Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 318 of 322
Found at i:105477477 original size:8 final size:8
Alignment explanation
Indices: 105477428--105477479 Score: 50
Period size: 8 Copynumber: 6.0 Consensus size: 8
105477418 TCATTATTAA
105477428 ATATTTTT
1 ATATTTTT
105477436 ATATTGTTT
1 ATATT-TTT
**
105477445 AATAACTTT
1 -ATATTTTT
105477454 ATATTTTT
1 ATATTTTT
105477462 AATGATTTTT
1 -AT-ATTTTT
105477472 ATATTTTT
1 ATATTTTT
105477480 TTTGAATTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
8 17 0.47
9 10 0.28
10 9 0.25
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.65
Consensus pattern (8 bp):
ATATTTTT
Found at i:105477489 original size:18 final size:18
Alignment explanation
Indices: 105477432--105477490 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 18
105477422 TATTAAATAT
105477432 TTTTATATTGTTTAAT-AA
1 TTTTATATT-TTTAATGAA
* *
105477450 CTTTATATTTTTAATGAT
1 TTTTATATTTTTAATGAA
**
105477468 TTTTATATTTTTTTTGAA
1 TTTTATATTTTTAATGAA
105477486 TTTTA
1 TTTTA
105477491 AAAAATAATT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
17 6 0.18
18 28 0.82
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.66
Consensus pattern (18 bp):
TTTTATATTTTTAATGAA
Found at i:105486880 original size:3 final size:3
Alignment explanation
Indices: 105486872--105486968 Score: 194
Period size: 3 Copynumber: 32.3 Consensus size: 3
105486862 TTTTCAATAT
105486872 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
105486920 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
105486968 T
1 T
105486969 CTTTTTAAAT
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 94 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:105487244 original size:23 final size:23
Alignment explanation
Indices: 105487217--105487261 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
105487207 TTAAATTTTC
*
105487217 TTTCACA-TATTATTATTTTAAAA
1 TTTCACATTATT-TTATCTTAAAA
*
105487240 TTTCATATTATTTTATCTTAAA
1 TTTCACATTATTTTATCTTAAA
105487262 TAGTTTTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.36, C:0.09, G:0.00, T:0.56
Consensus pattern (23 bp):
TTTCACATTATTTTATCTTAAAA
Found at i:105487249 original size:52 final size:51
Alignment explanation
Indices: 105487148--105487250 Score: 120
Period size: 52 Copynumber: 2.0 Consensus size: 51
105487138 GTAAATTTGT
* *
105487148 ACTTGTTTTAAATCTCTTCATATATTATTTATTTTAAACCATTTTTATTATC
1 ACTTGTTTTAAATCTCTTCACATATTATTTATTTTAAA-CATTTATATTATC
* *
105487200 ACTTTTTTTAAATTTTCTTTCACATATTA-TTATTTTAAA-ATTTCATATTAT
1 ACTTGTTTTAAA-TCTC-TTCACATATTATTTATTTTAAACATTT-ATATTAT
105487251 TTTATCTTAA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
51 4 0.09
52 17 0.39
53 13 0.30
54 10 0.23
ACGTcount: A:0.30, C:0.12, G:0.01, T:0.57
Consensus pattern (51 bp):
ACTTGTTTTAAATCTCTTCACATATTATTTATTTTAAACATTTATATTATC
Found at i:105493595 original size:21 final size:21
Alignment explanation
Indices: 105493570--105493610 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
105493560 ATTAAGACTA
105493570 TTTTATAAATAGACTTAATAG
1 TTTTATAAATAGACTTAATAG
105493591 TTTTATAAATAGACTTAATA
1 TTTTATAAATAGACTTAATA
105493611 AATTTTAGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.44
Consensus pattern (21 bp):
TTTTATAAATAGACTTAATAG
Found at i:105505320 original size:21 final size:21
Alignment explanation
Indices: 105505283--105505322 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
105505273 TTTAAATTTT
105505283 TTTTATTTTAAATATAAAATA
1 TTTTATTTTAAATATAAAATA
*
105505304 TTTT-TTTTATATCATAAAA
1 TTTTATTTTAAAT-ATAAAA
105505323 ATATAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (21 bp):
TTTTATTTTAAATATAAAATA
Found at i:105505321 original size:27 final size:26
Alignment explanation
Indices: 105505278--105505331 Score: 65
Period size: 25 Copynumber: 2.0 Consensus size: 26
105505268 AAACTTTTAA
*
105505278 ATTTTTTTTATT-TTAAATATAAAAT
1 ATTTTTTTTATTATAAAATATAAAAT
105505303 ATTTTTTTTATATCATAAAAATATAAAAT
1 ATTTTTTTTAT-T-AT-AAAATATAAAAT
105505332 TAATTATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
25 11 0.46
26 1 0.04
28 1 0.04
29 11 0.46
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (26 bp):
ATTTTTTTTATTATAAAATATAAAAT
Found at i:105516630 original size:26 final size:26
Alignment explanation
Indices: 105516592--105516673 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
105516582 TGATACAAAT
*
105516592 TGATAATGAGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
105516618 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
105516644 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
105516670 TGAT
1 TGAT
105516674 TGGAATTTCA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.32, C:0.06, G:0.26, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:105522403 original size:26 final size:26
Alignment explanation
Indices: 105522365--105522446 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
105522355 TGATACAAAT
*
105522365 TGATAATGAGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
105522391 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
105522417 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
105522443 TGAT
1 TGAT
105522447 TGGAATTTCA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.32, C:0.06, G:0.26, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:105524177 original size:13 final size:14
Alignment explanation
Indices: 105524161--105524196 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
105524151 CAATCTCATA
105524161 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
105524174 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
105524187 TCTC-ATTTCA
1 TCTCAATTTCA
105524197 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:105524186 original size:18 final size:19
Alignment explanation
Indices: 105524148--105524188 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
105524138 TGGTTCATGT
105524148 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
105524167 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
105524185 TTTC
1 TTTC
105524189 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:105524406 original size:15 final size:16
Alignment explanation
Indices: 105524374--105524430 Score: 73
Period size: 15 Copynumber: 3.7 Consensus size: 16
105524364 TCATATATAT
*
105524374 AATATATATTTCAATC
1 AATATAAATTTCAATC
105524390 AATATAAATTT-AATC
1 AATATAAATTTCAATC
* *
105524405 AAAAT-GATTTCAATC
1 AATATAAATTTCAATC
105524420 AATATAAATTT
1 AATATAAATTT
105524431 GATAAATTCA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.12
15 16 0.47
16 14 0.41
ACGTcount: A:0.49, C:0.09, G:0.02, T:0.40
Consensus pattern (16 bp):
AATATAAATTTCAATC
Found at i:105533046 original size:11 final size:11
Alignment explanation
Indices: 105533030--105533056 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
105533020 AATTATAAAA
105533030 ATATATTTAAT
1 ATATATTTAAT
105533041 ATATATTTAAT
1 ATATATTTAAT
105533052 ATATA
1 ATATA
105533057 AATGTCTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
ATATATTTAAT
Found at i:105539520 original size:21 final size:20
Alignment explanation
Indices: 105539486--105539525 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 20
105539476 GCACCAAAGT
105539486 AGTGAAAAAACAACAAAAAC
1 AGTGAAAAAACAACAAAAAC
105539506 AGTGAAAACAACAACAAAAA
1 AGTGAAAA-AACAACAAAAA
105539526 GTAATAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.70, C:0.15, G:0.10, T:0.05
Consensus pattern (20 bp):
AGTGAAAAAACAACAAAAAC
Found at i:105541099 original size:23 final size:23
Alignment explanation
Indices: 105541033--105541100 Score: 66
Period size: 23 Copynumber: 2.9 Consensus size: 23
105541023 TAAATAATAT
* *
105541033 TTAATTAATTAATTTATAGTTATC
1 TTAA-TAATAAATTTATATTTATC
* *
105541057 TTAATATTTAAA-TCATATTTATC
1 TTAATA-ATAAATTTATATTTATC
*
105541080 TTAATAATAAATTTAAATTTA
1 TTAATAATAAATTTATATTTA
105541101 GTATTTATCA
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
22 4 0.11
23 24 0.69
24 7 0.20
ACGTcount: A:0.43, C:0.04, G:0.01, T:0.51
Consensus pattern (23 bp):
TTAATAATAAATTTATATTTATC
Found at i:105545776 original size:47 final size:47
Alignment explanation
Indices: 105545643--105545813 Score: 184
Period size: 47 Copynumber: 3.6 Consensus size: 47
105545633 ATAGTAAAAC
* * * *
105545643 TATGGTCTTGCACA-TAGTCACATATCACATACCGAGGCCATAGCCCAGC
1 TATGGTCTTACACAGTAG-CACATATCAC--ACCGATGCCATATCCCAGA
* * * *
105545692 CATGGTCTTACAC-GGATCACATATCACACTGATGCCATATCCCAGA
1 TATGGTCTTACACAGTAGCACATATCACACCGATGCCATATCCCAGA
* *
105545738 TATGGTCTTATACAGTAGCACATATCACACCGATGCCATATCCCGGA
1 TATGGTCTTACACAGTAGCACATATCACACCGATGCCATATCCCAGA
* * *
105545785 TATGGTCTTATACGGAAGCACATATCACA
1 TATGGTCTTACACAGTAGCACATATCACA
105545814 TTTCTCCGAA
Statistics
Matches: 104, Mismatches: 16, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
46 26 0.25
47 56 0.54
48 10 0.10
49 12 0.12
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (47 bp):
TATGGTCTTACACAGTAGCACATATCACACCGATGCCATATCCCAGA
Found at i:105546930 original size:22 final size:22
Alignment explanation
Indices: 105546902--105546945 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
105546892 TTAAGCTATT
105546902 TAATCACATCTCACAATTTTGC
1 TAATCACATCTCACAATTTTGC
105546924 TAATCACATCTCACAATTTTGC
1 TAATCACATCTCACAATTTTGC
105546946 ACTTAGTTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.27, G:0.05, T:0.36
Consensus pattern (22 bp):
TAATCACATCTCACAATTTTGC
Found at i:105559798 original size:10 final size:8
Alignment explanation
Indices: 105559774--105559800 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
105559764 ATCACCCATT
105559774 TCAATATA
1 TCAATATA
105559782 TCAATATA
1 TCAATATA
105559790 TCAATATA
1 TCAATATA
105559798 TCA
1 TCA
105559801 TGTGTCATCA
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:0.48, C:0.15, G:0.00, T:0.37
Consensus pattern (8 bp):
TCAATATA
Found at i:105560483 original size:28 final size:28
Alignment explanation
Indices: 105560450--105560507 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
105560440 GTTTTGAAAG
* *
105560450 AAAGCAAATTTAGAAAATTGATTTGGGT
1 AAAGCAAATTTAAAAAATTAATTTGGGT
105560478 AAAGCAAATTTAAAAAATTAATTTGGGT
1 AAAGCAAATTTAAAAAATTAATTTGGGT
105560506 AA
1 AA
105560508 CTATGCCCCG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.48, C:0.03, G:0.17, T:0.31
Consensus pattern (28 bp):
AAAGCAAATTTAAAAAATTAATTTGGGT
Found at i:105562303 original size:44 final size:44
Alignment explanation
Indices: 105562240--105562372 Score: 144
Period size: 44 Copynumber: 3.0 Consensus size: 44
105562230 TACTATAGCG
** *
105562240 AATCTTATCTCCCTGAAGTTGTAGTGGAGCA-GATTGAAGCTACA
1 AATCTTATCTCCCTGAAGTTACAGTAGAGCAGGA-TGAAGCTACA
*
105562284 AATCTTATCTCCTTGAAGTTACAGTAGAGCAGGATGAAGCTACA
1 AATCTTATCTCCCTGAAGTTACAGTAGAGCAGGATGAAGCTACA
* * * * **
105562328 ATTCATATATCCCTAAAGTTACAGT-GAGTTGGAATGAAGCTACA
1 AATCTTATCTCCCTGAAGTTACAGTAGAGCAGG-ATGAAGCTACA
105562372 A
1 A
105562373 CTACAAATCC
Statistics
Matches: 76, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
43 5 0.07
44 69 0.91
45 2 0.03
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTACAGTAGAGCAGGATGAAGCTACA
Found at i:105562471 original size:94 final size:93
Alignment explanation
Indices: 105562373--105562754 Score: 308
Period size: 94 Copynumber: 4.1 Consensus size: 93
105562363 GAAGCTACAA
* * *** *
105562373 CTACAAATCCTATACCCTTGAAGTTGCAATGGGTTAGATTGAATTTGTTATAG-AGAATTTTATC
1 CTACAAATCCTA-ACCCTTGAAGTTGCAGTGGGTTAGATTGAATCTACCATAGTA-AATCTTATC
* *
105562437 TTCCTGAAGTTGCAGTGGAGTAGATTGAAG
64 TCCCTGAAGTTGCAGTGGAGAAGATTGAAG
* * * * ** *
105562467 CTACAAATCATGCACCCTTAAAATTGCAGTGAATTGGATTGAATCTACCATAGTAAATCTTATCT
1 CTACAAATCCT-AACCCTTGAAGTTGCAGTGGGTTAGATTGAATCTACCATAGTAAATCTTATCT
*
105562532 CCCTGAAGTTGTAGTGGAGAAGATTGAAG
65 CCCTGAAGTTGCAGTGGAGAAGATTGAAG
* * * * ***
105562561 CTACAAATCC-AACCCCTGAAGTTGCAGTGGGTTTGAATGGAA-CTACGATAACGAATCTTATCT
1 CTACAAATCCTAACCCTTGAAGTTGCAGTGGGTTAG-ATTGAATCTACCATAGTAAATCTTATCT
* * * *
105562624 CCCTGAATTTGCAGTAGAGCAA-AATAAAG
65 CCCTGAAGTTGCAGTGGAG-AAGATTGAAG
* * * * * * * *
105562653 CTATAGATCC-CACCCTCTGAAGTTGTAGTGGGATGGATTGAATCTACTATAGTGAATCTTATCT
1 CTACAAATCCTAACCCT-TGAAGTTGCAGTGGGTTAGATTGAATCTACCATAGTAAATCTTATCT
** *
105562717 CTTTGAAGTTGCAGTGGAG-TGTATTGAAG
65 CCCTGAAGTTGCAGTGGAGAAG-ATTGAAG
*
105562746 CTATAAATC
1 CTACAAATC
105562755 TTATCTCCCT
Statistics
Matches: 227, Mismatches: 53, Indels: 17
0.76 0.18 0.06
Matches are distributed among these distances:
92 73 0.32
93 69 0.30
94 84 0.37
95 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.31
Consensus pattern (93 bp):
CTACAAATCCTAACCCTTGAAGTTGCAGTGGGTTAGATTGAATCTACCATAGTAAATCTTATCTC
CCTGAAGTTGCAGTGGAGAAGATTGAAG
Found at i:105562556 original size:144 final size:138
Alignment explanation
Indices: 105562240--105562569 Score: 303
Period size: 144 Copynumber: 2.3 Consensus size: 138
105562230 TACTATAGCG
* *
105562240 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTACAAATCTTATCTCCTTGAAGTTA
1 AATCTTATCTCCCTGAAGTTGTAGTGGAGAAGATTGAAGATACAAATCTTATCTCCTTGAAGTTA
* * * *
105562305 CAGTAGAGCAGGATGAAGCTACAATTCATATATCCCTAAAGTTACAGTGAGTTGGAATGAAGCTA
66 CAGTAGAGCAGGATGAAGCTACAAATCATACATCCCTAAAATTACAGTGAATTGGAATGAAGCTA
105562370 CAACTACA
131 CAACTACA
* * * * * * *
105562378 AATCCTATAC-CCTTGAAGTTGCAATGG-GTTAGATTGAATTTGTTATAGAGAATTTTATCTTCC
1 AATCTTAT-CTCCCTGAAGTTGTAGTGGAG-AAGATTGAA---G--ATACA-AATCTTATC-TCC
* * * * *
105562441 -TGAAGTTGCAGTGGAGTA-GATTGAAGCTACAAATCATGCA-CCCTTAAAATTGCAGTGAATTG
57 TTGAAGTTACAGTAGAGCAGGA-TGAAGCTACAAATCATACATCCC-TAAAATTACAGTGAATTG
* * * *
105562503 GATTGAATCTACCA-TAGTA
120 GAATGAAGCTACAACTA-CA
*
105562522 AATCTTATCTCCCTGAAGTTGTAGTGGAGAAGATTGAAGCTACAAATC
1 AATCTTATCTCCCTGAAGTTGTAGTGGAGAAGATTGAAGATACAAATC
105562570 CAACCCCTGA
Statistics
Matches: 149, Mismatches: 29, Indels: 28
0.72 0.14 0.14
Matches are distributed among these distances:
137 1 0.01
138 32 0.21
139 4 0.03
141 2 0.01
143 11 0.07
144 95 0.64
145 4 0.03
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (138 bp):
AATCTTATCTCCCTGAAGTTGTAGTGGAGAAGATTGAAGATACAAATCTTATCTCCTTGAAGTTA
CAGTAGAGCAGGATGAAGCTACAAATCATACATCCCTAAAATTACAGTGAATTGGAATGAAGCTA
CAACTACA
Found at i:105562747 original size:93 final size:92
Alignment explanation
Indices: 105562386--105562754 Score: 298
Period size: 92 Copynumber: 4.0 Consensus size: 92
105562376 CAAATCCTAT
* * * * *** * * *
105562386 ACCCT-TGAAGTTGCAATGGGTTAGATTGAATTTGTTATAGAGAATTTTATCTTCCTGAAGTTGC
1 ACCCTCTGAAGTTGCAGTGGGATGGATTGAATCTACCATAGTGAATCTTATCTCCCTGAAGTTGC
*
105562450 AGTGGAGTAGATTGAAGCTACAAATCATGC
66 AGTGGAGT-GATTGAAGCTACAAATC--CC
* * * *
105562480 ACCCT-TAAAATTGCAGT-GAATTGGATTGAATCTACCATAGTAAATCTTATCTCCCTGAAGTTG
1 ACCCTCTGAAGTTGCAGTGGGA-TGGATTGAATCTACCATAGTGAATCTTATCTCCCTGAAGTTG
* * *
105562543 TAGTGGAGAAGATTGAAGCTACAAATCCA
65 CAGTGGAG-TGATTGAAGCTACAAATCCC
* * * * ** *
105562572 ACCC-CTGAAGTTGCAGTGGGTTTGAATGGAA-CTACGATAACGAATCTTATCTCCCTGAATTTG
1 ACCCTCTGAAGTTGCAGTGGG-ATGGATTGAATCTACCATAGTGAATCTTATCTCCCTGAAGTTG
* ** * * * *
105562635 CAGTAGAGCAAAATAAAGCTATAGATCCC
65 CAGTGGAG-TGATTGAAGCTACAAATCCC
* * **
105562664 ACCCTCTGAAGTTGTAGTGGGATGGATTGAATCTACTATAGTGAATCTTATCTCTTTGAAGTTGC
1 ACCCTCTGAAGTTGCAGTGGGATGGATTGAATCTACCATAGTGAATCTTATCTCCCTGAAGTTGC
*
105562729 AGTGGAGTGTATTGAAGCTATAAATC
66 AGTGGAGTG-ATTGAAGCTACAAATC
105562755 TTATCTCCCT
Statistics
Matches: 213, Mismatches: 54, Indels: 17
0.75 0.19 0.06
Matches are distributed among these distances:
92 72 0.34
93 70 0.33
94 71 0.33
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (92 bp):
ACCCTCTGAAGTTGCAGTGGGATGGATTGAATCTACCATAGTGAATCTTATCTCCCTGAAGTTGC
AGTGGAGTGATTGAAGCTACAAATCCC
Found at i:105562768 original size:44 final size:44
Alignment explanation
Indices: 105562707--105562839 Score: 117
Period size: 44 Copynumber: 3.0 Consensus size: 44
105562697 TACTATAGTG
* * *
105562707 AATCTTATCTCTTTGAAGTTGCAGTGGAG-TGTATTGAAGCTATA
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAG-ATTGAAGCTACA
* * * * *
105562751 AATCTTATCTCCCTGAAGCTGTAGTAGAGCAGATTGAAGCTCCA
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
* * * * *
105562795 ATTCCTATATCCTTGAAGTTGCAGTGG-GTTAGAATGAAGCTACA
1 AATCTTATCTCCTTGAAGTTGCAGTGGAG-CAGATTGAAGCTACA
105562839 A
1 A
105562840 CAACAAATCT
Statistics
Matches: 69, Mismatches: 18, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
43 1 0.01
44 67 0.97
45 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (44 bp):
AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
Found at i:105564002 original size:10 final size:10
Alignment explanation
Indices: 105563972--105564022 Score: 66
Period size: 10 Copynumber: 5.0 Consensus size: 10
105563962 TGAAATTCTA
105563972 AAAGATAAAT
1 AAAGATAAAT
* *
105563982 AATAAATAATT
1 AA-AGATAAAT
*
105563993 AAAGATAATT
1 AAAGATAAAT
105564003 AAAGATAAAT
1 AAAGATAAAT
105564013 AAAGATAAAT
1 AAAGATAAAT
105564023 GAAATTAAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
10 28 0.78
11 8 0.22
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.25
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:105564031 original size:20 final size:20
Alignment explanation
Indices: 105563972--105564032 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
105563962 TGAAATTCTA
*
105563972 AAAGATAAATAATAAATAATT
1 AAAGATAAATAA-AAATAAAT
* *
105563993 AAAGATAATTAAAGATAAAT
1 AAAGATAAATAAAAATAAAT
* *
105564013 AAAGATAAATGAAATTAAAT
1 AAAGATAAATAAAAATAAAT
105564033 CCTAAAATTA
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
20 22 0.67
21 11 0.33
ACGTcount: A:0.66, C:0.00, G:0.08, T:0.26
Consensus pattern (20 bp):
AAAGATAAATAAAAATAAAT
Found at i:105564707 original size:17 final size:19
Alignment explanation
Indices: 105564685--105564726 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 19
105564675 GCCTGCAAAA
105564685 CAGAAAAAACA-AG-AGAG
1 CAGAAAAAACATAGCAGAG
*
105564702 CAGAAATAACATAGCAGAG
1 CAGAAAAAACATAGCAGAG
105564721 CA-AAAA
1 CAGAAAA
105564727 TAAAAAAAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 10 0.48
18 5 0.24
19 6 0.29
ACGTcount: A:0.62, C:0.14, G:0.19, T:0.05
Consensus pattern (19 bp):
CAGAAAAAACATAGCAGAG
Found at i:105564722 original size:19 final size:17
Alignment explanation
Indices: 105564685--105564729 Score: 54
Period size: 19 Copynumber: 2.5 Consensus size: 17
105564675 GCCTGCAAAA
*
105564685 CAGAAAAAACAAGAGAG
1 CAGAAATAACAAGAGAG
105564702 CAGAAATAACATAGCAGAG
1 CAGAAATAACA-AG-AGAG
*
105564721 CAAAAATAA
1 CAGAAATAA
105564730 AAAAAGGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 10 0.42
18 2 0.08
19 12 0.50
ACGTcount: A:0.62, C:0.13, G:0.18, T:0.07
Consensus pattern (17 bp):
CAGAAATAACAAGAGAG
Found at i:105568831 original size:2 final size:2
Alignment explanation
Indices: 105568824--105568849 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
105568814 CATTATAGAC
105568824 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
105568850 TAATGCCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:105571273 original size:30 final size:31
Alignment explanation
Indices: 105571227--105571292 Score: 98
Period size: 30 Copynumber: 2.2 Consensus size: 31
105571217 TACGAATGTG
*
105571227 GTTAATTATGGGACTTAGTGGGACGTGGGTA
1 GTTAATTATGGGACTTAATGGGACGTGGGTA
* *
105571258 GTTAATTAT-GGACTTAATGGGATGTGGGTG
1 GTTAATTATGGGACTTAATGGGACGTGGGTA
105571288 GTTAA
1 GTTAA
105571293 GAAATTATCC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
30 23 0.72
31 9 0.28
ACGTcount: A:0.24, C:0.05, G:0.36, T:0.35
Consensus pattern (31 bp):
GTTAATTATGGGACTTAATGGGACGTGGGTA
Found at i:105572316 original size:18 final size:19
Alignment explanation
Indices: 105572293--105572350 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 19
105572283 ATATTTTATA
105572293 ATTATTAATTAGATAA-AT
1 ATTATTAATTAGATAATAT
105572311 ATTATT--TTA-ATAATAT
1 ATTATTAATTAGATAATAT
* * *
105572327 ATT-TTAATAAGATATTTT
1 ATTATTAATTAGATAATAT
105572345 ATTATT
1 ATTATT
105572351 TTATTATTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
15 6 0.19
16 8 0.25
17 2 0.06
18 14 0.44
19 2 0.06
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (19 bp):
ATTATTAATTAGATAATAT
Found at i:105572323 original size:15 final size:15
Alignment explanation
Indices: 105572284--105572342 Score: 54
Period size: 15 Copynumber: 4.1 Consensus size: 15
105572274 ATGTTGATGA
*
105572284 TATTTT-ATAATTAT
1 TATTTTAATAAATAT
*
105572298 TA-ATTAGATAAATAT
1 TATTTTA-ATAAATAT
105572313 TATTTTAAT-AATA-
1 TATTTTAATAAATAT
105572326 TATTTTAATAAGATAT
1 TATTTTAATAA-ATAT
105572342 T
1 T
105572343 TTATTATTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
13 11 0.31
14 7 0.19
15 14 0.39
16 4 0.11
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (15 bp):
TATTTTAATAAATAT
Found at i:105572331 original size:13 final size:13
Alignment explanation
Indices: 105572308--105572345 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
105572298 TAATTAGATA
105572308 AATATTATTTTAAT
1 AATA-TATTTTAAT
105572322 AATATATTTTAAT
1 AATATATTTTAAT
*
105572335 AAGATATTTTA
1 AATATATTTTA
105572346 TTATTTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 19 0.83
14 4 0.17
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (13 bp):
AATATATTTTAAT
Found at i:105572341 original size:29 final size:28
Alignment explanation
Indices: 105572284--105572359 Score: 70
Period size: 29 Copynumber: 2.7 Consensus size: 28
105572274 ATGTTGATGA
105572284 TATTTTATAATTATTAATTAGATAAATAT
1 TATTTTATAATTATT-ATTAGATAAATAT
105572313 TATTTTAATAATATATT-TTA-ATAAGATAT
1 TATTTT-ATAAT-TATTATTAGATAA-ATAT
*
105572342 T-TTATTAT-TTTATTATTA
1 TATT-TTATAATTATTATTA
105572360 TTTATTAAGT
Statistics
Matches: 41, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
26 4 0.10
27 4 0.10
28 8 0.20
29 16 0.39
30 5 0.12
31 4 0.10
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.57
Consensus pattern (28 bp):
TATTTTATAATTATTATTAGATAAATAT
Found at i:105574488 original size:44 final size:44
Alignment explanation
Indices: 105574287--105574548 Score: 195
Period size: 44 Copynumber: 5.9 Consensus size: 44
105574277 CACCATGGTG
* * * *
105574287 AATCTTGTCTCCCTGAAATTGTAGTGGAGCAGATTGAAGTCACA
1 AATCTTATCTCCCTGAAATTGCAGTGGAGCAGATTAAAGTTACA
* * * * * * *
105574331 CATCTCATCT-CCTTAAAGTTACAGAGGAGTAGATTGAAGTTACA
1 AATCTTATCTCCCTGAAA-TTGCAGTGGAGCAGATTAAAGTTACA
* ** ** *
105574375 AATCTTATCTCCCTGAAGTTGCAGTGGAATAGATCGAAGAATAGCA
1 AATCTTATCTCCCTGAAATTGCAGTGGAGCAGATTAAAG-TTA-CA
* * * *
105574421 AACCTTATCCCCCTGAAGTTGCAGTGGAGCAGGTTAAAGTTACA
1 AATCTTATCTCCCTGAAATTGCAGTGGAGCAGATTAAAGTTACA
* * * * *
105574465 AGTCTTATCTCCTTGAAATTGCAGTGGGGCAGACTGAAA-ATAGCA
1 AATCTTATCTCCCTGAAATTGCAGTGGAGCAGA-TTAAAGTTA-CA
* * * *
105574510 AATCTTATTTCCCTGAAGTTGCAGTGGAACAGGTTAAAG
1 AATCTTATCTCCCTGAAATTGCAGTGGAGCAGATTAAAG
105574549 CTACGAGTTA
Statistics
Matches: 168, Mismatches: 43, Indels: 13
0.75 0.19 0.06
Matches are distributed among these distances:
43 6 0.04
44 87 0.52
45 41 0.24
46 34 0.20
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAATTGCAGTGGAGCAGATTAAAGTTACA
Found at i:105574533 original size:89 final size:90
Alignment explanation
Indices: 105574367--105574548 Score: 251
Period size: 89 Copynumber: 2.0 Consensus size: 90
105574357 GAGTAGATTG
* *
105574367 AAGTTACAAATCTTATCTCCCTGAAGTTGCAGTGGAATAGATCGAAGAATAGCAAACCTTATCCC
1 AAGTTACAAATCTTATCTCCCTGAAATTGCAGTGGAACAGATCGAAGAATAGCAAACCTTATCCC
*
105574432 CCTGAAGTTGCAGTGGAGCAGGTTA
66 CCTGAAGTTGCAGTGGAACAGGTTA
* * ** * **
105574457 AAGTTACAAGTCTTATCTCCTTGAAATTGCAGTGGGGCAGA-CTGAA-AATAGCAAATCTTATTT
1 AAGTTACAAATCTTATCTCCCTGAAATTGCAGTGGAACAGATC-GAAGAATAGCAAACCTTATCC
105574520 CCCTGAAGTTGCAGTGGAACAGGTTA
65 CCCTGAAGTTGCAGTGGAACAGGTTA
105574546 AAG
1 AAG
105574549 CTACGAGTTA
Statistics
Matches: 81, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
89 43 0.53
90 38 0.47
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (90 bp):
AAGTTACAAATCTTATCTCCCTGAAATTGCAGTGGAACAGATCGAAGAATAGCAAACCTTATCCC
CCTGAAGTTGCAGTGGAACAGGTTA
Found at i:105588106 original size:42 final size:42
Alignment explanation
Indices: 105588057--105588143 Score: 133
Period size: 42 Copynumber: 2.1 Consensus size: 42
105588047 TTATATAAGT
*
105588057 TTCAGTTTAACCC-TAATGGGTTTCCATTTAGCTATTT-TGAGC
1 TTCAGTTTAACCCTTAA-GGGTTTCCATTCAGCT-TTTATGAGC
105588099 TTCAGTTTAACCCTTAAGGGTTTCCATTCAGCTTTTATGAGC
1 TTCAGTTTAACCCTTAAGGGTTTCCATTCAGCTTTTATGAGC
105588141 TTC
1 TTC
105588144 CGTTCAACTC
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
41 3 0.07
42 36 0.86
43 3 0.07
ACGTcount: A:0.21, C:0.21, G:0.16, T:0.43
Consensus pattern (42 bp):
TTCAGTTTAACCCTTAAGGGTTTCCATTCAGCTTTTATGAGC
Found at i:105588165 original size:42 final size:42
Alignment explanation
Indices: 105588077--105588165 Score: 99
Period size: 42 Copynumber: 2.1 Consensus size: 42
105588067 CCCTAATGGG
* * **
105588077 TTTCCATTTAGCTATTTTGAGCTTCAGTTTAACCCTTAAGGG
1 TTTCCATTCAGCTATTTTGAGCTTCAGTTCAACCCTTAAGAA
* * *
105588119 TTTCCATTCAGCT-TTTATGAGCTTCCGTTCAACTCTTACGAA
1 TTTCCATTCAGCTATTT-TGAGCTTCAGTTCAACCCTTAAGAA
105588161 TTTCC
1 TTTCC
105588166 GTTACATTTA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
41 3 0.08
42 36 0.92
ACGTcount: A:0.20, C:0.24, G:0.13, T:0.43
Consensus pattern (42 bp):
TTTCCATTCAGCTATTTTGAGCTTCAGTTCAACCCTTAAGAA
Found at i:105599887 original size:18 final size:18
Alignment explanation
Indices: 105599864--105599901 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
105599854 AAACAGCTAC
*
105599864 GTATTGGAGTGGAAACCA
1 GTATTGGAGTGCAAACCA
105599882 GTATTGGAGTGCAAACCA
1 GTATTGGAGTGCAAACCA
105599900 GT
1 GT
105599902 TAGATCAAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.13, G:0.32, T:0.24
Consensus pattern (18 bp):
GTATTGGAGTGCAAACCA
Found at i:105600606 original size:89 final size:89
Alignment explanation
Indices: 105600456--105601104 Score: 1196
Period size: 89 Copynumber: 7.3 Consensus size: 89
105600446 TAAAAGGTAT
*
105600456 AAAAA-GCTCTCAAACTTCTTCAAAAAAAATTAAGCCCCTGCTCTTTTTTTTTACACTCAATTGA
1 AAAAAGGCCCTCAAACTTCTTCAAAAAAAATTAAGCCCCTGCTCTTTTTTTTTACACTCAATTGA
105600520 GCACTTGAACTTTCAAAGTGCATC
66 GCACTTGAACTTTCAAAGTGCATC
105600544 AAAAAGGCCCTCAAACTTCTTCAAAAAAAATTAAGCCCCTGCTCTTTTTTTTTACACTCAATTGA
1 AAAAAGGCCCTCAAACTTCTTCAAAAAAAATTAAGCCCCTGCTCTTTTTTTTTACACTCAATTGA
105600609 GCACTTGAACTTTCAAAGTGCATC
66 GCACTTGAACTTTCAAAGTGCATC
105600633 AAAAAGGCCCTCAAACTTCTTCAAAAAAAATTAAGCCCCTGCTCTTTTTTTTTACACTCAATTGA
1 AAAAAGGCCCTCAAACTTCTTCAAAAAAAATTAAGCCCCTGCTCTTTTTTTTTACACTCAATTGA
105600698 GCACTTGAACTTTCAAAGTGCATC
66 GCACTTGAACTTTCAAAGTGCATC
105600722 AAAAAGGCCCTCAAACTTCTTCAAAAAAAATTAAGCCCCTGCTCTTTTTTTTTACACTCAATTGA
1 AAAAAGGCCCTCAAACTTCTTCAAAAAAAATTAAGCCCCTGCTCTTTTTTTTTACACTCAATTGA
105600787 GCACTTGAACTTTCAAAGTGCATC
66 GCACTTGAACTTTCAAAGTGCATC
105600811 AAAAAGGCCCTCAAACTTCTTCAAAAAAAATTAAGCCCCTGCTCTTTTTTTTTACACTCAATTGA
1 AAAAAGGCCCTCAAACTTCTTCAAAAAAAATTAAGCCCCTGCTCTTTTTTTTTACACTCAATTGA
105600876 GCACTTGAACTTTCAAAGTGCATC
66 GCACTTGAACTTTCAAAGTGCATC
105600900 AAAAAGGCCCTCAAACTTCTTCAAAAAAAATTAAGCCCCTGCTCTTTTTTTTTACACTCAATTGA
1 AAAAAGGCCCTCAAACTTCTTCAAAAAAAATTAAGCCCCTGCTCTTTTTTTTTACACTCAATTGA
105600965 GCACTTGAACTTTCAAAGTGCATC
66 GCACTTGAACTTTCAAAGTGCATC
*
105600989 AAAAAGGCCCTCAAACTTCTTCAAAAAAAATTAAGCCCCTGCTC-TTTTTTTT-CACTCAATTGG
1 AAAAAGGCCCTCAAACTTCTTCAAAAAAAATTAAGCCCCTGCTCTTTTTTTTTACACTCAATTGA
* *
105601052 GTACTTGAACTTTCAAAATGCATC
66 GCACTTGAACTTTCAAAGTGCATC
* * * * *
105601076 AAAAAGACTCTCAAAATTTTTGAAAAAAA
1 AAAAAGGCCCTCAAACTTCTTCAAAAAAA
105601105 CCAATTTTAA
Statistics
Matches: 551, Mismatches: 9, Indels: 3
0.98 0.02 0.01
Matches are distributed among these distances:
87 56 0.10
88 13 0.02
89 482 0.87
ACGTcount: A:0.35, C:0.24, G:0.10, T:0.31
Consensus pattern (89 bp):
AAAAAGGCCCTCAAACTTCTTCAAAAAAAATTAAGCCCCTGCTCTTTTTTTTTACACTCAATTGA
GCACTTGAACTTTCAAAGTGCATC
Found at i:105601816 original size:17 final size:16
Alignment explanation
Indices: 105601780--105601817 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
105601770 AATCAATTTA
*
105601780 AAAATTATAAAAATAT
1 AAAATTATAAAAAAAT
105601796 -AAATTATAAAAAAATT
1 AAAATTATAAAAAAA-T
105601812 AAAATT
1 AAAATT
105601818 TCATCCGACC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 13 0.68
16 1 0.05
17 5 0.26
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
AAAATTATAAAAAAAT
Found at i:105603672 original size:20 final size:20
Alignment explanation
Indices: 105603649--105603697 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
105603639 TTAAATTCTA
* *
105603649 AAAGATAAATATAAATAATT
1 AAAGATAAATAAAAATAAAT
* *
105603669 AAAGCTAATTAAAAATAAAT
1 AAAGATAAATAAAAATAAAT
*
105603689 GAAGATAAA
1 AAAGATAAA
105603698 AGCTAAAATT
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.65, C:0.02, G:0.08, T:0.24
Consensus pattern (20 bp):
AAAGATAAATAAAAATAAAT
Found at i:105604163 original size:41 final size:41
Alignment explanation
Indices: 105604106--105604187 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 41
105604096 TTTTTTAAAA
*
105604106 TTCTTGAACTTGATCATCAATATGTTAAATTTGATGTAGGG
1 TTCTTGAACTTGATCATCAATATCTTAAATTTGATGTAGGG
*
105604147 TTCTTGAACTTGATCATCAATATCTTAAATTTGGTGTAGGG
1 TTCTTGAACTTGATCATCAATATCTTAAATTTGATGTAGGG
105604188 AAAACTAGAG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.28, C:0.11, G:0.20, T:0.41
Consensus pattern (41 bp):
TTCTTGAACTTGATCATCAATATCTTAAATTTGATGTAGGG
Found at i:105606773 original size:26 final size:25
Alignment explanation
Indices: 105606744--105606802 Score: 77
Period size: 25 Copynumber: 2.3 Consensus size: 25
105606734 AACAATAGTA
105606744 AAATAAT-GATATTAATACCTAAATAT
1 AAATAATAGATA-TAATACCTAAA-AT
105606770 AAAT-ATAGATATAATACCTAAAAT
1 AAATAATAGATATAATACCTAAAAT
105606794 ATAATAATA
1 A-AATAATA
105606803 ATGAATGTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
24 3 0.10
25 16 0.53
26 11 0.37
ACGTcount: A:0.58, C:0.07, G:0.03, T:0.32
Consensus pattern (25 bp):
AAATAATAGATATAATACCTAAAAT
Found at i:105607192 original size:19 final size:19
Alignment explanation
Indices: 105607164--105607242 Score: 117
Period size: 19 Copynumber: 4.2 Consensus size: 19
105607154 AATCTTTAAG
*
105607164 GATATACAATCTTAGATAT
1 GATATGCAATCTTAGATAT
105607183 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
105607202 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
105607219 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
105607240 GAT
1 GAT
105607243 CTTGTAATCT
Statistics
Matches: 55, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
17 17 0.31
19 29 0.53
21 9 0.16
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:105607194 original size:36 final size:36
Alignment explanation
Indices: 105607154--105607239 Score: 115
Period size: 36 Copynumber: 2.4 Consensus size: 36
105607144 ATGGAAATAT
105607154 AATCTTTAAGGATATACAATCTTAGATATGATATGC
1 AATCTTTAAGGATATACAATCTTAGATATGATATGC
*
105607190 AATC-TT-AGATATGATACAATCTTAGATATGATATGC
1 AATCTTTAAG-GAT-ATACAATCTTAGATATGATATGC
*
105607226 AATCTTGAA-GATAT
1 AATCTTTAAGGATAT
105607240 GATCTTGTAA
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
34 2 0.05
35 6 0.14
36 33 0.77
37 1 0.02
38 1 0.02
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.36
Consensus pattern (36 bp):
AATCTTTAAGGATATACAATCTTAGATATGATATGC
Found at i:105608659 original size:21 final size:22
Alignment explanation
Indices: 105608620--105608661 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
105608610 ACTCCCGTTT
* *
105608620 TCATTTTTCTTAAAGTCGATTC
1 TCATTTTTCTAAAACTCGATTC
105608642 TCATTTTTC-AAAACTCGATT
1 TCATTTTTCTAAAACTCGATT
105608662 TAAAAATAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.26, C:0.19, G:0.07, T:0.48
Consensus pattern (22 bp):
TCATTTTTCTAAAACTCGATTC
Found at i:105608778 original size:3 final size:3
Alignment explanation
Indices: 105608772--105609086 Score: 166
Period size: 3 Copynumber: 105.7 Consensus size: 3
105608762 TAAAAGTAGG
* * *
105608772 ATA ATA ATG ATA ATA TATA A-A ATA ATA ATA ATA GTA A-A AAA GATA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA
* * ** * * **
105608817 ATA AGA ATA GTA GCA ATA ATA ATG GTA ATA ACG ATA ATAA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA
* * * * *
105608863 GTA GTA A-A A-A ATA AAA ATA AAA ATA ATA ATA GTA ATA ATA ATA ATGA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A
* * * *
105608910 A-A ATA GTGA A-A ATA AT- AGA ATA ATA ATA GTA ATA ATA ATG ATA
1 ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * **
105608953 ATA GTA ATA GAAA ATAA ATA ATA ATA AT- ATA GTA ATA GTA ATA GCA
1 ATA ATA ATA -ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
105608999 ATA AAA ATA AAA ATA ATA GTA ATA ATA ATG GTA ATA ATAA ATA GA-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA -ATA
* * *
105609045 ATA ATA ACA ATA AT- ATA A-A AAA AGA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
105609087 GTTAGACAAA
Statistics
Matches: 232, Mismatches: 61, Indels: 38
0.70 0.18 0.11
Matches are distributed among these distances:
2 20 0.09
3 192 0.83
4 20 0.09
ACGTcount: A:0.63, C:0.01, G:0.09, T:0.27
Consensus pattern (3 bp):
ATA
Found at i:105609056 original size:22 final size:21
Alignment explanation
Indices: 105609031--105609082 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
105609021 TAATAATGGT
* *
105609031 AATAATAAATAGAAATAATAAC
1 AATAATAAA-AAAAAGAATAAC
*
105609053 AATAATATAAAAAAAGAATAAT
1 AATAATA-AAAAAAAGAATAAC
105609075 AATAATAA
1 AATAATAA
105609083 TAATGTTAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 1 0.04
22 23 0.88
23 2 0.08
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.23
Consensus pattern (21 bp):
AATAATAAAAAAAAGAATAAC
Found at i:105609075 original size:19 final size:20
Alignment explanation
Indices: 105609031--105609078 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
105609021 TAATAATGGT
* *
105609031 AATAATAA-ATAGAAATAAT
1 AATAATAATATAGAAAAAAG
*
105609050 AACAATAATATA-AAAAAAG
1 AATAATAATATAGAAAAAAG
105609069 AATAATAATA
1 AATAATAATA
105609079 ATAATAATGT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 21 0.88
20 3 0.12
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.23
Consensus pattern (20 bp):
AATAATAATATAGAAAAAAG
Found at i:105625524 original size:15 final size:15
Alignment explanation
Indices: 105625500--105625535 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
105625490 TTCATAAGTA
*
105625500 TACCTCGATTCAACT
1 TACCTAGATTCAACT
105625515 TACCTAGATTCAACT
1 TACCTAGATTCAACT
*
105625530 TGCCTA
1 TACCTA
105625536 ATAAATACAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.33
Consensus pattern (15 bp):
TACCTAGATTCAACT
Found at i:105629773 original size:23 final size:24
Alignment explanation
Indices: 105629730--105629781 Score: 79
Period size: 23 Copynumber: 2.2 Consensus size: 24
105629720 AACAAATACT
* *
105629730 TATTTTATAGTATTAAAATATTCA
1 TATTTTATACTATTAAAATATTAA
105629754 TATTTTATACTA-TAAAATATTAA
1 TATTTTATACTATTAAAATATTAA
105629777 TATTT
1 TATTT
105629782 GAATTTGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
23 15 0.58
24 11 0.42
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (24 bp):
TATTTTATACTATTAAAATATTAA
Found at i:105630489 original size:15 final size:15
Alignment explanation
Indices: 105630469--105630501 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
105630459 AATTTTTAAC
105630469 AATAAAAATAAATGA
1 AATAAAAATAAATGA
105630484 AATAAAAATAAATGA
1 AATAAAAATAAATGA
105630499 AAT
1 AAT
105630502 GTTTAGTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.73, C:0.00, G:0.06, T:0.21
Consensus pattern (15 bp):
AATAAAAATAAATGA
Found at i:105640319 original size:7 final size:8
Alignment explanation
Indices: 105640307--105640340 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
105640297 ATAATAAAAT
105640307 ATAT-AAA
1 ATATCAAA
105640314 ATAT-AAA
1 ATATCAAA
105640321 ATATCAAA
1 ATATCAAA
105640329 ATATCAAA
1 ATATCAAA
105640337 ATAT
1 ATAT
105640341 TAGAATAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 11 0.42
8 15 0.58
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (8 bp):
ATATCAAA
Found at i:105640323 original size:24 final size:24
Alignment explanation
Indices: 105640296--105640351 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 24
105640286 TAATGATGTG
*
105640296 AATAATAAAATATATAAAATA-TAA
1 AATAATAAAATAT-CAAAATATTAA
*
105640320 AAT-ATCAAAATATCAAAATATTAG
1 AATAAT-AAAATATCAAAATATTAA
105640344 AATAATAA
1 AATAATAA
105640352 TAATTAATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
23 8 0.30
24 17 0.63
25 2 0.07
ACGTcount: A:0.66, C:0.04, G:0.02, T:0.29
Consensus pattern (24 bp):
AATAATAAAATATCAAAATATTAA
Found at i:105640347 original size:16 final size:15
Alignment explanation
Indices: 105640300--105640347 Score: 60
Period size: 16 Copynumber: 3.1 Consensus size: 15
105640290 GATGTGAATA
105640300 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
*
105640316 ATAAAATATCAAAAT
1 ATAAAATATTAAAAT
*
105640331 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
105640347 A
1 A
105640348 ATAATAATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
15 7 0.25
16 21 0.75
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:105640565 original size:22 final size:24
Alignment explanation
Indices: 105640502--105640566 Score: 80
Period size: 25 Copynumber: 2.8 Consensus size: 24
105640492 CGTGATAATA
*
105640502 TTAAAAATATGTACATAATATAGTG
1 TTAAAAATATATACATAATATAG-G
*
105640527 TTAAAAATACATACATAATATA-G
1 TTAAAAATATATACATAATATAGG
*
105640550 TT-AAGATATATACATAA
1 TTAAAAATATATACATAA
105640567 GATAACATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
22 13 0.36
23 3 0.08
25 20 0.56
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.34
Consensus pattern (24 bp):
TTAAAAATATATACATAATATAGG
Found at i:105640621 original size:25 final size:25
Alignment explanation
Indices: 105640587--105640720 Score: 86
Period size: 25 Copynumber: 5.6 Consensus size: 25
105640577 AGAAAAAAAT
105640587 ATATATAAATAATATAATATTAAAG
1 ATATATAAATAATATAATATTAAAG
* * * *
105640612 ATATATAAATAAAATAGTATAAAAT
1 ATATATAAATAATATAATATTAAAG
* *
105640637 ATATATATACGTAATATAGA-ATTTAA-
1 ATATATA-A-ATAATATA-ATATTAAAG
** *
105640663 A-ATATACCTAATAT-AT-TAAAAG
1 ATATATAAATAATATAATATTAAAG
*
105640685 A-ATATATATAATATAATATT-AAG
1 ATATATAAATAATATAATATTAAAG
*
105640708 AAATAT-AATAATA
1 ATATATAAATAATA
105640721 ACAAAAAAAG
Statistics
Matches: 84, Mismatches: 17, Indels: 18
0.71 0.14 0.15
Matches are distributed among these distances:
21 4 0.05
22 12 0.14
23 18 0.21
24 5 0.06
25 33 0.39
26 2 0.02
27 10 0.12
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.35
Consensus pattern (25 bp):
ATATATAAATAATATAATATTAAAG
Found at i:105640655 original size:27 final size:27
Alignment explanation
Indices: 105640516--105640655 Score: 85
Period size: 25 Copynumber: 5.3 Consensus size: 27
105640506 AAATATGTAC
* * * *
105640516 ATAATATAGTGTTAAA-A-ATACATAC
1 ATAATATAGTATAAAATATATATATAA
* *
105640541 ATAATATAGT-TAAGATATATACATAA
1 ATAATATAGTATAAAATATATATATAA
* * *
105640567 GATAACAT-GTAGAAAAAAATATATATAA
1 -ATAATATAGTA-TAAAATATATATATAA
* * *
105640595 ATAATATAATAT-TAA-AGATATATAA
1 ATAATATAGTATAAAATATATATATAA
* *
105640620 ATAAAATAGTATAAAATATATATATAC
1 ATAATATAGTATAAAATATATATATAA
*
105640647 GTAATATAG
1 ATAATATAG
105640656 AATTTAAAAT
Statistics
Matches: 87, Mismatches: 20, Indels: 14
0.72 0.17 0.12
Matches are distributed among these distances:
24 3 0.03
25 30 0.34
26 13 0.15
27 27 0.31
28 14 0.16
ACGTcount: A:0.56, C:0.04, G:0.08, T:0.32
Consensus pattern (27 bp):
ATAATATAGTATAAAATATATATATAA
Found at i:105641265 original size:30 final size:30
Alignment explanation
Indices: 105641231--105641392 Score: 252
Period size: 30 Copynumber: 5.4 Consensus size: 30
105641221 AATGGAGCAA
*
105641231 GTGTGGCTAGTGGATTTGGTGGTGGAAAAG
1 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
* *
105641261 GTGTGGCTAGTAGAGTTGGTGGTGGAAAAA
1 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
*
105641291 GAGTGGCTAGTGGAGTTGGTGGTGGAAAAAG
1 GTGTGGCTAGTGGAGTTGGTGGTGG-AAAAG
*
105641322 GAGTGGCTAGTGGAGTTGGTGGTGGAAAAG
1 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
*
105641352 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAT
1 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
*
105641382 GTGTGCCTAGT
1 GTGTGGCTAGT
105641393 TGAGAAAAGT
Statistics
Matches: 122, Mismatches: 9, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
30 93 0.76
31 29 0.24
ACGTcount: A:0.22, C:0.04, G:0.46, T:0.27
Consensus pattern (30 bp):
GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
Found at i:105641344 original size:61 final size:61
Alignment explanation
Indices: 105641233--105641380 Score: 244
Period size: 61 Copynumber: 2.4 Consensus size: 61
105641223 TGGAGCAAGT
* *
105641233 GTGGCTAGTGGATTTGGTGGTGG-AAAAGGTGTGGCTAGTAGAGTTGGTGGTGGAAAAAGA
1 GTGGCTAGTGGAGTTGGTGGTGGAAAAAGGAGTGGCTAGTAGAGTTGGTGGTGGAAAAAGA
* * *
105641293 GTGGCTAGTGGAGTTGGTGGTGGAAAAAGGAGTGGCTAGTGGAGTTGGTGGTGGAAAAGGT
1 GTGGCTAGTGGAGTTGGTGGTGGAAAAAGGAGTGGCTAGTAGAGTTGGTGGTGGAAAAAGA
105641354 GTGGCTAGTGGAGTTGGTGGTGGAAAA
1 GTGGCTAGTGGAGTTGGTGGTGGAAAA
105641381 TGTGTGCCTA
Statistics
Matches: 82, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
60 22 0.27
61 60 0.73
ACGTcount: A:0.24, C:0.03, G:0.47, T:0.26
Consensus pattern (61 bp):
GTGGCTAGTGGAGTTGGTGGTGGAAAAAGGAGTGGCTAGTAGAGTTGGTGGTGGAAAAAGA
Found at i:105642117 original size:14 final size:14
Alignment explanation
Indices: 105642081--105642131 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
105642071 GAGTTGATTT
* *
105642081 TTGAAAAATATAAA
1 TTGAAAAACAGAAA
105642095 TTGAAAAAAACAGAAA
1 TTG--AAAAACAGAAA
*
105642111 TTGAAAAGCAGAAA
1 TTGAAAAACAGAAA
105642125 TT-AAAAA
1 TTGAAAAA
105642132 GACCTCAGCA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
13 4 0.13
14 15 0.48
16 12 0.39
ACGTcount: A:0.65, C:0.04, G:0.12, T:0.20
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:105642178 original size:105 final size:105
Alignment explanation
Indices: 105641996--105642205 Score: 287
Period size: 105 Copynumber: 2.0 Consensus size: 105
105641986 TTGACTCTGT
* * * * *
105641996 AAAACTAGACATTAAAAACAGAAATTGAAAATAGCTTAGCACGTGAGCCAAGGCTCAACTCACAT
1 AAAACTAGAAATTAAAAACAGAAATTAAAAAGACCTCAGCACGTGAGCCAAGGCTCAACTCACAT
* * *
105642061 CTCGCAATATGAGTTGATTTTTGAAAAATATAAATTGAAA
66 CTCGCAATATGAGTTAATTTTTGAAAAACAGAAATTGAAA
* * * *
105642101 AAAAC-AGAAATTGAAAAGCAGAAATTAAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACC
1 AAAACTAGAAATT-AAAAACAGAAATTAAAAAGACCTCAGCACGTGAGCCAAGGCTCAACTCACA
*
105642165 TCTCGCAATATGAGTTAATTTTTGACAAACAGAAATTGAAA
65 TCTCGCAATATGAGTTAATTTTTGAAAAACAGAAATTGAAA
105642206 TTACCTCAGC
Statistics
Matches: 91, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
104 6 0.07
105 85 0.93
ACGTcount: A:0.44, C:0.17, G:0.16, T:0.23
Consensus pattern (105 bp):
AAAACTAGAAATTAAAAACAGAAATTAAAAAGACCTCAGCACGTGAGCCAAGGCTCAACTCACAT
CTCGCAATATGAGTTAATTTTTGAAAAACAGAAATTGAAA
Found at i:105642322 original size:74 final size:72
Alignment explanation
Indices: 105642111--105642334 Score: 295
Period size: 74 Copynumber: 3.0 Consensus size: 72
105642101 AAAACAGAAA
* * *
105642111 TTGAAAAGCAGAAATTAAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTAAAAATACCTCAGC--GTG-TCCGAGGCTCAACTCACCTCTCGCAATAT
*
105642176 GAGTTAATTT
63 GAGTTGATTT
* * * * * *
105642186 TTGACAAACAGAAATTGAAATTACCTCAGCGTATCCCGAGGCTCAACTCTCCTTTCGCAATATGA
1 TTGAAAAACAGAAATTAAAAATACCTCAGCGTGT-CCGAGGCTCAACTCACCTCTCGCAATATGA
105642251 GTTGATTT
65 GTTGATTT
*
105642259 TTGAAAAACAAAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAAACAGAAA-TTAAAAATACCTCAGCGTGTCC-GAGGCTCAACTCACCTCTCGCAATATG
105642324 AGTTGATTT
64 AGTTGATTT
105642333 TT
1 TT
105642335 TTTTACGAAC
Statistics
Matches: 129, Mismatches: 17, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
73 51 0.40
74 53 0.41
75 25 0.19
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (72 bp):
TTGAAAAACAGAAATTAAAAATACCTCAGCGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTT
Found at i:105642361 original size:14 final size:14
Alignment explanation
Indices: 105642342--105642368 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
105642332 TTTTTTTACG
105642342 AACAGAAATTGAAT
1 AACAGAAATTGAAT
105642356 AACAGAAATTGAA
1 AACAGAAATTGAA
105642369 AAGACCTCAG
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:0.59, C:0.07, G:0.15, T:0.19
Consensus pattern (14 bp):
AACAGAAATTGAAT
Found at i:105642439 original size:239 final size:220
Alignment explanation
Indices: 105642240--105643100 Score: 647
Period size: 239 Copynumber: 3.9 Consensus size: 220
105642230 AACTCTCCTT
* * * *
105642240 TCGCAATATGAGTTGATTTTTGAAA-AACAAAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTC
1 TCGCAACATGAGTTAATTTTTGAAACAACAAAAA-TTAAAAATACATCAGCGTGACCTGAGGCTC
* *
105642304 AACTCACCTCTCGCAATATGAGTTGATTTTTTTTTACGAACAGAAATTGAATAA-CAGAAATTGA
65 AACTCACCTCTCGCAATATGAGCTGATTTTTTTTTACGAACAGAAATTGAA-AAGCAGAAATTAA
*
105642368 AAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAAGATGAGTTGATTTTTGACAAA
129 AAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAAGATGAGTTAATTTTTGACAAA
*
105642433 CAGAAATTAAAAGGCTTAACTCACTTC
194 CAGAAATTAAAAAGCTTAACTCACTTC
*
105642460 TCGCAACATGAGTTAATTTTTGAAACAACAAAAATTAAGAATACATCAGCGTGACCTGAGGCTCA
1 TCGCAACATGAGTTAATTTTTGAAACAACAAAAATTAAAAATACATCAGCGTGACCTGAGGCTCA
* ** * *
105642525 ACTCACCTCTCGCAATATGAGCTGA----TTTTGAAAAAGTAGAAATT-AAAAG--G---TTCAA
66 ACTCACCTCTCGCAATATGAGCTGATTTTTTTTTACGAA-CAGAAATTGAAAAGCAGAAATTAAA
*** * * ** ** ** ** * **
105642580 CCCACCTCTCGCAATATGAGTTGATTCTTGA--CA-AAC-AG-AA-ATTGA---AATTACCT--C
130 AAGACCTC-AGC-ATGTGAGCCGAGGCTCAACTCACCTCTCGCAAGA-TGAGTTAATT-TTTGAC
* ** **** * *
105642634 -ATC-G-TGTCCTGAGGCTCAACTCA-TCTC
191 AAACAGAAATTAAAAAGCTTAACTCACT-TC
* * * *
105642661 TCGCAATATGAGTTGATTTTTTGAAA-AACAAAAATTTAAAAATATC-TCAGCGTGTCTTGAGGC
1 TCGCAACATGAGTT-AATTTTTGAAACAACAAAAA-TTAAAAATA-CATCAGCGTGACCTGAGGC
* *
105642724 TCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTTACGAACAAAAATTGAAGAA-CAGAAATT
63 TCAACTCACCTCTCGCAATATGAGCTGATTTTTTTTTACGAACAGAAATTGAA-AAGCAGAAATT
* *
105642787 AAAAAGACCTCAGTATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGACA
127 AAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAAGATGAGTTAATTTTTGACA
*
105642852 AACAGAAACTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTT-
192 AACAGAAA-TTAAA--A----A----G--CT-----T-AACTCA-CTTC
* * * * *
105642900 TCGCAATATGAGTTGATTTTTGAAA-AACAGAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTC
1 TCGCAACATGAGTTAATTTTTGAAACAACA-AAAATTAAAAATACATCAGCGTGACCTGAGGCTC
* *
105642964 AACTCACCTCTCGCAATATGAGTTGATTTTTTTTTACGAACAGAAATTGAAGAA-CAGAAATTGA
65 AACTCACCTCTCGCAATATGAGCTGATTTTTTTTTACGAACAGAAATTGAA-AAGCAGAAATTAA
* * *
105643028 AAAGACCTCAGCATGTGAGCCGAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAA
129 AAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAAGATGAGTTAATTTTTGACAAA
*
105643093 TAGAAATT
194 CAGAAATT
105643101 GAGATTACCT
Statistics
Matches: 497, Mismatches: 85, Indels: 100
0.73 0.12 0.15
Matches are distributed among these distances:
200 1 0.00
201 35 0.07
202 61 0.12
203 3 0.01
204 7 0.01
205 12 0.02
206 3 0.01
207 2 0.00
208 16 0.03
209 2 0.00
210 12 0.02
211 12 0.02
212 3 0.01
213 16 0.03
214 2 0.00
215 3 0.01
216 13 0.03
217 8 0.02
218 2 0.00
219 1 0.00
220 75 0.15
221 9 0.02
223 1 0.00
231 1 0.00
233 2 0.00
237 1 0.00
238 67 0.13
239 125 0.25
240 1 0.00
241 1 0.00
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (220 bp):
TCGCAACATGAGTTAATTTTTGAAACAACAAAAATTAAAAATACATCAGCGTGACCTGAGGCTCA
ACTCACCTCTCGCAATATGAGCTGATTTTTTTTTACGAACAGAAATTGAAAAGCAGAAATTAAAA
AGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAAGATGAGTTAATTTTTGACAAACA
GAAATTAAAAAGCTTAACTCACTTC
Found at i:105642472 original size:54 final size:55
Alignment explanation
Indices: 105642390--105642497 Score: 155
Period size: 54 Copynumber: 2.0 Consensus size: 55
105642380 ATGTGAGCCG
* * * *
105642390 AGGCTCAACTCACCTCTCGCAAGATGAGTTGATTTTTGACA-AACAGAAATTAAA
1 AGGCTCAACTCACCTCTCGCAACATGAGTTAATTTTTGAAACAACAAAAATTAAA
* *
105642444 AGGCTTAACTCACTTCTCGCAACATGAGTTAATTTTTGAAACAACAAAAATTAA
1 AGGCTCAACTCACCTCTCGCAACATGAGTTAATTTTTGAAACAACAAAAATTAA
105642498 GAATACATCA
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
54 36 0.77
55 11 0.23
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (55 bp):
AGGCTCAACTCACCTCTCGCAACATGAGTTAATTTTTGAAACAACAAAAATTAAA
Found at i:105642670 original size:127 final size:127
Alignment explanation
Indices: 105642389--105642701 Score: 389
Period size: 128 Copynumber: 2.4 Consensus size: 127
105642379 CATGTGAGCC
* * *
105642389 GAGGCTCAACTCACCTCTCGCAAGATGAGTTGATTTTTGACAAACAGAAATTAAAAGGCTTAACT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGAAAAACAGAAATTAAAAGGCTTAACC
* *
105642454 CACTTCTCGCAACATGAGTTAATTTTTGAAACAACAAAAATTAAGAATACATCAGCGTGACCT
65 CACCTCTCGCAACATGAGTTAATTCTTGAAACAACAAAAATTAAGAATACATCAGCGTGACCT
* *
105642517 GAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGG-TTCAAC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAA-CAGAAATTAAAAGGCTT-AAC
* * * * * * * *
105642581 CCACCTCTCGCAATATGAGTTGATTCTTGACA-AACAGAAATTGAA-ATTACCTCATCGTGTCCT
64 CCACCTCTCGCAACATGAGTTAATTCTTGAAACAACAAAAATT-AAGAATACATCAGCGTGACCT
* *
105642644 GAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTTTGAAAAACAAAAATTTAAAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTGAAAAACAGAAA-TTAAAA
105642702 ATATCTCAGC
Statistics
Matches: 160, Mismatches: 19, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
127 65 0.41
128 79 0.49
129 16 0.10
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (127 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAACAGAAATTAAAAGGCTTAACCC
ACCTCTCGCAACATGAGTTAATTCTTGAAACAACAAAAATTAAGAATACATCAGCGTGACCT
Found at i:105642671 original size:73 final size:73
Alignment explanation
Indices: 105642576--105643303 Score: 380
Period size: 73 Copynumber: 9.4 Consensus size: 73
105642566 ATTAAAAGGT
* * *
105642576 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCATCGTGT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGT
105642641 CCTGAGGC
66 CCTGAGGC
* * * * * *
105642649 TCAACTCATCTCTCGCAATATGAGTTGATTTTTTGAAAAACAAAAATTTAAAAATATCTCAGCGT
1 TCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGACAAACAGAAA-TTGAAATTACCTCAGCGT
*
105642714 GTCTTGAGGC
64 GTCCTGAGGC
* **
105642724 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTACGAACAAAAATTGAAGAACAGAAATTA-
1 TCAACTCACCTCTCGCAATATGAGTTGA---TTTTT--G-ACAAACA--G-A-AATTGAAATTAC
*** * * *
105642788 AAAAGACCTCAGT-ATGTGAGC
56 CTCAG-CGT--GTCCTGAG-GC
* * *
105642809 -CGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGACAAACAGAAACTGAAATTACCTC
1 TC-A-ACTC-----ACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTC
105642873 AGCGTGTCCTGAGGC
59 AGCGTGTCCTGAGGC
* * * *
105642888 TCAACTCACCTTTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAATACCTCAGCGTG
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAA-TTGAAATTACCTCAGCGTG
105642953 TCCTGAGGC
65 TCCTGAGGC
* * ** **
105642962 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTACGAACAGAAATTGAAGAACAGAAATTG
1 TCAACTCACCTCTCGCAATATGAGTTGA---TTTTTGACAAACAGAAATT---GAA-ATTACCT-
* * * *
105643027 AAAAGACCTCAG-CATGTGAGC
58 --CAG-CGT--GTCCTGAG-GC
* * * * * * * ***** * *
105643048 -CGAGGCTTAACTCAC-C--TCTCGCAATATGA--GTTGATTTTTGACAAATAGAAATTGAGATT
1 TC-A-ACTCACCTCTCGCAATAT-G-AGT-TGATTTTTGA-CAAACAGAAATTG--A---A-ATT
*
105643107 ACCTCAGCGTGTCTTGAGGC
54 ACCTCAGCGTGTCCTGAGGC
105643127 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGT
105643192 CCTGAGGC
66 CCTGAGGC
* * * * * * *
105643200 TCAACTCACCTCTAGCAATATGAGTTGA-TTTTGAAAAACAAAAATTAAAAGTATCTCAACGTGT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGT
*
105643264 CTTGAGGC
66 CCTGAGGC
* *
105643272 TCAACTCATCTCCCGCAATATGAGTTGATTTT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTT
105643304 CCTTGAAAAG
Statistics
Matches: 492, Mismatches: 104, Indels: 118
0.69 0.15 0.17
Matches are distributed among these distances:
72 62 0.13
73 113 0.23
74 67 0.14
75 50 0.10
76 2 0.00
77 21 0.04
78 13 0.03
79 21 0.04
80 23 0.05
81 16 0.03
82 11 0.02
83 16 0.03
84 10 0.02
85 21 0.04
86 11 0.02
87 10 0.02
88 5 0.01
91 20 0.04
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (73 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGT
CCTGAGGC
Found at i:105642988 original size:74 final size:73
Alignment explanation
Indices: 105642771--105642994 Score: 315
Period size: 74 Copynumber: 3.0 Consensus size: 73
105642761 CGAACAAAAA
* * * *
105642771 TTGAAGAACAGAAATTAAAAAGACCTCAGTATGTGAGCC-GAGGCTCAACTCACCTCTCGCAATA
1 TTGAAAAACAGAAATTAAAAATACCTCAG--CGTG-TCCTGAGGCTCAACTCACCTCTCGCAATA
*
105642835 TGAGTTAATTT
63 TGAGTTGATTT
* * * * *
105642846 TTGACAAACAGAAACTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTTTCGCAATATGA
1 TTGAAAAACAGAAATTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
105642911 GTTGATTT
66 GTTGATTT
105642919 TTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAAACAGAAA-TTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
105642984 AGTTGATTT
65 AGTTGATTT
105642993 TT
1 TT
105642995 TTTTACGAAC
Statistics
Matches: 132, Mismatches: 15, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
72 2 0.02
73 50 0.38
74 57 0.43
75 23 0.17
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.28
Consensus pattern (73 bp):
TTGAAAAACAGAAATTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTT
Found at i:105643020 original size:14 final size:14
Alignment explanation
Indices: 105643001--105643028 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
105642991 TTTTTTTTAC
105643001 GAACAGAAATTGAA
1 GAACAGAAATTGAA
105643015 GAACAGAAATTGAA
1 GAACAGAAATTGAA
105643029 AAGACCTCAG
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:0.57, C:0.07, G:0.21, T:0.14
Consensus pattern (14 bp):
GAACAGAAATTGAA
Found at i:105643075 original size:92 final size:91
Alignment explanation
Indices: 105642919--105643086 Score: 250
Period size: 92 Copynumber: 1.8 Consensus size: 91
105642909 GAGTTGATTT
* *
105642919 TTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAAACAGAAATTTAAAAAGACCTCAGCGTGGCCTGAGGCTCAACTCACCTCTCGCAATATG
105642984 AGTTGATTTTTTTTTACGAACAGAAA
66 AGTTGATTTTTTTTTACGAACAGAAA
* * *
105643010 TTGAAGAACAGAAA-TTGAAAAGACCTCAGCATGTGAGCC-GAGGCTTAACTCACCTCTCGCAAT
1 TTGAAAAACAGAAATTTAAAAAGACCTCAGC--GTG-GCCTGAGGCTCAACTCACCTCTCGCAAT
105643073 ATGAGTTGATTTTT
63 ATGAGTTGATTTTT
105643087 GACAAATAGA
Statistics
Matches: 69, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
90 14 0.20
91 13 0.19
92 40 0.58
93 2 0.03
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.29
Consensus pattern (91 bp):
TTGAAAAACAGAAATTTAAAAAGACCTCAGCGTGGCCTGAGGCTCAACTCACCTCTCGCAATATG
AGTTGATTTTTTTTTACGAACAGAAA
Found at i:105643110 original size:239 final size:239
Alignment explanation
Indices: 105642576--105643231 Score: 1100
Period size: 239 Copynumber: 2.7 Consensus size: 239
105642566 ATTAAAAGGT
* * *
105642576 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCATCGTGT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGT
* * *
105642641 CCTGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTTTGAAAAACAAAAATTTAAAAATAT
66 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATTTAAAAATAC
*
105642706 CTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTTACGAACAAAA
130 CTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTACGAACAAAA
*
105642770 ATTGAAGAACAGAAATTAAAAAGACCTCAGTATGTGAGCCGAGGC
195 ATTGAAGAACAGAAATTAAAAAGACCTCAGCATGTGAGCCGAGGC
* *
105642815 TCAACTCACCTCTCGCAATATGAGTTAATTTTTGACAAACAGAAACTGAAATTACCTCAGCGTGT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGT
*
105642880 CCTGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAATACC
66 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAATACC
*
105642945 TCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTACGAACAGAAA
131 TCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTACGAACAAAAA
*
105643010 TTGAAGAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGC
196 TTGAAGAACAGAAATTAAAAAGACCTCAGCATGTGAGCCGAGGC
* * *
105643054 TTAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAATAGAAATTGAGATTACCTCAGCGTGT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGT
* * * *
105643119 CTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAA-TTGAAATTACC
66 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAATACC
*
105643183 TCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTT
131 TCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
105643232 GAAAAACAAA
Statistics
Matches: 392, Mismatches: 24, Indels: 3
0.94 0.06 0.01
Matches are distributed among these distances:
238 128 0.33
239 264 0.67
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (239 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGT
CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAATACC
TCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTACGAACAAAAA
TTGAAGAACAGAAATTAAAAAGACCTCAGCATGTGAGCCGAGGC
Found at i:105643273 original size:72 final size:73
Alignment explanation
Indices: 105643049--105643303 Score: 386
Period size: 73 Copynumber: 3.5 Consensus size: 73
105643039 CATGTGAGCC
* * *
105643049 GAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAATAGAAATTGAGATTACCTCAG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAG
105643114 CGTGTCTT
66 CGTGTCTT
105643122 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAG
*
105643187 CGTGTCCT
66 CGTGTCTT
* * * * * * *
105643195 GAGGCTCAACTCACCTCTAGCAATATGAGTTGA-TTTTGAAAAACAAAAATTAAAAGTATCTCAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAG
105643259 CGTGTCTT
66 CGTGTCTT
* *
105643267 GAGGCTCAACTCATCTCCCGCAATATGAGTTGATTTT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
105643304 CCTTGAAAAG
Statistics
Matches: 166, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
72 62 0.37
73 104 0.63
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.31
Consensus pattern (73 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAG
CGTGTCTT
Found at i:105643289 original size:145 final size:147
Alignment explanation
Indices: 105643016--105643303 Score: 402
Period size: 145 Copynumber: 2.0 Consensus size: 147
105643006 GAAATTGAAG
* *
105643016 AACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTTAACTCACCTCTCGCAATATGAGTTG
1 AACAGAAATTGAAAAGACCTCAGCA-GTGAGCCGAGGCTCAACTCACCTCTAGCAATATGAGTTG
* * * * * * * *
105643081 ATTTTTGACAAATAGAAATTGAGATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAAT
65 ATTTTTGAAAAACAAAAATTAAAAGTACCTCAACGTGTCTTGAGGCTCAACTCACCTCCCGCAAT
105643146 ATGAGTTGATTTTTGACA
130 ATGAGTTGATTTTTGACA
** *
105643164 AACAGAAATTGAAATTACCTCAGC-GTG-TCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTG
1 AACAGAAATTGAAAAGACCTCAGCAGTGAGCC-GAGGCTCAACTCACCTCTAGCAATATGAGTTG
* *
105643227 A-TTTTGAAAAACAAAAATTAAAAGTATCTCAACGTGTCTTGAGGCTCAACTCATCTCCCGCAAT
65 ATTTTTGAAAAACAAAAATTAAAAGTACCTCAACGTGTCTTGAGGCTCAACTCACCTCCCGCAAT
105643291 ATGAGTTGATTTT
130 ATGAGTTGATTTT
105643304 CCTTGAAAAG
Statistics
Matches: 124, Mismatches: 15, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
145 68 0.55
146 34 0.27
148 22 0.18
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (147 bp):
AACAGAAATTGAAAAGACCTCAGCAGTGAGCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGA
TTTTTGAAAAACAAAAATTAAAAGTACCTCAACGTGTCTTGAGGCTCAACTCACCTCCCGCAATA
TGAGTTGATTTTTGACA
Found at i:105652886 original size:30 final size:30
Alignment explanation
Indices: 105652808--105652952 Score: 177
Period size: 30 Copynumber: 4.8 Consensus size: 30
105652798 TAGGTACAAG
* *
105652808 TGGTGGTGGAGCAA-GTGTGGTTAGTGGAGT
1 TGGTGGTGGA-AAAGGTGTGGCTAGTGGAGT
* ** * *
105652838 AGGTAATGGAGCAA-GTGTGGCTAGTGGATT
1 TGGTGGTGGA-AAAGGTGTGGCTAGTGGAGT
105652868 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
* *
105652898 TGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
105652928 TGGTGGTGGAAAAGGTGTGGCTAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGT
105652953 TGAGAAAAGT
Statistics
Matches: 100, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
29 2 0.02
30 98 0.98
ACGTcount: A:0.22, C:0.04, G:0.47, T:0.27
Consensus pattern (30 bp):
TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
Found at i:105653291 original size:14 final size:14
Alignment explanation
Indices: 105653255--105653305 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
105653245 GAGTTGATTT
* *
105653255 TTGAAAAATATAAA
1 TTGAAAAACAGAAA
105653269 TTGAAAAAAACAGAAA
1 TTG--AAAAACAGAAA
*
105653285 TTGAAAAGCAGAAA
1 TTGAAAAACAGAAA
105653299 TT-AAAAA
1 TTGAAAAA
105653306 GACCTCAGCA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
13 4 0.13
14 15 0.48
16 12 0.39
ACGTcount: A:0.65, C:0.04, G:0.12, T:0.20
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:105653469 original size:14 final size:14
Alignment explanation
Indices: 105653433--105653483 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
105653423 GAGTTGATTT
* *
105653433 TTGAAAAATATAAA
1 TTGAAAAACAGAAA
105653447 TTGAAAAAAACAGAAA
1 TTG--AAAAACAGAAA
*
105653463 TTGAAAAGCAGAAA
1 TTGAAAAACAGAAA
105653477 TT-AAAAA
1 TTGAAAAA
105653484 GACCTCAGCA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
13 4 0.13
14 15 0.48
16 12 0.39
ACGTcount: A:0.65, C:0.04, G:0.12, T:0.20
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:105653530 original size:178 final size:179
Alignment explanation
Indices: 105653231--105653633 Score: 720
Period size: 178 Copynumber: 2.3 Consensus size: 179
105653221 ACTGTAGCGG
105653231 TCCTTTCGCAATATGAGTTGATTTTTGAAAAATATAAATTGAAAAAAACAGAAATTGAAAAGCAG
1 TCCTTTCGCAATATGAGTTGATTTTTGAAAAATATAAATTGAAAAAAACAGAAATTGAAAAGCAG
105653296 AAATTAAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTT
66 AAATTAAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTT
105653361 TGACAAACAGAAATTGAAATTACCTCAGCGTATCCCGAGGCTCAACTC-
131 TGACAAACAGAAATTGAAATTACCTCAGCGTATCCCGAGGCTCAACTCA
105653409 TCCTTTCGCAATATGAGTTGATTTTTGAAAAATATAAATTGAAAAAAACAGAAATTGAAAAGCAG
1 TCCTTTCGCAATATGAGTTGATTTTTGAAAAATATAAATTGAAAAAAACAGAAATTGAAAAGCAG
105653474 AAATTAAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTT
66 AAATTAAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTT
* * *
105653539 TGACAAACAGAAATTGAAATTACCTCATCGTGTCCTGAGGCTCAACTCA
131 TGACAAACAGAAATTGAAATTACCTCAGCGTATCCCGAGGCTCAACTCA
* * * *
105653588 T-CTCTCGCAATATGAGTTGATTTTTTGAAAAACAAAAATTTAAAAA
1 TCCTTTCGCAATATGAGTTGA-TTTTTGAAAAATATAAATTGAAAAA
105653634 TATCTCAGCG
Statistics
Matches: 216, Mismatches: 7, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
178 193 0.89
179 23 0.11
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (179 bp):
TCCTTTCGCAATATGAGTTGATTTTTGAAAAATATAAATTGAAAAAAACAGAAATTGAAAAGCAG
AAATTAAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTT
TGACAAACAGAAATTGAAATTACCTCAGCGTATCCCGAGGCTCAACTCA
Found at i:105653668 original size:75 final size:74
Alignment explanation
Indices: 105653463--105653686 Score: 272
Period size: 75 Copynumber: 3.0 Consensus size: 74
105653453 AAAACAGAAA
* * * *
105653463 TTGAAAAGCAGAAATTAAAAAGACCTCAGCATGTGAGCC-GAGGCTCAACTCACCTCTCGCAATA
1 TTGAAAAACAAAAATTAAAAATACCTCAGC--GTG-TCCTGAGGCTCAACTCACCTCTCGCAATA
*
105653527 TGAGTT-AATTT
63 TGAGTTGATTTT
* * * * * *
105653538 TTGACAAACAGAAATTGAAATTACCTCATCGTGTCCTGAGGCTCAACTCATCTCTCGCAATATGA
1 TTGAAAAACAAAAATTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
105653603 GTTGATTTT
66 GTTGATTTT
* *
105653612 TTGAAAAACAAAAATTTAAAAATATCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAAACAAAAA-TTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
*
105653677 AGCTGATTTT
65 AGTTGATTTT
105653687 GAAAAAGTAG
Statistics
Matches: 128, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
72 2 0.02
73 33 0.26
74 16 0.12
75 77 0.60
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (74 bp):
TTGAAAAACAAAAATTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTT
Found at i:105653811 original size:127 final size:129
Alignment explanation
Indices: 105653580--105653813 Score: 346
Period size: 127 Copynumber: 1.8 Consensus size: 129
105653570 GTCCTGAGGC
* * * *
105653580 TCAACTCATCTCTCGCAATATGAGTTGATTTTTTGAAAAACAAAAATTTAAAAATATCTCAGCGT
1 TCAACCCACCTCTCGCAATATGAGTTGATTTCTTGAAAAACAAAAATTTAAAAATACCTCAGCGT
*
105653645 GTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGT
66 GTCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGT
* * * * *
105653709 TCAACCCACCTCTCGCAATATGAGTTGA-TTCTTGACAAACAGAAA-TTGAAATTACCTCATCGT
1 TCAACCCACCTCTCGCAATATGAGTTGATTTCTTGAAAAACAAAAATTTAAAAATACCTCAGCGT
* *
105653772 GTCCTGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTT
66 GTCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
105653814 TTGAAAAACA
Statistics
Matches: 93, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
127 53 0.57
128 14 0.15
129 26 0.28
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (129 bp):
TCAACCCACCTCTCGCAATATGAGTTGATTTCTTGAAAAACAAAAATTTAAAAATACCTCAGCGT
GTCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGT
Found at i:105653859 original size:202 final size:202
Alignment explanation
Indices: 105653507--105653888 Score: 728
Period size: 202 Copynumber: 1.9 Consensus size: 202
105653497 GAGCCGAGGC
* *
105653507 TCAACTCACCTCTCGCAATATGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTCATCGTGT
1 TCAACCCACCTCTCGCAATATGAGTTAATTCTTGACAAACAGAAATTGAAATTACCTCATCGTGT
105653572 CCTGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTTTGAAAAACAAAAATTTAAAAATAT
66 CCTGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTTTGAAAAACAAAAATTTAAAAATAT
105653637 CTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT
131 CTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT
105653702 AAAAGGT
196 AAAAGGT
*
105653709 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCATCGTGT
1 TCAACCCACCTCTCGCAATATGAGTTAATTCTTGACAAACAGAAATTGAAATTACCTCATCGTGT
105653774 CCTGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTTTGAAAAACAAAAATTTAAAAATAT
66 CCTGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTTTGAAAAACAAAAATTTAAAAATAT
*
105653839 CTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
131 CTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
105653889 TTTTTACGAA
Statistics
Matches: 176, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
202 176 1.00
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (202 bp):
TCAACCCACCTCTCGCAATATGAGTTAATTCTTGACAAACAGAAATTGAAATTACCTCATCGTGT
CCTGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTTTGAAAAACAAAAATTTAAAAATAT
CTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT
AAAAGGT
Found at i:105653870 original size:75 final size:74
Alignment explanation
Indices: 105653709--105653890 Score: 258
Period size: 75 Copynumber: 2.5 Consensus size: 74
105653699 ATTAAAAGGT
* * * * * * *
105653709 TCAACCCACCTCTCGCAATATGAGTTGA-TTCTTGACAAACAGAAATTGAAATTACCTCATCGTG
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAAAAATTAAAAATACCTCAGCGTG
105653773 TCCTGAGGC
66 TCCTGAGGC
* *
105653782 TCAACTCATCTCTCGCAATATGAGTTGATTTTTTGAAAAACAAAAATTTAAAAATATCTCAGCGT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAAAAA-TTAAAAATACCTCAGCGT
*
105653847 GTCTTGAGGC
65 GTCCTGAGGC
105653857 TCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTT
105653891 TTTACGAACA
Statistics
Matches: 96, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
73 26 0.27
74 14 0.15
75 56 0.58
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.32
Consensus pattern (74 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAAAAATTAAAAATACCTCAGCGTG
TCCTGAGGC
Found at i:105653915 original size:14 final size:14
Alignment explanation
Indices: 105653896--105653923 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
105653886 TTTTTTTTAC
105653896 GAACAGAAATTGAA
1 GAACAGAAATTGAA
105653910 GAACAGAAATTGAA
1 GAACAGAAATTGAA
105653924 AAGACCTCAG
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:0.57, C:0.07, G:0.21, T:0.14
Consensus pattern (14 bp):
GAACAGAAATTGAA
Found at i:105653970 original size:92 final size:92
Alignment explanation
Indices: 105653852--105654717 Score: 1723
Period size: 92 Copynumber: 9.4 Consensus size: 92
105653842 AGCGTGTCTT
*
105653852 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTACGAACAGAAATTGAAGAACAGA
1 GAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTACGAACAGAAATTGAAGAACAGA
105653917 AATTGAAAAGACCTCAGCATGTGAGCC
66 AATTGAAAAGACCTCAGCATGTGAGCC
105653944 GAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTACGAACAGAAATTGAAGAACAGA
1 GAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTACGAACAGAAATTGAAGAACAGA
105654009 AATTGAAAAGACCTCAGCATGTGAGCC
66 AATTGAAAAGACCTCAGCATGTGAGCC
105654036 GAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTACGAACAGAAATTGAAGAACAGA
1 GAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTACGAACAGAAATTGAAGAACAGA
105654101 AATTGAAAAGACCTCAGCATGTGAGCC
66 AATTGAAAAGACCTCAGCATGTGAGCC
105654128 GAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTACGAACAGAAATTGAAGAACAGA
1 GAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTACGAACAGAAATTGAAGAACAGA
105654193 AATTGAAAAGACCTCAGCATGTGAGCC
66 AATTGAAAAGACCTCAGCATGTGAGCC
105654220 GAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTACGAACAGAAATTGAAGAACAGA
1 GAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTACGAACAGAAATTGAAGAACAGA
105654285 AATTGAAAAGACCTCAGCATGTGAGCC
66 AATTGAAAAGACCTCAGCATGTGAGCC
105654312 GAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTACGAACAGAAATTGAAGAACAGA
1 GAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTACGAACAGAAATTGAAGAACAGA
105654377 AATTGAAAAGACCTCAGCATGTGAGCC
66 AATTGAAAAGACCTCAGCATGTGAGCC
105654404 GAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTACGAACAGAAATTGAAGAACAGA
1 GAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTACGAACAGAAATTGAAGAACAGA
105654469 AATTGAAAAGACCTCAGCATGTGAGCC
66 AATTGAAAAGACCTCAGCATGTGAGCC
105654496 GAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTACGAACAGAAATTGAAGAACAGA
1 GAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTACGAACAGAAATTGAAGAACAGA
105654561 AATTGAAAAGACCTCAGCATGTGAGCC
66 AATTGAAAAGACCTCAGCATGTGAGCC
105654588 GAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTACGAACAGAAATTGAAGAACAGA
1 GAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTACGAACAGAAATTGAAGAACAGA
105654653 AATTGAAAAGACCTCAGCATGTGAGCC
66 AATTGAAAAGACCTCAGCATGTGAGCC
105654680 GAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTT
1 GAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTT
105654718 GACAAATAGA
Statistics
Matches: 773, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
92 773 1.00
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (92 bp):
GAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTACGAACAGAAATTGAAGAACAGA
AATTGAAAAGACCTCAGCATGTGAGCC
Found at i:105654007 original size:14 final size:14
Alignment explanation
Indices: 105653988--105654015 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
105653978 TTTTTTTTAC
105653988 GAACAGAAATTGAA
1 GAACAGAAATTGAA
105654002 GAACAGAAATTGAA
1 GAACAGAAATTGAA
105654016 AAGACCTCAG
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:0.57, C:0.07, G:0.21, T:0.14
Consensus pattern (14 bp):
GAACAGAAATTGAA
Found at i:105654099 original size:14 final size:14
Alignment explanation
Indices: 105654080--105654107 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
105654070 TTTTTTTTAC
105654080 GAACAGAAATTGAA
1 GAACAGAAATTGAA
105654094 GAACAGAAATTGAA
1 GAACAGAAATTGAA
105654108 AAGACCTCAG
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:0.57, C:0.07, G:0.21, T:0.14
Consensus pattern (14 bp):
GAACAGAAATTGAA
Found at i:105654191 original size:14 final size:14
Alignment explanation
Indices: 105654172--105654199 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
105654162 TTTTTTTTAC
105654172 GAACAGAAATTGAA
1 GAACAGAAATTGAA
105654186 GAACAGAAATTGAA
1 GAACAGAAATTGAA
105654200 AAGACCTCAG
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:0.57, C:0.07, G:0.21, T:0.14
Consensus pattern (14 bp):
GAACAGAAATTGAA
Found at i:105654283 original size:14 final size:14
Alignment explanation
Indices: 105654264--105654291 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
105654254 TTTTTTTTAC
105654264 GAACAGAAATTGAA
1 GAACAGAAATTGAA
105654278 GAACAGAAATTGAA
1 GAACAGAAATTGAA
105654292 AAGACCTCAG
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:0.57, C:0.07, G:0.21, T:0.14
Consensus pattern (14 bp):
GAACAGAAATTGAA
Found at i:105654375 original size:14 final size:14
Alignment explanation
Indices: 105654356--105654383 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
105654346 TTTTTTTTAC
105654356 GAACAGAAATTGAA
1 GAACAGAAATTGAA
105654370 GAACAGAAATTGAA
1 GAACAGAAATTGAA
105654384 AAGACCTCAG
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:0.57, C:0.07, G:0.21, T:0.14
Consensus pattern (14 bp):
GAACAGAAATTGAA
Found at i:105654467 original size:14 final size:14
Alignment explanation
Indices: 105654448--105654475 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
105654438 TTTTTTTTAC
105654448 GAACAGAAATTGAA
1 GAACAGAAATTGAA
105654462 GAACAGAAATTGAA
1 GAACAGAAATTGAA
105654476 AAGACCTCAG
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:0.57, C:0.07, G:0.21, T:0.14
Consensus pattern (14 bp):
GAACAGAAATTGAA
Found at i:105654559 original size:14 final size:14
Alignment explanation
Indices: 105654540--105654567 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
105654530 TTTTTTTTAC
105654540 GAACAGAAATTGAA
1 GAACAGAAATTGAA
105654554 GAACAGAAATTGAA
1 GAACAGAAATTGAA
105654568 AAGACCTCAG
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:0.57, C:0.07, G:0.21, T:0.14
Consensus pattern (14 bp):
GAACAGAAATTGAA
Found at i:105654651 original size:14 final size:14
Alignment explanation
Indices: 105654632--105654659 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
105654622 TTTTTTTTAC
105654632 GAACAGAAATTGAA
1 GAACAGAAATTGAA
105654646 GAACAGAAATTGAA
1 GAACAGAAATTGAA
105654660 AAGACCTCAG
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:0.57, C:0.07, G:0.21, T:0.14
Consensus pattern (14 bp):
GAACAGAAATTGAA
Found at i:105654771 original size:73 final size:73
Alignment explanation
Indices: 105654680--105654934 Score: 359
Period size: 73 Copynumber: 3.5 Consensus size: 73
105654670 CATGTGAGCC
* * *
105654680 GAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAATAGAAATTGAGATTACCTCAG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAG
105654745 CGTGTCTT
66 CGTGTCTT
* * *
105654753 GAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGACAAACAGAAACTGAAATTACGTCAG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAG
*
105654818 CGTGTCCT
66 CGTGTCTT
* * * * * * *
105654826 GAGGCTCAACTCACCTCTAGCAATATGAGTTGA-TTTTGAAAAACAAAAATTAAAAGTATCTCAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAG
105654890 CGTGTCTT
66 CGTGTCTT
* *
105654898 GAGGCTCAACTCATCTCCCGCAATATGAGTTGATTTT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
105654935 CCTTGAAAAG
Statistics
Matches: 160, Mismatches: 21, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
72 60 0.38
73 100 0.62
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (73 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAG
CGTGTCTT
Found at i:105664862 original size:16 final size:15
Alignment explanation
Indices: 105664841--105664888 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
105664831 GATGTGAATA
105664841 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
105664857 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
*
105664872 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
105664888 A
1 A
105664889 ATAATAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:105664864 original size:24 final size:24
Alignment explanation
Indices: 105664837--105664892 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
105664827 TAATGATGTG
*
105664837 AATAATAAAATATATAAAATA-TAA
1 AATAATAAAATAT-CAAAATATTAA
* *
105664861 AATATTAAAATATCAAAATATTAG
1 AATAATAAAATATCAAAATATTAA
105664885 AATAATAA
1 AATAATAA
105664893 TAATTAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (24 bp):
AATAATAAAATATCAAAATATTAA
Found at i:105664871 original size:8 final size:8
Alignment explanation
Indices: 105664837--105664888 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
105664827 TAATGATGTG
*
105664837 AATAATAA
1 AATATTAA
105664845 AATATATAA
1 AATAT-TAA
105664854 AATA-TAA
1 AATATTAA
105664861 AATATTAA
1 AATATTAA
*
105664869 AATATCAA
1 AATATTAA
*
105664877 AATATTAG
1 AATATTAA
105664885 AATA
1 AATA
105664889 ATAATAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 24 0.63
9 7 0.18
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (8 bp):
AATATTAA
Found at i:105665105 original size:22 final size:24
Alignment explanation
Indices: 105665042--105665106 Score: 80
Period size: 25 Copynumber: 2.8 Consensus size: 24
105665032 CGTGATAATA
*
105665042 TTAAAAATATGTACATAATATAGTG
1 TTAAAAATATATACATAATATAG-G
*
105665067 TTAAAAATACATACATAATATA-G
1 TTAAAAATATATACATAATATAGG
*
105665090 TT-AAGATATATACATAA
1 TTAAAAATATATACATAA
105665107 GATAACATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
22 13 0.36
23 3 0.08
25 20 0.56
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.34
Consensus pattern (24 bp):
TTAAAAATATATACATAATATAGG
Found at i:105665157 original size:25 final size:25
Alignment explanation
Indices: 105665129--105665262 Score: 86
Period size: 23 Copynumber: 5.6 Consensus size: 25
105665119 AAAAATATAT
*
105665129 ATATATAAATAATATAATATTAAAG
1 ATATATACATAATATAATATTAAAG
* * * *
105665154 ATATATACATAAAATAGTGTATAATAT
1 ATATATACATAATATAATAT-TAA-AG
* *
105665181 ATATATACGTAATATAGA-ATTTAA-
1 ATATATACATAATATA-ATATTAAAG
* *
105665205 A-ATATACCTAATAT-AT-TAAAAG
1 ATATATACATAATATAATATTAAAG
*
105665227 A-ATATATATAATATAATATT-AAG
1 ATATATACATAATATAATATTAAAG
*
105665250 AAATATA-ATAATA
1 ATATATACATAATA
105665263 ACAAAAAAGG
Statistics
Matches: 85, Mismatches: 16, Indels: 18
0.71 0.13 0.15
Matches are distributed among these distances:
21 4 0.05
22 12 0.14
23 24 0.28
24 7 0.08
25 17 0.20
26 5 0.06
27 16 0.19
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.36
Consensus pattern (25 bp):
ATATATACATAATATAATATTAAAG
Found at i:105665260 original size:23 final size:25
Alignment explanation
Indices: 105665217--105665262 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
105665207 TATACCTAAT
105665217 ATATTAAAAGAATATATATAATATA
1 ATATTAAAAGAATATATATAATATA
*
105665242 ATATTAAGA-AATATA-ATAATA
1 ATATTAAAAGAATATATATAATA
105665263 ACAAAAAAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (25 bp):
ATATTAAAAGAATATATATAATATA
Found at i:105665826 original size:30 final size:30
Alignment explanation
Indices: 105665748--105665892 Score: 177
Period size: 30 Copynumber: 4.8 Consensus size: 30
105665738 TAGGTACAAG
* *
105665748 TGGTGGTGGAGCAA-GTGTGGTTAGTGGAGT
1 TGGTGGTGGA-AAAGGTGTGGCTAGTGGAGT
* ** * *
105665778 AGGTAATGGAGCAA-GTGTGGCTAGTGGATT
1 TGGTGGTGGA-AAAGGTGTGGCTAGTGGAGT
105665808 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
* *
105665838 TGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
105665868 TGGTGGTGGAAAAGGTGTGGCTAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGT
105665893 TGAGAAAAGT
Statistics
Matches: 100, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
29 2 0.02
30 98 0.98
ACGTcount: A:0.22, C:0.04, G:0.47, T:0.27
Consensus pattern (30 bp):
TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
Found at i:105669741 original size:32 final size:32
Alignment explanation
Indices: 105669701--105669853 Score: 225
Period size: 32 Copynumber: 4.8 Consensus size: 32
105669691 AAAAAATATG
* *
105669701 ATACATTAGGTTTACGTATAAAAAAGTAGATC
1 ATACATTAGTTTTACATATAAAAAAGTAGATC
* *
105669733 ATACATTAGTTTTGCATATAAAAAAGTAGATA
1 ATACATTAGTTTTACATATAAAAAAGTAGATC
* *
105669765 ATACATTAGGTTCACATATAAAAAAGTAGATC
1 ATACATTAGTTTTACATATAAAAAAGTAGATC
* * *
105669797 ATACATTAGTTTTGCAAATGAAAAAGTAGATC
1 ATACATTAGTTTTACATATAAAAAAGTAGATC
105669829 ATACATTAGTTTTACATATAAAAAA
1 ATACATTAGTTTTACATATAAAAAA
105669854 CTAGTATAGT
Statistics
Matches: 105, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 105 1.00
ACGTcount: A:0.46, C:0.09, G:0.12, T:0.32
Consensus pattern (32 bp):
ATACATTAGTTTTACATATAAAAAAGTAGATC
Found at i:105669786 original size:64 final size:64
Alignment explanation
Indices: 105669701--105669853 Score: 252
Period size: 64 Copynumber: 2.4 Consensus size: 64
105669691 AAAAAATATG
* *
105669701 ATACATTAGGTTTACGTATAAAAAAGTAGATCATACATTAGTTTTGCATATAAAAAAGTAGATA
1 ATACATTAGGTTTACATATAAAAAAGTAGATCATACATTAGTTTTGCAAATAAAAAAGTAGATA
* * *
105669765 ATACATTAGGTTCACATATAAAAAAGTAGATCATACATTAGTTTTGCAAATGAAAAAGTAGATC
1 ATACATTAGGTTTACATATAAAAAAGTAGATCATACATTAGTTTTGCAAATAAAAAAGTAGATA
*
105669829 ATACATTAGTTTTACATATAAAAAA
1 ATACATTAGGTTTACATATAAAAAA
105669854 CTAGTATAGT
Statistics
Matches: 82, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 82 1.00
ACGTcount: A:0.46, C:0.09, G:0.12, T:0.32
Consensus pattern (64 bp):
ATACATTAGGTTTACATATAAAAAAGTAGATCATACATTAGTTTTGCAAATAAAAAAGTAGATA
Found at i:105671053 original size:18 final size:18
Alignment explanation
Indices: 105671030--105671065 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
105671020 ATAACACAAG
*
105671030 TGTAAGCATGAATCAGTA
1 TGTAAGCATAAATCAGTA
105671048 TGTAAGCATAAATCAGTA
1 TGTAAGCATAAATCAGTA
105671066 ATACAATAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.42, C:0.11, G:0.19, T:0.28
Consensus pattern (18 bp):
TGTAAGCATAAATCAGTA
Found at i:105672141 original size:18 final size:19
Alignment explanation
Indices: 105672106--105672141 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
105672096 ATGATATTAA
105672106 TGATATACCTACAAGGTAG
1 TGATATACCTACAAGGTAG
105672125 TGATATACCTA-AAGGTA
1 TGATATACCTACAAGGTA
105672142 TGAAAACAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (19 bp):
TGATATACCTACAAGGTAG
Found at i:105672442 original size:11 final size:11
Alignment explanation
Indices: 105672426--105672451 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
105672416 AAGAGTTTTC
105672426 CAAACTCAGAT
1 CAAACTCAGAT
105672437 CAAACTCAGAT
1 CAAACTCAGAT
105672448 CAAA
1 CAAA
105672452 AGACATTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.27, G:0.08, T:0.15
Consensus pattern (11 bp):
CAAACTCAGAT
Found at i:105672490 original size:72 final size:72
Alignment explanation
Indices: 105672367--105672556 Score: 326
Period size: 72 Copynumber: 2.6 Consensus size: 72
105672357 TCTATCACAG
* * *
105672367 AACTCAGATCAAAAGAAATTATTAAGCTGAAACCTATAAAAAAACACTAAAGAGTTTTCCAAACT
1 AACTCAGATCAAAAGACATTATTGAGCTGAAACCTATAAAAAAGCACTAAAGAGTTTTCCAAACT
105672432 CAGATCA
66 CAGATCA
* * *
105672439 AACTCAGATCAAAAGACATTATTGAGCTGAAACTTATAAAAAAGCAGTAAAGAGTTTTCCGAACT
1 AACTCAGATCAAAAGACATTATTGAGCTGAAACCTATAAAAAAGCACTAAAGAGTTTTCCAAACT
105672504 CAGATCA
66 CAGATCA
105672511 AACTCAGATCAAAAGACATTATTGAGCTGAAACCTATAAAAAAGCA
1 AACTCAGATCAAAAGACATTATTGAGCTGAAACCTATAAAAAAGCA
105672557 TTAATATATA
Statistics
Matches: 111, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
72 111 1.00
ACGTcount: A:0.48, C:0.17, G:0.13, T:0.22
Consensus pattern (72 bp):
AACTCAGATCAAAAGACATTATTGAGCTGAAACCTATAAAAAAGCACTAAAGAGTTTTCCAAACT
CAGATCA
Found at i:105675687 original size:36 final size:35
Alignment explanation
Indices: 105675646--105675717 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 35
105675636 ATGGAGAGAG
105675646 TGGGTAACTCACTTAAAAAGTTTATGTAATAACAT
1 TGGGTAACTCACTTAAAAAGTTTATGTAATAACAT
* *
105675681 TNGGGTAGCTCACTTAAAAAGTTTATGTAATAGCAT
1 T-GGGTAACTCACTTAAAAAGTTTATGTAATAACAT
105675717 T
1 T
105675718 AAAATTTACA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
35 1 0.03
36 33 0.97
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.35
Consensus pattern (35 bp):
TGGGTAACTCACTTAAAAAGTTTATGTAATAACAT
Found at i:105686270 original size:4 final size:4
Alignment explanation
Indices: 105686261--105686295 Score: 56
Period size: 4 Copynumber: 9.2 Consensus size: 4
105686251 TTCTCAAAAT
105686261 ATTA ATTA ATTA ATTA ATTA ATTA A--A ATTA ATTA A
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA A
105686296 AATAATAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
4 27 0.93
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (4 bp):
ATTA
Found at i:105686291 original size:10 final size:10
Alignment explanation
Indices: 105686264--105686298 Score: 52
Period size: 10 Copynumber: 3.3 Consensus size: 10
105686254 TCAAAATATT
105686264 AATTAATTAA
1 AATTAATTAA
105686274 TTAATTAATTAA
1 --AATTAATTAA
105686286 AATTAATTAA
1 AATTAATTAA
105686296 AAT
1 AAT
105686299 AATAAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 13 0.57
12 10 0.43
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (10 bp):
AATTAATTAA
Found at i:105686304 original size:18 final size:18
Alignment explanation
Indices: 105686268--105686305 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
105686258 AATATTAATT
*
105686268 AATTAATTAATTAATTAA
1 AATTAATTAAATAATTAA
105686286 AATTAATTAAAATAA-TAA
1 AATTAATT-AAATAATTAA
105686304 AA
1 AA
105686306 AAATTTCTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
AATTAATTAAATAATTAA
Found at i:105705607 original size:3 final size:3
Alignment explanation
Indices: 105705599--105705627 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
105705589 ATCACATGTT
105705599 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
105705628 TGGATGTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:105707447 original size:9 final size:9
Alignment explanation
Indices: 105707402--105707447 Score: 58
Period size: 9 Copynumber: 5.0 Consensus size: 9
105707392 AAAATTTTTA
*
105707402 AAAAAATCT
1 AAAAAATTT
105707411 AAAAAATATAT
1 AAAAAAT-T-T
105707422 AAAAAATTT
1 AAAAAATTT
105707431 -AAAAATTT
1 AAAAAATTT
105707439 AAAAAATTT
1 AAAAAATTT
105707448 CTAAAATTGG
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
8 8 0.24
9 16 0.48
10 1 0.03
11 8 0.24
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (9 bp):
AAAAAATTT
Found at i:105710856 original size:23 final size:23
Alignment explanation
Indices: 105710822--105710867 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
105710812 CTTTATTATT
105710822 TTTTTAA-GTTTTATGAATTTTTA
1 TTTTTAATGTTTTAT-AATTTTTA
*
105710845 TTTTTAATTTTTTATAATTTTTA
1 TTTTTAATGTTTTATAATTTTTA
105710868 AATTATTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 15 0.71
24 6 0.29
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (23 bp):
TTTTTAATGTTTTATAATTTTTA
Found at i:105710871 original size:18 final size:17
Alignment explanation
Indices: 105710844--105710877 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
105710834 ATGAATTTTT
*
105710844 ATTTTTAATTTTTTATA
1 ATTTTTAATTATTTATA
105710861 ATTTTTAAATTATTTAT
1 ATTTTT-AATTATTTAT
105710878 TAACATGACA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
ATTTTTAATTATTTATA
Found at i:105713146 original size:27 final size:27
Alignment explanation
Indices: 105713090--105713160 Score: 108
Period size: 27 Copynumber: 2.6 Consensus size: 27
105713080 ATAAAAAATA
**
105713090 ACCAAAATATTATAACTTTTTTTTATTT
1 ACCAAAATATTATAA-AATTTTTTATTT
105713118 ACCAAAATATTATAAAATTTTTTATTT
1 ACCAAAATATTATAAAATTTTTTATTT
105713145 ACCAAAATA-TATAAAA
1 ACCAAAATATTATAAAA
105713161 AAAAAACAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
26 7 0.17
27 19 0.46
28 15 0.37
ACGTcount: A:0.46, C:0.10, G:0.00, T:0.44
Consensus pattern (27 bp):
ACCAAAATATTATAAAATTTTTTATTT
Found at i:105713621 original size:29 final size:28
Alignment explanation
Indices: 105713556--105713621 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 28
105713546 TAAGGGAATA
*
105713556 TATTAAA-TTTATAAAATTAAAATAGTT
1 TATTAAATTTTATAAAATTAAAATAGGT
* *
105713583 TAATTTAATTTTTTAAAATTAAAATAGAGT
1 T-ATTAAATTTTATAAAATTAAAATAG-GT
105713613 TATTAAATT
1 TATTAAATT
105713622 AAACTATTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
27 1 0.03
28 5 0.16
29 24 0.75
30 2 0.06
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.47
Consensus pattern (28 bp):
TATTAAATTTTATAAAATTAAAATAGGT
Found at i:105723763 original size:53 final size:53
Alignment explanation
Indices: 105723687--105723840 Score: 290
Period size: 53 Copynumber: 2.9 Consensus size: 53
105723677 AAAAATACGC
105723687 ATTCATGCATCAACATTACATTTCATTGCATATAATAAATTTCCTAAACTTCA
1 ATTCATGCATCAACATTACATTTCATTGCATATAATAAATTTCCTAAACTTCA
105723740 ATTCATGCATCAACATTACATTTCATTGCATATAATAAATTTCCTAAACTTCA
1 ATTCATGCATCAACATTACATTTCATTGCATATAATAAATTTCCTAAACTTCA
**
105723793 ATTCATGCATCAACATTACATTTCATTTTATATAATAAATTTCCTAAA
1 ATTCATGCATCAACATTACATTTCATTGCATATAATAAATTTCCTAAA
105723841 ATCCAAAAGT
Statistics
Matches: 99, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 99 1.00
ACGTcount: A:0.38, C:0.19, G:0.03, T:0.39
Consensus pattern (53 bp):
ATTCATGCATCAACATTACATTTCATTGCATATAATAAATTTCCTAAACTTCA
Found at i:105725160 original size:22 final size:21
Alignment explanation
Indices: 105725132--105725202 Score: 65
Period size: 20 Copynumber: 3.3 Consensus size: 21
105725122 TCAGTGGAGG
*
105725132 AAAAAAAAGAGCAAAAAT-AA
1 AAAAAAAAAAGCAAAAATAAA
105725152 AAAAAAAAAA-CTAGAAAATAAA
1 AAAAAAAAAAGC-A-AAAATAAA
*
105725174 AAGCAAAAAAAACCAAAAATAAA
1 AA--AAAAAAAAGCAAAAATAAA
*
105725197 AGAAAA
1 AAAAAA
105725203 GACCTCTACT
Statistics
Matches: 43, Mismatches: 2, Indels: 11
0.77 0.04 0.20
Matches are distributed among these distances:
19 1 0.02
20 10 0.23
21 9 0.21
22 4 0.09
23 9 0.21
24 9 0.21
25 1 0.02
ACGTcount: A:0.80, C:0.07, G:0.07, T:0.06
Consensus pattern (21 bp):
AAAAAAAAAAGCAAAAATAAA
Done.