Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01004211.1 Kokia drynarioides strain JFW-HI SEQ_117458, 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: 36845
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Found at i:597 original size:16 final size:16
Alignment explanation
Indices: 573--604 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
563 TCCTTACAAA
*
573 TTTATTCCTTTAACAT
1 TTTAGTCCTTTAACAT
589 TTTAGTCCTTTAACAT
1 TTTAGTCCTTTAACAT
605 AAAAATTTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.19, G:0.03, T:0.53
Consensus pattern (16 bp):
TTTAGTCCTTTAACAT
Found at i:1928 original size:197 final size:196
Alignment explanation
Indices: 1576--1964 Score: 455
Period size: 197 Copynumber: 2.0 Consensus size: 196
1566 TTTAATTCAT
* * * * *
1576 AGACCAAAAGTAGTTTACAAATGACATATTATTAAGACCAAATGATGCAATTTCTCGAGCATGGA
1 AGACCAAAAGTAGTTTACAAAGGAAAAACTATTAAGACCAAATGATGCAAGTTCTCGAGCATGGA
* * * * **
1641 TAATTCGAAAAATATCTCGAAGGAATGGATCATCTTGAATAGTTTATGGAACCAAAGTTATAGCA
66 TAATTCGAAAAATATCTCGAAGGAATGGATCATCATGAATACTTTAAGGAACCAAAGTAATAAAA
** * * **
1706 GAACTCGTAAAAATTTGTCAAGTTCGGAGGTTAGTCCAA-GATCTTAGAGAGAAACAATTCTCTC
131 GAACTCGTAAAAATTTGAAAAGTTCGAAAGTTAGTCCAATGA-CCAAGAGAGAAACAATTCTCTC
1770 AA
195 AA
* *
1772 AGACCAAAAGTTGTTTACCAAAGGAAAAACTATTTAA-ACCAAATGATGCGAGTTCTCGA-CAAT
1 AGACCAAAAGTAGTTTA-CAAAGGAAAAACTA-TTAAGACCAAATGATGCAAGTTCTCGAGC-AT
** *
1835 GGA-AAGTTC-AAAAATATTCTCGAAGGAATGGATCATCATGAATACTTTAAGGAACTGATGTAA
63 GGATAA-TTCGAAAAATA-TCTCGAAGGAATGGATCATCATGAATACTTTAAGGAACCAAAGTAA
* * * *
1898 TAAAAGCACTTGTAAAAGTTTGAAAAGTTCGAAAGTTCGTCCAATGACCAAGAGAGAAACAATTC
126 TAAAAGAACTCGTAAAAATTTGAAAAGTTCGAAAGTTAGTCCAATGACCAAGAGAGAAACAATTC
1963 TC
191 TC
1965 AAGTAAATAT
Statistics
Matches: 161, Mismatches: 26, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
196 26 0.16
197 129 0.80
198 6 0.04
ACGTcount: A:0.41, C:0.15, G:0.18, T:0.26
Consensus pattern (196 bp):
AGACCAAAAGTAGTTTACAAAGGAAAAACTATTAAGACCAAATGATGCAAGTTCTCGAGCATGGA
TAATTCGAAAAATATCTCGAAGGAATGGATCATCATGAATACTTTAAGGAACCAAAGTAATAAAA
GAACTCGTAAAAATTTGAAAAGTTCGAAAGTTAGTCCAATGACCAAGAGAGAAACAATTCTCTCA
A
Found at i:2353 original size:215 final size:215
Alignment explanation
Indices: 1768--3028 Score: 1469
Period size: 216 Copynumber: 5.9 Consensus size: 215
1758 AACAATTCTC
* * * * * *
1768 TCAAAGACCAAAAGTTGTTTACCAAAGGAAAAACTATTTAAACCAAATGATGCGAGTTCTCGA-C
1 TCAAAGACCAAAAGTTGTTTACCAAATGACAAACTATTTAGACCAAATGATGCAATTTCCCGAGC
* * * * * * *
1832 AATGGAAAGTTCAAAAATATTCTCGAAGGAATGGATCATCATGAATACTTTAAGGAACTGATGTA
66 -ATGGAATGTTCGAAAAT-TGCTCGAAGGAATGGATCATCATGAATACTTTAAGCAACTAAAGTT
* * * * * *
1897 ATAAAAGCACTTGTAAAAGTTTGAAAAGTTCGAAAGTTCGTCCAATG-ACCAAGAGAGAAACAAT
129 ATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCATCCAA-GAACCAAGATAGAAACAAT
* * *
1961 TCTCAAGTAAATATGTTATTAAT
193 TCTCACGTAAATAAGTTTTTAAT
* * * **
1984 TCAAAGACCAAAAGTTTTTTTA-CAAACTAACAAACTATTTAAACCAAATGATGCAATTTCCTAA
1 TCAAAGACCAAAAG-TTGTTTACCAAA-TGACAAACTATTTAGACCAAATGATGCAATTTCCCGA
* * *** *
2048 ACATGGAATGTTCGAAAAATTGCTGGAAGGAATGGATTGCCATGAATTA-TTTAAGGAA-TCAAA
64 GCATGGAATGTTCG-AAAATTGCTCGAAGGAATGGATCATCATGAA-TACTTTAAGCAACT-AAA
* * * *
2111 GTTATAGAAGAACTCGTAAAAGTTTGTCAAGTTCGGAAGTTCATCCAAGATCTAAGATAGAAACA
126 GTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCATCCAAGAACCAAGATAGAAACA
*
2176 ATTCTCATGTAAATAAGTTTTTAAT
191 ATTCTCACGTAAATAAGTTTTTAAT
* * ** *
2201 TCAAAGACAAAAAGTTGTTTACCAAATGACAAACTATTTAGA-CAAAGTGATGCGATTTCTTGGG
1 TCAAAGACCAAAAGTTGTTTACCAAATGACAAACTATTTAGACCAAA-TGATGCAATTTCCCGAG
** **
2265 CATGGAATGTTCTG-AAATTGCTCGAAGGAATGGATTGTCATGAATACTTTAAGCAACCGAAGTT
65 CATGGAATGTTC-GAAAATTGCTCGAAGGAATGGATCATCATGAATACTTTAAGCAACTAAAGTT
* * * * * *
2329 A-AAGAAGAACTCATAAAAGTTTGTCATGTTCGGAAGTTCGA-CCAGGATCCAAGAGAGAAACAA
129 ATAA-AAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTC-ATCCAAGAACCAAGATAGAAACAA
2392 TTCTCACGTAAATAAGTTTTTAAT
192 TTCTCACGTAAATAAGTTTTTAAT
* * *
2416 TCAAAGACAAAAAGTTGTTTACCAAATGAAAAACTTTTTAGACCAAATGATG-ATATTTCCCGAG
1 TCAAAGACCAAAAGTTGTTTACCAAATGACAAACTATTTAGACCAAATGATGCA-ATTTCCCGAG
* * * * * *
2480 CATAGAATGTTTAGAAAATTGCTCGAAGGAATGGATCATCATGAATGCTTTAAGGAATTGAAGTT
65 CATGGAATG-TTCGAAAATTGCTCGAAGGAATGGATCATCATGAATACTTTAAGCAACTAAAGTT
* * *
2545 ATAAAAGAACTTGTAAAAGTTTGCCAAGTTCGGAAGTTCGTCCAAGAACCAAGAGT-GAAA-ATA
129 ATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCATCCAAGAACCAAGA-TAGAAACA-A
2608 TTCTCACGTAAATAAGTTTTTAAT
192 TTCTCACGTAAATAAGTTTTTAAT
* * *
2632 TCAATGACCGAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCAATTTCCCGAGC
1 TCAAAGACCAAAAGTTGTTTACCAAATGACAAACTATTTAGACCAAATGATGCAATTTCCCGAGC
* *
2697 ATGGAATGTTCGAAAAGTTGCTCGAAGGAATGGATCATCATGAATA-ATT-ATCGAACTAAAGTT
66 ATGGAATGTTCGAAAA-TTGCTCGAAGGAATGGATCATCATGAATACTTTAAGC-AACTAAAGTT
* * * *
2760 ATAAAAG-ACTCGTAAATGTTTGACAAGTTCAGAAGTTCGTCTAAGAACCAAGAGTA-AAACAAT
129 ATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCATCCAAGAACCAAGA-TAGAAACAAT
*
2823 TCTCACGTAAATGAGTTTTTAAT
193 TCTCACGTAAATAAGTTTTTAAT
*
2846 TCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCAATTTCCCGAGC
1 TCAAAGACCAAAAGTTGTTTACCAAATGACAAACTATTTAGACCAAATGATGCAATTTCCCGAGC
* * *
2911 ATGGAATGTTCAGAAAATTGCTTGAAGGAATTGATCATCATGAATAATTT-AGCGAACTAAAGTT
66 ATGGAATGTTC-GAAAATTGCTCGAAGGAATGGATCATCATGAATACTTTAAGC-AACTAAAGTT
* * *
2975 ATAAAAG-ACTCGTAAATGTTTGACAAATTCGGAAGTTCATCTAAGAACCAAGAT
129 ATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCATCCAAGAACCAAGAT
3029 GATGTGAGCA
Statistics
Matches: 912, Mismatches: 104, Indels: 60
0.85 0.10 0.06
Matches are distributed among these distances:
214 176 0.19
215 278 0.30
216 279 0.31
217 171 0.19
218 8 0.01
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.28
Consensus pattern (215 bp):
TCAAAGACCAAAAGTTGTTTACCAAATGACAAACTATTTAGACCAAATGATGCAATTTCCCGAGC
ATGGAATGTTCGAAAATTGCTCGAAGGAATGGATCATCATGAATACTTTAAGCAACTAAAGTTAT
AAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCATCCAAGAACCAAGATAGAAACAATTCT
CACGTAAATAAGTTTTTAAT
Found at i:2582 original size:431 final size:426
Alignment explanation
Indices: 1768--3027 Score: 1518
Period size: 431 Copynumber: 2.9 Consensus size: 426
1758 AACAATTCTC
* * * * * *
1768 TCAAAGACCAAAAGTTGTTTACCAAAGGAAAAACTATTTAAACCAAATGATGCGAGTTCTCGACA
1 TCAAAGACCAAAAGTTGTTTACCAAATGACAAACTATTTAGACCAAATGATGCGATTTCTGGGC-
* * * * * *
1833 ATGGAAAGTTCAAAAATATTCTCGAAGGAATGGATCATCATGAATACTTTAAGGAACTGATGTAA
65 ATGGAATGTTC-GAAAT-TGCTCGAAGGAATGGATCATCATGAATACTTTAAGCAACTGAAGTTA
* * *
1898 TAAAAGCACTTGTAAAAGTTTGAAAAGTTCGAAAGTTCGTCCAATGACCAAGAGAGAAACAATTC
128 -AAAAG-ACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAA-GACCAAGAGAGAAACAATTC
* * * * *
1963 TCAAGTAAATATGTTATTAATTCAAAGACCAAAAGTTTTTTTA-CAAACT-AACAAACTATTTAA
190 TCACGTAAATAAGTTTTTAATTCAAAGACCAAAAG-TTGTTTACCAAA-TGAA-AAACTATTTAG
** * * * ***
2026 ACCAAATGATGCAATTTCCTAAACATGGAATG-TTCGAAAAATTGCTGGAAGGAATGGATTGCCA
252 ACCAAATGATGCAATTTCCCGAGCATGGAATGTTTAG-AAAATTGCTCGAAGGAATGGATCATCA
* * * *
2090 TGAATTATTTAAGGAATCAAAGTTATAGAAGAACTCGTAAAAGTTTGTCAAGTTCGGAAGTTCAT
316 TGAATAATTTAAGGAATTAAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCAT
* * *
2155 CCAAGATCTAAGA-TAGAAACA-ATTCTCATGTAAATAAGTTTTTAAT
381 CCAAGAACCAAGAGT-GAAA-ATATTCTCACGTAAATAAGTTTTTAAT
*
2201 TCAAAGACAAAAAGTTGTTTACCAAATGACAAACTATTTAGA-CAAAGTGATGCGATTTCTTGGG
1 TCAAAGACCAAAAGTTGTTTACCAAATGACAAACTATTTAGACCAAA-TGATGCGATTTC-TGGG
** *
2265 CATGGAATGTTCTGAAATTGCTCGAAGGAATGGATTGTCATGAATACTTTAAGCAACCGAAGTTA
64 CATGGAATGTTC-GAAATTGCTCGAAGGAATGGATCATCATGAATACTTTAAGCAACTGAAGTTA
* * * * *
2330 AAGAAGAACTCATAAAAGTTTGTCATGTTCGGAAGTTCGACCAGGATCCAAGAGAGAAACAATTC
128 AA-AAG-ACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGA-CCAAGAGAGAAACAATTC
* *
2395 TCACGTAAATAAGTTTTTAATTCAAAGACAAAAAGTTGTTTACCAAATGAAAAACTTTTTAGACC
190 TCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACCAAATGAAAAACTATTTAGACC
*
2460 AAATGATG-ATATTTCCCGAGCATAGAATGTTTAGAAAATTGCTCGAAGGAATGGATCATCATGA
255 AAATGATGCA-ATTTCCCGAGCATGGAATGTTTAGAAAATTGCTCGAAGGAATGGATCATCATGA
** * * * *
2524 ATGCTTTAAGGAATTGAAGTTATAAAAGAACTTGTAAAAGTTTGCCAAGTTCGGAAGTTCGTCCA
319 ATAATTTAAGGAATTAAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCATCCA
2589 AGAACCAAGAGTGAAAATATTCTCACGTAAATAAGTTTTTAAT
384 AGAACCAAGAGTGAAAATATTCTCACGTAAATAAGTTTTTAAT
* * * * * *
2632 TCAATGACCGAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCAATTTCCCGAGC
1 TCAAAGACCAAAAGTTGTTTACCAAATGACAAACTATTTAGACCAAATGATGCGATTT-CTGGGC
* * *
2697 ATGGAATGTTCGAAAAGTTGCTCGAAGGAATGGATCATCATGAATA-ATT-ATCGAACTAAAGTT
65 ATGGAATGTTCG-AAA-TTGCTCGAAGGAATGGATCATCATGAATACTTTAAGC-AACTGAAGTT
* * *
2760 ATAAAAGACTCGTAAATGTTTGACAAGTTCAGAAGTTCGTCTAAGAACCAAGAGTA-AAACAATT
127 A-AAAAGACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAG-ACCAAGAG-AGAAACAATT
* * *
2824 CTCACGTAAATGAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGAC
189 CTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACCAAATGAAAAACTATTTAGAC
* * *
2889 CAAATGATGCAATTTCCCGAGCATGGAATGTTCAGAAAATTGCTTGAAGGAATTGATCATCATGA
254 CAAATGATGCAATTTCCCGAGCATGGAATGTTTAGAAAATTGCTCGAAGGAATGGATCATCATGA
* * * *
2954 ATAATTT-AGCGAACTAAAGTTATAAAAG-ACTCGTAAATGTTTGACAAATTCGGAAGTTCATCT
319 ATAATTTAAG-GAATTAAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCATCC
3017 AAGAACCAAGA
383 AAGAACCAAGA
3028 TGATGTGAGC
Statistics
Matches: 714, Mismatches: 93, Indels: 44
0.84 0.11 0.05
Matches are distributed among these distances:
429 42 0.06
430 190 0.27
431 247 0.35
432 169 0.24
433 63 0.09
434 3 0.00
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.28
Consensus pattern (426 bp):
TCAAAGACCAAAAGTTGTTTACCAAATGACAAACTATTTAGACCAAATGATGCGATTTCTGGGCA
TGGAATGTTCGAAATTGCTCGAAGGAATGGATCATCATGAATACTTTAAGCAACTGAAGTTAAAA
AGACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGACCAAGAGAGAAACAATTCTCACGT
AAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACCAAATGAAAAACTATTTAGACCAAATGA
TGCAATTTCCCGAGCATGGAATGTTTAGAAAATTGCTCGAAGGAATGGATCATCATGAATAATTT
AAGGAATTAAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCATCCAAGAACCA
AGAGTGAAAATATTCTCACGTAAATAAGTTTTTAAT
Found at i:2599 original size:216 final size:216
Alignment explanation
Indices: 1768--3027 Score: 1478
Period size: 215 Copynumber: 5.8 Consensus size: 216
1758 AACAATTCTC
* * * * *
1768 TCAAAGACCAAAAGTTGTTTACCAAAGGAAAAACTATTTAAACCAAATGATGCGAGTTCTCGA-C
1 TCAAAGACCAAAAGTTGTTTACCAAATGAAAAACTATTTAGACCAAATGATGCAATTTCCCGAGC
* * * * * *
1832 AATGGAAAGTTCA-AAAATATTCTCGAAGGAATGGATCATCATGAATACTTTAAGGAACTGATGT
66 -ATGGAATGTTTAGAAAAT-TGCTCGAAGGAATGGATCATCATGAATAATTTAAGGAACTAAAGT
* * * * *
1896 AATAAAAGCACTTGTAAAAGTTTGAAAAGTTCGAAAGTTCGTCCAATG-ACCAAGAGAGAAACAA
129 TATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAA-GAACCAAGAGAGAAACAA
* * *
1960 TTCTCAAGTAAATATGTTATTAAT
193 TTCTCACGTAAATAAGTTTTTAAT
* * **
1984 TCAAAGACCAAAAGTTTTTTTA-CAAACT-AACAAACTATTTAAACCAAATGATGCAATTTCCTA
1 TCAAAGACCAAAAG-TTGTTTACCAAA-TGAA-AAACTATTTAGACCAAATGATGCAATTTCCCG
* * * *** *
2047 AACATGGAATG-TTCGAAAAATTGCTGGAAGGAATGGATTGCCATGAATTATTTAAGGAA-TCAA
63 AGCATGGAATGTTTAG-AAAATTGCTCGAAGGAATGGATCATCATGAATAATTTAAGGAACT-AA
* * * * * *
2110 AGTTATAGAAGAACTCGTAAAAGTTTGTCAAGTTCGGAAGTTCATCCAAGATCTAAGATAGAAAC
126 AGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAAC
*
2175 AATTCTCATGTAAATAAGTTTTTAAT
191 AATTCTCACGTAAATAAGTTTTTAAT
* * * ** *
2201 TCAAAGACAAAAAGTTGTTTACCAAATGACAAACTATTTAGA-CAAAGTGATGCGATTTCTTGGG
1 TCAAAGACCAAAAGTTGTTTACCAAATGAAAAACTATTTAGACCAAA-TGATGCAATTTCCCGAG
** * * **
2265 CATGGAATGTTCT-G-AAATTGCTCGAAGGAATGGATTGTCATGAATACTTTAAGCAACCGAAGT
65 CATGGAATGTT-TAGAAAATTGCTCGAAGGAATGGATCATCATGAATAATTTAAGGAACTAAAGT
* * * * * *
2328 TA-AAGAAGAACTCATAAAAGTTTGTCATGTTCGGAAGTTCGACCAGGATCCAAGAGAGAAACAA
129 TATAA-AAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAA
2392 TTCTCACGTAAATAAGTTTTTAAT
193 TTCTCACGTAAATAAGTTTTTAAT
* *
2416 TCAAAGACAAAAAGTTGTTTACCAAATGAAAAACTTTTTAGACCAAATGATG-ATATTTCCCGAG
1 TCAAAGACCAAAAGTTGTTTACCAAATGAAAAACTATTTAGACCAAATGATGCA-ATTTCCCGAG
* ** * *
2480 CATAGAATGTTTAGAAAATTGCTCGAAGGAATGGATCATCATGAATGCTTTAAGGAATTGAAGTT
65 CATGGAATGTTTAGAAAATTGCTCGAAGGAATGGATCATCATGAATAATTTAAGGAACTAAAGTT
* * *
2545 ATAAAAGAACTTGTAAAAGTTTGCCAAGTTCGGAAGTTCGTCCAAGAACCAAGAGTGAAA-ATAT
130 ATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACA-AT
2609 TCTCACGTAAATAAGTTTTTAAT
194 TCTCACGTAAATAAGTTTTTAAT
* * * *
2632 TCAATGACCGAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCAATTTCCCGAGC
1 TCAAAGACCAAAAGTTGTTTACCAAATGAAAAACTATTTAGACCAAATGATGCAATTTCCCGAGC
* **
2697 ATGGAATG-TTCGAAAAGTTGCTCGAAGGAATGGATCATCATGAATAA-TTATCGAACTAAAGTT
66 ATGGAATGTTTAGAAAA-TTGCTCGAAGGAATGGATCATCATGAATAATTTAAGGAACTAAAGTT
* * *
2760 ATAAAAG-ACTCGTAAATGTTTGACAAGTTCAGAAGTTCGTCTAAGAACCAAGAGTA-AAACAAT
130 ATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAG-AGAAACAAT
*
2823 TCTCACGTAAATGAGTTTTTAAT
194 TCTCACGTAAATAAGTTTTTAAT
* *
2846 TCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCAATTTCCCGAGC
1 TCAAAGACCAAAAGTTGTTTACCAAATGAAAAACTATTTAGACCAAATGATGCAATTTCCCGAGC
* * *
2911 ATGGAATGTTCAGAAAATTGCTTGAAGGAATTGATCATCATGAATAATTT-AGCGAACTAAAGTT
66 ATGGAATGTTTAGAAAATTGCTCGAAGGAATGGATCATCATGAATAATTTAAG-GAACTAAAGTT
* * * *
2975 ATAAAAG-ACTCGTAAATGTTTGACAAATTCGGAAGTTCATCTAAGAACCAAGA
130 ATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGA
3028 TGATGTGAGC
Statistics
Matches: 905, Mismatches: 111, Indels: 57
0.84 0.10 0.05
Matches are distributed among these distances:
214 170 0.19
215 282 0.31
216 276 0.30
217 170 0.19
218 7 0.01
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.28
Consensus pattern (216 bp):
TCAAAGACCAAAAGTTGTTTACCAAATGAAAAACTATTTAGACCAAATGATGCAATTTCCCGAGC
ATGGAATGTTTAGAAAATTGCTCGAAGGAATGGATCATCATGAATAATTTAAGGAACTAAAGTTA
TAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTC
TCACGTAAATAAGTTTTTAAT
Found at i:3403 original size:48 final size:48
Alignment explanation
Indices: 3328--3458 Score: 201
Period size: 48 Copynumber: 2.8 Consensus size: 48
3318 TATTTATGCT
*
3328 TCATTAAGTGTTTT-TTTGTTAAATGCATCTTTGTTTAATAATCTGCA
1 TCATTAAGTGTTTTGTTTGTTAAATGCATCTTTGTTTAATAATCTACA
*
3375 TCATTAAGTGTTTTGTTTGTTAAATGCATCTTTGTTTAGTAATCTACA
1 TCATTAAGTGTTTTGTTTGTTAAATGCATCTTTGTTTAATAATCTACA
* * * *
3423 TTATTAACTGTTTTGTTTGTTAAATACATATTTGTT
1 TCATTAAGTGTTTTGTTTGTTAAATGCATCTTTGTT
3459 AAATGCCTTG
Statistics
Matches: 77, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
47 14 0.18
48 63 0.82
ACGTcount: A:0.25, C:0.09, G:0.13, T:0.53
Consensus pattern (48 bp):
TCATTAAGTGTTTTGTTTGTTAAATGCATCTTTGTTTAATAATCTACA
Found at i:3473 original size:48 final size:46
Alignment explanation
Indices: 3330--3473 Score: 150
Period size: 48 Copynumber: 3.0 Consensus size: 46
3320 TTTATGCTTC
*
3330 ATTAAGTGTTTT-TTTGTTAAATGCATCTTTGTTTAATAATC-TGCATC
1 ATTAAGTGTTTTGTTTGTTAAATGCATCTTTG-TT-A-AATCTTGCATT
*
3377 ATTAAGTGTTTTGTTTGTTAAATGCATCTTTGTTTAGTAATC-TACATT
1 ATTAAGTGTTTTGTTTGTTAAATGCATCTTTG-TTA--AATCTTGCATT
* * *
3425 ATTAACTGTTTTGTTTGTTAAATACATATTTGTTAAATGCCTTGCATT
1 ATTAAGTGTTTTGTTTGTTAAATGCATCTTTGTTAAAT--CTTGCATT
3473 A
1 A
3474 ATGCTTCAGT
Statistics
Matches: 86, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
45 3 0.03
47 17 0.20
48 66 0.77
ACGTcount: A:0.26, C:0.10, G:0.13, T:0.51
Consensus pattern (46 bp):
ATTAAGTGTTTTGTTTGTTAAATGCATCTTTGTTAAATCTTGCATT
Found at i:3992 original size:79 final size:79
Alignment explanation
Indices: 3903--4058 Score: 251
Period size: 80 Copynumber: 2.0 Consensus size: 79
3893 TCATTAAGGA
* * *
3903 GAAATGCCATGCCTTTTCAGCTACATCA-ATCCTAATGAAGAGACATGACCCATTGGCTTTCCTA
1 GAAATGCCATGCCTTTTCAACTACATCAGATCCTAATGAAGAGACATGACCCATTAGCTTCCCTA
3967 CAAGAGTTAAAAAC
66 CAAGAGTTAAAAAC
* *
3981 GAAATTGCCATGCCTTTTTAACTACATCAGATCCTAATGAAGAGACATGACTCATTAGCTTCCCT
1 GAAA-TGCCATGCCTTTTCAACTACATCAGATCCTAATGAAGAGACATGACCCATTAGCTTCCCT
4046 ACAAGAGTTAAAA
65 ACAAGAGTTAAAA
4059 TGAAATTAGT
Statistics
Matches: 71, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
78 4 0.06
79 22 0.31
80 45 0.63
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (79 bp):
GAAATGCCATGCCTTTTCAACTACATCAGATCCTAATGAAGAGACATGACCCATTAGCTTCCCTA
CAAGAGTTAAAAAC
Found at i:8976 original size:48 final size:48
Alignment explanation
Indices: 8905--9031 Score: 195
Period size: 48 Copynumber: 2.7 Consensus size: 48
8895 TTATGCTTCT
**
8905 TTAAGTG-TTT-TTTGTTAAATGCATCTTTGTTTAATAATCTGTATCA
1 TTAAGTGTTTTGTTTGTTAAATGCATCTTTGTTTAATAATCTACATCA
* *
8951 TTAAGTGTTTTGTTTGTTAAATGCATCTTTGTTTAGTAATCTACATTA
1 TTAAGTGTTTTGTTTGTTAAATGCATCTTTGTTTAATAATCTACATCA
*
8999 TTAACTGTTTTGTTTGTTAAATGCATCTTTGTT
1 TTAAGTGTTTTGTTTGTTAAATGCATCTTTGTT
9032 AAATGTCTTG
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
46 7 0.09
47 3 0.04
48 64 0.86
ACGTcount: A:0.24, C:0.09, G:0.14, T:0.54
Consensus pattern (48 bp):
TTAAGTGTTTTGTTTGTTAAATGCATCTTTGTTTAATAATCTACATCA
Found at i:9585 original size:80 final size:79
Alignment explanation
Indices: 9481--9637 Score: 251
Period size: 80 Copynumber: 2.0 Consensus size: 79
9471 TCATTAAGGA
* * *
9481 GAAATGCCATGCCTTTTCAGCTACATCAGATCCTAATGAAGAGACATGACCCATTGGCTTTCCTA
1 GAAATGCCATGCCTTTTCAACTACATCAGATCCTAATGAAGAGACATGACCCATTAGCTTCCCTA
9546 CAAGAGTTAAAAAC
66 CAAGAGTTAAAAAC
* * *
9560 GAAATTGCCATGTCTTTTTAACTACATCAGATCCTAATGAAGAGACATGACGCATTAGCTTCCCT
1 GAAA-TGCCATGCCTTTTCAACTACATCAGATCCTAATGAAGAGACATGACCCATTAGCTTCCCT
9625 ACAAGAGTTAAAA
65 ACAAGAGTTAAAA
9638 TGAAATTAGT
Statistics
Matches: 71, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
79 4 0.06
80 67 0.94
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.27
Consensus pattern (79 bp):
GAAATGCCATGCCTTTTCAACTACATCAGATCCTAATGAAGAGACATGACCCATTAGCTTCCCTA
CAAGAGTTAAAAAC
Found at i:10483 original size:195 final size:201
Alignment explanation
Indices: 10163--10756 Score: 706
Period size: 195 Copynumber: 2.9 Consensus size: 201
10153 TACAAAATGA
*
10163 AAAACTATTTAGACCAAGT-GATGTGATTTCCTGAGCATGGAATATTCGAAAAATTGCTAGAAGG
1 AAAACTATTTAGACCAA-TAGATGTGATTTCCTGAGCATGGAATGTTCGAAAAATTGCTAGAAGG
* *
10227 AATGGATCTTCATGAATACTTTAAGGAATTGAAGTTATAAAAGAACTCGTAAAAGTTTGCCAAGT
65 AATGGATCATCATGAATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAGTTTGCCAAGT
*
10292 TTGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCATGTAAATATGTTT-ATTT-A-C-AA
130 TTGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATATGTTTAATTTAAGCAAA
*
10353 AG-TTGC
195 AGTTTAC
* * *
10359 -AAACTATTTAGACCAATAGATGTGATTT-CTCGAGCATGAAATGTTCAAAAAATTGCTCGAAGG
1 AAAACTATTTAGACCAATAGATGTGATTTCCT-GAGCATGGAATGTTCGAAAAATTGCTAGAAGG
** *
10422 AATGGATGGTCATGAATACTTTAAGGAACTGAAGTTATAAAGGAACTCGTAAAAGTTTGCCAAGT
65 AATGGATCATCATGAATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAGTTTGCCAAGT
* * * * * *
10487 TCGGAAGTTTGTCCAAGAACCAAAAGCGAAACAATTCTCACATAAATAAGTTTTTAATTTAAAGA
130 TTGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAAT-A-TGTTTAATTT--A-A
10552 GCAAAAGTTTTTTTAC
190 GCAAAAG----TTTAC
* * *
10568 AAAATAACAAACTATTTAGACCAA-ATGATGCGATATCCTAAGCATGGAATGTTCGAAAAATTAG
1 ------A-AAACTATTTAGACCAATA-GATGTGATTTCCTGAGCATGGAATGTTCGAAAAATT-G
* *
10632 -TAGAAGGAATGGATCATTATGAATACTTTAAGGAACTGAAGTTATAAAAGAACTCATAAAAGTT
57 CTAGAAGGAATGGATCATCATGAATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAGTT
* *
10696 TGCCAAGTTTAGAAGTTCGTCCAAGAATCC-AGAGAGAAACAATTCTCACGTAAATAAGTTT
122 TGCCAAGTTTGGAAGTTCGTCCAAGAA-CCAAGAGAGAAACAATTCTCACGTAAATATGTTT
10757 TTAACTCAAA
Statistics
Matches: 335, Mismatches: 35, Indels: 37
0.82 0.09 0.09
Matches are distributed among these distances:
194 3 0.01
195 156 0.47
196 1 0.00
197 4 0.01
198 4 0.01
202 1 0.00
203 1 0.00
204 4 0.01
209 3 0.01
215 3 0.01
216 2 0.01
217 148 0.44
218 5 0.01
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.28
Consensus pattern (201 bp):
AAAACTATTTAGACCAATAGATGTGATTTCCTGAGCATGGAATGTTCGAAAAATTGCTAGAAGGA
ATGGATCATCATGAATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAGTTTGCCAAGTT
TGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATATGTTTAATTTAAGCAAAA
GTTTAC
Found at i:10721 original size:217 final size:217
Alignment explanation
Indices: 10358--10818 Score: 610
Period size: 217 Copynumber: 2.1 Consensus size: 217
10348 TACAAAGTTG
* * * *
10358 CAAACTATTTAGACC-AATAGATGTGATTTCTCGAGCATGAAATGTTCAAAAAATTGCTCGAAGG
1 CAAACTATTTAGACCAAAT-GATGCGATTCCTCAAGCATGAAATGTTCAAAAAATTGCTAGAAGG
** * *
10422 AATGGATGGTCATGAATACTTTAAGGAACTGAAGTTATAAAGGAACTCGTAAAAGTTTGCCAAGT
65 AATGGATCATCATGAATACTTTAAGGAACTGAAGTTATAAAAGAACTCATAAAAGTTTGCCAAGT
* * * * * *
10487 TCGGAAGTTTGTCCAAGAA-CCAAAAGCGAAACAATTCTCACATAAATAAGTTTTTAATTTAAAG
130 TCAGAAGTTCGTCCAAGAATCC-AAAGAGAAACAATTCTCACATAAATAAGTTTTTAACTCAAAA
* *
10551 AGCAAAAGTTTTTTTACAAAAT-AA
194 AACAAAAG-TTGTTTACAAAATGAA
* *
10575 CAAACTATTTAGACCAAATGATGCGATATCCT-AAGCATGGAATGTTCGAAAAATTAG-TAGAAG
1 CAAACTATTTAGACCAAATGATGCGAT-TCCTCAAGCATGAAATGTTCAAAAAATT-GCTAGAAG
*
10638 GAATGGATCATTATGAATACTTTAAGGAACTGAAGTTATAAAAGAACTCATAAAAGTTTGCCAAG
64 GAATGGATCATCATGAATACTTTAAGGAACTGAAGTTATAAAAGAACTCATAAAAGTTTGCCAAG
* * *
10703 TTTAGAAGTTCGTCCAAGAATCCAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAACTCAAAA
129 TTCAGAAGTTCGTCCAAGAATCCAAAGAGAAACAATTCTCACATAAATAAGTTTTTAACTCAAAA
10768 AACAAAAGTTGTTTACAAAATGAA
194 AACAAAAGTTGTTTACAAAATGAA
* * *
10792 -AAACCATTTATACCAAATGATGTGATT
1 CAAACTATTTAGACCAAATGATGCGATT
10819 TCCCATGAAG
Statistics
Matches: 214, Mismatches: 25, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
215 1 0.00
216 35 0.16
217 169 0.79
218 9 0.04
ACGTcount: A:0.42, C:0.13, G:0.17, T:0.28
Consensus pattern (217 bp):
CAAACTATTTAGACCAAATGATGCGATTCCTCAAGCATGAAATGTTCAAAAAATTGCTAGAAGGA
ATGGATCATCATGAATACTTTAAGGAACTGAAGTTATAAAAGAACTCATAAAAGTTTGCCAAGTT
CAGAAGTTCGTCCAAGAATCCAAAGAGAAACAATTCTCACATAAATAAGTTTTTAACTCAAAAAA
CAAAAGTTGTTTACAAAATGAA
Found at i:10944 original size:30 final size:30
Alignment explanation
Indices: 10908--11063 Score: 177
Period size: 30 Copynumber: 5.2 Consensus size: 30
10898 GTATTGGGAG
* * *
10908 CACTCATGTTGAAAACTCTGGAGCTGTGAA
1 CACTCATGTTGCAAACACTGGAGCCGTGAA
* * * *
10938 CACTCATGTTGCGAACACTAGATCCATGAA
1 CACTCATGTTGCAAACACTGGAGCCGTGAA
* * * * *
10968 CACTCATGTTACGAACACTGCAGCTGCGAA
1 CACTCATGTTGCAAACACTGGAGCCGTGAA
10998 CACTCATGTTGCAAACACTGGAGCCGTGAA
1 CACTCATGTTGCAAACACTGGAGCCGTGAA
* **
11028 CACTCATGTTGCAAACATTGGAGCCGCAAA
1 CACTCATGTTGCAAACACTGGAGCCGTGAA
11058 CACTCA
1 CACTCA
11064 CGTTACGAAC
Statistics
Matches: 104, Mismatches: 22, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 104 1.00
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.22
Consensus pattern (30 bp):
CACTCATGTTGCAAACACTGGAGCCGTGAA
Found at i:10955 original size:15 final size:15
Alignment explanation
Indices: 10935--11016 Score: 71
Period size: 15 Copynumber: 5.5 Consensus size: 15
10925 CTGGAGCTGT
10935 GAACACTCATGTTGC
1 GAACACTCATGTTGC
* *
10950 GAACACT-A-GATCC
1 GAACACTCATGTTGC
*
10963 ATGAACACTCATGTTAC
1 --GAACACTCATGTTGC
*
10980 GAACACTGCA-GCTGC
1 GAACACT-CATGTTGC
10995 GAACACTCATGTTGC
1 GAACACTCATGTTGC
*
11010 AAACACT
1 GAACACT
11017 GGAGCCGTGA
Statistics
Matches: 53, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
13 3 0.06
14 3 0.06
15 41 0.77
16 3 0.06
17 3 0.06
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.22
Consensus pattern (15 bp):
GAACACTCATGTTGC
Found at i:11060 original size:90 final size:90
Alignment explanation
Indices: 10908--11075 Score: 237
Period size: 90 Copynumber: 1.9 Consensus size: 90
10898 GTATTGGGAG
* * * * **
10908 CACTCATGTTGAAAACTCTGGAGCTGTGAACACTCATGTTGCGAACACTAGATCCATGAACACTC
1 CACTCATGTTGAAAACACTGGAGCCGTGAACACTCATGTTGCAAACACTAGAGCCACAAACACTC
*
10973 ATGTTACGAACACTGCAGCTGCGAA
66 ACGTTACGAACACTGCAGCTGCGAA
* * * *
10998 CACTCATGTTGCAAACACTGGAGCCGTGAACACTCATGTTGCAAACATTGGAGCCGCAAACACTC
1 CACTCATGTTGAAAACACTGGAGCCGTGAACACTCATGTTGCAAACACTAGAGCCACAAACACTC
11063 ACGTTACGAACAC
66 ACGTTACGAACAC
11076 ACACAATGCG
Statistics
Matches: 67, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
90 67 1.00
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.21
Consensus pattern (90 bp):
CACTCATGTTGAAAACACTGGAGCCGTGAACACTCATGTTGCAAACACTAGAGCCACAAACACTC
ACGTTACGAACACTGCAGCTGCGAA
Found at i:12678 original size:30 final size:30
Alignment explanation
Indices: 12642--12714 Score: 137
Period size: 30 Copynumber: 2.4 Consensus size: 30
12632 AGATTTGGTT
*
12642 TCTTGATTTTCTTGAAAATAAGAAAGTGAA
1 TCTTGATTTTCTTGAAAATAACAAAGTGAA
12672 TCTTGATTTTCTTGAAAATAACAAAGTGAA
1 TCTTGATTTTCTTGAAAATAACAAAGTGAA
12702 TCTTGATTTTCTT
1 TCTTGATTTTCTT
12715 TTTCGATCAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.34, C:0.10, G:0.14, T:0.42
Consensus pattern (30 bp):
TCTTGATTTTCTTGAAAATAACAAAGTGAA
Found at i:20945 original size:50 final size:50
Alignment explanation
Indices: 20835--20986 Score: 162
Period size: 50 Copynumber: 3.0 Consensus size: 50
20825 ACTAATGGAT
* ** * *
20835 TACTAAATGCATGACTTGATTTAAAGATGCAAACTTTAACTAACATGAGAGT
1 TACTTAATGCATGACAAGATTT-ATGATGCAAA-TTTAACTAACATGAGAGC
* * *
20887 TACATAATGCATGACAGGATTTATGATGCATATTTAACTAACATGTA-AGC
1 TACTTAATGCATGACAAGATTTATGATGCAAATTTAACTAACATG-AGAGC
* * *
20937 TACTTAATGCATGTCAATATTTATGATGCAAACTTAACTAATCATGAGAG
1 TACTTAATGCATGACAAGATTTATGATGCAAATTTAACTAA-CATGAGAG
20987 TTAATGGATG
Statistics
Matches: 84, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
50 51 0.61
51 15 0.18
52 18 0.21
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.32
Consensus pattern (50 bp):
TACTTAATGCATGACAAGATTTATGATGCAAATTTAACTAACATGAGAGC
Found at i:25785 original size:20 final size:20
Alignment explanation
Indices: 25760--25799 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
25750 TCAAAGACCA
25760 AAACTAGTTT-ACCAAATGAC
1 AAACTA-TTTAACCAAATGAC
25780 AAACTATTTAGACCAAATGA
1 AAACTATTTA-ACCAAATGA
25800 TACGATTTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 3 0.17
20 6 0.33
21 9 0.50
ACGTcount: A:0.47, C:0.17, G:0.10, T:0.25
Consensus pattern (20 bp):
AAACTATTTAACCAAATGAC
Found at i:25800 original size:214 final size:215
Alignment explanation
Indices: 25224--25873 Score: 878
Period size: 216 Copynumber: 3.0 Consensus size: 215
25214 GGGCTGTTAC
* *
25224 ACTAAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTATGTCCAAGAACCAAGAGA
1 ACTAAAGTTATAAAAGAACTCGTAAAAGTTTGTCAAGTTCGAAAGTTTGTCCAAGAA-CAAGAGA
* * * *
25289 GAAACAATTCTCACGTAAAAAAATTTTTAATTCAAAGACCAAAAGTAGTTTACAAAATGACAAAC
65 GAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTAGTTTACCAAATGACAAAC
* * * *
25354 TATTTAGACCAAATGATGCGATTTCCTGAGCATGGAAAGTTC-AGAAAATATCTCA-AAGAAATG
130 TATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGA-AAAATAGCT-AGAAGGAATG
* * * * *
25417 TATCTTCTTGAATATTTTATGGA
193 GATCATCATGAATAATTTAAGGA
* * * * **
25440 ACTGAAGTTATAGAAGAACTCGTAAAAGTTTGTTAAGTTCGAAAGTTCGTCCAAGATTTAAGAGA
1 ACTAAAGTTATAAAAGAACTCGTAAAAGTTTGTCAAGTTCGAAAGTTTGTCCAAGA-ACAAGAGA
* * *
25505 GAAACAATTCTCATGTAAATAAGTTTTTCATTCAAAGACCAAAAGTTA-TTTACCAAATGACAAA
65 GAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAA-CTAGTTTACCAAATGACAAA
* * *
25569 CTATTTAGACAAAATGATGTGATTTCCCGATCATGGAATGTTCGAAAAATAGCTAGAAGGAATGG
129 CTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAATAGCTAGAAGGAATGG
*
25634 ATCATCATGAATACTTTAAGGA
194 ATCATCATGAATAATTTAAGGA
* *
25656 ACTAAAGTTTTAAAAGAACTCGTAAACA-TTCGTCAAGTTCGAAAGTTTGTCCAAGAACAA-AGA
1 ACTAAAGTTATAAAAGAACTCGTAAA-AGTTTGTCAAGTTCGAAAGTTTGTCCAAGAACAAGAGA
25719 GAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTAGTTTACCAAATGACAAAC
65 GAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTAGTTTACCAAATGACAAAC
* * * * *
25784 TATTTAGACCAAATGATACGATTTCCCGAGCATGGAATGTTCGAAAAGTTGCTCGAATGAATGGA
130 TATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAATAGCTAGAAGGAATGGA
* *
25849 TCATCATTAATAATTTAATGA
195 TCATCATGAATAATTTAAGGA
25870 ACTA
1 ACTA
25874 TTTAGACAAA
Statistics
Matches: 380, Mismatches: 48, Indels: 14
0.86 0.11 0.03
Matches are distributed among these distances:
213 2 0.01
214 141 0.37
215 3 0.01
216 230 0.61
217 4 0.01
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.28
Consensus pattern (215 bp):
ACTAAAGTTATAAAAGAACTCGTAAAAGTTTGTCAAGTTCGAAAGTTTGTCCAAGAACAAGAGAG
AAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTAGTTTACCAAATGACAAACT
ATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAATAGCTAGAAGGAATGGAT
CATCATGAATAATTTAAGGA
Found at i:25989 original size:123 final size:123
Alignment explanation
Indices: 25754--25994 Score: 347
Period size: 123 Copynumber: 2.0 Consensus size: 123
25744 TTTAATTCAA
* *
25754 AGACCAAAACTAGTTTACCAAATGACAAACTATTTAGACCAAATGATACGATTTCCCGAGCATGG
1 AGACAAAAACTAGTTTACCAAATGACAAACTATTTAGACAAAATGATACGATTTCCCGAGCATGG
* * * * * *
25819 AATGTTCGAAAAGTTGCTCGAATGAATGGATCATCATTAATAATTTAATGAACTATTT
66 AATGTTCAAAAAATTGCTCGAAGGAATAGATCATCATGAATAATTTAAGGAACTATTT
* * * *
25877 AGACAAAAAGTAGTTTACCAAATGACAAACTATTTAGATAAAATGATGCGATTTCCCGAGCATTG
1 AGACAAAAACTAGTTTACCAAATGACAAACTATTTAGACAAAATGATACGATTTCCCGAGCATGG
** *
25942 AATGTTCAAAAAATTGCTCGAAGGAATAGATTTTCATGAATACTTTAAGGAAC
66 AATGTTCAAAAAATTGCTCGAAGGAATAGATCATCATGAATAATTTAAGGAAC
25995 CGAAAGAACT
Statistics
Matches: 103, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
123 103 1.00
ACGTcount: A:0.40, C:0.15, G:0.16, T:0.29
Consensus pattern (123 bp):
AGACAAAAACTAGTTTACCAAATGACAAACTATTTAGACAAAATGATACGATTTCCCGAGCATGG
AATGTTCAAAAAATTGCTCGAAGGAATAGATCATCATGAATAATTTAAGGAACTATTT
Found at i:26161 original size:331 final size:331
Alignment explanation
Indices: 25540--26180 Score: 923
Period size: 331 Copynumber: 1.9 Consensus size: 331
25530 TTTCATTCAA
* * *
25540 AGACCAAAAGTTATTTACCAAATGACAAACTATTTAGACAAAATGATGTGATTTCCCGATCATGG
1 AGACAAAAAGTTATTTACCAAATGACAAACTATTTAGACAAAATGATGCGATTTCCCGAGCATGG
* *
25605 AATGTTCGAAAAATAGCTAGAAGGAATGGATCATCATGAATACTTTAAGGAACTAAAGTTTTAAA
66 AATGTTCAAAAAATAGCTAGAAGGAATAGATCATCATGAATACTTTAAGGAAC--AAG---T-AA
* *
25670 AGAACTCGTAAACATTCGTCAAGTTCGAAAGTTTGTCCAAGAACAAAGAGAAACAATTCTCACGT
125 AGAACTCGTAAACATTCGTCAAGTTCGAAAATTCGTCCAAGAACAAAGAGAAACAATTCTCACGT
* * * *
25735 AAATAAGTTTTTAATTCAAAGACCAAAACTAGTTTACCAAATGACAAACTATTTAGACCAAATGA
190 AAATAAGTTGTTAATTCAAAGACCAAAACTAGTTTACAAAATGACAAACTATTTACACAAAATGA
*
25800 TACGATTTCCCGAGCATGGAATGTTCG-AAAAGTTGCTCGAATGAATGGATCATCATTAATAATT
255 TACGATTTCCCGAGCATGGAATGTTCGAAAAAG-TGCTCGAAGGAATGGATCATCATTAATAATT
25864 TAATGAACTATTT
319 TAATGAACTATTT
* *
25877 AGACAAAAAG-TAGTTTACCAAATGACAAACTATTTAGATAAAATGATGCGATTTCCCGAGCATT
1 AGACAAAAAGTTA-TTTACCAAATGACAAACTATTTAGACAAAATGATGCGATTTCCCGAGCATG
* * ** *
25941 GAATGTTCAAAAAATTGCTCGAAGGAATAGATTTTCATGAATACTTTAAGGAAC-CG-AAAGAAC
65 GAATGTTCAAAAAATAGCTAGAAGGAATAGATCATCATGAATACTTTAAGGAACAAGTAAAGAAC
**
26004 TCGTAAA-ATTTTTCCAAGTTCGAAAATTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAA
130 TCGTAAACATTCGT-CAAGTTCGAAAATTCGTCCAAGAA-CAA-AGAGAAACAATTCTCACGTAA
* * * *
26068 ATAAGTTGTTAATTCAAAGGCCAAAAGTTGTTTACAAAATGACAAACTATTTACACAAAATGATG
192 ATAAGTTGTTAATTCAAAGACCAAAACTAGTTTACAAAATGACAAACTATTTACACAAAATGATA
26133 CGATTTCCCGAGCATGGAATGTTCGAAAAAGTGCTCGAAGGAATGGAT
257 CGATTTCCCGAGCATGGAATGTTCGAAAAAGTGCTCGAAGGAATGGAT
26181 TGTCATGAAT
Statistics
Matches: 274, Mismatches: 25, Indels: 16
0.87 0.08 0.05
Matches are distributed among these distances:
328 4 0.01
329 36 0.13
330 3 0.01
331 119 0.43
332 5 0.02
334 1 0.00
336 2 0.01
337 104 0.38
ACGTcount: A:0.41, C:0.15, G:0.17, T:0.27
Consensus pattern (331 bp):
AGACAAAAAGTTATTTACCAAATGACAAACTATTTAGACAAAATGATGCGATTTCCCGAGCATGG
AATGTTCAAAAAATAGCTAGAAGGAATAGATCATCATGAATACTTTAAGGAACAAGTAAAGAACT
CGTAAACATTCGTCAAGTTCGAAAATTCGTCCAAGAACAAAGAGAAACAATTCTCACGTAAATAA
GTTGTTAATTCAAAGACCAAAACTAGTTTACAAAATGACAAACTATTTACACAAAATGATACGAT
TTCCCGAGCATGGAATGTTCGAAAAAGTGCTCGAAGGAATGGATCATCATTAATAATTTAATGAA
CTATTT
Found at i:26310 original size:216 final size:215
Alignment explanation
Indices: 25877--28169 Score: 2556
Period size: 216 Copynumber: 10.6 Consensus size: 215
25867 TGAACTATTT
* * * ** *
25877 AGACAAAAAGTAGTTTACCAAATGACAAACTATTTAGATAAAATGATGCGATTTCCCGAGCATTG
1 AGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGG
* * ** *
25942 AATGTTCAAAAAATTGCTCGAAGGAATAGATTTTCATGAATACTTTAAGGAAC---CG-----AA
66 AATGTTCGAAAAATTGCTCGAAGGAATGGATCGTCATGAATACTTTAAGGAACTGAAGTTATAAA
* * *
25999 AGAACTCGTAAAATTTTTCCAAGTTCGAAAATTCGTCCAAGAACCAAGAGAGAAACAATTCTCAC
131 AGAACTCGTAAAAGTTTGCCAAGTTAG-AAATTCGTCCAAGAACCAAGAGAGAAACAATTCTCAC
*
26064 GTAAATAAGTTGTTAATTCAA
195 GTAAATAAGTTTTTAATTCAA
* * *
26085 AGGCCAAAAGTTGTTTACAAAATGACAAACTATTTACACAAAATGATGCGATTTCCCGAGCATGG
1 AGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGG
* * * * *
26150 AATGTTCGAAAAAGTGCTCGAAGGAATGGATTGTCATGAATGCTTTAACGAA-TCGAAGTTATAG
66 AATGTTCGAAAAATTGCTCGAAGGAATGGATCGTCATGAATACTTTAAGGAACT-GAAGTTATAA
* ** * **
26214 AAGAACTCGTAAAACTTTGTAAAGTTAGGAAATTCGTCTAAGATGCAAGAGAGAAACAATTCTCA
130 AAGAACTCGTAAAAGTTTGCCAAGTTA-GAAATTCGTCCAAGAACCAAGAGAGAAACAATTCTCA
26279 CGTAAATAAGTTTTTAATTCAA
194 CGTAAATAAGTTTTTAATTCAA
* * * **
26301 AGACCAAAAGTTGTTTACCAAAA-GACAAACTATTTAGACAAAACGATACGATTTCTTGAGCATG
1 AGACCAAAAGTTGTTTA-CAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATG
* * * * * * *
26365 GAATGTTTGGAAAATTGCTCGAAGGAATGGATTGCCATGAATACTTTATGAAACTGAAGTTATTA
65 GAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTCATGAATACTTTAAGGAACTGAAGTTATAA
* * * *
26430 AAGAACTCGTAAAAGTTCGCCAAGTTCGAAAGTTCGTCCAAGAACCAAGAGTGAAATAATTCTCA
130 AAGAACTCGTAAAAGTTTGCCAAGTTAGAAA-TTCGTCCAAGAACCAAGAGAGAAACAATTCTCA
* **** **
26495 TGT-AATCCAAG-AACCAAGAGCGAA
194 CGTAAAT--AAGTTTTTAA-TTC-AA
* * * *
26519 ATA--AATAAGTCTTTAATTCAAAGACCAAAACTTGTTTACAAAATAACAAACTATTTAGACCAA
1 AGACCAA-AAGT-TGT--TT-----A-CAAAA--TG---AC---A-AAC-TA-T-TTA-GACCAA
* * * *
26582 AGGATGCGATTTCCTGAGCATGGAATGTTCGACAAATTGCTCGAAGGAATGGATCGTCATGACTA
43 ATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTCATGAATA
* * * * * * *
26647 CTTTAAGGAACTAAAGTTAAAAAAGAACTTGTAAAAGTTTGCCAAGTTCGGAAGTTCTTCTAA-A
108 CTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAGTTTGCCAAGTT-AGAAATTCGTCCAAGA
* * * *
26711 AGCCAAGAGGGAAAAAATTCTCAAGTAAATAAGTTTTTAATTCAT
172 A-CCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAA
* *
26756 AGACCAAAAGTTGTTTACAAAATGACAAATTATTTAGACCAAATGATGCGATTTCTCGAGCATGG
1 AGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGG
* * * * * * *
26821 AATGTT-AAGAAAATTGTTCAAAGGAATGGATCATCATGAATAATTTAACGAACTGAAGTTTTAA
66 AATGTTCGA-AAAATTGCTCGAAGGAATGGATCGTCATGAATACTTTAAGGAACTGAAGTTAT-A
* * * *
26885 AAAGAACTCGTAAAA-TTTGCCAAGTTCGGAAGTTCGTCCAAGAACAAAGAGCGAAACAATTCTC
129 AAAGAACTCGTAAAAGTTTGCCAAGTT-AGAAATTCGTCCAAGAACCAAGAGAGAAACAATTCTC
*
26949 ACGTAAATTAGTTTTTAATTCAA
193 ACGTAAATAAGTTTTTAATTCAA
* * * * *
26972 AGACCAAAAGTTGTTTACAAAATGACAAACTAATTAAACTAAATGATGTGGTTTCCCGAGCATGG
1 AGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGG
* * * * * * * *
27037 AATGTTCGGAAAGTTACTCGAAGGAACGAACCGTCATGAATAATTTAATGAACTGAAGTTATAAA
66 AATGTTCGAAAAATTGCTCGAAGGAATGGATCGTCATGAATACTTTAAGGAACTGAAGTTATAAA
* * *
27102 AGAAATCGTAAAAGTTTGCCAAGTTCA-AAAGTTCATCCAAGAACCAAGAGCGAAACAATTCTCA
131 AGAACTCGTAAAAGTTTGCCAAGTT-AGAAA-TTCGTCCAAGAACCAAGAGAGAAACAATTCTCA
27166 CGTAAATAAGTTTTTAATTCAA
194 CGTAAATAAGTTTTTAATTCAA
* * * **
27188 AGAGCAAAAGTTTTTTTCAAAATGACAAACTATTTAGACCAAATGATGCGATTTTTCGAGCATGG
1 AGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGG
* * * * *
27253 AATGGTCGAAAAATTGCTCGAAGGAATGGATTGTCATGAAAACTTTAAAGAACTGAAGTTATAGA
66 AATGTTCGAAAAATTGCTCGAAGGAATGGATCGTCATGAATACTTTAAGGAACTGAAGTTATAAA
* * * *
27318 AGAACTCGTAAAAGTTTGTCAAGTTCAGAAGTTCGTCCAAGATCCAAGAGAGAAACAATTAT-AC
131 AGAACTCGTAAAAGTTTGCCAAGTT-AGAAATTCGTCCAAGAACCAAGAGAGAAACAATTCTCAC
*
27382 GTAAATAAGTTTTTTATTCAA
195 GTAAATAAGTTTTTAATTCAA
* * * *
27403 AGACCAAAAGTTGTTTACCAAATGAGAAACAATTTAGACAAAATGATGCGATTTCCCGAGCATGG
1 AGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGG
* * ** *
27468 AATGTTCGGAAAATTGCTCGAAGGAATGGATTGTCATGAATACTTTAAGGAACCAAAGTTATAGA
66 AATGTTCGAAAAATTGCTCGAAGGAATGGATCGTCATGAATACTTTAAGGAACTGAAGTTATAAA
* * * * *
27533 AGAACTCGTAAAAGTTTGCCAACTTCAGAAGTTCATCCAAGATCCAAGAGAGAAACAATTCTTAC
131 AGAACTCGTAAAAGTTTGCCAAGTT-AGAAATTCGTCCAAGAACCAAGAGAGAAACAATTCTCAC
*
27598 GTAAATATGTTTTTAATTCAA
195 GTAAATAAGTTTTTAATTCAA
* *
27619 AGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGATTTCCCGAGCATAG
1 AGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGG
* * * *
27684 AATGTTCAAAAAATTGCTAGAAGGAATGGATTGTCATGAATACTTTAAGGAACTAAAGTTATAAA
66 AATGTTCGAAAAATTGCTCGAAGGAATGGATCGTCATGAATACTTTAAGGAACTGAAGTTATAAA
* * * * * *
27749 AGAACTCATAAAAGTTTGACAAGTTTAGAATTTCATCCAAGAACCAAGAGAGAATCAATTCTTAC
131 AGAACTCGTAAAAGTTTGCCAAG-TTAGAAATTCGTCCAAGAACCAAGAGAGAAACAATTCTCAC
27814 GTAAATAAGTTTTTAATTCAA
195 GTAAATAAGTTTTTAATTCAA
* * * *
27835 AGACCAAAAGTTGTTTACCATATGACAAACTATTTAAACCAAATGATGCGAATTT-TCGAGCATG
1 AGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCG-ATTTCCCGAGCATG
* * **
27899 GAATGTTCGAAAAATTGCTAGTAGGAATGGATCGTGTTGAATACTTTAAGGAACTGAAGTTATAA
65 GAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTCATGAATACTTTAAGGAACTGAAGTTATAA
* *
27964 AAGAACTCGTAAAAGTTTGACAAGTTCGAAATTTCGTCCAAGAACCAAGAGAGAAACAATTCTCA
130 AAGAACTCGTAAAAGTTTGCCAAGTTAGAAA-TTCGTCCAAGAACCAAGAGAGAAACAATTCTCA
28029 CGTAAATAAGTTTTTAATTCAA
194 CGTAAATAAGTTTTTAATTCAA
* * * * * * * *
28051 AGACCAAAACTAGTTAACCAAATGGCAAACTATTTAGACCAAATGATACGATTTCCCGTGCATAG
1 AGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGG
* * * * *
28116 AATGTTTGAAAAGTTGCTCGAAGTAATGGATCGTCATGAATAATTTAACGAACT
66 AATGTTCGAAAAATTGCTCGAAGGAATGGATCGTCATGAATACTTTAAGGAACT
28170 ATTTAGACAA
Statistics
Matches: 1776, Mismatches: 251, Indels: 108
0.83 0.12 0.05
Matches are distributed among these distances:
208 104 0.06
211 1 0.00
215 229 0.13
216 1202 0.68
217 42 0.02
218 7 0.00
219 1 0.00
220 4 0.00
221 1 0.00
224 2 0.00
225 7 0.00
227 2 0.00
228 1 0.00
229 5 0.00
230 1 0.00
231 2 0.00
234 1 0.00
235 5 0.00
236 1 0.00
237 6 0.00
238 12 0.01
239 134 0.08
240 6 0.00
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.27
Consensus pattern (215 bp):
AGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGG
AATGTTCGAAAAATTGCTCGAAGGAATGGATCGTCATGAATACTTTAAGGAACTGAAGTTATAAA
AGAACTCGTAAAAGTTTGCCAAGTTAGAAATTCGTCCAAGAACCAAGAGAGAAACAATTCTCACG
TAAATAAGTTTTTAATTCAA
Found at i:26719 original size:239 final size:239
Alignment explanation
Indices: 26281--26738 Score: 652
Period size: 239 Copynumber: 1.9 Consensus size: 239
26271 AATTCTCACG
* * *
26281 TAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACCAAAAGACAAACTATTTAGACAAAACG
1 TAAATAAGTCTTTAATTCAAAGACCAAAACTTGTTTACCAAAAAACAAACTATTTAGACAAAACG
* * *
26346 ATACGATTTCTTGAGCATGGAATGTTTGGAAAATTGCTCGAAGGAATGGATTGCCATGAATACTT
66 ATACGATTTCCTGAGCATGGAATGTTTCGAAAATTGCTCGAAGGAATGGATCGCCATGAATACTT
* * **
26411 TATGAAACTGAAGTTATTAAAGAACTCGTAAAAGTTCGCCAAGTTCGAAAGTTCGTCCAAGAACC
131 TAAGAAACTAAAGTTAAAAAAGAACTCGTAAAAGTTCGCCAAGTTCGAAAGTTCGTCCAAGAACC
* * *
26476 AAGAGTGAAATAATTCTCATGTAATCCAAGAACCAAGAGCGAAA
196 AAGAGGGAAAAAATTCTCAAGTAATCCAAGAACCAAGAGCGAAA
* *
26520 TAAATAAGTCTTTAATTCAAAGACCAAAACTTGTTTA-CAAAATAACAAACTATTTAGACCAAAG
1 TAAATAAGTCTTTAATTCAAAGACCAAAACTTGTTTACCAAAA-AACAAACTATTTAGACAAAAC
* * *
26584 GATGCGATTTCCTGAGCATGGAATG-TTCGACAAATTGCTCGAAGGAATGGATCGTCATGACTAC
65 GATACGATTTCCTGAGCATGGAATGTTTCGA-AAATTGCTCGAAGGAATGGATCGCCATGAATAC
* * * * * *
26648 TTTAAGGAACTAAAGTTAAAAAAGAACTTGTAAAAGTTTGCCAAGTTCGGAAGTTCTTCTAA-AA
129 TTTAAGAAACTAAAGTTAAAAAAGAACTCGTAAAAGTTCGCCAAGTTCGAAAGTTCGTCCAAGAA
26712 GCCAAGAGGGAAAAAATTCTCAAGTAA
194 -CCAAGAGGGAAAAAATTCTCAAGTAA
26739 ATAAGTTTTT
Statistics
Matches: 192, Mismatches: 24, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
238 11 0.06
239 181 0.94
ACGTcount: A:0.41, C:0.15, G:0.18, T:0.26
Consensus pattern (239 bp):
TAAATAAGTCTTTAATTCAAAGACCAAAACTTGTTTACCAAAAAACAAACTATTTAGACAAAACG
ATACGATTTCCTGAGCATGGAATGTTTCGAAAATTGCTCGAAGGAATGGATCGCCATGAATACTT
TAAGAAACTAAAGTTAAAAAAGAACTCGTAAAAGTTCGCCAAGTTCGAAAGTTCGTCCAAGAACC
AAGAGGGAAAAAATTCTCAAGTAATCCAAGAACCAAGAGCGAAA
Found at i:28053 original size:863 final size:868
Alignment explanation
Indices: 25877--28169 Score: 2878
Period size: 863 Copynumber: 2.6 Consensus size: 868
25867 TGAACTATTT
* * * ** *
25877 AGACAAAAAGTAGTTTACCAAATGACAAACTATTTAGATAAAATGATGCGATTTCCCGAGCATTG
1 AGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATAG
* * * *
25942 AATGTTCAAAAAATTGCTCGAAGGAATAGATTTTCATGAATACTTTAAGGAAC--CG----AAAG
66 AATGTTCAAAAAATTGCTAGAAGGAATGGATTATCATGAATACTTTAAGGAACTAAGTTTAAAAG
* *
26001 AACTCGTAAAATTTTTCCAAG-TTCGAAAATTCGTCCAAGAACCAAGAGAGAAACAATTCTCACG
131 AACTCGTAAAA-TTTGCCAAGTTTAG-AAATTCGTCCAAGAACCAAGAGAGAAACAATTCTCACG
* * *
26065 TAAATAAGTTGTTAATTCAAAGGCCAAAAGTTGTTTACAAAATGACAAACTATTTACACAAAATG
194 TAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAAACAAAATG
* * *
26130 ATGCGATTTCCCGAGCATGGAATGTTCGAAAAAGTGCTCGAAGGAATGGATTGTCATGAATGCTT
259 ATGCGATTTCCCGAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTCATGAATACTT
* * * * *
26195 TAACGAA-TCGAAGTTATAGAAGAACTCGTAAAACTTTGTA-AAGTTAGGAAATTCGTCTAAGAT
324 TAACGAACT-GAAGTTATAAAAGAACTCGTAAAAGTTTG-ACAAGTT-CGAAATTCGTCCAAGAA
* *
26258 GCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACCAAA
386 CCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTT-TTTAACAAA
* * *
26323 A-GACAAACTATTTAGACAAAACGATACGATTTCTT-GAGCATGGAATGTTTGGAAAATTGCTCG
450 ATGACAAACTATTTAGACCAAATGATACGATTT-TTCGAGCATGGAATGTTTGAAAAATTGCTCG
* * *
26386 AAGGAATGGATTGCCATGAATACTTT-ATGAAACTGAAGTTATTAAAGAACTCGTAAAAGTTCGC
514 AAGGAATGGATTGTCATGAAAACTTTAAAG-AACTGAAGTTATTAAAGAACTCGTAAAAGTTCGC
*
26450 CAAGTTCGAAAGTTCGTCCAAGAACCAAGAGTGAAATAATTCTCATGTAATCCAAGAACCAAGAG
578 CAAGTTCGAAAGTTCGTCCAAGAACCAAGAG-GAAATAA-TCTAATGTAAT----------A-AG
* *
26515 CGAAATAAATAAGTCTTTAATTCAAAGACCAAAACTTGTTTACAAAATAACAAACTATTTAGACC
630 CG--ATAAATAAGTCTTTAATTCAAAGACCAAAACTTGTTTACAAAATAACAAACAATTTAGACA
* *
26580 AAAGGATGCGATTTCCTGAGCATGGAATGTTCGACAAATTGCTCGAAGGAATGGATCGTCATGAC
693 AAAGGATGCGATTTCCCGAGCATGGAATGTTCGACAAATTGCTCGAAGGAATGGATCGTCATGAA
* * * * * *
26645 TACTTTAAGGAACTAAAGTTAAAAAAGAACTTGTAAAAGTTTGCCAAGTTCGGAAGTTCTTCTAA
758 TACTTTAAGGAACCAAAGTTAAAAAAGAACTCGTAAAAGTTTGCCAACTTCAGAAGTTCATCCAA
* *
26710 AAGCCAAGAGGGAAAAAATTCTCAAGTAAATAAGTTTTTAATTCAT
823 AAGCCAAGAGAGAAAAAATTCTCAAGTAAATAAGTTTTTAATTCAA
* * *
26756 AGACCAAAAGTTGTTTACAAAATGACAAATTATTTAGACCAAATGATGCGATTTCTCGAGCATGG
1 AGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATAG
* * * *
26821 AATGTT-AAGAAAATTGTTCA-AAGGAATGGATCATCATGAATAATTTAACGAACTGAAGTTTTA
66 AATGTTCAA-AAAATTGCT-AGAAGGAATGGATTATCATGAATACTTTAAGGAACT-AAG-TTT-
** * * *
26884 AAAAGAACTCGTAAAATTTGCCAAGTTCGGAAGTTCGTCCAAGAACAAAGAGCGAAACAATTCTC
126 AAAAGAACTCGTAAAATTTGCCAAGTTTAGAAATTCGTCCAAGAACCAAGAGAGAAACAATTCTC
* * *
26949 ACGTAAATTAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTAATTAAACTAA
191 ACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAAACAAA
* * * * * * * *
27014 ATGATGTGGTTTCCCGAGCATGGAATGTTCGGAAAGTTACTCGAAGGAACGAACCGTCATGAATA
256 ATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTCATGAATA
* * * * * *
27079 ATTTAATGAACTGAAGTTATAAAAGAAATCGTAAAAGTTTGCCAAGTTCAAAAGTTCATCCAAGA
321 CTTTAACGAACTGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAA-TTCGTCCAAGA
* * **
27144 ACCAAGAGCGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGAGCAAAAGTTTTTTTCAAA
385 ACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTTTTAACAAA
* * *
27209 ATGACAAACTATTTAGACCAAATGATGCGATTTTTCGAGCATGGAATGGTCGAAAAATTGCTCGA
450 ATGACAAACTATTTAGACCAAATGATACGATTTTTCGAGCATGGAATGTTTGAAAAATTGCTCGA
* *
27274 AGGAATGGATTGTCATGAAAACTTTAAAGAACTGAAGTTA-TAGAAGAACTCGTAAAAGTTTGTC
515 AGGAATGGATTGTCATGAAAACTTTAAAGAACTGAAGTTATTA-AAGAACTCGTAAAAGTTCGCC
* * *
27338 AAGTTC-AGAAGTTCGTCCAAGATCCAAGA-GAGA-AA-C-AAT-T-AT-A-CG-TAAATAAGTT
579 AAGTTCGA-AAGTTCGTCCAAGAACCAAGAGGAAATAATCTAATGTAATAAGCGATAAATAAGTC
* * * * * *
27393 TTTTATTCAAAGACCAAAAGTTGTTTACCAAATGAGAAACAATTTAGACAAAATGATGCGATTTC
643 TTTAATTCAAAGACCAAAACTTGTTTACAAAATAACAAACAATTTAGACAAAAGGATGCGATTTC
*
27458 CCGAGCATGGAATGTTCGGA-AAATTGCTCGAAGGAATGGATTGTCATGAATACTTTAAGGAACC
708 CCGAGCATGGAATGTTC-GACAAATTGCTCGAAGGAATGGATCGTCATGAATACTTTAAGGAACC
* * * *
27522 AAAGTTATAGAAGAACTCGTAAAAGTTTGCCAACTTCAGAAGTTCATCCAAGATCCAAGAGAGAA
772 AAAGTTAAAAAAGAACTCGTAAAAGTTTGCCAACTTCAGAAGTTCATCCAAAAGCCAAGAGAGAA
* * * *
27587 ACAATTCTTACGTAAATATGTTTTTAATTCAA
837 AAAATTCTCAAGTAAATAAGTTTTTAATTCAA
*
27619 AGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGATTTCCCGAGCATAG
1 AGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATAG
*
27684 AATGTTCAAAAAATTGCTAGAAGGAATGGATTGTCATGAATACTTTAAGGAACTAAAGTTATAAA
66 AATGTTCAAAAAATTGCTAGAAGGAATGGATTATCATGAATACTTTAAGGAACT-AAGTT-TAAA
* * * * * *
27749 AGAACTCATAAAAGTTTGACAAGTTTAGAATTTCATCCAAGAACCAAGAGAGAATCAATTCTTAC
129 AGAACTCGTAAAA-TTTGCCAAGTTTAGAAATTCGTCCAAGAACCAAGAGAGAAACAATTCTCAC
* * *
27814 GTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACCATATGACAAACTATTTAAACCAAAT
193 GTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAAACAAAAT
* * * **
27879 GATGCGAATTT-TCGAGCATGGAATGTTCGAAAAATTGCTAGTAGGAATGGATCGTGTTGAATAC
258 GATGCG-ATTTCCCGAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTCATGAATAC
*
27943 TTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAATTTCGTCCAAGAA
322 TTTAACGAACTGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAA-TTCGTCCAAGAA
* ** *
28008 CCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTAGTTAACCAAA
386 CCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTTTTAACAAAA
* ** * * *
28073 TGGCAAACTATTTAGACCAAATGATACGATTTCCCGTGCATAGAATGTTTGAAAAGTTGCTCGAA
451 TGACAAACTATTTAGACCAAATGATACGATTTTTCGAGCATGGAATGTTTGAAAAATTGCTCGAA
* * *
28138 GTAATGGATCGTCATGAATAA-TTTAACGAACT
516 GGAATGGATTGTCATGAA-AACTTTAAAGAACT
28170 ATTTAGACAA
Statistics
Matches: 1225, Mismatches: 162, Indels: 70
0.84 0.11 0.05
Matches are distributed among these distances:
862 18 0.01
863 660 0.54
864 9 0.01
866 2 0.00
867 1 0.00
878 2 0.00
879 101 0.08
880 1 0.00
881 2 0.00
882 2 0.00
884 2 0.00
885 3 0.00
886 16 0.01
887 386 0.32
888 20 0.02
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.27
Consensus pattern (868 bp):
AGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATAG
AATGTTCAAAAAATTGCTAGAAGGAATGGATTATCATGAATACTTTAAGGAACTAAGTTTAAAAG
AACTCGTAAAATTTGCCAAGTTTAGAAATTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTA
AATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAAACAAAATGAT
GCGATTTCCCGAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTCATGAATACTTTA
ACGAACTGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAATTCGTCCAAGAACCAAG
AGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTTTTAACAAAATGACA
AACTATTTAGACCAAATGATACGATTTTTCGAGCATGGAATGTTTGAAAAATTGCTCGAAGGAAT
GGATTGTCATGAAAACTTTAAAGAACTGAAGTTATTAAAGAACTCGTAAAAGTTCGCCAAGTTCG
AAAGTTCGTCCAAGAACCAAGAGGAAATAATCTAATGTAATAAGCGATAAATAAGTCTTTAATTC
AAAGACCAAAACTTGTTTACAAAATAACAAACAATTTAGACAAAAGGATGCGATTTCCCGAGCAT
GGAATGTTCGACAAATTGCTCGAAGGAATGGATCGTCATGAATACTTTAAGGAACCAAAGTTAAA
AAAGAACTCGTAAAAGTTTGCCAACTTCAGAAGTTCATCCAAAAGCCAAGAGAGAAAAAATTCTC
AAGTAAATAAGTTTTTAATTCAA
Found at i:28082 original size:20 final size:21
Alignment explanation
Indices: 28057--28095 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
28047 TCAAAGACCA
28057 AAACTAGTTA-ACCAAATGGC
1 AAACTAGTTAGACCAAATGGC
*
28077 AAACTATTTAGACCAAATG
1 AAACTAGTTAGACCAAATG
28096 ATACGATTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.46, C:0.18, G:0.13, T:0.23
Consensus pattern (21 bp):
AAACTAGTTAGACCAAATGGC
Found at i:28280 original size:123 final size:123
Alignment explanation
Indices: 28051--28292 Score: 304
Period size: 123 Copynumber: 2.0 Consensus size: 123
28041 TTTAATTCAA
* * * * *
28051 AGACCAAAACTAGTTAACCAAATGGCAAACTATTTAGACCAAATGATACGATTTCCCGTGCATAG
1 AGACAAAAACTAGTTAACCAAATGACAAAATATTTAGACAAAATGATACGATTTCCCGAGCATAG
* * * *
28116 AATGTTTGAAAAGTTGCTCGAAGTAATGGATCGTCATGAATAATTTAACGAACTATTT
66 AATGTTCGAAAAATTGCTCGAAGGAATGAATCGTCATGAATAATTTAACGAACTATTT
* * * * ** * *
28174 AGACAAAAAGTAGTTTAGCAAATGACAAAATATTTAGATAAAATGATGTGATTTCTCGAGCATTG
1 AGACAAAAACTAGTTAACCAAATGACAAAATATTTAGACAAAATGATACGATTTCCCGAGCATAG
* * *
28239 AATGTTCGAAAAATTGCTCGAAGGAATGAATTGTCATGAATACTTTAAGGAACT
66 AATGTTCGAAAAATTGCTCGAAGGAATGAATCGTCATGAATAATTTAACGAACT
28293 GAAGTTATAA
Statistics
Matches: 99, Mismatches: 20, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
123 99 1.00
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.29
Consensus pattern (123 bp):
AGACAAAAACTAGTTAACCAAATGACAAAATATTTAGACAAAATGATACGATTTCCCGAGCATAG
AATGTTCGAAAAATTGCTCGAAGGAATGAATCGTCATGAATAATTTAACGAACTATTT
Found at i:30572 original size:71 final size:73
Alignment explanation
Indices: 30447--30589 Score: 209
Period size: 71 Copynumber: 1.9 Consensus size: 73
30437 AATATATCTT
30447 GTTTGAAATCAAACTAATTAAAAAGAAAAAGAAAAGAAAGGTAACTCAAATTACAGTACAAATTA
1 GTTTGAAATCAAACTAATT---AAGAAAAAG-AAAGAAAGGTAACTCAAATTACAGTACAAATTA
30512 GACTTAATCTGG
62 GACTTAATCTGG
* * *
30524 GTTTGAAATCAAATTAATT-AGAAAAAG-AAGAAAGGTAACTCAATTTACAGTACCAATTAGACT
1 GTTTGAAATCAAACTAATTAAGAAAAAGAAAGAAAGGTAACTCAAATTACAGTACAAATTAGACT
30587 TAA
66 TAA
30590 ACTAGATTAA
Statistics
Matches: 63, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
71 37 0.59
73 8 0.13
77 18 0.29
ACGTcount: A:0.50, C:0.10, G:0.14, T:0.25
Consensus pattern (73 bp):
GTTTGAAATCAAACTAATTAAGAAAAAGAAAGAAAGGTAACTCAAATTACAGTACAAATTAGACT
TAATCTGG
Done.