Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 25 of 185
Found at i:6933943 original size:19 final size:20
Alignment explanation
Indices: 6933921--6933961 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
6933911 AAAATATTAT
*
6933921 ATTTACAAA-AATAACCAAA
1 ATTTAAAAACAATAACCAAA
*
6933940 ATTTAAAAACAATCACCAAA
1 ATTTAAAAACAATAACCAAA
6933960 AT
1 AT
6933962 AACCTGAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.61, C:0.17, G:0.00, T:0.22
Consensus pattern (20 bp):
ATTTAAAAACAATAACCAAA
Found at i:6934265 original size:56 final size:56
Alignment explanation
Indices: 6934205--6934322 Score: 139
Period size: 56 Copynumber: 2.1 Consensus size: 56
6934195 TACAGGAAAG
** * * *
6934205 AAAATTCCAATTTTGGTCTGTCAATGGCTGGCACCAGAGTACGAAAAAAA-GAAAAA
1 AAAATTCCAATGCTGGCCTGTCAATGGCCGGCACC-CAGTACGAAAAAAAGGAAAAA
****
6934261 AAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACGAAAAAAAGGAAAAA
1 AAAATTCCAATGCTGGCCTGTCAATGGCCGGCACCCAGTACGAAAAAAAGGAAAAA
6934317 AAAATT
1 AAAATT
6934323 TTTGGGTGCT
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
55 13 0.25
56 39 0.75
ACGTcount: A:0.42, C:0.17, G:0.22, T:0.19
Consensus pattern (56 bp):
AAAATTCCAATGCTGGCCTGTCAATGGCCGGCACCCAGTACGAAAAAAAGGAAAAA
Found at i:6934323 original size:56 final size:56
Alignment explanation
Indices: 6934222--6934369 Score: 192
Period size: 58 Copynumber: 2.6 Consensus size: 56
6934212 CAATTTTGGT
* * *
6934222 CTGTCAATGGCTGGCACCAGAGTACGAAAAAAAGAAAAAAAAA-TTTGGGTGCTGGC
1 CTGTCAATGGCCGGCACC-CAGTACGAAAAAAAGAAAAAAAAATTTTGGGTGCTGAC
6934278 CTGTCAATGGCCGGCACCCAGTACGAAAAAAAGGAAAAAAAAATTTTTGGGTGCTGAC
1 CTGTCAATGGCCGGCACCCAGTACGAAAAAAA-GAAAAAAAAA-TTTTGGGTGCTGAC
*
6934336 CTGTCAATGG-GGTGCACCCAGTACAGTAAAAAAA
1 CTGTCAATGGCCG-GCACCCAGTAC-G-AAAAAAA
6934370 ATTCGAGTTT
Statistics
Matches: 82, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
55 13 0.16
56 27 0.33
57 1 0.01
58 33 0.40
59 1 0.01
60 7 0.09
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.18
Consensus pattern (56 bp):
CTGTCAATGGCCGGCACCCAGTACGAAAAAAAGAAAAAAAAATTTTGGGTGCTGAC
Found at i:6934852 original size:20 final size:20
Alignment explanation
Indices: 6934829--6934866 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
6934819 TAAATGTAAA
6934829 AATAAAAGAAATATTTACAT
1 AATAAAAGAAATATTTACAT
6934849 AATAAAAGAAATATTTAC
1 AATAAAAGAAATATTTAC
6934867 GCTGGGGACG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.61, C:0.05, G:0.05, T:0.29
Consensus pattern (20 bp):
AATAAAAGAAATATTTACAT
Found at i:6937232 original size:43 final size:43
Alignment explanation
Indices: 6937174--6937329 Score: 199
Period size: 43 Copynumber: 3.6 Consensus size: 43
6937164 ATTGATTTGA
6937174 GATTTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATAT
1 GATTTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATAT
*
6937217 GATTTACGTGTAAGACCATGTCTGAGACATTGGCATCGTATAT
1 GATTTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATAT
* * * * * *
6937260 GATTTACGTATAAGACCTTGTCTGGAACAGTGGCATAGATATTT
1 GATTTACGTGTAAGACCATGTCTGGGACATTGGCATCG-TATAT
* *
6937304 GA-TTACATGCAAGA-CATCGTCTGGGA
1 GATTTACGTGTAAGACCAT-GTCTGGGA
6937330 TGTAGGCATT
Statistics
Matches: 98, Mismatches: 13, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
42 2 0.02
43 90 0.92
44 6 0.06
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.31
Consensus pattern (43 bp):
GATTTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATAT
Found at i:6939279 original size:52 final size:51
Alignment explanation
Indices: 6939192--6939667 Score: 626
Period size: 52 Copynumber: 9.2 Consensus size: 51
6939182 TGACACTCTT
* *
6939192 TTTTTTTCATTCAGTCTCATTTGTTTTAAATTTTTTTCCTACATCTAACA-C
1 TTTTTTTCATTCAATCTCATTTATTTTAAA-TTTTTTCCTACATCTAACACC
*
6939243 TTTTTTTCATTCAATCTCATTTATTTCAAAATTTTTTCCTACATCTAACAACC
1 TTTTTTTCATTCAATCTCATTTATTT-TAAATTTTTTCCTACATCTAAC-ACC
*
6939296 TTTTTTTTTCATTCAATCTCATTTATTTTAAATTCTTTCCTACATCTAACACTC
1 --TTTTTTTCATTCAATCTCATTTATTTTAAATTTTTTCCTACATCTAACAC-C
*
6939350 TTTTTTTCATTCAATCTCATTTATTTTAAATTCTTTCCTACATCTAACACCC
1 TTTTTTTCATTCAATCTCATTTATTTTAAATTTTTTCCTACATCTAACA-CC
*
6939402 TTTTTTTCATTCAATCTCATTTATTTCAAAATTTTTTCCTACATCTAACACC
1 TTTTTTTCATTCAATCTCATTTATTT-TAAATTTTTTCCTACATCTAACACC
* * * *
6939454 CTTTTTT--TTC-AT-TCA---ATCTCAAATTCTTTCCTACATCTAACACCC
1 TTTTTTTCATTCAATCTCATTTATTTTAAATTTTTTCCTACATCTAACA-CC
*
6939499 TTTTTTTTCATTCAATCTCATTTATTTTAAATTCTTTCCTACATCTAACACC
1 -TTTTTTTCATTCAATCTCATTTATTTTAAATTTTTTCCTACATCTAACACC
* *
6939551 CTTTTTTCATTCAATCTCATTTATTTCAAATTTTTTTCCTACATCTAACACCC
1 TTTTTTTCATTCAATCTCATTTATTTTAAA-TTTTTTCCTACATCTAACA-CC
* * *
6939604 TTTTTTTTCATTCAATCTTATTTATTTTAGATTTTTTTCTACATCTAACACCC
1 -TTTTTTTCATTCAATCTCATTTATTTTAAATTTTTTCCTACATCTAACA-CC
6939657 TTTTTTTCATT
1 TTTTTTTCATT
6939668 TTCGTTTCTA
Statistics
Matches: 383, Mismatches: 22, Indels: 39
0.86 0.05 0.09
Matches are distributed among these distances:
44 21 0.05
45 5 0.01
46 6 0.02
48 6 0.02
49 4 0.01
50 6 0.02
51 70 0.18
52 119 0.31
53 73 0.19
54 47 0.12
55 26 0.07
ACGTcount: A:0.24, C:0.23, G:0.01, T:0.52
Consensus pattern (51 bp):
TTTTTTTCATTCAATCTCATTTATTTTAAATTTTTTCCTACATCTAACACC
Found at i:6939353 original size:29 final size:29
Alignment explanation
Indices: 6939321--6939405 Score: 67
Period size: 29 Copynumber: 3.1 Consensus size: 29
6939311 ATCTCATTTA
6939321 TTTTAAATTCTTTCCTACATCTAACACTC
1 TTTTAAATTCTTTCCTACATCTAACACTC
* * * *
6939350 TTTT--TTTCATT-C-A-ATCT--CATTTA
1 TTTTAAATTCTTTCCTACATCTAACA-CTC
*
6939373 TTTTAAATTCTTTCCTACATCTAACACCC
1 TTTTAAATTCTTTCCTACATCTAACACTC
6939402 TTTT
1 TTTT
6939406 TTTCATTCAA
Statistics
Matches: 39, Mismatches: 9, Indels: 16
0.61 0.14 0.25
Matches are distributed among these distances:
22 2 0.05
23 5 0.13
24 4 0.10
25 6 0.15
26 2 0.05
27 6 0.15
28 4 0.10
29 8 0.21
30 2 0.05
ACGTcount: A:0.25, C:0.25, G:0.00, T:0.51
Consensus pattern (29 bp):
TTTTAAATTCTTTCCTACATCTAACACTC
Found at i:6939440 original size:105 final size:103
Alignment explanation
Indices: 6939191--6939667 Score: 668
Period size: 105 Copynumber: 4.6 Consensus size: 103
6939181 CTGACACTCT
* *
6939191 TTTTTTTTCATTCAGTCTCATTTGTTTTAAATTTTTTTCCTACATCTAACA-CTTTTTTTCATTC
1 TTTTTTTTCATTCAATCTCATTTATTTTAAA-TTTTTTCCTACATCTAACACCTTTTTTTCATTC
* *
6939255 AATCTCATTTATTTCAAAATTTTTTCCTACATCTAACAACCT
65 AATCTCATTTATTT--AAATTCTTTCCTACATCTAAC-ACCC
*
6939297 TTTTTTTTCATTCAATCTCATTTATTTTAAATTCTTTCCTACATCTAACACTCTTTTTTTCATTC
1 TTTTTTTTCATTCAATCTCATTTATTTTAAATTTTTTCCTACATCTAACAC-CTTTTTTTCATTC
6939362 AATCTCATTTATTTTAAATTCTTTCCTACATCTAACACCC
65 AATCTCATTTA-TTTAAATTCTTTCCTACATCTAACACCC
*
6939402 -TTTTTTTCATTCAATCTCATTTATTTCAAAATTTTTTCCTACATCTAACACCCTTTTTTTTCAT
1 TTTTTTTTCATTCAATCTCATTTATTT-TAAATTTTTTCCTACATCTAACA-CC-TTTTTTTCAT
6939466 TCAATCTC--------AAATTCTTTCCTACATCTAACACCC
63 TCAATCTCATTTATTTAAATTCTTTCCTACATCTAACACCC
* *
6939499 TTTTTTTTCATTCAATCTCATTTATTTTAAATTCTTTCCTACATCTAACACCCTTTTTTCATTCA
1 TTTTTTTTCATTCAATCTCATTTATTTTAAATTTTTTCCTACATCTAACACCTTTTTTTCATTCA
*
6939564 ATCTCATTTATTTCAAATTTTTTTCCTACATCTAACACCC
66 ATCTCATTTATTT-AAA-TTCTTTCCTACATCTAACACCC
* * *
6939604 TTTTTTTTCATTCAATCTTATTTATTTTAGATTTTTTTCTACATCTAACACCCTTTTTTTCATT
1 TTTTTTTTCATTCAATCTCATTTATTTTAAATTTTTTCCTACATCTAACA-CCTTTTTTTCATT
6939668 TTCGTTTCTA
Statistics
Matches: 337, Mismatches: 16, Indels: 36
0.87 0.04 0.09
Matches are distributed among these distances:
95 17 0.05
96 2 0.01
97 46 0.14
98 26 0.08
104 29 0.09
105 110 0.33
106 80 0.24
107 24 0.07
108 3 0.01
ACGTcount: A:0.24, C:0.23, G:0.01, T:0.52
Consensus pattern (103 bp):
TTTTTTTTCATTCAATCTCATTTATTTTAAATTTTTTCCTACATCTAACACCTTTTTTTCATTCA
ATCTCATTTATTTAAATTCTTTCCTACATCTAACACCC
Found at i:6939463 original size:24 final size:24
Alignment explanation
Indices: 6939433--6939507 Score: 63
Period size: 24 Copynumber: 3.3 Consensus size: 24
6939423 TATTTCAAAA
6939433 TTTTTTCCTACATCTAACACCCTT
1 TTTTTTCCTACATCTAACACCCTT
* *
6939457 TTTTTTCATTCAATCTCAA-A-----
1 TTTTTTCCTAC-ATCT-AACACCCTT
*
6939477 TTCTTTCCTACATCTAACACCCTT
1 TTTTTTCCTACATCTAACACCCTT
6939501 TTTTTTC
1 TTTTTTC
6939508 ATTCAATCTC
Statistics
Matches: 37, Mismatches: 6, Indels: 16
0.63 0.10 0.27
Matches are distributed among these distances:
18 2 0.05
19 5 0.14
20 8 0.22
24 15 0.41
25 5 0.14
26 2 0.05
ACGTcount: A:0.21, C:0.29, G:0.00, T:0.49
Consensus pattern (24 bp):
TTTTTTCCTACATCTAACACCCTT
Found at i:6939484 original size:44 final size:44
Alignment explanation
Indices: 6939430--6939621 Score: 204
Period size: 44 Copynumber: 4.0 Consensus size: 44
6939420 ATTTATTTCA
*
6939430 AAATTTTTTCCTACATCTAACACCCTTTTTTTTCATTCAATCTC
1 AAATTCTTTCCTACATCTAACACCCTTTTTTTTCATTCAATCTC
6939474 AAATTCTTTCCTACATCTAACACCCTTTTTTTTCATTCAATCTC
1 AAATTCTTTCCTACATCTAACACCCTTTTTTTTCATTCAATCTC
*
6939518 ATTTATTTTAAATTCTTTCCTACATCTAACACCCTTTTTTCATTCAATCTCATTTATTTC
1 ---------AAATTCTTTCCTACATCTAACACCCTTTTTT--TTC-AT-TCA---ATCTC
*
6939578 AAATTTTTTTCCTACATCTAACACCCTTTTTTTTCATTCAATCT
1 AAA-TTCTTTCCTACATCTAACACCCTTTTTTTTCATTCAATCT
6939622 TATTTATTTT
Statistics
Matches: 127, Mismatches: 4, Indels: 33
0.77 0.02 0.20
Matches are distributed among these distances:
44 43 0.34
45 3 0.02
48 3 0.02
49 2 0.02
50 3 0.02
51 3 0.02
52 27 0.21
53 31 0.24
55 3 0.02
56 2 0.02
57 3 0.02
60 4 0.03
ACGTcount: A:0.25, C:0.26, G:0.00, T:0.49
Consensus pattern (44 bp):
AAATTCTTTCCTACATCTAACACCCTTTTTTTTCATTCAATCTC
Found at i:6939504 original size:149 final size:151
Alignment explanation
Indices: 6939191--6939621 Score: 683
Period size: 149 Copynumber: 2.8 Consensus size: 151
6939181 CTGACACTCT
* * *
6939191 TTTTTTTTCATTCAGTCTCATTTGTTTTAAATTTTTTTCCTACATCTAACA--CTTTTTTTCATT
1 TTTTTTTTCATTCAATCTCATTTATTTTAAA-TTCTTTCCTACATCTAACACCCTTTTTTTCATT
*
6939254 CAATCTCATTTATTTCAAAATTTTTTCCTACATCTAACAACCTTTTTTTTTCATTCAATCTCATT
65 CAATCTCATTTATTTCAAAATTTTTTCCTACATCTAAC-ACCCTTTTTTTTCATTCAATCTC---
*
6939319 TATTTTAAATTCTTTCCTACATCTAACACTC
126 -----TAAATTCTTTCCTACATCTAACACCC
6939350 -TTTTTTTCATTCAATCTCATTTATTTTAAATTCTTTCCTACATCTAACACCCTTTTTTTCATTC
1 TTTTTTTTCATTCAATCTCATTTATTTTAAATTCTTTCCTACATCTAACACCCTTTTTTTCATTC
6939414 AATCTCATTTATTTCAAAATTTTTTCCTACATCTAACACCCTTTTTTTTCATTCAATCTC-AAAT
66 AATCTCATTTATTTCAAAATTTTTTCCTACATCTAACACCCTTTTTTTTCATTCAATCTCTAAAT
6939478 TCTTTCCTACATCTAACACCC
131 TCTTTCCTACATCTAACACCC
6939499 TTTTTTTTCATTCAATCTCATTTATTTTAAATTCTTTCCTACATCTAACACCC-TTTTTTCATTC
1 TTTTTTTTCATTCAATCTCATTTATTTTAAATTCTTTCCTACATCTAACACCCTTTTTTTCATTC
*
6939563 AATCTCATTTATTTCAAATTTTTTTCCTACATCTAACACCCTTTTTTTTCATTCAATCT
66 AATCTCATTTATTTCAAAATTTTTTCCTACATCTAACACCCTTTTTTTTCATTCAATCT
6939622 TATTTATTTT
Statistics
Matches: 263, Mismatches: 6, Indels: 16
0.92 0.02 0.06
Matches are distributed among these distances:
149 93 0.35
150 52 0.20
157 18 0.07
158 50 0.19
159 50 0.19
ACGTcount: A:0.25, C:0.24, G:0.00, T:0.51
Consensus pattern (151 bp):
TTTTTTTTCATTCAATCTCATTTATTTTAAATTCTTTCCTACATCTAACACCCTTTTTTTCATTC
AATCTCATTTATTTCAAAATTTTTTCCTACATCTAACACCCTTTTTTTTCATTCAATCTCTAAAT
TCTTTCCTACATCTAACACCC
Found at i:6939539 original size:202 final size:205
Alignment explanation
Indices: 6939191--6939667 Score: 698
Period size: 202 Copynumber: 2.3 Consensus size: 205
6939181 CTGACACTCT
* * * *
6939191 TTTTTTTTCATTCAGTCTCATTTGTTTTAAATTTTTTTCCTACATCTAACA-CTTTTTTTCATTC
1 TTTTTTTTCATTCAATCTCATTT-ATTTAAAATTTTTTCCTACATCTAACACCCTTTTTT--TTC
* * *
6939255 AATCTCATTTATTTCAAAATTTTTTCCTACATCTAACAACCTTTTTTTTTCATTCAATCTCATTT
63 -AT-TCA--TATCTCAAAATTCTTTCCTACATCTAACAACCCTTTTTTTTCATTCAATCTCATTT
* *
6939320 ATTTTAAATTCTTTCCTACATCTAACACTCTTTTTTTCATTCAATCTCATTTATTTTAAA-TTCT
124 ATTTTAAATTCTTTCCTACATCTAACAC-CCTTTTTTCATTCAATCTCATTTATTTCAAATTTCT
6939384 TTCCTACATCTAACACCC
188 TTCCTACATCTAACACCC
6939402 -TTTTTTTCATTCAATCTCATTTATTTCAAAATTTTTTCCTACATCTAACACCCTTTTTTTTCAT
1 TTTTTTTTCATTCAATCTCATTTATTT-AAAATTTTTTCCTACATCTAACACCCTTTTTTTTCAT
6939466 TCA-ATCTC-AAATTCTTTCCTACATCTAAC-ACCCTTTTTTTTCATTCAATCTCATTTATTTTA
65 TCATATCTCAAAATTCTTTCCTACATCTAACAACCCTTTTTTTTCATTCAATCTCATTTATTTTA
*
6939528 AATTCTTTCCTACATCTAACACCCTTTTTTCATTCAATCTCATTTATTTCAAATTTTTTTCCTAC
130 AATTCTTTCCTACATCTAACACCCTTTTTTCATTCAATCTCATTTATTTCAAATTTCTTTCCTAC
6939593 ATCTAACACCC
195 ATCTAACACCC
* * * *
6939604 TTTTTTTTCATTCAATCTTATTTATTTTAGATTTTTTTCTACATCTAACACCC-TTTTTTTCATT
1 TTTTTTTTCATTCAATCTCATTTATTTAAAATTTTTTCCTACATCTAACACCCTTTTTTTTCATT
6939668 TTCGTTTCTA
Statistics
Matches: 248, Mismatches: 14, Indels: 18
0.89 0.05 0.06
Matches are distributed among these distances:
201 40 0.16
202 98 0.40
203 45 0.18
204 4 0.02
207 3 0.01
208 2 0.01
209 6 0.02
210 43 0.17
211 7 0.03
ACGTcount: A:0.24, C:0.23, G:0.01, T:0.52
Consensus pattern (205 bp):
TTTTTTTTCATTCAATCTCATTTATTTAAAATTTTTTCCTACATCTAACACCCTTTTTTTTCATT
CATATCTCAAAATTCTTTCCTACATCTAACAACCCTTTTTTTTCATTCAATCTCATTTATTTTAA
ATTCTTTCCTACATCTAACACCCTTTTTTCATTCAATCTCATTTATTTCAAATTTCTTTCCTACA
TCTAACACCC
Found at i:6939683 original size:52 final size:53
Alignment explanation
Indices: 6939480--6939667 Score: 233
Period size: 53 Copynumber: 3.6 Consensus size: 53
6939470 TCTCAAATTC
* * * *
6939480 TTTCCTACATCTAACACCCTTTTTTTTCATTCAATCTCATTTATTTTA-AATTC
1 TTTCCTACATCTAACACCCTTTTTTTTCATT-AATCTTATTGATTTTAGATTTT
* * * *
6939533 TTTCCTACATCTAACACCC--TTTTTTCATTCAATCTCATTTATTTCAAATTTT
1 TTTCCTACATCTAACACCCTTTTTTTTCATT-AATCTTATTGATTTTAGATTTT
*
6939585 TTTCCTACATCTAACACCCTTTTTTTTCATTCAATCTTATTTATTTTAGATTTT
1 TTTCCTACATCTAACACCCTTTTTTTTCATT-AATCTTATTGATTTTAGATTTT
6939639 TTT-CTACATCTAACACCC-TTTTTTTCATT
1 TTTCCTACATCTAACACCCTTTTTTTTCATT
6939668 TTCGTTTCTA
Statistics
Matches: 126, Mismatches: 6, Indels: 7
0.91 0.04 0.05
Matches are distributed among these distances:
51 26 0.21
52 33 0.26
53 34 0.27
54 33 0.26
ACGTcount: A:0.23, C:0.24, G:0.01, T:0.52
Consensus pattern (53 bp):
TTTCCTACATCTAACACCCTTTTTTTTCATTAATCTTATTGATTTTAGATTTT
Found at i:6942865 original size:115 final size:115
Alignment explanation
Indices: 6942694--6942915 Score: 338
Period size: 115 Copynumber: 1.9 Consensus size: 115
6942684 GCACCTGAAA
* * *
6942694 TTTTTTTCCCCCAAAAAGGTGGTGTCGACCATTGGCAGGCCACCACCAAATTTTTTTTTACTTTT
1 TTTTTTTCCCCAAAAAAGGTGGTGCCGACCATTGGCAGACCACCACCAAATTTTTTTTTACTTTT
* * *
6942759 TTCGTATACTGATACCTGCTATTGACACG-AAAAAAGTAAAAAAAAATAT
66 TTCATATACTGATACCTGATACTGACACGAAAAAAAGTAAAAAAAAATAT
* * *
6942808 TTTTTTTCCACCAAAAAAGGTGGTGCCGGCCATTGGCAGACCATCACCAATTTTTTTTTTACTTT
1 TTTTTTTCC-CCAAAAAAGGTGGTGCCGACCATTGGCAGACCACCACCAAATTTTTTTTTACTTT
*
6942873 TTTCATATACTGATACTTGATACTGACACGAAAAAAAGTAAAA
65 TTTCATATACTGATACCTGATACTGACACGAAAAAAAGTAAAA
6942916 TTTTTTTATT
Statistics
Matches: 96, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
114 9 0.09
115 75 0.78
116 12 0.12
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.34
Consensus pattern (115 bp):
TTTTTTTCCCCAAAAAAGGTGGTGCCGACCATTGGCAGACCACCACCAAATTTTTTTTTACTTTT
TTCATATACTGATACCTGATACTGACACGAAAAAAAGTAAAAAAAAATAT
Found at i:6943110 original size:56 final size:59
Alignment explanation
Indices: 6942964--6943114 Score: 166
Period size: 61 Copynumber: 2.5 Consensus size: 59
6942954 AAACTCGAAT
*
6942964 TTTTTTTACTGTACTGGGTGCCGGCCATTGACAGGCCAGCATCCAAAAAAATTGTTTTTTTCC
1 TTTTTTT-C-GTACTGGGTGCCGGCCATTGACAGGCCAGCATCC--AAAAATTGTTTTTTTCA
* * *
6943027 TTTTTTTCGTACTGGGTGTCGGTCATTGACAGGCCAGCA-CC-CAAATT-TTTTTTT-A
1 TTTTTTTCGTACTGGGTGCCGGCCATTGACAGGCCAGCATCCAAAAATTGTTTTTTTCA
** *
6943082 TTTTTTTCGTACTTTTGTGCCGACCATTGACAG
1 TTTTTTTCGTAC-TGGGTGCCGGCCATTGACAG
6943115 ACGAAAACTC
Statistics
Matches: 78, Mismatches: 9, Indels: 9
0.81 0.09 0.09
Matches are distributed among these distances:
55 12 0.15
56 22 0.28
57 5 0.06
60 2 0.03
61 29 0.37
62 1 0.01
63 7 0.09
ACGTcount: A:0.19, C:0.21, G:0.19, T:0.40
Consensus pattern (59 bp):
TTTTTTTCGTACTGGGTGCCGGCCATTGACAGGCCAGCATCCAAAAATTGTTTTTTTCA
Found at i:6947369 original size:20 final size:21
Alignment explanation
Indices: 6947344--6947386 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
6947334 GTTTAATTAT
* *
6947344 AAATAT-TTTAAATACAATAA
1 AAATATATATAAATAAAATAA
6947364 AAATATATATAAATAAAATAA
1 AAATATATATAAATAAAATAA
6947385 AA
1 AA
6947387 TTTCAATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (21 bp):
AAATATATATAAATAAAATAA
Found at i:6947722 original size:17 final size:18
Alignment explanation
Indices: 6947686--6947723 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
6947676 AATATTTTTT
*
6947686 TAAAAAAACTTAGTATAA
1 TAAAAAAACTTAGTAGAA
*
6947704 TAAAAAATCTTA-TAGAA
1 TAAAAAAACTTAGTAGAA
6947721 TAA
1 TAA
6947724 TTTAATAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.61, C:0.05, G:0.05, T:0.29
Consensus pattern (18 bp):
TAAAAAAACTTAGTAGAA
Found at i:6949641 original size:6 final size:6
Alignment explanation
Indices: 6949632--6949687 Score: 73
Period size: 6 Copynumber: 9.7 Consensus size: 6
6949622 TAAGGGTTTC
*
6949632 TTTTTA TTTTTA TTTTTA TTTTT- TTCTCTA --TTTA TTTTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TT-TTTA TTTTTA TTTTTA TTTTTA
6949678 TTTTTA TTTT
1 TTTTTA TTTT
6949688 AAAAAAATAT
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
4 3 0.07
5 2 0.05
6 39 0.89
ACGTcount: A:0.14, C:0.04, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTTA
Found at i:6950354 original size:12 final size:12
Alignment explanation
Indices: 6950339--6950369 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
6950329 TAATTAATGT
6950339 TATTATTATTAC
1 TATTATTATTAC
*
6950351 TATTATTATTGC
1 TATTATTATTAC
6950363 TATTATT
1 TATTATT
6950370 TATATATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.61
Consensus pattern (12 bp):
TATTATTATTAC
Found at i:6953108 original size:16 final size:16
Alignment explanation
Indices: 6953089--6953120 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
6953079 GTAGTGGACT
6953089 TTTGTGGACTTTTCAA
1 TTTGTGGACTTTTCAA
6953105 TTTGTGGACTTTTCAA
1 TTTGTGGACTTTTCAA
6953121 CCATTTTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.12, G:0.19, T:0.50
Consensus pattern (16 bp):
TTTGTGGACTTTTCAA
Found at i:6953520 original size:12 final size:12
Alignment explanation
Indices: 6953503--6953529 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
6953493 AATAAATCAT
6953503 ATATGTATATTA
1 ATATGTATATTA
6953515 ATATGTATATTA
1 ATATGTATATTA
6953527 ATA
1 ATA
6953530 GAAAATTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.48
Consensus pattern (12 bp):
ATATGTATATTA
Found at i:6957934 original size:21 final size:21
Alignment explanation
Indices: 6957908--6957948 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
6957898 ATCTGCTCAA
* *
6957908 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
6957929 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
6957949 TTGCTCGTCT
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:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:6963192 original size:26 final size:26
Alignment explanation
Indices: 6963138--6963192 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
6963128 TTTATACTCC
**
6963138 TTTCATTTTATTAAACCTCTATTTTA
1 TTTCATTTTATTAAACCTCTATTCCA
*
6963164 TTTCATTTTATTACAA-GTCTATTCCA
1 TTTCATTTTATTA-AACCTCTATTCCA
6963190 TTT
1 TTT
6963193 TAGTAAAGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 23 0.92
27 2 0.08
ACGTcount: A:0.25, C:0.16, G:0.02, T:0.56
Consensus pattern (26 bp):
TTTCATTTTATTAAACCTCTATTCCA
Found at i:6965337 original size:23 final size:23
Alignment explanation
Indices: 6965311--6965354 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
6965301 TGTGAGAAAA
*
6965311 ATTAAATTTA-AACACATAAATAC
1 ATTAAATTAAGAACAC-TAAATAC
*
6965334 ATTAGATTAAGAACACTAAAT
1 ATTAAATTAAGAACACTAAAT
6965355 GAGCACAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 13 0.72
24 5 0.28
ACGTcount: A:0.55, C:0.11, G:0.05, T:0.30
Consensus pattern (23 bp):
ATTAAATTAAGAACACTAAATAC
Found at i:6965988 original size:27 final size:29
Alignment explanation
Indices: 6965931--6965989 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
6965921 TATTTAAACC
* *
6965931 AAATCAAAATTTCACGTGTATAATTGCACA
1 AAATCAAAATTTCACGTATAAAATT-CACA
*
6965961 AAATCAAAATTT-ATGTATAAAATT-ACA
1 AAATCAAAATTTCACGTATAAAATTCACA
6965988 AA
1 AA
6965990 TTAAATCAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
27 5 0.19
29 9 0.35
30 12 0.46
ACGTcount: A:0.51, C:0.12, G:0.07, T:0.31
Consensus pattern (29 bp):
AAATCAAAATTTCACGTATAAAATTCACA
Found at i:6971449 original size:20 final size:21
Alignment explanation
Indices: 6971415--6971454 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
6971405 GAATCCTTCT
*
6971415 TTTTTCGTCTTATTTTCTCTA
1 TTTTTCGTCTGATTTTCTCTA
6971436 TTTTTC-TCTGATTTTCTCT
1 TTTTTCGTCTGATTTTCTCT
6971455 CGATTTCTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.07, C:0.20, G:0.05, T:0.68
Consensus pattern (21 bp):
TTTTTCGTCTGATTTTCTCTA
Found at i:6972190 original size:44 final size:44
Alignment explanation
Indices: 6972094--6972649 Score: 228
Period size: 44 Copynumber: 12.7 Consensus size: 44
6972084 TCTTGATGCG
* * **
6972094 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTAT-TACTGT-A
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TATCGGCT-TCA
* *
6972138 ATAC-GCTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTCA
1 AT-CTGCTCCACTGCAACTTCAGGGAGATAAGATTATCGGCTTCA
* * * *** *
6972182 ATCTGCTCCACTGTAAATTCAGGGAGATAAGATTGGTCATTTTCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-ATCGGCTTCA
* * *
6972227 ATCTGCCCCACTGCAACTTCAGTCGG-GATAAG---ACCTGCTTACTTA
1 ATCTGCTCCACTGCAACTTCAG--GGAGATAAGATTATCGGCTT-C--A
* ** * * *
6972272 GTCTGCTCCACTATAACTTCAGGGAGATAAGACCTGAT-GTG-ATCC
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGA--TTATCG-GCTTCA
* ** *
6972317 A-CT-CT--ACTGCAACTTCAGAGAGATAAGATCTAT-TACTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TATCGGCTTCA
* * * *
6972357 ATCCGCTCCACTACAACTTCAGGGAGATAGGATCATCGGCTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATCGGCTTCA
* * * ** *
6972401 ATCTGCTCCACTGTAACTTCAGGGAAATAAGATTGGTCATCTTCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-ATCGGCTTCA
* * *
6972446 ATCTGCCCCACTGCAACTTCAGTCGG-GATAAG---ACCTGCTTACTTA
1 ATCTGCTCCACTGCAACTTCAG--GGAGATAAGATTATCGGCTT-C--A
* * * * * *
6972491 GTCTGCTCCACTGTAACTTCAAGGAGATAAGACCTGAT-GTG-ATCC
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGA--TTATCG-GCTTCA
* ** *
6972536 A-CT-CT--ACTGCAACTTCAGAGAGATAAGATCTAT-TACTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TATCGGCTTCA
* * * *
6972576 ATCTGCTCCACTACAACTTCAGAGAGAT-AGAATTATTGACTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAG-ATTATCGGCTTCA
*
6972620 ATCTGCTCCACTGCAACCTCAGGGAGATAA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAA
6972650 AATTTGCTTA
Statistics
Matches: 374, Mismatches: 92, Indels: 91
0.67 0.17 0.16
Matches are distributed among these distances:
39 2 0.01
40 8 0.02
41 43 0.11
42 11 0.03
43 22 0.06
44 177 0.47
45 88 0.24
46 11 0.03
47 6 0.02
48 2 0.01
49 4 0.01
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.28
Consensus pattern (44 bp):
ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATCGGCTTCA
Found at i:6972478 original size:219 final size:219
Alignment explanation
Indices: 6972099--6972649 Score: 967
Period size: 219 Copynumber: 2.5 Consensus size: 219
6972089 ATGCGATCTG
* *
6972099 CTCTACTGCAACTTCAGAGAGATAAGATCTATTACTGTAATACGCTCCACTACAACTTCAGGGAG
1 CTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTACAACTTCAGGGAG
* *
6972164 ATAGGATTATCGGCTTCAATCTGCTCCACTGTAAATTCAGGGAGATAAGATTGGTCATTTTCGAT
66 ATAGGATTATCGGCTTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGATTGGTCATCTTCGAT
*
6972229 CTGCCCCACTGCAACTTCAGTCGGGATAAGACCTGCTTACTTAGTCTGCTCCACTATAACTTCAG
131 CTGCCCCACTGCAACTTCAGTCGGGATAAGACCTGCTTACTTAGTCTGCTCCACTATAACTTCAA
6972294 GGAGATAAGACCTGATGTGATCCA
196 GGAGATAAGACCTGATGTGATCCA
6972318 CTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTACAACTTCAGGGAG
1 CTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTACAACTTCAGGGAG
* *
6972383 ATAGGATCATCGGCTTCAATCTGCTCCACTGTAACTTCAGGGAAATAAGATTGGTCATCTTCGAT
66 ATAGGATTATCGGCTTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGATTGGTCATCTTCGAT
*
6972448 CTGCCCCACTGCAACTTCAGTCGGGATAAGACCTGCTTACTTAGTCTGCTCCACTGTAACTTCAA
131 CTGCCCCACTGCAACTTCAGTCGGGATAAGACCTGCTTACTTAGTCTGCTCCACTATAACTTCAA
6972513 GGAGATAAGACCTGATGTGATCCA
196 GGAGATAAGACCTGATGTGATCCA
* *
6972537 CTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCTGCTCCACTACAACTTCAGAGAG
1 CTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTACAACTTCAGGGAG
* * * * *
6972602 ATAGAATTATTGACTTCAATCTGCTCCACTGCAACCTCAGGGAGATAA
66 ATAGGATTATCGGCTTCAATCTGCTCCACTGTAACTTCAGGGAGATAA
6972650 AATTTGCTTA
Statistics
Matches: 315, Mismatches: 17, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
219 315 1.00
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (219 bp):
CTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTACAACTTCAGGGAG
ATAGGATTATCGGCTTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGATTGGTCATCTTCGAT
CTGCCCCACTGCAACTTCAGTCGGGATAAGACCTGCTTACTTAGTCTGCTCCACTATAACTTCAA
GGAGATAAGACCTGATGTGATCCA
Found at i:6972855 original size:43 final size:43
Alignment explanation
Indices: 6972726--6972914 Score: 225
Period size: 43 Copynumber: 4.3 Consensus size: 43
6972716 CCTTACACTT
* * * *
6972726 GAAGATAAGATTCGTCGTCTTCGATCTGTTTCCCTACTCCTGAG
1 GAAGATAAGATCCGCCG-CTTAGATCTGTTTCCCTACTCCTGGG
* *** *
6972770 GAAGTTAAGATCCGTAATCTTCGATCTGTTTCCCTACTCCTGGG
1 GAAGATAAGATCCG-CCGCTTAGATCTGTTTCCCTACTCCTGGG
*
6972814 GAAGATAAGATCCGCCGCTTAGATCCGTTTCCCTACTCCTGGG
1 GAAGATAAGATCCGCCGCTTAGATCTGTTTCCCTACTCCTGGG
* * * *
6972857 GAAGATAAGATTCACCACTTAGATCTGTTTCCCTACTCTTGGG
1 GAAGATAAGATCCGCCGCTTAGATCTGTTTCCCTACTCCTGGG
*
6972900 AAAGATAAGATCCGC
1 GAAGATAAGATCCGC
6972915 AATATTCACT
Statistics
Matches: 124, Mismatches: 20, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
43 74 0.60
44 50 0.40
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.30
Consensus pattern (43 bp):
GAAGATAAGATCCGCCGCTTAGATCTGTTTCCCTACTCCTGGG
Found at i:6974134 original size:7 final size:7
Alignment explanation
Indices: 6974122--6974169 Score: 55
Period size: 7 Copynumber: 6.9 Consensus size: 7
6974112 TAGCTTCTCT
6974122 ATTTTTC
1 ATTTTTC
6974129 ATTTTTC
1 ATTTTTC
6974136 A-TTTTC
1 ATTTTTC
6974142 ATTTTTC
1 ATTTTTC
*
6974149 A-TTCTC
1 ATTTTTC
6974155 ATTTTCATC
1 ATTTT--TC
6974164 ATTTTT
1 ATTTTT
6974170 TTACTCAAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
6 11 0.31
7 17 0.49
9 7 0.20
ACGTcount: A:0.17, C:0.17, G:0.00, T:0.67
Consensus pattern (7 bp):
ATTTTTC
Found at i:6974140 original size:6 final size:6
Alignment explanation
Indices: 6974124--6974162 Score: 51
Period size: 6 Copynumber: 6.2 Consensus size: 6
6974114 GCTTCTCTAT
*
6974124 TTTTCA TTTTTCA TTTTCA TTTTTCA TTCTCA TTTTCA T
1 TTTTCA -TTTTCA TTTTCA -TTTTCA TTTTCA TTTTCA T
6974163 CATTTTTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
6 17 0.59
7 12 0.41
ACGTcount: A:0.15, C:0.18, G:0.00, T:0.67
Consensus pattern (6 bp):
TTTTCA
Found at i:6974142 original size:13 final size:13
Alignment explanation
Indices: 6974124--6974159 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
6974114 GCTTCTCTAT
6974124 TTTTCATTTTTCA
1 TTTTCATTTTTCA
6974137 TTTTCATTTTTCA
1 TTTTCATTTTTCA
*
6974150 TTCTCATTTT
1 TTTTCATTTT
6974160 CATCATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.14, C:0.17, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTTCATTTTTCA
Found at i:6975137 original size:23 final size:22
Alignment explanation
Indices: 6975105--6975175 Score: 81
Period size: 21 Copynumber: 3.1 Consensus size: 22
6975095 TTGATCTTGA
*
6975105 TTTTGATTTTTTCTTATTTCTTCT
1 TTTTGATTTTTT-TTATTT-TTAT
*
6975129 TTTTGTTTTTTTTTTATTTTTAT
1 TTTTG-ATTTTTTTTATTTTTAT
*
6975152 TTTTGA-TTTTTTTATTTTCAT
1 TTTTGATTTTTTTTATTTTTAT
6975173 TTT
1 TTT
6975176 GCATTTGATT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
21 17 0.40
23 8 0.19
24 11 0.26
25 6 0.14
ACGTcount: A:0.10, C:0.06, G:0.04, T:0.80
Consensus pattern (22 bp):
TTTTGATTTTTTTTATTTTTAT
Found at i:6975164 original size:24 final size:25
Alignment explanation
Indices: 6975105--6975164 Score: 81
Period size: 24 Copynumber: 2.5 Consensus size: 25
6975095 TTGATCTTGA
*
6975105 TTTTGA-TTTTTTCTTATTTCTTCT
1 TTTTGATTTTTTTCTTATTTCTTAT
*
6975129 TTTTG-TTTTTTTTTTATTT-TTAT
1 TTTTGATTTTTTTCTTATTTCTTAT
6975152 TTTTGATTTTTTT
1 TTTTGATTTTTTT
6975165 ATTTTCATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
23 8 0.25
24 24 0.75
ACGTcount: A:0.08, C:0.05, G:0.05, T:0.82
Consensus pattern (25 bp):
TTTTGATTTTTTTCTTATTTCTTAT
Found at i:6976926 original size:20 final size:20
Alignment explanation
Indices: 6976898--6976941 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
6976888 CCTCGAATCC
* *
6976898 CTCTTTTTTCCTCTTATTTT
1 CTCTATTTTCCTCTGATTTT
*
6976918 CTCTATTTTTCTCTGATTTT
1 CTCTATTTTCCTCTGATTTT
6976938 CTCT
1 CTCT
6976942 CGATTTCTGC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.07, C:0.25, G:0.02, T:0.66
Consensus pattern (20 bp):
CTCTATTTTCCTCTGATTTT
Found at i:6979655 original size:33 final size:33
Alignment explanation
Indices: 6979618--6979684 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
6979608 TGGCAATGAG
*
6979618 ATAAAATAGGATTGTATTGAGTGGATAGATTTA
1 ATAAAATAGGATTGTATTGAGTGGACAGATTTA
6979651 ATAAAATAGGATTGTATTGAGTGGACAGATTTA
1 ATAAAATAGGATTGTATTGAGTGGACAGATTTA
6979684 A
1 A
6979685 CTCAAAGGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.40, C:0.01, G:0.24, T:0.34
Consensus pattern (33 bp):
ATAAAATAGGATTGTATTGAGTGGACAGATTTA
Found at i:6980130 original size:19 final size:18
Alignment explanation
Indices: 6980094--6980144 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 18
6980084 GATTTTTGGA
*
6980094 AAAATTAAATTTGACAAAT
1 AAAATTAAA-TTAACAAAT
6980113 AAAATTAAATTAATCAAAT
1 AAAATTAAATTAA-CAAAT
6980132 -AAATTAAAATTAA
1 AAAATT-AAATTAA
6980145 AAAGATATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 8 0.28
19 21 0.72
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (18 bp):
AAAATTAAATTAACAAAT
Found at i:6981133 original size:14 final size:14
Alignment explanation
Indices: 6981110--6981145 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
6981100 TTTCACTGCA
*
6981110 TTTTCTAAACCTAT
1 TTTTCCAAACCTAT
*
6981124 TTTTCCAAACCTGT
1 TTTTCCAAACCTAT
6981138 TTTTCCAA
1 TTTTCCAA
6981146 CAGATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.25, C:0.25, G:0.03, T:0.47
Consensus pattern (14 bp):
TTTTCCAAACCTAT
Found at i:6987974 original size:44 final size:44
Alignment explanation
Indices: 6987911--6988001 Score: 148
Period size: 44 Copynumber: 2.1 Consensus size: 44
6987901 AACTCTGTTT
6987911 TTAGTTTCTCACTTAAACTCTTATTAGTGTAAGTTATTTTAATA
1 TTAGTTTCTCACTTAAACTCTTATTAGTGTAAGTTATTTTAATA
* *
6987955 TTAGTTTC-CTACTTAAACTCTTATTGGTGTAGGTTATTTTAATA
1 TTAGTTTCTC-ACTTAAACTCTTATTAGTGTAAGTTATTTTAATA
6987999 TTA
1 TTA
6988002 TTTGACCTAC
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
43 1 0.02
44 43 0.98
ACGTcount: A:0.27, C:0.11, G:0.11, T:0.51
Consensus pattern (44 bp):
TTAGTTTCTCACTTAAACTCTTATTAGTGTAAGTTATTTTAATA
Found at i:6997938 original size:5 final size:5
Alignment explanation
Indices: 6997930--6997955 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
6997920 GAGATGGAAT
6997930 TCGAA TCGAA TCGAA TCGAA TCGAA T
1 TCGAA TCGAA TCGAA TCGAA TCGAA T
6997956 ATATTTGTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (5 bp):
TCGAA
Found at i:6997955 original size:26 final size:26
Alignment explanation
Indices: 6997904--6997955 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
6997894 TGAAGTTTTC
* * *
6997904 TCGAATCGAGTCGAGTGAGATGGAAT
1 TCGAATCGAATCGAATGAGATCGAAT
6997930 TCGAATCGAATCGAATCGA-ATCGAAT
1 TCGAATCGAATCGAAT-GAGATCGAAT
6997956 ATATTTGTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 20 0.91
27 2 0.09
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.23
Consensus pattern (26 bp):
TCGAATCGAATCGAATGAGATCGAAT
Found at i:6998503 original size:17 final size:17
Alignment explanation
Indices: 6998476--6998521 Score: 51
Period size: 16 Copynumber: 2.6 Consensus size: 17
6998466 AAAGTTTAGG
6998476 GGGGAAATAAAAAGTTTT
1 GGGGAAAT-AAAAGTTTT
6998494 GGGG-AATAAAAG-TTT
1 GGGGAAATAAAAGTTTT
6998509 GAGGGAAAGTAAA
1 G-GGGAAA-TAAA
6998522 TAAGGGGGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 4 0.16
16 8 0.32
17 5 0.20
18 8 0.32
ACGTcount: A:0.46, C:0.00, G:0.33, T:0.22
Consensus pattern (17 bp):
GGGGAAATAAAAGTTTT
Found at i:7003288 original size:22 final size:24
Alignment explanation
Indices: 7003262--7003305 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
7003252 GAAAAATATT
7003262 AAATAT-ATA-TTTTTTATTTTTA
1 AAATATAATAGTTTTTTATTTTTA
7003284 AAATATAATAGTTTTTTATTTT
1 AAATATAATAGTTTTTTATTTT
7003306 AAGTTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 6 0.30
23 3 0.15
24 11 0.55
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (24 bp):
AAATATAATAGTTTTTTATTTTTA
Found at i:7003411 original size:68 final size:67
Alignment explanation
Indices: 7003339--7003479 Score: 146
Period size: 68 Copynumber: 2.1 Consensus size: 67
7003329 TGACTAGTGT
*
7003339 TACAAAATAATA-ATAAAACATCAAGTTTG-T-TTTACTAATCAAATATTAGATTTTGTTACAAC
1 TACAAAATAATACA-AAAA-AT-AA-TTTGATATTTACTAATCAAATATTAGATTTTATTACAAC
7003401 AATTAA
62 AATTAA
* ** * *
7003407 TAC-AATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTATTACAATAA
1 TACAAAATAATACAAAAAATAATTTGAT--ATTTACTAATCAAATATTAGATTTTATTACAACAA
7003471 TTAA
64 TTAA
7003475 TACAA
1 TACAA
7003480 TTAACAATTA
Statistics
Matches: 61, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
64 4 0.07
65 3 0.05
66 2 0.03
67 9 0.15
68 42 0.69
69 1 0.02
ACGTcount: A:0.48, C:0.09, G:0.05, T:0.38
Consensus pattern (67 bp):
TACAAAATAATACAAAAAATAATTTGATATTTACTAATCAAATATTAGATTTTATTACAACAATT
AA
Found at i:7003413 original size:9 final size:9
Alignment explanation
Indices: 7003399--7003426 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
7003389 TTTTGTTACA
7003399 ACAATTAAT
1 ACAATTAAT
7003408 ACAATTAAT
1 ACAATTAAT
7003417 ACAATTAAT
1 ACAATTAAT
7003426 A
1 A
7003427 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:7003480 original size:68 final size:66
Alignment explanation
Indices: 7003369--7003506 Score: 222
Period size: 68 Copynumber: 2.1 Consensus size: 66
7003359 TCAAGTTTGT
*
7003369 TTTACTAATCAAATATTAGATTTTGTTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATATTAGATTTTATTACAACAATTAATACAATT-A-ACAATTAATAATTTGAT
7003434 AAA
64 AAA
* *
7003437 TTTACTAATCAAATGTTAGATTTTATTACAATAATTAATACAATTAACAATTAATAATTTGATAA
1 TTTACTAATCAAATATTAGATTTTATTACAACAATTAATACAATTAACAATTAATAATTTGATAA
*
7003502 T
66 A
7003503 TTTA
1 TTTA
7003507 ATAACAATTA
Statistics
Matches: 66, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
66 23 0.35
67 1 0.02
68 42 0.64
ACGTcount: A:0.46, C:0.08, G:0.04, T:0.42
Consensus pattern (66 bp):
TTTACTAATCAAATATTAGATTTTATTACAACAATTAATACAATTAACAATTAATAATTTGATAA
A
Found at i:7007142 original size:23 final size:23
Alignment explanation
Indices: 7007100--7007143 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
7007090 AGCTCTCTAT
*
7007100 ATATAAACAAGAAGGAAAGAAAG
1 ATATAAACAAGAAGAAAAGAAAG
7007123 ATATAAA-AAGAAGAAGAAGAA
1 ATATAAACAAGAAGAA-AAGAA
7007144 GAAGAAGAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.68, C:0.02, G:0.20, T:0.09
Consensus pattern (23 bp):
ATATAAACAAGAAGAAAAGAAAG
Found at i:7007148 original size:25 final size:25
Alignment explanation
Indices: 7007098--7007146 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
7007088 TCAGCTCTCT
* *
7007098 ATATATAAACAAGAAGGAAAGAAAG
1 ATATAAAAACAAGAAGAAAAGAAAG
*
7007123 ATATAAAAAGAAGAAGAAGAAGAA
1 ATATAAAAACAAGAAGAA-AAGAA
7007147 GAAGAAGGCG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 15 0.75
26 5 0.25
ACGTcount: A:0.67, C:0.02, G:0.20, T:0.10
Consensus pattern (25 bp):
ATATAAAAACAAGAAGAAAAGAAAG
Found at i:7013647 original size:6 final size:6
Alignment explanation
Indices: 7013636--7013664 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
7013626 CTGTTCATTG
7013636 CTTCAA CTTCAA CTTCAA CTTCAA CTTCA
1 CTTCAA CTTCAA CTTCAA CTTCAA CTTCA
7013665 GTTTCAGCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.31, C:0.34, G:0.00, T:0.34
Consensus pattern (6 bp):
CTTCAA
Found at i:7025656 original size:289 final size:285
Alignment explanation
Indices: 7025125--7025955 Score: 762
Period size: 289 Copynumber: 2.9 Consensus size: 285
7025115 TCCTAAAATA
* * * * *
7025125 CTAGCCAAGTGGTAGTGTACTTATCCGCTAATGCCATTTAAGGGCATAGATTCAAACCCCACCAA
1 CTAGCCAAATGGTAGTGTTCTTAACCACTAATGCCATTTAAGGGCATAG-TTCGAA-CCCACCAA
* * * * * *
7025190 GACCAAGTGCTAAACATTTCCTTGGTGGTAAGGCGCTCTCCAAACTCTATGAACATTGGGCTCTG
64 G-CCAAATGCT-AACATTTCCTTGGTGGTGAGGCGTTC-CCAAACTCCATGAACCTTGGGCTCTC
* * * * * * * *
7025255 CTCAAAGTCGAGAGATAAAACCTAAGGCTAAAACCAAGCATAAACACCCCAGACACAATACCTCT
126 CTCGAAGTCGAGAGAAAAAACTTAAGGCTAAAACCGAGCATAGATA-CTCAGACACAATACCTCC
* ** * * *
7025320 ATTGTTGAGGGGTT-TGTCGGCTCCCCGAATGACACTCCAAAAAGATGTCTCCCAGAGCGAGACC
190 ATCGTTGAGGGGTTCAATCGGCTCCCAGAACGACACTCCAAAAAGATGTCTCCCAAAGCGAGACC
* * **
7025384 GATCT-CCCCTTAACAAAAAATGCACTTTTTTT
255 GACCTCCCCCTCAACAAAAAA--CACCCTTTTT
*
7025416 CTAGCCAAATGGTAGTGTTCTTAACCACTAATGCCATTTAAGGGCAT-GTTCGAACGCCACAAAT
1 CTAGCCAAATGGTAGTGTTCTTAACCACTAATGCCATTTAAGGGCATAGTTCGAAC-CCACCAA-
* *
7025480 GTCAAATGCTAACATTTCCTTAGTGGTGAGGCGTTCCACAAACTCCATGAATCCTTGGGCTCTCC
64 GCCAAATGCTAACATTTCCTTGGTGGTGAGGCGTTCC-CAAACTCCATGAA-CCTTGGGCTCTCC
* * * * * *
7025545 TCGGAGTTGAGAGAAAAAACTTAAGGCTAGAACCGAGCATAGATATCTCAGGCACAAAACATCCA
127 TCGAAGTCGAGAGAAAAAACTTAAGGCTAAAACCGAGCATAGATA-CTCAGACACAATACCTCCA
* * * * *
7025610 CCGTTGAGGGGTTCAAT-GGCTCCCTAG-ACGACATTCCTAGAAGATGTCTCCCAAAGCGAGACT
191 TCGTTGAGGGGTTCAATCGGCTCCC-AGAACGACACTCCAAAAAGATGTCTCCCAAAGCGAGACC
7025673 GACCTCCCCCTCAACAAAAAACACCCTTTTT
255 GACCTCCCCCTCAACAAAAAACACCCTTTTT
** * * * * * * *
7025704 CTAGATAACTAGTAGTGTTCTTAGCCATTAATGTCATTTATGGGCATGAGTTTGAACCCTACCAA
1 CTAGCCAAATGGTAGTGTTCTTAACCACTAATGCCATTTAAGGGCAT-AGTTCGAACCC-ACCAA
* * **
7025769 GGCCAAATGTTAATATTTCCTTGGTGGTGA-GCTGTTATGCAAACTCCATGAACCTTTGGGCTCT
64 -GCCAAATGCTAACATTTCCTTGGTGGTGAGGC-GTT-CCCAAACTCCATGAACC-TTGGGCTCT
* * * * * * *
7025833 CATCGAAATCGAAAGACAAAACTCAA-GCTAAAACTGAGTATAGATACTCTAGACACAATACCTC
125 CCTCGAAGTCGAGAGAAAAAACTTAAGGCTAAAACCGAGCATAGATACTC-AGACACAATACCTC
* ** ** * * *
7025897 CATCATTGAGGGGTTCGCT-AACTCCTCA-AACAACATTCCAAGAAGATGTCTCCCAAAGC
189 CATCGTTGAGGGGTTCAATCGGCTCC-CAGAACGACACTCCAAAAAGATGTCTCCCAAAGC
7025956 AAGCCCAATC
Statistics
Matches: 442, Mismatches: 82, Indels: 34
0.79 0.15 0.06
Matches are distributed among these distances:
287 1 0.00
288 86 0.19
289 213 0.48
290 99 0.22
291 43 0.10
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (285 bp):
CTAGCCAAATGGTAGTGTTCTTAACCACTAATGCCATTTAAGGGCATAGTTCGAACCCACCAAGC
CAAATGCTAACATTTCCTTGGTGGTGAGGCGTTCCCAAACTCCATGAACCTTGGGCTCTCCTCGA
AGTCGAGAGAAAAAACTTAAGGCTAAAACCGAGCATAGATACTCAGACACAATACCTCCATCGTT
GAGGGGTTCAATCGGCTCCCAGAACGACACTCCAAAAAGATGTCTCCCAAAGCGAGACCGACCTC
CCCCTCAACAAAAAACACCCTTTTT
Found at i:7026008 original size:23 final size:23
Alignment explanation
Indices: 7025978--7026022 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
7025968 TCAACAGATT
*
7025978 TGAAGTTCAAATTTTAGCATCTG
1 TGAAGTTCAAATTTTAACATCTG
* *
7026001 TGAAGTTCGAGTTTTAACATCT
1 TGAAGTTCAAATTTTAACATCT
7026023 ATAATCTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.29, C:0.13, G:0.18, T:0.40
Consensus pattern (23 bp):
TGAAGTTCAAATTTTAACATCTG
Found at i:7027868 original size:12 final size:11
Alignment explanation
Indices: 7027831--7027892 Score: 61
Period size: 12 Copynumber: 5.2 Consensus size: 11
7027821 TTTAGCAATT
*
7027831 TTATTATTTAGA
1 TTATTATTT-TA
*
7027843 TAATTATTTTA
1 TTATTATTTTA
7027854 TTATTATTTTCA
1 TTATTATTTT-A
7027866 TTATTATTAATTA
1 TTATTATT--TTA
7027879 TTATTAGTTTTA
1 TTATTA-TTTTA
7027891 TT
1 TT
7027893 TTCCTTTTAT
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
11 10 0.23
12 22 0.51
13 7 0.16
14 4 0.09
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.65
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:7027869 original size:15 final size:15
Alignment explanation
Indices: 7027851--7027908 Score: 50
Period size: 15 Copynumber: 3.8 Consensus size: 15
7027841 GATAATTATT
7027851 TTATTATTATTTTCA
1 TTATTATTATTTTCA
7027866 TTATTATTAATTATT-A
1 TTATTATT-ATT-TTCA
*
7027882 TTAGTT-TTATTTTCC
1 TTA-TTATTATTTTCA
7027897 TT-TTATTTATTT
1 TTATTA-TTATTT
7027909 GTGACTATTG
Statistics
Matches: 36, Mismatches: 1, Indels: 12
0.73 0.02 0.24
Matches are distributed among these distances:
13 2 0.06
14 2 0.06
15 19 0.53
16 9 0.25
17 4 0.11
ACGTcount: A:0.24, C:0.05, G:0.02, T:0.69
Consensus pattern (15 bp):
TTATTATTATTTTCA
Found at i:7027879 original size:30 final size:30
Alignment explanation
Indices: 7027843--7027903 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 30
7027833 ATTATTTAGA
7027843 TAATTATT-TTA-TTATTATTTTCATTATTAT
1 TAATTATTATTAGTT-TTATTTTCATT-TTAT
*
7027873 TAATTATTATTAGTTTTATTTTCCTTTTAT
1 TAATTATTATTAGTTTTATTTTCATTTTAT
7027903 T
1 T
7027904 TATTTGTGAC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
30 13 0.46
31 13 0.46
32 2 0.07
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (30 bp):
TAATTATTATTAGTTTTATTTTCATTTTAT
Found at i:7039233 original size:56 final size:56
Alignment explanation
Indices: 7039172--7039285 Score: 201
Period size: 56 Copynumber: 2.0 Consensus size: 56
7039162 TTCATTGTGC
*
7039172 GTAGGAGTATTGTCTTTATAGGTGTTGGCGTCATTACTTATTGATTGATTGTGGTA
1 GTAGGAGTATTGTCTTTATAGGTGTTGGCCTCATTACTTATTGATTGATTGTGGTA
* *
7039228 GTAGGAGTATTGTCTTTGTAGGTGTTTGCCTCATTACTTATTGATTGATTGTGGTA
1 GTAGGAGTATTGTCTTTATAGGTGTTGGCCTCATTACTTATTGATTGATTGTGGTA
7039284 GT
1 GT
7039286 TCAGTTGGAC
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.18, C:0.08, G:0.28, T:0.46
Consensus pattern (56 bp):
GTAGGAGTATTGTCTTTATAGGTGTTGGCCTCATTACTTATTGATTGATTGTGGTA
Found at i:7042950 original size:23 final size:23
Alignment explanation
Indices: 7042931--7042984 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
7042921 TGTATACACG
7042931 TACATAATAAAAATATATACTAA
1 TACATAATAAAAATATATACTAA
* *
7042954 TACATAATAATAATA-ATAGTAA
1 TACATAATAAAAATATATACTAA
7042976 TAC-TAATAA
1 TACATAATAA
7042985 TACTAATAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 6 0.21
22 9 0.31
23 14 0.48
ACGTcount: A:0.59, C:0.07, G:0.02, T:0.31
Consensus pattern (23 bp):
TACATAATAAAAATATATACTAA
Found at i:7042965 original size:3 final size:3
Alignment explanation
Indices: 7042934--7043004 Score: 63
Period size: 3 Copynumber: 23.3 Consensus size: 3
7042924 ATACACGTAC
* * * *
7042934 ATA ATA AAA ATA TATA CTA ATA CATA ATA ATA ATA ATA GTA ATA CTA
1 ATA ATA ATA ATA -ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
* *
7042981 ATA ATA CTA ATA AT- ATA AAA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
7043005 CAAGGATATT
Statistics
Matches: 53, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
2 2 0.04
3 45 0.85
4 6 0.11
ACGTcount: A:0.62, C:0.06, G:0.01, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:7043485 original size:13 final size:12
Alignment explanation
Indices: 7043467--7043504 Score: 60
Period size: 11 Copynumber: 3.2 Consensus size: 12
7043457 AAGAAAAAAA
7043467 GAAGAGAGAGAGG
1 GAAGAGAGA-AGG
7043480 GAAGAGAGAAGG
1 GAAGAGAGAAGG
7043492 G-AGAGAGAAGG
1 GAAGAGAGAAGG
7043503 GA
1 GA
7043505 GGGGGAAAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.46
12 4 0.17
13 9 0.38
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (12 bp):
GAAGAGAGAAGG
Found at i:7047312 original size:13 final size:13
Alignment explanation
Indices: 7047289--7047323 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
7047279 AATTGGACTT
7047289 GTAAATA-TTTTA
1 GTAAATATTTTTA
7047301 GTAAATATTTTTA
1 GTAAATATTTTTA
*
7047314 ATAAATATTT
1 GTAAATATTT
7047324 AGGAAGCTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 7 0.33
13 14 0.67
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (13 bp):
GTAAATATTTTTA
Found at i:7048604 original size:25 final size:25
Alignment explanation
Indices: 7048551--7048608 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
7048541 GAACTTTAGC
* * *
7048551 GTGCTCTCTGATTATTAGCTCGTTG
1 GTGCTCTCTGATTACTAGCTCGATA
7048576 GTGCTCTCTGATTACTAGCAT-GATA
1 GTGCTCTCTGATTACTAGC-TCGATA
7048601 GTGCTCTC
1 GTGCTCTC
7048609 CATTTAGCAC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 28 0.97
26 1 0.03
ACGTcount: A:0.16, C:0.22, G:0.22, T:0.40
Consensus pattern (25 bp):
GTGCTCTCTGATTACTAGCTCGATA
Found at i:7048626 original size:22 final size:22
Alignment explanation
Indices: 7048601--7048675 Score: 107
Period size: 22 Copynumber: 3.4 Consensus size: 22
7048591 TAGCATGATA
**
7048601 GTGCTCTCCATTTAGCACATCT
1 GTGCTCTCTTTTTAGCACATCT
7048623 GTGCTCTCTTTTTAGCACATCT
1 GTGCTCTCTTTTTAGCACATCT
*
7048645 GTGCTCTCTTTTTAGCAC-TTT
1 GTGCTCTCTTTTTAGCACATCT
7048666 AGTGCTCTCT
1 -GTGCTCTCT
7048676 GTTCATTAGT
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
21 2 0.04
22 47 0.96
ACGTcount: A:0.13, C:0.28, G:0.15, T:0.44
Consensus pattern (22 bp):
GTGCTCTCTTTTTAGCACATCT
Found at i:7052486 original size:24 final size:23
Alignment explanation
Indices: 7052410--7052487 Score: 56
Period size: 24 Copynumber: 3.3 Consensus size: 23
7052400 CACCCATTTT
7052410 ATTTTTA-ATTTAA-TAT-TTAA
1 ATTTTTATATTTAATTATCTTAA
*
7052430 TGATTTTATATATTT-TTTATTCATTAA
1 --ATTTT-TATATTTAATTA-TC-TTAA
*
7052457 AATTTTATATTTAATTATCTTAA
1 ATTTTTATATTTAATTATCTTAA
7052480 CATTTTTA
1 -ATTTTTA
7052488 ATGTTTACAT
Statistics
Matches: 44, Mismatches: 4, Indels: 14
0.71 0.06 0.23
Matches are distributed among these distances:
22 5 0.11
23 6 0.14
24 21 0.48
25 8 0.18
27 4 0.09
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.60
Consensus pattern (23 bp):
ATTTTTATATTTAATTATCTTAA
Found at i:7053150 original size:10 final size:10
Alignment explanation
Indices: 7053137--7053166 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
7053127 ATTTTCTTTT
7053137 ATTATTATTA
1 ATTATTATTA
*
7053147 ATTATTAATA
1 ATTATTATTA
7053157 ATTATTATTA
1 ATTATTATTA
7053167 TTACATTCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (10 bp):
ATTATTATTA
Found at i:7054218 original size:14 final size:13
Alignment explanation
Indices: 7054195--7054235 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
7054185 AGTGTAAATA
7054195 AAATGTTATAATT
1 AAATGTTATAATT
*
7054208 AAATG-TAT-ATA
1 AAATGTTATAATT
7054219 AAATGTTATAATT
1 AAATGTTATAATT
7054232 AAAT
1 AAAT
7054236 CTAGACTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 7 0.29
12 6 0.25
13 11 0.46
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.41
Consensus pattern (13 bp):
AAATGTTATAATT
Found at i:7054219 original size:24 final size:24
Alignment explanation
Indices: 7054178--7054235 Score: 89
Period size: 24 Copynumber: 2.4 Consensus size: 24
7054168 AATCTATTTT
*
7054178 TAATATAAGTGTAAATAAAATGTTA
1 TAAT-TAAATGTAAATAAAATGTTA
*
7054203 TAATTAAATGTATATAAAATGTTA
1 TAATTAAATGTAAATAAAATGTTA
7054227 TAATTAAAT
1 TAATTAAAT
7054236 CTAGACTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
24 27 0.87
25 4 0.13
ACGTcount: A:0.52, C:0.00, G:0.09, T:0.40
Consensus pattern (24 bp):
TAATTAAATGTAAATAAAATGTTA
Found at i:7059682 original size:3 final size:3
Alignment explanation
Indices: 7059674--7059706 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
7059664 TTTGGTCGGA
7059674 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
7059707 TTGGTTGGCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:7061945 original size:3 final size:3
Alignment explanation
Indices: 7061931--7061968 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
7061921 GGGTTTTTCA
7061931 CTT CTT -TT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
7061969 TTATTTGGTT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
CTT
Found at i:7066391 original size:18 final size:19
Alignment explanation
Indices: 7066368--7066406 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
7066358 TACAAATACA
*
7066368 AACATT-ACATAATTATTT
1 AACATTCACATAATAATTT
*
7066386 AACATTCACATCATAATTT
1 AACATTCACATAATAATTT
7066405 AA
1 AA
7066407 TCTCATCATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (19 bp):
AACATTCACATAATAATTT
Found at i:7066910 original size:31 final size:31
Alignment explanation
Indices: 7066875--7066933 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
7066865 TTACAACATA
* *
7066875 TTTCATATTCTATTTTCAATTCACTATCGTT
1 TTTCACATTCTACTTTCAATTCACTATCGTT
7066906 TTTCACATTCTACTTTCAATTCACTATC
1 TTTCACATTCTACTTTCAATTCACTATC
7066934 TCATATTCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.24, C:0.24, G:0.02, T:0.51
Consensus pattern (31 bp):
TTTCACATTCTACTTTCAATTCACTATCGTT
Found at i:7067052 original size:22 final size:22
Alignment explanation
Indices: 7067024--7067102 Score: 77
Period size: 22 Copynumber: 3.5 Consensus size: 22
7067014 GCACTAATGA
7067024 ACAGAGAGCAATGAAGTGCTAT
1 ACAGAGAGCAATGAAGTGCTAT
* * *
7067046 ACAGAGAGCACTGAAGTACTAA
1 ACAGAGAGCAATGAAGTGCTAT
* * *
7067068 ACGGAGAGCATTGACGTGCTAAT
1 ACAGAGAGCAATGAAGTGCT-AT
7067091 AATCAGAGAGCA
1 -A-CAGAGAGCA
7067103 TTGGCGTGCT
Statistics
Matches: 45, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
22 35 0.78
23 1 0.02
24 1 0.02
25 8 0.18
ACGTcount: A:0.41, C:0.16, G:0.27, T:0.16
Consensus pattern (22 bp):
ACAGAGAGCAATGAAGTGCTAT
Found at i:7067201 original size:25 final size:25
Alignment explanation
Indices: 7067017--7067193 Score: 161
Period size: 25 Copynumber: 7.3 Consensus size: 25
7067007 TTATTATGCA
* *
7067017 CTAATGAA-CAGAGAGCAATGAAGTG
1 CTAAT-AATCAGAGAGCACTGACGTG
* *
7067042 CT-AT-A-CAGAGAGCACTGAAGTA
1 CTAATAATCAGAGAGCACTGACGTG
* *
7067064 CT-A-AA-CGGAGAGCATTGACGTG
1 CTAATAATCAGAGAGCACTGACGTG
* *
7067086 CTAATAATCAGAGAGCATTGGCGTG
1 CTAATAATCAGAGAGCACTGACGTG
*
7067111 CTAATAATCAGAGAGCACTGGCGTG
1 CTAATAATCAGAGAGCACTGACGTG
* *
7067136 CTAATAATCGGAGAGCACTAACGTG
1 CTAATAATCAGAGAGCACTGACGTG
* ** *
7067161 ATAATAATTGGAGAGCACTGATGTG
1 CTAATAATCAGAGAGCACTGACGTG
7067186 CTAATAAT
1 CTAATAAT
7067194 TAAAGAGCGC
Statistics
Matches: 131, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
22 35 0.27
23 1 0.01
24 4 0.03
25 91 0.69
ACGTcount: A:0.37, C:0.16, G:0.26, T:0.21
Consensus pattern (25 bp):
CTAATAATCAGAGAGCACTGACGTG
Found at i:7071511 original size:26 final size:27
Alignment explanation
Indices: 7071466--7071522 Score: 73
Period size: 26 Copynumber: 2.1 Consensus size: 27
7071456 AAATCCCAAA
* *
7071466 TTTTCTTTCTTTCCTTCCCT-TTTTCT
1 TTTTCTTTCTTTCCTCCCCTGTTTTCG
7071492 TTTTCTTTCCTTT-CTCCCCTGTTTTCG
1 TTTTCTTT-CTTTCCTCCCCTGTTTTCG
7071519 TTTT
1 TTTT
7071523 GCTATTCTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 14 0.52
27 13 0.48
ACGTcount: A:0.00, C:0.30, G:0.04, T:0.67
Consensus pattern (27 bp):
TTTTCTTTCTTTCCTCCCCTGTTTTCG
Found at i:7073384 original size:21 final size:21
Alignment explanation
Indices: 7073356--7073419 Score: 119
Period size: 21 Copynumber: 3.0 Consensus size: 21
7073346 TTTGGGTGGA
7073356 TCAGCTCTCACGAGCTTCTGT
1 TCAGCTCTCACGAGCTTCTGT
*
7073377 TTAGCTCTCACGAGCTTCTGT
1 TCAGCTCTCACGAGCTTCTGT
7073398 TCAGCTCTCACGAGCTTCTGT
1 TCAGCTCTCACGAGCTTCTGT
7073419 T
1 T
7073420 GGCGTGTTCG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.14, C:0.31, G:0.19, T:0.36
Consensus pattern (21 bp):
TCAGCTCTCACGAGCTTCTGT
Found at i:7076066 original size:25 final size:25
Alignment explanation
Indices: 7076038--7076085 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
7076028 ATTTAGCCCG
7076038 GATCGAAGCTCATTAGAGTAATTCA
1 GATCGAAGCTCATTAGAGTAATTCA
7076063 GATCGAAGCTCATTAGAGTAATT
1 GATCGAAGCTCATTAGAGTAATT
7076086 GTCATTGCAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (25 bp):
GATCGAAGCTCATTAGAGTAATTCA
Found at i:7078662 original size:26 final size:26
Alignment explanation
Indices: 7078633--7078688 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
7078623 ATTTAGAGAT
*
7078633 AAAATAGGCCAATGTGTGACATAAGG
1 AAAATAGGCCAATGTGCGACATAAGG
*
7078659 AAAATGGGCCAATGTGCGACATAAGG
1 AAAATAGGCCAATGTGCGACATAAGG
7078685 AAAA
1 AAAA
7078689 GTTGGTGCCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.45, C:0.12, G:0.27, T:0.16
Consensus pattern (26 bp):
AAAATAGGCCAATGTGCGACATAAGG
Found at i:7078795 original size:15 final size:15
Alignment explanation
Indices: 7078770--7078804 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
7078760 GACTCTATTT
*
7078770 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
7078784 TAATTAATATTAAGA
1 TAATTAATATTAAGA
7078799 TAATTA
1 TAATTA
7078805 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:7078847 original size:10 final size:10
Alignment explanation
Indices: 7078829--7078876 Score: 53
Period size: 10 Copynumber: 4.9 Consensus size: 10
7078819 ATTTTAGGAT
7078829 TTTAT-TTTA
1 TTTATCTTTA
7078838 TTTATCTTTA
1 TTTATCTTTA
7078848 TTTATCTTTA
1 TTTATCTTTA
* ** *
7078858 ATTAAATGTA
1 TTTATCTTTA
7078868 TTTATCTTT
1 TTTATCTTT
7078877 CGGGAGTTTA
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
9 5 0.17
10 25 0.83
ACGTcount: A:0.25, C:0.06, G:0.02, T:0.67
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:7080806 original size:30 final size:30
Alignment explanation
Indices: 7080770--7080827 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
7080760 AATAATAATG
7080770 CATTGATACTAATGTGTAGTTGGTTGATAA
1 CATTGATACTAATGTGTAGTTGGTTGATAA
7080800 CATTGATACTAATGTGTAGTTGGTTGAT
1 CATTGATACTAATGTGTAGTTGGTTGAT
7080828 GACAAAGTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.28, C:0.07, G:0.24, T:0.41
Consensus pattern (30 bp):
CATTGATACTAATGTGTAGTTGGTTGATAA
Found at i:7090055 original size:36 final size:37
Alignment explanation
Indices: 7089992--7090062 Score: 99
Period size: 36 Copynumber: 1.9 Consensus size: 37
7089982 GTTCTGTATG
**
7089992 GAATTATATGTGTTTCCTTCCTGATAAAATTCTAAATC
1 GAATTATA-GTGTTTCCTTCCCAATAAAATTCTAAATC
*
7090030 GAATTATA-TGTTTCTTTCCCAATAAAATTCTAA
1 GAATTATAGTGTTTCCTTCCCAATAAAATTCTAA
7090063 GGTTAATAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
36 22 0.73
38 8 0.27
ACGTcount: A:0.34, C:0.15, G:0.08, T:0.42
Consensus pattern (37 bp):
GAATTATAGTGTTTCCTTCCCAATAAAATTCTAAATC
Found at i:7094360 original size:84 final size:84
Alignment explanation
Indices: 7094251--7094517 Score: 235
Period size: 84 Copynumber: 3.3 Consensus size: 84
7094241 GAAATCTTAT
*
7094251 AAAAAT-AGGATTCAGAGGTACCCTTTTTGAAGGTATCATAAAAGATGGTGAATGAATGTAACAG
1 AAAAATCA-GATTCAGAGATACCCTTTTTGAAGGTATCATAAAAGATGGTGAATGAATGTAACAG
7094315 ATAGGAACAAGGACCTCGTC
65 ATAGGAACAAGGACCTCGTC
* * * * * * *
7094335 AAAAATCAGATTCGGAGATACCC-TTTTCAGAGG--TCAATGGAAAACAAGCT---TCAA-GGAA
1 AAAAATCAGATTCAGAGATACCCTTTTTGA-AGGTATC-AT--AAAAGATGGTGAATGAATGTAA
* **
7094393 C-GAT--G---AA--ATCTTAT-
62 CAGATAGGAACAAGGACCTCGTC
** *
7094407 AAAAATAGGATTCAGAGGTACCCTTTTTGAAGGTATCATAAAAGATGGTGAATGAATGTAACAGA
1 AAAAATCAGATTCAGAGATACCCTTTTTGAAGGTATCATAAAAGATGGTGAATGAATGTAACAGA
7094472 TAGGAACAAGGACCTCGTC
66 TAGGAACAAGGACCTCGTC
*
7094491 AAAAATCAGATTCGGAGATACCCTTTT
1 AAAAATCAGATTCAGAGATACCCTTTT
7094518 CAGAGGTCAA
Statistics
Matches: 134, Mismatches: 28, Indels: 42
0.66 0.14 0.21
Matches are distributed among these distances:
71 7 0.05
72 22 0.16
73 11 0.08
74 5 0.04
75 6 0.04
76 3 0.02
78 2 0.01
80 3 0.02
81 6 0.04
82 5 0.04
83 11 0.08
84 45 0.34
85 8 0.06
ACGTcount: A:0.39, C:0.15, G:0.22, T:0.24
Consensus pattern (84 bp):
AAAAATCAGATTCAGAGATACCCTTTTTGAAGGTATCATAAAAGATGGTGAATGAATGTAACAGA
TAGGAACAAGGACCTCGTC
Found at i:7094516 original size:156 final size:156
Alignment explanation
Indices: 7094232--7094544 Score: 626
Period size: 156 Copynumber: 2.0 Consensus size: 156
7094222 TGTATGTAAC
7094232 AGGAACGATGAAATCTTATAAAAATAGGATTCAGAGGTACCCTTTTTGAAGGTATCATAAAAGAT
1 AGGAACGATGAAATCTTATAAAAATAGGATTCAGAGGTACCCTTTTTGAAGGTATCATAAAAGAT
7094297 GGTGAATGAATGTAACAGATAGGAACAAGGACCTCGTCAAAAATCAGATTCGGAGATACCCTTTT
66 GGTGAATGAATGTAACAGATAGGAACAAGGACCTCGTCAAAAATCAGATTCGGAGATACCCTTTT
7094362 CAGAGGTCAATGGAAAACAAGCTTCA
131 CAGAGGTCAATGGAAAACAAGCTTCA
7094388 AGGAACGATGAAATCTTATAAAAATAGGATTCAGAGGTACCCTTTTTGAAGGTATCATAAAAGAT
1 AGGAACGATGAAATCTTATAAAAATAGGATTCAGAGGTACCCTTTTTGAAGGTATCATAAAAGAT
7094453 GGTGAATGAATGTAACAGATAGGAACAAGGACCTCGTCAAAAATCAGATTCGGAGATACCCTTTT
66 GGTGAATGAATGTAACAGATAGGAACAAGGACCTCGTCAAAAATCAGATTCGGAGATACCCTTTT
7094518 CAGAGGTCAATGGAAAACAAGCTTCA
131 CAGAGGTCAATGGAAAACAAGCTTCA
7094544 A
1 A
7094545 AACCAGGATG
Statistics
Matches: 157, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
156 157 1.00
ACGTcount: A:0.40, C:0.15, G:0.22, T:0.24
Consensus pattern (156 bp):
AGGAACGATGAAATCTTATAAAAATAGGATTCAGAGGTACCCTTTTTGAAGGTATCATAAAAGAT
GGTGAATGAATGTAACAGATAGGAACAAGGACCTCGTCAAAAATCAGATTCGGAGATACCCTTTT
CAGAGGTCAATGGAAAACAAGCTTCA
Found at i:7101616 original size:220 final size:220
Alignment explanation
Indices: 7101230--7101668 Score: 806
Period size: 220 Copynumber: 2.0 Consensus size: 220
7101220 AACATAATTT
*
7101230 TAATCACACATAAATTTCATTGTTTGTTCAATTTCCAGCAAGCTGTTTTTCTGCGTCACGGTCAC
1 TAATCACACATAAATTTCATTGTTTGTTCAATTTCCAGCAAGCTGTTTTTCTGCATCACGGTCAC
*
7101295 TAATTTATATTTATCTGGAGCTACAGGGCTCCAAATTGAGTTCCGTAAATTTTATCCGAAACTAG
66 TAATTTATATTTATCTGGAGCTACAGGGCTCCAAATTGAGTTCCGTAAATTTTACCCGAAACTAG
*
7101360 ATTCATACACCTTTCCACCATAAAATTTTCAGAAGTTTTGGTTTGGCAAATTAGTATAGTTTATT
131 ATTCATACACCTTTCCACCATAAAATTTTCAGAAGTTTTGGTTTGGCAAATTAGTACAGTTTATT
7101425 CTCTAAAGATTCCCCTGTTTCACTA
196 CTCTAAAGATTCCCCTGTTTCACTA
* *
7101450 TAATCACACATAAATTTCATTGTTTGTTCCATTTCCAGCAATCTGTTTTTCTGCATCACGGTCAC
1 TAATCACACATAAATTTCATTGTTTGTTCAATTTCCAGCAAGCTGTTTTTCTGCATCACGGTCAC
7101515 TAATTTATATTTATCTGGAGCTACAGGGCTCCAAATTGAGTTCCGTAAATTTTACCCGAAACTAG
66 TAATTTATATTTATCTGGAGCTACAGGGCTCCAAATTGAGTTCCGTAAATTTTACCCGAAACTAG
* *
7101580 ATTCATATACCTTTCCACCATAAAATTTTTAGAAGTTTTGGTTTGGCAAATTAGTACAGTTTATT
131 ATTCATACACCTTTCCACCATAAAATTTTCAGAAGTTTTGGTTTGGCAAATTAGTACAGTTTATT
*
7101645 CTCTAAAGATTCTCCTGTTTCACT
196 CTCTAAAGATTCCCCTGTTTCACT
7101669 GCTCGACAGT
Statistics
Matches: 211, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
220 211 1.00
ACGTcount: A:0.28, C:0.20, G:0.13, T:0.39
Consensus pattern (220 bp):
TAATCACACATAAATTTCATTGTTTGTTCAATTTCCAGCAAGCTGTTTTTCTGCATCACGGTCAC
TAATTTATATTTATCTGGAGCTACAGGGCTCCAAATTGAGTTCCGTAAATTTTACCCGAAACTAG
ATTCATACACCTTTCCACCATAAAATTTTCAGAAGTTTTGGTTTGGCAAATTAGTACAGTTTATT
CTCTAAAGATTCCCCTGTTTCACTA
Found at i:7102208 original size:33 final size:33
Alignment explanation
Indices: 7102166--7102447 Score: 174
Period size: 33 Copynumber: 8.4 Consensus size: 33
7102156 GTGGATTCAA
*
7102166 CACTTAGCAACCACCAATGAGTCGAGGAATCAG
1 CACTTAGCAACCACCAATGAGTCGGGGAATCAG
* * *
7102199 CACTTAGCAACCCCTTTCACATTTAAGATACGGTGGGATCAG
1 CACTTAGCAACCAC---CA-A--TGAG-T-CGG-GGAATCAG
* *
7102241 CACTTAGCAACCACCAATAATTCGGGGAATCAG
1 CACTTAGCAACCACCAATGAGTCGGGGAATCAG
*
7102274 CACTTAGCAACC-CC--T-CG--GGGGAATCAG
1 CACTTAGCAACCACCAATGAGTCGGGGAATCAG
7102301 CACTTAGCAACCACCAATGAGTCGGGGAATCAG
1 CACTTAGCAACCACCAATGAGTCGGGGAATCAG
* * * *
7102334 CACTTAACAACCCCTTTCACATTTAAGATAGGGTGGAATCAG
1 CACTTAGCAACCAC---CA-A--TGAG-T-CGG-GGAATCAG
* * **
7102376 CACATAGCAACCACCAATGAATCGGAAAATCAG
1 CACTTAGCAACCACCAATGAGTCGGGGAATCAG
*
7102409 CACTTAGCAACC-CC--T---TGGGGGAATCAG
1 CACTTAGCAACCACCAATGAGTCGGGGAATCAG
7102436 CACTTAGCAACC
1 CACTTAGCAACC
7102448 CCCTTTATAT
Statistics
Matches: 199, Mismatches: 26, Indels: 54
0.71 0.09 0.19
Matches are distributed among these distances:
27 43 0.22
28 2 0.01
30 3 0.02
31 1 0.01
32 4 0.02
33 71 0.36
34 5 0.03
35 2 0.01
36 9 0.05
37 2 0.01
38 2 0.01
39 10 0.05
40 2 0.01
41 4 0.02
42 39 0.20
ACGTcount: A:0.33, C:0.28, G:0.20, T:0.19
Consensus pattern (33 bp):
CACTTAGCAACCACCAATGAGTCGGGGAATCAG
Found at i:7102329 original size:60 final size:60
Alignment explanation
Indices: 7102236--7102348 Score: 199
Period size: 60 Copynumber: 1.9 Consensus size: 60
7102226 ATACGGTGGG
* *
7102236 ATCAGCACTTAGCAACCACCAATAATTCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
1 ATCAGCACTTAGCAACCACCAATAAGTCGGGGAATCAGCACTTAACAACCCCTCGGGGGA
*
7102296 ATCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAACAACCCCT
1 ATCAGCACTTAGCAACCACCAATAAGTCGGGGAATCAGCACTTAACAACCCCT
7102349 TTCACATTTA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
60 50 1.00
ACGTcount: A:0.33, C:0.31, G:0.19, T:0.17
Consensus pattern (60 bp):
ATCAGCACTTAGCAACCACCAATAAGTCGGGGAATCAGCACTTAACAACCCCTCGGGGGA
Found at i:7102408 original size:135 final size:135
Alignment explanation
Indices: 7102166--7102447 Score: 476
Period size: 135 Copynumber: 2.1 Consensus size: 135
7102156 GTGGATTCAA
*
7102166 CACTTAGCAACCACCAATGAGTCGAGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACG
1 CACTTAGCAACCACCAATGAGTCGAGGAATCAGCACTTAACAACCCCTTTCACATTTAAGATACG
* * **
7102231 GTGGGATCAGCACTTAGCAACCACCAATAATTCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
66 GTGGAATCAGCACATAGCAACCACCAATAATTCGGAAAATCAGCACTTAGCAACCCCTCGGGGGA
7102296 ATCAG
131 ATCAG
* *
7102301 CACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAACAACCCCTTTCACATTTAAGATAGG
1 CACTTAGCAACCACCAATGAGTCGAGGAATCAGCACTTAACAACCCCTTTCACATTTAAGATACG
*
7102366 GTGGAATCAGCACATAGCAACCACCAATGAA-TCGGAAAATCAGCACTTAGCAACCCCTTGGGGG
66 GTGGAATCAGCACATAGCAACCACCAAT-AATTCGGAAAATCAGCACTTAGCAACCCCTCGGGGG
7102430 AATCAG
130 AATCAG
7102436 CACTTAGCAACC
1 CACTTAGCAACC
7102448 CCCTTTATAT
Statistics
Matches: 138, Mismatches: 8, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
135 136 0.99
136 2 0.01
ACGTcount: A:0.33, C:0.28, G:0.20, T:0.19
Consensus pattern (135 bp):
CACTTAGCAACCACCAATGAGTCGAGGAATCAGCACTTAACAACCCCTTTCACATTTAAGATACG
GTGGAATCAGCACATAGCAACCACCAATAATTCGGAAAATCAGCACTTAGCAACCCCTCGGGGGA
ATCAG
Found at i:7105455 original size:20 final size:20
Alignment explanation
Indices: 7105430--7105472 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
7105420 TTGTTAATGA
7105430 AAGATTAAGTTAATATAATT
1 AAGATTAAGTTAATATAATT
*
7105450 AAGATTAAGTTAATTTAATT
1 AAGATTAAGTTAATATAATT
7105470 AAG
1 AAG
7105473 TTGTTAAGGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.49, C:0.00, G:0.12, T:0.40
Consensus pattern (20 bp):
AAGATTAAGTTAATATAATT
Found at i:7108345 original size:21 final size:22
Alignment explanation
Indices: 7108321--7108365 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
7108311 TTATAATTAT
*
7108321 TTTTAAGATGT-TTTATTAAAA
1 TTTTAAGATATATTTATTAAAA
*
7108342 TTTTAATATATATTTATTAAAA
1 TTTTAAGATATATTTATTAAAA
7108364 TT
1 TT
7108366 ATTATATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (22 bp):
TTTTAAGATATATTTATTAAAA
Found at i:7108372 original size:22 final size:21
Alignment explanation
Indices: 7108332--7108376 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
7108322 TTTAAGATGT
7108332 TTTATTAAAATTTTAATATATA
1 TTTATTAAAATTTTAATAT-TA
7108354 TTTATTAAAATTATT-ATATTA
1 TTTATTAAAATT-TTAATATTA
7108375 TT
1 TT
7108377 GAAATTATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 4 0.18
22 16 0.73
23 2 0.09
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
TTTATTAAAATTTTAATATTA
Found at i:7108381 original size:17 final size:18
Alignment explanation
Indices: 7108350--7108385 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
7108340 AATTTTAATA
7108350 TATATTTATTAAAATTAT
1 TATATTTATTAAAATTAT
*
7108368 TATA-TTATTGAAATTAT
1 TATATTTATTAAAATTAT
7108385 T
1 T
7108386 TCTCTACTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.56
Consensus pattern (18 bp):
TATATTTATTAAAATTAT
Found at i:7113885 original size:18 final size:19
Alignment explanation
Indices: 7113845--7113886 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
7113835 TTTATATCTA
7113845 AAAT-AAATAAATATATTT
1 AAATAAAATAAATATATTT
*
7113863 -CATAAAATAAA-ATATTT
1 AAATAAAATAAATATATTT
7113880 AAATAAA
1 AAATAAA
7113887 TAGTAAATAC
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
AAATAAAATAAATATATTT
Found at i:7113887 original size:17 final size:18
Alignment explanation
Indices: 7113845--7113888 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
7113835 TTTATATCTA
7113845 AAATAAATAAATATATTT
1 AAATAAATAAATATATTT
*
7113863 -CATAAAATAAA-ATATTT
1 AAAT-AAATAAATATATTT
7113880 AAATAAATA
1 AAATAAATA
7113889 GTAAATACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
17 13 0.59
18 9 0.41
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (18 bp):
AAATAAATAAATATATTT
Found at i:7114519 original size:20 final size:20
Alignment explanation
Indices: 7114490--7114530 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
7114480 ATATTACCAA
* *
7114490 TTCAGTTAATTTTGGTTAAT
1 TTCAGCTAATTTTAGTTAAT
7114510 TTCAGCTAATTTTAGTTAAT
1 TTCAGCTAATTTTAGTTAAT
7114530 T
1 T
7114531 CGGTTAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.27, C:0.07, G:0.12, T:0.54
Consensus pattern (20 bp):
TTCAGCTAATTTTAGTTAAT
Found at i:7115013 original size:21 final size:20
Alignment explanation
Indices: 7114976--7115016 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
7114966 TTTTACATAG
*
7114976 GGATTTTGTTTTAAAGTTTA
1 GGATTTTGGTTTAAAGTTTA
*
7114996 GGATTTTAGGTTTCAAGTTTA
1 GGATTTT-GGTTTAAAGTTTA
7115017 TATATATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.24, C:0.02, G:0.22, T:0.51
Consensus pattern (20 bp):
GGATTTTGGTTTAAAGTTTA
Found at i:7115682 original size:16 final size:17
Alignment explanation
Indices: 7115661--7115694 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
7115651 AAACAAATAA
7115661 GAAATAA-TTTATCTTT
1 GAAATAAGTTTATCTTT
*
7115677 GAAATAAGTTTATTTTT
1 GAAATAAGTTTATCTTT
7115694 G
1 G
7115695 TGGTTAGAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.35, C:0.03, G:0.12, T:0.50
Consensus pattern (17 bp):
GAAATAAGTTTATCTTT
Found at i:7116354 original size:21 final size:21
Alignment explanation
Indices: 7116325--7116379 Score: 51
Period size: 20 Copynumber: 2.6 Consensus size: 21
7116315 AATAATAAAA
7116325 TAAATAAATAATACT-TTAAATT
1 TAAATAAATAA-ACTCTT-AATT
*
7116347 TAAA-AAATTAACTCTTAATT
1 TAAATAAATAAACTCTTAATT
*
7116367 TAAAGAAAATAAA
1 TAAA-TAAATAAA
7116380 TGTAATTATC
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
20 11 0.39
21 7 0.25
22 10 0.36
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.35
Consensus pattern (21 bp):
TAAATAAATAAACTCTTAATT
Found at i:7120314 original size:9 final size:10
Alignment explanation
Indices: 7120303--7120364 Score: 56
Period size: 12 Copynumber: 5.9 Consensus size: 10
7120293 GGTACAAATA
7120303 AATAAATAA-
1 AATAAATAAT
*
7120312 AATGCAATAAT
1 AAT-AAATAAT
7120323 AATGATAATAAT
1 AAT-A-AATAAT
7120335 AAT-AATAAT
1 AATAAATAAT
7120344 AATAAACTCAAT
1 AATAAA-T-AAT
7120356 AATAAATAA
1 AATAAATAA
7120365 AATGATAGGA
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
9 12 0.27
10 9 0.20
11 6 0.13
12 18 0.40
ACGTcount: A:0.65, C:0.05, G:0.03, T:0.27
Consensus pattern (10 bp):
AATAAATAAT
Found at i:7120360 original size:3 final size:3
Alignment explanation
Indices: 7120317--7120348 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
7120307 AATAAAATGC
*
7120317 AAT AAT AAT GAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
7120349 ACTCAATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:7122085 original size:44 final size:41
Alignment explanation
Indices: 7121951--7122274 Score: 251
Period size: 43 Copynumber: 7.6 Consensus size: 41
7121941 ATCTACTCTG
* * * *
7121951 CTGTAACTTCAGGGAGATAAGATCCTTTATTTAATCCGCTCCA
1 CTGTAAC-TCAGGGAGATAAGAT-CTGTCTTCAATCTGCTCCA
* * *
7121994 CTGTAACTTCAGGGAGATAGGATAGTGTCTTCAATCTGCTCCG
1 CTGTAAC-TCAGGGAGATAAGAT-CTGTCTTCAATCTGCTCCA
* *
7122037 CTGTAATCTCAGGGAGATAAGATTTCTGGCCTCAATCTGCTCCA
1 CTGTAA-CTCAGGGAGATAAGA--TCTGTCTTCAATCTGCTCCA
* * *
7122081 CTGTAACTCAGGGAGATAAGATCTGAATTCTTTAGTCTGTTCCA
1 CTGTAACTCAGGGAGATAAGATCTG---TCTTCAATCTGCTCCA
* * * * * *
7122125 CTGTAATCTCAGGGAAATAAGACCTG-GTGCGATCTGCTCTA
1 CTGTAA-CTCAGGGAGATAAGATCTGTCTTCAATCTGCTCCA
* * *
7122166 CTGTAACTTCAGAGAGATAAGATC---CTTTAATCCGCTCCA
1 CTGTAAC-TCAGGGAGATAAGATCTGTCTTCAATCTGCTCCA
* * * *
7122205 CTGTAACTTCAGGGAGATAGGATTACTATATTCAATCTGCTCCG
1 CTGTAAC-TCAGGGAGATAAGA-T-CTGTCTTCAATCTGCTCCA
7122249 CTGTAATCTCAGGGAGATAAGATCTG
1 CTGTAA-CTCAGGGAGATAAGATCTG
7122275 CAATTCTTTG
Statistics
Matches: 223, Mismatches: 44, Indels: 29
0.75 0.15 0.10
Matches are distributed among these distances:
39 29 0.13
40 2 0.01
41 32 0.14
42 2 0.01
43 70 0.31
44 69 0.31
45 19 0.09
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (41 bp):
CTGTAACTCAGGGAGATAAGATCTGTCTTCAATCTGCTCCA
Found at i:7134904 original size:9 final size:10
Alignment explanation
Indices: 7134893--7134954 Score: 56
Period size: 12 Copynumber: 5.9 Consensus size: 10
7134883 GGTACAAATA
7134893 AATAAATAA-
1 AATAAATAAT
*
7134902 AATGCAATAAT
1 AAT-AAATAAT
7134913 AATGATAATAAT
1 AAT-A-AATAAT
7134925 AAT-AATAAT
1 AATAAATAAT
7134934 AATAAACTCAAT
1 AATAAA-T-AAT
7134946 AATAAATAA
1 AATAAATAA
7134955 AATGATAGGA
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
9 12 0.27
10 9 0.20
11 6 0.13
12 18 0.40
ACGTcount: A:0.65, C:0.05, G:0.03, T:0.27
Consensus pattern (10 bp):
AATAAATAAT
Found at i:7134950 original size:3 final size:3
Alignment explanation
Indices: 7134907--7134938 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
7134897 AATAAAATGC
*
7134907 AAT AAT AAT GAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
7134939 ACTCAATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:7140628 original size:57 final size:58
Alignment explanation
Indices: 7140559--7140667 Score: 175
Period size: 57 Copynumber: 1.9 Consensus size: 58
7140549 TCATTAGGAA
*
7140559 CTTTCCTAAATAGTTTCACTCCTAACCCATCC-TTTTTGGCTGATTCTAAGGGTGGAG
1 CTTTCCTAAATAGTTTCACTCCTAACCCATCCTTTTTTGGCTAATTCTAAGGGTGGAG
** *
7140616 CTTTCCTAAATAGTTTCACTGGTAACCCATCCTTTTTTTGCTAATTCTAAGG
1 CTTTCCTAAATAGTTTCACTCCTAACCCATCCTTTTTTGGCTAATTCTAAGG
7140668 TTGAGTTTAG
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
57 30 0.64
58 17 0.36
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (58 bp):
CTTTCCTAAATAGTTTCACTCCTAACCCATCCTTTTTTGGCTAATTCTAAGGGTGGAG
Found at i:7148266 original size:7 final size:8
Alignment explanation
Indices: 7148239--7148265 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
7148229 TTTAGTCTCA
7148239 TTTTAAAT
1 TTTTAAAT
7148247 TTTTAAAT
1 TTTTAAAT
7148255 TTTTAAAT
1 TTTTAAAT
7148263 TTT
1 TTT
7148266 ATTTTATGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (8 bp):
TTTTAAAT
Found at i:7153993 original size:26 final size:26
Alignment explanation
Indices: 7153954--7154006 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
7153944 AATTGATTTG
*
7153954 AAATTGAATAATTAATTAA-ATTAATT
1 AAATTGAATAATT-ATTAATATAAATT
* *
7153980 AAATTTAATTATTATTAATATAAATT
1 AAATTGAATAATTATTAATATAAATT
7154006 A
1 A
7154007 TACGTAGTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 5 0.22
26 18 0.78
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (26 bp):
AAATTGAATAATTATTAATATAAATT
Found at i:7154006 original size:10 final size:9
Alignment explanation
Indices: 7153963--7154006 Score: 52
Period size: 10 Copynumber: 4.6 Consensus size: 9
7153953 GAAATTGAAT
7153963 AATTAATTA
1 AATTAATTA
7153972 AATTAATTA
1 AATTAATTA
7153981 AATTTAATTA
1 AA-TTAATTA
*
7153991 TTATTAATATA
1 -AATTAAT-TA
7154002 AATTA
1 AATTA
7154007 TACGTAGTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
9 11 0.37
10 16 0.53
11 3 0.10
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (9 bp):
AATTAATTA
Found at i:7156525 original size:19 final size:20
Alignment explanation
Indices: 7156501--7156539 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
7156491 AAAGGGTGAG
7156501 AAAT-AAAAGTTTAGGGGAA
1 AAATAAAAAGTTTAGGGGAA
*
7156520 AAATAAAAAGTTTTGGGGAA
1 AAATAAAAAGTTTAGGGGAA
7156540 TAAAAGTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.51, C:0.00, G:0.26, T:0.23
Consensus pattern (20 bp):
AAATAAAAAGTTTAGGGGAA
Found at i:7156682 original size:30 final size:31
Alignment explanation
Indices: 7156643--7156702 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
7156633 GGAGGTGGGA
*
7156643 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
7156674 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
7156703 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:7156929 original size:9 final size:9
Alignment explanation
Indices: 7156915--7156950 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
7156905 TATAGTTTGA
7156915 TATTCGAAT
1 TATTCGAAT
7156924 TATTCGAAT
1 TATTCGAAT
* *
7156933 GATTCGAGT
1 TATTCGAAT
7156942 TATTCGAAT
1 TATTCGAAT
7156951 CGAAAACTCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.42
Consensus pattern (9 bp):
TATTCGAAT
Found at i:7156939 original size:18 final size:18
Alignment explanation
Indices: 7156916--7156950 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
7156906 ATAGTTTGAT
7156916 ATTCGAATTATTCGAATG
1 ATTCGAATTATTCGAATG
*
7156934 ATTCGAGTTATTCGAAT
1 ATTCGAATTATTCGAAT
7156951 CGAAAACTCA
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:0.31, C:0.11, G:0.17, T:0.40
Consensus pattern (18 bp):
ATTCGAATTATTCGAATG
Found at i:7165851 original size:21 final size:21
Alignment explanation
Indices: 7165825--7165865 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
7165815 ATCTGCTCAA
* *
7165825 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
7165846 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
7165866 TTGCTCGTCT
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:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:7172163 original size:26 final size:26
Alignment explanation
Indices: 7172105--7172165 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 26
7172095 TTGATTAATG
*
7172105 AAATATATTCAAATTATATTATTTTAA
1 AAATA-ATTCAAAGTATATTATTTTAA
7172132 ATAATAATT-AAAGTATATTTATTTTAA
1 A-AATAATTCAAAGTATA-TTATTTTAA
7172159 AAATAAT
1 AAATAAT
7172166 ATAATAAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
26 13 0.42
27 14 0.45
28 4 0.13
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (26 bp):
AAATAATTCAAAGTATATTATTTTAA
Found at i:7172423 original size:18 final size:18
Alignment explanation
Indices: 7172400--7172439 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
7172390 TATAATTTTA
*
7172400 AAAAATA-TATAATACATC
1 AAAAATACTA-AAAACATC
7172418 AAAAATACTAAAAACATC
1 AAAAATACTAAAAACATC
7172436 AAAA
1 AAAA
7172440 TAAATATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.68, C:0.12, G:0.00, T:0.20
Consensus pattern (18 bp):
AAAAATACTAAAAACATC
Found at i:7172568 original size:31 final size:34
Alignment explanation
Indices: 7172505--7172582 Score: 108
Period size: 32 Copynumber: 2.4 Consensus size: 34
7172495 TAGATGCAAC
**
7172505 TTAACAAGCAAATGTCTCTAAAATAATAACAAAA
1 TTAACAATAAAATGTCTCTAAAATAATAACAAAA
*
7172539 TTAA-AA-AAAATGTCTTTAAAAT-ATAACAAAA
1 TTAACAATAAAATGTCTCTAAAATAATAACAAAA
7172570 TTAACAATAAAAT
1 TTAACAATAAAAT
7172583 AAGTTTTATA
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
31 13 0.32
32 16 0.40
33 7 0.17
34 4 0.10
ACGTcount: A:0.59, C:0.10, G:0.04, T:0.27
Consensus pattern (34 bp):
TTAACAATAAAATGTCTCTAAAATAATAACAAAA
Found at i:7175093 original size:13 final size:14
Alignment explanation
Indices: 7175073--7175105 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
7175063 TCGATTCTCG
7175073 ATCCAAATGATTCA
1 ATCCAAATGATTCA
*
7175087 A-CCAAATGGTTCA
1 ATCCAAATGATTCA
7175100 ATCCAA
1 ATCCAA
7175106 TTCAAACAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.42, C:0.24, G:0.09, T:0.24
Consensus pattern (14 bp):
ATCCAAATGATTCA
Found at i:7175631 original size:14 final size:14
Alignment explanation
Indices: 7175611--7175644 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
7175601 ATCATGTGAG
*
7175611 CTTTTTTTCTT-TT
1 CTTTTTTTTTTGTT
7175624 CTTTTTTTTTTGTT
1 CTTTTTTTTTTGTT
7175638 CTTTTTT
1 CTTTTTT
7175645 GCAAATGTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.53
14 9 0.47
ACGTcount: A:0.00, C:0.12, G:0.03, T:0.85
Consensus pattern (14 bp):
CTTTTTTTTTTGTT
Found at i:7180394 original size:27 final size:28
Alignment explanation
Indices: 7180364--7180420 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 28
7180354 GATAAAAGGG
*
7180364 AAGGGAATGT-AAAAAAAATTGAAGAGA
1 AAGGGAAAGTAAAAAAAAATTGAAGAGA
7180391 AAGGGAAAGTAAAAAAAAAATTGAAGAGA
1 AAGGGAAAGT-AAAAAAAAATTGAAGAGA
7180420 A
1 A
7180421 GAATTGGGGA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 9 0.33
29 18 0.67
ACGTcount: A:0.63, C:0.00, G:0.25, T:0.12
Consensus pattern (28 bp):
AAGGGAAAGTAAAAAAAAATTGAAGAGA
Found at i:7183851 original size:15 final size:16
Alignment explanation
Indices: 7183824--7183853 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
7183814 CATGTTTGAG
7183824 TTCTAGATTTATATTA
1 TTCTAGATTTATATTA
7183840 TTCTAG-TTTATATT
1 TTCTAGATTTATATT
7183854 CCAACATGCA
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:0.27, C:0.07, G:0.07, T:0.60
Consensus pattern (16 bp):
TTCTAGATTTATATTA
Found at i:7188993 original size:20 final size:19
Alignment explanation
Indices: 7188968--7189005 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
7188958 TGCCATTGCA
*
7188968 CTGTACATTTATGATCATTT
1 CTGTACATTGATGA-CATTT
7188988 CTGTACATTGATGACATT
1 CTGTACATTGATGACATT
7189006 GTTTCCTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (19 bp):
CTGTACATTGATGACATTT
Found at i:7197780 original size:19 final size:20
Alignment explanation
Indices: 7197758--7197796 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
7197748 TTTAGTTATC
7197758 TTATTCT-TCTTCTCCTTTT
1 TTATTCTCTCTTCTCCTTTT
*
7197777 TTATTCTCTCTTCTTCTTTT
1 TTATTCTCTCTTCTCCTTTT
7197797 CATAACCCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.05, C:0.26, G:0.00, T:0.69
Consensus pattern (20 bp):
TTATTCTCTCTTCTCCTTTT
Found at i:7206470 original size:23 final size:23
Alignment explanation
Indices: 7206444--7206515 Score: 69
Period size: 23 Copynumber: 3.1 Consensus size: 23
7206434 CAGTCCAATT
7206444 TCTTAATAACCTAAATTAATTAA
1 TCTTAATAACCTAAATTAATTAA
*
7206467 TCTTAATAACCCT-AATCT-AGTAA
1 TCTTAATAA-CCTAAAT-TAATTAA
* *
7206490 TACCTAAT-ACCCAAATTAATTAA
1 T-CTTAATAACCTAAATTAATTAA
7206513 TCT
1 TCT
7206516 AATCTATTAA
Statistics
Matches: 39, Mismatches: 5, Indels: 11
0.71 0.09 0.20
Matches are distributed among these distances:
22 4 0.10
23 26 0.67
24 9 0.23
ACGTcount: A:0.43, C:0.19, G:0.01, T:0.36
Consensus pattern (23 bp):
TCTTAATAACCTAAATTAATTAA
Found at i:7206518 original size:36 final size:36
Alignment explanation
Indices: 7206478--7206555 Score: 131
Period size: 36 Copynumber: 2.2 Consensus size: 36
7206468 CTTAATAACC
*
7206478 CTAATCTAGTAATACCTAATACCCAAATTAATTAAT
1 CTAATCTAGTAATACCTAATACCCAAACTAATTAAT
*
7206514 CTAATCTATTAATACCTAATACCCAAACTAATTAAT
1 CTAATCTAGTAATACCTAATACCCAAACTAATTAAT
7206550 -TAATCT
1 CTAATCT
7206556 TAATAACTCT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
35 6 0.15
36 34 0.85
ACGTcount: A:0.44, C:0.21, G:0.01, T:0.35
Consensus pattern (36 bp):
CTAATCTAGTAATACCTAATACCCAAACTAATTAAT
Done.