Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000186.1 Hibiscus syriacus cultivar Beakdansim tig00000329_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: 3152351
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
File 11 of 17
Found at i:1851575 original size:22 final size:22
Alignment explanation
Indices: 1851535--1851576 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
1851525 GAAAACAAAG
*
1851535 AAAAAAACAAAGATCAAAGATA
1 AAAAAAACAAAGATAAAAGATA
1851557 AAAAAAACAAAAGA-AAAAGA
1 AAAAAAAC-AAAGATAAAAGA
1851577 AAGGACAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.79, C:0.07, G:0.10, T:0.05
Consensus pattern (22 bp):
AAAAAAACAAAGATAAAAGATA
Found at i:1852592 original size:32 final size:32
Alignment explanation
Indices: 1852546--1852626 Score: 90
Period size: 32 Copynumber: 2.5 Consensus size: 32
1852536 AGAGGACATC
* *
1852546 TTTGAAGATTCAACATCAAATGTTAGGGCATA
1 TTTGGAGATTCAACATCAAATATTAGGGCATA
** * *
1852578 TTTGGAGATTCAACATTGAATATTGGGGCATG
1 TTTGGAGATTCAACATCAAATATTAGGGCATA
* *
1852610 CTTGGGGATTCAACATC
1 TTTGGAGATTCAACATC
1852627 CTGGTGCGAA
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.32
Consensus pattern (32 bp):
TTTGGAGATTCAACATCAAATATTAGGGCATA
Found at i:1853228 original size:166 final size:168
Alignment explanation
Indices: 1852917--1853467 Score: 522
Period size: 166 Copynumber: 3.3 Consensus size: 168
1852907 ACGATAGATG
* * * ** *
1852917 ATAACTCAAGGCGAGAAGGGTCATCTACCAACAAAATACCTTCGAGTTCGATTACACTCAGCTCA
1 ATAACTCAAGGCGAGAAGAGTTATTTGTCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCA
* * * * * *
1852982 AATGCATATCATTTGCAGCATAGCTCAAGGCAAGAATGATTATCTTTCAACAAAGACCTTCGAGA
66 AAGGCACATCATTTACAGCATAACTCAAGGCAAGAAGGATTATCTGTCAACAAAGACCTTCGAGA
*
1853047 TCGATTACACTCAGCTTAAAGGCACATC-ATTTACAGA
131 TCGATTACACTCAGCTCAAAGGCACATCAATTTACAGA
* * * *
1853084 ATAACTTAAGGCTAGAAGAGTTATTTGTCAAC-AAAGACCTTCGAGTTTGATTACACTCATCTCA
1 ATAACTCAAGGCGAGAAGAGTTATTTGTCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCA
* * *
1853148 AAGGCACATCATTTACAGCATAACTCAAGTCTAA-AAGGGTTATCTGTCAATAAAGACCTTCGAG
66 AAGGCACATCATTTACAGCATAACTCAAGGC-AAGAAGGATTATCTGTCAACAAAGACCTTCGAG
* * * *
1853212 TTCGATTATACTCAGCTCAAAGGCATATCAAATTTACAGT
130 ATCGATTACACTCAGCTCAAAGGCACATC-AATTTACAGA
* * *
1853252 ATAACTCAAGGCGAGAAGAG----TTGTCTATC-AAA-ACCTTCGAGTTCGATTTCATTCAGCTC
1 ATAACTCAAGGCGAGAAGAGTTATTTGTC-AACAAAAGACCTTCGAGTTCGATTACACTCAGCTC
* * * * *
1853311 -AAGGACAACCA-AATTCACAGCATAGCTCAAGGCAAAAAGGACTAT-TGTCAACACAA-ACCTT
65 AAAGG-C-A-CATCATTTACAGCATAACTCAAGGCAAGAAGGATTATCTGTCAACA-AAGACCTT
* * * * *
1853372 CTAGTTCAATTACATTCAGCTC-AAGG-ACATGTCAAATTTACAGC
126 CGAGATCGATTACACTCAGCTCAAAGGCACA--TC-AATTTACAGA
* * * * *
1853416 ATAACTCAAGGCGATAAGGGTTATCTGTCAAC-AAACATCTTCGAGTTCGATT
1 ATAACTCAAGGCGAGAAGAGTTATTTGTCAACAAAAGACCTTCGAGTTCGATT
1853468 CCATTCAACT
Statistics
Matches: 319, Mismatches: 49, Indels: 31
0.80 0.12 0.08
Matches are distributed among these distances:
162 2 0.01
163 8 0.03
164 91 0.29
165 33 0.10
166 108 0.34
167 32 0.10
168 45 0.14
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.26
Consensus pattern (168 bp):
ATAACTCAAGGCGAGAAGAGTTATTTGTCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCA
AAGGCACATCATTTACAGCATAACTCAAGGCAAGAAGGATTATCTGTCAACAAAGACCTTCGAGA
TCGATTACACTCAGCTCAAAGGCACATCAATTTACAGA
Found at i:1853486 original size:85 final size:85
Alignment explanation
Indices: 1852917--1853491 Score: 466
Period size: 83 Copynumber: 6.9 Consensus size: 85
1852907 ACGATAGATG
* * ** * *
1852917 ATAACTCAAGGCGAGAAGGGTCATCTACCAACAAAATACCTTCGAGTTCGATTACACTCAGCTCA
1 ATAACTCAAGGCGAAAAGGGTTATCTGTCAAC-AAACACCTTCGAGTTCGATTACATTCAGCTC-
* *
1852982 AATG-CATATC--ATTTGCAGC
64 AAGGACATATCAAATTTACAGC
* * * * * * * *
1853001 ATAGCTCAAGGC-AAGAATGATTATCTTTCAACAAAGACCTTCGAGATCGATTACACTCAGCTTA
1 ATAACTCAAGGCGAA-AAGGGTTATCTGTCAACAAACACCTTCGAGTTCGATTACATTCAGC-TC
* *
1853065 AAGG-CACATC--ATTTACAGA
64 AAGGACATATCAAATTTACAGC
* * * * * * * * *
1853084 ATAACTTAAGGCTAGAAGAGTTATTTGTCAACAAAGACCTTCGAGTTTGATTACACTCATCTCAA
1 ATAACTCAAGGCGAAAAGGGTTATCTGTCAACAAACACCTTCGAGTTCGATTACATTCAGCTC-A
*
1853149 AGG-CACATC--ATTTACAGC
65 AGGACATATCAAATTTACAGC
* * * * * *
1853167 ATAACTCAAGTCTAAAAGGGTTATCTGTCAATAAAGACCTTCGAGTTCGATTATACTCAGCTCAA
1 ATAACTCAAGGCGAAAAGGGTTATCTGTCAACAAACACCTTCGAGTTCGATTACATTCAGCTC-A
*
1853232 AGG-CATATCAAATTTACAGT
65 AGGACATATCAAATTTACAGC
* * * * *
1853252 ATAACTCAAGGCGAGAAGAGTTGTC--T-ATCAAA-ACCTTCGAGTTCGATTTCATTCAGCTCAA
1 ATAACTCAAGGCGAAAAGGGTTATCTGTCAACAAACACCTTCGAGTTCGATTACATTCAGCTCAA
* *
1853313 GGACA-ACCAAATTCACAGC
66 GGACATATCAAATTTACAGC
* * ** * *
1853332 ATAGCTCAAGGCAAAAAGGACTAT-TGTCAACACAA-ACCTTCTAGTTCAATTACATTCAGCTCA
1 ATAACTCAAGGCGAAAAGGGTTATCTGTCAACA-AACACCTTCGAGTTCGATTACATTCAGCTCA
*
1853395 AGGACATGTCAAATTTACAGC
65 AGGACATATCAAATTTACAGC
* * * * *
1853416 ATAACTCAAGGCGATAAGGGTTATCTGTCAACAAACATCTTCGAGTTCGATTCCATTCAACTCGA
1 ATAACTCAAGGCGAAAAGGGTTATCTGTCAACAAACACCTTCGAGTTCGATTACATTCAGCTCAA
*
1853481 TGACATATCAA
66 GGACATATCAA
1853492 CCGTATGGTA
Statistics
Matches: 399, Mismatches: 78, Indels: 27
0.79 0.15 0.05
Matches are distributed among these distances:
80 32 0.08
81 27 0.07
82 8 0.02
83 207 0.52
84 57 0.14
85 68 0.17
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.26
Consensus pattern (85 bp):
ATAACTCAAGGCGAAAAGGGTTATCTGTCAACAAACACCTTCGAGTTCGATTACATTCAGCTCAA
GGACATATCAAATTTACAGC
Found at i:1854508 original size:181 final size:182
Alignment explanation
Indices: 1853861--1855425 Score: 1960
Period size: 181 Copynumber: 8.5 Consensus size: 182
1853851 TATCAGCATT
* * * *
1853861 TCAAATCGACCAGATCTCCTCATCATGGAGGAGCAGTGTCACCCTTAGACAATCAGACTTCCTCA
1 TCAAACCGACCAGATCTCCTCATCACGAAGGAGCAGTGTCACCCTCAGACAATCAGACTTCCTCA
* **
1853926 TCACGAAGGAATCGTATTGTCCCCAGATTGACCCGATTTCCTCATCACGAATGAA-ATGTGTCAT
66 TCACGAAGGAATCGTATTGTCCCCAGATTGACCCGATTTCCTCATCACGAAGGAACA-ACGTCAT
*
1853990 AAT--AAAA-AACCCGATCTCTTCATCGCGGATGAGCAGTGTCGTCTTCAACA
130 AATCGAAAATGACCCGATCTCTTCATCGCGGATGAGCAGTGTCGTCTTCAACA
* *
1854040 TCAAACCGACCAGATCTCCTCATCACGAAGGAGCAATGTCACCCTCAGACAATCATACTTCCTCA
1 TCAAACCGACCAGATCTCCTCATCACGAAGGAGCAGTGTCACCCTCAGACAATCAGACTTCCTCA
** * * * **
1854105 TCACGAAAAAAACTGTATTGTCCCCAGATTTACCCGATTTCCACATCACGAAGGAACAGTGTCAT
66 TCACGAAGGAATC-GTATTGTCCCCAGATTGACCCGATTTCCTCATCACGAAGGAACAACGTCAT
* * **
1854170 AATCGAAAATGACCCGATCTTTTCATCGCGGATAAGCAGTGTTATCTTCAACA
130 AATCGAAAATGACCCGATCTCTTCATCGCGGATGAGCAGTGTCGTCTTCAACA
* *
1854223 TCAAACCGACCAGATCTCCTCATCACGAAGGAGCAGTGCCACTCTCAGACAATCAGACTTCCTCA
1 TCAAACCGACCAGATCTCCTCATCACGAAGGAGCAGTGTCACCCTCAGACAATCAGACTTCCTCA
* * * *
1854288 TCACGAAGGAACCGTATTGTCCCCAGATTGACTCGATTTCCTCATCATGAAGGAACAACGTCATT
66 TCACGAAGGAATCGTATTGTCCCCAGATTGACCCGATTTCCTCATCACGAAGGAACAACGTCATA
* *
1854353 ATCGAAAATGACCCAATCTCTTCATCGCAGATGAGCAGTGTCGTCTTCAACA
131 ATCGAAAATGACCCGATCTCTTCATCGCGGATGAGCAGTGTCGTCTTCAACA
* *
1854405 TCAAA-TGACCAGATCTCCTCATCACGAAGGA-CTAGTGACACCCTCAGACAATCAGACTTCCTC
1 TCAAACCGACCAGATCTCCTCATCACGAAGGAGC-AGTGTCACCCTCAGACAATCAGACTTCCTC
*
1854468 ATCACGAAGGAATCGTATTGTCCCCATATTGACCCGATTTCCTCATCACGAAGGAACAACGTCAT
65 ATCACGAAGGAATCGTATTGTCCCCAGATTGACCCGATTTCCTCATCACGAAGGAACAACGTCAT
* ** * * *
1854533 TATTAAAAACGACCCGATATCTTCATCGCGGATGAGCAATGTCGTCTTCAACA
130 AATCGAAAATGACCCGATCTCTTCATCGCGGATGAGCAGTGTCGTCTTCAACA
* * *
1854586 TCAAACCGACCAGATCTCCTCATCACGAAGGAGTAGTGTCACCCTCAGACAATCAGAATTTCTCA
1 TCAAACCGACCAGATCTCCTCATCACGAAGGAGCAGTGTCACCCTCAGACAATCAGACTTCCTCA
* * * * ** *
1854651 TCACGAAAGAATCGTATTTTCCCCAGATTGACCTGATTTTCTCATCACGAAGGAACAGTGACATA
66 TCACGAAGGAATCGTATTGTCCCCAGATTGACCCGATTTCCTCATCACGAAGGAACAACGTCATA
** *
1854716 ATCGAAAATGATTCGATCTCTTCATCGC-GATGAGCAGTGTCATCTTCAACA
131 ATCGAAAATGACCCGATCTCTTCATCGCGGATGAGCAGTGTCGTCTTCAACA
* *
1854767 TCAAACCAACCAGATCTCCTCATTACGAAGGAGCAGTGTCACCCTCAGACAATCAGACTTCCTCA
1 TCAAACCGACCAGATCTCCTCATCACGAAGGAGCAGTGTCACCCTCAGACAATCAGACTTCCTCA
* * *
1854832 TCACGAAGGAATCGTATTGTCTCCTAAATT-ATCTCTTGATTACATGATTTCCTCATCACGAAAG
66 TCACGAAGGAATCGTATTGTC-CCCAGATTGA-C-C-------C--GATTTCCTCATCACGAAGG
* * *
1854896 AACAAAGTCATAATCGAAAACGACCCGATCTCTTCATCGCGGATTAGCAGTGTCGTCTTCAACA
119 AACAACGTCATAATCGAAAATGACCCGATCTCTTCATCGCGGATGAGCAGTGTCGTCTTCAACA
* * * *
1854960 TCAAACCGACCAGATCT-CTCATCATGAAGAAGTAGTGTCACCCTCATACAATCAGACTTCCTCA
1 TCAAACCGACCAGATCTCCTCATCACGAAGGAGCAGTGTCACCCTCAGACAATCAGACTTCCTCA
* * *
1855024 TCACGAAGGAATCGTATTGTCCCTAGATTGACCCGATTTCCTCATCTCGAATGAACAACGTCATA
66 TCACGAAGGAATCGTATTGTCCCCAGATTGACCCGATTTCCTCATCACGAAGGAACAACGTCATA
** *
1855089 ATAAAAAATGACCCGATCTCTTCATCGCGGATGAGCATTGTCGTCTTCAACA
131 ATCGAAAATGACCCGATCTCTTCATCGCGGATGAGCAGTGTCGTCTTCAACA
* *
1855141 TTAAACCGACCAGATCTCCTCATCACGAAGGAGCAGTGTCACCCTCAGACAATCAGGCTTCCTCA
1 TCAAACCGACCAGATCTCCTCATCACGAAGGAGCAGTGTCACCCTCAGACAATCAGACTTCCTCA
* * * * *
1855206 TCATGAAGGAATCATATTGTCCCCAAATTATCTCTTGATTGGCCCAATTTCCTCATCACGAAAGA
66 TCACGAAGGAATCGTATTGTCCCC-----A------GATTGACCCGATTTCCTCATCACGAAGGA
* * * ** *
1855271 ACAACGTCATAATTTATCGAAAACGACCCGATCTCTTCAACACAAATGAGCAGTGTCGTCTTCAG
120 ACAACGTCAT-A---ATCGAAAATGACCCGATCTCTTCATCGCGGATGAGCAGTGTCGTCTTCAA
1855336 CA
181 CA
*** * * ** * * *
1855338 TCAAATTAACCTGATCTCCTCAACGTGAATGAGCAGTGTCATCTTCAGACAATCAGACTTCCTCA
1 TCAAACCGACCAGATCTCCTCATCACGAAGGAGCAGTGTCACCCTCAGACAATCAGACTTCCTCA
*
1855403 TCACGAAGGAACCGTATTGTCCC
66 TCACGAAGGAATCGTATTGTCCC
1855426 AAATTATCCT
Statistics
Matches: 1203, Mismatches: 145, Indels: 58
0.86 0.10 0.04
Matches are distributed among these distances:
179 69 0.06
180 50 0.04
181 358 0.30
182 301 0.25
183 111 0.09
187 1 0.00
190 1 0.00
191 8 0.01
192 115 0.10
193 72 0.06
194 1 0.00
197 116 0.10
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (182 bp):
TCAAACCGACCAGATCTCCTCATCACGAAGGAGCAGTGTCACCCTCAGACAATCAGACTTCCTCA
TCACGAAGGAATCGTATTGTCCCCAGATTGACCCGATTTCCTCATCACGAAGGAACAACGTCATA
ATCGAAAATGACCCGATCTCTTCATCGCGGATGAGCAGTGTCGTCTTCAACA
Found at i:1854609 original size:363 final size:366
Alignment explanation
Indices: 1853861--1855425 Score: 1993
Period size: 363 Copynumber: 4.2 Consensus size: 366
1853851 TATCAGCATT
* * *
1853861 TCAAATCGACCAGATCTCCTCATCATGGAGGAGCAGTGTCACCCTTAGACAATCAGACTTCCTCA
1 TCAAACCGACCAGATCTCCTCATCATGAAGGAGCAGTGTCACCCTCAGACAATCAGACTTCCTCA
* **
1853926 TCACGAAGGAATCGTATTGTCCCCAGATTGACCCGATTTCCTCATCACGAATGAA-ATGTGTCAT
66 TCACGAAGGAATCGTATTGTCCCCAGATTGACCCGATTTCCTCATCACGAAGGAACA-ACGTCAT
*
1853990 AAT--AAAA-AACCCGATCTCTTCATCGCGGATGAGCAGTGTCGTCTTCAACATCAAACCGACCA
130 AATCGAAAATGACCCGATCTCTTCATCGCGGATGAGCAGTGTCGTCTTCAACATCAAACCGACCA
* * ** *
1854052 GATCTCCTCATCACGAAGGAGCAATGTCACCCTCAGACAATCATACTTCCTCATCACGAAAAAAA
195 GATCTCCTCATCACGAAGGAGCAGTGTCACCCTCAGACAATCAGACTTCCTCATCACGAAGGAAT
* * * * ** * *
1854117 CTGTATTGTCCCCA-GA-TTTACCCGATTTCCACATCACGAAGGAACAGTGTCATAATCGAAAAT
260 C-GTATTGTCCCCATTACTTGACCCGATTTCCTCATCACGAAAGAACAACGTCATAATCAAAAAC
* * **
1854180 GACCCGATCTTTTCATCGCGGATAAGCAGTGTTATCTTCAACA
324 GACCCGATCTCTTCATCGCGGATGAGCAGTGTCGTCTTCAACA
* * *
1854223 TCAAACCGACCAGATCTCCTCATCACGAAGGAGCAGTGCCACTCTCAGACAATCAGACTTCCTCA
1 TCAAACCGACCAGATCTCCTCATCATGAAGGAGCAGTGTCACCCTCAGACAATCAGACTTCCTCA
* * * *
1854288 TCACGAAGGAACCGTATTGTCCCCAGATTGACTCGATTTCCTCATCATGAAGGAACAACGTCATT
66 TCACGAAGGAATCGTATTGTCCCCAGATTGACCCGATTTCCTCATCACGAAGGAACAACGTCATA
* * *
1854353 ATCGAAAATGACCCAATCTCTTCATCGCAGATGAGCAGTGTCGTCTTCAACATCAAA-TGACCAG
131 ATCGAAAATGACCCGATCTCTTCATCGCGGATGAGCAGTGTCGTCTTCAACATCAAACCGACCAG
*
1854417 ATCTCCTCATCACGAAGGA-CTAGTGACACCCTCAGACAATCAGACTTCCTCATCACGAAGGAAT
196 ATCTCCTCATCACGAAGGAGC-AGTGTCACCCTCAGACAATCAGACTTCCTCATCACGAAGGAAT
* * *
1854481 CGTATTGTCCCCA-TA-TTGACCCGATTTCCTCATCACGAAGGAACAACGTCATTATTAAAAACG
260 CGTATTGTCCCCATTACTTGACCCGATTTCCTCATCACGAAAGAACAACGTCATAATCAAAAACG
* *
1854544 ACCCGATATCTTCATCGCGGATGAGCAATGTCGTCTTCAACA
325 ACCCGATCTCTTCATCGCGGATGAGCAGTGTCGTCTTCAACA
* * * *
1854586 TCAAACCGACCAGATCTCCTCATCACGAAGGAGTAGTGTCACCCTCAGACAATCAGAATTTCTCA
1 TCAAACCGACCAGATCTCCTCATCATGAAGGAGCAGTGTCACCCTCAGACAATCAGACTTCCTCA
* * * * ** *
1854651 TCACGAAAGAATCGTATTTTCCCCAGATTGACCTGATTTTCTCATCACGAAGGAACAGTGACATA
66 TCACGAAGGAATCGTATTGTCCCCAGATTGACCCGATTTCCTCATCACGAAGGAACAACGTCATA
** * *
1854716 ATCGAAAATGATTCGATCTCTTCATCGC-GATGAGCAGTGTCATCTTCAACATCAAACCAACCAG
131 ATCGAAAATGACCCGATCTCTTCATCGCGGATGAGCAGTGTCGTCTTCAACATCAAACCGACCAG
*
1854780 ATCTCCTCATTACGAAGGAGCAGTGTCACCCTCAGACAATCAGACTTCCTCATCACGAAGGAATC
196 ATCTCCTCATCACGAAGGAGCAGTGTCACCCTCAGACAATCAGACTTCCTCATCACGAAGGAATC
* ** *
1854845 GTATTGTCTCCTAAATTATCTCTTGATTACATGATTTCCTCATCACGAAAGAACAAAGTCATAAT
261 GTATTGTC-CC--CATTA---CTTG---ACCCGATTTCCTCATCACGAAAGAACAACGTCATAAT
* *
1854910 CGAAAACGACCCGATCTCTTCATCGCGGATTAGCAGTGTCGTCTTCAACA
317 CAAAAACGACCCGATCTCTTCATCGCGGATGAGCAGTGTCGTCTTCAACA
* * *
1854960 TCAAACCGACCAGATCT-CTCATCATGAAGAAGTAGTGTCACCCTCATACAATCAGACTTCCTCA
1 TCAAACCGACCAGATCTCCTCATCATGAAGGAGCAGTGTCACCCTCAGACAATCAGACTTCCTCA
* * *
1855024 TCACGAAGGAATCGTATTGTCCCTAGATTGACCCGATTTCCTCATCTCGAATGAACAACGTCATA
66 TCACGAAGGAATCGTATTGTCCCCAGATTGACCCGATTTCCTCATCACGAAGGAACAACGTCATA
** * *
1855089 ATAAAAAATGACCCGATCTCTTCATCGCGGATGAGCATTGTCGTCTTCAACATTAAACCGACCAG
131 ATCGAAAATGACCCGATCTCTTCATCGCGGATGAGCAGTGTCGTCTTCAACATCAAACCGACCAG
* *
1855154 ATCTCCTCATCACGAAGGAGCAGTGTCACCCTCAGACAATCAGGCTTCCTCATCATGAAGGAATC
196 ATCTCCTCATCACGAAGGAGCAGTGTCACCCTCAGACAATCAGACTTCCTCATCACGAAGGAATC
* *
1855219 ATATTGTCCCCAAATTATCTCTTGATTGGCCCAATTTCCTCATCACGAAAGAACAACGTCATAAT
261 GTATTGTCCCC--ATTA---CTTGA----CCCGATTTCCTCATCACGAAAGAACAACGTCAT-A-
* * * ** *
1855284 TTATCGAAAACGACCCGATCTCTTCAACACAAATGAGCAGTGTCGTCTTCAGCA
315 --ATCAAAAACGACCCGATCTCTTCATCGCGGATGAGCAGTGTCGTCTTCAACA
*** * * * * * *
1855338 TCAAATTAACCTGATCTCCTCAACGTGAATGAGCAGTGTCATCTTCAGACAATCAGACTTCCTCA
1 TCAAACCGACCAGATCTCCTCATCATGAAGGAGCAGTGTCACCCTCAGACAATCAGACTTCCTCA
*
1855403 TCACGAAGGAACCGTATTGTCCC
66 TCACGAAGGAATCGTATTGTCCC
1855426 AAATTATCCT
Statistics
Matches: 1049, Mismatches: 124, Indels: 43
0.86 0.10 0.04
Matches are distributed among these distances:
362 144 0.14
363 304 0.29
364 70 0.07
365 45 0.04
366 1 0.00
367 2 0.00
370 1 0.00
371 3 0.00
373 134 0.13
374 224 0.21
375 1 0.00
378 59 0.06
379 61 0.06
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (366 bp):
TCAAACCGACCAGATCTCCTCATCATGAAGGAGCAGTGTCACCCTCAGACAATCAGACTTCCTCA
TCACGAAGGAATCGTATTGTCCCCAGATTGACCCGATTTCCTCATCACGAAGGAACAACGTCATA
ATCGAAAATGACCCGATCTCTTCATCGCGGATGAGCAGTGTCGTCTTCAACATCAAACCGACCAG
ATCTCCTCATCACGAAGGAGCAGTGTCACCCTCAGACAATCAGACTTCCTCATCACGAAGGAATC
GTATTGTCCCCATTACTTGACCCGATTTCCTCATCACGAAAGAACAACGTCATAATCAAAAACGA
CCCGATCTCTTCATCGCGGATGAGCAGTGTCGTCTTCAACA
Found at i:1855039 original size:555 final size:546
Alignment explanation
Indices: 1853861--1855433 Score: 2077
Period size: 555 Copynumber: 2.8 Consensus size: 546
1853851 TATCAGCATT
* * *
1853861 TCAAATCGACCAGATCTCCTCATCATGGAGGAGCAGTGTCACCCTTAGACAATCAGACTTCCTCA
1 TCAAA-CGACCAGATCTCCTCATCATGAAGGAGTAGTGTCACCCTCAGACAATCAGACTTCCTCA
**
1853926 TCACGAAGGAATCGTATTGTCCCCAGATTGACCCGATTTCCTCATCACGAATGAA-ATGTGTCA-
65 TCACGAAGGAATCGTATTGTCCCCAGATTGACCCGATTTCCTCATCACGAATGAACA-ACGTCAT
* *
1853989 TAATAAAAA-ACCCGATCTCTTCATCGCGGATGAGCAGTGTCGTCTTCAACATCAAACCGACCAG
129 TATTAAAAAGACCCGATCTCTTCATCGCGGATGAGCAATGTCGTCTTCAACATCAAACCGACCAG
* * * *
1854053 ATCTCCTCATCACGAAGGAGCAATGTCACCCTCAGACAATCATACTTCCTCATCACGAAAAAAAC
194 ATCTCCTCATCACGAAGGAGCAGTGTCACCCTCAGACAATCAGACTTCCTCATCACGAAAGAATC
* * * *
1854118 TGTATTGTCCCCAGATTTACCCGATTTCCACATCACGAAGGAACAGTGTCATAATCGAAAATGAC
259 -GTATTGTCCCCAGA-TTACCTGATTTTCTCATCACGAAGGAACAGTGACATAATCGAAAATGAC
* * * * *
1854183 CCGATCTTTTCATCGCGGATAAGCAGTGTTATCTTCAACATCAAACCGACCAGATCTCCTCATCA
322 CCGATCTCTTCATCGCAGATGAGCAGTGTCATCTTCAACATCAAACCAACCAGATCTCCTCAT-A
* * *
1854248 CGAAGGAGCAGTGCCACTCTCAGACAATCAGACTTCCTCATCACGAAGGAACCGTATTGTCCC-C
386 CGAAGGAGCAGTGTCACCCTCAGACAATCAGACTTCCTCATCACGAAGGAACCGTATTGTCCCAA
* * * * * *
1854312 A-GA--TTGACTCGATTTCCTCATCATGAAGGAACAACGTCATTATCGAAAATGACCCAATCTCT
451 ATTATCTTGACTCGATTTCCTCATCACGAAAGAACAAAGTCATAATCGAAAACGACCCAATCTCT
1854374 TCATCGCAGATGAGCAGTGTCGTCTTCAACA
516 TCATCGCAGATGAGCAGTGTCGTCTTCAACA
* * * *
1854405 TCAAATGACCAGATCTCCTCATCACGAAGGACTAGTGACACCCTCAGACAATCAGACTTCCTCAT
1 TCAAACGACCAGATCTCCTCATCATGAAGGAGTAGTGTCACCCTCAGACAATCAGACTTCCTCAT
* *
1854470 CACGAAGGAATCGTATTGTCCCCATATTGACCCGATTTCCTCATCACGAAGGAACAACGTCATTA
66 CACGAAGGAATCGTATTGTCCCCAGATTGACCCGATTTCCTCATCACGAATGAACAACGTCATTA
*
1854535 TTAAAAACGACCCGATATCTTCATCGCGGATGAGCAATGTCGTCTTCAACATCAAACCGACCAGA
131 TTAAAAA-GACCCGATCTCTTCATCGCGGATGAGCAATGTCGTCTTCAACATCAAACCGACCAGA
* * *
1854600 TCTCCTCATCACGAAGGAGTAGTGTCACCCTCAGACAATCAGAATTTCTCATCACGAAAGAATCG
195 TCTCCTCATCACGAAGGAGCAGTGTCACCCTCAGACAATCAGACTTCCTCATCACGAAAGAATCG
* **
1854665 TATTTTCCCCAGATTGACCTGATTTTCTCATCACGAAGGAACAGTGACATAATCGAAAATGATTC
260 TATTGTCCCCAGATT-ACCTGATTTTCTCATCACGAAGGAACAGTGACATAATCGAAAATGACCC
1854730 GATCTCTTCATCGC-GATGAGCAGTGTCATCTTCAACATCAAACCAACCAGATCTCCTCATTACG
324 GATCTCTTCATCGCAGATGAGCAGTGTCATCTTCAACATCAAACCAACCAGATCTCCTCA-TACG
*
1854794 AAGGAGCAGTGTCACCCTCAGACAATCAGACTTCCTCATCACGAAGGAATCGTATTGTCTCCTAA
388 AAGGAGCAGTGTCACCCTCAGACAATCAGACTTCCTCATCACGAAGGAACCGTATTGTC-CC-AA
* *
1854859 ATTATCTCTTGATTACATGATTTCCTCATCACGAAAGAACAAAGTCATAATCGAAAACGACCCGA
451 ATTA--TCTTGACT-C--GATTTCCTCATCACGAAAGAACAAAGTCATAATCGAAAACGACCCAA
* *
1854924 TCTCTTCATCGCGGATTAGCAGTGTCGTCTTCAACA
511 TCTCTTCATCGCAGATGAGCAGTGTCGTCTTCAACA
* *
1854960 TCAAACCGACCAGATCT-CTCATCATGAAGAAGTAGTGTCACCCTCATACAATCAGACTTCCTCA
1 TCAAA-CGACCAGATCTCCTCATCATGAAGGAGTAGTGTCACCCTCAGACAATCAGACTTCCTCA
* * *
1855024 TCACGAAGGAATCGTATTGTCCCTAGATTGACCCGATTTCCTCATCTCGAATGAACAACGTCATA
65 TCACGAAGGAATCGTATTGTCCCCAGATTGACCCGATTTCCTCATCACGAATGAACAACGTCATT
* * *
1855089 ATAAAAAATGACCCGATCTCTTCATCGCGGATGAGCATTGTCGTCTTCAACATTAAACCGACCAG
130 ATTAAAAA-GACCCGATCTCTTCATCGCGGATGAGCAATGTCGTCTTCAACATCAAACCGACCAG
* * *
1855154 ATCTCCTCATCACGAAGGAGCAGTGTCACCCTCAGACAATCAGGCTTCCTCATCATGAAGGAATC
194 ATCTCCTCATCACGAAGGAGCAGTGTCACCCTCAGACAATCAGACTTCCTCATCACGAAAGAATC
* * * * *
1855219 ATATTGTCCCCAAATTATCTCTTGATTGGCCCAATTTCCTCATCACGAAAGAACAACGTCATAAT
259 GTATTGTCCCCAGATTA-C-C-TGA-T-------TTT-CTCATCACGAAGGAAC-A-GTGA-CA-
* * * * * * * **
1855284 TTATCGAAAACGACCCGATCTCTTCAACACAAATGAGCAGTGTCGTCTTCAGCATCAAATTAACC
308 TAATCGAAAATGACCCGATCTCTTCATCGCAGATGAGCAGTGTCATCTTCAACATCAAACCAACC
* * * *
1855349 TGATCTCCTCA-ACGTGAATGAGCAGTGTCATCTTCAGACAATCAGACTTCCTCATCACGAAGGA
373 AGATCTCCTCATAC--GAAGGAGCAGTGTCACCCTCAGACAATCAGACTTCCTCATCACGAAGGA
1855413 ACCGTATTGTCCCAAATTATC
436 ACCGTATTGTCCCAAATTATC
1855434 CTCCGATTGA
Statistics
Matches: 902, Mismatches: 90, Indels: 51
0.86 0.09 0.05
Matches are distributed among these distances:
543 109 0.12
544 117 0.13
545 72 0.08
546 111 0.12
547 1 0.00
548 1 0.00
552 5 0.01
553 1 0.00
554 1 0.00
555 315 0.35
556 11 0.01
557 3 0.00
558 1 0.00
565 3 0.00
566 15 0.02
567 3 0.00
568 3 0.00
569 9 0.01
570 26 0.03
571 95 0.11
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (546 bp):
TCAAACGACCAGATCTCCTCATCATGAAGGAGTAGTGTCACCCTCAGACAATCAGACTTCCTCAT
CACGAAGGAATCGTATTGTCCCCAGATTGACCCGATTTCCTCATCACGAATGAACAACGTCATTA
TTAAAAAGACCCGATCTCTTCATCGCGGATGAGCAATGTCGTCTTCAACATCAAACCGACCAGAT
CTCCTCATCACGAAGGAGCAGTGTCACCCTCAGACAATCAGACTTCCTCATCACGAAAGAATCGT
ATTGTCCCCAGATTACCTGATTTTCTCATCACGAAGGAACAGTGACATAATCGAAAATGACCCGA
TCTCTTCATCGCAGATGAGCAGTGTCATCTTCAACATCAAACCAACCAGATCTCCTCATACGAAG
GAGCAGTGTCACCCTCAGACAATCAGACTTCCTCATCACGAAGGAACCGTATTGTCCCAAATTAT
CTTGACTCGATTTCCTCATCACGAAAGAACAAAGTCATAATCGAAAACGACCCAATCTCTTCATC
GCAGATGAGCAGTGTCGTCTTCAACA
Found at i:1859955 original size:16 final size:16
Alignment explanation
Indices: 1859936--1859980 Score: 90
Period size: 16 Copynumber: 2.8 Consensus size: 16
1859926 AATTGAAATG
1859936 TAATGCATATATTCTA
1 TAATGCATATATTCTA
1859952 TAATGCATATATTCTA
1 TAATGCATATATTCTA
1859968 TAATGCATATATT
1 TAATGCATATATT
1859981 TTTTTTATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.38, C:0.11, G:0.07, T:0.44
Consensus pattern (16 bp):
TAATGCATATATTCTA
Found at i:1862450 original size:27 final size:26
Alignment explanation
Indices: 1862418--1862514 Score: 63
Period size: 27 Copynumber: 3.6 Consensus size: 26
1862408 TGTTGTTGAG
*
1862418 ATTTGATACTCTTGTGTGGTATTTTTA
1 ATTTGA-ACTCTTGTGTAGTATTTTTA
* * *
1862445 ATTTGAAGATCTTGTGTTG-A-TTTGA
1 ATTTGAA-CTCTTGTGTAGTATTTTTA
* * *
1862470 GACTTGATACTCTTATGTAATATTTTTA
1 -ATTTGA-ACTCTTGTGTAGTATTTTTA
*
1862498 TTTTGAACATCTTGTGT
1 ATTTGAAC-TCTTGTGT
1862515 TGGTTTATTG
Statistics
Matches: 52, Mismatches: 12, Indels: 12
0.68 0.16 0.16
Matches are distributed among these distances:
25 4 0.08
26 16 0.31
27 28 0.54
28 4 0.08
ACGTcount: A:0.23, C:0.08, G:0.18, T:0.52
Consensus pattern (26 bp):
ATTTGAACTCTTGTGTAGTATTTTTA
Found at i:1862483 original size:53 final size:51
Alignment explanation
Indices: 1862405--1862516 Score: 152
Period size: 53 Copynumber: 2.2 Consensus size: 51
1862395 GTTGATTTCA
* * ** *
1862405 TTGTGTTGTTGAGATTTGATACTCTTGTGTGGTATTTTTAATTTGAAGATC
1 TTGTGTTGTTGAGACTTGATACTCTTATGTAATATTTTTAATTTGAACATC
*
1862456 TTGTGTTGATTTGAGACTTGATACTCTTATGTAATATTTTTATTTTGAACATC
1 TTGTGTTG--TTGAGACTTGATACTCTTATGTAATATTTTTAATTTGAACATC
1862509 TTGTGTTG
1 TTGTGTTG
1862517 GTTTATTGTG
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
51 8 0.15
53 45 0.85
ACGTcount: A:0.21, C:0.07, G:0.21, T:0.52
Consensus pattern (51 bp):
TTGTGTTGTTGAGACTTGATACTCTTATGTAATATTTTTAATTTGAACATC
Found at i:1864365 original size:59 final size:57
Alignment explanation
Indices: 1864266--1864379 Score: 192
Period size: 59 Copynumber: 2.0 Consensus size: 57
1864256 TAACGATGAC
*
1864266 TTACTTTTCTTTCAAAAAAATTGGTAATTAAGTTAAATTTTATTGTAATTCTAGTGA
1 TTACTTTTCTTTCAAAAAAATTGATAATTAAGTTAAATTTTATTGTAATTCTAGTGA
*
1864323 TTACTTTTCTTTCAAAAAATAATTGATACTTAAGTTAAATTTTATTGTAATTCTAGT
1 TTACTTTTCTTTC-AAAAA-AATTGATAATTAAGTTAAATTTTATTGTAATTCTAGT
1864380 TATTGAAAAT
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
57 13 0.25
58 5 0.09
59 35 0.66
ACGTcount: A:0.35, C:0.08, G:0.09, T:0.48
Consensus pattern (57 bp):
TTACTTTTCTTTCAAAAAAATTGATAATTAAGTTAAATTTTATTGTAATTCTAGTGA
Found at i:1869136 original size:20 final size:20
Alignment explanation
Indices: 1869074--1869157 Score: 96
Period size: 20 Copynumber: 4.2 Consensus size: 20
1869064 CCAAATTCGT
*
1869074 AACGCGAATATGTAAATCGC
1 AACGCGAATTTGTAAATCGC
** * **
1869094 ATTGCGATTTTCCAAATTCGC
1 AACGCGAATTTGTAAA-TCGC
*
1869115 AACGCGAATCTGTAAATCGC
1 AACGCGAATTTGTAAATCGC
1869135 AACGCGAATTTGTAAATCGC
1 AACGCGAATTTGTAAATCGC
1869155 AAC
1 AAC
1869158 ACAGAAGTCA
Statistics
Matches: 50, Mismatches: 13, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
20 36 0.72
21 14 0.28
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.25
Consensus pattern (20 bp):
AACGCGAATTTGTAAATCGC
Found at i:1869175 original size:40 final size:41
Alignment explanation
Indices: 1869131--1869237 Score: 127
Period size: 40 Copynumber: 2.7 Consensus size: 41
1869121 AATCTGTAAA
1869131 TCGCAACGCGAATTTGT-AAA-TCGCAACACAGAAGTCAAAT
1 TCGCAACGCGAATTTGTCAAATTCGCAACACAG-AGTCAAAT
* *
1869171 TCGCAACGCG-A-TAGTCAAATTCGCAACACTGAGTCAAAT
1 TCGCAACGCGAATTTGTCAAATTCGCAACACAGAGTCAAAT
*
1869210 TCGCAACACTGAA-TT-TCAAATTCGCAAC
1 TCGCAACGC-GAATTTGTCAAATTCGCAAC
1869238 TGAATTTCAA
Statistics
Matches: 59, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
38 3 0.05
39 20 0.34
40 34 0.58
41 2 0.03
ACGTcount: A:0.37, C:0.25, G:0.16, T:0.21
Consensus pattern (41 bp):
TCGCAACGCGAATTTGTCAAATTCGCAACACAGAGTCAAAT
Found at i:1869207 original size:19 final size:20
Alignment explanation
Indices: 1869151--1869237 Score: 115
Period size: 20 Copynumber: 4.3 Consensus size: 20
1869141 AATTTGTAAA
*
1869151 TCGCAACACAGAAGTCAAAT
1 TCGCAACACTGAAGTCAAAT
*
1869171 TCGCAACGC-GATAGTCAAAT
1 TCGCAACACTGA-AGTCAAAT
1869191 TCGCAACACTG-AGTCAAAT
1 TCGCAACACTGAAGTCAAAT
*
1869210 TCGCAACACTGAATTTCAAAT
1 TCGCAACACTGAA-GTCAAAT
1869231 TCGCAAC
1 TCGCAAC
1869238 TGAATTTCAA
Statistics
Matches: 60, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
19 21 0.35
20 25 0.42
21 14 0.23
ACGTcount: A:0.38, C:0.26, G:0.15, T:0.21
Consensus pattern (20 bp):
TCGCAACACTGAAGTCAAAT
Found at i:1869275 original size:20 final size:19
Alignment explanation
Indices: 1869204--1869276 Score: 83
Period size: 19 Copynumber: 3.7 Consensus size: 19
1869194 CAACACTGAG
1869204 TCAAATTCGCAACACTGAATT
1 TCAAATTCGC-A-ACTGAATT
1869225 TCAAATTCGCAACTGAATT
1 TCAAATTCGCAACTGAATT
* *
1869244 TCAAATTTGCAACTCGATTT
1 TCAAATTCGCAACT-GAATT
**
1869264 TTGAATTCGCAAC
1 TCAAATTCGCAAC
1869277 ACGAATTTAA
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
19 21 0.46
20 15 0.33
21 10 0.22
ACGTcount: A:0.34, C:0.22, G:0.11, T:0.33
Consensus pattern (19 bp):
TCAAATTCGCAACTGAATT
Found at i:1869296 original size:19 final size:19
Alignment explanation
Indices: 1869269--1869315 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
1869259 GATTTTTGAA
*
1869269 TTCGCAACACGAATTTAAT
1 TTCGTAACACGAATTTAAT
** *
1869288 TTCGTAACA-GGTTTTAGT
1 TTCGTAACACGAATTTAAT
1869306 TTCGTAACAC
1 TTCGTAACAC
1869316 AAATATTTTG
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
18 15 0.65
19 8 0.35
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.36
Consensus pattern (19 bp):
TTCGTAACACGAATTTAAT
Found at i:1869471 original size:14 final size:16
Alignment explanation
Indices: 1869452--1869488 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
1869442 TCCCCATCTC
1869452 TAATTTT-TTT-TACA
1 TAATTTTATTTCTACA
*
1869466 TAATTTTATTTCTATA
1 TAATTTTATTTCTACA
1869482 TAATTTT
1 TAATTTT
1869489 CAATGATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 3 0.15
16 10 0.50
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (16 bp):
TAATTTTATTTCTACA
Found at i:1870237 original size:24 final size:24
Alignment explanation
Indices: 1870219--1870265 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
1870209 AGTCAGTATT
1870219 CGAAATTTGATCTTGGTCAATACC
1 CGAAATTTGATCTTGGTCAATACC
* *
1870243 CGGACTTTGATCTTGGTCAATAC
1 CGAAATTTGATCTTGGTCAATAC
1870266 TCGGATTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (24 bp):
CGAAATTTGATCTTGGTCAATACC
Found at i:1870270 original size:24 final size:24
Alignment explanation
Indices: 1870224--1870277 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
1870214 GTATTCGAAA
1870224 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
1870248 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
1870272 TTTGAT
1 TTTGAT
1870278 GATGTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:1872556 original size:18 final size:18
Alignment explanation
Indices: 1872533--1872568 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
1872523 AAGCAAAAGG
*
1872533 AAATCAAAATCGCAATCA
1 AAATCAAAATCCCAATCA
1872551 AAATCAAAATCCCAATCA
1 AAATCAAAATCCCAATCA
1872569 CAACCGGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.56, C:0.25, G:0.03, T:0.17
Consensus pattern (18 bp):
AAATCAAAATCCCAATCA
Found at i:1872823 original size:20 final size:20
Alignment explanation
Indices: 1872768--1872823 Score: 87
Period size: 19 Copynumber: 2.9 Consensus size: 20
1872758 TGTTTTCCTT
1872768 AAATTCGCAACGCGAAAGTC
1 AAATTCGCAACGCGAAAGTC
*
1872788 -AATTCGCAACGAGAAAGTC
1 AAATTCGCAACGCGAAAGTC
*
1872807 AAATTCGCAATGCGAAA
1 AAATTCGCAACGCGAAA
1872824 TCGCAAACTG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
19 18 0.56
20 14 0.44
ACGTcount: A:0.43, C:0.21, G:0.20, T:0.16
Consensus pattern (20 bp):
AAATTCGCAACGCGAAAGTC
Found at i:1873085 original size:66 final size:64
Alignment explanation
Indices: 1872998--1873169 Score: 229
Period size: 66 Copynumber: 2.6 Consensus size: 64
1872988 TTAAAACAAA
*
1872998 AAATCAACTTTTACAAATCAATTAAATAAGCAAAAAAATAATTCTTATTTACACATCAAATTAAA
1 AAATCAACTTTTACAAATCAATTAAACAAGC-AAAAAATAATTCTTATTTACACATC-AATTAAA
1873063 C
64 C
* * *
1873064 AAATTAACTTTTACAAATCAATTAAACAAGCAAAAAATAATTCTTATTTCCTCATCAATTAAAC
1 AAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAATTCTTATTTACACATCAATTAAAC
1873128 AAATCAACTTTCAATGTA-AAATTCAATTAAACAAGCAAAAAA
1 AAATCAAC-TT---T-TACAAA-TCAATTAAACAAGCAAAAAA
1873170 AGTGTACCCC
Statistics
Matches: 95, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
64 15 0.16
65 25 0.26
66 29 0.31
68 4 0.04
69 22 0.23
ACGTcount: A:0.52, C:0.16, G:0.02, T:0.30
Consensus pattern (64 bp):
AAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAATTCTTATTTACACATCAATTAAAC
Found at i:1874515 original size:21 final size:20
Alignment explanation
Indices: 1874486--1874579 Score: 91
Period size: 21 Copynumber: 4.5 Consensus size: 20
1874476 GTGAATCGGG
1874486 CTCTTGAACGGTGGGAGGGAC
1 CTCTTGAACGGTGGGAGGG-C
* **
1874507 C-CATTGAACGATGACAAGGGC
1 CTC-TTGAACGGTG-GGAGGGC
1874528 CTCTTGAACGGTGGGAGGGGC
1 CTCTTGAACGGTGGGA-GGGC
* *
1874549 CTCTTGAACGATGAGAGGAGC
1 CTCTTGAACGGTGGGAGG-GC
1874570 CTCTTGAACG
1 CTCTTGAACG
1874580 ATAAGAGGCA
Statistics
Matches: 60, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
20 4 0.07
21 51 0.85
22 5 0.08
ACGTcount: A:0.23, C:0.21, G:0.36, T:0.19
Consensus pattern (20 bp):
CTCTTGAACGGTGGGAGGGC
Found at i:1874545 original size:42 final size:42
Alignment explanation
Indices: 1874486--1874604 Score: 143
Period size: 42 Copynumber: 2.8 Consensus size: 42
1874476 GTGAATCGGG
1874486 CTCTTGAACGGTGGGAGGGACC-CATTGAACGATGACAAGG-GC
1 CTCTTGAACGGTGGGAGGGACCTC-TTGAACGATGA-AAGGAGC
* *
1874528 CTCTTGAACGGTGGGAGGGGCCTCTTGAACGATGAGAGGAGC
1 CTCTTGAACGGTGGGAGGGACCTCTTGAACGATGAAAGGAGC
* ** * *
1874570 CTCTTGAACGATAAGAGGCACATCTTGAACGATGA
1 CTCTTGAACGGTGGGAGGGACCTCTTGAACGATGA
1874605 CAGGTGAATC
Statistics
Matches: 67, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
41 3 0.04
42 63 0.94
43 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.34, T:0.19
Consensus pattern (42 bp):
CTCTTGAACGGTGGGAGGGACCTCTTGAACGATGAAAGGAGC
Found at i:1874580 original size:21 final size:21
Alignment explanation
Indices: 1874510--1874604 Score: 104
Period size: 21 Copynumber: 4.5 Consensus size: 21
1874500 GAGGGACCCA
*
1874510 TTGAACGATGACAAGG-GCCTC
1 TTGAACGATGA-GAGGAGCCTC
* * *
1874531 TTGAACGGTGGGAGGGGCCTC
1 TTGAACGATGAGAGGAGCCTC
1874552 TTGAACGATGAGAGGAGCCTC
1 TTGAACGATGAGAGGAGCCTC
* *
1874573 TTGAACGATAAGAGGCA-CATC
1 TTGAACGATGAGAGG-AGCCTC
1874594 TTGAACGATGA
1 TTGAACGATGA
1874605 CAGGTGAATC
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
20 3 0.05
21 59 0.94
22 1 0.02
ACGTcount: A:0.28, C:0.19, G:0.33, T:0.20
Consensus pattern (21 bp):
TTGAACGATGAGAGGAGCCTC
Found at i:1876649 original size:20 final size:20
Alignment explanation
Indices: 1876623--1876689 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
1876613 AAACTTAAAT
1876623 TCGCAACGCGAAAATGAAAA
1 TCGCAACGCGAAAATGAAAA
* *
1876643 TCACAACACGAAAATGAAAA
1 TCGCAACGCGAAAATGAAAA
*
1876663 TCGCAACGAGAAAATGAAAA
1 TCGCAACGCGAAAATGAAAA
1876683 TCGCAAC
1 TCGCAAC
1876690 TAGAAAATCG
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.52, C:0.21, G:0.16, T:0.10
Consensus pattern (20 bp):
TCGCAACGCGAAAATGAAAA
Found at i:1876694 original size:20 final size:19
Alignment explanation
Indices: 1876632--1876697 Score: 96
Period size: 20 Copynumber: 3.3 Consensus size: 19
1876622 TTCGCAACGC
*
1876632 GAAAATGAAAATCACAACA
1 GAAAATGAAAATCGCAACA
1876651 CGAAAATGAAAATCGCAACGA
1 -GAAAATGAAAATCGCAAC-A
1876672 GAAAATGAAAATCGCAACTA
1 GAAAATGAAAATCGCAAC-A
1876692 GAAAAT
1 GAAAAT
1876698 CGCAACGCGA
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
20 42 0.98
21 1 0.02
ACGTcount: A:0.58, C:0.15, G:0.15, T:0.12
Consensus pattern (19 bp):
GAAAATGAAAATCGCAACA
Found at i:1876757 original size:20 final size:20
Alignment explanation
Indices: 1876719--1876758 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
1876709 ACTAAAATCG
* * *
1876719 CGTTGCAATTTTCATTTTCA
1 CGTTGCAAATTTAAGTTTCA
1876739 CGTTGCAAATTTAAGTTTCA
1 CGTTGCAAATTTAAGTTTCA
1876759 GAAACTACTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.25, C:0.17, G:0.12, T:0.45
Consensus pattern (20 bp):
CGTTGCAAATTTAAGTTTCA
Found at i:1877301 original size:20 final size:20
Alignment explanation
Indices: 1877276--1877446 Score: 174
Period size: 20 Copynumber: 8.6 Consensus size: 20
1877266 TAAACAAGCT
1877276 TTGCGAATTTGACTTTCGCG
1 TTGCGAATTTGACTTTCGCG
*
1877296 TTGCGAATTTGACTATCGCG
1 TTGCGAATTTGACTTTCGCG
*
1877316 TTGCGAATTTGACTATCGCG
1 TTGCGAATTTGACTTTCGCG
*
1877336 TTGCGAATTTGAC-TTCTGTG
1 TTGCGAATTTGACTTTC-GCG
*
1877356 TTGCG-ATTT-ACAGATTCGCG
1 TTGCGAATTTGAC--TTTCGCG
*
1877376 TTGCGAATTTGAC-TTCAGTG
1 TTGCGAATTTGACTTTC-GCG
* *
1877396 TTGCGAATTTGACTTTTGTG
1 TTGCGAATTTGACTTTCGCG
*
1877416 TTGCGATTTATAGA--TTCGCG
1 TTGCGAATT-T-GACTTTCGCG
1877436 TTGCGAATTTG
1 TTGCGAATTTG
1877447 GAAACTGGGT
Statistics
Matches: 131, Mismatches: 10, Indels: 22
0.80 0.06 0.13
Matches are distributed among these distances:
18 3 0.02
19 10 0.08
20 104 0.79
21 10 0.08
22 4 0.03
ACGTcount: A:0.18, C:0.16, G:0.25, T:0.40
Consensus pattern (20 bp):
TTGCGAATTTGACTTTCGCG
Found at i:1877462 original size:60 final size:60
Alignment explanation
Indices: 1877276--1877446 Score: 222
Period size: 60 Copynumber: 2.9 Consensus size: 60
1877266 TAAACAAGCT
* * *
1877276 TTGCGAATTTGACTTTCGCGTTGCGAATT-T-GACTATCGCGTTGCGAATTTGACTA-TCGCG
1 TTGCGAATTTGACTTTTGTGTTGCGATTTATAGA-T-TCGCGTTGCGAATTTGACTACT-GCG
* * * * *
1877336 TTGCGAATTTGACTTCTGTGTTGCGATTTACAGATTCGCGTTGCGAATTTGACTTCAGTG
1 TTGCGAATTTGACTTTTGTGTTGCGATTTATAGATTCGCGTTGCGAATTTGACTACTGCG
1877396 TTGCGAATTTGACTTTTGTGTTGCGATTTATAGATTCGCGTTGCGAATTTG
1 TTGCGAATTTGACTTTTGTGTTGCGATTTATAGATTCGCGTTGCGAATTTG
1877447 GAAACTGGGT
Statistics
Matches: 98, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
60 95 0.97
61 1 0.01
62 2 0.02
ACGTcount: A:0.18, C:0.16, G:0.25, T:0.40
Consensus pattern (60 bp):
TTGCGAATTTGACTTTTGTGTTGCGATTTATAGATTCGCGTTGCGAATTTGACTACTGCG
Found at i:1877479 original size:60 final size:60
Alignment explanation
Indices: 1877276--1877481 Score: 172
Period size: 60 Copynumber: 3.4 Consensus size: 60
1877266 TAAACAAGCT
* * * * *
1877276 TTGCGAATTTGACTTTCGCGTTGCGAATTTGAC-TA-TCGCGTTGCGAATTTGACTATC-GCG
1 TTGCGAATTGGACGTTCGCGTTGCG-ATTT-ACAGATTCGCGTTGCGAATTTGAC-AACAGGG
* * ** *
1877336 TTGCGAATTTGAC-TTCTGTGTTGCGATTTACAGATTCGCGTTGCGAATTTGACTTCAGTG
1 TTGCGAATTGGACGTTC-GCGTTGCGATTTACAGATTCGCGTTGCGAATTTGACAACAGGG
* * * * * *
1877396 TTGCGAATTTGACTTTTGTGTTGCGATTTATAGATTCGCGTTGCGAATTTGGA-AACTGGG
1 TTGCGAATTGGACGTTCGCGTTGCGATTTACAGATTCGCGTTGCGAATTT-GACAACAGGG
1877456 TTGCGAAATTGGA-GTTCGCGTTGCGA
1 TTGCG-AATTGGACGTTCGCGTTGCGA
1877482 ATTTGTTGGT
Statistics
Matches: 125, Mismatches: 14, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
58 2 0.02
59 10 0.08
60 103 0.82
61 10 0.08
ACGTcount: A:0.19, C:0.16, G:0.27, T:0.38
Consensus pattern (60 bp):
TTGCGAATTGGACGTTCGCGTTGCGATTTACAGATTCGCGTTGCGAATTTGACAACAGGG
Found at i:1884390 original size:21 final size:21
Alignment explanation
Indices: 1884365--1884410 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
1884355 GACCAACAAA
1884365 ATTGTCATTGACTATT-ATAAT
1 ATTGTCA-TGACTATTGATAAT
* *
1884386 ATTGTTATGATTATTGATAAT
1 ATTGTCATGACTATTGATAAT
1884407 ATTG
1 ATTG
1884411 ATGTGACAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.33, C:0.04, G:0.13, T:0.50
Consensus pattern (21 bp):
ATTGTCATGACTATTGATAAT
Found at i:1884575 original size:22 final size:22
Alignment explanation
Indices: 1884542--1884606 Score: 69
Period size: 22 Copynumber: 2.8 Consensus size: 22
1884532 ACTTTTTAAT
*
1884542 ATAAAATAAAATATGTAAATTTA
1 ATAATATAAAATAT-TAAATTTA
*
1884565 A-AATATAAAATAATAATAATTTTA
1 ATAATATAAAAT-AT--TAAATTTA
1884589 ATAATATAAAATATTAAA
1 ATAATATAAAATATTAAA
1884607 AATTAAATAA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
22 12 0.34
23 3 0.09
24 10 0.29
25 10 0.29
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (22 bp):
ATAATATAAAATATTAAATTTA
Found at i:1884579 original size:25 final size:25
Alignment explanation
Indices: 1884538--1884616 Score: 81
Period size: 25 Copynumber: 3.1 Consensus size: 25
1884528 ATTTACTTTT
*
1884538 TAATATAAAATAAAATATGTAAATTTAA
1 TAATATAAAAT--AATA-ATAAATTTAA
*
1884566 -AATATAAAATAATAATAATTTTAA
1 TAATATAAAATAATAATAAATTTAA
* *
1884590 TAATATAAAATATTAA-AAATTAAA
1 TAATATAAAATAATAATAAATTTAA
1884614 TAA
1 TAA
1884617 AATATTGAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
24 17 0.38
25 18 0.40
27 10 0.22
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.35
Consensus pattern (25 bp):
TAATATAAAATAATAATAAATTTAA
Found at i:1884611 original size:7 final size:8
Alignment explanation
Indices: 1884548--1884613 Score: 52
Period size: 7 Copynumber: 8.5 Consensus size: 8
1884538 TAATATAAAA
1884548 TAAAATAT
1 TAAAATAT
1884556 GT-AAAT-T
1 -TAAAATAT
1884563 TAAAATA-
1 TAAAATAT
*
1884570 TAAAATAA
1 TAAAATAT
*
1884578 TAATAATTT
1 TAA-AATAT
1884587 TAATAATA-
1 TAA-AATAT
1884595 TAAAATAT
1 TAAAATAT
1884603 TAAAA-AT
1 TAAAATAT
1884610 TAAA
1 TAAA
1884614 TAAAATATTG
Statistics
Matches: 49, Mismatches: 3, Indels: 12
0.77 0.05 0.19
Matches are distributed among these distances:
6 1 0.02
7 22 0.45
8 15 0.31
9 11 0.22
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (8 bp):
TAAAATAT
Found at i:1885127 original size:31 final size:32
Alignment explanation
Indices: 1885092--1885169 Score: 113
Period size: 33 Copynumber: 2.4 Consensus size: 32
1885082 AAAAGTAGAT
* * *
1885092 AACATTACATTAAGCAT-AAACAAATATTAAA
1 AACATTACATAAAACATAAAAAAAATATTAAA
1885123 AACATTACATAAAACATAAAAAAAAATATTAAA
1 AACATTACATAAAACAT-AAAAAAAATATTAAA
1885156 AACATTACATAAAA
1 AACATTACATAAAA
1885170 ACATTACAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
31 15 0.36
33 27 0.64
ACGTcount: A:0.64, C:0.12, G:0.01, T:0.23
Consensus pattern (32 bp):
AACATTACATAAAACATAAAAAAAATATTAAA
Found at i:1885135 original size:13 final size:13
Alignment explanation
Indices: 1885119--1885177 Score: 58
Period size: 13 Copynumber: 5.0 Consensus size: 13
1885109 AAACAAATAT
1885119 TAAAAACATTACA
1 TAAAAACATTACA
1885132 T-AAAACA-TA-A
1 TAAAAACATTACA
* *
1885142 -AAAAA-AATA-T
1 TAAAAACATTACA
1885152 TAAAAACATTACA
1 TAAAAACATTACA
1885165 TAAAAACATTACA
1 TAAAAACATTACA
1885178 ATTAATATAC
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
9 1 0.03
10 7 0.18
11 7 0.18
12 9 0.24
13 14 0.37
ACGTcount: A:0.66, C:0.12, G:0.00, T:0.22
Consensus pattern (13 bp):
TAAAAACATTACA
Found at i:1891943 original size:17 final size:18
Alignment explanation
Indices: 1891921--1891954 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
1891911 ATTATTAAAT
*
1891921 TATTAATATT-TAAAAAC
1 TATTAAAATTATAAAAAC
1891938 TATTAAAATTATAAAAA
1 TATTAAAATTATAAAAA
1891955 AAATAAAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (18 bp):
TATTAAAATTATAAAAAC
Found at i:1892172 original size:17 final size:18
Alignment explanation
Indices: 1892140--1892176 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
1892130 ATTGATAATA
*
1892140 TATTTTTAATAAATATTT
1 TATTTATAATAAATATTT
1892158 TATTTATAA-AAATATTT
1 TATTTATAATAAATATTT
1892175 TA
1 TA
1892177 AGATATTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TATTTATAATAAATATTT
Found at i:1893020 original size:1 final size:1
Alignment explanation
Indices: 1892987--1893011 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
1892977 TTCTCTCTTC
1892987 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
1893012 GCATTTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:1895139 original size:3 final size:3
Alignment explanation
Indices: 1895131--1895204 Score: 130
Period size: 3 Copynumber: 24.7 Consensus size: 3
1895121 TTTTTATCCA
*
1895131 TAT TAT TAT TAT TAA TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
1895179 CAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
1895205 AATATATATT
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 67 1.00
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:1900806 original size:14 final size:15
Alignment explanation
Indices: 1900777--1900808 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
1900767 GAATTATTTT
1900777 ATTCATTAAGTTAAA
1 ATTCATTAAGTTAAA
1900792 ATTCATTAA-TTAAA
1 ATTCATTAAGTTAAA
1900806 ATT
1 ATT
1900809 TGAAAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (15 bp):
ATTCATTAAGTTAAA
Found at i:1908098 original size:16 final size:16
Alignment explanation
Indices: 1908073--1908132 Score: 70
Period size: 16 Copynumber: 3.9 Consensus size: 16
1908063 GCTTGAAGAA
1908073 AAAAGAAAAAAAAAAG
1 AAAAGAAAAAAAAAAG
* **
1908089 AAAAG-GAAAAAATTG
1 AAAAGAAAAAAAAAAG
1908104 -AAAGAAAAAAAAAAG
1 AAAAGAAAAAAAAAAG
*
1908119 AGAAGAAAAAAAAA
1 AAAAGAAAAAAAAA
1908133 GGGGGTCAAG
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
14 4 0.11
15 14 0.40
16 17 0.49
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (16 bp):
AAAAGAAAAAAAAAAG
Found at i:1908100 original size:15 final size:15
Alignment explanation
Indices: 1908073--1908133 Score: 61
Period size: 15 Copynumber: 4.0 Consensus size: 15
1908063 GCTTGAAGAA
1908073 AAAAGAAAAAAAAAAG
1 AAAAG-AAAAAAAAAG
* **
1908089 AAAAGGAAAAAATTG
1 AAAAGAAAAAAAAAG
1908104 -AAAGAAAAAAAAAAG
1 AAAAG-AAAAAAAAAG
*
1908119 AGAAGAAAAAAAAAG
1 AAAAGAAAAAAAAAG
1908134 GGGGTCAAGG
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
14 4 0.11
15 24 0.67
16 8 0.22
ACGTcount: A:0.80, C:0.00, G:0.16, T:0.03
Consensus pattern (15 bp):
AAAAGAAAAAAAAAG
Found at i:1908110 original size:30 final size:30
Alignment explanation
Indices: 1908074--1908130 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
1908064 CTTGAAGAAA
*
1908074 AAAGAAAAAAAAAAGAAAAGGAAAAAATTG
1 AAAGAAAAAAAAAAGAAAAGAAAAAAATTG
*
1908104 AAAGAAAAAAAAAAGAGAAGAAAAAAA
1 AAAGAAAAAAAAAAGAAAAGAAAAAAA
1908131 AAGGGGGTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.04
Consensus pattern (30 bp):
AAAGAAAAAAAAAAGAAAAGAAAAAAATTG
Found at i:1909575 original size:83 final size:83
Alignment explanation
Indices: 1909271--1909572 Score: 509
Period size: 83 Copynumber: 3.6 Consensus size: 83
1909261 GAACAAATGT
* *
1909271 AATGTGCTCCATAACATTTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAA
1 AATGTGCT-CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAA
*
1909336 TCATTGAATTTAGAAGATG
65 TCATTGAATTTGGAAGATG
*
1909355 AATTTGC-CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAA
1 AATGTGCTC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAA
1909419 TCATTGAATTTGGAAGATG
65 TCATTGAATTTGGAAGATG
*
1909438 AATGTGCTCATAGCATCTTCTGGAGGTGTTCTTTGAGTTATCTGATCTGGTTTGG-CAGAACCAA
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTGGACAGAACCAA
*
1909502 TCATTGAATTTGGAGGATG
65 TCATTGAATTTGGAAGATG
1909521 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT
1909573 TGGTTTGGTA
Statistics
Matches: 207, Mismatches: 8, Indels: 8
0.93 0.04 0.04
Matches are distributed among these distances:
82 3 0.01
83 193 0.93
84 11 0.05
ACGTcount: A:0.25, C:0.15, G:0.24, T:0.37
Consensus pattern (83 bp):
AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAAT
CATTGAATTTGGAAGATG
Found at i:1910537 original size:112 final size:113
Alignment explanation
Indices: 1910328--1910755 Score: 682
Period size: 113 Copynumber: 3.8 Consensus size: 113
1910318 TCATTTGAAA
* *
1910328 GATTAGCTTTTCCAGAG-AAGTTCATAATGAGAAGAACTCATCTGAAAAAGGAAGAAGAAGTTCA
1 GATTAGCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
*
1910392 TAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAATTGATG
66 TAATGAGAAGAATTTGTTCAACCTTTAACCTGAATTCATCAATTGATG
*
1910440 GATT-GACATTTCCAGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTT
1 GATTAG-CATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTC
* * * *
1910503 ATAATAAGAAGAATTTGTTCAACCTTTAATCTGAATTCATCACTGGATG
65 ATAATGAGAAGAATTTGTTCAACCTTTAACCTGAATTCATCAATTGATG
***
1910552 GATTATTTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
1 GATTAGCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
*
1910617 TAATGAGAAGAATTTGTTCAACCTTTCACCTGAATTCATCAATTGATG
66 TAATGAGAAGAATTTGTTCAACCTTTAACCTGAATTCATCAATTGATG
* *
1910665 GATCAGCCTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
1 GATTAGCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
**
1910730 TAATGAGAAGAGCTTGTTCAACCTTT
66 TAATGAGAAGAATTTGTTCAACCTTT
1910756 GTTTGATGCT
Statistics
Matches: 290, Mismatches: 23, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
111 1 0.00
112 115 0.40
113 174 0.60
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.28
Consensus pattern (113 bp):
GATTAGCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
TAATGAGAAGAATTTGTTCAACCTTTAACCTGAATTCATCAATTGATG
Found at i:1911083 original size:3 final size:3
Alignment explanation
Indices: 1911075--1911154 Score: 142
Period size: 3 Copynumber: 26.7 Consensus size: 3
1911065 TTTTTATCCA
*
1911075 TAT TAT TAT TAT TAA TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
1911123 TAT TAT TAT CAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1911155 AATATATATT
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 73 1.00
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:1913641 original size:3 final size:3
Alignment explanation
Indices: 1913633--1913657 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
1913623 ACAAACGGAT
1913633 ATG ATG ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG A
1913658 GGAAGATACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.32, T:0.32
Consensus pattern (3 bp):
ATG
Found at i:1915477 original size:14 final size:15
Alignment explanation
Indices: 1915449--1915478 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1915439 ATTTTCTAAA
1915449 AATATTTTGATTTTT
1 AATATTTTGATTTTT
1915464 AATATTTT-ATTTTT
1 AATATTTTGATTTTT
1915478 A
1 A
1915479 GAATGAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (15 bp):
AATATTTTGATTTTT
Found at i:1916109 original size:18 final size:20
Alignment explanation
Indices: 1916079--1916125 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
1916069 CGATAATCCT
*
1916079 TTTTTTTTA-AATTT-TA-A
1 TTTTTTATATAATTTATATA
1916096 TTTTTTATATAATTTATATA
1 TTTTTTATATAATTTATATA
1916116 TTTTTTATAT
1 TTTTTTATAT
1916126 TTTTATTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 8 0.31
18 5 0.19
19 2 0.08
20 11 0.42
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (20 bp):
TTTTTTATATAATTTATATA
Found at i:1919040 original size:18 final size:18
Alignment explanation
Indices: 1919017--1919051 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1919007 CCGCGTAGAA
1919017 ATGTCCCGAAGGACCACT
1 ATGTCCCGAAGGACCACT
*
1919035 ATGTCCCGAATGACCAC
1 ATGTCCCGAAGGACCAC
1919052 ATAGAAATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.34, G:0.20, T:0.17
Consensus pattern (18 bp):
ATGTCCCGAAGGACCACT
Found at i:1919558 original size:23 final size:24
Alignment explanation
Indices: 1919512--1919558 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
1919502 ATCTCTTATG
1919512 TTCATATATCACATATTCATATAA
1 TTCATATATCACATATTCATATAA
1919536 TTCATTATATCA-ATA-TCATATAA
1 TTCA-TATATCACATATTCATATAA
1919559 CTTATGTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 8 0.36
24 7 0.32
25 7 0.32
ACGTcount: A:0.43, C:0.15, G:0.00, T:0.43
Consensus pattern (24 bp):
TTCATATATCACATATTCATATAA
Found at i:1923738 original size:21 final size:23
Alignment explanation
Indices: 1923697--1923745 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
1923687 TTTTCCAAAA
*
1923697 TGCTATAGGGATACTGATACCC-
1 TGCTATAGGGATACCGATACCCT
*
1923719 TGCTATAGTG-TACCGATACCCT
1 TGCTATAGGGATACCGATACCCT
1923741 TGCTA
1 TGCTA
1923746 CAGTAATTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 10 0.42
22 14 0.58
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.31
Consensus pattern (23 bp):
TGCTATAGGGATACCGATACCCT
Found at i:1924499 original size:32 final size:32
Alignment explanation
Indices: 1924390--1924614 Score: 354
Period size: 32 Copynumber: 7.1 Consensus size: 32
1924380 GCTAGTATAA
*
1924390 TAAT-CTGTCTATATGTCCCG-AAGAACATAGG
1 TAATACTGTCCATATGTCCCGAAAG-ACATAGG
*
1924421 TAAT-CTATCCATATGTCCCG-AAGAACATAGG
1 TAATACTGTCCATATGTCCCGAAAG-ACATAGG
*
1924452 TAA-ACCGTCCATATGTCCCG-AAGAACATAGG
1 TAATACTGTCCATATGTCCCGAAAG-ACATAGG
1924483 TAATACTGTCCATATGTCCCGAAAGACATAGG
1 TAATACTGTCCATATGTCCCGAAAGACATAGG
1924515 TAATACTGTCCATATGTCCCGAAAGACATAGG
1 TAATACTGTCCATATGTCCCGAAAGACATAGG
1924547 TAATACTGTCCATATGTCCCGAAAGACATAGG
1 TAATACTGTCCATATGTCCCGAAAGACATAGG
1924579 TAATACTGTCCATATGTCCCGAAAGACATAGG
1 TAATACTGTCCATATGTCCCGAAAGACATAGG
1924611 TAAT
1 TAAT
1924615 CTCTCAACTC
Statistics
Matches: 186, Mismatches: 5, Indels: 5
0.95 0.03 0.03
Matches are distributed among these distances:
31 60 0.32
32 123 0.66
33 3 0.02
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.25
Consensus pattern (32 bp):
TAATACTGTCCATATGTCCCGAAAGACATAGG
Found at i:1929334 original size:26 final size:26
Alignment explanation
Indices: 1929304--1929355 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
1929294 AAATTTTAAA
1929304 TTATTTAATTT-AAT-TTATTTAATATT
1 TTATTT-ATTTCAATATT-TTTAATATT
1929330 TTATTTATTTCAATATTTTTAATATT
1 TTATTTATTTCAATATTTTTAATATT
1929356 ATTTTAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
25 4 0.17
26 18 0.75
27 2 0.08
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (26 bp):
TTATTTATTTCAATATTTTTAATATT
Found at i:1929335 original size:16 final size:17
Alignment explanation
Indices: 1929311--1929348 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
1929301 AAATTATTTA
*
1929311 ATTTAATTTATTT-AAT
1 ATTTTATTTATTTCAAT
1929327 ATTTTATTTATTTCAAT
1 ATTTTATTTATTTCAAT
1929344 ATTTT
1 ATTTT
1929349 TAATATTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 12 0.60
17 8 0.40
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (17 bp):
ATTTTATTTATTTCAAT
Found at i:1941521 original size:105 final size:109
Alignment explanation
Indices: 1941311--1941526 Score: 278
Period size: 110 Copynumber: 2.0 Consensus size: 109
1941301 ATGATTAAAT
* *
1941311 TTAATTCAACATTGAATGAATAAATAAGAGAAACGGAAAAAGAGGGTAAAAAATTAAAAATTTAT
1 TTAAATCAAAATTGAATGAATAAATAAGAGAAACGGAAAAAGAGGGTAAAAAA-TAAAAATTTAT
* * * *
1941376 GAAATTATAAAAATTAGGGGCACTAATTATAATATAAAAAATTGA
65 GAAATTACAAAAATTAGAGACACCAATTATAATATAAAAAATTGA
* * *
1941421 TTAAATCAAAATTGAATGAATTAATAAGAGAAATGGGAAAAGA-GGT-AAAAA-AAAAA-TTATG
1 TTAAATCAAAATTGAATGAATAAATAAGAGAAACGGAAAAAGAGGGTAAAAAATAAAAATTTATG
* * *
1941482 AAATTACAAAAATTAGATACCCCACTTATAAATATAAAAAATTGA
66 AAATTACAAAAATTAGAGACACCAATTAT-AATATAAAAAATTGA
1941527 GGGTCTTAAT
Statistics
Matches: 93, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
105 27 0.29
106 20 0.22
108 5 0.05
109 3 0.03
110 38 0.41
ACGTcount: A:0.56, C:0.06, G:0.13, T:0.25
Consensus pattern (109 bp):
TTAAATCAAAATTGAATGAATAAATAAGAGAAACGGAAAAAGAGGGTAAAAAATAAAAATTTATG
AAATTACAAAAATTAGAGACACCAATTATAATATAAAAAATTGA
Found at i:1943410 original size:657 final size:654
Alignment explanation
Indices: 1942152--1943440 Score: 2131
Period size: 657 Copynumber: 2.0 Consensus size: 654
1942142 CTAAGGGTGC
*
1942152 GTTTGGTTGGGAGAATGTGAAATTACCATGGGAATGAAATCCACATTCCCCCGTTTGGTTGTCGG
1 GTTTGGTTGGGAGAATGTGAAATTACCATGAGAATGAAATCCACATTCCCCCGTTTGGTTGTCGG
* *
1942217 GAATGTCATTCCCGGTAATCTTACATTACTAATAGTGAATTTTTGGGGTATATTACCGGGAATAT
66 GAATGTCATTCCCGATAATCTTACATTACCAATAGTGAATTTTTGGGGTATATTACCGGGAATAT
* * *
1942282 CATTACCTCCATTTCCTTATGTATTGTTGAATTATCAGTGTTTTGGACTAAAATGCCCTTAAAAA
131 CATTACCTCCATTTCCTTAGGTATTGTTGAATTACCAGCGTTTTGGACTAAAATGCCCTTAAAAA
* *
1942347 AATTTCTTTCAAAAATATTCTTATACTGTCATTGAATAATAAAAATTCTTGAAGGTTAAATTACA
196 AATTTCTTTCAAAAATATTCTTATACTGTCATTAAATAATAAAAATTCTCGAAGGTTAAATTACA
*
1942412 AATTTATCCTTAAACTATTTTAGATTTACAAAAAAAAAGTCTATAATTAAAATATTATATGAAGT
261 AATTTATCCTTAAACTATTTTAGATTTAC-AAAAAAAAGTCTATAATTAAAATATTATATGAAAT
*
1942477 TCAGGGGTTAAAATAAAATTTTACCCTTTCATTAAACTTTTTTATATTTTCAATTTTGTAAAAAA
325 TCAGGGGTTAAAATAAAATTTTACCCCTTCATTAAACTTTTTTATATTTTCAATTTTGTAAAAAA
* *
1942542 AACTATATAAATTTTATGAATTTAATTTTTTTAAAGAAAATATATAAATATTTTCCAACTTGTTA
390 AACTATATAAATTTTATGAATTTAAATTTTTTAAAGAAAACATATAAATATTTTCCAACTTGTTA
* *
1942607 AAAAACTAAATATATAATAAGGATAATTTGGTCAAATATACATTTTAATAATCTTTTATTCCTTT
455 AAAAACTAAATATATAATAAGGACAATTTGGTCAAATATACATTCTAATAATCTTTTATTCCTTT
*
1942672 AACCAAACACAGTAATCTTACATTCTGCTAAACCAACCAAACACAAAATACAACATTCCCAGTAA
520 AACCAAACACAGTAATCTTACATTCTGCTAAACCAACCAAACACAAAATACAACATTCACAGTAA
*
1942737 TCCTATTCCCTGGTAATCTTTTATTCTCACTGGTAATCTTACATTCCGTGAACCAAACGCACCCT
585 TCCTATTCACTGGTAATCTTTTATTCTCACTGGTAATCTTACATTCCGTGAACCAAACGCACCCT
1942802 AGTGT
650 AGTGT
* * * * *
1942807 GTTTGGTTGGGGGAATGTGAGATTCCCATGAGAATGGAATCTACATTCCCCCGTTTGGTTGGTCG
1 GTTTGGTTGGGAGAATGTGAAATTACCATGAGAATGAAATCCACATTCCCCCGTTTGGTT-GTCG
* *
1942872 GGAATGTCATTCCCGATAATCTTACATTACCAATAGTTGATTTTTTGGGGTATATTACTGGGAAT
65 GGAATGTCATTCCCGATAATCTTACATTACCAATAG-TGAATTTTTGGGGTATATTACCGGGAAT
* *
1942937 GTCATTACCTCCATTTCCTTAGGTATTGTT-AGATTACCAGCGTTTTTGACTAAAATGCCCTTAA
129 ATCATTACCTCCATTTCCTTAGGTATTGTTGA-ATTACCAGCGTTTTGGACTAAAATGCCCTTAA
**
1943001 AAAAATTTCTTTTCAAAAATATTCTTATTTTGTCATTAAATAATAAAAATTCTACGAA-GTTAAA
193 AAAAATTTC-TTTCAAAAATATTCTTATACTGTCATTAAATAATAAAAATTCT-CGAAGGTTAAA
*
1943065 TTACAAATTTATCCTTAAACTATTTTAGATTTAC-AAAAAAA-TCTATAATTAAAATTTTATATG
256 TTACAAATTTATCCTTAAACTATTTTAGATTTACAAAAAAAAGTCTATAATTAAAATATTATATG
1943128 AAATTCAGGGGTTAAAATAAAATTTTACCCCTTCATTAAACTTTTTTATATTTTCAATTTTGT-A
321 AAATTCAGGGGTTAAAATAAAATTTTACCCCTTCATTAAACTTTTTTATATTTTCAATTTTGTAA
*
1943192 AAAAAATTATATAAATTTTATGAATTTAAATTTTTTAAAGAAAACATATAAATATTTTCCAACTT
386 AAAAAACTATATAAATTTTATGAATTTAAATTTTTTAAAGAAAACATATAAATATTTTCCAACTT
*
1943257 GTTAAATATATA-TATATATATAATAAGGACAATTTGGTCAAATATACATTCTAATAATCTTTTA
451 GTTAAA-A-A-ACTAAATATATAATAAGGACAATTTGGTCAAATATACATTCTAATAATCTTTTA
* * *
1943321 TTCCTTTAACCAAATACGGTAATCTTACATTCATGCTAAACCAACCAAACACAAAATGCAACATT
513 TTCCTTTAACCAAACACAGTAATCTTACATTC-TGCTAAACCAACCAAACACAAAATACAACATT
* *
1943386 CACAGTAATCCTATTCACTGGTAATCTTTTATTCTGATTGGTAATCTTACATTCC
577 CACAGTAATCCTATTCACTGGTAATCTTTTATTCTCACTGGTAATCTTACATTCC
1943441 CACTGGTAAT
Statistics
Matches: 590, Mismatches: 35, Indels: 16
0.92 0.05 0.02
Matches are distributed among these distances:
654 69 0.12
655 137 0.23
656 126 0.21
657 175 0.30
658 80 0.14
659 3 0.01
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (654 bp):
GTTTGGTTGGGAGAATGTGAAATTACCATGAGAATGAAATCCACATTCCCCCGTTTGGTTGTCGG
GAATGTCATTCCCGATAATCTTACATTACCAATAGTGAATTTTTGGGGTATATTACCGGGAATAT
CATTACCTCCATTTCCTTAGGTATTGTTGAATTACCAGCGTTTTGGACTAAAATGCCCTTAAAAA
AATTTCTTTCAAAAATATTCTTATACTGTCATTAAATAATAAAAATTCTCGAAGGTTAAATTACA
AATTTATCCTTAAACTATTTTAGATTTACAAAAAAAAGTCTATAATTAAAATATTATATGAAATT
CAGGGGTTAAAATAAAATTTTACCCCTTCATTAAACTTTTTTATATTTTCAATTTTGTAAAAAAA
ACTATATAAATTTTATGAATTTAAATTTTTTAAAGAAAACATATAAATATTTTCCAACTTGTTAA
AAAACTAAATATATAATAAGGACAATTTGGTCAAATATACATTCTAATAATCTTTTATTCCTTTA
ACCAAACACAGTAATCTTACATTCTGCTAAACCAACCAAACACAAAATACAACATTCACAGTAAT
CCTATTCACTGGTAATCTTTTATTCTCACTGGTAATCTTACATTCCGTGAACCAAACGCACCCTA
GTGT
Found at i:1943439 original size:20 final size:20
Alignment explanation
Indices: 1943401--1943480 Score: 88
Period size: 20 Copynumber: 4.0 Consensus size: 20
1943391 TAATCCTATT
** *
1943401 CACTGGTAATCTTTTATTCT
1 CACTGGTAATCTTACATTCC
* *
1943421 GATTGGTAATCTTACATTCC
1 CACTGGTAATCTTACATTCC
1943441 CACTGGTAATCTTACATTCC
1 CACTGGTAATCTTACATTCC
* * *
1943461 TACTAGTACTCTTACATTCC
1 CACTGGTAATCTTACATTCC
1943481 GTGGACCAAA
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 50 1.00
ACGTcount: A:0.24, C:0.25, G:0.10, T:0.41
Consensus pattern (20 bp):
CACTGGTAATCTTACATTCC
Found at i:1955003 original size:13 final size:13
Alignment explanation
Indices: 1954985--1955009 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1954975 TGGCTGCCGC
1954985 GGAGAAGAGAAAA
1 GGAGAAGAGAAAA
1954998 GGAGAAGAGAAA
1 GGAGAAGAGAAA
1955010 TCCCTAAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (13 bp):
GGAGAAGAGAAAA
Found at i:1955232 original size:19 final size:20
Alignment explanation
Indices: 1955187--1955247 Score: 61
Period size: 19 Copynumber: 3.0 Consensus size: 20
1955177 GTTACAAGCC
1955187 TAACTAACAATCTAACTAATTAA
1 TAAC-AACAATCTAACTAA-T-A
**
1955210 TAACTGCAATCTAACTAAT-
1 TAACAACAATCTAACTAATA
*
1955229 TAACAACAACCTAACTAAT
1 TAACAACAATCTAACTAAT
1955248 CAAATAACAG
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
19 16 0.48
21 1 0.03
22 12 0.36
23 4 0.12
ACGTcount: A:0.49, C:0.21, G:0.02, T:0.28
Consensus pattern (20 bp):
TAACAACAATCTAACTAATA
Found at i:1956600 original size:27 final size:29
Alignment explanation
Indices: 1956547--1956600 Score: 67
Period size: 27 Copynumber: 1.9 Consensus size: 29
1956537 AAAATTAGGG
* **
1956547 TTTTTTTCATAAATAAAATAATTTTTTAA
1 TTTTTTTCATAAAAAAAATAAAATTTTAA
1956576 TTTTTTT-A-AAAAAAAATAAAATTTT
1 TTTTTTTCATAAAAAAAATAAAATTTT
1956601 CAAAATTATC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 14 0.64
28 1 0.05
29 7 0.32
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (29 bp):
TTTTTTTCATAAAAAAAATAAAATTTTAA
Found at i:1958703 original size:32 final size:32
Alignment explanation
Indices: 1958667--1958740 Score: 148
Period size: 32 Copynumber: 2.3 Consensus size: 32
1958657 TTGGGGCTTG
1958667 AGAGCCTACCTAAGAAAGTTTCTCGGGGCCTC
1 AGAGCCTACCTAAGAAAGTTTCTCGGGGCCTC
1958699 AGAGCCTACCTAAGAAAGTTTCTCGGGGCCTC
1 AGAGCCTACCTAAGAAAGTTTCTCGGGGCCTC
1958731 AGAGCCTACC
1 AGAGCCTACC
1958741 CAAGGGTCAC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 42 1.00
ACGTcount: A:0.26, C:0.30, G:0.24, T:0.20
Consensus pattern (32 bp):
AGAGCCTACCTAAGAAAGTTTCTCGGGGCCTC
Found at i:1960945 original size:13 final size:13
Alignment explanation
Indices: 1960929--1960973 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
1960919 AAGTCAACGT
1960929 TCAACGGTCAAAG
1 TCAACGGTCAAAG
*
1960942 TCAATGGGTCAAAG
1 TCAA-CGGTCAAAG
**
1960956 TTGACGGTCAAAG
1 TCAACGGTCAAAG
1960969 TCAAC
1 TCAAC
1960974 ATGTTGTCTC
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
13 15 0.60
14 10 0.40
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.20
Consensus pattern (13 bp):
TCAACGGTCAAAG
Found at i:1963070 original size:12 final size:12
Alignment explanation
Indices: 1963053--1963077 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1963043 ATATTTTCGA
1963053 TAAAATATTATT
1 TAAAATATTATT
1963065 TAAAATATTATT
1 TAAAATATTATT
1963077 T
1 T
1963078 TTTATCGAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TAAAATATTATT
Found at i:1963225 original size:79 final size:78
Alignment explanation
Indices: 1963127--1963282 Score: 226
Period size: 78 Copynumber: 2.0 Consensus size: 78
1963117 AAAAAATAAT
* ** *
1963127 ATTTTAGGTAGCGTCCAATATTAACATTTTCAGTAGAAAAAATAATATTTTAGGTAGCGTTTTA-
1 ATTTTAGGTAGCGTCCAATATTAACATTTTCAATAG-AAAAATAATATTTTAAATAACGTTTTAT
1963191 CTAAAAATATTAAAC
65 C-AAAAATATTAAAC
*
1963206 ATTTTAGGTAGCG-CTCAATATTAATATTTTCAATAGAAAAATAATATTTTAAATAACGTTTTAT
1 ATTTTAGGTAGCGTC-CAATATTAACATTTTCAATAGAAAAATAATATTTTAAATAACGTTTTAT
1963270 CAAAAATATTAAA
65 CAAAAATATTAAA
1963283 AAATATTAAT
Statistics
Matches: 70, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
78 37 0.53
79 33 0.47
ACGTcount: A:0.43, C:0.09, G:0.10, T:0.38
Consensus pattern (78 bp):
ATTTTAGGTAGCGTCCAATATTAACATTTTCAATAGAAAAATAATATTTTAAATAACGTTTTATC
AAAAATATTAAAC
Found at i:1967219 original size:19 final size:19
Alignment explanation
Indices: 1967175--1967211 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
1967165 ATGGGGTTTT
1967175 ATTTTAATAATAAAATATA
1 ATTTTAATAATAAAATATA
*
1967194 ATTTTAATAATAATATAT
1 ATTTTAATAATAAAATAT
1967212 GTTATTAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
ATTTTAATAATAAAATATA
Found at i:1967906 original size:174 final size:178
Alignment explanation
Indices: 1967534--1967990 Score: 537
Period size: 171 Copynumber: 2.6 Consensus size: 178
1967524 GATCCAAATT
* * * * * * **
1967534 AAAATGTATCGATCCACAACGATAT-ACAGGTAAAACTATAACAAAACTAATAT-TGAATGATAA
1 AAAATGTATCGATCAACAACGATATAACA-GTAAAAATATGATAAAACCAGTATCAAAATGATAA
* *
1967597 AACC-GTAAAGCGTACCGGATATATTTAAAGTGTC-AGTACTTTAATATAAGGATCGACACTTCG
65 AACCGGTAAAACGTACCGGATATATTAAAAGTGTCGA-TACTTTAATATAAGGATCGACACTTCG
* * *
1967660 TTAATTTAAAAGAGAAATAGTTTTAGCGCCTATAAGTGTTCGATTCTTTAA
129 TGAATTTAAAAGAG-AATAGTTTTAGCGCCTATAAGTGTTCGATACTTAAA
* * * *
1967711 AAAATATATTGATCAACAACGATATAACATGTAAAAATATGATAAAACCGGTATCAAAATGATGA
1 AAAATGTATCGATCAACAACGATATAACA-GTAAAAATATGATAAAACCAGTATCAAAATGATAA
* *
1967776 AACCGGTAAAACGCTACCGGATATATTGAAAGTGTCGATACTTT-ATATAAGGAT-GACACTTTG
65 AACCGGTAAAACG-TACCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTTCG
1967839 TGAATTT-AAA-AG-A-AGTTTTAGCGCCTATAAAGTG-TCGATACTTAAA
129 TGAATTTAAAAGAGAATAGTTTTAGCGCCTAT-AAGTGTTCGATACTTAAA
* *
1967885 AAAATGTATCGATCTACAACG--ATAACAG-ATAAAATATGATAAAAGCAGTATCAAAATGATAA
1 AAAATGTATCGATCAACAACGATATAACAGTA-AAAATATGATAAAACCAGTATCAAAATGATAA
* *
1967947 AAACGGTAAAATGATACCGGATATATTAAAAGTGTCGATACTTT
65 AACCGGTAAAACG-TACCGGATATATTAAAAGTGTCGATACTTT
1967991 CGTAAGTAGG
Statistics
Matches: 244, Mismatches: 29, Indels: 20
0.83 0.10 0.07
Matches are distributed among these distances:
170 1 0.00
171 70 0.29
172 6 0.02
174 43 0.18
175 6 0.02
177 24 0.10
178 24 0.10
179 25 0.10
180 17 0.07
181 27 0.11
182 1 0.00
ACGTcount: A:0.43, C:0.13, G:0.16, T:0.28
Consensus pattern (178 bp):
AAAATGTATCGATCAACAACGATATAACAGTAAAAATATGATAAAACCAGTATCAAAATGATAAA
ACCGGTAAAACGTACCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTTCGTG
AATTTAAAAGAGAATAGTTTTAGCGCCTATAAGTGTTCGATACTTAAA
Found at i:1970032 original size:14 final size:14
Alignment explanation
Indices: 1970015--1970045 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
1970005 ATGGTGTATT
*
1970015 GGGGATGACGGTGA
1 GGGGACGACGGTGA
1970029 GGGGACGACGGTGA
1 GGGGACGACGGTGA
1970043 GGG
1 GGG
1970046 AAAACAAGTA
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:0.19, C:0.10, G:0.61, T:0.10
Consensus pattern (14 bp):
GGGGACGACGGTGA
Found at i:1970160 original size:21 final size:21
Alignment explanation
Indices: 1970122--1970185 Score: 85
Period size: 21 Copynumber: 3.1 Consensus size: 21
1970112 AAAGACAATC
*
1970122 AGAGTCGAAGAG-AACTTGAT
1 AGAGTCGAAGAGAAACTTGAG
*
1970142 AGAGTCAAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
1970163 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
1970184 AG
1 AG
1970186 CATAAGGGGG
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
20 11 0.29
21 27 0.71
ACGTcount: A:0.42, C:0.11, G:0.30, T:0.17
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:1971465 original size:4 final size:4
Alignment explanation
Indices: 1971456--1971480 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
1971446 TAAGAGATTG
1971456 GTAT GTAT GTAT GTAT GTAT GTAT G
1 GTAT GTAT GTAT GTAT GTAT GTAT G
1971481 AAAAGACATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.28, T:0.48
Consensus pattern (4 bp):
GTAT
Found at i:1972054 original size:17 final size:18
Alignment explanation
Indices: 1972032--1972076 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
1972022 AATGTAGGGT
1972032 TAATTTGTATA-GATTTA
1 TAATTTGTATACGATTTA
1972049 TAATTTGTATACGATTTA
1 TAATTTGTATACGATTTA
1972067 TAATTTGTAT
1 TAATTTGTAT
1972077 GTGAATGTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 11 0.41
18 16 0.59
ACGTcount: A:0.33, C:0.02, G:0.11, T:0.53
Consensus pattern (18 bp):
TAATTTGTATACGATTTA
Found at i:1972663 original size:195 final size:194
Alignment explanation
Indices: 1972297--1972668 Score: 624
Period size: 195 Copynumber: 1.9 Consensus size: 194
1972287 AATTTACAAT
*
1972297 ATGGCAAACAAGGTGCAACCATAAAGTGTCGATCCATATAAAAGGTATCGATCCCAGAAACATCG
1 ATGGAAAACAAGGTGCAACCATAAAGTGTCGATCCATATAAAAGGTATCGATCCCAGAAACATCG
*
1972362 AAACCATAAGTATAATGTAATAGGTAATTTTCAATCTAACCGGTATAAGTATACCGGATTTATGA
66 AAACCATAAGTATAATGTAATAGGTAATTTTCAATCTAACCGGTATAAGTATACCAGATTTATGA
*
1972427 GAGAATAGATAATATATGTATTGACACTTTTTAATTTTGTGTCGATACTATTGGTCCAGAATGA
131 GAGAATAGATAATATATGTATTGACACATTTTAATTTTGTGTCGATACTATTGGTCCAGAATGA
* *
1972491 ATGGAAAACAGGGTGCAACCATAAAGT-TCGATCCATATAAAAGGTGTCGATCCCAGAAACATCG
1 ATGGAAAACAAGGTGCAACCATAAAGTGTCGATCCATATAAAAGGTATCGATCCCAGAAACATCG
1972555 AAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACCAGATTTAT
66 AAA-CCATAAGTATAATGTAATAGGTAA-TTTTCAATCTAACCGGTATAAGTATACCAGATTTAT
* *
1972620 GAGAGAATAGGTGTAATA-CTGTATTGACACATTTTAA-TTTGTGTCGATA
129 GAGAGAATA-G-ATAATATATGTATTGACACATTTTAATTTTGTGTCGATA
1972669 TAATTAAATA
Statistics
Matches: 167, Mismatches: 7, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
193 39 0.23
194 49 0.29
195 56 0.34
196 18 0.11
197 5 0.03
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.30
Consensus pattern (194 bp):
ATGGAAAACAAGGTGCAACCATAAAGTGTCGATCCATATAAAAGGTATCGATCCCAGAAACATCG
AAACCATAAGTATAATGTAATAGGTAATTTTCAATCTAACCGGTATAAGTATACCAGATTTATGA
GAGAATAGATAATATATGTATTGACACATTTTAATTTTGTGTCGATACTATTGGTCCAGAATGA
Found at i:1975002 original size:21 final size:20
Alignment explanation
Indices: 1974968--1975027 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 20
1974958 ATTGCACTGA
*
1974968 AGTGCACATAGAATTGCCGG
1 AGTGCACGTAGAATTGCCGG
*
1974988 AGTGCCACGTAGAATTGAATCGG
1 AGTG-CACGTAGAATTG--CCGG
*
1975011 AGTGCGCGTAGAATTGC
1 AGTGCACGTAGAATTGC
1975028 ACCGTAGTGC
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
20 4 0.12
21 11 0.33
22 11 0.33
23 7 0.21
ACGTcount: A:0.28, C:0.18, G:0.32, T:0.22
Consensus pattern (20 bp):
AGTGCACGTAGAATTGCCGG
Found at i:1975036 original size:22 final size:22
Alignment explanation
Indices: 1974952--1975038 Score: 79
Period size: 22 Copynumber: 4.0 Consensus size: 22
1974942 TCACCACAGT
* * *
1974952 CGTATAATTGCACTGAAGTGCA
1 CGTAGAATTGCACCGGAGTGCA
*
1974974 CATAGAATTG--CCGGAGTGCCA
1 CGTAGAATTGCACCGGAGTG-CA
* * *
1974995 CGTAGAATTGAATCGGAGTGCG
1 CGTAGAATTGCACCGGAGTGCA
*
1975017 CGTAGAATTGCACCGTAGTGCA
1 CGTAGAATTGCACCGGAGTGCA
1975039 TATAATAATG
Statistics
Matches: 51, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
20 6 0.12
21 11 0.22
22 27 0.53
23 7 0.14
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (22 bp):
CGTAGAATTGCACCGGAGTGCA
Found at i:1975224 original size:97 final size:99
Alignment explanation
Indices: 1975057--1975257 Score: 336
Period size: 97 Copynumber: 2.0 Consensus size: 99
1975047 TGTCCATAAA
*
1975057 GACCACATATCATTCCTTAAGAATCATAACATATGCCAATGATCAAGTATGTGTCTCACCAAACT
1 GACCACATATCATTCCTTAAGAATCATAACA-ATGCCAAGGATCAAGTATGTGTCTCACCAAACT
1975122 TCACACATGTTCC-AAGAATAC-ATATGTCCGAAG
65 TCACACATGTTCCAAAGAATACAATATGTCCGAAG
*
1975155 GACCACATATCATTCCTTAAGAATCATATAC-ATGCCAAGGATCAAGTATGTGTCTCACCAGACT
1 GACCACATATCATTCCTTAAGAATCATA-ACAATGCCAAGGATCAAGTATGTGTCTCACCAAACT
1975219 TCACACATGTTCCAAAGAATACATATATGTCCGAAG
65 TCACACATGTTCCAAAGAATACA-ATATGTCCGAAG
1975255 GAC
1 GAC
1975258 GCGTAGACCC
Statistics
Matches: 97, Mismatches: 2, Indels: 6
0.92 0.02 0.06
Matches are distributed among these distances:
97 44 0.45
98 36 0.37
99 2 0.02
100 15 0.15
ACGTcount: A:0.36, C:0.24, G:0.13, T:0.26
Consensus pattern (99 bp):
GACCACATATCATTCCTTAAGAATCATAACAATGCCAAGGATCAAGTATGTGTCTCACCAAACTT
CACACATGTTCCAAAGAATACAATATGTCCGAAG
Found at i:1976593 original size:20 final size:20
Alignment explanation
Indices: 1976564--1976617 Score: 69
Period size: 18 Copynumber: 2.8 Consensus size: 20
1976554 TTCGCTTGAG
*
1976564 GGGTATCGATTCCCCATGAAT
1 GGGTACCGATTCCCC-TGAAT
1976585 -GGTACCGATT--CCTGAAT
1 GGGTACCGATTCCCCTGAAT
1976602 GGGTACCGATTCCCCT
1 GGGTACCGATTCCCCT
1976618 TGCCCAGAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
17 5 0.17
18 12 0.41
20 12 0.41
ACGTcount: A:0.20, C:0.28, G:0.24, T:0.28
Consensus pattern (20 bp):
GGGTACCGATTCCCCTGAAT
Found at i:1978801 original size:18 final size:17
Alignment explanation
Indices: 1978773--1978819 Score: 67
Period size: 18 Copynumber: 2.7 Consensus size: 17
1978763 AATATATTAA
*
1978773 AAACAATAAAATAAATG
1 AAACAATAAAATAAACG
1978790 AAACATATAAAATAAACG
1 AAACA-ATAAAATAAACG
*
1978808 AAAAAATAAAAT
1 AAACAATAAAAT
1978820 TAAAATCTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
17 12 0.44
18 15 0.56
ACGTcount: A:0.72, C:0.06, G:0.04, T:0.17
Consensus pattern (17 bp):
AAACAATAAAATAAACG
Found at i:1980139 original size:3 final size:3
Alignment explanation
Indices: 1980115--1980215 Score: 122
Period size: 3 Copynumber: 35.0 Consensus size: 3
1980105 TGTTATTAAA
* *
1980115 AAT AAT -AT ATAT AAT -AT TAT AAT AAT AAA AAT AAT AAT AAT AAT
1 AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
1980159 AAT ACT AAT AAT AAT AAT AAT AAT -AT AAT AAT AAT -AT AAT AAT -TT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1980204 AAT AAT AAT AAT
1 AAT AAT AAT AAT
1980216 TTAAATGAAA
Statistics
Matches: 85, Mismatches: 7, Indels: 12
0.82 0.07 0.12
Matches are distributed among these distances:
2 9 0.11
3 73 0.86
4 3 0.04
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (3 bp):
AAT
Found at i:1980606 original size:145 final size:150
Alignment explanation
Indices: 1980343--1981193 Score: 1368
Period size: 145 Copynumber: 5.8 Consensus size: 150
1980333 GAAATGTTGA
* *
1980343 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGC-TTAAGAA-ATC-AAAAGCTCTCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTAAAAACATCAAAAAGCTCCCGA
1980405 AGGC-TTTTGGAAACATCATGCACTGAAGGACTTACAGATGA-CCGAAGGCTTT-AAAACATC-A
66 AGGCTTTTTGGAAACATCATG-ACTGAAGGACTTACAGATGACCCGAAGGCTTTAAAAACATCAA
1980466 AAGCTCTCGAAGGCTTTTTGG
130 AAGCTCTCGAAGGCTTTTTGG
1980487 -AACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTAAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTAAAAACATCAAAAAGCTCCCGA
1980551 AGGCTTTTTGGAAACATCATG-CTGAAGGACTTACAGATGA-CCGAAGGC-TTAAAAACATCAAA
66 AGGCTTTTTGGAAACATCATGACTGAAGGACTTACAGATGACCCGAAGGCTTTAAAAACATCAAA
*
1980613 AGCTCCCGAAGGC-TTTTGG
131 AGCTCTCGAAGGCTTTTTGG
1980632 AAAC-TCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTT-AAAACATC-AAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTAAAAACATCAAAAAGCTCCCGA
*
1980694 AGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAA
66 AGGCTTTTTGGAAACATCATG-ACTGAAGGACTTACAGATGACCCGAAGGCTTTAAAAACATCAA
1980759 AAGCTCTCGAAGGCTTTTTGG
130 AAGCTCTCGAAGGCTTTTTGG
* *
1980780 AAACATCATGCACTGAAGGACTTACAGATGACCCG-AGGC-TTGAAAACATCAAAAAGCTCTCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTAAAAACATCAAAAAGCTCCCGA
1980843 AGGCTTTTTGG-AACATCATG-CTGAAGGACTTACAGATGA-CCGAAGGCTTTAAAAACATCAAA
66 AGGCTTTTTGGAAACATCATGACTGAAGGACTTACAGATGACCCGAAGGCTTTAAAAACATCAAA
1980905 AGCTCTCGAAGGCTTTTTGG
131 AGCTCTCGAAGGCTTTTTGG
* * *
1980925 AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTAAGAACATCAAAAAGATCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTAAAAACATCAAAAAGCTCCCGA
* *
1980990 AGG-TTTTTGG-AACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTAAGAACATCAA
66 AGGCTTTTTGGAAACATCATG-ACTGAAGGACTTACAGATGACCCGAAGGCTTTAAAAACATC-A
*
1981053 AAAGCTCCCGAAGGCTTTTTGG
129 AAAGCTCTCGAAGGCTTTTTGG
* * *
1981075 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGATCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTAAAAACATCAAAAAGCTCCCGA
1981140 AGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTT
66 AGGCTTTTTGGAAACATCATG-ACTGAAGGACTTACAGATGACCCGAAGGCTTT
1981194 TTGGAAACTC
Statistics
Matches: 664, Mismatches: 20, Indels: 38
0.92 0.03 0.05
Matches are distributed among these distances:
143 72 0.11
144 16 0.02
145 177 0.27
146 79 0.12
147 66 0.10
148 49 0.07
149 71 0.11
150 86 0.13
151 7 0.01
152 41 0.06
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (150 bp):
AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTAAAAACATCAAAAAGCTCCCGA
AGGCTTTTTGGAAACATCATGACTGAAGGACTTACAGATGACCCGAAGGCTTTAAAAACATCAAA
AGCTCTCGAAGGCTTTTTGG
Found at i:1980744 original size:74 final size:74
Alignment explanation
Indices: 1980343--1981193 Score: 1360
Period size: 74 Copynumber: 11.6 Consensus size: 74
1980333 GAAATGTTGA
*
1980343 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGC-TTAAGAA-ATCAAAAGCTCTCGAA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTAA-AACATCAAAAGCTCCCGAA
1980406 GGC-TTTTGG
65 GGCTTTTTGG
*
1980415 AAACATCATGCACTGAAGGACTTACAGATGA-CCGAAGGCTTTAAAACATC-AAAGCTCTCGAAG
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTAAAACATCAAAAGCTCCCGAAG
1980478 GCTTTTTGG
66 GCTTTTTGG
1980487 -AACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTAAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTT-AAAACATC-AAAAGCTCCCGA
1980551 AGGCTTTTTGG
64 AGGCTTTTTGG
*
1980562 AAACATCATG--CTGAAGGACTTACAGATGA-CCGAAGGCTTAAAAACATCAAAAGCTCCCGAAG
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTAAAACATCAAAAGCTCCCGAAG
1980624 GC-TTTTGG
66 GCTTTTTGG
1980632 AAAC-TCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTAAAACATCAAAAGCTCCCGAAG
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTAAAACATCAAAAGCTCCCGAAG
1980696 GCTTTTTGG
66 GCTTTTTGG
*
1980705 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAGCTCTCGAA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTT-AAAACATCAAAAGCTCCCGAA
1980770 GGCTTTTTGG
65 GGCTTTTTGG
* *
1980780 AAACATCATGCACTGAAGGACTTACAGATGACCCG-AGGCTTGAAAACATCAAAAAGCTCTCGAA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTAAAACATC-AAAAGCTCCCGAA
1980844 GGCTTTTTGG
65 GGCTTTTTGG
*
1980854 -AACATCATG--CTGAAGGACTTACAGATGA-CCGAAGGCTTTAAAAACATCAAAAGCTCTCGAA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTT-AAAACATCAAAAGCTCCCGAA
1980915 GGCTTTTTGG
65 GGCTTTTTGG
* *
1980925 AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTAAGAACATCAAAAAGATCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTAA-AACATC-AAAAGCTCCCGA
1980990 AGG-TTTTTGG
64 AGGCTTTTTGG
*
1981000 -AACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTAAGAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTAA-AACATC-AAAAGCTCCCGA
1981064 AGGCTTTTTGG
64 AGGCTTTTTGG
* *
1981075 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGATCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTT-AAAACATC-AAAAGCTCCCGA
1981140 AGGCTTTTTGG
64 AGGCTTTTTGG
1981151 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTT
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTT
1981194 TTGGAAACTC
Statistics
Matches: 739, Mismatches: 14, Indels: 48
0.92 0.02 0.06
Matches are distributed among these distances:
69 5 0.01
70 13 0.02
71 138 0.19
72 114 0.15
73 45 0.06
74 172 0.23
75 117 0.16
76 133 0.18
77 2 0.00
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (74 bp):
AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTAAAACATCAAAAGCTCCCGAAG
GCTTTTTGG
Found at i:1980908 original size:220 final size:221
Alignment explanation
Indices: 1980343--1981193 Score: 1356
Period size: 220 Copynumber: 3.9 Consensus size: 221
1980333 GAAATGTTGA
*
1980343 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTAAGAA-ATCAAAAGCTCTCGAAG
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTAAGAACATCAAAAGCTCCCGAAG
1980407 GCTTTTGGAAACATCATGCACTGAAGGACTTACAGATGA-CCGAAGGCTTTAAAACATC-AAAGC
66 GCTTTTGGAAACATCATG-ACTGAAGGACTTACAGATGACCCGAAGGCTTTAAAACATCAAAAGC
*
1980470 TCTCGAAGGCTTTTTGG-AACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTAAAAA
130 TCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTT-AAAA
1980534 CATCAAAAAGCTCCCGAAGGCTTTTTGG
194 CATCAAAAAGCTCCCGAAGGCTTTTTGG
*
1980562 AAACATCATG--CTGAAGGACTTACAGATGA-CCGAAGGCTTAAAAACATCAAAAGCTCCCGAAG
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTAAGAACATCAAAAGCTCCCGAAG
1980624 GCTTTTGGAAAC-TCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTAAAACATCAAAAGC
66 GCTTTTGGAAACATCATG-ACTGAAGGACTTACAGATGACCCGAAGGCTTTAAAACATCAAAAGC
1980688 TCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAA
130 TCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTT-AAAA
*
1980753 CATC-AAAAGCTCTCGAAGGCTTTTTGG
194 CATCAAAAAGCTCCCGAAGGCTTTTTGG
*
1980780 AAACATCATGCACTGAAGGACTTACAGATGACCCG-AGGCTTGAA-AACATCAAAAAGCTCTCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTT-AAGAACATC-AAAAGCTCCCGA
1980843 AGGCTTTTTGG-AACATCATG-CTGAAGGACTTACAGATGA-CCGAAGGCTTTAAAAACATCAAA
64 AGGC-TTTTGGAAACATCATGACTGAAGGACTTACAGATGACCCGAAGGCTTT-AAAACATCAAA
* *
1980905 AGCTCTCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTAA
127 AGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTAA
*
1980970 GAACATCAAAAAGATCCCGAAGG-TTTTTGG
192 -AACATCAAAAAGCTCCCGAAGGCTTTTTGG
*
1981000 -AACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTAAGAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGC-TTAAGAACATC-AAAAGCTCCCGA
*
1981064 AGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAA
64 AGGC-TTTTGGAAACATCATG-ACTGAAGGACTTACAGATGACCCGAAGGCTTT-AAAACATC-A
*
1981129 AAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTT
125 AAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTT
1981194 TTGGAAACTC
Statistics
Matches: 593, Mismatches: 17, Indels: 37
0.92 0.03 0.06
Matches are distributed among these distances:
216 40 0.07
217 66 0.11
218 53 0.09
219 106 0.18
220 141 0.24
221 67 0.11
222 20 0.03
224 19 0.03
225 18 0.03
226 63 0.11
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (221 bp):
AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTAAGAACATCAAAAGCTCCCGAAG
GCTTTTGGAAACATCATGACTGAAGGACTTACAGATGACCCGAAGGCTTTAAAACATCAAAAGCT
CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTAAAACA
TCAAAAAGCTCCCGAAGGCTTTTTGG
Found at i:1981221 original size:46 final size:47
Alignment explanation
Indices: 1981135--1981239 Score: 194
Period size: 46 Copynumber: 2.3 Consensus size: 47
1981125 TCAAAAAGAT
1981135 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGA
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGA
1981182 CCCGAAGGCTTTTTGGAAAC-TCATGCACTGAAGGACTTACAGATGA
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGA
*
1981228 CCCTAAGGCTTT
1 CCCGAAGGCTTT
1981240 GAAAACATCA
Statistics
Matches: 57, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
46 37 0.65
47 20 0.35
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.25
Consensus pattern (47 bp):
CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGA
Found at i:1981221 original size:122 final size:122
Alignment explanation
Indices: 1981059--1981314 Score: 487
Period size: 122 Copynumber: 2.1 Consensus size: 122
1981049 TCAAAAAGCT
1981059 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
1981124 ATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGA
66 ATCAAAAAGATCCCGAAGGC-TTTTGGAAACATCATGCACTGAAGGACTTACAGATGA
1981182 CCCGAAGGCTTTTTGGAAAC-TCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
1981246 ATCAAAAAGATCCCGAAGGCTTTTGGAAACATCATGCACTGAAGGACTTACAGATGA
66 ATCAAAAAGATCCCGAAGGCTTTTGGAAACATCATGCACTGAAGGACTTACAGATGA
*
1981303 CCCTAAGGCTTT
1 CCCGAAGGCTTT
1981315 GAAAATATCA
Statistics
Matches: 132, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
121 48 0.36
122 64 0.48
123 20 0.15
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.23
Consensus pattern (122 bp):
CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
ATCAAAAAGATCCCGAAGGCTTTTGGAAACATCATGCACTGAAGGACTTACAGATGA
Found at i:1981305 original size:197 final size:197
Alignment explanation
Indices: 1980985--1981389 Score: 701
Period size: 197 Copynumber: 2.1 Consensus size: 197
1980975 TCAAAAAGAT
*
1980985 CCCGAAGG-TTTTTGGAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTAAGAACA
1 CCCGAAGGCTTTTTGGAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTAAGAACA
*
1981049 TCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGG
66 TCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGG
1981114 CTTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGA
131 CTTTGAAAACATCAAAAAGATCCCGAAGGC-TTTTGGAAACATCATGCACTGAAGGACTTACAGA
1981179 TGA
195 TGA
*
1981182 CCCGAAGGCTTTTTGGAA-ACTCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAA-AA
1 CCCGAAGGCTTTTTGGAACA-TCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTT-AAGAA
1981245 CATCAAAAAGATCCCGAAGGC-TTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAA
64 CATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAA
* * *
1981309 GGCTTTGAAAATATCAAAAAGCTCCCGAAGGCTTTTGGAAACATCATGCACTGAAGGGCTTACAG
129 GGCTTTGAAAACATCAAAAAGATCCCGAAGGCTTTTGGAAACATCATGCACTGAAGGACTTACAG
1981374 ATGA
194 ATGA
1981378 CCCGAAGGCTTT
1 CCCGAAGGCTTT
1981390 AAGAACATCA
Statistics
Matches: 199, Mismatches: 6, Indels: 7
0.94 0.03 0.03
Matches are distributed among these distances:
196 48 0.24
197 82 0.41
198 67 0.34
199 2 0.01
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.22
Consensus pattern (197 bp):
CCCGAAGGCTTTTTGGAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTAAGAACA
TCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGG
CTTTGAAAACATCAAAAAGATCCCGAAGGCTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
GA
Found at i:1981445 original size:74 final size:75
Alignment explanation
Indices: 1981182--1981523 Score: 568
Period size: 75 Copynumber: 4.6 Consensus size: 75
1981172 TTACAGATGA
*
1981182 CCCGAAGGCTTTTTGGAAAC-TCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
1 CCCGAAGGC-TTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
*
1981246 ATCAAAAAGAT
65 ATCAAAAAGCT
* *
1981257 CCCGAAGGCTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAATA
1 CCCGAAGGCTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACA
1981322 TCAAAAAGCT
66 TCAAAAAGCT
*
1981332 CCCGAAGGCTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTT-AAGAAC
1 CCCGAAGGCTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAA-AAC
1981396 ATC-AAAAGCT
65 ATCAAAAAGCT
* *
1981406 CTCGAAGGCTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGATTTGAAAACA
1 CCCGAAGGCTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACA
1981471 TCAAAAAGCT
66 TCAAAAAGCT
1981481 CCCGAAGGCTTTTGG-AA-ATCATGCACTGAAGGACTTACAGATG
1 CCCGAAGGCTTTTGGAAACATCATGCACTGAAGGACTTACAGATG
1981524 TGAGAATAGT
Statistics
Matches: 254, Mismatches: 9, Indels: 10
0.93 0.03 0.04
Matches are distributed among these distances:
73 26 0.10
74 82 0.32
75 146 0.57
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.22
Consensus pattern (75 bp):
CCCGAAGGCTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACA
TCAAAAAGCT
Found at i:1981453 original size:149 final size:150
Alignment explanation
Indices: 1981182--1981523 Score: 568
Period size: 149 Copynumber: 2.3 Consensus size: 150
1981172 TTACAGATGA
*
1981182 CCCGAAGGCTTTTTGGAAAC-TCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
1 CCCGAAGGC-TTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
*
1981246 ATCAAAAAGATCCCGAAGGCTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGG
65 ATCAAAAAGATCCCGAAGGCTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGG
* *
1981311 CTTTGAAAATATCAAAAAGCT
130 ATTTGAAAACATCAAAAAGCT
*
1981332 CCCGAAGGCTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTT-AAGAAC
1 CCCGAAGGCTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAA-AAC
* *
1981396 ATC-AAAAGCTCTCGAAGGCTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGG
65 ATCAAAAAGATCCCGAAGGCTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGG
1981460 ATTTGAAAACATCAAAAAGCT
130 ATTTGAAAACATCAAAAAGCT
1981481 CCCGAAGGCTTTTGG-AA-ATCATGCACTGAAGGACTTACAGATG
1 CCCGAAGGCTTTTGGAAACATCATGCACTGAAGGACTTACAGATG
1981524 TGAGAATAGT
Statistics
Matches: 182, Mismatches: 8, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
147 25 0.14
148 2 0.01
149 104 0.57
150 51 0.28
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.22
Consensus pattern (150 bp):
CCCGAAGGCTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACA
TCAAAAAGATCCCGAAGGCTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGA
TTTGAAAACATCAAAAAGCT
Found at i:1982498 original size:114 final size:113
Alignment explanation
Indices: 1982321--1982545 Score: 324
Period size: 114 Copynumber: 2.0 Consensus size: 113
1982311 GATCATGCAG
* * * *
1982321 TTCATCTTTCAATTCCAATGATCAGTTCTGGGGTCTTACCGAATCAGATCAGATAACTCAAAGAA
1 TTCATCTTTCAAATCCAATGATCAGTTCTGGGGTCATACCAAACCAGATCAGATAACTCAAAGAA
* *
1982386 CACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTATTATGAGCAAA
66 CACTTCCAGAAGATGCTATTGAGTCTCCTTATTTCTACTATGAGCAAA
* ** * * *
1982434 TTCATCTTTTAAATCCAATGATTGGTTTTGGAGTTCATACCAAACCAGATCAGATAACTTAAAGA
1 TTCATCTTTCAAATCCAATGATCAGTTCTGG-GGTCATACCAAACCAGATCAGATAACTCAAAGA
*
1982499 ACACTTCCAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGAGCA
65 ACACTTCCAGAAGATGCTATTGAGTCTCCTTATTTCTACTATGAGCA
1982546 CGTGGCACTT
Statistics
Matches: 98, Mismatches: 13, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
113 26 0.27
114 72 0.73
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.34
Consensus pattern (113 bp):
TTCATCTTTCAAATCCAATGATCAGTTCTGGGGTCATACCAAACCAGATCAGATAACTCAAAGAA
CACTTCCAGAAGATGCTATTGAGTCTCCTTATTTCTACTATGAGCAAA
Found at i:1984671 original size:14 final size:13
Alignment explanation
Indices: 1984652--1984691 Score: 55
Period size: 14 Copynumber: 3.1 Consensus size: 13
1984642 TCTTGATTCA
1984652 TTTTCCTTTTCTTT
1 TTTTCCTTTT-TTT
*
1984666 TTTTCCTTTTTAT
1 TTTTCCTTTTTTT
1984679 TTTT-CTTTTTTT
1 TTTTCCTTTTTTT
1984691 T
1 T
1984692 CTTCTTTCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 8 0.33
13 6 0.25
14 10 0.42
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (13 bp):
TTTTCCTTTTTTT
Found at i:1984676 original size:21 final size:21
Alignment explanation
Indices: 1984652--1984699 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
1984642 TCTTGATTCA
1984652 TTTTCCTTTTCTTTTTTTCCT
1 TTTTCCTTTTCTTTTTTTCCT
** *
1984673 TTTTATTTTTCTTTTTTTTCT
1 TTTTCCTTTTCTTTTTTTCCT
1984694 TCTTTC
1 T-TTTC
1984700 TTTGCTGGAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
21 19 0.86
22 3 0.14
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (21 bp):
TTTTCCTTTTCTTTTTTTCCT
Found at i:1989409 original size:20 final size:21
Alignment explanation
Indices: 1989360--1989410 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 21
1989350 ATATAAAAAT
1989360 AATAAAT-AA-TAAAAATTGA
1 AATAAATGAATTAAAAATTGA
* *
1989379 AAGAAAAGAATTAAAAATT-A
1 AATAAATGAATTAAAAATTGA
1989399 AATAAATGAATT
1 AATAAATGAATT
1989411 TTTAATTTCT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 5 0.19
20 13 0.50
21 8 0.31
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.25
Consensus pattern (21 bp):
AATAAATGAATTAAAAATTGA
Found at i:1994531 original size:11 final size:11
Alignment explanation
Indices: 1994497--1994540 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
1994487 AAAAAAATAC
* *
1994497 TATTTATTATA
1 TATTTAATAAA
*
1994508 TATTTATAAAAA
1 TATTTA-ATAAA
1994520 TATTTAATAAA
1 TATTTAATAAA
1994531 TATTTAATAA
1 TATTTAATAA
1994541 TATAATAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 20 0.71
12 8 0.29
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (11 bp):
TATTTAATAAA
Found at i:1994608 original size:17 final size:17
Alignment explanation
Indices: 1994580--1994626 Score: 67
Period size: 17 Copynumber: 2.7 Consensus size: 17
1994570 AATATATTTA
*
1994580 AAAACAATAAAATAAATG
1 AAAAC-ATAAAATAAACG
1994598 AAAACATAAAATAAACG
1 AAAACATAAAATAAACG
*
1994615 AAAAAATAAAAT
1 AAAACATAAAAT
1994627 TAAAAATCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 22 0.81
18 5 0.19
ACGTcount: A:0.74, C:0.06, G:0.04, T:0.15
Consensus pattern (17 bp):
AAAACATAAAATAAACG
Found at i:1995957 original size:3 final size:3
Alignment explanation
Indices: 1995949--1996073 Score: 169
Period size: 3 Copynumber: 41.0 Consensus size: 3
1995939 GTAATATTTA
*
1995949 AAT AAT AAT AAT ATAT AAT ATT AAT AAT AAT AAT AAAT AAT AAT AAT
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT
* * * *
1995996 AAT AAT AAT TAT AAT AAT AAT AAT ACT AAC AAT AAT AAT AAT ACT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
**
1996044 AAT AAT AAT AAT AAT TTT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1996074 TTTAAATGAA
Statistics
Matches: 106, Mismatches: 14, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
3 100 0.94
4 6 0.06
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (3 bp):
AAT
Found at i:1996765 original size:184 final size:184
Alignment explanation
Indices: 1996372--1997084 Score: 1274
Period size: 184 Copynumber: 3.9 Consensus size: 184
1996362 ATATCAGCAT
*
1996372 AAAGTGTCGATACCTTTTCAAAAAGTGTCGATTGAAAAAACATTGGAACCCATAATTATAATGTA
1 AAAGTGTCGATACCTTTTCAAAAAGTGTCGATTGAAAAAACATCGGAACCCATAATTATAATGTA
* * *
1996437 ATAGGTAATTTTGTAATATAACCGGTATAGATATACCTGTTTTATGAGAGAATAGGTCTACAACC
66 ATAGGTAATTTTTTAATATAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACAACC
*
1996502 CA-ATCGACACTTTTTAATATTGTGTCGCTACTTTATGTCCAGAATGGATGAAA
131 TATATCGACACTTTTTAATATTGTGTCGCTACTTTATGTCCAGAATGGATGAAA
* * *
1996555 AAAGTGTCGATATCTTTTCAAAAAGTGTTGATTGAAAAATCATCGGAACCCATAATTATAATGTA
1 AAAGTGTCGATACCTTTTCAAAAAGTGTCGATTGAAAAAACATCGGAACCCATAATTATAATGTA
* * *
1996620 ATAGGTAATTTTTTAAAATAACTGGTATAAATATACCGGTTTTATGAGAGAATATGTCTACAACC
66 ATAGGTAATTTTTTAATATAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACAACC
1996685 TATATCGACACTTTTTAATATTGTGTCGCTACTTTATGTCCAGAATGGATGAAA
131 TATATCGACACTTTTTAATATTGTGTCGCTACTTTATGTCCAGAATGGATGAAA
*
1996739 AAGGTGTCGATACCTTTTCAAAAAGTGTCGATTGAAAAAACATCGGAACCCATAATTATAATGTA
1 AAAGTGTCGATACCTTTTCAAAAAGTGTCGATTGAAAAAACATCGGAACCCATAATTATAATGTA
1996804 ATAGGTAATTTTTTAATATAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACAACC
66 ATAGGTAATTTTTTAATATAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACAACC
1996869 TATATCGACAC-TTTTAATATTGTGTCGCTACTTTATGTCCAGAATGGATGAAA
131 TATATCGACACTTTTTAATATTGTGTCGCTACTTTATGTCCAGAATGGATGAAA
1996922 AAAGTGTCGATACCTTTTC-AAAAGTGTCGATTG-AAAAACATCGGAACCCATAATTATAATGTA
1 AAAGTGTCGATACCTTTTCAAAAAGTGTCGATTGAAAAAACATCGGAACCCATAATTATAATGTA
1996985 ATAGGTAATTTTTTAATATAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACAACC
66 ATAGGTAATTTTTTAATATAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACAACC
1997050 TATATCGACACTTTTTAATATTGTGTC-CATACTTT
131 TATATCGACACTTTTTAATATTGTGTCGC-TACTTT
1997085 TAAGTAACAC
Statistics
Matches: 508, Mismatches: 19, Indels: 7
0.95 0.04 0.01
Matches are distributed among these distances:
181 107 0.21
182 35 0.07
183 181 0.36
184 185 0.36
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (184 bp):
AAAGTGTCGATACCTTTTCAAAAAGTGTCGATTGAAAAAACATCGGAACCCATAATTATAATGTA
ATAGGTAATTTTTTAATATAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACAACC
TATATCGACACTTTTTAATATTGTGTCGCTACTTTATGTCCAGAATGGATGAAA
Found at i:2000344 original size:23 final size:23
Alignment explanation
Indices: 2000294--2000338 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
2000284 TACATATTTT
** *
2000294 ATTATATAAGCGTTGTCTATTAC
1 ATTATATAAGCGTTACCTAATAC
2000317 ATTATATAAGCGTTACCTAATA
1 ATTATATAAGCGTTACCTAATA
2000339 TGTTATTGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.40
Consensus pattern (23 bp):
ATTATATAAGCGTTACCTAATAC
Found at i:2016009 original size:3 final size:3
Alignment explanation
Indices: 2016003--2016045 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
2015993 CATTTTTTTT
2016003 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
2016046 ATTCATTTAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:2020417 original size:35 final size:34
Alignment explanation
Indices: 2020332--2020418 Score: 97
Period size: 35 Copynumber: 2.5 Consensus size: 34
2020322 AAAATAATTT
*
2020332 TAAATACAACAAACTTACAATAAGTATTAAATGG
1 TAAATACAACAAAATTACAATAAGTATTAAATGG
* *
2020366 TAAATGATAACCAAATTACAATAACTGATATTAAATGG
1 TAAAT-ACAACAAAATTACAATAA--G-TATTAAATGG
2020404 T-AATA-AACAAAATTA
1 TAAATACAACAAAATTA
2020419 ACTGAAATAC
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
34 5 0.11
35 24 0.53
36 1 0.02
37 4 0.09
38 11 0.24
ACGTcount: A:0.54, C:0.10, G:0.08, T:0.28
Consensus pattern (34 bp):
TAAATACAACAAAATTACAATAAGTATTAAATGG
Found at i:2022799 original size:17 final size:18
Alignment explanation
Indices: 2022758--2022796 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
2022748 ATTATATAAG
2022758 TAAAATA-TTAAATAAAT
1 TAAAATACTTAAATAAAT
2022775 TAAAATACTTAAATAAAT
1 TAAAATACTTAAATAAAT
2022793 TAAA
1 TAAA
2022797 TACAAAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (18 bp):
TAAAATACTTAAATAAAT
Found at i:2039349 original size:3 final size:3
Alignment explanation
Indices: 2039341--2039378 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
2039331 ATCCTTTGAC
2039341 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
2039379 AAGAGGGCTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:2040736 original size:25 final size:26
Alignment explanation
Indices: 2040688--2040737 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
2040678 ATTTCCGCCT
* *
2040688 CTAAAATTCTATAACTTTGCTCCCTC
1 CTAAAATTCTAGAAATTTGCTCCCTC
*
2040714 CTAAAATTTTAGAAATTTG-TCCCT
1 CTAAAATTCTAGAAATTTGCTCCCT
2040738 AACACAAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 5 0.24
26 16 0.76
ACGTcount: A:0.30, C:0.24, G:0.06, T:0.40
Consensus pattern (26 bp):
CTAAAATTCTAGAAATTTGCTCCCTC
Found at i:2047973 original size:81 final size:80
Alignment explanation
Indices: 2047877--2048093 Score: 249
Period size: 81 Copynumber: 2.7 Consensus size: 80
2047867 GATTTTCCAG
* * * * * *
2047877 AATCGCAACGGGAATATGAAAATCGCAACGCG-AACATATAAATCGCAACGCGATTCCG-ATTAT
1 AATCGCAACGAGAATACGAAAATCGCAACGCGTATC-TGTAAATCGCAACGCGATTACGTA-AAT
2047940 CACAACGAGTATCCGTAA
64 CACAACGAGTATCCGT-A
* * * *
2047958 AATCGCAACGAGAATACGTAAATCGCAACGCGTATCTGTAAATCGCAACGAGAATACGTAAATCG
1 AATCGCAACGAGAATACGAAAATCGCAACGCGTATCTGTAAATCGCAACGCGATTACGTAAATCA
* *
2048023 CAATGCGTATCCGTA
66 CAACGAGTATCCGTA
* * *
2048038 AATCGCAACGACAATACGTAAAATCGTAACGCGTATCCGTAAATCGCAACGCGATT
1 AATCGCAACGAGAATACG-AAAATCGCAACGCGTATCTGTAAATCGCAACGCGATT
2048094 TTTAAAGCGC
Statistics
Matches: 115, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
80 18 0.16
81 94 0.82
82 3 0.03
ACGTcount: A:0.38, C:0.24, G:0.19, T:0.19
Consensus pattern (80 bp):
AATCGCAACGAGAATACGAAAATCGCAACGCGTATCTGTAAATCGCAACGCGATTACGTAAATCA
CAACGAGTATCCGTA
Found at i:2047982 original size:20 final size:20
Alignment explanation
Indices: 2047877--2048091 Score: 166
Period size: 20 Copynumber: 10.7 Consensus size: 20
2047867 GATTTTCCAG
* * *
2047877 AATCGCAACGGGAATATGAA
1 AATCGCAACGCGAATACGTA
* **
2047897 AATCGCAACGCGAACATATA
1 AATCGCAACGCGAATACGTA
* *
2047917 AATCGCAACGCGATTCCG-A
1 AATCGCAACGCGAATACGTA
* * * * *
2047936 TTATCACAACGAGTATCCGTAA
1 -AATCGCAACGCGAATACGT-A
*
2047958 AATCGCAACGAGAATACGTA
1 AATCGCAACGCGAATACGTA
*
2047978 AATCGCAACGCGTAT-CTGTA
1 AATCGCAACGCGAATAC-GTA
*
2047998 AATCGCAACGAGAATACGTA
1 AATCGCAACGCGAATACGTA
* * *
2048018 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGAATACGTA
2048038 AATCGCAACGAC-AATACGTAA
1 AATCGCAACG-CGAATACGT-A
* * *
2048059 AATCGTAACGCGTATCCGTA
1 AATCGCAACGCGAATACGTA
2048079 AATCGCAACGCGA
1 AATCGCAACGCGA
2048092 TTTTTAAAGC
Statistics
Matches: 153, Mismatches: 34, Indels: 16
0.75 0.17 0.08
Matches are distributed among these distances:
19 2 0.01
20 118 0.77
21 32 0.21
22 1 0.01
ACGTcount: A:0.39, C:0.24, G:0.19, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGAATACGTA
Found at i:2048011 original size:40 final size:40
Alignment explanation
Indices: 2047942--2048088 Score: 231
Period size: 40 Copynumber: 3.6 Consensus size: 40
2047932 CCGATTATCA
*
2047942 CAACGAGTATCCGTAAAATCGCAACGAGAATACGTAAATCG
1 CAACGCGTATCCGT-AAATCGCAACGAGAATACGTAAATCG
*
2047983 CAACGCGTATCTGTAAATCGCAACGAGAATACGTAAATCG
1 CAACGCGTATCCGTAAATCGCAACGAGAATACGTAAATCG
* *
2048023 CAATGCGTATCCGTAAATCGCAACGACAATACGTAAAATCG
1 CAACGCGTATCCGTAAATCGCAACGAGAATACGT-AAATCG
*
2048064 TAACGCGTATCCGTAAATCGCAACG
1 CAACGCGTATCCGTAAATCGCAACG
2048089 CGATTTTTAA
Statistics
Matches: 98, Mismatches: 7, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
40 57 0.58
41 41 0.42
ACGTcount: A:0.38, C:0.24, G:0.19, T:0.19
Consensus pattern (40 bp):
CAACGCGTATCCGTAAATCGCAACGAGAATACGTAAATCG
Found at i:2048020 original size:101 final size:101
Alignment explanation
Indices: 2047877--2048091 Score: 236
Period size: 101 Copynumber: 2.1 Consensus size: 101
2047867 GATTTTCCAG
* * * *
2047877 AATCGCAACGGGAATATGAAAATCGCAACGCGAACATATAAATCGCAACGCG-ATTCCG-ATTAT
1 AATCGCAACGCGAATATGAAAATCGCAACGAGAACACATAAATCGCAACGCGTA-TCCGTA-AAT
** *
2047940 CACAACGAGTATCCGTAAAATCGCAACGAGAATACGTA
64 CACAACGACAATACGTAAAATCGCAACGAGAATACGTA
* * * * * * *
2047978 AATCGCAACGCGTATCTGTAAATCGCAACGAGAATACGTAAATCGCAATGCGTATCCGTAAATCG
1 AATCGCAACGCGAATATGAAAATCGCAACGAGAACACATAAATCGCAACGCGTATCCGTAAATCA
* * * *
2048043 CAACGACAATACGTAAAATCGTAACGCGTATCCGTA
66 CAACGACAATACGTAAAATCGCAACGAGAATACGTA
2048079 AATCGCAACGCGA
1 AATCGCAACGCGA
2048092 TTTTTAAAGC
Statistics
Matches: 93, Mismatches: 19, Indels: 4
0.80 0.16 0.03
Matches are distributed among these distances:
101 91 0.98
102 2 0.02
ACGTcount: A:0.39, C:0.24, G:0.19, T:0.19
Consensus pattern (101 bp):
AATCGCAACGCGAATATGAAAATCGCAACGAGAACACATAAATCGCAACGCGTATCCGTAAATCA
CAACGACAATACGTAAAATCGCAACGAGAATACGTA
Found at i:2048711 original size:21 final size:21
Alignment explanation
Indices: 2048650--2048728 Score: 94
Period size: 20 Copynumber: 3.9 Consensus size: 21
2048640 CTAAACTTAA
2048650 AAAATCGCAAC-ATGA-AAATG
1 AAAATCGCAACGA-GAGAAATG
2048670 AAAATCGCAAC-ACGA-AAATG
1 AAAATCGCAACGA-GAGAAATG
**
2048690 ACTATCGCAACGAGAGAAATG
1 AAAATCGCAACGAGAGAAATG
2048711 AAAATCGCAACGAGAGAA
1 AAAATCGCAACGAGAGAA
2048729 TCGCAACGCG
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
20 30 0.58
21 22 0.42
ACGTcount: A:0.52, C:0.18, G:0.19, T:0.11
Consensus pattern (21 bp):
AAAATCGCAACGAGAGAAATG
Found at i:2048777 original size:19 final size:19
Alignment explanation
Indices: 2048727--2048771 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
2048717 GCAACGAGAG
*
2048727 AATCGCAACGCGAAACGAA
1 AATCGCAACGCGAAACCAA
2048746 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAACCAA
2048765 AATCGCA
1 AATCGCA
2048772 TTGCGATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.47, C:0.29, G:0.18, T:0.07
Consensus pattern (19 bp):
AATCGCAACGCGAAACCAA
Found at i:2048842 original size:20 final size:19
Alignment explanation
Indices: 2048772--2048845 Score: 103
Period size: 19 Copynumber: 3.8 Consensus size: 19
2048762 CAAAATCGCA
*
2048772 TTGCGATTTTTATTTCTCG
1 TTGCGATTTTCATTTCTCG
*
2048791 TTGCGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCTCG
**
2048810 TTGCGATAGTCATTCTCTCG
1 TTGCGATTTTCATT-TCTCG
2048830 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
2048846 AACCAAAAGA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
19 31 0.66
20 16 0.34
ACGTcount: A:0.12, C:0.20, G:0.18, T:0.50
Consensus pattern (19 bp):
TTGCGATTTTCATTTCTCG
Found at i:2050703 original size:94 final size:94
Alignment explanation
Indices: 2050542--2050864 Score: 585
Period size: 94 Copynumber: 3.4 Consensus size: 94
2050532 TAGATTGCTT
* *
2050542 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAACTGTTTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
2050607 ATTTGTCTTTTGTTTTGTCTTTTGGTTG-A
66 ATTTGTC-TTTGTTTTGTCTTTTGGTTGAA
2050636 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
2050701 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
* *
2050730 AGTAAATTTGTTTGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
2050795 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
2050824 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGT
2050865 TGTCATTGAA
Statistics
Matches: 223, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
93 20 0.09
94 203 0.91
ACGTcount: A:0.21, C:0.13, G:0.20, T:0.46
Consensus pattern (94 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:2051305 original size:21 final size:21
Alignment explanation
Indices: 2051214--2051318 Score: 86
Period size: 21 Copynumber: 5.0 Consensus size: 21
2051204 GACTCACCTG
*
2051214 TCATCGTTCAAGAGGCCTCCCC
1 TCATCGTTCAAGAGGCC-CCTC
* *
2051236 T-ATCATTCAAGAGGCCCCTA
1 TCATCGTTCAAGAGGCCCCTC
* ** *
2051256 TAATCCCTCAAGAGTCCCCTC
1 TCATCGTTCAAGAGGCCCCTC
* * *
2051277 TCACCGTTCAAGAGGCCACTG
1 TCATCGTTCAAGAGGCCCCTC
* *
2051298 TCATCGTTGAAGAGGTCCCTC
1 TCATCGTTCAAGAGGCCCCTC
2051319 CCAACATTCT
Statistics
Matches: 63, Mismatches: 19, Indels: 3
0.74 0.22 0.04
Matches are distributed among these distances:
20 3 0.05
21 59 0.94
22 1 0.02
ACGTcount: A:0.23, C:0.35, G:0.18, T:0.24
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCCCTC
Found at i:2052692 original size:14 final size:14
Alignment explanation
Indices: 2052673--2052708 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
2052663 ATTGTTTAAT
2052673 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
2052687 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
2052701 TGATTTGT
1 TGATTTGT
2052709 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:2052867 original size:19 final size:19
Alignment explanation
Indices: 2052843--2053028 Score: 151
Period size: 19 Copynumber: 10.8 Consensus size: 19
2052833 GCAACGAGAG
*
2052843 AATCGCAATGTGAAATGAA
1 AATCGCAATGCGAAATGAA
2052862 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
2052881 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
* *
2052895 AATCGCAATACGAAATGAC
1 AATCGCAATGCGAAATGAA
* *
2052914 TATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
2052928 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
2052947 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
2052961 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
2052980 AATCGCAA--CG-AGTG--
1 AATCGCAATGCGAAATGAA
2052994 AATCGCAATGCGAAAATGAA
1 AATCGCAATGCG-AAATGAA
2053014 AATCGCAATGCGAAA
1 AATCGCAATGCGAAA
2053029 CTAATTTCGC
Statistics
Matches: 135, Mismatches: 11, Indels: 42
0.72 0.06 0.22
Matches are distributed among these distances:
14 37 0.27
15 3 0.02
16 11 0.08
17 8 0.06
18 6 0.04
19 58 0.43
20 12 0.09
ACGTcount: A:0.45, C:0.18, G:0.23, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:2052900 original size:14 final size:14
Alignment explanation
Indices: 2052881--2053001 Score: 71
Period size: 14 Copynumber: 7.6 Consensus size: 14
2052871 GCGAAATGAA
2052881 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
2052895 AATCGCAATACGAAATG
1 AATCGC-A-ACGAGA-G
2052912 ACTATCGCAACGAGAG
1 A--ATCGCAACGAGAG
*
2052928 AATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAG
2052947 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
2052961 AATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAG
*
2052980 AATCGCAACGAGTG
1 AATCGCAACGAGAG
2052994 AATCGCAA
1 AATCGCAA
2053002 TGCGAAAATG
Statistics
Matches: 85, Mismatches: 7, Indels: 30
0.70 0.06 0.25
Matches are distributed among these distances:
14 32 0.38
15 3 0.04
16 11 0.13
17 11 0.13
18 3 0.04
19 25 0.29
ACGTcount: A:0.44, C:0.20, G:0.23, T:0.13
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:2052909 original size:33 final size:33
Alignment explanation
Indices: 2052862--2053021 Score: 275
Period size: 33 Copynumber: 4.8 Consensus size: 33
2052852 GTGAAATGAA
2052862 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
* **
2052895 AATCGCAATACGAAATGACTATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
2052928 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
*
2052961 AATCGCAATGCGAAATGAAAATCGCAACGAGTG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
2052994 AATCGCAATGCGAAAATGAAAATCGCAA
1 AATCGCAATGCG-AAATGAAAATCGCAA
2053022 TGCGAAACTA
Statistics
Matches: 119, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
33 104 0.87
34 15 0.13
ACGTcount: A:0.45, C:0.19, G:0.23, T:0.14
Consensus pattern (33 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAG
Found at i:2053081 original size:19 final size:19
Alignment explanation
Indices: 2053057--2053099 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
2053047 TCACTTGTTG
2053057 CGATTTTCATTTCGCATTA
1 CGATTTTCATTTCGCATTA
* *
2053076 CGATTTTTATTTCGCATTG
1 CGATTTTCATTTCGCATTA
2053095 CGATT
1 CGATT
2053100 CTCTTGTTGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.49
Consensus pattern (19 bp):
CGATTTTCATTTCGCATTA
Found at i:2053789 original size:18 final size:18
Alignment explanation
Indices: 2053766--2053831 Score: 78
Period size: 18 Copynumber: 3.6 Consensus size: 18
2053756 ATGGAATGAG
2053766 TTGCGATTTAGGTAATCA
1 TTGCGATTTAGGTAATCA
* *
2053784 TTGCGATTTACGTAATCG
1 TTGCGATTTAGGTAATCA
**
2053802 TTGCGATTTACGGATACGCA
1 TTGCGATTTA-GG-TAATCA
2053822 TTGCGATTTA
1 TTGCGATTTA
2053832 CGTATTCTCG
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
18 26 0.65
19 1 0.03
20 13 0.32
ACGTcount: A:0.24, C:0.15, G:0.23, T:0.38
Consensus pattern (18 bp):
TTGCGATTTAGGTAATCA
Found at i:2053827 original size:20 final size:20
Alignment explanation
Indices: 2053800--2053970 Score: 182
Period size: 20 Copynumber: 8.4 Consensus size: 20
2053790 TTTACGTAAT
2053800 CGTTGCGATTTACGGATACG
1 CGTTGCGATTTACGGATACG
* * * *
2053820 CATTGCGATTTACGTATTCT
1 CGTTGCGATTTACGGATACG
** *
2053840 CGTTATGATTTACAGATACG
1 CGTTGCGATTTACGGATACG
* * *
2053860 CGTTGCGATTTACGTATTCT
1 CGTTGCGATTTACGGATACG
*
2053880 CGTTGCGATTTACTGATACG
1 CGTTGCGATTTACGGATACG
* *
2053900 CGTTGCGATTTTACGTAT-TG
1 CGTTGCGA-TTTACGGATACG
2053920 TCGTTGCGATTTACGGATACG
1 -CGTTGCGATTTACGGATACG
*
2053941 CGTTGCGATTTTACGGATACT
1 CGTTGCGA-TTTACGGATACG
2053962 CGTTGCGAT
1 CGTTGCGAT
2053971 AGTCAGAATC
Statistics
Matches: 120, Mismatches: 27, Indels: 8
0.77 0.17 0.05
Matches are distributed among these distances:
20 85 0.71
21 35 0.29
ACGTcount: A:0.19, C:0.19, G:0.24, T:0.38
Consensus pattern (20 bp):
CGTTGCGATTTACGGATACG
Found at i:2053925 original size:41 final size:40
Alignment explanation
Indices: 2053784--2053970 Score: 261
Period size: 40 Copynumber: 4.7 Consensus size: 40
2053774 TAGGTAATCA
* *
2053784 TTGCGATTTACGTA--ATCGTTGCGATTTACGGATACGCA
1 TTGCGATTTACGTATTCTCGTTGCGATTTACGGATACGCG
** *
2053822 TTGCGATTTACGTATTCTCGTTATGATTTACAGATACGCG
1 TTGCGATTTACGTATTCTCGTTGCGATTTACGGATACGCG
*
2053862 TTGCGATTTACGTATTCTCGTTGCGATTTACTGATACGCG
1 TTGCGATTTACGTATTCTCGTTGCGATTTACGGATACGCG
*
2053902 TTGCGATTTTACGTATTGTCGTTGCGATTTACGGATACGCG
1 TTGCGA-TTTACGTATTCTCGTTGCGATTTACGGATACGCG
* *
2053943 TTGCGATTTTACGGATACTCGTTGCGAT
1 TTGCGA-TTTACGTATTCTCGTTGCGAT
2053971 AGTCAGAATC
Statistics
Matches: 133, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
38 14 0.11
40 62 0.47
41 57 0.43
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.39
Consensus pattern (40 bp):
TTGCGATTTACGTATTCTCGTTGCGATTTACGGATACGCG
Found at i:2053984 original size:41 final size:39
Alignment explanation
Indices: 2053784--2053992 Score: 187
Period size: 41 Copynumber: 5.2 Consensus size: 39
2053774 TAGGTAATCA
* * *
2053784 TTGCGA-TTTACGTA--ATCGTTGCGATTTACGGATACGCA
1 TTGCGATTTTACGTATTCTCGTTGCGA-TT-CAGATACGCG
**
2053822 TTGCGA-TTTACGTATTCTCGTTATGATTTACAGATACGCG
1 TTGCGATTTTACGTATTCTCGTTGCGA-TT-CAGATACGCG
*
2053862 TTGCGA-TTTACGTATTCTCGTTGCGATTTACTGATACGCG
1 TTGCGATTTTACGTATTCTCGTTGCGA-TT-CAGATACGCG
* *
2053902 TTGCGATTTTACGTATTGTCGTTGCGATTTACGGATACGCG
1 TTGCGATTTTACGTATTCTCGTTGCGA-TT-CAGATACGCG
* *
2053943 TTGCGATTTTACGGATACTCGTTGCGATAGTCAGA-ATCGCG
1 TTGCGATTTTACGTATTCTCGTTGCGAT--TCAGATA-CGCG
2053984 TTGCGATTT
1 TTGCGATTT
2053993 ATATGTTCGC
Statistics
Matches: 151, Mismatches: 14, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
38 14 0.09
40 64 0.42
41 72 0.48
42 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.38
Consensus pattern (39 bp):
TTGCGATTTTACGTATTCTCGTTGCGATTCAGATACGCG
Done.