Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold332
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: 2744988
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 17
Found at i:265400 original size:20 final size:20
Alignment explanation
Indices: 265358--265414 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
265348 ATTGGGCACA
* *
265358 ATGTATCGATACAATTCTTT
1 ATGTATCGATACATTTCTCT
265378 ATGTATCGATACATTGTC-CT
1 ATGTATCGATACATT-TCTCT
*
265398 ATGTATTGATACATTTC
1 ATGTATCGATACATTTC
265415 ACTTAGAGTA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
19 2 0.06
20 29 0.88
21 2 0.06
ACGTcount: A:0.28, C:0.16, G:0.12, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTCTCT
Found at i:265484 original size:19 final size:19
Alignment explanation
Indices: 265439--265494 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
265429 CTACTAGTTT
*
265439 CATGTATCGATACAATTGGG
1 CATGTATCGATACAA-TGAG
*
265459 TATGTATCGATACAATGAG
1 CATGTATCGATACAATGAG
265478 CATGTATCGATACAATG
1 CATGTATCGATACAATG
265495 TATCGATACA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 19 0.58
20 14 0.42
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAG
Found at i:265497 original size:13 final size:13
Alignment explanation
Indices: 265479--265505 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
265469 TACAATGAGC
265479 ATGTATCGATACA
1 ATGTATCGATACA
265492 ATGTATCGATACA
1 ATGTATCGATACA
265505 A
1 A
265506 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:266315 original size:20 final size:21
Alignment explanation
Indices: 266271--266317 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
266261 TTCTACAATT
*
266271 TGTATGGATACAAATAGTAAA
1 TGTATCGATACAAATAGTAAA
* *
266292 TGTATCGATACATA-AGTGAA
1 TGTATCGATACAAATAGTAAA
266312 TGTATC
1 TGTATC
266318 AATAAATGCC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 11 0.48
21 12 0.52
ACGTcount: A:0.40, C:0.09, G:0.19, T:0.32
Consensus pattern (21 bp):
TGTATCGATACAAATAGTAAA
Found at i:271138 original size:19 final size:20
Alignment explanation
Indices: 271114--271166 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
271104 CACACCCAGA
**
271114 TGTATCGATACATGTTC-AT
1 TGTATCGATACATGGACAAT
271133 TGTATCGATACATGGACAAT
1 TGTATCGATACATGGACAAT
271153 TGTATCGATACATG
1 TGTATCGATACATG
271167 AAACTGGCAG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.36
Consensus pattern (20 bp):
TGTATCGATACATGGACAAT
Found at i:279816 original size:19 final size:19
Alignment explanation
Indices: 279773--279845 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 19
279763 CACACCCAGA
*
279773 TGTATCGATACAT-TATGCTT
1 TGTATCGATACATGT-T-CAT
279793 TGTATCGATACATGTTCAT
1 TGTATCGATACATGTTCAT
**
279812 TGTATCGATACATGGACAAT
1 TGTATCGATACATGTTC-AT
*
279832 TGTATCAATACATG
1 TGTATCGATACATG
279846 AAACTGGAAG
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
19 17 0.36
20 29 0.62
21 1 0.02
ACGTcount: A:0.30, C:0.15, G:0.16, T:0.38
Consensus pattern (19 bp):
TGTATCGATACATGTTCAT
Found at i:279902 original size:20 final size:20
Alignment explanation
Indices: 279877--279930 Score: 83
Period size: 20 Copynumber: 2.7 Consensus size: 20
279867 CCACTGTTTG
*
279877 TTGTATCGATACATGGT-ACA
1 TTGTATCGATACATGATGA-A
279897 TTGTATCGATACATGATGAA
1 TTGTATCGATACATGATGAA
279917 TTGTATCGATACAT
1 TTGTATCGATACAT
279931 TGCTTATAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 31 0.97
21 1 0.03
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.37
Consensus pattern (20 bp):
TTGTATCGATACATGATGAA
Found at i:282126 original size:19 final size:20
Alignment explanation
Indices: 282083--282135 Score: 90
Period size: 19 Copynumber: 2.7 Consensus size: 20
282073 ATTTCAACAA
282083 TTTGTATCGATACATAAAGT
1 TTTGTATCGATACATAAAGT
*
282103 GTTGTATCGATACAT-AAGT
1 TTTGTATCGATACATAAAGT
282122 TTTGTATCGATACA
1 TTTGTATCGATACA
282136 ATTTAAGCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.40
Consensus pattern (20 bp):
TTTGTATCGATACATAAAGT
Found at i:282267 original size:52 final size:52
Alignment explanation
Indices: 282211--282339 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
282201 CACTGATCTT
*
282211 TGTATCGATACATGCAAGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
282263 TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
282315 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
282340 TCATATTTCG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:295489 original size:16 final size:16
Alignment explanation
Indices: 295453--295490 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
295443 GAAAAAAAAT
* *
295453 AAAAACAAATTTACAC
1 AAAAATAAATGTACAC
295469 -AAAATAAATGTACAC
1 AAAAATAAATGTACAC
295484 AAAAATA
1 AAAAATA
295491 CATAAAAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.66, C:0.13, G:0.03, T:0.18
Consensus pattern (16 bp):
AAAAATAAATGTACAC
Found at i:296207 original size:79 final size:79
Alignment explanation
Indices: 295858--296377 Score: 495
Period size: 79 Copynumber: 6.6 Consensus size: 79
295848 GAAAATTGGA
* * * * * *
295858 GGGTTAGAGTATCCCCAATGGTGAAAATTTTGATATTTTTGGAAATAAAAATGAGGTTAGACTA-
1 GGGTTAGAGTATCCTCGA-GATGAAAATTTTAATA-TTTTGGAAATAAAAACGAGGTTAGAGTAT
* * *
295922 CCCCTTGAAAATAATA
64 CCCCTCGGAAATAATG
* * * *
295938 GGGTTGGAGTATCCTC-A-ATGGTAAA-TTCAATATTTTTGGAAATAAAAAC-AGGGTTGGAGTA
1 GGGTTAGAGTATCCTCGAGAT-GAAAATTTTAATA-TTTTGGAAATAAAAACGA-GGTTAGAGTA
* * *
295999 TCCTCTCGAAAATAACG
63 TCCCCTCGGAAATAATG
*
296016 GGGTTAGAGTATCC-CTGAGA--AAAA-TTTAATATTTTGGAAATAAAAACGGGGTTCA-AGTAT
1 GGGTTAGAGTATCCTC-GAGATGAAAATTTTAATATTTTGGAAATAAAAACGAGGTT-AGAGTAT
* * *
296076 CCCCTCAGAATTTATG
64 CCCCTCGGAAATAATG
* *
296092 GGG-TAGAGTATCCTCGAGATGAAAATTTTAACATTTTAGAAATAAAAACGAGGTTAGAGTATCC
1 GGGTTAGAGTATCCTCGAGATGAAAATTTTAATATTTTGGAAATAAAAACGAGGTTAGAGTATCC
*
296156 CCTTGGAAATAATG
66 CCTCGGAAATAATG
* * * * *
296170 GGGTTGGAGTATCCTCGAGATGAAAATTTTAATATTTTTGGAAACAAAAATGGGGTTGGAGTATC
1 GGGTTAGAGTATCCTCGAGATGAAAATTTTAATA-TTTTGGAAATAAAAACGAGGTTAGAGTATC
** * *
296235 CTTTCGGAATTGATG
65 CCCTCGGAAATAATG
* * * **
296250 GGGTTAGAGTATCCTCGAGATGAAAAATTTAACATTTTGGAGATAAAAACGAGGTTAGAACATCC
1 GGGTTAGAGTATCCTCGAGATGAAAATTTTAATATTTTGGAAATAAAAACGAGGTTAGAGTATCC
* *
296315 CCTCAGAAATAACG
66 CCTCGGAAATAATG
* * * * *
296329 GGATTGGAGTATCCCCGAGATAAAAATTTTAGTATTTTGGAAATAAAAA
1 GGGTTAGAGTATCCTCGAGATGAAAATTTTAATATTTTGGAAATAAAAA
296378 TAGGGTTGGG
Statistics
Matches: 358, Mismatches: 67, Indels: 31
0.79 0.15 0.07
Matches are distributed among these distances:
75 14 0.04
76 40 0.11
77 45 0.13
78 75 0.21
79 103 0.29
80 81 0.23
ACGTcount: A:0.36, C:0.12, G:0.22, T:0.30
Consensus pattern (79 bp):
GGGTTAGAGTATCCTCGAGATGAAAATTTTAATATTTTGGAAATAAAAACGAGGTTAGAGTATCC
CCTCGGAAATAATG
Found at i:296297 original size:159 final size:157
Alignment explanation
Indices: 295879--296436 Score: 587
Period size: 159 Copynumber: 3.6 Consensus size: 157
295869 TCCCCAATGG
* * * * * * * * *
295879 TGAAAATTTTGATATTTTTGGAAATAAAAATGAGGTTAGACTACCCCTTGA-AAATAATAGGGTT
1 TGAAAATTTTAATA-TTTTGGAAATAAAAATGGGGTTGGAGTATCCCTTCAGAATTGATGGGGTT
* ** * * * *
295943 GGAGTATCCTC-A-ATGGTAAATTCAATATTTTTGGAAATAAAAAC-AGGGTTGGAGTATCCTCT
65 AGAGTATCCTCGAGATGAAAAATTTAACA-TTTTGGAAATAAAAACGA-GGTTAGAGTATCCCCT
* *
296005 CGAAAATAACGGGGTTAGAGTATCCCTGAGA
128 CGGAAATAACGGGGTTGGAGTATCCC-GAGA
* ** * *
296036 --AAAA-TTTAATATTTTGGAAATAAAAACGGGGTTCAAGTATCCCCTCAGAATTTATGGGG-TA
1 TGAAAATTTTAATATTTTGGAAATAAAAATGGGGTTGGAGTATCCCTTCAGAATTGATGGGGTTA
* * *
296097 GAGTATCCTCGAGATGAAAATTTTAACATTTTAGAAATAAAAACGAGGTTAGAGTATCCCCTTGG
66 GAGTATCCTCGAGATGAAAAATTTAACATTTTGGAAATAAAAACGAGGTTAGAGTATCCCCTCGG
*
296162 AAATAATGGGGTTGGAGTATCCTCGAGA
131 AAATAACGGGGTTGGAGTATCC-CGAGA
* * *
296190 TGAAAATTTTAATATTTTTGGAAACAAAAATGGGGTTGGAGTATCCTTTCGGAATTGATGGGGTT
1 TGAAAATTTTAATA-TTTTGGAAATAAAAATGGGGTTGGAGTATCCCTTCAGAATTGATGGGGTT
* ** *
296255 AGAGTATCCTCGAGATGAAAAATTTAACATTTTGGAGATAAAAACGAGGTTAGAACATCCCCTCA
65 AGAGTATCCTCGAGATGAAAAATTTAACATTTTGGAAATAAAAACGAGGTTAGAGTATCCCCTCG
*
296320 GAAATAACGGGATTGGAGTATCCCCGAGA
130 GAAATAACGGGGTTGGAGTAT-CCCGAGA
* * * * * *
296349 TAAAAATTTTAGTATTTTGGAAATAAAAATAGGGTTGGGGTAT-CCATCAGAAGTGATGGGGTT-
1 TGAAAATTTTAATATTTTGGAAATAAAAATGGGGTTGGAGTATCCCTTCAGAATTGATGGGGTTA
* *
296412 GAAGTATCCCCAAGATGAAAAATTT
66 G-AGTATCCTCGAGATGAAAAATTT
296437 GATGCTTTTG
Statistics
Matches: 336, Mismatches: 53, Indels: 24
0.81 0.13 0.06
Matches are distributed among these distances:
153 39 0.12
154 69 0.21
155 16 0.05
156 5 0.01
157 44 0.13
158 66 0.20
159 95 0.28
160 2 0.01
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.30
Consensus pattern (157 bp):
TGAAAATTTTAATATTTTGGAAATAAAAATGGGGTTGGAGTATCCCTTCAGAATTGATGGGGTTA
GAGTATCCTCGAGATGAAAAATTTAACATTTTGGAAATAAAAACGAGGTTAGAGTATCCCCTCGG
AAATAACGGGGTTGGAGTATCCCGAGA
Found at i:296435 original size:79 final size:79
Alignment explanation
Indices: 295881--296436 Score: 392
Period size: 78 Copynumber: 7.1 Consensus size: 79
295871 CCCAATGGTG
* * * * * *
295881 AAAATTTTGATATTTTTGGAAATAAAAATGAGGTTAGACTA-CCCCT-TGAAAATAATAGGGTTG
1 AAAATTTTAATA-TTTTGGAAATAAAAAAG-GGTTGGAGTATCCCCTCAG-AAATAATGGGGTTG
* * *
295944 GAGTATCCTC-A-ATGG
63 AAGTATCCCCGAGATGA
* * * *
295959 TAAA-TTCAATATTTTTGGAAATAAAAACAGGGTTGGAGTATCCTCTC-GAAAATAACGGGGTT-
1 AAAATTTTAATA-TTTTGGAAATAAAAA-AGGGTTGGAGTATCCCCTCAG-AAATAATGGGGTTG
*
296021 AGAGTAT-CCC-TGA-GA
63 A-AGTATCCCCGAGATGA
* ** * * *
296036 AAAA-TTTAATATTTTGGAAATAAAAACGGGGTTCAAGTATCCCCTCAGAATTTATGGGGTAG-A
1 AAAATTTTAATATTTTGGAAATAAAAA-AGGGTTGGAGTATCCCCTCAGAAATAATGGGGTTGAA
*
296099 GTATCCTCGAGATG-
65 GTATCCCCGAGATGA
* * * * ** *
296113 AAAATTTTAACATTTTAGAAATAAAAACGAGGTTAGAGTATCCCCTTGGAAATAATGGGGTTGGA
1 AAAATTTTAATATTTTGGAAATAAAAAAG-GGTTGGAGTATCCCCTCAGAAATAATGGGGTTGAA
*
296178 GTATCCTCGAGATG-
65 GTATCCCCGAGATGA
* * ** * * *
296192 AAAATTTTAATATTTTTGGAAACAAAAATGGGGTTGGAGTATCCTTTCGGAATTGATGGGGTT-A
1 AAAATTTTAATA-TTTTGGAAATAAAAA-AGGGTTGGAGTATCCCCTCAGAAATAATGGGGTTGA
*
296256 GAGTATCCTCGAGATGA
64 -AGTATCCCCGAGATGA
* * * * ** * * *
296273 AAAA-TTTAACATTTTGGAGATAAAAACGAGGTTAGAACATCCCCTCAGAAATAACGGGATTGGA
1 AAAATTTTAATATTTTGGAAATAAAAAAG-GGTTGGAGTATCCCCTCAGAAATAATGGGGTTGAA
296337 GTATCCCCGAGAT-A
65 GTATCCCCGAGATGA
* * * * *
296351 AAAATTTTAGTATTTTGGAAATAAAAATAGGGTTGGGGTAT-CCATCAGAAGTGATGGGGTTGAA
1 AAAATTTTAATATTTTGGAAATAAAAA-AGGGTTGGAGTATCCCCTCAGAAATAATGGGGTTGAA
*
296415 GTATCCCCAAGATGA
65 GTATCCCCGAGATGA
296430 AAAATTT
1 AAAATTT
296437 GATGCTTTTG
Statistics
Matches: 379, Mismatches: 77, Indels: 43
0.76 0.15 0.09
Matches are distributed among these distances:
75 5 0.01
76 42 0.11
77 49 0.13
78 109 0.29
79 108 0.28
80 61 0.16
81 5 0.01
ACGTcount: A:0.36, C:0.12, G:0.23, T:0.29
Consensus pattern (79 bp):
AAAATTTTAATATTTTGGAAATAAAAAAGGGTTGGAGTATCCCCTCAGAAATAATGGGGTTGAAG
TATCCCCGAGATGA
Found at i:296447 original size:79 final size:77
Alignment explanation
Indices: 295971--296436 Score: 279
Period size: 79 Copynumber: 6.0 Consensus size: 77
295961 AATTCAATAT
* * * * *
295971 TTTTGGAAATAAAAACAGGGTTGGAGTATCC-TCTCGAAAATAACGGGGTT-AGAGTAT-CCC-T
1 TTTTGGAAATAAAAATAGGGTTGGAGTATCCATC-AG-AAATGATGGGGTTGA-AGTATCCCCGA
*
296032 GA-GAAAAATTTAATA
63 GATGAAAAATTTAA-C
** ** * * * * *
296047 TTTTGGAAATAAAAACGGGGTTCAAGTATCCCCTCAGAATTTATGGGGTAG-AGTATCCTCGAGA
1 TTTTGGAAATAAAAATAGGGTTGGAGTAT-CCATCAGAAATGATGGGGTTGAAGTATCCCCGAGA
*
296111 TGAAAATTTTAAC
65 TGAAAAATTTAAC
* * * * ** * * *
296124 ATTTTAGAAATAAAAA-CGAGGTTAGAGTATCCCCTTGGAAATAATGGGGTTGGAGTATCCTCGA
1 -TTTTGGAAATAAAAATAG-GGTTGGAGTAT-CCATCAGAAATGATGGGGTTGAAGTATCCCCGA
* *
296188 GATGAAAATTTTAATAT
63 GATGAAAAATTT-A-AC
* * * * * *
296205 TTTTGGAAACAAAAATGGGGTTGGAGTATCCTTTCGGAATTGATGGGGTT-AGAGTATCCTCGAG
1 TTTTGGAAATAAAAATAGGGTTGGAGTATCC-ATCAGAAATGATGGGGTTGA-AGTATCCCCGAG
296269 ATGAAAAATTTAAC
64 ATGAAAAATTTAAC
* * * ** * * * * *
296283 ATTTTGGAGATAAAAA-CGAGGTTAGAACATCCCCTCAGAAATAACGGGATTGGAGTATCCCCGA
1 -TTTTGGAAATAAAAATAG-GGTTGGAGTAT-CCATCAGAAATGATGGGGTTGAAGTATCCCCGA
296347 GAT-AAAAATTTTAGTA-
63 GATGAAAAA-TTTA--AC
* * *
296363 TTTTGGAAATAAAAATAGGGTTGGGGTATCCATCAGAAGTGATGGGGTTGAAGTATCCCCAAGAT
1 TTTTGGAAATAAAAATAGGGTTGGAGTATCCATCAGAAATGATGGGGTTGAAGTATCCCCGAGAT
296428 GAAAAATTT
66 GAAAAATTT
296437 GATGCTTTTG
Statistics
Matches: 307, Mismatches: 60, Indels: 44
0.75 0.15 0.11
Matches are distributed among these distances:
75 5 0.02
76 37 0.12
77 6 0.02
78 91 0.30
79 102 0.33
80 63 0.21
81 3 0.01
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.29
Consensus pattern (77 bp):
TTTTGGAAATAAAAATAGGGTTGGAGTATCCATCAGAAATGATGGGGTTGAAGTATCCCCGAGAT
GAAAAATTTAAC
Found at i:298784 original size:20 final size:20
Alignment explanation
Indices: 298755--298849 Score: 84
Period size: 20 Copynumber: 4.7 Consensus size: 20
298745 ATTGCCTGCG
298755 TGTATCGATACATTGAAGAA
1 TGTATCGATACATTGAAGAA
* * *
298775 TGTATTGATAAAATG-AGAAA
1 TGTATCGATACATTGAAG-AA
* *
298795 TGTATCGATACATTTTAAGCA
1 TGTATCGATACA-TTGAAGAA
* ***
298816 TGTATCGATACATTTACTTA
1 TGTATCGATACATTGAAGAA
298836 TGTATCGATACATT
1 TGTATCGATACATT
298850 TCCTTTCCAG
Statistics
Matches: 61, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
19 2 0.03
20 43 0.70
21 14 0.23
22 2 0.03
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.37
Consensus pattern (20 bp):
TGTATCGATACATTGAAGAA
Found at i:310215 original size:20 final size:21
Alignment explanation
Indices: 310146--310223 Score: 63
Period size: 20 Copynumber: 3.8 Consensus size: 21
310136 AATTGCTTGC
* * *
310146 ATGTATCAATACA-TTAAATA
1 ATGTATCGATAAATTTAAGTA
*
310166 ATGTATCGATATAATTGTAAG-C
1 ATGTATCGATA-AATT-TAAGTA
*
310188 ATGCATCGATAAATTT-AGTA
1 ATGTATCGATAAATTTAAGTA
*
310208 ATGTATCGATATATTT
1 ATGTATCGATAAATTT
310224 CCTTGGCAGT
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
19 2 0.04
20 25 0.54
21 5 0.11
22 11 0.24
23 3 0.07
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.38
Consensus pattern (21 bp):
ATGTATCGATAAATTTAAGTA
Found at i:312320 original size:155 final size:153
Alignment explanation
Indices: 311654--312321 Score: 607
Period size: 155 Copynumber: 4.3 Consensus size: 153
311644 TAAATTCAAG
* * * * * *
311654 AAAAGTTACAAAAATGCCCCTAGGGGATACCTTCGACGTAAAAGTA-CATAATACCCCTAAAGGA
1 AAAAATTACGAAAATG-CCCTA-GGGATACCTTCGACGTAAAAGTATCCTAGTAACCCTAAAAGA
* ** * **
311718 CCTAAAAAGGATTTCAAATAGGATGAACCTATCCTAAATACTTACCTTC-AGCATAAAAGCGGAC
64 CTTAAAAAGGA-TAGAAATGGGATGAACCTATCCTAAATACCCACCTTCGA-CATAAAAGCGGAC
311782 CTC-GTGACAACCTAGGAGTTGGTTCTA
127 C-CGGTGACAACCTAGGAGTTGGTTCTA
* * * *
311809 AAAAATTACGAAAATACCTCTAAGGGATTCCTAT-GATGTAAAAGT-TCCTGGT-ACTCCTAAAA
1 AAAAATTACGAAAATGCC-CT-AGGGATACCT-TCGACGTAAAAGTATCCTAGTAAC-CCTAAAA
* * * * * **
311871 GGCTTTAAAAAGGATATAGATGGG-TGAACCTATCCTACATACCCACCTTCGACATGAAAGATGA
62 GAC-TTAAAAAGGATAGAAATGGGATGAACCTATCCTAAATACCCACCTTCGACATAAAAGCGGA
* * * * *
311935 CCCAGTGACAACCTAAGAGTTGTTTTTG
126 CCCGGTGACAACCTAGGAGTTGGTTCTA
* * * * *
311963 AAAAATTATGAAAATGCCCTTATGGTTATACCTTCGACGTGAAAGTAT-CTTGATAACCCTAAAG
1 AAAAATTACGAAAATGCCC-TA-GG-GATACCTTCGACGTAAAAGTATCCTAG-TAACCCTAAAA
* * * * *
312027 GACTTAAAATGGATAGAAATGGGATGAACCTATCCTAAATGCCCACCTTCAACATAACAGCAGAC
62 GACTTAAAAAGGATAGAAATGGGATGAACCTATCCTAAATACCCACCTTCGACATAAAAGCGGAC
* * *
312092 TCGGTGACGACCTAGGAGTTGGTTATA
127 CCGGTGACAACCTAGGAGTTGGTTCTA
* * * *
312119 AAAAATTACGAAAATGCTCCTACGGGATACCTTTGACATAATAGTATCCCAGTAACCCTAAAAGA
1 AAAAATTACGAAAATGC-CCTA-GGGATACCTTCGACGTAAAAGTATCCTAGTAACCCTAAAAGA
* * * * *
312184 CTTAAAATGGATAGAAATGGGATAAACCTATCCTAAATGCCCACCTCCGACATAAAAGTGGACCC
64 CTTAAAAAGGATAGAAATGGGATGAACCTATCCTAAATACCCACCTTCGACATAAAAGCGGACCC
* *
312249 GGTAACGACCTAGGAGTTGGTTCTA
129 GGTGACAACCTAGGAGTTGGTTCTA
* **
312274 AAAAATTTA-AAAAATGCCCGTAGGAGATACCTTCGATATAAAAGTATC
1 AAAAA-TTACGAAAATGCCC-TAGG-GATACCTTCGACGTAAAAGTATC
312322 TCAGTGCCCC
Statistics
Matches: 417, Mismatches: 75, Indels: 42
0.78 0.14 0.08
Matches are distributed among these distances:
153 3 0.01
154 81 0.19
155 229 0.55
156 100 0.24
157 4 0.01
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.24
Consensus pattern (153 bp):
AAAAATTACGAAAATGCCCTAGGGATACCTTCGACGTAAAAGTATCCTAGTAACCCTAAAAGACT
TAAAAAGGATAGAAATGGGATGAACCTATCCTAAATACCCACCTTCGACATAAAAGCGGACCCGG
TGACAACCTAGGAGTTGGTTCTA
Found at i:312320 original size:310 final size:310
Alignment explanation
Indices: 311654--312322 Score: 742
Period size: 310 Copynumber: 2.2 Consensus size: 310
311644 TAAATTCAAG
* * * *
311654 AAAAGTTACAAAAATGCCCCTAGGGGATACCTTCGACGTAAAAGTA-CATAATACCCCTAAAGGA
1 AAAAATTACAAAAATGCCCCTAGGAGATACCTTCGACGTAAAAGTATCTTAATAACCCTAAAGGA
* ** * *
311718 CCTAAAAAGGATTTCAAATAGGATGAACCTATCCTAAATACTTACCTTCAGCATAAAAGCGGACC
66 CCTAAAAAGGATTACAAATAGGATGAACCTATCCTAAATACCCACCTTCAACATAAAAGCAGACC
* * **
311783 TCGTGACAACCTAGGAGTTGGTTCTAAAAAATTACGAAAATACCTCTAAGGGATTCCTATGATGT
131 TCGTGACAACCTAGGAGTTGGTTATAAAAAATTACGAAAATACCTCTAAGGGATACCTATGACAT
** * * * * *
311848 AAAAGTTCCTGGTACTCCTAAAAGGCTTTAAAAAGGATATAGATGGGTGAACCTATCCTACATAC
196 AAAAGTTCCCAGTACTCCTAAAAGACTTTAAAAAGGATAGAAATGGGTAAACCTATCCTAAATAC
* * * * * *
311913 CCACCTTCGACATGAAAGATGACCCAGTGACAACCTAAGAGTTGTTTTTG
261 CCACCTCCGACATAAAAGATGACCCAGTAACAACCTAAGAGTTGGTTCTA
** * ** * *
311963 AAAAATTATGAAAATGCCCTTATGGTTATACCTTCGACGTGAAAGTATCTTGATAACCCTAAAGG
1 AAAAATTACAAAAATGCCCCTA-GGAGATACCTTCGACGTAAAAGTATCTTAATAACCCTAAAGG
* * * * * *
312028 ACTTAAAATGGA-TAGAAATGGGATGAACCTATCCTAAATGCCCACCTTCAACATAACAGCAGA-
65 ACCTAAAAAGGATTACAAATAGGATGAACCTATCCTAAATACCCACCTTCAACATAAAAGCAGAC
* * * *
312091 CTCGGTGACGACCTAGGAGTTGGTTATAAAAAATTACGAAAAT-GCTCCTACGGGATACCTTTGA
130 CTC-GTGACAACCTAGGAGTTGGTTATAAAAAATTACGAAAATACCT-CTAAGGGATACCTATGA
* *
312155 CATAATAGTATCCCAGTAAC-CCTAAAAGAC-TTAAAATGGATAGAAATGGGATAAACCTATCCT
193 CATAAAAGT-TCCCAGT-ACTCCTAAAAGACTTTAAAAAGGATAGAAATGGG-TAAACCTATCCT
* * * *
312218 AAATGCCCACCTCCGACATAAAAG-TGGACCCGGTAACGACCTAGGAGTTGGTTCTA
255 AAATACCCACCTCCGACATAAAAGAT-GACCCAGTAACAACCTAAGAGTTGGTTCTA
* **
312274 AAAAATTTA-AAAAATGCCCGTAGGAGATACCTTCGATATAAAAGTATCT
1 AAAAA-TTACAAAAATGCCCCTAGGAGATACCTTCGACGTAAAAGTATCT
312323 CAGTGCCCCT
Statistics
Matches: 296, Mismatches: 55, Indels: 17
0.80 0.15 0.05
Matches are distributed among these distances:
309 23 0.08
310 160 0.54
311 108 0.36
312 5 0.02
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.25
Consensus pattern (310 bp):
AAAAATTACAAAAATGCCCCTAGGAGATACCTTCGACGTAAAAGTATCTTAATAACCCTAAAGGA
CCTAAAAAGGATTACAAATAGGATGAACCTATCCTAAATACCCACCTTCAACATAAAAGCAGACC
TCGTGACAACCTAGGAGTTGGTTATAAAAAATTACGAAAATACCTCTAAGGGATACCTATGACAT
AAAAGTTCCCAGTACTCCTAAAAGACTTTAAAAAGGATAGAAATGGGTAAACCTATCCTAAATAC
CCACCTCCGACATAAAAGATGACCCAGTAACAACCTAAGAGTTGGTTCTA
Found at i:314869 original size:14 final size:14
Alignment explanation
Indices: 314850--314878 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
314840 CCTTTTTTCT
314850 TCTTCTCTCCCTCC
1 TCTTCTCTCCCTCC
314864 TCTTCTCTCCCTCC
1 TCTTCTCTCCCTCC
314878 T
1 T
314879 TAGTTGTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.00, C:0.55, G:0.00, T:0.45
Consensus pattern (14 bp):
TCTTCTCTCCCTCC
Found at i:316585 original size:20 final size:21
Alignment explanation
Indices: 316560--316612 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
316550 TACAAGCCAA
* *
316560 TGTATCGATACAAT-TTTTTG
1 TGTATCGATACAATACTTTGG
316580 TGTATCGATAC-ATACTTTGG
1 TGTATCGATACAATACTTTGG
316600 TGTATCGATACAA
1 TGTATCGATACAA
316613 GCTTGGCTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 2 0.07
20 26 0.90
21 1 0.03
ACGTcount: A:0.28, C:0.13, G:0.17, T:0.42
Consensus pattern (21 bp):
TGTATCGATACAATACTTTGG
Found at i:318701 original size:21 final size:20
Alignment explanation
Indices: 318672--318714 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
318662 GGCTAGTATG
*
318672 GGGACTGCCCGGTTGCGACCT
1 GGGACTG-CCGGTCGCGACCT
*
318693 GGGAGTGCCGGTCGCGACCT
1 GGGACTGCCGGTCGCGACCT
318713 GG
1 GG
318715 TGGTGCTGCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.09, C:0.30, G:0.44, T:0.16
Consensus pattern (20 bp):
GGGACTGCCGGTCGCGACCT
Found at i:319173 original size:13 final size:13
Alignment explanation
Indices: 319155--319190 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
319145 ATAATCCCCC
319155 TGTATCGATACAA
1 TGTATCGATACAA
*
319168 TGTATCGATAGAA
1 TGTATCGATACAA
319181 TGTATCGATA
1 TGTATCGATA
319191 TAAAGAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:321286 original size:15 final size:15
Alignment explanation
Indices: 321266--321306 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
321256 GTTCATCAAA
321266 TTCATTTGGAGCTTC
1 TTCATTTGGAGCTTC
*
321281 TTCATTTTGAGCTTC
1 TTCATTTGGAGCTTC
*
321296 CTCAATTTGGA
1 TTC-ATTTGGA
321307 CACTTTTGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
15 16 0.73
16 6 0.27
ACGTcount: A:0.17, C:0.20, G:0.17, T:0.46
Consensus pattern (15 bp):
TTCATTTGGAGCTTC
Found at i:325357 original size:33 final size:33
Alignment explanation
Indices: 325315--325377 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
325305 TACAAGCCAA
* *
325315 TGTATCGATACA-ATTTTTTGTGTATCGATATAT
1 TGTATCGATACATA-CTTTGGTGTATCGATATAT
325348 TGTATCGATACATACTTTGGTGTATCGATA
1 TGTATCGATACATACTTTGGTGTATCGATA
325378 CAAGTGTGGC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
33 26 0.96
34 1 0.04
ACGTcount: A:0.27, C:0.11, G:0.17, T:0.44
Consensus pattern (33 bp):
TGTATCGATACATACTTTGGTGTATCGATATAT
Found at i:326827 original size:82 final size:82
Alignment explanation
Indices: 326634--326855 Score: 250
Period size: 82 Copynumber: 2.7 Consensus size: 82
326624 AGGTTAAACT
* * *
326634 GACAAGCCAACAAAGGATAAAAAGATTTACCTGAGACTAAGCCGACAAGTAAACAAGGGATGAAA
1 GACAAGCCAAC-AAGGAT-AAAAGATTTACCTGAGACTAAGCCGACAAGTAAATAAGAGAAGAAA
** *
326699 TATTGATTGGGATTGAACC
64 TATTGATCAGGATCGAACC
* * * * * *
326718 AATGAA-TCAACAATGGATAAAAAATTTACTTGGGACTAAGCCGACAAGTAAATAAGAGAAGAAA
1 GA-CAAGCCAACAA-GGATAAAAGATTTACCTGAGACTAAGCCGACAAGTAAATAAGAGAAGAAA
*
326782 -GTTGATCAGGATCGAACC
64 TATTGATCAGGATCGAACC
* *
326800 GACAAGCCAACAGAGGATAAAAGATTTACCTAAGACTAAGCCGACGAGTAAATAAG
1 GACAAGCCAACA-AGGATAAAAGATTTACCTGAGACTAAGCCGACAAGTAAATAAG
326856 GGATAAAAAG
Statistics
Matches: 113, Mismatches: 21, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
81 2 0.02
82 57 0.50
83 43 0.38
84 9 0.08
85 2 0.02
ACGTcount: A:0.45, C:0.15, G:0.22, T:0.18
Consensus pattern (82 bp):
GACAAGCCAACAAGGATAAAAGATTTACCTGAGACTAAGCCGACAAGTAAATAAGAGAAGAAATA
TTGATCAGGATCGAACC
Found at i:327396 original size:168 final size:167
Alignment explanation
Indices: 327081--327403 Score: 435
Period size: 161 Copynumber: 2.0 Consensus size: 167
327071 GGTAAATGAA
* ***
327081 AAACCGACAAGTCAACAAGGGATAAAGGATTTACCCGAGATTGGGCCAGTGGGTAAACAAAAGAT
1 AAACCGACAAGTCAACAAGGGATAAAGGATTTACCCGAGACTGGGCCAACAGGTAAACAAAAGAT
* * * *
327146 AAAGAAGTTGATCGGGATTGGATCGACAAGTTAACAAAAGATAAAAGGAATTACCTGGGACCAAG
66 AAAGAAG-TGATCGAGATTGGACCGACAAGTCAACAAAAGATAAAAGGAAGTACCTGGGACCAAG
327211 CCGACAGGGGAATAAAGGATAAAAAGTTGATCGGGATT
130 CCGACAGGGGAATAAAGGATAAAAAGTTGATCGGGATT
** *
327249 AAACCGACAAGTCAATGAGGGATAAAGGATTTACCCGAGACTGGGTCAACAGGTAAAC-AAA-A-
1 AAACCGACAAGTCAACAAGGGATAAAGGATTTACCCGAGACTGGGCCAACAGGTAAACAAAAGAT
* *
327311 AAA-AA-T-ATCGAGATTGGACCGATAAGTCAACAAAAGATAAAAGGAAGTACTTGGGACCAAGC
66 AAAGAAGTGATCGAGATTGGACCGACAAGTCAACAAAAGATAAAAGGAAGTACCTGGGACCAAGC
* * * *
327373 TGACAGGTGAATGAAGGAT-AAAGGTTGATCG
131 CGACAGGGGAATAAAGGATAAAAAGTTGATCG
327404 AAGACTGAGC
Statistics
Matches: 138, Mismatches: 17, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
160 11 0.08
161 66 0.48
162 1 0.01
164 2 0.01
165 3 0.02
166 1 0.01
167 3 0.02
168 51 0.37
ACGTcount: A:0.42, C:0.14, G:0.27, T:0.17
Consensus pattern (167 bp):
AAACCGACAAGTCAACAAGGGATAAAGGATTTACCCGAGACTGGGCCAACAGGTAAACAAAAGAT
AAAGAAGTGATCGAGATTGGACCGACAAGTCAACAAAAGATAAAAGGAAGTACCTGGGACCAAGC
CGACAGGGGAATAAAGGATAAAAAGTTGATCGGGATT
Found at i:327514 original size:84 final size:83
Alignment explanation
Indices: 327363--327664 Score: 309
Period size: 84 Copynumber: 3.6 Consensus size: 83
327353 GGAAGTACTT
* ** * * * **
327363 GGGACCAAGCTGACAGGTGAATGAA-GGATAAAGGTTGATCGAAGACTGAGCTGACAAATCACCA
1 GGGACTAAGCTGACAGGT-AAACAATGGATAAAGGTTGACCAAAGACTAAGCTGACAGGTCACCA
* *
327427 TAAGGCTAATGGGCTTACA
65 TAAGGGTAATGGGTTTACA
* * * *
327446 GGGGACTAAGCTGACTGGTAAATAATGGATGAAGGTTGACCAAAGACTAAGCTGACAGGTCACTA
1 -GGGACTAAGCTGACAGGTAAACAATGGATAAAGGTTGACCAAAGACTAAGCTGACAGGTCACCA
327511 TAAGGGTAATGGGTTTACCA
65 TAAGGGTAATGGGTTTA-CA
* * * * * * *
327531 AGGATTGAGCCGACAGGTTAACAATGGATAAAGGTTGACCAAAGACTGAGCTAACAGGTCACCAT
1 GGGACTAAGCTGACAGGTAAACAATGGATAAAGGTTGACCAAAGACTAAGCTGACAGGTCACCAT
*
327596 AAGGGGAATGGGTTTACTA
66 AAGGGTAATGGGTTTAC-A
* * * * * *
327615 GGGATTGAGTTGATAGGTAAACAATGGATTAAGGTTGACCGAAGACTAAG
1 GGGACTAAGCTGACAGGTAAACAATGGATAAAGGTTGACCAAAGACTAAG
327665 GGTAATGGGT
Statistics
Matches: 182, Mismatches: 33, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
83 5 0.03
84 175 0.96
85 2 0.01
ACGTcount: A:0.35, C:0.14, G:0.29, T:0.21
Consensus pattern (83 bp):
GGGACTAAGCTGACAGGTAAACAATGGATAAAGGTTGACCAAAGACTAAGCTGACAGGTCACCAT
AAGGGTAATGGGTTTACA
Found at i:327547 original size:43 final size:42
Alignment explanation
Indices: 327499--327623 Score: 101
Period size: 41 Copynumber: 3.0 Consensus size: 42
327489 AGACTAAGCT
327499 GACAGGTCACTATAAGGGTAATGGGTTTACCAAGGATTGAGCC
1 GACAGGTCAC-ATAAGGGTAATGGGTTTACCAAGGATTGAGCC
* * * * * * * *
327542 GACAGGTTAACA-ATGGATAA-AGGTTGACCAAAGACTGAGCT
1 GACAGG-TCACATAAGGGTAATGGGTTTACCAAGGATTGAGCC
* * * *
327583 AACAGGTCACCATAAGGGGAATGGGTTTACTAGGGATTGAG
1 GACAGGTCA-CATAAGGGTAATGGGTTTACCAAGGATTGAG
327624 TTGATAGGTA
Statistics
Matches: 59, Mismatches: 19, Indels: 8
0.69 0.22 0.09
Matches are distributed among these distances:
40 2 0.03
41 23 0.39
42 11 0.19
43 20 0.34
44 3 0.05
ACGTcount: A:0.34, C:0.14, G:0.30, T:0.22
Consensus pattern (42 bp):
GACAGGTCACATAAGGGTAATGGGTTTACCAAGGATTGAGCC
Found at i:327588 original size:41 final size:42
Alignment explanation
Indices: 327449--327589 Score: 117
Period size: 41 Copynumber: 3.4 Consensus size: 42
327439 GCTTACAGGG
* * * *
327449 GACTAAGCTGACTGG-TAAATAATGGATGAAGGTTGACCAAA
1 GACTGAGCTGACAGGTTAACTAATGGATAAAGGTTGACCAAA
* * * * * * *
327490 GACTAAGCTGACAGG-TCACTATAAGGGTAATGGGTTTACCAAG
1 GACTGAGCTGACAGGTTAACTA-ATGGATAA-AGGTTGACCAAA
* *
327533 GATTGAGCCGACAGGTTAAC-AATGGATAAAGGTTGACCAAA
1 GACTGAGCTGACAGGTTAACTAATGGATAAAGGTTGACCAAA
*
327574 GACTGAGCTAACAGGT
1 GACTGAGCTGACAGGT
327590 CACCATAAGG
Statistics
Matches: 76, Mismatches: 21, Indels: 6
0.74 0.20 0.06
Matches are distributed among these distances:
41 40 0.53
42 11 0.14
43 22 0.29
44 3 0.04
ACGTcount: A:0.36, C:0.15, G:0.28, T:0.21
Consensus pattern (42 bp):
GACTGAGCTGACAGGTTAACTAATGGATAAAGGTTGACCAAA
Found at i:327652 original size:168 final size:167
Alignment explanation
Indices: 327388--328052 Score: 641
Period size: 168 Copynumber: 4.1 Consensus size: 167
327378 GGTGAATGAA
* * * * * * *
327388 GGATAAAGGTTGATCGAAGACTGAGCTGACAAATCACCATAAGGCTAATGGGCTTACAGGGGACT
1 GGATGAAGGTTGACCAAAGACTGAGCTGACAAGTCACCATAAGGGTAATGGGTTTACA-GAGACT
* * * * *
327453 AAGCTGACT-GGTAAATAATGGATGAAGGTTGACCAAAGACTAAGCTGACAGGTCACTATAAGGG
65 AAGCCGA-TAGGTAAACAATGGATGAAGGTTGACCAAAGACTGAGCTGACAGGTCACCATAAAGG
* * *
327517 TAATGGGTTTACCAAGGATTGAGCCGACAGGTTAACAAT
129 TAATGGGTTTACCAAGGACTAAGCCGACAGGTAAACAAT
* * * * * *
327556 GGATAAAGGTTGACCAAAGACTGAGCTAACAGGTCACCATAAGGGGAATGGGTTTACTAGGGATT
1 GGATGAAGGTTGACCAAAGACTGAGCTGACAAGTCACCATAAGGGTAATGGGTTTAC-AGAGACT
* ** * *
327621 GAGTTGATAGGTAAACAATGGATTAAGGTT-------GAC----C-GA-A-G--A-C-TAAGGGT
65 AAGCCGATAGGTAAACAATGGATGAAGGTTGACCAAAGACTGAGCTGACAGGTCACCATAAAGGT
**** * * *
327668 AATGGGTTTATTGGGGAATGAG-CTAGCAGGTAAACAAT
130 AATGGGTTTACCAAGGACTAAGCCGA-CAGGTAAACAAT
* * *
327706 GGATGAAGGTTGACTAAAGACTGAGCTGATAAGTCACCATAAGGGTAATGGGTTTACCGAAGACT
1 GGATGAAGGTTGACCAAAGACTGAGCTGACAAGTCACCATAAGGGTAATGGGTTTACAG-AGACT
** * * * * *
327771 AAGCCGACCGATAAACAATGGATGAAGGTTGACTAGAGACTGAGTTGACAAGTCACCATAAAGGT
65 AAGCCGATAGGTAAACAATGGATGAAGGTTGACCAAAGACTGAGCTGACAGGTCACCATAAAGGT
*
327836 AATGGGTTTACCGAGGACTAAGCCGACAGGTAAACAAT
130 AATGGGTTTACCAAGGACTAAGCCGACAGGTAAACAAT
* ** * * * *
327874 GGATGAAGGTTGATCGGAGACTGAGTTGATAGGTCACCATAAGGGTAATGGGTTTATCAAAGACT
1 GGATGAAGGTTGACCAAAGACTGAGCTGACAAGTCACCATAAGGGTAATGGGTTTA-CAGAGACT
* * *
327939 AAGCCGATAGGTAAATAATGGATGAAGGTTGACCGAAGACTGAGCTGATAGGTCACCATAAAGGT
65 AAGCCGATAGGTAAACAATGGATGAAGGTTGACCAAAGACTGAGCTGACAGGTCACCATAAAGGT
*
328004 AATGGGTTTACCAAGGACTAAGCCGACAAGTAAACAAT
130 AATGGGTTTACCAAGGACTAAGCCGACAGGTAAACAAT
328042 GGATGAAGGTT
1 GGATGAAGGTT
328053 ATTTCTAAGA
Statistics
Matches: 408, Mismatches: 65, Indels: 48
0.78 0.12 0.09
Matches are distributed among these distances:
149 3 0.01
150 112 0.27
152 1 0.00
154 1 0.00
155 1 0.00
156 2 0.00
157 4 0.01
161 3 0.01
162 2 0.00
163 1 0.00
164 1 0.00
166 1 0.00
167 2 0.00
168 270 0.66
169 4 0.01
ACGTcount: A:0.35, C:0.14, G:0.29, T:0.22
Consensus pattern (167 bp):
GGATGAAGGTTGACCAAAGACTGAGCTGACAAGTCACCATAAGGGTAATGGGTTTACAGAGACTA
AGCCGATAGGTAAACAATGGATGAAGGTTGACCAAAGACTGAGCTGACAGGTCACCATAAAGGTA
ATGGGTTTACCAAGGACTAAGCCGACAGGTAAACAAT
Found at i:327770 original size:43 final size:43
Alignment explanation
Indices: 327722--328015 Score: 142
Period size: 41 Copynumber: 7.0 Consensus size: 43
327712 AGGTTGACTA
*
327722 AAGACTGAGCTGATAAGTCACCATAAGGGTAATGGGTTTACCG
1 AAGACTGAGCTGATAGGTCACCATAAGGGTAATGGGTTTACCG
* * ** * * * * * * *
327765 AAGACTAAGCCGACCGATAAACA-ATGGATGAA--GGTTGA-CT
1 AAGACTGAGCTGATAGGTCACCATAAGGGT-AATGGGTTTACCG
* * * *
327805 AGAGACTGAGTTGACAAGTCACCATAAAGGTAATGGGTTTACCG
1 A-AGACTGAGCTGATAGGTCACCATAAGGGTAATGGGTTTACCG
* * * * * * * * * *
327849 AGGACTAAGCCGACAGGTAAACA-ATGGATGAA--GGTTGATCG
1 AAGACTGAGCTGATAGGTCACCATAAGGGT-AATGGGTTTACCG
* * * *
327890 GAGACTGAGTTGATAGGTCACCATAAGGGTAATGGGTTTATCA
1 AAGACTGAGCTGATAGGTCACCATAAGGGTAATGGGTTTACCG
* * * * *
327933 AAGACTAAGCCGATAGGT-A-AATAATGG--ATGAAGGTTGACCG
1 AAGACTGAGCTGATAGGTCACCATAAGGGTAATG--GGTTTACCG
*
327974 AAGACTGAGCTGATAGGTCACCATAAAGGTAATGGGTTTACC
1 AAGACTGAGCTGATAGGTCACCATAAGGGTAATGGGTTTACC
328016 AAGGACTAAG
Statistics
Matches: 172, Mismatches: 63, Indels: 32
0.64 0.24 0.12
Matches are distributed among these distances:
39 3 0.02
40 2 0.01
41 73 0.42
42 16 0.09
43 73 0.42
44 2 0.01
45 3 0.02
ACGTcount: A:0.35, C:0.15, G:0.28, T:0.22
Consensus pattern (43 bp):
AAGACTGAGCTGATAGGTCACCATAAGGGTAATGGGTTTACCG
Found at i:327802 original size:84 final size:84
Alignment explanation
Indices: 327698--328052 Score: 482
Period size: 84 Copynumber: 4.2 Consensus size: 84
327688 AGCTAGCAGG
*
327698 TAAACAATGGATGAAGGTTGACTAAAGACTGAGCTGATAAGTCACCATAAGGGTAATGGGTTTAC
1 TAAACAATGGATGAAGGTTGACTAAAGACTGAGCTGATAAGTCACCATAAAGGTAATGGGTTTAC
*
327763 CGAAGACTAAGCCGACCGA
66 CGAAGACTAAGCCGACAGA
* * *
327782 TAAACAATGGATGAAGGTTGACTAGAGACTGAGTTGACAAGTCACCATAAAGGTAATGGGTTTAC
1 TAAACAATGGATGAAGGTTGACTAAAGACTGAGCTGATAAGTCACCATAAAGGTAATGGGTTTAC
* *
327847 CGAGGACTAAGCCGACAGG
66 CGAAGACTAAGCCGACAGA
** * * *
327866 TAAACAATGGATGAAGGTTGA-TCGGAGACTGAGTTGATAGGTCACCATAAGGGTAATGGGTTTA
1 TAAACAATGGATGAAGGTTGACT-AAAGACTGAGCTGATAAGTCACCATAAAGGTAATGGGTTTA
* * * *
327930 TCAAAGACTAAGCCGATAGG
65 CCGAAGACTAAGCCGACAGA
* ** *
327950 TAAATAATGGATGAAGGTTGACCGAAGACTGAGCTGATAGGTCACCATAAAGGTAATGGGTTTAC
1 TAAACAATGGATGAAGGTTGACTAAAGACTGAGCTGATAAGTCACCATAAAGGTAATGGGTTTAC
328015 C-AAGGACTAAGCCGACA-A
66 CGAA-GACTAAGCCGACAGA
328033 GTAAACAATGGATGAAGGTT
1 -TAAACAATGGATGAAGGTT
328053 ATTTCTAAGA
Statistics
Matches: 243, Mismatches: 24, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
83 3 0.01
84 240 0.99
ACGTcount: A:0.36, C:0.14, G:0.28, T:0.21
Consensus pattern (84 bp):
TAAACAATGGATGAAGGTTGACTAAAGACTGAGCTGATAAGTCACCATAAAGGTAATGGGTTTAC
CGAAGACTAAGCCGACAGA
Found at i:327842 original size:234 final size:234
Alignment explanation
Indices: 327462--328052 Score: 587
Period size: 234 Copynumber: 2.4 Consensus size: 234
327452 TAAGCTGACT
* * *
327462 GGTAAATAATGGATGAAGGTTGACCAAAGACTAAGCTGACAGGTCACTATAAGGGTAATGGGTTT
1 GGTAAACAATGGATGAAGGTTGACCAAAGACTAAGCTGACAAGTCACCATAAGGGTAATGGGTTT
* * * * *
327527 ACCAAGGATTGAGCCGACAGGTTAACAATGGATAAAGGTTGACCAAAGACTGAGCTAACAGGTCA
66 ACCAAGGACTAAGCCGACAGATAAACAATGGATAAAGGTTGACCAAAGACTGAGCTAACAAGTCA
* * * ** * *
327592 CCATAAGGGGAATGGGTTTACTAG-GGATTGAGTTGATAGGTAAACAATGGATTAAGGTTGACCG
131 CCATAAAGGGAATGGGTTTAC-AGAGGACTAAGCCGACAGGTAAACAATGGATGAAGGTTGACCG
327656 AAGACTAAGGGTAATGGGTTTATTGGGGAATGAGCTAGCA
195 AAGACTAAGGGTAATGGGTTTATTGGGGAATGAGCTAGCA
* * *
327696 GGTAAACAATGGATGAAGGTTGACTAAAGACTGAGCTGATAAGTCACCATAAGGGTAATGGGTTT
1 GGTAAACAATGGATGAAGGTTGACCAAAGACTAAGCTGACAAGTCACCATAAGGGTAATGGGTTT
* * * * * *
327761 ACCGAA-GACTAAGCCGACCGATAAACAATGGATGAAGGTTGACTAGAGACTGAGTTGACAAGTC
66 ACC-AAGGACTAAGCCGACAGATAAACAATGGATAAAGGTTGACCAAAGACTGAGCTAACAAGTC
* *
327825 ACCATAAAGGTAATGGGTTTACCGAGGACTAAGCCGACAGGTAAACAATGGATGAAGGTTGATCG
130 ACCATAAAGGGAATGGGTTTACAGAGGACTAAGCCGACAGGTAAACAATGGATGAAGGTTGA-C-
**** * * * *
327890 GAGACTGAGTTGATAGGTCACCATAAGGGTAATGGGTTTATCAAAGACTAAGC-CGATA
193 ----C------GA-A-G--A-C-TAAGGGTAATGGGTTTATTGGGGAATGAGCTAG-CA
* * * * * *
327948 GGTAAATAATGGATGAAGGTTGACCGAAGACTGAGCTGATAGGTCACCATAAAGGTAATGGGTTT
1 GGTAAACAATGGATGAAGGTTGACCAAAGACTAAGCTGACAAGTCACCATAAGGGTAATGGGTTT
*
328013 ACCAAGGACTAAGCCGACA-AGTAAACAATGGATGAAGGTT
66 ACCAAGGACTAAGCCGACAGA-TAAACAATGGATAAAGGTT
328053 ATTTCTAAGA
Statistics
Matches: 294, Mismatches: 40, Indels: 28
0.81 0.11 0.08
Matches are distributed among these distances:
233 1 0.00
234 160 0.54
235 3 0.01
240 1 0.00
246 2 0.01
247 1 0.00
248 1 0.00
250 1 0.00
251 5 0.02
252 119 0.40
ACGTcount: A:0.36, C:0.13, G:0.29, T:0.22
Consensus pattern (234 bp):
GGTAAACAATGGATGAAGGTTGACCAAAGACTAAGCTGACAAGTCACCATAAGGGTAATGGGTTT
ACCAAGGACTAAGCCGACAGATAAACAATGGATAAAGGTTGACCAAAGACTGAGCTAACAAGTCA
CCATAAAGGGAATGGGTTTACAGAGGACTAAGCCGACAGGTAAACAATGGATGAAGGTTGACCGA
AGACTAAGGGTAATGGGTTTATTGGGGAATGAGCTAGCA
Found at i:327970 original size:318 final size:318
Alignment explanation
Indices: 327404--327979 Score: 794
Period size: 318 Copynumber: 1.8 Consensus size: 318
327394 AGGTTGATCG
** * * * *
327404 AAGACTGAGCTGACAAATCACCATAAGGCTAATGGGCTTACAGGGGACTAAGCTGACTGGTAAAT
1 AAGACTGAGCTGACAAATCACCATAAGGCTAATGGGCTTACAGAAGACTAAGCCGACCGATAAAC
* * *
327469 AATGGATGAAGGTTGACCAAAGACTAAGCTGACAGGTCACTATAAGGGTAATGGGTTTACCAAGG
66 AATGGATGAAGGTTGACCAAAGACTAAGCTGACAAGTCACCATAAAGGTAATGGGTTTACCAAGG
* * *
327534 ATTGAGCCGACAGGTTAACAATGGATAAAGGTTGACCAAAGACTGAGCTAACAGGTCACCATAAG
131 ACTAAGCCGACAGGTAAACAATGGATAAAGGTTGACCAAAGACTGAGCTAACAGGTCACCATAAG
** * * ** *
327599 GGGAATGGGTTTACTAGGGATTGAGTTGATAGGTAAACAATGGATTAAGGTTGACCGAAGACTAA
196 GGGAATGGGTTTACTAAAGACTAAGCCGATAGGTAAACAATGGATGAAGGTTGACCGAAGACTAA
327664 GGGTAATGGGTTTATTGGGGAATGAGCTAGCAGGTAAACAATGGATGAAGGTTGACTA
261 GGGTAATGGGTTTATTGGGGAATGAGCTAGCAGGTAAACAATGGATGAAGGTTGACTA
* * * * *
327722 AAGACTGAGCTGATAAGTCACCATAAGGGTAATGGGTTTACCGAAGACTAAGCCGACCGATAAAC
1 AAGACTGAGCTGACAAATCACCATAAGGCTAATGGGCTTACAGAAGACTAAGCCGACCGATAAAC
* * * * *
327787 AATGGATGAAGGTTGACTAGAGACTGAGTTGACAAGTCACCATAAAGGTAATGGGTTTACCGAGG
66 AATGGATGAAGGTTGACCAAAGACTAAGCTGACAAGTCACCATAAAGGTAATGGGTTTACCAAGG
* * ** * * *
327852 ACTAAGCCGACAGGTAAACAATGGATGAAGGTTGATCGGAGACTGAGTTGATAGGTCACCATAAG
131 ACTAAGCCGACAGGTAAACAATGGATAAAGGTTGACCAAAGACTGAGCTAACAGGTCACCATAAG
* *
327917 GGTAATGGGTTTA-TCAAAGACTAAGCCGATAGGTAAATAATGGATGAAGGTTGACCGAAGACT
196 GGGAATGGGTTTACT-AAAGACTAAGCCGATAGGTAAACAATGGATGAAGGTTGACCGAAGACT
327980 GAGCTGATAG
Statistics
Matches: 219, Mismatches: 38, Indels: 2
0.85 0.15 0.01
Matches are distributed among these distances:
317 1 0.00
318 218 1.00
ACGTcount: A:0.35, C:0.14, G:0.29, T:0.22
Consensus pattern (318 bp):
AAGACTGAGCTGACAAATCACCATAAGGCTAATGGGCTTACAGAAGACTAAGCCGACCGATAAAC
AATGGATGAAGGTTGACCAAAGACTAAGCTGACAAGTCACCATAAAGGTAATGGGTTTACCAAGG
ACTAAGCCGACAGGTAAACAATGGATAAAGGTTGACCAAAGACTGAGCTAACAGGTCACCATAAG
GGGAATGGGTTTACTAAAGACTAAGCCGATAGGTAAACAATGGATGAAGGTTGACCGAAGACTAA
GGGTAATGGGTTTATTGGGGAATGAGCTAGCAGGTAAACAATGGATGAAGGTTGACTA
Found at i:328366 original size:127 final size:127
Alignment explanation
Indices: 328209--328489 Score: 320
Period size: 127 Copynumber: 2.2 Consensus size: 127
328199 CGGGTAAACC
* * *
328209 AAAAATGAAAAAGTCTCCCGAGTCTAAGCCGAC-AGGTATACGGTTGATGAAGAAGTCT-CTCAG
1 AAAAATGAAAAAGTCTCCCGAGTCTAAGCCGACGA-GTAGACGGTAGATGAAGAAGTCTCCT-AA
* **
328272 GTATAAGCCGACAAGCAGAC-AGTTAATAAAGGAAGTCTC-CTAAGACTGAGCCGATGGGCAGAT
64 GTATAAACCGACAAGCAGACGA-TTAATAAAGGAAGTCTCTC-AAGACTGAGCCGACAGGCAGAT
328335 G
127 G
* *
328336 AAAAATGAAGAAGTCTCCCG-GTTCTTAGCCGACGAGTAGACGGTAGATGAAGAAGTCTCCTAAG
1 AAAAATGAAAAAGTCTCCCGAG-TCTAAGCCGACGAGTAGACGGTAGATGAAGAAGTCTCCTAAG
* ** ** * * *
328400 TCTAAACCGACGGGTGGACGATTGATAAAGGATGTCTCTCAGGACTGAGCCGACAGGCAGATG
65 TATAAACCGACAAGCAGACGATTAATAAAGGAAGTCTCTCAAGACTGAGCCGACAGGCAGATG
* *
328463 AAAAATGAAAAAGTCTCTCGGGTCTAA
1 AAAAATGAAAAAGTCTCCCGAGTCTAA
328490 ATCGATGGGC
Statistics
Matches: 129, Mismatches: 19, Indels: 12
0.81 0.12 0.08
Matches are distributed among these distances:
126 1 0.01
127 122 0.95
128 6 0.05
ACGTcount: A:0.35, C:0.19, G:0.27, T:0.20
Consensus pattern (127 bp):
AAAAATGAAAAAGTCTCCCGAGTCTAAGCCGACGAGTAGACGGTAGATGAAGAAGTCTCCTAAGT
ATAAACCGACAAGCAGACGATTAATAAAGGAAGTCTCTCAAGACTGAGCCGACAGGCAGATG
Found at i:328530 original size:127 final size:126
Alignment explanation
Indices: 328297--328650 Score: 323
Period size: 127 Copynumber: 2.8 Consensus size: 126
328287 CAGACAGTTA
* * * * *
328297 ATAAAGGAAGTCTCCTAAGACTGAGCCGATGGGCAGATGAAAAATGAAGAAGTCTCCCGGTTCTT
1 ATAAAGGAAGTCTCC-AGGACTGAGCCGACGGGCAGATGAAAAATGAAGAAGTCTCTCGGGTCTA
* * * * * *
328362 AGCCGACGAGTAGACGGTAGATGAAGAAGTCTCCTAAGTCTAAACCGACGGGTGGACGATTG
65 AACCGACGAGCAGACGGTAGATGAAGAAGTCTCCCAAGTCTAAACCAACGGGCGAACGATTG
* * *
328424 ATAAAGGATGTCTCTCAGGACTGAGCCGACAGGCAGATGAAAAATGAAAAAGTCTCTCGGGTCTA
1 ATAAAGGAAGTCTC-CAGGACTGAGCCGACGGGCAGATGAAAAATGAAGAAGTCTCTCGGGTCTA
* * * * * * ** * * *
328489 AATCGATGGGCAGATGGTGGATGAAGAAGTTTCCCGGGTCTAAGCCAACGGGCGAATGGTTG
65 AACCGACGAGCAGACGGTAGATGAAGAAGTCTCCCAAGTCTAAACCAACGGGCGAACGATTG
* * * * * * **
328551 ATAAAGGAAGTCTCCCGGGACTAAGCTGACGGGCAAACGAAAAATGCAGAAGTCTCTTAGGTCTA
1 ATAAAGGAAGTCT-CCAGGACTGAGCCGACGGGCAGATGAAAAATGAAGAAGTCTCTCGGGTCTA
* * * * *
328616 AGCCGCCGGGCAGACGATCA-ATGGAGAAGTCTCCC
65 AACCGACGAGCAGACGGT-AGATGAAGAAGTCTCCC
328651 GGGTCTAAGT
Statistics
Matches: 179, Mismatches: 45, Indels: 6
0.78 0.20 0.03
Matches are distributed among these distances:
127 177 0.99
128 2 0.01
ACGTcount: A:0.32, C:0.20, G:0.30, T:0.19
Consensus pattern (126 bp):
ATAAAGGAAGTCTCCAGGACTGAGCCGACGGGCAGATGAAAAATGAAGAAGTCTCTCGGGTCTAA
ACCGACGAGCAGACGGTAGATGAAGAAGTCTCCCAAGTCTAAACCAACGGGCGAACGATTG
Found at i:328656 original size:42 final size:42
Alignment explanation
Indices: 328133--329132 Score: 198
Period size: 42 Copynumber: 23.7 Consensus size: 42
328123 CGGTGGATGA
* * ** * * *
328133 AGAAGTCTCTCGAGTCTAAGCCGATAGGCAAACAAAAAATGA
1 AGAAGTCTCCCGGGTCTAAGCCGACGGGCAGACGAAAAATGC
* * * * *
328175 AGAAGTCTCCCGGGTCTAAGTCGACGGGTAAACCAAAAATGA
1 AGAAGTCTCCCGGGTCTAAGCCGACGGGCAGACGAAAAATGC
* * * * * **** *
328217 AAAAGTCTCCCGAGTCTAAGCCGACAGGTATACGGTTGATGA
1 AGAAGTCTCCCGGGTCTAAGCCGACGGGCAGACGAAAAATGC
* * * **
328259 AGAAGTCTCTCAGGTATAAGCCGACAAGCAGACAGTTAATAAA-G-
1 AGAAGTCTCCCGGGTCTAAGCCGACGGGCAGAC-G--AA-AAATGC
*** * * * * *
328303 -GAAGTCTCCTAAGACTGAGCCGATGGGCAGATGAAAAATGA
1 AGAAGTCTCCCGGGTCTAAGCCGACGGGCAGACGAAAAATGC
* * * * ** * *
328344 AGAAGTCTCCCGGTTCTTAGCCGACGAGTAGACGGTAGATGA
1 AGAAGTCTCCCGGGTCTAAGCCGACGGGCAGACGAAAAATGC
*** * ** *** **
328386 AGAAGTCTCCTAAGTCTAAACCGACGGGTGGACGATTGATAA
1 AGAAGTCTCCCGGGTCTAAGCCGACGGGCAGACGAAAAATGC
* * * * * * * *
328428 AGGATGTCTCTCAGGACTGAGCCGACAGGCAGATGAAAAATGA
1 A-GAAGTCTCCCGGGTCTAAGCCGACGGGCAGACGAAAAATGC
* * ** * * **** *
328471 AAAAGTCTCTCGGGTCTAAATCGATGGGCAGATGGTGGATGA
1 AGAAGTCTCCCGGGTCTAAGCCGACGGGCAGACGAAAAATGC
* * ** *
328513 AGAAGTTTCCCGGGTCTAAGCCAACGGGCGAATGGTTGATAAA-G-
1 AGAAGTCTCCCGGGTCTAAGCCGACGGGC--A--GACGAAAAATGC
* * *
328557 -GAAGTCTCCCGGGACTAAGCTGACGGGCAAACGAAAAATGC
1 AGAAGTCTCCCGGGTCTAAGCCGACGGGCAGACGAAAAATGC
*** * ** *
328598 AGAAGTCTCTTAGGTCTAAGCCGCCGGGCAGACGATCAATGG
1 AGAAGTCTCCCGGGTCTAAGCCGACGGGCAGACGAAAAATGC
* * **** **
328640 AGAAGTCTCCCGGGTCTAAGTCGACGGGCAGATGGTTGATAAA
1 AGAAGTCTCCCGGGTCTAAGCCGACGGGCAGACGAAAAAT-GC
* ** ** * *** **
328683 AGAAGTCTCTCGGGTCTAAGTTGACAAGCTGACGATTGATAA
1 AGAAGTCTCCCGGGTCTAAGCCGACGGGCAGACGAAAAATGC
* * * *
328725 AGGAAGTCTCCTGGAT-TGAGCCGACGGGCAGAC-AAGAAATGA
1 A-GAAGTCTCCCGGGTCTAAGCCGACGGGCAGACGAA-AAATGC
* * * * *** *
328767 AGAAGCCTCCCAGGTCTAAACCGACGGGTAGACGATGGATGA
1 AGAAGTCTCCCGGGTCTAAGCCGACGGGCAGACGAAAAATGC
* * * * ** **** **
328809 AGAAGTCTCCCAGGTCTAAGCTGATGAGTTGACGGTTGATAA
1 AGAAGTCTCCCGGGTCTAAGCCGACGGGCAGACGAAAAATGC
* * * * * * *
328851 AGGAAGTTTCTCGGGACTGAGCCGACAGGCAGAGGAAAAATGA
1 A-GAAGTCTCCCGGGTCTAAGCCGACGGGCAGACGAAAAATGC
* * **** *
328894 AGAAGTCTCTCGGGTCTAAGTCGACGGGCAGACGGTGGATGA
1 AGAAGTCTCCCGGGTCTAAGCCGACGGGCAGACGAAAAATGC
* * ** * * *
328936 AAAATTCTCCCGGGTCTAAGTTGACGTGCAGACGAAAGATGA
1 AGAAGTCTCCCGGGTCTAAGCCGACGGGCAGACGAAAAATGC
* ** * * * *** **
328978 AAAAGTCTCCCAAGTCTAAGCCAATGGGCAGATGGTTAATTA
1 AGAAGTCTCCCGGGTCTAAGCCGACGGGCAGACGAAAAATGC
* * * **** **
329020 AGGAAGTCTCTCAGGTCTAAGCCGACGAGCAGACGGTGGATAA
1 A-GAAGTCTCCCGGGTCTAAGCCGACGGGCAGACGAAAAATGC
* * * * *
329063 AGAAATCACCCCGGTCTAAGCCGACGGGCAGACGAAAGATGA
1 AGAAGTCTCCCGGGTCTAAGCCGACGGGCAGACGAAAAATGC
* * *
329105 AGAAATCTCTCGGGTCTAAGTCGACGGG
1 AGAAGTCTCCCGGGTCTAAGCCGACGGG
329133 TAAATGGTTG
Statistics
Matches: 694, Mismatches: 242, Indels: 44
0.71 0.25 0.04
Matches are distributed among these distances:
39 8 0.01
40 4 0.01
41 12 0.02
42 485 0.70
43 176 0.25
44 1 0.00
45 2 0.00
46 6 0.01
ACGTcount: A:0.32, C:0.20, G:0.29, T:0.19
Consensus pattern (42 bp):
AGAAGTCTCCCGGGTCTAAGCCGACGGGCAGACGAAAAATGC
Found at i:328656 original size:169 final size:169
Alignment explanation
Indices: 328466--328827 Score: 397
Period size: 169 Copynumber: 2.1 Consensus size: 169
328456 GCAGATGAAA
* * * * *
328466 AATGAAAAAGTCTCTCGGGTCTAAATCGATGGGCAGATGGTGGAT-GAAGAAGTTTCCCGGGTCT
1 AATGAAGAAGTCTCCCGGGTCTAAATCGACGGGCAGATGGTGGATAAAAGAAGTCTCCCGGGTCT
** * * *
328530 AAGCCAACGGGC-GAATGGTTGATAAAGGAAGTCTCCCGGGACTAAGCTGACGGGCAAACGAA-A
66 AAGCCAACAAGCTG-ACGATTGATAAAGGAAGTCT-CCGGGACTAAGCCGACGGGCAAAC-AAGA
* * ** * *
328593 AATGCAGAAGTCTCTTAGGTCTAAGCCGCCGGGCAGACGATC
128 AATGAAGAAGCCTCCCAGGTCTAAACCGACGGGCAGACGATC
* * * *
328635 AATGGAGAAGTCTCCCGGGTCTAAGTCGACGGGCAGATGGTTGATAAAAGAAGTCTCTCGGGTCT
1 AATGAAGAAGTCTCCCGGGTCTAAATCGACGGGCAGATGGTGGATAAAAGAAGTCTCCCGGGTCT
*** * * * *
328700 AAGTTGACAAGCTGACGATTGATAAAGGAAGTCTCCTGGATTGAGCCGACGGGCAGACAAGAAAT
66 AAGCCAACAAGCTGACGATTGATAAAGGAAGTCTCCGGGACTAAGCCGACGGGCAAACAAGAAAT
* *
328765 GAAGAAGCCTCCCAGGTCTAAACCGACGGGTAGACGATG
131 GAAGAAGCCTCCCAGGTCTAAACCGACGGGCAGACGATC
* *
328804 GATGAAGAAGTCTCCCAGGTCTAA
1 AATGAAGAAGTCTCCCGGGTCTAA
328828 GCTGATGAGT
Statistics
Matches: 158, Mismatches: 32, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
168 2 0.01
169 114 0.72
170 41 0.26
171 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.30, T:0.19
Consensus pattern (169 bp):
AATGAAGAAGTCTCCCGGGTCTAAATCGACGGGCAGATGGTGGATAAAAGAAGTCTCCCGGGTCT
AAGCCAACAAGCTGACGATTGATAAAGGAAGTCTCCGGGACTAAGCCGACGGGCAAACAAGAAAT
GAAGAAGCCTCCCAGGTCTAAACCGACGGGCAGACGATC
Found at i:328747 original size:127 final size:127
Alignment explanation
Indices: 328509--328960 Score: 401
Period size: 127 Copynumber: 3.6 Consensus size: 127
328499 CAGATGGTGG
* * * * * *
328509 ATGAAGAAGTTTCCCGGGTCTAAGCCAACGGGC-GAATGGTTGATAAAGGAAGTCTCCCGGGACT
1 ATGAAGAAGTCTCCCGGGTCTAAGTCGACGGGCAG-ACGGTGGATAAA-GAAGTCTCCCGGGTCT
* ** ** *** ** ** * * * **
328573 AAGCTGACGGGCAAACGAAAAATGCA-GAAGTCTCTTAGGTCTAAGCCGCCGGGCAGACGATCA
64 AAGTTGACAAGCTGACGATTGATAAAGGAAGTCTCTCGGGACTGAGCCGACGGGCAGACGAAAA
* * * *
328636 ATGGAGAAGTCTCCCGGGTCTAAGTCGACGGGCAGATGGTTGATAAAAGAAGTCTCTCGGGTCTA
1 ATGAAGAAGTCTCCCGGGTCTAAGTCGACGGGCAGACGGTGGAT-AAAGAAGTCTCCCGGGTCTA
* *
328701 AGTTGACAAGCTGACGATTGATAAAGGAAGTCTC-CTGGATTGAGCCGACGGGCAGAC-AAGAA
65 AGTTGACAAGCTGACGATTGATAAAGGAAGTCTCTCGGGACTGAGCCGACGGGCAGACGAA-AA
* * ** * * * *
328763 ATGAAGAAGCCTCCCAGGTCTAAACCGACGGGTAGACGATGGATGAAGAAGTCTCCCAGGTCTAA
1 ATGAAGAAGTCTCCCGGGTCTAAGTCGACGGGCAGACGGTGGATAAAGAAGTCTCCCGGGTCTAA
* ** * * * * *
328828 GCTGATGAGTTGACGGTTGATAAAGGAAGTTTCTCGGGACTGAGCCGACAGGCAGAGGAAAA
66 GTTGACAAGCTGACGATTGATAAAGGAAGTCTCTCGGGACTGAGCCGACGGGCAGACGAAAA
* *
328890 ATGAAGAAGTCTCTCGGGTCTAAGTCGACGGGCAGACGGTGGATGAAA-AATTCTCCCGGGTCTA
1 ATGAAGAAGTCTCCCGGGTCTAAGTCGACGGGCAGACGGTGGAT-AAAGAAGTCTCCCGGGTCTA
328954 AGTTGAC
65 AGTTGAC
328961 GTGCAGACGA
Statistics
Matches: 260, Mismatches: 58, Indels: 14
0.78 0.17 0.04
Matches are distributed among these distances:
126 46 0.18
127 198 0.76
128 16 0.06
ACGTcount: A:0.30, C:0.20, G:0.31, T:0.19
Consensus pattern (127 bp):
ATGAAGAAGTCTCCCGGGTCTAAGTCGACGGGCAGACGGTGGATAAAGAAGTCTCCCGGGTCTAA
GTTGACAAGCTGACGATTGATAAAGGAAGTCTCTCGGGACTGAGCCGACGGGCAGACGAAAA
Found at i:328848 original size:169 final size:170
Alignment explanation
Indices: 328548--328865 Score: 390
Period size: 169 Copynumber: 1.9 Consensus size: 170
328538 GGGCGAATGG
* * * **
328548 TTGATAAAGGAAGTCTCCCGGGACTAAGCTGACGGGCAAACGAAAAATGCAGAAGTCTCTTAGGT
1 TTGATAAAGGAAGTCTCCCGGGACTAAGCCGACGGGCAAACGAAAAATGAAGAAGCCTCCCAGGT
* * * * * *
328613 CTAAGCCGCCGGGCAGACGATCAATGGAGAAGTCTCCCGGGTCTAAGTCGACGGGCAGATGGTTG
66 CTAAACCGACGGGCAGACGATCAATGAAGAAGTCTCCCAGGTCTAAGTCGACGAGCAGACGGTTG
328678 ATAAAAGAAGTCTCTCGGGTCTAAGTTGACAAGCTGACGA
131 ATAAAAGAAGTCTCTCGGGTCTAAGTTGACAAGCTGACGA
* * * *
328718 TTGATAAAGGAAGTCT-CCTGGATTGAGCCGACGGGCAGAC-AAGAAATGAAGAAGCCTCCCAGG
1 TTGATAAAGGAAGTCTCCCGGGACTAAGCCGACGGGCAAACGAA-AAATGAAGAAGCCTCCCAGG
* ** * **
328781 TCTAAACCGACGGGTAGACGATGGATGAAGAAGTCTCCCAGGTCTAAG-CTGATGAGTTGACGGT
65 TCTAAACCGACGGGCAGACGATCAATGAAGAAGTCTCCCAGGTCTAAGTC-GACGAGCAGACGGT
* *
328845 TGATAAAGGAAGTTTCTCGGG
129 TGATAAAAGAAGTCTCTCGGG
328866 ACTGAGCCGA
Statistics
Matches: 123, Mismatches: 23, Indels: 5
0.81 0.15 0.03
Matches are distributed among these distances:
168 3 0.02
169 104 0.85
170 16 0.13
ACGTcount: A:0.30, C:0.19, G:0.31, T:0.20
Consensus pattern (170 bp):
TTGATAAAGGAAGTCTCCCGGGACTAAGCCGACGGGCAAACGAAAAATGAAGAAGCCTCCCAGGT
CTAAACCGACGGGCAGACGATCAATGAAGAAGTCTCCCAGGTCTAAGTCGACGAGCAGACGGTTG
ATAAAAGAAGTCTCTCGGGTCTAAGTTGACAAGCTGACGA
Found at i:329193 original size:127 final size:128
Alignment explanation
Indices: 328893--329193 Score: 347
Period size: 127 Copynumber: 2.4 Consensus size: 128
328883 AGGAAAAATG
* * * * * *
328893 AAGAAGTCTCTCGGGTCTAAGTCGACGGGCAGACGGTGGATGAA-AAATTCTCCCGGGTCTAAGT
1 AAGAAGTCTCTCAGGTCTAAGCCGACGAGCAGACGGTGGATGAAGAAATTCACCCCGGTCTAAGC
* * * * *
328957 TGACGTGCAGACGAAAGATGAAAAAGTCTCCCAAGTCTAAGCCAATGGGCAGATGGTTAATTA
66 CGACGGGCAGACGAAAGATGAAAAAGTCTCCCAAGTCTAAGCCAACGGGCAAATGGTTAATAA
* *
329020 AGGAAGTCTCTCAGGTCTAAGCCGACGAGCAGACGGTGGATAAAGAAA-TCACCCCGGTCTAAGC
1 AAGAAGTCTCTCAGGTCTAAGCCGACGAGCAGACGGTGGATGAAGAAATTCACCCCGGTCTAAGC
* ** * * * **
329084 CGACGGGCAGACGAAAGATGAAGAAA-TCTCTCGGGTCTAAGTCGACGGGTAAATGGTTGGTAA
66 CGACGGGCAGACGAAAGATGAA-AAAGTCTCCCAAGTCTAAGCCAACGGGCAAATGGTTAATAA
* * * *
329147 AAGAAGTCTCCCAGGTCTAAACCGACGAGCAGACAGAGGATGAAGAA
1 AAGAAGTCTCTCAGGTCTAAGCCGACGAGCAGACGGTGGATGAAGAA
329194 GTCTGCAGGG
Statistics
Matches: 145, Mismatches: 27, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
127 139 0.96
128 6 0.04
ACGTcount: A:0.33, C:0.20, G:0.29, T:0.18
Consensus pattern (128 bp):
AAGAAGTCTCTCAGGTCTAAGCCGACGAGCAGACGGTGGATGAAGAAATTCACCCCGGTCTAAGC
CGACGGGCAGACGAAAGATGAAAAAGTCTCCCAAGTCTAAGCCAACGGGCAAATGGTTAATAA
Found at i:329252 original size:43 final size:42
Alignment explanation
Indices: 329147--329389 Score: 211
Period size: 42 Copynumber: 5.7 Consensus size: 42
329137 TGGTTGGTAA
* * ** *
329147 AAGAAGTCTCCCAGGTCTAAA-CCGACGAGCAGACAGAGGATG
1 AAGAAGTCTCCAAGGTC-AAAGCCGACAAGCAGACTTAAGATG
* * * *
329189 AAGAAGTCTGCAGGGCCAAAGCCGACAAGCAGACTTAAGGGTG
1 AAGAAGTCTCCAAGGTCAAAGCCGACAAGCAGACTTAA-GATG
* * *
329232 AAGAAGTCTCCAAGGTCAAAGCCGATAGGCAGACTTAAGATA
1 AAGAAGTCTCCAAGGTCAAAGCCGACAAGCAGACTTAAGATG
* * * * *
329274 AAGAAGTCTCCATA-ATCAAAGTCAACAGGCAGACTTAAAATG
1 AAGAAGTCTCCA-AGGTCAAAGCCGACAAGCAGACTTAAGATG
* * * **
329316 AAGGAAGTCTCCTAGGTCAAAGTCGACAAGTAGACAAAAGATG
1 AA-GAAGTCTCCAAGGTCAAAGCCGACAAGCAGACTTAAGATG
** *
329359 AAGAAGTCTCCTGGGTCAAAGCCGACGAGCA
1 AAGAAGTCTCCAAGGTCAAAGCCGACAAGCA
329390 AACAAAGGGA
Statistics
Matches: 162, Mismatches: 34, Indels: 10
0.79 0.17 0.05
Matches are distributed among these distances:
41 3 0.02
42 90 0.56
43 69 0.43
ACGTcount: A:0.39, C:0.21, G:0.26, T:0.15
Consensus pattern (42 bp):
AAGAAGTCTCCAAGGTCAAAGCCGACAAGCAGACTTAAGATG
Found at i:329264 original size:85 final size:83
Alignment explanation
Indices: 329147--329389 Score: 218
Period size: 85 Copynumber: 2.9 Consensus size: 83
329137 TGGTTGGTAA
* * * * * *
329147 AAGAAGTCTCCCAGGTCTAAA-CCGACGAGCAGACAGAGGATGAAGAAGTCTGCAGGGCCAAAGC
1 AAGAAGTCTCCAAGGTC-AAAGCCGAAG-GCAGACAAAAGATGAAGAAGTCTCCAGGGTCAAAGC
**
329211 CGACAAGCAGACTTAAGGGTG
64 CGACAAGCAGACTTAA-AATG
** * *** *
329232 AAGAAGTCTCCAAGGTCAAAGCCGATAGGCAGACTTAAGATAAAGAAGTCTCCATAATCAAAGTC
1 AAGAAGTCTCCAAGGTCAAAGCCGA-AGGCAGACAAAAGATGAAGAAGTCTCCAGGGTCAAAGCC
* *
329297 AACAGGCAGACTTAAAATG
65 GACAAGCAGACTTAAAATG
* * * * *
329316 AAGGAAGTCTCCTAGGTCAAAGTCGACAAGTAGACAAAAGATGAAGAAGTCTCCTGGGTCAAAGC
1 AA-GAAGTCTCCAAGGTCAAAGCCGA-AGGCAGACAAAAGATGAAGAAGTCTCCAGGGTCAAAGC
*
329381 CGACGAGCA
64 CGACAAGCA
329390 AACAAAGGGA
Statistics
Matches: 123, Mismatches: 32, Indels: 6
0.76 0.20 0.04
Matches are distributed among these distances:
84 7 0.06
85 115 0.93
86 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.26, T:0.15
Consensus pattern (83 bp):
AAGAAGTCTCCAAGGTCAAAGCCGAAGGCAGACAAAAGATGAAGAAGTCTCCAGGGTCAAAGCCG
ACAAGCAGACTTAAAATG
Found at i:329460 original size:48 final size:48
Alignment explanation
Indices: 329415--329542 Score: 211
Period size: 48 Copynumber: 2.7 Consensus size: 48
329405 AAATTTGAAA
**
329415 AAGTCCTAATGCCAATACAATCAAACAAGGGATGAAAAGAGTTTGACC
1 AAGTCCTAACACCAATACAATCAAACAAGGGATGAAAAGAGTTTGACC
*
329463 AAGTCCTAACACCAATAAAATCAAACAAGGGATGAAAAGAGTTTGACC
1 AAGTCCTAACACCAATACAATCAAACAAGGGATGAAAAGAGTTTGACC
* *
329511 AAGCCCTAACACCAATACAATCAAACGAGGGA
1 AAGTCCTAACACCAATACAATCAAACAAGGGA
329543 AGATTTGAGT
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
48 74 1.00
ACGTcount: A:0.46, C:0.21, G:0.17, T:0.16
Consensus pattern (48 bp):
AAGTCCTAACACCAATACAATCAAACAAGGGATGAAAAGAGTTTGACC
Found at i:329946 original size:90 final size:89
Alignment explanation
Indices: 329817--330041 Score: 258
Period size: 90 Copynumber: 2.5 Consensus size: 89
329807 TCGGCATATC
* * *
329817 CTTGCCCCAAGGATATCAGGCTTTATGATACATCAATACCATCTAGTGGTTG-GATGAA-A-GGG
1 CTTGCCCCAAGGAAATCAGGCTTTGTGATGCATCAATACCATCTAGTGGTTGAGA--AAGAGGGG
*
329879 ATATGATTAGGAATGTGTGGGCTACAA
64 ATACGATT-GGAATGTGTGGGCTACAA
* *
329906 CTTGCCCCAAAGGAAATCAGGCTTTGCGATGCATCAATACCATTTAGTGGTTGAGAAAGAGGGGA
1 CTTGCCCC-AAGGAAATCAGGCTTTGTGATGCATCAATACCATCTAGTGGTTGAGAAAGAGGGGA
* *
329971 TACGATTGGAGTGTGTGGGCTACAC
65 TACGATTGGAATGTGTGGGCTACAA
* * * * * * *
329996 CATGCCCCATGGAAATTAGACTTCGTAATGTATCAATACCATCTAG
1 CTTGCCCCAAGGAAATCAGGCTTTGTGATGCATCAATACCATCTAG
330042 GAGTTAAAAA
Statistics
Matches: 115, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
89 40 0.35
90 63 0.55
91 12 0.10
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (89 bp):
CTTGCCCCAAGGAAATCAGGCTTTGTGATGCATCAATACCATCTAGTGGTTGAGAAAGAGGGGAT
ACGATTGGAATGTGTGGGCTACAA
Found at i:330661 original size:81 final size:83
Alignment explanation
Indices: 330522--330685 Score: 206
Period size: 81 Copynumber: 2.0 Consensus size: 83
330512 ATAAAATGGC
** * * * * *
330522 AAATGCATATGAGATGATGTAAATACCAAACATCATCTAAAGTGCAAATGTATGTGAAATAATGC
1 AAATGCATATGAGACAATGTAAATACCAAACATCATCTAAAATACAAATATAGGTGAAATAATGA
330587 AAATGCAAACATCAATAG
66 AAATGCAAACATCAATAG
* * * *
330605 AAATGCATATG-GACAATGTAAATACC-AATATTATCTAAAATACAGATATAGGTGAAATGATGA
1 AAATGCATATGAGACAATGTAAATACCAAACATCATCTAAAATACAAATATAGGTGAAATAATGA
*
330668 AAATGCAAGCATCAATAG
66 AAATGCAAACATCAATAG
330686 GAAGGCAAGA
Statistics
Matches: 69, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
81 45 0.65
82 13 0.19
83 11 0.16
ACGTcount: A:0.48, C:0.12, G:0.16, T:0.24
Consensus pattern (83 bp):
AAATGCATATGAGACAATGTAAATACCAAACATCATCTAAAATACAAATATAGGTGAAATAATGA
AAATGCAAACATCAATAG
Found at i:335403 original size:155 final size:154
Alignment explanation
Indices: 335111--335776 Score: 670
Period size: 155 Copynumber: 4.3 Consensus size: 154
335101 TAAGTTCAAG
* * * *
335111 AAAAGTTACAAAAATGCCCATAGGGGATACCTTCGACGTAGAAGTA-CCTGAT-ACTCCTAAAGG
1 AAAAATTACGAAAATGCCCTTAGGGGATACCTTCGACGTAAAAGTATCCTGATAAC-CCTAAAGG
* * * * ** * * **
335174 ACTTCAAAAGGATTTCAAATAGGATGAACCTATCCTAAATACTTACCTTTGACATAAAAACGGAC
65 ACTTAAAAAGGATAT-AAATGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGTGGAC
*
335239 CTGGTGACAACTTAGGAGTTGGTTCTA
129 C-GGTGACAACCTAGGAGTTGGTTCTA
* *
335266 AAAAATTACGAAAATACCCTTAGGGGATACCTTTGACGTAAAAGTA-CCT-AGT-ACTCCTAAAA
1 AAAAATTACGAAAATGCCCTTAGGGGATACCTTCGACGTAAAAGTATCCTGA-TAAC-CCT-AAA
* * * *
335328 GG-CTTTAAAAAGGATATAGATGGGGTGAACCTATCCTAAATTCCCACCTTCGGCATGAAAGTGG
63 GGAC-TTAAAAAGGATATAAATGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGTGG
* * *
335392 ATCCAGTGACAACCTAGGAGTTGGTTTTG
127 A-CCGGTGACAACCTAGGAGTTGGTTCTA
* ** * * * *
335421 AAAAATTATGAAAATGCCCTTATGGTTATACCTTCGACGTGAAAGTATCCCGATAACCTTAAAAG
1 AAAAATTACGAAAATGCCCTTA-GGGGATACCTTCGACGTAAAAGTATCCTGATAACCCTAAAGG
* * * * *
335486 -TTATAAAAAGAATAGAAATGAGATGAACCTATCCTAAATGCCCACCTTCGCCATAAAAGTGGAC
65 ACT-TAAAAAGGATATAAATGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGTGGA-
**
335550 CCGGT-ACAACCTAAAAGTTGGTTCTA
128 CCGGTGACAACCTAGGAGTTGGTTCTA
* * * * *
335576 AAAAATTACGAAAATGCTCC-TA-GGG-TACCTTAGACATAATAGTATCCCGGTAACCCTAAAGG
1 AAAAATTACGAAAATGC-CCTTAGGGGATACCTTCGACGTAAAAGTATCCTGATAACCCTAAAGG
* * *
335638 ACTTAAAAATGATAAAAATGGGATGAATCTATCCTAAATGCCCACCTTCGGCATAAAAGTGGACC
65 ACTTAAAAAGGATATAAATGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGTGGACC
* *
335703 CGTGACGACCTAGGAGTTGGTTCTA
130 GGTGACAACCTAGGAGTTGGTTCTA
* * * * *
335728 AAAAATTACAAAAATGCCATTAGGAGATACTTTCGACATAAAAGTATCC
1 AAAAATTACGAAAATGCCCTTAGGGGATACCTTCGACGTAAAAGTATCC
335777 CGGTGCCCCT
Statistics
Matches: 422, Mismatches: 74, Indels: 31
0.80 0.14 0.06
Matches are distributed among these distances:
151 5 0.01
152 120 0.28
153 4 0.01
154 20 0.05
155 165 0.39
156 100 0.24
157 5 0.01
158 3 0.01
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.25
Consensus pattern (154 bp):
AAAAATTACGAAAATGCCCTTAGGGGATACCTTCGACGTAAAAGTATCCTGATAACCCTAAAGGA
CTTAAAAAGGATATAAATGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGTGGACCG
GTGACAACCTAGGAGTTGGTTCTA
Found at i:337434 original size:13 final size:13
Alignment explanation
Indices: 337416--337441 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
337406 TACAGCAAGT
337416 ATGTATCGATACA
1 ATGTATCGATACA
337429 ATGTATCGATACA
1 ATGTATCGATACA
337442 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:339682 original size:21 final size:21
Alignment explanation
Indices: 339649--339693 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
339639 TTGCAAGTTG
*
339649 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
339671 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
339691 AAA
1 AAA
339694 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:346181 original size:13 final size:13
Alignment explanation
Indices: 346163--346188 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
346153 TACAGCAAGT
346163 ATGTATCGATACA
1 ATGTATCGATACA
346176 ATGTATCGATACA
1 ATGTATCGATACA
346189 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:347060 original size:20 final size:22
Alignment explanation
Indices: 347030--347073 Score: 74
Period size: 20 Copynumber: 2.1 Consensus size: 22
347020 TGATTTCCCG
347030 TGTGAATGTATCGATACA-ATT
1 TGTGAATGTATCGATACATATT
347051 TGTG-ATGTATCGATACATATT
1 TGTGAATGTATCGATACATATT
347072 TG
1 TG
347074 AAAATATAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (22 bp):
TGTGAATGTATCGATACATATT
Found at i:347145 original size:13 final size:13
Alignment explanation
Indices: 347127--347152 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
347117 CATTTTTTGG
347127 TGTATCGATACAT
1 TGTATCGATACAT
347140 TGTATCGATACAT
1 TGTATCGATACAT
347153 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:347167 original size:32 final size:33
Alignment explanation
Indices: 347107--347170 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
347097 TACAAGCCAA
**
347107 TGTATCGATACATTTTTTGGTGTATCGATACAT
1 TGTATCGATACATACTTTGGTGTATCGATACAT
347140 TGTATCGATACATACTTT-GTGTATCGATACA
1 TGTATCGATACATACTTTGGTGTATCGATACA
347171 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 13 0.45
33 16 0.55
ACGTcount: A:0.27, C:0.14, G:0.17, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATACTTTGGTGTATCGATACAT
Found at i:349742 original size:13 final size:13
Alignment explanation
Indices: 349724--349761 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
349714 ATAATCCCCC
* *
349724 TGTATCGATATAG
1 TGTATCGATACAA
349737 TGTATCGATACAA
1 TGTATCGATACAA
349750 TGTATCGATACA
1 TGTATCGATACA
349762 GAGAAAGATG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:355875 original size:20 final size:22
Alignment explanation
Indices: 355845--355888 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 22
355835 TGATTTCCCG
*
355845 TGTGAATGTATCGATACA-ATT
1 TGTGAATGTATCAATACATATT
355866 TGTG-ATGTATCAATACATATT
1 TGTGAATGTATCAATACATATT
355887 TG
1 TG
355889 AAAATATAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (22 bp):
TGTGAATGTATCAATACATATT
Found at i:355965 original size:19 final size:20
Alignment explanation
Indices: 355922--355972 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
355912 TACAAGCCAA
**
355922 TGTATCGATACATTTTTTGG
1 TGTATCGATACATACTTTGG
355942 TGTATCGATACATACTTT-G
1 TGTATCGATACATACTTTGG
355961 TGTATCGATACA
1 TGTATCGATACA
355973 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 13 0.45
20 16 0.55
ACGTcount: A:0.25, C:0.14, G:0.18, T:0.43
Consensus pattern (20 bp):
TGTATCGATACATACTTTGG
Found at i:359512 original size:11 final size:11
Alignment explanation
Indices: 359496--359520 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
359486 AATTTTTCAG
359496 AAAAATCTCAA
1 AAAAATCTCAA
359507 AAAAATCTCAA
1 AAAAATCTCAA
359518 AAA
1 AAA
359521 TAAGAAATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.68, C:0.16, G:0.00, T:0.16
Consensus pattern (11 bp):
AAAAATCTCAA
Found at i:364148 original size:3 final size:3
Alignment explanation
Indices: 364140--364179 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
364130 GGCCAAAATT
364140 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
364180 GAGTAAAATG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:367090 original size:12 final size:12
Alignment explanation
Indices: 367041--367094 Score: 56
Period size: 12 Copynumber: 4.5 Consensus size: 12
367031 ATTGTCTTCC
367041 TTGCTTGCTGTT
1 TTGCTTGCTGTT
* *
367053 TTGCTAG-TATT
1 TTGCTTGCTGTT
*
367064 TTGGTTGCTGTTT
1 TTGCTTGCTG-TT
*
367077 TTGCTTGTTGTT
1 TTGCTTGCTGTT
367089 TTGCTT
1 TTGCTT
367095 CGGTTGCTGT
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
11 8 0.24
12 15 0.45
13 10 0.30
ACGTcount: A:0.04, C:0.11, G:0.24, T:0.61
Consensus pattern (12 bp):
TTGCTTGCTGTT
Found at i:368364 original size:13 final size:13
Alignment explanation
Indices: 368346--368379 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
368336 TTCAATCTCT
368346 TTTTTTTTATTGA
1 TTTTTTTTATTGA
368359 TTTTTTTTATTGA
1 TTTTTTTTATTGA
368372 TTTTTTTT
1 TTTTTTTT
368380 GTTTGTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.12, C:0.00, G:0.06, T:0.82
Consensus pattern (13 bp):
TTTTTTTTATTGA
Found at i:368364 original size:14 final size:14
Alignment explanation
Indices: 368345--368391 Score: 64
Period size: 13 Copynumber: 3.5 Consensus size: 14
368335 ATTCAATCTC
368345 TTTTTTTTTATTGA
1 TTTTTTTTTATTGA
368359 -TTTTTTTTATTGA
1 TTTTTTTTTATTGA
368372 TTTTTTTTGT-TTG-
1 TTTTTTTT-TATTGA
368385 TTTTTTT
1 TTTTTTT
368392 AATTAATTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
13 20 0.65
14 10 0.32
15 1 0.03
ACGTcount: A:0.09, C:0.00, G:0.09, T:0.83
Consensus pattern (14 bp):
TTTTTTTTTATTGA
Found at i:368421 original size:11 final size:11
Alignment explanation
Indices: 368407--368440 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
368397 ATTAATTAAT
*
368407 TATTACTATTA
1 TATTATTATTA
368418 TATTATTATTA
1 TATTATTATTA
*
368429 TTTTATTATTA
1 TATTATTATTA
368440 T
1 T
368441 TTTTTTTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (11 bp):
TATTATTATTA
Found at i:368424 original size:3 final size:3
Alignment explanation
Indices: 368405--368441 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
368395 TAATTAATTA
*
368405 ATT ATT ACT ATT A-T ATT ATT ATT ATT -TT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
368442 TTTTTTATTC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
2 4 0.13
3 26 0.87
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:368424 original size:14 final size:14
Alignment explanation
Indices: 368401--368439 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
368391 TAATTAATTA
368401 ATTA-ATTATTACT
1 ATTATATTATTACT
*
368414 ATTATATTATTATT
1 ATTATATTATTACT
*
368428 ATTTTATTATTA
1 ATTATATTATTA
368440 TTTTTTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 4 0.17
14 19 0.83
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (14 bp):
ATTATATTATTACT
Found at i:368440 original size:14 final size:14
Alignment explanation
Indices: 368405--368450 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
368395 TAATTAATTA
* *
368405 ATTATTACTATTAT
1 ATTATTATTATTTT
368419 ATTATTATTATTTT
1 ATTATTATTATTTT
368433 ATTATTATT-TTTT
1 ATTATTATTATTTT
368446 -TTATT
1 ATTATT
368451 CATGTTAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
12 5 0.17
13 4 0.13
14 21 0.70
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (14 bp):
ATTATTATTATTTT
Found at i:368441 original size:11 final size:11
Alignment explanation
Indices: 368413--368443 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
368403 TAATTATTAC
*
368413 TATTATATTAT
1 TATTATTTTAT
368424 TATTATTTTAT
1 TATTATTTTAT
368435 TATTATTTT
1 TATTATTTT
368444 TTTTATTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TATTATTTTAT
Found at i:371434 original size:27 final size:27
Alignment explanation
Indices: 371396--371451 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
371386 TGAACTTGAC
371396 TAAAGCTTGATAGCATTTCATTTGTCA
1 TAAAGCTTGATAGCATTTCATTTGTCA
371423 TAAAGCTTGATAGCATTTCATTTGTCA
1 TAAAGCTTGATAGCATTTCATTTGTCA
371450 TA
1 TA
371452 CTTGTGCTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.41
Consensus pattern (27 bp):
TAAAGCTTGATAGCATTTCATTTGTCA
Found at i:376790 original size:26 final size:27
Alignment explanation
Indices: 376740--376799 Score: 95
Period size: 26 Copynumber: 2.3 Consensus size: 27
376730 TAAGTTGAGC
376740 TATTTATGCATTAATATAATAATATTA
1 TATTTATGCATTAATATAATAATATTA
* *
376767 TATTTATGCATT-ATATTATTATATTA
1 TATTTATGCATTAATATAATAATATTA
376793 TATTTAT
1 TATTTAT
376800 TTTTATATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
26 19 0.61
27 12 0.39
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.55
Consensus pattern (27 bp):
TATTTATGCATTAATATAATAATATTA
Found at i:379164 original size:13 final size:13
Alignment explanation
Indices: 379143--379177 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
379133 CACTTAGCTG
*
379143 TAAAAAATATAAT
1 TAAATAATATAAT
379156 TAAATAATATAAT
1 TAAATAATATAAT
*
379169 AAAATAATA
1 TAAATAATA
379178 CAAAATATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
TAAATAATATAAT
Found at i:381832 original size:3 final size:3
Alignment explanation
Indices: 381824--381875 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
381814 TATATATTAT
381824 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
381872 ATA A
1 ATA A
381876 ATTCATAAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:382201 original size:23 final size:23
Alignment explanation
Indices: 382175--382218 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
382165 ACAAATACCA
*
382175 AAATAAAAATTATTATAAAATTC
1 AAATAAAAATTATAATAAAATTC
*
382198 AAATATAAATTATAATAAAAT
1 AAATAAAAATTATAATAAAAT
382219 AAATATATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (23 bp):
AAATAAAAATTATAATAAAATTC
Found at i:382205 original size:25 final size:24
Alignment explanation
Indices: 382173--382234 Score: 60
Period size: 23 Copynumber: 2.6 Consensus size: 24
382163 ATACAAATAC
*
382173 CAAA-ATAAAAATTATTATAAAATT
1 CAAATATAAAAATTATAATAAAA-T
382197 CAAATAT--AAATTATAATAAAAT
1 CAAATATAAAAATTATAATAAAAT
382219 -AAATATATAATAATTA
1 CAAATATA-AA-AATTA
382235 AAAATATCTT
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
21 6 0.19
22 1 0.03
23 13 0.41
24 5 0.16
25 7 0.22
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (24 bp):
CAAATATAAAAATTATAATAAAAT
Found at i:382226 original size:23 final size:23
Alignment explanation
Indices: 382174--382228 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
382164 TACAAATACC
* *
382174 AAAATAAAAATTATTATAAAATT
1 AAAATATAAATTATAATAAAATT
*
382197 CAAATATAAATTATAATAAAA-T
1 AAAATATAAATTATAATAAAATT
382219 AAATATATAA
1 AAA-ATATAA
382229 TAATTAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 3 0.11
23 24 0.89
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (23 bp):
AAAATATAAATTATAATAAAATT
Found at i:382236 original size:15 final size:16
Alignment explanation
Indices: 382202--382231 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
382192 AAATTCAAAT
382202 ATAAAT-TATAATAAA
1 ATAAATATATAATAAA
382217 ATAAATATATAATAA
1 ATAAATATATAATAA
382232 TTAAAAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
ATAAATATATAATAAA
Found at i:382401 original size:25 final size:23
Alignment explanation
Indices: 382358--382445 Score: 104
Period size: 24 Copynumber: 3.6 Consensus size: 23
382348 TTATTTATAA
*
382358 AAAAAATTAATTTATAAAAAAGTT
1 AAAAAATT-ATTTATAAAAAAATT
*
382382 AATAAAATTATTTATAAAAAATTTT
1 AA-AAAATTATTTATAAAAAA-ATT
382407 AAAAAATTTTATTTATAAAAAAATT
1 AAAAAA--TTATTTATAAAAAAATT
*
382432 AAAAATTTATTTAT
1 AAAAAATTATTTAT
382446 TCACCTCTAA
Statistics
Matches: 57, Mismatches: 3, Indels: 9
0.83 0.04 0.13
Matches are distributed among these distances:
23 8 0.14
24 18 0.32
25 17 0.30
26 14 0.25
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (23 bp):
AAAAAATTATTTATAAAAAAATT
Found at i:385141 original size:17 final size:17
Alignment explanation
Indices: 385119--385152 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
385109 ATTACATGAT
385119 TATTTATTATT-TTTTAA
1 TATTTATT-TTATTTTAA
385136 TATTTATTTTATTTTAA
1 TATTTATTTTATTTTAA
385153 CTTAAAAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 14 0.88
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TATTTATTTTATTTTAA
Found at i:386519 original size:2 final size:2
Alignment explanation
Indices: 386512--386536 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
386502 ACAGAGGATG
386512 GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA G
386537 TTCTATTACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:386749 original size:64 final size:64
Alignment explanation
Indices: 386648--386770 Score: 237
Period size: 64 Copynumber: 1.9 Consensus size: 64
386638 TCAAGTGCTG
*
386648 TTGATCGATGTTTTTCTAAGACAGCATCCAATGCAGAGATGCAGGAATCATCCCGAGATAAATC
1 TTGATAGATGTTTTTCTAAGACAGCATCCAATGCAGAGATGCAGGAATCATCCCGAGATAAATC
386712 TTGATAGATGTTTTTCTAAGACAGCATCCAATGCAGAGATGCAGGAATCATCCCGAGAT
1 TTGATAGATGTTTTTCTAAGACAGCATCCAATGCAGAGATGCAGGAATCATCCCGAGAT
386771 TGTGCCTTGT
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 58 1.00
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.27
Consensus pattern (64 bp):
TTGATAGATGTTTTTCTAAGACAGCATCCAATGCAGAGATGCAGGAATCATCCCGAGATAAATC
Found at i:388448 original size:50 final size:49
Alignment explanation
Indices: 388389--388548 Score: 221
Period size: 50 Copynumber: 3.2 Consensus size: 49
388379 AATTGTTTAG
* * *
388389 AGTCAACAATTACAGTCACCTCTCTCTATTATAAAAGGTTGGTGAAGAAT
1 AGTCAACAATTAC-GCCACCTCTCTCGATTGTAAAAGGTTGGTGAAGAAT
* *
388439 AGTCAACAATTATGGCCACCTCTCTCGATTGTCAAAGGTTGGTGAAGAAT
1 AGTCAACAATTA-CGCCACCTCTCTCGATTGTAAAAGGTTGGTGAAGAAT
* * *
388489 AGTCAACAATTACGACCACCTCTCTCGATTGTTAAATGTTGATGAAGAAT
1 AGTCAACAATTACG-CCACCTCTCTCGATTGTAAAAGGTTGGTGAAGAAT
388539 AGTCAACAAT
1 AGTCAACAAT
388549 GGTAACACCT
Statistics
Matches: 99, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
49 1 0.01
50 98 0.99
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.29
Consensus pattern (49 bp):
AGTCAACAATTACGCCACCTCTCTCGATTGTAAAAGGTTGGTGAAGAAT
Found at i:394460 original size:21 final size:22
Alignment explanation
Indices: 394415--394468 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
394405 TGGACATGTT
394415 AAAAATGCATGAAACATAATAA
1 AAAAATGCATGAAACATAATAA
394437 AAAAATGCATGAAACATAAT-A
1 AAAAATGCATGAAACATAATAA
394458 AAAAATGCATG
1 AAAAATGCATG
394469 GTCAAAGGCT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 12 0.38
22 20 0.62
ACGTcount: A:0.61, C:0.09, G:0.11, T:0.19
Consensus pattern (22 bp):
AAAAATGCATGAAACATAATAA
Found at i:395429 original size:20 final size:20
Alignment explanation
Indices: 395382--395456 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
395372 AAAAAGACAT
*
395382 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
395401 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
395422 TATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
395442 AATGTATCGATACAT
1 AATGTATCGATACAT
395457 CAAGGTAAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.36
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:395450 original size:40 final size:39
Alignment explanation
Indices: 395379--395456 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
395369 GGTAAAAAGA
* *
395379 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
395418 CATATATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
395457 CAAGGTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.36
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:396509 original size:50 final size:50
Alignment explanation
Indices: 396455--396664 Score: 278
Period size: 50 Copynumber: 4.2 Consensus size: 50
396445 AATTGTTTAG
* *
396455 AGTCAACAATTACGGCCACCTCTCTCTATTATAAAAGGTTGGTGAAGAAT
1 AGTCAACAATTACGGCCACCTCTCTCGATTGTAAAAGGTTGGTGAAGAAT
* * * * *
396505 AGTCAATAATTATGACCACCTCTCTCAATTGTCAAAGGTTGGTGAAGAAT
1 AGTCAACAATTACGGCCACCTCTCTCGATTGTAAAAGGTTGGTGAAGAAT
* * * *
396555 CGTCAACAATTACGGTCACATCTCTCGATTGTCAAAGGTTGGTGAAGAAT
1 AGTCAACAATTACGGCCACCTCTCTCGATTGTAAAAGGTTGGTGAAGAAT
* * *
396605 AGTCAACAATTACGGCTACCTCTTTCGATTGTTAAAA-GTTGATGAAGAAT
1 AGTCAACAATTACGGCCACCTCTCTCGATTG-TAAAAGGTTGGTGAAGAAT
396655 AGTCAACAAT
1 AGTCAACAAT
396665 GGTAACACCT
Statistics
Matches: 139, Mismatches: 20, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
50 135 0.97
51 4 0.03
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.29
Consensus pattern (50 bp):
AGTCAACAATTACGGCCACCTCTCTCGATTGTAAAAGGTTGGTGAAGAAT
Found at i:399626 original size:50 final size:50
Alignment explanation
Indices: 399551--399859 Score: 516
Period size: 50 Copynumber: 6.2 Consensus size: 50
399541 AGTTGTTGTC
*
399551 ATTGTTGACTA-TCATTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
1 ATTGTTGACAATTC-TTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
*
399601 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGA-AGGAGGTGGCCATA
1 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGA-GAGGTGGCCATA
*
399651 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGGGAGGTGGCCATA
1 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
*
399701 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGGGAGGTGGCCATA
1 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
*
399751 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGA-AGGAGGTGGCCATA
1 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGA-GAGGTGGCCATA
*
399801 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGGGAGGTGGCCATA
1 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
399851 ATTGTTGAC
1 ATTGTTGAC
399860 TCTAAGTATA
Statistics
Matches: 247, Mismatches: 7, Indels: 10
0.94 0.03 0.04
Matches are distributed among these distances:
49 1 0.00
50 244 0.99
51 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (50 bp):
ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
Found at i:399822 original size:150 final size:150
Alignment explanation
Indices: 399551--399859 Score: 584
Period size: 150 Copynumber: 2.1 Consensus size: 150
399541 AGTTGTTGTC
*
399551 ATTGTTGACTATCATTCACCAACCTTTGACAATAGAGAGAGGTGGCCATAATTGTTGACGATTCT
1 ATTGTTGACAATCATTCACCAACCTTTGACAATAGAGAGAGGTGGCCATAATTGTTGACGATTCT
399616 TCACCAACCTTTGACAATAGAAGGAGGTGGCCATAATTGTTGACAATTCTTCACCAACCTTTGAC
66 TCACCAACCTTTGACAATAGAAGGAGGTGGCCATAATTGTTGACAATTCTTCACCAACCTTTGAC
399681 AATAGAGGGAGGTGGCCATA
131 AATAGAGGGAGGTGGCCATA
*
399701 ATTGTTGACAATTC-TTCACCAACCTTTGACAATAGAGGGAGGTGGCCATAATTGTTGACGATTC
1 ATTGTTGACAA-TCATTCACCAACCTTTGACAATAGAGAGAGGTGGCCATAATTGTTGACGATTC
399765 TTCACCAACCTTTGACAATAGAAGGAGGTGGCCATAATTGTTGACAATTCTTCACCAACCTTTGA
65 TTCACCAACCTTTGACAATAGAAGGAGGTGGCCATAATTGTTGACAATTCTTCACCAACCTTTGA
399830 CAATAGAGGGAGGTGGCCATA
130 CAATAGAGGGAGGTGGCCATA
399851 ATTGTTGAC
1 ATTGTTGAC
399860 TCTAAGTATA
Statistics
Matches: 156, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
150 154 0.99
151 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (150 bp):
ATTGTTGACAATCATTCACCAACCTTTGACAATAGAGAGAGGTGGCCATAATTGTTGACGATTCT
TCACCAACCTTTGACAATAGAAGGAGGTGGCCATAATTGTTGACAATTCTTCACCAACCTTTGAC
AATAGAGGGAGGTGGCCATA
Found at i:403178 original size:14 final size:15
Alignment explanation
Indices: 403154--403182 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
403144 AATTTTATTA
403154 TTAATATAAATTAAT
1 TTAATATAAATTAAT
403169 TTAA-ATAAATTAAT
1 TTAATATAAATTAAT
403183 ATTATTTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TTAATATAAATTAAT
Found at i:404941 original size:76 final size:76
Alignment explanation
Indices: 404849--405001 Score: 270
Period size: 76 Copynumber: 2.0 Consensus size: 76
404839 TTATAAAACC
*
404849 AAATATAATTTATTTAGTTTATAGAATCTATTGAATGGTAGATTCATTATTTAAAGCACTTTTTC
1 AAATATAATTTATTTAGTTTATAGAATCTATTGAATGGTAGAATCATTATTTAAAGCACTTTTTC
404914 GAGAACACATG
66 GAGAACACATG
* *
404925 AAATATAATTTATTTAGTTTATAGAATCTATTGAATGGTAGAATCATTGTTTGAAGCACTTTTTC
1 AAATATAATTTATTTAGTTTATAGAATCTATTGAATGGTAGAATCATTATTTAAAGCACTTTTTC
*
404990 GAGCACACATG
66 GAGAACACATG
405001 A
1 A
405002 TTCTTAGAGA
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
76 73 1.00
ACGTcount: A:0.36, C:0.10, G:0.14, T:0.40
Consensus pattern (76 bp):
AAATATAATTTATTTAGTTTATAGAATCTATTGAATGGTAGAATCATTATTTAAAGCACTTTTTC
GAGAACACATG
Found at i:408324 original size:52 final size:52
Alignment explanation
Indices: 408243--408363 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
408233 TGAAAAGTTA
*
408243 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
408295 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
408347 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
408364 AAGATCAGTG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:408376 original size:52 final size:51
Alignment explanation
Indices: 408243--408383 Score: 212
Period size: 52 Copynumber: 2.7 Consensus size: 51
408233 TGAAAAGTTA
408243 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
* *
408295 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
*
408347 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
408384 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (51 bp):
CTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:408390 original size:13 final size:13
Alignment explanation
Indices: 408372--408396 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
408362 CAAAGATCAG
408372 TGTATCGATACAA
1 TGTATCGATACAA
408385 TGTATCGATACA
1 TGTATCGATACA
408397 TGTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:408479 original size:33 final size:33
Alignment explanation
Indices: 408437--408506 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
408427 GGCAGTAGCT
*
408437 TACATTGTATTGATACAAAAAAATATGTATCGA
1 TACATTGTATCGATACAAAAAAATATGTATCGA
* ***
408470 TACATTGTATCGATACAACATTTTATGTATCGA
1 TACATTGTATCGATACAAAAAAATATGTATCGA
408503 TACA
1 TACA
408507 AATCGTTGAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.40, C:0.13, G:0.11, T:0.36
Consensus pattern (33 bp):
TACATTGTATCGATACAAAAAAATATGTATCGA
Found at i:408480 original size:13 final size:13
Alignment explanation
Indices: 408462--408486 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
408452 CAAAAAAATA
408462 TGTATCGATACAT
1 TGTATCGATACAT
408475 TGTATCGATACA
1 TGTATCGATACA
408487 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:409453 original size:76 final size:76
Alignment explanation
Indices: 409361--409513 Score: 270
Period size: 76 Copynumber: 2.0 Consensus size: 76
409351 TTATAAAACC
*
409361 AAATATAATTTATTTAGTTTATAGAATCTATTGAATGGTAGATTCATTATTTAAAGCACTTTTTC
1 AAATATAATTTATTTAGTTTATAGAATCTATTGAATGGTAGAATCATTATTTAAAGCACTTTTTC
409426 GAGAACACATG
66 GAGAACACATG
* *
409437 AAATATAATTTATTTAGTTTATAGAATCTATTGAATGGTAGAATCATTGTTTGAAGCACTTTTTC
1 AAATATAATTTATTTAGTTTATAGAATCTATTGAATGGTAGAATCATTATTTAAAGCACTTTTTC
*
409502 GAGCACACATG
66 GAGAACACATG
409513 A
1 A
409514 TTCTTAGAGA
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
76 73 1.00
ACGTcount: A:0.36, C:0.10, G:0.14, T:0.40
Consensus pattern (76 bp):
AAATATAATTTATTTAGTTTATAGAATCTATTGAATGGTAGAATCATTATTTAAAGCACTTTTTC
GAGAACACATG
Found at i:409609 original size:24 final size:25
Alignment explanation
Indices: 409577--409630 Score: 92
Period size: 25 Copynumber: 2.2 Consensus size: 25
409567 AAGTTTTTTA
409577 TTTTTTA-TTTTTTTGTTTAAGGAT
1 TTTTTTATTTTTTTTGTTTAAGGAT
*
409601 TTTTTTATTTTTTTTGTTTGAGGAT
1 TTTTTTATTTTTTTTGTTTAAGGAT
409626 TTTTT
1 TTTTT
409631 ATTATTTATG
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
24 7 0.25
25 21 0.75
ACGTcount: A:0.13, C:0.00, G:0.13, T:0.74
Consensus pattern (25 bp):
TTTTTTATTTTTTTTGTTTAAGGAT
Found at i:409631 original size:24 final size:24
Alignment explanation
Indices: 409576--409633 Score: 91
Period size: 24 Copynumber: 2.4 Consensus size: 24
409566 AAAGTTTTTT
409576 ATTTTTTA-TTTTTTTGTTTAAGG
1 ATTTTTTATTTTTTTTGTTTAAGG
*
409599 ATTTTTTTATTTTTTTTGTTTGAGG
1 A-TTTTTTATTTTTTTTGTTTAAGG
409624 ATTTTTTATT
1 ATTTTTTATT
409634 ATTTATGCTC
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
23 1 0.03
24 16 0.50
25 15 0.47
ACGTcount: A:0.16, C:0.00, G:0.12, T:0.72
Consensus pattern (24 bp):
ATTTTTTATTTTTTTTGTTTAAGG
Found at i:410413 original size:13 final size:13
Alignment explanation
Indices: 410395--410420 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
410385 CATTATTTAA
410395 TGTATCGATACAT
1 TGTATCGATACAT
410408 TGTATCGATACAT
1 TGTATCGATACAT
410421 CTAAGAATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:412510 original size:21 final size:21
Alignment explanation
Indices: 412484--412530 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
412474 GTACTCGGAT
412484 GTCTCCGTGCAATCCCGATCA
1 GTCTCCGTGCAATCCCGATCA
412505 GTCTCCGTGCAATCCCGATCA
1 GTCTCCGTGCAATCCCGATCA
412526 GTCTC
1 GTCTC
412531 AAAACCTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.17, C:0.38, G:0.19, T:0.26
Consensus pattern (21 bp):
GTCTCCGTGCAATCCCGATCA
Found at i:414505 original size:31 final size:30
Alignment explanation
Indices: 414431--415348 Score: 853
Period size: 31 Copynumber: 29.9 Consensus size: 30
414421 TCAAATCTCC
*
414431 CTTCTCAAAGTCCATGACTCAGTGGCAATCT
1 CTTCTCAAAGTCCACGACTCAGTGGC-ATCT
*
414462 CTTTTTCAAAGTCCACGACTCAGTGGCAATCT
1 C-TTCTCAAAGTCCACGACTCAGTGGC-ATCT
*
414494 CTTCTCAAAGTCCACGACTTAGTGGCATCT
1 CTTCTCAAAGTCCACGACTCAGTGGCATCT
* ** * *
414524 CTTTTTTACGTCCACAACTCAGTGGCATCT
1 CTTCTCAAAGTCCACGACTCAGTGGCATCT
* *
414554 TTTCTTCAAAGTCCATGACTCAGTGGCATCT
1 CTTC-TCAAAGTCCACGACTCAGTGGCATCT
* **
414585 CTTTTTTAAGTCCACGACTCAGTGGCATCT
1 CTTCTCAAAGTCCACGACTCAGTGGCATCT
* * **
414615 TTTCTTAAAAGTCCATAACTCAGTGGCATCT
1 CTTC-TCAAAGTCCACGACTCAGTGGCATCT
** * *
414646 CTTTTCTTTAAGTCCATGACTTAGTGGCAATCT
1 C--TTCTCAAAGTCCACGACTCAGTGGC-ATCT
*
414679 CTTCTCAAAGTCTACGACTCAGTGGCAATCT
1 CTTCTCAAAGTCCACGACTCAGTGGC-ATCT
*
414710 CTTCTCAAAGTCCACGACTCAGTGGTATCT
1 CTTCTCAAAGTCCACGACTCAGTGGCATCT
* ** * *
414740 CTTTTTTAAGTCCATGACTCAGTGGTATCT
1 CTTCTCAAAGTCCACGACTCAGTGGCATCT
* **
414770 TTTCTTCAAAGTCCAAAACTCAGTGGCATCT
1 CTTC-TCAAAGTCCACGACTCAGTGGCATCT
**
414801 CTTTTCTTTAAGTCCACGACTCAGTGGCAATCT
1 C--TTCTCAAAGTCCACGACTCAGTGGC-ATCT
*
414834 CTTCTCAAAGTCCACAACTCAGTGGCAATCT
1 CTTCTCAAAGTCCACGACTCAGTGGC-ATCT
414865 CTTCTCAAAGTCCACGACTCAGTGGCAATCT
1 CTTCTCAAAGTCCACGACTCAGTGGC-ATCT
* *
414896 CTTTTCAAAGTCCATGACTCAGTGGCATCT
1 CTTCTCAAAGTCCACGACTCAGTGGCATCT
* ** * *
414926 CTTTTTTAAGTCCACAACTCAATGGCATCT
1 CTTCTCAAAGTCCACGACTCAGTGGCATCT
* * * **
414956 TTTCTTCAAATTCCACGACTCACTAGTAATCT
1 CTTC-TCAAAGTCCACGACTCAGT-GGCATCT
*
414988 C-T-TCAAAGTCCACGACCCAGTGGCATCT
1 CTTCTCAAAGTCCACGACTCAGTGGCATCT
* **
415016 CTTTTTTAAGTCCACGACTCAGTGGCATCT
1 CTTCTCAAAGTCCACGACTCAGTGGCATCT
* *
415046 TTTCTTCAAAGTCCACGACTCAGTGGCA-AT
1 CTTC-TCAAAGTCCACGACTCAGTGGCATCT
* * *
415076 -TTCTTCAAAGACCACAACTCAGTGGCGTCT
1 CTTC-TCAAAGTCCACGACTCAGTGGCATCT
* ** *
415106 CTTTTGTTTAAGTCCATGACTCAGTGGCAATCT
1 C--TTCTCAAAGTCCACGACTCAGTGGC-ATCT
* **
415139 CTTCTCAAAGCCCATAACTCAGTGGCAATCT
1 CTTCTCAAAGTCCACGACTCAGTGGC-ATCT
415170 CTTCTCAAAGTCCACGACTCAGTGGCATCT
1 CTTCTCAAAGTCCACGACTCAGTGGCATCT
* ** * *
415200 CTTTTTTAAGTCCACAACTTAGTGGCATCT
1 CTTCTCAAAGTCCACGACTCAGTGGCATCT
* * *
415230 TTTCTTCAAAGTCCATGACTTAGTGGCAATCT
1 CTTC-TCAAAGTCCACGACTCAGTGGC-ATCT
*
415262 C-T-TCAAAGTCCACGACTCAATGGCAATCT
1 CTTCTCAAAGTCCACGACTCAGTGGC-ATCT
* *
415291 CTTCTCAAAGTCCATGACTCAGTAGCA-C-
1 CTTCTCAAAGTCCACGACTCAGTGGCATCT
*
415319 CTTGCTCTTAAAGTCCACGACTCTGTGGCA
1 CTT-CTC--AAAGTCCACGACTCAGTGGCA
415349 CCTTTTTCTT
Statistics
Matches: 730, Mismatches: 130, Indels: 54
0.80 0.14 0.06
Matches are distributed among these distances:
28 9 0.01
29 70 0.10
30 178 0.24
31 360 0.49
32 91 0.12
33 22 0.03
ACGTcount: A:0.25, C:0.28, G:0.15, T:0.32
Consensus pattern (30 bp):
CTTCTCAAAGTCCACGACTCAGTGGCATCT
Found at i:414567 original size:61 final size:62
Alignment explanation
Indices: 414435--415354 Score: 838
Period size: 61 Copynumber: 15.0 Consensus size: 62
414425 ATCTCCCTTC
* *
414435 TCAAAGTCCATGACTCAGTGGCAATCTCTTTTTCAAAGTCCACGACTCAGTGGCAATCTCTTC-
1 TCAAAGTCCACGACTCAGTGGCAATCTCTTTTT-AAAGTCCACGACTCAGTGGC-ATCTTTTCT
* * * *
414498 TCAAAGTCCACGACTTAGTGGC-ATCTCTTTTTTACGTCCACAACTCAGTGGCATCTTTTCT
1 TCAAAGTCCACGACTCAGTGGCAATCTCTTTTTAAAGTCCACGACTCAGTGGCATCTTTTCT
* *
414559 TCAAAGTCCATGACTCAGTGGC-ATCTCTTTTTTAAGTCCACGACTCAGTGGCATCTTTTCT
1 TCAAAGTCCACGACTCAGTGGCAATCTCTTTTTAAAGTCCACGACTCAGTGGCATCTTTTCT
* ** * * * *
414620 TAAAAGTCCATAACTCAGTGGC-ATCTCTTTTCTTTAAGTCCATGACTTAGTGGCAATCTCTTC-
1 TCAAAGTCCACGACTCAGTGGCAATCTC-TTT-TTAAAGTCCACGACTCAGTGGC-ATCTTTTCT
* * * *
414683 TCAAAGTCTACGACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGTATCTCTTT-T
1 TCAAAGTCCACGACTCAGTGGCAATCTCTTTTTAAAGTCCACGACTCAGTGGCATCT-TTTCT
* * * **
414745 T-TAAGTCCATGACTCAGTGG-TATCT-TTTCTTCAAAGTCCAAAACTCAGTGGCATCTCTTTTC
1 TCAAAGTCCACGACTCAGTGGCAATCTCTTT-TT-AAAGTCCACGACTCAGTGGCA--TCTTTTC
414807 T
62 T
* * * * *
414808 T-TAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACAACTCAGTGGCAATCTCTTC-
1 TCAAAGTCCACGACTCAGTGGCAATCTCTTTTTAAAGTCCACGACTCAGTGGC-ATCTTTTCT
* *
414869 TCAAAGTCCACGACTCAGTGGCAATCTCTTTTCAAAGTCCATGACTCAGTGGCATCTCTTT-T
1 TCAAAGTCCACGACTCAGTGGCAATCTCTTTTTAAAGTCCACGACTCAGTGGCATCT-TTTCT
* * * * * **
414931 T-TAAGTCCACAACTCAATGGC-ATCT-TTTCTTCAAATTCCACGACTCACTAGTAATC---TCT
1 TCAAAGTCCACGACTCAGTGGCAATCTCTTT-TT-AAAGTCCACGACTCAGT-GGCATCTTTTCT
* *
414990 TCAAAGTCCACGACCCAGTGGC-ATCTCTTTTTTAAGTCCACGACTCAGTGGCATCTTTTCT
1 TCAAAGTCCACGACTCAGTGGCAATCTCTTTTTAAAGTCCACGACTCAGTGGCATCTTTTCT
* * * * *
415051 TCAAAGTCCACGACTCAGTGGCAAT-T-TCTTCAAAGACCACAACTCAGTGGCGTCTCTTT-T
1 TCAAAGTCCACGACTCAGTGGCAATCTCTTTTTAAAGTCCACGACTCAGTGGCATCT-TTTCT
** * * * * ** *
415111 GTTTAAGTCCATGACTCAGTGGCAATCTCTTCTCAAAGCCCATAACTCAGTGGCAATCTCTTC-
1 -TCAAAGTCCACGACTCAGTGGCAATCTCTTTTTAAAGTCCACGACTCAGTGGC-ATCTTTTCT
* * *
415174 TCAAAGTCCACGACTCAGTGGC-ATCTCTTTTTTAAGTCCACAACTTAGTGGCATCTTTTCT
1 TCAAAGTCCACGACTCAGTGGCAATCTCTTTTTAAAGTCCACGACTCAGTGGCATCTTTTCT
* * * * *
415235 TCAAAGTCCATGACTTAGTGGCAATCTC--TTCAAAGTCCACGACTCAATGGCAATCTCTTC-
1 TCAAAGTCCACGACTCAGTGGCAATCTCTTTTTAAAGTCCACGACTCAGTGGC-ATCTTTTCT
* * * *
415295 TCAAAGTCCATGACTCAGTAGC-A-C-CTTGCTCTTAAAGTCCACGACTCTGTGGCACCTTTT
1 TCAAAGTCCACGACTCAGTGGCAATCTCTT--T-TTAAAGTCCACGACTCAGTGGCATCTTTT
415355 TCTTTTTGAA
Statistics
Matches: 710, Mismatches: 105, Indels: 86
0.79 0.12 0.10
Matches are distributed among these distances:
57 1 0.00
58 6 0.01
59 22 0.03
60 108 0.15
61 283 0.40
62 142 0.20
63 125 0.18
64 21 0.03
65 2 0.00
ACGTcount: A:0.25, C:0.28, G:0.15, T:0.33
Consensus pattern (62 bp):
TCAAAGTCCACGACTCAGTGGCAATCTCTTTTTAAAGTCCACGACTCAGTGGCATCTTTTCT
Found at i:414574 original size:92 final size:91
Alignment explanation
Indices: 414435--415348 Score: 970
Period size: 92 Copynumber: 9.9 Consensus size: 91
414425 ATCTCCCTTC
* *
414435 TCAAAGTCCATGACTCAGTGGCAATCTCTTTTTCAAAGTCCACGACTCAGTGGCAATCTCTTCTC
1 TCAAAGTCCACGACTCAGTGGC-ATCTCTTTTT-TAAGTCCACGACTCAGTGGC-ATCTCTTCTC
*
414500 AAAGTCCACGACTTAGTGGC-ATCTCTTT
63 AAAGTCCACGACTCAGTGGCAATCTCTTT
** * * * * * **
414528 TTTACGTCCACAACTCAGTGGCATCT-TTTCTTCAAAGTCCATGACTCAGTGGCATCTCTTTTTT
1 TCAAAGTCCACGACTCAGTGGCATCTCTTT-TT-TAAGTCCACGACTCAGTGGCATCTCTTCTCA
*
414592 AAGTCCACGACTCAGTGGC-ATCTTTTCT
64 AAGTCCACGACTCAGTGGCAATCTCTT-T
* ** * *
414620 TAAAAGTCCATAACTCAGTGGCATCTCTTTTCTTTAAGTCCATGACTTAGTGGCAATCTCTTCTC
1 TCAAAGTCCACGACTCAGTGGCATCTC-TTT-TTTAAGTCCACGACTCAGTGGC-ATCTCTTCTC
* *
414685 AAAGTCTACGACTCAGTGGCAATCTCTTC
63 AAAGTCCACGACTCAGTGGCAATCTCTTT
* * * *
414714 TCAAAGTCCACGACTCAGTGGTATCTCTTTTTTAAGTCCATGACTCAGTGGTATCTTTTCTTCAA
1 TCAAAGTCCACGACTCAGTGGCATCTCTTTTTTAAGTCCACGACTCAGTGGCATCTCTTC-TCAA
**
414779 AGTCCAAAACTCAGTGGC-ATCTCTTT
65 AGTCCACGACTCAGTGGCAATCTCTTT
* * ** *
414805 TCTTTAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACAACTCAGTGGCAATCTCTTCT
1 TC--AAAGTCCACGACTCAGTGGC-ATCTCTTTTTTAAGTCCACGACTCAGTGGC-ATCTCTTCT
414870 CAAAGTCCACGACTCAGTGGCAATCTCTTT
62 CAAAGTCCACGACTCAGTGGCAATCTCTTT
* * * *
414900 TCAAAGTCCATGACTCAGTGGCATCTCTTTTTTAAGTCCACAACTCAATGGCATCTTTTCTTCAA
1 TCAAAGTCCACGACTCAGTGGCATCTCTTTTTTAAGTCCACGACTCAGTGGCATCTCTTC-TCAA
* * * *
414965 ATTCCACGACTCACTAGTAATCTC--T
65 AGTCCACGACTCAGTGGCAATCTCTTT
* *
414990 TCAAAGTCCACGACCCAGTGGCATCTCTTTTTTAAGTCCACGACTCAGTGGCATCTTTTCTTCAA
1 TCAAAGTCCACGACTCAGTGGCATCTCTTTTTTAAGTCCACGACTCAGTGGCATCTCTTC-TCAA
*
415055 AGTCCACGACTCAGTGGCAAT-T-TCT
65 AGTCCACGACTCAGTGGCAATCTCTTT
* * * *
415080 TCAAAGACCACAACTCAGTGGCGTCTCTTTTGTTTAAGTCCATGACTCAGTGGCAATCTCTTCTC
1 TCAAAGTCCACGACTCAGTGGCATCTC-TTT-TTTAAGTCCACGACTCAGTGGC-ATCTCTTCTC
* ** *
415145 AAAGCCCATAACTCAGTGGCAATCTCTTC
63 AAAGTCCACGACTCAGTGGCAATCTCTTT
* * *
415174 TCAAAGTCCACGACTCAGTGGCATCTCTTTTTTAAGTCCACAACTTAGTGGCATCTTTTCTTCAA
1 TCAAAGTCCACGACTCAGTGGCATCTCTTTTTTAAGTCCACGACTCAGTGGCATCTCTTC-TCAA
* *
415239 AGTCCATGACTTAGTGGCAATCTC--T
65 AGTCCACGACTCAGTGGCAATCTCTTT
* * ** * *
415264 TCAAAGTCCACGACTCAATGGCAATCTCTTCTCAAAGTCCATGACTCAGTAGCA-C-CTTGCTCT
1 TCAAAGTCCACGACTCAGTGGC-ATCTCTTTTTTAAGTCCACGACTCAGTGGCATCTCTT-CTC-
*
415327 TAAAGTCCACGACTCTGTGGCA
63 -AAAGTCCACGACTCAGTGGCA
415349 CCTTTTTCTT
Statistics
Matches: 698, Mismatches: 98, Indels: 52
0.82 0.12 0.06
Matches are distributed among these distances:
89 5 0.01
90 126 0.18
91 110 0.16
92 225 0.32
93 85 0.12
94 124 0.18
95 23 0.03
ACGTcount: A:0.25, C:0.28, G:0.15, T:0.32
Consensus pattern (91 bp):
TCAAAGTCCACGACTCAGTGGCATCTCTTTTTTAAGTCCACGACTCAGTGGCATCTCTTCTCAAA
GTCCACGACTCAGTGGCAATCTCTTT
Found at i:415401 original size:27 final size:27
Alignment explanation
Indices: 415371--415571 Score: 123
Period size: 27 Copynumber: 6.7 Consensus size: 27
415361 TGAAGTCTAT
* * *
415371 AACTCTGTGGCACACTTTTAAGTTCAC
1 AACTCCGTGGCACCCTTTTAAGTCCAC
415398 AACTCCGTGGCATCTTTGTCCCTTTTAAGTCCAC
1 AACTCCGTGGCA-------CCCTTTTAAGTCCAC
415432 AACTCCGTGGCACCCTTTTAAGTCCAC
1 AACTCCGTGGCACCCTTTTAAGTCCAC
*
415459 AACTCCGTGGCATCTTTTTTCCTTTTAAATCCAC
1 AACTCCGTGGCA-C------CCTTTTAAGTCCAC
*
415493 AACTCTGTGGCACCTTTTTCATTTTAAGTCCAC
1 AACTCCGTGGCACC-----C-TTTTAAGTCCAC
* ** *
415526 AACCCCGTGGCATGCTTTTACGTCCAC
1 AACTCCGTGGCACCCTTTTAAGTCCAC
* *
415553 AACTCCATGGCACCTTTTT
1 AACTCCGTGGCACCCTTTT
415572 CCCTTTTAAG
Statistics
Matches: 138, Mismatches: 16, Indels: 40
0.71 0.08 0.21
Matches are distributed among these distances:
27 64 0.46
28 2 0.01
32 1 0.01
33 22 0.16
34 49 0.36
ACGTcount: A:0.21, C:0.31, G:0.13, T:0.34
Consensus pattern (27 bp):
AACTCCGTGGCACCCTTTTAAGTCCAC
Found at i:415423 original size:34 final size:33
Alignment explanation
Indices: 415385--415732 Score: 212
Period size: 34 Copynumber: 10.9 Consensus size: 33
415375 CTGTGGCACA
*
415385 CTTTTAAGTTCACAACTCCGTGGCATCTTTGTCC
1 CTTTTAAGTCCACAACTCCGTGGCATCTTT-TCC
415419 CTTTTAAGTCCACAACTCCGTGGCA------CC
1 CTTTTAAGTCCACAACTCCGTGGCATCTTTTCC
*
415446 CTTTTAAGTCCACAACTCCGTGGCATCTTTTTTC
1 CTTTTAAGTCCACAACTCCGTGGCATC-TTTTCC
* * * *
415480 CTTTTAAATCCACAACTCTGTGGCACCTTTTTC
1 CTTTTAAGTCCACAACTCCGTGGCATCTTTTCC
* * *
415513 ATTTTAAGTCCACAACCCCGTGGCA-----T-G
1 CTTTTAAGTCCACAACTCCGTGGCATCTTTTCC
* * *
415540 CTTTTACGTCCACAACTCCATGGCACCTTTTTCC
1 CTTTTAAGTCCACAACTCCGTGGCATC-TTTTCC
* * * **
415574 CTTTTAAGCCCACACCTCCATGGCATCCTTTTTT
1 CTTTTAAGTCCACAACTCCGTGGCAT-CTTTTCC
* * *
415608 CTTGTAAGTCCATAAC-CCTGTGGCA------CG
1 CTTTTAAGTCCACAACTCC-GTGGCATCTTTTCC
* * *
415635 CTTTTAAGTCCATAACTCCGTGGCACCTTTTTTC
1 CTTTTAAGTCCACAACTCCGTGGCATC-TTTTCC
* * ** **
415669 CTTTTAAGCCCACACCTCTATGGCATCCTTTTTT
1 CTTTTAAGTCCACAACTCCGTGGCAT-CTTTTCC
* * *
415703 CTTGTAAGTCTACAACTCCGTGGCACCTTT
1 CTTTTAAGTCCACAACTCCGTGGCATCTTT
415733 AAGTCCAATA
Statistics
Matches: 244, Mismatches: 45, Indels: 51
0.72 0.13 0.15
Matches are distributed among these distances:
27 69 0.28
28 3 0.01
33 34 0.14
34 136 0.56
35 2 0.01
ACGTcount: A:0.20, C:0.32, G:0.13, T:0.36
Consensus pattern (33 bp):
CTTTTAAGTCCACAACTCCGTGGCATCTTTTCC
Found at i:415428 original size:61 final size:60
Alignment explanation
Indices: 415329--415510 Score: 222
Period size: 61 Copynumber: 3.0 Consensus size: 60
415319 CTTGCTCTTA
* * * * * * *
415329 AAGTCCACGACTCTGTGGCACCTTT-TTCTTTTTGAAGTCTATAACTCTGTGGCACACTTTT
1 AAGTCCACAACTCCGTGGCATCTTTGTCCCTTTT-AAGTCCACAACTCTGTGGCAC-CTTTT
* *
415390 AAGTTCACAACTCCGTGGCATCTTTGTCCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCATCTTTGTCCCTTTTAAGTCCACAACTCTGTGGCA-CCTTTT
* * *
415451 AAGTCCACAACTCCGTGGCATCTTTTTTCCTTTTAAATCCACAACTCTGTGGCACCTTTT
1 AAGTCCACAACTCCGTGGCATCTTTGTCCCTTTTAAGTCCACAACTCTGTGGCACCTTTT
415511 TCATTTTAAG
Statistics
Matches: 105, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
60 6 0.06
61 92 0.88
62 7 0.07
ACGTcount: A:0.20, C:0.29, G:0.14, T:0.36
Consensus pattern (60 bp):
AAGTCCACAACTCCGTGGCATCTTTGTCCCTTTTAAGTCCACAACTCTGTGGCACCTTTT
Found at i:415494 original size:95 final size:95
Alignment explanation
Indices: 415385--415739 Score: 414
Period size: 95 Copynumber: 3.8 Consensus size: 95
415375 CTGTGGCACA
** * * *
415385 CTTTTAAGTTCACAACTCCGTGGCAT-CTTTGTCCCTTTTAAGTCCACAACTCCGTGGCACCCTT
1 CTTTTAAGCCCACAACTCCATGGCATCCTTT-TTCCTTGTAAGTCCACAACTCCGTGGCACCCTT
*
415449 TTAAGTCCACAACTCCGTGGCATCTTTTTTC
65 TTAAGTCCACAACTCCGTGGCACCTTTTTTC
** ** * * * **
415480 CTTTTAAATCCACAACTCTGTGGCA-CCTTTTTCATTTTAAGTCCACAACCCCGTGGCATGCTTT
1 CTTTTAAGCCCACAACTCCATGGCATCCTTTTTCCTTGTAAGTCCACAACTCCGTGGCACCCTTT
* * *
415544 TACGTCCACAACTCCATGGCACCTTTTTCC
66 TAAGTCCACAACTCCGTGGCACCTTTTTTC
* * * *
415574 CTTTTAAGCCCACACCTCCATGGCATCCTTTTTTCTTGTAAGTCCATAAC-CCTGTGGCACGCTT
1 CTTTTAAGCCCACAACTCCATGGCATCCTTTTTCCTTGTAAGTCCACAACTCC-GTGGCACCCTT
*
415638 TTAAGTCCATAACTCCGTGGCACCTTTTTTC
65 TTAAGTCCACAACTCCGTGGCACCTTTTTTC
* * * *
415669 CTTTTAAGCCCACACCTCTATGGCATCCTTTTTTCTTGTAAGTCTACAACTCCGTGGCA-CC-TT
1 CTTTTAAGCCCACAACTCCATGGCATCCTTTTTCCTTGTAAGTCCACAACTCCGTGGCACCCTTT
415732 TAAGTCCA
66 TAAGTCCA
415740 ATATCGCTGG
Statistics
Matches: 226, Mismatches: 30, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
93 10 0.04
94 78 0.35
95 136 0.60
96 2 0.01
ACGTcount: A:0.20, C:0.32, G:0.13, T:0.35
Consensus pattern (95 bp):
CTTTTAAGCCCACAACTCCATGGCATCCTTTTTCCTTGTAAGTCCACAACTCCGTGGCACCCTTT
TAAGTCCACAACTCCGTGGCACCTTTTTTC
Found at i:415553 original size:60 final size:61
Alignment explanation
Indices: 415478--415605 Score: 161
Period size: 60 Copynumber: 2.1 Consensus size: 61
415468 GCATCTTTTT
** ** * *
415478 TCCTTTTAAATCCACAACTCTGTGGCACCTTTTT-CATTTTAAGTCCACAACC-CCGTGGCA
1 TCCTTTTACGTCCACAACTCCATGGCACCTTTTTCCATTTTAAGCCCAC-ACCTCCATGGCA
* *
415538 TGCTTTTACGTCCACAACTCCATGGCACCTTTTTCCCTTTTAAGCCCACACCTCCATGGCA
1 TCCTTTTACGTCCACAACTCCATGGCACCTTTTTCCATTTTAAGCCCACACCTCCATGGCA
415599 TCCTTTT
1 TCCTTTT
415606 TTCTTGTAAG
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
60 32 0.56
61 25 0.44
ACGTcount: A:0.20, C:0.34, G:0.11, T:0.34
Consensus pattern (61 bp):
TCCTTTTACGTCCACAACTCCATGGCACCTTTTTCCATTTTAAGCCCACACCTCCATGGCA
Found at i:415666 original size:27 final size:27
Alignment explanation
Indices: 415612--415665 Score: 85
Period size: 27 Copynumber: 2.0 Consensus size: 27
415602 TTTTTTCTTG
415612 TAAGTCCATAACCCTGTGGCACGCTTT
1 TAAGTCCATAACCCTGTGGCACGCTTT
415639 TAAGTCCATAACTCC-GTGGCAC-CTTT
1 TAAGTCCATAAC-CCTGTGGCACGCTTT
415665 T
1 T
415666 TTCCTTTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
26 5 0.19
27 19 0.73
28 2 0.08
ACGTcount: A:0.22, C:0.30, G:0.17, T:0.31
Consensus pattern (27 bp):
TAAGTCCATAACCCTGTGGCACGCTTT
Found at i:415693 original size:61 final size:61
Alignment explanation
Indices: 415574--415693 Score: 136
Period size: 61 Copynumber: 2.0 Consensus size: 61
415564 ACCTTTTTCC
* * *
415574 CTTTTAAGCCCACACCTCCATGGCATCCTTTTTTCTTGTAAGTCCATAACCCTGTGGCACG
1 CTTTTAAGCCCACAACTCCATGGCATCCTTTTTTCTTGTAAGCCCATAACCCTATGGCACG
* * * * *
415635 CTTTTAAGTCCATAACTCCGTGGCA-CCTTTTTTCCTTTTAAGCCCA-CACCTCTATGGCA
1 CTTTTAAGCCCACAACTCCATGGCATCCTTTTTT-CTTGTAAGCCCATAACC-CTATGGCA
415694 TCCTTTTTTC
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
60 11 0.22
61 38 0.78
ACGTcount: A:0.20, C:0.33, G:0.13, T:0.34
Consensus pattern (61 bp):
CTTTTAAGCCCACAACTCCATGGCATCCTTTTTTCTTGTAAGCCCATAACCCTATGGCACG
Found at i:415802 original size:49 final size:49
Alignment explanation
Indices: 415729--416293 Score: 493
Period size: 49 Copynumber: 11.8 Consensus size: 49
415719 TCCGTGGCAC
* *
415729 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTTGCACCTTTAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCAT
* * * * * *
415778 CTTTAAGACCAATGTTGCTAGCCTTAAATCAGCACATTGGCA----C--
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCAT
* *
415821 CTTTAAGTCCAATATCGTTGTCCTTGAATCAGCATATTGGCACCTTTACCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TT--CAT
* * ** * *
415873 C-TTGAGTCCAATATCGCTAGAATTGAATCAGCATATTGGCATCTT-GT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCAT
* * * *
415920 CTCTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGG------CA-
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCAT
* *
415962 C---AAGCCCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCAT
* ** * *
416008 CTTTAAGGCTGATGTCGTTGGCCTTGAATCAGCATATTGGCACCTTAACCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT---CAT
* * * * *
416060 CTTTAAGTCCAATGTCGCCGGCCTTGAATCAGCACATTAGCATCTTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCAT
* * *
416109 CTGTAAGTCCGATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCAT
* * * * *
416158 CTTTAAGACCGATGTCGCTAGCCTTGAATTAGCATATTGGCA-CTGTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCT-TCAT
** * * * *
416207 CTTTAAAACCAATGTCGCTGGCCTTGAATCAACACATTGGCATCTTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCAT
* * *
416256 CTTTAAGTCCGATATCGTTGGCCTTCAATCAGCATATT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATT
416294 AGCATCTTTA
Statistics
Matches: 411, Mismatches: 79, Indels: 52
0.76 0.15 0.10
Matches are distributed among these distances:
39 32 0.08
42 1 0.00
43 34 0.08
45 2 0.00
46 1 0.00
47 2 0.00
48 32 0.08
49 225 0.55
50 5 0.01
51 35 0.09
52 42 0.10
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (49 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCAT
Found at i:416049 original size:88 final size:87
Alignment explanation
Indices: 415880--416050 Score: 225
Period size: 88 Copynumber: 2.0 Consensus size: 87
415870 CATCTTGAGT
* * *
415880 CCAATATCGCTAGAATTGAATCAGCATATTGGCATCTTGTCTCTAAGACCAATGTCGCTGGCCTT
1 CCAATATCGCTAGAATTGAATCAACATATTGGCACCTTATCTCTAAGACCAATGTCGCTGGCCTT
415945 GAATCAGCACATTGGCACAAGC
66 GAATCAGCACATTGGCACAAGC
* ** * * ** *
415967 CCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTCATCTTTAAGGCTGATGTCGTTGGCCT
1 CCAATATCGCTAGAATTGAATCAACATATTGGCACCTT-ATCTCTAAGACCAATGTCGCTGGCCT
*
416032 TGAATCAGCATATTGGCAC
65 TGAATCAGCACATTGGCAC
416051 CTTAACCATC
Statistics
Matches: 71, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
87 33 0.46
88 38 0.54
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (87 bp):
CCAATATCGCTAGAATTGAATCAACATATTGGCACCTTATCTCTAAGACCAATGTCGCTGGCCTT
GAATCAGCACATTGGCACAAGC
Found at i:417237 original size:33 final size:33
Alignment explanation
Indices: 417180--417245 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
417170 GCTAAGGAAA
*
417180 TGTATCGATACATTATTCAATGTATTGATACAT
1 TGTATCGATACATTATTCAATGTATCGATACAT
**
417213 TGTATCGATACATTGA-TCTTTGTATCGATACAT
1 TGTATCGATACATT-ATTCAATGTATCGATACAT
417246 CTGGAATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATTATTCAATGTATCGATACAT
Found at i:422321 original size:2 final size:2
Alignment explanation
Indices: 422314--422339 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
422304 TAATAAAAGT
422314 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
422340 GAATAATACA
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):
TA
Found at i:427066 original size:13 final size:13
Alignment explanation
Indices: 427048--427073 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
427038 ACATTTGGTC
427048 ATGTATCGATACA
1 ATGTATCGATACA
427061 ATGTATCGATACA
1 ATGTATCGATACA
427074 TCTTGTATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:427068 original size:33 final size:32
Alignment explanation
Indices: 427026--427092 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 32
427016 CGTTACAAGC
427026 CAATGTATCGATACAT-TTGGTCATGTATCGATA
1 CAATGTATCGATACATCTT-GT-ATGTATCGATA
427059 CAATGTATCGATACATCTTGTATGTATCGATA
1 CAATGTATCGATACATCTTGTATGTATCGATA
427091 CA
1 CA
427093 TACAGTTAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
32 13 0.39
33 18 0.55
34 2 0.06
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.36
Consensus pattern (32 bp):
CAATGTATCGATACATCTTGTATGTATCGATA
Found at i:427781 original size:22 final size:22
Alignment explanation
Indices: 427754--427799 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
427744 TTTCCTTTTC
427754 TCTCCCCCTTAATCAAAA-AATT
1 TCTCCCCCTTAAT-AAAACAATT
427776 TCTCCCCCTTAATAAAACAATT
1 TCTCCCCCTTAATAAAACAATT
427798 TC
1 TC
427800 CTTTAATCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 4 0.17
22 19 0.83
ACGTcount: A:0.35, C:0.33, G:0.00, T:0.33
Consensus pattern (22 bp):
TCTCCCCCTTAATAAAACAATT
Found at i:427838 original size:29 final size:29
Alignment explanation
Indices: 427804--427862 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
427794 AATTTCCTTT
427804 AATCACATGTTTCTTTCTCCCCCTTAATC
1 AATCACATGTTTCTTTCTCCCCCTTAATC
427833 AATCACATGTTTCTTTCTCCCCCTTAATC
1 AATCACATGTTTCTTTCTCCCCCTTAATC
427862 A
1 A
427863 TAAAAATTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.22, C:0.34, G:0.03, T:0.41
Consensus pattern (29 bp):
AATCACATGTTTCTTTCTCCCCCTTAATC
Found at i:429239 original size:20 final size:22
Alignment explanation
Indices: 429200--429242 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
429190 GATGTGAGTG
*
429200 TGGGGGCTGCCCGGTTGCGACC
1 TGGGGGCTGCCCGGTCGCGACC
429222 TGGGGG-TG-CCGGTCGCGACC
1 TGGGGGCTGCCCGGTCGCGACC
429242 T
1 T
429243 AGTGAGTGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 12 0.60
21 2 0.10
22 6 0.30
ACGTcount: A:0.05, C:0.30, G:0.47, T:0.19
Consensus pattern (22 bp):
TGGGGGCTGCCCGGTCGCGACC
Found at i:429698 original size:13 final size:13
Alignment explanation
Indices: 429680--429715 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
429670 AACCCTTTTG
*
429680 TATCGATACACTA
1 TATCGATACAATA
*
429693 TATCGATACAATG
1 TATCGATACAATA
429706 TATCGATACA
1 TATCGATACA
429716 GAGAATGCTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.31
Consensus pattern (13 bp):
TATCGATACAATA
Found at i:429775 original size:20 final size:20
Alignment explanation
Indices: 429750--429804 Score: 110
Period size: 20 Copynumber: 2.8 Consensus size: 20
429740 AGTTTTCCAG
429750 ATGTATCGATACATTAGAAC
1 ATGTATCGATACATTAGAAC
429770 ATGTATCGATACATTAGAAC
1 ATGTATCGATACATTAGAAC
429790 ATGTATCGATACATT
1 ATGTATCGATACATT
429805 TTGGAATTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACATTAGAAC
Found at i:435936 original size:32 final size:33
Alignment explanation
Indices: 435874--435937 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
435864 GTTACAAGCC
435874 AATGTATCGATACATTTGGTCATGTATCGATAT
1 AATGTATCGATACATTTGGTCATGTATCGATAT
*
435907 AATGTATCGATACATTTTGT-ATGTATCGATA
1 AATGTATCGATACATTTGGTCATGTATCGATA
435938 CAAACAGTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 11 0.37
33 19 0.63
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.41
Consensus pattern (33 bp):
AATGTATCGATACATTTGGTCATGTATCGATAT
Found at i:439568 original size:87 final size:87
Alignment explanation
Indices: 439422--439682 Score: 423
Period size: 87 Copynumber: 3.0 Consensus size: 87
439412 TCCTCAAAAA
*
439422 CATCCCTAAACACAAAATCACCTAAAAATTCAAAACACCTATTTCTTCCGGCCCTAACTCCCCAT
1 CATCCCTAAACACAAAATCACCTAAAAATTCAAAACACCTATTTCTTCCAGCCCTAACTCCCCAT
439487 CTTTCCTAATTTCAATTTTTTT
66 CTTTCCTAATTTCAATTTTTTT
439509 CATCCCTAAACACAAAATCACCTAAAAATTCAAAACACCTATTTCTTCCAGCCCTAACTCCCCAT
1 CATCCCTAAACACAAAATCACCTAAAAATTCAAAACACCTATTTCTTCCAGCCCTAACTCCCCAT
439574 CTTTCCTAATTTCAATTTTTTT
66 CTTTCCTAATTTCAATTTTTTT
* * * * ** **
439596 CATCCCTAAACACAAAATCACCTATAAATTCTAAACACCTATTCCTTCCAACTTTAACTCCTTAT
1 CATCCCTAAACACAAAATCACCTAAAAATTCAAAACACCTATTTCTTCCAGCCCTAACTCCCCAT
* *
439661 CTTTCCCAATTTTAATTTTTTT
66 CTTTCCTAATTTCAATTTTTTT
439683 TTCAAAGTTC
Statistics
Matches: 163, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
87 163 1.00
ACGTcount: A:0.33, C:0.31, G:0.01, T:0.35
Consensus pattern (87 bp):
CATCCCTAAACACAAAATCACCTAAAAATTCAAAACACCTATTTCTTCCAGCCCTAACTCCCCAT
CTTTCCTAATTTCAATTTTTTT
Done.