Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008943.1 Hibiscus syriacus cultivar Beakdansim tig00112264_pilon, whole genome shotgun sequence
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: 1742779
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
File 2 of 5
Found at i:375194 original size:42 final size:42
Alignment explanation
Indices: 375032--375429 Score: 372
Period size: 43 Copynumber: 9.3 Consensus size: 42
375022 GATCTATTTG
* * *
375032 GAACAAACGCCGCTAAAGGTCGATATCTATAGCGGC-ATTTTA
1 GAACAAACGCCGCAAAAGGTC-AGATCTATAGCGGCGTTTTTA
* * * * *
375074 GGAACAAATGCCGCTAAAGGTCGATATATATAGTGGCGTTTTT-
1 -GAACAAACGCCGCAAAAGGTC-AGATCTATAGCGGCGTTTTTA
* * * * *
375117 GAACCAAATGCCACAAAAGATAGAGATCTATAGCGGCGTTTTCA
1 GAA-CAAACGCCGCAAAAGGT-CAGATCTATAGCGGCGTTTTTA
* * *
375161 AAACAAACGCCGCAAAATGTCAGATCTATAGCGGCATTTTTA
1 GAACAAACGCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTA
* *
375203 GAACAAAATGCCGCAAAAGGTC-GTTCTATAGCGGCGTTTTATA
1 GAAC-AAACGCCGCAAAAGGTCAGATCTATAGCGGCGTTTT-TA
* * * *
375246 -TACAAATGCCACAAAAGGTCAGATCTATAGCGGCGTTTTTT
1 GAACAAACGCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTA
* **
375287 GAACAAACGCCGCAAAAGGTCAGAATCTATAGCAGCGTTTTCG
1 GAACAAACGCCGCAAAAGGTCAG-ATCTATAGCGGCGTTTTTA
* *
375330 GAACAAACACCGCAAAAGGTCAGAGCTATAGCGGCGTTTTTTAA
1 GAACAAACGCCGCAAAAGGTCAGATCTATAGCGGCG-TTTTT-A
* * * * *
375374 TATATAAACGTCGCAAAAGGTCAGTTCTATAGCGGCTTTTTTA
1 GA-ACAAACGCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTA
*
375417 GAACAAATGCCGC
1 GAACAAACGCCGC
375430 CAATTATGCA
Statistics
Matches: 292, Mismatches: 51, Indels: 25
0.79 0.14 0.07
Matches are distributed among these distances:
41 17 0.06
42 98 0.34
43 137 0.47
44 12 0.04
45 28 0.10
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.25
Consensus pattern (42 bp):
GAACAAACGCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTA
Found at i:375458 original size:130 final size:126
Alignment explanation
Indices: 375032--375429 Score: 349
Period size: 127 Copynumber: 3.1 Consensus size: 126
375022 GATCTATTTG
* * * * * ** *
375032 GAACAAACGCCGCTAAAGGTCGA-TATCTATAGCGGCATTTTAGGAACAAATGCCGCTAAAGGTC
1 GAACAAACGCCGCAAAAGGTC-ACAATCTATAGCAGCGTTTTCGGAACAAACACCGCAAAAGGTC
** * * * *
375096 GATATATATAGTGGCGTTTT-TGA-ACCAAATGCCACAAAAGATAGAGATCTATAGCGGCGTTTT
65 G--AGCTATAGCGGCGTTTTAT-ATA-CAAACGCCACAAAAGGT-CAGATCTATAGCGGCGTTTT
**
375159 CA
125 TT
* * * * * **
375161 AAACAAACGCCGCAAAATGTCA-GATCTATAGCGGCATTTTTAGAACAAA-ATGCCGCAAAAGGT
1 GAACAAACGCCGCAAAAGGTCACAATCTATAGCAGCGTTTTCGGAACAAACA--CCGCAAAAGGT
** *
375224 CGTTCTATAGCGGCGTTTTATATACAAATGCCACAAAAGGTCAGATCTATAGCGGCGTTTTTT
64 CGAGCTATAGCGGCGTTTTATATACAAACGCCACAAAAGGTCAGATCTATAGCGGCGTTTTTT
*
375287 GAACAAACGCCGCAAAAGGTCAGAATCTATAGCAGCGTTTTCGGAACAAACACCGCAAAAGGTCA
1 GAACAAACGCCGCAAAAGGTCACAATCTATAGCAGCGTTTTCGGAACAAACACCGCAAAAGGTC-
* * * *
375352 GAGCTATAGCGGCGTTTTTTAATATATAAACGTCGCAAAAGGTCAGTTCTATAGCGGC-TTTTTT
65 GAGCTATAGCGGCG--TTTT-ATATACAAACGCCACAAAAGGTCAGATCTATAGCGGCGTTTTTT
*
375416 AGAACAAATGCCGC
1 -GAACAAACGCCGC
375430 CAATTATGCA
Statistics
Matches: 228, Mismatches: 30, Indels: 21
0.82 0.11 0.08
Matches are distributed among these distances:
126 51 0.22
127 65 0.29
128 28 0.12
129 40 0.18
130 44 0.19
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.25
Consensus pattern (126 bp):
GAACAAACGCCGCAAAAGGTCACAATCTATAGCAGCGTTTTCGGAACAAACACCGCAAAAGGTCG
AGCTATAGCGGCGTTTTATATACAAACGCCACAAAAGGTCAGATCTATAGCGGCGTTTTTT
Found at i:375990 original size:20 final size:20
Alignment explanation
Indices: 375965--376019 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
375955 ATACTAAGCT
375965 AAAATGAGAAAATTCATTTA
1 AAAATGAGAAAATTCATTTA
375985 AAAATGATG-AAATTCATTTA
1 AAAATGA-GAAAATTCATTTA
*
376005 AAAATGATAAAATTC
1 AAAATGAGAAAATTC
376020 CAAACAAACT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 31 0.97
21 1 0.03
ACGTcount: A:0.55, C:0.05, G:0.09, T:0.31
Consensus pattern (20 bp):
AAAATGAGAAAATTCATTTA
Found at i:379055 original size:41 final size:41
Alignment explanation
Indices: 379003--379225 Score: 277
Period size: 41 Copynumber: 5.4 Consensus size: 41
378993 TTATAAATAC
* * *
379003 AAACGCCACTAAAGTACCAGTGTATAGCGGTATTTGTATAA
1 AAACGCCACTAAAGTACAAGTCTATAGCGGTGTTTGTATAA
* **
379044 AAACGCCACTAAAGTACAAGTGTATAGCGACGTTTGTATAA
1 AAACGCCACTAAAGTACAAGTCTATAGCGGTGTTTGTATAA
* * * *
379085 AAACGCCACTAAAGTACAAGTCTTTCGCGGTGTTTATAAACAA
1 AAACGCCACTAAAGTACAAGTCTATAGCGGTGTTTGT--ATAA
* * *
379128 AAACTCCACTAAAGTACAATTATATAG-GGTGTTTGTATAA
1 AAACGCCACTAAAGTACAAGTCTATAGCGGTGTTTGTATAA
* *
379168 AAATGCCACTAAAGTACAAGTCTATAGCGATGTTTGTATAA
1 AAACGCCACTAAAGTACAAGTCTATAGCGGTGTTTGTATAA
*
379209 AAACGCCATTAAAGTAC
1 AAACGCCACTAAAGTAC
379226 TACTTTGTTG
Statistics
Matches: 154, Mismatches: 25, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
40 26 0.17
41 95 0.62
42 8 0.05
43 25 0.16
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.27
Consensus pattern (41 bp):
AAACGCCACTAAAGTACAAGTCTATAGCGGTGTTTGTATAA
Found at i:379202 original size:83 final size:82
Alignment explanation
Indices: 379003--379225 Score: 268
Period size: 83 Copynumber: 2.7 Consensus size: 82
378993 TTATAAATAC
* * * * * *
379003 AAACGCCACTAAAGTACCAGTGTATAGCGGTATTTGTATAAAAACGCCACTAAAGTACAAGTGTA
1 AAACGCCACTAAAGTACAAGTCTATAGCGGTGTTTATACAAAAACGCCACTAAAGTACAAGTATA
379068 TAGCGACGTTTGTATAA
66 TAGCGACGTTTGTATAA
* * * *
379085 AAACGCCACTAAAGTACAAGTCTTTCGCGGTGTTTATAAACAAAAACTCCACTAAAGTACAATTA
1 AAACGCCACTAAAGTACAAGTCTATAGCGGTGTTTAT--ACAAAAACGCCACTAAAGTACAAGTA
**
379150 TATAG-GGTGTTTGTATAA
64 TATAGCGACGTTTGTATAA
* * * * *
379168 AAATGCCACTAAAGTACAAGTCTATAGCGATGTTTGTATAAAAACGCCATTAAAGTAC
1 AAACGCCACTAAAGTACAAGTCTATAGCGGTGTTTATACAAAAACGCCACTAAAGTAC
379226 TACTTTGTTG
Statistics
Matches: 119, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.15
82 31 0.26
83 43 0.36
84 27 0.23
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.27
Consensus pattern (82 bp):
AAACGCCACTAAAGTACAAGTCTATAGCGGTGTTTATACAAAAACGCCACTAAAGTACAAGTATA
TAGCGACGTTTGTATAA
Found at i:379212 original size:124 final size:125
Alignment explanation
Indices: 378991--379225 Score: 364
Period size: 124 Copynumber: 1.9 Consensus size: 125
378981 AATTTGTGGC
* * * *
378991 GTTTATAAATACAAACGCCACTAAAGTACCAGTGTATAGCGGTATTTGTATAAAAACGCCACTAA
1 GTTTATAAACAAAAACGCCACTAAAGTACAAGTATATAGCGGTATTTGTATAAAAACGCCACTAA
*
379056 AGTACAAGTGTATAGCGACGTTTGTATAAAAACGCCACTAAAGTACAAGTCTTTCGCGGT
66 AGTACAAGTCTATAGCGACGTTTGTATAAAAACGCCACTAAAGTACAAGTCTTTCGCGGT
* * * *
379116 GTTTATAAACAAAAACTCCACTAAAGTACAATTATATAG-GGTGTTTGTATAAAAATGCCACTAA
1 GTTTATAAACAAAAACGCCACTAAAGTACAAGTATATAGCGGTATTTGTATAAAAACGCCACTAA
* *
379180 AGTACAAGTCTATAGCGATGTTTGTATAAAAACGCCATTAAAGTAC
66 AGTACAAGTCTATAGCGACGTTTGTATAAAAACGCCACTAAAGTAC
379226 TACTTTGTTG
Statistics
Matches: 99, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
124 66 0.67
125 33 0.33
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.28
Consensus pattern (125 bp):
GTTTATAAACAAAAACGCCACTAAAGTACAAGTATATAGCGGTATTTGTATAAAAACGCCACTAA
AGTACAAGTCTATAGCGACGTTTGTATAAAAACGCCACTAAAGTACAAGTCTTTCGCGGT
Found at i:415546 original size:17 final size:17
Alignment explanation
Indices: 415512--415553 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
415502 CCATTCCCTT
* *
415512 TCTTT-GAGAGAAATTC
1 TCTTTCGAGAAAAACTC
415528 TCTTTCGAGAAAAACTC
1 TCTTTCGAGAAAAACTC
*
415545 TCGTTCGAG
1 TCTTTCGAG
415554 CAATAAACAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (17 bp):
TCTTTCGAGAAAAACTC
Found at i:429465 original size:59 final size:59
Alignment explanation
Indices: 429376--429498 Score: 149
Period size: 59 Copynumber: 2.1 Consensus size: 59
429366 TTTGGGATTT
* ** * *
429376 CACTAAAGGATACCTAGTGTAAATGGTGGGCATGACATTATGTGTCATATTCGGGTTAG
1 CACTAAAGGATACCTAGTGTAAATGATGGGCACAACATTATATGTCATATTCAGGTTAG
* * * *
429435 CACTAAATGATACCTAGTGCT-GATGATGGGCACAACCTTATATGTTATATTCAGGTTAG
1 CACTAAAGGATACCTAGTG-TAAATGATGGGCACAACATTATATGTCATATTCAGGTTAG
429494 CACTA
1 CACTA
429499 TAGTGTATAC
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
59 53 0.98
60 1 0.02
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (59 bp):
CACTAAAGGATACCTAGTGTAAATGATGGGCACAACATTATATGTCATATTCAGGTTAG
Found at i:434943 original size:60 final size:60
Alignment explanation
Indices: 434838--435265 Score: 590
Period size: 60 Copynumber: 7.2 Consensus size: 60
434828 AACTACTCTA
* * **
434838 AGAT-AAAACTTAAATGCCTAACGGTGCATTTTGGCAGAATTGTGCCACTAATGCAAGTT
1 AGATGAAAAGTTAAATGCCTAACTGTGCATTTTGGCAGAAAGGTGCCACTAATGCAAGTT
* *
434897 AGATGAAAAGTTAAATGTCTAACTGTGCATTTTGGTAGAAAGGTGCCACTAATGCAAGTT
1 AGATGAAAAGTTAAATGCCTAACTGTGCATTTTGGCAGAAAGGTGCCACTAATGCAAGTT
* * * *
434957 AGATGAAAAGTTAAAT-CTCTAACTATGCATTTTGGTAGAAAGGTGTCATTAATGCAAGTT
1 AGATGAAAAGTTAAATGC-CTAACTGTGCATTTTGGCAGAAAGGTGCCACTAATGCAAGTT
* *
435017 AGATGAAAAGTTAAATGCCTAACTGTGCATTTTGGGAGAAAGGTTCCACTAATGCAAGTT
1 AGATGAAAAGTTAAATGCCTAACTGTGCATTTTGGCAGAAAGGTGCCACTAATGCAAGTT
* * * * *
435077 AGATGAAAAGATAAATGTCTAATTGTACATTTTGGCAGAAAGGTTCCACTAATGCAAGTT
1 AGATGAAAAGTTAAATGCCTAACTGTGCATTTTGGCAGAAAGGTGCCACTAATGCAAGTT
* *
435137 AGATGAAAAGTTCAATGCCTAACGGTGCATTTTGGCAGAAAGGTGCCACTAATGCAAGTT
1 AGATGAAAAGTTAAATGCCTAACTGTGCATTTTGGCAGAAAGGTGCCACTAATGCAAGTT
* * * * * * * *
435197 AGATGAGAAGTTCAACGCCTAACGGTGTATTTTGGCAGAAAGGTTCCACTAATACAAATT
1 AGATGAAAAGTTAAATGCCTAACTGTGCATTTTGGCAGAAAGGTGCCACTAATGCAAGTT
435257 AGATGAAAA
1 AGATGAAAA
435266 ATTAGAACAG
Statistics
Matches: 332, Mismatches: 34, Indels: 5
0.89 0.09 0.01
Matches are distributed among these distances:
59 4 0.01
60 327 0.98
61 1 0.00
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.29
Consensus pattern (60 bp):
AGATGAAAAGTTAAATGCCTAACTGTGCATTTTGGCAGAAAGGTGCCACTAATGCAAGTT
Found at i:439483 original size:60 final size:60
Alignment explanation
Indices: 439381--439992 Score: 827
Period size: 60 Copynumber: 10.2 Consensus size: 60
439371 AACTGCTCTA
* *
439381 AGAT-AAAATTTAAATGCCTAACTGTGCATTTTGGCTGAAAGGTGCCACTAATGCAAGTT
1 AGATGAAAAGTTAAATGCCTAACTGTGCATTTTGGCAGAAAGGTGCCACTAATGCAAGTT
*
439440 AGATGAAAAGTTAAATGCCTAACTGTGCATTTGGGCAGAAAGGTGCCACTAATGCAAGTT
1 AGATGAAAAGTTAAATGCCTAACTGTGCATTTTGGCAGAAAGGTGCCACTAATGCAAGTT
* *
439500 AGATGAAAAGTTAAATCCCTAACTGTGCATTTTGGCAGAAATGTGCCACTAATGCAAGTT
1 AGATGAAAAGTTAAATGCCTAACTGTGCATTTTGGCAGAAAGGTGCCACTAATGCAAGTT
* * *
439560 AGATGAAAAGTTAAATACCTAACTGTGCATTTTGGAAGAAAGGTGCCACTAATACAAGTT
1 AGATGAAAAGTTAAATGCCTAACTGTGCATTTTGGCAGAAAGGTGCCACTAATGCAAGTT
* * * * *
439620 AGATTAAAAGTTAAATGCTTAATTATGCATTTTGGTAGAAAGGTGTGCCACTAATGCAAGTT
1 AGATGAAAAGTTAAATGCCTAACTGTGCATTTTGGCAGAAA-G-GTGCCACTAATGCAAGTT
* * *
439682 AGATGAAAAGTTAAATGCCTAACTGTGCATTTTAGCATAAATGTGCCACTAATGCAAGTT
1 AGATGAAAAGTTAAATGCCTAACTGTGCATTTTGGCAGAAAGGTGCCACTAATGCAAGTT
* * *
439742 AGATGAAAAGTTAAATGCCTAACTTTGCATTTTGGTAGAAAGGTGTCACTAATGCAAGTT
1 AGATGAAAAGTTAAATGCCTAACTGTGCATTTTGGCAGAAAGGTGCCACTAATGCAAGTT
* ** * *
439802 AGATGAAAAGTTAAATGCCTAATTGTGCATTTTGGTGGAAAGGTGTCAATAATGCAAGTT
1 AGATGAAAAGTTAAATGCCTAACTGTGCATTTTGGCAGAAAGGTGCCACTAATGCAAGTT
* * * * ** *
439862 GGATG-AAAGTTCAATGCCTAGCGGTGCATTTTGATAGAAAGGTGGCACT-ATGCAAGTT
1 AGATGAAAAGTTAAATGCCTAACTGTGCATTTTGGCAGAAAGGTGCCACTAATGCAAGTT
* * * * * * *
439920 AGATGAAAAGTTCAATGCCTAACGGTGTATTTTTGCATAATGGTTCCACTAATG-AGAGTT
1 AGATGAAAAGTTAAATGCCTAACTGTGCATTTTGGCAGAAAGGTGCCACTAATGCA-AGTT
439980 AGATGAAAAGTTA
1 AGATGAAAAGTTA
439993 GAGCAGTGTA
Statistics
Matches: 492, Mismatches: 55, Indels: 11
0.88 0.10 0.02
Matches are distributed among these distances:
58 13 0.03
59 76 0.15
60 351 0.71
61 1 0.00
62 51 0.10
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.30
Consensus pattern (60 bp):
AGATGAAAAGTTAAATGCCTAACTGTGCATTTTGGCAGAAAGGTGCCACTAATGCAAGTT
Found at i:439813 original size:242 final size:241
Alignment explanation
Indices: 439381--439992 Score: 853
Period size: 242 Copynumber: 2.6 Consensus size: 241
439371 AACTGCTCTA
*
439381 AGATAAAATTTAAATGCCTAACTGTGCATTTTGGCT-GAAA-G-GTGCCACTAATGCAAGTTAGA
1 AGATAAAAGTTAAATGCCTAACTGTGCATTTTGG-TAGAAAGGTGTGCCACTAATGCAAGTTAGA
** * *
439443 TGAAAAGTTAAATGCCTAACTGTGCATTTGGGCAGAAAGGTGCCACTAATGCAAGTTAGATGAAA
65 TGAAAAGTTAAATGCCTAACTGTGCATTTTAGCATAAATGTGCCACTAATGCAAGTTAGATGAAA
*
439508 AGTTAAATCCCTAACTGTGCATTTTGGCAGAAATGTGCCACTAATGCAAGTTAGATGAAAAGTTA
130 AGTTAAATCCCTAACTGTGCATTTTGGCAGAAAGGTGCCACTAATGCAAGTTAGATGAAAAGTTA
*
439573 AATACCTAACTGTGCATTTTGGAAGAAAGGTGCCACTAATACAAGTT
195 AATACCTAACTGTGCATTTTGGAAGAAAGGTGCCAATAATACAAGTT
* * *
439620 AGATTAAAAGTTAAATGCTTAATTATGCATTTTGGTAGAAAGGTGTGCCACTAATGCAAGTTAGA
1 AGA-TAAAAGTTAAATGCCTAACTGTGCATTTTGGTAGAAAGGTGTGCCACTAATGCAAGTTAGA
439685 TGAAAAGTTAAATGCCTAACTGTGCATTTTAGCATAAATGTGCCACTAATGCAAGTTAGATGAAA
65 TGAAAAGTTAAATGCCTAACTGTGCATTTTAGCATAAATGTGCCACTAATGCAAGTTAGATGAAA
* * * *
439750 AGTTAAATGCCTAACTTTGCATTTTGGTAGAAAGGTGTCACTAATGCAAGTTAGATGAAAAGTTA
130 AGTTAAATCCCTAACTGTGCATTTTGGCAGAAAGGTGCCACTAATGCAAGTTAGATGAAAAGTTA
* * ** * *
439815 AATGCCTAATTGTGCATTTTGGTGGAAAGGTGTCAATAATGCAAGTT
195 AATACCTAACTGTGCATTTTGGAAGAAAGGTGCCAATAATACAAGTT
* * * * * *
439862 GGATGAAAGTTCAATGCCTAGCGGTGCATTTTGATAGAAAGGTG-G-CACT-ATGCAAGTTAGAT
1 AGATAAAAGTTAAATGCCTAACTGTGCATTTTGGTAGAAAGGTGTGCCACTAATGCAAGTTAGAT
* * * * *
439924 GAAAAGTTCAATGCCTAACGGTGTATTTTTGCAT-AATGGTTCCACTAATG-AGAGTTAGATGAA
66 GAAAAGTTAAATGCCTAACTGTGCATTTTAGCATAAAT-GTGCCACTAATGCA-AGTTAGATGAA
439987 AAGTTA
129 AAGTTA
439993 GAGCAGTGTA
Statistics
Matches: 333, Mismatches: 34, Indels: 13
0.88 0.09 0.03
Matches are distributed among these distances:
237 4 0.01
238 71 0.21
239 8 0.02
240 32 0.10
241 34 0.10
242 184 0.55
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.30
Consensus pattern (241 bp):
AGATAAAAGTTAAATGCCTAACTGTGCATTTTGGTAGAAAGGTGTGCCACTAATGCAAGTTAGAT
GAAAAGTTAAATGCCTAACTGTGCATTTTAGCATAAATGTGCCACTAATGCAAGTTAGATGAAAA
GTTAAATCCCTAACTGTGCATTTTGGCAGAAAGGTGCCACTAATGCAAGTTAGATGAAAAGTTAA
ATACCTAACTGTGCATTTTGGAAGAAAGGTGCCAATAATACAAGTT
Found at i:441855 original size:21 final size:22
Alignment explanation
Indices: 441813--441864 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
441803 GAGAAATTTG
441813 TGAAATTATGAGTATTCAATGT
1 TGAAATTATGAGTATTCAATGT
*
441835 TGAAATT-TGATTATT-AGATGT
1 TGAAATTATGAGTATTCA-ATGT
441856 TGAATATTA
1 TGAA-ATTA
441865 ATTTAGATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 1 0.04
21 15 0.58
22 10 0.38
ACGTcount: A:0.37, C:0.02, G:0.17, T:0.44
Consensus pattern (22 bp):
TGAAATTATGAGTATTCAATGT
Found at i:442216 original size:16 final size:16
Alignment explanation
Indices: 442186--442218 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
442176 TTTTAGTAAT
442186 TAATGTGAAGTGATCA
1 TAATGTGAAGTGATCA
442202 TAATGGTGAAG-GATCA
1 TAAT-GTGAAGTGATCA
442218 T
1 T
442219 TATGAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.30
Consensus pattern (16 bp):
TAATGTGAAGTGATCA
Found at i:443245 original size:40 final size:41
Alignment explanation
Indices: 443190--443270 Score: 110
Period size: 40 Copynumber: 2.0 Consensus size: 41
443180 AACGAGCCCT
*
443190 TTGTTCATGTTCGTTCATCTAAT-TAAACGAACACAAAATC
1 TTGTTCATGGTCGTTCATCTAATATAAACGAACACAAAATC
* *
443230 TTGTTCATGGTCGTTCATTTAATAAATAAACGAACATAAAA
1 TTGTTCATGGTCGTTCATCTAAT--ATAAACGAACACAAAA
443271 GAACTTCCCG
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
40 21 0.60
43 14 0.40
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.35
Consensus pattern (41 bp):
TTGTTCATGGTCGTTCATCTAATATAAACGAACACAAAATC
Found at i:443869 original size:44 final size:44
Alignment explanation
Indices: 443817--443918 Score: 168
Period size: 44 Copynumber: 2.3 Consensus size: 44
443807 TGAAATCTAA
* * *
443817 GATAAGTATGAAAGAAAATAATATGGAAATGCTATGAAAGTTAT
1 GATAAGTATGAAAGAAAAAAACATGGAAATGATATGAAAGTTAT
443861 GATAAGTATGAAAGAAAAAAACATGGAAATGATATGAAAGTTAT
1 GATAAGTATGAAAGAAAAAAACATGGAAATGATATGAAAGTTAT
*
443905 GATAAATATGAAAG
1 GATAAGTATGAAAG
443919 TTATGAAATA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 54 1.00
ACGTcount: A:0.53, C:0.02, G:0.21, T:0.25
Consensus pattern (44 bp):
GATAAGTATGAAAGAAAAAAACATGGAAATGATATGAAAGTTAT
Found at i:446536 original size:58 final size:59
Alignment explanation
Indices: 446422--446556 Score: 168
Period size: 58 Copynumber: 2.3 Consensus size: 59
446412 AACATGCTGT
446422 ATATTCGGGATT-GCACTAAAGGATACCTAGTACAAATGGTGGGCATGACATTATGTGTC
1 ATATTCGGG-TTAGCACTAAAGGATACCTAGTACAAATGGTGGGCATGACATTATGTGTC
* **** *
446481 ATATTCGGGTTAGCACTAAATGATA-CTAGTGTTGATGGTGGGCA-GAACCTTATGTGTC
1 ATATTCGGGTTAGCACTAAAGGATACCTAGTACAAATGGTGGGCATG-ACATTATGTGTC
*
446539 ATATTCTGGTTAGCACTA
1 ATATTCGGGTTAGCACTA
446557 CGGTGCATAC
Statistics
Matches: 67, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
57 1 0.01
58 45 0.67
59 21 0.31
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (59 bp):
ATATTCGGGTTAGCACTAAAGGATACCTAGTACAAATGGTGGGCATGACATTATGTGTC
Found at i:452691 original size:31 final size:31
Alignment explanation
Indices: 452646--452715 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 31
452636 TACCTTGACA
*
452646 TTACCTCTATTTGAGACTCCAAAGTCATACCC
1 TTACCT-TATTTGAGACACCAAAGTCATACCC
* * **
452678 TTACCTTTTTTGAGACACCAAATTCATACTT
1 TTACCTTATTTGAGACACCAAAGTCATACCC
452709 TTACCTT
1 TTACCTT
452716 CTCAGGTAGA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
31 27 0.82
32 6 0.18
ACGTcount: A:0.27, C:0.27, G:0.07, T:0.39
Consensus pattern (31 bp):
TTACCTTATTTGAGACACCAAAGTCATACCC
Found at i:453518 original size:20 final size:20
Alignment explanation
Indices: 453471--453534 Score: 67
Period size: 20 Copynumber: 3.1 Consensus size: 20
453461 AAGAAAAAAG
*
453471 AAAAGAG-AAAATAAAGAAA
1 AAAAGAGAAAAAAAAAGAAA
* *
453490 AAAAAAGAAAAAAAAAGAAC
1 AAAAGAGAAAAAAAAAGAAA
*
453510 AGAAGAGAAAAAAGATAAGAAA
1 AAAAGAGAAAAAA-A-AAGAAA
453532 AAA
1 AAA
453535 TAGAAGAAGA
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
19 6 0.17
20 21 0.60
21 1 0.03
22 7 0.20
ACGTcount: A:0.80, C:0.02, G:0.16, T:0.03
Consensus pattern (20 bp):
AAAAGAGAAAAAAAAAGAAA
Found at i:453532 original size:29 final size:26
Alignment explanation
Indices: 453461--453534 Score: 80
Period size: 27 Copynumber: 2.8 Consensus size: 26
453451 ATTCATATTC
* *
453461 AAGAAAAAAGAAAAGAGAAAATAAAGA
1 AAGAAAAAAG-AAAGAAAAAAGAAAGA
453488 AA-AAAAAAGAAA-AAAAAAGAACAGA
1 AAGAAAAAAGAAAGAAAAAAGAA-AGA
453513 AGAGAAAAAAGATAAGAAAAAA
1 A-AGAAAAAAGA-AAGAAAAAA
453535 TAGAAGAAGA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
24 7 0.17
25 7 0.17
26 8 0.20
27 10 0.25
28 2 0.05
29 6 0.15
ACGTcount: A:0.80, C:0.01, G:0.16, T:0.03
Consensus pattern (26 bp):
AAGAAAAAAGAAAGAAAAAAGAAAGA
Found at i:453533 original size:12 final size:11
Alignment explanation
Indices: 453461--453548 Score: 67
Period size: 12 Copynumber: 8.0 Consensus size: 11
453451 ATTCATATTC
453461 AAGAAAAAAGAA
1 AAGAAAAAAG-A
* *
453473 AAGAGAAAATA
1 AAGAAAAAAGA
453484 AAGAAAAAA-A
1 AAGAAAAAAGA
453494 AAGAAAAAA-A
1 AAGAAAAAAGA
*
453504 AAG--AACAGA
1 AAGAAAAAAGA
453513 AGAGAAAAAAGA
1 A-AGAAAAAAGA
*
453525 TAAGAAAAAATA
1 -AAGAAAAAAGA
*
453537 GAAGAAGAAAGA
1 -AAGAAAAAAGA
453549 GAATATATCA
Statistics
Matches: 62, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
8 3 0.05
9 2 0.03
10 16 0.26
11 9 0.15
12 31 0.50
13 1 0.02
ACGTcount: A:0.77, C:0.01, G:0.18, T:0.03
Consensus pattern (11 bp):
AAGAAAAAAGA
Found at i:453542 original size:29 final size:27
Alignment explanation
Indices: 453462--453544 Score: 91
Period size: 29 Copynumber: 3.0 Consensus size: 27
453452 TTCATATTCA
*
453462 AGAAAAAAGAAAAGAGAAAATAAAGAA-
1 AGAAAAAAG-AAAGAAAAAATAAAGAAG
*
453489 A-AAAAAAGAAA-AAAAAAGAACAGAAG
1 AGAAAAAAGAAAGAAAAAATAA-AGAAG
453515 AGAAAAAAGATAAGAAAAAATAGAAGAAG
1 AGAAAAAAGA-AAGAAAAAATA-AAGAAG
453544 A
1 A
453545 AAGAGAATAT
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
24 7 0.15
25 7 0.15
26 8 0.17
27 9 0.19
28 2 0.04
29 13 0.28
30 1 0.02
ACGTcount: A:0.77, C:0.01, G:0.18, T:0.04
Consensus pattern (27 bp):
AGAAAAAAGAAAGAAAAAATAAAGAAG
Found at i:454676 original size:45 final size:44
Alignment explanation
Indices: 454543--454676 Score: 178
Period size: 44 Copynumber: 3.0 Consensus size: 44
454533 TATTGGAGCA
* *
454543 AGAACTGATAAATGTTGGGGCATTTTTTAAGGCCCATATAATCC
1 AGAAATGATAAATGTTGGGGCATTTTTGAAGGCCCATATAATCC
* * * * *
454587 AAAAATGATAAATGCTGGGACATTTTTGAAGGTCCATATCATCC
1 AGAAATGATAAATGTTGGGGCATTTTTGAAGGCCCATATAATCC
* *
454631 AGAAATGATAAATGTTGGGGCCACTTTTGAAGGCCCATATTATCC
1 AGAAATGATAAATGTTGGGG-CATTTTTGAAGGCCCATATAATCC
454676 A
1 A
454677 AGAATACAAG
Statistics
Matches: 76, Mismatches: 13, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
44 54 0.71
45 22 0.29
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (44 bp):
AGAAATGATAAATGTTGGGGCATTTTTGAAGGCCCATATAATCC
Found at i:456183 original size:35 final size:36
Alignment explanation
Indices: 456144--456219 Score: 82
Period size: 43 Copynumber: 1.9 Consensus size: 36
456134 TCAATGTTAT
456144 TATTG-ACTTTCTCGTGAAGAGAAGTCAATCTTTAA
1 TATTGTACTTTCTCGTGAAGAGAAGTCAATCTTTAA
456179 TATTGTCATTCTTACTTTCTCGTGAAGAGAAGTCAATCTTT
1 TATTG-------TACTTTCTCGTGAAGAGAAGTCAATCTTT
456220 CAGTATTTTC
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
35 5 0.15
43 28 0.85
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.41
Consensus pattern (36 bp):
TATTGTACTTTCTCGTGAAGAGAAGTCAATCTTTAA
Found at i:456258 original size:45 final size:45
Alignment explanation
Indices: 456103--456426 Score: 290
Period size: 45 Copynumber: 7.3 Consensus size: 45
456093 GAAGCTTCAA
* * * * *
456103 CTTGACTCTCTTGTGAAGATGAGTCACTCTTTCA--ATGTT-ATT
1 CTTGACTTTCTCGTGAAGATGAGTCAATCTTTTAGTATTTTCATT
* * *
456145 ATTGACTTTCTCGTGAAGA-GAAGTCAATC-TTTAATATTGTCATT
1 CTTGACTTTCTCGTGAAGATG-AGTCAATCTTTTAGTATTTTCATT
*
456189 CTT-ACTTTCTCGTGAAGA-GAAGTCAATCTTTCAGTATTTTCATT
1 CTTGACTTTCTCGTGAAGATG-AGTCAATCTTTTAGTATTTTCATT
* ** * *
456233 CTTGATTTTCTTATGAAGATGAGTCAATATTTTAGTGATGTT-ATT
1 CTTGACTTTCTCGTGAAGATGAGTCAATCTTTTAGT-ATTTTCATT
* * * * * *
456278 CTTAACTTTCTCATGAAGAGGAGTCAATCTTTTAGTGTTATCTTT
1 CTTGACTTTCTCGTGAAGATGAGTCAATCTTTTAGTATTTTCATT
* * * *
456323 CTTGACTTTATCATGAAGATGAGTCAATCTTTTAGCATTGTC-TT
1 CTTGACTTTCTCGTGAAGATGAGTCAATCTTTTAGTATTTTCATT
* * *
456367 CCTTGACTTTCTCGTGAAGATGAGTCAATATTTTAGTGTTGTC-TT
1 -CTTGACTTTCTCGTGAAGATGAGTCAATCTTTTAGTATTTTCATT
456412 CCTTGACTTTCTCGT
1 -CTTGACTTTCTCGT
456427 TCAATCTTTA
Statistics
Matches: 235, Mismatches: 37, Indels: 17
0.81 0.13 0.06
Matches are distributed among these distances:
41 4 0.02
42 23 0.10
43 28 0.12
44 24 0.10
45 151 0.64
46 5 0.02
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.44
Consensus pattern (45 bp):
CTTGACTTTCTCGTGAAGATGAGTCAATCTTTTAGTATTTTCATT
Found at i:456385 original size:135 final size:133
Alignment explanation
Indices: 456103--456404 Score: 353
Period size: 135 Copynumber: 2.3 Consensus size: 133
456093 GAAGCTTCAA
* * * * * *
456103 CTTGACTCTCTTGTGAAGATGAGTCACTCTTTCA---ATGTTATTATTGACTTTCTCGTGAAGAG
1 CTTGACTTTCTTGTGAAGATGAGTCAATATTTTAGTGATGTTATTATTAACTTTCTCATGAAGAG
* * * * *
456165 AAGTCAATCTTTAATATTGTCATTCTTACTTTCTCGTGAAGAGAAGTCAATCTTTCAGTATTTTC
66 AAGTCAATCTTTAATATTATCATTCTTACTTTATCATGAAGAGAAGTCAATCTTTCAGCATTGTC
456230 ATT
131 ATT
* * *
456233 CTTGATTTTCTTATGAAGATGAGTCAATATTTTAGTGATGTTATTCTTAACTTTCTCATGAAGAG
1 CTTGACTTTCTTGTGAAGATGAGTCAATATTTTAGTGATGTTATTATTAACTTTCTCATGAAGAG
* * * * *
456298 GAGTCAATCTTTTAGTGTTATCTTTCTTGACTTTATCATGAAGATG-AGTCAATCTTTTAGCATT
66 AAGTCAATC-TTTAATATTATCATTCTT-ACTTTATCATGAAGA-GAAGTCAATCTTTCAGCATT
456362 GTC-TT
128 GTCATT
*
456367 CCTTGACTTTCTCGTGAAGATGAGTCAATATTTTAGTG
1 -CTTGACTTTCTTGTGAAGATGAGTCAATATTTTAGTG
456405 TTGTCTTCCT
Statistics
Matches: 143, Mismatches: 22, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
130 28 0.20
133 33 0.23
134 16 0.11
135 65 0.45
136 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.17, T:0.43
Consensus pattern (133 bp):
CTTGACTTTCTTGTGAAGATGAGTCAATATTTTAGTGATGTTATTATTAACTTTCTCATGAAGAG
AAGTCAATCTTTAATATTATCATTCTTACTTTATCATGAAGAGAAGTCAATCTTTCAGCATTGTC
ATT
Found at i:456496 original size:45 final size:45
Alignment explanation
Indices: 456445--456588 Score: 112
Period size: 45 Copynumber: 3.2 Consensus size: 45
456435 TAGTCTTCCC
* * *
456445 TGACTTTCTCTTGAAGTGGA-TTCAATCTCTTAGTATTGTCATTCT
1 TGACTTTCTCGTGAAGAGAAGTT-AATCTCTTAGTATTGTCATTCT
* * * * *
456490 TGACTTTCGCGTGAAGAGAAGTTTATCTTTTAGTGTTGTCCTTCT
1 TGACTTTCTCGTGAAGAGAAGTTAATCTCTTAGTATTGTCATTCT
** * * ** *
456535 TGACTTTCTCACGAAGA-ATAGTTAACCTTTTAGTGGTGTTATTCT
1 TGACTTTCTCGTGAAGAGA-AGTTAATCTCTTAGTATTGTCATTCT
*
456580 TGTCTTTCT
1 TGACTTTCT
456589 TGTAGAAATA
Statistics
Matches: 80, Mismatches: 17, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
44 1 0.01
45 77 0.96
46 2 0.03
ACGTcount: A:0.19, C:0.17, G:0.18, T:0.46
Consensus pattern (45 bp):
TGACTTTCTCGTGAAGAGAAGTTAATCTCTTAGTATTGTCATTCT
Found at i:457450 original size:41 final size:42
Alignment explanation
Indices: 457404--457593 Score: 109
Period size: 41 Copynumber: 4.4 Consensus size: 42
457394 TTGGACTTCT
457404 TGAAGAGTAGTGAAGCAAATCAAATTCGATTCAATCT-TCCC
1 TGAAGAGTAGTGAAGCAAATCAAATTCGATTCAATCTGTCCC
* * *** ***
457445 TGAAGAGCAATGAAGTGGATCAAATTTTTTTCAAGTCTGATCTCCC
1 TGAAGAGTAGTGAAGCAAATCAAATTCGATTCAA-TCTG---TCCC
* * ** * *
457491 TTAAAGAGTAGTGAAG-AAGATTATTCTTC-TTTCAGATTTGGTCATCC
1 -TGAAGAGTAGTGAAGCAA-ATCA-AATTCGATTCA-ATCT-GTC--CC
* *
457538 TAAAGAGTAGCGAAGCAAATCAAATTCGATTCAATCT-TCCC
1 TGAAGAGTAGTGAAGCAAATCAAATTCGATTCAATCTGTCCC
457579 TGAAGAGTAGTGAAG
1 TGAAGAGTAGTGAAG
457594 TGGATAAAAA
Statistics
Matches: 109, Mismatches: 26, Indels: 28
0.67 0.16 0.17
Matches are distributed among these distances:
41 41 0.38
42 3 0.03
43 2 0.02
45 8 0.07
46 25 0.23
47 26 0.24
48 4 0.04
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.30
Consensus pattern (42 bp):
TGAAGAGTAGTGAAGCAAATCAAATTCGATTCAATCTGTCCC
Found at i:457526 original size:134 final size:130
Alignment explanation
Indices: 457354--458794 Score: 1428
Period size: 131 Copynumber: 10.9 Consensus size: 130
457344 TATTTGGTCT
* * * * *
457354 TCCCTAAAGAATAGTGGAGTAGATTCTTCTTCTTTCAGATTTGGACTTCTTGAAGAGTAGTGAAG
1 TCCCTAAAGAGTAGTGGAGCAGATTCTTCTTCTTTCAGATTTGGTCTTCCTGAAGAGCAGTGAAG
* * * *
457419 CAAATCAAATTCGATTCAATCTTCCCTGAAGAGCAATGAAGTGGATCAAATTTTTTTCAAGTCTG
66 CAAATCAAATTCGATTCAATCTTCCCTGAAGAGCAGTGAAGTGGATCAAA---ATTACATGTCTG
457484 ATC
128 ATC
* * * * * * *
457487 TCCCTTAAAGAGTAGTGAAGAAGATTATTCTTCTTTCAGATTTGGTCATCCTAAAGAGTAGCGAA
1 TCCC-TAAAGAGTAGTGGAGCAGATTCTTCTTCTTTCAGATTTGGTCTTCCTGAAGAGCAGTGAA
* ** * *
457552 GCAAATCAAATTCGATTCAATCTTCCCTGAAGAGTAGTGAAGTGGAT-AAAAAAAAATTGAGACT
65 GCAAATCAAATTCGATTCAATCTTCCCTGAAGAGCAGTGAAGTGGATCAAAATTACA-T--GTCT
457616 GATC
127 GATC
* * * * * *
457620 TCCCATAAATAGTAGTGGATCATATTCTTCTTCTTTCAGATTTGGTCATCCTGAATAGCAGCGAA
1 TCCC-TAAAGAGTAGTGGAGCAGATTCTTCTTCTTTCAGATTTGGTCTTCCTGAAGAGCAGTGAA
* * * * * * * ** **
457685 ACAAATTAAATTTGATTCAATATTCCCTAAAGAGCAGCGAACTATATCAAAATTATGTGTCTGAT
65 GCAAATCAAATTCGATTCAATCTTCCCTGAAGAGCAGTGAAGTGGATCAAAATTACATGTCTGAT
457750 C
130 C
* * * * *
457751 TCCCCTAAATAGTAATGGAGTAGATTCTTCTTCTTTCAGATTTAGTCTTCCTAAAGAGCAGTGAA
1 T-CCCTAAAGAGTAGTGGAGCAGATTCTTCTTCTTTCAGATTTGGTCTTCCTGAAGAGCAGTGAA
* * ** * *
457816 GCAAATC-GACTCTGATTCAATCTTCCCTGAAGATTAGCGAAGTGGATCAAAATTACATGTCTAA
65 GCAAATCAAATTC-GATTCAATCTTCCCTGAAGAGCAGTGAAGTGGATCAAAATTACATGTCTGA
*
457880 TTT
129 -TC
* * * * * *
457883 TCCATAAAGAGTAGTGGAGCAGATTCGTCTTCTTTCATATTTAGTCTTCTTGAAGAGCAATGAAG
1 TCCCTAAAGAGTAGTGGAGCAGATTCTTCTTCTTTCAGATTTGGTCTTCCTGAAGAGCAGTGAAG
* * * ** * *
457948 CAAATC-TATTCTAATTCAATCTTCCCTGAAGAGCTGCAAAATGGATCAAAATTTTC-TCGAGTC
66 CAAATCAAATTC-GATTCAATCTTCCCTGAAGAGCAGTGAAGTGGATCAAAA-TTACAT---GTC
458011 TGATC
126 TGATC
* * *
458016 TCCTCTAAAGAGTAGTGGAGCAGATTCTTCTTCTTTCAGATTTGTTCTTCTTGAAGAGCAGCGAA
1 TCC-CTAAAGAGTAGTGGAGCAGATTCTTCTTCTTTCAGATTTGGTCTTCCTGAAGAGCAGTGAA
* ** * ** * *
458081 CCAAATCACGTTCGATTCAATCTTCCCT-AAAAAAAGTGAGGTAGATCAAAATTTACATGTACTA
65 GCAAATCAAATTCGATTCAATCTTCCCTGAAGAGCAGTGAAGTGGATCAAAA-TTACATGT-C--
458145 TGATC
126 TGATC
* * * * * * *
458150 TCCCCTAAATAATAGTGGACCATATTCTTCTTCTTTCAGATTTTGTATTCCTGAAGAGCAGCGAA
1 T-CCCTAAAGAGTAGTGGAGCAGATTCTTCTTCTTTCAGATTTGGTCTTCCTGAAGAGCAGTGAA
* * * *
458215 GCAAATCAAATTCGATTCAATCTTCCCTGAAGAGTAGCG-AGCTGGATCCAAATTACATGTTTGA
65 GCAAATCAAATTCGATTCAATCTTCCCTGAAGAGCAGTGAAG-TGGATCAAAATTACATGTCTGA
458279 TC
129 TC
* * * * * *
458281 TCCCCTAAAGAGTAGTGGAGTAAATTCTTCTTCTTTTAGATTTGGTTTTCTTGAATAGCAGTGAA
1 T-CCCTAAAGAGTAGTGGAGCAGATTCTTCTTCTTTCAGATTTGGTCTTCCTGAAGAGCAGTGAA
* *
458346 ACAAATC-AATTCCGATTCAATCTTCCCTGAAGAGCAGTGAAGTGCATCAAAATTAC-TGTCTGA
65 GCAAATCAAATT-CGATTCAATCTTCCCTGAAGAGCAGTGAAGTGGATCAAAATTACATGTCTGA
458409 TC
129 TC
* * *
458411 TTCCCTAAAGAGTAATGGAGCAGATTCATCTTCTTTCAGATTTGGTCTTCCTGAATAGCAGTGAA
1 -TCCCTAAAGAGTAGTGGAGCAGATTCTTCTTCTTTCAGATTTGGTCTTCCTGAAGAGCAGTGAA
* * * *
458476 GCAAATC-GATTCCGATTCAATCTTCCCTAAAGAGCATTGAAGTGGATCAAAATTTTC-TCGAGT
65 GCAAATCAAATT-CGATTCAATCTTCCCTGAAGAGCAGTGAAGTGGATCAAAA-TTACAT---GT
458539 CTGATC
125 CTGATC
* * * * * * * *
458545 TCCCTTAAAGAGTACTAGACCAGATTCTTCTTCTTTCAAATTTGATATTCCTAAATAGCAGTGAA
1 TCCC-TAAAGAGTAGTGGAGCAGATTCTTCTTCTTTCAGATTTGGTCTTCCTGAAGAGCAGTGAA
* * *
458610 GCAAATCAATTTCGATTTAATCTTCCCTGAAGAGCAGCGAAGTGGATCAAAATTACATGTCTGAT
65 GCAAATCAAATTCGATTCAATCTTCCCTGAAGAGCAGTGAAGTGGATCAAAATTACATGTCTGAT
458675 C
130 C
* * *
458676 TTCCCTAAAGAGTAGTGGAGCATATTCGTCCTCTTTCAGATTTGGTCTTCCTGAAGAGCAGTGAA
1 -TCCCTAAAGAGTAGTGGAGCAGATTCTTCTTCTTTCAGATTTGGTCTTCCTGAAGAGCAGTGAA
** * **
458741 GCAAAT-TGATTCCGATTCAATCTTCCTTGAAGAGCAACGAAGTGGATCAAAATT
65 GCAAATCAAATT-CGATTCAATCTTCCCTGAAGAGCAGTGAAGTGGATCAAAATT
458795 TACGATTTTG
Statistics
Matches: 1085, Mismatches: 190, Indels: 68
0.81 0.14 0.05
Matches are distributed among these distances:
130 120 0.11
131 415 0.38
132 15 0.01
133 136 0.13
134 378 0.35
135 21 0.02
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (130 bp):
TCCCTAAAGAGTAGTGGAGCAGATTCTTCTTCTTTCAGATTTGGTCTTCCTGAAGAGCAGTGAAG
CAAATCAAATTCGATTCAATCTTCCCTGAAGAGCAGTGAAGTGGATCAAAATTACATGTCTGATC
Found at i:458613 original size:395 final size:392
Alignment explanation
Indices: 457374--458794 Score: 1541
Period size: 395 Copynumber: 3.6 Consensus size: 392
457364 ATAGTGGAGT
* * * * *
457374 AGATTCTTCTTCTTTCAGATTTGGA-CTTCTTGAAGAGTAGTGAAGCAAATCAAATTCGATTCAA
1 AGATTCTTCTTCTTTCAAATTT-GATATTCCTAAAGAGCAGTGAAGCAAATCAAATTCGATTCAA
** * * * *
457438 TCTTCCCTGAAGAGCAATGAAGTGGATCAAATTTTTTTCAAGTCTGATCTCCCTTAAAGAGTAGT
65 TCTTCCCTGAAGAGCAGCGAAGTGGATCAAA---ATTACATGTCTGATCTCCCCTAAAGAGTAGT
* ** * * * *
457503 GAAG-AAGATTATTCTTCTTTCAGATTTGGTCATCCTAAAGAGTAGCGAAGCAAATCAAATT-CG
127 GGAGCAA-ATTCGTCTTCTTTCAGATTTGGTCTTCCTGAAGAGCAGTGAAGCAAATC-AATTCCG
* * * ** * * *
457566 ATTCAATCTTCCCTGAAGAGTAGTGAAGTGGATAAAAAAAAATTGAGACTGATCTCCCATAAATA
190 ATTCAATCTTCCCTGAAGAGCAGCGAAGTGGAT-CAAAATTACT-AGTCTGATCTCCC-TAAAGA
* * * *
457631 GTAGTGGATCATATTCTTCTTCTTTCAGATTTGGTCATCCTGAATAGCAGCGAAACAAATTAAAT
252 GTAGTGGAGCAGATTCTTCTTCTTTCAGATTTGGTCTTCCTGAATAGCAGCGAAACAAA-T-CAT
* * * * * * *
457696 TTGATTCAATATTCCCTAAAGAGCAGCGAACTATATCAAAA--TTATGTGTCTGATCTCCCCTAA
315 TCGATTCAATCTTCCCTAAAGAGCAGTGAAGTAGATCAAAATTTTCTGAGTCTGATCTCCCCTAA
**
457759 ATAGTAATGGAGT
380 ATAGTAATGGACC
* * * *
457772 AGATTCTTCTTCTTTCAGATTT-AGTCTTCCTAAAGAGCAGTGAAGCAAATC-GACTCTGATTCA
1 AGATTCTTCTTCTTTCAAATTTGA-TATTCCTAAAGAGCAGTGAAGCAAATCAAATTC-GATTCA
** * * * *
457835 ATCTTCCCTGAAGATTAGCGAAGTGGATCAAAATTACATGTCTAATTTTCCATAAAGAGTAGTGG
64 ATCTTCCCTGAAGAGCAGCGAAGTGGATCAAAATTACATGTCTGATCTCCCCTAAAGAGTAGTGG
* * * * * * **
457900 AGCAGATTCGTCTTCTTTCATATTTAGTCTTCTTGAAGAGCAATGAAGCAAATCTATTCTAATTC
129 AGCAAATTCGTCTTCTTTCAGATTTGGTCTTCCTGAAGAGCAGTGAAGCAAATCAATTCCGATTC
* * * *
457965 AATCTTCCCTGAAGAGCTGCAAAATGGATCAAAATTTTCTCGAGTCTGATCTCCTCTAAAGAGTA
194 AATCTTCCCTGAAGAGCAGCGAAGTGGATCAAAA-TTACT--AGTCTGATCTCC-CTAAAGAGTA
* * * *
458030 GTGGAGCAGATTCTTCTTCTTTCAGATTTGTTCTTCTTGAAGAGCAGCGAACCAAATCACGTTCG
255 GTGGAGCAGATTCTTCTTCTTTCAGATTTGGTCTTCCTGAATAGCAGCGAAACAAATCA--TTCG
** * * * *
458095 ATTCAATCTTCCCTAAA-AAAAGTGAGGTAGATCAAAATTTACATGTACTATGATCTCCCCTAAA
318 ATTCAATCTTCCCTAAAGAGCAGTGAAGTAGATCAAAATTTTC-TG-AGTCTGATCTCCCCTAAA
* *
458159 TAATAGTGGACC
381 TAGTAATGGACC
* * * *
458171 ATATTCTTCTTCTTTCAGATTTTG-TATTCCTGAAGAGCAGCGAAGCAAATCAAATTCGATTCAA
1 AGATTCTTCTTCTTTCA-AATTTGATATTCCTAAAGAGCAGTGAAGCAAATCAAATTCGATTCAA
* * *
458235 TCTTCCCTGAAGAGTAGCG-AGCTGGATCCAAATTACATGTTTGATCTCCCCTAAAGAGTAGTGG
65 TCTTCCCTGAAGAGCAGCGAAG-TGGATCAAAATTACATGTCTGATCTCCCCTAAAGAGTAGTGG
* * * * * * *
458299 AGTAAATTCTTCTTCTTTTAGATTTGGTTTTCTTGAATAGCAGTGAAACAAATCAATTCCGATTC
129 AGCAAATTCGTCTTCTTTCAGATTTGGTCTTCCTGAAGAGCAGTGAAGCAAATCAATTCCGATTC
* * *
458364 AATCTTCCCTGAAGAGCAGTGAAGTGCATCAAAATTACT-GTCTGATCTTCCCTAAAGAGTAATG
194 AATCTTCCCTGAAGAGCAGCGAAGTGGATCAAAATTACTAGTCTGATC-TCCCTAAAGAGTAGTG
* * *
458428 GAGCAGATTCATCTTCTTTCAGATTTGGTCTTCCTGAATAGCAGTGAAGCAAATCGATTCCGATT
258 GAGCAGATTCTTCTTCTTTCAGATTTGGTCTTCCTGAATAGCAGCGAAACAAATC-ATT-CGATT
* * * *
458493 CAATCTTCCCTAAAGAGCATTGAAGTGGATCAAAATTTTCTCGAGTCTGATCTCCCTTAAAGAGT
321 CAATCTTCCCTAAAGAGCAGTGAAGTAGATCAAAATTTTCT-GAGTCTGATCTCCCCTAAATAGT
* *
458558 ACTAGACC
385 AATGGACC
* * *
458566 AGATTCTTCTTCTTTCAAATTTGATATTCCTAAATAGCAGTGAAGCAAATCAATTTCGATTTAAT
1 AGATTCTTCTTCTTTCAAATTTGATATTCCTAAAGAGCAGTGAAGCAAATCAAATTCGATTCAAT
*
458631 CTTCCCTGAAGAGCAGCGAAGTGGATCAAAATTACATGTCTGATCTTCCCTAAAGAGTAGTGGAG
66 CTTCCCTGAAGAGCAGCGAAGTGGATCAAAATTACATGTCTGATCTCCCCTAAAGAGTAGTGGAG
* * **
458696 CATATTCGTCCTCTTTCAGATTTGGTCTTCCTGAAGAGCAGTGAAGCAAATTGATTCCGATTCAA
131 CAAATTCGTCTTCTTTCAGATTTGGTCTTCCTGAAGAGCAGTGAAGCAAATCAATTCCGATTCAA
* *
458761 TCTTCCTTGAAGAGCAACGAAGTGGATCAAAATT
196 TCTTCCCTGAAGAGCAGCGAAGTGGATCAAAATT
458795 TACGATTTTG
Statistics
Matches: 850, Mismatches: 148, Indels: 53
0.81 0.14 0.05
Matches are distributed among these distances:
394 15 0.02
395 416 0.49
396 116 0.14
397 5 0.01
398 87 0.10
399 205 0.24
400 6 0.01
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.32
Consensus pattern (392 bp):
AGATTCTTCTTCTTTCAAATTTGATATTCCTAAAGAGCAGTGAAGCAAATCAAATTCGATTCAAT
CTTCCCTGAAGAGCAGCGAAGTGGATCAAAATTACATGTCTGATCTCCCCTAAAGAGTAGTGGAG
CAAATTCGTCTTCTTTCAGATTTGGTCTTCCTGAAGAGCAGTGAAGCAAATCAATTCCGATTCAA
TCTTCCCTGAAGAGCAGCGAAGTGGATCAAAATTACTAGTCTGATCTCCCTAAAGAGTAGTGGAG
CAGATTCTTCTTCTTTCAGATTTGGTCTTCCTGAATAGCAGCGAAACAAATCATTCGATTCAATC
TTCCCTAAAGAGCAGTGAAGTAGATCAAAATTTTCTGAGTCTGATCTCCCCTAAATAGTAATGGA
CC
Found at i:466040 original size:53 final size:53
Alignment explanation
Indices: 465981--466090 Score: 202
Period size: 53 Copynumber: 2.1 Consensus size: 53
465971 GAAAACAACT
*
465981 GGTAGTATCAATACTACCTAGAGAGTATCGATACTTCTCTTACCTTTGGTATC
1 GGTAGTATCAATACTACCTAGAGAGCATCGATACTTCTCTTACCTTTGGTATC
*
466034 GGTAGTATCAATACTACCTAGAGAGCATCGATGCTTCTCTTACCTTTGGTATC
1 GGTAGTATCAATACTACCTAGAGAGCATCGATACTTCTCTTACCTTTGGTATC
466087 GGTA
1 GGTA
466091 CCACATTATT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 55 1.00
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (53 bp):
GGTAGTATCAATACTACCTAGAGAGCATCGATACTTCTCTTACCTTTGGTATC
Found at i:468367 original size:81 final size:78
Alignment explanation
Indices: 468255--468404 Score: 178
Period size: 81 Copynumber: 1.9 Consensus size: 78
468245 CCGAATATAG
* * *
468255 TAAATAAGCATTAAAAGAATGTAATTTAGATTACAACTCTTTTAATTGGTATATATAATTCAGAA
1 TAAATAAACATTAAAAGAATATAATTCAGATTACAACTC-TTTAA-T-GTATATATAA-TC-GAA
468320 -TAATTAAAATAAGTTTT
61 TTAATTAAAATAAGTTTT
* * * *
468337 TAAATAAACATT-AAAGATTATAATTCAGATTATAAGTCTTTAATGTATATTTAATCGAATTAAT
1 TAAATAAACATTAAAAGAATATAATTCAGATTACAACTCTTTAATGTATATATAATCGAATTAAT
468401 TAAA
66 TAAA
468405 TAATATTTTA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
76 3 0.05
77 10 0.17
78 9 0.15
79 1 0.02
80 5 0.08
81 21 0.35
82 11 0.18
ACGTcount: A:0.46, C:0.06, G:0.09, T:0.39
Consensus pattern (78 bp):
TAAATAAACATTAAAAGAATATAATTCAGATTACAACTCTTTAATGTATATATAATCGAATTAAT
TAAAATAAGTTTT
Found at i:469427 original size:16 final size:17
Alignment explanation
Indices: 469398--469429 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
469388 TAGTTATCTT
469398 AAAAAATTATTTAATTC
1 AAAAAATTATTTAATTC
469415 AAAAAATTA-TTAATT
1 AAAAAATTATTTAATT
469430 TACTAACAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (17 bp):
AAAAAATTATTTAATTC
Found at i:469809 original size:66 final size:66
Alignment explanation
Indices: 469737--469864 Score: 168
Period size: 66 Copynumber: 1.9 Consensus size: 66
469727 AGCAACGAGA
* * * *
469737 TTAATGAGCTTAACGAGCAATGGGTCAAGCAA-AAAATTTCTTAATGAACACGAGTCGAGCAAAA
1 TTAATGAGCTTAACAAGC-ACGAGTCAAGCAACAAAATTTCTTAACGAACACGAGTCGAGCAAAA
469801 TT
65 TT
* * * *
469803 TTAATGAGCTTAACAAGCACGAGTCGAGCAACAAATTTTCTTAACGAGCACGAGTTGAGCAA
1 TTAATGAGCTTAACAAGCACGAGTCAAGCAACAAAATTTCTTAACGAACACGAGTCGAGCAA
469865 CAAATTTTGT
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
65 10 0.19
66 43 0.81
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.23
Consensus pattern (66 bp):
TTAATGAGCTTAACAAGCACGAGTCAAGCAACAAAATTTCTTAACGAACACGAGTCGAGCAAAAT
T
Found at i:469853 original size:31 final size:30
Alignment explanation
Indices: 469745--469891 Score: 123
Period size: 31 Copynumber: 4.6 Consensus size: 30
469735 GATTAATGAG
* * * *
469745 CTTAACGAGCAATGGGTCAAGCAAAAAATTT
1 CTTAACGAGC-ACGAGTCGAGCAAAAATTTT
* * *
469776 CTTAATGAACACGAGTCGAGCAAAATTTTAAT
1 CTTAACGAGCACGAGTCGAGCAAAAATTT--T
*
469808 GAGCTTAACAAGCACGAGTCGAGCAACAAATTTT
1 ---CTTAACGAGCACGAGTCGAGCAA-AAATTTT
*
469842 CTTAACGAGCACGAGTTGAGCAACAAATTTT
1 CTTAACGAGCACGAGTCGAGCAA-AAATTTT
* *
469873 GTTAACAAGCACGAGTCGA
1 CTTAACGAGCACGAGTCGA
469892 ACATTGCCCA
Statistics
Matches: 94, Mismatches: 16, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
30 14 0.15
31 53 0.56
32 1 0.01
34 1 0.01
35 20 0.21
36 5 0.05
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.23
Consensus pattern (30 bp):
CTTAACGAGCACGAGTCGAGCAAAAATTTT
Found at i:474120 original size:11 final size:11
Alignment explanation
Indices: 474104--474129 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
474094 TATTCACAAC
474104 TTTTTTCTTTT
1 TTTTTTCTTTT
474115 TTTTTTCTTTT
1 TTTTTTCTTTT
474126 TTTT
1 TTTT
474130 AATTGTTGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTTTCTTTT
Found at i:482339 original size:20 final size:20
Alignment explanation
Indices: 482314--482387 Score: 85
Period size: 20 Copynumber: 3.5 Consensus size: 20
482304 TTAGTAAGGT
482314 AGTATCGATACTCTAGTCTG
1 AGTATCGATACTCTAGTCTG
* *
482334 AGTATCGATACTCTGGTGCTC
1 AGTATCGATACTCTAGT-CTG
* *
482355 AGGTATCGATAGTACTAGCCTG
1 A-GTATCGATACT-CTAGTCTG
482377 AGTATCGATAC
1 AGTATCGATAC
482388 AAAAATTAGG
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
20 16 0.36
21 12 0.27
22 13 0.30
23 3 0.07
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (20 bp):
AGTATCGATACTCTAGTCTG
Found at i:490424 original size:51 final size:51
Alignment explanation
Indices: 490369--490470 Score: 186
Period size: 51 Copynumber: 2.0 Consensus size: 51
490359 AATGAAATTT
490369 ATAAATTTTAAATTAAATTACTTAACTTTCAAATTGCTCTTATTATAATGA
1 ATAAATTTTAAATTAAATTACTTAACTTTCAAATTGCTCTTATTATAATGA
* *
490420 ATAAATTTTAAATTAAATTACTTAACTTTCAAATTGTTGTTATTATAATGA
1 ATAAATTTTAAATTAAATTACTTAACTTTCAAATTGCTCTTATTATAATGA
490471 TATTGACATT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.46
Consensus pattern (51 bp):
ATAAATTTTAAATTAAATTACTTAACTTTCAAATTGCTCTTATTATAATGA
Found at i:491471 original size:116 final size:117
Alignment explanation
Indices: 491313--491548 Score: 393
Period size: 119 Copynumber: 2.0 Consensus size: 117
491303 TAAAAAGTAC
*
491313 ATATGTATTCTATGATGTTTTAGGATCATGTGGTTCAAATTTGGT-AAAAATGGACTTAAAATGA
1 ATATGTATTCTATGATATTTTAGGATCATGTGGTTCAAATTTGGTAAAAAATGGACTTAAAATGA
* *
491377 AGAAGGAATTGAAAGAATAATGAAATCATGGATTAAATTGTAAAACTGACAA
66 AGAAGGAATTGAAAGAATAATGAAATCAGGGATTAAATTATAAAACTGACAA
*
491429 ATATGTATTCTGTGATATTTTAGGATCATGTGGTTCAAATTTGGTAAAAAAAATGGACTTAAAAT
1 ATATGTATTCTATGATATTTTAGGATCATGTGGTTCAAATTTGGT--AAAAAATGGACTTAAAAT
* *
491494 GAAGAAGGCATTGAAAGAATAATGAAATCAGGGATTAAATTATAAAACTGGCAA
64 GAAGAAGGAATTGAAAGAATAATGAAATCAGGGATTAAATTATAAAACTGACAA
491548 A
1 A
491549 ATACTTAGTC
Statistics
Matches: 111, Mismatches: 6, Indels: 3
0.93 0.05 0.03
Matches are distributed among these distances:
116 43 0.39
119 68 0.61
ACGTcount: A:0.43, C:0.06, G:0.20, T:0.31
Consensus pattern (117 bp):
ATATGTATTCTATGATATTTTAGGATCATGTGGTTCAAATTTGGTAAAAAATGGACTTAAAATGA
AGAAGGAATTGAAAGAATAATGAAATCAGGGATTAAATTATAAAACTGACAA
Found at i:491916 original size:122 final size:122
Alignment explanation
Indices: 491699--491943 Score: 456
Period size: 122 Copynumber: 2.0 Consensus size: 122
491689 GCTCACCCTT
491699 ACTTCTCATTATATATCATACTCATTAGCATCCGTTTATCTTTAAATGGAAACAAATATGTTTTT
1 ACTTCTCATTATATATCATACTCATTAGCATCCGTTTATCTTTAAATGGAAACAAATATGTTTTT
*
491764 TGAACGAATTAGGTGAATGAGTTTCAAATACTCAGATTATGGATGTGTAT-AGAAATC
66 TGAACGAATTAGGTGAATGAGTTTCAAATACTCAGATAATGGATGTGT-TGAGAAATC
*
491821 ACTTCTCGTTATATATCATACTCATTAGCATCCGTTTATCTTTAAATGGAAACAAATATGTTTTT
1 ACTTCTCATTATATATCATACTCATTAGCATCCGTTTATCTTTAAATGGAAACAAATATGTTTTT
491886 TGAACGAATTAGGTGAATGAGTTTCAAATACTCAGATAATGGATGTGTTGAGAAATC
66 TGAACGAATTAGGTGAATGAGTTTCAAATACTCAGATAATGGATGTGTTGAGAAATC
491943 A
1 A
491944 GGCTCATTAA
Statistics
Matches: 120, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
121 1 0.01
122 119 0.99
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (122 bp):
ACTTCTCATTATATATCATACTCATTAGCATCCGTTTATCTTTAAATGGAAACAAATATGTTTTT
TGAACGAATTAGGTGAATGAGTTTCAAATACTCAGATAATGGATGTGTTGAGAAATC
Found at i:493796 original size:19 final size:19
Alignment explanation
Indices: 493772--493812 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
493762 AGTTTAAAGT
493772 GTTATTCGCAATCGCGTCG
1 GTTATTCGCAATCGCGTCG
493791 GTTATTCGCAATCGCGTCG
1 GTTATTCGCAATCGCGTCG
493810 GTT
1 GTT
493813 GCCGCAATCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.15, C:0.24, G:0.27, T:0.34
Consensus pattern (19 bp):
GTTATTCGCAATCGCGTCG
Found at i:493820 original size:18 final size:19
Alignment explanation
Indices: 493778--493821 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
493768 AAGTGTTATT
**
493778 CGCAATCGCGTCGGTTATT
1 CGCAATCGCGTCGGTTAGC
493797 CGCAATCGCGTCGGTT-GC
1 CGCAATCGCGTCGGTTAGC
493815 CGCAATC
1 CGCAATC
493822 TCGATCTTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 7 0.30
19 16 0.70
ACGTcount: A:0.16, C:0.32, G:0.27, T:0.25
Consensus pattern (19 bp):
CGCAATCGCGTCGGTTAGC
Found at i:500023 original size:21 final size:21
Alignment explanation
Indices: 499997--500053 Score: 87
Period size: 21 Copynumber: 2.7 Consensus size: 21
499987 ATTACAATGG
*
499997 TTGTAGGAATTTCAGTAGTGA
1 TTGTAGGATTTTCAGTAGTGA
*
500018 TTGTAGGATTTTCAGTAGTGG
1 TTGTAGGATTTTCAGTAGTGA
*
500039 CTGTAGGATTTTCAG
1 TTGTAGGATTTTCAG
500054 CAGGTTTTGT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.23, C:0.07, G:0.30, T:0.40
Consensus pattern (21 bp):
TTGTAGGATTTTCAGTAGTGA
Found at i:502385 original size:17 final size:17
Alignment explanation
Indices: 502363--502415 Score: 97
Period size: 17 Copynumber: 3.1 Consensus size: 17
502353 TTTTCAGTAT
*
502363 GGTCAGAAGCAAGTGTA
1 GGTCAGAAGCAGGTGTA
502380 GGTCAGAAGCAGGTGTA
1 GGTCAGAAGCAGGTGTA
502397 GGTCAGAAGCAGGTGTA
1 GGTCAGAAGCAGGTGTA
502414 GG
1 GG
502416 GCTTTGCTGC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 35 1.00
ACGTcount: A:0.30, C:0.11, G:0.42, T:0.17
Consensus pattern (17 bp):
GGTCAGAAGCAGGTGTA
Found at i:511593 original size:57 final size:57
Alignment explanation
Indices: 511505--511619 Score: 212
Period size: 57 Copynumber: 2.0 Consensus size: 57
511495 ATTACCTAAA
*
511505 GGATCTTCACAAGATCTTGGACCAGGATCAGATTCTTGGTTTTGTTGCAGAGGTGCT
1 GGATCTTCACAAGATCTTGGACCAGGATCAGATTCTTGGTTTTGCTGCAGAGGTGCT
*
511562 GGATCTTCACAAGATCTTGGACTAGGATCAGATTCTTGGTTTTGCTGCAGAGGTGCT
1 GGATCTTCACAAGATCTTGGACCAGGATCAGATTCTTGGTTTTGCTGCAGAGGTGCT
511619 G
1 G
511620 AAGGTTCCAT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.21, C:0.17, G:0.29, T:0.33
Consensus pattern (57 bp):
GGATCTTCACAAGATCTTGGACCAGGATCAGATTCTTGGTTTTGCTGCAGAGGTGCT
Found at i:523153 original size:3 final size:3
Alignment explanation
Indices: 523141--523199 Score: 111
Period size: 3 Copynumber: 20.0 Consensus size: 3
523131 GAAATTCTTT
523141 TTA TTA -TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
523188 TTA TTA TTA TTA
1 TTA TTA TTA TTA
523200 AAGCATATAA
Statistics
Matches: 55, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 53 0.96
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:536843 original size:17 final size:17
Alignment explanation
Indices: 536810--536848 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
536800 TTAAGAGGAA
536810 AAATCCTCACAAAATTCC
1 AAATCCTCACAAAATT-C
*
536828 AAATCCTTAC-AAATTC
1 AAATCCTCACAAAATTC
536844 AAATC
1 AAATC
536849 ACTGGAGGGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 6 0.30
17 5 0.25
18 9 0.45
ACGTcount: A:0.46, C:0.28, G:0.00, T:0.26
Consensus pattern (17 bp):
AAATCCTCACAAAATTC
Found at i:539998 original size:8 final size:8
Alignment explanation
Indices: 539985--540031 Score: 59
Period size: 7 Copynumber: 6.5 Consensus size: 8
539975 AAATCAGACT
539985 AAAAACAC
1 AAAAACAC
539993 -AAAA-AC
1 AAAAACAC
539999 AAAAACAC
1 AAAAACAC
540007 -AAAA-AC
1 AAAAACAC
540013 AAAAACAC
1 AAAAACAC
540021 AAAAACA-
1 AAAAACAC
540028 AAAA
1 AAAA
540032 CGGTAACTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
6 4 0.11
7 20 0.57
8 11 0.31
ACGTcount: A:0.81, C:0.19, G:0.00, T:0.00
Consensus pattern (8 bp):
AAAAACAC
Found at i:540004 original size:14 final size:14
Alignment explanation
Indices: 539985--540032 Score: 96
Period size: 14 Copynumber: 3.4 Consensus size: 14
539975 AAATCAGACT
539985 AAAAACACAAAAAC
1 AAAAACACAAAAAC
539999 AAAAACACAAAAAC
1 AAAAACACAAAAAC
540013 AAAAACACAAAAAC
1 AAAAACACAAAAAC
540027 AAAAAC
1 AAAAAC
540033 GGTAACTAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 34 1.00
ACGTcount: A:0.79, C:0.21, G:0.00, T:0.00
Consensus pattern (14 bp):
AAAAACACAAAAAC
Found at i:543436 original size:39 final size:39
Alignment explanation
Indices: 543392--543656 Score: 415
Period size: 39 Copynumber: 6.8 Consensus size: 39
543382 TTAGTTTCTT
* * * *
543392 AAATCTTTTGTTTCGAGAGAAACTATCTCAAGCGAGACA
1 AAATCTTCTGTTTCAAGGGAAACTATCTCAAGAGAGACA
* *
543431 AAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGACA
1 AAATCTTCTGTTTCAAGGGAAACTATCTCAAGAGAGACA
*
543470 AAATCTTCTGTTTCAAGGGAAACTATCTCAAGAGAGAGA
1 AAATCTTCTGTTTCAAGGGAAACTATCTCAAGAGAGACA
*
543509 AAATCTTATGTTTCAAGGGAAACTATCTCAAGAGAGACA
1 AAATCTTCTGTTTCAAGGGAAACTATCTCAAGAGAGACA
543548 AAATCTTCTGTTTCAAGGGAAACTATCTCAAGAGAGACA
1 AAATCTTCTGTTTCAAGGGAAACTATCTCAAGAGAGACA
* *
543587 AAATCTTATGTTTTAAGGGAAACTATCTCAAGAGAGACA
1 AAATCTTCTGTTTCAAGGGAAACTATCTCAAGAGAGACA
*
543626 AAATCTTCTATTTCAAGGGAAACGT-TCTCAA
1 AAATCTTCTGTTTCAAGGGAAAC-TATCTCAA
543657 AGTTATGTGT
Statistics
Matches: 212, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
39 211 1.00
40 1 0.00
ACGTcount: A:0.38, C:0.17, G:0.18, T:0.27
Consensus pattern (39 bp):
AAATCTTCTGTTTCAAGGGAAACTATCTCAAGAGAGACA
Found at i:543819 original size:37 final size:36
Alignment explanation
Indices: 543670--543876 Score: 125
Period size: 36 Copynumber: 5.6 Consensus size: 36
543660 TATGTGTTTC
* *
543670 AAGAGAAACTATCTCAAGGGAGACAAAATTTG-TTTT
1 AAGA-AAATTATCTCAAGCGAGACAAAATTTGTTTTT
* * * * * * *
543706 GAGAAAAAGATGTCTAAAG-TAGGACAAAAGTTATTTTT
1 AAG-AAAA-TTATCTCAAGCGA-GACAAAATTTGTTTTT
* * ** *
543744 AAGGAAAA-CAGTCTCAAGTGAGATTAATTTTG-TTTT
1 AA-GAAAATTA-TCTCAAGCGAGACAAAATTTGTTTTT
* * *
543780 AAGGAAGATTATCTCCAGCGAGACGAAATTTGTTTTT
1 AA-GAAAATTATCTCAAGCGAGACAAAATTTGTTTTT
* *
543817 AAGAAAATTGTCTCAAGCGAGACAAAATTTATTTTT
1 AAGAAAATTATCTCAAGCGAGACAAAATTTGTTTTT
* *
543853 ATGAAAACTCATCTCAAGCGAGAC
1 AAGAAAA-TTATCTCAAGCGAGAC
543877 GACCCTTTGT
Statistics
Matches: 129, Mismatches: 32, Indels: 19
0.72 0.18 0.11
Matches are distributed among these distances:
36 68 0.53
37 50 0.39
38 10 0.08
39 1 0.01
ACGTcount: A:0.40, C:0.12, G:0.19, T:0.30
Consensus pattern (36 bp):
AAGAAAATTATCTCAAGCGAGACAAAATTTGTTTTT
Found at i:545074 original size:27 final size:25
Alignment explanation
Indices: 545034--545099 Score: 78
Period size: 27 Copynumber: 2.5 Consensus size: 25
545024 TTCTCATCCA
545034 TTTTTCTTTGTTTTTTCTTTTTCTT
1 TTTTTCTTTGTTTTTTCTTTTTCTT
* *
545059 CTTTTTCTTTGCTTTTTTGTTTTTGTT
1 -TTTTTCTTTG-TTTTTTCTTTTTCTT
545086 TTTTTGCTCTTGTT
1 TTTTT-CT-TTGTT
545100 GCTCTTTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
26 15 0.43
27 17 0.49
28 3 0.09
ACGTcount: A:0.00, C:0.12, G:0.09, T:0.79
Consensus pattern (25 bp):
TTTTTCTTTGTTTTTTCTTTTTCTT
Found at i:552247 original size:26 final size:26
Alignment explanation
Indices: 552188--552247 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
552178 TTAAAATTAA
*
552188 ATAATT-ATTAAAAATTATTTTTATC
1 ATAATTAATTAAAAATTATATTTATC
*
552213 ATAACTAATTAAAAATTTATATTTAT-
1 ATAATTAATTAAAAA-TTATATTTATC
*
552239 TTAATTAAT
1 ATAATTAAT
552248 ATTAAATTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
25 5 0.17
26 15 0.52
27 9 0.31
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (26 bp):
ATAATTAATTAAAAATTATATTTATC
Found at i:556817 original size:17 final size:17
Alignment explanation
Indices: 556797--556838 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
556787 ACTACTTCCC
556797 TAAATGAAATACATGCT
1 TAAATGAAATACATGCT
* *
556814 TAAATGCAATGCATGCT
1 TAAATGAAATACATGCT
*
556831 TTAATGAA
1 TAAATGAA
556839 CAACATACTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.31
Consensus pattern (17 bp):
TAAATGAAATACATGCT
Found at i:566601 original size:72 final size:72
Alignment explanation
Indices: 566520--566694 Score: 287
Period size: 72 Copynumber: 2.4 Consensus size: 72
566510 CGGAGGAAAT
*
566520 CGATTCCCCCCAAAGAGGTACCGATTCCCCCTGTTTAACGGTATAAATATTTGAATTTTACACTT
1 CGATTCCCCCCAAAGAGGTACCGATTCCCCCTGTTTAACGGTAGAAATATTTGAATTTTACACTT
566585 AGGGAAC
66 AGGGAAC
* *
566592 CGATTCCCCCCAAGGAGGTACCGATTCCCCCTGTTTAACGGTCGAAATATTTGAATTTTACACTT
1 CGATTCCCCCCAAAGAGGTACCGATTCCCCCTGTTTAACGGTAGAAATATTTGAATTTTACACTT
566657 AGGGAAC
66 AGGGAAC
*** *
566664 CGATTCCCCATGAAGGGGTACCGATTCCCCC
1 CGATTCCCCCCAAAGAGGTACCGATTCCCCC
566695 CACGCTCCAA
Statistics
Matches: 95, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
72 95 1.00
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (72 bp):
CGATTCCCCCCAAAGAGGTACCGATTCCCCCTGTTTAACGGTAGAAATATTTGAATTTTACACTT
AGGGAAC
Found at i:567557 original size:21 final size:21
Alignment explanation
Indices: 567533--567572 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
567523 CTCATTTTTA
567533 CTCTCAAT-TCTCTTTTCAATG
1 CTCTCAATGTCT-TTTTCAATG
567554 CTCTCAATGTCTTTTTCAA
1 CTCTCAATGTCTTTTTCAA
567573 CTCTCATTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.20, C:0.28, G:0.05, T:0.47
Consensus pattern (21 bp):
CTCTCAATGTCTTTTTCAATG
Found at i:570062 original size:17 final size:17
Alignment explanation
Indices: 570042--570083 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
570032 ACTACTTCCC
570042 TAAATGAAATACATGCT
1 TAAATGAAATACATGCT
* *
570059 TAAATGCAATGCATGCT
1 TAAATGAAATACATGCT
*
570076 TTAATGAA
1 TAAATGAA
570084 CAACATACTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.31
Consensus pattern (17 bp):
TAAATGAAATACATGCT
Found at i:580379 original size:25 final size:25
Alignment explanation
Indices: 580324--580382 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
580314 TATTTTTCAA
* * *
580324 AAAAAAAAGAAGAAGAAAAAGGCCG
1 AAAAAAAAGAAAAAAAAAAAAGCCG
*
580349 ACAAAAAAGAAAAATAAAAAAAGCC-
1 AAAAAAAAGAAAAA-AAAAAAAGCCG
580374 AAAAAAAAG
1 AAAAAAAAG
580383 TCATAAAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
25 20 0.71
26 8 0.29
ACGTcount: A:0.75, C:0.08, G:0.15, T:0.02
Consensus pattern (25 bp):
AAAAAAAAGAAAAAAAAAAAAGCCG
Found at i:609244 original size:1 final size:1
Alignment explanation
Indices: 609195--609227 Score: 57
Period size: 1 Copynumber: 33.0 Consensus size: 1
609185 TATTTTTTTT
*
609195 AAAAAAACAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
609228 TCCAAAAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:0.97, C:0.03, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:609253 original size:17 final size:17
Alignment explanation
Indices: 609221--609254 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
609211 AAAAAAAAAA
609221 AAAAAAATCCAAAAATT
1 AAAAAAATCCAAAAATT
*
609238 AAAAAAATTCAAAAATT
1 AAAAAAATCCAAAAATT
609255 GCAAACGTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.71, C:0.09, G:0.00, T:0.21
Consensus pattern (17 bp):
AAAAAAATCCAAAAATT
Found at i:618510 original size:12 final size:12
Alignment explanation
Indices: 618493--618524 Score: 55
Period size: 12 Copynumber: 2.6 Consensus size: 12
618483 TTTTTTTTTC
618493 AAAAAAACAAAA
1 AAAAAAACAAAA
618505 AAAAAAACAAAA
1 AAAAAAACAAAA
618517 AAACAAAA
1 AAA-AAAA
618525 AATCCAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 15 0.79
13 4 0.21
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAAAACAAAA
Found at i:618543 original size:8 final size:8
Alignment explanation
Indices: 618505--618543 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
618495 AAAAACAAAA
*
618505 AAAAAAAC
1 AAAAAATC
*
618513 AAAAAAAC
1 AAAAAATC
618521 AAAAAATC
1 AAAAAATC
*
618529 CAAAAATC
1 AAAAAATC
618537 AAAAAAT
1 AAAAAAT
618544 TACAAACGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.79, C:0.13, G:0.00, T:0.08
Consensus pattern (8 bp):
AAAAAATC
Found at i:625555 original size:23 final size:24
Alignment explanation
Indices: 625506--625585 Score: 76
Period size: 24 Copynumber: 3.5 Consensus size: 24
625496 AAATTATAAG
* * *
625506 AGATAAATCCTAATAAA-CGC-TA
1 AGATAATTCCTAATAAATCACAAA
*
625528 AGATAATTCCTAA-AAATCATAAA
1 AGATAATTCCTAATAAATCACAAA
* **
625551 AGATAATTCATAATAAATTGCAAA
1 AGATAATTCCTAATAAATCACAAA
625575 AGATAATTCCT
1 AGATAATTCCT
625586 TTAATTGTTT
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
21 3 0.07
22 13 0.28
23 13 0.28
24 17 0.37
ACGTcount: A:0.51, C:0.14, G:0.07, T:0.28
Consensus pattern (24 bp):
AGATAATTCCTAATAAATCACAAA
Found at i:625555 original size:45 final size:47
Alignment explanation
Indices: 625491--625585 Score: 122
Period size: 45 Copynumber: 2.1 Consensus size: 47
625481 TCCTCAAAAC
* * * *
625491 CCTAAAAATTATAAGAGATAAATCCTAATAAA-CGC-TAAGATAATT
1 CCTAAAAATCATAAAAGATAAATCATAATAAATCGCAAAAGATAATT
* *
625536 CCTAAAAATCATAAAAGATAATTCATAATAAATTGCAAAAGATAATT
1 CCTAAAAATCATAAAAGATAAATCATAATAAATCGCAAAAGATAATT
625583 CCT
1 CCT
625586 TTAATTGTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
45 28 0.67
46 2 0.05
47 12 0.29
ACGTcount: A:0.52, C:0.14, G:0.07, T:0.27
Consensus pattern (47 bp):
CCTAAAAATCATAAAAGATAAATCATAATAAATCGCAAAAGATAATT
Found at i:625856 original size:29 final size:30
Alignment explanation
Indices: 625823--625884 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 30
625813 AAATTTTGAC
*
625823 TAGTGACTAAAATATA-AGTTTTGAAA-GTT
1 TAGTGACTAAAATATACA-CTTTGAAATGTT
* *
625852 TAGTGGCTAAAGTATACACTTTGAAATGTT
1 TAGTGACTAAAATATACACTTTGAAATGTT
625882 TAG
1 TAG
625885 GGATCGAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 21 0.75
30 7 0.25
ACGTcount: A:0.37, C:0.06, G:0.19, T:0.37
Consensus pattern (30 bp):
TAGTGACTAAAATATACACTTTGAAATGTT
Found at i:626278 original size:12 final size:12
Alignment explanation
Indices: 626261--626286 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
626251 TTATGGATTT
626261 GATGATGTAATG
1 GATGATGTAATG
626273 GATGATGTAATG
1 GATGATGTAATG
626285 GA
1 GA
626287 GTGGCATGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.35, T:0.31
Consensus pattern (12 bp):
GATGATGTAATG
Found at i:627133 original size:17 final size:17
Alignment explanation
Indices: 627111--627144 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
627101 TTTTAGAATT
627111 TAAGTGGAAATGGATTA
1 TAAGTGGAAATGGATTA
627128 TAAGTGGAAATGGATTA
1 TAAGTGGAAATGGATTA
627145 GAAGCTGAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.29, T:0.29
Consensus pattern (17 bp):
TAAGTGGAAATGGATTA
Found at i:632672 original size:16 final size:16
Alignment explanation
Indices: 632648--632679 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
632638 CAATTGAAAG
632648 TAAAAAAAGTAAAATT
1 TAAAAAAAGTAAAATT
*
632664 TAAAGAAAGTAAAATT
1 TAAAAAAAGTAAAATT
632680 GAATTGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.66, C:0.00, G:0.09, T:0.25
Consensus pattern (16 bp):
TAAAAAAAGTAAAATT
Found at i:637303 original size:15 final size:13
Alignment explanation
Indices: 637285--637316 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
637275 TGATCAGCAA
637285 GTGTGTGCAAAGC
1 GTGTGTGCAAAGC
637298 GTGTGTGCAAAGC
1 GTGTGTGCAAAGC
*
637311 ATGTGT
1 GTGTGT
637317 TCTCTTATGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.22, C:0.12, G:0.38, T:0.28
Consensus pattern (13 bp):
GTGTGTGCAAAGC
Found at i:639369 original size:24 final size:24
Alignment explanation
Indices: 639315--639369 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 24
639305 CACCACAGTT
* * * *
639315 CATATAAATTTCACCGAAGTGGCA
1 CATAGAAATTGCACCAAAGTGCCA
**
639339 CGCAGAAATTGCACCAAAGTGCCA
1 CATAGAAATTGCACCAAAGTGCCA
639363 CATAGAA
1 CATAGAA
639370 TGTCCCGAAG
Statistics
Matches: 23, Mismatches: 8, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.40, C:0.24, G:0.18, T:0.18
Consensus pattern (24 bp):
CATAGAAATTGCACCAAAGTGCCA
Found at i:639432 original size:23 final size:23
Alignment explanation
Indices: 639368--639455 Score: 72
Period size: 23 Copynumber: 3.9 Consensus size: 23
639358 TGCCACATAG
639368 AATGTCCCGAAGGACCAC--ATA
1 AATGTCCCGAAGGACCACGTATA
* * * * * *
639389 TATTTCTCGAATGATCGCGTATA
1 AATGTCCCGAAGGACCACGTATA
*
639412 AATGTCCCGAAGGACCACGTAGA
1 AATGTCCCGAAGGACCACGTATA
* * *
639435 ATTGTCCCAAAGGACCGCGTA
1 AATGTCCCGAAGGACCACGTA
639456 GAACCCTCGA
Statistics
Matches: 49, Mismatches: 16, Indels: 2
0.73 0.24 0.03
Matches are distributed among these distances:
21 12 0.24
23 37 0.76
ACGTcount: A:0.32, C:0.25, G:0.22, T:0.22
Consensus pattern (23 bp):
AATGTCCCGAAGGACCACGTATA
Found at i:639456 original size:23 final size:23
Alignment explanation
Indices: 639404--639458 Score: 74
Period size: 23 Copynumber: 2.4 Consensus size: 23
639394 CTCGAATGAT
* *
639404 CGCGTATAAATGTCCCGAAGGAC
1 CGCGTAGAAATGTCCCAAAGGAC
* *
639427 CACGTAGAATTGTCCCAAAGGAC
1 CGCGTAGAAATGTCCCAAAGGAC
639450 CGCGTAGAA
1 CGCGTAGAA
639459 CCCTCGATTC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.33, C:0.25, G:0.25, T:0.16
Consensus pattern (23 bp):
CGCGTAGAAATGTCCCAAAGGAC
Found at i:649644 original size:14 final size:14
Alignment explanation
Indices: 649625--649664 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
649615 ACAAATTTGC
649625 AAACTTACAAGGAA
1 AAACTTACAAGGAA
649639 AAACTTACAAGGAA
1 AAACTTACAAGGAA
* *
649653 AACCTCACAAGG
1 AAACTTACAAGG
649665 TAAGATGTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.53, C:0.20, G:0.15, T:0.12
Consensus pattern (14 bp):
AAACTTACAAGGAA
Found at i:653675 original size:24 final size:23
Alignment explanation
Indices: 653610--653671 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
653600 ATACCCCTAC
*
653610 AGGGGGAATCAGTT-CTCCTTCAA
1 AGGGGGAATCAATTCCT-CTTCAA
*
653633 AGGGGGAATCGATTCCTCTTCAA
1 AGGGGGAATCAATTCCTCTTCAA
* *
653656 GGGGGGTATCAATTCC
1 AGGGGGAATCAATTCC
653672 CTCTGCACTA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
23 31 0.94
24 2 0.06
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (23 bp):
AGGGGGAATCAATTCCTCTTCAA
Found at i:662838 original size:31 final size:31
Alignment explanation
Indices: 662802--662864 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 31
662792 AACATACAGA
* * *
662802 ATCATCTTATATTTAATCAACCAA-AACATAT
1 ATCATCCTACATTTAACCAA-CAATAACATAT
*
662833 ATCATCCTGCATTTAACCAACAATAACATAT
1 ATCATCCTACATTTAACCAACAATAACATAT
662864 A
1 A
662865 AAGTTATACA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 3 0.11
31 24 0.89
ACGTcount: A:0.44, C:0.22, G:0.02, T:0.32
Consensus pattern (31 bp):
ATCATCCTACATTTAACCAACAATAACATAT
Found at i:663196 original size:24 final size:24
Alignment explanation
Indices: 663169--663215 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
663159 CACCACAGCT
*
663169 CGTATAAATTGCACCGAAGTGCCG
1 CGTAGAAATTGCACCGAAGTGCCG
*
663193 CGTAGAAATTGCACTGAAGTGCC
1 CGTAGAAATTGCACCGAAGTGCC
663216 ACATAGAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.30, C:0.23, G:0.26, T:0.21
Consensus pattern (24 bp):
CGTAGAAATTGCACCGAAGTGCCG
Found at i:663222 original size:24 final size:24
Alignment explanation
Indices: 663174--663223 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
663164 CAGCTCGTAT
* *
663174 AAATTGCACCGAAGTGCCGCGTAG
1 AAATTGCACCGAAGTGCCACATAG
*
663198 AAATTGCACTGAAGTGCCACATAG
1 AAATTGCACCGAAGTGCCACATAG
663222 AA
1 AA
663224 TATCCCGAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (24 bp):
AAATTGCACCGAAGTGCCACATAG
Found at i:663335 original size:23 final size:23
Alignment explanation
Indices: 663245--663327 Score: 112
Period size: 23 Copynumber: 3.6 Consensus size: 23
663235 ACCACATATA
* * * *
663245 TGTCTCGAAGGACCGCGTAAAAA
1 TGTCCCGAAGGACCACGTAGAAT
*
663268 TGTCCTGAAGGACCACGTAGAAT
1 TGTCCCGAAGGACCACGTAGAAT
*
663291 TGTCCCGAATGACCACGTAGAAT
1 TGTCCCGAAGGACCACGTAGAAT
663314 TGTCCCGAAGGACC
1 TGTCCCGAAGGACC
663328 GCATAGAACC
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 52 1.00
ACGTcount: A:0.30, C:0.25, G:0.25, T:0.19
Consensus pattern (23 bp):
TGTCCCGAAGGACCACGTAGAAT
Found at i:663335 original size:46 final size:46
Alignment explanation
Indices: 663226--663335 Score: 116
Period size: 46 Copynumber: 2.4 Consensus size: 46
663216 ACATAGAATA
* * * *
663226 TCCCGAATGACCACATA-TA-TGTCTCGAAGGACCGCGTAAAAATG
1 TCCCGAAGGACCACATAGAATTGTCCCGAAGGACCACGTAAAAATG
* * * * *
663270 TCCTGAAGGACCACGTAGAATTGTCCCGAATGACCACGTAGAATTG
1 TCCCGAAGGACCACATAGAATTGTCCCGAAGGACCACGTAAAAATG
*
663316 TCCCGAAGGACCGCATAGAA
1 TCCCGAAGGACCACATAGAA
663336 CCCTCGACTC
Statistics
Matches: 52, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
44 14 0.27
45 1 0.02
46 37 0.71
ACGTcount: A:0.33, C:0.25, G:0.23, T:0.19
Consensus pattern (46 bp):
TCCCGAAGGACCACATAGAATTGTCCCGAAGGACCACGTAAAAATG
Found at i:670705 original size:30 final size:31
Alignment explanation
Indices: 670669--670728 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 31
670659 CTTAGCCCTA
670669 TATTATGTTTACATATGC-TTTAGAT-TCATT
1 TATTATGTTTACATAT-CATTTAGATATCATT
670699 TATTATGTTTACATATCATTTAGATATCAT
1 TATTATGTTTACATATCATTTAGATATCAT
670729 GGCAACATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 1 0.04
30 23 0.82
31 4 0.14
ACGTcount: A:0.30, C:0.10, G:0.08, T:0.52
Consensus pattern (31 bp):
TATTATGTTTACATATCATTTAGATATCATT
Found at i:671652 original size:21 final size:20
Alignment explanation
Indices: 671592--671663 Score: 119
Period size: 20 Copynumber: 3.6 Consensus size: 20
671582 CGGCCAAGAG
*
671592 CATGTATCTTCA-TTAAAAT
1 CATGTATTTTCATTTAAAAT
671611 CATGTATTTTCATTTAAAAT
1 CATGTATTTTCATTTAAAAT
671631 CATGTATTTTCATTTAAAAAT
1 CATGTATTTTCATTT-AAAAT
671652 CATGTATTTTCA
1 CATGTATTTTCA
671664 AAGGGGTTTC
Statistics
Matches: 50, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
19 11 0.22
20 22 0.44
21 17 0.34
ACGTcount: A:0.35, C:0.12, G:0.06, T:0.47
Consensus pattern (20 bp):
CATGTATTTTCATTTAAAAT
Found at i:675874 original size:21 final size:20
Alignment explanation
Indices: 675794--675885 Score: 159
Period size: 20 Copynumber: 4.6 Consensus size: 20
675784 CAGCCAAGAG
*
675794 CATGTATCTTCA-TTAAAAT
1 CATGTATTTTCATTTAAAAT
675813 CATGTATTTTCATTTAAAAT
1 CATGTATTTTCATTTAAAAT
675833 CATGTATTTTCATTTAAAAT
1 CATGTATTTTCATTTAAAAT
675853 CATGTATTTTCATTTAAAAAT
1 CATGTATTTTCATTT-AAAAT
675874 CATGTATTTTCA
1 CATGTATTTTCA
675886 AAGGGTTTCA
Statistics
Matches: 70, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
19 11 0.16
20 42 0.60
21 17 0.24
ACGTcount: A:0.35, C:0.12, G:0.05, T:0.48
Consensus pattern (20 bp):
CATGTATTTTCATTTAAAAT
Found at i:679801 original size:34 final size:35
Alignment explanation
Indices: 679750--679819 Score: 106
Period size: 34 Copynumber: 2.0 Consensus size: 35
679740 AAGAAATAAG
*
679750 TTTATGGGCCCTACTTTTAATTTAATTTATTAATA
1 TTTATGGGCCCTACTTTTAATTTAATATATTAATA
* *
679785 TTTAT-GGCCCTGCTTTTAATTTAGTATATTAATA
1 TTTATGGGCCCTACTTTTAATTTAATATATTAATA
679819 T
1 T
679820 AGTTTTTAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
34 27 0.84
35 5 0.16
ACGTcount: A:0.27, C:0.11, G:0.10, T:0.51
Consensus pattern (35 bp):
TTTATGGGCCCTACTTTTAATTTAATATATTAATA
Found at i:679858 original size:121 final size:122
Alignment explanation
Indices: 679721--680004 Score: 471
Period size: 122 Copynumber: 2.3 Consensus size: 122
679711 ACACGTTAGG
679721 ATGAGAACAATAAGTCAATAAGAAATAAGTTTATGGGCCCTACTTTTAATTTAATTTATTAATAT
1 ATGAGAACAATAAGTCAATAAGAAATAAGTTTATGGGCCCTACTTTTAATTTAATTTATTAATAT
* *
679786 TTAT-GGCCCTGCTTTTAATTTAGTATATTAATATAGTTTTTAACGTTATAATGACT
66 TTATGGGCCCTGATTTTAATTTAGTATATTAATATAGTTTTTAACGTTATAATAACT
* * * *
679842 ATGAGAATAATAAGTCAATAAGAAATAAGTTTAGGGGCCCTGCTTTTAATTTAGTTTATTAATAT
1 ATGAGAACAATAAGTCAATAAGAAATAAGTTTATGGGCCCTACTTTTAATTTAATTTATTAATAT
* * *
679907 TTATGGGCTCTGATTTTAATTTAGTGTATTAATATAGTTTTTAACGTTATGATAACT
66 TTATGGGCCCTGATTTTAATTTAGTATATTAATATAGTTTTTAACGTTATAATAACT
*
679964 ATGAGAACAATAAGTCAATAAGAAATTAGTTTATGGGCCCT
1 ATGAGAACAATAAGTCAATAAGAAATAAGTTTATGGGCCCT
680005 CTTGTATTAA
Statistics
Matches: 150, Mismatches: 12, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
121 65 0.43
122 85 0.57
ACGTcount: A:0.36, C:0.09, G:0.15, T:0.40
Consensus pattern (122 bp):
ATGAGAACAATAAGTCAATAAGAAATAAGTTTATGGGCCCTACTTTTAATTTAATTTATTAATAT
TTATGGGCCCTGATTTTAATTTAGTATATTAATATAGTTTTTAACGTTATAATAACT
Found at i:679931 original size:35 final size:35
Alignment explanation
Indices: 679871--679941 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 35
679861 AAGAAATAAG
* *
679871 TTTAGGGGCCCTGCTTTTAATTTAGTTTATTAATA
1 TTTAGGGGCCCTGATTTTAATTTAGTGTATTAATA
* *
679906 TTTATGGGCTCTGATTTTAATTTAGTGTATTAATA
1 TTTAGGGGCCCTGATTTTAATTTAGTGTATTAATA
679941 T
1 T
679942 AGTTTTTAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.24, C:0.08, G:0.17, T:0.51
Consensus pattern (35 bp):
TTTAGGGGCCCTGATTTTAATTTAGTGTATTAATA
Found at i:686652 original size:87 final size:86
Alignment explanation
Indices: 686495--686655 Score: 232
Period size: 87 Copynumber: 1.9 Consensus size: 86
686485 TATGTTATAT
* * * * *
686495 ATTTAAACGAAATATTATTAAGTATAATAATATATTATGTAACGCTTATATAATGTAATAGATAG
1 ATTTAAACGAAATATTATCAAGTACAATAACACATTATGTAACGCTTATATAATGTAATAGATAA
686560 CGTTTATATAATAAAATAGGC
66 CGTTTATATAATAAAATAGGC
* * *
686581 ATTTAACCGGAAATATTATCAAGTACAATAACACATTATGTAGCGCTTATATAATGTAATAGGTA
1 ATTTAAAC-GAAATATTATCAAGTACAATAACACATTATGTAACGCTTATATAATGTAATAGATA
*
686646 ATGTTTATAT
65 ACGTTTATAT
686656 GACTTATTTT
Statistics
Matches: 65, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
86 7 0.11
87 58 0.89
ACGTcount: A:0.43, C:0.08, G:0.12, T:0.37
Consensus pattern (86 bp):
ATTTAAACGAAATATTATCAAGTACAATAACACATTATGTAACGCTTATATAATGTAATAGATAA
CGTTTATATAATAAAATAGGC
Found at i:687069 original size:200 final size:199
Alignment explanation
Indices: 686701--687373 Score: 856
Period size: 200 Copynumber: 3.4 Consensus size: 199
686691 GGTAACGTTA
* *
686701 TAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGAATCGATACAATTT--TAAA
1 TAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATAC-TTTTAATAAA
* * * *
686764 TGTATCGACACTTTATGTGTGCACCTCGTTGGGCATTCATTCTGGAAAAAAGTATCGACACAAAC
65 TGTATCGACACTTTATGTGTGCACCTCGTTTGGCATTCATTATGGACAAAAGTATCGACACAAAT
* * * *
686829 TTAAAAAATGTCGATACATTATGTAGACC-AATCTTCTCATAAAATC-GGTATATTTATACCGGG
130 TTAAAAAGTGTCGATACATTATGTTGACCTATTC-TCTCATAAAA-CAGGTATATTTATACCGGT
*
686892 TATATTG
193 TAAATTG
* * * *
686899 TAAATTTACCTATTACATTGTAATTCTCGATTTCGATGTTTTTGGGATCGAAACTTTTAATAAAT
1 TAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACTTTTAATAAAT
* *
686964 GTATCGACACTTTATGTGTGTACCTCGTTTGGAATTCATTATGGACAAAATGTATCGACACAAAT
66 GTATCGACACTTTATGTGTGCACCTCGTTTGGCATTCATTATGGACAAAA-GTATCGACACAAAT
* *
687029 TTAAAAAGTGTCGATACATTATGTTGACCTATTCTCTCATAAAACTGGTATATTTATACCAGTTA
130 TTAAAAAGTGTCGATACATTATGTTGACCTATTCTCTCATAAAACAGGTATATTTATACCGGTTA
687094 AATTG
195 AATTG
** * *
687099 TAAATTTACCTATTACATTATAATTATTTGTTTTGATGTTTTTGAGATCGATACTTTTAATAAAT
1 TAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACTTTTAATAAAT
* * *
687164 GTATCGACACTTTATGCGTGCACCTCGTTTGGGCATTCATTCAT-GACAATAAGTATCGATATAA
66 GTATCGACACTTTATGTGTGCACCTCGTTT-GGCATTCATT-ATGGACAA-AAGTATCGACACAA
** * * * * * * *
687228 ATTCCACAAGTGTCGATACATTATGTTAACATATTTTCTAAT-TAACAGGTATATTTATACCGAT
128 ATTTAAAAAGTGTCGATACATTATGTTGACCTATTCTCTCATAAAACAGGTATATTTATACCGGT
*
687292 TACATTG
193 TAAATTG
* * * *
687299 TTAATTTACCTATTACATTATAATTATTGGTTTCGATATTTTTGGGGTCGATACTTTTAGA-AAA
1 TAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACTTTTA-ATAAA
*
687363 TATATCGACAC
65 TGTATCGACAC
687374 ATATGTTTAC
Statistics
Matches: 416, Mismatches: 50, Indels: 16
0.86 0.10 0.03
Matches are distributed among these distances:
197 3 0.01
198 49 0.12
199 51 0.12
200 246 0.59
201 63 0.15
202 4 0.01
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.39
Consensus pattern (199 bp):
TAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACTTTTAATAAAT
GTATCGACACTTTATGTGTGCACCTCGTTTGGCATTCATTATGGACAAAAGTATCGACACAAATT
TAAAAAGTGTCGATACATTATGTTGACCTATTCTCTCATAAAACAGGTATATTTATACCGGTTAA
ATTG
Found at i:690122 original size:19 final size:19
Alignment explanation
Indices: 690098--690145 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
690088 TTACATTCAC
690098 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
* *
690117 ATACAAAACTATGAATCGT
1 ATACAAAATTATAAATCGT
690136 ATACAAAATT
1 ATACAAAATT
690146 TCCCCTACAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.52, C:0.12, G:0.06, T:0.29
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:692372 original size:3 final size:3
Alignment explanation
Indices: 692364--692398 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
692354 ACTTGTTTGG
* *
692364 ATC ATC ATC ATC ATC ATC ATC ATC TTC ATC GTC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
692399 ATTCATTGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.29, C:0.31, G:0.03, T:0.37
Consensus pattern (3 bp):
ATC
Found at i:693215 original size:2 final size:2
Alignment explanation
Indices: 693208--693233 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
693198 GTATCCCGAG
693208 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
693234 TTCCTCATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:694759 original size:201 final size:199
Alignment explanation
Indices: 693896--695374 Score: 1576
Period size: 201 Copynumber: 7.5 Consensus size: 199
693886 CGTAATTTAA
*
693896 AAAAAGTATCGACACAAATTTAGAAA-GTGTCGATACTTTATGTAGACCTATTTTCTCATAAAAC
1 AAAAAGTATCGACACAAATTTA-AAATGTGTCGATACATTATGTAGACCTATTTTCTCATAAAAC
* * * * * *
693960 TGGTATATTTCTACCGGATACATTGTAAAGTTACCTATTACATTGTAATTATCAGTTTTAAAG-T
65 CGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTGTAATTATCAGTTTCAATGTT
* * * * * *
694024 TTTAGGATCGATAC-TTTTAATAAATGTATTGACACTTTATTCGTGCACCTTGTTGGGCATTCAT
130 TTTGGGATCGATACAATTT--TAAATGTATCGACACTTTATGCGTGCACCTAGTTTGGCATTCAT
*
694088 TCTGGGC
193 TCTGGAC
* * * * * *
694095 AAAAAGTATCGACAC--TTTCTAAATTTGTGTCGATACTTTATTTAGACCTACTTTCTCAAAAAA
1 AAAAAGTATCGACACAAATT-TAAA-ATGTGTCGATACATTATGTAGACCTATTTTCTC-ATAAA
* * * *
694158 ACTGGTATATTTATACTGGTTACATTTTAAATTTACCTATTACATTGTAATTATCGGTTTCAATG
63 ACCGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTGTAATTATCAGTTTCAATG
*
694223 TTTTTGGGATCGATACAATTTTAAATGTATCGACACTTTATGCGTGCACCTAG--TGTCATTCAT
128 TTTTTGGGATCGATACAATTTTAAATGTATCGACACTTTATGCGTGCACCTAGTTTGGCATTCAT
694286 TCTGGAC
193 TCTGGAC
* * * *
694293 AAAAAGTATCGAGAC--TTTCTAAATTTGTGTCGATACTTTATGTAGACCTATTTTCTCATAAAA
1 AAAAAGTATCGACACAAATT-TAAA-ATGTGTCGATACATTATGTAGACCTATTTTCTCATAAAA
* * * * * * *
694356 TCAGTATATTTCTACCGGTTATACTGTTAATTTACCTATTACATTGTAATTATC-GATTTCGATG
64 CCGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTGTAATTATCAG-TTTCAATG
* * *
694420 TTTTTGGGATCGATACAATTTTAAATGTATCGACACTTTATGCGTGCACTTAGTTTGTCATTTAT
128 TTTTTGGGATCGATACAATTTTAAATGTATCGACACTTTATGCGTGCACCTAGTTTGGCATTCAT
694485 TCTGGAC
193 TCTGGAC
* * * *
694492 AAAAAGTATCGACACAAAATTAAAAAGTATTGATACATTATGTAGACCTATTTTCTCATAAAACC
1 AAAAAGTATCGACACAAATTTAAAATGTGTCGATACATTATGTAGACCTATTTTCTCATAAAACC
* * * * * * ** *
694557 GGTGTATTTATACCAGTTACATTGTAAAATTACCTATTATATTATAACTATGGGTTTTAATGTTT
66 GGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTGTAATTATCAGTTTCAATGTTT
** * *
694622 TTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTACACCTCGTTTGGGCATTCATT
131 TTGGGATCGATACAATTT-TAAATGTATCGACACTTTATGCGTGCACCTAGTTT-GGCATTCATT
694687 CTGGAC
194 CTGGAC
* * * * * * *
694693 AAAAAGTATCGATAAAAATTTAAAATGTGTTGATACATTATGTTA-ATCTGTTTTCTGATTAAAC
1 AAAAAGTATCGACACAAATTTAAAATGTGTCGATACATTATG-TAGACCTATTTTCTCATAAAAC
* * * * * *
694757 CGGTATATTTATACCGGTTACATTGCAAAATTACCTACTACATTATAATTATGAGTTTCGATGTT
65 CGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTGTAATTATCAGTTTCAATGTT
* * ** *
694822 TTTAGGAACGATACTTTTTATAAATGTATCGACACTTTATGCGTGCACCTCGTTTGGGCATTCAT
130 TTTGGGATCGATACAATTT-TAAATGTATCGACACTTTATGCGTGCACCTAGTTT-GGCATTCAT
*
694887 TTTGGAC
193 TCTGGAC
* * * *
694894 AACAAGTATCGACACAAATTTCAAAA-GTGTCGATACGTTATGTAGACCTATTCTCCCATAAAAC
1 AAAAAGTATCGACACAAATTT-AAAATGTGTCGATACATTATGTAGACCTATTTTCTCATAAAAC
*
694958 CAGTATATATT-TACCGGTTACATTGTAAATTTACCTATTACATTGTAATTATCAGTTTCAATGT
65 CGGTATAT-TTATACCGGTTACATTGTAAATTTACCTATTACATTGTAATTATCAGTTTCAATGT
695022 TTTTGGGATCGATACAATTTTAAATGTATCGACACTTTATGCGTGCACCTAGTTTGGCATTCATT
129 TTTTGGGATCGATACAATTTTAAATGTATCGACACTTTATGCGTGCACCTAGTTTGGCATTCATT
695087 CTGGAC
194 CTGGAC
* * * * * *
695093 AAAATGTATCGATACAAATTTAAAAAGTGTCGATACATTATGTTGACCTATTTTCTCATTAAACA
1 AAAAAGTATCGACACAAATTTAAAATGTGTCGATACATTATGTAGACCTATTTTCTCATAAAACC
* * *
695158 TGTATATTT-TA-C-----C----T--A-TTA-CT-TT--A---TAATAATCGGTTTCAATGTTT
66 GGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTGTAATTATCAGTTTCAATGTTT
** * *** **
695202 TGAGGATCGATACTTACAATAAATGTATCGACACTTTATGC-TGCATTTCA-TTTGGCATTCATT
131 TTGGGATCGATAC-AATTTTAAATGTATCGACACTTTATGCGTGCACCT-AGTTTGGCATTCATT
*
695265 CTAGAC
194 CTGGAC
** * * *
695271 AAAAAGTATCGACAC-AATTTATAAAAATATCGATACATTATGTTGACTTATTTTCTCATAAAAC
1 AAAAAGTATCGACACAAATTTA-AAATGTGTCGATACATTATGTAGACCTATTTTCTCATAAAAC
* *
695335 CGATATATTTTTACCGGTT-CATTGTAAATTTACCTATTAC
65 CGGTATATTTATACCGGTTACATTGTAAATTTACCTATTAC
695375 TTTATAATGT
Statistics
Matches: 1098, Mismatches: 143, Indels: 82
0.83 0.11 0.06
Matches are distributed among these distances:
177 6 0.01
178 111 0.10
179 26 0.02
180 1 0.00
181 1 0.00
183 2 0.00
184 3 0.00
185 3 0.00
186 1 0.00
188 2 0.00
190 1 0.00
191 3 0.00
192 3 0.00
193 2 0.00
196 1 0.00
197 114 0.10
198 78 0.07
199 246 0.22
200 163 0.15
201 320 0.29
202 11 0.01
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.39
Consensus pattern (199 bp):
AAAAAGTATCGACACAAATTTAAAATGTGTCGATACATTATGTAGACCTATTTTCTCATAAAACC
GGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTGTAATTATCAGTTTCAATGTTT
TTGGGATCGATACAATTTTAAATGTATCGACACTTTATGCGTGCACCTAGTTTGGCATTCATTCT
GGAC
Found at i:694991 original size:20 final size:20
Alignment explanation
Indices: 694966--695005 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
694956 ACCAGTATAT
*
694966 ATTTACCGGTTACATTGTAA
1 ATTTACCGATTACATTGTAA
*
694986 ATTTACCTATTACATTGTAA
1 ATTTACCGATTACATTGTAA
695006 TTATCAGTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.42
Consensus pattern (20 bp):
ATTTACCGATTACATTGTAA
Found at i:695033 original size:601 final size:595
Alignment explanation
Indices: 693896--695170 Score: 1697
Period size: 601 Copynumber: 2.1 Consensus size: 595
693886 CGTAATTTAA
* * *
693896 AAAAAGTATCGACACAAATTTAGAAAGTGTCGATACTTTATGTAGACCTATTTTCTCATAAAACT
1 AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTCATAAAACC
* * * * *
693961 GGTATATTTCTACCGGATACATTGTAAAGTTACCTATTACATTGTAATTATCAGTTTTAAAGTTT
66 GGTATATTTATACCAGATACATTGTAAAATTACCTATTACATTATAACTATCAGTTTTAAAGTTT
* * * *
694026 TAGGATCGATACTTTTAATAAATGTATTGACACTTTATTCGTGCACCTTGTTGGGCATTCATTCT
131 TAGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTACACCTCGTTGGGCATTCATTCT
* * ** * *
694091 GGGCAAAAAGTATCGACACTTTCTAAATTTGTGTCGATACTTTATTTAGACCTACTTTCTCAAAA
196 GGACAAAAAGTATCGAAAAATTCTAAATATGTGTCGATACATTATTTAGACCTACTTTCTCAAAA
* * ** * * *
694156 AAACTGGTATATTTATACTGGTTACATTTTAAATTTACCTATTACATTGTAATTATCGGTTTCAA
261 AAACCGGTATATTTATACCGGTTACATTGCAAAATTACCTACTACATTATAATTATCGGTTTCAA
* * *
694221 TGTTTTTGGGATCGATACAATTTTAAATGTATCGACACTTTATGCGTGCACCTAGTGTCATTCAT
326 TGTTTTTAGGAACGATACAATTTTAAATGTATCGACACTTTATGCGTGCACCTAGTGGCATTCAT
* * * * *
694286 TCTGGACAAAAAGTATCGAGACTTTCTAAATTTGTGTCGATACTTTATGTAGACCTATTTTCTCA
391 TCTGGACAAAAAGTATCGACACTTTCTAAA-TAGTGTCGATACGTTATGTAGACCTATTCTCCCA
* * *
694351 TAAAATCAGTATATTTCTACCGGTTATACTGTTAATTTACCTATTACATTGTAATTATCGATTTC
455 TAAAACCAGTATATTTCTACCGGTTACACTGTAAATTTACCTATTACATTGTAATTATCGATTTC
* * *
694416 GATGTTTTTGGGATCGATACAATTTTAAATGTATCGACACTTTATGCGTGCACTTAGTTTGTCAT
520 AATGTTTTTGGGATCGATACAATTTTAAATGTATCGACACTTTATGCGTGCACCTAGTTTGGCAT
*
694481 TTATTCTGGAC
585 TCATTCTGGAC
* * *
694492 AAAAAGTATCGACACAAAATTAAAAAGTATTGATACATTATGTAGACCTATTTTCTCATAAAACC
1 AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTCATAAAACC
* * * ** *
694557 GGTGTATTTATACCAGTTACATTGTAAAATTACCTATTATATTATAACTATGGGTTTTAATGTTT
66 GGTATATTTATACCAGATACATTGTAAAATTACCTATTACATTATAACTATCAGTTTTAAAG-TT
* *
694622 TTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTACACCTCGTTTGGGCATTCATT
130 TTAGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTACACCTCG-TTGGGCATTCATT
* * **
694687 CTGGACAAAAAGTATCGATAAAAATT-TAAA-ATGTGTTGATACATTATGTTA-ATCTGTTTTCT
194 CTGGACAAAAAGTATCG--AAAAATTCTAAATATGTGTCGATACATTAT-TTAGACCTACTTTCT
* **
694749 -GATTAAACCGGTATATTTATACCGGTTACATTGCAAAATTACCTACTACATTATAATTAT-GAG
256 CAAAAAAACCGGTATATTTATACCGGTTACATTGCAAAATTACCTACTACATTATAATTATCG-G
* ** *
694812 TTTCGATGTTTTTAGGAACGATACTTTTTATAAATGTATCGACACTTTATGCGTGCACCTCGTTT
320 TTTCAATGTTTTTAGGAACGATACAATTT-TAAATGTATCGACACTTTATGCGTGCACCTAG--T
* *
694877 GGGCATTCATTTTGGACAACAAGTATCGACACAAATTTC-AAA-AGTGTCGATACGTTATGTAGA
382 -GGCATTCATTCTGGACAAAAAGTATCGACAC---TTTCTAAATAGTGTCGATACGTTATGTAGA
*
694940 CCTATTCTCCCATAAAACCAGTATATATT-TACCGGTTACATTGTAAATTTACCTATTACATTGT
443 CCTATTCTCCCATAAAACCAGTATAT-TTCTACCGGTTACACTGTAAATTTACCTATTACATTGT
695004 AATTATC-AGTTTCAATGTTTTTGGGATCGATACAATTTTAAATGTATCGACACTTTATGCGTGC
507 AATTATCGA-TTTCAATGTTTTTGGGATCGATACAATTTTAAATGTATCGACACTTTATGCGTGC
695068 ACCTAGTTTGGCATTCATTCTGGAC
571 ACCTAGTTTGGCATTCATTCTGGAC
* * * * *
695093 AAAATGTATCGATACAAATTTAAAAAGTGTCGATACATTATGTTGACCTATTTTCTCATTAAACA
1 AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTCATAAAACC
*
695158 TGTATATTT-TACC
66 GGTATATTTATACC
695171 TATTACTTTA
Statistics
Matches: 589, Mismatches: 75, Indels: 26
0.85 0.11 0.04
Matches are distributed among these distances:
596 111 0.19
597 122 0.21
598 82 0.14
599 7 0.01
600 10 0.02
601 248 0.42
602 2 0.00
603 3 0.01
604 4 0.01
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.39
Consensus pattern (595 bp):
AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTCATAAAACC
GGTATATTTATACCAGATACATTGTAAAATTACCTATTACATTATAACTATCAGTTTTAAAGTTT
TAGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTACACCTCGTTGGGCATTCATTCT
GGACAAAAAGTATCGAAAAATTCTAAATATGTGTCGATACATTATTTAGACCTACTTTCTCAAAA
AAACCGGTATATTTATACCGGTTACATTGCAAAATTACCTACTACATTATAATTATCGGTTTCAA
TGTTTTTAGGAACGATACAATTTTAAATGTATCGACACTTTATGCGTGCACCTAGTGGCATTCAT
TCTGGACAAAAAGTATCGACACTTTCTAAATAGTGTCGATACGTTATGTAGACCTATTCTCCCAT
AAAACCAGTATATTTCTACCGGTTACACTGTAAATTTACCTATTACATTGTAATTATCGATTTCA
ATGTTTTTGGGATCGATACAATTTTAAATGTATCGACACTTTATGCGTGCACCTAGTTTGGCATT
CATTCTGGAC
Found at i:695258 original size:178 final size:178
Alignment explanation
Indices: 694987--695334 Score: 479
Period size: 178 Copynumber: 2.0 Consensus size: 178
694977 ACATTGTAAA
* * ***
694987 TTTACCTATTACATTGTAATTATCAGTTTCAATGTTTTTGGGATCGATACAATTTTAAATGTATC
1 TTTACCTATTACATTATAATAATCAGTTTCAATGTTTTTGGGATCGATACAACAATAAATGTATC
* * *
695052 GACACTTTATGCGTGCACCTAGTTTGGCATTCATTCTGGACAAAATGTATCGATACAAATTTA-A
66 GACACTTTATGCGTGCACCTAGTTTGGCATTCATTCTAGACAAAAAGTATCGACAC-AATTTATA
* * *
695116 AAAGTGTCGATACATTATGTTGACCTATTTTCTCATTAAACATGTATAT
130 AAAATATCGATACATTATGTTGACCTATTTTCTCATAAAACATGTATAT
* * *
695165 TTTACCTATTACTTTATAATAATCGGTTTCAATG-TTTTGAGGATCGATACTTACAATAAATGTA
1 TTTACCTATTACATTATAATAATCAGTTTCAATGTTTTTG-GGATCGATAC-AACAATAAATGTA
**
695229 TCGACACTTTATGC-TGCATTTCA-TTTGGCATTCATTCTAGACAAAAAGTATCGACACAATTTA
64 TCGACACTTTATGCGTGCACCT-AGTTTGGCATTCATTCTAGACAAAAAGTATCGACACAATTTA
*
695292 TAAAAATATCGATACATTATGTTGACTTATTTTCTCATAAAAC
128 TAAAAATATCGATACATTATGTTGACCTATTTTCTCATAAAAC
695335 CGATATATTT
Statistics
Matches: 149, Mismatches: 17, Indels: 8
0.86 0.10 0.05
Matches are distributed among these distances:
177 11 0.07
178 114 0.77
179 24 0.16
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (178 bp):
TTTACCTATTACATTATAATAATCAGTTTCAATGTTTTTGGGATCGATACAACAATAAATGTATC
GACACTTTATGCGTGCACCTAGTTTGGCATTCATTCTAGACAAAAAGTATCGACACAATTTATAA
AAATATCGATACATTATGTTGACCTATTTTCTCATAAAACATGTATAT
Found at i:695810 original size:66 final size:66
Alignment explanation
Indices: 695704--695880 Score: 318
Period size: 66 Copynumber: 2.7 Consensus size: 66
695694 ACATTCAGAC
695704 ACAACAATCTATTGCTAACTTTTCTCATCTCATACATAATTACATCAACATGTATAAGAAACATG
1 ACAACAATCTATTGCTAACTTTTCTCATCTCATACATAATTACATCAACATGTATAAGAAACATG
695769 T
66 T
* *
695770 ACAACAATTTATTGTTAACTTTTCTCATCTCATACATAATTACATCAACATGTATAAGAAACATG
1 ACAACAATCTATTGCTAACTTTTCTCATCTCATACATAATTACATCAACATGTATAAGAAACATG
695835 T
66 T
* *
695836 ACAACAATCTATTGCTAACTTTTCTTATCTCATATATAATTACAT
1 ACAACAATCTATTGCTAACTTTTCTCATCTCATACATAATTACAT
695881 TCAGATACAA
Statistics
Matches: 105, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 105 1.00
ACGTcount: A:0.38, C:0.20, G:0.05, T:0.37
Consensus pattern (66 bp):
ACAACAATCTATTGCTAACTTTTCTCATCTCATACATAATTACATCAACATGTATAAGAAACATG
T
Found at i:695890 original size:117 final size:117
Alignment explanation
Indices: 695769--695997 Score: 404
Period size: 117 Copynumber: 2.0 Consensus size: 117
695759 AAGAAACATG
* *
695769 TACAACAATTTATTGTTAACTTTTCTCATCTCATACATAATTACATCAACATGTATAAGAAACAT
1 TACAACAATCTATTGCTAACTTTTCTCATCTCATACATAATTACATCAACATGTATAAGAAACAT
* * * *
695834 GTACAACAATCTATTGCTAACTTTTCTTATCTCATATATAATTACATTCAGA
66 GTACAACAACCTATTGCTAAATTTTCTCATCTCATACATAATTACATTCAGA
695886 TACAACAATCTATTGCTAACTTTTCTCATCTCATACATAATTACATCAACATGTATAAGAAACAT
1 TACAACAATCTATTGCTAACTTTTCTCATCTCATACATAATTACATCAACATGTATAAGAAACAT
695951 GTACAACAACCTATTGCTAAATTTTCTCATCTCATACATAATTACAT
66 GTACAACAACCTATTGCTAAATTTTCTCATCTCATACATAATTACAT
695998 CAACATGTAT
Statistics
Matches: 106, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
117 106 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (117 bp):
TACAACAATCTATTGCTAACTTTTCTCATCTCATACATAATTACATCAACATGTATAAGAAACAT
GTACAACAACCTATTGCTAAATTTTCTCATCTCATACATAATTACATTCAGA
Found at i:695895 original size:51 final size:51
Alignment explanation
Indices: 695835--695931 Score: 176
Period size: 51 Copynumber: 1.9 Consensus size: 51
695825 AAGAAACATG
* *
695835 TACAACAATCTATTGCTAACTTTTCTTATCTCATATATAATTACATTCAGA
1 TACAACAATCTATTGCTAACTTTTCTCATCTCATACATAATTACATTCAGA
695886 TACAACAATCTATTGCTAACTTTTCTCATCTCATACATAATTACAT
1 TACAACAATCTATTGCTAACTTTTCTCATCTCATACATAATTACAT
695932 CAACATGTAT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 44 1.00
ACGTcount: A:0.35, C:0.22, G:0.03, T:0.40
Consensus pattern (51 bp):
TACAACAATCTATTGCTAACTTTTCTCATCTCATACATAATTACATTCAGA
Found at i:695916 original size:183 final size:183
Alignment explanation
Indices: 695571--696195 Score: 883
Period size: 183 Copynumber: 3.3 Consensus size: 183
695561 CATACCTAAA
** *
695571 TATAAGAAACATGTACAACAACCTATTGCTATTTTTTCTCATCTCATACATAATTAC-TCCTACT
1 TATAAGAAACATGTACAACAACCTATTGCTAACTTTTCTCATCTCATACATAATTACAT-CAAC-
* * ** *
695635 ATGTATAAGAAACGTGTAGAACACCCTATTGCTAACTTTTTCTCATCTCACACATAATTACATTC
64 ATGTATAAGAAACATGTACAACAATCTATTGCTAAC-TTTTCTCATCTCATACATAATTACATTC
*
695700 AGACACAACAATCTATTGCTAACTTTTCTCATCTCATACATAATTACATCAACATG
128 AGATACAACAATCTATTGCTAACTTTTCTCATCTCATACATAATTACATCAACATG
** *
695756 TATAAGAAACATGTACAACAATTTATTGTTAACTTTTCTCATCTCATACATAATTACATCAACAT
1 TATAAGAAACATGTACAACAACCTATTGCTAACTTTTCTCATCTCATACATAATTACATCAACAT
* *
695821 GTATAAGAAACATGTACAACAATCTATTGCTAACTTTTCTTATCTCATATATAATTACATTCAGA
66 GTATAAGAAACATGTACAACAATCTATTGCTAACTTTTCTCATCTCATACATAATTACATTCAGA
695886 TACAACAATCTATTGCTAACTTTTCTCATCTCATACATAATTACATCAACATG
131 TACAACAATCTATTGCTAACTTTTCTCATCTCATACATAATTACATCAACATG
*
695939 TATAAGAAACATGTACAACAACCTATTGCTAAATTTTCTCATCTCATACATAATTACATCAACAT
1 TATAAGAAACATGTACAACAACCTATTGCTAACTTTTCTCATCTCATACATAATTACATCAACAT
* *
696004 GTATAAGAAACATGTACAACAATCTATTGCTAAATTTTCTCATCTCATACATAATTACATCAACA
66 GTATAAGAAACATGTACAACAATCTATTGCTAACTTTTCTCATCTCATACATAATTACAT--TCA
*
696069 TGTATAAGAAACATGTACAACGATCTATTGCTAACTTTTCTCATTTCATACATAATTACATCAAC
129 -G-AT-----ACA---AC-A--ATCTATTGCTAACTTTTCTCATCTCATACATAATTACATCAAC
696134 ATG
181 ATG
* * * *
696137 TATAAGAAACATATACAACAACCTATTACTAACTTTTCTCACCTCAAACATAATTACAT
1 TATAAGAAACATGTACAACAACCTATTGCTAACTTTTCTCATCTCATACATAATTACAT
696196 TTAGATACAA
Statistics
Matches: 396, Mismatches: 28, Indels: 19
0.89 0.06 0.04
Matches are distributed among these distances:
183 198 0.50
184 32 0.08
185 57 0.14
186 2 0.01
187 2 0.01
192 3 0.01
195 2 0.01
196 1 0.00
198 99 0.25
ACGTcount: A:0.38, C:0.21, G:0.06, T:0.34
Consensus pattern (183 bp):
TATAAGAAACATGTACAACAACCTATTGCTAACTTTTCTCATCTCATACATAATTACATCAACAT
GTATAAGAAACATGTACAACAATCTATTGCTAACTTTTCTCATCTCATACATAATTACATTCAGA
TACAACAATCTATTGCTAACTTTTCTCATCTCATACATAATTACATCAACATG
Found at i:695979 original size:66 final size:66
Alignment explanation
Indices: 695886--696195 Score: 530
Period size: 66 Copynumber: 4.7 Consensus size: 66
695876 TACATTCAGA
695886 TACAACAATCTATTGCTAACTTTTCTCATCTCATACATAATTACATCAACATGTATAAGAAACAT
1 TACAACAATCTATTGCTAACTTTTCTCATCTCATACATAATTACATCAACATGTATAAGAAACAT
695951 G
66 G
* *
695952 TACAACAACCTATTGCTAAATTTTCTCATCTCATACATAATTACATCAACATGTATAAGAAACAT
1 TACAACAATCTATTGCTAACTTTTCTCATCTCATACATAATTACATCAACATGTATAAGAAACAT
696017 G
66 G
*
696018 TACAACAATCTATTGCTAAATTTTCTCATCTCATACATAATTACATCAACATGTATAAGAAACAT
1 TACAACAATCTATTGCTAACTTTTCTCATCTCATACATAATTACATCAACATGTATAAGAAACAT
696083 G
66 G
* *
696084 TACAACGATCTATTGCTAACTTTTCTCATTTCATACATAATTACATCAACATGTATAAGAAACAT
1 TACAACAATCTATTGCTAACTTTTCTCATCTCATACATAATTACATCAACATGTATAAGAAACAT
*
696149 A
66 G
* * * *
696150 TACAACAACCTATTACTAACTTTTCTCACCTCAAACATAATTACAT
1 TACAACAATCTATTGCTAACTTTTCTCATCTCATACATAATTACAT
696196 TTAGATACAA
Statistics
Matches: 231, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 231 1.00
ACGTcount: A:0.40, C:0.22, G:0.05, T:0.33
Consensus pattern (66 bp):
TACAACAATCTATTGCTAACTTTTCTCATCTCATACATAATTACATCAACATGTATAAGAAACAT
G
Found at i:698041 original size:66 final size:64
Alignment explanation
Indices: 697901--698042 Score: 158
Period size: 66 Copynumber: 2.2 Consensus size: 64
697891 CACCCCTTCA
* ** *
697901 CCCCCTTAAGTTCACTCCTTAATTCCACAACTTCCTTGACCACTCCATCAATTTTTCCACCCGT
1 CCCCCTTAAGTTCACCCCTTAACACCACAACTTCCTTCACCACTCCATCAATTTTTCCACCCGT
* * * * *
697965 CACCATCTTAAGTTCACCCCTTAACACCTCAACTTCTTTCACCACTCCATCTATTTTTCCTCCCA
1 C-CC-CCTTAAGTTCACCCCTTAACACCACAACTTCCTTCACCACTCCATCAATTTTTCC-ACC-
*
698030 CTT
62 CGT
698033 CCCCCTTAAG
1 CCCCCTTAAG
698043 CCTCTCAAGT
Statistics
Matches: 63, Mismatches: 11, Indels: 6
0.79 0.14 0.08
Matches are distributed among these distances:
64 1 0.02
65 2 0.03
66 53 0.84
67 4 0.06
68 3 0.05
ACGTcount: A:0.22, C:0.42, G:0.04, T:0.33
Consensus pattern (64 bp):
CCCCCTTAAGTTCACCCCTTAACACCACAACTTCCTTCACCACTCCATCAATTTTTCCACCCGT
Found at i:700152 original size:15 final size:15
Alignment explanation
Indices: 700132--700162 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
700122 CATATAATAC
700132 CCCTATTTTTTATTA
1 CCCTATTTTTTATTA
700147 CCCTATTTTTTATTA
1 CCCTATTTTTTATTA
700162 C
1 C
700163 TGTAATAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.23, G:0.00, T:0.58
Consensus pattern (15 bp):
CCCTATTTTTTATTA
Found at i:700816 original size:183 final size:180
Alignment explanation
Indices: 700472--701019 Score: 672
Period size: 183 Copynumber: 3.0 Consensus size: 180
700462 TACGGGTACT
* * ** *
700472 TATTAAAGTATCAATACTTTCAACATATCCGGTAGCGCTTTATTGGTTTTGTCATTTCGAGACCG
1 TATTAAAGTATCAACACTTTCAACATATCCGGTAGCGATTTACCGGTTTTGTCATTTCGAGAACG
* *
700537 GTTTTGTCATATTTTTACATGTTATATTGTTATGTATCGATACATTTTTATAAAGCATCGACACT
66 ATTTTGTCATATTTTTAC-TGTTATATTGTTATGTATCGATACATTTTTATAAAGTATCGACACT
*
700602 TTATAGACACTATTACTGCTTCTCTTTTTAAATTCCAAAAGTGTCGATACTTA
130 TTATAGAC-CTATTATTGCTTCTC-TTTTAAATTCCAAAAGTGTCGATACTTA
* * * * *
700655 TATTAAAGTATCAACACTTTCAACATATCCAGTAGCGATTTACCGGTTTTATTATTTTGAGATCG
1 TATTAAAGTATCAACACTTTCAACATATCCGGTAGCGATTTACCGGTTTTGTCATTTCGAGAACG
* *
700720 ATTTTGTCATATTTTTATCTGTTATATTGTTATGTATCGATAAATTTTTTATAAAGTATTGACAC
66 ATTTTGTCATATTTTTA-CTGTTATATTGTTATGTATCGATACA-TTTTTATAAAGTATCGACAC
* * *
700785 ATTATAGACGCTATTATTGATTCTCTTTTAAATTCTAAAAGTGTCGATACTTA
129 TTTATAGAC-CTATTATTGCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
* * * * **
700838 TATTCAAGTATCGACACTTTCAGCATATCTGGTAGC-ACTTTACCGGTTTTGTCATAACGA-AAC
1 TATTAAAGTATCAACACTTTCAACATATCCGGTAGCGA-TTTACCGGTTTTGTCATTTCGAGAAC
* * * * ** *
700901 CAGTTTGATCATATTTTCACCTGTTATATTGTTATGGATCGATACATTTTTAT-TTGTATCGATA
65 GATTTTG-TCATATTTTTA-CTGTTATATTGTTATGTATCGATACATTTTTATAAAGTATCGACA
* *
700965 TTTTATAAGCACC-ATTATTGCTTCTCTTTTAAATTCCAAAAGTATCGATACTTA
128 CTTTAT-AG-ACCTATTATTGCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
701019 T
1 T
701020 TTCAATAGAA
Statistics
Matches: 315, Mismatches: 44, Indels: 14
0.84 0.12 0.04
Matches are distributed among these distances:
181 50 0.16
182 18 0.06
183 207 0.66
184 40 0.13
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.43
Consensus pattern (180 bp):
TATTAAAGTATCAACACTTTCAACATATCCGGTAGCGATTTACCGGTTTTGTCATTTCGAGAACG
ATTTTGTCATATTTTTACTGTTATATTGTTATGTATCGATACATTTTTATAAAGTATCGACACTT
TATAGACCTATTATTGCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
Found at i:711045 original size:13 final size:14
Alignment explanation
Indices: 711024--711065 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
711014 AATTAATAAA
711024 ATAATAAAATATT-TG
1 ATAA-AAAA-ATTATG
*
711039 ATAAAAAAATTATT
1 ATAAAAAAATTATG
711053 ATAAAAAAATTAT
1 ATAAAAAAATTAT
711066 ACCCTAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 3 0.12
14 18 0.72
15 4 0.16
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (14 bp):
ATAAAAAAATTATG
Found at i:711056 original size:14 final size:14
Alignment explanation
Indices: 711039--711065 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
711029 AAAATATTTG
711039 ATAAAAAAATTATT
1 ATAAAAAAATTATT
711053 ATAAAAAAATTAT
1 ATAAAAAAATTAT
711066 ACCCTAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
ATAAAAAAATTATT
Found at i:713351 original size:184 final size:184
Alignment explanation
Indices: 713042--713409 Score: 736
Period size: 184 Copynumber: 2.0 Consensus size: 184
713032 AGAAAATGCA
713042 CTCAAGAATGAGATCAGTTTATTTTTTGGACATTGGGACATCACCTTGAGTAGTATTGCATCAGT
1 CTCAAGAATGAGATCAGTTTATTTTTTGGACATTGGGACATCACCTTGAGTAGTATTGCATCAGT
713107 GATCTCTGATCATTATTAGCTTCCTGTATTTACATGCTCCAAGTAGTAGAATTGGTAAGTGGTCA
66 GATCTCTGATCATTATTAGCTTCCTGTATTTACATGCTCCAAGTAGTAGAATTGGTAAGTGGTCA
713172 ACTTGAACCTTATCAAATGTATCATTTGATTTGAAACAAACTTTAAGTTTCACT
131 ACTTGAACCTTATCAAATGTATCATTTGATTTGAAACAAACTTTAAGTTTCACT
713226 CTCAAGAATGAGATCAGTTTATTTTTTGGACATTGGGACATCACCTTGAGTAGTATTGCATCAGT
1 CTCAAGAATGAGATCAGTTTATTTTTTGGACATTGGGACATCACCTTGAGTAGTATTGCATCAGT
713291 GATCTCTGATCATTATTAGCTTCCTGTATTTACATGCTCCAAGTAGTAGAATTGGTAAGTGGTCA
66 GATCTCTGATCATTATTAGCTTCCTGTATTTACATGCTCCAAGTAGTAGAATTGGTAAGTGGTCA
713356 ACTTGAACCTTATCAAATGTATCATTTGATTTGAAACAAACTTTAAGTTTCACT
131 ACTTGAACCTTATCAAATGTATCATTTGATTTGAAACAAACTTTAAGTTTCACT
713410 ATTTAAAATT
Statistics
Matches: 184, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
184 184 1.00
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.37
Consensus pattern (184 bp):
CTCAAGAATGAGATCAGTTTATTTTTTGGACATTGGGACATCACCTTGAGTAGTATTGCATCAGT
GATCTCTGATCATTATTAGCTTCCTGTATTTACATGCTCCAAGTAGTAGAATTGGTAAGTGGTCA
ACTTGAACCTTATCAAATGTATCATTTGATTTGAAACAAACTTTAAGTTTCACT
Found at i:714519 original size:8 final size:8
Alignment explanation
Indices: 714506--714537 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
714496 CTACTAAAAC
714506 CGAAATCT
1 CGAAATCT
714514 CGAAATCT
1 CGAAATCT
714522 CGAAATCT
1 CGAAATCT
*
714530 CAAAATCT
1 CGAAATCT
714538 TTACCGCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.41, C:0.25, G:0.09, T:0.25
Consensus pattern (8 bp):
CGAAATCT
Found at i:715257 original size:15 final size:15
Alignment explanation
Indices: 715237--715276 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
715227 CCAAAAATTT
715237 CATCCATATCCGCTC
1 CATCCATATCCGCTC
*
715252 CATCCATATCTGCTC
1 CATCCATATCCGCTC
715267 CATCCATATC
1 CATCCATATC
715277 AGCTGGTGGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.23, C:0.42, G:0.05, T:0.30
Consensus pattern (15 bp):
CATCCATATCCGCTC
Found at i:715714 original size:5 final size:5
Alignment explanation
Indices: 715699--715740 Score: 57
Period size: 5 Copynumber: 7.8 Consensus size: 5
715689 AATTTTTTAG
715699 TATATA TATAA TATAA TATAA TATAA TATATA TATATA TATA
1 TATA-A TATAA TATAA TATAA TATAA TATA-A TATA-A TATA
715741 TGGATGGATG
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
5 20 0.57
6 15 0.43
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (5 bp):
TATAA
Found at i:715741 original size:10 final size:10
Alignment explanation
Indices: 715699--715741 Score: 58
Period size: 9 Copynumber: 4.7 Consensus size: 10
715689 AATTTTTTAG
715699 TATATATATA
1 TATATATATA
715709 -ATATA-ATA
1 TATATATATA
715717 TA-ATATA-A
1 TATATATATA
715725 TATATATATA
1 TATATATATA
715735 TATATAT
1 TATATAT
715742 GGATGGATGG
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
8 9 0.31
9 12 0.41
10 8 0.28
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (10 bp):
TATATATATA
Found at i:715755 original size:20 final size:20
Alignment explanation
Indices: 715730--715770 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
715720 TATAATATAT
715730 ATATATATATATGGATGGATGG
1 ATATAT-TA-ATGGATGGATGG
*
715752 ATATATTAATGGGTGGATG
1 ATATATTAATGGATGGATG
715771 AATGCTGCGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
21 2 0.11
22 6 0.33
ACGTcount: A:0.34, C:0.00, G:0.29, T:0.37
Consensus pattern (20 bp):
ATATATTAATGGATGGATGG
Found at i:715757 original size:2 final size:2
Alignment explanation
Indices: 715699--715741 Score: 58
Period size: 2 Copynumber: 23.5 Consensus size: 2
715689 AATTTTTTAG
715699 TA TA TA TA TA -A TA TA -A TA TA -A TA TA -A TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
715737 TA TA T
1 TA TA T
715742 GGATGGATGG
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
1 4 0.11
2 33 0.89
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:724263 original size:16 final size:16
Alignment explanation
Indices: 724242--724272 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
724232 TAATAAATAA
724242 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
724258 ACGAACATAAACGAA
1 ACGAACATAAACGAA
724273 TAATTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.58, C:0.23, G:0.13, T:0.06
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:724352 original size:10 final size:10
Alignment explanation
Indices: 724337--724411 Score: 52
Period size: 10 Copynumber: 7.7 Consensus size: 10
724327 CATTTAATAA
724337 ATAAACGAAC
1 ATAAACGAAC
724347 ATAAACGAAC
1 ATAAACGAAC
724357 ----ACGAAC
1 ATAAACGAAC
* *
724363 ATAATCGAAA
1 ATAAACGAAC
* *
724373 ACAAAC-ATAA
1 ATAAACGA-AC
724383 ATGAACACGAAC
1 AT-AA-ACGAAC
724395 ATAAACGAAC
1 ATAAACGAAC
724405 ATAAACG
1 ATAAACG
724412 TTGGAGACCC
Statistics
Matches: 51, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
6 6 0.12
9 1 0.02
10 34 0.67
11 4 0.08
12 5 0.10
13 1 0.02
ACGTcount: A:0.59, C:0.20, G:0.11, T:0.11
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:724362 original size:16 final size:16
Alignment explanation
Indices: 724341--724405 Score: 94
Period size: 16 Copynumber: 4.1 Consensus size: 16
724331 TAATAAATAA
724341 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
* *
724357 ACGAACATAATCGAAA
1 ACGAACATAAACGAAC
* *
724373 ACAAACATAAATGAAC
1 ACGAACATAAACGAAC
724389 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
724405 A
1 A
724406 TAAACGTTGG
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 41 1.00
ACGTcount: A:0.58, C:0.22, G:0.11, T:0.09
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:725492 original size:10 final size:10
Alignment explanation
Indices: 725479--725532 Score: 54
Period size: 10 Copynumber: 5.0 Consensus size: 10
725469 TTAAACATAA
*
725479 ATAAATGAAC
1 ATAAACGAAC
725489 ATAAACGAAC
1 ATAAACGAAC
725499 ATAATCGAACGAAC
1 AT-A---AACGAAC
725513 ATAAACGAAC
1 ATAAACGAAC
*
725523 ATAACCGAAC
1 ATAAACGAAC
725533 GTTCACGAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
10 27 0.71
11 1 0.03
13 1 0.03
14 9 0.24
ACGTcount: A:0.56, C:0.20, G:0.11, T:0.13
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:725509 original size:14 final size:14
Alignment explanation
Indices: 725492--725522 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
725482 AATGAACATA
*
725492 AACGAACATAATCG
1 AACGAACATAAACG
725506 AACGAACATAAACG
1 AACGAACATAAACG
725520 AAC
1 AAC
725523 ATAACCGAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.55, C:0.23, G:0.13, T:0.10
Consensus pattern (14 bp):
AACGAACATAAACG
Found at i:725512 original size:24 final size:24
Alignment explanation
Indices: 725485--725533 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
725475 ATAAATAAAT
*
725485 GAACATAAACGAACATAATCGAAC
1 GAACATAAACGAACATAACCGAAC
725509 GAACATAAACGAACATAACCGAAC
1 GAACATAAACGAACATAACCGAAC
725533 G
1 G
725534 TTCACGAACG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.53, C:0.22, G:0.14, T:0.10
Consensus pattern (24 bp):
GAACATAAACGAACATAACCGAAC
Found at i:728009 original size:14 final size:16
Alignment explanation
Indices: 727980--728011 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
727970 CGTTTGTGAA
727980 CGTTCGATTATATGTT
1 CGTTCGATTATATGTT
727996 CGTTCG-TT-TATGTT
1 CGTTCGATTATATGTT
728010 CG
1 CG
728012 AACAGAGGGC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 2 0.12
16 6 0.38
ACGTcount: A:0.12, C:0.16, G:0.22, T:0.50
Consensus pattern (16 bp):
CGTTCGATTATATGTT
Found at i:728291 original size:23 final size:23
Alignment explanation
Indices: 728266--728339 Score: 96
Period size: 23 Copynumber: 3.2 Consensus size: 23
728256 TTTTTTGTGT
*
728266 GTTTG-TGTTGTTCGTTTATGTTT
1 GTTTGTTG-TGTTCGTTTATGTTC
*
728289 GTTTATTGTGTTCGTTTATGTTC
1 GTTTGTTGTGTTCGTTTATGTTC
*
728312 GTTCGTTCGTGTTCGTTTATGTTC
1 GTTTGTT-GTGTTCGTTTATGTTC
728336 GTTT
1 GTTT
728340 ATTATTTAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
23 23 0.52
24 21 0.48
ACGTcount: A:0.05, C:0.09, G:0.24, T:0.61
Consensus pattern (23 bp):
GTTTGTTGTGTTCGTTTATGTTC
Found at i:728311 original size:10 final size:10
Alignment explanation
Indices: 728274--728341 Score: 55
Period size: 10 Copynumber: 6.1 Consensus size: 10
728264 GTGTTTGTGT
728274 TGTTCGTTTA
1 TGTTCGTTTA
*
728284 TGTTTGTTTA
1 TGTTCGTTTA
728294 TTGTGTTCGTTTA
1 ---TGTTCGTTTA
*
728307 TGTTCGTTCGTTCG
1 TGTTCG-T--TT-A
728321 TGTTCGTTTA
1 TGTTCGTTTA
728331 TGTTCGTTTA
1 TGTTCGTTTA
728341 T
1 T
728342 TATTTAAATG
Statistics
Matches: 47, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
10 26 0.55
11 3 0.06
13 12 0.26
14 6 0.13
ACGTcount: A:0.07, C:0.10, G:0.22, T:0.60
Consensus pattern (10 bp):
TGTTCGTTTA
Found at i:730067 original size:70 final size:70
Alignment explanation
Indices: 729910--730060 Score: 187
Period size: 70 Copynumber: 2.2 Consensus size: 70
729900 TATGCACCAA
* * * * *
729910 AGTGCTAAACCGAATATGACACATAAGGTTGTGTCCACCATACACACTAAGTTTGTTTTACATAC
1 AGTGCTAAACCGAATATGACACATAAAGTAGTGTCCACCATACACACTAAGTGTCTTGTACATAC
*
729975 AGTCT
66 ACTCT
* * **
729980 AGTGCTAAACCGAATATGACACATAAAGTAGTGTCCACCA-CCTGCACTAAGTGTCTTGTATTTA
1 AGTGCTAAACCGAATATGACACATAAAGTAGTGTCCACCATAC-ACACTAAGTGTCTTGTACATA
730044 CACTCT
65 CACTCT
*
730050 TGTGCTAAACC
1 AGTGCTAAACC
730061 AGATATGCAG
Statistics
Matches: 69, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
69 1 0.01
70 68 0.99
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (70 bp):
AGTGCTAAACCGAATATGACACATAAAGTAGTGTCCACCATACACACTAAGTGTCTTGTACATAC
ACTCT
Done.