Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold440
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: 457504
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.30
Warning! 43543 characters in sequence are not A, C, G, or T
File 2 of 2
Found at i:374320 original size:19 final size:19
Alignment explanation
Indices: 374226--374325 Score: 164
Period size: 19 Copynumber: 5.3 Consensus size: 19
374216 GGTTGAAACA
* *
374226 TAATCTTAGATATAATATA
1 TAATCTTAGATATGATATG
374245 TAATCTTAGATATGATATG
1 TAATCTTAGATATGATATG
*
374264 TAATCTTAGATATGATATA
1 TAATCTTAGATATGATATG
374283 TAATCTTAGATATGATATG
1 TAATCTTAGATATGATATG
374302 TAATCTTAGATATGATATG
1 TAATCTTAGATATGATATG
*
374321 CAATC
1 TAATC
374326 ACTTAGAGAT
Statistics
Matches: 76, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 76 1.00
ACGTcount: A:0.40, C:0.07, G:0.12, T:0.41
Consensus pattern (19 bp):
TAATCTTAGATATGATATG
Found at i:374675 original size:22 final size:21
Alignment explanation
Indices: 374630--374676 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
374620 TTAAGTTTTT
*
374630 TTTTATTTTTTTAATTTACCA
1 TTTTATTTTTTTAAATTACCA
374651 TTTTATTTATTTTAAATT-CCA
1 TTTTATTT-TTTTAAATTACCA
*
374672 ATTTA
1 TTTTA
374677 ATCCTTTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 15 0.65
22 8 0.35
ACGTcount: A:0.28, C:0.09, G:0.00, T:0.64
Consensus pattern (21 bp):
TTTTATTTTTTTAAATTACCA
Found at i:374866 original size:22 final size:21
Alignment explanation
Indices: 374841--374889 Score: 53
Period size: 23 Copynumber: 2.2 Consensus size: 21
374831 TTTATCTTAA
374841 AATTAATTAATTTTAATAATGT
1 AATTAATTAATTTTAAT-ATGT
** *
374863 AATTTTTTTAATTTTTATATGT
1 AA-TTAATTAATTTTAATATGT
374885 AATTA
1 AATTA
374890 TTATTTACAT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
21 2 0.09
22 8 0.36
23 12 0.55
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (21 bp):
AATTAATTAATTTTAATATGT
Found at i:374924 original size:18 final size:18
Alignment explanation
Indices: 374879--374929 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
374869 TTTAATTTTT
*
374879 ATATGTAATTATTATTTAC
1 ATATGT-ATTATTATGTAC
* * *
374898 ATGTATATTTTTATGTAC
1 ATATGTATTATTATGTAC
374916 ATATGTATTATTAT
1 ATATGTATTATTAT
374930 TTTTTTCAAA
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
18 21 0.84
19 4 0.16
ACGTcount: A:0.33, C:0.04, G:0.08, T:0.55
Consensus pattern (18 bp):
ATATGTATTATTATGTAC
Found at i:375199 original size:10 final size:12
Alignment explanation
Indices: 375182--375213 Score: 50
Period size: 10 Copynumber: 2.8 Consensus size: 12
375172 GTATTTTGTT
375182 TATATAAATTT-
1 TATATAAATTTA
375193 T-TATAAATTTA
1 TATATAAATTTA
375204 TATATAAATT
1 TATATAAATT
375214 CATTTGCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
10 9 0.47
11 2 0.11
12 8 0.42
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (12 bp):
TATATAAATTTA
Found at i:379882 original size:7 final size:7
Alignment explanation
Indices: 379862--379904 Score: 50
Period size: 7 Copynumber: 6.1 Consensus size: 7
379852 ACTCAATAGA
*
379862 CAATCCG
1 CAATCCT
379869 CAATCCT
1 CAATCCT
379876 CAATCCT
1 CAATCCT
* *
379883 AAATTCT
1 CAATCCT
*
379890 CAATTCT
1 CAATCCT
379897 CAATCCT
1 CAATCCT
379904 C
1 C
379905 GATTCTCGAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.30, C:0.37, G:0.02, T:0.30
Consensus pattern (7 bp):
CAATCCT
Found at i:379975 original size:7 final size:7
Alignment explanation
Indices: 379869--379985 Score: 99
Period size: 7 Copynumber: 16.7 Consensus size: 7
379859 AGACAATCCG
*
379869 CAATCCT
1 CAATTCT
*
379876 CAATCCT
1 CAATTCT
*
379883 AAATTCT
1 CAATTCT
379890 CAATTCT
1 CAATTCT
*
379897 CAATCCT
1 CAATTCT
*
379904 CGATTCT
1 CAATTCT
*
379911 CGATTCT
1 CAATTCT
*
379918 CGATTCT
1 CAATTCT
379925 CAATTCT
1 CAATTCT
**
379932 CGGTTCT
1 CAATTCT
*
379939 CGATTCT
1 CAATTCT
379946 CAATTCT
1 CAATTCT
**
379953 CGCTTCT
1 CAATTCT
**
379960 TGATTCT
1 CAATTCT
379967 CAATTCT
1 CAATTCT
*
379974 CAAATCT
1 CAATTCT
379981 CAATT
1 CAATT
379986 ATTTTTTTAA
Statistics
Matches: 91, Mismatches: 19, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
7 91 1.00
ACGTcount: A:0.23, C:0.30, G:0.07, T:0.40
Consensus pattern (7 bp):
CAATTCT
Found at i:382084 original size:21 final size:21
Alignment explanation
Indices: 382058--382100 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
382048 TTTTCGGGTA
382058 CACACCTAGTTCTGTTTGATG
1 CACACCTAGTTCTGTTTGATG
382079 CACACCTAGTTCTGTTTGATG
1 CACACCTAGTTCTGTTTGATG
382100 C
1 C
382101 TAAAACAGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.19, C:0.26, G:0.19, T:0.37
Consensus pattern (21 bp):
CACACCTAGTTCTGTTTGATG
Found at i:386988 original size:14 final size:14
Alignment explanation
Indices: 386969--387013 Score: 53
Period size: 12 Copynumber: 3.5 Consensus size: 14
386959 TCATAATTTG
*
386969 TAATTTTTTTTTTA
1 TAATTTTTTTTATA
386983 TAA--TTTTTTATA
1 TAATTTTTTTTATA
386995 TAA-TTTTTTTATA
1 TAATTTTTTTTATA
387008 -AATTTT
1 TAATTTT
387014 AAATTGTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
12 13 0.46
13 12 0.43
14 3 0.11
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (14 bp):
TAATTTTTTTTATA
Found at i:386991 original size:11 final size:11
Alignment explanation
Indices: 386975--387013 Score: 60
Period size: 12 Copynumber: 3.4 Consensus size: 11
386965 TTTGTAATTT
386975 TTTTTTTATAA
1 TTTTTTTATAA
386986 TTTTTTATATAA
1 TTTTTT-TATAA
386998 TTTTTTTATAAA
1 TTTTTTTAT-AA
387010 TTTT
1 TTTT
387014 AAATTGTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
11 9 0.35
12 17 0.65
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
TTTTTTTATAA
Found at i:395481 original size:30 final size:30
Alignment explanation
Indices: 395398--395484 Score: 93
Period size: 30 Copynumber: 2.8 Consensus size: 30
395388 CAAAATTCAA
* * *
395398 AATTCAAAAAGTATAGGGACCAAAATTGACC
1 AATTCAAAAAGTATAAGGA-CTAAATTAACC
* * *
395429 AATTAAAAAAAGTTTAATGACTAAATTAACC
1 AATT-CAAAAAGTATAAGGACTAAATTAACC
*
395460 AATTCAAAAAGTACAAGGACTAAAT
1 AATTCAAAAAGTATAAGGACTAAAT
395485 CCATAACTTT
Statistics
Matches: 45, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
30 17 0.38
31 17 0.38
32 11 0.24
ACGTcount: A:0.53, C:0.13, G:0.11, T:0.23
Consensus pattern (30 bp):
AATTCAAAAAGTATAAGGACTAAATTAACC
Found at i:398392 original size:40 final size:39
Alignment explanation
Indices: 398348--398424 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 39
398338 TCAAACATAT
* *
398348 ATTTATATTTATACAATA-TTCATAATTGTAATTATATTGA
1 ATTTATAATTATACAATACTTC-TAATTAT-ATTATATTGA
*
398388 ATTTATAATTATACGATACTTCTAATTATATTATATT
1 ATTTATAATTATACAATACTTCTAATTATATTATATT
398425 TGTAATCACA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
39 8 0.24
40 22 0.67
41 3 0.09
ACGTcount: A:0.39, C:0.06, G:0.04, T:0.51
Consensus pattern (39 bp):
ATTTATAATTATACAATACTTCTAATTATATTATATTGA
Found at i:398430 original size:17 final size:18
Alignment explanation
Indices: 398363--398430 Score: 54
Period size: 17 Copynumber: 3.9 Consensus size: 18
398353 TATTTATACA
*
398363 ATATTCATAATTGTAATT
1 ATATTCATATTTGTAATT
* *
398381 ATATTGA-ATTTATAATT
1 ATATTCATATTTGTAATT
* *
398398 ATA--CGATACTTCTAATT
1 ATATTC-ATATTTGTAATT
398415 ATATT-ATATTTGTAAT
1 ATATTCATATTTGTAAT
398431 CACAAATCTT
Statistics
Matches: 38, Mismatches: 8, Indels: 9
0.69 0.15 0.16
Matches are distributed among these distances:
16 1 0.03
17 31 0.82
18 6 0.16
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (18 bp):
ATATTCATATTTGTAATT
Found at i:399049 original size:93 final size:93
Alignment explanation
Indices: 398932--399116 Score: 363
Period size: 92 Copynumber: 2.0 Consensus size: 93
398922 AGAAAAAAAA
398932 AAACTTTATATTACTTTTATAAAAAAAAAGAAGATATTATATAATTTAGACTTAAAATATAAAAT
1 AAACTTTATATTACTTTTATAAAAAAAAAGAAGATATTATATAATTTAGACTTAAAATATAAAAT
398997 AGTATCTAAATTACATTTCTTTCTTAAG
66 AGTATCTAAATTACATTTCTTTCTTAAG
399025 AAACTTTATA-TACTTTTATAAAAAAAAAGAAGATATTATATAATTTAGACTTAAAATATAAAAT
1 AAACTTTATATTACTTTTATAAAAAAAAAGAAGATATTATATAATTTAGACTTAAAATATAAAAT
399089 AGTATCTAAATTACATTTCTTTCTTAAG
66 AGTATCTAAATTACATTTCTTTCTTAAG
399117 TTAGGTATTT
Statistics
Matches: 92, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
92 82 0.89
93 10 0.11
ACGTcount: A:0.48, C:0.08, G:0.05, T:0.39
Consensus pattern (93 bp):
AAACTTTATATTACTTTTATAAAAAAAAAGAAGATATTATATAATTTAGACTTAAAATATAAAAT
AGTATCTAAATTACATTTCTTTCTTAAG
Found at i:403041 original size:20 final size:20
Alignment explanation
Indices: 403016--403195 Score: 69
Period size: 20 Copynumber: 9.0 Consensus size: 20
403006 GAAGTACAAA
403016 TAGGGGCACATATGTGCAAT
1 TAGGGGCACATATGTGCAAT
* ** * *
403036 TAGGGGTACCGAAGTACGAA-
1 TAGGGGCACATATGTGC-AAT
*
403056 TAGGGGGACATATGTGCAAT
1 TAGGGGCACATATGTGCAAT
* * * ** * * *
403076 CAGGAGTACCGAAGTACAAA
1 TAGGGGCACATATGTGCAAT
*
403096 TAGGGGCATATATGTGCAAT
1 TAGGGGCACATATGTGCAAT
* * * *
403116 TAGGGGTAC-TGAAGTACAAA
1 TAGGGGCACAT-ATGTGCAAT
* *
403136 CAGGGGCACGTATGTGCAAT
1 TAGGGGCACATATGTGCAAT
* * * * *
403156 CAGGGGTAC-TAAAGTACAAA
1 TAGGGGCACAT-ATGTGCAAT
*
403176 TAGGGACACATATGTGCAAT
1 TAGGGGCACATATGTGCAAT
403196 CAGGTGTACC
Statistics
Matches: 107, Mismatches: 47, Indels: 12
0.64 0.28 0.07
Matches are distributed among these distances:
19 4 0.04
20 99 0.93
21 4 0.04
ACGTcount: A:0.35, C:0.14, G:0.30, T:0.21
Consensus pattern (20 bp):
TAGGGGCACATATGTGCAAT
Found at i:403221 original size:40 final size:40
Alignment explanation
Indices: 402999--403237 Score: 334
Period size: 40 Copynumber: 6.0 Consensus size: 40
402989 GTGCATTTAA
*
402999 GGGTACCGAAGTACAAATAGGGGCACATATGTGCAATTAG
1 GGGTACCGAAGTACAAATAGGGGCACATATGTGCAATCAG
* *
403039 GGGTACCGAAGTACGAATAGGGGGACATATGTGCAATCAG
1 GGGTACCGAAGTACAAATAGGGGCACATATGTGCAATCAG
* * *
403079 GAGTACCGAAGTACAAATAGGGGCATATATGTGCAATTAG
1 GGGTACCGAAGTACAAATAGGGGCACATATGTGCAATCAG
* * *
403119 GGGTACTGAAGTACAAACAGGGGCACGTATGTGCAATCAG
1 GGGTACCGAAGTACAAATAGGGGCACATATGTGCAATCAG
** *
403159 GGGTACTAAAGTACAAATAGGGACACATATGTGCAATCAG
1 GGGTACCGAAGTACAAATAGGGGCACATATGTGCAATCAG
* * * *
403199 GTGTACCGAAGTACAAACAGGGACACGTATGTGCAATCA
1 GGGTACCGAAGTACAAATAGGGGCACATATGTGCAATCA
403238 TACAATAATC
Statistics
Matches: 176, Mismatches: 23, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 176 1.00
ACGTcount: A:0.36, C:0.16, G:0.29, T:0.19
Consensus pattern (40 bp):
GGGTACCGAAGTACAAATAGGGGCACATATGTGCAATCAG
Found at i:410055 original size:40 final size:40
Alignment explanation
Indices: 409994--410282 Score: 335
Period size: 40 Copynumber: 7.2 Consensus size: 40
409984 GTGCACGAAA
* * * * *
409994 GTGCATTCAAGTGTACCAAAGTACAAATAGGGGCACATAT
1 GTGCAATCAAGGGTACCGAAGTACAAACAGGGGCACGTAT
* * * *
410034 GTGAAATCAAGGCTACCAAAGTACGAACAGGGGCACGTAT
1 GTGCAATCAAGGGTACCGAAGTACAAACAGGGGCACGTAT
* * * * *
410074 GTGCCATAAAGAGTACCGAAGTACAAATAGGGGCATGTAT
1 GTGCAATCAAGGGTACCGAAGTACAAACAGGGGCACGTAT
* *
410114 GTGCAATCAGGGGTACCGAAGTACAAACAGGGGCACGCAT
1 GTGCAATCAAGGGTACCGAAGTACAAACAGGGGCACGTAT
* * ** *
410154 GTGCAATCAAGGGCACTGAAGTACAAACAGGATCACTTAT
1 GTGCAATCAAGGGTACCGAAGTACAAACAGGGGCACGTAT
* *
410194 GTGCAATCAAGGGTACCAAAGTACAAACAGGGACACGTAT
1 GTGCAATCAAGGGTACCGAAGTACAAACAGGGGCACGTAT
* * *
410234 GTGCAATCAAGGGTACCGAAGTATAAACAAGGACACGTAT
1 GTGCAATCAAGGGTACCGAAGTACAAACAGGGGCACGTAT
*
410274 GTACAATCA
1 GTGCAATCA
410283 TATAATAATT
Statistics
Matches: 209, Mismatches: 40, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 209 1.00
ACGTcount: A:0.38, C:0.19, G:0.26, T:0.18
Consensus pattern (40 bp):
GTGCAATCAAGGGTACCGAAGTACAAACAGGGGCACGTAT
Found at i:413933 original size:2 final size:2
Alignment explanation
Indices: 413922--413952 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
413912 AAACATTTCA
413922 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
413953 TAGTTTTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:420591 original size:55 final size:55
Alignment explanation
Indices: 420525--420691 Score: 334
Period size: 55 Copynumber: 3.0 Consensus size: 55
420515 AATATGTGGA
420525 TCATCACAAAGGAAGCATCGCATTTGCCCTTTTGGTTTGTTATCGAGATTCCACT
1 TCATCACAAAGGAAGCATCGCATTTGCCCTTTTGGTTTGTTATCGAGATTCCACT
420580 TCATCACAAAGGAAGCATCGCATTTGCCCTTTTGGTTTGTTATCGAGATTCCACT
1 TCATCACAAAGGAAGCATCGCATTTGCCCTTTTGGTTTGTTATCGAGATTCCACT
420635 TCATCACAAAGGAAGCATCGCATTTGCCCTTTTGGTTTGTTATCGAGATTCCACT
1 TCATCACAAAGGAAGCATCGCATTTGCCCTTTTGGTTTGTTATCGAGATTCCACT
420690 TC
1 TC
420692 CCATTATGTG
Statistics
Matches: 112, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 112 1.00
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.35
Consensus pattern (55 bp):
TCATCACAAAGGAAGCATCGCATTTGCCCTTTTGGTTTGTTATCGAGATTCCACT
Found at i:426477 original size:25 final size:26
Alignment explanation
Indices: 426449--426499 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
426439 TTGTAAATCA
**
426449 GAAAAAATGTCTTTAGA-AATTTTCT
1 GAAAAAACCTCTTTAGAGAATTTTCT
*
426474 GAAATAACCTCTTTAGAGAATTTTCT
1 GAAAAAACCTCTTTAGAGAATTTTCT
426500 CTCTACAACT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 14 0.64
26 8 0.36
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (26 bp):
GAAAAAACCTCTTTAGAGAATTTTCT
Found at i:426632 original size:21 final size:21
Alignment explanation
Indices: 426608--426647 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
426598 AATCACATTG
426608 ATATTAAATTAATATAATAAA
1 ATATTAAATTAATATAATAAA
* *
426629 ATATTATATTAATTTAATA
1 ATATTAAATTAATATAATA
426648 TTAAAAAATT
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:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
ATATTAAATTAATATAATAAA
Found at i:429370 original size:14 final size:14
Alignment explanation
Indices: 429330--429370 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
429320 GTTACATAAG
* *
429330 TTATTTTTATATAT
1 TTATATTTATATTT
*
429344 ATATATTTATATTT
1 TTATATTTATATTT
429358 TTATATTTATATT
1 TTATATTTATATT
429371 CTAAGGTATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TTATATTTATATTT
Found at i:438860 original size:21 final size:20
Alignment explanation
Indices: 438836--438889 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 20
438826 ATAAATAAAT
438836 ATAATAATAATATAACACACA
1 ATAATAATAATA-AACACACA
* *
438857 ATAATAAACTAATAACCATACA
1 ATAAT-AA-TAATAAACACACA
*
438879 GTAATAATAAT
1 ATAATAATAAT
438890 GTAAATAAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 4 0.14
21 7 0.25
22 12 0.43
23 5 0.18
ACGTcount: A:0.59, C:0.13, G:0.02, T:0.26
Consensus pattern (20 bp):
ATAATAATAATAAACACACA
Found at i:440566 original size:132 final size:133
Alignment explanation
Indices: 440354--440626 Score: 449
Period size: 132 Copynumber: 2.1 Consensus size: 133
440344 CATCAGTCTA
* * * * * *
440354 CTCCACTACTGCTTAGGGAGATAAGATCTGCTATTCTTCGATCGATTCCACTGTCGACCAGGGAG
1 CTCCACTACCGCTTAGGGAGATAAGATCTGCAAATCTTCAATCGATTCCACTGCCAACCAGGGAG
440419 ATAGAATTACTGGCTTCAATGTACTCCACTGTAACCCCAGGGAGGTAAAATCTGCCATCTTCAAT
66 ATAGAATTACTGGCTTCAATGTACTCCACTGTAACCCCAGGGAGGTAAAATCTGCCATCTTCAAT
440484 CTG
131 CTG
* *
440487 CTCCACTACCGCTTAGGGAGATAAGATCTG-AAATCTTCAATCTATTCCGCTGCCAACCAGGGAG
1 CTCCACTACCGCTTAGGGAGATAAGATCTGCAAATCTTCAATCGATTCCACTGCCAACCAGGGAG
* *
440551 ATAGAATTACTGGCTTCAATGTACTCCACTGTAACTCCAGGGAGGTAAAATCTGCCATCTTCGAT
66 ATAGAATTACTGGCTTCAATGTACTCCACTGTAACCCCAGGGAGGTAAAATCTGCCATCTTCAAT
440616 CTG
131 CTG
440619 CTCCACTA
1 CTCCACTA
440627 ATGCNNNNNN
Statistics
Matches: 130, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
132 101 0.78
133 29 0.22
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.27
Consensus pattern (133 bp):
CTCCACTACCGCTTAGGGAGATAAGATCTGCAAATCTTCAATCGATTCCACTGCCAACCAGGGAG
ATAGAATTACTGGCTTCAATGTACTCCACTGTAACCCCAGGGAGGTAAAATCTGCCATCTTCAAT
CTG
Found at i:440784 original size:44 final size:44
Alignment explanation
Indices: 440718--441196 Score: 232
Period size: 44 Copynumber: 10.9 Consensus size: 44
440708 NNNNNNNNNC
* * ** *
440718 AGGGAGGTAAAATCTGCCATCTTCAATCTACTCCACTGCTGCCT
1 AGGGAGATAAGATCTGTAATCTTCAATCTACTCCACTGCTACCT
* *
440762 AGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCCAACC-
1 AGGGAGATAAGATCTGTAATCTTCAATCTACTCCACTG-CTACCT
* * * * * *
440806 AGGGGGAT-AGA-AT-TACTGGCGTCACTGTACTCCACTG-TAACCT
1 AGGGAGATAAGATCTGTAAT--CTTCAATCTACTCCACTGCT-ACCT
* * ** * * * *
440849 CAGGGAGGTAAAATCTGCCATATTTAATCTCCTCCACTGCTGCCT
1 -AGGGAGATAAGATCTGTAATCTTCAATCTACTCCACTGCTACCT
* *
440894 AGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCCAACC-
1 AGGGAGATAAGATCTGTAATCTTCAATCTACTCCACTG-CTACCT
* * * * * *
440938 AGGGGGAT-AGA-AT-TACTGGCGTCACTGTACTCCACTG-TAACCT
1 AGGGAGATAAGATCTGTAAT--CTTCAATCTACTCCACTGCT-ACCT
* * ** * * * *
440981 CAGGGAGGTAAAATCTGCCATATTTAATCTCCTCCACTGCTGCCT
1 -AGGGAGATAAGATCTGTAATCTTCAATCTACTCCACTGCTACCT
* *
441026 AGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCCAACC-
1 AGGGAGATAAGATCTGTAATCTTCAATCTACTCCACTG-CTACCT
* * * * * *
441070 AGGGGGAT-AGA-AT-TACTGGCGTCACTGTACTCCACTG-TAACCT
1 AGGGAGATAAGATCTGTAAT--CTTCAATCTACTCCACTGCT-ACCT
* * ** * * * *
441113 CAGGGAGGTAAAATCTGCCATATTTAATCTCCTCCACTGCTGCCT
1 -AGGGAGATAAGATCTGTAATCTTCAATCTACTCCACTGCTACCT
*
441158 AGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGC
1 AGGGAGATAAGATCTGTAATCTTCAATCTACTCCACTGC
441197 CAACCAGGGG
Statistics
Matches: 304, Mismatches: 101, Indels: 60
0.65 0.22 0.13
Matches are distributed among these distances:
41 9 0.03
42 12 0.04
43 51 0.17
44 163 0.54
45 60 0.20
46 6 0.02
47 3 0.01
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (44 bp):
AGGGAGATAAGATCTGTAATCTTCAATCTACTCCACTGCTACCT
Found at i:440954 original size:132 final size:132
Alignment explanation
Indices: 440717--441265 Score: 1019
Period size: 132 Copynumber: 4.2 Consensus size: 132
440707 NNNNNNNNNN
* * *
440717 CAGGGAGGTAAAATCTGCCATCTTCAATCTACTCCACTGCTGCCTAGGGAGATAAGATCTGTAAT
1 CAGGGAGGTAAAATCTGCCATATTTAATCTCCTCCACTGCTGCCTAGGGAGATAAGATCTGTAAT
440782 CTTCAATCTATTCCACTGCCAACCAGGGGGATAGAATTACTGGCGTCACTGTACTCCACTGTAAC
66 CTTCAATCTATTCCACTGCCAACCAGGGGGATAGAATTACTGGCGTCACTGTACTCCACTGTAAC
440847 CT
131 CT
440849 CAGGGAGGTAAAATCTGCCATATTTAATCTCCTCCACTGCTGCCTAGGGAGATAAGATCTGTAAT
1 CAGGGAGGTAAAATCTGCCATATTTAATCTCCTCCACTGCTGCCTAGGGAGATAAGATCTGTAAT
440914 CTTCAATCTATTCCACTGCCAACCAGGGGGATAGAATTACTGGCGTCACTGTACTCCACTGTAAC
66 CTTCAATCTATTCCACTGCCAACCAGGGGGATAGAATTACTGGCGTCACTGTACTCCACTGTAAC
440979 CT
131 CT
440981 CAGGGAGGTAAAATCTGCCATATTTAATCTCCTCCACTGCTGCCTAGGGAGATAAGATCTGTAAT
1 CAGGGAGGTAAAATCTGCCATATTTAATCTCCTCCACTGCTGCCTAGGGAGATAAGATCTGTAAT
441046 CTTCAATCTATTCCACTGCCAACCAGGGGGATAGAATTACTGGCGTCACTGTACTCCACTGTAAC
66 CTTCAATCTATTCCACTGCCAACCAGGGGGATAGAATTACTGGCGTCACTGTACTCCACTGTAAC
441111 CT
131 CT
441113 CAGGGAGGTAAAATCTGCCATATTTAATCTCCTCCACTGCTGCCTAGGGAGATAAGATCTGTAAT
1 CAGGGAGGTAAAATCTGCCATATTTAATCTCCTCCACTGCTGCCTAGGGAGATAAGATCTGTAAT
* *
441178 CTTCAATCTATTCCACTGCCAACCAGGGGGATAGAATTACTGGCTTCAATGTACTCCACTGTAAC
66 CTTCAATCTATTCCACTGCCAACCAGGGGGATAGAATTACTGGCGTCACTGTACTCCACTGTAAC
*
441243 CA
131 CT
*
441245 C-GAGGAGGTAAAATCCGCCAT
1 CAG-GGAGGTAAAATCTGCCAT
441266 CTTCGATCTG
Statistics
Matches: 409, Mismatches: 7, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
131 1 0.00
132 408 1.00
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.27
Consensus pattern (132 bp):
CAGGGAGGTAAAATCTGCCATATTTAATCTCCTCCACTGCTGCCTAGGGAGATAAGATCTGTAAT
CTTCAATCTATTCCACTGCCAACCAGGGGGATAGAATTACTGGCGTCACTGTACTCCACTGTAAC
CT
Found at i:441062 original size:264 final size:264
Alignment explanation
Indices: 440717--441329 Score: 1025
Period size: 264 Copynumber: 2.3 Consensus size: 264
440707 NNNNNNNNNN
*
440717 CAGGGAGGTAAAATCTGCCATCTTCAATCTACTCCACTGCTGCCTAGGGAGATAAGATCTGTAAT
1 CAGGGAGGTAAAATCTGCCATATTCAATCTACTCCACTGCTGCCTAGGGAGATAAGATCTGTAAT
440782 CTTCAATCTATTCCACTGCCAACCAGGGGGATAGAATTACTGGCGTCACTGTACTCCACTGTAAC
66 CTTCAATCTATTCCACTGCCAACCAGGGGGATAGAATTACTGGCGTCACTGTACTCCACTGTAAC
440847 CTCAGGGAGGTAAAATCTGCCATATTTAATCTCCTCCACTGCTGCCTAGGGAGATAAGATCTGTA
131 CTCAGGGAGGTAAAATCTGCCATATTTAATCTCCTCCACTGCTGCCTAGGGAGATAAGATCTGTA
*
440912 ATCTTCAATCTATTCCACTGCCAACCAGGGGGATAGAATTACTGGCGTCACTGTACTCCACTGTA
196 ATCTTCAATCTATTCCACTGCCAACCAGGGGGATAGAATTACTGGCGTCAATGTACTCCACTGTA
*
440977 ACCT
261 ACCA
* *
440981 CAGGGAGGTAAAATCTGCCATATTTAATCTCCTCCACTGCTGCCTAGGGAGATAAGATCTGTAAT
1 CAGGGAGGTAAAATCTGCCATATTCAATCTACTCCACTGCTGCCTAGGGAGATAAGATCTGTAAT
441046 CTTCAATCTATTCCACTGCCAACCAGGGGGATAGAATTACTGGCGTCACTGTACTCCACTGTAAC
66 CTTCAATCTATTCCACTGCCAACCAGGGGGATAGAATTACTGGCGTCACTGTACTCCACTGTAAC
441111 CTCAGGGAGGTAAAATCTGCCATATTTAATCTCCTCCACTGCTGCCTAGGGAGATAAGATCTGTA
131 CTCAGGGAGGTAAAATCTGCCATATTTAATCTCCTCCACTGCTGCCTAGGGAGATAAGATCTGTA
*
441176 ATCTTCAATCTATTCCACTGCCAACCAGGGGGATAGAATTACTGGCTTCAATGTACTCCACTGTA
196 ATCTTCAATCTATTCCACTGCCAACCAGGGGGATAGAATTACTGGCGTCAATGTACTCCACTGTA
441241 ACCA
261 ACCA
* * * * * * * **
441245 C-GAGGAGGTAAAATCCGCCATCTTCGATCTGCTTCGCTGTCTATG-C-AGGAAGGCAAGATCTG
1 CAG-GGAGGTAAAATCTGCCATATTCAATCTACTCCACTG-C--TGCCTAGGGAGATAAGATCTG
*
441307 AAATCTTCAATCTATTCCACTGC
62 TAATCTTCAATCTATTCCACTGC
441330 TGCCCAGGAA
Statistics
Matches: 328, Mismatches: 17, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
263 1 0.00
264 288 0.88
265 36 0.11
266 1 0.00
267 2 0.01
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (264 bp):
CAGGGAGGTAAAATCTGCCATATTCAATCTACTCCACTGCTGCCTAGGGAGATAAGATCTGTAAT
CTTCAATCTATTCCACTGCCAACCAGGGGGATAGAATTACTGGCGTCACTGTACTCCACTGTAAC
CTCAGGGAGGTAAAATCTGCCATATTTAATCTCCTCCACTGCTGCCTAGGGAGATAAGATCTGTA
ATCTTCAATCTATTCCACTGCCAACCAGGGGGATAGAATTACTGGCGTCAATGTACTCCACTGTA
ACCA
Found at i:441690 original size:89 final size:89
Alignment explanation
Indices: 441400--442111 Score: 1038
Period size: 89 Copynumber: 8.0 Consensus size: 89
441390 GATAAGACTA
* * * * ** * *
441400 GTGTCTTCGATCTGCTTCGTTGTCAGTACAAGAAGGCAAGATCTGTTATCTTTAACCTACTCCAC
1 GTGTCTTCGATCTGCTTCGTTGTCAGTACAGGAAGGCAAGATCTGCTATATTCAGTCTGCTCCGC
* ** * * *
441465 TAC-TGCCAAGGGAGACAAGGCTA
66 TGCAAACCCAGGGAGGCAAGGCTG
* * * * ** *
441488 GTATCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCACGATCTGCTATCTTCAACCTGCTCCAC
1 GTGTCTTCGATCTGCTTCGTTGTCAGTACAGGAAGGCAAGATCTGCTATATTCAGTCTGCTCCGC
* ** *
441553 TAC-TGCCCAGGGAGACAAGGCTG
66 TGCAAACCCAGGGAGGCAAGGCTG
* *
441576 GTAG-CTTCGATCTGCTTC-TCCGTCAGTACAGGAAGGCAAGATCTGCTATTTTCAGTCTGCTCC
1 GT-GTCTTCGATCTGCTTCGT-TGTCAGTACAGGAAGGCAAGATCTGCTATATTCAGTCTGCTCC
441639 GCTGCAAACCCAGGGAGGCAAGGCTG
64 GCTGCAAACCCAGGGAGGCAAGGCTG
*
441665 GTGTCTTTGATCTGCTTCGTTGTCAGTACAGGAAGGCAAGATCTGCTATATTCAGTCTGCTCCGC
1 GTGTCTTCGATCTGCTTCGTTGTCAGTACAGGAAGGCAAGATCTGCTATATTCAGTCTGCTCCGC
441730 TGCAAACCCAGGGAGGCAAGGCTG
66 TGCAAACCCAGGGAGGCAAGGCTG
* * * * *
441754 GTGTCTTTGATTTGCTTCGCTGTCAGTACAGGAAGTCAAGATCTACTATATTCAGTCTGCTCCGC
1 GTGTCTTCGATCTGCTTCGTTGTCAGTACAGGAAGGCAAGATCTGCTATATTCAGTCTGCTCCGC
441819 TGC-AACCCAGGGAGGCAAGGCTG
66 TGCAAACCCAGGGAGGCAAGGCTG
* *
441842 GTGTCTTTGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATATTCAGTCTGCTCCGC
1 GTGTCTTCGATCTGCTTCGTTGTCAGTACAGGAAGGCAAGATCTGCTATATTCAGTCTGCTCCGC
441907 TGCAAACCCAGGGAGGCAAGGCTG
66 TGCAAACCCAGGGAGGCAAGGCTG
*
441931 GTGTCTTCGATCTGCTTCGTTGTCAGTACAAGAAGGCAAGATCTGCTATATTCAGTCTGCTCCGC
1 GTGTCTTCGATCTGCTTCGTTGTCAGTACAGGAAGGCAAGATCTGCTATATTCAGTCTGCTCCGC
441996 TGCAAACCCAGGGAGGCAAGGCTG
66 TGCAAACCCAGGGAGGCAAGGCTG
*
442020 GTGTCTTCGATCTGCTTCGTTGTCAGTACAAGAAGGCAAGATCTGCTATATTCAGTCTGCTCCGC
1 GTGTCTTCGATCTGCTTCGTTGTCAGTACAGGAAGGCAAGATCTGCTATATTCAGTCTGCTCCGC
442085 TGCAAACCCAGGGAGGCAAGGCTG
66 TGCAAACCCAGGGAGGCAAGGCTG
442109 GTG
1 GTG
442112 GTTTCACCGA
Statistics
Matches: 584, Mismatches: 34, Indels: 11
0.93 0.05 0.02
Matches are distributed among these distances:
88 222 0.38
89 361 0.62
90 1 0.00
ACGTcount: A:0.22, C:0.25, G:0.26, T:0.26
Consensus pattern (89 bp):
GTGTCTTCGATCTGCTTCGTTGTCAGTACAGGAAGGCAAGATCTGCTATATTCAGTCTGCTCCGC
TGCAAACCCAGGGAGGCAAGGCTG
Found at i:441710 original size:177 final size:177
Alignment explanation
Indices: 441400--442111 Score: 1034
Period size: 177 Copynumber: 4.0 Consensus size: 177
441390 GATAAGACTA
* * * ** * *
441400 GTGTCTTCGATCTGCTTCGTTGTCAGTACAAGAAGGCAAGATCTGTTATCTTTAACCTACTCCAC
1 GTGTCTTCGATCTGCTTCGTTGTCAGTACAAGAAGGCAAGATCTGCTATATTCAGTCTGCTCCGC
* ** * * * * *
441465 TACTGCCAAGGGAGACAAGGCTAGTATCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCACGAT
66 TGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGAT
* ** * * ** *
441530 CTGCTATCTTCAACCTGCTCCACTAC-TGCCCAGGGAGACAAGGCTG
131 CTGCTATATTCAGTCTGCTCCGCTGCAAACCCAGGGAGGCAAGGCTG
* * *
441576 GTAG-CTTCGATCTGCTTC-TCCGTCAGTACAGGAAGGCAAGATCTGCTATTTTCAGTCTGCTCC
1 GT-GTCTTCGATCTGCTTCGT-TGTCAGTACAAGAAGGCAAGATCTGCTATATTCAGTCTGCTCC
* *
441639 GCTGCAAACCCAGGGAGGCAAGGCTGGTGTCTTTGATCTGCTTCGTTGTCAGTACAGGAAGGCAA
64 GCTGC-AACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAA
441704 GATCTGCTATATTCAGTCTGCTCCGCTGCAAACCCAGGGAGGCAAGGCTG
128 GATCTGCTATATTCAGTCTGCTCCGCTGCAAACCCAGGGAGGCAAGGCTG
* * * * * *
441754 GTGTCTTTGATTTGCTTCGCTGTCAGTACAGGAAGTCAAGATCTACTATATTCAGTCTGCTCCGC
1 GTGTCTTCGATCTGCTTCGTTGTCAGTACAAGAAGGCAAGATCTGCTATATTCAGTCTGCTCCGC
*
441819 TGCAACCCAGGGAGGCAAGGCTGGTGTCTTTGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGAT
66 TGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGAT
441884 CTGCTATATTCAGTCTGCTCCGCTGCAAACCCAGGGAGGCAAGGCTG
131 CTGCTATATTCAGTCTGCTCCGCTGCAAACCCAGGGAGGCAAGGCTG
441931 GTGTCTTCGATCTGCTTCGTTGTCAGTACAAGAAGGCAAGATCTGCTATATTCAGTCTGCTCCGC
1 GTGTCTTCGATCTGCTTCGTTGTCAGTACAAGAAGGCAAGATCTGCTATATTCAGTCTGCTCCGC
* *
441996 TGCAAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGTTGTCAGTACAAGAAGGCAAGA
66 TGC-AACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGA
442061 TCTGCTATATTCAGTCTGCTCCGCTGCAAACCCAGGGAGGCAAGGCTG
130 TCTGCTATATTCAGTCTGCTCCGCTGCAAACCCAGGGAGGCAAGGCTG
442109 GTG
1 GTG
442112 GTTTCACCGA
Statistics
Matches: 485, Mismatches: 44, Indels: 12
0.90 0.08 0.02
Matches are distributed among these distances:
175 1 0.00
176 54 0.11
177 246 0.51
178 184 0.38
ACGTcount: A:0.22, C:0.25, G:0.26, T:0.26
Consensus pattern (177 bp):
GTGTCTTCGATCTGCTTCGTTGTCAGTACAAGAAGGCAAGATCTGCTATATTCAGTCTGCTCCGC
TGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGAT
CTGCTATATTCAGTCTGCTCCGCTGCAAACCCAGGGAGGCAAGGCTG
Found at i:441873 original size:266 final size:265
Alignment explanation
Indices: 441400--442111 Score: 1075
Period size: 266 Copynumber: 2.7 Consensus size: 265
441390 GATAAGACTA
* * * ** * *
441400 GTGTCTTCGATCTGCTTCGTTGTCAGTACAAGAAGGCAAGATCTGTTATCTTTAACCTACTCCAC
1 GTGTCTTCGATCTGCTTCGTTGTCAGTACAAGAAGGCAAGATCTGCTATATTCAGTCTGCTCCGC
* ** * * * * *
441465 TAC-TGCCAAGGGAGACAAGGCTAGTATCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCACGA
66 TGCAAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGA
* ** * * ** *
441529 TCTGCTATCTTCAACCTGCTCCACTACTGCCCAGGGAGACAAGGCTGGTAGCTTCGATCTGCTTC
131 TCTGCTATATTCAGTCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGT-GCTTCGATCTGCTTC
* *
441594 TCCGTCAGTACAGGAAGGCAAGATCTGCTATTTTCAGTCTGCTCCGCTGCAAACCCAGGGAGGCA
195 GCCGTCAGTACAGGAAGGCAAGATCTGCTATATTCAGTCTGCTCCGCTGCAAACCCAGGGAGGCA
441659 AGGCTG
260 AGGCTG
* *
441665 GTGTCTTTGATCTGCTTCGTTGTCAGTACAGGAAGGCAAGATCTGCTATATTCAGTCTGCTCCGC
1 GTGTCTTCGATCTGCTTCGTTGTCAGTACAAGAAGGCAAGATCTGCTATATTCAGTCTGCTCCGC
* * *
441730 TGCAAACCCAGGGAGGCAAGGCTGGTGTCTTTGATTTGCTTCGCTGTCAGTACAGGAAGTCAAGA
66 TGCAAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGA
* *
441795 TCTACTATATTCAGTCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTTGATCTGCTTC
131 TCTGCTATATTCAGTCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTG-CTTCGATCTGCTTC
*
441860 GCTGTCAGTACAGGAAGGCAAGATCTGCTATATTCAGTCTGCTCCGCTGCAAACCCAGGGAGGCA
195 GCCGTCAGTACAGGAAGGCAAGATCTGCTATATTCAGTCTGCTCCGCTGCAAACCCAGGGAGGCA
441925 AGGCTG
260 AGGCTG
441931 GTGTCTTCGATCTGCTTCGTTGTCAGTACAAGAAGGCAAGATCTGCTATATTCAGTCTGCTCCGC
1 GTGTCTTCGATCTGCTTCGTTGTCAGTACAAGAAGGCAAGATCTGCTATATTCAGTCTGCTCCGC
* *
441996 TGCAAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGTTGTCAGTACAAGAAGGCAAGA
66 TGCAAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGA
442061 TCTGCTATATTCAGTCTGCTCCGCTGCAAACCCAGGGAGGCAAGGCTGGTG
131 TCTGCTATATTCAGTCTGCTCCGCTGC-AACCCAGGGAGGCAAGGCTGGTG
442112 GTTTCACCGA
Statistics
Matches: 403, Mismatches: 41, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
265 59 0.15
266 321 0.80
267 23 0.06
ACGTcount: A:0.22, C:0.25, G:0.26, T:0.26
Consensus pattern (265 bp):
GTGTCTTCGATCTGCTTCGTTGTCAGTACAAGAAGGCAAGATCTGCTATATTCAGTCTGCTCCGC
TGCAAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGA
TCTGCTATATTCAGTCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGCTTCGATCTGCTTCG
CCGTCAGTACAGGAAGGCAAGATCTGCTATATTCAGTCTGCTCCGCTGCAAACCCAGGGAGGCAA
GGCTG
Found at i:448559 original size:19 final size:18
Alignment explanation
Indices: 448530--448574 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
448520 TATTAACTTA
*
448530 ATTTTTT-ATTTATAATTT
1 ATTTTTTAATTT-TAAATT
448548 ATTTTTTAATTTTAAATT
1 ATTTTTTAATTTTAAATT
*
448566 ATTTATTAA
1 ATTTTTTAA
448575 CGTGATATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 20 0.83
19 4 0.17
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
ATTTTTTAATTTTAAATT
Found at i:449933 original size:45 final size:45
Alignment explanation
Indices: 449876--449982 Score: 135
Period size: 45 Copynumber: 2.4 Consensus size: 45
449866 CACCAGTAAA
** * *
449876 CAGTAATCAGTAATGGTAGCAGTATTCGACACACAAAGTATCGAAT
1 CAGTAA-CAGTAACAGTAACAGTATTCGACACACAAAGTACCGAAT
* *
449922 CAGTAACAGTAACAGTAACAGTTTTCGACACACAAAGTGCCGAAT
1 CAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTACCGAAT
*
449967 CGGTAACAGT-ACAGTA
1 CAGTAACAGTAACAGTA
449983 GTCGGCACAT
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 6 0.11
45 42 0.78
46 6 0.11
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.21
Consensus pattern (45 bp):
CAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTACCGAAT
Found at i:452772 original size:13 final size:14
Alignment explanation
Indices: 452742--452778 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
452732 AAAATTATCA
*
452742 ATTAAAT-TTTATT
1 ATTAAATATTTAAT
452755 ATTAAATATTTAAT
1 ATTAAATATTTAAT
452769 -TTAAATATTT
1 ATTAAATATTT
452779 GTTAAGAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 17 0.77
14 5 0.23
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
ATTAAATATTTAAT
Done.