Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01015360.1 Kokia drynarioides strain JFW-HI SEQ_130407, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 850717
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 109 characters in sequence are not A, C, G, or T
File 2 of 3
Found at i:393742 original size:18 final size:18
Alignment explanation
Indices: 393720--393788 Score: 75
Period size: 18 Copynumber: 3.8 Consensus size: 18
393710 TAAAGCTCTT
*
393720 ACGAGCCAGTATGCTCGA
1 ACGAGCCAGTATGCTCCA
* *
393738 GCGAGCCACTATGCTCCA
1 ACGAGCCAGTATGCTCCA
* *
393756 ACGATCCAGTATGCTCAA
1 ACGAGCCAGTATGCTCCA
* *
393774 ACAAGCCAATATGCT
1 ACGAGCCAGTATGCT
393789 GAAACAAGAC
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 41 1.00
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.19
Consensus pattern (18 bp):
ACGAGCCAGTATGCTCCA
Found at i:393781 original size:36 final size:36
Alignment explanation
Indices: 393720--393788 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 36
393710 TAAAGCTCTT
* * * *
393720 ACGAGCCAGTATGCTCGAGCGAGCCACTATGCTCCA
1 ACGAGCCAGTATGCTCAAACAAGCCAATATGCTCCA
*
393756 ACGATCCAGTATGCTCAAACAAGCCAATATGCT
1 ACGAGCCAGTATGCTCAAACAAGCCAATATGCT
393789 GAAACAAGAC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 28 1.00
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.19
Consensus pattern (36 bp):
ACGAGCCAGTATGCTCAAACAAGCCAATATGCTCCA
Found at i:398088 original size:48 final size:48
Alignment explanation
Indices: 398017--398112 Score: 183
Period size: 48 Copynumber: 2.0 Consensus size: 48
398007 ATGGATGCAT
*
398017 CCAACATTTATGGAGTTGATAATGATTTTTAAGATTATACATCTTTAG
1 CCAACATTTATGGAGTTGATAATGATTTTCAAGATTATACATCTTTAG
398065 CCAACATTTATGGAGTTGATAATGATTTTCAAGATTATACATCTTTAG
1 CCAACATTTATGGAGTTGATAATGATTTTCAAGATTATACATCTTTAG
398113 TGAGCAGGAT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.41
Consensus pattern (48 bp):
CCAACATTTATGGAGTTGATAATGATTTTCAAGATTATACATCTTTAG
Found at i:400031 original size:19 final size:19
Alignment explanation
Indices: 400009--400059 Score: 102
Period size: 19 Copynumber: 2.7 Consensus size: 19
399999 AATGCAGATT
400009 CCCTTTCTCTATGCAAATG
1 CCCTTTCTCTATGCAAATG
400028 CCCTTTCTCTATGCAAATG
1 CCCTTTCTCTATGCAAATG
400047 CCCTTTCTCTATG
1 CCCTTTCTCTATG
400060 TAATTTTCGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.18, C:0.33, G:0.10, T:0.39
Consensus pattern (19 bp):
CCCTTTCTCTATGCAAATG
Found at i:403990 original size:15 final size:14
Alignment explanation
Indices: 403971--404052 Score: 53
Period size: 14 Copynumber: 5.7 Consensus size: 14
403961 TAATTCATAT
403971 TTTAATAATAATTA
1 TTTAATAATAATTA
*
403985 TATTAAGAAT-ATTA
1 T-TTAATAATAATTA
* *
403999 TTAAATTATATATTA
1 TTTAATAATA-ATTA
* *
404014 TTTTATTAA-ATTATA
1 -TTTAATAATAAT-TA
404029 TTTAATAATAATTA
1 TTTAATAATAATTA
404043 TGTTAA-AATA
1 T-TTAATAATA
404053 TGAATAAATT
Statistics
Matches: 51, Mismatches: 10, Indels: 14
0.68 0.13 0.19
Matches are distributed among these distances:
13 5 0.10
14 21 0.41
15 20 0.39
16 5 0.10
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (14 bp):
TTTAATAATAATTA
Found at i:404082 original size:61 final size:59
Alignment explanation
Indices: 403944--404095 Score: 175
Period size: 61 Copynumber: 2.5 Consensus size: 59
403934 TATGATATTA
* * *
403944 TATATTATGATTTTTATT-AATTCATATTTTAATAATAATTATATTAAGAATATTATTAAAT
1 TATA-TATTATTTTTATTAAATT-ATA-TTTAATAATAATTATATTAAGAATATGAATAAAT
*
404005 TATATATTA-TTTTATTAAATTATATTTAATAATAATTATGTTAA-AATATGAATAAAT
1 TATATATTATTTTTATTAAATTATATTTAATAATAATTATATTAAGAATATGAATAAAT
* *
404062 TATTTATTTTTATTTTTATTAAAATATATTTAAT
1 TA--TA-TATTATTTTTATTAAATTATATTTAAT
404096 TTAAATGTTA
Statistics
Matches: 80, Mismatches: 6, Indels: 10
0.83 0.06 0.10
Matches are distributed among these distances:
57 13 0.16
58 19 0.24
59 12 0.15
60 12 0.15
61 24 0.30
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.54
Consensus pattern (59 bp):
TATATATTATTTTTATTAAATTATATTTAATAATAATTATATTAAGAATATGAATAAAT
Found at i:404093 original size:26 final size:25
Alignment explanation
Indices: 404058--404113 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 25
404048 AAATATGAAT
* * * *
404058 AAATTATTTATTTTTATTTTTATTA
1 AAATTATTTAATTTAAATGTTATTA
404083 AAATATATTTAATTTAAATGTTATTA
1 AAAT-TATTTAATTTAAATGTTATTA
404109 AAATT
1 AAATT
404114 TAATAACAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
25 5 0.19
26 21 0.81
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (25 bp):
AAATTATTTAATTTAAATGTTATTA
Found at i:405065 original size:96 final size:96
Alignment explanation
Indices: 404881--405072 Score: 248
Period size: 96 Copynumber: 2.0 Consensus size: 96
404871 CTTTTGCGAG
* **
404881 AAGGATATTTGATTATCTCGATTTGAAGAAAGGTTGCACCTAGTAAGTTAAGGCGCAATATTTCA
1 AAGGATATTCGATTATCTCGATTTGAAGAAAAATTGCACCTAGTAAGTTAAGGCGCAATATTTCA
*
404946 GAATCGAAGATAAGGAAACATTGCCTCGATT
66 GAATCGAAGATAAAGAAACATTGCCTCGATT
* * *
404977 AAGGGTATTCGATTATTTCGATTTGAAGAAAAATTGCACCTAGTGAGTTAAGGCGCAA-ATTTTC
1 AAGGATATTCGATTATCTCGATTTGAAGAAAAATTGCACCTAGTAAGTTAAGGCGCAATA-TTTC
*
405041 -GAAACTCGAA-ATAAA-AGAATATTGCCTCGATT
65 AG-AA-TCGAAGATAAAGA-AACATTGCCTCGATT
405073 TTAAAGTTTT
Statistics
Matches: 84, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
95 3 0.04
96 76 0.90
97 5 0.06
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.30
Consensus pattern (96 bp):
AAGGATATTCGATTATCTCGATTTGAAGAAAAATTGCACCTAGTAAGTTAAGGCGCAATATTTCA
GAATCGAAGATAAAGAAACATTGCCTCGATT
Found at i:405334 original size:30 final size:30
Alignment explanation
Indices: 405299--405481 Score: 177
Period size: 29 Copynumber: 6.2 Consensus size: 30
405289 AACATGGTAG
*
405299 TTTTGGAAGGTTCGGAGTCAAAAATGGGAT
1 TTTTGGAAGGTTCGGGGTCAAAAATGGGAT
* * *
405329 TTTTGGAAGTTTAGGGGT--AAAATGGTAAT
1 TTTTGGAAGGTTCGGGGTCAAAAATGG-GAT
*
405358 TTTTGGGAGGTTCGGGGTCAAAAATGGGAT
1 TTTTGGAAGGTTCGGGGTCAAAAATGGGAT
* *
405388 TTTTGGAA-ATTCGGGGGT--AAAATGGTAAT
1 TTTTGGAAGGTTC-GGGGTCAAAAATGG-GAT
405417 TTTTGGAAGGTTCGGGGTCAAAAATGGGA-
1 TTTTGGAAGGTTCGGGGTCAAAAATGGGAT
* *
405446 TTTTGG-ATGTTCGAGGGT--AAAATGGTAAT
1 TTTTGGAAGGTTCG-GGGTCAAAAATGG-GAT
405475 TTTTGGA
1 TTTTGGA
405482 CAGTTTAGGG
Statistics
Matches: 126, Mismatches: 15, Indels: 24
0.76 0.09 0.15
Matches are distributed among these distances:
27 7 0.06
28 21 0.17
29 51 0.40
30 33 0.26
31 14 0.11
ACGTcount: A:0.28, C:0.04, G:0.34, T:0.34
Consensus pattern (30 bp):
TTTTGGAAGGTTCGGGGTCAAAAATGGGAT
Found at i:405478 original size:58 final size:59
Alignment explanation
Indices: 405299--405481 Score: 289
Period size: 59 Copynumber: 3.1 Consensus size: 59
405289 AACATGGTAG
* *
405299 TTTTGGAAGGTTCGGAGTCAAAAATGGGATTTTTGGAAGTT-TAGGGGTAAAATGGTAAT
1 TTTTGGAAGGTTCGGGGTCAAAAATGGGATTTTTGGAAGTTCGA-GGGTAAAATGGTAAT
* * *
405358 TTTTGGGAGGTTCGGGGTCAAAAATGGGATTTTTGGAAATTCGGGGGTAAAATGGTAAT
1 TTTTGGAAGGTTCGGGGTCAAAAATGGGATTTTTGGAAGTTCGAGGGTAAAATGGTAAT
*
405417 TTTTGGAAGGTTCGGGGTCAAAAATGGGA-TTTTGGATGTTCGAGGGTAAAATGGTAAT
1 TTTTGGAAGGTTCGGGGTCAAAAATGGGATTTTTGGAAGTTCGAGGGTAAAATGGTAAT
405475 TTTTGGA
1 TTTTGGA
405482 CAGTTTAGGG
Statistics
Matches: 114, Mismatches: 9, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
58 33 0.29
59 81 0.71
ACGTcount: A:0.28, C:0.04, G:0.34, T:0.34
Consensus pattern (59 bp):
TTTTGGAAGGTTCGGGGTCAAAAATGGGATTTTTGGAAGTTCGAGGGTAAAATGGTAAT
Found at i:407402 original size:18 final size:17
Alignment explanation
Indices: 407379--407469 Score: 96
Period size: 17 Copynumber: 5.4 Consensus size: 17
407369 ATTTAGCAAT
407379 TTTAAATTTGAAAATAAA
1 TTTAAATTT-AAAATAAA
* *
407397 TTTAAACTTAAATTAAA
1 TTTAAATTTAAAATAAA
*
407414 TTTAAATTAAAAATAAA
1 TTTAAATTTAAAATAAA
* *
407431 TTTAAAATTTTAAACAAA
1 TTT-AAATTTAAAATAAA
*
407449 TTTAAA--AAAAATAAA
1 TTTAAATTTAAAATAAA
407464 TTTAAA
1 TTTAAA
407470 GGTAGTTCGA
Statistics
Matches: 61, Mismatches: 11, Indels: 5
0.79 0.14 0.06
Matches are distributed among these distances:
15 12 0.20
17 27 0.44
18 22 0.36
ACGTcount: A:0.59, C:0.02, G:0.01, T:0.37
Consensus pattern (17 bp):
TTTAAATTTAAAATAAA
Found at i:407436 original size:6 final size:6
Alignment explanation
Indices: 407379--407436 Score: 50
Period size: 6 Copynumber: 10.0 Consensus size: 6
407369 ATTTAGCAAT
* *
407379 TTTAAA TTTGAAA -ATAAA TTTAAA CTTAAA -TTAAA TTTAAA -TTAAA
1 TTTAAA TTT-AAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
**
407425 AATAAA TTTAAA
1 TTTAAA TTTAAA
407437 ATTTTAAACA
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
5 13 0.31
6 26 0.62
7 3 0.07
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (6 bp):
TTTAAA
Found at i:407437 original size:11 final size:11
Alignment explanation
Indices: 407381--407438 Score: 55
Period size: 11 Copynumber: 5.1 Consensus size: 11
407371 TTAGCAATTT
407381 TAAATTTGAAAA
1 TAAATTT-AAAA
*
407393 TAAATTTAAACT
1 TAAATTTAAA-A
*
407405 TAAA-TTAAATT
1 TAAATTTAAA-A
*
407416 TAAATTAAAAA
1 TAAATTTAAAA
407427 TAAATTTAAAA
1 TAAATTTAAAA
407438 T
1 T
407439 TTTAAACAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
11 24 0.62
12 15 0.38
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:412972 original size:14 final size:14
Alignment explanation
Indices: 412949--412982 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
412939 CGCATCTTGG
* *
412949 GAAAAGCGTTTTTT
1 GAAAAACGTTCTTT
412963 GAAAAACGTTCTTT
1 GAAAAACGTTCTTT
412977 GAAAAA
1 GAAAAA
412983 TACTTTCTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.41, C:0.09, G:0.18, T:0.32
Consensus pattern (14 bp):
GAAAAACGTTCTTT
Found at i:413242 original size:30 final size:29
Alignment explanation
Indices: 413201--413268 Score: 100
Period size: 30 Copynumber: 2.3 Consensus size: 29
413191 TATATGATAT
* *
413201 ATATATATTTATATATGTCATTATGTTAAA
1 ATATATTTTTATATATATCATTATGTT-AA
*
413231 ATATATTTTTATATTTATCATTATGTTAA
1 ATATATTTTTATATATATCATTATGTTAA
413260 ATATATTTT
1 ATATATTTT
413269 ATTTTTAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
29 11 0.31
30 24 0.69
ACGTcount: A:0.37, C:0.03, G:0.04, T:0.56
Consensus pattern (29 bp):
ATATATTTTTATATATATCATTATGTTAA
Found at i:414522 original size:20 final size:22
Alignment explanation
Indices: 414485--414530 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
414475 TTTTTCTTAT
414485 ATAAAAAAAATGAGAAAGTT-A
1 ATAAAAAAAATGAGAAAGTTGA
**
414506 ATAAAAAAAA-GTTAAAGTTGA
1 ATAAAAAAAATGAGAAAGTTGA
414527 ATAA
1 ATAA
414531 TTGAAGGGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.65, C:0.00, G:0.13, T:0.22
Consensus pattern (22 bp):
ATAAAAAAAATGAGAAAGTTGA
Found at i:414580 original size:33 final size:33
Alignment explanation
Indices: 414538--414607 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
414528 TAATTGAAGG
* * *
414538 GAGAGAAAATAAGATAATTTAAAACCCTTAAAT
1 GAGAGAAAATAAGATAATTGAAAACACTGAAAT
*
414571 GAGAGAAAATAAGATAGTTGAAAACACTGAAAT
1 GAGAGAAAATAAGATAATTGAAAACACTGAAAT
414604 GAGA
1 GAGA
414608 TAAATTGTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.54, C:0.07, G:0.19, T:0.20
Consensus pattern (33 bp):
GAGAGAAAATAAGATAATTGAAAACACTGAAAT
Found at i:418913 original size:28 final size:28
Alignment explanation
Indices: 418881--418942 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
418871 AGAATGTGAT
*
418881 TTTTGGACACCCGGGGGCAAAATGGTAA
1 TTTTGGACACCCGAGGGCAAAATGGTAA
* *
418909 TTTTGGACACTCGAGGGTAAAATGGTAA
1 TTTTGGACACCCGAGGGCAAAATGGTAA
418937 TTTTGG
1 TTTTGG
418943 GAAGTTCGAG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.27, C:0.13, G:0.31, T:0.29
Consensus pattern (28 bp):
TTTTGGACACCCGAGGGCAAAATGGTAA
Found at i:419056 original size:29 final size:28
Alignment explanation
Indices: 418899--419061 Score: 120
Period size: 29 Copynumber: 5.6 Consensus size: 28
418889 ACCCGGGGGC
*
418899 AAAATGGTAA-TTTTGGACACTCGAGGGT
1 AAAATGGTAATTTTTGGA-AGTCGAGGGT
*
418927 AAAATGGTAATTTTGGGAAGTTCGA-GGT
1 AAAATGGTAATTTTTGGAAG-TCGAGGGT
** * * * *
418955 CAAAAACGAAATTTCTAGAAGTCTGACGGT
1 -AAAATGGTAATTTTTGGAAGTC-GAGGGT
418985 AAAATGGTAATTTTTGGAAAGATCG-GGGTT
1 AAAATGGTAATTTTTGG-AAG-TCGAGGG-T
*
419015 GAAAAT--TAAATTTTTGGAAGTCCAAGGGT
1 -AAAATGGT-AATTTTTGGAAGT-CGAGGGT
419044 AAAATGGTAATTTTTGGA
1 AAAATGGTAATTTTTGGA
419062 GAAATCGGGG
Statistics
Matches: 106, Mismatches: 15, Indels: 27
0.72 0.10 0.18
Matches are distributed among these distances:
28 22 0.21
29 56 0.53
30 21 0.20
31 7 0.07
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (28 bp):
AAAATGGTAATTTTTGGAAGTCGAGGGT
Found at i:419072 original size:29 final size:30
Alignment explanation
Indices: 418985--419077 Score: 72
Period size: 29 Copynumber: 3.1 Consensus size: 30
418975 GTCTGACGGT
*
418985 AAAATGGTAATTTTTGGA-AAGATCGGGGTTG
1 AAAATGGTAATTTTTGGAGAA-ATCGGGG-TC
* *
419016 AAAAT--TAAATTTTT-G-GAAGTCCAAGGGT-
1 AAAATGGT-AATTTTTGGAGAAAT-C-GGGGTC
419044 AAAATGGTAATTTTTGGAGAAATCGGGGTC
1 AAAATGGTAATTTTTGGAGAAATCGGGGTC
419074 AAAA
1 AAAA
419078 AAGGAATTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 19
0.68 0.06 0.26
Matches are distributed among these distances:
28 6 0.12
29 17 0.35
30 17 0.35
31 9 0.18
ACGTcount: A:0.38, C:0.05, G:0.27, T:0.30
Consensus pattern (30 bp):
AAAATGGTAATTTTTGGAGAAATCGGGGTC
Found at i:419086 original size:59 final size:60
Alignment explanation
Indices: 418922--419118 Score: 204
Period size: 59 Copynumber: 3.4 Consensus size: 60
418912 TGGACACTCG
* * * * * *
418922 AGGGTAAAATGGTAA-TTTTGG-GAAGTTCGAGGTCAAAAACGAAATTTCTAGAAGTCTG
1 AGGGTAAAATGGTAATTTTTGGAGAAGATCGGGGTCAAAAAAGAAATTTTTGGAAGTCTA
* ** ** *
418980 ACGGTAAAATGGTAATTTTTGGA-AAGATCGGGGTTGAAAATTAAATTTTTGGAAGTCCA
1 AGGGTAAAATGGTAATTTTTGGAGAAGATCGGGGTCAAAAAAGAAATTTTTGGAAGTCTA
* * * * *
419039 AGGGTAAAATGGTAATTTTTGGAGAA-ATCGGGGTCAAAAAAGGAATTTTGGGCATTTTA
1 AGGGTAAAATGGTAATTTTTGGAGAAGATCGGGGTCAAAAAAGAAATTTTTGGAAGTCTA
*
419098 GGGGTAAAATGGTAATTTTTG
1 AGGGTAAAATGGTAATTTTTG
419119 AAAGTTTTGG
Statistics
Matches: 113, Mismatches: 23, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
58 14 0.12
59 97 0.86
60 2 0.02
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.31
Consensus pattern (60 bp):
AGGGTAAAATGGTAATTTTTGGAGAAGATCGGGGTCAAAAAAGAAATTTTTGGAAGTCTA
Found at i:419102 original size:30 final size:31
Alignment explanation
Indices: 419068--419197 Score: 103
Period size: 30 Copynumber: 4.3 Consensus size: 31
419058 TGGAGAAATC
**
419068 GGGGTCAAAAAAGGAATTTTGGGCA-TTTTA
1 GGGGTCAAAAAAGGAATTTTGGAAAGTTTTA
* * *
419098 GGGGT--AAAATGGTAATTTTTGAAAGTTTTG
1 GGGGTCAAAAAAGG-AATTTTGGAAAGTTTTA
*
419128 GGGGTCAAAAATA-GAATTTTGGAAAG-CTTA
1 GGGGTCAAAAA-AGGAATTTTGGAAAGTTTTA
* * *
419158 GTGGTCAAAATA-TAATTTTGGAAAAG-TTTA
1 GGGGTCAAAAAAGGAATTTTGG-AAAGTTTTA
419188 GGGGTCAAAA
1 GGGGTCAAAA
419198 TGTAATTTTG
Statistics
Matches: 80, Mismatches: 14, Indels: 12
0.75 0.13 0.11
Matches are distributed among these distances:
28 6 0.08
29 17 0.21
30 41 0.51
31 11 0.14
32 5 0.06
ACGTcount: A:0.36, C:0.05, G:0.28, T:0.32
Consensus pattern (31 bp):
GGGGTCAAAAAAGGAATTTTGGAAAGTTTTA
Found at i:419198 original size:30 final size:29
Alignment explanation
Indices: 419094--419236 Score: 135
Period size: 30 Copynumber: 4.8 Consensus size: 29
419084 TTTTGGGCAT
* *
419094 TTTAGGGGT-AAAATGGTAATTTTTGAAAG
1 TTTAGGGGTCAAAAT-ATAATTTTGGAAAG
* *
419123 TTTTGGGGGTCAAAAATAGAATTTTGGAAAG
1 -TTTAGGGGTC-AAAATATAATTTTGGAAAG
* *
419154 CTTAGTGGTCAAAATATAATTTTGGAAAAG
1 TTTAGGGGTCAAAATATAATTTTGG-AAAG
* * *
419184 TTTAGGGGTCAAAATGTAATTTTGAAAAAA
1 TTTAGGGGTCAAAATATAATTTTG-GAAAG
* *
419214 TTTAGAGGTCAAAATATGATTTT
1 TTTAGGGGTCAAAATATAATTTT
419237 TTAAAAGGTT
Statistics
Matches: 93, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
29 14 0.15
30 63 0.68
31 11 0.12
32 5 0.05
ACGTcount: A:0.38, C:0.03, G:0.23, T:0.36
Consensus pattern (29 bp):
TTTAGGGGTCAAAATATAATTTTGGAAAG
Found at i:420101 original size:9 final size:9
Alignment explanation
Indices: 420087--420112 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
420077 TTTATTTAAA
420087 ATTAATATT
1 ATTAATATT
420096 ATTAATATT
1 ATTAATATT
420105 ATTAATAT
1 ATTAATAT
420113 CATCATTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (9 bp):
ATTAATATT
Found at i:434266 original size:29 final size:30
Alignment explanation
Indices: 434194--434271 Score: 86
Period size: 31 Copynumber: 2.6 Consensus size: 30
434184 TCAAATTTTG
* * *
434194 AAAAATATAAAAATTAAATTTGACTAACTC
1 AAAAATATAAAAACTAAAATTGACTAAATC
* *
434224 AAAAATTACAAAAACTAAAATTGATTAAAT-
1 AAAAA-TATAAAAACTAAAATTGACTAAATC
*
434254 TAAAATATAAAAACTAAA
1 AAAAATATAAAAACTAAA
434272 TAATAAACTA
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
29 12 0.30
30 9 0.22
31 19 0.47
ACGTcount: A:0.63, C:0.08, G:0.03, T:0.27
Consensus pattern (30 bp):
AAAAATATAAAAACTAAAATTGACTAAATC
Found at i:436427 original size:24 final size:24
Alignment explanation
Indices: 436400--436465 Score: 78
Period size: 24 Copynumber: 2.8 Consensus size: 24
436390 TAGCTCTCAT
*
436400 GAGCCCAGGATAGTTAACTCTTAC
1 GAGCCCAGAATAGTTAACTCTTAC
* * * *
436424 GAGCCCAAAATGGTTAGCTCTTAT
1 GAGCCCAGAATAGTTAACTCTTAC
*
436448 GAGCCGAGAATAGTTAAC
1 GAGCCCAGAATAGTTAAC
436466 CAGTATACGA
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.24
Consensus pattern (24 bp):
GAGCCCAGAATAGTTAACTCTTAC
Found at i:446571 original size:38 final size:39
Alignment explanation
Indices: 446529--446614 Score: 111
Period size: 39 Copynumber: 2.2 Consensus size: 39
446519 TAAAATAACA
* * *
446529 TCCAAATTTGTGCCCAAAAA-TGTCGCCGCATGAGCTCT
1 TCCAAATTTGCGCCCAAAAACTGTCACCGCATGAGCACT
* *
446567 TCCAAATTTGCGCCCAAAAACTGTTATCGCATGAGCACT
1 TCCAAATTTGCGCCCAAAAACTGTCACCGCATGAGCACT
*
446606 TCCAGATTT
1 TCCAAATTT
446615 CACCAAAACT
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
38 19 0.46
39 22 0.54
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (39 bp):
TCCAAATTTGCGCCCAAAAACTGTCACCGCATGAGCACT
Found at i:449880 original size:17 final size:17
Alignment explanation
Indices: 449858--449904 Score: 69
Period size: 17 Copynumber: 2.8 Consensus size: 17
449848 CTGTTGTATA
449858 ATTGTCCTTGCATTTTT
1 ATTGTCCTTGCATTTTT
449875 ATTGTCAC-TGCATTTTT
1 ATTGTC-CTTGCATTTTT
*
449892 ATTGTCGTTGCAT
1 ATTGTCCTTGCAT
449905 CTACATTGTC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
17 26 0.96
18 1 0.04
ACGTcount: A:0.15, C:0.17, G:0.15, T:0.53
Consensus pattern (17 bp):
ATTGTCCTTGCATTTTT
Found at i:452458 original size:17 final size:17
Alignment explanation
Indices: 452438--452512 Score: 91
Period size: 17 Copynumber: 4.5 Consensus size: 17
452428 CCGATTTTAA
*
452438 ATTTTAAATTTTAATTT
1 ATTTTAAATTTAAATTT
* *
452455 A-TTTAAGTTTGAATTT
1 ATTTTAAATTTAAATTT
*
452471 ATTTTAAATTTAAACTT
1 ATTTTAAATTTAAATTT
452488 ATTTTAAA-TTAAATTT
1 ATTTTAAATTTAAATTT
452504 AATTTTAAA
1 -ATTTTAAA
452513 AGTTCAAAAT
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
16 21 0.42
17 29 0.58
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (17 bp):
ATTTTAAATTTAAATTT
Found at i:452503 original size:33 final size:34
Alignment explanation
Indices: 452437--452512 Score: 93
Period size: 33 Copynumber: 2.3 Consensus size: 34
452427 CCCGATTTTA
* * * *
452437 AATTTTAAATTTTAATTTATTTAAGTTTGAATTT
1 AATTTTAAATTTAAACTTATTTAAGATTAAATTT
452471 -ATTTTAAATTTAAACTTATTTTAA-ATTAAATTT
1 AATTTTAAATTTAAACTTA-TTTAAGATTAAATTT
452504 AATTTTAAA
1 AATTTTAAA
452513 AGTTCAAAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
33 23 0.64
34 13 0.36
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (34 bp):
AATTTTAAATTTAAACTTATTTAAGATTAAATTT
Found at i:452553 original size:19 final size:20
Alignment explanation
Indices: 452512--452559 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
452502 TTAATTTTAA
*
452512 AAGTTCAAAATTACAAATTC
1 AAGTCCAAAATTACAAATTC
452532 AAGTCCAAAA-TAC-AATTCC
1 AAGTCCAAAATTACAAATT-C
*
452551 AAGCCCAAA
1 AAGTCCAAA
452560 CAAACCAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 4 0.16
19 12 0.48
20 9 0.36
ACGTcount: A:0.50, C:0.23, G:0.06, T:0.21
Consensus pattern (20 bp):
AAGTCCAAAATTACAAATTC
Found at i:453912 original size:30 final size:30
Alignment explanation
Indices: 453876--453977 Score: 118
Period size: 30 Copynumber: 3.5 Consensus size: 30
453866 CAAACATTTT
* * *
453876 AAAAATTACATTTTAATCTTTAAACTTTTC
1 AAAAATTACATTTTAAACTCTAAACTTTCC
* *
453906 AAAAATTACATTTTGACCTCT--ACTTTCC
1 AAAAATTACATTTTAAACTCTAAACTTTCC
* *
453934 AAAAATTAAATTTTAAACCCTAAACTTTCC
1 AAAAATTACATTTTAAACTCTAAACTTTCC
*
453964 AAAAATTTCATTTT
1 AAAAATTACATTTT
453978 GATCCCTTCT
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
28 23 0.38
30 37 0.62
ACGTcount: A:0.40, C:0.18, G:0.01, T:0.41
Consensus pattern (30 bp):
AAAAATTACATTTTAAACTCTAAACTTTCC
Found at i:454015 original size:28 final size:27
Alignment explanation
Indices: 453983--454100 Score: 85
Period size: 30 Copynumber: 4.1 Consensus size: 27
453973 ATTTTGATCC
453983 CTTCTAAAATTATATTTTTACACCTAAA
1 CTTCTAAAATTATATTTTTAC-CCTAAA
* *
454011 CTTCTAAAAAATCATATTTTAACCCCTAAA
1 CTTCT--AAAATTATATTTTTA-CCCTAAA
* *
454041 CTTTTCAAAAATTACATTTTTACCCTTAAA
1 C--TTCTAAAATTATATTTTTACCC-TAAA
* * * *
454071 CATCCAAAATTACCA-TTTTACCCCAAA
1 CTTCTAAAATTA-TATTTTTACCCTAAA
454098 CTT
1 CTT
454101 TCCAAAAATC
Statistics
Matches: 73, Mismatches: 10, Indels: 15
0.74 0.10 0.15
Matches are distributed among these distances:
27 5 0.07
28 22 0.30
29 5 0.07
30 37 0.51
31 1 0.01
32 3 0.04
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (27 bp):
CTTCTAAAATTATATTTTTACCCTAAA
Found at i:454028 original size:30 final size:29
Alignment explanation
Indices: 453988--454071 Score: 96
Period size: 30 Copynumber: 2.8 Consensus size: 29
453978 GATCCCTTCT
453988 AAAATTATATTTTTACACCTAAACTTCTAA
1 AAAATTATATTTTTAC-CCTAAACTTCTAA
* * * *
454018 AAAATCATATTTTAACCCCTAAACTTTTCA
1 AAAATTATATTTTTA-CCCTAAACTTCTAA
*
454048 AAAATTACATTTTTACCCTTAAAC
1 AAAATTATATTTTTACCC-TAAAC
454072 ATCCAAAATT
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
29 3 0.07
30 41 0.91
31 1 0.02
ACGTcount: A:0.42, C:0.20, G:0.00, T:0.38
Consensus pattern (29 bp):
AAAATTATATTTTTACCCTAAACTTCTAA
Found at i:454078 original size:29 final size:30
Alignment explanation
Indices: 453988--454500 Score: 228
Period size: 29 Copynumber: 17.7 Consensus size: 30
453978 GATCCCTTCT
*
453988 AAAATTAT-ATTTTTACACCT-AAACTTCTA
1 AAAATTATCATTTTTAC-CCTCAAACTTCCA
*
454017 AAAA--ATCATATTTTAACCC-CTAAACTTTTCA
1 AAAATTATCAT-TTTT-ACCCTC-AAAC-TTCCA
* *
454048 AAAATTA-CATTTTTACCCTTAAACATCC-
1 AAAATTATCATTTTTACCCTCAAACTTCCA
*
454076 AAAATTACCA-TTTTACCC-CAAACTTTCCA
1 AAAATTATCATTTTTACCCTCAAAC-TTCCA
* * * *
454105 AAAATCA-CATTATTGCCCTCAAACTTTCA
1 AAAATTATCATTTTTACCCTCAAACTTCCA
* * *
454134 AAAAATAGCA-TTTTACCC-CGAACTTCCA
1 AAAATTATCATTTTTACCCTCAAACTTCCA
* *
454162 AAAA-TATCATTTTCGA-CC-CGAACTTTCCA
1 AAAATTATCATTTT-TACCCTCAAAC-TTCCA
*
454191 AAAATCAT-ATTTTTACCCTCAAACTTCCA
1 AAAATTATCATTTTTACCCTCAAACTTCCA
* * *
454220 AAAATTATC-GTTTTA-CCTCGAA-TTTCA
1 AAAATTATCATTTTTACCCTCAAACTTCCA
* *
454247 AAAAATATCATTTTTGA-CCTCAAACTTTCA
1 AAAATTATCATTTTT-ACCCTCAAACTTCCA
* *
454277 AAAA-CATCATTTTCGA-CCT-AAACTTCCA
1 AAAATTATCATTTT-TACCCTCAAACTTCCA
* * *
454305 AAAAATAT-ATTTTTGCCC-CTAAATTTCCA
1 AAAATTATCATTTTTACCCTC-AAACTTCCA
* ** *
454334 AAAATTACCA-TTTTACCCTTGAACATCCA
1 AAAATTATCATTTTTACCCTCAAACTTCCA
* * * * *
454363 GAAATTACCATTTTCACCCTC-GAGTGTCCA
1 AAAATTATCATTTTTACCCTCAAACT-TCCA
** * ** *
454393 AAAACTT-TTTTTTTTGCCCTGGAACATCCA
1 AAAA-TTATCATTTTTACCCTCAAACTTCCA
* *
454423 AAAATTATCATTTTCGT-CCC-C-GAGTGTCCA
1 AAAATTATCATTTT--TACCCTCAAACT-TCCA
* * * *
454453 AAAAGTA-CAGTTTTACCCTCGAACCTCCA
1 AAAATTATCATTTTTACCCTCAAACTTCCA
*
454482 AAAATTACCA-TTTTACCCT
1 AAAATTATCATTTTTACCCT
454501 TGGACATATT
Statistics
Matches: 369, Mismatches: 71, Indels: 88
0.70 0.13 0.17
Matches are distributed among these distances:
27 23 0.06
28 77 0.21
29 161 0.44
30 86 0.23
31 17 0.05
32 4 0.01
33 1 0.00
ACGTcount: A:0.36, C:0.26, G:0.05, T:0.34
Consensus pattern (30 bp):
AAAATTATCATTTTTACCCTCAAACTTCCA
Found at i:454115 original size:57 final size:57
Alignment explanation
Indices: 453996--454174 Score: 161
Period size: 57 Copynumber: 3.1 Consensus size: 57
453986 CTAAAATTAT
* *
453996 ATTTTTACACCT-AAACT-TCTAAAAAAT-CATATTTTAACCCCTAAACTTTTCAAAAATTAC
1 ATTTTTAC-CCTCAAACTATC-AAAAAATAC-CATTTT-ACCCC-AAACTTTCCAAAAA-TAC
* * *
454056 ATTTTTACCCTTAAAC-ATCCAAAATTACCATTTTACCCCAAACTTTCCAAAAATCAC
1 ATTTTTACCCTCAAACTATCAAAAAATACCATTTTACCCCAAACTTTCCAAAAAT-AC
* * * * *
454113 ATTATTGCCCTCAAACTTTCAAAAAATAGCATTTTACCCCGAAC-TTCCAAAAATATC
1 ATTTTTACCCTCAAACTATCAAAAAATACCATTTTACCCCAAACTTTCCAAAAATA-C
454170 ATTTT
1 ATTTT
454175 CGACCCGAAC
Statistics
Matches: 100, Mismatches: 13, Indels: 15
0.78 0.10 0.12
Matches are distributed among these distances:
56 2 0.02
57 43 0.43
58 27 0.27
59 13 0.13
60 15 0.15
ACGTcount: A:0.39, C:0.25, G:0.02, T:0.34
Consensus pattern (57 bp):
ATTTTTACCCTCAAACTATCAAAAAATACCATTTTACCCCAAACTTTCCAAAAATAC
Found at i:454187 original size:86 final size:86
Alignment explanation
Indices: 454094--454311 Score: 264
Period size: 86 Copynumber: 2.5 Consensus size: 86
454084 CATTTTACCC
*
454094 CAAACTTTCCAAAAATCACATTATTGCCCTCAAACTTTCAAAAAATAGCATTTTACCCCGAACTT
1 CAAACTTTCCAAAAATCACATT-TTGCCCTCAAACTTCCAAAAAATAGCATTTTACCCCGAACTT
*
454159 CCAAAAATATCATTTTCGACC-
65 CAAAAAATATCATTTTCGACCT
* * * * * * * *
454180 CGAACTTTCCAAAAATCATATTTTTACCCTCAAACTTCCAAAAATTATCGTTTTACCTCGAATTT
1 CAAACTTTCCAAAAATCACA-TTTTGCCCTCAAACTTCCAAAAAATAGCATTTTACCCCGAACTT
*
454245 CAAAAAATATCATTTTTGACCT
65 CAAAAAATATCATTTTCGACCT
*
454267 CAAACTTT-CAAAAA-CATCATTTTCGACCT-AAACTTCCAAAAAATA
1 CAAACTTTCCAAAAATCA-CATTTT-GCCCTCAAACTTCCAAAAAATA
454312 TATTTTTGCC
Statistics
Matches: 112, Mismatches: 16, Indels: 9
0.82 0.12 0.07
Matches are distributed among these distances:
85 21 0.19
86 82 0.73
87 9 0.08
ACGTcount: A:0.39, C:0.25, G:0.04, T:0.32
Consensus pattern (86 bp):
CAAACTTTCCAAAAATCACATTTTGCCCTCAAACTTCCAAAAAATAGCATTTTACCCCGAACTTC
AAAAAATATCATTTTCGACCT
Found at i:454194 original size:57 final size:55
Alignment explanation
Indices: 454084--454347 Score: 214
Period size: 57 Copynumber: 4.6 Consensus size: 55
454074 CCAAAATTAC
*
454084 CATTTTACCCCAAACTTTCCAAAAATCA-CATTATTGCCCTCAAACTTTCAAAAAATA
1 CATTTTACCCCAAAC-TTCCAAAAAT-ATCATT-TTGACCTCAAACTTTCAAAAAATA
* * *
454141 GCATTTTACCCCGAACTTCCAAAAATATCATTTTCGACC-CGAACTTTCCAAAAATCA
1 -CATTTTACCCCAAACTTCCAAAAATATCATTTT-GACCTCAAACTTTCAAAAAAT-A
* * *
454198 TATTTTTACCCTCAAACTTCCAAAAATTATCGTTTT-ACCTCGAA-TTTCAAAAAATA
1 CA-TTTTACCC-CAAACTTCCAAAAA-TATCATTTTGACCTCAAACTTTCAAAAAATA
* * * *
454254 TCATTTTTGACCTCAAACTTTCAAAAACATCATTTTCGACCT-AAACTTCCAAAAAATA
1 -CA-TTTT-ACCCCAAACTTCCAAAAATATCATTTT-GACCTCAAACTTTCAAAAAATA
* * * *
454312 TATTTTTGCCCCTAAATTTCCAAAAATTACCATTTT
1 CA-TTTTACCCC-AAACTTCCAAAAA-TATCATTTT
454348 ACCCTTGAAC
Statistics
Matches: 170, Mismatches: 22, Indels: 28
0.77 0.10 0.13
Matches are distributed among these distances:
56 29 0.17
57 77 0.45
58 56 0.33
59 8 0.05
ACGTcount: A:0.37, C:0.25, G:0.04, T:0.34
Consensus pattern (55 bp):
CATTTTACCCCAAACTTCCAAAAATATCATTTTGACCTCAAACTTTCAAAAAATA
Found at i:454404 original size:143 final size:138
Alignment explanation
Indices: 454004--454404 Score: 362
Period size: 143 Copynumber: 2.8 Consensus size: 138
453994 ATATTTTTAC
* * *
454004 ACCTAAACTTCTAAAAAATCATATTTTAACCCCTAAACTTTTCAAAAATTACATTTTTACCCTTA
1 ACCTAAACTTCCAAAAAAT-ATATTTTAGCCCCTAAA-TTTCCAAAAATTACATTTTTACCCTTA
* ** * *
454069 AACATCCAAAATTACCATTTTACCC-CAAACTTTCCAAAAATCACATTATTGCCCTCAAACTTTC
64 AACATCCAAAATTACCATTTTACCCTCGAA--TTCCAAAAA-C-TTTTTTTGACCTCAAACTTTC
454133 AAAAAATAGCATTTT
125 AAAAAATA-CATTTT
** * * * * * * *
454148 ACCCCGAACTTCC-AAAAATATCATTTTCGACCCGAACTTTCCAAAAATCATATTTTTACCCTCA
1 A-CCTAAACTTCCAAAAAATAT-ATTTTAGCCCCTAAATTTCCAAAAATTACATTTTTACCCTTA
* * * * *
454212 AACTTCCAAAAATTATCGTTTTA-CCTCGAATTTCAAAAAATATCATTTTTGACCTCAAACTTTC
64 AACATCC-AAAATTACCATTTTACCCTCGAATTCCAAAAACT-T--TTTTTGACCTCAAACTTTC
454276 AAAAACAT-CATTTT
125 AAAAA-ATACATTTT
*
454290 CGACCTAAACTTCCAAAAAATATATTTTTGCCCCTAAATTTCCAAAAATTACCA-TTTTACCCTT
1 --ACCTAAACTTCCAAAAAATATATTTTAGCCCCTAAATTTCCAAAAATTA-CATTTTTACCCTT
* *
454354 GAACATCCAGAAATTACCATTTTCACCCTCGAGTGTCCAAAAACTTTTTTT
63 AAACATCCA-AAATTACCATTTT-ACCCTCGAAT-TCCAAAAACTTTTTTT
454405 TTTGCCCTGG
Statistics
Matches: 203, Mismatches: 38, Indels: 33
0.74 0.14 0.12
Matches are distributed among these distances:
142 15 0.07
143 118 0.58
144 46 0.23
145 16 0.08
146 8 0.04
ACGTcount: A:0.37, C:0.25, G:0.04, T:0.34
Consensus pattern (138 bp):
ACCTAAACTTCCAAAAAATATATTTTAGCCCCTAAATTTCCAAAAATTACATTTTTACCCTTAAA
CATCCAAAATTACCATTTTACCCTCGAATTCCAAAAACTTTTTTTGACCTCAAACTTTCAAAAAA
TACATTTT
Found at i:454428 original size:60 final size:59
Alignment explanation
Indices: 454330--454500 Score: 177
Period size: 60 Copynumber: 2.9 Consensus size: 59
454320 CCCCTAAATT
* * *
454330 TCCAAAAATTACCA-TTTTACCCTTGAACATCCAGAAATTACCATTTTCACCCTCGAGTG
1 TCCAAAAAGTA-CAGTTTTACCCTCGAACATCCAAAAATTACCATTTTCACCCTCGAGTG
* **** * * * *
454389 TCCAAAAACTTTTTTTTTTGCCCTGGAACATCCAAAAATTATCATTTTCGTCCC-CGAGTG
1 TCCAAAAA-GTACAGTTTTACCCTCGAACATCCAAAAATTACCATTTTC-ACCCTCGAGTG
*
454449 TCCAAAAAGTACAGTTTTACCCTCGAACCTCCAAAAATTACCATTTT-ACCCT
1 TCCAAAAAGTACAGTTTTACCCTCGAACATCCAAAAATTACCATTTTCACCCT
454501 TGGACATATT
Statistics
Matches: 90, Mismatches: 18, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
57 3 0.03
59 38 0.42
60 46 0.51
61 3 0.03
ACGTcount: A:0.31, C:0.28, G:0.09, T:0.32
Consensus pattern (59 bp):
TCCAAAAAGTACAGTTTTACCCTCGAACATCCAAAAATTACCATTTTCACCCTCGAGTG
Found at i:457892 original size:17 final size:19
Alignment explanation
Indices: 457860--457894 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
457850 CCTTATTGCT
457860 TGCATTTTATCATTTCATG
1 TGCATTTTATCATTTCATG
457879 TGCA-TTTA-CATTTCAT
1 TGCATTTTATCATTTCAT
457895 ACATTAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 4 0.25
19 4 0.25
ACGTcount: A:0.23, C:0.17, G:0.09, T:0.51
Consensus pattern (19 bp):
TGCATTTTATCATTTCATG
Found at i:458710 original size:15 final size:15
Alignment explanation
Indices: 458690--458728 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
458680 GACGTGTTTT
*
458690 AAAAAAAAAAAAAGA
1 AAAAAAAAAAAAACA
*
458705 AAAAAAAACAAAACA
1 AAAAAAAAAAAAACA
458720 AATAAAAAA
1 AA-AAAAAA
458729 GGGGTCAAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 15 0.71
16 6 0.29
ACGTcount: A:0.90, C:0.05, G:0.03, T:0.03
Consensus pattern (15 bp):
AAAAAAAAAAAAACA
Found at i:458784 original size:3 final size:3
Alignment explanation
Indices: 458776--458831 Score: 103
Period size: 3 Copynumber: 18.7 Consensus size: 3
458766 CCCAAGGCAA
458776 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
*
458824 AAA AAG AA
1 AAG AAG AA
458832 AGGAAAGTCA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:459694 original size:13 final size:13
Alignment explanation
Indices: 459672--459725 Score: 67
Period size: 13 Copynumber: 4.2 Consensus size: 13
459662 TTCGATGAAG
*
459672 AAAAATAAATAAA
1 AAAAAGAAATAAA
459685 AAAAAGAAAT-AA
1 AAAAAGAAATAAA
459697 AAAAAGAAA-AAA
1 AAAAAGAAATAAA
*
459709 GAAAGAGAAATAAA
1 -AAAAAGAAATAAA
459723 AAA
1 AAA
459726 GAAAAAAGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
12 13 0.36
13 20 0.56
14 3 0.08
ACGTcount: A:0.83, C:0.00, G:0.09, T:0.07
Consensus pattern (13 bp):
AAAAAGAAATAAA
Found at i:459696 original size:17 final size:17
Alignment explanation
Indices: 459674--459742 Score: 61
Period size: 17 Copynumber: 3.9 Consensus size: 17
459664 CGATGAAGAA
459674 AAATAAATAA-AAAAAAG
1 AAATAAA-AAGAAAAAAG
459691 AAATAAAAAAAGAAAAAAG
1 AAAT--AAAAAGAAAAAAG
* * *
459710 AAAGAGAAATAAAAAAG
1 AAATAAAAAGAAAAAAG
459727 AAA-AAAGAAGAAAAAA
1 AAATAAA-AAGAAAAAA
459743 CAAGAAAAAC
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
16 2 0.05
17 26 0.60
18 2 0.05
19 13 0.30
ACGTcount: A:0.83, C:0.00, G:0.12, T:0.06
Consensus pattern (17 bp):
AAATAAAAAGAAAAAAG
Found at i:459698 original size:10 final size:9
Alignment explanation
Indices: 459669--459779 Score: 91
Period size: 9 Copynumber: 12.0 Consensus size: 9
459659 GGATTCGATG
459669 AAGAAAAATA
1 AAGAAAAA-A
*
459679 AATAAAAAA
1 AAGAAAAAA
459688 AAGAAATAAA
1 AAGAAA-AAA
459698 AA-AAGAAAA
1 AAGAA-AAAA
* *
459707 AAGAAAGAG
1 AAGAAAAAA
*
459716 AA-ATAAAA
1 AAGAAAAAA
459724 AAGAAAAAA
1 AAGAAAAAA
459733 GAAGAAAAAA
1 -AAGAAAAAA
*
459743 CAAGAAAAAC
1 -AAGAAAAAA
*
459753 AAGAAGAAA
1 AAGAAAAAA
*
459762 AACAAAAAA
1 AAGAAAAAA
*
459771 GAGAAAAAA
1 AAGAAAAAA
459780 GGAAAAAGAA
Statistics
Matches: 80, Mismatches: 16, Indels: 11
0.75 0.15 0.10
Matches are distributed among these distances:
8 5 0.06
9 43 0.54
10 32 0.40
ACGTcount: A:0.81, C:0.03, G:0.13, T:0.04
Consensus pattern (9 bp):
AAGAAAAAA
Found at i:459708 original size:7 final size:7
Alignment explanation
Indices: 459684--459791 Score: 66
Period size: 7 Copynumber: 15.6 Consensus size: 7
459674 AAATAAATAA
459684 AAAAAAG
1 AAAAAAG
*
459691 -AAATA-
1 AAAAAAG
459696 AAAAAAG
1 AAAAAAG
459703 AAAAAAG
1 AAAAAAG
*
459710 AAAGAGAAAT
1 -AA-A-AAAG
459720 AAAAAAG
1 AAAAAAG
459727 AAAAAAG
1 AAAAAAG
*
459734 AAGAAA-
1 AAAAAAG
*
459740 AAACAAG
1 AAAAAAG
459747 -AAAAA-
1 AAAAAAG
* *
459752 CAAGAAG
1 AAAAAAG
459759 AAAAACA-
1 AAAAA-AG
459766 AAAAAGAG
1 AAAAA-AG
459774 AAAAAAG
1 AAAAAAG
*
459781 GAAAAAG
1 AAAAAAG
459788 AAAA
1 AAAA
459792 GGTGAGGTCG
Statistics
Matches: 77, Mismatches: 14, Indels: 20
0.69 0.13 0.18
Matches are distributed among these distances:
6 20 0.26
7 42 0.55
8 9 0.12
9 3 0.04
10 3 0.04
ACGTcount: A:0.81, C:0.03, G:0.15, T:0.02
Consensus pattern (7 bp):
AAAAAAG
Found at i:459726 original size:13 final size:13
Alignment explanation
Indices: 459678--459727 Score: 68
Period size: 13 Copynumber: 3.9 Consensus size: 13
459668 GAAGAAAAAT
*
459678 AAATAAAAAAAAG
1 AAATAAAAAAGAG
459691 AAATAAAAAA-AG
1 AAATAAAAAAGAG
459703 AAA-AAAGAAAGAG
1 AAATAAA-AAAGAG
459716 AAATAAAAAAGA
1 AAATAAAAAAGA
459728 AAAAAGAAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
11 3 0.09
12 8 0.24
13 20 0.59
14 3 0.09
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.06
Consensus pattern (13 bp):
AAATAAAAAAGAG
Found at i:459731 original size:31 final size:32
Alignment explanation
Indices: 459696--459772 Score: 83
Period size: 31 Copynumber: 2.5 Consensus size: 32
459686 AAAAGAAATA
459696 AAAAAAGAAAAAAGAA-AGAGAAATAA-AA-AAG
1 AAAAAAGAAAAAAGAACA-AGAAA-AACAAGAAG
459727 AAAAAAGAAGAAAA-AACAAGAAAAACAAGAAG
1 AAAAAAGAA-AAAAGAACAAGAAAAACAAGAAG
*
459759 -AAAAACAAAAAAGA
1 AAAAAAGAAAAAAGA
459773 GAAAAAAGGA
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
30 6 0.15
31 26 0.65
32 8 0.20
ACGTcount: A:0.81, C:0.04, G:0.14, T:0.01
Consensus pattern (32 bp):
AAAAAAGAAAAAAGAACAAGAAAAACAAGAAG
Found at i:459766 original size:12 final size:11
Alignment explanation
Indices: 459683--459763 Score: 73
Period size: 10 Copynumber: 7.5 Consensus size: 11
459673 AAAATAAATA
*
459683 AAAAAAAGAAAT
1 AAAAAAAG-AAG
459695 AAAAAAAGAA-
1 AAAAAAAGAAG
459705 AAAAGAAAG-AG
1 AAAA-AAAGAAG
459716 AAATAAAA-AAG
1 AAA-AAAAGAAG
459727 -AAAAAAGAAG
1 AAAAAAAGAAG
*
459737 -AAAAAACAAG
1 AAAAAAAGAAG
459747 AAAAACAAGAAG
1 AAAAA-AAGAAG
459759 AAAAA
1 AAAAA
459764 CAAAAAAGAG
Statistics
Matches: 60, Mismatches: 2, Indels: 14
0.79 0.03 0.18
Matches are distributed among these distances:
9 4 0.07
10 19 0.32
11 18 0.30
12 19 0.32
ACGTcount: A:0.81, C:0.02, G:0.14, T:0.02
Consensus pattern (11 bp):
AAAAAAAGAAG
Found at i:461093 original size:50 final size:50
Alignment explanation
Indices: 460800--461108 Score: 234
Period size: 50 Copynumber: 6.2 Consensus size: 50
460790 GAAACCAATT
* * **
460800 CCTAAGAAGATGTGAAGGGAAAGGTTGAGGCCGCAATGACGAACCCGGTA
1 CCTAAGAAGATGTGAAGGGAAAGGTTGAGGCTGCAACGGTGAACCCGGTA
* * * **
460850 CCTTAA-AAGATGTGATGGGAAAGGTTGAGAAC-GCAACGGCGAACCCAATA
1 CC-TAAGAAGATGTGAAGGGAAAGGTTGAG-GCTGCAACGGTGAACCCGGTA
* * * *** *
460900 CC-ATGAAGA-GATGACATGGG--AGGATTGAGGTTGCAATGGTGAATTTGATA
1 CCTAAGAAGATG-TGA-A-GGGAAAGG-TTGAGGCTGCAACGGTGAACCCGGTA
* * * *
460950 CCTTAAAAATATGTGAAGGGAAAGGTTGAGGGTGCAACGGTGAACCCAGTA
1 CC-TAAGAAGATGTGAAGGGAAAGGTTGAGGCTGCAACGGTGAACCCGGTA
* * * *
461001 CCTAAGAAGATGTGAAGGAAAACGTTAAGGCTGCAACAGTGAACCCGGTA
1 CCTAAGAAGATGTGAAGGGAAAGGTTGAGGCTGCAACGGTGAACCCGGTA
* * * * * *
461051 CCTAAGAAGATGTGATGGGAAAGATTGAGACAGTAACGGTGAACTCGGTA
1 CCTAAGAAGATGTGAAGGGAAAGGTTGAGGCTGCAACGGTGAACCCGGTA
*
461101 CCTTAGAA
1 CCTAAGAA
461109 AATAAAAAGG
Statistics
Matches: 201, Mismatches: 45, Indels: 26
0.74 0.17 0.10
Matches are distributed among these distances:
48 2 0.01
49 10 0.05
50 149 0.74
51 29 0.14
52 10 0.05
53 1 0.00
ACGTcount: A:0.36, C:0.15, G:0.31, T:0.19
Consensus pattern (50 bp):
CCTAAGAAGATGTGAAGGGAAAGGTTGAGGCTGCAACGGTGAACCCGGTA
Found at i:461815 original size:85 final size:85
Alignment explanation
Indices: 461668--461824 Score: 197
Period size: 85 Copynumber: 1.8 Consensus size: 85
461658 TGAACCCTAG
* * * * * * * *
461668 CTTCCTGATGAGATACTGAGAAGTAGGTCGAAGCAATAAAGAGGTTACCTTCTTGATAAGATACA
1 CTTCCAGATGAGATACAGAGAAGTAGATCAAAACAACAAAGAGGTCACCTTCCTGATAAGATACA
461733 GAGAAGTGAACCAGATCCGT
66 GAGAAGTGAACCAGATCCGT
* * * * *
461753 CTTCCAGATGAGATACAGAGAAGTAGATCAAAACAACAAGGCGGTCATCTTCCTGATGAGATACT
1 CTTCCAGATGAGATACAGAGAAGTAGATCAAAACAACAAAGAGGTCACCTTCCTGATAAGATACA
461818 GAGAAGT
66 GAGAAGT
461825 AGACCAAATC
Statistics
Matches: 59, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
85 59 1.00
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.22
Consensus pattern (85 bp):
CTTCCAGATGAGATACAGAGAAGTAGATCAAAACAACAAAGAGGTCACCTTCCTGATAAGATACA
GAGAAGTGAACCAGATCCGT
Found at i:461878 original size:208 final size:209
Alignment explanation
Indices: 461489--462208 Score: 1000
Period size: 209 Copynumber: 3.5 Consensus size: 209
461479 CAGCTATCCA
*
461489 AAGCAATAAAGCGGTTACCTTCTTGATAAGATACAGAGAAGTGAACCAGATCTGTCTTCCTGATG
1 AAGCAATAAAGCGGTTACCTTCTTGATAAGATACAGAGAAGTGAACCAGATCCGTCTTCCTGATG
* * * *
461554 AGACACATAA-AAGTGGATCAAAATAAGTGATGCGGTCATCTTCCTGATGAGATATTAAGAAGGA
66 AGACACA-AAGAAGTAGATCAAAACAAGTGATGCGGTCATCTTCCTGATGAGATATTGAGAAGTA
* * *
461618 GACCAAACCAATGAAACTAGGCTCAAAGTGAGCAAATCTTTGAACCCTAGCTTCCTGATGAGATA
130 GACCAAATCAATGAAACCAGGCTCAAAGTGAGCAAATCTTCGAACCCTAGCTTCCTGATGAGATA
461683 CTGAGAAGTAGGTCG
195 CTGAGAAGTAGGTCG
* *
461698 AAGCAATAAAGAGGTTACCTTCTTGATAAGATACAGAGAAGTGAACCAGATCCGTCTTCCAGATG
1 AAGCAATAAAGCGGTTACCTTCTTGATAAGATACAGAGAAGTGAACCAGATCCGTCTTCCTGATG
* * ** * *
461763 AGATACAGAGAAGTAGATCAAAACAA-CAAGGCGGTCATCTTCCTGATGAGATACTGAGAAGTAG
66 AGACACAAAGAAGTAGATCAAAACAAGTGATGCGGTCATCTTCCTGATGAGATATTGAGAAGTAG
* *
461827 ACCAAATCAATGAAACCAGGCTCAAAGTGAGTAAATCTTCGAACCCTAGCTTACTGATGAGATAC
131 ACCAAATCAATGAAACCAGGCTCAAAGTGAGCAAATCTTCGAACCCTAGCTTCCTGATGAGATAC
*
461892 TGAGAAGCAGGTCG
196 TGAGAAGTAGGTCG
* *
461906 AAGCAATAAAGCGGTTACCTT-TCTGATGAGATACAGAGAAGTGAACCAGATCCGTATTCCTGAT
1 AAGCAATAAAGCGGTTACCTTCT-TGATAAGATACAGAGAAGTGAACCAGATCCGTCTTCCTGAT
* *
461970 GAGACACAAAGAAGTAGATCAAAACAAGTGATGTGGCCATCTTCCTGATGAGATATTGAGAAGTA
65 GAGACACAAAGAAGTAGATCAAAACAAGTGATGCGGTCATCTTCCTGATGAGATATTGAGAAGTA
* ** * * * *
462035 GACCAACTCAATGAAACCAAACTCAAAGTGAGCAAATCTTCAAACCCCAGTTTCCTAATGAGATA
130 GACCAAATCAATGAAACCAGGCTCAAAGTGAGCAAATCTTCGAACCCTAGCTTCCTGATGAGATA
*
462100 CTGAAAAGTAGGTCG
195 CTGAGAAGTAGGTCG
** * * ** * *
462115 AAGCAATAAAGCTATTACCTTCCTGATAAGATACAGAGAAGTTAATAAAATCTGTCTTCCTG--G
1 AAGCAATAAAGCGGTTACCTTCTTGATAAGATACAGAGAAGTGAACCAGATCCGTCTTCCTGATG
* * *
462178 AGACACAGAGAAGTGGATAAAAAACAAGTGA
66 AGACACAAAGAAGTAGAT-CAAAACAAGTGA
462209 AGCCAAAACT
Statistics
Matches: 451, Mismatches: 55, Indels: 11
0.87 0.11 0.02
Matches are distributed among these distances:
207 18 0.04
208 200 0.44
209 233 0.52
ACGTcount: A:0.38, C:0.18, G:0.22, T:0.22
Consensus pattern (209 bp):
AAGCAATAAAGCGGTTACCTTCTTGATAAGATACAGAGAAGTGAACCAGATCCGTCTTCCTGATG
AGACACAAAGAAGTAGATCAAAACAAGTGATGCGGTCATCTTCCTGATGAGATATTGAGAAGTAG
ACCAAATCAATGAAACCAGGCTCAAAGTGAGCAAATCTTCGAACCCTAGCTTCCTGATGAGATAC
TGAGAAGTAGGTCG
Found at i:462307 original size:209 final size:204
Alignment explanation
Indices: 462140--462745 Score: 525
Period size: 209 Copynumber: 2.9 Consensus size: 204
462130 TACCTTCCTG
* **
462140 ATAAGATACAGAGAAGT-T-AATA-A-A-ATCT-G-TCTTCCTG-GAGACACAGAGAAGTGGATA
1 ATAAGATACAGAGAAGTGTCAAAACAGAGATCTGGATCTTCCTGAGAGACACAGAGAAGCAGA-A
* *
462197 AAAAACAAGTGAAGCCAAAACTCGATGTGAGCGAATCTTCGAACCCCAGCTTCCTGATGAGATAT
65 AAAAACAA-TGAAACCAAAACTCGATGTGAGCGAATCTTCGAACCCCAGCTTCCTGATGAGATAC
* *
462262 TGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTTCTGATGAGATACTGAGAAGTGGACCAAAT
129 TGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACAAAAT
** *
462327 CCGTCTTTTTA
194 AAGTATTTTTA
* * * *
462338 ATAAGATACAGAGAAGTGGATCAAAACAGAGATGTGGTCATCTTCTTGATGAGATACTGAGAAGC
1 ATAAGATACAGAGAAGT-G-TCAAAACAGAGATCTGG--ATCTTCCTGA-GAGACACAGAGAAGC
** * * *
462403 AGACCAAATCAATGAAACCAAAGCTCGATGTGAGCGAATCTTTGAACCCCAGCTTCCTGATGAGA
61 AGAAAAAAACAATGAAACCAAAACTCGATGTGAGCGAATCTTCGAACCCCAGCTTCCTGATGAGA
*
462468 TACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCA
126 TACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACAA
** * * *
462533 AATTCGTCTTCTTG
191 AATAAGTATTTTTA
* * * * * * * *
462547 ATGAGACATAGAGAATTGGATCAAAACAAGTGATGCAGTCATCTTCCTGATGAGATACTA-AGAA
1 ATAAGATACAGAGAAGT-G-TCAAAAC-AGAGAT-CTG-GATCTTCCTGA-GAGACAC-AGAGAA
* ** * * * * ** * *
462611 GTAGACCAAATCAAATG-AGCCGAAGCTTAATGTGAGAAGAA-CTTTGAACCCCAGCTTCCTGAT
59 GCAGAAAAAAAC-AATGAAACCAAAACTCGATGTGAG-CGAATCTTCGAACCCCAGCTTCCTGAT
* * * * *
462674 GAGGTACTGAGAAGCAGGTCGGAGCAATAAAATGGTT-GCCTTCTTGATAAGATACTGAGAAGTA
122 GAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAG-CTTCCTGATGAGATACTGAGAAGTG
*
462738 GACCAAAT
186 GACAAAAT
462746 CAATGAAACT
Statistics
Matches: 349, Mismatches: 39, Indels: 28
0.84 0.09 0.07
Matches are distributed among these distances:
198 17 0.05
201 1 0.00
202 3 0.01
203 1 0.00
204 1 0.00
205 3 0.01
206 1 0.00
209 155 0.44
210 145 0.42
211 22 0.06
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.23
Consensus pattern (204 bp):
ATAAGATACAGAGAAGTGTCAAAACAGAGATCTGGATCTTCCTGAGAGACACAGAGAAGCAGAAA
AAAACAATGAAACCAAAACTCGATGTGAGCGAATCTTCGAACCCCAGCTTCCTGATGAGATACTG
AGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACAAAATAA
GTATTTTTA
Found at i:462485 original size:370 final size:370
Alignment explanation
Indices: 461860--462526 Score: 969
Period size: 370 Copynumber: 1.8 Consensus size: 370
461850 AAAGTGAGTA
* *
461860 AATCTTCGAACCCTAGCTTACTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAGCGGTTACC
1 AATCTTCGAACCCCAGCTTACTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAACGGTTACC
* * *
461925 TTTCTGATGAGATACAGAGAAGTGAACCAGATCCGTATTCCTGATGAGACACAAAGAAGTAGATC
66 TTTCTGATGAGATACAGAGAAGTGAACCAAATCCGTATTCCTAATAAGACACAAAGAAGTAGATC
* * * *
461990 AAAACAAGTGATGTGGCCATCTTCCTGATGAGATATTGAGAAGTAGACCAACTCAATGAAACCAA
131 AAAACAAGAGATGTGGCCATCTTCCTGATGAGATACTGAGAAGCAGACCAAATCAATGAAACCAA
* *
462055 ACTCAAAGTGAGCAAATCTTCAAACCCCAGTTTCCTAATGAGATACTGAAAAGTAGGTCGAAGCA
196 ACTCAAAGTGAGCAAATCTTCAAACCCCAGCTTCCTAATGAGATACTGAAAAGCAGGTCGAAGCA
*
462120 ATAAAGCT-ATTACCTTCCTGATAAGATACAGAGAAGTTAATAAAATCTGTCTTCCTGGAGACAC
261 ATAAA-ATGATTACCTTCCTGATAAGATACAGAGAAGTTAATAAAATCTGTCTTCCTGGAGACAC
462184 AGAGAAGTGGATAAAAAACAAGTGAAGCCAAAACTCGATGTGAGCG
325 AGAGAAGTGGATAAAAAACAAGTGAAGCCAAAACTCGATGTGAGCG
* * * *
462230 AATCTTCGAACCCCAGCTTCCTGATGAGATATTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGC
1 AATCTTCGAACCCCAGCTTACTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAACGGTTACC
* * * ** * * *
462295 TTTCTGATGAGATACTGAGAAGTGGACCAAATCCGTCTTTTTAATAAGATACAGAGAAGTGGATC
66 TTTCTGATGAGATACAGAGAAGTGAACCAAATCCGTATTCCTAATAAGACACAAAGAAGTAGATC
* *
462360 AAAAC-AGAGATGTGGTCATCTTCTTGATGAGATACTGAGAAGCAGACCAAATCAATGAAACCAA
131 AAAACAAGAGATGTGGCCATCTTCCTGATGAGATACTGAGAAGCAGACCAAATCAATGAAACCAA
* * * ** * *
462424 AGCTCGATGTGAGCGAATCTTTGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGC
196 A-CTCAAAGTGAGCAAATCTTCAAACCCCAGCTTCCTAATGAGATACTGAAAAGCAGGTCGAAGC
* * * *
462489 AATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGT
260 AATAAAATGATTACCTTCCTGATAAGATACAGAGAAGT
462527 GGACCAAATT
Statistics
Matches: 258, Mismatches: 37, Indels: 4
0.86 0.12 0.01
Matches are distributed among these distances:
369 55 0.21
370 203 0.79
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.23
Consensus pattern (370 bp):
AATCTTCGAACCCCAGCTTACTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAACGGTTACC
TTTCTGATGAGATACAGAGAAGTGAACCAAATCCGTATTCCTAATAAGACACAAAGAAGTAGATC
AAAACAAGAGATGTGGCCATCTTCCTGATGAGATACTGAGAAGCAGACCAAATCAATGAAACCAA
ACTCAAAGTGAGCAAATCTTCAAACCCCAGCTTCCTAATGAGATACTGAAAAGCAGGTCGAAGCA
ATAAAATGATTACCTTCCTGATAAGATACAGAGAAGTTAATAAAATCTGTCTTCCTGGAGACACA
GAGAAGTGGATAAAAAACAAGTGAAGCCAAAACTCGATGTGAGCG
Found at i:462688 original size:210 final size:209
Alignment explanation
Indices: 462206--462746 Score: 755
Period size: 209 Copynumber: 2.6 Consensus size: 209
462196 AAAAAACAAG
* * * * * *
462206 TGAAGCCAAAACTCGATGTGAGCGAATCTTCGAACCCCAGCTTCCTGATGAGATATTGAGAAGCA
1 TGAAACCAAAGCTCAATGTGAGAGAATCTTTGAACCCCAGCTTCCTGATGAGATACTGAGAAGCA
* *
462271 GGTCGAAGCAATAAAATGGTTAGCTTTCTGATGAGATACTGAGAAGTGGACCAAATCCGTCTTTT
66 GGTCGAAGCAATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATCCGTCTTCT
* ** * *
462336 TAATAAGATACAGAGAAGTGGATCAAAACAGAGATGTGGTCATCTTCTTGATGAGATACTGAGAA
131 TAATAAGACACAGAGAAGTGGATCAAAACAGAGATGCAGTCATCTTCCTGATGAGATACTAAGAA
462401 GCAGACCAAATCAA
196 GCAGACCAAATCAA
* *
462415 TGAAACCAAAGCTCGATGTGAGCGAATCTTTGAACCCCAGCTTCCTGATGAGATACTGAGAAGCA
1 TGAAACCAAAGCTCAATGTGAGAGAATCTTTGAACCCCAGCTTCCTGATGAGATACTGAGAAGCA
*
462480 GGTCGAAGCAATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCT
66 GGTCGAAGCAATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATCCGTCTTCT
* * * * *
462545 TGATGAGACATAGAGAATTGGATCAAAACAAGTGATGCAGTCATCTTCCTGATGAGATACTAAGA
131 TAATAAGACACAGAGAAGTGGATCAAAAC-AGAGATGCAGTCATCTTCCTGATGAGATACTAAGA
*
462610 AGTAGACCAAATCAAA
195 AGCAGACCAAATC-AA
* * * *
462626 TG-AGCCGAAGCTTAATGTGAGAAGAA-CTTTGAACCCCAGCTTCCTGATGAGGTACTGAGAAGC
1 TGAAACCAAAGCTCAATGTGAG-AGAATCTTTGAACCCCAGCTTCCTGATGAGATACTGAGAAGC
* * * *
462689 AGGTCGGAGCAATAAAATGGTT-GCCTTCTTGATAAGATACTGAGAAGTAGACCAAATC
65 AGGTCGAAGCAATAAAATGGTTAG-CTTCCTGATGAGATACTGAGAAGTGGACCAAATC
462747 AATGAAACTA
Statistics
Matches: 299, Mismatches: 29, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
209 148 0.49
210 144 0.48
211 7 0.02
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.24
Consensus pattern (209 bp):
TGAAACCAAAGCTCAATGTGAGAGAATCTTTGAACCCCAGCTTCCTGATGAGATACTGAGAAGCA
GGTCGAAGCAATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATCCGTCTTCT
TAATAAGACACAGAGAAGTGGATCAAAACAGAGATGCAGTCATCTTCCTGATGAGATACTAAGAA
GCAGACCAAATCAA
Found at i:462797 original size:123 final size:124
Alignment explanation
Indices: 462589--462859 Score: 323
Period size: 123 Copynumber: 2.2 Consensus size: 124
462579 ATGCAGTCAT
* * ** * *
462589 CTTCCTGATGAGATACTAAGAAGTAGACCAAATCAAATGAGCCGAAGCTTAATGTGAGAAGAACT
1 CTTCTTGATGAGATACTGAGAAGTAGACCAAATCAAATGAAACGAAGCTCAAAGTGAGAAGAACT
* * * * * *
462654 TTGAACCCCAGCTTCCTGATGAGGTACTGAGAAGCAGGTCGGAGCAATAAAATGGTTGC
66 TTCAACCCCAGCTTCCTGATGAGATACTAAGAAGCAGGTCGAAGCAATAAAACGGTTAC
* * * *
462713 CTTCTTGATAAGATACTGAGAAGTAGACCAAATC-AATGAAACTAGGCTCAAAGTGAGCA-AA-T
1 CTTCTTGATGAGATACTGAGAAGTAGACCAAATCAAATGAAACGAAGCTCAAAGTGAGAAGAACT
* * *
462775 CTTCAAGCCCCAGCTTTCTGATGAGATACTAAGAAGCAGGTCGAAGTAATAAAGCGGTTAC
66 -TTCAA-CCCCAGCTTCCTGATGAGATACTAAGAAGCAGGTCGAAGCAATAAAACGGTTAC
*
462836 CTTCTTGATGAGATACAGAGAAGT
1 CTTCTTGATGAGATACTGAGAAGT
462860 GAACCAGACG
Statistics
Matches: 124, Mismatches: 21, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
121 1 0.01
122 6 0.05
123 86 0.69
124 31 0.25
ACGTcount: A:0.36, C:0.18, G:0.23, T:0.23
Consensus pattern (124 bp):
CTTCTTGATGAGATACTGAGAAGTAGACCAAATCAAATGAAACGAAGCTCAAAGTGAGAAGAACT
TTCAACCCCAGCTTCCTGATGAGATACTAAGAAGCAGGTCGAAGCAATAAAACGGTTAC
Found at i:463310 original size:17 final size:17
Alignment explanation
Indices: 463268--463352 Score: 93
Period size: 17 Copynumber: 5.1 Consensus size: 17
463258 GGAACCCGAT
*
463268 TTTAAA-TTA-TTTAAG
1 TTTAAACTTATTTTAAA
* *
463283 TTTGAATTTATTTTAAA
1 TTTAAACTTATTTTAAA
* *
463300 TTTAAACTTATTTTGAG
1 TTTAAACTTATTTTAAA
* *
463317 TTTCAATTTATTTTAAA
1 TTTAAACTTATTTTAAA
463334 TTTAAACTTATTTTAAA
1 TTTAAACTTATTTTAAA
463351 TT
1 TT
463353 AAATTCAAAA
Statistics
Matches: 56, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
15 5 0.09
16 3 0.05
17 48 0.86
ACGTcount: A:0.35, C:0.04, G:0.05, T:0.56
Consensus pattern (17 bp):
TTTAAACTTATTTTAAA
Found at i:463325 original size:34 final size:34
Alignment explanation
Indices: 463268--463349 Score: 132
Period size: 34 Copynumber: 2.5 Consensus size: 34
463258 GGAACCCGAT
*
463268 TTTAAA-TTA-TTTAAGTTTGAATTTATTTTAAA
1 TTTAAACTTATTTTAAGTTTCAATTTATTTTAAA
*
463300 TTTAAACTTATTTTGAGTTTCAATTTATTTTAAA
1 TTTAAACTTATTTTAAGTTTCAATTTATTTTAAA
463334 TTTAAACTTATTTTAA
1 TTTAAACTTATTTTAA
463350 ATTAAATTCA
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
32 6 0.13
33 3 0.07
34 36 0.80
ACGTcount: A:0.35, C:0.04, G:0.05, T:0.56
Consensus pattern (34 bp):
TTTAAACTTATTTTAAGTTTCAATTTATTTTAAA
Found at i:463404 original size:19 final size:20
Alignment explanation
Indices: 463369--463416 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 20
463359 AAAAATTTAA
*
463369 AAGTCCAAAATTACAATTTC
1 AAGTCCAAAATTACAATTCC
463389 AAGTCCAAAA-TACAATTCC
1 AAGTCCAAAATTACAATTCC
*
463408 AAGCCCAAA
1 AAGTCCAAA
463417 CAAACCAAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.48, C:0.25, G:0.06, T:0.21
Consensus pattern (20 bp):
AAGTCCAAAATTACAATTCC
Found at i:464721 original size:29 final size:29
Alignment explanation
Indices: 464682--465225 Score: 309
Period size: 29 Copynumber: 18.6 Consensus size: 29
464672 GAACTTTATG
*
464682 AAAATTA-ATTTTGA-CCTTAAACTTTCCA
1 AAAATTACATTTTGACCCCTAAAC-TTCCA
*
464710 AAAATTACATTTTAACCCC-AAACTTTCC-
1 AAAATTACATTTTGACCCCTAAAC-TTCCA
* *
464738 --AATTATATTTTGACCCCCTAAACTTTTCA
1 AAAATTACATTTTGA-CCCCTAAAC-TTCCA
**
464767 AAAATTACATTTTGA-CCCTCAAACTTTTTA
1 AAAATTACATTTTGACCCCT-AAAC-TTCCA
* *
464797 AAAATTACATTTT-AACCCTCGAACTTTCC-
1 AAAATTACATTTTGACCCCT-AAAC-TTCCA
* * * * ***
464826 AATATTATATTTTAATCCAC-AAACTTTTT
1 AAAATTACATTTTGA-CCCCTAAACTTCCA
* *
464855 AAAATTACATTTTTAACCCTTAAACTTCTCA
1 AAAATTACA-TTTTGACCCCTAAACTTC-CA
* * *
464886 GAAATTACATTTTTTACCCCCAAACTTCCA
1 AAAATTACA-TTTTGACCCCTAAACTTCCA
* * * *
464916 AAAATCATATTTTAACCCCTAAACTTATCA
1 AAAATTACATTTTGACCCCTAAACTT-CCA
* * *
464946 AAAATTACATTTTTACCCCTAAACAT-CT
1 AAAATTACATTTTGACCCCTAAACTTCCA
* *
464974 AAAATTACCATTTT-A-CCATAAACTTTTCA
1 AAAATTA-CATTTTGACCCCTAAAC-TTCCA
* ** * *
465003 AAAATCACATTTTTTCCCTTGAACTTCCA
1 AAAATTACATTTTGACCCCTAAACTTCCA
* **
465032 AACATTACCATTTT-ACCCCCGAACTTCCA
1 AAAATTA-CATTTTGACCCCTAAACTTCCA
* *
465061 AAAA-TATCATTTTCGA-CCTTGAACTTTCCA
1 AAAATTA-CATTTT-GACCCCTAAAC-TTCCA
* * * *
465091 AAAATCACATTTTTATCCCTAAACTTCTA
1 AAAATTACATTTTGACCCCTAAACTTCCA
**
465120 AAAATTATCATTTT-ACCCCCGAACTTCCA
1 AAAATTA-CATTTTGACCCCTAAACTTCCA
465149 AAAA-TATCATTTTCGACCCC-AAACTTCCA
1 AAAATTA-CATTTT-GACCCCTAAACTTCCA
*
465178 AAAATCACATTTTTG-CCCCTAAACTTCCA
1 AAAATTACA-TTTTGACCCCTAAACTTCCA
*
465207 AAAATTACCATTTTCACCC
1 AAAATTA-CATTTTGACCC
465226 TCGAGTGTTC
Statistics
Matches: 411, Mismatches: 70, Indels: 68
0.75 0.13 0.12
Matches are distributed among these distances:
26 11 0.03
27 11 0.03
28 54 0.13
29 161 0.39
30 135 0.33
31 39 0.09
ACGTcount: A:0.36, C:0.26, G:0.02, T:0.36
Consensus pattern (29 bp):
AAAATTACATTTTGACCCCTAAACTTCCA
Found at i:464881 original size:59 final size:58
Alignment explanation
Indices: 464696--464958 Score: 196
Period size: 60 Copynumber: 4.4 Consensus size: 58
464686 TTAATTTTGA
* ** * * *
464696 CCTTAAACTTTCCAAAAATTACATTTTAACCCCAAAC--TTTCCAATTATATTTTGACC
1 CCTTAAACTTTCC-AAAATTACATTTTAACCACAAACTTTTTAAAATTACATTTTTAAC
* * * *
464753 CCCTAAACTTTTCAAAAATTACATTTTGACCCTCAAACTTTTTAAAAATTACA-TTTTAAC
1 CCTTAAAC-TTTCCAAAATTACATTTT-AACCACAAACTTTTT-AAAATTACATTTTTAAC
** * *
464813 CCTCGAACTTTCCAATATTATATTTTAATCCACAAACTTTTTAAAATTACATTTTTAAC
1 CCTTAAACTTTCCAAAATTACATTTTAA-CCACAAACTTTTTAAAATTACATTTTTAAC
* * ** *
464872 CCTTAAAC-TTCTCAGAAATTACATTTTTTACCCCCAAAC-TTCCAAAAAT-CATATTTTAAC
1 CCTTAAACTTTC-CA-AAATTACA--TTTTAACCACAAACTTTTTAAAATTACAT-TTTTAAC
* *
464932 CCCTAAACTTATCAAAAATTACATTTT
1 CCTTAAACTT-TCCAAAATTACATTTT
464959 TACCCCTAAA
Statistics
Matches: 164, Mismatches: 28, Indels: 27
0.75 0.13 0.12
Matches are distributed among these distances:
57 20 0.12
58 29 0.18
59 45 0.27
60 48 0.29
61 15 0.09
62 7 0.04
ACGTcount: A:0.37, C:0.24, G:0.02, T:0.38
Consensus pattern (58 bp):
CCTTAAACTTTCCAAAATTACATTTTAACCACAAACTTTTTAAAATTACATTTTTAAC
Found at i:465013 original size:57 final size:58
Alignment explanation
Indices: 464875--465048 Score: 163
Period size: 57 Copynumber: 3.0 Consensus size: 58
464865 TTTTAACCCT
* * * * * * * * *
464875 TAAACTTCTCAGAAATTACATTTTTTACCCCCAAACTTCCAAAAATCA-TATTTTAACCCC
1 TAAACTTATCAAAAATCACA-TTTTTACCCCTAAACATCCAAACATTACCATTTT-A-CCA
* *
464935 TAAACTTATCAAAAATTACATTTTTACCCCTAAACATCTAAA-ATTACCATTTTACCA
1 TAAACTTATCAAAAATCACATTTTTACCCCTAAACATCCAAACATTACCATTTTACCA
* * * * *
464992 TAAACTTTTCAAAAATCACATTTTTTCCCTTGAACTTCCAAACATTACCATTTTACC
1 TAAACTTATCAAAAATCACATTTTTACCCCTAAACATCCAAACATTACCATTTTACC
465049 CCCGAACTTC
Statistics
Matches: 97, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
57 37 0.38
58 18 0.19
59 24 0.25
60 18 0.19
ACGTcount: A:0.37, C:0.26, G:0.01, T:0.36
Consensus pattern (58 bp):
TAAACTTATCAAAAATCACATTTTTACCCCTAAACATCCAAACATTACCATTTTACCA
Found at i:465241 original size:88 final size:88
Alignment explanation
Indices: 464903--465225 Score: 377
Period size: 88 Copynumber: 3.7 Consensus size: 88
464893 CATTTTTTAC
* * * *
464903 CCCCAAAC-TTCCAAAAATCATATTTTAACCCCTAAACTTATCAAAAATTA-CATTTTTACCCCT
1 CCCCAAACTTTCCAAAAATCACATTTTTACCCCTAAACTT-CCAAAAATTACCA-TTTTACCCCC
* * * * *
464966 AAACATCTAAAATTACCATTTT--A
64 GAACTTCCAAAAATATCATTTTCGA
** * * * * *
464989 CCATAAACTTTTCAAAAATCACATTTTTTCCCTTGAACTTCCAAACATTACCATTTTACCCCCGA
1 CCCCAAACTTTCCAAAAATCACATTTTTACCCCTAAACTTCCAAAAATTACCATTTTACCCCCGA
465054 ACTTCCAAAAATATCATTTTCGA
66 ACTTCCAAAAATATCATTTTCGA
*** * * *
465077 CCTTGAACTTTCCAAAAATCACATTTTTATCCCTAAACTTCTAAAAATTATCATTTTACCCCCGA
1 CCCCAAACTTTCCAAAAATCACATTTTTACCCCTAAACTTCCAAAAATTACCATTTTACCCCCGA
465142 ACTTCCAAAAATATCATTTTCGA
66 ACTTCCAAAAATATCATTTTCGA
*
465165 CCCCAAAC-TTCCAAAAATCACATTTTTGCCCCTAAACTTCCAAAAATTACCATTTTCACCC
1 CCCCAAACTTTCCAAAAATCACATTTTTACCCCTAAACTTCCAAAAATTACCATTTT-ACCC
465226 TCGAGTGTTC
Statistics
Matches: 199, Mismatches: 33, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
86 40 0.20
87 71 0.36
88 88 0.44
ACGTcount: A:0.36, C:0.29, G:0.02, T:0.33
Consensus pattern (88 bp):
CCCCAAACTTTCCAAAAATCACATTTTTACCCCTAAACTTCCAAAAATTACCATTTTACCCCCGA
ACTTCCAAAAATATCATTTTCGA
Found at i:465277 original size:28 final size:27
Alignment explanation
Indices: 465236--465339 Score: 93
Period size: 28 Copynumber: 3.7 Consensus size: 27
465226 TCGAGTGTTC
*
465236 AAAAATTACTATTTTACCCTCGAAATCT
1 AAAAATTACCATTTTACCC-CGAAATCT
* * **
465264 AAAAATTATCATTTTCACCCCTAGTGTCT
1 AAAAATTACCATTTT-ACCCCGA-AATCT
* *
465293 -AAAATTACCGTTTTACCCCCAAACCTCT
1 AAAAATTACCATTTTACCCCGAAA--TCT
465321 AAAAATTACCATTTTACCC
1 AAAAATTACCATTTTACCC
465340 TCGAGCATCC
Statistics
Matches: 60, Mismatches: 11, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
27 6 0.10
28 30 0.50
29 24 0.40
ACGTcount: A:0.36, C:0.27, G:0.04, T:0.34
Consensus pattern (27 bp):
AAAAATTACCATTTTACCCCGAAATCT
Found at i:465293 original size:29 final size:28
Alignment explanation
Indices: 465206--465300 Score: 72
Period size: 28 Copynumber: 3.3 Consensus size: 28
465196 CTAAACTTCC
*
465206 AAAAATTACCATTTTCACCCTCGAGTGT-T
1 AAAAATTA-CATTTTCACCC-CTAGTGTCT
* **
465235 CAAAAATTACTATTTT-A-CCCTCGAAATCT
1 -AAAAATTAC-ATTTTCACCCCTAG-TGTCT
465264 AAAAATTATCATTTTCACCCCTAGTGTCT
1 AAAAATTA-CATTTTCACCCCTAGTGTCT
465293 -AAAATTAC
1 AAAAATTAC
465301 CGTTTTACCC
Statistics
Matches: 52, Mismatches: 7, Indels: 15
0.70 0.09 0.20
Matches are distributed among these distances:
27 3 0.06
28 23 0.44
29 8 0.15
30 18 0.35
ACGTcount: A:0.36, C:0.23, G:0.06, T:0.35
Consensus pattern (28 bp):
AAAAATTACATTTTCACCCCTAGTGTCT
Found at i:465335 original size:29 final size:29
Alignment explanation
Indices: 464700--465339 Score: 209
Period size: 29 Copynumber: 21.9 Consensus size: 29
464690 TTTTGACCTT
* *
464700 AAACTTTCCAAAAATTA-CATTTTAACCCC
1 AAAC-TTCTAAAAATTACCATTTTACCCCC
** *
464729 AAACTT-T-CCAATTA-TATTTTGACCCCC
1 AAACTTCTAAAAATTACCATTTT-ACCCCC
* *
464756 TAAACTTTTCAAAAATTA-CATTTTGACCCTC
1 -AAACTTCT-AAAAATTACCATTTT-ACCCCC
* *
464787 AAACTTTTTAAAAATTA-CATTTTAACCCTC
1 AAAC-TTCTAAAAATTACCATTTT-ACCCCC
* * * * * *
464817 GAACTT-TCCAATATTA-TATTTTAATCCAC
1 AAACTTCT-AAAAATTACCATTTT-ACCCCC
* * **
464846 AAACTTTTTAAAATTA-CATTTTTAACCCTT
1 AAACTTCTAAAAATTACCA-TTTT-ACCCCC
*
464876 AAACTTCTCAGAAATTA-CATTTTTTACCCCC
1 AAACTTCT-AAAAATTACCA--TTTTACCCCC
* * * *
464907 AAACTTCCAAAAATCA-TATTTTAACCCCT
1 AAACTTCTAAAAATTACCATTTT-ACCCCC
* *
464936 AAACTTATCAAAAATTA-CATTTTTACCCCT
1 AAACTTCT-AAAAATTACCA-TTTTACCCCC
* **
464966 AAACATCT-AAAATTACCATTTTA-CCAT
1 AAACTTCTAAAAATTACCATTTTACCCCC
* * * **
464993 AAACTTTTCAAAAATCA-CATTTTTTCCCTT
1 AAACTTCT-AAAAATTACCA-TTTTACCCCC
* * *
465023 GAACTTCCAAACATTACCATTTTACCCCC
1 AAACTTCTAAAAATTACCATTTTACCCCC
* * * **
465052 GAACTTCCAAAAA-TATCATTTT-CGACCTT
1 AAACTTCTAAAAATTACCATTTTAC--CCCC
* * * * *
465081 GAACTTTCCAAAAATCA-CATTTTTATCCCT
1 AAAC-TTCTAAAAATTACCA-TTTTACCCCC
*
465111 AAACTTCTAAAAATTATCATTTTACCCCC
1 AAACTTCTAAAAATTACCATTTTACCCCC
* * *
465140 GAACTTCCAAAAA-TATCATTTT-CGACCCC
1 AAACTTCTAAAAATTACCATTTTAC--CCCC
* * * *
465169 AAACTTCCAAAAATCA-CATTTTTGCCCCT
1 AAACTTCTAAAAATTACCA-TTTTACCCCC
* *
465198 AAACTTCCAAAAATTACCATTTTCACCCTCG
1 AAACTTCTAAAAATTACCATTTT-ACCC-CC
*** * *
465229 AGTGTTC-AAAAATTACTATTTTACCCTCG
1 AAACTTCTAAAAATTACCATTTTACCC-CC
*
465258 AAA--TCTAAAAATTATCATTTT-CACCCC
1 AAACTTCTAAAAATTACCATTTTAC-CCCC
* * *
465285 -TAGTGTCT-AAAATTACCGTTTTACCCCC
1 AAACT-TCTAAAAATTACCATTTTACCCCC
*
465313 AAACCTCTAAAAATTACCATTTTACCC
1 AAACTTCTAAAAATTACCATTTTACCC
465340 TCGAGCATCC
Statistics
Matches: 479, Mismatches: 89, Indels: 86
0.73 0.14 0.13
Matches are distributed among these distances:
26 11 0.02
27 20 0.04
28 78 0.16
29 188 0.39
30 123 0.26
31 54 0.11
32 5 0.01
ACGTcount: A:0.36, C:0.26, G:0.03, T:0.35
Consensus pattern (29 bp):
AAACTTCTAAAAATTACCATTTTACCCCC
Found at i:465353 original size:29 final size:29
Alignment explanation
Indices: 465203--465355 Score: 114
Period size: 29 Copynumber: 5.3 Consensus size: 29
465193 CCCCTAAACT
**
465203 TCCAAAAATTACCATTTTCACCCTCGAGTG
1 TCCAAAAATTACCATTTT-ACCCTCGAGCA
* * *
465233 TTCAAAAATTACTATTTTACCCTCGA-AA
1 TCCAAAAATTACCATTTTACCCTCGAGCA
* * * **
465261 TCTAAAAATTATCATTTTCACCC-CTAGTG
1 TCCAAAAATTACCATTTT-ACCCTCGAGCA
* * * * * *
465290 T-CTAAAATTACCGTTTTACCCCCAAACC
1 TCCAAAAATTACCATTTTACCCTCGAGCA
*
465318 TCTAAAAATTACCATTTTACCCTCGAGCA
1 TCCAAAAATTACCATTTTACCCTCGAGCA
465347 TCCAAAAAT
1 TCCAAAAAT
465356 CGTATTTTTG
Statistics
Matches: 92, Mismatches: 27, Indels: 9
0.72 0.21 0.07
Matches are distributed among these distances:
27 4 0.04
28 31 0.34
29 41 0.45
30 16 0.17
ACGTcount: A:0.35, C:0.27, G:0.06, T:0.32
Consensus pattern (29 bp):
TCCAAAAATTACCATTTTACCCTCGAGCA
Found at i:465511 original size:16 final size:16
Alignment explanation
Indices: 465486--465533 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
465476 TCTACTTAAC
*
465486 TATTTTATCTTCATGT
1 TATTTAATCTTCATGT
465502 TATTTAATCTT--TGT
1 TATTTAATCTTCATGT
465516 TA-TTAATCATTCAT-T
1 TATTTAATC-TTCATGT
465531 TAT
1 TAT
465534 GCTTAATTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 8
0.75 0.03 0.22
Matches are distributed among these distances:
13 6 0.22
14 7 0.26
15 3 0.11
16 11 0.41
ACGTcount: A:0.25, C:0.10, G:0.04, T:0.60
Consensus pattern (16 bp):
TATTTAATCTTCATGT
Found at i:471729 original size:27 final size:27
Alignment explanation
Indices: 471699--471792 Score: 127
Period size: 27 Copynumber: 3.4 Consensus size: 27
471689 AATCTTATTT
*
471699 TGGCTCGAAAGAGTGTTATTTTGATTC
1 TGGCTCGAAAGAGAGTTATTTTGATTC
471726 TGGCTCGAAAGAGAGTTATTTTGATTC
1 TGGCTCGAAAGAGAGTTATTTTGATTC
* *
471753 TGGCTCGAAATAGCA-TTATTCTGATTC
1 TGGCTCGAAAGAG-AGTTATTTTGATTC
*
471780 TAGGCTCGTAAGA
1 T-GGCTCGAAAGA
471793 ACTAACCATT
Statistics
Matches: 60, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
27 50 0.83
28 10 0.17
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.36
Consensus pattern (27 bp):
TGGCTCGAAAGAGAGTTATTTTGATTC
Found at i:471845 original size:24 final size:24
Alignment explanation
Indices: 471776--471836 Score: 95
Period size: 24 Copynumber: 2.5 Consensus size: 24
471766 CATTATTCTG
*
471776 ATTCTAGGCTCGTAAGAACTAACC
1 ATTCTAGGCTCGTAAGAGCTAACC
*
471800 ATTCTGGGCTCGTAAGAGCTAACC
1 ATTCTAGGCTCGTAAGAGCTAACC
*
471824 ATTTTAGGCTCGT
1 ATTCTAGGCTCGT
471837 GTGGGCTAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (24 bp):
ATTCTAGGCTCGTAAGAGCTAACC
Found at i:473655 original size:12 final size:12
Alignment explanation
Indices: 473621--473657 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
473611 TTTTTGTGGG
* *
473621 TTTTTCTTTTCT
1 TTTTTGTTTTTT
473633 TTTTTGTTTTTT
1 TTTTTGTTTTTT
473645 TTTTTGTTTTTT
1 TTTTTGTTTTTT
473657 T
1 T
473658 ACCTGATTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.00, C:0.05, G:0.05, T:0.89
Consensus pattern (12 bp):
TTTTTGTTTTTT
Found at i:475722 original size:34 final size:34
Alignment explanation
Indices: 475684--475753 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
475674 GGTGCGTTAA
*
475684 ACATACAAATTCAACTTGTTATCAAATCTCCCTT
1 ACATACAAATTCAACTTGTTATCAAATCCCCCTT
475718 ACATACAAATTCAACTTGTTATCAAATCCCCCTT
1 ACATACAAATTCAACTTGTTATCAAATCCCCCTT
475752 AC
1 AC
475754 TTAGCTAGTG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.36, C:0.29, G:0.03, T:0.33
Consensus pattern (34 bp):
ACATACAAATTCAACTTGTTATCAAATCCCCCTT
Found at i:475743 original size:17 final size:17
Alignment explanation
Indices: 475689--475744 Score: 53
Period size: 17 Copynumber: 3.3 Consensus size: 17
475679 GTTAAACATA
475689 CAAATTCAACTTGTTAT
1 CAAATTCAACTTGTTAT
* **
475706 CAAATCTC-CCTT-ACAT
1 CAAAT-TCAACTTGTTAT
475722 ACAAATTCAACTTGTTAT
1 -CAAATTCAACTTGTTAT
475740 CAAAT
1 CAAAT
475745 CCCCCTTACT
Statistics
Matches: 29, Mismatches: 6, Indels: 8
0.67 0.14 0.19
Matches are distributed among these distances:
16 4 0.14
17 21 0.72
18 4 0.14
ACGTcount: A:0.38, C:0.23, G:0.04, T:0.36
Consensus pattern (17 bp):
CAAATTCAACTTGTTAT
Found at i:481983 original size:10 final size:10
Alignment explanation
Indices: 481968--481998 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
481958 AGTTTTTAAA
481968 TGAATTCAAC
1 TGAATTCAAC
481978 TGAATTCAAC
1 TGAATTCAAC
481988 TGAATTCAAC
1 TGAATTCAAC
481998 T
1 T
481999 TAACAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (10 bp):
TGAATTCAAC
Found at i:482248 original size:52 final size:51
Alignment explanation
Indices: 482160--482387 Score: 262
Period size: 52 Copynumber: 4.4 Consensus size: 51
482150 ATTTCACTTC
* * * * *
482160 ATTCATATACTCACGATGACACATAGCCATTGGACC-TTATAATCCGCAAAGG
1 ATTCATATACTCACAATGACACTTAGTCA-TCGACCGTT-TAATCCGTAAAGG
* * * **
482212 ATTCGTGTACTCATAATGACACAGAGTCATCAGACC-TCTTAATCCGTAAAGG
1 ATTCATATACTCACAATGACACTTAGTCATC-GACCGT-TTAATCCGTAAAGG
* *
482264 ATACATATACTCACGATGACACTTAGTCATCGGACCGTTTAATCCGTAAAGG
1 ATTCATATACTCACAATGACACTTAGTCATC-GACCGTTTAATCCGTAAAGG
*
482316 ATTCATATACTCACAATGACACTTAGTGATCGAACCGTTTAATCCGTAAAGG
1 ATTCATATACTCACAATGACACTTAGTCATCG-ACCGTTTAATCCGTAAAGG
*
482368 ATTCATATACTCACGATGAC
1 ATTCATATACTCACAATGAC
482388 TCATAATATC
Statistics
Matches: 152, Mismatches: 20, Indels: 8
0.84 0.11 0.04
Matches are distributed among these distances:
51 2 0.01
52 148 0.97
53 2 0.01
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (51 bp):
ATTCATATACTCACAATGACACTTAGTCATCGACCGTTTAATCCGTAAAGG
Found at i:482358 original size:104 final size:104
Alignment explanation
Indices: 482163--482392 Score: 304
Period size: 104 Copynumber: 2.2 Consensus size: 104
482153 TCACTTCATT
* * * *
482163 CATATACTCACGATGACACATAGCCATTGGACCTTATAATCCGCAAAGGATTCGTGTACTCATAA
1 CATATACTCACGATGACACATAGCCATCGGACCTTATAATCCGCAAAGGATTCATATACTCACAA
482228 TGACACAGAGTCATCAGACCTCTTAATCCGTAAAGGATA
66 TGACACAGAGTCATCAGACCTCTTAATCCGTAAAGGATA
* * *
482267 CATATACTCACGATGACACTTAGTCATCGGACCGTT-TAATCCGTAAAGGATTCATATACTCACA
1 CATATACTCACGATGACACATAGCCATCGGACC-TTATAATCCGCAAAGGATTCATATACTCACA
** * *
482331 ATGACACTTAGTGATC-GAACCGT-TTAATCCGTAAAGGATT
65 ATGACACAGAGTCATCAG-ACC-TCTTAATCCGTAAAGGATA
*
482371 CATATACTCACGATGACTCATA
1 CATATACTCACGATGACACATA
482393 ATATCGAACC
Statistics
Matches: 110, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
103 1 0.01
104 106 0.96
105 3 0.03
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (104 bp):
CATATACTCACGATGACACATAGCCATCGGACCTTATAATCCGCAAAGGATTCATATACTCACAA
TGACACAGAGTCATCAGACCTCTTAATCCGTAAAGGATA
Found at i:491094 original size:7 final size:7
Alignment explanation
Indices: 491084--491153 Score: 54
Period size: 7 Copynumber: 9.9 Consensus size: 7
491074 GATTCGTTAT
*
491084 TTTAATG
1 TTTAAGG
*
491091 TTTAGGG
1 TTTAAGG
491098 TTT-AGG
1 TTTAAGG
491104 TTTAAGG
1 TTTAAGG
491111 TTTAAGTG
1 TTTAAG-G
491119 TTT-AGG
1 TTTAAGG
* *
491125 GTTATGGG
1 TTTA-AGG
491133 TTATAAGG
1 TT-TAAGG
*
491141 TTTAGGG
1 TTTAAGG
491148 TTTAAG
1 TTTAAG
491154 AATTTGGGGT
Statistics
Matches: 49, Mismatches: 9, Indels: 10
0.72 0.13 0.15
Matches are distributed among these distances:
6 8 0.16
7 28 0.57
8 11 0.22
9 2 0.04
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.46
Consensus pattern (7 bp):
TTTAAGG
Found at i:491101 original size:14 final size:14
Alignment explanation
Indices: 491084--491127 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
491074 GATTCGTTAT
491084 TTTAATGTTTAGGG
1 TTTAATGTTTAGGG
* *
491098 TTT-AGGTTTAAGG
1 TTTAATGTTTAGGG
491111 TTTAAGTGTTTAGGG
1 TTTAA-TGTTTAGGG
491126 TT
1 TT
491128 ATGGGTTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
13 11 0.46
14 4 0.17
15 9 0.38
ACGTcount: A:0.20, C:0.00, G:0.30, T:0.50
Consensus pattern (14 bp):
TTTAATGTTTAGGG
Found at i:491120 original size:28 final size:29
Alignment explanation
Indices: 491084--491144 Score: 90
Period size: 28 Copynumber: 2.1 Consensus size: 29
491074 GATTCGTTAT
491084 TTTAATGTTTAGGGTT-TAGGTT-TAAGG
1 TTTAATGTTTAGGGTTATAGGTTATAAGG
*
491111 TTTAAGTGTTTAGGGTTATGGGTTATAAGG
1 TTTAA-TGTTTAGGGTTATAGGTTATAAGG
491141 TTTA
1 TTTA
491145 GGGTTTAAGA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 5 0.17
28 11 0.37
29 5 0.17
30 9 0.30
ACGTcount: A:0.23, C:0.00, G:0.30, T:0.48
Consensus pattern (29 bp):
TTTAATGTTTAGGGTTATAGGTTATAAGG
Found at i:491148 original size:15 final size:14
Alignment explanation
Indices: 491090--491171 Score: 69
Period size: 15 Copynumber: 5.7 Consensus size: 14
491080 TTATTTTAAT
*
491090 GTTTAGGGTTTA-G
1 GTTTAAGGTTTAGG
*
491103 GTTTAAGGTTTAAGT
1 GTTTAAGGTTT-AGG
*
491118 GTTT-AGGGTTATGG
1 GTTTAAGGTTTA-GG
491132 GTTATAAGGTTTAGG
1 GTT-TAAGGTTTAGG
* *
491147 GTTTAAGAATTTGGG
1 GTTTAAG-GTTTAGG
491162 GTTTAAGGTT
1 GTTTAAGGTT
491172 CGGGTTCAAG
Statistics
Matches: 55, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
13 11 0.20
14 16 0.29
15 22 0.40
16 6 0.11
ACGTcount: A:0.22, C:0.00, G:0.34, T:0.44
Consensus pattern (14 bp):
GTTTAAGGTTTAGG
Found at i:501348 original size:13 final size:14
Alignment explanation
Indices: 501330--501361 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
501320 ATAATATGCA
501330 TGAAAATT-AAAAC
1 TGAAAATTGAAAAC
501343 TGAAAATTGAAAAC
1 TGAAAATTGAAAAC
501357 T-AAAA
1 TGAAAA
501362 AACTCACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.62, C:0.06, G:0.09, T:0.22
Consensus pattern (14 bp):
TGAAAATTGAAAAC
Found at i:509284 original size:17 final size:17
Alignment explanation
Indices: 509264--509317 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
509254 ACTACAATGC
* *
509264 AAATGTACTAACAACTA
1 AAATGTAATGACAACTA
* * *
509281 AAATGCAGTGACAATTAA
1 AAATGTAATGACAACT-A
509299 AAATGTAATGACAACTA
1 AAATGTAATGACAACTA
509316 AA
1 AA
509318 TGCTATGCAT
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
17 15 0.52
18 14 0.48
ACGTcount: A:0.54, C:0.13, G:0.11, T:0.22
Consensus pattern (17 bp):
AAATGTAATGACAACTA
Found at i:509303 original size:18 final size:18
Alignment explanation
Indices: 509274--509317 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
509264 AAATGTACTA
*
509274 ACAACT-AAAATGCAGTG
1 ACAACTAAAAATGCAATG
* *
509291 ACAATTAAAAATGTAATG
1 ACAACTAAAAATGCAATG
509309 ACAACTAAA
1 ACAACTAAA
509318 TGCTATGCAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 5 0.23
18 17 0.77
ACGTcount: A:0.55, C:0.14, G:0.11, T:0.20
Consensus pattern (18 bp):
ACAACTAAAAATGCAATG
Found at i:511661 original size:20 final size:20
Alignment explanation
Indices: 511636--511679 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
511626 CATAAGATTT
511636 AAAAGA-AACAAGTAAAA-GTA
1 AAAAGATAA-AAG-AAAATGTA
511656 AAAAGATAAAAGAAAATGTA
1 AAAAGATAAAAGAAAATGTA
511676 AAAA
1 AAAA
511680 TGCGTTGACA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 4 0.18
20 16 0.73
21 2 0.09
ACGTcount: A:0.73, C:0.02, G:0.14, T:0.11
Consensus pattern (20 bp):
AAAAGATAAAAGAAAATGTA
Found at i:518166 original size:30 final size:31
Alignment explanation
Indices: 518130--518199 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 31
518120 AGCCTGAATG
*
518130 TATGAATCCGCTATGAT-CATGAAGT-TATTT
1 TATGAATCCGCTATG-TCCATGAAGTGTATTC
* * *
518160 TATGAATCTGGTATGTCCATGAAGTGTCTTC
1 TATGAATCCGCTATGTCCATGAAGTGTATTC
518191 TATGAATCC
1 TATGAATCC
518200 AAATGTATGA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
29 1 0.03
30 21 0.64
31 11 0.33
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.39
Consensus pattern (31 bp):
TATGAATCCGCTATGTCCATGAAGTGTATTC
Found at i:519532 original size:25 final size:26
Alignment explanation
Indices: 519495--519545 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
519485 GTTATAAATC
*
519495 AAAAAAATATCTTTAGAG-ATTTTCT
1 AAAAAAATATCTTCAGAGAATTTTCT
*
519520 AAAAAAATCTCTTCAGAGAATTTTCT
1 AAAAAAATATCTTCAGAGAATTTTCT
519546 CTCTACAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.43, C:0.12, G:0.08, T:0.37
Consensus pattern (26 bp):
AAAAAAATATCTTCAGAGAATTTTCT
Found at i:519795 original size:20 final size:18
Alignment explanation
Indices: 519748--519854 Score: 76
Period size: 19 Copynumber: 5.8 Consensus size: 18
519738 ATGAATAAAC
519748 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
519765 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
** *
519785 ATTAAATTAATAAAATACT
1 ATTAAATTAAT-ATTTAAT
* *
519804 ACTAAATAAATATTTAAT
1 ATTAAATTAATATTTAAT
* *
519822 -TTAATTTAATATTAAACT
1 ATTAAATTAATATTTAA-T
*
519840 ATTAAAATAATATTT
1 ATTAAATTAATATTT
519855 TTTTGGAATA
Statistics
Matches: 67, Mismatches: 16, Indels: 12
0.71 0.17 0.13
Matches are distributed among these distances:
17 20 0.30
18 6 0.09
19 25 0.37
20 16 0.24
ACGTcount: A:0.51, C:0.05, G:0.01, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:519852 original size:36 final size:37
Alignment explanation
Indices: 519764--519854 Score: 89
Period size: 36 Copynumber: 2.4 Consensus size: 37
519754 TTAAATTTAA
*
519764 TATTAAGATAATCACTTTAATATTAAATTAATAAAATAC
1 TATTAAAATAAT-A-TTTAATATTAAATTAATAAAATAC
* * *
519803 TACT-AAATAAATATTTAAT-TTAATTTAATATTAA-AC
1 TATTAAAAT-AATATTTAATATTAAATTAATA-AAATAC
519839 TATTAAAATAATATTT
1 TATTAAAATAATATTT
519855 TTTTGGAATA
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
36 22 0.50
37 12 0.27
38 4 0.09
39 6 0.14
ACGTcount: A:0.51, C:0.05, G:0.01, T:0.43
Consensus pattern (37 bp):
TATTAAAATAATATTTAATATTAAATTAATAAAATAC
Found at i:519954 original size:5 final size:5
Alignment explanation
Indices: 519936--519975 Score: 50
Period size: 5 Copynumber: 8.4 Consensus size: 5
519926 AAATATCATA
519936 TTAATT TTAA- TTAAT TTAA- TTAAT TT-AT TTAAT TTAAT TT
1 TTAA-T TTAAT TTAAT TTAAT TTAAT TTAAT TTAAT TTAAT TT
519976 TACTTGATCA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
4 12 0.39
5 15 0.48
6 4 0.13
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TTAAT
Found at i:519955 original size:9 final size:9
Alignment explanation
Indices: 519935--519974 Score: 62
Period size: 9 Copynumber: 4.3 Consensus size: 9
519925 AAAATATCAT
519935 ATTAATTTTA
1 ATTAA-TTTA
519945 ATTAATTTA
1 ATTAATTTA
519954 ATTAATTTA
1 ATTAATTTA
*
519963 TTTAATTTA
1 ATTAATTTA
519972 ATT
1 ATT
519975 TTACTTGATC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
9 23 0.82
10 5 0.18
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (9 bp):
ATTAATTTA
Found at i:520848 original size:34 final size:34
Alignment explanation
Indices: 520809--520878 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
520799 GACTAGTCAT
520809 CTCCCTAATTAGAATTGTAGACAACATAATAATC
1 CTCCCTAATTAGAATTGTAGACAACATAATAATC
*
520843 CTCCCTAATTGGAATTGTAGACAACATAATAATC
1 CTCCCTAATTAGAATTGTAGACAACATAATAATC
520877 CT
1 CT
520879 TCTCATTTAG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (34 bp):
CTCCCTAATTAGAATTGTAGACAACATAATAATC
Found at i:546475 original size:14 final size:13
Alignment explanation
Indices: 546457--546497 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
546447 ACAACTCTAT
546457 TAATATTTAAATA
1 TAATATTTAAATA
*
546470 TAAATATTTAATTA
1 T-AATATTTAAATA
*
546484 TTATATTTAAATA
1 TAATATTTAAATA
546497 T
1 T
546498 TTAAAATATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 12 0.50
14 12 0.50
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (13 bp):
TAATATTTAAATA
Found at i:546491 original size:13 final size:13
Alignment explanation
Indices: 546454--546498 Score: 54
Period size: 14 Copynumber: 3.3 Consensus size: 13
546444 AATACAACTC
546454 TATTAATATTTAAA
1 TATT-ATATTTAAA
* *
546468 TATAAATATTTAAT
1 TAT-TATATTTAAA
546482 TATTATATTTAAA
1 TATTATATTTAAA
546495 TATT
1 TATT
546499 TAAAATATAG
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
13 12 0.46
14 14 0.54
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
TATTATATTTAAA
Found at i:546826 original size:13 final size:14
Alignment explanation
Indices: 546805--546837 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
546795 TAAATCAAAC
546805 TTTTCAAAAACAT-
1 TTTTCAAAAACATA
*
546818 TTTTTAAAAACATA
1 TTTTCAAAAACATA
546832 TTTTCA
1 TTTTCA
546838 CCACATTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (14 bp):
TTTTCAAAAACATA
Found at i:549556 original size:23 final size:24
Alignment explanation
Indices: 549530--549578 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 24
549520 GTAATTAAAC
549530 ATATTCACGAACAT-TAAATGAAT
1 ATATTCACGAACATATAAATGAAT
* *
549553 ATATTCATGAACATATAATTGAAT
1 ATATTCACGAACATATAAATGAAT
549577 AT
1 AT
549579 GTTTACAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 13 0.57
24 10 0.43
ACGTcount: A:0.47, C:0.10, G:0.08, T:0.35
Consensus pattern (24 bp):
ATATTCACGAACATATAAATGAAT
Found at i:553596 original size:6 final size:6
Alignment explanation
Indices: 553587--553622 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
553577 TAATTTTTAT
*
553587 TTAATA TTAATA TTAATA TTAATA TCAATA TTAATA
1 TTAATA TTAATA TTAATA TTAATA TTAATA TTAATA
553623 CAAAATTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (6 bp):
TTAATA
Found at i:554285 original size:19 final size:21
Alignment explanation
Indices: 554248--554289 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 21
554238 ATAAAAAATT
554248 AAATTTAAATAAAATTAGATA
1 AAATTTAAATAAAATTAGATA
*
554269 AAATTTTAA-AAAA-TAGATA
1 AAATTTAAATAAAATTAGATA
554288 AA
1 AA
554290 TGAGAAAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 8 0.40
20 4 0.20
21 8 0.40
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (21 bp):
AAATTTAAATAAAATTAGATA
Found at i:567472 original size:17 final size:17
Alignment explanation
Indices: 567450--567515 Score: 69
Period size: 17 Copynumber: 3.9 Consensus size: 17
567440 CTGTAGTATA
*
567450 ATTGTCCCTGCATTTTT
1 ATTGTCACTGCATTTTT
**
567467 ATTGTCACTATATTTTT
1 ATTGTCACTGCATTTTT
** *
567484 ATTGTCGTTGCATTTGT
1 ATTGTCACTGCATTTTT
*
567501 ATTGTCATTGCATTT
1 ATTGTCACTGCATTT
567516 CCATATATAT
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 40 1.00
ACGTcount: A:0.17, C:0.15, G:0.14, T:0.55
Consensus pattern (17 bp):
ATTGTCACTGCATTTTT
Found at i:568795 original size:12 final size:12
Alignment explanation
Indices: 568766--568797 Score: 57
Period size: 11 Copynumber: 2.8 Consensus size: 12
568756 AAAGTTATTT
568766 TTTTAAAATTAA
1 TTTTAAAATTAA
568778 -TTTAAAATTAA
1 TTTTAAAATTAA
568789 TTTTAAAAT
1 TTTTAAAAT
568798 ATAAAAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 11 0.58
12 8 0.42
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
TTTTAAAATTAA
Found at i:573318 original size:41 final size:41
Alignment explanation
Indices: 573261--573338 Score: 156
Period size: 41 Copynumber: 1.9 Consensus size: 41
573251 AAGTAAAAGA
573261 AATTTTGAGCTAAATCCTAAGCAAACCTAAGGAAAATGCTT
1 AATTTTGAGCTAAATCCTAAGCAAACCTAAGGAAAATGCTT
573302 AATTTTGAGCTAAATCCTAAGCAAACCTAAGGAAAAT
1 AATTTTGAGCTAAATCCTAAGCAAACCTAAGGAAAAT
573339 CCTAAGCAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.44, C:0.17, G:0.14, T:0.26
Consensus pattern (41 bp):
AATTTTGAGCTAAATCCTAAGCAAACCTAAGGAAAATGCTT
Found at i:573351 original size:11 final size:11
Alignment explanation
Indices: 573313--573361 Score: 73
Period size: 11 Copynumber: 4.5 Consensus size: 11
573303 ATTTTGAGCT
573313 AAATCCTAAGC
1 AAATCCTAAGC
*
573324 AAA-CCTAAGGA
1 AAATCCTAA-GC
573335 AAATCCTAAGC
1 AAATCCTAAGC
573346 AAATCCTAAGC
1 AAATCCTAAGC
573357 AAATC
1 AAATC
573362 TAATAAAAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
10 5 0.15
11 24 0.71
12 5 0.15
ACGTcount: A:0.49, C:0.24, G:0.10, T:0.16
Consensus pattern (11 bp):
AAATCCTAAGC
Found at i:575858 original size:11 final size:11
Alignment explanation
Indices: 575842--575914 Score: 78
Period size: 11 Copynumber: 6.7 Consensus size: 11
575832 GCTCAATCAA
575842 CTTTTTTTTCT
1 CTTTTTTTTCT
*
575853 CTTTTTTTTGT
1 CTTTTTTTTCT
*
575864 -TTTTTTCTTCA
1 CTTTTTT-TTCT
*
575875 CTTTTTATTCT
1 CTTTTTTTTCT
*
575886 -TTTCTTTTCT
1 CTTTTTTTTCT
*
575896 CTTTTTTTTTT
1 CTTTTTTTTCT
575907 CTTTTTTT
1 CTTTTTTT
575915 AAGAACAAAA
Statistics
Matches: 50, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
10 14 0.28
11 31 0.62
12 5 0.10
ACGTcount: A:0.03, C:0.15, G:0.01, T:0.81
Consensus pattern (11 bp):
CTTTTTTTTCT
Found at i:575868 original size:19 final size:18
Alignment explanation
Indices: 575843--575912 Score: 68
Period size: 19 Copynumber: 3.4 Consensus size: 18
575833 CTCAATCAAC
575843 TTTTTTTTCTCTTTTTTT
1 TTTTTTTTCTCTTTTTTT
575861 TGTTTTTTTCTTCACTTTTTATT
1 T-TTTTTTTC-T--CTTTTT-TT
575884 CTTTTCTTTTCTCTTTTTTT
1 -TTTT-TTTTCTCTTTTTTT
575904 TTTCTTTTT
1 TTT-TTTTT
575913 TTAAGAACAA
Statistics
Matches: 44, Mismatches: 0, Indels: 15
0.75 0.00 0.25
Matches are distributed among these distances:
18 1 0.02
19 15 0.34
20 4 0.09
21 6 0.14
22 6 0.14
23 6 0.14
24 6 0.14
ACGTcount: A:0.03, C:0.14, G:0.01, T:0.81
Consensus pattern (18 bp):
TTTTTTTTCTCTTTTTTT
Found at i:577293 original size:20 final size:20
Alignment explanation
Indices: 577264--577307 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
577254 CTCCTATAAG
*
577264 AAAAAAAAAAA-ATGTAAATT
1 AAAAAAAAAAATAT-TAAAAT
*
577284 AAAAACAAAAATATTAAAAT
1 AAAAAAAAAAATATTAAAAT
577304 AAAA
1 AAAA
577308 TTAAAAATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 19 0.90
21 2 0.10
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.18
Consensus pattern (20 bp):
AAAAAAAAAAATATTAAAAT
Found at i:579321 original size:13 final size:13
Alignment explanation
Indices: 579303--579329 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
579293 ACAGGTTCTG
579303 GTATAGATGTGGA
1 GTATAGATGTGGA
579316 GTATAGATGTGGA
1 GTATAGATGTGGA
579329 G
1 G
579330 GCTTTCACAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.41, T:0.30
Consensus pattern (13 bp):
GTATAGATGTGGA
Found at i:581584 original size:38 final size:38
Alignment explanation
Indices: 581506--581588 Score: 96
Period size: 38 Copynumber: 2.2 Consensus size: 38
581496 GAATCTGCCT
* * * * *
581506 CCTATGTTACAACATAGCATGTTTATGTCACGACATAC
1 CCTATGTCACAACACAACATGTTTATGTCACGAAAAAC
*
581544 CCTATGTCACAACACAACATGTTTATGT-AGCTAAAAAC
1 CCTATGTCACAACACAACATGTTTATGTCA-CGAAAAAC
581582 CCTATGT
1 CCTATGT
581589 ACTATGTCCT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
37 1 0.03
38 37 0.97
ACGTcount: A:0.34, C:0.24, G:0.12, T:0.30
Consensus pattern (38 bp):
CCTATGTCACAACACAACATGTTTATGTCACGAAAAAC
Found at i:590893 original size:14 final size:14
Alignment explanation
Indices: 590871--590905 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
590861 AGATTGAGCT
590871 TATTATATGTGAAC
1 TATTATATGTGAAC
*
590885 TATTGTATGTGAAC
1 TATTATATGTGAAC
590899 TGATTAT
1 T-ATTAT
590906 GTATGAACTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.31, C:0.06, G:0.17, T:0.46
Consensus pattern (14 bp):
TATTATATGTGAAC
Found at i:600191 original size:17 final size:17
Alignment explanation
Indices: 600166--600215 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
600156 TACAATGAAA
*
600166 AATGAAAATGCAATGAT
1 AATGAAAATGCAATGAC
*
600183 AATGCAAATG-AAGTGAC
1 AATGAAAATGCAA-TGAC
*
600200 AATTAAAATGCAATGA
1 AATGAAAATGCAATGA
600216 GAAAGGGGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
16 2 0.07
17 23 0.85
18 2 0.07
ACGTcount: A:0.52, C:0.08, G:0.18, T:0.22
Consensus pattern (17 bp):
AATGAAAATGCAATGAC
Found at i:606985 original size:18 final size:18
Alignment explanation
Indices: 606962--606996 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
606952 CAAATGATCG
606962 CAAATGAAAATTATCTTT
1 CAAATGAAAATTATCTTT
606980 CAAATGAAAATTATCTT
1 CAAATGAAAATTATCTT
606997 AAGTATGCAA
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:0.46, C:0.11, G:0.06, T:0.37
Consensus pattern (18 bp):
CAAATGAAAATTATCTTT
Found at i:611555 original size:22 final size:22
Alignment explanation
Indices: 611527--611571 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
611517 AATTTGCGAC
611527 GACAATCATAGCTACGAGGATT
1 GACAATCATAGCTACGAGGATT
*
611549 GACAATCATAGTTACGAGGATT
1 GACAATCATAGCTACGAGGATT
611571 G
1 G
611572 TCCTCAACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (22 bp):
GACAATCATAGCTACGAGGATT
Found at i:636688 original size:20 final size:19
Alignment explanation
Indices: 636665--636718 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
636655 TTGACAATTA
*
636665 ACCGTTGACTTTTTGGGTTG
1 ACCGTT-ACTTTTTAGGTTG
*
636685 ACCGTTACCTTTTTAGGTTT
1 ACCGTTA-CTTTTTAGGTTG
636705 ACCGTTAACTTTTT
1 ACCGTT-ACTTTTT
636719 TGGGAAATCC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 1 0.03
20 28 0.93
21 1 0.03
ACGTcount: A:0.15, C:0.19, G:0.19, T:0.48
Consensus pattern (19 bp):
ACCGTTACTTTTTAGGTTG
Found at i:645659 original size:7 final size:7
Alignment explanation
Indices: 645649--645716 Score: 82
Period size: 7 Copynumber: 9.7 Consensus size: 7
645639 TGACAGTCCA
645649 TTGACCG
1 TTGACCG
645656 TTGACCG
1 TTGACCG
645663 TTGACCG
1 TTGACCG
*
645670 TTGACAG
1 TTGACCG
*
645677 TTCACCG
1 TTGACCG
*
645684 TTGACCA
1 TTGACCG
*
645691 TTGACCA
1 TTGACCG
* *
645698 TGGACAG
1 TTGACCG
645705 TTGACCG
1 TTGACCG
645712 TTGAC
1 TTGAC
645717 TTCTTAGGTT
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
7 51 1.00
ACGTcount: A:0.21, C:0.26, G:0.25, T:0.28
Consensus pattern (7 bp):
TTGACCG
Found at i:645686 original size:28 final size:28
Alignment explanation
Indices: 645652--645716 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
645642 CAGTCCATTG
* * *
645652 ACCGTTGACCGTTGACCGTTGACAGTTC
1 ACCGTTGACCATTGACCATGGACAGTTC
*
645680 ACCGTTGACCATTGACCATGGACAGTTG
1 ACCGTTGACCATTGACCATGGACAGTTC
645708 ACCGTTGAC
1 ACCGTTGAC
645717 TTCTTAGGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.26
Consensus pattern (28 bp):
ACCGTTGACCATTGACCATGGACAGTTC
Found at i:649826 original size:27 final size:27
Alignment explanation
Indices: 649788--649842 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
649778 ACATCCACAA
649788 TCACAATATCACAGTCATTCATAGCAT
1 TCACAATATCACAGTCATTCATAGCAT
649815 TCACAATATCACAGTCATTCATAGCAT
1 TCACAATATCACAGTCATTCATAGCAT
649842 T
1 T
649843 AAAAGTAACC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.36, C:0.25, G:0.07, T:0.31
Consensus pattern (27 bp):
TCACAATATCACAGTCATTCATAGCAT
Found at i:650726 original size:19 final size:19
Alignment explanation
Indices: 650702--650738 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
650692 AGGTTTCTCG
650702 AAAAAAGTCAACGGTCAAC
1 AAAAAAGTCAACGGTCAAC
650721 AAAAAAGTCAACGGTCAA
1 AAAAAAGTCAACGGTCAA
650739 GTCAACGATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.54, C:0.19, G:0.16, T:0.11
Consensus pattern (19 bp):
AAAAAAGTCAACGGTCAAC
Found at i:653430 original size:37 final size:37
Alignment explanation
Indices: 653380--653583 Score: 257
Period size: 37 Copynumber: 5.5 Consensus size: 37
653370 GTTATTGGAT
* * * * * *
653380 CACCGGCATAAAGCCTGCTAGGCATATAGCCCGAATA
1 CACCGGCACAAAGCCTACTAGGCACAAAGCCTGAAAA
* *
653417 CACCGGCACAAAGCCTACTAAGCACAAAGCTTGAAAA
1 CACCGGCACAAAGCCTACTAGGCACAAAGCCTGAAAA
* *
653454 CACCGGCACAAAACCTACTAGGCACAAAGCTTGAAAA
1 CACCGGCACAAAGCCTACTAGGCACAAAGCCTGAAAA
**
653491 CACCGGCATGAAGCCTACTAGGCACAAAGCCTGAAAA
1 CACCGGCACAAAGCCTACTAGGCACAAAGCCTGAAAA
653528 CACCGGCACGAAA-CCTACTAGGCACAAAGCCTGAAAA
1 CACCGGCAC-AAAGCCTACTAGGCACAAAGCCTGAAAA
* **
653565 CATCGGCATGAAGCCTACT
1 CACCGGCACAAAGCCTACT
653584 TGGAATATAG
Statistics
Matches: 146, Mismatches: 19, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
36 2 0.01
37 142 0.97
38 2 0.01
ACGTcount: A:0.38, C:0.30, G:0.19, T:0.12
Consensus pattern (37 bp):
CACCGGCACAAAGCCTACTAGGCACAAAGCCTGAAAA
Found at i:656860 original size:26 final size:26
Alignment explanation
Indices: 656808--656863 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
656798 ACCCAAATAT
** * *
656808 TCAATGGTCAGTGATCAATTATCAAG
1 TCAATGGTCAACGATCAATGATAAAG
*
656834 TCAATGGTCAACGATCAATGGTAAAG
1 TCAATGGTCAACGATCAATGATAAAG
656860 TCAA
1 TCAA
656864 CAATCAATGG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.27
Consensus pattern (26 bp):
TCAATGGTCAACGATCAATGATAAAG
Found at i:661360 original size:19 final size:18
Alignment explanation
Indices: 661338--661377 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
661328 ATTATGAATC
661338 AAAATAAATGAGAAAATAA
1 AAAATAAATGA-AAAATAA
* *
661357 AAAATTAATTAAAAATAA
1 AAAATAAATGAAAAATAA
661375 AAA
1 AAA
661378 GTTAAAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.20
Consensus pattern (18 bp):
AAAATAAATGAAAAATAA
Found at i:661473 original size:29 final size:29
Alignment explanation
Indices: 661441--661525 Score: 82
Period size: 30 Copynumber: 2.9 Consensus size: 29
661431 AGTTTCAAAG
*
661441 AGTTTGGGGTTAAAACATAATTTTTGGAA
1 AGTTTGGGGTTAAAACGTAATTTTTGGAA
* * *
661470 AGTTTTAGGGG-TAAAATGTCATTTTAGGAA
1 AG-TTT-GGGGTTAAAACGTAATTTTTGGAA
* * *
661500 AATTTGGGGTAAAAACGTGATTTTTG
1 AGTTTGGGGTTAAAACGTAATTTTTG
661526 TAAGTTCGAG
Statistics
Matches: 44, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
28 4 0.09
29 17 0.39
30 19 0.43
31 4 0.09
ACGTcount: A:0.33, C:0.04, G:0.26, T:0.38
Consensus pattern (29 bp):
AGTTTGGGGTTAAAACGTAATTTTTGGAA
Done.