Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr7
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 47983841
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869652 characters in sequence are not A, C, G, or T
File 79 of 153
Found at i:25188830 original size:20 final size:22
Alignment explanation
Indices: 25188795--25188836 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
25188785 CACAATAGTC
25188795 CTCTCACAATTCTCTCTAAATT
1 CTCTCACAATTCTCTCTAAATT
*
25188817 CTCTCA-AATT-TCTCTCAATT
1 CTCTCACAATTCTCTCTAAATT
25188837 TTTGTCAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 9 0.47
21 4 0.21
22 6 0.32
ACGTcount: A:0.26, C:0.31, G:0.00, T:0.43
Consensus pattern (22 bp):
CTCTCACAATTCTCTCTAAATT
Found at i:25190021 original size:7 final size:7
Alignment explanation
Indices: 25190009--25190041 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
25189999 TAGTTGTTTC
25190009 GTATTTA
1 GTATTTA
25190016 GTATTTA
1 GTATTTA
*
25190023 ATATTTA
1 GTATTTA
25190030 GTATTTA
1 GTATTTA
25190037 GTATT
1 GTATT
25190042 ACCTATATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.30, C:0.00, G:0.12, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:25191285 original size:54 final size:55
Alignment explanation
Indices: 25191132--25191312 Score: 176
Period size: 54 Copynumber: 3.3 Consensus size: 55
25191122 TTTCATATAA
* * * *
25191132 TAAAATAAAAGCTGTTTTTAATATTTTAATTGTACTTTACTTTTTTTTAATTTTAT
1 TAAAATAAAAGTTCTTTTTAATATTTTAATTGTATTTTACTTTTTTAT-ATTTTAT
* * ** * * *
25191188 TAAAATAAATGTT-GTTTTAA-ATTAGGCAA-TAT-TTTTATTTTTTTTATATTTGA-
1 TAAAATAAAAGTTCTTTTTAATATT--TTAATTGTATTTTA-CTTTTTTATATTTTAT
25191241 TAAAATAAAAGTTCTTTTTAATATTTTAATTGTATTTTACTTTTTTA-ATTTTAT
1 TAAAATAAAAGTTCTTTTTAATATTTTAATTGTATTTTACTTTTTTATATTTTAT
*
25191295 TAAAATAAATGTTCTTTT
1 TAAAATAAAAGTTCTTTT
25191313 AAATTAGCCA
Statistics
Matches: 99, Mismatches: 18, Indels: 18
0.73 0.13 0.13
Matches are distributed among these distances:
53 19 0.19
54 44 0.44
55 23 0.23
56 13 0.13
ACGTcount: A:0.34, C:0.04, G:0.06, T:0.56
Consensus pattern (55 bp):
TAAAATAAAAGTTCTTTTTAATATTTTAATTGTATTTTACTTTTTTATATTTTAT
Found at i:25191330 original size:107 final size:108
Alignment explanation
Indices: 25191131--25191345 Score: 360
Period size: 107 Copynumber: 2.0 Consensus size: 108
25191121 GTTTCATATA
*
25191131 ATAAAATAAAAGCTGTTTTTAATATTTTAATTGTACTTTACTTTTTTTTAATTTTATTAAAATAA
1 ATAAAATAAAAGCTCTTTTTAATATTTTAATTGTACTTTAC-TTTTTTTAATTTTATTAAAATAA
* * *
25191196 ATGTTGTTTTAAATTAGGCAATATTTTTATTTTTTTTATATTTG
65 ATGTTCTTTTAAATTAGCCAATATTTTTATTATTTTTATATTTG
* *
25191240 ATAAAATAAAAGTTCTTTTTAATATTTTAATTGTATTTTAC-TTTTTTAATTTTATTAAAATAAA
1 ATAAAATAAAAGCTCTTTTTAATATTTTAATTGTACTTTACTTTTTTTAATTTTATTAAAATAAA
25191304 TGTTCTTTTAAATTAGCCAATATTTTTATTATTTTTATATTT
66 TGTTCTTTTAAATTAGCCAATATTTTTATTATTTTTATATTT
25191346 ATTTTTATAT
Statistics
Matches: 100, Mismatches: 6, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
107 62 0.62
109 38 0.38
ACGTcount: A:0.34, C:0.04, G:0.06, T:0.56
Consensus pattern (108 bp):
ATAAAATAAAAGCTCTTTTTAATATTTTAATTGTACTTTACTTTTTTTAATTTTATTAAAATAAA
TGTTCTTTTAAATTAGCCAATATTTTTATTATTTTTATATTTG
Found at i:25191339 original size:54 final size:54
Alignment explanation
Indices: 25191174--25191339 Score: 182
Period size: 54 Copynumber: 3.1 Consensus size: 54
25191164 TACTTTACTT
* *
25191174 TTTTTTAATTTTATTAAAATAAATGTTGTTTTAAATTAGGCAATATTTTTATT-
1 TTTTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATATTTTTATTA
* * ** *
25191227 TTTTTTATATTTGA-TAAAATAAAAGTTCTTTTTAATATT--TTAAT-TGTATT-TTA
1 TTTTTTA-ATTTTATTAAAATAAATGTTC-TTTTAA-ATTAGCCAATAT-TTTTATTA
25191280 CTTTTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATATTTTTATTA
1 -TTTTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATATTTTTATTA
25191335 TTTTT
1 TTTTT
25191340 ATATTTATTT
Statistics
Matches: 91, Mismatches: 11, Indels: 21
0.74 0.09 0.17
Matches are distributed among these distances:
52 6 0.07
53 36 0.40
54 42 0.46
55 7 0.08
ACGTcount: A:0.33, C:0.04, G:0.05, T:0.58
Consensus pattern (54 bp):
TTTTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATATTTTTATTA
Found at i:25191348 original size:53 final size:52
Alignment explanation
Indices: 25191173--25191345 Score: 181
Period size: 53 Copynumber: 3.2 Consensus size: 52
25191163 GTACTTTACT
* *
25191173 TTTTTTTAATTTTATTAAAATAAATGTTGTTTTAAATTAGGCAATATTTTTA
1 TTTTTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATATTTTTA
* * ** *
25191225 TTTTTTTTATATTTGA-TAAAATAAAAGTTCTTTTTAATATT--TTAATTGTATTTTA
1 -TTTTTTTA-ATTTTATTAAAATAAATGTTC-TTTTAA-ATTAGCCAA-TAT-TTTTA
*
25191280 CTTTTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATATTTTTA
1 TTTTTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATATTTTTA
25191332 TTATTTTTATATTT
1 TT-TTTTTA-ATTT
25191346 ATTTTTATAT
Statistics
Matches: 97, Mismatches: 13, Indels: 19
0.75 0.10 0.15
Matches are distributed among these distances:
52 9 0.09
53 41 0.42
54 39 0.40
55 8 0.08
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.58
Consensus pattern (52 bp):
TTTTTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATATTTTTA
Found at i:25191492 original size:39 final size:38
Alignment explanation
Indices: 25191417--25191501 Score: 91
Period size: 39 Copynumber: 2.2 Consensus size: 38
25191407 TTTTTTAAAA
* * *
25191417 TTTTAATACAATAAATGTTCTTTTAAATTAGTCAATAAT
1 TTTTAATAAAATAAATGTTATTTTAAATTAGACAAT-AT
* *
25191456 TTTTATTAAAATAAATGTTATTTTGAA-TACGACAATAT
1 TTTTAATAAAATAAATGTTATTTTAAATTA-GACAATAT
*
25191494 TTTAAATA
1 TTTTAATA
25191502 TTTTAAATAA
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
38 10 0.26
39 28 0.74
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.46
Consensus pattern (38 bp):
TTTTAATAAAATAAATGTTATTTTAAATTAGACAATAT
Found at i:25191501 original size:127 final size:126
Alignment explanation
Indices: 25191240--25191481 Score: 317
Period size: 128 Copynumber: 1.9 Consensus size: 126
25191230 TTTATATTTG
* *
25191240 ATAAAATAAAAGTTCTTTTTAATATTTTAATTGTATTTTACTTTTTTAATTTTATTAAAATAAAT
1 ATAAAATAAAAGTTCTTTTTAATATTTTAATTGTACTTTACTTTTTTAATTTTAATAAAATAAAT
*** * * **
25191305 GTTCTTTTAAATTAGCCAATATTTTTATTATTTTTATATTTATTTTTATATAGTTTTAATTA
66 GTTCTTTTAAATTAGCCAATATTTTTATTATAAATAAATTTATTTTGATATAG-TACAATTA
* *
25191367 ATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTA-TTTTTTAAAATTTTAATACAATAA
1 ATAAAATAAAAGTTCTTTTTAATATTTTAATTGTACTTTACTTTTTT--AATTTTAATAAAATAA
*
25191431 ATGTTCTTTTAAATTAGTCAATAATTTTTATTA-AAATAAATGTTATTTTGA
64 ATGTTCTTTTAAATTAGCCAAT-ATTTTTATTATAAATAAAT-TTATTTTGA
25191482 ATACGACAAT
Statistics
Matches: 101, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
126 6 0.06
127 38 0.38
128 39 0.39
129 18 0.18
ACGTcount: A:0.37, C:0.04, G:0.05, T:0.54
Consensus pattern (126 bp):
ATAAAATAAAAGTTCTTTTTAATATTTTAATTGTACTTTACTTTTTTAATTTTAATAAAATAAAT
GTTCTTTTAAATTAGCCAATATTTTTATTATAAATAAATTTATTTTGATATAGTACAATTA
Found at i:25191598 original size:140 final size:140
Alignment explanation
Indices: 25191443--25191724 Score: 555
Period size: 140 Copynumber: 2.0 Consensus size: 140
25191433 GTTCTTTTAA
25191443 ATTAGTCAATAATTTTTATTAAAATAAATGTTATTTTGAATACGACAATATTTTAAATATTTTAA
1 ATTAGTCAATAATTTTTATTAAAATAAATGTTATTTTGAATACGACAATATTTTAAATATTTTAA
25191508 ATAAAATATAAATAATGCAACATAATTTTATTACAACAACTATCAGCTATATTGATTTGGACATG
66 ATAAAATATAAATAATGCAACATAATTTTATTACAACAACTATCAGCTATATTGATTTGGACATG
25191573 ATTGAGTTAT
131 ATTGAGTTAT
25191583 ATTAGTCAATAATTTTTATTAAAATAAATGTTATTTTGAATACGACAATATTTTAAATATTTTAA
1 ATTAGTCAATAATTTTTATTAAAATAAATGTTATTTTGAATACGACAATATTTTAAATATTTTAA
*
25191648 ATAAAATATAAATAATGCAACATAATTTTATTACAACAACTATCAGCTATATTGATTTGGTCATG
66 ATAAAATATAAATAATGCAACATAATTTTATTACAACAACTATCAGCTATATTGATTTGGACATG
25191713 ATTGAGTTAT
131 ATTGAGTTAT
25191723 AT
1 AT
25191725 GGCCTAGGTT
Statistics
Matches: 141, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
140 141 1.00
ACGTcount: A:0.43, C:0.08, G:0.09, T:0.41
Consensus pattern (140 bp):
ATTAGTCAATAATTTTTATTAAAATAAATGTTATTTTGAATACGACAATATTTTAAATATTTTAA
ATAAAATATAAATAATGCAACATAATTTTATTACAACAACTATCAGCTATATTGATTTGGACATG
ATTGAGTTAT
Found at i:25193267 original size:15 final size:15
Alignment explanation
Indices: 25193247--25193278 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
25193237 AATTTTCCCC
*
25193247 TTTTTTTTTCTTTCT
1 TTTTTTTTTCCTTCT
25193262 TTTTTTTTTCCTTCT
1 TTTTTTTTTCCTTCT
25193277 TT
1 TT
25193279 CCTTCCCTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (15 bp):
TTTTTTTTTCCTTCT
Found at i:25197728 original size:38 final size:38
Alignment explanation
Indices: 25197677--25197753 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
25197667 CTAAGGCTAA
25197677 TCTCAAACCTCATGTGATGGCTTGATAGCCAAAGGTGT
1 TCTCAAACCTCATGTGATGGCTTGATAGCCAAAGGTGT
25197715 TCTCAAACCTCATGTGATGGCTTGATAGCCAAAGGTGT
1 TCTCAAACCTCATGTGATGGCTTGATAGCCAAAGGTGT
25197753 T
1 T
25197754 TACCACCTTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (38 bp):
TCTCAAACCTCATGTGATGGCTTGATAGCCAAAGGTGT
Found at i:25198020 original size:12 final size:12
Alignment explanation
Indices: 25198003--25198028 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
25197993 TACTAGAAGT
25198003 ATTGTTGACTTC
1 ATTGTTGACTTC
25198015 ATTGTTGACTTC
1 ATTGTTGACTTC
25198027 AT
1 AT
25198029 GAAATTTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.19, C:0.15, G:0.15, T:0.50
Consensus pattern (12 bp):
ATTGTTGACTTC
Found at i:25201789 original size:29 final size:30
Alignment explanation
Indices: 25201750--25201816 Score: 91
Period size: 29 Copynumber: 2.2 Consensus size: 30
25201740 GAATTCAACC
* *
25201750 AAAATGTACAAGGACTAAAATTGAT-AATTT
1 AAAA-GTACAAGGACTAAAATTAATCAAATT
*
25201780 AAAAGTACAATGACTAAAATTAATCAAATT
1 AAAAGTACAAGGACTAAAATTAATCAAATT
25201810 AAAAGTA
1 AAAAGTA
25201817 TAGAAACTAG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 18 0.55
30 15 0.45
ACGTcount: A:0.55, C:0.07, G:0.10, T:0.27
Consensus pattern (30 bp):
AAAAGTACAAGGACTAAAATTAATCAAATT
Found at i:25202715 original size:17 final size:17
Alignment explanation
Indices: 25202693--25202729 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
25202683 CTGTTCATGA
*
25202693 TCAAAAGATACAATTGT
1 TCAAAAGATACAACTGT
25202710 TCAAAAGATACAACTGT
1 TCAAAAGATACAACTGT
25202727 TCA
1 TCA
25202730 TCAAGAGGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.46, C:0.16, G:0.11, T:0.27
Consensus pattern (17 bp):
TCAAAAGATACAACTGT
Found at i:25203864 original size:104 final size:106
Alignment explanation
Indices: 25203668--25203864 Score: 245
Period size: 104 Copynumber: 1.9 Consensus size: 106
25203658 TAGTATAAGG
* * * * * * *
25203668 ATGAAAATCTGAAATTTAACATTTATTTTTGGTAAAAATATCTCTCTAGTCTCTCTTAATTTTGA
1 ATGAAAATCAGAAAGTTAACATTTATTTTTGGTAAAAAAATCTCTCCAATCCCTCTCAATTTTGA
* * * *** *
25203733 TATTTAGTAAATTGGTTTTTCTTAAAAACATTAGAACAACA
66 TATTGAGGAAAATGGTCCCTCTAAAAAACATTAGAACAACA
*
25203774 ATGAAAATCAG-AAGTTGACATTTATTTTTGG-AAAAAAATCTCTCCAATCCCTCTCAATTTTGA
1 ATGAAAATCAGAAAGTTAACATTTATTTTTGGTAAAAAAATCTCTCCAATCCCTCTCAATTTTGA
25203837 TATTGAGGAAAATGGTCCCTCTAAAAAA
66 TATTGAGGAAAATGGTCCCTCTAAAAAA
25203865 AATAGAGTAA
Statistics
Matches: 76, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
104 48 0.63
105 18 0.24
106 10 0.13
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.38
Consensus pattern (106 bp):
ATGAAAATCAGAAAGTTAACATTTATTTTTGGTAAAAAAATCTCTCCAATCCCTCTCAATTTTGA
TATTGAGGAAAATGGTCCCTCTAAAAAACATTAGAACAACA
Found at i:25206007 original size:29 final size:30
Alignment explanation
Indices: 25205953--25206013 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 30
25205943 GTAGTTTATG
* **
25205953 AAAATTATATTAAATCAAAATTTTATGCTT
1 AAAATTATATAAAATCAAAAAATTATGCTT
25205983 AAAATTATATAAAAT-AAAAAATTATGCTT
1 AAAATTATATAAAATCAAAAAATTATGCTT
25206012 AA
1 AA
25206014 TTTTGAGATT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 14 0.50
30 14 0.50
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.38
Consensus pattern (30 bp):
AAAATTATATAAAATCAAAAAATTATGCTT
Found at i:25210186 original size:20 final size:21
Alignment explanation
Indices: 25210147--25210186 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
25210137 TTTTTAAATA
* *
25210147 AAAATATTTAATATTTTAATT
1 AAAATATTTAACATTATAATT
25210168 AAAA-ATTTAACATTATAAT
1 AAAATATTTAACATTATAAT
25210187 GAAGGCTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (21 bp):
AAAATATTTAACATTATAATT
Found at i:25212705 original size:20 final size:20
Alignment explanation
Indices: 25212680--25212721 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
25212670 AAAATGTGAG
*
25212680 TTTGAGTGTGTTAAAGTACA
1 TTTGAGTGTGTTAAAGCACA
25212700 TTTGAGTGTGTTAAAGCACA
1 TTTGAGTGTGTTAAAGCACA
25212720 TT
1 TT
25212722 ATCTTCTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.07, G:0.24, T:0.40
Consensus pattern (20 bp):
TTTGAGTGTGTTAAAGCACA
Found at i:25212868 original size:20 final size:20
Alignment explanation
Indices: 25212844--25212881 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
25212834 TTATAAAATT
25212844 TTTTAACATATTGTTAAAAA
1 TTTTAACATATTGTTAAAAA
* *
25212864 TTTTAATATATTTTTAAA
1 TTTTAACATATTGTTAAA
25212882 GCATTTGCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (20 bp):
TTTTAACATATTGTTAAAAA
Found at i:25215832 original size:34 final size:36
Alignment explanation
Indices: 25215784--25215869 Score: 97
Period size: 34 Copynumber: 2.4 Consensus size: 36
25215774 GTCACGAAAA
*
25215784 TTAAAAAATTAAAAATATAACAAACT-AAAAAA-TAT
1 TTAAAAAATAAAAAATATAA-AAACTCAAAAAATTAT
* * *
25215819 TT-TAAAATAAAAAATCTTAAAACTCAAAAAATTAT
1 TTAAAAAATAAAAAATATAAAAACTCAAAAAATTAT
25215854 TTAAAAAACTAAAAAA
1 TTAAAAAA-TAAAAAA
25215870 AATCATAATC
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
33 5 0.12
34 19 0.45
35 7 0.17
36 4 0.10
37 7 0.17
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.27
Consensus pattern (36 bp):
TTAAAAAATAAAAAATATAAAAACTCAAAAAATTAT
Found at i:25216223 original size:17 final size:17
Alignment explanation
Indices: 25216203--25216236 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
25216193 TTTTATGATT
25216203 TTTTTGGTAATTTTTAA
1 TTTTTGGTAATTTTTAA
**
25216220 TTTTTTTTAATTTTTAA
1 TTTTTGGTAATTTTTAA
25216237 GTACTTTTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.71
Consensus pattern (17 bp):
TTTTTGGTAATTTTTAA
Found at i:25216244 original size:28 final size:28
Alignment explanation
Indices: 25216182--25216246 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 28
25216172 CGCGTGCTTA
* **
25216182 TAATTTTTAATTTTTATGATTTTTTTGG
1 TAATTTTTAATTTTTATGAATTTTTAAG
* *
25216210 TAATTTTTAATTTTTTTTAATTTTTAAG
1 TAATTTTTAATTTTTATGAATTTTTAAG
*
25216238 TACTTTTTA
1 TAATTTTTA
25216247 TAGTTGTTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.25, C:0.02, G:0.06, T:0.68
Consensus pattern (28 bp):
TAATTTTTAATTTTTATGAATTTTTAAG
Found at i:25234854 original size:90 final size:90
Alignment explanation
Indices: 25234681--25234859 Score: 306
Period size: 89 Copynumber: 2.0 Consensus size: 90
25234671 AGCCATTGAA
*
25234681 CAATTAGTCGTCACCCATCTTTGCTACTCCTGCTTCGACCATGATACCAATCATCAGTTATTTTT
1 CAATTAATCGTCACCCATCTTTGCTACTCCTGCTTCGACCATGATACCAATCATCAGTTATTTTT
25234746 TCGAAATAATAAAGTTTTTTCGTCC
66 TCGAAATAATAAAGTTTTTTCGTCC
* * * *
25234771 CAATTAATCGTCACCCGTCTTTGCTA-TCCTGCTTCGGCCATGATCCCAATCATCAGTTGTTTTT
1 CAATTAATCGTCACCCATCTTTGCTACTCCTGCTTCGACCATGATACCAATCATCAGTTATTTTT
25234835 TCGAAATAATAAAGTTTTTTCGTCC
66 TCGAAATAATAAAGTTTTTTCGTCC
25234860 AAGTGTTAGA
Statistics
Matches: 84, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
89 60 0.71
90 24 0.29
ACGTcount: A:0.24, C:0.26, G:0.12, T:0.38
Consensus pattern (90 bp):
CAATTAATCGTCACCCATCTTTGCTACTCCTGCTTCGACCATGATACCAATCATCAGTTATTTTT
TCGAAATAATAAAGTTTTTTCGTCC
Found at i:25235822 original size:46 final size:47
Alignment explanation
Indices: 25235762--25235919 Score: 232
Period size: 46 Copynumber: 3.4 Consensus size: 47
25235752 TGCCATAGTG
* * *
25235762 TCTTTAAACTATGGTCTTACTCATTTTC-TGTCATGTTGTCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTTCATGTCACGTTGTCATGGTA
*
25235808 TCTTTCAACCATGGTCTTACTC-TTTTCATGTCACGTTGTTATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTTCATGTCACGTTGTCATGGTA
* * *
25235854 TCTTTCAACCATGGTCTTATTCA-TTTCATATCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTTCATGTCACGTTGTCATGGTA
25235900 TCTTTCAACCATGGTCTTAC
1 TCTTTCAACCATGGTCTTAC
25235920 ATATTTCATA
Statistics
Matches: 101, Mismatches: 9, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
45 5 0.05
46 96 0.95
ACGTcount: A:0.20, C:0.22, G:0.14, T:0.44
Consensus pattern (47 bp):
TCTTTCAACCATGGTCTTACTCATTTTCATGTCACGTTGTCATGGTA
Found at i:25235926 original size:46 final size:46
Alignment explanation
Indices: 25235752--25235932 Score: 222
Period size: 46 Copynumber: 3.9 Consensus size: 46
25235742 TTTGACATGA
* * * * * *
25235752 TGCCATAGTGTCTTTAAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATATCACGT
* * *
25235798 TGTCATGGTATCTTTCAACCATGGTCTTACTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
** *
25235844 TGTTATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
25235890 TGCCATGGTATCTTTCAACCATGGTCTTACAT-ATTTCATATCA
1 TGCCATGGTATCTTTCAACCATGGTCTTAC-TCATTTCATATCA
25235933 GAGAGCACAC
Statistics
Matches: 119, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
45 4 0.03
46 114 0.96
47 1 0.01
ACGTcount: A:0.21, C:0.22, G:0.14, T:0.44
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
Found at i:25238032 original size:11 final size:11
Alignment explanation
Indices: 25238016--25238063 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
25238006 CTTTATATAC
25238016 TAATAAAATAA
1 TAATAAAATAA
*
25238027 TAATAAAATATCT
1 TAATAAAATA--A
* *
25238040 TATTAAAATAT
1 TAATAAAATAA
25238051 TAATAAAATAA
1 TAATAAAATAA
25238062 TA
1 TA
25238064 TTTATCTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
11 22 0.71
13 9 0.29
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:25247391 original size:149 final size:150
Alignment explanation
Indices: 25246968--25247522 Score: 805
Period size: 149 Copynumber: 3.7 Consensus size: 150
25246958 CACATTTTGT
*
25246968 AATCATAAATTCCCAAGATTTTGAAATTCATGTTTT-TCTATACATTTCAAATACATAATCAAAG
1 AATCATAAATTCCTAAGATTTTGAAATTCATGTTTTCT-TATACATTTCAAATACATAATCAAAG
* * * *
25247032 TTCAACCTTAACTAATTTGTC-TTTTCATAGCTCATAGTTAATATAACAAATAAAAAATCCAAAT
65 TTCAACCTTAACTAATTTGGCTTTTTCATAGCTCAAAATCAATATAACAAATAAAAAATCCAAAT
25247096 TCAGCTTTTCATAGCTTATAA
130 TCAGCTTTTCATAGCTTATAA
* *
25247117 AATCATAAATTCTTAAGATTTTGAAATAT-ATGTTTTTCTTAATGCATTTCAAATACATAATCAA
1 AATCATAAATTCCTAAGATTTTGAAAT-TCATG-TTTTCTT-ATACATTTCAAATACATAATCAA
* * *
25247181 AGTTCAACCTTAACTAATTTGGCCTTTTCATAGCTCAAAATTAATA-AACAAATCAAAAATCCAA
63 AGTTCAACCTTAACTAATTTGGCTTTTTCATAGCTCAAAATCAATATAACAAATAAAAAATCCAA
25247245 ATTCAGCTTTTCATAGCTTATAA
128 ATTCAGCTTTTCATAGCTTATAA
* * *
25247268 AATCATAAATTCCTAAGATTTTGAAATTCTTGTTTTCTTATGCATTTCAAATACATGATCAAAGT
1 AATCATAAATTCCTAAGATTTTGAAATTCATGTTTTCTTATACATTTCAAATACATAATCAAAGT
* *
25247333 TCAACCTTAACCAATTTGGCTTTTTCA-AGCTCAAAATCAATATAACAAATGAAAAATCCAAATT
66 TCAACCTTAACTAATTTGGCTTTTTCATAGCTCAAAATCAATATAACAAATAAAAAATCCAAATT
* * *
25247397 TAGCTTCTCATACCTTATAA
131 CAGCTTTTCATAGCTTATAA
* * * * * *
25247417 AATCCTAAATTCCTAATATTTTGACATTCATGTTTTCTTCTACAATTCAAATACAGAATCAAAGT
1 AATCATAAATTCCTAAGATTTTGAAATTCATGTTTTCTTATACATTTCAAATACATAATCAAAGT
*
25247482 TCAACCTTAACTAAATTTGGCTTTTTCAGAGCTCAAAATCA
66 TCAACCTTAACT-AATTTGGCTTTTTCATAGCTCAAAATCA
25247523 TAAATTTCAA
Statistics
Matches: 370, Mismatches: 27, Indels: 16
0.90 0.07 0.04
Matches are distributed among these distances:
148 14 0.04
149 182 0.49
150 29 0.08
151 125 0.34
152 20 0.05
ACGTcount: A:0.39, C:0.17, G:0.07, T:0.37
Consensus pattern (150 bp):
AATCATAAATTCCTAAGATTTTGAAATTCATGTTTTCTTATACATTTCAAATACATAATCAAAGT
TCAACCTTAACTAATTTGGCTTTTTCATAGCTCAAAATCAATATAACAAATAAAAAATCCAAATT
CAGCTTTTCATAGCTTATAA
Found at i:25247737 original size:258 final size:258
Alignment explanation
Indices: 25247274--25247756 Score: 697
Period size: 258 Copynumber: 1.9 Consensus size: 258
25247264 ATAAAATCAT
* * * *
25247274 AAATTCCTAAGATTTTGAAATTCTTGTTTTCTTATGCATTTCAAATACATGATCAAAGTTCAACC
1 AAATTCCTAAGATTTCGAAATTCTTGTTTTCTAATACATTTCAAATACATAATCAAAGTTCAACC
* *
25247339 TTAACCAATTTGGCTTTTTCAAGCTCAAAATCAATATAACAAATGAAAAATCCAAATTTAGCTTC
66 TTAACAAATTTGGCTTTTTCAAGCTCAAAATCAATATAACAAATGAAAAATCCAAATCTAGCTTC
* * * * *
25247404 TCATACCTTATAAAATCCTAAATTCCTAATATTTTGACATTCATGTTTTCTTCTACAATTCAAAT
131 TCATACCTTATAAAATCATAAATTCCTAAGATTTCGAAATTCATGTTTTCTTATACAATTCAAAT
* *
25247469 ACAGAATCAAAGTTCAACCTTAACTAAATTTGGCTTTTTCAGAGCTCAAAATCATAAATTTCA
196 ACAGAATCAAAATTCAAACTTAACTAAATTTGGCTTTTTCAGAGCTCAAAATCATAAATTTCA
* *
25247532 AAATTCCTAAGCTTTCGAAATT-TGTGTTTTCTAATACATTTCAAAATTCATAATCAAAGTTCAA
1 AAATTCCTAAGATTTCGAAATTCT-TGTTTTCTAATACATTTC-AAATACATAATCAAAGTTCAA
*
25247596 CCTTAACAAATTT-GC-TTTTCATAGCTCAAAATTAATATAACAAATGAAAAATCCAAATCTAGC
64 CCTTAACAAATTTGGCTTTTTCA-AGCTCAAAATCAATATAACAAATGAAAAATCCAAATCTAGC
* * **
25247659 TTCTCATACCTTATAAAATCATAAATTCCTAAGCTTTCGAAATTTAT-TTATT-TTATACTTTTT
128 TTCTCATACCTTATAAAATCATAAATTCCTAAGATTTCGAAATTCATGTT-TTCTTATAC-AATT
*
25247722 CAAATACATAATCAAAATTCAAACTTAACTAAATT
191 CAAATACAGAATCAAAATTCAAACTTAACTAAATT
25247757 AAACTTTAGT
Statistics
Matches: 199, Mismatches: 21, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
257 14 0.07
258 154 0.77
259 31 0.16
ACGTcount: A:0.39, C:0.18, G:0.06, T:0.37
Consensus pattern (258 bp):
AAATTCCTAAGATTTCGAAATTCTTGTTTTCTAATACATTTCAAATACATAATCAAAGTTCAACC
TTAACAAATTTGGCTTTTTCAAGCTCAAAATCAATATAACAAATGAAAAATCCAAATCTAGCTTC
TCATACCTTATAAAATCATAAATTCCTAAGATTTCGAAATTCATGTTTTCTTATACAATTCAAAT
ACAGAATCAAAATTCAAACTTAACTAAATTTGGCTTTTTCAGAGCTCAAAATCATAAATTTCA
Found at i:25251308 original size:26 final size:26
Alignment explanation
Indices: 25251260--25251309 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
25251250 TTTTAAGCAT
*
25251260 GTAAAATTATAAAATTTTAAAAAGTA
1 GTAAAATTATAAAATTCTAAAAAGTA
*
25251286 GTAAAA-TATTAAAATTCTCAAAAG
1 GTAAAATTA-TAAAATTCTAAAAAG
25251310 AAACTTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 2 0.10
26 19 0.90
ACGTcount: A:0.56, C:0.04, G:0.08, T:0.32
Consensus pattern (26 bp):
GTAAAATTATAAAATTCTAAAAAGTA
Found at i:25256322 original size:49 final size:49
Alignment explanation
Indices: 25256251--25256353 Score: 199
Period size: 49 Copynumber: 2.1 Consensus size: 49
25256241 CCTCTATTAT
25256251 TAAA-TGGATCAATTTAGTCCCTATACTATTAAAAGAATTAAATAAGTC
1 TAAATTGGATCAATTTAGTCCCTATACTATTAAAAGAATTAAATAAGTC
25256299 TAAATTGGATCAATTTAGTCCCTATACTATTAAAAGAATTAAATAAGTC
1 TAAATTGGATCAATTTAGTCCCTATACTATTAAAAGAATTAAATAAGTC
25256348 TAAATT
1 TAAATT
25256354 AGCACAACAA
Statistics
Matches: 54, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
48 4 0.07
49 50 0.93
ACGTcount: A:0.44, C:0.12, G:0.10, T:0.35
Consensus pattern (49 bp):
TAAATTGGATCAATTTAGTCCCTATACTATTAAAAGAATTAAATAAGTC
Found at i:25266984 original size:15 final size:16
Alignment explanation
Indices: 25266964--25266993 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
25266954 CTAACAAAAG
25266964 AACCCAAT-ACCCACA
1 AACCCAATAACCCACA
25266979 AACCCAATAACCCAC
1 AACCCAATAACCCAC
25266994 CTAAATTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.47, C:0.47, G:0.00, T:0.07
Consensus pattern (16 bp):
AACCCAATAACCCACA
Found at i:25271071 original size:61 final size:60
Alignment explanation
Indices: 25270956--25271078 Score: 167
Period size: 61 Copynumber: 2.0 Consensus size: 60
25270946 AAATGCATAC
*
25270956 GAATGGTGATTCCAATACAGGTACCATGGTGATTCCAACATAATATTAAAATTTTGCAAAT
1 GAATGGTGATTCCAATACAGGTACCATGGTGATTCCAACAT-ATACTAAAATTTTGCAAAT
* * * *
25271017 GAATGGTGCTTCCAATATAGTTACCATGGTGATTCCAATGCAT-TACTAAGATTTTGCAAAT
1 GAATGGTGATTCCAATACAGGTACCATGGTGATTCCAA--CATATACTAAAATTTTGCAAAT
25271078 G
1 G
25271079 CAAATGAATA
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
61 52 0.95
63 3 0.05
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.33
Consensus pattern (60 bp):
GAATGGTGATTCCAATACAGGTACCATGGTGATTCCAACATATACTAAAATTTTGCAAAT
Found at i:25271112 original size:23 final size:23
Alignment explanation
Indices: 25271086--25271145 Score: 93
Period size: 23 Copynumber: 2.6 Consensus size: 23
25271076 ATGCAAATGA
*
25271086 ATAGTGATTCCAATACAATTATC
1 ATAGTGATTCCAATACAATTACC
*
25271109 ATAGTGATTGCAATACAATTACC
1 ATAGTGATTCCAATACAATTACC
*
25271132 ATGGTGATTCCAAT
1 ATAGTGATTCCAAT
25271146 GTAGTACTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (23 bp):
ATAGTGATTCCAATACAATTACC
Found at i:25271373 original size:17 final size:17
Alignment explanation
Indices: 25271351--25271429 Score: 71
Period size: 17 Copynumber: 4.9 Consensus size: 17
25271341 AATACTTAGT
25271351 GTTATGACCATTTTGAG
1 GTTATGACCATTTTGAG
*
25271368 GTTATGACCTTTTTGA-
1 GTTATGACCATTTTGAG
* *
25271384 --AATGA-CA-CTT-AG
1 GTTATGACCATTTTGAG
25271396 TGTTATGACCATTTTGAG
1 -GTTATGACCATTTTGAG
*
25271414 GTTATGACCTTTTTGA
1 GTTATGACCATTTTGA
25271430 AATAACACTT
Statistics
Matches: 48, Mismatches: 7, Indels: 14
0.70 0.10 0.20
Matches are distributed among these distances:
11 1 0.02
12 2 0.04
13 1 0.02
14 4 0.08
15 4 0.08
16 2 0.04
17 32 0.67
18 2 0.04
ACGTcount: A:0.24, C:0.13, G:0.20, T:0.43
Consensus pattern (17 bp):
GTTATGACCATTTTGAG
Found at i:25271398 original size:46 final size:46
Alignment explanation
Indices: 25271344--25271485 Score: 232
Period size: 46 Copynumber: 3.1 Consensus size: 46
25271334 CTAAAACAAT
25271344 ACTTAGTGTTATGACCATTTTGAGGTTATGACCTTTTTGAAATGAC
1 ACTTAGTGTTATGACCATTTTGAGGTTATGACCTTTTTGAAATGAC
*
25271390 ACTTAGTGTTATGACCATTTTGAGGTTATGACCTTTTTGAAATAAC
1 ACTTAGTGTTATGACCATTTTGAGGTTATGACCTTTTTGAAATGAC
* * *
25271436 ACTTAGTGTTATGACCTTTTTGAGGTTATGA-CTTTTCTAAAAGGAC
1 ACTTAGTGTTATGACCATTTTGAGGTTATGACCTTTT-TGAAATGAC
25271482 ACTT
1 ACTT
25271486 TATGATCATT
Statistics
Matches: 90, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
45 5 0.06
46 85 0.94
ACGTcount: A:0.27, C:0.13, G:0.18, T:0.42
Consensus pattern (46 bp):
ACTTAGTGTTATGACCATTTTGAGGTTATGACCTTTTTGAAATGAC
Found at i:25273600 original size:23 final size:23
Alignment explanation
Indices: 25273557--25273600 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
25273547 TTCGGTACTA
*
25273557 CTGTTACTTGCACTTTAGTGCTC
1 CTGTTACTTGCACTATAGTGCTC
* *
25273580 CTGTTCCTTGCACTATGGTGC
1 CTGTTACTTGCACTATAGTGC
25273601 GATCCTAATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.11, C:0.27, G:0.20, T:0.41
Consensus pattern (23 bp):
CTGTTACTTGCACTATAGTGCTC
Found at i:25275370 original size:25 final size:25
Alignment explanation
Indices: 25275336--25275387 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
25275326 TAAGTATTAG
25275336 TAAGTTAAAATAGAATATCTAAACT
1 TAAGTTAAAATAGAATATCTAAACT
25275361 TAAGTTAAAATAGAATATCTAAACT
1 TAAGTTAAAATAGAATATCTAAACT
25275386 TA
1 TA
25275388 CCTTAATCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.52, C:0.08, G:0.08, T:0.33
Consensus pattern (25 bp):
TAAGTTAAAATAGAATATCTAAACT
Found at i:25275393 original size:25 final size:25
Alignment explanation
Indices: 25275340--25275393 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
25275330 TATTAGTAAG
*
25275340 TTAAAATAGAATATCTAAACTTAAG
1 TTAAAATAGAATATCTAAACTTAAC
*
25275365 TTAAAATAGAATATCTAAACTTACC
1 TTAAAATAGAATATCTAAACTTAAC
25275390 TTAA
1 TTAA
25275394 TCCATTAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.50, C:0.11, G:0.06, T:0.33
Consensus pattern (25 bp):
TTAAAATAGAATATCTAAACTTAAC
Found at i:25276409 original size:6 final size:6
Alignment explanation
Indices: 25276391--25276420 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
25276381 CCAAATGAAT
25276391 CATTTC TCATTTC CATTTC CATTTC CATTT
1 CATTTC -CATTTC CATTTC CATTTC CATTT
25276421 TGAGAAAACC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.17, C:0.30, G:0.00, T:0.53
Consensus pattern (6 bp):
CATTTC
Found at i:25278200 original size:41 final size:41
Alignment explanation
Indices: 25278119--25278205 Score: 129
Period size: 41 Copynumber: 2.1 Consensus size: 41
25278109 ATGTACTATC
**
25278119 CAGGGGTACTGAAGAACAAACAAGGGCACGTATGTGCAATT
1 CAGGGGTACTGAAGAACAAACAAGGGCACACATGTGCAATT
* * *
25278160 TAGGGGTACTGAAGTACAAACAAGGGCACACATGTTCAATT
1 CAGGGGTACTGAAGAACAAACAAGGGCACACATGTGCAATT
25278201 CAGGG
1 CAGGG
25278206 TATAATTAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.36, C:0.17, G:0.29, T:0.18
Consensus pattern (41 bp):
CAGGGGTACTGAAGAACAAACAAGGGCACACATGTGCAATT
Found at i:25280186 original size:77 final size:77
Alignment explanation
Indices: 25280059--25280212 Score: 272
Period size: 77 Copynumber: 2.0 Consensus size: 77
25280049 CTCAAATACA
*
25280059 GAAAAACCACAAGATATAAAGAAACTCAATAAAACTTCAAAAGAAATTAAAAGGAGATCTTCAAT
1 GAAAAACCACAAGACATAAAGAAACTCAATAAAACTTCAAAAGAAATTAAAAGGAGATCTTCAAT
25280124 CTTAATGGAGAT
66 CTTAATGGAGAT
* *
25280136 GAAAAACCACAAGACATAAAGAAACTCAATAAAACTTCGAAATAAATTAAAAGGAGATCTTCAAT
1 GAAAAACCACAAGACATAAAGAAACTCAATAAAACTTCAAAAGAAATTAAAAGGAGATCTTCAAT
*
25280201 CTTGATGGAGAT
66 CTTAATGGAGAT
25280213 CCACTTCCGA
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
77 73 1.00
ACGTcount: A:0.52, C:0.14, G:0.14, T:0.21
Consensus pattern (77 bp):
GAAAAACCACAAGACATAAAGAAACTCAATAAAACTTCAAAAGAAATTAAAAGGAGATCTTCAAT
CTTAATGGAGAT
Found at i:25280421 original size:30 final size:30
Alignment explanation
Indices: 25280387--25280474 Score: 131
Period size: 30 Copynumber: 2.9 Consensus size: 30
25280377 CACGGCCTGG
* * *
25280387 CACATGGGCGTGTGTCCGGCCCATGTGGCT
1 CACATGGACGTGTGCCCAGCCCATGTGGCT
25280417 CACATGGACGTGTGCCCAGCCCATGTGGCT
1 CACATGGACGTGTGCCCAGCCCATGTGGCT
* *
25280447 CACATGGAAGTGTGCCCAGCCCGTGTGG
1 CACATGGACGTGTGCCCAGCCCATGTGG
25280475 AAATGCCCAG
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 53 1.00
ACGTcount: A:0.15, C:0.31, G:0.34, T:0.20
Consensus pattern (30 bp):
CACATGGACGTGTGCCCAGCCCATGTGGCT
Found at i:25292172 original size:26 final size:25
Alignment explanation
Indices: 25292124--25292243 Score: 87
Period size: 26 Copynumber: 4.6 Consensus size: 25
25292114 GAGCTGGTGG
* * * *
25292124 TTATTCAGTAGGCTTTGAGCCAACGT
1 TTATTTAGTAGGCCTT-AACCAATGT
25292150 TTATTTAGTAGGCCTTACACCAATGT
1 TTATTTAGTAGGCCTTA-ACCAATGT
* * * * *
25292176 TCATTTAGCAGGCCTTGAGCCGATGA
1 TTATTTAGTAGGCCTT-AACCAATGT
***
25292202 TTATTTAGTAGGCCTTAAGCTGGTGT
1 TTATTTAGTAGGCCTTAA-CCAATGT
*
25292228 TTATTTAGCAGGCCTT
1 TTATTTAGTAGGCCTT
25292244 GAGTCGGTGG
Statistics
Matches: 75, Mismatches: 16, Indels: 6
0.77 0.16 0.06
Matches are distributed among these distances:
25 2 0.03
26 72 0.96
27 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.37
Consensus pattern (25 bp):
TTATTTAGTAGGCCTTAACCAATGT
Found at i:25292216 original size:52 final size:52
Alignment explanation
Indices: 25292150--25292261 Score: 145
Period size: 52 Copynumber: 2.2 Consensus size: 52
25292140 GAGCCAACGT
25292150 TTATTTAGTAGGCCTTACA-CCAATGTTCATTTAGCAGGCCTTGAGCCGATGA
1 TTATTTAGTAGGCCTTA-AGCCAATGTTCATTTAGCAGGCCTTGAGCCGATGA
*** * * * *
25292202 TTATTTAGTAGGCCTTAAGCTGGTGTTTATTTAGCAGGCCTTGAGTCGGTGG
1 TTATTTAGTAGGCCTTAAGCCAATGTTCATTTAGCAGGCCTTGAGCCGATGA
25292254 TTATTTAG
1 TTATTTAG
25292262 CAGGTCTTGG
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
51 1 0.02
52 51 0.98
ACGTcount: A:0.21, C:0.16, G:0.25, T:0.38
Consensus pattern (52 bp):
TTATTTAGTAGGCCTTAAGCCAATGTTCATTTAGCAGGCCTTGAGCCGATGA
Found at i:25292252 original size:26 final size:26
Alignment explanation
Indices: 25292173--25292291 Score: 130
Period size: 26 Copynumber: 4.6 Consensus size: 26
25292163 CTTACACCAA
* *
25292173 TGTTCATTTAGCAGGCCTTGAGCCGA
1 TGTTTATTTAGCAGGCCTTGAGCCGG
* * * *
25292199 TGATTATTTAGTAGGCCTTAAGCTGG
1 TGTTTATTTAGCAGGCCTTGAGCCGG
*
25292225 TGTTTATTTAGCAGGCCTTGAGTCGG
1 TGTTTATTTAGCAGGCCTTGAGCCGG
* * * *
25292251 TGGTTATTTAGCAGGTCTTGGGCCAG
1 TGTTTATTTAGCAGGCCTTGAGCCGG
*
25292277 TGTATATTTAGCAGG
1 TGTTTATTTAGCAGG
25292292 TACTATGTAG
Statistics
Matches: 75, Mismatches: 18, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.19, C:0.15, G:0.29, T:0.36
Consensus pattern (26 bp):
TGTTTATTTAGCAGGCCTTGAGCCGG
Found at i:25292285 original size:52 final size:52
Alignment explanation
Indices: 25292150--25292291 Score: 144
Period size: 52 Copynumber: 2.7 Consensus size: 52
25292140 GAGCCAACGT
* *
25292150 TTATTTAGTAGGCCTTACA-CCAATGT-TCATTTAGCAGGCCTTGAGCCGATGA
1 TTATTTAGCAGGCCTTA-AGCCAGTGTAT-ATTTAGCAGGCCTTGAGCCGATGA
* ** * * * *
25292202 TTATTTAGTAGGCCTTAAGCTGGTGTTTATTTAGCAGGCCTTGAGTCGGTGG
1 TTATTTAGCAGGCCTTAAGCCAGTGTATATTTAGCAGGCCTTGAGCCGATGA
* **
25292254 TTATTTAGCAGGTCTTGGGCCAGTGTATATTTAGCAGG
1 TTATTTAGCAGGCCTTAAGCCAGTGTATATTTAGCAGG
25292292 TACTATGTAG
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
51 1 0.01
52 73 0.97
53 1 0.01
ACGTcount: A:0.21, C:0.16, G:0.27, T:0.36
Consensus pattern (52 bp):
TTATTTAGCAGGCCTTAAGCCAGTGTATATTTAGCAGGCCTTGAGCCGATGA
Found at i:25300014 original size:26 final size:26
Alignment explanation
Indices: 25299983--25300067 Score: 84
Period size: 26 Copynumber: 3.3 Consensus size: 26
25299973 GAGCCGATGG
25299983 TTATTTAGCAGGACTTAAGTTGGTGT
1 TTATTTAGCAGGACTTAAGTTGGTGT
* ****
25300009 TGATTTAGCA-GACCTTAAACCAGTGT
1 TTATTTAGCAGGA-CTTAAGTTGGTGT
* *
25300035 TTA-TTAGCAGGCCTTGAGTTGGTGT
1 TTATTTAGCAGGACTTAAGTTGGTGT
25300060 TTATTTAG
1 TTATTTAG
25300068 TAGGCCTTGA
Statistics
Matches: 44, Mismatches: 12, Indels: 6
0.71 0.19 0.10
Matches are distributed among these distances:
25 19 0.43
26 25 0.57
ACGTcount: A:0.24, C:0.12, G:0.25, T:0.40
Consensus pattern (26 bp):
TTATTTAGCAGGACTTAAGTTGGTGT
Found at i:25300086 original size:29 final size:28
Alignment explanation
Indices: 25300031--25300107 Score: 76
Period size: 26 Copynumber: 2.9 Consensus size: 28
25300021 CCTTAAACCA
*
25300031 GTGTTTA-TTAGCAGGCCTTGAG---TT
1 GTGTTTATTTAGTAGGCCTTGAGCCATT
25300055 GGTGTTTATTTAGTAGGCCTTGAGCCATT
1 -GTGTTTATTTAGTAGGCCTTGAGCCATT
* *
25300084 G-G-TTATTTAGTAAGCTTTGAGCCA
1 GTGTTTATTTAGTAGGCCTTGAGCCA
25300108 GTGTATGTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
25 7 0.16
26 34 0.76
27 1 0.02
28 1 0.02
29 2 0.04
ACGTcount: A:0.19, C:0.13, G:0.27, T:0.40
Consensus pattern (28 bp):
GTGTTTATTTAGTAGGCCTTGAGCCATT
Found at i:25300090 original size:51 final size:50
Alignment explanation
Indices: 25299963--25300090 Score: 139
Period size: 51 Copynumber: 2.5 Consensus size: 50
25299953 ATACCAGAAA
*
25299963 AGCAAGCCTTGAGCCGATGGTTATTTAGCAGGACTTAAGTTGGTGTTGATTT
1 AGCAGGCCTTGAGCC-ATGGTTA-TTAGCAGGACTTAAGTTGGTGTTGATTT
* * * * * * *
25300015 AGCAGACCTTAAACCAGTGTTTATTAGCAGGCCTTGAGTTGGTGTTTATTT
1 AGCAGGCCTTGAGCCA-TGGTTATTAGCAGGACTTAAGTTGGTGTTGATTT
*
25300066 AGTAGGCCTTGAGCCATTGGTTATT
1 AGCAGGCCTTGAGCCA-TGGTTATT
25300091 TAGTAAGCTT
Statistics
Matches: 61, Mismatches: 14, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
51 45 0.74
52 16 0.26
ACGTcount: A:0.23, C:0.15, G:0.27, T:0.36
Consensus pattern (50 bp):
AGCAGGCCTTGAGCCATGGTTATTAGCAGGACTTAAGTTGGTGTTGATTT
Found at i:25304828 original size:124 final size:124
Alignment explanation
Indices: 25304619--25304861 Score: 373
Period size: 124 Copynumber: 2.0 Consensus size: 124
25304609 ATCGCTTCTA
* * *
25304619 CCAGGATGCTATTTAAGAAGAAATTGTGAAATAGTGGCCTCGTGGACGCGATTTCGCTACAGTGG
1 CCAGGATGCTATATAAGAAGAAATTGTGAAATAGCGCCCTCGTGGACGCGATTTCGCTACAGTGG
*
25304684 TCATGTAAGAAATAA-TTTTTTTTGACGTTTTCTGAGCAAAAAGTATTAAATCGCTAATG
66 TCATGTAAGAAATAACTTTTTTTTGACG-TTTCTGAGCAAAAAGTATAAAATCGCTAATG
* *
25304743 CCAGGATGCTATATGAGAAGAAATTGTGAAATCGCGCCCTCGTGGACGCGATTTCGCTACAGTTG
1 CCAGGATGCTATATAAGAAGAAATTGTGAAATAGCGCCCTCGTGGACGCGATTTCGCTACAG-TG
* * *
25304808 GTCATGTAGGAAAT-ACTTTTTTTTGACGTTTCTGAGCAAATAGTGTAAAATCGC
65 GTCATGTAAGAAATAACTTTTTTTTGACGTTTCTGAGCAAAAAGTATAAAATCGC
25304862 GCCCTCGTGG
Statistics
Matches: 108, Mismatches: 9, Indels: 4
0.89 0.07 0.03
Matches are distributed among these distances:
124 81 0.75
125 27 0.25
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (124 bp):
CCAGGATGCTATATAAGAAGAAATTGTGAAATAGCGCCCTCGTGGACGCGATTTCGCTACAGTGG
TCATGTAAGAAATAACTTTTTTTTGACGTTTCTGAGCAAAAAGTATAAAATCGCTAATG
Found at i:25308218 original size:58 final size:57
Alignment explanation
Indices: 25308083--25308707 Score: 288
Period size: 51 Copynumber: 11.8 Consensus size: 57
25308073 TTTTACATTA
* * * * * *
25308083 ATTAAATTAGGTTAGGGTTAGGGATTTCAAATAAAAT-GATAAATCAGGGTAAGAGTTTTTA
1 ATTAAATTAGGTTAGGGTTAGGGATTTTAATTAAAATAGGT---T-AGGGTTAG-GGTTTTC
25308144 ATTAAATTAGGTTAGGGTTAGGGATTTTAATTAAAATAGGTTAGGGTTAGGGTTTTC
1 ATTAAATTAGGTTAGGGTTAGGGATTTTAATTAAAATAGGTTAGGGTTAGGGTTTTC
* * * * *
25308201 ATGTAAAATAGGTTAGGGTTGGGGTTTTTAATTAAATTAGGTTA-GGTTAGGGATTTC
1 AT-TAAATTAGGTTAGGGTTAGGGATTTTAATTAAAATAGGTTAGGGTTAGGGTTTTC
* * * ** * *
25308258 TATTAAATTAGGTTAGAGTTAGGGTTTTTAATTAAATTAAATTA-GCTTATGG-TTT-
1 -ATTAAATTAGGTTAGGGTTAGGGATTTTAATTAAAATAGGTTAGGGTTAGGGTTTTC
* * * * * *
25308313 -TT-AATTAAGTTA-TGTTAGGGTTTTTAATT---A-A-GTTA-TGTTTGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTAGGGATTTTAATTAAAATAGGTTAGGGTTAGGG-TTTTC
* *
25308362 ATTAAATTAGGTTAGGGTTAGGGTTTTTAATT---A-A-G-TAGGGTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTAGGGATTTTAATTAAAATAGGTTAGGGTTAGGG-TTTTC
* * * *
25308414 ATTAAATTA---T---GTTAGGGTTTTTAATTTAATTAAGTTA-GGTTA-GGTTTT-
1 ATTAAATTAGGTTAGGGTTAGGGATTTTAATTAAAATAGGTTAGGGTTAGGGTTTTC
* * * * *
25308462 -TT-AATTAAGTTA-TGTTAGGGTTTTTAATTAAATTAGGTTAGGG-T----TTTTA
1 ATTAAATTAGGTTAGGGTTAGGGATTTTAATTAAAATAGGTTAGGGTTAGGGTTTTC
*
25308511 ATTAAATTAGGTTAGGGTTAGGGTTTTTAATT---A-A-G-TAGGGTTAGGG-TTT-
1 ATTAAATTAGGTTAGGGTTAGGGATTTTAATTAAAATAGGTTAGGGTTAGGGTTTTC
* * * * * *
25308560 -TT-AATTAAGTT-GTGTTAGGGTTTTTAATTTAATTAAGTTA-GGTTAGGG-TTT-
1 ATTAAATTAGGTTAGGGTTAGGGATTTTAATTAAAATAGGTTAGGGTTAGGGTTTTC
* * * * *
25308611 -TT-AATTAAGTTA-TGTTAGGGTTTTTAATTAAATTAGGTTAGGG-T----TTTTA
1 ATTAAATTAGGTTAGGGTTAGGGATTTTAATTAAAATAGGTTAGGGTTAGGGTTTTC
* * ** *
25308660 ATTAAACTAGGTTAGGGTTAGGGTTTTTAATTAATTTATGTTAGGGTT
1 ATTAAATTAGGTTAGGGTTAGGGATTTTAATTAAAATAGGTTAGGGTT
25308708 TTTAATTTAA
Statistics
Matches: 473, Mismatches: 46, Indels: 98
0.77 0.07 0.16
Matches are distributed among these distances:
46 50 0.11
47 13 0.03
48 13 0.03
49 6 0.01
50 13 0.03
51 126 0.27
52 101 0.21
53 3 0.01
56 3 0.01
57 61 0.13
58 46 0.10
59 1 0.00
61 35 0.07
62 2 0.00
ACGTcount: A:0.29, C:0.01, G:0.24, T:0.46
Consensus pattern (57 bp):
ATTAAATTAGGTTAGGGTTAGGGATTTTAATTAAAATAGGTTAGGGTTAGGGTTTTC
Found at i:25308320 original size:28 final size:28
Alignment explanation
Indices: 25308137--25308894 Score: 558
Period size: 23 Copynumber: 29.5 Consensus size: 28
25308127 CAGGGTAAGA
25308137 GTTTTTAATTAAATTAGGTTAGGGTTAGG
1 GTTTTTAATTAAATTAGGTTA-GGTTAGG
* *
25308166 GATTTTAATTAAAATAGGTTAGGGTTAGG
1 GTTTTTAATTAAATTAGGTTA-GGTTAGG
* * *
25308195 G-TTTTCATGTAAAATAGGTTAGGGTTGGG
1 GTTTTTAAT-TAAATTAGGTTA-GGTTAGG
25308224 GTTTTTAATTAAATTAGGTTAGGTTAGG
1 GTTTTTAATTAAATTAGGTTAGGTTAGG
*
25308252 GATTTCT-ATTAAATTAGGTTAGAGTTAGG
1 G-TTTTTAATTAAATTAGGTTAG-GTTAGG
** * *
25308281 GTTTTTAATTAAATTAAATTAGCTTATG
1 GTTTTTAATTAAATTAGGTTAGGTTAGG
*
25308309 GTTTTTAATT--A--A-GTTATGTTAGG
1 GTTTTTAATTAAATTAGGTTAGGTTAGG
* *
25308332 GTTTTTAATT--A--A-GTTATGTTTGG
1 GTTTTTAATTAAATTAGGTTAGGTTAGG
25308355 GTTTTTAATTAAATTAGGTTAGGGTTAGG
1 GTTTTTAATTAAATTAGGTTA-GGTTAGG
*
25308384 GTTTTTAATT-AAGTA-G---GGTTAGG
1 GTTTTTAATTAAATTAGGTTAGGTTAGG
25308407 GTTTTTAATTAAATTA---T--GTTAGG
1 GTTTTTAATTAAATTAGGTTAGGTTAGG
* *
25308430 GTTTTTAATTTAATTAAGTTAGGTTA-G
1 GTTTTTAATTAAATTAGGTTAGGTTAGG
* *
25308457 G-TTTT--TT-AATTAAGTTATGTTAGG
1 GTTTTTAATTAAATTAGGTTAGGTTAGG
25308481 GTTTTTAATT-AA--A--TTAGGTTAGG
1 GTTTTTAATTAAATTAGGTTAGGTTAGG
25308504 GTTTTTAATTAAATTAGGTTAGGGTTAGG
1 GTTTTTAATTAAATTAGGTTA-GGTTAGG
*
25308533 GTTTTTAATT-AAGTA-G---GGTTAGG
1 GTTTTTAATTAAATTAGGTTAGGTTAGG
*
25308556 GTTTTTAATTAAGTT--G-T--GTTAGG
1 GTTTTTAATTAAATTAGGTTAGGTTAGG
* *
25308579 GTTTTTAATTTAATTAAGTTAGGTTAGG
1 GTTTTTAATTAAATTAGGTTAGGTTAGG
*
25308607 GTTTTTAATT--A--A-GTTATGTTAGG
1 GTTTTTAATTAAATTAGGTTAGGTTAGG
25308630 GTTTTTAATT-AA--A--TTAGGTTAGG
1 GTTTTTAATTAAATTAGGTTAGGTTAGG
*
25308653 GTTTTTAATTAAACTAGGTTAGGGTTAGG
1 GTTTTTAATTAAATTAGGTTA-GGTTAGG
*
25308682 GTTTTTAATT-AA-T---TTATGTTAGG
1 GTTTTTAATTAAATTAGGTTAGGTTAGG
* * *
25308705 GTTTTTAATTTAATTAAG-TAAGTTA-G
1 GTTTTTAATTAAATTAGGTTAGGTTAGG
* *
25308731 G-TTTT--TT-AATTAAGTTATGTTAGG
1 GTTTTTAATTAAATTAGGTTAGGTTAGG
*
25308755 GTTTTTAATT--A--A-GTTATGTTAGG
1 GTTTTTAATTAAATTAGGTTAGGTTAGG
*
25308778 CTTTTTAATT-AA--A--TTAGGTTAGG
1 GTTTTTAATTAAATTAGGTTAGGTTAGG
25308801 GTTTTTAATTAAATTA-GTTAGGGTTAGG
1 GTTTTTAATTAAATTAGGTTA-GGTTAGG
*
25308829 GTTTTTAATT--A--A-GTAAGGTTAGG
1 GTTTTTAATTAAATTAGGTTAGGTTAGG
25308852 GTTTTTAATTAAATTAGGTTAGTGTTAGG
1 GTTTTTAATTAAATTAGGTTAG-GTTAGG
*
25308881 GTTTTTAATCAAAT
1 GTTTTTAATTAAAT
25308895 AATGTCAAAA
Statistics
Matches: 624, Mismatches: 41, Indels: 128
0.79 0.05 0.16
Matches are distributed among these distances:
22 7 0.01
23 265 0.42
24 34 0.05
25 17 0.03
26 15 0.02
27 22 0.04
28 107 0.17
29 151 0.24
30 6 0.01
ACGTcount: A:0.28, C:0.01, G:0.23, T:0.48
Consensus pattern (28 bp):
GTTTTTAATTAAATTAGGTTAGGTTAGG
Found at i:25308405 original size:126 final size:126
Alignment explanation
Indices: 25308212--25308889 Score: 599
Period size: 126 Copynumber: 5.4 Consensus size: 126
25308202 TGTAAAATAG
* * *
25308212 GTTAGGGTTGGGGTTTTTAATTAAATTAGGTTAGGTTAGGGATTTCTATTAAATTAGGTTAGAGT
1 GTTA-GGTTAGGGTTTTTAATTAAATTAGGTTAGGTTAGGG--TT-T-TT-AATTAAGTTAGGGT
* *
25308277 TAGGGTTTTTAATTAAATTAAATTAGCTTATGGTTTTTAATTAAGTTATGTTAGGGTTTTTAATT
60 TAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTTTTAATTAAGTTATGTTAGGGTTTTTAATT
25308342 AA
125 AA
* *
25308344 GTTATGTTTGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAG-TAGGGTTAGGG
1 GTTAGGTTAGGGTTTTTAATTAAATTAGGTTA-GGTTAGGGTTTTTAATTAAGTTAGGGTTAGGG
** * * *
25308408 TTTTTAATTAAATTATGTTAGGGTT---TTTAATTTAATTAAGTTAGGTTAGGTTTTTTAATTAA
65 TTTTTAATTAAATTAAATTA-GGTTAGGGTT--TTTAATTAAGTTATGTTAGGGTTTTTAATTAA
* *
25308470 GTTATGTTAGGGTTTTTAATTAAATTAGGTTAGGGTT----TTTAATTAAATTAGGTTAGGGTTA
1 GTTAGGTTAGGGTTTTTAATTAAATTAGGTTA-GGTTAGGGTTT--TT-AATTAAGTTAGGGTTA
* * *
25308531 GGGTTTTTAATT-AAGT--A--GGGTTAGGGTTTTTAATTAAGTTGTGTTAGGGTTTTTAATTTA
62 GGGTTTTTAATTAAATTAAATTAGGTTAGGGTTTTTAATTAAGTTATGTTAGGG---TT--TTTA
25308591 ATTAA
122 ATTAA
* *
25308596 GTTAGGTTAGGGTTTTTAATT--A--A-GTTATGTTAGGGTTTTTAATTAAATTA-GGTTAGGGT
1 GTTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAGTTAGGGTTAGGGT
* ** *
25308655 TTTTAATTAAACTAGGTTAGGGTTAGGGTTTTTAATTAATTTATGTTAGGGTTTTTAATTTAA
66 TTTTAATTAAATTAAATTA-GGTTAGGGTTTTTAATTAAGTTATGTTAGGGTTTTTAA-TTAA
* * *
25308718 -TTAAGTAAGTTA-GG-TTTT--TT-AATTAAGTTATGTTAGGGTTTTTAATTAAGTTA-TGTTA
1 GTT-AG---GTTAGGGTTTTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAGTTAGGGTTA
* *
25308776 -GG-CTTT--TT-AATTAAATTAGGTTAGGGTTTTTAATTAAATTAGTTAGGGTTAGGGTTTTTA
62 GGGTTTTTAATTAAATTAAATTAGGTTAGGGTTTTTAATT--A--AGTTA-TGTTAGGGTTTTTA
25308836 ATTAA
122 ATTAA
*
25308841 GTAAGGTTAGGGTTTTTAATTAAATTAGGTTAGTGTTAGGGTTTTTAAT
1 GTTAGGTTAGGGTTTTTAATTAAATTAGGTTAG-GTTAGGGTTTTTAAT
25308890 CAAATAATGT
Statistics
Matches: 460, Mismatches: 39, Indels: 100
0.77 0.07 0.17
Matches are distributed among these distances:
119 17 0.04
120 35 0.08
121 47 0.10
122 17 0.04
123 21 0.05
124 32 0.07
125 52 0.11
126 187 0.41
127 9 0.02
128 2 0.00
129 1 0.00
130 2 0.00
131 26 0.06
132 12 0.03
ACGTcount: A:0.28, C:0.01, G:0.23, T:0.49
Consensus pattern (126 bp):
GTTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAGTTAGGGTTAGGGT
TTTTAATTAAATTAAATTAGGTTAGGGTTTTTAATTAAGTTATGTTAGGGTTTTTAATTAA
Found at i:25308439 original size:149 final size:149
Alignment explanation
Indices: 25308275--25308873 Score: 915
Period size: 149 Copynumber: 4.0 Consensus size: 149
25308265 TTAGGTTAGA
* *
25308275 GTTAGGGTTTTTAATTAAATTAAATTAGCTTATGGTTTTTAATTAAGTTATGTTAGGGTTTTTAA
1 GTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTTTTAATTAAGTTATGTTAGGGTTTTTAA
* * *
25308340 TTAAGTTATGTTTGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTAGGGTTA
66 TTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTAGGGTTA
25308405 GGGTTTTTAATTAAATTAT
131 GGGTTTTTAATTAAATTAT
* * *
25308424 GTTAGGGTTTTTAATTTAATTAAGTTAGGTTAGGTTTTTTAATTAAGTTATGTTAGGGTTTTTAA
1 GTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTTTTAATTAAGTTATGTTAGGGTTTTTAA
25308489 TTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTAGGGTTA
66 TTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTAGGGTTA
* *
25308554 GGGTTTTTAATTAAGTTGT
131 GGGTTTTTAATTAAATTAT
* *
25308573 GTTAGGGTTTTTAATTTAATTAAGTTAGGTTAGGGTTTTTAATTAAGTTATGTTAGGGTTTTTAA
1 GTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTTTTAATTAAGTTATGTTAGGGTTTTTAA
* * *
25308638 TTAAATTAGGTTAGGGTTTTTAATTAAACTAGGTTAGGGTTAGGGTTTTTAATTAATTTA-TGTT
66 TTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAA-GTAGGGTT
*
25308702 AGGGTTTTTAATTTAATTAAGT
130 AGGGTTTTTAATTAAATT-A-T
* * *
25308724 AAGTTA-GG-TTTT--TT-AATTAAGTTATGTTAGGGTTTTTAATTAAGTTATGTTAGGCTTTTT
1 --GTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTTTTAATTAAGTTATGTTAGGGTTTTT
*
25308784 AATTAAATTAGGTTAGGGTTTTTAATTAAATTA-GTTAGGGTTAGGGTTTTTAATTAAGTAAGGT
64 AATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTAGGGT
*
25308848 TAGGGTTTTTAATTAAATTAG
129 TAGGGTTTTTAATTAAATTAT
25308869 GTTAG
1 GTTAG
25308874 TGTTAGGGTT
Statistics
Matches: 419, Mismatches: 24, Indels: 19
0.91 0.05 0.04
Matches are distributed among these distances:
143 4 0.01
146 3 0.01
147 44 0.11
148 76 0.18
149 279 0.67
150 2 0.00
151 5 0.01
152 2 0.00
153 4 0.01
ACGTcount: A:0.28, C:0.01, G:0.22, T:0.49
Consensus pattern (149 bp):
GTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTTTTAATTAAGTTATGTTAGGGTTTTTAA
TTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTAGGGTTA
GGGTTTTTAATTAAATTAT
Found at i:25311049 original size:14 final size:15
Alignment explanation
Indices: 25311032--25311065 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
25311022 AATAAATATC
25311032 TAAAAATA-CATAAA
1 TAAAAATATCATAAA
*
25311046 TAAAAATATCTTAAA
1 TAAAAATATCATAAA
25311061 TAAAA
1 TAAAA
25311066 TTTAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAAAATATCATAAA
Found at i:25311292 original size:22 final size:22
Alignment explanation
Indices: 25311262--25311303 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
25311252 ATTTGGAGAT
*
25311262 TTTTTGAAGGAAATTGAGAGGA
1 TTTTGGAAGGAAATTGAGAGGA
*
25311284 TTTTGGAAGGAATTTGAGAG
1 TTTTGGAAGGAAATTGAGAG
25311304 TTTGAGAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (22 bp):
TTTTGGAAGGAAATTGAGAGGA
Found at i:25311311 original size:30 final size:30
Alignment explanation
Indices: 25311275--25311333 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
25311265 TTGAAGGAAA
*
25311275 TTGAGAGGATTTTGGAAGGAATTTGAGAGT
1 TTGAGAGAATTTTGGAAGGAATTTGAGAGT
25311305 TTGAGAGAATTTTGGAAGGAATTTGAGAG
1 TTGAGAGAATTTTGGAAGGAATTTGAGAG
25311334 AAATTTTGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.36, T:0.32
Consensus pattern (30 bp):
TTGAGAGAATTTTGGAAGGAATTTGAGAGT
Found at i:25311329 original size:22 final size:21
Alignment explanation
Indices: 25311305--25311396 Score: 121
Period size: 22 Copynumber: 4.2 Consensus size: 21
25311295 ATTTGAGAGT
*
25311305 TTGAGAGAATTTTGGAAGGAA
1 TTGAGAGAATTTTTGAAGGAA
*
25311326 TTTGAGAGAAATTTTGAAGGGAA
1 -TTGAGAGAATTTTTGAA-GGAA
*
25311349 TTGAGAGAATTTTTTAAAGGAA
1 TTGAGAGAA-TTTTTGAAGGAA
25311371 TTGAGAGAATTTTTGAAGGAAA
1 TTGAGAGAATTTTTGAAGG-AA
25311393 TTGA
1 TTGA
25311397 TATTGAATTT
Statistics
Matches: 62, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
21 9 0.15
22 43 0.69
23 10 0.16
ACGTcount: A:0.39, C:0.00, G:0.28, T:0.33
Consensus pattern (21 bp):
TTGAGAGAATTTTTGAAGGAA
Found at i:25311331 original size:52 final size:51
Alignment explanation
Indices: 25311253--25311355 Score: 129
Period size: 52 Copynumber: 2.0 Consensus size: 51
25311243 TTAATATGGA
* * *
25311253 TTTGGAGATTTTTTGAAGGAAATTGAGAG-GATTTTGGAA-GGAATTTGAGAG
1 TTTGGAGAATTTTGGAAGGAAATTGAGAGAAATTTT-GAAGGGAA-TTGAGAG
*
25311304 TTTGAGAGAATTTTGGAAGGAATTTGAGAGAAATTTTGAAGGGAATTGAGAG
1 TTTG-GAGAATTTTGGAAGGAAATTGAGAGAAATTTTGAAGGGAATTGAGAG
25311356 AATTTTTTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
51 4 0.09
52 32 0.71
53 9 0.20
ACGTcount: A:0.34, C:0.00, G:0.33, T:0.33
Consensus pattern (51 bp):
TTTGGAGAATTTTGGAAGGAAATTGAGAGAAATTTTGAAGGGAATTGAGAG
Found at i:25315311 original size:40 final size:40
Alignment explanation
Indices: 25315266--25315465 Score: 269
Period size: 40 Copynumber: 5.0 Consensus size: 40
25315256 AGATTATTGT
* *
25315266 TTGATTGCACATACGTGCCCCTATTTATACTTCAGTACCC
1 TTGATTGCACATACGTGCCCCTGTTTGTACTTCAGTACCC
* *
25315306 TTGATTGCACACACGTGCCCCTGTTTGTACTTCAATACCC
1 TTGATTGCACATACGTGCCCCTGTTTGTACTTCAGTACCC
* * *
25315346 CTGATTGCACATACGTGTCCCAT-TTTGTACTTCGGTACCC
1 TTGATTGCACATACGTG-CCCCTGTTTGTACTTCAGTACCC
* * *
25315386 CTGATTGCACATACATGCCCCTGTTTATACTTC-GATACCC
1 TTGATTGCACATACGTGCCCCTGTTTGTACTTCAG-TACCC
*
25315426 TTGATTGCACATACGTGTCCCTGTTTGTACTTCAGTACCC
1 TTGATTGCACATACGTGCCCCTGTTTGTACTTCAGTACCC
25315466 CGAATGCACA
Statistics
Matches: 140, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
39 5 0.04
40 130 0.93
41 5 0.04
ACGTcount: A:0.20, C:0.30, G:0.15, T:0.34
Consensus pattern (40 bp):
TTGATTGCACATACGTGCCCCTGTTTGTACTTCAGTACCC
Found at i:25315359 original size:80 final size:80
Alignment explanation
Indices: 25315267--25315475 Score: 296
Period size: 80 Copynumber: 2.6 Consensus size: 80
25315257 GATTATTGTT
* * * *
25315267 TGATTGCACATACGTGCCCCTATTTATACTTCAGTACCCTTGATTGCACACACGTGCCCCTGTTT
1 TGATTGCACATACGTGTCCCTATTTGTACTTCAGTACCCCTGATTGCACACACATGCCCCTGTTT
*
25315332 GTACTTCAATACCCC
66 ATACTTCAATACCCC
* *
25315347 TGATTGCACATACGTGTCCC-ATTTTGTACTTCGGTACCCCTGATTGCACATACATGCCCCTGTT
1 TGATTGCACATACGTGTCCCTA-TTTGTACTTCAGTACCCCTGATTGCACACACATGCCCCTGTT
* *
25315411 TATACTTCGATACCCT
65 TATACTTCAATACCCC
* *
25315427 TGATTGCACATACGTGTCCCTGTTTGTACTTCAGTACCCC-GAATGCACA
1 TGATTGCACATACGTGTCCCTATTTGTACTTCAGTACCCCTGATTGCACA
25315476 TTTGTGCCCT
Statistics
Matches: 115, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
79 9 0.08
80 106 0.92
ACGTcount: A:0.21, C:0.31, G:0.15, T:0.33
Consensus pattern (80 bp):
TGATTGCACATACGTGTCCCTATTTGTACTTCAGTACCCCTGATTGCACACACATGCCCCTGTTT
ATACTTCAATACCCC
Found at i:25320050 original size:31 final size:33
Alignment explanation
Indices: 25320015--25320097 Score: 100
Period size: 31 Copynumber: 2.6 Consensus size: 33
25320005 TTACCCACTA
*
25320015 TTTAAAACTTTTTAAATTTTT-TTAT-ACATTT
1 TTTAAAACTTTTTAAATTTTTATTATGAAATTT
* *
25320046 TTTAAAACTTTTAAAATTTTTATTTTGAAATTT
1 TTTAAAACTTTTTAAATTTTTATTATGAAATTT
*
25320079 TTT-AAACTATTTTATATTT
1 TTTAAAACT-TTTTAAATTT
25320098 AACGCTAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
31 20 0.45
32 8 0.18
33 16 0.36
ACGTcount: A:0.34, C:0.05, G:0.01, T:0.60
Consensus pattern (33 bp):
TTTAAAACTTTTTAAATTTTTATTATGAAATTT
Found at i:25331747 original size:10 final size:10
Alignment explanation
Indices: 25331715--25331748 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
25331705 GATTTGAAAT
25331715 TAATTAATAA
1 TAATTAATAA
*
25331725 TATATTAAAAA
1 TA-ATTAATAA
25331736 TAATTAATAA
1 TAATTAATAA
25331746 TAA
1 TAA
25331749 CATATGAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
TAATTAATAA
Found at i:25331954 original size:20 final size:19
Alignment explanation
Indices: 25331929--25331966 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
25331919 ATCAACAATA
*
25331929 TTATTAATTATATAATATAT
1 TTATTAATAAT-TAATATAT
25331949 TTATTAATAATTAATATA
1 TTATTAATAATTAATATA
25331967 AGAAATAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
TTATTAATAATTAATATAT
Found at i:25335727 original size:25 final size:24
Alignment explanation
Indices: 25335690--25335743 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 24
25335680 GCGCACAAAC
25335690 TATATAAATATAAA-TAAATCAATA
1 TATATAAATATAAATTAAAT-AATA
*
25335714 TATATAAAATATAAATTAAATAATT
1 TATAT-AAATATAAATTAAATAATA
25335739 TATAT
1 TATAT
25335744 TTAAATTGTC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 5 0.19
25 17 0.63
26 5 0.19
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (24 bp):
TATATAAATATAAATTAAATAATA
Found at i:25336197 original size:25 final size:25
Alignment explanation
Indices: 25336159--25336209 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
25336149 AGGAGCAATT
* *
25336159 AAATTCATTTGATTAAAATCAAATC
1 AAATTCATTGGATTAAAATAAAATC
* *
25336184 AAATTGATTGGATTCAAATAAAATC
1 AAATTCATTGGATTAAAATAAAATC
25336209 A
1 A
25336210 GGATATGTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.49, C:0.10, G:0.08, T:0.33
Consensus pattern (25 bp):
AAATTCATTGGATTAAAATAAAATC
Found at i:25343129 original size:6 final size:6
Alignment explanation
Indices: 25343118--25343182 Score: 130
Period size: 6 Copynumber: 10.8 Consensus size: 6
25343108 TTGATGCACT
25343118 TTATTG TTATTG TTATTG TTATTG TTATTG TTATTG TTATTG TTATTG
1 TTATTG TTATTG TTATTG TTATTG TTATTG TTATTG TTATTG TTATTG
25343166 TTATTG TTATTG TTATT
1 TTATTG TTATTG TTATT
25343183 TCAATTGTTT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 59 1.00
ACGTcount: A:0.17, C:0.00, G:0.15, T:0.68
Consensus pattern (6 bp):
TTATTG
Found at i:25350598 original size:5 final size:5
Alignment explanation
Indices: 25350588--25350614 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
25350578 GAGTTGAGCT
25350588 GACCA GACCA GACCA GACCA GACCA GA
1 GACCA GACCA GACCA GACCA GACCA GA
25350615 GCGGGGTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.41, C:0.37, G:0.22, T:0.00
Consensus pattern (5 bp):
GACCA
Found at i:25351051 original size:16 final size:16
Alignment explanation
Indices: 25351030--25351065 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
25351020 TTTGGTTCGC
25351030 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
25351046 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
25351062 TGTA
1 TGTA
25351066 ATAGCAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:25351397 original size:153 final size:152
Alignment explanation
Indices: 25351214--25351499 Score: 491
Period size: 153 Copynumber: 1.9 Consensus size: 152
25351204 TTGGTAAATG
* *
25351214 ATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTATTATCAATAATAAATATTTTAATCAT
1 ATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCAT
* * *
25351279 ATTTAAACATAATTATTATTAAACCCATTTTAATTAAAATATATAATTTCATAAAATTCTTAATA
66 ATTTAAACAT-ATTATTATTAAACACATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
25351344 ATTAGCAGAAATTTGATTTGGTA
130 ATTAGCAGAAATTTGATTTGGTA
25351367 ATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCAT
1 ATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCAT
* * *
25351432 ATTTAAACATATTTTTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
66 ATTTAAACATATTATTATTAAACACATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
25351497 TTA
131 TTA
25351500 ATATTCTTAT
Statistics
Matches: 125, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
152 52 0.42
153 73 0.58
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.47
Consensus pattern (152 bp):
ATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCAT
ATTTAAACATATTATTATTAAACACATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
TTAGCAGAAATTTGATTTGGTA
Found at i:25351481 original size:14 final size:15
Alignment explanation
Indices: 25351434--25351483 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
25351424 TTAATCATAT
* * *
25351434 TTAAACATATTTTTA
1 TTAAATATATTATAA
25351449 TTAAATATATTATAA
1 TTAAATATATTATAA
25351464 TTAAA-ATA-TATAA
1 TTAAATATATTATAA
*
25351477 TTTAATA
1 TTAAATA
25351484 AAATTCTTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
13 9 0.30
14 4 0.13
15 17 0.57
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (15 bp):
TTAAATATATTATAA
Found at i:25351584 original size:120 final size:121
Alignment explanation
Indices: 25351432--25351727 Score: 476
Period size: 120 Copynumber: 2.5 Consensus size: 121
25351422 ATTTAATCAT
* *
25351432 ATTTAAACAT-ATTTTTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
* *
25351496 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAA
66 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGA-AA
25351553 A-TT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
25351616 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
66 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
* * * *
25351672 ATTTGAA-ATAATTAATATTAAATATATTTTAATT-AAATATATGATTTAATACAATT
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
25351728 TAAAATAATT
Statistics
Matches: 165, Mismatches: 7, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
119 28 0.17
120 134 0.81
121 3 0.02
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (121 bp):
ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
Found at i:25351601 original size:14 final size:15
Alignment explanation
Indices: 25351552--25351603 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
25351542 GTAAAATATA
25351552 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
25351567 TATTAAATATATTAT
1 AATTAAATATATTAT
25351582 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
25351595 AATTTAATA
1 AATTAAATA
25351604 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:25355242 original size:13 final size:13
Alignment explanation
Indices: 25355224--25355250 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
25355214 TAAAAACAAC
25355224 TATATTGTTTAAA
1 TATATTGTTTAAA
25355237 TATATTGTTTAAA
1 TATATTGTTTAAA
25355250 T
1 T
25355251 TAAACCGAAA
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:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (13 bp):
TATATTGTTTAAA
Found at i:25362984 original size:26 final size:26
Alignment explanation
Indices: 25362948--25362999 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
25362938 ATATAGTGCC
25362948 ATTCAACTCAATTCAATTTCATTTAA
1 ATTCAACTCAATTCAATTTCATTTAA
25362974 ATTCAACTCAATTCAATTTCATTTAA
1 ATTCAACTCAATTCAATTTCATTTAA
25363000 TCATTTAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.19, G:0.00, T:0.42
Consensus pattern (26 bp):
ATTCAACTCAATTCAATTTCATTTAA
Found at i:25364480 original size:67 final size:67
Alignment explanation
Indices: 25364372--25364568 Score: 385
Period size: 67 Copynumber: 2.9 Consensus size: 67
25364362 AAATATGAAG
*
25364372 AAGATGACTACTTTGGTCATGTTTTAATATTTAGTAATTTAATTAAAATTTTAACATATAATTAA
1 AAGATGACCACTTTGGTCATGTTTTAATATTTAGTAATTTAATTAAAATTTTAACATATAATTAA
25364437 TT
66 TT
25364439 AAGATGACCACTTTGGTCATGTTTTAATATTTAGTAATTTAATTAAAATTTTAACATATAATTAA
1 AAGATGACCACTTTGGTCATGTTTTAATATTTAGTAATTTAATTAAAATTTTAACATATAATTAA
25364504 TT
66 TT
25364506 AAGATGACCACTTTGGTCATGTTTTAATATTTAGTAATTTAATTAAAATTTTAACATATAATT
1 AAGATGACCACTTTGGTCATGTTTTAATATTTAGTAATTTAATTAAAATTTTAACATATAATT
25364569 TCGCCTTAAC
Statistics
Matches: 129, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 129 1.00
ACGTcount: A:0.39, C:0.07, G:0.09, T:0.45
Consensus pattern (67 bp):
AAGATGACCACTTTGGTCATGTTTTAATATTTAGTAATTTAATTAAAATTTTAACATATAATTAA
TT
Found at i:25367778 original size:17 final size:19
Alignment explanation
Indices: 25367756--25367791 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
25367746 CTAAAATAGT
25367756 AACAAAA-TTA-ACAATAA
1 AACAAAAGTTATACAATAA
25367773 AACAAAAGTTATACAATAA
1 AACAAAAGTTATACAATAA
25367792 TCAAACAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.41
18 3 0.18
19 7 0.41
ACGTcount: A:0.67, C:0.11, G:0.03, T:0.19
Consensus pattern (19 bp):
AACAAAAGTTATACAATAA
Found at i:25367889 original size:21 final size:21
Alignment explanation
Indices: 25367861--25367912 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
25367851 AAAAAACAAG
25367861 AAAATAGCAA-AAAAGGAAAA
1 AAAATAGCAAGAAAAGGAAAA
* *
25367881 AAAACTAGCAAGAACAGTAAAA
1 AAAA-TAGCAAGAAAAGGAAAA
25367903 AAAAGTAGCA
1 AAAA-TAGCA
25367913 GTATTTTTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 4 0.15
21 6 0.22
22 17 0.63
ACGTcount: A:0.67, C:0.10, G:0.15, T:0.08
Consensus pattern (21 bp):
AAAATAGCAAGAAAAGGAAAA
Found at i:25378535 original size:13 final size:13
Alignment explanation
Indices: 25378519--25378547 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
25378509 ATTAGTGTTT
25378519 TTAGGAAATTGCA
1 TTAGGAAATTGCA
25378532 TTAGGAAATTGCA
1 TTAGGAAATTGCA
25378545 TTA
1 TTA
25378548 AAAGGTTTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.38, C:0.07, G:0.21, T:0.34
Consensus pattern (13 bp):
TTAGGAAATTGCA
Found at i:25385369 original size:36 final size:36
Alignment explanation
Indices: 25385314--25385394 Score: 90
Period size: 36 Copynumber: 2.2 Consensus size: 36
25385304 ACATAATGGC
* * * *
25385314 AAATTAATACAGTTTGCCATATTAATACAAATCACA
1 AAATTAACACAATTCGCCATAATAATACAAATCACA
* * *
25385350 AAATTAACACAATTCGCCATAATAATAGAATTCACC
1 AAATTAACACAATTCGCCATAATAATACAAATCACA
*
25385386 AAGTTAACA
1 AAATTAACA
25385395 TGGTTCATAA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.48, C:0.19, G:0.06, T:0.27
Consensus pattern (36 bp):
AAATTAACACAATTCGCCATAATAATACAAATCACA
Found at i:25392353 original size:16 final size:18
Alignment explanation
Indices: 25392325--25392358 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
25392315 TTAGAATTGC
25392325 ATTGAGAAAATT-ATTTA
1 ATTGAGAAAATTAATTTA
25392342 ATTGAG-AAATTAATTTA
1 ATTGAGAAAATTAATTTA
25392359 TTTAAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.41
Consensus pattern (18 bp):
ATTGAGAAAATTAATTTA
Found at i:25399925 original size:6 final size:6
Alignment explanation
Indices: 25399909--25399954 Score: 53
Period size: 5 Copynumber: 8.0 Consensus size: 6
25399899 AAAGAGGGCG
*
25399909 AGAAAA A-AAAA AGAAAA AGGAAAA ACAAAA AG-AAA AG-AAA AGAAAA
1 AGAAAA AGAAAA AGAAAA A-GAAAA AGAAAA AGAAAA AGAAAA AGAAAA
25399955 TCTCTCATGC
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
5 15 0.43
6 14 0.40
7 6 0.17
ACGTcount: A:0.83, C:0.02, G:0.15, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:25400901 original size:153 final size:153
Alignment explanation
Indices: 25400725--25401034 Score: 539
Period size: 153 Copynumber: 2.0 Consensus size: 153
25400715 GGGTTCCATA
* * *
25400725 TTTTCTTCTATTGACATAATTTATCAAGATCTTTTTATTTTCGCTATCTCCATCTTCAGTTTCAA
1 TTTTCTCCTATTGACATAATTTATCAAGATCTTTTTATTTTCACTATCTCCATCTTCAATTTCAA
* *
25400790 GTACTTGAATCTCTTTTGGAGTTTTAATAATTAGTTATGTCTTAGGTCTCTTTTGAAGCACTTAC
66 GTACTTGAATCTCTTTTGGAGTTTTAATAATTAGTCATGTCTTAGGTCTCTTTTGAAGCACTCAC
*
25400855 CTCCACAATATGACCATCTATAT
131 CTCCACAATATGACCATCTATAC
25400878 TTTTCTCCTATTGACATAATTTATCAAGATCTTTTTATTTTCACTATCTCCATCTTCAATTTCAA
1 TTTTCTCCTATTGACATAATTTATCAAGATCTTTTTATTTTCACTATCTCCATCTTCAATTTCAA
* *
25400943 GTACTTGAATCTCTTTTGGAGTTTTAATAATTAGTCATGTCTTGGGTCTCTTTTGAAGCACTCGC
66 GTACTTGAATCTCTTTTGGAGTTTTAATAATTAGTCATGTCTTAGGTCTCTTTTGAAGCACTCAC
*
25401008 CTCCACTATATGACCATCTATAC
131 CTCCACAATATGACCATCTATAC
25401031 TTTT
1 TTTT
25401035 ATTTTCTTTT
Statistics
Matches: 148, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
153 148 1.00
ACGTcount: A:0.24, C:0.20, G:0.10, T:0.45
Consensus pattern (153 bp):
TTTTCTCCTATTGACATAATTTATCAAGATCTTTTTATTTTCACTATCTCCATCTTCAATTTCAA
GTACTTGAATCTCTTTTGGAGTTTTAATAATTAGTCATGTCTTAGGTCTCTTTTGAAGCACTCAC
CTCCACAATATGACCATCTATAC
Found at i:25413033 original size:25 final size:25
Alignment explanation
Indices: 25413004--25413055 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
25412994 CCCTTGATTA
*
25413004 GTTCCAAGCAATCTTTAACAAGGGT
1 GTTCCAAGAAATCTTTAACAAGGGT
25413029 GTTCCAAGAAATCTTTAACAAGGGT
1 GTTCCAAGAAATCTTTAACAAGGGT
25413054 GT
1 GT
25413056 AAAAAGGATG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (25 bp):
GTTCCAAGAAATCTTTAACAAGGGT
Found at i:25419836 original size:27 final size:27
Alignment explanation
Indices: 25419798--25420103 Score: 264
Period size: 27 Copynumber: 11.4 Consensus size: 27
25419788 TGTGATTCAT
*
25419798 GGTAAAATGACTGAAATACCTTCGAAG
1 GGTAAAATGACTGAAATACCCTCGAAG
25419825 GGTAAAATGACTGAAATACCCTCGAAG
1 GGTAAAATGACTGAAATACCCTCGAAG
* *
25419852 GGTAAAATGACTGAAATACCTTCGAAA
1 GGTAAAATGACTGAAATACCCTCGAAG
* ** * *
25419879 GGTAAAATAACCAAAATACCCTCAAAA
1 GGTAAAATGACTGAAATACCCTCGAAG
* ** * *
25419906 GGTAAAATAACCAAAATACCCTCAAAT
1 GGTAAAATGACTGAAATACCCTCGAAG
* *
25419933 GAT-AAATGACTGAAATACCCCCGAAG
1 GGTAAAATGACTGAAATACCCTCGAAG
* ** *
25419959 GGTAAAAT-AATCGAAATACCCTTAAAA
1 GGTAAAATGACT-GAAATACCCTCGAAG
* *
25419986 GGTAAAATAACCGAAATACCCTCGAAG
1 GGTAAAATGACTGAAATACCCTCGAAG
* * *
25420013 GATAAAATGATTGAAATACCC-CCAGAG
1 GGTAAAATGACTGAAATACCCTCGA-AG
* *
25420040 GGTAAAATGA-TCGAAATAACCC-CAAAA
1 GGTAAAATGACT-GAAAT-ACCCTCGAAG
** *
25420067 TATAAAATGACTGAAATACCC-CCATAG
1 GGTAAAATGACTGAAATACCCTCGA-AG
25420094 GGTAAAATGA
1 GGTAAAATGA
25420104 TTGTTATACC
Statistics
Matches: 230, Mismatches: 41, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
26 30 0.13
27 192 0.83
28 8 0.03
ACGTcount: A:0.47, C:0.19, G:0.16, T:0.19
Consensus pattern (27 bp):
GGTAAAATGACTGAAATACCCTCGAAG
Found at i:25420030 original size:107 final size:108
Alignment explanation
Indices: 25419798--25420086 Score: 309
Period size: 107 Copynumber: 2.7 Consensus size: 108
25419788 TGTGATTCAT
* * * * *
25419798 GGTAAAATGACTGAAATACCTTCGAAGGGTAAAATGACTGAAATACCCTCGAAGGGTAAAATGAC
1 GGTAAAATGACTGAAATACCCTCAAAGGATAAAATGACTGAAATACCCCCGAAGGGTAAAATAAC
*
25419863 TGAAATACCTTCGAAAGGTAAAATAACCAAAATACCCTCAAAA
66 TGAAATACCTTCAAAAGGTAAAATAACCAAAATACCCTCAAAA
* ** *
25419906 GGTAAAATAACCAAAATACCCTCAAATGAT-AAATGACTGAAATACCCCCGAAGGGTAAAATAA-
1 GGTAAAATGACTGAAATACCCTCAAAGGATAAAATGACTGAAATACCCCCGAAGGGTAAAATAAC
* *
25419969 TCGAAATACCCTT-AAAAGGTAAAATAACCGAAATACCCTC-GAA
66 T-GAAATA-CCTTCAAAAGGTAAAATAACCAAAATACCCTCAAAA
* * * * * * *** *
25420012 GGATAAAATGATTGAAATACCCCCAGAGGGTAAAATGA-TCGAAATAACCCCAAAATATAAAATG
1 GG-TAAAATGACTGAAATACCCTCAAAGGATAAAATGACT-GAAATACCCCCGAAGGGTAAAATA
25420076 ACTGAAATACC
64 ACTGAAATACC
25420087 CCCATAGGGT
Statistics
Matches: 149, Mismatches: 26, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
106 5 0.03
107 85 0.57
108 58 0.39
109 1 0.01
ACGTcount: A:0.47, C:0.19, G:0.16, T:0.19
Consensus pattern (108 bp):
GGTAAAATGACTGAAATACCCTCAAAGGATAAAATGACTGAAATACCCCCGAAGGGTAAAATAAC
TGAAATACCTTCAAAAGGTAAAATAACCAAAATACCCTCAAAA
Found at i:25420106 original size:81 final size:81
Alignment explanation
Indices: 25419810--25420103 Score: 317
Period size: 81 Copynumber: 3.6 Consensus size: 81
25419800 TAAAATGACT
* * * * * * * **
25419810 GAAATACCTTCGAAGGGTAAAATGACTGAAATACCCTCGAAGGGTAAAATGACTGAAATACCTTC
1 GAAATACCCTCAAAAGGTAAAATAACCGAAATACCCTCCAAGGATAAAATGACTGAAATACCCCC
* *
25419875 GAAAGGTAAAATAACC
66 GAAGGGTAAAATAATC
* * * *
25419891 AAAATACCCTCAAAAGGTAAAATAACCAAAATACCCTCAAATGAT-AAATGACTGAAATACCCCC
1 GAAATACCCTCAAAAGGTAAAATAACCGAAATACCCTCCAAGGATAAAATGACTGAAATACCCCC
25419955 GAAGGGTAAAATAATC
66 GAAGGGTAAAATAATC
* * *
25419971 GAAATACCCTTAAAAGGTAAAATAACCGAAATACCCTCGAAGGATAAAATGATTGAAATACCCCC
1 GAAATACCCTCAAAAGGTAAAATAACCGAAATACCCTCCAAGGATAAAATGACTGAAATACCCCC
*
25420036 -AGAGGGTAAAATGATC
66 GA-AGGGTAAAATAATC
** * * *
25420052 GAAATAACCC-CAAAATATAAAATGACTGAAATACCC-CCATAGGGTAAAATGA
1 GAAAT-ACCCTCAAAAGGTAAAATAACCGAAATACCCTCCA-AGGATAAAATGA
25420104 TTGTTATACC
Statistics
Matches: 181, Mismatches: 28, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
80 74 0.41
81 103 0.57
82 4 0.02
ACGTcount: A:0.47, C:0.19, G:0.16, T:0.18
Consensus pattern (81 bp):
GAAATACCCTCAAAAGGTAAAATAACCGAAATACCCTCCAAGGATAAAATGACTGAAATACCCCC
GAAGGGTAAAATAATC
Found at i:25423670 original size:35 final size:35
Alignment explanation
Indices: 25423603--25423672 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 35
25423593 CTGATCAGCA
* * *
25423603 TTGGGCACATATTACTTCGGACGTTCCTATGAGTG
1 TTGGGCACACATTACTTCGAACGTTACTATGAGTG
*
25423638 TTGGGCACACATTACTTCGAATG-TACTGATGAGTG
1 TTGGGCACACATTACTTCGAACGTTACT-ATGAGTG
25423673 CTAGGTGCAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
34 3 0.10
35 27 0.90
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.33
Consensus pattern (35 bp):
TTGGGCACACATTACTTCGAACGTTACTATGAGTG
Found at i:25423706 original size:70 final size:70
Alignment explanation
Indices: 25423610--25423740 Score: 181
Period size: 70 Copynumber: 1.9 Consensus size: 70
25423600 GCATTGGGCA
* * * * * *
25423610 CATATTACTTCGGACGTTCCTATGAGTGTTGGGCACACATTACTTCGAATGTACTGATGAGTGCT
1 CATATTACTTCAGACATTCCGATGAGTGCTGAGCACACATTACTTCGAATGTACCGATGAGTGCT
25423675 AGGTG
66 AGGTG
* * *
25423680 CATATTACTTCAGACATTCCGATGAGTGCTGAGCACTCATTACTTTGGATGTACCGATGAG
1 CATATTACTTCAGACATTCCGATGAGTGCTGAGCACACATTACTTCGAATGTACCGATGAG
25423741 CACTGGGTGA
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
70 52 1.00
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (70 bp):
CATATTACTTCAGACATTCCGATGAGTGCTGAGCACACATTACTTCGAATGTACCGATGAGTGCT
AGGTG
Found at i:25423722 original size:35 final size:34
Alignment explanation
Indices: 25423613--25423724 Score: 86
Period size: 35 Copynumber: 3.2 Consensus size: 34
25423603 TTGGGCACAT
* * * * *
25423613 ATTACTTCGGACGTTCCTATGAGTGTTGGGCACAC
1 ATTACTTC-GACATTCCGATGAGTGCTGAGCACTC
* *
25423648 ATTACTTCGA-ATGTACTGATGAGTGCTAGGTGCA-T-
1 ATTACTTCGACAT-T-CCGATGAGTGCT--GAGCACTC
25423683 ATTACTTCAGACATTCCGATGAGTGCTGAGCACTC
1 ATTACTTC-GACATTCCGATGAGTGCTGAGCACTC
25423718 ATTACTT
1 ATTACTT
25423725 TGGATGTACC
Statistics
Matches: 61, Mismatches: 8, Indels: 16
0.72 0.09 0.19
Matches are distributed among these distances:
33 5 0.08
34 4 0.07
35 43 0.70
36 3 0.05
37 6 0.10
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.33
Consensus pattern (34 bp):
ATTACTTCGACATTCCGATGAGTGCTGAGCACTC
Found at i:25437207 original size:17 final size:16
Alignment explanation
Indices: 25437164--25437210 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
25437154 TACTTAACAA
25437164 AAGAGTTCGCCAAACC
1 AAGAGTTCGCCAAACC
*
25437180 ACAGA-TCTCGCCAAAGCT
1 A-AGAGT-TCGCCAAA-CC
25437198 AAGAGTTCGCCAA
1 AAGAGTTCGCCAA
25437211 TTGGCGTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
16 2 0.08
17 21 0.81
18 3 0.12
ACGTcount: A:0.36, C:0.30, G:0.19, T:0.15
Consensus pattern (16 bp):
AAGAGTTCGCCAAACC
Found at i:25439705 original size:17 final size:16
Alignment explanation
Indices: 25439679--25439712 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 16
25439669 ATGAACATTT
25439679 AAAACCATTAAGAAAC
1 AAAACCATTAAGAAAC
25439695 AAAAGCCATTAAGAAAC
1 AAAA-CCATTAAGAAAC
25439712 A
1 A
25439713 GACATTCTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.62, C:0.18, G:0.09, T:0.12
Consensus pattern (16 bp):
AAAACCATTAAGAAAC
Found at i:25444414 original size:30 final size:30
Alignment explanation
Indices: 25444378--25444438 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
25444368 CATCTATTAT
25444378 CACAACTCGTAAAATTACGAACAAAAAAAA
1 CACAACTCGTAAAATTACGAACAAAAAAAA
25444408 CACAACTCGTAAAATTACGAACAAAAAAAA
1 CACAACTCGTAAAATTACGAACAAAAAAAA
25444438 C
1 C
25444439 CCAATGAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.59, C:0.21, G:0.07, T:0.13
Consensus pattern (30 bp):
CACAACTCGTAAAATTACGAACAAAAAAAA
Found at i:25446489 original size:19 final size:20
Alignment explanation
Indices: 25446448--25446489 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
25446438 ATTTCTATGC
* *
25446448 CATTGTAATATTTATTATTG
1 CATTGTAATATTTAATATAG
25446468 CATTGT-ATATTTAATATAG
1 CATTGTAATATTTAATATAG
25446487 CAT
1 CAT
25446490 CACATCATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.33, C:0.07, G:0.10, T:0.50
Consensus pattern (20 bp):
CATTGTAATATTTAATATAG
Found at i:25451584 original size:20 final size:20
Alignment explanation
Indices: 25451559--25451617 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 20
25451549 TTTTTAAAAT
25451559 AAAATATTAAATTTAAATTA
1 AAAATATTAAATTTAAATTA
**
25451579 AAAATAAAAAATTATAATATTA
1 AAAATATTAAATT-TAA-ATTA
*
25451601 AATAT-TTAAATATTAAA
1 AAAATATTAAAT-TTAAA
25451618 AAAGTATTGA
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
20 12 0.39
21 10 0.32
22 9 0.29
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
AAAATATTAAATTTAAATTA
Found at i:25451929 original size:15 final size:15
Alignment explanation
Indices: 25451909--25451939 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
25451899 ATTTTTTAGA
25451909 ATTTTAGAATTATAT
1 ATTTTAGAATTATAT
*
25451924 ATTTTAGAATTTTAT
1 ATTTTAGAATTATAT
25451939 A
1 A
25451940 AAAAAATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (15 bp):
ATTTTAGAATTATAT
Found at i:25452129 original size:26 final size:26
Alignment explanation
Indices: 25452100--25452150 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
25452090 AATAAATTAT
* *
25452100 AATTTTTTCTAGATTATATATATTTA
1 AATTTTTTATACATTATATATATTTA
*
25452126 AATTTTTTATACATTTTATATATTT
1 AATTTTTTATACATTATATATATTT
25452151 TTAATATGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (26 bp):
AATTTTTTATACATTATATATATTTA
Found at i:25452152 original size:45 final size:43
Alignment explanation
Indices: 25452078--25452171 Score: 100
Period size: 45 Copynumber: 2.1 Consensus size: 43
25452068 GTGAATTTTT
*
25452078 TTTATAATTTTTAATAAATTATAATTTTTTCTAGAT-TATATATA
1 TTTA-AATTTTTAATAAATTATAATTTTTT-AAGATGTATATATA
* * * *
25452122 TTTAAATTTTTTATACATTTTATATATTTTTAATATGTATATATA
1 TTTAAATTTTTAATAAATTATA-AT-TTTTTAAGATGTATATATA
25452167 TTTAA
1 TTTAA
25452172 TAAAAGAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
43 15 0.36
44 9 0.21
45 18 0.43
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (43 bp):
TTTAAATTTTTAATAAATTATAATTTTTTAAGATGTATATATA
Found at i:25458193 original size:59 final size:59
Alignment explanation
Indices: 25458121--25458236 Score: 196
Period size: 59 Copynumber: 2.0 Consensus size: 59
25458111 TGATAAAAGA
* * *
25458121 ATGTCTCTCACAGGTTACGTCTTTACTATTAGTGGTTGGGCCATAGTTGGAAAGTCGTT
1 ATGTCTCTCACAGGGTACGTCTTTACTACTAGGGGTTGGGCCATAGTTGGAAAGTCGTT
*
25458180 ATGTCTCTCACAGGGTACGTCTTTACTACTGGGGGTTGGGCCATAGTTGGAAAGTCG
1 ATGTCTCTCACAGGGTACGTCTTTACTACTAGGGGTTGGGCCATAGTTGGAAAGTCG
25458237 CTTTGCAGAC
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
59 53 1.00
ACGTcount: A:0.20, C:0.18, G:0.28, T:0.34
Consensus pattern (59 bp):
ATGTCTCTCACAGGGTACGTCTTTACTACTAGGGGTTGGGCCATAGTTGGAAAGTCGTT
Found at i:25459764 original size:22 final size:22
Alignment explanation
Indices: 25459738--25459811 Score: 78
Period size: 22 Copynumber: 3.3 Consensus size: 22
25459728 TTAGTTTACC
25459738 TATATTTTGTCTTCTTTGCATA
1 TATATTTTGTCTTCTTTGCATA
* * **
25459760 TATATTATT-TTTTATTTGTTTA
1 TATATT-TTGTCTTCTTTGCATA
25459782 CCTATATTTTGTCTTCTTTGCATA
1 --TATATTTTGTCTTCTTTGCATA
25459806 TATATT
1 TATATT
25459812 ATTTTTTATT
Statistics
Matches: 40, Mismatches: 8, Indels: 8
0.71 0.14 0.14
Matches are distributed among these distances:
22 21 0.52
23 4 0.10
24 15 0.38
ACGTcount: A:0.20, C:0.11, G:0.07, T:0.62
Consensus pattern (22 bp):
TATATTTTGTCTTCTTTGCATA
Found at i:25459798 original size:46 final size:46
Alignment explanation
Indices: 25459731--25459824 Score: 188
Period size: 46 Copynumber: 2.0 Consensus size: 46
25459721 TCCTAAGTTA
25459731 GTTTACCTATATTTTGTCTTCTTTGCATATATATTATTTTTTATTT
1 GTTTACCTATATTTTGTCTTCTTTGCATATATATTATTTTTTATTT
25459777 GTTTACCTATATTTTGTCTTCTTTGCATATATATTATTTTTTATTT
1 GTTTACCTATATTTTGTCTTCTTTGCATATATATTATTTTTTATTT
25459823 GT
1 GT
25459825 CAAGAGACAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.19, C:0.11, G:0.07, T:0.63
Consensus pattern (46 bp):
GTTTACCTATATTTTGTCTTCTTTGCATATATATTATTTTTTATTT
Found at i:25459801 original size:24 final size:24
Alignment explanation
Indices: 25459731--25459801 Score: 76
Period size: 24 Copynumber: 3.0 Consensus size: 24
25459721 TCCTAAGTTA
25459731 GTTTACCTATATTTTGTCTTCTTT
1 GTTTACCTATATTTTGTCTTCTTT
** * *
25459755 GCATA--TATATTATT-TTTTATTT
1 GTTTACCTATATT-TTGTCTTCTTT
25459777 GTTTACCTATATTTTGTCTTCTTT
1 GTTTACCTATATTTTGTCTTCTTT
25459801 G
1 G
25459802 CATATATATT
Statistics
Matches: 35, Mismatches: 8, Indels: 8
0.69 0.16 0.16
Matches are distributed among these distances:
22 15 0.43
23 4 0.11
24 16 0.46
ACGTcount: A:0.17, C:0.13, G:0.08, T:0.62
Consensus pattern (24 bp):
GTTTACCTATATTTTGTCTTCTTT
Found at i:25459823 original size:22 final size:22
Alignment explanation
Indices: 25459752--25459823 Score: 74
Period size: 22 Copynumber: 3.2 Consensus size: 22
25459742 TTTTGTCTTC
25459752 TTTGCATATATATTATTTTTTA
1 TTTGCATATATATTATTTTTTA
** * *
25459774 TTTGTTTACCTATATT-TTGTCTTC
1 TTTGCATA--TATATTATT-TTTTA
25459798 TTTGCATATATATTATTTTTTA
1 TTTGCATATATATTATTTTTTA
25459820 TTTG
1 TTTG
25459824 TCAAGAGACA
Statistics
Matches: 38, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
22 19 0.50
23 4 0.11
24 15 0.39
ACGTcount: A:0.21, C:0.08, G:0.07, T:0.64
Consensus pattern (22 bp):
TTTGCATATATATTATTTTTTA
Found at i:25461971 original size:29 final size:29
Alignment explanation
Indices: 25461939--25461994 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
25461929 AAAGCACTTT
25461939 TTTTTCAA-AATTTACCGAAATGGGCCACA
1 TTTTT-AATAATTTACCGAAATGGGCCACA
* *
25461968 TTTTTAATTATTTACCGGAATGGGCCA
1 TTTTTAATAATTTACCGAAATGGGCCA
25461995 TTTCCGCGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 2 0.08
29 22 0.92
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (29 bp):
TTTTTAATAATTTACCGAAATGGGCCACA
Found at i:25471874 original size:28 final size:28
Alignment explanation
Indices: 25471834--25471887 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
25471824 TGAACCTACA
25471834 AACAACTTGTACATTTAACCAAGACCAT
1 AACAACTTGTACATTTAACCAAGACCAT
25471862 AACAACTTGTACATTTAACCAAGACC
1 AACAACTTGTACATTTAACCAAGACC
25471888 TTAAAACATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.43, C:0.26, G:0.07, T:0.24
Consensus pattern (28 bp):
AACAACTTGTACATTTAACCAAGACCAT
Found at i:25475999 original size:20 final size:20
Alignment explanation
Indices: 25475974--25476013 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
25475964 TTTCAATGAG
25475974 AAGGTCCACAAATAAATTAA
1 AAGGTCCACAAATAAATTAA
25475994 AAGGTCCACAAATAAATTAA
1 AAGGTCCACAAATAAATTAA
25476014 CTTAACCATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.55, C:0.15, G:0.10, T:0.20
Consensus pattern (20 bp):
AAGGTCCACAAATAAATTAA
Found at i:25479519 original size:46 final size:45
Alignment explanation
Indices: 25479442--25479578 Score: 150
Period size: 46 Copynumber: 3.0 Consensus size: 45
25479432 ACAATGTTAT
* * *
25479442 AACTCAGTATGATTTTCTTCACTGAAATACCATACCTACT-TTTCAC
1 AACTCAGTATGGTTTTCTT-ACTGAAATACCATACCTA-TGTTCCAA
* * *
25479488 AACTCAATATGGTTTTCATTATTGAAGTACCATACCTATGTTCCAA
1 AACTCAGTATGGTTTTC-TTACTGAAATACCATACCTATGTTCCAA
* * *
25479534 AAATCAGTATGGATTTCTTTACTGAATTACCATACCTATGTTCCA
1 AACTCAGTATGGTTTTC-TTACTGAAATACCATACCTATGTTCCA
25479579 TACTTTGCCA
Statistics
Matches: 77, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
45 1 0.01
46 74 0.96
47 2 0.03
ACGTcount: A:0.31, C:0.22, G:0.09, T:0.37
Consensus pattern (45 bp):
AACTCAGTATGGTTTTCTTACTGAAATACCATACCTATGTTCCAA
Found at i:25484046 original size:43 final size:43
Alignment explanation
Indices: 25483978--25484064 Score: 140
Period size: 43 Copynumber: 2.0 Consensus size: 43
25483968 TTCAAAGTAT
*
25483978 GTTAAATCACACCATCTAACGTTCAACCAATATG-CTTAACATA
1 GTTAAATCACACCATCTAACATTCAACCAATATGTC-TAACATA
*
25484021 GTTAAATCACACCATTTAACATTCAACCAATATGTCTAACATA
1 GTTAAATCACACCATCTAACATTCAACCAATATGTCTAACATA
25484064 G
1 G
25484065 ACACCTCAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
43 40 0.98
44 1 0.02
ACGTcount: A:0.40, C:0.24, G:0.07, T:0.29
Consensus pattern (43 bp):
GTTAAATCACACCATCTAACATTCAACCAATATGTCTAACATA
Found at i:25484689 original size:37 final size:37
Alignment explanation
Indices: 25484608--25484682 Score: 96
Period size: 37 Copynumber: 2.0 Consensus size: 37
25484598 GAAATATACT
* *** *
25484608 AGATGCTCATAAGAGCTAATCCACTTGATAACATGCC
1 AGATGCTCATAAGAGCCAATCCACCCAATAACACGCC
*
25484645 AGATGCTCATAAGAGCCAATTCACCCAATAACACGCC
1 AGATGCTCATAAGAGCCAATCCACCCAATAACACGCC
25484682 A
1 A
25484683 ATTGCTCCTA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.37, C:0.28, G:0.15, T:0.20
Consensus pattern (37 bp):
AGATGCTCATAAGAGCCAATCCACCCAATAACACGCC
Found at i:25487045 original size:26 final size:28
Alignment explanation
Indices: 25487001--25487053 Score: 92
Period size: 26 Copynumber: 2.0 Consensus size: 28
25486991 AAAGTTAATT
25487001 CAATTAAACAAATAAATTACATAAAATG
1 CAATTAAACAAATAAATTACATAAAATG
25487029 CAATT-AA-AAATAAATTACATAAAAT
1 CAATTAAACAAATAAATTACATAAAAT
25487054 TAGTTGAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 18 0.72
27 2 0.08
28 5 0.20
ACGTcount: A:0.62, C:0.09, G:0.02, T:0.26
Consensus pattern (28 bp):
CAATTAAACAAATAAATTACATAAAATG
Found at i:25495339 original size:22 final size:22
Alignment explanation
Indices: 25495314--25495356 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
25495304 AACTTAATTC
*
25495314 ACATTTATTGATTGAATGTAAT
1 ACATTTATTAATTGAATGTAAT
25495336 ACATTTATTAATTGAATGTAA
1 ACATTTATTAATTGAATGTAA
25495357 AGGAGCTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.40, C:0.05, G:0.12, T:0.44
Consensus pattern (22 bp):
ACATTTATTAATTGAATGTAAT
Found at i:25501196 original size:22 final size:22
Alignment explanation
Indices: 25501166--25501208 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
25501156 ACACCAAAAC
* *
25501166 AGGCTTTTAGCGGTGCTTTTTT
1 AGGCATTTAGCGGCGCTTTTTT
25501188 AGGCATTTAGCGGCGCTTTTT
1 AGGCATTTAGCGGCGCTTTTT
25501209 AGCGCCGCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.12, C:0.16, G:0.28, T:0.44
Consensus pattern (22 bp):
AGGCATTTAGCGGCGCTTTTTT
Found at i:25501371 original size:43 final size:42
Alignment explanation
Indices: 25501324--25501486 Score: 220
Period size: 43 Copynumber: 3.8 Consensus size: 42
25501314 AGACCAAAAG
* **
25501324 CTTTAGCGATGCTTTCACC-ACAAAATCCGCTAAAGGTCATGGT
1 CTTTAGCGACGC-TT-ACCAACAAACGCCGCTAAAGGTCATGGT
*
25501367 CTTTAGCGGCGCTTACCATACAAACGCCGCTAAAGGTCATGGT
1 CTTTAGCGACGCTTACCA-ACAAACGCCGCTAAAGGTCATGGT
* *
25501410 CTTTAGCGGCGCTTACCAAACAAACGCCGCTAAAGGTCATGGA
1 CTTTAGCGACGCTTACC-AACAAACGCCGCTAAAGGTCATGGT
25501453 CTTTAGCGACGCTTACCAAACAAACGCCGCTAAA
1 CTTTAGCGACGCTTACC-AACAAACGCCGCTAAA
25501487 AACCCTGATA
Statistics
Matches: 111, Mismatches: 6, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
41 3 0.03
42 2 0.02
43 105 0.95
44 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (42 bp):
CTTTAGCGACGCTTACCAACAAACGCCGCTAAAGGTCATGGT
Found at i:25501398 original size:86 final size:85
Alignment explanation
Indices: 25501302--25501486 Score: 221
Period size: 86 Copynumber: 2.2 Consensus size: 85
25501292 TTATTTCTAA
* *
25501302 AAACGCCGCTAAAGACCAAAAG-CTTTAGCGATGCTTTCACC-ACAAAATCCGCTAAAGGTCATG
1 AAACGCCGCTAAAGACC-AAAGTCTTTAGCGACGC-TT-ACCAACAAAAGCCGCTAAAGGTCATG
* * *
25501365 GTCTTTAGCGGCGCTTACCATAC
63 GACTTTAGCGACGCTTACCAAAC
** ** * *
25501388 AAACGCCGCTAAAGGTCATGGTCTTTAGCGGCGCTTACCAAACAAACGCCGCTAAAGGTCATGGA
1 AAACGCCGCTAAAGACCAAAGTCTTTAGCGACGCTTACC-AACAAAAGCCGCTAAAGGTCATGGA
25501453 CTTTAGCGACGCTTACCAAAC
65 CTTTAGCGACGCTTACCAAAC
25501474 AAACGCCGCTAAA
1 AAACGCCGCTAAA
25501487 AACCCTGATA
Statistics
Matches: 85, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
84 3 0.04
85 4 0.05
86 78 0.92
ACGTcount: A:0.32, C:0.28, G:0.20, T:0.20
Consensus pattern (85 bp):
AAACGCCGCTAAAGACCAAAGTCTTTAGCGACGCTTACCAACAAAAGCCGCTAAAGGTCATGGAC
TTTAGCGACGCTTACCAAAC
Found at i:25501501 original size:43 final size:43
Alignment explanation
Indices: 25501350--25501509 Score: 223
Period size: 43 Copynumber: 3.7 Consensus size: 43
25501340 ACCACAAAAT
* *
25501350 CCGCTAAAGGTCATGGTCTTTAGCGGCGCTTACCATACAAACG
1 CCGCTAAAGGTCATGATCTTTAGCGGCGCTTACCAAACAAACG
*
25501393 CCGCTAAAGGTCATGGTCTTTAGCGGCGCTTACCAAACAAACG
1 CCGCTAAAGGTCATGATCTTTAGCGGCGCTTACCAAACAAACG
*
25501436 CCGCTAAAGGTCATGGA-CTTTAGCGACGCTTACCAAACAAACG
1 CCGCTAAAGGTCAT-GATCTTTAGCGGCGCTTACCAAACAAACG
*** * *
25501479 CCGCTAAAAACCCTGATATTTAGCGGCGCTT
1 CCGCTAAAGGTCATGATCTTTAGCGGCGCTT
25501510 CTCTCGAAAA
Statistics
Matches: 106, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
42 2 0.02
43 103 0.97
44 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (43 bp):
CCGCTAAAGGTCATGATCTTTAGCGGCGCTTACCAAACAAACG
Found at i:25501552 original size:86 final size:86
Alignment explanation
Indices: 25501350--25501578 Score: 196
Period size: 86 Copynumber: 2.7 Consensus size: 86
25501340 ACCACAAAAT
** * * *** * *
25501350 CCGCTAAAGGTCATGGTCTTTAGCGGCGCTTACCATACAAACGCCGCTAAAGGTCATGGTCTTTA
1 CCGCTAAAGACCATGATCTTTAGCGGCGCTTACCAAACAAACGCCGCTAAAAACCATGATATTTA
25501415 GCGGCGCTTACCAAACAAACG
66 GCGGCGCTTACCAAACAAACG
** * *
25501436 CCGCTAAAGGTCATGGA-CTTTAGCGACGCTTACCAAACAAACGCCGCTAAAAACCCTGATATTT
1 CCGCTAAAGACCAT-GATCTTTAGCGGCGCTTACCAAACAAACGCCGCTAAAAACCATGATATTT
**
25501500 AGCGGCGCTT-CTCTCGA-AAACG
65 AGCGGCGCTTAC-C-AAACAAACG
* * * * * * *
25501522 CCGTTGAAGACCATGATCTTTAGTGGCGCTTTTCC-CACAAACGCCACTAAAGACCAT
1 CCGCTAAAGACCATGATCTTTAGCGGCGC-TTACCAAACAAACGCCGCTAAAAACCAT
25501579 TACCTTTAGT
Statistics
Matches: 116, Mismatches: 22, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
85 3 0.03
86 107 0.92
87 6 0.05
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (86 bp):
CCGCTAAAGACCATGATCTTTAGCGGCGCTTACCAAACAAACGCCGCTAAAAACCATGATATTTA
GCGGCGCTTACCAAACAAACG
Found at i:25501564 original size:43 final size:44
Alignment explanation
Indices: 25501302--25501597 Score: 135
Period size: 43 Copynumber: 6.9 Consensus size: 44
25501292 TTATTTCTAA
** * * ** *
25501302 AAACGCCGCTAAAGACCAAAAGCTTTAGCGATGC-TTTCACCAC
1 AAACGCCGCTAAAGACCATGATCTTTAGTGGCGCTTTTCTCCAC
** ** * * * *
25501345 AAAATCCGCTAAAGGTCATGGTCTTTAGCGGCGC-TTAC-CATAC
1 AAACGCCGCTAAAGACCATGATCTTTAGTGGCGCTTTTCTC-CAC
** * * * *
25501388 AAACGCCGCTAAAGGTCATGGTCTTTAGCGGCGC-TTAC-CAAAC
1 AAACGCCGCTAAAGACCATGATCTTTAGTGGCGCTTTTCTC-CAC
** * * * *
25501431 AAACGCCGCTAAAGGTCATGGA-CTTTAGCGACGC-TTAC-CAAAC
1 AAACGCCGCTAAAGACCAT-GATCTTTAGTGGCGCTTTTCTC-CAC
* * * * * *
25501474 AAACGCCGCTAAAAACCCTGATATTTAGCGGCGCTTCTCTCGA-
1 AAACGCCGCTAAAGACCATGATCTTTAGTGGCGCTTTTCTCCAC
* *
25501517 AAACGCCGTTGAAGACCATGATCTTTAGTGGCGCTTTTC-CCAC
1 AAACGCCGCTAAAGACCATGATCTTTAGTGGCGCTTTTCTCCAC
* * * *
25501560 AAACGCCACTAAAGACCATTACCTTTAGTGGCGTTTTT
1 AAACGCCGCTAAAGACCATGATCTTTAGTGGCGCTTTT
25501598 TAAAAATGCC
Statistics
Matches: 207, Mismatches: 40, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
42 5 0.02
43 197 0.95
44 4 0.02
45 1 0.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.24
Consensus pattern (44 bp):
AAACGCCGCTAAAGACCATGATCTTTAGTGGCGCTTTTCTCCAC
Found at i:25501737 original size:10 final size:10
Alignment explanation
Indices: 25501718--25501749 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
25501708 AATCTATATT
25501718 ATAT-AATAA
1 ATATCAATAA
25501727 ATATCAATAA
1 ATATCAATAA
25501737 ATATCAATAA
1 ATATCAATAA
25501747 ATA
1 ATA
25501750 AAATAAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.31
Consensus pattern (10 bp):
ATATCAATAA
Found at i:25501758 original size:20 final size:19
Alignment explanation
Indices: 25501718--25501756 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
25501708 AATCTATATT
*
25501718 ATATAATAAATATCAATAA
1 ATATAATAAATATAAATAA
25501737 ATATCAATAAATA-AAATAA
1 ATAT-AATAAATATAAATAA
25501756 A
1 A
25501757 ATTCGTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (19 bp):
ATATAATAAATATAAATAA
Found at i:25502053 original size:66 final size:66
Alignment explanation
Indices: 25501940--25502107 Score: 205
Period size: 66 Copynumber: 2.5 Consensus size: 66
25501930 TTCGCTGCAG
* * * *
25501940 CCTCTGCTTCTCTCGCTGCCGCATCTACTTTAAGCTGCTGCTAGAGTTCTTCATA-CTTTCGTTG
1 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGTTGCTGCTAGAGTTCTTCATATCTTT-GTTG
25502004 AA
65 AA
* * *
25502006 CCTCAGCTTCTCTTGCTGCTGCATCTGCTTTAAGTTG-TAGCTGGAGTTCTTCATATCTTTTTTG
1 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGTTGCT-GCTAGAGTTCTTCATATCTTTGTTG
25502070 AA
65 AA
* * * *
25502072 CCTCAGCTTCTCTCGATGTTGCCTCCGCTTTAAGTT
1 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGTT
25502108 TTGTAATTTG
Statistics
Matches: 88, Mismatches: 12, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
65 1 0.01
66 83 0.94
67 4 0.05
ACGTcount: A:0.14, C:0.28, G:0.17, T:0.40
Consensus pattern (66 bp):
CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGTTGCTGCTAGAGTTCTTCATATCTTTGTTGA
A
Done.