTTACGAGCATCAACGAACCAATTTC
47071585 GGTAGAAGAT
Statistics
Matches: 314, Mismatches: 36, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
394 6 0.02
395 305 0.97
396 3 0.01
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (395 bp):
GTGATACGAGTCACAAAGGCCCAACCCAAGCCCAAGAACGTGATGGGCTCAAATTACCACAAGGC
CCAATAACGAGATCAAAGGCCAGAAAAATGCATACCAAACTAAATGGAACCATTCAAGAGTTCAT
TAGCAAGGCCTTAGATGCGTACACAAATGAAAAAGAAAATCAAGATTCACTTTCTTGCTTTCAAG
AAAATCAAGAAACCGAATCTTGGTCCAATCTTGCTGTCTTCAGCGATTTCAAGAATCAAGAAAAT
CAAGATTTCAAATCTTGGAAATATTGGCCCAAGAAACCAAATCTTGCAGCTAAAGCGCATTGGAT
CTCAGTTACGAGCATCAACGAACCAATTTCAGGAGAAAACAGATCACAAATCCAAGTTCTTGAAG
ACACG
Found at i:47077416 original size:17 final size:17
Alignment explanation
Indices: 47077384--47077417 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
47077374 ATGAAAATCA
47077384 GGCCAATTTGTCAAAGT
1 GGCCAATTTGTCAAAGT
47077401 GGCCTAATTTGT-AAAGT
1 GGCC-AATTTGTCAAAGT
47077418 TTTATTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (17 bp):
GGCCAATTTGTCAAAGT
Found at i:47080513 original size:38 final size:38
Alignment explanation
Indices: 47080471--47080548 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
47080461 TTGAATCAGA
*
47080471 GATAGGATAATTGGGTGGCAAGATCAATTAAAAATTGT
1 GATAGGATAATTGGGCGGCAAGATCAATTAAAAATTGT
47080509 GATAGGATAATTGGGCGGCAAGATCAATTAAAAATTGT
1 GATAGGATAATTGGGCGGCAAGATCAATTAAAAATTGT
47080547 GA
1 GA
47080549 ATAGAAAACG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.40, C:0.06, G:0.27, T:0.27
Consensus pattern (38 bp):
GATAGGATAATTGGGCGGCAAGATCAATTAAAAATTGT
Found at i:47081408 original size:30 final size:30
Alignment explanation
Indices: 47081374--47081446 Score: 146
Period size: 30 Copynumber: 2.4 Consensus size: 30
47081364 AGATTCGGAT
47081374 TCTTGATTTTCTTGAAAACAAGAAAGTGAA
1 TCTTGATTTTCTTGAAAACAAGAAAGTGAA
47081404 TCTTGATTTTCTTGAAAACAAGAAAGTGAA
1 TCTTGATTTTCTTGAAAACAAGAAAGTGAA
47081434 TCTTGATTTTCTT
1 TCTTGATTTTCTT
47081447 TTTCCTTCGT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.40
Consensus pattern (30 bp):
TCTTGATTTTCTTGAAAACAAGAAAGTGAA
Found at i:47087572 original size:79 final size:82
Alignment explanation
Indices: 47087461--47087645 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
47087451 GCTACTCGTT
* * *
47087461 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGG-TACTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGAT-CTTAACCC
* *
47087524 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
47087541 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
47087604 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
47087621 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
47087646 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
79 56 0.62
80 35 0.38
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:47087645 original size:40 final size:40
Alignment explanation
Indices: 47087442--47087645 Score: 220
Period size: 40 Copynumber: 5.1 Consensus size: 40
47087432 CGGAATTTAA
** *
47087442 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * * *
47087482 CCGGTTATAGTAACTCGCACAATTGCCTTCGGTACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
47087522 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
47087561 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
47087601 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
47087641 CCGGA
1 CCGGA
47087646 CATCATTCAA
Statistics
Matches: 137, Mismatches: 20, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 90 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:47088889 original size:11 final size:11
Alignment explanation
Indices: 47088873--47088897 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
47088863 CTCAAAACAG
47088873 CAAAATTGGAC
1 CAAAATTGGAC
47088884 CAAAATTGGAC
1 CAAAATTGGAC
47088895 CAA
1 CAA
47088898 GATTTGTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.20, G:0.16, T:0.16
Consensus pattern (11 bp):
CAAAATTGGAC
Found at i:47091933 original size:10 final size:9
Alignment explanation
Indices: 47091915--47091971 Score: 60
Period size: 10 Copynumber: 5.9 Consensus size: 9
47091905 TTTAATGTGG
47091915 TTCAGCTCA
1 TTCAGCTCA
47091924 TTCGAGCTCAA
1 TTC-AGCTC-A
*
47091935 GTCAGCTCA
1 TTCAGCTCA
47091944 TTCAAGCTCAA
1 TTC-AGCTC-A
47091955 TTCAGCTCA
1 TTCAGCTCA
*
47091964 TTGAGCTC
1 TTCAGCTC
47091972 GTTATTAGCT
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
9 14 0.34
10 20 0.49
11 7 0.17
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.30
Consensus pattern (9 bp):
TTCAGCTCA
Found at i:47091941 original size:20 final size:20
Alignment explanation
Indices: 47091916--47091971 Score: 87
Period size: 20 Copynumber: 2.9 Consensus size: 20
47091906 TTAATGTGGT
47091916 TCAGCTCATTCGAGCTCAAG
1 TCAGCTCATTCGAGCTCAAG
* *
47091936 TCAGCTCATTCAAGCTCAAT
1 TCAGCTCATTCGAGCTCAAG
47091956 TCAGCTCATT-GAGCTC
1 TCAGCTCATTCGAGCTC
47091972 GTTATTAGCT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 5 0.15
20 28 0.85
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.29
Consensus pattern (20 bp):
TCAGCTCATTCGAGCTCAAG
Found at i:47094446 original size:15 final size:16
Alignment explanation
Indices: 47094426--47094457 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
47094416 GGAAATTGAA
47094426 AAAGAAAAAGAA-ATG
1 AAAGAAAAAGAAGATG
47094441 AAAGAAAAAGAAGATG
1 AAAGAAAAAGAAGATG
47094457 A
1 A
47094458 GATTGAAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.72, C:0.00, G:0.22, T:0.06
Consensus pattern (16 bp):
AAAGAAAAAGAAGATG
Found at i:47094523 original size:21 final size:21
Alignment explanation
Indices: 47094484--47094523 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
47094474 GAAAGTATGT
* *
47094484 AAGAAACGAGTGTAATTGAAA
1 AAGAAACAAGAGTAATTGAAA
*
47094505 AAGAAACAAGAGTAGTTGA
1 AAGAAACAAGAGTAATTGA
47094524 GTTTTCTATG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.53, C:0.05, G:0.25, T:0.17
Consensus pattern (21 bp):
AAGAAACAAGAGTAATTGAAA
Found at i:47100611 original size:7 final size:7
Alignment explanation
Indices: 47100593--47100627 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
47100583 CAATTTTGTT
*
47100593 GTTTTGG
1 GTTTAGG
47100600 GTTTAGG
1 GTTTAGG
*
47100607 ATTTAGG
1 GTTTAGG
47100614 GTTTAGG
1 GTTTAGG
47100621 GTTTAGG
1 GTTTAGG
47100628 CGCATTGGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.14, C:0.00, G:0.40, T:0.46
Consensus pattern (7 bp):
GTTTAGG
Found at i:47102292 original size:20 final size:20
Alignment explanation
Indices: 47102269--47102312 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
47102259 AGCTCCAACC
*
47102269 AGCTCATTTGAGCTCAATTT
1 AGCTCATTCGAGCTCAATTT
47102289 AGCTCATTCGAGCTCAATTT
1 AGCTCATTCGAGCTCAATTT
47102309 AGCT
1 AGCT
47102313 TTCCATCAGC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (20 bp):
AGCTCATTCGAGCTCAATTT
Found at i:47106872 original size:19 final size:20
Alignment explanation
Indices: 47106838--47106893 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
47106828 AAACCAATTT
47106838 TAGCTCAATTTCAGCTCC-CC
1 TAGCTC-ATTTCAGCTCCACC
*
47106858 TAGCTCATTTTAGCTCCAACC
1 TAGCTCATTTCAGCTCC-ACC
*
47106879 -AGCTCATTTGAGCTC
1 TAGCTCATTTCAGCTC
47106894 AATTTAGCTC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 10 0.31
20 20 0.62
21 2 0.06
ACGTcount: A:0.21, C:0.34, G:0.12, T:0.32
Consensus pattern (20 bp):
TAGCTCATTTCAGCTCCACC
Found at i:47106902 original size:20 final size:20
Alignment explanation
Indices: 47106879--47106922 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
47106869 AGCTCCAACC
*
47106879 AGCTCATTTGAGCTCAATTT
1 AGCTCATTCGAGCTCAATTT
47106899 AGCTCATTCGAGCTCAATTT
1 AGCTCATTCGAGCTCAATTT
47106919 AGCT
1 AGCT
47106923 TTCCATCAGC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (20 bp):
AGCTCATTCGAGCTCAATTT
Found at i:47116024 original size:281 final size:281
Alignment explanation
Indices: 47115521--47116082 Score: 1124
Period size: 281 Copynumber: 2.0 Consensus size: 281
47115511 GGATTACAAG
47115521 CTCAAGTTCTTAAAGACAAGGCCCAATAAGATGTTTCAAGCCCAATGTAGGACAATGGCAAGAAG
1 CTCAAGTTCTTAAAGACAAGGCCCAATAAGATGTTTCAAGCCCAATGTAGGACAATGGCAAGAAG
47115586 AAGGTTGAAGATGGTTCCCACAATAAAAAAGATTGTTAAAACTACTTCTAAAGAAAACCCAAGAG
66 AAGGTTGAAGATGGTTCCCACAATAAAAAAGATTGTTAAAACTACTTCTAAAGAAAACCCAAGAG
47115651 AAAATTCTTGGAGAAACTCAAAGAGAATTTTCACTCAAAAATCTAAAATTTTAATGTAATGTAAT
131 AAAATTCTTGGAGAAACTCAAAGAGAATTTTCACTCAAAAATCTAAAATTTTAATGTAATGTAAT
47115716 TTAGGTGGCTGGCCAAGCCATACATATATAGGCCTCCTACTACTTTCCTAACCCTATTAGGAAAA
196 TTAGGTGGCTGGCCAAGCCATACATATATAGGCCTCCTACTACTTTCCTAACCCTATTAGGAAAA
47115781 CTAAGAAAAAACCTAATTGTT
261 CTAAGAAAAAACCTAATTGTT
47115802 CTCAAGTTCTTAAAGACAAGGCCCAATAAGATGTTTCAAGCCCAATGTAGGACAATGGCAAGAAG
1 CTCAAGTTCTTAAAGACAAGGCCCAATAAGATGTTTCAAGCCCAATGTAGGACAATGGCAAGAAG
47115867 AAGGTTGAAGATGGTTCCCACAATAAAAAAGATTGTTAAAACTACTTCTAAAGAAAACCCAAGAG
66 AAGGTTGAAGATGGTTCCCACAATAAAAAAGATTGTTAAAACTACTTCTAAAGAAAACCCAAGAG
47115932 AAAATTCTTGGAGAAACTCAAAGAGAATTTTCACTCAAAAATCTAAAATTTTAATGTAATGTAAT
131 AAAATTCTTGGAGAAACTCAAAGAGAATTTTCACTCAAAAATCTAAAATTTTAATGTAATGTAAT
47115997 TTAGGTGGCTGGCCAAGCCATACATATATAGGCCTCCTACTACTTTCCTAACCCTATTAGGAAAA
196 TTAGGTGGCTGGCCAAGCCATACATATATAGGCCTCCTACTACTTTCCTAACCCTATTAGGAAAA
47116062 CTAAGAAAAAACCTAATTGTT
261 CTAAGAAAAAACCTAATTGTT
47116083 GACTTTTAAA
Statistics
Matches: 281, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
281 281 1.00
ACGTcount: A:0.41, C:0.18, G:0.16, T:0.26
Consensus pattern (281 bp):
CTCAAGTTCTTAAAGACAAGGCCCAATAAGATGTTTCAAGCCCAATGTAGGACAATGGCAAGAAG
AAGGTTGAAGATGGTTCCCACAATAAAAAAGATTGTTAAAACTACTTCTAAAGAAAACCCAAGAG
AAAATTCTTGGAGAAACTCAAAGAGAATTTTCACTCAAAAATCTAAAATTTTAATGTAATGTAAT
TTAGGTGGCTGGCCAAGCCATACATATATAGGCCTCCTACTACTTTCCTAACCCTATTAGGAAAA
CTAAGAAAAAACCTAATTGTT
Found at i:47116791 original size:33 final size:34
Alignment explanation
Indices: 47116740--47116814 Score: 116
Period size: 33 Copynumber: 2.2 Consensus size: 34
47116730 AGATTTAAAC
*
47116740 AAATTAATTACTAACACTTATTTAAGGTGAACTA
1 AAATTAATTACTAACACTTATTTAAGCTGAACTA
*
47116774 AAATTAATT-CTAACACTTATTTGAGCTGAACTA
1 AAATTAATTACTAACACTTATTTAAGCTGAACTA
*
47116807 AATTTAAT
1 AAATTAAT
47116815 AAACTAACTC
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
33 29 0.76
34 9 0.24
ACGTcount: A:0.43, C:0.12, G:0.08, T:0.37
Consensus pattern (34 bp):
AAATTAATTACTAACACTTATTTAAGCTGAACTA
Found at i:47126980 original size:30 final size:30
Alignment explanation
Indices: 47126946--47127003 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
47126936 TTCGAGCTTG
*
47126946 GGGACAAAGA-TGTAATTATGCAAAAGTTTA
1 GGGACAAA-ATTGTAATTATCCAAAAGTTTA
*
47126976 GGGACAAAATTGTAATTTTCCAAAAGTT
1 GGGACAAAATTGTAATTATCCAAAAGTT
47127004 GAGTCGAAGC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 24 0.96
ACGTcount: A:0.41, C:0.09, G:0.21, T:0.29
Consensus pattern (30 bp):
GGGACAAAATTGTAATTATCCAAAAGTTTA
Found at i:47127533 original size:97 final size:100
Alignment explanation
Indices: 47127339--47127619 Score: 292
Period size: 97 Copynumber: 2.9 Consensus size: 100
47127329 TAAATAATGG
* * * *
47127339 TCACGTGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGAGAAGCTTTGAG-CATGTGTATAGT
1 TCACGTGTGTAGTACTAAGTGAAGGCTACTATGTGTACTGAAAAGCTTTG-GTCACGTGTGTAGT
* * * * *
47127403 ACTGTGTGAATGCTACTACGTCTATCGGTAAAC-T-A
65 ACTATGTGAAGGCTACTACGT-GAGCCGTAAACTTGA
* * * * *
47127438 -C-GGTGTGTAGTACTAAGTGAAGGCTACAATGGGTACTGAAAAGCTTTGGTCACATATGTAGTA
1 TCACGTGTGTAGTACTAAGTGAAGGCTACTATGTGTACTGAAAAGCTTTGGTCACGTGTGTAGTA
47127501 CTATGTGAAGGCTACTACGTGAGCCGTAAAACTTGA
66 CTATGTGAAGGCTACTACGTGAGCCGT-AAACTTGA
* * * *
47127537 TCACGT-TGTAGTACTATGTGAAGGCTACTACGTGAACTGTAAAA-C--TGATCACGTGTGTAGT
1 TCACGTGTGTAGTACTAAGTGAAGGCTACTATGTGTACTG-AAAAGCTTTGGTCACGTGTGTAGT
*
47127598 ACTATGTGAAGGCTACAACGTG
65 ACTATGTGAAGGCTACTACGTG
47127620 TACCGAATGA
Statistics
Matches: 151, Mismatches: 24, Indels: 15
0.79 0.13 0.08
Matches are distributed among these distances:
96 5 0.03
97 73 0.48
98 36 0.24
99 1 0.01
100 30 0.20
101 6 0.04
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGAAGGCTACTATGTGTACTGAAAAGCTTTGGTCACGTGTGTAGTA
CTATGTGAAGGCTACTACGTGAGCCGTAAACTTGA
Found at i:47127554 original size:49 final size:49
Alignment explanation
Indices: 47127339--47127624 Score: 217
Period size: 49 Copynumber: 5.8 Consensus size: 49
47127329 TAAATAATGG
* * * *
47127339 TCACGTGTGTAGTACTAAGTGAAGGCTACTATGTGTACCG-AGAAGCTTTGA
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTA-AAAC--TGA
* * * * * * * *
47127390 GCATGTGTATAGTACTGTGTGAATGCTACTACGTCTATCGGT-AAACT-A
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGT-GAACCGTAAAACTGA
* * * * * * * *
47127438 -C-GGTGTGTAGTACTAAGTGAAGGCTACAATGGGTACTG-AAAAGCTTTGG
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAA-C--TGA
* * *
47127487 TCACATATGTAGTACTATGTGAAGGCTACTACGTGAGCCGTAAAACTTGA
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAAC-TGA
*
47127537 TCACGT-TGTAGTACTATGTGAAGGCTACTACGTGAACTGTAAAACTGA
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTGA
* *
47127585 TCACGTGTGTAGTACTATGTGAAGGCTACAACGTGTACCG
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG
47127625 AATGATAAAA
Statistics
Matches: 182, Mismatches: 42, Indels: 24
0.73 0.17 0.10
Matches are distributed among these distances:
45 5 0.03
46 24 0.13
47 1 0.01
48 11 0.06
49 68 0.37
50 9 0.05
51 58 0.32
52 6 0.03
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (49 bp):
TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTGA
Found at i:47132835 original size:162 final size:162
Alignment explanation
Indices: 47132568--47132892 Score: 650
Period size: 162 Copynumber: 2.0 Consensus size: 162
47132558 TCAAGTACCA
47132568 TCAAGTTTAATCCAACCGGTAATGATTCCAGAGTGGAAATGGGACAGCATCACGATGGATTTTGT
1 TCAAGTTTAATCCAACCGGTAATGATTCCAGAGTGGAAATGGGACAGCATCACGATGGATTTTGT
47132633 GACAGGATTACCTCTGAGTCCAAGGAAGAAGGATTCTATTTGGGTGATCGTTGATAGATTGACAA
66 GACAGGATTACCTCTGAGTCCAAGGAAGAAGGATTCTATTTGGGTGATCGTTGATAGATTGACAA
47132698 AGTCGGCTCATTTTATACCGGTATGCATAGAT
131 AGTCGGCTCATTTTATACCGGTATGCATAGAT
47132730 TCAAGTTTAATCCAACCGGTAATGATTCCAGAGTGGAAATGGGACAGCATCACGATGGATTTTGT
1 TCAAGTTTAATCCAACCGGTAATGATTCCAGAGTGGAAATGGGACAGCATCACGATGGATTTTGT
47132795 GACAGGATTACCTCTGAGTCCAAGGAAGAAGGATTCTATTTGGGTGATCGTTGATAGATTGACAA
66 GACAGGATTACCTCTGAGTCCAAGGAAGAAGGATTCTATTTGGGTGATCGTTGATAGATTGACAA
47132860 AGTCGGCTCATTTTATACCGGTATGCATAGAT
131 AGTCGGCTCATTTTATACCGGTATGCATAGAT
47132892 T
1 T
47132893 ACTCACTTGA
Statistics
Matches: 163, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
162 163 1.00
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (162 bp):
TCAAGTTTAATCCAACCGGTAATGATTCCAGAGTGGAAATGGGACAGCATCACGATGGATTTTGT
GACAGGATTACCTCTGAGTCCAAGGAAGAAGGATTCTATTTGGGTGATCGTTGATAGATTGACAA
AGTCGGCTCATTTTATACCGGTATGCATAGAT
Found at i:47135200 original size:102 final size:102
Alignment explanation
Indices: 47135024--47135461 Score: 530
Period size: 102 Copynumber: 4.3 Consensus size: 102
47135014 TGTCGATGAA
* * ** * *
47135024 CACGTGTGTAGTACTGTGTGGAGGCTACTACGTGTATCAATAAA-TAATGGTCACATGTGTAGTA
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTCTATCGGTAAACT-ACGGTTACATGTGTAGTA
47135088 CTAAGTGAAGGCTACTATGTGTACCGAGAAGCTTTGAG
65 CTAAGTGAAGGCTACTATGTGTACCGAGAAGCTTTGAG
*
47135126 CACGTGTGTAGTACTGTGTGAATGCTACTACGTCTATCGGTAAACTACGGTTACATGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTCTATCGGTAAACTACGGTTACATGTGTAGTAC
47135191 TAAGTGAAGGCTACTATGTGTACCGAGAAGCTTTGAG
66 TAAGTGAAGGCTACTATGTGTACCGAGAAGCTTTGAG
*
47135228 CACGTGTGTAGTACTGTGTGAATGCTACTACGTCTATCGGTAAACTACGGTTACATGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTCTATCGGTAAACTACGGTTACATGTGTAGTAC
* * *
47135293 TAAGTGAAGGCTACAATGGGTACCGAAAAGCTTTG-G
66 TAAGTGAAGGCTACTATGTGTACCGAGAAGCTTTGAG
* * * * * * * * *
47135329 TCACGTATGTAGTACTATGTGAAGGCTACTACGT-GAGCCGTAAAACT-TGATCACGTGTGTAGT
1 -CACGTGTGTAGTACTGTGTGAAGGCTACTACGTCTATCGGT-AAACTACGGTTACATGTGTAGT
** * * * * *
47135392 ACTATCTGAAGGCTACTACGTGGACTGTA-AAAC--TGAT
64 ACTAAGTGAAGGCTACTATGTGTACCG-AGAAGCTTTGAG
* *
47135429 CACGTGTGTAGTACTATGTAAAGGCTACTACGT
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGT
47135462 GAGCCGTAAA
Statistics
Matches: 300, Mismatches: 31, Indels: 13
0.87 0.09 0.04
Matches are distributed among these distances:
99 33 0.11
101 40 0.13
102 226 0.75
103 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (102 bp):
CACGTGTGTAGTACTGTGTGAAGGCTACTACGTCTATCGGTAAACTACGGTTACATGTGTAGTAC
TAAGTGAAGGCTACTATGTGTACCGAGAAGCTTTGAG
Found at i:47135453 original size:49 final size:51
Alignment explanation
Indices: 47135024--47135561 Score: 388
Period size: 51 Copynumber: 10.7 Consensus size: 51
47135014 TGTCGATGAA
* * * * ** * *
47135024 CACGTGTGTAGTACTGTGTGGAGGCTACTACGTGTATCAATAAATA-ATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGGAGCCGTAAA-ACTTGAT
* * * * * *
47135075 CACATGTGTAGTACTAAGTGAAGGCTACTATGTGTA-CCG-AGAAGCTTTGAG
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGGAGCCGTA-AAAC-TTGAT
* * ** * * * *
47135126 CACGTGTGTAGTACTGTGTGAATGCTACTACGTCTATCGGT-AAACTACGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGGAGCCGTAAAACT-TGAT
* * * * * * *
47135177 TACATGTGTAGTACTAAGTGAAGGCTACTATGTGTA-CCG-AGAAGCTTTGAG
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGGAGCCGTA-AAAC-TTGAT
* * ** * * * *
47135228 CACGTGTGTAGTACTGTGTGAATGCTACTACGTCTATCGGT-AAACTACGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGGAGCCGTAAAACT-TGAT
* * * * * *
47135279 TACATGTGTAGTACTAAGTGAAGGCTACAATG-GGTA-CCG-AAAAGCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGG-AGCCGTAAAA-C-TTGAT
*
47135330 CACGTATGTAGTACTATGTGAAGGCTACTACGT-GAGCCGTAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGGAGCCGTAAAACTTGAT
* *
47135380 CACGTGTGTAGTACTATCTGAAGGCTACTACGTGGA-CTGTAAAAC-TGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGGAGCCGTAAAACTTGAT
*
47135429 CACGTGTGTAGTACTATGTAAAGGCTACTACGT-GAGCCGTAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGGAGCCGTAAAACTTGAT
* * * **
47135479 CACGTGTGTAGTACTATGTGAAGACTACTACAT-GAACTATAAAAC-TGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGGAGCCGTAAAACTTGAT
* *
47135528 CACGTGTGTAGTACTATGTGAAGGTTACTGCGTG
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG
47135562 TATCGAATGA
Statistics
Matches: 384, Mismatches: 80, Indels: 47
0.75 0.16 0.09
Matches are distributed among these distances:
48 2 0.01
49 77 0.20
50 99 0.26
51 196 0.51
52 10 0.03
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (51 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGGAGCCGTAAAACTTGAT
Found at i:47135456 original size:99 final size:99
Alignment explanation
Indices: 47135329--47135561 Score: 385
Period size: 99 Copynumber: 2.4 Consensus size: 99
47135319 AAAGCTTTGG
*
47135329 TCACGTATGTAGTACTATGTGAAGGCTACTACGTGAGCCGTAAAACTTGATCACGTGTGTAGTAC
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAGCCGTAAAACTTGATCACGTGTGTAGTAC
* * * *
47135394 TATCTGAAGGCTACTACGTGGACTGTAAAACTGA
66 TATCTGAAGACTACTACATGAACTATAAAACTGA
*
47135428 TCACGTGTGTAGTACTATGTAAAGGCTACTACGTGAGCCGTAAAACTTGATCACGTGTGTAGTAC
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAGCCGTAAAACTTGATCACGTGTGTAGTAC
*
47135493 TATGTGAAGACTACTACATGAACTATAAAACTGA
66 TATCTGAAGACTACTACATGAACTATAAAACTGA
* *
47135527 TCACGTGTGTAGTACTATGTGAAGGTTACTGCGTG
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTG
47135562 TATCGAATGA
Statistics
Matches: 124, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
99 124 1.00
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (99 bp):
TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAGCCGTAAAACTTGATCACGTGTGTAGTAC
TATCTGAAGACTACTACATGAACTATAAAACTGA
Found at i:47137229 original size:27 final size:27
Alignment explanation
Indices: 47137198--47137375 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
47137188 TAAATTGTAC
47137198 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
47137225 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
47137251 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
47137279 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
47137307 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
47137334 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
47137361 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
47137376 GACTTAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:47137312 original size:82 final size:81
Alignment explanation
Indices: 47137199--47137354 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
47137189 AAATTGTACA
* *
47137199 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
47137263 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
47137280 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
47137345 TGCGAGTTGA
65 TGCGAATTGA
47137355 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:47137366 original size:82 final size:81
Alignment explanation
Indices: 47137195--47137375 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
47137185 GATTAAATTG
* *
47137195 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
47137260 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
47137276 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
47137340 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
47137358 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
47137376 GACTTAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:47147548 original size:33 final size:34
Alignment explanation
Indices: 47147495--47147582 Score: 103
Period size: 33 Copynumber: 2.6 Consensus size: 34
47147485 CTGGAATAAA
* *
47147495 TTAAATAA--GTTAGTTTATTAAATTTAGTTCA-G
1 TTAAATAAGTGTTAG-TAATTAAATTTAGTTCACC
*
47147527 TTGAAATAAGTGTTAG-AATTAATTTTAGTTCACC
1 TT-AAATAAGTGTTAGTAATTAAATTTAGTTCACC
47147561 TTAAATAAGTGTTAGTAATTAA
1 TTAAATAAGTGTTAGTAATTAA
47147583 TTTGTTTAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
32 2 0.04
33 33 0.69
34 8 0.17
35 5 0.10
ACGTcount: A:0.39, C:0.05, G:0.14, T:0.43
Consensus pattern (34 bp):
TTAAATAAGTGTTAGTAATTAAATTTAGTTCACC
Found at i:47149445 original size:12 final size:12
Alignment explanation
Indices: 47149422--47149463 Score: 54
Period size: 10 Copynumber: 3.7 Consensus size: 12
47149412 CGTGAGTGAG
47149422 AAAAGAATATTGA
1 AAAAGAA-ATTGA
47149435 AAAAGAAATTG-
1 AAAAGAAATTGA
47149446 AAAA-AAA-TGA
1 AAAAGAAATTGA
47149456 AAAAGAAA
1 AAAAGAAA
47149464 AAGATGAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
9 2 0.07
10 7 0.26
11 7 0.26
12 4 0.15
13 7 0.26
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (12 bp):
AAAAGAAATTGA
Found at i:47149558 original size:34 final size:33
Alignment explanation
Indices: 47149496--47149567 Score: 85
Period size: 33 Copynumber: 2.2 Consensus size: 33
47149486 AACAAAAGAA
*
47149496 AGTG-AAAAGCAAAAAGAGCCTGACAAGAAATCG
1 AGTGAAAAAGCAAAAAGAGCCTGAAAAGAAA-CG
* *
47149529 ATTGAAAAAG-AAAGAGAGCCTGTAAAAGAAACG
1 AGTGAAAAAGCAAAAAGAGCCTG-AAAAGAAACG
47149562 AGTGAA
1 AGTGAA
47149568 GAGAGTAATC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
33 21 0.64
34 12 0.36
ACGTcount: A:0.53, C:0.11, G:0.25, T:0.11
Consensus pattern (33 bp):
AGTGAAAAAGCAAAAAGAGCCTGAAAAGAAACG
Found at i:47159346 original size:25 final size:24
Alignment explanation
Indices: 47159318--47159368 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
47159308 TTAAAACTAC
47159318 TTCTAA-AGAAAAACTCAAGAGAGAA
1 TTCTAAGAG-AAAACTCAA-AGAGAA
**
47159343 TTCTTGGAGAAAACTCAAAGAGAA
1 TTCTAAGAGAAAACTCAAAGAGAA
47159367 TT
1 TT
47159369 TTTTTCACTC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 8 0.35
25 13 0.57
26 2 0.09
ACGTcount: A:0.49, C:0.12, G:0.18, T:0.22
Consensus pattern (24 bp):
TTCTAAGAGAAAACTCAAAGAGAA
Found at i:47160244 original size:33 final size:34
Alignment explanation
Indices: 47160193--47160283 Score: 107
Period size: 33 Copynumber: 2.7 Consensus size: 34
47160183 AGATTTAAAC
*
47160193 AAATTAATTACTAACACTTATTTAAGTTGAACAA
1 AAATTAATTACTAACACTTATTTAAGCTGAACAA
* *
47160227 AAATTAATT-CTAACACTTATTTGAGCTGAACTA
1 AAATTAATTACTAACACTTATTTAAGCTGAACAA
* *
47160260 AATTTAATAAACT-A-ACTTATTTAA
1 AAATTAAT-TACTAACACTTATTTAA
47160284 TTTATTCCAG
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
33 37 0.76
34 10 0.20
35 2 0.04
ACGTcount: A:0.45, C:0.12, G:0.05, T:0.37
Consensus pattern (34 bp):
AAATTAATTACTAACACTTATTTAAGCTGAACAA
Found at i:47176251 original size:23 final size:23
Alignment explanation
Indices: 47176202--47176254 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
47176192 AAACCTGTAT
47176202 TTAAAATGTTCAGCTAAAGACACA
1 TTAAAATGTTCAGCT-AAGACACA
* *
47176226 TTAAAATGTTGTAGCT-AGACATA
1 TTAAAATGTT-CAGCTAAGACACA
47176249 TTAAAA
1 TTAAAA
47176255 AAACAAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 12 0.46
24 10 0.38
25 4 0.15
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.30
Consensus pattern (23 bp):
TTAAAATGTTCAGCTAAGACACA
Found at i:47179082 original size:15 final size:15
Alignment explanation
Indices: 47179064--47179095 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
47179054 TTCTCCATTT
47179064 TCTTTTTCTCTCATC
1 TCTTTTTCTCTCATC
*
47179079 TCTTTTTTTCTCATC
1 TCTTTTTCTCTCATC
47179094 TC
1 TC
47179096 GAGTTCGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.06, C:0.31, G:0.00, T:0.62
Consensus pattern (15 bp):
TCTTTTTCTCTCATC
Found at i:47181779 original size:49 final size:49
Alignment explanation
Indices: 47181719--47182042 Score: 253
Period size: 49 Copynumber: 6.4 Consensus size: 49
47181709 GCCATGTCCT
*
47181719 AGACATGGTCTTACGTGGGATGTTTCTTGTACTGCCAATGTCATATCCC
1 AGACATGGTCTTACATGGGATGTTTCTTGTACTGCCAATGTCATATCCC
* * * * *
47181768 AGATATAGTCTTACATGGGA-GTTCTCATATCG-GC-GCCCATGTCATGTCCC
1 AGACATGGTCTTACATGGGATGTT-TC-T-T-GTACTGCCAATGTCATATCCC
** ** * * * * * * *
47181818 AGACATGGTCTTACGGGGGACCTCTCATCTCAGTGCCAATGCCATGTCCT
1 AGACATGGTCTTACATGGGATGTTTCTTGT-ACTGCCAATGTCATATCCC
* *
47181868 AGACATGGTCTTACATGGGAACTCTCATGATCTCAATG-A-TGCCAATGTCATGTCCC
1 AGACATGGTCTTACATGGG-A-TGT--T--TCT---TGTACTGCCAATGTCATATCCC
* *
47181924 AAACATGGTCTTACATGGGATGTTTCTTATACTGCCAATGTCATATCCC
1 AGACATGGTCTTACATGGGATGTTTCTTGTACTGCCAATGTCATATCCC
** * *
47181973 AGGTATGGTCTTACATGAGATATTTCTTGTACTGCCAATGTCATATCCC
1 AGACATGGTCTTACATGGGATGTTTCTTGTACTGCCAATGTCATATCCC
*
47182022 AGATATGGTCTTACATGGGAT
1 AGACATGGTCTTACATGGGAT
47182043 TTCTCATATC
Statistics
Matches: 217, Mismatches: 39, Indels: 38
0.74 0.13 0.13
Matches are distributed among these distances:
47 1 0.00
48 5 0.02
49 97 0.45
50 66 0.30
51 4 0.02
52 4 0.02
54 2 0.01
55 1 0.00
56 35 0.16
57 1 0.00
59 1 0.00
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.32
Consensus pattern (49 bp):
AGACATGGTCTTACATGGGATGTTTCTTGTACTGCCAATGTCATATCCC
Found at i:47181818 original size:50 final size:50
Alignment explanation
Indices: 47181701--47182141 Score: 285
Period size: 50 Copynumber: 8.8 Consensus size: 50
47181691 TGATCATAAC
* * * *
47181701 ATGCCAAAGCCATGTCCTAGACATGGTCTTACGTGGGATGTT-TC-T-T-G
1 ATGCCAATGTCATGTCCCAGACATGGTCTTACATGGGA-GTTCTCATATCG
* * *
47181748 TACTGCCAATGTCATATCCCAGATATAGTCTTACATGGGAGTTCTCATATCG
1 -A-TGCCAATGTCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCG
** * ** ** *
47181800 GCGCCCATGTCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTC-
1 ATGCCAATGTCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCG
* * **
47181849 AGTGCCAATGCCATGTCCTAGACATGGTCTTACATGGGAACTCTCATGATCTCAATG
1 A-TGCCAATGTCATGTCCCAGACATGGTCTTACATGGGAGTTCTCAT-A--TC---G
* *
47181906 ATGCCAATGTCATGTCCCAAACATGGTCTTACATGGGATGTT-TCTTAT--
1 ATGCCAATGTCATGTCCCAGACATGGTCTTACATGGGA-GTTCTCATATCG
* ** * *
47181954 ACTGCCAATGTCATATCCCAGGTATGGTCTTACATGAGA-TATTTC-T-T-G
1 A-TGCCAATGTCATGTCCCAGACATGGTCTTACATGGGAGT-TCTCATATCG
* * *
47182002 TACTGCCAATGTCATATCCCAGATATGGTCTTACATGGGATTTCTCATATCG
1 -A-TGCCAATGTCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCG
* * * ** ** *
47182054 ATGCCCATGCCATGTCCCGGACATGGTCTTACGGGGGACCTCTCATCTCG
1 ATGCCAATGTCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCG
* *** *
47182104 GTGCCAACACCATGTCACAGACATGGTCTTACATGGGA
1 ATGCCAATGTCATGTCCCAGACATGGTCTTACATGGGA
47182142 TCTCTTTACC
Statistics
Matches: 311, Mismatches: 59, Indels: 44
0.75 0.14 0.11
Matches are distributed among these distances:
47 2 0.01
48 7 0.02
49 106 0.34
50 148 0.48
51 3 0.01
52 2 0.01
53 3 0.01
55 1 0.00
56 37 0.12
57 2 0.01
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.30
Consensus pattern (50 bp):
ATGCCAATGTCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCG
Found at i:47189591 original size:50 final size:50
Alignment explanation
Indices: 47189518--47189657 Score: 190
Period size: 50 Copynumber: 2.8 Consensus size: 50
47189508 TCTTGTACTA
* * * *
47189518 CCAATGTCATATCCCAGATATGGTCTTACATGGGAATTCTCATATCGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGAACTCTCATATCGGTG
* ** * *
47189568 CCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGAACTCTCATATCGGTG
*
47189618 CCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGAACTCT
47189658 TTACCCAAAT
Statistics
Matches: 77, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 77 1.00
ACGTcount: A:0.21, C:0.29, G:0.22, T:0.28
Consensus pattern (50 bp):
CCAATGCCATGTCCCAGACATGGTCTTACATGGGAACTCTCATATCGGTG
Found at i:47192974 original size:14 final size:14
Alignment explanation
Indices: 47192955--47192982 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
47192945 AGTAAAAGTA
47192955 TCCAATGAATTAGC
1 TCCAATGAATTAGC
47192969 TCCAATGAATTAGC
1 TCCAATGAATTAGC
47192983 ATCGATTTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (14 bp):
TCCAATGAATTAGC
Found at i:47198339 original size:45 final size:45
Alignment explanation
Indices: 47198240--47198348 Score: 123
Period size: 45 Copynumber: 2.4 Consensus size: 45
47198230 ATTATAATCT
* *
47198240 ATTAAAACCTAAGAT-TGAATTTATAAGAAAATTAAAATCTAAACC
1 ATTAAAACCTAAAATCT-AATTTATAAGAAAATTAAAATCTAAACA
* * * *
47198285 ACTATAACCTAAAATCTAATTTATAAGAAAGTTAAAAT-TTAACAA
1 ATTAAAACCTAAAATCTAATTTATAAGAAAATTAAAATCTAAAC-A
*
47198330 ATTAGAACCTAAAATCTAA
1 ATTAAAACCTAAAATCTAA
47198349 AAAGAACAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
44 4 0.07
45 49 0.91
46 1 0.02
ACGTcount: A:0.53, C:0.12, G:0.06, T:0.29
Consensus pattern (45 bp):
ATTAAAACCTAAAATCTAATTTATAAGAAAATTAAAATCTAAACA
Found at i:47199928 original size:18 final size:18
Alignment explanation
Indices: 47199905--47199942 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
47199895 CCTTTCATGG
*
47199905 TTTTCACTTTCTTTCTTT
1 TTTTCACTTTCCTTCTTT
*
47199923 TTTTCATTTTCCTTCTTT
1 TTTTCACTTTCCTTCTTT
47199941 TT
1 TT
47199943 CTCTTTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.05, C:0.21, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTCACTTTCCTTCTTT
Found at i:47205655 original size:25 final size:25
Alignment explanation
Indices: 47205563--47205657 Score: 70
Period size: 25 Copynumber: 3.8 Consensus size: 25
47205553 AGCTATAAAC
* *
47205563 GGTAAGCTCTTTCGAGCTGAAGTAA-T
1 GGTAAGCTCATACGAGCTGAA--AATT
* * *
47205589 AGTAAGCCCATACGAGCTGAGAATT
1 GGTAAGCTCATACGAGCTGAAAATT
*
47205614 GGTAAGCTC-TCATGAGCT-ACAAATT
1 GGTAAGCTCAT-ACGAGCTGA-AAATT
*
47205639 GGTGAGCTCATACGAGCTG
1 GGTAAGCTCATACGAGCTG
47205658 TGGTGTGTCC
Statistics
Matches: 53, Mismatches: 11, Indels: 10
0.72 0.15 0.14
Matches are distributed among these distances:
24 4 0.08
25 32 0.60
26 17 0.32
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.25
Consensus pattern (25 bp):
GGTAAGCTCATACGAGCTGAAAATT
Found at i:47205840 original size:15 final size:15
Alignment explanation
Indices: 47205822--47205852 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
47205812 GTTCACAAAC
47205822 ATATAATTCAATTTA
1 ATATAATTCAATTTA
47205837 ATATAATTCAATTTA
1 ATATAATTCAATTTA
47205852 A
1 A
47205853 AACATATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (15 bp):
ATATAATTCAATTTA
Found at i:47214381 original size:20 final size:20
Alignment explanation
Indices: 47214358--47214408 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
47214348 TTTTACTCTC
47214358 TTTTGTCATTTTTCCTTTCT
1 TTTTGTCATTTTTCCTTTCT
* * *
47214378 TTTTCTCATTTTTCTTTTTT
1 TTTTGTCATTTTTCCTTTCT
47214398 TTTTG-CATTTT
1 TTTTGTCATTTT
47214409 CATTATTTTC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
19 6 0.22
20 21 0.78
ACGTcount: A:0.06, C:0.16, G:0.04, T:0.75
Consensus pattern (20 bp):
TTTTGTCATTTTTCCTTTCT
Found at i:47214394 original size:19 final size:19
Alignment explanation
Indices: 47214332--47214399 Score: 61
Period size: 20 Copynumber: 3.5 Consensus size: 19
47214322 TCGCATTCTT
47214332 TTTCTTTTTCAT-ATTTTT-
1 TTTCTTTTTC-TCATTTTTC
*
47214350 TTACTCTCTTTTGTCATTTTTCC
1 TT--TCT-TTTTCTCATTTTT-C
47214373 TTTCTTTTTCTCATTTTTC
1 TTTCTTTTTCTCATTTTTC
47214392 TTT-TTTTT
1 TTTCTTTTT
47214400 TTGCATTTTC
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
18 7 0.17
19 4 0.10
20 16 0.38
21 13 0.31
23 2 0.05
ACGTcount: A:0.07, C:0.18, G:0.01, T:0.74
Consensus pattern (19 bp):
TTTCTTTTTCTCATTTTTC
Found at i:47214406 original size:19 final size:21
Alignment explanation
Indices: 47214358--47214408 Score: 63
Period size: 19 Copynumber: 2.5 Consensus size: 21
47214348 TTTTACTCTC
47214358 TTTTGTCATTTTTCCTTTCTTT
1 TTTTG-CATTTTTCCTTTCTTT
*
47214380 TTCT-CATTTTT-CTTT-TTT
1 TTTTGCATTTTTCCTTTCTTT
47214398 TTTTGCATTTT
1 TTTTGCATTTT
47214409 CATTATTTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 6 0.23
19 10 0.38
20 7 0.27
22 3 0.12
ACGTcount: A:0.06, C:0.16, G:0.04, T:0.75
Consensus pattern (21 bp):
TTTTGCATTTTTCCTTTCTTT
Found at i:47225130 original size:25 final size:25
Alignment explanation
Indices: 47225077--47225130 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
47225067 ATTTTATTTT
* *
47225077 AATTATCTAATTTTTCAATTTATTG
1 AATTATCTAATTTTTCAATTAATTA
47225102 AATTAT-TAATATTTT-ATATTAATTA
1 AATTATCTAAT-TTTTCA-ATTAATTA
47225127 AATT
1 AATT
47225131 TTTGAGAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
24 5 0.20
25 20 0.80
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.56
Consensus pattern (25 bp):
AATTATCTAATTTTTCAATTAATTA
Found at i:47228404 original size:60 final size:60
Alignment explanation
Indices: 47228311--47228425 Score: 230
Period size: 60 Copynumber: 1.9 Consensus size: 60
47228301 CCAAGAGCTG
47228311 ACCTAGGGAATTTTACAATATTAATCAAGTTAGGGACCATACATATTGATAAATTCAAAA
1 ACCTAGGGAATTTTACAATATTAATCAAGTTAGGGACCATACATATTGATAAATTCAAAA
47228371 ACCTAGGGAATTTTACAATATTAATCAAGTTAGGGACCATACATATTGATAAATT
1 ACCTAGGGAATTTTACAATATTAATCAAGTTAGGGACCATACATATTGATAAATT
47228426 TTTGAGTGAC
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 55 1.00
ACGTcount: A:0.42, C:0.13, G:0.14, T:0.31
Consensus pattern (60 bp):
ACCTAGGGAATTTTACAATATTAATCAAGTTAGGGACCATACATATTGATAAATTCAAAA
Found at i:47235148 original size:21 final size:21
Alignment explanation
Indices: 47235123--47235172 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
47235113 ATTGTTGAGA
47235123 AGGAAGTTGCTGCTGTAGAAG
1 AGGAAGTTGCTGCTGTAGAAG
*
47235144 AGGAAGTTGCTGTTGTAGAAG
1 AGGAAGTTGCTGCTGTAGAAG
47235165 AGGAAGTT
1 AGGAAGTT
47235173 ATTGCTGAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.30, C:0.06, G:0.38, T:0.26
Consensus pattern (21 bp):
AGGAAGTTGCTGCTGTAGAAG
Found at i:47240030 original size:40 final size:40
Alignment explanation
Indices: 47239937--47240037 Score: 116
Period size: 40 Copynumber: 2.6 Consensus size: 40
47239927 AAAATCCTTG
* *
47239937 TTATAATTATTGTAATTATAA--TTTACGATCAAATATTA
1 TTATAATTATTGTAATTATAATTTTTACGATAAAACATTA
* * * *
47239975 CTATAATTATTGTAATTTTAATTTTTTCGGTAAAACATTA
1 TTATAATTATTGTAATTATAATTTTTACGATAAAACATTA
* *
47240015 TTATAATTATGGTAATTGTAATT
1 TTATAATTATTGTAATTATAATT
47240038 ATTATATTCG
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
38 19 0.37
40 33 0.63
ACGTcount: A:0.38, C:0.05, G:0.08, T:0.50
Consensus pattern (40 bp):
TTATAATTATTGTAATTATAATTTTTACGATAAAACATTA
Found at i:47244271 original size:37 final size:37
Alignment explanation
Indices: 47244221--47244299 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
47244211 TTATTACGAA
* *
47244221 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
47244258 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
47244295 GTCTT
1 GTCTT
47244300 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:47244496 original size:47 final size:47
Alignment explanation
Indices: 47244418--47244773 Score: 570
Period size: 47 Copynumber: 7.6 Consensus size: 47
47244408 CCCTTCGGGA
* * * * * *
47244418 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
47244465 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
47244512 CTTATCACATATATACGCTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
47244559 CTTATCACATATATACGCTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
47244606 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
47244653 CTTATCACATATATACGCTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
47244700 CTACAT-ATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CT-TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47244747 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
47244774 TATTCAAATA
Statistics
Matches: 287, Mismatches: 20, Indels: 4
0.92 0.06 0.01
Matches are distributed among these distances:
46 2 0.01
47 283 0.99
48 2 0.01
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:47254805 original size:4 final size:4
Alignment explanation
Indices: 47254796--47254829 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
47254786 AAGTTTTATT
47254796 TTTA TTTA TTTA TTTA TTTA TTTTA TTTA GTTTA
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA -TTTA
47254830 AATTTTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:47254837 original size:22 final size:22
Alignment explanation
Indices: 47254779--47254838 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
47254769 AAGTGGCCCA
*
47254779 AGTTGTAAAGTTTTATTTTTATTT
1 AGTT-TAAATTTTTA-TTTTATTT
*
47254803 A-TTT-ATTTATTTATTTTATTT
1 AGTTTAAATT-TTTATTTTATTT
47254824 AGTTTAAATTTTTAT
1 AGTTTAAATTTTTAT
47254839 ATTCAGTCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 11 0.37
22 13 0.43
23 5 0.17
24 1 0.03
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (22 bp):
AGTTTAAATTTTTATTTTATTT
Found at i:47260929 original size:20 final size:20
Alignment explanation
Indices: 47260904--47260966 Score: 99
Period size: 20 Copynumber: 3.1 Consensus size: 20
47260894 ACCACTCCAT
*
47260904 TTACTTACCATTCCATTTAC
1 TTACTTTCCATTCCATTTAC
*
47260924 TTACTTTCCATTTCATTTAC
1 TTACTTTCCATTCCATTTAC
*
47260944 TTACTTTCTATTCCATTTAC
1 TTACTTTCCATTCCATTTAC
47260964 TTA
1 TTA
47260967 GCATAAGCTT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.22, C:0.25, G:0.00, T:0.52
Consensus pattern (20 bp):
TTACTTTCCATTCCATTTAC
Found at i:47260934 original size:15 final size:16
Alignment explanation
Indices: 47260894--47260936 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
47260884 AAGACTATAA
*
47260894 ACCACTCCATTTACTT
1 ACCATTCCATTTACTT
47260910 ACCATTCCATTTACTT
1 ACCATTCCATTTACTT
*
47260926 A-CTTTCCATTT
1 ACCATTCCATTT
47260937 CATTTACTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 9 0.36
16 16 0.64
ACGTcount: A:0.23, C:0.33, G:0.00, T:0.44
Consensus pattern (16 bp):
ACCATTCCATTTACTT
Found at i:47268059 original size:65 final size:65
Alignment explanation
Indices: 47267982--47268116 Score: 216
Period size: 65 Copynumber: 2.1 Consensus size: 65
47267972 GGCCTATGGC
* *
47267982 AGTTGATGGGAATAGTTTAACTTATGCGACTAACTAGAGCGTATAGCATCTATAAGGCCCGTGAT
1 AGTTGATGGGAATAGTGTAACTTAAGCGACTAACTAGAGCGTATAGCATCTATAAGGCCCGTGAT
* * * *
47268047 AGTTTATGGGAATAGTGTAACTTAAGCGACTAACTAGCGCGTATTGCATGTATAAGGCCCGTGAT
1 AGTTGATGGGAATAGTGTAACTTAAGCGACTAACTAGAGCGTATAGCATCTATAAGGCCCGTGAT
47268112 AGTTG
1 AGTTG
47268117 GCTAGGGCCA
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
65 63 1.00
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.30
Consensus pattern (65 bp):
AGTTGATGGGAATAGTGTAACTTAAGCGACTAACTAGAGCGTATAGCATCTATAAGGCCCGTGAT
Found at i:47268743 original size:13 final size:13
Alignment explanation
Indices: 47268727--47268785 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
47268717 ACCAAATTTT
*
47268727 TCAAAAGTACTTC
1 TCAAAAGCACTTC
*
47268740 TCAAAAGCACTTT
1 TCAAAAGCACTTC
* * *
47268753 TCCACAGCACTTT
1 TCAAAAGCACTTC
* *
47268766 TCAAAAACACTTT
1 TCAAAAGCACTTC
47268779 TCAAAAG
1 TCAAAAG
47268786 TAATGAAGAA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 38 1.00
ACGTcount: A:0.39, C:0.25, G:0.07, T:0.29
Consensus pattern (13 bp):
TCAAAAGCACTTC
Found at i:47271008 original size:45 final size:45
Alignment explanation
Indices: 47270910--47271008 Score: 137
Period size: 45 Copynumber: 2.2 Consensus size: 45
47270900 ATCGGTAACG
* *
47270910 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTGTTGAATCT
1 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTATCGAATCT
* * *
47270955 GTAGCAGTAACGGTAACAGTATTCGACACACAAAGTATCGAAT-T
1 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTATCGAATCT
47270999 AGTAACAGTA
1 -GTAACAGTA
47271009 GTCAGCACAT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
44 1 0.02
45 46 0.98
ACGTcount: A:0.41, C:0.17, G:0.18, T:0.23
Consensus pattern (45 bp):
GTAACAGTAACAGTAACAGTATTCAACACACAAAGTATCGAATCT
Found at i:47272571 original size:24 final size:23
Alignment explanation
Indices: 47272536--47272595 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 23
47272526 TGTTATGTCT
47272536 TAATTAATTAATTAAT-TAATTTCA
1 TAATTAA-TAATTAATATAATTT-A
47272560 TAATATAATAATTAATATAATTTA
1 TAAT-TAATAATTAATATAATTTA
47272584 TAATTTAATAAT
1 TAA-TTAATAAT
47272596 AGATAAAACC
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
24 23 0.70
25 10 0.30
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (23 bp):
TAATTAATAATTAATATAATTTA
Found at i:47281433 original size:17 final size:17
Alignment explanation
Indices: 47281411--47281454 Score: 70
Period size: 17 Copynumber: 2.5 Consensus size: 17
47281401 AACTAGTTCA
*
47281411 CATTCATTTCAATTTCC
1 CATTCATTTCAATTTAC
47281428 CATTCATTTCAATTTAC
1 CATTCATTTCAATTTAC
47281445 CATTCCATTT
1 CATT-CATTT
47281455 TAATAATTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
17 20 0.80
18 5 0.20
ACGTcount: A:0.25, C:0.27, G:0.00, T:0.48
Consensus pattern (17 bp):
CATTCATTTCAATTTAC
Found at i:47281974 original size:45 final size:45
Alignment explanation
Indices: 47281876--47281974 Score: 137
Period size: 45 Copynumber: 2.2 Consensus size: 45
47281866 ATCGGTAACG
* *
47281876 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTGTTGAATCT
1 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTATCGAATCT
* * *
47281921 GTAGCAGTAACGGTAACAGTATTCGACACACAAAGTATCGAAT-T
1 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTATCGAATCT
47281965 AGTAACAGTA
1 -GTAACAGTA
47281975 GTCAGCACAT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
44 1 0.02
45 46 0.98
ACGTcount: A:0.41, C:0.17, G:0.18, T:0.23
Consensus pattern (45 bp):
GTAACAGTAACAGTAACAGTATTCAACACACAAAGTATCGAATCT
Found at i:47283537 original size:24 final size:23
Alignment explanation
Indices: 47283502--47283561 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 23
47283492 TGTTATGTCT
47283502 TAATTAATTAATTAAT-TAATTTCA
1 TAATTAA-TAATTAATATAATTT-A
47283526 TAATATAATAATTAATATAATTTA
1 TAAT-TAATAATTAATATAATTTA
47283550 TAATTTAATAAT
1 TAA-TTAATAAT
47283562 AGATAAAACC
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
24 23 0.70
25 10 0.30
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (23 bp):
TAATTAATAATTAATATAATTTA
Found at i:47284709 original size:10 final size:11
Alignment explanation
Indices: 47284681--47284713 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 11
47284671 TTTGTAAGAA
47284681 TTATTTCTTTG
1 TTATTTCTTTG
47284692 TTTATTTCTTTG
1 -TTATTTCTTTG
47284704 -TATTTCTTTG
1 TTATTTCTTTG
47284714 AGATGGTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.48
12 11 0.52
ACGTcount: A:0.09, C:0.09, G:0.09, T:0.73
Consensus pattern (11 bp):
TTATTTCTTTG
Found at i:47313146 original size:12 final size:12
Alignment explanation
Indices: 47313109--47313159 Score: 52
Period size: 12 Copynumber: 4.3 Consensus size: 12
47313099 TATCATAGTT
47313109 CTTACTT-CTT-
1 CTTACTTGCTTA
* *
47313119 CTTTACTTACTCA
1 C-TTACTTGCTTA
*
47313132 CTTACTTGTTTA
1 CTTACTTGCTTA
47313144 CTTACTTGCTTA
1 CTTACTTGCTTA
47313156 CTTA
1 CTTA
47313160 AATAACTTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
10 1 0.03
11 6 0.18
12 25 0.76
13 1 0.03
ACGTcount: A:0.18, C:0.25, G:0.04, T:0.53
Consensus pattern (12 bp):
CTTACTTGCTTA
Found at i:47313504 original size:50 final size:50
Alignment explanation
Indices: 47313362--47313556 Score: 196
Period size: 50 Copynumber: 3.9 Consensus size: 50
47313352 GATAATAACA
* ** * * *
47313362 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCTTGTAC--
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAT-CGG
* * * * **
47313411 TGCCAAAGCCATATCCTAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * ** *
47313461 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* *
47313511 TGCCAACGCCATGTCCCAAACATGGTATTACATGGGACCTCTCATA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATA
47313557 ATATCAATGA
Statistics
Matches: 119, Mismatches: 25, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
48 1 0.01
49 39 0.33
50 79 0.66
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:47316221 original size:40 final size:39
Alignment explanation
Indices: 47316177--47316511 Score: 368
Period size: 40 Copynumber: 8.4 Consensus size: 39
47316167 ATAAGAGCAT
* *
47316177 GTATGTGCAATTCAGGGTGCCAAAG-ACCAAACAGGGGCAC
1 GTATGTGC-ATTCAGGGTACCGAAGTA-CAAACAGGGGCAC
* ** *
47316217 GTATGTGCATTTAAGGGTACTAAAGTACAAATAGGGGCAC
1 GTATGTGCA-TTCAGGGTACCGAAGTACAAACAGGGGCAC
* * *
47316257 GTATGTGCATTCAGGGGCACCGAAGTACAATCAGTGGCAC
1 GTATGTGCATTCA-GGGTACCGAAGTACAAACAGGGGCAC
* *
47316297 GTATGTGCATTCAGGGGTATCGAAGTACAAACAAGGGCAC
1 GTATGTGCATTCA-GGGTACCGAAGTACAAACAGGGGCAC
*
47316337 GTATGTGCATTCAGGGGTACTGAAGTACAAACAGGGGCAC
1 GTATGTGCATTCA-GGGTACCGAAGTACAAACAGGGGCAC
*
47316377 GTAT-TGCATTCAGGGGTACTGAAGTACAAACAGGGGCAC
1 GTATGTGCATTCA-GGGTACCGAAGTACAAACAGGGGCAC
** * * *
47316416 GTATGTGCATTCAGGGGTATTGAAGTACTAATAGGGGCAT
1 GTATGTGCATTCA-GGGTACCGAAGTACAAACAGGGGCAC
* * * *
47316456 GTATGTGCATTCAAGAGTACTGAAGTACAAATAGGGGCAT
1 GTATGTGCATTC-AGGGTACCGAAGTACAAACAGGGGCAC
*
47316496 GTACGTGCATTCAGGG
1 GTATGTGCATTCAGGG
47316512 ACATATCTTT
Statistics
Matches: 262, Mismatches: 28, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
39 46 0.18
40 214 0.82
41 2 0.01
ACGTcount: A:0.31, C:0.17, G:0.30, T:0.22
Consensus pattern (39 bp):
GTATGTGCATTCAGGGTACCGAAGTACAAACAGGGGCAC
Found at i:47316274 original size:20 final size:20
Alignment explanation
Indices: 47316249--47316432 Score: 117
Period size: 20 Copynumber: 9.2 Consensus size: 20
47316239 AAGTACAAAT
47316249 AGGGGCACGTATGTGCATTC
1 AGGGGCACGTATGTGCATTC
* * *
47316269 AGGGGCACCG-AAGTACAATC
1 AGGGGCA-CGTATGTGCATTC
*
47316289 AGTGGCACGTATGTGCATTC
1 AGGGGCACGTATGTGCATTC
* * * **
47316309 AGGGGTATCG-AAGTACAAAC
1 AGGGGCA-CGTATGTGCATTC
*
47316329 AAGGGCACGTATGTGCATTC
1 AGGGGCACGTATGTGCATTC
* * * **
47316349 AGGGGTAC-TGAAGTACAAAC
1 AGGGGCACGT-ATGTGCATTC
47316369 AGGGGCACGTAT-TGCATTC
1 AGGGGCACGTATGTGCATTC
* * * **
47316388 AGGGGTAC-TGAAGTACAAAC
1 AGGGGCACGT-ATGTGCATTC
47316408 AGGGGCACGTATGTGCATTC
1 AGGGGCACGTATGTGCATTC
47316428 AGGGG
1 AGGGG
47316433 TATTGAAGTA
Statistics
Matches: 115, Mismatches: 40, Indels: 18
0.66 0.23 0.10
Matches are distributed among these distances:
18 1 0.01
19 17 0.15
20 91 0.79
21 6 0.05
ACGTcount: A:0.29, C:0.18, G:0.33, T:0.20
Consensus pattern (20 bp):
AGGGGCACGTATGTGCATTC
Found at i:47316296 original size:80 final size:80
Alignment explanation
Indices: 47316208--47316511 Score: 425
Period size: 80 Copynumber: 3.8 Consensus size: 80
47316198 AAAGACCAAA
* * *
47316208 CAGGGGCACGTATGTGCATTTAAGGGTACTAAAGTACAAATAGGGGCACGTATGTGCATTCAGGG
1 CAGGGGCACGTATGTGCATTCAAGGGTACTGAAGTACAAACAGGGGCACGTATGTGCATTCAGGG
* *
47316273 GCACCGAAGTACAAT
66 GTACTGAAGTACAAT
* * *
47316288 CAGTGGCACGTATGTGCATTCAGGGGTA-TCGAAGTACAAACAAGGGCACGTATGTGCATTCAGG
1 CAGGGGCACGTATGTGCATTCAAGGGTACT-GAAGTACAAACAGGGGCACGTATGTGCATTCAGG
*
47316352 GGTACTGAAGTACAAA
65 GGTACTGAAGTACAAT
*
47316368 CAGGGGCACGTAT-TGCATTCAGGGGTACTGAAGTACAAACAGGGGCACGTATGTGCATTCAGGG
1 CAGGGGCACGTATGTGCATTCAAGGGTACTGAAGTACAAACAGGGGCACGTATGTGCATTCAGGG
*
47316432 GTATTGAAGTACTAAT
66 GTACTGAAGTAC-AAT
* * * * *
47316448 -AGGGGCATGTATGTGCATTCAAGAGTACTGAAGTACAAATAGGGGCATGTACGTGCATTCAGGG
1 CAGGGGCACGTATGTGCATTCAAGGGTACTGAAGTACAAACAGGGGCACGTATGTGCATTCAGGG
47316512 ACATATCTTT
Statistics
Matches: 201, Mismatches: 19, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
79 71 0.35
80 130 0.65
ACGTcount: A:0.30, C:0.16, G:0.31, T:0.22
Consensus pattern (80 bp):
CAGGGGCACGTATGTGCATTCAAGGGTACTGAAGTACAAACAGGGGCACGTATGTGCATTCAGGG
GTACTGAAGTACAAT
Found at i:47316429 original size:119 final size:119
Alignment explanation
Indices: 47316204--47316511 Score: 454
Period size: 119 Copynumber: 2.6 Consensus size: 119
47316194 TGCCAAAGAC
* *
47316204 CAAACAGGGGCACGTATGTGCATTTAAGGGTACTAAAGTACAAATAGGGGCACGTATGTGCATTC
1 CAAACAGGGGCACGTATGTGCATTCAAGGGTACTGAAGTACAAATAGGGGCACGTAT-TGCATTC
* *
47316269 AGGGGCACCGAAGTACAATCAGTGGCACGTATGTGCATTCAGGGGTATCGAAGTA
65 AGGGGCACCGAAGTACAAACAGGGGCACGTATGTGCATTCAGGGGTATCGAAGTA
* * *
47316324 CAAACAAGGGCACGTATGTGCATTCAGGGGTACTGAAGTACAAACAGGGGCACGTATTGCATTCA
1 CAAACAGGGGCACGTATGTGCATTCAAGGGTACTGAAGTACAAATAGGGGCACGTATTGCATTCA
* * *
47316389 GGGGTACTGAAGTACAAACAGGGGCACGTATGTGCATTCAGGGGTATTGAAGTA
66 GGGGCACCGAAGTACAAACAGGGGCACGTATGTGCATTCAGGGGTATCGAAGTA
* * * * * *
47316443 CTAATAGGGGCATGTATGTGCATTCAAGAGTACTGAAGTACAAATAGGGGCATGTACGTGCATTC
1 CAAACAGGGGCACGTATGTGCATTCAAGGGTACTGAAGTACAAATAGGGGCACGTA-TTGCATTC
47316508 AGGG
65 AGGG
47316512 ACATATCTTT
Statistics
Matches: 168, Mismatches: 19, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
119 105 0.62
120 63 0.38
ACGTcount: A:0.31, C:0.17, G:0.31, T:0.22
Consensus pattern (119 bp):
CAAACAGGGGCACGTATGTGCATTCAAGGGTACTGAAGTACAAATAGGGGCACGTATTGCATTCA
GGGGCACCGAAGTACAAACAGGGGCACGTATGTGCATTCAGGGGTATCGAAGTA
Found at i:47320776 original size:18 final size:19
Alignment explanation
Indices: 47320743--47320783 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
47320733 ATGTTCATAT
*
47320743 TTTTAGAATAATTTAATTA
1 TTTTAGAATAATTTAAATA
*
47320762 TTTTATAAT-ATTTAAATA
1 TTTTAGAATAATTTAAATA
47320780 TTTT
1 TTTT
47320784 TCGACAAGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (19 bp):
TTTTAGAATAATTTAAATA
Found at i:47320784 original size:19 final size:20
Alignment explanation
Indices: 47320739--47320784 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
47320729 CATCATGTTC
47320739 ATATTTTTAGAATAATTTAA
1 ATATTTTTAGAATAATTTAA
* *
47320759 TTA-TTTTATAAT-ATTTAA
1 ATATTTTTAGAATAATTTAA
47320777 ATATTTTT
1 ATATTTTT
47320785 CGACAAGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
18 8 0.36
19 12 0.55
20 2 0.09
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (20 bp):
ATATTTTTAGAATAATTTAA
Found at i:47324752 original size:30 final size:30
Alignment explanation
Indices: 47324718--47324780 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
47324708 TTTGATAGGA
47324718 TATTCATTGCAATTTGCATCAACAATCACT
1 TATTCATTGCAATTTGCATCAACAATCACT
* *
47324748 TATTCATTGCAATTTGCATCGACCATCACT
1 TATTCATTGCAATTTGCATCAACAATCACT
47324778 TAT
1 TAT
47324781 CCTATTATAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.30, C:0.24, G:0.08, T:0.38
Consensus pattern (30 bp):
TATTCATTGCAATTTGCATCAACAATCACT
Found at i:47332046 original size:3 final size:3
Alignment explanation
Indices: 47332040--47332072 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
47332030 GTTGTTGTTG
47332040 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
47332073 CTCAGTTCCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:47336366 original size:27 final size:28
Alignment explanation
Indices: 47336324--47336393 Score: 83
Period size: 28 Copynumber: 2.6 Consensus size: 28
47336314 ATTTTTAATG
47336324 CATG-TTTTAATATGTCATAG-CTAG-TA
1 CATGTTTTTAATATGTCATAGTCT-GTTA
* *
47336350 CATGTTTTTAATTTGTCGTAGTCTGTTA
1 CATGTTTTTAATATGTCATAGTCTGTTA
*
47336378 CATGTGTTTAATATGT
1 CATGTTTTTAATATGT
47336394 TCATGTTTCA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
26 4 0.11
27 15 0.41
28 18 0.49
ACGTcount: A:0.24, C:0.10, G:0.17, T:0.49
Consensus pattern (28 bp):
CATGTTTTTAATATGTCATAGTCTGTTA
Found at i:47337198 original size:16 final size:17
Alignment explanation
Indices: 47337167--47337199 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
47337157 AATAAATAAA
47337167 TTAACTAAATTAATTTT
1 TTAACTAAATTAATTTT
*
47337184 TTAATTAAA-TAATTTT
1 TTAACTAAATTAATTTT
47337200 CTCGATCCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (17 bp):
TTAACTAAATTAATTTT
Found at i:47342578 original size:33 final size:32
Alignment explanation
Indices: 47342536--47342644 Score: 156
Period size: 33 Copynumber: 3.5 Consensus size: 32
47342526 TTTGGTGGAT
47342536 TCAGCACTTAGCAACCACCAGTGATTCGGGGAA
1 TCAGCACTTAGCAACCACC-GTGATTCGGGGAA
47342569 TCAGCACTTAGCAACCACCGCTGATTCGGGGAA
1 TCAGCACTTAGCAACCACCG-TGATTCGGGGAA
*
47342602 TCAGCACTTAGCAACC-CC----TTGGGGGAA
1 TCAGCACTTAGCAACCACCGTGATTCGGGGAA
47342629 TCAGCACTTAGCAACC
1 TCAGCACTTAGCAACC
47342645 CCCTTTTATA
Statistics
Matches: 74, Mismatches: 1, Indels: 8
0.89 0.01 0.10
Matches are distributed among these distances:
27 24 0.32
32 3 0.04
33 47 0.64
ACGTcount: A:0.28, C:0.30, G:0.23, T:0.18
Consensus pattern (32 bp):
TCAGCACTTAGCAACCACCGTGATTCGGGGAA
Found at i:47342625 original size:26 final size:27
Alignment explanation
Indices: 47342563--47342646 Score: 105
Period size: 27 Copynumber: 2.9 Consensus size: 27
47342553 CCAGTGATTC
*
47342563 GGGGAATCAGCACTTAGCAACCACCGCTGATTC
1 GGGGAATCAGCACTTAGCAA-C-CC-C---TTG
47342596 GGGGAATCAGCACTTAGCAACCCCTTG
1 GGGGAATCAGCACTTAGCAACCCCTTG
47342623 GGGGAATCAGCACTTAGCAACCCC
1 GGGGAATCAGCACTTAGCAACCCC
47342647 CTTTTATACT
Statistics
Matches: 50, Mismatches: 1, Indels: 6
0.88 0.02 0.11
Matches are distributed among these distances:
27 26 0.52
30 1 0.02
31 2 0.04
32 1 0.02
33 20 0.40
ACGTcount: A:0.27, C:0.31, G:0.25, T:0.17
Consensus pattern (27 bp):
GGGGAATCAGCACTTAGCAACCCCTTG
Found at i:47348560 original size:17 final size:17
Alignment explanation
Indices: 47348538--47348581 Score: 79
Period size: 17 Copynumber: 2.6 Consensus size: 17
47348528 GATCAAGATC
47348538 GAGTGGAAAATCGAGGA
1 GAGTGGAAAATCGAGGA
*
47348555 GAGTGGAAAATTGAGGA
1 GAGTGGAAAATCGAGGA
47348572 GAGTGGAAAA
1 GAGTGGAAAA
47348582 GTACCAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.43, C:0.02, G:0.41, T:0.14
Consensus pattern (17 bp):
GAGTGGAAAATCGAGGA
Found at i:47350611 original size:14 final size:15
Alignment explanation
Indices: 47350586--47350615 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
47350576 ATTGGTTGAA
47350586 TGGAACTTGGTCATT
1 TGGAACTTGGTCATT
47350601 TGGAA-TTGGTCATT
1 TGGAACTTGGTCATT
47350615 T
1 T
47350616 TATGCCTGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.20, C:0.10, G:0.27, T:0.43
Consensus pattern (15 bp):
TGGAACTTGGTCATT
Found at i:47360703 original size:73 final size:72
Alignment explanation
Indices: 47360558--47360724 Score: 199
Period size: 73 Copynumber: 2.3 Consensus size: 72
47360548 AAAATAAGCA
* * * *
47360558 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAGATCTAAGCCCAACGACGTCGTTTCCCAAGCTTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCACAAAAAAACTAAGCCCAACGACGCCGTTTCCCAAGCTTT
**
47360623 TGGGGAT
66 CAGGGAT
* * ****
47360630 TTAGCGGCGTTTCTGAGAAAGCGCCACAAAAAAACATAAGCCCAACGATGCCGTTTTGTGAGCTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCACAAAAAAAC-TAAGCCCAACGACGCCGTTTCCCAAGCTT
47360695 TCAGGGAT
65 TCAGGGAT
* *
47360703 TTAGCGGCATTTTTAAGAAAGC
1 TTAGCGGCGTTTTTGAGAAAGC
47360725 ACCGCTAATG
Statistics
Matches: 79, Mismatches: 15, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
72 31 0.39
73 48 0.61
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (72 bp):
TTAGCGGCGTTTTTGAGAAAGCGCCACAAAAAAACTAAGCCCAACGACGCCGTTTCCCAAGCTTT
CAGGGAT
Found at i:47361065 original size:115 final size:115
Alignment explanation
Indices: 47360629--47361072 Score: 592
Period size: 114 Copynumber: 3.9 Consensus size: 115
47360619 CTTTTGGGGA
* * **
47360629 TTTAGCGGCG-TTTCTGAGAAAGCGCCACAAAAAAACATAAGCCCAACGATGCCGTTTTGTGAGC
1 TTTAGCGGCGCTTTCTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACACCGTTTTGTGAGC
* *
47360693 TTTCAGGGATTTAGCGGCATTTTTAAGAAAGCACCGCTAATGCTCAGGGC
66 TTTCAGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
* * *
47360743 TTTAACGGCG-TTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACATCGTTTTGTGAGC
1 TTTAGCGGCGCTTTCTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACACCGTTTTGTGAGC
* *
47360807 TTTCGGGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAGGGC
66 TTTCAGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
* * ** * *
47360857 ATTAGCGGTGCTTTCCCAGAAA-CGCCGCAAAAAAACCTAAGCCCAACGACGCTGTTTTGTGAGC
1 TTTAGCGGCGCTTTCTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACACCGTTTTGTGAGC
* * * **
47360921 TTTTAGGGACTTAGCGGCGTTTTTAAGAAAGGGCCGCTAATGCTTTGGGC
66 TTTCAGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
* *
47360971 TTTAGCGGCGCTTT-TGGGAAAGCGCCGCAAAAAAAACCTAAGCCCAACGACACCGTTTTCTGAG
1 TTTAGCGGCGCTTTCTGAGAAAGCGCCGC-AAAAAAACCTAAGCCCAACGACACCGTTTTGTGAG
* * *
47361035 CTTTCGGGGGATTTAGCGG-GTTTTTTAGAAAGTGCCGC
65 CTTTC-AGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGC
47361073 AAAAAATTAT
Statistics
Matches: 286, Mismatches: 40, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
113 4 0.01
114 210 0.73
115 61 0.21
116 11 0.04
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (115 bp):
TTTAGCGGCGCTTTCTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACACCGTTTTGTGAGC
TTTCAGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
Found at i:47361459 original size:14 final size:14
Alignment explanation
Indices: 47361440--47361473 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
47361430 AAGTATGGGT
47361440 TTAGGGATTATGGA
1 TTAGGGATTATGGA
47361454 TTAGGGATTATGGA
1 TTAGGGATTATGGA
47361468 TTAGGG
1 TTAGGG
47361474 GTTGAGATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.38, T:0.35
Consensus pattern (14 bp):
TTAGGGATTATGGA
Found at i:47361499 original size:7 final size:7
Alignment explanation
Indices: 47361489--47361546 Score: 53
Period size: 7 Copynumber: 7.6 Consensus size: 7
47361479 GATTTAAGGT
47361489 TTAGGGG
1 TTAGGGG
47361496 TTAGAGGG
1 TTAG-GGG
*
47361504 TTAGGGT
1 TTAGGGG
47361511 TTAGGGG
1 TTAGGGG
*
47361518 TTAGACGTG
1 TTAG--GGG
47361527 TNTAGGGG
1 T-TAGGGG
47361535 TTTAGGGG
1 -TTAGGGG
47361543 TTAG
1 TTAG
47361547 ACGTGCTAGG
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
7 20 0.48
8 15 0.36
9 4 0.10
10 3 0.07
ACGTcount: A:0.17, C:0.02, G:0.47, T:0.33
Consensus pattern (7 bp):
TTAGGGG
Found at i:47361514 original size:22 final size:22
Alignment explanation
Indices: 47361468--47361547 Score: 90
Period size: 22 Copynumber: 3.5 Consensus size: 22
47361458 GGATTATGGA
* *
47361468 TTAGGGGTT-GAGATTTAAGGT
1 TTAGGGGTTAGAGAGTTAGGGT
*
47361489 TTAGGGGTTAGAGGGTTAGGGT
1 TTAGGGGTTAGAGAGTTAGGGT
*
47361511 TTAGGGGTTAGACGTGTNTAGGGGT
1 TTAGGGGTTAGA-GAGT-TA-GGGT
47361536 TTAGGGGTTAGA
1 TTAGGGGTTAGA
47361548 CGTGCTAGGG
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
21 9 0.18
22 21 0.41
23 3 0.06
24 2 0.04
25 16 0.31
ACGTcount: A:0.20, C:0.01, G:0.44, T:0.34
Consensus pattern (22 bp):
TTAGGGGTTAGAGAGTTAGGGT
Found at i:47361518 original size:14 final size:14
Alignment explanation
Indices: 47361436--47361521 Score: 57
Period size: 14 Copynumber: 6.1 Consensus size: 14
47361426 AGGGAAGTAT
*
47361436 GGGTTTAGGGATTA
1 GGGTTTAGGGGTTA
* * *
47361450 TGGATTAGGGATTA
1 GGGTTTAGGGGTTA
* *
47361464 TGGATTAGGGGTT-
1 GGGTTTAGGGGTTA
* * *
47361477 GAGATTTAAGGTTTA
1 G-GGTTTAGGGGTTA
*
47361492 GGGGTTAGAGGGTTA
1 GGGTTTAG-GGGTTA
47361507 GGGTTTAGGGGTTA
1 GGGTTTAGGGGTTA
47361521 G
1 G
47361522 ACGTGTNTAG
Statistics
Matches: 56, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
14 43 0.77
15 13 0.23
ACGTcount: A:0.22, C:0.00, G:0.43, T:0.35
Consensus pattern (14 bp):
GGGTTTAGGGGTTA
Found at i:47361541 original size:25 final size:24
Alignment explanation
Indices: 47361486--47361560 Score: 109
Period size: 25 Copynumber: 3.2 Consensus size: 24
47361476 TGAGATTTAA
*
47361486 GGTTTAGGGGTTAGA-GGGTTA-G
1 GGTTTAGGGGTTAGACGTGTTAGG
47361508 GGTTTAGGGGTTAGACGTGTNTAGG
1 GGTTTAGGGGTTAGACGTGT-TAGG
*
47361533 GGTTTAGGGGTTAGACGTGCTAGG
1 GGTTTAGGGGTTAGACGTGTTAGG
47361557 GGTT
1 GGTT
47361561 AAAAGTTAGG
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
22 15 0.31
23 3 0.06
24 10 0.21
25 20 0.42
ACGTcount: A:0.16, C:0.04, G:0.47, T:0.32
Consensus pattern (24 bp):
GGTTTAGGGGTTAGACGTGTTAGG
Found at i:47361835 original size:21 final size:21
Alignment explanation
Indices: 47361811--47361850 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
47361801 GATTTAAGGT
* *
47361811 TTAGGGGTTAGGGGTTAGATG
1 TTAGGGGTTAAGAGTTAGATG
47361832 TTAGGGGTTAAGAGTTAGA
1 TTAGGGGTTAAGAGTTAGA
47361851 GATTTAAGGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.00, G:0.42, T:0.33
Consensus pattern (21 bp):
TTAGGGGTTAAGAGTTAGATG
Found at i:47362648 original size:88 final size:89
Alignment explanation
Indices: 47362522--47362685 Score: 267
Period size: 88 Copynumber: 1.9 Consensus size: 89
47362512 CGCCGTAAAA
* * *
47362522 AATAAATCAATTTATAAAAAAATAAAATAAAAAATTTTTAGCATCGCAAAACGGCGTCATTTTGT
1 AATAAATCAATTTATAAAAAAACAAAATAAAAAATTTTTAGAATAGCAAAACGGCGTCATTTTGT
* *
47362587 TGAGAATGAAATAGCGGCGTTTTT
66 TCAAAATGAAATAGCGGCGTTTTT
*
47362611 AATAAATCAATTTAT-AAAAAACAAAATAAAAACTTTTTAGAATAGCAAAACGGCGTCATTTTGT
1 AATAAATCAATTTATAAAAAAACAAAATAAAAAATTTTTAGAATAGCAAAACGGCGTCATTTTGT
47362675 TCAAAATGAAA
66 TCAAAATGAAA
47362686 AAAATTTTGC
Statistics
Matches: 69, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
88 54 0.78
89 15 0.22
ACGTcount: A:0.48, C:0.10, G:0.12, T:0.30
Consensus pattern (89 bp):
AATAAATCAATTTATAAAAAAACAAAATAAAAAATTTTTAGAATAGCAAAACGGCGTCATTTTGT
TCAAAATGAAATAGCGGCGTTTTT
Found at i:47362874 original size:105 final size:107
Alignment explanation
Indices: 47362736--47362949 Score: 315
Period size: 106 Copynumber: 2.0 Consensus size: 107
47362726 AGAGGTAAGC
* * * *
47362736 AATAGTGGCGTTTTTATAAAAAAACGCCGCAAAAAATAAATCAATTTATAAATAA-AAAATAAAA
1 AATAGCGGCATTTTTATAAAAAAACGCCACAAAAAATAAATCAATTTATAAAAAACAAAATAAAA
* ** * *
47362800 AATTTTTAGCATAGCAAAACGGCGTCATTTTGTTGAAAATGA
66 AATTTTTAGAATAAAAAAACGGCGTCATTTAGTTCAAAATGA
*
47362842 AATAGCGGCATTTTT-TATAAAAACGCCACAAAAAATAAATCAATTTATAAAAAACAAAATAAAA
1 AATAGCGGCATTTTTATAAAAAAACGCCACAAAAAATAAATCAATTTATAAAAAACAAAATAAAA
*
47362906 AATTTTTAGAATAAAAAAACGGTGTCATTTAGTTCAAAATGA
66 AATTTTTAGAATAAAAAAACGGCGTCATTTAGTTCAAAATGA
47362948 AA
1 AA
47362950 AATTTATGCG
Statistics
Matches: 96, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
105 36 0.38
106 60 0.62
ACGTcount: A:0.51, C:0.10, G:0.11, T:0.28
Consensus pattern (107 bp):
AATAGCGGCATTTTTATAAAAAAACGCCACAAAAAATAAATCAATTTATAAAAAACAAAATAAAA
AATTTTTAGAATAAAAAAACGGCGTCATTTAGTTCAAAATGA
Found at i:47362924 original size:24 final size:23
Alignment explanation
Indices: 47362871--47362924 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 23
47362861 AAAACGCCAC
*
47362871 AAAAAATAAATCAATTTATAAAA
1 AAAAAATAAATAAATTTATAAAA
*
47362894 AACAAAATAAA-AAATTTTTAGAATA
1 AA-AAAATAAATAAATTTATA-AA-A
47362919 AAAAAA
1 AAAAAA
47362925 CGGTGTCATT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 9 0.35
24 14 0.54
25 3 0.12
ACGTcount: A:0.70, C:0.04, G:0.02, T:0.24
Consensus pattern (23 bp):
AAAAAATAAATAAATTTATAAAA
Found at i:47363291 original size:40 final size:40
Alignment explanation
Indices: 47363247--47363327 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
47363237 CCAAGAAACA
47363247 ATGAGAAAAAGAGCAAAAAGGAATTGCGACTATTAGCTCG
1 ATGAGAAAAAGAGCAAAAAGGAATTGCGACTATTAGCTCG
*
47363287 ATGAGAAAAAGAGCAAAAAGGGATTGCGACTATTAGCTCG
1 ATGAGAAAAAGAGCAAAAAGGAATTGCGACTATTAGCTCG
47363327 A
1 A
47363328 GTTAAACCAT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.44, C:0.12, G:0.26, T:0.17
Consensus pattern (40 bp):
ATGAGAAAAAGAGCAAAAAGGAATTGCGACTATTAGCTCG
Found at i:47364639 original size:130 final size:130
Alignment explanation
Indices: 47364406--47364665 Score: 457
Period size: 130 Copynumber: 2.0 Consensus size: 130
47364396 CAAGGGAAGA
* * *
47364406 GGAGGAGCTCACGTTTATCTGGTGTATTGGATGCTTGCAAGGTACAACAATCACAGAAAATGGCT
1 GGAGGACCTCACGTTTATCTGGTGTATTAGATGCTTGCAAGGCACAACAATCACAGAAAATGGCT
*
47364471 TTACATGAAAACATCACCAAGGGACCATATGATGATAAAGCAGCACCCTCCACTAGTTATACTCT
66 TCACATGAAAACATCACCAAGGGACCATATGATGATAAAGCAGCACCCTCCACTAGTTATACTCT
*
47364536 GGAGGACCTCACGTTTATCTGGTGTATTAGATGCTTGCAAGGCACAGCAATCACAGAAAATGGCT
1 GGAGGACCTCACGTTTATCTGGTGTATTAGATGCTTGCAAGGCACAACAATCACAGAAAATGGCT
* *
47364601 TCACATGAAAGCATCACCAAGGGACCATATGATGATAAAGCAGCACCCTCCACTGGTTATACTCT
66 TCACATGAAAACATCACCAAGGGACCATATGATGATAAAGCAGCACCCTCCACTAGTTATACTCT
47364666 AATACAAGAT
Statistics
Matches: 123, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
130 123 1.00
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (130 bp):
GGAGGACCTCACGTTTATCTGGTGTATTAGATGCTTGCAAGGCACAACAATCACAGAAAATGGCT
TCACATGAAAACATCACCAAGGGACCATATGATGATAAAGCAGCACCCTCCACTAGTTATACTCT
Found at i:47367267 original size:8 final size:8
Alignment explanation
Indices: 47367254--47367337 Score: 59
Period size: 8 Copynumber: 10.5 Consensus size: 8
47367244 GTCATACCAT
47367254 ATAACTTA
1 ATAACTTA
47367262 ATAACTTA
1 ATAACTTA
*
47367270 TATAA-TTC
1 -ATAACTTA
*
47367278 A-CA-T-A
1 ATAACTTA
47367283 ATAACTTA
1 ATAACTTA
47367291 CATAACTTA
1 -ATAACTTA
47367300 ATAACTTA
1 ATAACTTA
* *
47367308 ACAACTCA
1 ATAACTTA
*
47367316 CATAATTTA
1 -ATAACTTA
47367325 CATAACTTA
1 -ATAACTTA
47367334 ATAA
1 ATAA
47367338 TTTTAAAATA
Statistics
Matches: 60, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
5 1 0.02
6 3 0.05
7 2 0.03
8 29 0.48
9 25 0.42
ACGTcount: A:0.49, C:0.17, G:0.00, T:0.35
Consensus pattern (8 bp):
ATAACTTA
Found at i:47367274 original size:17 final size:17
Alignment explanation
Indices: 47367254--47367337 Score: 64
Period size: 17 Copynumber: 4.7 Consensus size: 17
47367244 GTCATACCAT
*
47367254 ATAACTTAATAACTTAT
1 ATAACTTAATAACTTAC
47367271 ATAA-TTCACATAATAACTTAC
1 ATAACTT-A-AT---AACTTAC
47367292 ATAACTTAATAACTTA-
1 ATAACTTAATAACTTAC
* * *
47367308 ACAACTCACATAATTTAC
1 ATAACTTA-ATAACTTAC
47367326 ATAACTTAATAA
1 ATAACTTAATAA
47367338 TTTTAAAATA
Statistics
Matches: 53, Mismatches: 6, Indels: 16
0.71 0.08 0.21
Matches are distributed among these distances:
16 8 0.15
17 22 0.42
18 8 0.15
20 2 0.04
21 11 0.21
22 2 0.04
ACGTcount: A:0.49, C:0.17, G:0.00, T:0.35
Consensus pattern (17 bp):
ATAACTTAATAACTTAC
Found at i:47367295 original size:9 final size:8
Alignment explanation
Indices: 47367281--47367337 Score: 60
Period size: 9 Copynumber: 6.8 Consensus size: 8
47367271 ATAATTCACA
47367281 TAATAACT
1 TAATAACT
47367289 TACATAACT
1 TA-ATAACT
47367298 TAATAACT
1 TAATAACT
*
47367306 TAACAACT
1 TAATAACT
* *
47367314 CACATAATT
1 TA-ATAACT
47367323 TACATAACT
1 TA-ATAACT
47367332 TAATAA
1 TAATAA
47367338 TTTTAAAATA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
8 20 0.49
9 21 0.51
ACGTcount: A:0.49, C:0.18, G:0.00, T:0.33
Consensus pattern (8 bp):
TAATAACT
Found at i:47367331 original size:34 final size:36
Alignment explanation
Indices: 47367254--47367337 Score: 118
Period size: 34 Copynumber: 2.3 Consensus size: 36
47367244 GTCATACCAT
* *
47367254 ATAACTTAATAACTTATATAATTCACATAATAACTTAC
1 ATAACTTAATAACTTATACAACTCACATAAT-A-TTAC
47367292 ATAACTTAATAACTTA-ACAACTCACATAAT-TTAC
1 ATAACTTAATAACTTATACAACTCACATAATATTAC
47367326 ATAACTTAATAA
1 ATAACTTAATAA
47367338 TTTTAAAATA
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
34 16 0.36
37 12 0.27
38 16 0.36
ACGTcount: A:0.49, C:0.17, G:0.00, T:0.35
Consensus pattern (36 bp):
ATAACTTAATAACTTATACAACTCACATAATATTAC
Found at i:47367340 original size:17 final size:17
Alignment explanation
Indices: 47367281--47367337 Score: 71
Period size: 17 Copynumber: 3.4 Consensus size: 17
47367271 ATAATTCACA
47367281 TAATAACTTACATAACT
1 TAATAACTTACATAACT
*
47367298 TAATAACTTA-ACAACT
1 TAATAACTTACATAACT
* *
47367314 CACATAATTTACATAACT
1 TA-ATAACTTACATAACT
47367332 TAATAA
1 TAATAA
47367338 TTTTAAAATA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
16 6 0.18
17 21 0.64
18 6 0.18
ACGTcount: A:0.49, C:0.18, G:0.00, T:0.33
Consensus pattern (17 bp):
TAATAACTTACATAACT
Found at i:47367455 original size:17 final size:17
Alignment explanation
Indices: 47367433--47367504 Score: 60
Period size: 17 Copynumber: 4.2 Consensus size: 17
47367423 ATTACTCACA
47367433 TAATAACTTACATAACT
1 TAATAACTTACATAACT
*
47367450 TAATAACTTATATATA-T
1 TAATAACTTACATA-ACT
47367467 GT-ATAACTTA-ATAACT
1 -TAATAACTTACATAACT
* * *
47367483 CATATTATTTACATAACT
1 TA-ATAACTTACATAACT
47367501 TAAT
1 TAAT
47367505 CATTGTAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
15 1 0.02
16 4 0.09
17 30 0.68
18 9 0.20
ACGTcount: A:0.44, C:0.12, G:0.01, T:0.42
Consensus pattern (17 bp):
TAATAACTTACATAACT
Found at i:47367457 original size:8 final size:8
Alignment explanation
Indices: 47367433--47367482 Score: 50
Period size: 8 Copynumber: 6.0 Consensus size: 8
47367423 ATTACTCACA
47367433 TAATAACT
1 TAATAACT
47367441 TACATAACT
1 TA-ATAACT
47367450 TAATAACT
1 TAATAACT
47367458 TATATATA-T
1 TA-ATA-ACT
47367467 GT-ATAACT
1 -TAATAACT
47367475 TAATAACT
1 TAATAACT
47367483 CATATTATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
7 2 0.06
8 20 0.56
9 12 0.33
10 2 0.06
ACGTcount: A:0.46, C:0.12, G:0.02, T:0.40
Consensus pattern (8 bp):
TAATAACT
Found at i:47367478 original size:25 final size:25
Alignment explanation
Indices: 47367444--47367504 Score: 79
Period size: 25 Copynumber: 2.4 Consensus size: 25
47367434 AATAACTTAC
*
47367444 ATAACTTAATAACTTATATATATGT-
1 ATAACTTAATAACTCATAT-TATGTA
*
47367469 ATAACTTAATAACTCATATTATTTA
1 ATAACTTAATAACTCATATTATGTA
47367494 CATAACTTAAT
1 -ATAACTTAAT
47367505 CATTGTAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
24 4 0.12
25 18 0.56
26 10 0.31
ACGTcount: A:0.44, C:0.11, G:0.02, T:0.43
Consensus pattern (25 bp):
ATAACTTAATAACTCATATTATGTA
Found at i:47368030 original size:44 final size:42
Alignment explanation
Indices: 47367982--47368169 Score: 166
Period size: 43 Copynumber: 4.4 Consensus size: 42
47367972 CGTTTTAAAA
**
47367982 AAAAGCGCCGCTAAAGGCCACCAAACAATAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGG-CA-CAAACTTTAGCGGCGTTTGTGGG
* **
47368026 AAAAGCGCCGCTAAA-GAACATGGCCTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGCACA--AACTTTAGCGGCGTTTGTGGG
* * *
47368069 AAAAGCGCCGCTAAA-GAACATAACTTTTAACTGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGCACA-AAC-TTTAGCGGCGTTTGTGGG
* **
47368112 AAAAGCGCCGCTAAA-GAACATGGCTTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGCACA-AAC-TTTAGCGGCGTTTGTGGG
* *
47368155 AGAAGCACCGCTAAA
1 AAAAGCGCCGCTAAA
47368170 AAACATGGCC
Statistics
Matches: 125, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
41 2 0.02
42 2 0.02
43 106 0.85
44 15 0.12
ACGTcount: A:0.30, C:0.21, G:0.29, T:0.20
Consensus pattern (42 bp):
AAAAGCGCCGCTAAAGGCACAAACTTTAGCGGCGTTTGTGGG
Found at i:47368068 original size:43 final size:43
Alignment explanation
Indices: 47368010--47368235 Score: 317
Period size: 43 Copynumber: 5.3 Consensus size: 43
47368000 CACCAAACAA
47368010 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGAACATGGCCTT
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGAACATGGCCTT
** *
47368053 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGAACATAACTTT
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGAACATGGCCTT
* * *
47368096 TAACTGCGTTTGTGGGAAAAGCGCCGCTAAAGAACATGGCTTT
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGAACATGGCCTT
* * *
47368139 TAGCGGCGTTTGTGGGAGAAGCACCGCTAAAAAACATGGCCTT
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGAACATGGCCTT
* * * * * *
47368182 TAGCAGCATGTGCGGGAAAAGTGCCGCTAAAGAACATGACCTT
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGAACATGGCCTT
47368225 TAGCGGCGTTT
1 TAGCGGCGTTT
47368236 ATTTCTATAA
Statistics
Matches: 158, Mismatches: 25, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 158 1.00
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.23
Consensus pattern (43 bp):
TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGAACATGGCCTT
Found at i:47369399 original size:14 final size:14
Alignment explanation
Indices: 47369380--47369407 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
47369370 TAAAGTTATA
47369380 TTTAATAATTCATT
1 TTTAATAATTCATT
47369394 TTTAATAATTCATT
1 TTTAATAATTCATT
47369408 AATAAATTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (14 bp):
TTTAATAATTCATT
Found at i:47383411 original size:41 final size:41
Alignment explanation
Indices: 47383366--47383656 Score: 294
Period size: 41 Copynumber: 7.0 Consensus size: 41
47383356 GTTACTCGAT
47383366 GGAATCAGCACTTAGCAACCACCTTATATTCAGTGATACGG
1 GGAATCAGCACTTAGCAACCACCTTATATTCAGTGATACGG
* *
47383407 GGAATCAACACATAGCAACC-CCTT-TCACTATCAAG-GATACGG
1 GGAATCAGCACTTAGCAACCACCTTAT-A-T-TC-AGTGATACGG
*
47383449 TGGAATCAGCACTTAGCAACCACCTTATATTTAGTGATACGG
1 -GGAATCAGCACTTAGCAACCACCTTATATTCAGTGATACGG
* *
47383491 GGAATCAACACATAGCAACC-CCTT-TCACTATCAAG-GATACGG
1 GGAATCAGCACTTAGCAACCACCTTAT-A-T-TC-AGTGATACGG
*
47383533 TGGAATCAGCACTTAGCAACCACCTTATATTTAGTGATACGG
1 -GGAATCAGCACTTAGCAACCACCTTATATTCAGTGATACGG
* *
47383575 GGAATCAACACATAGCAACC-CCTT-TCACTATCAAG-GATACGG
1 GGAATCAGCACTTAGCAACCACCTTAT-A-T-TC-AGTGATACGG
* *
47383617 CGAGATCAGTACTTAGCAACCACCTTATATTCAGTGATAC
1 GGA-ATCAGCACTTAGCAACCACCTTATATTCAGTGATAC
47383657 CGGTTCACAT
Statistics
Matches: 208, Mismatches: 18, Indels: 47
0.76 0.07 0.17
Matches are distributed among these distances:
39 3 0.01
40 15 0.07
41 63 0.30
42 50 0.24
43 59 0.28
44 15 0.07
45 3 0.01
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (41 bp):
GGAATCAGCACTTAGCAACCACCTTATATTCAGTGATACGG
Found at i:47383506 original size:84 final size:84
Alignment explanation
Indices: 47383365--47383656 Score: 532
Period size: 84 Copynumber: 3.5 Consensus size: 84
47383355 CGTTACTCGA
47383365 TGGAATCAGCACTTAGCAACCACCTTATATTCAGTGATACGGGGAATCAACACATAGCAACCCCT
1 TGGAATCAGCACTTAGCAACCACCTTATATTCAGTGATACGGGGAATCAACACATAGCAACCCCT
47383430 TTCACTATCAAGGATACGG
66 TTCACTATCAAGGATACGG
*
47383449 TGGAATCAGCACTTAGCAACCACCTTATATTTAGTGATACGGGGAATCAACACATAGCAACCCCT
1 TGGAATCAGCACTTAGCAACCACCTTATATTCAGTGATACGGGGAATCAACACATAGCAACCCCT
47383514 TTCACTATCAAGGATACGG
66 TTCACTATCAAGGATACGG
*
47383533 TGGAATCAGCACTTAGCAACCACCTTATATTTAGTGATACGGGGAATCAACACATAGCAACCCCT
1 TGGAATCAGCACTTAGCAACCACCTTATATTCAGTGATACGGGGAATCAACACATAGCAACCCCT
47383598 TTCACTATCAAGGATACGG
66 TTCACTATCAAGGATACGG
* *
47383617 -CGAGATCAGTACTTAGCAACCACCTTATATTCAGTGATAC
1 TGGA-ATCAGCACTTAGCAACCACCTTATATTCAGTGATAC
47383657 CGGTTCACAT
Statistics
Matches: 203, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
83 2 0.01
84 201 0.99
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.24
Consensus pattern (84 bp):
TGGAATCAGCACTTAGCAACCACCTTATATTCAGTGATACGGGGAATCAACACATAGCAACCCCT
TTCACTATCAAGGATACGG
Done.