Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001322.1 Hibiscus syriacus cultivar Beakdansim tig00002576_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: 109003
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Found at i:54 original size:19 final size:19
Alignment explanation
Indices: 32--191 Score: 144
Period size: 19 Copynumber: 8.8 Consensus size: 19
22 GCGATTCTCG
*
32 TTGCGATAGTCAATTCGCA
1 TTGCGATAGTCATTTCGCA
*
51 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCA-TTTCGCA
*
71 TTGCGAT--T--TTGTTG--
1 TTGCGATAGTCATT-TCGCA
**
85 TTGCGATTTTCATTTCGCA
1 TTGCGATAGTCATTTCGCA
*
104 TTGCGAT--TC-TCTCG--
1 TTGCGATAGTCATTTCGCA
*
118 TTGCGATAGTCAAAATTCGCA
1 TTGCGATAGTC--ATTTCGCA
139 TTGCGATAGTCATTTCGCA
1 TTGCGATAGTCATTTCGCA
158 TTGCGATAGTCATTTCGCA
1 TTGCGATAGTCATTTCGCA
177 TTGCGATAGTCATTT
1 TTGCGATAGTCATTT
192 TCGTGTGCGA
Statistics
Matches: 118, Mismatches: 8, Indels: 30
0.76 0.05 0.19
Matches are distributed among these distances:
14 14 0.12
15 2 0.02
16 9 0.08
17 4 0.03
18 3 0.03
19 63 0.53
20 12 0.10
21 11 0.09
ACGTcount: A:0.19, C:0.19, G:0.21, T:0.40
Consensus pattern (19 bp):
TTGCGATAGTCATTTCGCA
Found at i:710 original size:18 final size:19
Alignment explanation
Indices: 671--712 Score: 59
Period size: 21 Copynumber: 2.2 Consensus size: 19
661 CTCACCTGTC
671 ATCGTTCAAGAGGCCTCCCCT
1 ATCGTTCAAGAGG-C-CCCCT
692 ATCGTTCAAGAGG-CCCCT
1 ATCGTTCAAGAGGCCCCCT
710 ATC
1 ATC
713 ATCCCTCAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
21 13 0.62
ACGTcount: A:0.21, C:0.36, G:0.19, T:0.24
Consensus pattern (19 bp):
ATCGTTCAAGAGGCCCCCT
Found at i:770 original size:42 final size:41
Alignment explanation
Indices: 694--775 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 41
684 CCTCCCCTAT
*
694 CGTTCAAGAGGCCCCTATCATCCCTCAAGAGTCCCCTCCCAC
1 CGTTCAAGAGGCCACTATCATCCCTCAAGAGT-CCCTCCCAC
* * *
736 CGTTCAAGAGGCCACTTTCAT-CGTGAAGAGGTCCCTCCCA
1 CGTTCAAGAGGCCACTATCATCCCTCAAGA-GTCCCTCCCA
776 ACATTCTAGA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
41 14 0.40
42 21 0.60
ACGTcount: A:0.22, C:0.39, G:0.18, T:0.21
Consensus pattern (41 bp):
CGTTCAAGAGGCCACTATCATCCCTCAAGAGTCCCTCCCAC
Found at i:2115 original size:14 final size:14
Alignment explanation
Indices: 2096--2131 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
2086 TTTGTTTAAT
2096 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
2110 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
2124 TGATTTGT
1 TGATTTGT
2132 TTAATTTGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:2299 original size:33 final size:34
Alignment explanation
Indices: 2257--2320 Score: 112
Period size: 34 Copynumber: 1.9 Consensus size: 34
2247 TCGCAATAGA
*
2257 GAATCGCAATG-CGAAATGAAAATCGCAACGAGT
1 GAATCGCAATGCCAAAATGAAAATCGCAACGAGT
2290 GAATCGCAATGCCAAAATGAAAATCGCAACG
1 GAATCGCAATGCCAAAATGAAAATCGCAACG
2321 CGAAACTAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 11 0.38
34 18 0.62
ACGTcount: A:0.44, C:0.20, G:0.22, T:0.14
Consensus pattern (34 bp):
GAATCGCAATGCCAAAATGAAAATCGCAACGAGT
Found at i:2401 original size:19 final size:19
Alignment explanation
Indices: 2329--2415 Score: 87
Period size: 19 Copynumber: 4.8 Consensus size: 19
2319 CGCGAAACTA
* *
2329 ATTTCGCGTTGTGATTTTC
1 ATTTCGCATTGCGATTTTC
*
2348 ATTTTTGCATTGCGA--TTC
1 A-TTTCGCATTGCGATTTTC
*
2366 A-CTCG--TTGCGA-TTTC
1 ATTTCGCATTGCGATTTTC
2381 ATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTTTC
2400 ATTTCGCATTGCGATT
1 ATTTCGCATTGCGATT
2416 CTCTCGTTAC
Statistics
Matches: 56, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
14 6 0.11
15 4 0.07
16 5 0.09
18 10 0.18
19 21 0.38
20 10 0.18
ACGTcount: A:0.15, C:0.20, G:0.18, T:0.47
Consensus pattern (19 bp):
ATTTCGCATTGCGATTTTC
Found at i:2448 original size:20 final size:20
Alignment explanation
Indices: 2420--2513 Score: 127
Period size: 20 Copynumber: 4.7 Consensus size: 20
2410 GCGATTCTCT
*
2420 CGTTACGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
2440 CGTTGCGATAGTCAATTCCG
1 CGTTGCGATAGTCATTTCCG
* *
2460 CATTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTCCG
*
2480 TGTTGCGATAGTCATATT-CG
1 CGTTGCGATAGTCAT-TTCCG
2500 CGTTGCGATAGTCA
1 CGTTGCGATAGTCA
2514 AATGAATGTC
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
20 63 0.97
21 2 0.03
ACGTcount: A:0.20, C:0.21, G:0.23, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:4939 original size:23 final size:23
Alignment explanation
Indices: 4908--4952 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
4898 ATCATCAAAA
4908 TCCGAGTATTGACCAAGATCAAG
1 TCCGAGTATTGACCAAGATCAAG
*
4931 TCCGGGTATTGACCAAGATCAA
1 TCCGAGTATTGACCAAGATCAA
4953 ATTTCGAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.22
Consensus pattern (23 bp):
TCCGAGTATTGACCAAGATCAAG
Found at i:5997 original size:20 final size:20
Alignment explanation
Indices: 5811--5997 Score: 232
Period size: 20 Copynumber: 9.3 Consensus size: 20
5801 CAGAATCTCG
5811 TTGCGATTTACAG-ATTCGCA
1 TTGCGATTTAC-GTATTCGCA
5831 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
* *
5851 TTGCGATTTACATAATCGCA
1 TTGCGATTTACGTATTCGCA
5871 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
*
5891 TTGCGATTTACGTAATCGCA
1 TTGCGATTTACGTATTCGCA
*
5911 TTGCGATTTACGTAATCGCA
1 TTGCGATTTACGTATTCGCA
* *
5931 TTGCAATTTACGTAATCGCA
1 TTGCGATTTACGTATTCGCA
* ** * *
5951 TTGCGATTTTCCAAATCCGCG
1 TTGCGA-TTTACGTATTCGCA
* *
5972 TTGCGATTTACATATTCACA
1 TTGCGATTTACGTATTCGCA
5992 TTGCGA
1 TTGCGA
5998 ATTAGGAAAA
Statistics
Matches: 147, Mismatches: 18, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
19 1 0.01
20 132 0.90
21 14 0.10
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (20 bp):
TTGCGATTTACGTATTCGCA
Found at i:6020 original size:21 final size:21
Alignment explanation
Indices: 5994--6034 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
5984 TATTCACATT
5994 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
* *
6015 GCGAATTTGGGAAATCGCAA
1 GCGAATTAGGAAAATCGCAA
6035 TACGATAGTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.39, C:0.17, G:0.27, T:0.17
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:25845 original size:26 final size:26
Alignment explanation
Indices: 25809--25861 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
25799 CAATTTTACA
25809 TAGGATGGCGAACATAACTTGGTCAT
1 TAGGATGGCGAACATAACTTGGTCAT
25835 TAGGATGGCGAACATAACTTGGTCAT
1 TAGGATGGCGAACATAACTTGGTCAT
25861 T
1 T
25862 CAACTTTGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.28
Consensus pattern (26 bp):
TAGGATGGCGAACATAACTTGGTCAT
Found at i:37527 original size:31 final size:31
Alignment explanation
Indices: 37466--37528 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 31
37456 TCATGGATTC
* *
37466 TAATCATCTACTACTATAAATTTCACTATTT
1 TAATCATCTACTAATATAAATTTAACTATTT
* *
37497 TAATCATCTAC-AATATATATTTTAATTATTT
1 TAATCATCTACTAATATA-AATTTAACTATTT
37528 T
1 T
37529 TTTCTCTCCA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 5 0.19
31 22 0.81
ACGTcount: A:0.37, C:0.14, G:0.00, T:0.49
Consensus pattern (31 bp):
TAATCATCTACTAATATAAATTTAACTATTT
Found at i:41272 original size:21 final size:21
Alignment explanation
Indices: 41248--41313 Score: 59
Period size: 21 Copynumber: 3.3 Consensus size: 21
41238 TGACCTATCA
41248 TCCCGAAGGATGTCATCTATG
1 TCCCGAAGGATGTCATCTATG
* **
41269 TCCCGAATGACCT-ATC-A--
1 TCCCGAAGGATGTCATCTATG
* *
41286 TCCCGAAGGATGTCATATGTG
1 TCCCGAAGGATGTCATCTATG
41307 TCCCGAA
1 TCCCGAA
41314 TGACCTATCA
Statistics
Matches: 33, Mismatches: 8, Indels: 8
0.67 0.16 0.16
Matches are distributed among these distances:
17 10 0.30
18 2 0.06
19 1 0.03
20 3 0.09
21 17 0.52
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (21 bp):
TCCCGAAGGATGTCATCTATG
Found at i:41280 original size:38 final size:38
Alignment explanation
Indices: 41224--41324 Score: 175
Period size: 38 Copynumber: 2.7 Consensus size: 38
41214 GGCATGTGAA
*
41224 ATCTGTGTCCCAAATGACCTATCATCCCGAAGGATGTC
1 ATCTGTGTCCCGAATGACCTATCATCCCGAAGGATGTC
*
41262 ATCTATGTCCCGAATGACCTATCATCCCGAAGGATGTC
1 ATCTGTGTCCCGAATGACCTATCATCCCGAAGGATGTC
*
41300 ATATGTGTCCCGAATGACCTATCAT
1 ATCTGTGTCCCGAATGACCTATCAT
41325 ATGTCTCAAA
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 59 1.00
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.28
Consensus pattern (38 bp):
ATCTGTGTCCCGAATGACCTATCATCCCGAAGGATGTC
Found at i:41291 original size:17 final size:17
Alignment explanation
Indices: 41231--41292 Score: 52
Period size: 17 Copynumber: 3.4 Consensus size: 17
41221 GAAATCTGTG
*
41231 TCCCAAATGACCTATCA
1 TCCCGAATGACCTATCA
* **
41248 TCCCGAAGGATGTCATCTA
1 TCCCGAATGACCT-ATC-A
41267 TGTCCCGAATGACCTATCA
1 --TCCCGAATGACCTATCA
41286 TCCCGAA
1 TCCCGAA
41293 GGATGTCATA
Statistics
Matches: 34, Mismatches: 7, Indels: 8
0.69 0.14 0.16
Matches are distributed among these distances:
17 16 0.47
18 3 0.09
19 2 0.06
20 3 0.09
21 10 0.29
ACGTcount: A:0.29, C:0.32, G:0.15, T:0.24
Consensus pattern (17 bp):
TCCCGAATGACCTATCA
Found at i:41329 original size:21 final size:21
Alignment explanation
Indices: 41265--41329 Score: 52
Period size: 21 Copynumber: 3.3 Consensus size: 21
41255 GGATGTCATC
41265 TATGTCCCGAATGACCTATC-
1 TATGTCCCGAATGACCTATCA
* *
41285 -A--TCCCGAAGGA--TGTCA
1 TATGTCCCGAATGACCTATCA
41301 TATGTGTCCCGAATGACCTATCA
1 TA--TGTCCCGAATGACCTATCA
41324 TATGTC
1 TATGTC
41330 TCAAATGATA
Statistics
Matches: 33, Mismatches: 4, Indels: 15
0.63 0.08 0.29
Matches are distributed among these distances:
15 3 0.09
17 10 0.30
19 1 0.03
21 13 0.39
23 6 0.18
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.29
Consensus pattern (21 bp):
TATGTCCCGAATGACCTATCA
Found at i:44453 original size:21 final size:21
Alignment explanation
Indices: 44427--44530 Score: 71
Period size: 21 Copynumber: 5.3 Consensus size: 21
44417 TGACCTATCA
44427 TCCCGAAGGATGTCATCTGTG
1 TCCCGAAGGATGTCATCTGTG
* ** *
44448 TCCCGAAGAACCT-ATC---A
1 TCCCGAAGGATGTCATCTGTG
44465 TCCCGAAGGATGTCATCTGTG
1 TCCCGAAGGATGTCATCTGTG
* * ** *
44486 TCCGGAATGACCT-ATC---A
1 TCCCGAAGGATGTCATCTGTG
44503 TCCCGAAGGATGTCATCTGTG
1 TCCCGAAGGATGTCATCTGTG
44524 TCCCGAA
1 TCCCGAA
44531 TGACCTATCA
Statistics
Matches: 57, Mismatches: 18, Indels: 16
0.63 0.20 0.18
Matches are distributed among these distances:
17 19 0.33
18 6 0.11
20 6 0.11
21 26 0.46
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (21 bp):
TCCCGAAGGATGTCATCTGTG
Found at i:44461 original size:38 final size:38
Alignment explanation
Indices: 44406--44541 Score: 247
Period size: 38 Copynumber: 3.6 Consensus size: 38
44396 ATGTGAAATA
44406 TGTGTCCCGAATGACCTATCATCCCGAAGGATGTCATC
1 TGTGTCCCGAATGACCTATCATCCCGAAGGATGTCATC
44444 TGTGTCCCGAA-GAACCTATCATCCCGAAGGATGTCATC
1 TGTGTCCCGAATG-ACCTATCATCCCGAAGGATGTCATC
*
44482 TGTGTCCGGAATGACCTATCATCCCGAAGGATGTCATC
1 TGTGTCCCGAATGACCTATCATCCCGAAGGATGTCATC
44520 TGTGTCCCGAATGACCTATCAT
1 TGTGTCCCGAATGACCTATCAT
44542 ATGTCTCGAA
Statistics
Matches: 94, Mismatches: 2, Indels: 4
0.94 0.02 0.04
Matches are distributed among these distances:
37 1 0.01
38 92 0.98
39 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.26
Consensus pattern (38 bp):
TGTGTCCCGAATGACCTATCATCCCGAAGGATGTCATC
Found at i:47362 original size:20 final size:20
Alignment explanation
Indices: 47339--47382 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
47329 TCAGTATCAG
*
47339 TACTAACCTCTGGGTATTGA
1 TACTAACCTCTGAGTATTGA
*
47359 TACTAACCTTTGAGTATTGA
1 TACTAACCTCTGAGTATTGA
47379 TACT
1 TACT
47383 TCTGAATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.39
Consensus pattern (20 bp):
TACTAACCTCTGAGTATTGA
Found at i:50252 original size:2 final size:2
Alignment explanation
Indices: 50245--50310 Score: 132
Period size: 2 Copynumber: 33.0 Consensus size: 2
50235 TATCGTTAAA
50245 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
50287 AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT
50311 TTAGTATTTA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 64 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:51385 original size:33 final size:33
Alignment explanation
Indices: 51338--51454 Score: 137
Period size: 33 Copynumber: 3.4 Consensus size: 33
51328 AAAATTGGGT
*
51338 TCGGGTCG-GGTTTTTTTAGTGTGATATTCGGG
1 TCGGGTCGAGTTTTTTTTAGTGTGATATTCGGG
*
51370 TCGGGTCGAGTTTTTTTAAGTGTGATATTCGGG
1 TCGGGTCGAGTTTTTTTTAGTGTGATATTCGGG
* *
51403 TCGGGTCGGGTTGGGTTTTTTTAAGTGTGGTATTCGGG
1 TCGGGTCGAG-T---TTTTTTT-AGTGTGATATTCGGG
51441 TCGGGTTCGAGTTT
1 TCGGG-TCGAGTTT
51455 AGGGTAAAAA
Statistics
Matches: 72, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
32 8 0.11
33 31 0.43
34 1 0.01
35 2 0.03
37 6 0.08
38 20 0.28
39 4 0.06
ACGTcount: A:0.10, C:0.09, G:0.38, T:0.43
Consensus pattern (33 bp):
TCGGGTCGAGTTTTTTTTAGTGTGATATTCGGG
Found at i:51407 original size:38 final size:38
Alignment explanation
Indices: 51338--51446 Score: 149
Period size: 38 Copynumber: 3.0 Consensus size: 38
51328 AAAATTGGGT
51338 TCGGGTCGGGTTTTTTT-AGTGTGATA-T----TCGGG
1 TCGGGTCGGGTTTTTTTAAGTGTGATATTCGGGTCGGG
*
51370 TCGGGTCGAGTTTTTTTAAGTGTGATATTCGGGTCGGG
1 TCGGGTCGGGTTTTTTTAAGTGTGATATTCGGGTCGGG
* *
51408 TCGGGTTGGGTTTTTTTAAGTGTGGTATTCGGGTCGGG
1 TCGGGTCGGGTTTTTTTAAGTGTGATATTCGGGTCGGG
51446 T
1 T
51447 TCGAGTTTAG
Statistics
Matches: 67, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
32 16 0.24
33 9 0.13
34 1 0.01
38 41 0.61
ACGTcount: A:0.10, C:0.09, G:0.39, T:0.42
Consensus pattern (38 bp):
TCGGGTCGGGTTTTTTTAAGTGTGATATTCGGGTCGGG
Found at i:56357 original size:22 final size:22
Alignment explanation
Indices: 56327--56387 Score: 79
Period size: 22 Copynumber: 2.8 Consensus size: 22
56317 ATATATATTT
56327 TTATA-TTTTAATAATATAATA
1 TTATATTTTTAATAATATAATA
* *
56348 TTATATTTTTAATATTATATTA
1 TTATATTTTTAATAATATAATA
* *
56370 TTATATATTTAATTATAT
1 TTATATTTTTAATAATAT
56388 TATAATAATA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 5 0.15
22 29 0.85
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
TTATATTTTTAATAATATAATA
Found at i:56362 original size:14 final size:14
Alignment explanation
Indices: 56343--56378 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
56333 TTTAATAATA
*
56343 TAATATTATATTTT
1 TAATATTATATTAT
56357 TAATATTATATTAT
1 TAATATTATATTAT
56371 TATATATT
1 TA-ATATT
56379 TAATTATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 15 0.75
15 5 0.25
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
TAATATTATATTAT
Found at i:62405 original size:60 final size:60
Alignment explanation
Indices: 62337--62450 Score: 158
Period size: 60 Copynumber: 1.9 Consensus size: 60
62327 ATTTTGTAAC
* * * *
62337 TTTTAATAGTCAAT-GGACTCAACAAAACAATTTCATATAGTCAATGGACCATTTCATAAA
1 TTTTAATAGTC-ATGGGACTCAAAAAAACAATATCATATAATCAAGGGACCATTTCATAAA
* *
62397 TTTTAATAGTCATGGGACTCAAAAAAATAATATCATATAATCAAGGGATCATTT
1 TTTTAATAGTCATGGGACTCAAAAAAACAATATCATATAATCAAGGGACCATTT
62451 TTGTATTTTA
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
59 2 0.04
60 45 0.96
ACGTcount: A:0.42, C:0.14, G:0.11, T:0.32
Consensus pattern (60 bp):
TTTTAATAGTCATGGGACTCAAAAAAACAATATCATATAATCAAGGGACCATTTCATAAA
Found at i:64708 original size:33 final size:33
Alignment explanation
Indices: 64671--64738 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
64661 TTAACATAAT
64671 TTAATGACCATTCATAAATTTTATTTTATAAAA
1 TTAATGACCATTCATAAATTTTATTTTATAAAA
* *
64704 TTAATGACCATTCGTAAATTTTATTTTATATAA
1 TTAATGACCATTCATAAATTTTATTTTATAAAA
64737 TT
1 TT
64739 TAAGGGTCGC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.38, C:0.09, G:0.04, T:0.49
Consensus pattern (33 bp):
TTAATGACCATTCATAAATTTTATTTTATAAAA
Found at i:66326 original size:45 final size:45
Alignment explanation
Indices: 66250--66618 Score: 366
Period size: 45 Copynumber: 8.2 Consensus size: 45
66240 AAAACACCAT
* *
66250 TATACACTTT-AATCTATAACAT-CTTTTCTGTTGGTAATGCACCCA
1 TATACA-TTTCAA-CTATAGCATACTTTTCTGTTGATAATGCACCCA
* * * * * *
66295 TATGCATTTCAACTATAGTATATTTTTCTGTTGATAATGTACTCG
1 TATACATTTCAACTATAGCATACTTTTCTGTTGATAATGCACCCA
* * * * *
66340 TATACATTTTAACCATAGTATACTTTTCTATTGATAATGTACCCA
1 TATACATTTCAACTATAGCATACTTTTCTGTTGATAATGCACCCA
* * * * *
66385 TATACATTTCAACTCTGGCATGCTCTTCTGTTGATGATGCACCCA
1 TATACATTTCAACTATAGCATACTTTTCTGTTGATAATGCACCCA
** * * *
66430 TATGTATTTCAACTCTAGCATACATTTCTGTTGATAATGCACACA
1 TATACATTTCAACTATAGCATACTTTTCTGTTGATAATGCACCCA
* * *
66475 TATACATTTCAACTCTAGCATACTTTTCTGTTGATAATGTACTCA
1 TATACATTTCAACTATAGCATACTTTTCTGTTGATAATGCACCCA
* * * * *
66520 TATACATTTCAACCATAGTATACATTTCTGTTGATAATGTACTCA
1 TATACATTTCAACTATAGCATACTTTTCTGTTGATAATGCACCCA
* ***
66565 TATACATTTCAACTATGGCATA-TTTTCATGCCAATAATGCACCCA
1 TATACATTTCAACTATAGCATACTTTTC-TGTTGATAATGCACCCA
*
66610 TATGCATTT
1 TATACATTT
66619 GTATTTTCAT
Statistics
Matches: 269, Mismatches: 52, Indels: 6
0.82 0.16 0.02
Matches are distributed among these distances:
44 14 0.05
45 255 0.95
ACGTcount: A:0.30, C:0.20, G:0.10, T:0.40
Consensus pattern (45 bp):
TATACATTTCAACTATAGCATACTTTTCTGTTGATAATGCACCCA
Found at i:67053 original size:22 final size:22
Alignment explanation
Indices: 67026--67081 Score: 112
Period size: 22 Copynumber: 2.5 Consensus size: 22
67016 ACCCTTACCA
67026 TGGTATCGATACTACCCTACTT
1 TGGTATCGATACTACCCTACTT
67048 TGGTATCGATACTACCCTACTT
1 TGGTATCGATACTACCCTACTT
67070 TGGTATCGATAC
1 TGGTATCGATAC
67082 CCCCTATTAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (22 bp):
TGGTATCGATACTACCCTACTT
Found at i:67150 original size:20 final size:22
Alignment explanation
Indices: 67125--67176 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
67115 ATGTGGCCCA
67125 GTATCGATACC-CT-TACCATG
1 GTATCGATACCACTATACCATG
*
67145 GTATCGATACCACTATACTATG
1 GTATCGATACCACTATACCATG
*
67167 GTACCGATAC
1 GTATCGATAC
67177 TCCTATATGG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 11 0.39
21 2 0.07
22 15 0.54
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (22 bp):
GTATCGATACCACTATACCATG
Found at i:67182 original size:22 final size:21
Alignment explanation
Indices: 67129--67183 Score: 67
Period size: 22 Copynumber: 2.6 Consensus size: 21
67119 GGCCCAGTAT
*
67129 CGATACCCT-TACCATGGTAT
1 CGATACCCTATACCATGGTAC
*
67149 CGATACCACTATACTATGGTAC
1 CGATACC-CTATACCATGGTAC
67171 CGATACTCCTATA
1 CGATAC-CCTATA
67184 TGGGATCGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 7 0.23
21 2 0.07
22 20 0.67
23 1 0.03
ACGTcount: A:0.29, C:0.29, G:0.13, T:0.29
Consensus pattern (21 bp):
CGATACCCTATACCATGGTAC
Found at i:72960 original size:18 final size:17
Alignment explanation
Indices: 72933--72967 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
72923 TATACCATGT
72933 TATATAAAAAATAATATA
1 TATATAAAAAAT-ATATA
*
72951 TATATTAAAAATATATA
1 TATATAAAAAATATATA
72968 ATCGTAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
TATATAAAAAATATATA
Found at i:73282 original size:13 final size:13
Alignment explanation
Indices: 73264--73288 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
73254 AATGTTAGAA
73264 ATATTATGTTCAT
1 ATATTATGTTCAT
73277 ATATTATGTTCA
1 ATATTATGTTCA
73289 AAATCGAGAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.08, G:0.08, T:0.52
Consensus pattern (13 bp):
ATATTATGTTCAT
Found at i:81024 original size:39 final size:38
Alignment explanation
Indices: 80980--81072 Score: 118
Period size: 38 Copynumber: 2.4 Consensus size: 38
80970 GTGACTGCCG
*
80980 CATTTCGTATCTAATTTTTTTTTTTAATTTTGAA-AAACA
1 CATTTCGTATCTAATTTTTTTTATTAA-TTT-AAGAAACA
*
81019 CATTTCGTATTTAA-TTTTTTTATTAATTTAAGTAAACA
1 CATTTCGTATCTAATTTTTTTTATTAATTTAAG-AAACA
*
81057 CATTTCGCATCTAATT
1 CATTTCGTATCTAATT
81073 AGATGGAAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
36 2 0.04
37 3 0.06
38 28 0.60
39 14 0.30
ACGTcount: A:0.31, C:0.12, G:0.05, T:0.52
Consensus pattern (38 bp):
CATTTCGTATCTAATTTTTTTTATTAATTTAAGAAACA
Found at i:82080 original size:2 final size:2
Alignment explanation
Indices: 82075--82102 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
82065 AATTTTATTA
82075 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
82103 TAGAACAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:85491 original size:60 final size:60
Alignment explanation
Indices: 85422--85563 Score: 153
Period size: 60 Copynumber: 2.4 Consensus size: 60
85412 TAGAATAAAA
* * * *
85422 TACACAAATGGTCTCCAGATTAT-AGGATATTGTTTTATTAAATCTATCGACTATTAAAAGT
1 TACA-AAATGATCTCCAGACTATAAAG-TATTGCTTTATTAAATCTATCGACTATTAAAAGT
* * * * * *
85483 TATAAAATGATCTTCAGACTATAAAGTGTTGCTTTATTGAGTCTCTCGACTATTAAAAGT
1 TACAAAATGATCTCCAGACTATAAAGTATTGCTTTATTAAATCTATCGACTATTAAAAGT
*
85543 TACAAAATGATCACC-GACTAT
1 TACAAAATGATCTCCAGACTAT
85564 TCATTATGTT
Statistics
Matches: 67, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
59 6 0.09
60 56 0.84
61 5 0.07
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (60 bp):
TACAAAATGATCTCCAGACTATAAAGTATTGCTTTATTAAATCTATCGACTATTAAAAGT
Found at i:94577 original size:22 final size:21
Alignment explanation
Indices: 94525--94584 Score: 95
Period size: 20 Copynumber: 2.9 Consensus size: 21
94515 GATTTCTGGG
94525 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAATCGGTACCCATT
94546 CAA-GGGAATCGGTACCCATT
1 CAAGGGGAATCGGTACCCATT
*
94566 CAATGGGGAATCGATACCC
1 CAA-GGGGAATCGGTACCC
94585 CTCAAGCGAA
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
20 20 0.56
21 3 0.08
22 13 0.36
ACGTcount: A:0.30, C:0.25, G:0.27, T:0.18
Consensus pattern (21 bp):
CAAGGGGAATCGGTACCCATT
Found at i:94662 original size:23 final size:22
Alignment explanation
Indices: 94618--94662 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
94608 AATCTCATAG
*
94618 GGGAACCGATTCCCCCACAGGA
1 GGGAACCGATTCCCCCAAAGGA
*
94640 GGGAATCGATTCCCCCTAAAGGA
1 GGGAACCGATTCCCCC-AAAGGA
94663 AAAATATGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.29, C:0.31, G:0.27, T:0.13
Consensus pattern (22 bp):
GGGAACCGATTCCCCCAAAGGA
Found at i:96172 original size:103 final size:103
Alignment explanation
Indices: 95952--96164 Score: 372
Period size: 103 Copynumber: 2.1 Consensus size: 103
95942 GGGTCTACGC
95952 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCCGGTGAGACACATACTTGAT
1 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCCGGTGAGACACATACTTGAT
* * *
96017 CCTTGGCATATGTATATGATTCTTAAGGAATGATATGT
66 CCCTAGCATATGTATATAATTCTTAAGGAATGATATGT
* *
96055 GGTCATTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
1 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCCGGTGAGACACATACTTGAT
*
96120 CCCTAGTATATGTATATAATTCTTAAGGAATGATATGT
66 CCCTAGCATATGTATATAATTCTTAAGGAATGATATGT
96158 GGTCCTT
1 GGTCCTT
96165 ATGGACATTA
Statistics
Matches: 103, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
103 103 1.00
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.36
Consensus pattern (103 bp):
GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCCGGTGAGACACATACTTGAT
CCCTAGCATATGTATATAATTCTTAAGGAATGATATGT
Found at i:96214 original size:23 final size:23
Alignment explanation
Indices: 96181--96248 Score: 100
Period size: 23 Copynumber: 3.0 Consensus size: 23
96171 ATTATTATAT
*
96181 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
* *
96204 GGCACTCCGGTGCAATTATACGT
1 GGCACTACGGTGCAATTATACGC
*
96227 GGCACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTATACG
96249 AGCTGTGGTG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.22, C:0.26, G:0.26, T:0.25
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:104001 original size:257 final size:256
Alignment explanation
Indices: 103100--105847 Score: 4029
Period size: 255 Copynumber: 10.8 Consensus size: 256
103090 TATATATATT
* *
103100 GGCTGAGTATTTGGATTATTAAACCTGATG-AAAAAAGCAGGGCCTTGTTGCCTTTTGTGAACTA
1 GGCTGAGT-TTTGTATTCTTAAACCTGATGAAAAAAAGCAGGGCCTTGTTGCCTTTTGTGAACTA
* * * * *
103164 GGCTCTTGTAAGCTTCAGGAAAATTACTTGTGCATTGTTATTGGGTGAACCTCTGGATT-TTATT
65 GGTTCTCGTAAGCTTCAGGAAAATTACTTGTGCATTGTTCTTGGGTGAATCTCTGG-TTGTTAAT
* * * *
103228 GGTGCCTGAAGGTTCAGTAAATGATGCTACATTTTGTAATCCTCTGTAAGGATTTTAGTTTTTTT
129 GGTGCCTGAAGGTTCAGTAAATAATGCTACATTTTGTAGTCCTCTGTAAGGAATTTAG-TTTTTG
* * * * * *** * * *
103293 CATTTATATGATATTA-TTTAATTGTTTCTTGACGTGTTTTGATG-TTGTCTGGTTCGGATTTT-
193 GACTGATATGATATGAGTTAAAAAATTTCTTGAGGTGTTTTGATGTTTGTTTGGTTTGG-TTTTA
* * *
103355 -GCTGAGTTTTTTGATTCATT-AACCTGATGAAAATAAGCAGGGTCTTGTTGCCTTTTGTGAACT
1 GGCTGAGTTTTGT-ATTC-TTAAACCTGATGAAAAAAAGCAGGGCCTTGTTGCCTTTTGTGAACT
*
103418 TGGTTCTCGTACA-CTTCAGGAAAATTACTTGTGCATTGTTCTTGGGTGAATCTCTGGTTGTTAA
64 AGGTTCTCGTA-AGCTTCAGGAAAATTACTTGTGCATTGTTCTTGGGTGAATCTCTGGTTGTTAA
* * **
103482 CGATGCCTGAAGGTTCAGTAAACGATGCTACATTTTGTAGTCCTCTGTAAGGAATTTAG-TTTTG
128 TGGTGCCTGAAGGTTCAGTAAATAATGCTACATTTTGTAGTCCTCTGTAAGGAATTTAGTTTTTG
103546 GACTGATATGATATGAGTTAAAAAATTTCTTGAGGTGTTTTGATGTTTGTTTGGTTTGGTTTTA
193 GACTGATATGATATGAGTTAAAAAATTTCTTGAGGTGTTTTGATGTTTGTTTGGTTTGGTTTTA
* * *
103610 GGCCGAGTTTTGTATTCTTAAACCTGATGAAAAAAAGCAGGTCCTTGTTGCCTTTTGTGAACTTG
1 GGCTGAGTTTTGTATTCTTAAACCTGATGAAAAAAAGCAGGGCCTTGTTGCCTTTTGTGAACTAG
103675 GTTCTCGTAAGCTTCAGGAAAATTACTTGTGCATTGTTCTTGGGTGAATCTCTGGTTGTTAATGG
66 GTTCTCGTAAGCTTCAGGAAAATTACTTGTGCATTGTTCTTGGGTGAATCTCTGGTTGTTAATGG
*
103740 TGCCTGAAGGTTCAGTAAATAATGCTACATTTTGTAGTCCTCTGTAAGGAATTTAGTTTCTGGAC
131 TGCCTGAAGGTTCAGTAAATAATGCTACATTTTGTAGTCCTCTGTAAGGAATTTAGTTTTTGGAC
*
103805 TGATATGATATGAGTTAAAAAATTTCTTGAGGTGTTTTGATGTTTGTATGGTTTGGTTTTA
196 TGATATGATATGAGTTAAAAAATTTCTTGAGGTGTTTTGATGTTTGTTTGGTTTGGTTTTA
** *
103866 GGCTGAGTTTTGTATTCTTAAACCTGATGAAAAAAAATAAGGGCCTTGTTGCCTTTTGTGAACTT
1 GGCTGAGTTTTGTATTCTTAAACCTGATG-AAAAAAAGCAGGGCCTTGTTGCCTTTTGTGAACTA
103931 GGTTCTCGTAAGCTTCAGGAAAATTACTTGTGCATTGTTCTTGGGTGAATCTCTGGTTGTTAATG
65 GGTTCTCGTAAGCTTCAGGAAAATTACTTGTGCATTGTTCTTGGGTGAATCTCTGGTTGTTAATG
103996 GTGCCTGAAGGTTCAGTAAATAATGCTACATTTTGTAGTCCTCTGTAAGGAATTTAGTTTTTGGA
130 GTGCCTGAAGGTTCAGTAAATAATGCTACATTTTGTAGTCCTCTGTAAGGAATTTAGTTTTTGGA
* ** * *
104061 CTGATATG--ATGAGTTAAAAATTTTCTTGAGGTGTCCTGATGTTCGTTTGATTTGGTTTTA
195 CTGATATGATATGAGTTAAAAAATTTCTTGAGGTGTTTTGATGTTTGTTTGGTTTGGTTTTA
* *
104121 GGCCGAGTTTTGTATTGTTAAACCTGATGAAAAAAAGCAGGGCCTTGTTGCCTTTTGTGAACTAG
1 GGCTGAGTTTTGTATTCTTAAACCTGATGAAAAAAAGCAGGGCCTTGTTGCCTTTTGTGAACTAG
*
104186 GTTCTCGTAAGCTTCAGGAAAATTACTTGTGCATTGTTCTTGGGTGAATGTCTGGTTGTTAATGG
66 GTTCTCGTAAGCTTCAGGAAAATTACTTGTGCATTGTTCTTGGGTGAATCTCTGGTTGTTAATGG
* *
104251 TGCCTTAAGGTTCAGTAAATAATGATACATTTTGTAGTCCTCTGTAAGGAATTTAGTTTTTGGAC
131 TGCCTGAAGGTTCAGTAAATAATGCTACATTTTGTAGTCCTCTGTAAGGAATTTAGTTTTTGGAC
* *
104316 TGATATGATATGAGTT-AAAAATTTCTTGAGGTGTTCTGATGTTGGTTTGGTTTGGTTTTA
196 TGATATGATATGAGTTAAAAAATTTCTTGAGGTGTTTTGATGTTTGTTTGGTTTGGTTTTA
104376 GGCTGAGTTTTGTATTCTTAAACCTGATGAAAAAAAGCAGGGCCTTGTTGCCTTTTGTGAACTAG
1 GGCTGAGTTTTGTATTCTTAAACCTGATGAAAAAAAGCAGGGCCTTGTTGCCTTTTGTGAACTAG
*
104441 GTTCTCGTAAGCTTCAGG-AAATTACTTGTGCATTGTTCTTGGGTGAATCTCTGGTTGTTACTGG
66 GTTCTCGTAAGCTTCAGGAAAATTACTTGTGCATTGTTCTTGGGTGAATCTCTGGTTGTTAATGG
* *
104505 TGCCTGAAGGTTCAGTAAATAATGCTACATTTTGTAGTCCTTTATAAGGAATTTAGTTTTTGGAC
131 TGCCTGAAGGTTCAGTAAATAATGCTACATTTTGTAGTCCTCTGTAAGGAATTTAGTTTTTGGAC
*
104570 TGATATG--ATGAGTTAAAAACTTTCTTGAGGTGTTTTGATGTTTGTTTGGTTTGGTTTTA
196 TGATATGATATGAGTTAAAAAATTTCTTGAGGTGTTTTGATGTTTGTTTGGTTTGGTTTTA
* * *
104629 GGCCGAGTTTTGTATTCTTAAACCTGATGAAAAAAAGCAGGTCCTTGTTGCCTTTT-TGAACTTG
1 GGCTGAGTTTTGTATTCTTAAACCTGATGAAAAAAAGCAGGGCCTTGTTGCCTTTTGTGAACTAG
*
104693 GTTCTCGTAAGCTTCAGGAAAATTACTTGTGCATTGTTCTTGGGTGAATCTCTGGTTGTTACTGG
66 GTTCTCGTAAGCTTCAGGAAAATTACTTGTGCATTGTTCTTGGGTGAATCTCTGGTTGTTAATGG
* *
104758 TGCCTAAAGGTTCAGTAAATAATGCTACATTTTGTAGTCTTCTGTAAGGAATTTAGTTTTTGGAC
131 TGCCTGAAGGTTCAGTAAATAATGCTACATTTTGTAGTCCTCTGTAAGGAATTTAGTTTTTGGAC
*
104823 TGATATGATATGAGTTAAAAAATTTCTTGAGGTGTTTTGATGTTTGTATGGTTTGGTTTTA
196 TGATATGATATGAGTTAAAAAATTTCTTGAGGTGTTTTGATGTTTGTTTGGTTTGGTTTTA
* ** *
104884 GGCCGAGTTTTGTATTCTTAAACCTGATGAAAAAAAATAAGGGCCTTGTTGCCTTTTGTGAACTT
1 GGCTGAGTTTTGTATTCTTAAACCTGATG-AAAAAAAGCAGGGCCTTGTTGCCTTTTGTGAACTA
*
104949 GGTTCTCGTAAGCTTCAGGAAAATTACTTGTGCATTGTTCTTGGGTGAATCTCTGGTTGTTACTG
65 GGTTCTCGTAAGCTTCAGGAAAATTACTTGTGCATTGTTCTTGGGTGAATCTCTGGTTGTTAATG
* *
105014 GTGCCTGAAGGTTCAGTAAATAATGCTACATTTTGTAGTCCTTTATAAGGAATTTAGTTTTTGGA
130 GTGCCTGAAGGTTCAGTAAATAATGCTACATTTTGTAGTCCTCTGTAAGGAATTTAGTTTTTGGA
* * *
105079 CTGATATGATATGAGCTAAAAATTTTCTTGAGGTGTTTTGATGTTTGTTTGATTTGGTTTTA
195 CTGATATGATATGAGTTAAAAAATTTCTTGAGGTGTTTTGATGTTTGTTTGGTTTGGTTTTA
* *
105141 GGCCGAGTTTTGTATTGTTAAACCTGATGAAAAAAAGCAGGGCCTTGTTGCCTTTTGTGAACTAG
1 GGCTGAGTTTTGTATTCTTAAACCTGATGAAAAAAAGCAGGGCCTTGTTGCCTTTTGTGAACTAG
*
105206 GTTCTCGTAAGCTTCAGGAAAATTACTTGTGCATTGTTCTTGGGTGAATGTCTGGTTGTTAATGG
66 GTTCTCGTAAGCTTCAGGAAAATTACTTGTGCATTGTTCTTGGGTGAATCTCTGGTTGTTAATGG
* * *
105271 TGCCTTAAGGTTCAGTAAATAATGATACATTTTGTAGTCTTCTGTAAGGAA-TTAG-TTTTGGAC
131 TGCCTGAAGGTTCAGTAAATAATGCTACATTTTGTAGTCCTCTGTAAGGAATTTAGTTTTTGGAC
* * ** ** *
105334 TGATATGATATGAGTTAAAAAATTTC-TGAGGTGTTCTGATG-CTGTTCAGTTCAGTTTGA
196 TGATATGATATGAGTTAAAAAATTTCTTGAGGTGTTTTGATGTTTGTTTGGTTTGGTTTTA
* * *** *
105393 GGCTGAGTTTTGGATTCTTAAACCTGATGATAAAAAGCAGTATCTAGTTGCCTTTTGTGAACTAG
1 GGCTGAGTTTTGTATTCTTAAACCTGATGAAAAAAAGCAGGGCCTTGTTGCCTTTTGTGAACTAG
* * * * *
105458 GTTCTCGTAAACTTCAGGAAAATTACTTGTGCCTTGTTCTT-GGTGAACCTCTGGAT-TTATTGG
66 GTTCTCGTAAGCTTCAGGAAAATTACTTGTGCATTGTTCTTGGGTGAATCTCTGGTTGTTAATGG
* * * ** * *
105521 TGACTGTAGGTTCAGTAAATGATGCTACATTTTGTAGTTATCCGTAAGGAATTTAGTTTTTGGAT
131 TGCCTGAAGGTTCAGTAAATAATGCTACATTTTGTAGTCCTCTGTAAGGAATTTAGTTTTTGGAC
* * *** ** ** *
105586 TG--AGGATATGAGTTTAATTGTTTCTTGAGGTGTTTTGATG-TTGTTCAGTTCAGTTTGA
196 TGATATGATATGAGTTAAAAAATTTCTTGAGGTGTTTTGATGTTTGTTTGGTTTGGTTTTA
* * * * *
105644 GGCTGAATTTTGGATTCTTAAACCTGATGAGAAAAAGCAGAG-TTTAGTTGCCTTTTGTGAACTA
1 GGCTGAGTTTTGTATTCTTAAACCTGATGAAAAAAAGCAGGGCCTT-GTTGCCTTTTGTGAACTA
* * * * * *
105708 GATTCTCGTAAACTCCAGGAAAATTACTTGTGCATTGTTCTTGGGTGAACCTCTGGAT-TTATTG
65 GGTTCTCGTAAGCTTCAGGAAAATTACTTGTGCATTGTTCTTGGGTGAATCTCTGGTTGTTAATG
* * ** * * *
105772 GTGACTGAAGGTTCAGTAAATGATGCTACATTTTGTAAACCTTTGCAAGTAATTTAGTTTTTGGA
130 GTGCCTGAAGGTTCAGTAAATAATGCTACATTTTGTAGTCCTCTGTAAGGAATTTAGTTTTTGGA
* *
105837 TTGATAGGATA
195 CTGATATGATA
105848 CAAGTTCATT
Statistics
Matches: 2303, Mismatches: 162, Indels: 57
0.91 0.06 0.02
Matches are distributed among these distances:
250 67 0.03
251 142 0.06
252 228 0.10
253 242 0.11
254 368 0.16
255 589 0.26
256 279 0.12
257 388 0.17
ACGTcount: A:0.24, C:0.12, G:0.24, T:0.40
Consensus pattern (256 bp):
GGCTGAGTTTTGTATTCTTAAACCTGATGAAAAAAAGCAGGGCCTTGTTGCCTTTTGTGAACTAG
GTTCTCGTAAGCTTCAGGAAAATTACTTGTGCATTGTTCTTGGGTGAATCTCTGGTTGTTAATGG
TGCCTGAAGGTTCAGTAAATAATGCTACATTTTGTAGTCCTCTGTAAGGAATTTAGTTTTTGGAC
TGATATGATATGAGTTAAAAAATTTCTTGAGGTGTTTTGATGTTTGTTTGGTTTGGTTTTA
Found at i:104834 original size:766 final size:763
Alignment explanation
Indices: 103100--105847 Score: 3985
Period size: 766 Copynumber: 3.6 Consensus size: 763
103090 TATATATATT
*
103100 GGCTGAGTATTTGGATTATTAAACCTGATG-AAAAAAGCAGGGCCTTGTTGCCTTTTGTGAACTA
1 GGCTGAGT-TTTGGATTCTTAAACCTGATGAAAAAAAGCAGGGCCTTGTTGCCTTTTGTGAACTA
* * *
103164 GGCTCTTGTAAGCTTCAGGAAAATTACTTGTGCATTGTTATTGGGTGAACCTCTGGATTTTATTG
65 GGTTCTCGTAAGCTTCAGGAAAATTACTTGTGCATTGTTCTTGGGTGAACCTCTGG-TTTTATTG
* * * **
103229 GTGCCTGAAGGTTCAGTAAATGATGCTACATTTTGTAATCCTCTGTAAGGATTTTAGTTTTTTTC
129 GTGCCTGAAGGTTCAGTAAATAATGCTACATTTTGTAGTCCTCTGTAAGGAATTTAG-TTTTTGG
* * * * * * * * *
103294 ATTTATATGATATTA-TTTAATTGTTTCTTGACGTGTTTTGATGTTGTCTGGTTCGGATTTT--G
193 ACTGATGT-ATATGAGTTAAAATGTTTCTTGAGGTGTTTTGATGTTGTTTGATTCGG-TTTTAGG
* * * * *
103356 CTGAGTTTTTTGATTCATT-AACCTGATGAAAATAAGCAGGGTCTTGTTGCCTTTTGTGAACTTG
256 CCGAGTTTTGT-ATTC-TTAAACCTGATGAAAAAAAGCAGGGCCTTGTTGCCTTTTGTGAACTAG
*
103420 GTTCTCGTACA-CTTCAGGAAAATTACTTGTGCATTGTTCTTGGGTGAATCTCTGGTTGTTAACG
319 GTTCTCGTA-AGCTTCAGGAAAATTACTTGTGCATTGTTCTTGGGTGAATCTCTGGTTGTTAATG
* **
103484 ATGCCTGAAGGTTCAGTAAACGATGCTACATTTTGTAGTCCTCTGTAAGGAATTTAG-TTTTGGA
383 GTGCCTGAAGGTTCAGTAAATAATGCTACATTTTGTAGTCCTCTGTAAGGAATTTAGTTTTTGGA
103548 CTGATATGATATGAGTTAAAAAATTTCTTGAGGTGTTTTGATGTTTGTTTGGTTTGGTTTTAGGC
448 CTGATATGATATGAGTT-AAAAATTTCTTGAGGTGTTTTGATGTTTGTTTGGTTTGGTTTTAGGC
* *
103613 CGAGTTTTGTATTCTTAAACCTGATGAAAAAAAGCAGGTCCTTGTTGCCTTTTGTGAACTTGGTT
512 CGAGTTTTGTATTCTTAAACCTGATGAAAAAAAGCAGGGCCTTGTTGCCTTTTGTGAACTAGGTT
103678 CTCGTAAGCTTCAGGAAAATTACTTGTGCATTGTTCTTGGGTGAATCTCTGGTTGTTAATGGTGC
577 CTCGTAAGCTTCAGGAAAATTACTTGTGCATTGTTCTTGGGTGAATCTCTGGTTGTTAATGGTGC
* *
103743 CTGAAGGTTCAGTAAATAATGCTACATTTTGTAGTCCTCTGTAAGGAATTTAGTTTCTGGACTGA
642 CTGAAGGTTCAGTAAATAATGCTACATTTTGTAGTCCTTTGTAAGGAATTTAGTTTTTGGACTGA
*
103808 TATGATATGAGTTAAAAAATTTCTTGAGGTGTTTTGATGTTTGTATGGTTTGGTTTTA
707 TATGA-ATGAGTTAAAAAATTTCTTGAGGTGTTTTGATGTTTGTTTGGTTTGGTTTTA
* ** *
103866 GGCTGAGTTTTGTATTCTTAAACCTGATGAAAAAAAATAAGGGCCTTGTTGCCTTTTGTGAACTT
1 GGCTGAGTTTTGGATTCTTAAACCTGATG-AAAAAAAGCAGGGCCTTGTTGCCTTTTGTGAACTA
* *
103931 GGTTCTCGTAAGCTTCAGGAAAATTACTTGTGCATTGTTCTTGGGTGAATCTCTGGTTGTTAATG
65 GGTTCTCGTAAGCTTCAGGAAAATTACTTGTGCATTGTTCTTGGGTGAACCTCTGGTT-TTATTG
103996 GTGCCTGAAGGTTCAGTAAATAATGCTACATTTTGTAGTCCTCTGTAAGGAATTTAGTTTTTGGA
129 GTGCCTGAAGGTTCAGTAAATAATGCTACATTTTGTAGTCCTCTGTAAGGAATTTAGTTTTTGGA
** *
104061 CTGA--TATGATGAGTTAAAAAT-TTTCTTGAGGTGTCCTGATGTTCGTTTGATTTGGTTTTAGG
194 CTGATGTAT-ATGAGTT-AAAATGTTTCTTGAGGTGTTTTGATGTT-GTTTGATTCGGTTTTAGG
*
104123 CCGAGTTTTGTATTGTTAAACCTGATGAAAAAAAGCAGGGCCTTGTTGCCTTTTGTGAACTAGGT
256 CCGAGTTTTGTATTCTTAAACCTGATGAAAAAAAGCAGGGCCTTGTTGCCTTTTGTGAACTAGGT
*
104188 TCTCGTAAGCTTCAGGAAAATTACTTGTGCATTGTTCTTGGGTGAATGTCTGGTTGTTAATGGTG
321 TCTCGTAAGCTTCAGGAAAATTACTTGTGCATTGTTCTTGGGTGAATCTCTGGTTGTTAATGGTG
* *
104253 CCTTAAGGTTCAGTAAATAATGATACATTTTGTAGTCCTCTGTAAGGAATTTAGTTTTTGGACTG
386 CCTGAAGGTTCAGTAAATAATGCTACATTTTGTAGTCCTCTGTAAGGAATTTAGTTTTTGGACTG
* * *
104318 ATATGATATGAGTTAAAAATTTCTTGAGGTGTTCTGATGTTGGTTTGGTTTGGTTTTAGGCTGAG
451 ATATGATATGAGTTAAAAATTTCTTGAGGTGTTTTGATGTTTGTTTGGTTTGGTTTTAGGCCGAG
104383 TTTTGTATTCTTAAACCTGATGAAAAAAAGCAGGGCCTTGTTGCCTTTTGTGAACTAGGTTCTCG
516 TTTTGTATTCTTAAACCTGATGAAAAAAAGCAGGGCCTTGTTGCCTTTTGTGAACTAGGTTCTCG
*
104448 TAAGCTTCAGG-AAATTACTTGTGCATTGTTCTTGGGTGAATCTCTGGTTGTTACTGGTGCCTGA
581 TAAGCTTCAGGAAAATTACTTGTGCATTGTTCTTGGGTGAATCTCTGGTTGTTAATGGTGCCTGA
*
104512 AGGTTCAGTAAATAATGCTACATTTTGTAGTCCTTTATAAGGAATTTAGTTTTTGGACTGATATG
646 AGGTTCAGTAAATAATGCTACATTTTGTAGTCCTTTGTAAGGAATTTAGTTTTTGGACTGATATG
*
104577 -ATGAGTTAAAAACTTTCTTGAGGTGTTTTGATGTTTGTTTGGTTTGGTTTTA
711 AATGAGTTAAAAAATTTCTTGAGGTGTTTTGATGTTTGTTTGGTTTGGTTTTA
* * * *
104629 GGCCGAGTTTTGTATTCTTAAACCTGATGAAAAAAAGCAGGTCCTTGTTGCCTTTT-TGAACTTG
1 GGCTGAGTTTTGGATTCTTAAACCTGATGAAAAAAAGCAGGGCCTTGTTGCCTTTTGTGAACTAG
* *
104693 GTTCTCGTAAGCTTCAGGAAAATTACTTGTGCATTGTTCTTGGGTGAATCTCTGGTTGTTACTGG
66 GTTCTCGTAAGCTTCAGGAAAATTACTTGTGCATTGTTCTTGGGTGAACCTCTGGTT-TTATTGG
* *
104758 TGCCTAAAGGTTCAGTAAATAATGCTACATTTTGTAGTCTTCTGTAAGGAATTTAGTTTTTGGAC
130 TGCCTGAAGGTTCAGTAAATAATGCTACATTTTGTAGTCCTCTGTAAGGAATTTAGTTTTTGGAC
* ** * * *
104823 TGATATGATATGAGTTAAAAAATTTCTTGAGGTGTTTTGATGTTTGTATGGTTTGGTTTTAGGCC
195 TGATGT-ATATGAGTTAAAATGTTTCTTGAGGTGTTTTGATG-TTGTTTGATTCGGTTTTAGGCC
** *
104888 GAGTTTTGTATTCTTAAACCTGATGAAAAAAAATAAGGGCCTTGTTGCCTTTTGTGAACTTGGTT
258 GAGTTTTGTATTCTTAAACCTGATG-AAAAAAAGCAGGGCCTTGTTGCCTTTTGTGAACTAGGTT
*
104953 CTCGTAAGCTTCAGGAAAATTACTTGTGCATTGTTCTTGGGTGAATCTCTGGTTGTTACTGGTGC
322 CTCGTAAGCTTCAGGAAAATTACTTGTGCATTGTTCTTGGGTGAATCTCTGGTTGTTAATGGTGC
* *
105018 CTGAAGGTTCAGTAAATAATGCTACATTTTGTAGTCCTTTATAAGGAATTTAGTTTTTGGACTGA
387 CTGAAGGTTCAGTAAATAATGCTACATTTTGTAGTCCTCTGTAAGGAATTTAGTTTTTGGACTGA
* *
105083 TATGATATGAGCTAAAAATTTTCTTGAGGTGTTTTGATGTTTGTTTGATTTGGTTTTAGGCCGAG
452 TATGATATGAGTTAAAAA-TTTCTTGAGGTGTTTTGATGTTTGTTTGGTTTGGTTTTAGGCCGAG
*
105148 TTTTGTATTGTTAAACCTGATGAAAAAAAGCAGGGCCTTGTTGCCTTTTGTGAACTAGGTTCTCG
516 TTTTGTATTCTTAAACCTGATGAAAAAAAGCAGGGCCTTGTTGCCTTTTGTGAACTAGGTTCTCG
* *
105213 TAAGCTTCAGGAAAATTACTTGTGCATTGTTCTTGGGTGAATGTCTGGTTGTTAATGGTGCCTTA
581 TAAGCTTCAGGAAAATTACTTGTGCATTGTTCTTGGGTGAATCTCTGGTTGTTAATGGTGCCTGA
*
105278 AGGTTCAGTAAATAATGATACATTTTGTAGT-CTTCTGTAAGGAA-TTAG-TTTTGGACTGATAT
646 AGGTTCAGTAAATAATGCTACATTTTGTAGTCCTT-TGTAAGGAATTTAGTTTTTGGACTGATAT
* * ** ** *
105340 GATATGAGTTAAAAAATTTC-TGAGGTGTTCTGATG-CTGTTCAGTTCAGTTTGA
710 GA-ATGAGTTAAAAAATTTCTTGAGGTGTTTTGATGTTTGTTTGGTTTGGTTTTA
* *** *
105393 GGCTGAGTTTTGGATTCTTAAACCTGATGATAAAAAGCAGTATCTAGTTGCCTTTTGTGAACTAG
1 GGCTGAGTTTTGGATTCTTAAACCTGATGAAAAAAAGCAGGGCCTTGTTGCCTTTTGTGAACTAG
* * *
105458 GTTCTCGTAAACTTCAGGAAAATTACTTGTGCCTTGTTCTT-GGTGAACCTCTGGATTTATTGGT
66 GTTCTCGTAAGCTTCAGGAAAATTACTTGTGCATTGTTCTTGGGTGAACCTCTGGTTTTATTGGT
* * * ** * *
105522 GACTGTAGGTTCAGTAAATGATGCTACATTTTGTAGTTATCCGTAAGGAATTTAGTTTTTGGATT
131 GCCTGAAGGTTCAGTAAATAATGCTACATTTTGTAGTCCTCTGTAAGGAATTTAGTTTTTGGACT
* * * * * * *
105587 GA-GGATATGAGTTTAATTGTTTCTTGAGGTGTTTTGATGTTG-TTCAGTTCAGTTTGAGGCTGA
196 GATGTATATGAGTTAAAATGTTTCTTGAGGTGTTTTGATGTTGTTTGA-TTCGGTTTTAGGCCGA
* * * * * *
105650 ATTTTGGATTCTTAAACCTGATGAGAAAAAGCAGAG-TTTAGTTGCCTTTTGTGAACTAGATTCT
260 GTTTTGTATTCTTAAACCTGATGAAAAAAAGCAGGGCCTT-GTTGCCTTTTGTGAACTAGGTTCT
* * * * * *
105714 CGTAAACTCCAGGAAAATTACTTGTGCATTGTTCTTGGGTGAACCTCTGGAT-TTATTGGTGACT
324 CGTAAGCTTCAGGAAAATTACTTGTGCATTGTTCTTGGGTGAATCTCTGGTTGTTAATGGTGCCT
* ** * * * *
105778 GAAGGTTCAGTAAATGATGCTACATTTTGTAAACCTTTGCAAGTAATTTAGTTTTTGGATTGATA
389 GAAGGTTCAGTAAATAATGCTACATTTTGTAGTCCTCTGTAAGGAATTTAGTTTTTGGACTGATA
*
105843 GGATA
454 TGATA
105848 CAAGTTCATT
Statistics
Matches: 1808, Mismatches: 148, Indels: 60
0.90 0.07 0.03
Matches are distributed among these distances:
758 74 0.04
759 80 0.04
760 36 0.02
761 169 0.09
762 28 0.02
763 214 0.12
764 274 0.15
765 345 0.19
766 412 0.23
767 176 0.10
ACGTcount: A:0.24, C:0.12, G:0.24, T:0.40
Consensus pattern (763 bp):
GGCTGAGTTTTGGATTCTTAAACCTGATGAAAAAAAGCAGGGCCTTGTTGCCTTTTGTGAACTAG
GTTCTCGTAAGCTTCAGGAAAATTACTTGTGCATTGTTCTTGGGTGAACCTCTGGTTTTATTGGT
GCCTGAAGGTTCAGTAAATAATGCTACATTTTGTAGTCCTCTGTAAGGAATTTAGTTTTTGGACT
GATGTATATGAGTTAAAATGTTTCTTGAGGTGTTTTGATGTTGTTTGATTCGGTTTTAGGCCGAG
TTTTGTATTCTTAAACCTGATGAAAAAAAGCAGGGCCTTGTTGCCTTTTGTGAACTAGGTTCTCG
TAAGCTTCAGGAAAATTACTTGTGCATTGTTCTTGGGTGAATCTCTGGTTGTTAATGGTGCCTGA
AGGTTCAGTAAATAATGCTACATTTTGTAGTCCTCTGTAAGGAATTTAGTTTTTGGACTGATATG
ATATGAGTTAAAAATTTCTTGAGGTGTTTTGATGTTTGTTTGGTTTGGTTTTAGGCCGAGTTTTG
TATTCTTAAACCTGATGAAAAAAAGCAGGGCCTTGTTGCCTTTTGTGAACTAGGTTCTCGTAAGC
TTCAGGAAAATTACTTGTGCATTGTTCTTGGGTGAATCTCTGGTTGTTAATGGTGCCTGAAGGTT
CAGTAAATAATGCTACATTTTGTAGTCCTTTGTAAGGAATTTAGTTTTTGGACTGATATGAATGA
GTTAAAAAATTTCTTGAGGTGTTTTGATGTTTGTTTGGTTTGGTTTTA
Done.