Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002779.1 Hibiscus syriacus cultivar Beakdansim tig00005726_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: 54810
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.34
Found at i:2684 original size:18 final size:19
Alignment explanation
Indices: 2649--2685 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
2639 CACGGAATGT
2649 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
2669 AAGATTACCA-GGGAATA
1 AAGATTACCAGGGGAATA
2686 GGATTACTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:7288 original size:275 final size:277
Alignment explanation
Indices: 6947--8042 Score: 1626
Period size: 275 Copynumber: 4.0 Consensus size: 277
6937 TCTTAGAATT
* * *
6947 ATCGTTAATTTTTTAACGAAATCAATAAT-A-ATTATAAAAAATAAATATCACAATAAAAAATAA
1 ATCGTTAA-ATTTCAACGAAATCAATAATAATATTATAAAAAATAAATATCAAAAT-AAAAATAA
7010 TAATAGTTTGATAAGTATTAAAATAATTGGATAAATTACATATTTAATACCTAAATT-TTATTTT
64 TAATAGTTTGATAAGTATTAAAATAATTGGATAAATTACATATTTAATACCTAAATTATT-TTTT
* *
7074 TATTCTATTTCAGGACTCAAACTTTATTTTTTAAATCACATCTAACATTTATTTTAGGTTACAAT
128 TATTCTATTTCAGTACTCAAACTTTATTTTTTAAATCACAACTAACATTTATTTTAGGTTACAAT
7139 TTGGTACCCACTGTT-AAAAATTAATAGAATTGCTGACGTGATAATTTTTTTATTTTTCCAATGA
193 TTGGTACCCACTGTTAAAAAATTAATAGAATTGCTGACGTGATAATTTTTTTATTTTTCCAATGA
*
7203 TAATATGACATTACCTTATG
258 TGATATGACATTACCTTATG
7223 ATCGTTAAATTTCAACGAAATCAATAATAATATTAT-AAAAATAAATATCAAAATAAAAATAATA
1 ATCGTTAAATTTCAACGAAATCAATAATAATATTATAAAAAATAAATATCAAAATAAAAATAATA
* *
7287 ATAGTTTGATAAGTATTAAAATAATTGGATAAATTTCTTATTTAATACCTAAATTATTATTTTTA
66 ATAGTTTGATAAGTATTAAAATAATTGGATAAATTACATATTTAATACCTAAATTATT-TTTTTA
* * * *
7352 TTCTATTTTAGTACTCAAACTTTATTTTTAAAATCACAACTTACATTAATTTTAGGTTACAATTT
130 TTCTATTTCAGTACTCAAACTTTATTTTTTAAATCACAACTAACATTTATTTTAGGTTACAATTT
* * *
7417 GGT--CCACTGTTAAAAAATTAATAAAATTGCTGACGTGATCATTTTTTTATTTTTCTAATGATG
195 GGTACCCACTGTTAAAAAATTAATAGAATTGCTGACGTGATAATTTTTTTATTTTTCCAATGATG
7480 -TATGACATTACCTTATG
260 ATATGACATTACCTTATG
*
7497 ATCGTTAAATTTCAACGAAATC---AATAATATTATAAAAAATAAATATCACAATAAAAAAATAA
1 ATCGTTAAATTTCAACGAAATCAATAATAATATTATAAAAAATAAATATCA-AA-ATAAAAATAA
* * * *
7559 TAATAGTTTGATAAGTATTAAAATAATCGAATAATTTTCATATTTAATACCTAAATTATTTTTTT
64 TAATAGTTTGATAAGTATTAAAATAATTGGATAAATTACATATTTAATACCTAAATTATTTTTTT
*
7624 ATTCTATTTTAGTACTCAAACTTTATTTTTTAAATCACAACTAACATTTATTTTAGGTTACAATT
129 ATTCTATTTCAGTACTCAAACTTTATTTTTTAAATCACAACTAACATTTATTTTAGGTTACAATT
* * *
7689 TGGTACCCACTATTAAAAAATTAATAGAATTACTGACGTAATAATTTTTTTTTATTTTTCCAATG
194 TGGTACCCACTGTTAAAAAATTAATAGAATTGCTGACGTGATAA--TTTTTTTATTTTTCCAATG
* *
7754 ATGATATGACATTACTTTATA
257 ATGATATGACATTACCTTATG
*
7775 ATCGTTAATTTTCAACGAAATCAATAATAATATTATAAAAAATAAATATC-AAATAAAAATAATA
1 ATCGTTAAATTTCAACGAAATCAATAATAATATTATAAAAAATAAATATCAAAATAAAAATAATA
* *
7839 ATATTTTGATAAGTATTAAAATGATTGGAT-AATTACATATTTAATACCT--A--A-TTTTTT-T
66 ATAGTTTGATAAGTATTAAAATAATTGGATAAATTACATATTTAATACCTAAATTATTTTTTTAT
* *
7897 TCTATTTCAGTACTCAAACTTTATTTTTTTAAATCACACCTAACATTTATTTTAGGTTTCAATTT
131 TCTATTTCAGTACTCAAACTTTA-TTTTTTAAATCACAACTAACATTTATTTTAGGTTACAATTT
* * * * *
7962 GGTATCCAATGTTAAAAAATTAATAGAATTGTTAACGTGAT-A-CTTTTT-TTTTT-CAATGATG
195 GGTACCCACTGTTAAAAAATTAATAGAATTGCTGACGTGATAATTTTTTTATTTTTCCAATGATG
8023 ATATGACATTACCTTATG
260 ATATGACATTACCTTATG
8041 AT
1 AT
8043 GACATATCAA
Statistics
Matches: 752, Mismatches: 52, Indels: 42
0.89 0.06 0.05
Matches are distributed among these distances:
266 26 0.03
267 5 0.01
268 5 0.01
271 35 0.05
272 93 0.12
273 74 0.10
274 112 0.15
275 162 0.22
276 97 0.13
277 43 0.06
278 73 0.10
279 2 0.00
281 25 0.03
ACGTcount: A:0.41, C:0.10, G:0.07, T:0.42
Consensus pattern (277 bp):
ATCGTTAAATTTCAACGAAATCAATAATAATATTATAAAAAATAAATATCAAAATAAAAATAATA
ATAGTTTGATAAGTATTAAAATAATTGGATAAATTACATATTTAATACCTAAATTATTTTTTTAT
TCTATTTCAGTACTCAAACTTTATTTTTTAAATCACAACTAACATTTATTTTAGGTTACAATTTG
GTACCCACTGTTAAAAAATTAATAGAATTGCTGACGTGATAATTTTTTTATTTTTCCAATGATGA
TATGACATTACCTTATG
Found at i:7644 original size:549 final size:543
Alignment explanation
Indices: 6947--8042 Score: 1697
Period size: 549 Copynumber: 2.0 Consensus size: 543
6937 TCTTAGAATT
* *
6947 ATCGTTAATTTTTTAACGAAATCAATAATAATTATAAAAAATAAATATCACAATAAAAAATAATA
1 ATCGTTAATATTTCAACGAAATCAATAATAATTATAAAAAATAAATATCACAATAAAAAATAATA
* *
7012 ATAGTTTGATAAGTATTAAAATAATTGGATAAATTACATATTTAATACCTAAATTTTATTTTTAT
66 ATAGTTTGATAAGTATTAAAATAATCGAATAAATTACATATTTAATACCTAAATTTTATTTTTAT
*
7077 TCTATTTCAGGACTCAAACTTTATTTTTTAAATCACATCTAACATTTATTTTAGGTTACAATTTG
131 TCTATTTCAGGACTCAAACTTTATTTTTTAAATCACAACTAACATTTATTTTAGGTTACAATTTG
* * *
7142 GTACCCACTGTT-AAAAATTAATAGAATTGCTGACGTGATAA-TTTTTTTATTTTTCCAATGATA
196 GTACCCACTATTAAAAAATTAATAGAATTACTGACGTAATAATTTTTTTTATTTTTCCAATGATA
*
7205 ATATGACATTACCTTATGATCGTTAAATTTCAACGAAATCAATAATAATATTAT-AAAAATAAAT
261 ATATGACATTACCTTATAATCGTTAAATTTCAACGAAATCAATAATAATATTATAAAAAATAAAT
* *
7269 ATCAAAATAAAAATAATAATAGTTTGATAAGTATTAAAATAATTGGATAAATTTCTTATTTAATA
326 ATC-AAATAAAAATAATAATAGTTTGATAAGTATTAAAATAATTGGAT-AATTACATATTTAATA
* *
7334 CCTAAATTATTATTTTTATTCTATTTTAGTACTCAAACTTTA-TTTTTAAAATCACAACTTACAT
389 CCT--A--A-T-TTTTT-TTCTATTTCAGTACTCAAACTTTATTTTTTAAAATCACAACTAACAT
* * *
7398 TAATTTTAGGTTACAATTTGG-TCCACTGTTAAAAAATTAATAAAATTGCTGACGTGATCATTTT
447 TAATTTTAGGTTACAATTTGGATCCAATGTTAAAAAATTAATAAAATTGCTAACGTGAT-A-CTT
7462 TTTATTTTTCTAATGATG-TATGACATTACCTTATG
510 TTT-TTTTTC-AATGATGATATGACATTACCTTATG
7497 ATCGTTAA-ATTTCAACGAAATCAATAAT-ATTATAAAAAATAAATATCACAATAAAAAAATAAT
1 ATCGTTAATATTTCAACGAAATCAATAATAATTATAAAAAATAAATATCACAAT-AAAAAATAAT
* *
7560 AATAGTTTGATAAGTATTAAAATAATCGAATAATTTTCATATTTAATACCTAAATTATT-TTTTT
65 AATAGTTTGATAAGTATTAAAATAATCGAATAAATTACATATTTAATACCTAAATT-TTATTTTT
* *
7624 ATTCTATTTTAGTACTCAAACTTTATTTTTTAAATCACAACTAACATTTATTTTAGGTTACAATT
129 ATTCTATTTCAGGACTCAAACTTTATTTTTTAAATCACAACTAACATTTATTTTAGGTTACAATT
7689 TGGTACCCACTATTAAAAAATTAATAGAATTACTGACGTAATAATTTTTTTTTATTTTTCCAATG
194 TGGTACCCACTATTAAAAAATTAATAGAATTACTGACGTAATAA-TTTTTTTTATTTTTCCAATG
* * *
7754 ATGATATGACATTACTTTATAATCGTTAATTTTCAACGAAATCAATAATAATATTATAAAAAATA
258 ATAATATGACATTACCTTATAATCGTTAAATTTCAACGAAATCAATAATAATATTATAAAAAATA
* *
7819 AATATCAAATAAAAATAATAATATTTTGATAAGTATTAAAATGATTGGATAATTACATATTTAAT
323 AATATCAAATAAAAATAATAATAGTTTGATAAGTATTAAAATAATTGGATAATTACATATTTAAT
* * *
7884 ACCTAATTTTTTTTCTATTTCAGTACTCAAACTTTATTTTTTTAAATCACACCTAACATTTATTT
388 ACCTAATTTTTTTTCTATTTCAGTACTCAAACTTTATTTTTTAAAATCACAACTAACATTAATTT
* * *
7949 TAGGTTTCAATTTGGTATCCAATGTTAAAAAATTAATAGAATTGTTAACGTGATACTTTTTTTTT
453 TAGGTTACAATTTGG-ATCCAATGTTAAAAAATTAATAAAATTGCTAACGTGATACTTTTTTTTT
8014 TCAATGATGATATGACATTACCTTATG
517 TCAATGATGATATGACATTACCTTATG
8041 AT
1 AT
8043 GACATATCAA
Statistics
Matches: 505, Mismatches: 31, Indels: 26
0.90 0.06 0.05
Matches are distributed among these distances:
543 7 0.01
544 48 0.10
545 48 0.10
546 2 0.00
547 34 0.07
548 24 0.05
549 161 0.32
550 37 0.07
551 17 0.03
552 114 0.23
553 13 0.03
ACGTcount: A:0.41, C:0.10, G:0.07, T:0.42
Consensus pattern (543 bp):
ATCGTTAATATTTCAACGAAATCAATAATAATTATAAAAAATAAATATCACAATAAAAAATAATA
ATAGTTTGATAAGTATTAAAATAATCGAATAAATTACATATTTAATACCTAAATTTTATTTTTAT
TCTATTTCAGGACTCAAACTTTATTTTTTAAATCACAACTAACATTTATTTTAGGTTACAATTTG
GTACCCACTATTAAAAAATTAATAGAATTACTGACGTAATAATTTTTTTTATTTTTCCAATGATA
ATATGACATTACCTTATAATCGTTAAATTTCAACGAAATCAATAATAATATTATAAAAAATAAAT
ATCAAATAAAAATAATAATAGTTTGATAAGTATTAAAATAATTGGATAATTACATATTTAATACC
TAATTTTTTTTCTATTTCAGTACTCAAACTTTATTTTTTAAAATCACAACTAACATTAATTTTAG
GTTACAATTTGGATCCAATGTTAAAAAATTAATAAAATTGCTAACGTGATACTTTTTTTTTTCAA
TGATGATATGACATTACCTTATG
Found at i:12590 original size:21 final size:18
Alignment explanation
Indices: 12551--12590 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 18
12541 CCGTTATCAC
12551 TTTGGAAATTTTATAAGT
1 TTTGGAAATTTTATAAGT
12569 TTTGGCAACATTTTACTAAGT
1 TTTGG-AA-ATTTTA-TAAGT
12590 T
1 T
12591 ACTAAGCTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.26
19 2 0.11
20 6 0.32
21 6 0.32
ACGTcount: A:0.30, C:0.07, G:0.15, T:0.47
Consensus pattern (18 bp):
TTTGGAAATTTTATAAGT
Found at i:22937 original size:84 final size:84
Alignment explanation
Indices: 22692--25539 Score: 1962
Period size: 84 Copynumber: 34.4 Consensus size: 84
22682 GAGCCAAAAA
* ** * ** * * *
22692 AAAATTGTCATGAAACTTACTTTTCATATTCCATATGTTTT-AATATATGCCAAGAGAAGG-GGA
1 AAAATTGACATGAAACTTACCCTTCAGATTCCACCT-TTTTCAGTATGTGCCAAGAG-AGGAGAA
* * * ***
22755 CATGGTTGCTAACGAACTCTT
64 CATGGTTGCTGATGAGCTAGC
* * * * **
22776 AAAATTGACATGAAACTTACCTTTCATATTCCACC-ATTTCAATACATGCTCATAGAGA-G-GAA
1 AAAATTGACATGAAACTTACCCTTCAGATTCCACCTTTTTCAGTATGTGC-CA-AGAGAGGAGAA
22838 CATGGTTGCTGATGAGCTAGC
64 CATGGTTGCTGATGAGCTAGC
* * * * * * *
22859 AAAATTGACATGGAATTTATCCTTCAGATTCCACATTTTTCAGTATGTGCCAAGATAGGGGAATA
1 AAAATTGACATGAAACTTACCCTTCAGATTCCACCTTTTTCAGTATGTGCCAAGAGAGGAGAACA
* *
22924 TGGTTGTTGATGAGTTAGC
66 TGGTTGCTGATGAGCTAGC
* * * * * * **
22943 AAAAGTGACATGAAATTTACCCTTTC-GATTTCACATGTTTT-AGTATGTTCCAATAGAAAAGAA
1 AAAATTGACATGAAACTTACCC-TTCAGATTCCACCT-TTTTCAGTATGTGCCAAGAGAGGAGAA
* ** *
23006 TATGGACGCTGACGAGCTAGC
64 CATGGTTGCTGATGAGCTAGC
* * * * * * * * * * *
23027 AAAATTAACATGAAAATTACCCTTTATATTTCACCTATATCAATATGTGCCAGGAGAGGGGAACT
1 AAAATTGACATGAAACTTACCCTTCAGATTCCACCTTTTTCAGTATGTGCCAAGAGAGGAGAACA
**
23092 TGGTTGCTGATGAATTAGC
66 TGGTTGCTGATGAGCTAGC
* * * * * * * *
23111 AAAATTAACATAAAACTTACCCTTTATATTTCACATGTTTCAAT-TAGTGCCAAGAGAGGAGAAC
1 AAAATTGACATGAAACTTACCCTTCAGATTCCACCTTTTTCAGTAT-GTGCCAAGAGAGGAGAAC
* * *
23175 ATGATTGTTGATGAGCTAAC
65 ATGGTTGCTGATGAGCTAGC
* * ** * *
23195 AAAATTGACATGAAACTTACTCTTTAGATTTTA-CTTGATTCAGTATGTGCCAAGAGAGGAAAAC
1 AAAATTGACATGAAACTTACCCTTCAGATTCCACCTT-TTTCAGTATGTGCCAAGAGAGGAGAAC
*
23259 ATGATTGCTGATGAGCTAGC
65 ATGGTTGCTGATGAGCTAGC
* * * * *
23279 GAAATTGACATG-AA---A--CTT---A--CCACCTCTTTAAGTATGTGCCAAGAAAAGG-GAAT
1 AAAATTGACATGAAACTTACCCTTCAGATTCCACCTTTTTCAGTATGTGCCAAG-AGAGGAGAAC
* *
23332 ATGGTTGCTGATGAGATAGA
65 ATGGTTGCTGATGAGCTAGC
* * * * * * * *
23352 AAAATTGAAATGAAACTAACCCTTCAAATACCACATATTTT-AATATGTGCCAAGAGAGGATAAT
1 AAAATTGACATGAAACTTACCCTTCAGATTCCACCT-TTTTCAGTATGTGCCAAGAGAGGAGAAC
*
23416 ATGGTTACTGATGAGCTA-C
65 ATGGTTGCTGATGAGCTAGC
* * * *
23435 AAAAATTGAAAAGAAACTTACCCTTCAGATTCTACCTGCTTT-AGTATGTGCCAAGAGAGG-GAA
1 -AAAATTGACATGAAACTTACCCTTCAGATTCCACCT-TTTTCAGTATGTGCCAAGAGAGGAGAA
* * * * *
23498 CATGTTTGATAAAGAGCTGGC
64 CATGGTTGCTGATGAGCTAGC
* * * * *
23519 AAAATTGACATGAAACATACCCTTCAAATT-CAACTTGTTTTAGTATGTGCCAAAAGAGGAGAAC
1 AAAATTGACATGAAACTTACCCTTCAGATTCCACCTT-TTTCAGTATGTGCCAAGAGAGGAGAAC
* *
23583 ATGGTT-CTTGATGATCTAGT
65 ATGGTTGC-TGATGAGCTAGC
* * * * *
23603 AAAATTGATATTAAACTTACCCTTTAGATTCC-CCTGTTTT-AGTATGTGCTAAGAGAGGTGAAC
1 AAAATTGACATGAAACTTACCCTTCAGATTCCACCT-TTTTCAGTATGTGCCAAGAGAGGAGAAC
* *
23666 ATGGTTGGTGATGAGCTAGA
65 ATGGTTGCTGATGAGCTAGC
** * * * * * * *
23686 AAAATTGGTATGGAACTTACCTTTCAAATTCCACCTATTTCAATATATGCCAAGAGAGGAAAACA
1 AAAATTGACATGAAACTTACCCTTCAGATTCCACCTTTTTCAGTATGTGCCAAGAGAGGAGAACA
*
23751 TGGTTG-TCGATGAGCTAGA
66 TGGTTGCT-GATGAGCTAGC
* * * * * * * *
23770 AAAATTAACATGGAACTTAGCCTTTAGATTCCACCTATTTCAGTATGTGCCAACAGAGGGGAACG
1 AAAATTGACATGAAACTTACCCTTCAGATTCCACCTTTTTCAGTATGTGCCAAGAGAGGAGAACA
* *
23835 TGGTTTCT-ATGAGCTAGA
66 TGGTTGCTGATGAGCTAGC
* * ** * *
23853 AAAATTGACATGAAACTTA-CCTGTCAGATTCCACATATTTCAAAATGTGCCAAGAAAGGAAAAC
1 AAAATTGACATGAAACTTACCCT-TCAGATTCCACCTTTTTCAGTATGTGCCAAGAGAGGAGAAC
* *
23917 ATGTTTGC-GAATGAGCTAGA
65 ATGGTTGCTG-ATGAGCTAGC
* * * * * * *
23937 AAAATT-ATCATGAAACCTACCTTTAAGATTTCA-CTTGTTTCAATATATGCCAAGAGAAGAGAA
1 AAAATTGA-CATGAAACTTACCCTTCAGATTCCACCTT-TTTCAGTATGTGCCAAGAGAGGAGAA
*
24000 CATGGTTGTTGATGAGCTAGC
64 CATGGTTGCTGATGAGCTAGC
* * * * * *
24021 AAAATTGACATAAAACTTACCCTTTAGATTCCA-CTTGTTTTAGTATATACCAAGAGAGGGGAAC
1 AAAATTGACATGAAACTTACCCTTCAGATTCCACCTT-TTTCAGTATGTGCCAAGAGAGGAGAAC
24085 ATGGTTGCTGATGAGCTAGC
65 ATGGTTGCTGATGAGCTAGC
* * * * * * * * * * *
24105 AAAATTGATATGAAAATTACCTTTTAAATTGCACCTGTTTCAATATGAGCCAAAAGAGTAGAACA
1 AAAATTGACATGAAACTTACCCTTCAGATTCCACCTTTTTCAGTATGTGCCAAGAGAGGAGAACA
* *
24170 TGGTT-TTCGATGAGCTAGT
66 TGGTTGCT-GATGAGCTAGC
* * * * * * ** * * * * *
24189 AAAATAGACATGAAACTTACCCTTTAAACTCTACATACTTCGGTATTTTCTAAGAGAGGGGAACA
1 AAAATTGACATGAAACTTACCCTTCAGATTCCACCTTTTTCAGTATGTGCCAAGAGAGGAGAACA
*
24254 TGGTTGCTCATGAGCTAGC
66 TGGTTGCTGATGAGCTAGC
** * * * *
24273 AAAATTGGTATGAAACTTATCCTTCAGGTTCCACCTATTTCAGTATATGCCAAGAGAGG-GAAGC
1 AAAATTGACATGAAACTTACCCTTCAGATTCCACCTTTTTCAGTATGTGCCAAGAGAGGAGAA-C
24337 ATGGTTGCTGATGAGCTAGC
65 ATGGTTGCTGATGAGCTAGC
* * * * * * * *
24357 TAAATTGATATGTAATTTACCCTTCAAATTCCACCTTTTTCAGTATATTCC-AGTAGATTG-GAA
1 AAAATTGACATGAAACTTACCCTTCAGATTCCACCTTTTTCAGTATGTGCCAAG-AGA-GGAGAA
*
24420 CATGGTTGCTGATGAGCTACC
64 CATGGTTGCTGATGAGCTAGC
* * * ** *
24441 AAAATTGACATGAAACTTACCCTTCAGATTTCACATGTTTT-AGTATGTGCCAAGGGAAAAGAGC
1 AAAATTGACATGAAACTTACCCTTCAGATTCCACCT-TTTTCAGTATGTGCCAAGAGAGGAGAAC
*** * **
24505 ATGGACACTGATGAGATATA
65 ATGGTTGCTGATGAGCTAGC
* * * * * * *
24525 AAAATTAACATGAAACTTACCCTTTAGATTTCACCTATATT-AATATTTGCCAAGAGAGGGGAAC
1 AAAATTGACATGAAACTTACCCTTCAGATTCCACCT-TTTTCAGTATGTGCCAAGAGAGGAGAAC
* *
24589 TTAGTTGCTGATGAGCTAGC
65 ATGGTTGCTGATGAGCTAGC
* * * * * ** *
24609 AAAACTAACATG------ACCCTTAATATTCCACCTATTTCAGT-TAAAGCCAAGTGAGGAGAAC
1 AAAATTGACATGAAACTTACCCTTCAGATTCCACCTTTTTCAGTAT-GTGCCAAGAGAGGAGAAC
** * *
24667 ATTATTGCTGATAAGCTAAC
65 ATGGTTGCTGATGAGCTAGC
* * * * *
24687 AAAATTAACATGAAACTTACTCTTCAGATTCTACCTATTTT-AATATGTGCCAAGAGAGGAAAAC
1 AAAATTGACATGAAACTTACCCTTCAGATTCCACCT-TTTTCAGTATGTGCCAAGAGAGGAGAAC
* *
24751 ATGATTACTGATGAGCTAGC
65 ATGGTTGCTGATGAGCTAGC
* * * **
24771 CAAGTTGACATGAAACTTA--C--C--A----A-CTTGTTTCAGTATGTGCCAA-AAAAAAGGAA
1 AAAATTGACATGAAACTTACCCTTCAGATTCCACCTT-TTTCAGTATGTGCCAAGAGAGGA-GAA
* * *
24824 CATGGTTGATGATGAGTTAGA
64 CATGGTTGCTGATGAGCTAGC
* * * * * * *
24845 AAAATTGAAATAAAACTTACCCTTCAGATTCCACCTGTTTT-AATATATGCCGAGAGAGGATAAT
1 AAAATTGACATGAAACTTACCCTTCAGATTCCACCT-TTTTCAGTATGTGCCAAGAGAGGAGAAC
* *
24909 ATGGTTACTGATGAGCTAGA
65 ATGGTTGCTGATGAGCTAGC
* * * ** * * * *
24929 AAAATTGACATGTAACTTTCCCTTCAAATTCCACCAGTTTCAGTGTGAGCCAAAAGTGGAGAACA
1 AAAATTGACATGAAACTTACCCTTCAGATTCCACCTTTTTCAGTATGTGCCAAGAGAGGAGAACA
24994 TGGTTGCTGATGAGCTAGC
66 TGGTTGCTGATGAGCTAGC
* * * * * * * * * *
25013 AAAATTGACATGAAACTTACCCTTCATATTTCATCTGTTTCAGTAAGTGTCAAAATAGGATAATA
1 AAAATTGACATGAAACTTACCCTTCAGATTCCACCTTTTTCAGTATGTGCCAAGAGAGGAGAACA
* *
25078 TGGTTTCTGATGAGCTAGA
66 TGGTTGCTGATGAGCTAGC
* ** * * *
25097 AAAATTGACATGAAACCTACTATTCAG-TCTCTACCTGTTTCACTATGTGCCAAGAGAGGAGAAC
1 AAAATTGACATGAAACTTACCCTTCAGAT-TCCACCTTTTTCAGTATGTGCCAAGAGAGGAGAAC
* * *
25161 ATGATTTCTGATGAGCTAGT
65 ATGGTTGCTGATGAGCTAGC
* * * * *
25181 TAAATTGAAATGAAACTTA-CCATAAG-TT-CA--------AATATGTGCCAAGAGAAGG-GAAC
1 AAAATTGACATGAAACTTACCCTTCAGATTCCACCTTTTTCAGTATGTGCCAAGAG-AGGAGAAC
*
25234 ATGGTTGATGATGAGCTAGC
65 ATGGTTGCTGATGAGCTAGC
* * * ** ** *
25254 AAAATTGACATGAAACTTACCCTTCAGATTTCACATGTTTT-AGTACGTGTGAAGAGATAATAAC
1 AAAATTGACATGAAACTTACCCTTCAGATTCCACCT-TTTTCAGTATGTGCCAAGAGAGGAGAAC
* * *
25318 ATGTTTACCGATGAGCTAGC
65 ATGGTTGCTGATGAGCTAGC
* * * * * *
25338 AAAACTGACATGAAACTTACCCTTCATATTCTACCTGTTTCAGTATGTGCCAAGGGAGGGGAACA
1 AAAATTGACATGAAACTTACCCTTCAGATTCCACCTTTTTCAGTATGTGCCAAGAGAGGAGAACA
*
25403 TGGTTGCTGATGAGATAGC
66 TGGTTGCTGATGAGCTAGC
* * * ** * * *
25422 AAAATTGAAATGAAACTTACCCTTCAAATTCTATATGTTTCAGTATGTGCCAAAAGAGGAGATCA
1 AAAATTGACATGAAACTTACCCTTCAGATTCCACCTTTTTCAGTATGTGCCAAGAGAGGAGAACA
* *
25487 TAGTTGCTGATGAGCTAGT
66 TGGTTGCTGATGAGCTAGC
* * *
25506 AAAATTTACATGAAACTTACCCTTTATATTCCAC
1 AAAATTGACATGAAACTTACCCTTCAGATTCCAC
25540 TTACCCTTTA
Statistics
Matches: 2167, Mismatches: 497, Indels: 200
0.76 0.17 0.07
Matches are distributed among these distances:
72 1 0.00
73 104 0.05
74 61 0.03
75 3 0.00
76 3 0.00
77 4 0.00
78 62 0.03
79 3 0.00
80 3 0.00
81 1 0.00
82 19 0.01
83 278 0.13
84 1577 0.73
85 47 0.02
86 1 0.00
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (84 bp):
AAAATTGACATGAAACTTACCCTTCAGATTCCACCTTTTTCAGTATGTGCCAAGAGAGGAGAACA
TGGTTGCTGATGAGCTAGC
Found at i:23668 original size:167 final size:166
Alignment explanation
Indices: 23299--25965 Score: 1363
Period size: 168 Copynumber: 15.9 Consensus size: 166
23289 TGAAACTTAC
* * * * * * *
23299 CACCTCTTTAAGTATGTGCCAAGAAAAGGGAATATGGTTGCTGATGAGATAGAAAAATTGAAATG
1 CACCTGTTTCAGTATGTGCCAAG-AGAGGGAACATGGTTGATGATGAGCTAGAAAAATTGACATG
* * * *
23364 AAACTAACCCTTCAAATACCACATATTTTAATATGTGCCAAGAGAGGATAATATGGTTAC-TGAT
65 AAACTTACCCTTCAAATTCCACATATTTTAATATGTGCCAAGAGAGGAAAACATGGTT-CTTGAT
* * * *
23428 GAGCTACAAAAATTGAAAAGAAACTTACCCTTCAGATT
129 GAGCTAGAAAAATTGATATGAAACTTACCCTTTAGATT
* * * * *
23466 CTACCTGCTTT-AGTATGTGCCAAGAGAGGGAACATGTTTGATAAAGAGCTGGCAAAATTGACAT
1 C-ACCTG-TTTCAGTATGTGCCAAGAGAGGGAACATGGTTGATGATGAGCTAGAAAAATTGACAT
* * * * * * *
23530 GAAACATACCCTTCAAATTCAACTTGTTTTAGTATGTGCCAAAAGAGGAGAACATGGTTCTTGAT
64 GAAACTTACCCTTCAAATTCCACATATTTTAATATGTGCCAAGAGAGGAAAACATGGTTCTTGAT
* * *
23595 GATCTAGTAAAATTGATATTAAACTTACCCTTTAGATT
129 GAGCTAGAAAAATTGATATGAAACTTACCCTTTAGATT
* * * * **
23633 CCCCTGTTTTAGTATGTGCTAAGAGAGGTGAACATGGTTGGTGATGAGCTAGAAAAATTGGTATG
1 CACCTGTTTCAGTATGTGCCAAGAGAGG-GAACATGGTTGATGATGAGCTAGAAAAATTGACATG
* * * * * * *
23698 GAACTTACCTTTCAAATTCCACCTATTTCAATATATGCCAAGAGAGGAAAACATGGTTGTCGATG
65 AAACTTACCCTTCAAATTCCACATATTTTAATATGTGCCAAGAGAGGAAAACATGGTTCTTGATG
* * * *
23763 AGCTAGAAAAATTAACATGGAACTTAGCCTTTAGATT
130 AGCTAGAAAAATTGATATGAAACTTACCCTTTAGATT
* * * **
23800 CCACCTATTTCAGTATGTGCCAACAGAGGGGAACGTGGTTTCT-ATGAGCTAGAAAAATTGACAT
1 -CACCTGTTTCAGTATGTGCCAAGAGA-GGGAACATGGTTGATGATGAGCTAGAAAAATTGACAT
* * * * *
23864 GAAACTTA-CCTGTCAGATTCCACATATTTCAAAATGTGCCAAGAAAGGAAAACAT-GTT-TGCG
64 GAAACTTACCCT-TCAAATTCCACATATTTTAATATGTGCCAAGAGAGGAAAACATGGTTCT-TG
*
23926 AATGAGCTAGAAAAATT-ATCATGAAACCTA-CCTTTAAGATTT
127 -ATGAGCTAGAAAAATTGAT-ATGAAACTTACCCTTT-AGA-TT
* * * * * * *
23968 CACTTGTTTCAATATATGCCAAGAGAAGAGAACATGGTTGTTGATGAGCTAGCAAAATTGACATA
1 CACCTGTTTCAGTATGTGCCAAGAG-AGGGAACATGGTTGATGATGAGCTAGAAAAATTGACATG
* * * * * * * **
24033 AAACTTACCCTTTAGATTCCACTTGTTTTAGTATATACCAAGAGAGGGGAACATGGTTGC-TGAT
65 AAACTTACCCTTCAAATTCCACATATTTTAATATGTGCCAAGAGAGGAAAACATGGTT-CTTGAT
* * * *
24097 GAGCTAGCAAAATTGATATGAAAATTACCTTTTAAATT
129 GAGCTAGAAAAATTGATATGAAACTTACCCTTTAGATT
* * * * * * *
24135 GCACCTGTTTCAATATGAGCCAAAAGAGTAGAACATGGTT-TTCGATGAGCTAGTAAAATAGACA
1 -CACCTGTTTCAGTATGTGCCAAGAGAG-GGAACATGGTTGAT-GATGAGCTAGAAAAATTGACA
* * * * *** * * * ** *
24199 TGAAACTTACCCTTTAAACTCTACATACTTCGGTATTTTCTAAGAGAGGGGAACATGGTTGC-TC
63 TGAAACTTACCCTTCAAATTCCACATATTTTAATATGTGCCAAGAGAGGAAAACATGGTT-CTTG
* * * * *
24263 ATGAGCTAGCAAAATTGGTATGAAACTTATCCTTCAGGTT
127 ATGAGCTAGAAAAATTGATATGAAACTTACCCTTTAGATT
* * * ** *
24303 CCACCTATTTCAGTATATGCCAAGAGAGGGAAGCATGGTTGCTGATGAGCTAGCTAAATTGATAT
1 -CACCTGTTTCAGTATGTGCCAAGAGAGGGAA-CATGGTTGATGATGAGCTAGAAAAATTGACAT
* * * * * *
24368 GTAATTTACCCTTCAAATTCCACCT-TTTTCAGTATATTCC-AGTAGATTGG--AACATGGTTGC
64 GAAACTTACCCTTCAAATTCCACATATTTT-AATATGTGCCAAG-AGA--GGAAAACATGGTT-C
** * *
24429 -TGATGAGCTACCAAAATTGACATGAAACTTACCCTTCAGATTT
124 TTGATGAGCTAGAAAAATTGATATGAAACTTACCCTTTAGA-TT
* * * ** * ** * * *
24472 CACATGTTTTAGTATGTGCCAAGGGAAAAGAGCATGG-ACACTGATGAGATATAAAAATTAACAT
1 CACCTGTTTCAGTATGTGCCAAGAG-AGGGAACATGGTTGA-TGATGAGCTAGAAAAATTGACAT
* * * * * * ** * *
24536 GAAACTTACCCTTTAGATTTCACCTATATTAATATTTGCCAAGAGAGGGGAACTTAGTTGC-TGA
64 GAAACTTACCCTTCAAATTCCACATATTTTAATATGTGCCAAGAGAGGAAAACATGGTT-CTTGA
* * * * * *
24600 TGAGCTAGCAAAA---CTA--ACA-TGACCCTTAATATT
128 TGAGCTAGAAAAATTGATATGAAACTTACCCTTTAGATT
* ** * ** * * *
24633 CCACCTATTTCAGT-TAAAGCCAAGTGAGGAGAACATTATTGCTGATAAGCTA-ACAAAATTAAC
1 -CACCTGTTTCAGTAT-GTGCCAAGAGAGG-GAACATGGTTGATGATGAGCTAGA-AAAATTGAC
* * * * *
24696 ATGAAACTTACTCTTCAGATTCTACCTATTTTAATATGTGCCAAGAGAGGAAAACATGATTAC-T
62 ATGAAACTTACCCTTCAAATTCCACATATTTTAATATGTGCCAAGAGAGGAAAACATGGTT-CTT
** * *
24760 GATGAGCTAGCCAAGTTGACATGAAACTTA-CC-----A--
126 GATGAGCTAGAAAAATTGATATGAAACTTACCCTTTAGATT
* * * * * * *
24793 -ACTTGTTTCAGTATGTGCCAAAAAAAAGGAACATGGTTGATGATGAGTTAGAAAAATTGAAATA
1 CACCTGTTTCAGTATGTGCC-AAGAGAGGGAACATGGTTGATGATGAGCTAGAAAAATTGACATG
* * * * * * *
24857 AAACTTACCCTTCAGATTCCACCTGTTTTAATATATGCCGAGAGAGGATAATATGGTTAC-TGAT
65 AAACTTACCCTTCAAATTCCACATATTTTAATATGTGCCAAGAGAGGAAAACATGGTT-CTTGAT
* * * * *
24921 GAGCTAGAAAAATTGACATGTAACTTTCCCTTCAAATT
129 GAGCTAGAAAAATTGATATGAAACTTACCCTTTAGATT
* * * * * * *
24959 CCACCAGTTTCAGTGTGAGCCAAAAGTGGAGAACATGGTTGCTGATGAGCTAGCAAAATTGACAT
1 -CACCTGTTTCAGTATGTGCCAAGAGAGG-GAACATGGTTGATGATGAGCTAGAAAAATTGACAT
* * * * * * * * * * *
25024 GAAACTTACCCTTCATATTTCATC-TGTTTCAGTAAGTGTCAAAATAGGATAATATGGTT-TCTG
64 GAAACTTACCCTTCAAATTCCA-CATATTTTAATATGTGCCAAGAGAGGAAAACATGGTTCT-TG
* * ** *
25087 ATGAGCTAGAAAAATTGACATGAAACCTACTATTCAG-TCT
127 ATGAGCTAGAAAAATTGATATGAAACTTACCCTTTAGAT-T
* * ** ** *
25127 CTACCTGTTTCACTATGTGCCAAGAGAGGAGAACATGATTTCTGATGAGCTAGTTAAATTGAAAT
1 C-ACCTGTTTCAGTATGTGCCAAGAGAGG-GAACATGGTTGATGATGAGCTAGAAAAATTGACAT
* * * **
25192 GAAACTTA-CCAT-AAGTT---C--A----AATATGTGCCAAGAGAAGG-GAACATGGTTGATGA
64 GAAACTTACCCTTCAAATTCCACATATTTTAATATGTGCCAAGAG-AGGAAAACATGGTTCTTGA
* * *
25245 TGAGCTAGCAAAATTGACATGAAACTTACCCTTCAGATTT
128 TGAGCTAGAAAAATTGATATGAAACTTACCCTTTAGA-TT
* * * ** *** * * * *
25285 CACATGTTTTAGTACGTGTGAAGAGATAATAACAT-GTTTACCGATGAGCTAGCAAAACTGACAT
1 CACCTGTTTCAGTATGTGCCAAGAGA-GGGAACATGGTTGA-TGATGAGCTAGAAAAATTGACAT
* * * * * * * **
25349 GAAACTTACCCTTCATATTCTACCTGTTTCAGTATGTGCCAAGGGAGGGGAACATGGTTGC-TGA
64 GAAACTTACCCTTCAAATTCCACATATTTTAATATGTGCCAAGAGAGGAAAACATGGTT-CTTGA
* * * * *
25413 TGAGATAGCAAAATTGAAATGAAACTTACCCTTCAAATT
128 TGAGCTAGAAAAATTGATATGAAACTTACCCTTTAGATT
** * * * * * *
25452 CTATATGTTTCAGTATGTGCCAAAAGAGGAGATCATAGTTGCTGATGAGCTAGTAAAATTTACAT
1 C-ACCTGTTTCAGTATGTGCCAAGAGAGG-GAACATGGTTGATGATGAGCTAGAAAAATTGACAT
* * * *
25517 GAAACTTACCCTTTATATTCCACTTACCCTTTATATTCCACTTGTTTAAGTATGTTCTAAGAGAG
64 GAAACTTACCCTTCA-A----A-TT--CC---ACA-T--A--T-TTTAA-TATGTGCCAAGAGAG
** * * * ** *
25582 GGTAACATGTTTGTTGATGAGCTA-ACAAAATTGGTATGGGACTTACCATTT-GTATT
111 GAAAACATGGTTCTTGATGAGCTAGA-AAAATTGATATGAAACTTACCCTTTAG-ATT
** * * * ** * * *
25638 CAAAATATTTTAGTATATGAGAAGAGAGGGAAACATGGTTGTTGGTGAGCTAGCAAAATTGACAT
1 C-ACCTGTTTCAGTATGTGCCAAGAGAGGG-AACATGGTTGATGATGAGCTAGAAAAATTGACAT
* * * * * * ** * * * *
25703 GGAATTTATCCTTCAGATTCCACCTGTTTTTGTATGTTCTAAGGGAGAGGGGAAA-ATGATT-TC
64 GAAACTTACCCTTCAAATTCCACATATTTTAATATGTGCCAA--GAGA-GGAAAACATGGTTCT-
* * * * *
25766 GGATGAGCTAGTAAAATTTACATGAAACTTACACTTTAGATT
125 TGATGAGCTAGAAAAATTGATATGAAACTTACCCTTTAGATT
* * * * *
25808 CTGCTTGTTTTAGTATGTGCCAAGCGAGGGGAACATGGTT-ACTGATGAGCTAG-TAAATTGACA
1 C-ACCTGTTTCAGTATGTGCCAAGAGA-GGGAACATGGTTGA-TGATGAGCTAGAAAAATTGACA
* * * * * * * *
25871 TGGAACTTACCCTTTAGATTCCTCCA-GTTTTAGTATGTGCCAAGAGAGGATAACGTGGGGTTAC
63 TGAAACTTACCCTTCAAATTCC-ACATATTTTAATATGTGCCAAGAGAGGAAAACAT--GGTT-C
* *
25935 -TGATGAGCTAGCAAAATTGACATGAAACTTA
124 TTGATGAGCTAGAAAAATTGATATGAAACTTA
25966 TGTTAGAGTA
Statistics
Matches: 1934, Mismatches: 441, Indels: 248
0.74 0.17 0.09
Matches are distributed among these distances:
156 3 0.00
157 103 0.05
158 125 0.06
159 12 0.01
161 5 0.00
162 116 0.06
163 2 0.00
164 1 0.00
165 6 0.00
166 44 0.02
167 386 0.20
168 801 0.41
169 110 0.06
170 80 0.04
171 9 0.00
173 1 0.00
174 3 0.00
175 1 0.00
176 1 0.00
178 2 0.00
179 1 0.00
180 3 0.00
181 1 0.00
184 1 0.00
185 4 0.00
186 113 0.06
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (166 bp):
CACCTGTTTCAGTATGTGCCAAGAGAGGGAACATGGTTGATGATGAGCTAGAAAAATTGACATGA
AACTTACCCTTCAAATTCCACATATTTTAATATGTGCCAAGAGAGGAAAACATGGTTCTTGATGA
GCTAGAAAAATTGATATGAAACTTACCCTTTAGATT
Found at i:24540 original size:252 final size:250
Alignment explanation
Indices: 22521--25965 Score: 1888
Period size: 252 Copynumber: 13.8 Consensus size: 250
22511 ATATGGTTAT
* * *
22521 TGATGAGCTAGCAAAATTGACATGAAACTTACCCTTCAGATTCCACATGTTTCAGTATGTGCCAA
1 TGATGAGCTAGCAAAATTGACATGAAACTTACCCTTTAGATTCCACCTATTTCAGTATGTGCCAA
* * *
22586 GAGAGGGGAACATGGTTGCTGATGAGCTAGCCAAATTGATATGAAACTTA--C--C--A--CC-T
66 GAGAGGGGAACATGGTTGCTGATGAGCTAGCAAAATTGACATGAAACTTACCCTTCAAATTCCAC
* ** * * * *
22642 A-TTTT-AGTATGTGCCAAGAGAAAGGG-ACATGACTGTTGATGAGCCAAAAAAAAATTGTCATG
131 ATTTTTCAATATGTGCC-AGAG--AGGGAACATGGTTGCTGATGAG-C-TAGAAAAATTGACATG
** * * * * * * ** * *
22704 AAACTTACTTTTCATATTCCATATGTTTTAATATATGCCAAGAGAAGGGGACATGGTTGC
191 AAACTTACCCTTCAGATTTCACATGTTTCAGTATGTGCCAAGAGAAAAGAACATGGATGC
* * * *** * * **
22764 TAACGAACTCTTAAAATTGACATGAAACTTA-CCTTTCATATTCCACC-ATTTCAATACATGCTC
1 TGATGAGCTAGCAAAATTGACATGAAACTTACCCTTT-AGATTCCACCTATTTCAGTATGTGC-C
* * * *
22827 ATAGAGA--GGAACATGGTTGCTGATGAGCTAGCAAAATTGACATGGAATTTATCCTTCAGATTC
64 A-AGAGAGGGGAACATGGTTGCTGATGAGCTAGCAAAATTGACATGAAACTTACCCTTCAAATTC
* * * * * * *
22890 CACATTTTTCAGTATGTGCCAAGATAGGGGAATATGGTTGTTGATGAGTTAGCAAAAGTGACATG
128 CACATTTTTCAATATGTGCC-AGAGA-GGGAACATGGTTGCTGATGAGCTAGAAAAATTGACATG
* * * * * *
22955 AAATTTACCCTTTC-GATTTCACATGTTTTAGTATGTTCCAATAGAAAAGAATATGGACGC
191 AAACTTACCC-TTCAGATTTCACATGTTTCAGTATGTGCCAAGAGAAAAGAACATGGATGC
* * * * * * * *
23015 TGACGAGCTAGCAAAATTAACATGAAAATTACCCTTTATATTTCACCTATATCAATATGTGCCAG
1 TGATGAGCTAGCAAAATTGACATGAAACTTACCCTTTAGATTCCACCTATTTCAGTATGTGCCAA
* ** * * * * *
23080 GAGAGGGGAACTTGGTTGCTGATGAATTAGCAAAATTAACATAAAACTTACCCTTTATATTTCAC
66 GAGAGGGGAACATGGTTGCTGATGAGCTAGCAAAATTGACATGAAACTTACCCTTCAAATTCCAC
* * *
23145 ATGTTTCAAT-TAGTGCCAAGAGAGGAGAACATGATTGTTGATGAGCTA-ACAAAATTGACATGA
131 ATTTTTCAATAT-GTGCC-AGAGAGG-GAACATGGTTGCTGATGAGCTAGA-AAAATTGACATGA
* * * * * *
23208 AACTTACTCTTTAGATTTTACTTGATTCAGTATGTGCCAAGAGAGGAA-AACAT-GATTGC
192 AACTTACCCTTCAGATTTCACATGTTTCAGTATGTGCCAAGAGA-AAAGAACATGGA-TGC
* * *
23267 TGATGAGCTAGCGAAATTGACATG-AA---A--C-TT--A--CCACCTCTTTAAGTATGTGCCAA
1 TGATGAGCTAGCAAAATTGACATGAAACTTACCCTTTAGATTCCACCTATTTCAGTATGTGCCAA
* * * * * * * *
23321 GAAAAGGGAATATGGTTGCTGATGAGATAGAAAAATTGAAATGAAACTAACCCTTCAAATACCAC
66 GAGAGGGGAACATGGTTGCTGATGAGCTAGCAAAATTGACATGAAACTTACCCTTCAAATTCCAC
* * * * * *
23386 ATATTTT-AATATGTGCCAAGAGAGGATAATATGGTTACTGATGAGCTACAAAAATTGAAAAGAA
131 AT-TTTTCAATATGTGCC-AGAGAGG-GAACATGGTTGCTGATGAGCTAGAAAAATTGACATGAA
* ** ** *
23450 ACTTACCCTTCAGA-TTCTACCTGCTTT-AGTATGTGCCAAGAG-AGGGAACATGTTTGA
193 ACTTACCCTTCAGATTTC-ACATG-TTTCAGTATGTGCCAAGAGAAAAGAACATGGATGC
* * * * * * * * * *
23507 TAAAGAGCTGGCAAAATTGACATGAAACATACCCTTCAAATTCAACTTGTTTTAGTATGTGCCAA
1 TGATGAGCTAGCAAAATTGACATGAAACTTACCCTTTAGATTCCACCTATTTCAGTATGTGCCAA
* * * * * * * *
23572 AAGAGGAGAACATGGTT-CTTGATGATCTAGTAAAATTGATATTAAACTTACCCTTTAGATTCC-
66 GAGAGGGGAACATGGTTGC-TGATGAGCTAGCAAAATTGACATGAAACTTACCCTTCAAATTCCA
* * * * ** *
23635 CCTGTTTT-AGTATGTGCTAAGAGAGGTGAACATGGTTGGTGATGAGCTAGAAAAATTGGTATGG
130 CAT-TTTTCAATATGTGC-CAGAGAGG-GAACATGGTTGCTGATGAGCTAGAAAAATTGACATGA
* * * * * * * * *
23699 AACTTACCTTTCAAATTCCACCTATTTCAATATATGCCAAGAGAGGAA-AACATGGTTG-
192 AACTTACCCTTCAGATTTCACATGTTTCAGTATGTGCCAAGAGA-AAAGAACATGGATGC
* * * *
23757 TCGATGAGCTAGAAAAATTAACATGGAACTTAGCCTTTAGATTCCACCTATTTCAGTATGTGCCA
1 T-GATGAGCTAGCAAAATTGACATGAAACTTACCCTTTAGATTCCACCTATTTCAGTATGTGCCA
* * * * *
23822 ACAGAGGGGAACGTGGTTTCT-ATGAGCTAGAAAAATTGACATGAAACTTA-CCTGTCAGATTCC
65 AGAGAGGGGAACATGGTTGCTGATGAGCTAGCAAAATTGACATGAAACTTACCCT-TCAAATTCC
* * * * *
23885 ACATATTTCAAAATGTGCCAAGAAAGGAAAACATGTTTGC-GAATGAGCTAGAAAAATT-ATCAT
129 ACATTTTTCAATATGTGCC-AGAGAGG-GAACATGGTTGCTG-ATGAGCTAGAAAAATTGA-CAT
* * * * * * * * *
23948 GAAACCTACCTTTAAGATTTCACTTGTTTCAATATATGCCAAGAGAAGAGAACATGGTTGT
190 GAAACTTACCCTTCAGATTTCACATGTTTCAGTATGTGCCAAGAGAAAAGAACATGGATGC
* * * * * *
24009 TGATGAGCTAGCAAAATTGACATAAAACTTACCCTTTAGATTCCACTTGTTTTAGTATATACCAA
1 TGATGAGCTAGCAAAATTGACATGAAACTTACCCTTTAGATTCCACCTATTTCAGTATGTGCCAA
* * * * *
24074 GAGAGGGGAACATGGTTGCTGATGAGCTAGCAAAATTGATATGAAAATTACCTTTTAAATTGCAC
66 GAGAGGGGAACATGGTTGCTGATGAGCTAGCAAAATTGACATGAAACTTACCCTTCAAATTCCAC
* * * * * * * *
24139 CTGTTTCAATATGAGCCAAAAGAGTAGAACATGGTT-TTCGATGAGCTAGTAAAATAGACATGAA
131 ATTTTTCAATATGTGCC-AGAGAG-GGAACATGGTTGCT-GATGAGCTAGAAAAATTGACATGAA
* ** ** * * * * *** *
24203 ACTTACCCTTTA-AACTCTACATACTTCGGTATTTTCTAAGAGAGGGGAACATGGTTGC
193 ACTTACCCTTCAGATTTC-ACATGTTTCAGTATGTGCCAAGAGAAAAGAACATGGATGC
* ** * * * *
24261 TCATGAGCTAGCAAAATTGGTATGAAACTTATCCTTCAGGTTCCACCTATTTCAGTATATGCCAA
1 TGATGAGCTAGCAAAATTGACATGAAACTTACCCTTTAGATTCCACCTATTTCAGTATGTGCCAA
* * * *
24326 GAGA-GGGAAGCATGGTTGCTGATGAGCTAGCTAAATTGATATGTAATTTACCCTTCAAATTCCA
66 GAGAGGGGAA-CATGGTTGCTGATGAGCTAGCAAAATTGACATGAAACTTACCCTTCAAATTCCA
* * * * * **
24390 CCTTTTTCAGTATATTCCAGTAGATTGGAACATGGTTGCTGATGAGCTACCAAAATTGACATGAA
130 CATTTTTCAATATGTGCCAG-AGA-GGGAACATGGTTGCTGATGAGCTAGAAAAATTGACATGAA
* * * **
24455 ACTTACCCTTCAGATTTCACATGTTTTAGTATGTGCCAAGGGAAAAGAGCATGGACAC
193 ACTTACCCTTCAGATTTCACATGTTTCAGTATGTGCCAAGAGAAAAGAACATGGATGC
* ** * * * *
24513 TGATGAGATATAAAAATTAACATGAAACTTACCCTTTAGATTTCACCTATATT-AATATTTGCCA
1 TGATGAGCTAGCAAAATTGACATGAAACTTACCCTTTAGATTCCACCTAT-TTCAGTATGTGCCA
* * * *
24577 AGAGAGGGGAACTTAGTTGCTGATGAGCTAGCAAAACTAACATG------ACCCTT-AATATTCC
65 AGAGAGGGGAACATGGTTGCTGATGAGCTAGCAAAATTGACATGAAACTTACCCTTCAA-ATTCC
* * * ** * ** * *
24635 ACCTATTTCAGT-TAAAGCCAAGTGAGGAGAACATTATTGCTGATAAGCTA-ACAAAATTAACAT
129 ACATTTTTCAATAT-GTGCC-AGAGAGG-GAACATGGTTGCTGATGAGCTAGA-AAAATTGACAT
* * * * * * *
24698 GAAACTTACTCTTCAGA-TTCTACCTATTTTAATATGTGCCAAGAGAGGAA-AACAT-GATTAC
190 GAAACTTACCCTTCAGATTTC-ACATGTTTCAGTATGTGCCAAGAGA-AAAGAACATGGA-TGC
* * * *
24759 TGATGAGCTAGCCAAGTTGACATGAAACTTA-CC-----A----ACTTGTTTCAGTATGTGCCAA
1 TGATGAGCTAGCAAAATTGACATGAAACTTACCCTTTAGATTCCACCTATTTCAGTATGTGCCAA
* * ** * * * * * *
24814 AAAAAAGGAACATGGTTGATGATGAGTTAGAAAAATTGAAATAAAACTTACCCTTCAGATTCCAC
66 GAGAGGGGAACATGGTTGCTGATGAGCTAGCAAAATTGACATGAAACTTACCCTTCAAATTCCAC
* * * * * *
24879 CTGTTTT-AATATATGCCGAGAGAGGATAATATGGTTACTGATGAGCTAGAAAAATTGACATGTA
131 AT-TTTTCAATATGTGCC-AGAGAGG-GAACATGGTTGCTGATGAGCTAGAAAAATTGACATGAA
* * * * * * *** *
24943 ACTTTCCCTTCAAATTCCACCA-GTTTCAGTGTGAGCCAAAAGTGGAGAACATGGTTGC
193 ACTTACCCTTCAGATTTCA-CATGTTTCAGTATGTGCCAAGAGAAAAGAACATGGATGC
* * * * * * *
25001 TGATGAGCTAGCAAAATTGACATGAAACTTACCCTTCATATTTCATCTGTTTCAGTAAGTGTCAA
1 TGATGAGCTAGCAAAATTGACATGAAACTTACCCTTTAGATTCCACCTATTTCAGTATGTGCCAA
* * ** * * * * ** * *
25066 AATAGGATAATATGGTTTCTGATGAGCTAGAAAAATTGACATGAAACCTACTATTC-AGTCTCTA
66 GAGAGGGGAACATGGTTGCTGATGAGCTAGCAAAATTGACATGAAACTTACCCTTCAAAT-TCCA
* * * * * ** *
25130 CCTGTTTCACTATGTGCCAAGAGAGGAGAACATGATTTCTGATGAGCTAGTTAAATTGAAATGAA
130 CATTTTTCAATATGTGCC-AGAGAGG-GAACATGGTTGCTGATGAGCTAGAAAAATTGACATGAA
* * ** * *
25195 ACTTA-CCAT-A-AGTTCA-A------A-TATGTGCCAAGAGAAGGGAACATGGTTGA
193 ACTTACCCTTCAGATTTCACATGTTTCAGTATGTGCCAAGAGAAAAGAACATGGATGC
* * * * * * **
25242 TGATGAGCTAGCAAAATTGACATGAAACTTACCCTTCAGATTTCACATGTTTTAGTACGTGTGAA
1 TGATGAGCTAGCAAAATTGACATGAAACTTACCCTTTAGATTCCACCTATTTCAGTATGTGCCAA
**** * * * * * *
25307 GAGATAATAACATGTTTACCGATGAGCTAGCAAAACTGACATGAAACTTACCCTTCATATTCTAC
66 GAGAGGGGAACATGGTTGCTGATGAGCTAGCAAAATTGACATGAAACTTACCCTTCAAATTCCAC
* * * * * * *
25372 CTGTTTCAGTATGTGCCAAGGGAGGGGAACATGGTTGCTGATGAGATAGCAAAATTGAAATGAAA
131 ATTTTTCAATATGTGCC-AGAGA-GGGAACATGGTTGCTGATGAGCTAGAAAAATTGACATGAAA
* * * ** * * *
25437 CTTACCCTTCA-AATTCTATATGTTTCAGTATGTGCCAAAAGAGGAGATCATAGTTGC
194 CTTACCCTTCAGATTTC-ACATGTTTCAGTATGTGCCAAGAGAAAAGAACATGGATGC
* * *
25494 TGATGAGCTAGTAAAATTTACATGAAACTTACCCTTTATATTCCACTTACCCTTTATATTCCACT
1 TGATGAGCTAGCAAAATTGACATGAAACTTACCCTTTAGATT-C-C--A-CC--TAT-TT---C-
* * * * * * ** **
25559 TGTTTAAGTATGTTCTAAGAGAGGGTAACATGTTTGTTGATGAGCTAACAAAATTGGTATGGGAC
54 ------AGTATGTGCCAAGAGAGGGGAACATGGTTGCTGATGAGCTAGCAAAATTGACATGAAAC
* *** * * * * * *
25624 TTACCATTTGTATTCAAAATATTTT-AGTATATGAG-AAGAGAGGGAAACATGGTTGTTGGTGAG
113 TTACCCTTCAAATTCCACAT-TTTTCA--ATATGTGCCAGAGAGGG-AACATGGTTGCTGATGAG
* * * * * * ** * * *
25687 CTAGCAAAATTGACATGGAATTTATCCTTCAGATTCCACCTGTTTTTGTATGTTCTAAGGGAGAG
174 CTAGAAAAATTGACATGAAACTTACCCTTCAGATTTCACATGTTTCAGTATGTGCCAA--GAGAA
** * *
25752 GGGAAAAT-GATTTC
237 AAGAACATGGA-TGC
* * * * ** * * *
25766 GGATGAGCTAGTAAAATTTACATGAAACTTACACTTTAGATTCTGCTTGTTTTAGTATGTGCCAA
1 TGATGAGCTAGCAAAATTGACATGAAACTTACCCTTTAGATTCCACCTATTTCAGTATGTGCCAA
* * * * * * *
25831 GCGAGGGGAACATGGTTACTGATGAGCTAG-TAAATTGACATGGAACTTACCCTTTAGATTCCTC
66 GAGAGGGGAACATGGTTGCTGATGAGCTAGCAAAATTGACATGAAACTTACCCTTCAAATTCC-A
* * * * * *
25895 CAGTTTT-AGTATGTGCCAAGAGAGGATAACGTGGGGTTACTGATGAGCTAGCAAAATTGACATG
130 CATTTTTCAATATGTGCC-AGAGAGG-GAACAT--GGTTGCTGATGAGCTAGAAAAATTGACATG
25959 AAACTTA
191 AAACTTA
25966 TGTTAGAGTA
Statistics
Matches: 2468, Mismatches: 579, Indels: 298
0.74 0.17 0.09
Matches are distributed among these distances:
235 2 0.00
236 44 0.02
240 30 0.01
241 338 0.14
242 186 0.08
243 53 0.02
244 8 0.00
245 14 0.01
246 127 0.05
247 6 0.00
248 3 0.00
249 11 0.00
250 126 0.05
251 423 0.17
252 748 0.30
253 85 0.03
254 36 0.01
255 32 0.01
256 1 0.00
257 1 0.00
259 2 0.00
260 2 0.00
264 2 0.00
265 2 0.00
267 1 0.00
269 3 0.00
270 119 0.05
271 8 0.00
272 55 0.02
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (250 bp):
TGATGAGCTAGCAAAATTGACATGAAACTTACCCTTTAGATTCCACCTATTTCAGTATGTGCCAA
GAGAGGGGAACATGGTTGCTGATGAGCTAGCAAAATTGACATGAAACTTACCCTTCAAATTCCAC
ATTTTTCAATATGTGCCAGAGAGGGAACATGGTTGCTGATGAGCTAGAAAAATTGACATGAAACT
TACCCTTCAGATTTCACATGTTTCAGTATGTGCCAAGAGAAAAGAACATGGATGC
Found at i:25415 original size:241 final size:240
Alignment explanation
Indices: 24989--25442 Score: 637
Period size: 241 Copynumber: 1.9 Consensus size: 240
24979 CAAAAGTGGA
* *
24989 GAACATGGTTGCTGATGAGCTAGCAAAATTGACATGAAACTTACCCTTCATATTTCATCTGTTTC
1 GAACATGGTTGATGATGAGCTAGCAAAATTGACATGAAACTTACCCTTCAGATTTCATCTGTTTC
* * * *
25054 AGTAAGTGTCAAAATAGGATAATATGGTTTCTGATGAGCTAGAAAAATTGACATGAAACCTACTA
66 AGTAAGTGTCAAAATA-GATAACATGGTTTCCGATGAGCTAGAAAAACTGACATGAAACCTACCA
* * **
25119 TTCAGTCTCTACCTGTTTCACTATGTGCCAAGAGAGGAGAACATGATTTCTGATGAGCTAGTTAA
130 TTCAGTCTCTACCTGTTTCACTATGTGCCAAGAGAGGAGAACATGATTGCTGATGAGATAGCAAA
25184 ATTGAAATGAAACTTACCATAAGTTCAAATATGTGCCAAGAGAAGG
195 ATTGAAATGAAACTTACCATAAGTTCAAATATGTGCCAAGAGAAGG
25230 GAACATGGTTGATGATGAGCTAGCAAAATTGACATGAAACTTACCCTTCAGATTTCA-CATGTTT
1 GAACATGGTTGATGATGAGCTAGCAAAATTGACATGAAACTTACCCTTCAGATTTCATC-TGTTT
* * * * *
25294 TAGTACGTGTGAAGAGATA-ATAACAT-GTTTACCGATGAGCTAGCAAAACTGACATGAAACTTA
65 CAGTAAGTGTCAA-A-ATAGATAACATGGTTT-CCGATGAGCTAGAAAAACTGACATGAAACCTA
* * * * * *
25357 CCCTTCA-TATTCTACCTGTTTCAGTATGTGCCAAGGGAGGGGAACATGGTTGCTGATGAGATAG
127 CCATTCAGT-CTCTACCTGTTTCACTATGTGCCAAGAGAGGAGAACATGATTGCTGATGAGATAG
25421 CAAAATTGAAATGAAACTTACC
191 CAAAATTGAAATGAAACTTACC
25443 CTTCAAATTC
Statistics
Matches: 187, Mismatches: 21, Indels: 10
0.86 0.10 0.05
Matches are distributed among these distances:
240 6 0.03
241 177 0.95
242 1 0.01
243 3 0.02
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.29
Consensus pattern (240 bp):
GAACATGGTTGATGATGAGCTAGCAAAATTGACATGAAACTTACCCTTCAGATTTCATCTGTTTC
AGTAAGTGTCAAAATAGATAACATGGTTTCCGATGAGCTAGAAAAACTGACATGAAACCTACCAT
TCAGTCTCTACCTGTTTCACTATGTGCCAAGAGAGGAGAACATGATTGCTGATGAGATAGCAAAA
TTGAAATGAAACTTACCATAAGTTCAAATATGTGCCAAGAGAAGG
Found at i:25541 original size:18 final size:18
Alignment explanation
Indices: 25520--25559 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
25510 TTTACATGAA
25520 ACTTACCCTTTATATTCC
1 ACTTACCCTTTATATTCC
25538 ACTTACCCTTTATATTCC
1 ACTTACCCTTTATATTCC
25556 ACTT
1 ACTT
25560 GTTTAAGTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.23, C:0.33, G:0.00, T:0.45
Consensus pattern (18 bp):
ACTTACCCTTTATATTCC
Found at i:25807 original size:86 final size:83
Alignment explanation
Indices: 25683--25965 Score: 262
Period size: 86 Copynumber: 3.3 Consensus size: 83
25673 TGGTTGTTGG
* * * * * *
25683 TGAGCTAGCAAAATTGACATGGAATTTATCCTTCAGATTCCACCTGTTTTTGTATGTTCTAAGGG
1 TGAGCTAGTAAAATTGACATGGAACTTA-CCTTTAGATTCCACCTGTTTTAGTATGTGCCAA--G
*
25748 AGAGGGGAAAATGATTTCGGA
63 AGAGGGGAAAATGATTACGGA
* * ** * *
25769 TGAGCTAGTAAAATTTACATGAAACTTACACTTTAGATTCTGCTTGTTTTAGTATGTGCCAAGCG
1 TGAGCTAGTAAAATTGACATGGAACTTAC-CTTTAGATTCCACCTGTTTTAGTATGTGCCAAGAG
* * *
25834 AGGGGAACATGGTTACTGA
65 AGGGGAAAATGATTACGGA
* *
25853 TGAGCTAGT-AAATTGACATGGAACTTACCCTTTAGATTCCTCCAGTTTTAGTATGTGCCAAGAG
1 TGAGCTAGTAAAATTGACATGGAACTTA-CCTTTAGATTCCACCTGTTTTAGTATGTGCCAAGAG
** ** * *
25917 AGGATAACGTGGGGTTACTGA
65 AGGGGAAAAT--GATTACGGA
* *
25938 TGAGCTAGCAAAATTGACATGAAACTTA
1 TGAGCTAGTAAAATTGACATGGAACTTA
25966 TGTTAGAGTA
Statistics
Matches: 164, Mismatches: 28, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
83 53 0.32
84 27 0.16
85 18 0.11
86 66 0.40
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.31
Consensus pattern (83 bp):
TGAGCTAGTAAAATTGACATGGAACTTACCTTTAGATTCCACCTGTTTTAGTATGTGCCAAGAGA
GGGGAAAATGATTACGGA
Found at i:25886 original size:83 final size:83
Alignment explanation
Indices: 25538--25965 Score: 304
Period size: 84 Copynumber: 5.1 Consensus size: 83
25528 TTTATATTCC
* * * * * * **
25538 ACTTACCCTTTATATTC-CACTTGTTTAAGTATGTTCTAAGAGAGGGTAACATGTTTGTTGATGA
1 ACTTACCCTTTAGATTCTC-C-TGTTTTAGTATGTGCCAAGAGAGGGGAACATGGTTACTGATGA
* ** **
25602 GCTAACAAAATTGGTATGGG
64 GCTAGCAAAATTGACATGAA
* *** * * ** * ** *
25622 ACTTACCATTT-GTATTCAAAATATTTTAGTATATGAGAAGAGAGGGAAACATGGTTGTTGGTGA
1 ACTTACCCTTTAG-ATTC-TCCTGTTTTAGTATGTGCCAAGAGAGGGGAACATGGTTACTGATGA
*
25686 GCTAGCAAAATTGACATGGA
64 GCTAGCAAAATTGACATGAA
* * * * * * * * * * *
25706 ATTTATCCTTCAGATTCCACCTGTTTTTGTATGTTCTAAGGGAGAGGGGAAAATGATTTCGGATG
1 ACTTACCCTTTAGATT-CTCCTGTTTTAGTATGTGCCAA--GAGAGGGGAACATGGTTACTGATG
* *
25771 AGCTAGTAAAATTTACATGAA
63 AGCTAGCAAAATTGACATGAA
* * *
25792 ACTTACACTTTAGATTCTGCTTGTTTTAGTATGTGCCAAGCGAGGGGAACATGGTTACTGATGAG
1 ACTTACCCTTTAGATTCT-CCTGTTTTAGTATGTGCCAAGAGAGGGGAACATGGTTACTGATGAG
* *
25857 CTAG-TAAATTGACATGGA
65 CTAGCAAAATTGACATGAA
* ** *
25875 ACTTACCCTTTAGATTCCTCCAGTTTTAGTATGTGCCAAGAGAGGATAACGTGGGGTTACTGATG
1 ACTTACCCTTTAGATT-CTCCTGTTTTAGTATGTGCCAAGAGAGGGGAACAT--GGTTACTGATG
25940 AGCTAGCAAAATTGACATGAA
63 AGCTAGCAAAATTGACATGAA
25961 ACTTA
1 ACTTA
25966 TGTTAGAGTA
Statistics
Matches: 267, Mismatches: 65, Indels: 22
0.75 0.18 0.06
Matches are distributed among these distances:
83 53 0.20
84 114 0.43
85 20 0.07
86 80 0.30
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.33
Consensus pattern (83 bp):
ACTTACCCTTTAGATTCTCCTGTTTTAGTATGTGCCAAGAGAGGGGAACATGGTTACTGATGAGC
TAGCAAAATTGACATGAA
Found at i:27693 original size:84 final size:84
Alignment explanation
Indices: 27474--28319 Score: 664
Period size: 84 Copynumber: 10.1 Consensus size: 84
27464 TGGTCCCAAC
* * * * * * *
27474 AACTTACCCTTTAGATTCTACTTGATTCAGTACGTGCCAAGAGAGGGGAACATAGTTCCTGATGA
1 AACTTACCCTTCAGATTCCACCTGTTTCAGTATGTGCCAAGAGAGGGGAACATGGTTACTGATGA
* *
27539 TCTAGCAAAATTAACATGA
66 GCTAGCAAAATTGACATGA
* * * * * * * **
27558 AAATTACCCGTCAAATTCCACCTATTTCAAT-TGGTGCCAAAATAGAAGAACATGGTTACTGATG
1 AACTTACCCTTCAGATTCCACCTGTTTCAGTAT-GTGCCAAGAGAGGGGAACATGGTTACTGATG
*
27622 AGCTAGTAAAATTGACATGA
65 AGCTAGCAAAATTGACATGA
* * * * * ** * * * * * *
27642 AACTTACCATTTAGATTTCGCCTCTTTTGGTATGTTCTAAGAGAGGGGAACATGATTTCTAATAA
1 AACTTACCCTTCAGATTCCACCTGTTTCAGTATGTGCCAAGAGAGGGGAACATGGTTACTGATGA
* ** *
27707 GTTAGCAAAATTGGTATGT
66 GCTAGCAAAATTGACATGA
* * * *** * *
27726 AACTTACCCTTCAGATTCCACCTATTTCAGTATATGCCAAGGGAGATAAAGATGGTTGCTGATGA
1 AACTTACCCTTCAGATTCCACCTGTTTCAGTATGTGCCAAGAGAGGGGAACATGGTTACTGATGA
* *
27791 GCTAGCAAATTTGACATGG
66 GCTAGCAAAATTGACATGA
* *
27810 AATTTACCCTTCAGATTCCACCTGTTTCAATATGTGCCAAGAGAGAGTGGAACATGGTTGA-TGA
1 AACTTACCCTTCAGATTCCACCTGTTTCAGTATGTGCCAAGAGAG-G-GGAACATGGTT-ACTGA
* *
27874 TGAGCTAGCATATTTGACATGA
63 TGAGCTAGCAAAATTGACATGA
* * * * *
27896 AACTTACCCTTCAGATTCCACATGTTTTAGTATGTGCCAAGAGAGAGGAACATGATTCCTGATGA
1 AACTTACCCTTCAGATTCCACCTGTTTCAGTATGTGCCAAGAGAGGGGAACATGGTTACTGATGA
* * *
27961 GCTAGCAAAACTAACATGG
66 GCTAGCAAAATTGACATGA
* * * * ** **
27980 AACTTGCCCTTCAGATTCCACATGTTTCAGTATATTCCAAGAGAGTAGAACATGGTTGTTGATGA
1 AACTTACCCTTCAGATTCCACCTGTTTCAGTATGTGCCAAGAGAGGGGAACATGGTTACTGATGA
* *
28045 GCTAGCAAAATTGAAATGG
66 GCTAGCAAAATTGACATGA
* * * * ** ** * * *
28064 AACTTACCCTTTAGATTCCATCTTTTTTAGTATGTGTTAAGAGAGGATAATATGGTTATTAATGA
1 AACTTACCCTTCAGATTCCACCTGTTTCAGTATGTGCCAAGAGAGGGGAACATGGTTACTGATGA
*
28129 GCTAGCAGAATTGACATGA
66 GCTAGCAAAATTGACATGA
** * * * ** * * *
28148 AACTTACTTTTCAGATTCTACCTATTTCAATATGCACCAAGAGAGAGGG-ATATGGTTGCTGATA
1 AACTTACCCTTCAGATTCCACCTGTTTCAGTATGTGCCAAGAGAG-GGGAACATGGTTACTGATG
*
28212 AGCTAG-AGAAATTGAAATGA
65 AGCTAGCA-AAATTGACATGA
* * * * ** * *
28232 AACCTACCTTTCA-AGTTCCACAAT-TTT-AGTATGTGCCAAAAGAGCAGAACTTGGTTGCTGAT
1 AACTTACCCTTCAGA-TTCCAC-CTGTTTCAGTATGTGCCAAGAGAGGGGAACATGGTTACTGAT
28294 GAGCTA-CTAAAATTGACATGA
64 GAGCTAGC-AAAATTGACATGA
28315 AACTT
1 AACTT
28320 GTGTAACACA
Statistics
Matches: 591, Mismatches: 158, Indels: 27
0.76 0.20 0.03
Matches are distributed among these distances:
82 1 0.00
83 47 0.08
84 468 0.79
85 3 0.01
86 72 0.12
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (84 bp):
AACTTACCCTTCAGATTCCACCTGTTTCAGTATGTGCCAAGAGAGGGGAACATGGTTACTGATGA
GCTAGCAAAATTGACATGA
Found at i:29275 original size:24 final size:26
Alignment explanation
Indices: 29219--29280 Score: 76
Period size: 25 Copynumber: 2.5 Consensus size: 26
29209 ATAATGTTAG
29219 GAGTACACAAAT-ATACTAAGTACAA
1 GAGTACACAAATGATACTAAGTACAA
* *
29244 GAGTACAC-AATGGTACTAA-TACGA
1 GAGTACACAAATGATACTAAGTACAA
*
29268 GAGTACACGAATG
1 GAGTACACAAATG
29281 CCCTAATATA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
24 15 0.45
25 18 0.55
ACGTcount: A:0.45, C:0.16, G:0.19, T:0.19
Consensus pattern (26 bp):
GAGTACACAAATGATACTAAGTACAA
Found at i:29532 original size:23 final size:24
Alignment explanation
Indices: 29506--29552 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
29496 CAAACTATTT
29506 AGTAAAATACCATAT-AAAATATA
1 AGTAAAATACCATATAAAAATATA
*
29529 AGTAAAATATCATATAAAAATATA
1 AGTAAAATACCATATAAAAATATA
29553 TGGGGTAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.62, C:0.06, G:0.04, T:0.28
Consensus pattern (24 bp):
AGTAAAATACCATATAAAAATATA
Found at i:31864 original size:77 final size:76
Alignment explanation
Indices: 31666--32058 Score: 303
Period size: 84 Copynumber: 5.0 Consensus size: 76
31656 TACCCTTCAT
* * * * ** * * * * *
31666 ATTCCACATGTTTCAGTATGCGTCAAGAGAAAGAACATGGATGTTGATGAGCTAGCAAAATTCAC
1 ATTCCACCTATTTCAGTATGTGCCAAGAGAGGGGACATGGTTGCTGATGAGCTAGTAAAATTGAC
*
31731 ATGATACTT--
66 ATGAAACTTAA
* * * * *
31740 A--CCACCTATTTTAGTATGTGTCAAGAGAAGGGGATATGGTTGTTGATGAGCTAG-AAAAGTTT
1 ATTCCACCTATTTCAGTATGTGCCAAGAG-AGGGGACATGGTTGCTGATGAGCTAGTAAAA-TTG
31802 ACATGAAACTTAA
64 ACATGAAACTTAA
* * * * *
31815 ATTCCACCTGTTTCAATATGTGCCAAAAGAGGGGAATATGGTTGCTGATGAACTAGTAAAATTGA
1 ATTCCACCTATTTCAGTATGTGCCAAGAGAGGGG-ACATGGTTGCTGATGAGCTAGTAAAATTGA
31880 CATGAAACTTATATTTTA
65 CATGAAAC-T-TA----A
* *
31898 GATTCCACCTATTTCAGTATGTTG-TAAGAGATGGGGACATGGTTACTGATGAGCTAGTAAAATT
1 -ATTCCACCTATTTCAGTATG-TGCCAAGAGA-GGGGACATGGTTGCTGATGAGCTAGTAAAATT
*
31962 GACATGGAATTTATCCTTCAT
63 GACAT-GAA---A--CTT-AA
* * **
31983 ATTCCACATATTTCAGTATGTGCCAAGAGAGGGGAACATGGTTGCTGATAAGCTAGCGAAATTGA
1 ATTCCACCTATTTCAGTATGTGCCAAGAGAGGGG-ACATGGTTGCTGATGAGCTAGTAAAATTGA
32048 CATGAAACTTA
65 CATGAAACTTA
32059 CCCTTCAATT
Statistics
Matches: 260, Mismatches: 33, Indels: 49
0.76 0.10 0.14
Matches are distributed among these distances:
72 26 0.10
73 33 0.13
74 1 0.00
75 1 0.00
76 5 0.02
77 52 0.20
78 8 0.03
79 2 0.01
80 1 0.00
83 10 0.04
84 107 0.41
85 9 0.03
88 2 0.01
89 2 0.01
90 1 0.00
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.31
Consensus pattern (76 bp):
ATTCCACCTATTTCAGTATGTGCCAAGAGAGGGGACATGGTTGCTGATGAGCTAGTAAAATTGAC
ATGAAACTTAA
Found at i:31956 original size:84 final size:84
Alignment explanation
Indices: 31741--32390 Score: 395
Period size: 84 Copynumber: 7.9 Consensus size: 84
31731 ATGATACTTA
* * * * * *
31741 CCACCTATTTTAGTATGTGTCAAGAGAAGGGG-ATATGGTTGTTGATGAGCTAG-AAAAGTTTAC
1 CCACATATTTCAGTATGTGCCAAGAG-AGGGGAACATGGTTGCTGATGAGCTAGTAAAA-TTGAC
31804 ATGAAAC-T-TA----A-ATT
64 ATGAAACTTATACTTCAGATT
* * * * * *
31818 CCACCTGTTTCAATATGTGCCAAAAGAGGGGAATATGGTTGCTGATGAACTAGTAAAATTGACAT
1 CCACATATTTCAGTATGTGCCAAGAGAGGGGAACATGGTTGCTGATGAGCTAGTAAAATTGACAT
* *
31883 GAAACTTATATTTTAGATT
66 GAAACTTATACTTCAGATT
* * *
31902 CCACCTATTTCAGTATGTTG-TAAGAGATGGGG-ACATGGTTACTGATGAGCTAGTAAAATTGAC
1 CCACATATTTCAGTATG-TGCCAAGAGA-GGGGAACATGGTTGCTGATGAGCTAGTAAAATTGAC
* * * *
31965 ATGGAATTTATCCTTCATATT
64 ATGAAACTTATACTTCAGATT
* **
31986 CCACATATTTCAGTATGTGCCAAGAGAGGGGAACATGGTTGCTGATAAGCTAGCGAAATTGACAT
1 CCACATATTTCAGTATGTGCCAAGAGAGGGGAACATGGTTGCTGATGAGCTAGTAAAATTGACAT
**
32051 GAAACTTACCCTTCA-ATTT
66 GAAACTTATACTTCAGA-TT
* * * * * * * * * *
32070 TCACATGTTTTAGTATGTGCTAAAAGAAGGGAACATGGTTGCTGACGAGATAGAAAAATTGTCAT
1 CCACATATTTCAGTATGTGCCAAGAGAGGGGAACATGGTTGCTGATGAGCTAGTAAAATTGACAT
** **
32135 GAAGTTTACCCTTCAGA-T
66 GAAACTTATACTTCAGATT
* * ** * * * * * * *
32153 --ACATGTATCAAAATGTGTCAAGAGATGGGAACATAGTT-TTCGACGAACTAGTAAAAATGACA
1 CCACATATTTCAGTATGTGCCAAGAGAGGGGAACATGGTTGCT-GATGAGCTAGTAAAATTGACA
** *
32215 TG-AACTTACCCTTTAGATT
65 TGAAACTTATACTTCAGATT
* * * * * ** * ** * *
32234 CCATC-TGTTTCAGTAAGTGTCAAAATAGGATAATATGGTTATTGACGAGCTAGCAAAATTGACA
1 CCA-CATATTTCAGTATGTGCCAAGAGAGGGGAACATGGTTGCTGATGAGCTAGTAAAATTGACA
* **
32298 TGAAACCTATTTTTCA-ATCT
65 TGAAACTTATACTTCAGAT-T
* * * * * * *
32318 CTATC-TGTTTCACTATGTGCCAAGAGAGGAGAACACGATTGCTGACGAGCTAGTAAAATTGACA
1 CCA-CATATTTCAGTATGTGCCAAGAGAGGGGAACATGGTTGCTGATGAGCTAGTAAAATTGACA
32382 TGAAACTTA
65 TGAAACTTA
32391 CCACAAGTTC
Statistics
Matches: 455, Mismatches: 95, Indels: 39
0.77 0.16 0.07
Matches are distributed among these distances:
76 5 0.01
77 51 0.11
78 5 0.01
79 2 0.00
80 13 0.03
81 48 0.11
83 56 0.12
84 268 0.59
85 7 0.02
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.31
Consensus pattern (84 bp):
CCACATATTTCAGTATGTGCCAAGAGAGGGGAACATGGTTGCTGATGAGCTAGTAAAATTGACAT
GAAACTTATACTTCAGATT
Found at i:32026 original size:168 final size:165
Alignment explanation
Indices: 31741--32392 Score: 519
Period size: 168 Copynumber: 3.9 Consensus size: 165
31731 ATGATACTTA
* * * ** * *
31741 CCACCTATTTTAGTATGTGTCAAGAGAAGGGGATATGGTTGTTGATGAGCTAGAAAAGTTTACAT
1 CCACCTATTTCAGTATGTGTCAAGAGAAGGGAACATGGTTACTGACGAGCTAGAAAA-TTGACAT
* * * * *
31806 GAA---A--CTTAAATTCCACCTGTTTCAATATGTGCCAAAAGAGGGGAATATGGTTGCTGATGA
65 GAATTTATCCTTCAATTCCACATGTTTCAATATGTGCCAAGAGAGGGGAACATGGTTGCTGACGA
***
31866 ACTAGTAAAATTGACATGAAACTTATATTTTAGATT
130 ACTAGTAAAATTGACATGAAACTTACCCTTTAGATT
* * *
31902 CCACCTATTTCAGTATGTTGT-AAGAGATGGGGACATGGTTACTGATGAGCTAGTAAAATTGACA
1 CCACCTATTTCAGTATG-TGTCAAGAGAAGGGAACATGGTTACTGACGAGCTAG-AAAATTGACA
* *
31966 TGGAATTTATCCTTCATATTCCACATATTTCAGTATGTGCCAAGAGAGGGGAACATGGTTGCTGA
64 T-GAATTTATCCTTCA-ATTCCACATGTTTCAATATGTGCCAAGAGAGGGGAACATGGTTGCTGA
* ** *
32031 -TAAGCTAGCGAAATTGACATGAAACTTACCCTTCA-ATTT
127 CGAA-CTAGTAAAATTGACATGAAACTTACCCTTTAGA-TT
* * * * * * * *
32070 TCACATGTTTTAGTATGTG-CTAAAAGAAGGGAACATGGTTGCTGACGAGATAGAAAAATTGTCA
1 CCACCTATTTCAGTATGTGTC-AAGAGAAGGGAACATGGTTACTGACGAGCTAG-AAAATTGACA
* * * * * * *
32134 TGAAGTTTACCCTTCAGA-T--ACATGTATCAAAATGTGTCAAGAGATGGGAACATAGTT-TTCG
64 TGAA-TTTATCCTTCA-ATTCCACATGTTTCAATATGTGCCAAGAGAGGGGAACATGGTTGCT-G
*
32195 ACGAACTAGTAAAAATGACATG-AACTTACCCTTTAGATT
126 ACGAACTAGTAAAATTGACATGAAACTTACCCTTTAGATT
* * * * * *
32234 CCATCTGTTTCAGTAAGTGTCAA-A-ATAGGATAATATGGTTATTGACGAGCTAGCAAAATTGAC
1 CCACCTATTTCAGTATGTGTCAAGAGA-AGG-GAACATGGTTACTGACGAGCTAG-AAAATTGAC
** ** * * * * *
32297 ATGAAACCTATTTTTCAATCTCTATC-TGTTTCACTATGTGCCAAGAGAGGAGAACACGATTGCT
63 ATG-AATTTATCCTTCAAT-TCCA-CATGTTTCAATATGTGCCAAGAGAGGGGAACATGGTTGCT
*
32361 GACGAGCTAGTAAAATTGACATGAAACTTACC
125 GACGAACTAGTAAAATTGACATGAAACTTACC
32393 ACAAGTTCAA
Statistics
Matches: 388, Mismatches: 75, Indels: 49
0.76 0.15 0.10
Matches are distributed among these distances:
161 50 0.13
162 11 0.03
163 5 0.01
164 66 0.17
165 53 0.14
166 2 0.01
167 61 0.16
168 140 0.36
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.31
Consensus pattern (165 bp):
CCACCTATTTCAGTATGTGTCAAGAGAAGGGAACATGGTTACTGACGAGCTAGAAAATTGACATG
AATTTATCCTTCAATTCCACATGTTTCAATATGTGCCAAGAGAGGGGAACATGGTTGCTGACGAA
CTAGTAAAATTGACATGAAACTTACCCTTTAGATT
Found at i:32614 original size:95 final size:95
Alignment explanation
Indices: 32447--32632 Score: 273
Period size: 95 Copynumber: 2.0 Consensus size: 95
32437 CCTATTTCAA
* * * *
32447 TATGTACCAAGAGTGGATAATATGGTTACTGATAAGCTAGCAAAATTGACATGAAACTTAGCCTT
1 TATGTACCAAAAGAGGAGAATATGGTTACTGATAAGCTAGCAAAATTGACATGAAACTTACCCTT
32512 CAAATTCCACCTGTTTCAGTATGTGCCACG
66 CAAATTCCACCTGTTTCAGTATGTGCCACG
* * * *
32542 TATGTGCCAAAAGAGGAGAATATGGTTGCTGATGAGCTAGTAAAATTGACATGAAACTTACCCTT
1 TATGTACCAAAAGAGGAGAATATGGTTACTGATAAGCTAGCAAAATTGACATGAAACTTACCCTT
* * *
32607 TAGATTCCACCTGTTTCATTATGTGC
66 CAAATTCCACCTGTTTCAGTATGTGC
32633 TAAGAGAGGG
Statistics
Matches: 80, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
95 80 1.00
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.31
Consensus pattern (95 bp):
TATGTACCAAAAGAGGAGAATATGGTTACTGATAAGCTAGCAAAATTGACATGAAACTTACCCTT
CAAATTCCACCTGTTTCAGTATGTGCCACG
Found at i:32684 original size:84 final size:83
Alignment explanation
Indices: 32541--33021 Score: 486
Period size: 83 Copynumber: 5.7 Consensus size: 83
32531 TATGTGCCAC
* * * *
32541 GTATGTGCCAAAAGAGGAGAATATGGTTGCTGATGAGCTAGTAAAATTGACATGAAACTTACCCT
1 GTATGTGCCAAGAGAGGGGAACATGGTTGTTGATGAGCTAGTAAAATTGACATG-AACTTACCCT
*
32606 TTAGATTCCACCTGTTTCA
65 TCAGATTCCACCTGTTTCA
* * * * * **
32625 TTATGTGCTAAGAGAGGGGAACATGATTGTTGATGAACTAGAAAAATTGGTATAGAACTTACCCT
1 GTATGTGCCAAGAGAGGGGAACATGGTTGTTGATGAGCTAGTAAAATTGACAT-GAACTTACCCT
* * *
32690 TCGGATT-TACCTATATT-A
65 TCAGATTCCACCTGT-TTCA
* * * *
32708 GTGTATGCCAAGAGAGGGAAACATGGTTGTTGATGAGCTAGTAAAATTGACATGGAATTTACCCT
1 GTATGTGCCAAGAGAGGGGAACATGGTTGTTGATGAGCTAGTAAAATTGACAT-GAACTTACCCT
32773 TCAGATTCCA-CTCGTTTCA
65 TCAGATTCCACCT-GTTTCA
* * *
32792 GTATGTGCGAATAGAGAGGGGAACATGGTTGATGATGAGCTAGTAAAATTGACATGAAATTTACC
1 GTATGTGC-CA-AGAGAGGGGAACATGGTTGTTGATGAGCTAGTAAAATTGACATG-AACTTACC
* * * *
32857 CTTTAAATTTCACCTGTTTTA
63 CTTCAGATTCCACCTGTTTCA
* * * ** **
32878 GTATGTTCCAAGAGAGAGGAACATGATTCCTGATGAGCTAACAAAATTGACATGGAACTTACCCT
1 GTATGTGCCAAGAGAGGGGAACATGGTTGTTGATGAGCTAGTAAAATTGACAT-GAACTTACCCT
*
32943 TCAGATTCCA-TTGTTTCA
65 TCAGATTCCACCTGTTTCA
** * *
32961 ACATGTGCCAACAGAGGGGAACATGGTTGATT-ATGAGCTAGCAAAATTGACATGAAACTTA
1 GTATGTGCCAAGAGAGGGGAACATGGTTG-TTGATGAGCTAGTAAAATTGACATG-AACTTA
33022 TTTAAGTATG
Statistics
Matches: 323, Mismatches: 62, Indels: 25
0.79 0.15 0.06
Matches are distributed among these distances:
82 1 0.00
83 123 0.38
84 122 0.38
85 5 0.02
86 70 0.22
87 2 0.01
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (83 bp):
GTATGTGCCAAGAGAGGGGAACATGGTTGTTGATGAGCTAGTAAAATTGACATGAACTTACCCTT
CAGATTCCACCTGTTTCA
Found at i:32986 original size:253 final size:251
Alignment explanation
Indices: 32541--33014 Score: 607
Period size: 253 Copynumber: 1.9 Consensus size: 251
32531 TATGTGCCAC
* *
32541 GTATGTGCCAAAAGAGGAGAATATGGTTGCTGATGAGCTAGTAAAATTGACATGAAACTTACCCT
1 GTATGTGCCAAAAGAGGAGAACATGGTTGATGATGAGCTAGTAAAATTGACATGAAACTTACCCT
* * * * **
32606 TTAGATTCCACCTGTTTCATTATGTGCTAAGAGAGGGGAACATGATTGTTGATGAACTAGAAAAA
66 TTAAATTCCACCTGTTTCAGTATGTGCCAAGAGAGAGGAACATGATTCCTGATGAACTAGAAAAA
** * *** *
32671 TTGGTATAGAACTTACCCTTCGGATTTACCTATATTAGTGTATGCCAAGAGAGGGAAACATGGTT
131 TTGACATAGAACTTACCCTTCAGATTTACCTATATTAACATATGCCAACAGAGGGAAACATGGTT
*
32736 G-TTGATGAGCTAGTAAAATTGACATGGAATTTACCCTTCAGATTCCACTCGTTTCA
196 GATT-ATGAGCTAGCAAAATTGACATGGAATTTACCCTTCAGATTCCACTCGTTTCA
* * *
32792 GTATGTGCGAATAGAGAGGGGAACATGGTTGATGATGAGCTAGTAAAATTGACATGAAATTTACC
1 GTATGTGCCAA-A-AGAGGAGAACATGGTTGATGATGAGCTAGTAAAATTGACATGAAACTTACC
* * * *
32857 CTTTAAATTTCACCTGTTTTAGTATGTTCCAAGAGAGAGGAACATGATTCCTGATGAGCTA-ACA
64 CTTTAAATTCCACCTGTTTCAGTATGTGCCAAGAGAGAGGAACATGATTCCTGATGAACTAGA-A
* * * *
32921 AAATTGACATGGAACTTACCCTTCAGA-TT-CC-ATTGTTTCAACATGTGCCAACAGAGGGGAAC
128 AAATTGACATAGAACTTACCCTTCAGATTTACCTA-T-ATT-AACATATGCCAACAGAGGGAAAC
32983 ATGGTTGATTATGAGCTAGCAAAATTGACATG
190 ATGGTTGATTATGAGCTAGCAAAATTGACATG
33015 AAACTTATTT
Statistics
Matches: 189, Mismatches: 27, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
250 1 0.01
251 13 0.07
252 6 0.03
253 167 0.88
254 2 0.01
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (251 bp):
GTATGTGCCAAAAGAGGAGAACATGGTTGATGATGAGCTAGTAAAATTGACATGAAACTTACCCT
TTAAATTCCACCTGTTTCAGTATGTGCCAAGAGAGAGGAACATGATTCCTGATGAACTAGAAAAA
TTGACATAGAACTTACCCTTCAGATTTACCTATATTAACATATGCCAACAGAGGGAAACATGGTT
GATTATGAGCTAGCAAAATTGACATGGAATTTACCCTTCAGATTCCACTCGTTTCA
Found at i:34551 original size:29 final size:29
Alignment explanation
Indices: 34455--34551 Score: 70
Period size: 29 Copynumber: 3.3 Consensus size: 29
34445 TATATTGATG
* * *
34455 AGTTTAGGGATTAAACTAGAATATTCAAA
1 AGTTTAAGGATCAAATTAGAATATTCAAA
* * * * * *
34484 ATTTTGAGGACCAACTTAGAAATAGGATCATA
1 AGTTTAAGGATCAAATTAG-AATA--TTCAAA
*
34516 A-TTTAAGGATGAAATTAGAATATTCAAA
1 AGTTTAAGGATCAAATTAGAATATTCAAA
34544 AGTTTAAG
1 AGTTTAAG
34552 ATCTGATTTA
Statistics
Matches: 49, Mismatches: 15, Indels: 8
0.68 0.21 0.11
Matches are distributed among these distances:
28 5 0.10
29 18 0.37
30 8 0.16
31 13 0.27
32 5 0.10
ACGTcount: A:0.44, C:0.07, G:0.18, T:0.31
Consensus pattern (29 bp):
AGTTTAAGGATCAAATTAGAATATTCAAA
Found at i:39907 original size:17 final size:17
Alignment explanation
Indices: 39885--39919 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
39875 GGTGAGTTTG
39885 TAAATAATGTTTGGGTC
1 TAAATAATGTTTGGGTC
39902 TAAATAATGTTTGGGTC
1 TAAATAATGTTTGGGTC
39919 T
1 T
39920 GGAATATTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.06, G:0.23, T:0.43
Consensus pattern (17 bp):
TAAATAATGTTTGGGTC
Found at i:41800 original size:17 final size:17
Alignment explanation
Indices: 41778--41814 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
41768 TAGGTTGATT
41778 TGTTTGTCAATTGTACA
1 TGTTTGTCAATTGTACA
*
41795 TGTTTGTCTATTGTACA
1 TGTTTGTCAATTGTACA
41812 TGT
1 TGT
41815 AAAAATGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.19, C:0.11, G:0.19, T:0.51
Consensus pattern (17 bp):
TGTTTGTCAATTGTACA
Found at i:45787 original size:32 final size:32
Alignment explanation
Indices: 45751--45835 Score: 104
Period size: 32 Copynumber: 2.7 Consensus size: 32
45741 GTTTCAGATC
* *
45751 AATATTGGTTCGGTT-GACTTTTGGGTCGGATT
1 AATATTCGATCGGTTAGA-TTTTGGGTCGGATT
45783 AATATTCGATCGGTTAGATTTTGGGTCGGATT
1 AATATTCGATCGGTTAGATTTTGGGTCGGATT
*
45815 AATA-TCGAATCGATT-GATTTT
1 AATATTCG-ATCGGTTAGATTTT
45836 TTAATTGGGT
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
31 9 0.19
32 37 0.77
33 2 0.04
ACGTcount: A:0.22, C:0.09, G:0.26, T:0.42
Consensus pattern (32 bp):
AATATTCGATCGGTTAGATTTTGGGTCGGATT
Found at i:45876 original size:32 final size:32
Alignment explanation
Indices: 45801--45877 Score: 84
Period size: 32 Copynumber: 2.4 Consensus size: 32
45791 ATCGGTTAGA
* * *
45801 TTTTGGGTCGGATTAATATCGAATCGATTGAT
1 TTTTGGGTTGGGTTAAGATCGAATCGATTGAT
***
45833 TTTTTAATTGGGTTAAGATC-AGATCGATTGAT
1 TTTTGGGTTGGGTTAAGATCGA-ATCGATTGAT
45865 TTTTGGGTTGGGT
1 TTTTGGGTTGGGT
45878 CAACCTTTGA
Statistics
Matches: 35, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
31 1 0.03
32 34 0.97
ACGTcount: A:0.22, C:0.06, G:0.27, T:0.44
Consensus pattern (32 bp):
TTTTGGGTTGGGTTAAGATCGAATCGATTGAT
Found at i:46084 original size:16 final size:16
Alignment explanation
Indices: 46065--46190 Score: 58
Period size: 16 Copynumber: 7.9 Consensus size: 16
46055 TTCGGATTAA
46065 TTTTGGTTTGGGTTAC
1 TTTTGGTTTGGGTTAC
* * *
46081 TTTTGGATCGGGTTAAA
1 TTTTGGTTTGGGTT-AC
** * *
46098 TCCT-ATTCGGGTTAC
1 TTTTGGTTTGGGTTAC
* * *
46113 TTTCGGTTCGGGTTGC
1 TTTTGGTTTGGGTTAC
*** *
46129 TTTCAATTTAGGTTA-
1 TTTTGGTTTGGGTTAC
*
46144 TTTTCGGTTTGAGTTAC
1 TTTT-GGTTTGGGTTAC
*
46161 TTTTGGTTTGGGTTAA
1 TTTTGGTTTGGGTTAC
**
46177 TTTCAGTTTGGGTT
1 TTTTGGTTTGGGTT
46191 TTTTTTTGGT
Statistics
Matches: 79, Mismatches: 27, Indels: 8
0.69 0.24 0.07
Matches are distributed among these distances:
15 5 0.06
16 67 0.85
17 7 0.09
ACGTcount: A:0.13, C:0.10, G:0.27, T:0.50
Consensus pattern (16 bp):
TTTTGGTTTGGGTTAC
Found at i:48868 original size:13 final size:13
Alignment explanation
Indices: 48850--48888 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
48840 TAGGATATTG
*
48850 ATAGTAAGGTATA
1 ATAGTAAGGCATA
48863 ATAGTAAGGCATA
1 ATAGTAAGGCATA
*
48876 ATAGTGAGGCATA
1 ATAGTAAGGCATA
48889 CCTGATGAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.44, C:0.05, G:0.26, T:0.26
Consensus pattern (13 bp):
ATAGTAAGGCATA
Found at i:50792 original size:20 final size:20
Alignment explanation
Indices: 50767--50819 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
50757 AAGAACCTTC
50767 GGTATCGATACTCTTATGGG
1 GGTATCGATACTCTTATGGG
50787 GGTATCGATACTCTTATGGG
1 GGTATCGATACTCTTATGGG
* *
50807 AGTATCAATACTC
1 GGTATCGATACTC
50820 CTCTAGGTAG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.34
Consensus pattern (20 bp):
GGTATCGATACTCTTATGGG
Found at i:51766 original size:20 final size:20
Alignment explanation
Indices: 51721--51768 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
51711 GACTAGGGTC
* * *
51721 TTGAGACTGAGCATCCAGTC
1 TTGATACTGAGCATCCAATA
*
51741 TCGATACTGAGCATCCAATA
1 TTGATACTGAGCATCCAATA
51761 TTGATACT
1 TTGATACT
51769 AAAATCCTCA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (20 bp):
TTGATACTGAGCATCCAATA
Found at i:52503 original size:12 final size:12
Alignment explanation
Indices: 52486--52515 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
52476 AAAGGAAAAG
52486 ACTTTTACTATA
1 ACTTTTACTATA
*
52498 ACTTTTGCTATA
1 ACTTTTACTATA
52510 ACTTTT
1 ACTTTT
52516 CTTGGGTGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.27, C:0.17, G:0.03, T:0.53
Consensus pattern (12 bp):
ACTTTTACTATA
Done.