Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 41 of 216
Found at i:11663144 original size:13 final size:13
Alignment explanation
Indices: 11663128--11663190 Score: 83
Period size: 13 Copynumber: 4.8 Consensus size: 13
11663118 TTTAAATCAA
11663128 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
* *
11663141 ACTTCTCAAAAGT
1 ACTTTTCAAAAGC
*
11663154 ACTTTTCCACAA-C
1 ACTTTT-CAAAAGC
11663167 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
11663180 ACTTTTCAAAA
1 ACTTTTCAAAA
11663191 AATTACCAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
12 4 0.10
13 34 0.81
14 4 0.10
ACGTcount: A:0.38, C:0.25, G:0.05, T:0.32
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:11663958 original size:151 final size:151
Alignment explanation
Indices: 11663673--11663958 Score: 439
Period size: 151 Copynumber: 1.9 Consensus size: 151
11663663 TTTCATGGGT
* * ** * *
11663673 CTGCTCACACAAGCTGTCAGTCTTTTGTTACTACTCAGTGCTGCTCACATAAGCTGTCAGGCATC
1 CTGCTCACACAAGCTGTAAGTCATTCATTACTACTCAGTGCTGCTCACACAAGCTGTCAAGCATC
* *
11663738 CGCAACATATGCCGGTATACCCAGCCACTGGTAGAACTTAAGACCAGCACCCGAGTTCACATTAA
66 CGCAACATATACCGGTATACCCAGCCACTGGTAGAACTTAAGACCAGCACCCGAGTCCACATTAA
11663803 TCACAATTTTGCATCACGAGC
131 TCACAATTTTGCATCACGAGC
* *
11663824 CTGCTCACACAAGCTGTAAGTCATTCATTACTACTCAGTGCTGCTCACACAAGTTGTCAAGTATC
1 CTGCTCACACAAGCTGTAAGTCATTCATTACTACTCAGTGCTGCTCACACAAGCTGTCAAGCATC
* *
11663889 CGCAACATATACCGGTATACCCAGCCACTGGTAGAACTTATGACCAGCACCCG-GATCCACTTTA
66 CGCAACATATACCGGTATACCCAGCCACTGGTAGAACTTAAGACCAGCACCCGAG-TCCACATTA
*
11663953 TTCACA
130 ATCACA
11663959 CTTTCACATA
Statistics
Matches: 121, Mismatches: 13, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
150 1 0.01
151 120 0.99
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.25
Consensus pattern (151 bp):
CTGCTCACACAAGCTGTAAGTCATTCATTACTACTCAGTGCTGCTCACACAAGCTGTCAAGCATC
CGCAACATATACCGGTATACCCAGCCACTGGTAGAACTTAAGACCAGCACCCGAGTCCACATTAA
TCACAATTTTGCATCACGAGC
Found at i:11665761 original size:13 final size:13
Alignment explanation
Indices: 11665745--11665807 Score: 83
Period size: 13 Copynumber: 4.8 Consensus size: 13
11665735 TTTAAACTAA
11665745 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
* *
11665758 ACTTCTCAAAAGT
1 ACTTTTCAAAAGC
*
11665771 ACTTTTCCACAA-C
1 ACTTTT-CAAAAGC
11665784 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
11665797 ACTTTTCAAAA
1 ACTTTTCAAAA
11665808 AAATTACCAA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
12 4 0.10
13 34 0.81
14 4 0.10
ACGTcount: A:0.38, C:0.25, G:0.05, T:0.32
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:11666480 original size:17 final size:18
Alignment explanation
Indices: 11666454--11666487 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
11666444 AAACTAGAGA
11666454 ATAAAAAAATAA-AAATC
1 ATAAAAAAATAAGAAATC
*
11666471 ATAAATAAATAAGAAAT
1 ATAAAAAAATAAGAAAT
11666488 AAAAAGTGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.21
Consensus pattern (18 bp):
ATAAAAAAATAAGAAATC
Found at i:11672391 original size:18 final size:17
Alignment explanation
Indices: 11672364--11672403 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
11672354 AAGAAAAGAT
* *
11672364 ATTTAATATATTTTAAA
1 ATTTAATATAATTAAAA
11672381 ATTTGAATATAATTAAAA
1 ATTT-AATATAATTAAAA
11672399 ATTTA
1 ATTTA
11672404 TTGAAAAGTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (17 bp):
ATTTAATATAATTAAAA
Found at i:11692173 original size:25 final size:25
Alignment explanation
Indices: 11692139--11692186 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
11692129 GTTGTCCATT
* *
11692139 GCTTGGGCCTTGAATAAAATTTTAA
1 GCTTGAGCCTAGAATAAAATTTTAA
*
11692164 GCTTGAGCCTAGCATAAAATTTT
1 GCTTGAGCCTAGAATAAAATTTT
11692187 GTCCAAATTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (25 bp):
GCTTGAGCCTAGAATAAAATTTTAA
Found at i:11692473 original size:22 final size:22
Alignment explanation
Indices: 11692418--11692481 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 22
11692408 ATAAAACAAT
* * *
11692418 AACAACAAAATAGTAGCAATAT
1 AACAACAAAATGGTAGCAAAAC
* *
11692440 AATAACGAAATGGTAGCAAAAC
1 AACAACAAAATGGTAGCAAAAC
*
11692462 AACAACAAAATGGCAGCAAA
1 AACAACAAAATGGTAGCAAA
11692482 CTATTGGGAA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.58, C:0.16, G:0.14, T:0.12
Consensus pattern (22 bp):
AACAACAAAATGGTAGCAAAAC
Found at i:11693480 original size:26 final size:26
Alignment explanation
Indices: 11693451--11693501 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
11693441 ATATATAAAA
11693451 TTATCATAAATG-TAAATATTATTTAG
1 TTATCATAAA-GATAAATATTATTTAG
* *
11693477 TTATCATTAAGATAAGTATTATTTA
1 TTATCATAAAGATAAATATTATTTA
11693502 TTGTAATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 1 0.05
26 21 0.95
ACGTcount: A:0.41, C:0.04, G:0.08, T:0.47
Consensus pattern (26 bp):
TTATCATAAAGATAAATATTATTTAG
Found at i:11695818 original size:26 final size:26
Alignment explanation
Indices: 11695781--11695832 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
11695771 ATTGAATAAA
11695781 AAGGGGTCGCTAAGTGCAGATTCCCC
1 AAGGGGTCGCTAAGTGCAGATTCCCC
* **
11695807 AAGGGGTTGCTAAGTGTTGATTCCCC
1 AAGGGGTCGCTAAGTGCAGATTCCCC
11695833 GAATTATTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.31, T:0.25
Consensus pattern (26 bp):
AAGGGGTCGCTAAGTGCAGATTCCCC
Found at i:11695909 original size:43 final size:43
Alignment explanation
Indices: 11695807--11696123 Score: 310
Period size: 42 Copynumber: 7.5 Consensus size: 43
11695797 CAGATTCCCC
* * * *
11695807 AAGG-GGTTGCTAAGTGTTGATTCCCCGAAT-TATTGACTCT-A
1 AAGGTGGTTGCTAAGTGCTGATTCCCCGTATCT-TTGATTGTGA
*
11695848 AAGGTGGTTGCTAAGTGCTAATTCCACCGTATCTTTGATTGTGA
1 AAGGTGGTTGCTAAGTGCTGATTCC-CCGTATCTTTGATTGTGA
* * ** * *
11695892 AAGG-GGTTGCTATGTGCTGATTTCCCGTATCACTGAATAT-A
1 AAGGTGGTTGCTAAGTGCTGATTCCCCGTATCTTTGATTGTGA
11695933 AAGGTGGTTGCTAAGTGCTGATTCCACCGTATCTTTGATTGTGA
1 AAGGTGGTTGCTAAGTGCTGATTCC-CCGTATCTTTGATTGTGA
* * ** * *
11695977 AAGG-AGTTGCTATGTGCTGATTCCCCGTATCACTGAATAT-A
1 AAGGTGGTTGCTAAGTGCTGATTCCCCGTATCTTTGATTGTGA
11696018 AAGGTGGTTGCTAAGTGCTGATTCCACCGTATCTTTGATTGTGA
1 AAGGTGGTTGCTAAGTGCTGATTCC-CCGTATCTTTGATTGTGA
* * ** * *
11696062 AAGG-AGTTGCTATGTGCTGATTCCCCGTATCACTGAATAT-A
1 AAGGTGGTTGCTAAGTGCTGATTCCCCGTATCTTTGATTGTGA
* *
11696103 ATGGTGGTTGTTAAGTGCTGA
1 AAGGTGGTTGCTAAGTGCTGA
11696124 ATCCACCGAG
Statistics
Matches: 225, Mismatches: 40, Indels: 21
0.79 0.14 0.07
Matches are distributed among these distances:
41 18 0.08
42 103 0.46
43 88 0.39
44 16 0.07
ACGTcount: A:0.23, C:0.16, G:0.26, T:0.35
Consensus pattern (43 bp):
AAGGTGGTTGCTAAGTGCTGATTCCCCGTATCTTTGATTGTGA
Found at i:11695950 original size:85 final size:85
Alignment explanation
Indices: 11695807--11696131 Score: 508
Period size: 85 Copynumber: 3.8 Consensus size: 85
11695797 CAGATTCCCC
* * * * * * * *
11695807 AAGGGGTTGCTAAGTGTTGATTCCCCGAATTATTGACTCTAAAGGTGGTTGCTAAGTGCTAATTC
1 AAGGAGTTGCTATGTGCTGATTCCCCGTATCACTGAATATAAAGGTGGTTGCTAAGTGCTAATTC
11695872 CACCGTATCTTTGATTGTGA
66 CACCGTATCTTTGATTGTGA
* * *
11695892 AAGGGGTTGCTATGTGCTGATTTCCCGTATCACTGAATATAAAGGTGGTTGCTAAGTGCTGATTC
1 AAGGAGTTGCTATGTGCTGATTCCCCGTATCACTGAATATAAAGGTGGTTGCTAAGTGCTAATTC
11695957 CACCGTATCTTTGATTGTGA
66 CACCGTATCTTTGATTGTGA
*
11695977 AAGGAGTTGCTATGTGCTGATTCCCCGTATCACTGAATATAAAGGTGGTTGCTAAGTGCTGATTC
1 AAGGAGTTGCTATGTGCTGATTCCCCGTATCACTGAATATAAAGGTGGTTGCTAAGTGCTAATTC
11696042 CACCGTATCTTTGATTGTGA
66 CACCGTATCTTTGATTGTGA
* *
11696062 AAGGAGTTGCTATGTGCTGATTCCCCGTATCACTGAATATAATGGTGGTTGTTAAGTGCTGAA-T
1 AAGGAGTTGCTATGTGCTGATTCCCCGTATCACTGAATATAAAGGTGGTTGCTAAGTGCT-AATT
11696126 CCACCG
65 CCACCG
11696132 AGTAACGGAT
Statistics
Matches: 225, Mismatches: 14, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
85 224 1.00
86 1 0.00
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.34
Consensus pattern (85 bp):
AAGGAGTTGCTATGTGCTGATTCCCCGTATCACTGAATATAAAGGTGGTTGCTAAGTGCTAATTC
CACCGTATCTTTGATTGTGA
Found at i:11698224 original size:9 final size:9
Alignment explanation
Indices: 11698210--11698250 Score: 82
Period size: 9 Copynumber: 4.6 Consensus size: 9
11698200 ACTAGGACGA
11698210 TAATAAAAG
1 TAATAAAAG
11698219 TAATAAAAG
1 TAATAAAAG
11698228 TAATAAAAG
1 TAATAAAAG
11698237 TAATAAAAG
1 TAATAAAAG
11698246 TAATA
1 TAATA
11698251 GCAAAACGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.10, T:0.24
Consensus pattern (9 bp):
TAATAAAAG
Found at i:11698855 original size:19 final size:19
Alignment explanation
Indices: 11698831--11698871 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
11698821 AAATTTGAGG
*
11698831 CAAAAGCAAAATTAAAGGC
1 CAAAAGCAAAATTAAAAGC
*
11698850 CAAAAGCAGAATTAAAAGC
1 CAAAAGCAAAATTAAAAGC
11698869 CAA
1 CAA
11698872 TGATTGAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.59, C:0.17, G:0.15, T:0.10
Consensus pattern (19 bp):
CAAAAGCAAAATTAAAAGC
Found at i:11703949 original size:92 final size:92
Alignment explanation
Indices: 11703792--11703977 Score: 354
Period size: 92 Copynumber: 2.0 Consensus size: 92
11703782 GATAATGCCA
*
11703792 AAACTGCTGTGGAGTTTCTAAAACGAACTATTTTTTCCAGGTTTGGCACACCTCGAGCCCTAATC
1 AAACTGCTGTGAAGTTTCTAAAACGAACTATTTTTTCCAGGTTTGGCACACCTCGAGCCCTAATC
11703857 AGTGATCGTGGCACCCACTTTTGCAAT
66 AGTGATCGTGGCACCCACTTTTGCAAT
*
11703884 AAACTGCTGTGAAGTTTCTAAAACGAACTATTTTTTCTAGGTTTGGCACACCTCGAGCCCTAATC
1 AAACTGCTGTGAAGTTTCTAAAACGAACTATTTTTTCCAGGTTTGGCACACCTCGAGCCCTAATC
11703949 AGTGATCGTGGCACCCACTTTTGCAAT
66 AGTGATCGTGGCACCCACTTTTGCAAT
11703976 AA
1 AA
11703978 GGTCATGGGG
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
92 92 1.00
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (92 bp):
AAACTGCTGTGAAGTTTCTAAAACGAACTATTTTTTCCAGGTTTGGCACACCTCGAGCCCTAATC
AGTGATCGTGGCACCCACTTTTGCAAT
Found at i:11704775 original size:17 final size:17
Alignment explanation
Indices: 11704724--11704776 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
11704714 TTTTCTTATT
*
11704724 TTTTATTTTTTTATTTA
1 TTTTATTTTATTATTTA
* *
11704741 CTTTA-TTTATTACCTTA
1 TTTTATTTTATTA-TTTA
*
11704758 TTTTATTTTACTATTTA
1 TTTTATTTTATTATTTA
11704775 TT
1 TT
11704777 ACTTATTTGG
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
16 6 0.21
17 16 0.57
18 6 0.21
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.72
Consensus pattern (17 bp):
TTTTATTTTATTATTTA
Found at i:11713253 original size:101 final size:101
Alignment explanation
Indices: 11713066--11713251 Score: 266
Period size: 101 Copynumber: 1.8 Consensus size: 101
11713056 AACATGTTAA
* * * * * *
11713066 GCTGAGTAACCGGGGTGGGGTGCTTGGCTGTTATCTCTCTTCGTGTCAAAAGGTTCGATGTGTTC
1 GCTGAGTAACCGGGGTGGGGTGCTTGACTATTATCTCTCTTCGCGTCAAAAGATTCGATATGTCC
*
11713131 TTAAGAAAAAAATATAATAAATTAGGAGTTTGTTGG
66 TAAAGAAAAAAATATAATAAATTAGGAGTTTGTTGG
11713167 GCTGAGTAACCGGGGTGGGGTGCTTGACTATTATCTCTCTTCGCGTCAAAAGATTCAGTATAT-T
1 GCTGAGTAACCGGGGTGGGGTGCTTGACTATTATCTCTCTTCGCGTCAAAAGATTC-G-ATATGT
11713231 CCTAAAGCATAAAAAATATAA
64 CCTAAAG-A-AAAAAATATAA
11713252 ATAATAAATC
Statistics
Matches: 74, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
101 52 0.70
102 7 0.09
103 4 0.05
104 11 0.15
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (101 bp):
GCTGAGTAACCGGGGTGGGGTGCTTGACTATTATCTCTCTTCGCGTCAAAAGATTCGATATGTCC
TAAAGAAAAAAATATAATAAATTAGGAGTTTGTTGG
Found at i:11713868 original size:15 final size:15
Alignment explanation
Indices: 11713843--11713877 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
11713833 GACTCTATTT
*
11713843 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
11713857 TAATTAATATTAAGA
1 TAATTAATATTAAGA
11713872 TAATTA
1 TAATTA
11713878 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:11713980 original size:33 final size:33
Alignment explanation
Indices: 11713942--11714009 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
11713932 TTAAATGTAT
11713942 TTATCTTTTGGGAGTTTAAGCAGGATTAAACTA
1 TTATCTTTTGGGAGTTTAAGCAGGATTAAACTA
11713975 TTATCTTTTGGGAGTTTAAGCAGGATTAAACTA
1 TTATCTTTTGGGAGTTTAAGCAGGATTAAACTA
11714008 TT
1 TT
11714010 TCCCCTAGCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (33 bp):
TTATCTTTTGGGAGTTTAAGCAGGATTAAACTA
Found at i:11717771 original size:33 final size:33
Alignment explanation
Indices: 11717729--11717797 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 33
11717719 TTAACATGTG
11717729 TTTCAATTGTACTAAATTGTAACAAATTAATAA
1 TTTCAATTGTACTAAATTGTAACAAATTAATAA
*
11717762 TTTCAATTGTACTAAATTGTAATAAATTAATAA
1 TTTCAATTGTACTAAATTGTAACAAATTAATAA
11717795 TTT
1 TTT
11717798 TACTATCATT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.43, C:0.07, G:0.06, T:0.43
Consensus pattern (33 bp):
TTTCAATTGTACTAAATTGTAACAAATTAATAA
Found at i:11718773 original size:36 final size:36
Alignment explanation
Indices: 11718733--11718806 Score: 105
Period size: 36 Copynumber: 2.1 Consensus size: 36
11718723 ACGTTGCATT
11718733 GTCTTGTCA-AGTCATTGATTTAATGGTTGCTTCCAC
1 GTCTTGTCACA-TCATTGATTTAATGGTTGCTTCCAC
* * *
11718769 GTCTTGTCACATTATTGATTTGATGGTTGTTTCCAC
1 GTCTTGTCACATCATTGATTTAATGGTTGCTTCCAC
11718805 GT
1 GT
11718807 TGCAATCTCT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
36 33 0.97
37 1 0.03
ACGTcount: A:0.18, C:0.18, G:0.20, T:0.45
Consensus pattern (36 bp):
GTCTTGTCACATCATTGATTTAATGGTTGCTTCCAC
Found at i:11722395 original size:17 final size:18
Alignment explanation
Indices: 11722369--11722402 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
11722359 AAATTTGAGA
11722369 ATAAAAAAATAA-AAATC
1 ATAAAAAAATAAGAAATC
*
11722386 ATAAATAAATAAGAAAT
1 ATAAAAAAATAAGAAAT
11722403 AGAAATTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.21
Consensus pattern (18 bp):
ATAAAAAAATAAGAAATC
Found at i:11730448 original size:18 final size:20
Alignment explanation
Indices: 11730425--11730464 Score: 57
Period size: 18 Copynumber: 2.1 Consensus size: 20
11730415 ATATAGAAAA
11730425 TTAATTT-AAAATTTT-TAT
1 TTAATTTCAAAATTTTATAT
*
11730443 TTAATTTCAATATTTTATAT
1 TTAATTTCAAAATTTTATAT
11730463 TT
1 TT
11730465 TATATTATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 7 0.37
19 7 0.37
20 5 0.26
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (20 bp):
TTAATTTCAAAATTTTATAT
Found at i:11731927 original size:22 final size:22
Alignment explanation
Indices: 11731897--11731944 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
11731887 AATAAAGTAC
11731897 AACAAATTGAATAGTCTTTGTT
1 AACAAATTGAATAGTCTTTGTT
*
11731919 AACACATTGAATAGTCTTTGTT
1 AACAAATTGAATAGTCTTTGTT
11731941 AACA
1 AACA
11731945 TTCCAAGTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (22 bp):
AACAAATTGAATAGTCTTTGTT
Found at i:11747380 original size:22 final size:21
Alignment explanation
Indices: 11747353--11747407 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
11747343 TTTCTTTTAT
11747353 AATTATTTTTTAACTTATTAAA
1 AATTATTTTTT-ACTTATTAAA
* * * *
11747375 ATTTATTACTTTATTTTTTAAA
1 AATTATT-TTTTACTTATTAAA
11747397 AATTATTTTTT
1 AATTATTTTTT
11747408 GAAACCAAAC
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
21 3 0.12
22 20 0.77
23 3 0.12
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.62
Consensus pattern (21 bp):
AATTATTTTTTACTTATTAAA
Found at i:11749698 original size:15 final size:14
Alignment explanation
Indices: 11749679--11749705 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
11749669 ACATTGTTTT
11749679 TTTTTTAATATTTA
1 TTTTTTAATATTTA
11749693 TTTTTTAATATTT
1 TTTTTTAATATTT
11749706 TACTATACTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTTTTAATATTTA
Found at i:11749707 original size:15 final size:15
Alignment explanation
Indices: 11749675--11749707 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
11749665 ATTGACATTG
11749675 TTTT-TTTTTTAATA
1 TTTTATTTTTTAATA
11749689 -TTTATTTTTTAATA
1 TTTTATTTTTTAATA
11749703 TTTTA
1 TTTTA
11749708 CTATACTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
13 3 0.18
14 10 0.59
15 4 0.24
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTATTTTTTAATA
Found at i:11752468 original size:39 final size:40
Alignment explanation
Indices: 11752388--11752486 Score: 164
Period size: 39 Copynumber: 2.5 Consensus size: 40
11752378 ATACTATGAT
* *
11752388 AGTCATCATTGTTGGGCAACTTGGGATGACATATACTTTA
1 AGTCATCATTTTTGGGCAACTTAGGATGACATATACTTTA
*
11752428 AGTCATCGTTTTTGGGCAACTTAGG-TGACATATACTTTA
1 AGTCATCATTTTTGGGCAACTTAGGATGACATATACTTTA
11752467 AGTCATCATTTTTGGGCAAC
1 AGTCATCATTTTTGGGCAAC
11752487 CCAAGGTGGC
Statistics
Matches: 55, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
39 33 0.60
40 22 0.40
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.36
Consensus pattern (40 bp):
AGTCATCATTTTTGGGCAACTTAGGATGACATATACTTTA
Found at i:11752752 original size:20 final size:17
Alignment explanation
Indices: 11752706--11752757 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
11752696 TTAGTATATC
*
11752706 ATTAATATTATTATTTT
1 ATTACTATTATTATTTT
*
11752723 ATTACTATTATTGTTTT
1 ATTACTATTATTATTTT
*
11752740 ATTA-TCATAATTATTTT
1 ATTACT-ATTATTATTTT
11752757 A
1 A
11752758 ATTTGTTAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
16 1 0.03
17 29 0.97
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.62
Consensus pattern (17 bp):
ATTACTATTATTATTTT
Found at i:11755296 original size:22 final size:22
Alignment explanation
Indices: 11755248--11755298 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
11755238 CAATAACAGT
* * *
11755248 AAAATAGTAGCAATATAATAAC
1 AAAATAGTAGCAAAACAACAAC
* *
11755270 GAAATGGTAGCAAAACAACAAC
1 AAAATAGTAGCAAAACAACAAC
11755292 AAAATAG
1 AAAATAG
11755299 CAGTGAAATG
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.59, C:0.12, G:0.14, T:0.16
Consensus pattern (22 bp):
AAAATAGTAGCAAAACAACAAC
Found at i:11756225 original size:22 final size:21
Alignment explanation
Indices: 11756199--11756244 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
11756189 TCACTAAAAA
* *
11756199 TTAAAATAGTTATATAAATTTT
1 TTAAAAT-GTTACATAAATATT
*
11756221 TTAAAATTTTACATAAATATT
1 TTAAAATGTTACATAAATATT
11756242 TTA
1 TTA
11756245 TGCAAAAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (21 bp):
TTAAAATGTTACATAAATATT
Found at i:11756352 original size:5 final size:5
Alignment explanation
Indices: 11756342--11756372 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
11756332 TAACATTATC
11756342 ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA A
1 ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA A
11756373 ATTTTTTTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
ATTTA
Found at i:11756553 original size:16 final size:17
Alignment explanation
Indices: 11756532--11756568 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
11756522 AATAATTGAA
11756532 TTTTAA-TT-TCTTCATT
1 TTTTAACTTATCTTC-TT
11756548 TTTTAACTTATCTTCTT
1 TTTTAACTTATCTTCTT
11756565 TTTT
1 TTTT
11756569 TTTTTATGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 6 0.32
17 8 0.42
18 5 0.26
ACGTcount: A:0.16, C:0.14, G:0.00, T:0.70
Consensus pattern (17 bp):
TTTTAACTTATCTTCTT
Found at i:11759505 original size:24 final size:22
Alignment explanation
Indices: 11759461--11759506 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
11759451 ATTAGATAGT
* *
11759461 TTTAAAAAAATTTATAAATTAA
1 TTTAAAAAAAATTAAAAATTAA
11759483 TTTAAAAATAAATTAAAATATTAA
1 TTTAAAAA-AAATTAAAA-ATTAA
11759507 CTTTTTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 8 0.40
23 7 0.35
24 5 0.25
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (22 bp):
TTTAAAAAAAATTAAAAATTAA
Found at i:11759745 original size:11 final size:10
Alignment explanation
Indices: 11759712--11759747 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
11759702 TTATGTTAAA
11759712 TAAATAAAAT
1 TAAATAAAAT
*
11759722 CAAATAAAAT
1 TAAATAAAAT
11759732 TAAATAATAAT
1 TAAATAA-AAT
11759743 TAAAT
1 TAAAT
11759748 CCAATTTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 15 0.65
11 8 0.35
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (10 bp):
TAAATAAAAT
Found at i:11764743 original size:3 final size:3
Alignment explanation
Indices: 11764735--11764769 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
11764725 AAATTTACTC
11764735 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
11764770 TGGTAGAGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:11765080 original size:16 final size:17
Alignment explanation
Indices: 11765045--11765079 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
11765035 GGCATAATAT
11765045 AATAAACATATTTAAAA
1 AATAAACATATTTAAAA
11765062 AATAAACAT-TTATAAAA
1 AATAAACATATT-TAAAA
11765079 A
1 A
11765080 TTTAATTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 15 0.88
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.29
Consensus pattern (17 bp):
AATAAACATATTTAAAA
Found at i:11769943 original size:31 final size:30
Alignment explanation
Indices: 11769900--11769996 Score: 113
Period size: 31 Copynumber: 3.1 Consensus size: 30
11769890 AATGTAATTT
*
11769900 TTGGCCCTTGAACTTGACAAGTATGTTCACG
1 TTGGCCC-TGAACTTGACAAGTATGTTCACA
*
11769931 TTGGCTCCTGAACTTGGCAAGTATGTTCACA
1 TTGGC-CCTGAACTTGACAAGTATGTTCACA
* * * *
11769962 TTGGCCCCTAAACTTGACAACTAGGTTCACT
1 TTGG-CCCTGAACTTGACAAGTATGTTCACA
11769993 TTGG
1 TTGG
11769997 TACTTGTACC
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
31 54 0.95
32 3 0.05
ACGTcount: A:0.23, C:0.24, G:0.22, T:0.32
Consensus pattern (30 bp):
TTGGCCCTGAACTTGACAAGTATGTTCACA
Found at i:11782297 original size:24 final size:25
Alignment explanation
Indices: 11782270--11782338 Score: 90
Period size: 24 Copynumber: 2.9 Consensus size: 25
11782260 ATAAAATTTT
*
11782270 TTATACTAATAAATATC-AAATATA
1 TTATACTAATAAATAGCTAAATATA
* *
11782294 TTATGCTAATGAAT-GCTAAATATA
1 TTATACTAATAAATAGCTAAATATA
11782318 TTATACTAATAAATA-CTAAAT
1 TTATACTAATAAATAGCTAAAT
11782339 CTTCTAGGAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
23 1 0.03
24 37 0.97
ACGTcount: A:0.49, C:0.09, G:0.04, T:0.38
Consensus pattern (25 bp):
TTATACTAATAAATAGCTAAATATA
Found at i:11784715 original size:24 final size:24
Alignment explanation
Indices: 11784665--11784744 Score: 106
Period size: 24 Copynumber: 3.3 Consensus size: 24
11784655 TAAATATGGA
** *
11784665 AATAAATAACAAATATTTTTATACT
1 AATAAATGTCAAATA-TATTATACT
*
11784690 AATAAATGTCAAATATATTATGCT
1 AATAAATGTCAAATATATTATACT
*
11784714 AATAAATGTTAAATATATTATACT
1 AATAAATGTCAAATATATTATACT
11784738 AATAAAT
1 AATAAAT
11784745 ACTAAATCTT
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
24 36 0.73
25 13 0.27
ACGTcount: A:0.51, C:0.06, G:0.04, T:0.39
Consensus pattern (24 bp):
AATAAATGTCAAATATATTATACT
Found at i:11787697 original size:25 final size:25
Alignment explanation
Indices: 11787649--11787697 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
11787639 CTTCTTAGCC
*
11787649 ATAACTTTTTATAAATAAATATATT
1 ATAACTTTTTATAAACAAATATATT
*
11787674 ATAACTCTTTTATAACCAAA-ATAT
1 ATAACT-TTTTATAAACAAATATAT
11787698 CTTCCAGCAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 10 0.48
26 11 0.52
ACGTcount: A:0.47, C:0.10, G:0.00, T:0.43
Consensus pattern (25 bp):
ATAACTTTTTATAAACAAATATATT
Found at i:11790146 original size:39 final size:39
Alignment explanation
Indices: 11790092--11790169 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
11790082 GTCAGTAATC
11790092 GGCATTTTGCTGTGTAGAACGAGTCCCATATTTGATTTA
1 GGCATTTTGCTGTGTAGAACGAGTCCCATATTTGATTTA
11790131 GGCATTTTGCTGTGTAGAACGAGTCCCATATTTGATTTA
1 GGCATTTTGCTGTGTAGAACGAGTCCCATATTTGATTTA
11790170 CTACATATCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.23, C:0.15, G:0.23, T:0.38
Consensus pattern (39 bp):
GGCATTTTGCTGTGTAGAACGAGTCCCATATTTGATTTA
Found at i:11807946 original size:16 final size:16
Alignment explanation
Indices: 11807925--11807957 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
11807915 TAATGATATT
*
11807925 TTTTATTTTTAAATAA
1 TTTTATTTTAAAATAA
11807941 TTTTATTTTAAAATAA
1 TTTTATTTTAAAATAA
11807957 T
1 T
11807958 AAGATTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTTATTTTAAAATAA
Found at i:11823369 original size:11 final size:11
Alignment explanation
Indices: 11823355--11823395 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
11823345 TGTTTTCTCC
11823355 CTATTTTGCTA
1 CTATTTTGCTA
*
11823366 CTATTTTACTA
1 CTATTTTGCTA
* *
11823377 TTATGTTGCTA
1 CTATTTTGCTA
11823388 CTATTTTG
1 CTATTTTG
11823396 TTGTTATTGT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.20, C:0.15, G:0.10, T:0.56
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:11823466 original size:30 final size:30
Alignment explanation
Indices: 11823432--11823494 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
11823422 ACTTATGTTA
11823432 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
* *
11823462 TTGTTAATTTTGTTATTGTTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
11823492 TTG
1 TTG
11823495 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.22, C:0.03, G:0.17, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGCAT
Found at i:11825123 original size:41 final size:41
Alignment explanation
Indices: 11825055--11825156 Score: 123
Period size: 41 Copynumber: 2.5 Consensus size: 41
11825045 GATTTGAAGT
** * *
11825055 TACCAAAGTGTAAACAAGGGCATGTATGTGCTATTCAGGGG
1 TACCAAAGTACAAACAAGGGCACGTATGTGCAATTCAGGGG
* * *
11825096 TACCGAAGTACAAACAGGGGCACGTATGTGCAATTTAGGGG
1 TACCAAAGTACAAACAAGGGCACGTATGTGCAATTCAGGGG
* *
11825137 TATCAAAGTACAAATAAGGG
1 TACCAAAGTACAAACAAGGG
11825157 ATAATTTAGT
Statistics
Matches: 50, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
41 50 1.00
ACGTcount: A:0.35, C:0.15, G:0.28, T:0.22
Consensus pattern (41 bp):
TACCAAAGTACAAACAAGGGCACGTATGTGCAATTCAGGGG
Found at i:11827613 original size:50 final size:50
Alignment explanation
Indices: 11827500--11827915 Score: 305
Period size: 50 Copynumber: 8.3 Consensus size: 50
11827490 TCTTGGACAC
* * **** **
11827500 ATTAAAGCCACAACGGCGAATCTTGCTTCCCCGAAATTGCAGTTAAAAAG
1 ATTAAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAAAAG
* * ** * ** *
11827550 ATTAAAACTACAACAACAAATCACACTTCCCTGGCGGTGCAGTGGAACAG
1 ATTAAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAAAAG
* * * * ** * **
11827600 ATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGTAGTTAAAAAAG
1 ATTAAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAG-TGGAAAAG
* *
11827651 ATTAAAGCCACAACGGCGAACCTTACTT-CCTCGGCGGTGCAGTGGAATAG
1 ATTAAAGCCACAACGGCGAATCTTACTTCCCT-GGCGGTGCAGTGGAAAAG
* * * * ** **
11827701 ATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAG
1 ATTAAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAAAAG
** * * *
11827751 ATTAAAGCCACAACAACGAATCTTACTTCCCTGGAGGTGAAGTGGAACAG
1 ATTAAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAAAAG
** * ** ** **
11827801 ATTAAAGCCACAACGATGAATCTTGCTTCCCTAACATTGCAGTTAAAAAG
1 ATTAAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAAAAG
* * * * *
11827851 ACTAAAGTCACAACGGC-AAGTCTTACTTCCCTGGCGGTGCAATGGGACAG
1 ATTAAAGCCACAACGGCGAA-TCTTACTTCCCTGGCGGTGCAGTGGAAAAG
11827901 ATTAAAGCCACAACG
1 ATTAAAGCCACAACG
11827916 TGTAATGAAA
Statistics
Matches: 267, Mismatches: 95, Indels: 8
0.72 0.26 0.02
Matches are distributed among these distances:
49 2 0.01
50 227 0.85
51 38 0.14
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.22
Consensus pattern (50 bp):
ATTAAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAAAAG
Found at i:11827812 original size:100 final size:100
Alignment explanation
Indices: 11827500--11827915 Score: 568
Period size: 100 Copynumber: 4.2 Consensus size: 100
11827490 TCTTGGACAC
* * * *
11827500 ATTAAAGCCACAACGGCGAATCTTGCTTCCCCGAAATTGCAGTTAAAAAGATTAAAACTACAACA
1 ATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCCACAACA
* ** *
11827565 ACAAATCACACTTCCCTGGCGGTGCAGTGGAACAG
66 ACGAATCTTACTTCCCTGGCGGTGAAGTGGAACAG
*
11827600 ATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGTAGTTAAAAAAGATTAAAGCCACAAC
1 ATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTT-AAAAAGATTAAAGCCACAAC
** * * *
11827665 GGCGAACCTTACTT-CCTCGGCGGTGCAGTGGAATAG
65 AACGAATCTTACTTCCCT-GGCGGTGAAGTGGAACAG
11827701 ATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCCACAACA
1 ATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCCACAACA
*
11827766 ACGAATCTTACTTCCCTGGAGGTGAAGTGGAACAG
66 ACGAATCTTACTTCCCTGGCGGTGAAGTGGAACAG
* ** * * *
11827801 ATTAAAGCCACAACGATGAATCTTGCTTCCCTAACATTGCAGTTAAAAAGACTAAAGTCACAACG
1 ATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCCACAACA
* *
11827866 GC-AAGTCTTACTTCCCTGGCGGTGCAA-TGGGACAG
66 ACGAA-TCTTACTTCCCTGGCGGTG-AAGTGGAACAG
11827901 ATTAAAGCCACAACG
1 ATTAAAGCCACAACG
11827916 TGTAATGAAA
Statistics
Matches: 283, Mismatches: 28, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
99 2 0.01
100 190 0.67
101 91 0.32
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.22
Consensus pattern (100 bp):
ATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCCACAACA
ACGAATCTTACTTCCCTGGCGGTGAAGTGGAACAG
Found at i:11827847 original size:201 final size:200
Alignment explanation
Indices: 11827500--11827915 Score: 620
Period size: 201 Copynumber: 2.1 Consensus size: 200
11827490 TCTTGGACAC
*
11827500 ATTAAAGCCACAACGGCGAATCTTGCTTCCCCGAAATTGCAGTTAAAAAGATTAAAACTACAACA
1 ATTAAAGCCACAACGGCGAATCTTGCTTCCCCGAAATTGCAGTTAAAAAGATTAAAACCACAACA
* * *
11827565 ACAAATCACACTTCCCTGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCC
66 ACAAATCACACTTCCCTGGAGGTGAAGTGGAACAGATTAAAGCCACAACGATGAATCTTGCTTCC
* * * *
11827630 CCGACATTGTAGTTAAAAAAGATTAAAGCCACAACGGCGAA-CCTTACTT-CCTCGGCGGTGCAG
131 CCAACATTGCAGTT-AAAAAGACTAAAGCCACAACGGC-AAGCCTTACTTCCCT-GGCGGTGCAA
*
11827693 TGGAATAG
193 TGGAACAG
* * *
11827701 ATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCCACAACA
1 ATTAAAGCCACAACGGCGAATCTTGCTTCCCCGAAATTGCAGTTAAAAAGATTAAAACCACAACA
* **
11827766 ACGAATCTTACTTCCCTGGAGGTGAAGTGGAACAGATTAAAGCCACAACGATGAATCTTGCTTCC
66 ACAAATCACACTTCCCTGGAGGTGAAGTGGAACAGATTAAAGCCACAACGATGAATCTTGCTTCC
* * *
11827831 CTAACATTGCAGTTAAAAAGACTAAAGTCACAACGGCAAGTCTTACTTCCCTGGCGGTGCAATGG
131 CCAACATTGCAGTTAAAAAGACTAAAGCCACAACGGCAAGCCTTACTTCCCTGGCGGTGCAATGG
*
11827896 GACAG
196 AACAG
11827901 ATTAAAGCCACAACG
1 ATTAAAGCCACAACG
11827916 TGTAATGAAA
Statistics
Matches: 194, Mismatches: 19, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
199 2 0.01
200 58 0.30
201 134 0.69
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.22
Consensus pattern (200 bp):
ATTAAAGCCACAACGGCGAATCTTGCTTCCCCGAAATTGCAGTTAAAAAGATTAAAACCACAACA
ACAAATCACACTTCCCTGGAGGTGAAGTGGAACAGATTAAAGCCACAACGATGAATCTTGCTTCC
CCAACATTGCAGTTAAAAAGACTAAAGCCACAACGGCAAGCCTTACTTCCCTGGCGGTGCAATGG
AACAG
Found at i:11828331 original size:34 final size:34
Alignment explanation
Indices: 11828288--11828356 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
11828278 CGAAGAAGAA
*
11828288 GAGCACCAAGGTTCAAACATGACCGGGCAAAATT
1 GAGCACCAAGGTTCAAACATGACCGGGAAAAATT
11828322 GAGCACCAAGGTTCAAACATGACCGGGAAAAATT
1 GAGCACCAAGGTTCAAACATGACCGGGAAAAATT
11828356 G
1 G
11828357 GTCATCTTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.39, C:0.22, G:0.25, T:0.14
Consensus pattern (34 bp):
GAGCACCAAGGTTCAAACATGACCGGGAAAAATT
Found at i:11832071 original size:19 final size:19
Alignment explanation
Indices: 11832049--11832086 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
11832039 TTTTTTAACG
* *
11832049 TAATCAGTCAGCTTTAAGT
1 TAATCAATCAGCATTAAGT
11832068 TAATCAATCAGCATTAAGT
1 TAATCAATCAGCATTAAGT
11832087 AAACGTCAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.34
Consensus pattern (19 bp):
TAATCAATCAGCATTAAGT
Found at i:11832186 original size:18 final size:18
Alignment explanation
Indices: 11832163--11832198 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
11832153 GTGAGTATTG
11832163 GACATTCATGATTGTAAC
1 GACATTCATGATTGTAAC
11832181 GACATTCATGATTGTAAC
1 GACATTCATGATTGTAAC
11832199 TGGACTAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (18 bp):
GACATTCATGATTGTAAC
Found at i:11835802 original size:18 final size:19
Alignment explanation
Indices: 11835779--11835816 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
11835769 GGAAGCAAGC
*
11835779 AATGATTGAAGA-AATCAG
1 AATGATTGAAAAGAATCAG
11835797 AATGATTGAAAAGAATCAG
1 AATGATTGAAAAGAATCAG
11835816 A
1 A
11835817 CCTGGAGTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.53, C:0.05, G:0.21, T:0.21
Consensus pattern (19 bp):
AATGATTGAAAAGAATCAG
Found at i:11848968 original size:21 final size:21
Alignment explanation
Indices: 11848921--11849006 Score: 69
Period size: 21 Copynumber: 4.3 Consensus size: 21
11848911 CAAAACCTTG
*
11848921 TAATATA-AAAT-ATATATGA
1 TAATATATAAATAATATATTA
11848940 T-ATGATATAAATAATATATTA
1 TAAT-ATATAAATAATATATTA
*
11848961 TAATATATAATTAATA-ATTAA
1 TAATATATAAATAATATATT-A
* *
11848982 TAAT-T-TATATTATATATTA
1 TAATATATAAATAATATATTA
11849001 T-ATATA
1 TAATATA
11849007 AATAATTTAT
Statistics
Matches: 54, Mismatches: 5, Indels: 15
0.73 0.07 0.20
Matches are distributed among these distances:
18 4 0.07
19 13 0.24
20 11 0.20
21 24 0.44
22 2 0.04
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (21 bp):
TAATATATAAATAATATATTA
Found at i:11849010 original size:27 final size:26
Alignment explanation
Indices: 11848944--11849046 Score: 80
Period size: 27 Copynumber: 3.6 Consensus size: 26
11848934 ATATGATATG
*
11848944 ATATAAATAATATATTATAATATATAATTA
1 ATATAAAT-A-AT-TTATATTATAT-ATTA
*
11848974 ATAATTAATAATTTATATTATATATTA
1 AT-ATAAATAATTTATATTATATATTA
*
11849001 TATATAAATAATTTATATGACTATATATAA
1 -ATATAAATAATTTATAT---TATATATTA
* *
11849031 ATAAAAATAATATATA
1 ATATAAATAATTTATA
11849047 AATAATTTAA
Statistics
Matches: 62, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
27 18 0.29
28 12 0.19
29 16 0.26
30 11 0.18
31 5 0.08
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (26 bp):
ATATAAATAATTTATATTATATATTA
Found at i:11849031 original size:23 final size:22
Alignment explanation
Indices: 11848991--11849034 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
11848981 ATAATTTATA
*
11848991 TTATATATTATATATAAATAAT
1 TTATATACTATATATAAATAAT
11849013 TTATATGACTATATATAAATAA
1 TTATAT-ACTATATATAAATAA
11849035 AAATAATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (22 bp):
TTATATACTATATATAAATAAT
Found at i:11849058 original size:9 final size:11
Alignment explanation
Indices: 11848944--11849052 Score: 52
Period size: 10 Copynumber: 10.0 Consensus size: 11
11848934 ATATGATATG
11848944 ATATAAATAAT
1 ATATAAATAAT
*
11848955 ATAT-TATAAT
1 ATATAAATAAT
*
11848965 ATATAATTAAT
1 ATATAAATAAT
*
11848976 A-ATTAATAATTT
1 ATATAAATAA--T
*
11848988 ATATTATATATTAT
1 ATA-TA-A-ATAAT
11849002 ATATAAATAAT
1 ATATAAATAAT
* *
11849013 -T-TATATGACT
1 ATATAAAT-AAT
11849023 ATAT--ATAA-
1 ATATAAATAAT
*
11849031 ATAAAAATAAT
1 ATATAAATAAT
11849042 ATATAAATAAT
1 ATATAAATAAT
11849053 TTAAATTATA
Statistics
Matches: 72, Mismatches: 13, Indels: 26
0.65 0.12 0.23
Matches are distributed among these distances:
8 3 0.04
9 5 0.07
10 24 0.33
11 24 0.33
12 4 0.06
13 3 0.04
14 5 0.07
15 1 0.01
16 3 0.04
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (11 bp):
ATATAAATAAT
Found at i:11849510 original size:18 final size:18
Alignment explanation
Indices: 11849497--11849531 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
11849487 GTTATTTAGC
11849497 TATTTAAAAATATTCAAA
1 TATTTAAAAATATTCAAA
*
11849515 TATTTAAAAAAATTCAA
1 TATTTAAAAATATTCAA
11849532 TTTAAGGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (18 bp):
TATTTAAAAATATTCAAA
Found at i:11853364 original size:34 final size:33
Alignment explanation
Indices: 11853321--11853418 Score: 79
Period size: 34 Copynumber: 2.8 Consensus size: 33
11853311 AATGGCTGGG
*
11853321 CTTGAGCCCATCACAATACCAGTAATCAGTGGGGC
1 CTTG-GCCCATCACAATAACAGT-ATCAGTGGGGC
* ** * *
11853356 CTTTGCCCAATTTCAGTAATAGTATCAGTGGGGC
1 CTTGGCCC-ATCACAATAACAGTATCAGTGGGGC
* **
11853390 CTTGGCCCATAACAGGAACAGATATCAGT
1 CTTGGCCCATCACAATAACAG-TATCAGT
11853419 CATGCAGTGA
Statistics
Matches: 50, Mismatches: 11, Indels: 5
0.76 0.17 0.08
Matches are distributed among these distances:
33 9 0.18
34 29 0.58
35 12 0.24
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.24
Consensus pattern (33 bp):
CTTGGCCCATCACAATAACAGTATCAGTGGGGC
Found at i:11853899 original size:27 final size:27
Alignment explanation
Indices: 11853846--11853901 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
11853836 ACATATGGCC
* *
11853846 ATAACAGTCATTTCATCTCCTAGGGGT
1 ATAACAGTCATTTCATCTCATAAGGGT
*
11853873 ATAACAGTCATTTTATC-CTATAAGGGT
1 ATAACAGTCATTTCATCTC-ATAAGGGT
11853900 AT
1 AT
11853902 TTTTGTCATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 1 0.04
27 24 0.96
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (27 bp):
ATAACAGTCATTTCATCTCATAAGGGT
Found at i:11853909 original size:27 final size:27
Alignment explanation
Indices: 11853879--11854172 Score: 272
Period size: 27 Copynumber: 10.9 Consensus size: 27
11853869 GGGTATAACA
* * *
11853879 GTCATTTTATCCTATAAGGGTATTTTT
1 GTCATTTTACCCTATAGGGGTATTTTG
* * *
11853906 GTCATTTTATCTTATTGGGGGTATTTTG
1 GTCATTTTACCCTA-TAGGGGTATTTTG
* * *
11853934 GTCATTCTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATAGGGGTATTTTG
* * *
11853961 ATTA-TTTACCTTAT-GGGGTATTTTG
1 GTCATTTTACCCTATAGGGGTATTTTG
* *
11853986 GTCATTTTACCCTATAAGGGTATTTCG
1 GTCATTTTACCCTATAGGGGTATTTTG
* *
11854013 GTCATTTTATCCC-ATAAGAGTATTTTG
1 GTCATTTTA-CCCTATAGGGGTATTTTG
* * **
11854040 GTCATTTTACCTTATAGGAGTATTTCA
1 GTCATTTTACCCTATAGGGGTATTTTG
* * * **
11854067 GCCATTTTATCCTATGGGGGTATTTCA
1 GTCATTTTACCCTATAGGGGTATTTTG
* * * *
11854094 ATCATTTTACCTTATGGGGGTATTTCG
1 GTCATTTTACCCTATAGGGGTATTTTG
11854121 GTCATTTTACCCTATAGGGGTATTTTG
1 GTCATTTTACCCTATAGGGGTATTTTG
11854148 GTCATTTTACCCTAT-GGGAGTATTT
1 GTCATTTTACCCTATAGGG-GTATTT
11854173 CAGTAATTTT
Statistics
Matches: 223, Mismatches: 38, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
25 12 0.05
26 22 0.10
27 165 0.74
28 24 0.11
ACGTcount: A:0.20, C:0.15, G:0.20, T:0.45
Consensus pattern (27 bp):
GTCATTTTACCCTATAGGGGTATTTTG
Found at i:11854164 original size:54 final size:54
Alignment explanation
Indices: 11853879--11854185 Score: 307
Period size: 54 Copynumber: 5.7 Consensus size: 54
11853869 GGGTATAACA
* * ** * * *
11853879 GTCATTTTATCCTATAAGGGTATTTTTGTCATTTTATCTTATTGGGGGTATTTTG
1 GTCATTTTACCCTATAGGGGTATTTCGGTCATTTTACCCTA-TAGGGGTATTTTG
* * * * *
11853934 GTCATTCTACCCTATGGGGGTATTTCGATTA-TTTACCTTAT-GGGGTATTTTG
1 GTCATTTTACCCTATAGGGGTATTTCGGTCATTTTACCCTATAGGGGTATTTTG
* * *
11853986 GTCATTTTACCCTATAAGGGTATTTCGGTCATTTTATCCC-ATAAGAGTATTTTG
1 GTCATTTTACCCTATAGGGGTATTTCGGTCATTTTA-CCCTATAGGGGTATTTTG
* * * * * * **
11854040 GTCATTTTACCTTATAGGAGTATTTCAGCCATTTTATCCTATGGGGGTATTTCA
1 GTCATTTTACCCTATAGGGGTATTTCGGTCATTTTACCCTATAGGGGTATTTTG
* * *
11854094 ATCATTTTACCTTATGGGGGTATTTCGGTCATTTTACCCTATAGGGGTATTTTG
1 GTCATTTTACCCTATAGGGGTATTTCGGTCATTTTACCCTATAGGGGTATTTTG
* *
11854148 GTCATTTTACCCTAT-GGGAGTATTTCAGTAATTTTACC
1 GTCATTTTACCCTATAGGG-GTATTTCGGTCATTTTACC
11854186 TATTTTGGGG
Statistics
Matches: 206, Mismatches: 41, Indels: 11
0.80 0.16 0.04
Matches are distributed among these distances:
52 37 0.18
53 12 0.06
54 134 0.65
55 23 0.11
ACGTcount: A:0.21, C:0.15, G:0.20, T:0.45
Consensus pattern (54 bp):
GTCATTTTACCCTATAGGGGTATTTCGGTCATTTTACCCTATAGGGGTATTTTG
Found at i:11854186 original size:81 final size:81
Alignment explanation
Indices: 11853879--11854186 Score: 316
Period size: 81 Copynumber: 3.8 Consensus size: 81
11853869 GGGTATAACA
* * * * * ** *
11853879 GTCATTTTATCCTATAAGGGTATTTTTGTCATTTTATCTTATTGGGGGTATTTTGGTCATTCTAC
1 GTCATTTTACCCTATAGGGGTATTTTGGTCATTTTACCCTA-TGGGGGTATTTCAGTCATTTTAC
*
11853944 CCTATGGGGGTATTTCG
65 CTTATGGGGGTATTTCG
* * * ** *
11853961 ATTA-TTTACCTTAT-GGGGTATTTTGGTCATTTTACCCTATAAGGGTATTTCGGTCATTTTATC
1 GTCATTTTACCCTATAGGGGTATTTTGGTCATTTTACCCTATGGGGGTATTTCAGTCATTTTA-C
* ** * *
11854024 C-CATAAGAGTATTTTG
65 CTTATGGGGGTATTTCG
* * ** * * *
11854040 GTCATTTTACCTTATAGGAGTATTTCAGCCATTTTATCCTATGGGGGTATTTCAATCATTTTACC
1 GTCATTTTACCCTATAGGGGTATTTTGGTCATTTTACCCTATGGGGGTATTTCAGTCATTTTACC
11854105 TTATGGGGGTATTTCG
66 TTATGGGGGTATTTCG
* *
11854121 GTCATTTTACCCTATAGGGGTATTTTGGTCATTTTACCCTATGGGAGTATTTCAGTAATTTTACC
1 GTCATTTTACCCTATAGGGGTATTTTGGTCATTTTACCCTATGGGGGTATTTCAGTCATTTTACC
11854186 T
66 T
11854187 ATTTTGGGGT
Statistics
Matches: 180, Mismatches: 42, Indels: 9
0.78 0.18 0.04
Matches are distributed among these distances:
79 30 0.17
80 35 0.19
81 113 0.63
82 2 0.01
ACGTcount: A:0.20, C:0.15, G:0.19, T:0.45
Consensus pattern (81 bp):
GTCATTTTACCCTATAGGGGTATTTTGGTCATTTTACCCTATGGGGGTATTTCAGTCATTTTACC
TTATGGGGGTATTTCG
Found at i:11856827 original size:21 final size:22
Alignment explanation
Indices: 11856794--11856835 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
11856784 TAAAGAGTTT
11856794 TTTTTCATATTTTTATTTAAAA
1 TTTTTCATATTTTTATTTAAAA
* *
11856816 TTTTT-ATGTTTTTTTTTAAA
1 TTTTTCATATTTTTATTTAAA
11856836 TATTAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.69
Consensus pattern (22 bp):
TTTTTCATATTTTTATTTAAAA
Found at i:11857929 original size:21 final size:23
Alignment explanation
Indices: 11857885--11857929 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
11857875 ATTACAATTC
*
11857885 TTTCCTCTTCCTTCTTCGGTTCT
1 TTTCCTCTTCCTTCTACGGTTCT
*
11857908 TTTCCT-TTCTTTCTAC-GTTCT
1 TTTCCTCTTCCTTCTACGGTTCT
11857929 T
1 T
11857930 CTTTTCTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 6 0.30
22 8 0.40
23 6 0.30
ACGTcount: A:0.02, C:0.31, G:0.07, T:0.60
Consensus pattern (23 bp):
TTTCCTCTTCCTTCTACGGTTCT
Found at i:11858397 original size:63 final size:63
Alignment explanation
Indices: 11858303--11858450 Score: 242
Period size: 63 Copynumber: 2.3 Consensus size: 63
11858293 GTCCAAACCG
* *
11858303 TGTAACTCACTGTTTGTGAATTAAGGTCACACGGGCCAGGGACACAAGCATGTGTCCAGGCCA
1 TGTAACTCACTGTTTGTGAATTAAGGCCACACAGGCCAGGGACACAAGCATGTGTCCAGGCCA
* * *
11858366 TGTAACTCACTGTTTGTGAATTAGGGCCACACAGGCCAGGGACACAAGCGTGTGTCTAGGCCA
1 TGTAACTCACTGTTTGTGAATTAAGGCCACACAGGCCAGGGACACAAGCATGTGTCCAGGCCA
*
11858429 TGTAACTCACTGTTTATGAATT
1 TGTAACTCACTGTTTGTGAATT
11858451 GGTGTCACAT
Statistics
Matches: 79, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
63 79 1.00
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (63 bp):
TGTAACTCACTGTTTGTGAATTAAGGCCACACAGGCCAGGGACACAAGCATGTGTCCAGGCCA
Found at i:11859128 original size:21 final size:22
Alignment explanation
Indices: 11859089--11859130 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
11859079 GATTCTGATA
*
11859089 TGTTCTGCATTTGTATCTGAAT
1 TGTTCTGCATCTGTATCTGAAT
11859111 TGTTCTGCATCT-TATCTGAA
1 TGTTCTGCATCTGTATCTGAA
11859131 CTATTATGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.19, C:0.17, G:0.17, T:0.48
Consensus pattern (22 bp):
TGTTCTGCATCTGTATCTGAAT
Found at i:11860415 original size:27 final size:27
Alignment explanation
Indices: 11860330--11860420 Score: 85
Period size: 28 Copynumber: 3.3 Consensus size: 27
11860320 ATTGTTTTTA
*
11860330 TTTTAAAATTTTTGGCTTTTAAAATTAT
1 TTTTAAAATTTTT-ACTTTTAAAATTAT
* * * * **
11860358 TTCTGAAATATATA-TTGTTATTATTAT
1 TTTTAAAATTTTTACTT-TTAAAATTAT
11860385 TTTTAAAATTTTTAACTTTTAAAATTAT
1 TTTTAAAATTTTT-ACTTTTAAAATTAT
11860413 TTTTAAAA
1 TTTTAAAA
11860421 ATCTCTAACG
Statistics
Matches: 47, Mismatches: 13, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
26 2 0.04
27 17 0.36
28 26 0.55
29 2 0.04
ACGTcount: A:0.36, C:0.03, G:0.04, T:0.56
Consensus pattern (27 bp):
TTTTAAAATTTTTACTTTTAAAATTAT
Found at i:11863421 original size:26 final size:25
Alignment explanation
Indices: 11863379--11863434 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 25
11863369 TCTCATCCCT
11863379 ATTTTACCTTGGCAAAATTTAGACG
1 ATTTTACCTTGGCAAAATTTAGACG
* * *
11863404 ATTTTACTTTTGGTAAAATTTTGACG
1 ATTTTAC-CTTGGCAAAATTTAGACG
11863430 ATTTT
1 ATTTT
11863435 TCCCCTGGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 7 0.26
26 20 0.74
ACGTcount: A:0.29, C:0.11, G:0.14, T:0.46
Consensus pattern (25 bp):
ATTTTACCTTGGCAAAATTTAGACG
Found at i:11867843 original size:33 final size:33
Alignment explanation
Indices: 11867801--11868028 Score: 135
Period size: 33 Copynumber: 6.5 Consensus size: 33
11867791 ATCAGTGGAT
*
11867801 TCAGCACTTAGCAACCACCAGTGATTCGGGGAA
1 TCAGCACTTAGCAACCACCAATGATTCGGGGAA
* *
11867834 TCAGCACTTAGCAACCCCTTTCACATTCAAAGATACGGTGGAA
1 TCAGCACTTAGCAA---C---CAC---CAATGATTCGG-GGAA
* *
11867877 TCAGCACATAGCAACCACCAATGATTCGGGAAA
1 TCAGCACTTAGCAACCACCAATGATTCGGGGAA
* * *
11867910 TCAGCACTTAGCAACCCCCTTTCACATTTAAGGTACGGTGGAA
1 TCAGCACTTAGCAA-CCAC---CA-A--T--GATTCGG-GGAA
*
11867953 TCAGCACTTAGCAACCACCAATGATTCGAGGAA
1 TCAGCACTTAGCAACCACCAATGATTCGGGGAA
* *
11867986 TCAGCACTTAACAACC-CC-----TTGGGGGAA
1 TCAGCACTTAGCAACCACCAATGATTCGGGGAA
11868013 TCAGCACTTAGCAACC
1 TCAGCACTTAGCAACC
11868029 CCCTTTATAT
Statistics
Matches: 155, Mismatches: 20, Indels: 46
0.70 0.09 0.21
Matches are distributed among these distances:
27 22 0.14
32 2 0.01
33 49 0.32
34 16 0.10
36 2 0.01
37 5 0.03
38 2 0.01
39 5 0.03
40 2 0.01
42 16 0.10
43 34 0.22
ACGTcount: A:0.32, C:0.29, G:0.19, T:0.20
Consensus pattern (33 bp):
TCAGCACTTAGCAACCACCAATGATTCGGGGAA
Found at i:11867878 original size:43 final size:43
Alignment explanation
Indices: 11867830--11867968 Score: 138
Period size: 43 Copynumber: 3.5 Consensus size: 43
11867820 AGTGATTCGG
11867830 GGAATCAGCACTTAGCAACCCCTTTCACATTCAAAGATACGGT
1 GGAATCAGCACTTAGCAACCCCTTTCACATTCAAAGATACGGT
* * *
11867873 GGAATCAGCACATAGCAA---C---CAC---CAATGATTCGG-
1 GGAATCAGCACTTAGCAACCCCTTTCACATTCAAAGATACGGT
* * *
11867906 GAAATCAGCACTTAGCAACCCCCTTTCACATT-TAAGGTACGGT
1 GGAATCAGCACTTAGCAA-CCCCTTTCACATTCAAAGATACGGT
11867949 GGAATCAGCACTTAGCAACC
1 GGAATCAGCACTTAGCAACC
11867969 ACCAATGATT
Statistics
Matches: 75, Mismatches: 10, Indels: 23
0.69 0.09 0.21
Matches are distributed among these distances:
33 16 0.21
34 9 0.12
37 4 0.05
40 4 0.05
42 8 0.11
43 34 0.45
ACGTcount: A:0.33, C:0.28, G:0.18, T:0.21
Consensus pattern (43 bp):
GGAATCAGCACTTAGCAACCCCTTTCACATTCAAAGATACGGT
Found at i:11867921 original size:76 final size:74
Alignment explanation
Indices: 11867795--11868005 Score: 323
Period size: 76 Copynumber: 2.8 Consensus size: 74
11867785 TCCGTTATCA
* *
11867795 GTGGATTCAGCACTTAGCAACCACCAGTGATTCGGGGAATCAGCACTTAGCAACCCCTTTCACAT
1 GTGGAATCAGCACTTAGCAACCACCAATGATTC-GGGAATCAGCACTTAGCAACCCCTTTCACAT
11867860 TCAAAGATACG
65 T-AAAGATACG
*
11867871 GTGGAATCAGCACATAGCAACCACCAATGATTCGGGAAATCAGCACTTAGCAACCCCCTTTCACA
1 GTGGAATCAGCACTTAGCAACCACCAATGATTCGGG-AATCAGCACTTAGCAA-CCCCTTTCACA
* *
11867936 TTTAAGGTACG
64 TTAAAGATACG
*
11867947 GTGGAATCAGCACTTAGCAACCACCAATGATTCGAGGAATCAGCACTTAACAACCCCTT
1 GTGGAATCAGCACTTAGCAACCACCAATGATTCG-GGAATCAGCACTTAGCAACCCCTT
11868006 GGGGGAATCA
Statistics
Matches: 125, Mismatches: 7, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
75 9 0.07
76 101 0.81
77 15 0.12
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.21
Consensus pattern (74 bp):
GTGGAATCAGCACTTAGCAACCACCAATGATTCGGGAATCAGCACTTAGCAACCCCTTTCACATT
AAAGATACG
Found at i:11868387 original size:31 final size:30
Alignment explanation
Indices: 11868352--11868414 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
11868342 ACCCTCGACT
11868352 AAACTTTTTACAAATTTACGA-TTTTGTCCCC
1 AAAC-TTTTACAAATTTAC-ACTTTTGTCCCC
* *
11868383 AAACTTTTGCATATTTACACTTTTGTCCCC
1 AAACTTTTACAAATTTACACTTTTGTCCCC
11868413 AA
1 AA
11868415 GCTCGAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 1 0.03
30 24 0.83
31 4 0.14
ACGTcount: A:0.29, C:0.24, G:0.06, T:0.41
Consensus pattern (30 bp):
AAACTTTTACAAATTTACACTTTTGTCCCC
Found at i:11874916 original size:7 final size:7
Alignment explanation
Indices: 11874904--11874960 Score: 78
Period size: 7 Copynumber: 8.1 Consensus size: 7
11874894 CACTTCTCAA
11874904 TCATCCC
1 TCATCCC
11874911 TCATCCC
1 TCATCCC
*
11874918 TTATCCC
1 TCATCCC
*
11874925 TCAACCC
1 TCATCCC
11874932 TCATCCC
1 TCATCCC
*
11874939 TTATCCC
1 TCATCCC
*
11874946 TCAACCC
1 TCATCCC
11874953 TCATCCC
1 TCATCCC
11874960 T
1 T
11874961 TAACATTCCT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
7 42 1.00
ACGTcount: A:0.18, C:0.53, G:0.00, T:0.30
Consensus pattern (7 bp):
TCATCCC
Found at i:11874934 original size:21 final size:21
Alignment explanation
Indices: 11874908--11874962 Score: 110
Period size: 21 Copynumber: 2.6 Consensus size: 21
11874898 TCTCAATCAT
11874908 CCCTCATCCCTTATCCCTCAA
1 CCCTCATCCCTTATCCCTCAA
11874929 CCCTCATCCCTTATCCCTCAA
1 CCCTCATCCCTTATCCCTCAA
11874950 CCCTCATCCCTTA
1 CCCTCATCCCTTA
11874963 ACATTCCTCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.18, C:0.53, G:0.00, T:0.29
Consensus pattern (21 bp):
CCCTCATCCCTTATCCCTCAA
Found at i:11875177 original size:36 final size:36
Alignment explanation
Indices: 11875137--11875206 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 36
11875127 GGAGGAGCAC
*
11875137 ATCAGTCAGAGTAGATCCAAAAGGCTGCTAAACTAA
1 ATCAGTCAGAATAGATCCAAAAGGCTGCTAAACTAA
* * *
11875173 ATCAGTCAGAATAGATTCGAAAGGTTGCTAAACT
1 ATCAGTCAGAATAGATCCAAAAGGCTGCTAAACT
11875207 GGATAGTGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.40, C:0.17, G:0.20, T:0.23
Consensus pattern (36 bp):
ATCAGTCAGAATAGATCCAAAAGGCTGCTAAACTAA
Found at i:11877526 original size:16 final size:16
Alignment explanation
Indices: 11877505--11877535 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
11877495 TATATTATTT
*
11877505 GATATTTTATTATTAA
1 GATATTGTATTATTAA
11877521 GATATTGTATTATTA
1 GATATTGTATTATTA
11877536 TTTTATTTCG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.10, T:0.55
Consensus pattern (16 bp):
GATATTGTATTATTAA
Found at i:11880005 original size:9 final size:9
Alignment explanation
Indices: 11879991--11880021 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
11879981 GTTAAACGAA
11879991 TCGAGTTAT
1 TCGAGTTAT
*
11880000 TCGAGTTAA
1 TCGAGTTAT
11880009 TCGAGTTAT
1 TCGAGTTAT
11880018 TCGA
1 TCGA
11880022 ATCAATTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:11880092 original size:9 final size:9
Alignment explanation
Indices: 11880075--11880111 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
11880065 TGAGTTTTCG
11880075 AATTCGAAT
1 AATTCGAAT
*
11880084 AACTCGAAT
1 AATTCGAAT
*
11880093 AATTTGAAT
1 AATTCGAAT
11880102 AATTCGAAT
1 AATTCGAAT
11880111 A
1 A
11880112 TCAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:11880359 original size:30 final size:31
Alignment explanation
Indices: 11880325--11880384 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
11880315 AAACCTTTTA
*
11880325 TTTTCTCCC-AAAATTTTTACT-CCTTCCCAC
1 TTTTC-CCCTAAAACTTTTACTCCCTTCCCAC
*
11880355 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCTAAAACTTTTACTCCCTTCCCA
11880385 TCCCACCTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 3 0.12
30 15 0.58
31 8 0.31
ACGTcount: A:0.20, C:0.37, G:0.00, T:0.43
Consensus pattern (31 bp):
TTTTCCCCTAAAACTTTTACTCCCTTCCCAC
Found at i:11880491 original size:15 final size:16
Alignment explanation
Indices: 11880471--11880500 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
11880461 CTATTTACTT
11880471 TTCCTC-AAACTTTTA
1 TTCCTCAAAACTTTTA
11880486 TTCCTCAAAACTTTT
1 TTCCTCAAAACTTTT
11880501 TATCTAAACT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.27, C:0.27, G:0.00, T:0.47
Consensus pattern (16 bp):
TTCCTCAAAACTTTTA
Found at i:11881509 original size:14 final size:15
Alignment explanation
Indices: 11881490--11881518 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
11881480 CTTTAGATAA
11881490 ACTGTGAAC-TTTAG
1 ACTGTGAACATTTAG
11881504 ACTGTGAACATTTAG
1 ACTGTGAACATTTAG
11881519 GAATATAACT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.34
Consensus pattern (15 bp):
ACTGTGAACATTTAG
Found at i:11883975 original size:30 final size:30
Alignment explanation
Indices: 11883941--11883997 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
11883931 CATAGCATTT
11883941 ACATACT-CATTCAAGCATATATCACATAAC
1 ACATACTCCATT-AAGCATATATCACATAAC
* * *
11883971 ACATATTCCATTAATCATGTATCACAT
1 ACATACTCCATTAAGCATATATCACAT
11883998 TTCATACAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
30 19 0.83
31 4 0.17
ACGTcount: A:0.40, C:0.25, G:0.04, T:0.32
Consensus pattern (30 bp):
ACATACTCCATTAAGCATATATCACATAAC
Found at i:11899064 original size:2 final size:2
Alignment explanation
Indices: 11899057--11899083 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
11899047 TATCTAAATA
11899057 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
11899084 GGGAGGGATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11899489 original size:4 final size:4
Alignment explanation
Indices: 11899482--11899511 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
11899472 TGTTTAGTTA
*
11899482 TTGT TTGT TTGT TTGA TTGT TTGT TTGT TT
1 TTGT TTGT TTGT TTGT TTGT TTGT TTGT TT
11899512 ATTATTCATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.03, C:0.00, G:0.23, T:0.73
Consensus pattern (4 bp):
TTGT
Found at i:11899502 original size:16 final size:16
Alignment explanation
Indices: 11899481--11899511 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
11899471 GTGTTTAGTT
11899481 ATTGTTTGTTTGTTTG
1 ATTGTTTGTTTGTTTG
11899497 ATTGTTTGTTTGTTT
1 ATTGTTTGTTTGTTT
11899512 ATTATTCATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.06, C:0.00, G:0.23, T:0.71
Consensus pattern (16 bp):
ATTGTTTGTTTGTTTG
Found at i:11899554 original size:23 final size:23
Alignment explanation
Indices: 11899527--11899572 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
11899517 TCATAAAAAT
*
11899527 TGTTCATGAATATATTCGTTTAA
1 TGTTCACGAATATATTCGTTTAA
* *
11899550 TGTTCACGAATATCTTTGTTTAA
1 TGTTCACGAATATATTCGTTTAA
11899573 CTTAAACACT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.28, C:0.11, G:0.13, T:0.48
Consensus pattern (23 bp):
TGTTCACGAATATATTCGTTTAA
Found at i:11903061 original size:20 final size:20
Alignment explanation
Indices: 11903033--11903071 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
11903023 ACTTTTAGGA
*
11903033 TTTATAAAA-AAATAAAATAT
1 TTTAGAAAATAAA-AAAATAT
11903053 TTTAGAAAATAAAAAAATA
1 TTTAGAAAATAAAAAAATA
11903072 AATAAAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (20 bp):
TTTAGAAAATAAAAAAATAT
Found at i:11906144 original size:31 final size:29
Alignment explanation
Indices: 11906109--11906180 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 29
11906099 TGAACGACTT
*
11906109 AGTGACTAAAATGTTACAACGCGATAACGTA
1 AGTGACTAAAATGTAACAACGC-A-AACGTA
* ***
11906140 AGTGACTAAAACGTAACATTTCAAACGTA
1 AGTGACTAAAATGTAACAACGCAAACGTA
11906169 AGTGACTAAAAT
1 AGTGACTAAAAT
11906181 ATAATCTGAG
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
29 17 0.49
30 1 0.03
31 17 0.49
ACGTcount: A:0.44, C:0.15, G:0.17, T:0.24
Consensus pattern (29 bp):
AGTGACTAAAATGTAACAACGCAAACGTA
Found at i:11912388 original size:7 final size:7
Alignment explanation
Indices: 11912376--11912400 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
11912366 AAAATTTAAA
11912376 TGTTTTG
1 TGTTTTG
11912383 TGTTTTG
1 TGTTTTG
11912390 TGTTTTG
1 TGTTTTG
11912397 TGTT
1 TGTT
11912401 ATTTGGACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.00, G:0.28, T:0.72
Consensus pattern (7 bp):
TGTTTTG
Found at i:11922752 original size:17 final size:16
Alignment explanation
Indices: 11922730--11922761 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
11922720 TTAGCTATAC
11922730 AAAAATACGAAAAATCA
1 AAAAATAC-AAAAATCA
11922747 AAAAATACAAAAATC
1 AAAAATACAAAAATC
11922762 GCCAAAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.72, C:0.12, G:0.03, T:0.12
Consensus pattern (16 bp):
AAAAATACAAAAATCA
Found at i:11929362 original size:128 final size:128
Alignment explanation
Indices: 11929134--11929517 Score: 768
Period size: 128 Copynumber: 3.0 Consensus size: 128
11929124 ACAAACACAA
11929134 ATGAATAAACAAGCAAATGAAGCAAACATCAGCTGGTAAAAATGGAAGACTCATTTCACGAACCA
1 ATGAATAAACAAGCAAATGAAGCAAACATCAGCTGGTAAAAATGGAAGACTCATTTCACGAACCA
11929199 TGGTGATTTTCCTTTTGTTTTTGTTATAGTTTTCCACTTTTCTTTGGTTACTTCACCTTTGTG
66 TGGTGATTTTCCTTTTGTTTTTGTTATAGTTTTCCACTTTTCTTTGGTTACTTCACCTTTGTG
11929262 ATGAATAAACAAGCAAATGAAGCAAACATCAGCTGGTAAAAATGGAAGACTCATTTCACGAACCA
1 ATGAATAAACAAGCAAATGAAGCAAACATCAGCTGGTAAAAATGGAAGACTCATTTCACGAACCA
11929327 TGGTGATTTTCCTTTTGTTTTTGTTATAGTTTTCCACTTTTCTTTGGTTACTTCACCTTTGTG
66 TGGTGATTTTCCTTTTGTTTTTGTTATAGTTTTCCACTTTTCTTTGGTTACTTCACCTTTGTG
11929390 ATGAATAAACAAGCAAATGAAGCAAACATCAGCTGGTAAAAATGGAAGACTCATTTCACGAACCA
1 ATGAATAAACAAGCAAATGAAGCAAACATCAGCTGGTAAAAATGGAAGACTCATTTCACGAACCA
11929455 TGGTGATTTTCCTTTTGTTTTTGTTATAGTTTTCCACTTTTCTTTGGTTACTTCACCTTTGTG
66 TGGTGATTTTCCTTTTGTTTTTGTTATAGTTTTCCACTTTTCTTTGGTTACTTCACCTTTGTG
11929518 TTTGATGTGT
Statistics
Matches: 256, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
128 256 1.00
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.38
Consensus pattern (128 bp):
ATGAATAAACAAGCAAATGAAGCAAACATCAGCTGGTAAAAATGGAAGACTCATTTCACGAACCA
TGGTGATTTTCCTTTTGTTTTTGTTATAGTTTTCCACTTTTCTTTGGTTACTTCACCTTTGTG
Found at i:11930759 original size:21 final size:21
Alignment explanation
Indices: 11930721--11930760 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
11930711 ATTTTTTAGA
*
11930721 ATAATACAAATGTGTTAATAT
1 ATAATACAAATATGTTAATAT
11930742 ATAATTACAAATAT-TTAAT
1 ATAA-TACAAATATGTTAAT
11930761 TGTTATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.40
Consensus pattern (21 bp):
ATAATACAAATATGTTAATAT
Found at i:11930806 original size:33 final size:35
Alignment explanation
Indices: 11930769--11930864 Score: 87
Period size: 33 Copynumber: 2.8 Consensus size: 35
11930759 ATTGTTATAT
11930769 TTAAATATTTAAAATATAATTTATATATT-C-TAA
1 TTAAATATTTAAAATATAATTTATATATTACTTAA
* *
11930802 TTAAAT-TTTATAA-ATAATTAATATTTATTACTTAA
1 TTAAATATTTAAAATATAATT--TATATATTACTTAA
*
11930837 --AAATATTTAAAATTTATATTTCATATAT
1 TTAAATATTTAAAATATA-ATTT-ATATAT
11930865 AAAAATATTA
Statistics
Matches: 50, Mismatches: 5, Indels: 14
0.72 0.07 0.20
Matches are distributed among these distances:
31 6 0.12
32 6 0.12
33 17 0.34
34 8 0.16
35 10 0.20
36 3 0.06
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (35 bp):
TTAAATATTTAAAATATAATTTATATATTACTTAA
Found at i:11930856 original size:30 final size:30
Alignment explanation
Indices: 11930817--11930873 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
11930807 TTTTATAAAT
11930817 AATTAATATTT-AT-TACTTAAAAATATTTAA
1 AATTAATATTTCATATA--TAAAAATATTTAA
*
11930847 AATTTATATTTCATATATAAAAATATT
1 AATTAATATTTCATATATAAAAATATT
11930874 AACAACAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
30 20 0.83
31 2 0.08
32 2 0.08
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (30 bp):
AATTAATATTTCATATATAAAAATATTTAA
Found at i:11938177 original size:30 final size:30
Alignment explanation
Indices: 11938138--11938194 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
11938128 TTTTATAAAT
11938138 AATTAATATTT-AT-TACTTAAAAATATTTAA
1 AATTAATATTTCATATA--TAAAAATATTTAA
*
11938168 AATTTATATTTCATATATAAAAATATT
1 AATTAATATTTCATATATAAAAATATT
11938195 AACAACAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
30 20 0.83
31 2 0.08
32 2 0.08
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (30 bp):
AATTAATATTTCATATATAAAAATATTTAA
Found at i:11939795 original size:53 final size:53
Alignment explanation
Indices: 11939707--11939807 Score: 157
Period size: 53 Copynumber: 1.9 Consensus size: 53
11939697 TTTCTCAATA
* * *
11939707 ATTCAAACCAAGCATCAAATGGAGTTTTCTTCTCCTGCACAACCTTGGCAAGC
1 ATTCAAACCAAGCATCAAATAGAGTCTTCTCCTCCTGCACAACCTTGGCAAGC
* *
11939760 ATTCAAACCAAGCTTCAAATAGAGTCTTCTCCTCCTTCACAACCTTGG
1 ATTCAAACCAAGCATCAAATAGAGTCTTCTCCTCCTGCACAACCTTGG
11939808 TTGGCAATTA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
53 43 1.00
ACGTcount: A:0.30, C:0.30, G:0.13, T:0.28
Consensus pattern (53 bp):
ATTCAAACCAAGCATCAAATAGAGTCTTCTCCTCCTGCACAACCTTGGCAAGC
Found at i:11943440 original size:9 final size:9
Alignment explanation
Indices: 11943423--11943459 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
11943413 TGAGTTTTCG
11943423 AATTCGAAT
1 AATTCGAAT
*
11943432 AACTCGAAT
1 AATTCGAAT
11943441 AATTCGAAT
1 AATTCGAAT
11943450 AATTCGAAT
1 AATTCGAAT
11943459 A
1 A
11943460 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:11943702 original size:30 final size:30
Alignment explanation
Indices: 11943668--11943725 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
11943658 AAACCTTTTA
*
11943668 TTTTCCTCCAAAATTTTTACTCTCTTCCAC
1 TTTTCCTCCAAAACTTTTACTCTCTTCCAC
* *
11943698 TTTTCCTCTAAAACTTTTATTCTCTTCC
1 TTTTCCTCCAAAACTTTTACTCTCTTCC
11943726 CATCCCACCT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.19, C:0.31, G:0.00, T:0.50
Consensus pattern (30 bp):
TTTTCCTCCAAAACTTTTACTCTCTTCCAC
Found at i:11944390 original size:5 final size:5
Alignment explanation
Indices: 11944380--11944410 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
11944370 GAACAAGTAT
11944380 ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG A
1 ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG A
11944411 ATTTCATCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.39
Consensus pattern (5 bp):
ATTCG
Found at i:11946869 original size:23 final size:24
Alignment explanation
Indices: 11946825--11946870 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
11946815 TTTCTCACAT
* **
11946825 TTTCAATTCAATCATTTTTCCACC
1 TTTCAATTCAATAATTAGTCCACC
11946849 TTTCAA-TCAATAATTAGTCCAC
1 TTTCAATTCAATAATTAGTCCAC
11946871 AAATTCACAC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.30, C:0.26, G:0.02, T:0.41
Consensus pattern (24 bp):
TTTCAATTCAATAATTAGTCCACC
Found at i:11947031 original size:3 final size:3
Alignment explanation
Indices: 11947025--11947050 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
11947015 ATAATAATAA
11947025 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
11947051 ATACTTACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:11955943 original size:7 final size:7
Alignment explanation
Indices: 11955933--11955974 Score: 50
Period size: 7 Copynumber: 6.1 Consensus size: 7
11955923 AGAGTTTTGA
11955933 GTTTAGG
1 GTTTAGG
11955940 GTTTAGG
1 GTTTAGG
*
11955947 GTGTA-G
1 GTTTAGG
*
11955953 GCTTAGG
1 GTTTAGG
*
11955960 GTTTGGG
1 GTTTAGG
11955967 GTTTAGG
1 GTTTAGG
11955974 G
1 G
11955975 GTCATGATTT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
6 4 0.14
7 24 0.86
ACGTcount: A:0.12, C:0.02, G:0.48, T:0.38
Consensus pattern (7 bp):
GTTTAGG
Found at i:11955960 original size:20 final size:20
Alignment explanation
Indices: 11955935--11955973 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
11955925 AGTTTTGAGT
11955935 TTAGGGTTTAGGGTGTAGGC
1 TTAGGGTTTAGGGTGTAGGC
* *
11955955 TTAGGGTTTGGGGTTTAGG
1 TTAGGGTTTAGGGTGTAGG
11955974 GGTCATGATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.13, C:0.03, G:0.46, T:0.38
Consensus pattern (20 bp):
TTAGGGTTTAGGGTGTAGGC
Found at i:11956049 original size:14 final size:13
Alignment explanation
Indices: 11956032--11956085 Score: 54
Period size: 14 Copynumber: 3.9 Consensus size: 13
11956022 GAAGTTTAGG
11956032 GTTTAGGGTTTGAT
1 GTTTAGGGTTT-AT
*
11956046 GTTTATGGTTTAGT
1 GTTTAGGGTTTA-T
*
11956060 GTTTAGTGTTTAT
1 GTTTAGGGTTTAT
*
11956073 GATTTAAGGTTTA
1 G-TTTAGGGTTTA
11956086 CAATGTATGG
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
13 3 0.09
14 30 0.91
ACGTcount: A:0.19, C:0.00, G:0.28, T:0.54
Consensus pattern (13 bp):
GTTTAGGGTTTAT
Found at i:11956055 original size:21 final size:20
Alignment explanation
Indices: 11956025--11956126 Score: 87
Period size: 21 Copynumber: 4.8 Consensus size: 20
11956015 AGATATAGAA
*
11956025 GTTTAGGGTTTAGGGTTTGAT
1 GTTTATGGTTTAGGGTTT-AT
*
11956046 GTTTATGGTTTAGTGTTTAGT
1 GTTTATGGTTTAGGGTTTA-T
* * *
11956067 GTTTATGATTTAAGGTTTACA
1 GTTTATGGTTTAGGGTTTA-T
* *
11956088 ATGTATGGTTTAGGGTTTAT
1 GTTTATGGTTTAGGGTTTAT
*
11956108 GATTTACGAGTTTAGGGTT
1 G-TTTATG-GTTTAGGGTT
11956127 AATGATTTAG
Statistics
Matches: 63, Mismatches: 15, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
20 1 0.02
21 52 0.83
22 10 0.16
ACGTcount: A:0.20, C:0.02, G:0.29, T:0.49
Consensus pattern (20 bp):
GTTTATGGTTTAGGGTTTAT
Found at i:11956122 original size:22 final size:22
Alignment explanation
Indices: 11956100--11956149 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
11956090 GTATGGTTTA
11956100 GGGTTTATGATTTACGAGTTTA
1 GGGTTTATGATTTACGAGTTTA
* * *
11956122 GGGTTAATGATTTAGGATTTTA
1 GGGTTTATGATTTACGAGTTTA
*
11956144 AGGTTT
1 GGGTTT
11956150 TAGGGTTTAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.24, C:0.02, G:0.28, T:0.46
Consensus pattern (22 bp):
GGGTTTATGATTTACGAGTTTA
Found at i:11956507 original size:14 final size:14
Alignment explanation
Indices: 11956488--11956515 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
11956478 GTATCAAATT
11956488 TTTAAATAATATTA
1 TTTAAATAATATTA
11956502 TTTAAATAATATTA
1 TTTAAATAATATTA
11956516 ATAATGTCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TTTAAATAATATTA
Found at i:11956549 original size:29 final size:29
Alignment explanation
Indices: 11956453--11956567 Score: 116
Period size: 29 Copynumber: 4.1 Consensus size: 29
11956443 AAAATTTTAA
11956453 CAATTAAAAATAATATCATATTAATGTAT
1 CAATTAAAAATAATATCATATTAATGTAT
** *
11956482 CAAATTTTTAAATAATATTAT-TTAA---AT
1 C-AA-TTAAAAATAATATCATATTAATGTAT
** *
11956509 -AA-TATTAATAATGTCATATTAATGTAT
1 CAATTAAAAATAATATCATATTAATGTAT
11956536 CAATTAAAAATAATATCATATTAATGTAT
1 CAATTAAAAATAATATCATATTAATGTAT
11956565 CAA
1 CAA
11956568 ATTTATAAAT
Statistics
Matches: 68, Mismatches: 10, Indels: 16
0.72 0.11 0.17
Matches are distributed among these distances:
23 11 0.16
24 4 0.06
25 2 0.03
27 4 0.06
28 2 0.03
29 26 0.38
30 6 0.09
31 13 0.19
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.41
Consensus pattern (29 bp):
CAATTAAAAATAATATCATATTAATGTAT
Found at i:11963705 original size:37 final size:36
Alignment explanation
Indices: 11963650--11963727 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 36
11963640 TTAAAACTTC
* * * *
11963650 CTTAAGTGTTTTATCCAAATCTTAAGATTGCAACTCT
1 CTTAAGTGTTTTACCCAAACCTTAAGACT-CAACCCT
11963687 CTTAAG-GTTTCTACCCAAACCTTAAGACTCAACCCT
1 CTTAAGTGTTT-TACCCAAACCTTAAGACTCAACCCT
11963723 CTTAA
1 CTTAA
11963728 AAAGAATAAC
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
36 15 0.42
37 21 0.58
ACGTcount: A:0.31, C:0.26, G:0.09, T:0.35
Consensus pattern (36 bp):
CTTAAGTGTTTTACCCAAACCTTAAGACTCAACCCT
Found at i:11963814 original size:52 final size:52
Alignment explanation
Indices: 11963751--11963855 Score: 210
Period size: 52 Copynumber: 2.0 Consensus size: 52
11963741 TAAGCAAACT
11963751 AAGAAATAATCCTCACATGATTAGGATGTTTGTCAATTAAGCACAAATACAA
1 AAGAAATAATCCTCACATGATTAGGATGTTTGTCAATTAAGCACAAATACAA
11963803 AAGAAATAATCCTCACATGATTAGGATGTTTGTCAATTAAGCACAAATACAA
1 AAGAAATAATCCTCACATGATTAGGATGTTTGTCAATTAAGCACAAATACAA
11963855 A
1 A
11963856 GAATAACACT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.45, C:0.15, G:0.13, T:0.27
Consensus pattern (52 bp):
AAGAAATAATCCTCACATGATTAGGATGTTTGTCAATTAAGCACAAATACAA
Found at i:11964149 original size:21 final size:21
Alignment explanation
Indices: 11964110--11964153 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 21
11964100 CATTTAATTC
11964110 ACTTGCAACCACGAGTATCGAT
1 ACTTGCAACCAC-AGTATCGAT
11964132 ACTTGCTAACCA-AGTATCGAT
1 ACTTGC-AACCACAGTATCGAT
11964153 A
1 A
11964154 TCTTTAGCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 10 0.48
22 6 0.29
23 5 0.24
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (21 bp):
ACTTGCAACCACAGTATCGAT
Found at i:11964401 original size:19 final size:18
Alignment explanation
Indices: 11964370--11964410 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 18
11964360 TTATAACAGT
11964370 TTTAACTTTGATTGAAAATG
1 TTTAACTTTGATT-AAAA-G
11964390 TTTAAC-TTGATTAAAAG
1 TTTAACTTTGATTAAAAG
11964407 TTTA
1 TTTA
11964411 TTCAAAAAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 5 0.24
18 4 0.19
19 6 0.29
20 6 0.29
ACGTcount: A:0.37, C:0.05, G:0.12, T:0.46
Consensus pattern (18 bp):
TTTAACTTTGATTAAAAG
Found at i:11969127 original size:24 final size:24
Alignment explanation
Indices: 11969095--11969141 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
11969085 TCTACGACCT
* *
11969095 GCCACATGTCCAGCGCCAAGGCCC
1 GCCAAATGTCCAGCACCAAGGCCC
11969119 GCCAAATGTCCAGCACCAAGGCC
1 GCCAAATGTCCAGCACCAAGGCC
11969142 TGCTCTAATG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.26, C:0.43, G:0.23, T:0.09
Consensus pattern (24 bp):
GCCAAATGTCCAGCACCAAGGCCC
Found at i:11971012 original size:43 final size:43
Alignment explanation
Indices: 11970965--11971215 Score: 254
Period size: 43 Copynumber: 5.8 Consensus size: 43
11970955 AACCACTATA
* *
11970965 GAACATGACCTTTAGCAGCGCTTTTATCACAAACGCCGCTAAT
1 GAACATGACATTTAGCGGCGCTTTTATCACAAACGCCGCTAAT
* * *
11971008 GAACATAACCTTTAGCGGCGCTTTT-TCCACAAACGTCGCTAAT
1 GAACATGACATTTAGCGGCGCTTTTAT-CACAAACGCCGCTAAT
* * *** *
11971051 GAACATGACATTTAGCGGCAC-TTTACCCACAAATATCACTAAT
1 GAACATGACATTTAGCGGCGCTTTTA-TCACAAACGCCGCTAAT
* *
11971094 GAACATGACTTTTAGCGGCGCTTTTATCACAAACGCCGCTAAA
1 GAACATGACATTTAGCGGCGCTTTTATCACAAACGCCGCTAAT
* * * * * * *
11971137 GAATACGACTTTTAGCGACGCTTTAATCATAAACGCCGCTAAA
1 GAACATGACATTTAGCGGCGCTTTTATCACAAACGCCGCTAAT
** * *
11971180 GAACATGACATTTAGCATCACTTTTATCACCAACGC
1 GAACATGACATTTAGCGGCGCTTTTATCACAAACGC
11971216 AATAAATAAA
Statistics
Matches: 172, Mismatches: 32, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
42 4 0.02
43 164 0.95
44 4 0.02
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.26
Consensus pattern (43 bp):
GAACATGACATTTAGCGGCGCTTTTATCACAAACGCCGCTAAT
Found at i:11971202 original size:129 final size:129
Alignment explanation
Indices: 11970965--11971203 Score: 336
Period size: 129 Copynumber: 1.9 Consensus size: 129
11970955 AACCACTATA
* * *
11970965 GAACATGACCTTTAGCAGCGCTTTTATCACAAACGCCGCTAATGAACATAACCTTTAGCGGCGCT
1 GAACATGACCTTTAGCAGCGCTTTTATCACAAACGCCGCTAAAGAACACAACCTTTAGCGACGCT
* * * *
11971030 TTTTCCACAAACGTCGCTAATGAACATGACATTTAGCGGCACTTTACCCACAAATATCACTAAT
66 TTATCCACAAACGCCGCTAAAGAACATGACATTTAGCAGCACTTTACCCACAAATATCACTAAT
* * * * *
11971094 GAACATGACTTTTAGCGGCGCTTTTATCACAAACGCCGCTAAAGAATACGACTTTTAGCGACGCT
1 GAACATGACCTTTAGCAGCGCTTTTATCACAAACGCCGCTAAAGAACACAACCTTTAGCGACGCT
* *
11971159 TTAAT-CATAAACGCCGCTAAAGAACATGACATTTAGCATCACTTT
66 TT-ATCCACAAACGCCGCTAAAGAACATGACATTTAGCAGCACTTT
11971204 TATCACCAAC
Statistics
Matches: 95, Mismatches: 14, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
129 94 0.99
130 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.27
Consensus pattern (129 bp):
GAACATGACCTTTAGCAGCGCTTTTATCACAAACGCCGCTAAAGAACACAACCTTTAGCGACGCT
TTATCCACAAACGCCGCTAAAGAACATGACATTTAGCAGCACTTTACCCACAAATATCACTAAT
Found at i:11974578 original size:115 final size:115
Alignment explanation
Indices: 11974376--11974595 Score: 440
Period size: 115 Copynumber: 1.9 Consensus size: 115
11974366 CTTTTTTCCT
11974376 CAAAAGAACAAAACAGATAAAAACTCAAAAGAATAGCAGAACAGGAAGCTAACCTGGTCCAATGT
1 CAAAAGAACAAAACAGATAAAAACTCAAAAGAATAGCAGAACAGGAAGCTAACCTGGTCCAATGT
11974441 CTGGTAGTTATCATCTATCCTTGAGTATTTCCTCTCCATATTAACCAATA
66 CTGGTAGTTATCATCTATCCTTGAGTATTTCCTCTCCATATTAACCAATA
11974491 CAAAAGAACAAAACAGATAAAAACTCAAAAGAATAGCAGAACAGGAAGCTAACCTGGTCCAATGT
1 CAAAAGAACAAAACAGATAAAAACTCAAAAGAATAGCAGAACAGGAAGCTAACCTGGTCCAATGT
11974556 CTGGTAGTTATCATCTATCCTTGAGTATTTCCTCTCCATA
66 CTGGTAGTTATCATCTATCCTTGAGTATTTCCTCTCCATA
11974596 GTCCTATGTA
Statistics
Matches: 105, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
115 105 1.00
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.24
Consensus pattern (115 bp):
CAAAAGAACAAAACAGATAAAAACTCAAAAGAATAGCAGAACAGGAAGCTAACCTGGTCCAATGT
CTGGTAGTTATCATCTATCCTTGAGTATTTCCTCTCCATATTAACCAATA
Found at i:11975238 original size:28 final size:29
Alignment explanation
Indices: 11975207--11975271 Score: 82
Period size: 27 Copynumber: 2.3 Consensus size: 29
11975197 TTAGATAAAA
*
11975207 TTATAATTTTTAGT-TTTTATATTTCTTT-
1 TTATAATTTTT-GTATTTTATATTTATTTG
*
11975235 TTAT-ATTTTTGTATTTTATTTTTATTTG
1 TTATAATTTTTGTATTTTATATTTATTTG
11975263 TTATAATTT
1 TTATAATTT
11975272 GGTCCTATTC
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
26 2 0.06
27 18 0.56
28 8 0.25
29 4 0.12
ACGTcount: A:0.22, C:0.02, G:0.05, T:0.72
Consensus pattern (29 bp):
TTATAATTTTTGTATTTTATATTTATTTG
Found at i:11975260 original size:19 final size:20
Alignment explanation
Indices: 11975212--11975267 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
11975202 TAAAATTATA
11975212 ATTTTTAGTTTTTATATTTCT
1 ATTTTTA-TTTTTATATTTCT
*
11975233 -TTTTATATTTTTGTATTT-T
1 ATTTT-TATTTTTATATTTCT
11975252 ATTTTTATTTGTTATA
1 ATTTTTATTT-TTATA
11975268 ATTTGGTCCT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
19 6 0.20
20 22 0.73
21 2 0.07
ACGTcount: A:0.20, C:0.02, G:0.05, T:0.73
Consensus pattern (20 bp):
ATTTTTATTTTTATATTTCT
Found at i:11975697 original size:21 final size:21
Alignment explanation
Indices: 11975685--11975725 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
11975675 CCCCTGACCT
*
11975685 TTAACCCCTAACCCCTAAACA
1 TTAAACCCTAACCCCTAAACA
*
11975706 TTAAACCCTAACCCTTAAAC
1 TTAAACCCTAACCCCTAAAC
11975726 CTAGAGGTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.39, C:0.39, G:0.00, T:0.22
Consensus pattern (21 bp):
TTAAACCCTAACCCCTAAACA
Found at i:11975965 original size:10 final size:11
Alignment explanation
Indices: 11975921--11975963 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
11975911 ACCAAAAATT
11975921 TATTTTAAAAA
1 TATTTTAAAAA
**
11975932 T-TTAAAAAAA
1 TATTTTAAAAA
11975942 GTATTTTAAAAA
1 -TATTTTAAAAA
11975954 TATTTTAAAA
1 TATTTTAAAA
11975964 TAAAAAAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
10 7 0.27
11 12 0.46
12 7 0.27
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (11 bp):
TATTTTAAAAA
Done.