Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005435.1 Hibiscus syriacus cultivar Beakdansim tig00012461_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: 112395
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Found at i:7523 original size:20 final size:20
Alignment explanation
Indices: 7484--7523 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
7474 TATGTGCGCA
* *
7484 TGTGCGTGTGTGTATTTGGG
1 TGTGCGTGTGTGGATGTGGG
7504 TGTGCGTGTGTGGATGTGGG
1 TGTGCGTGTGTGGATGTGGG
7524 GGGTGTGAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.05, C:0.05, G:0.50, T:0.40
Consensus pattern (20 bp):
TGTGCGTGTGTGGATGTGGG
Found at i:7916 original size:2 final size:2
Alignment explanation
Indices: 7909--7948 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
7899 AGATTCTAAC
7909 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7949 ATCTTCTCTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9062 original size:2 final size:2
Alignment explanation
Indices: 9055--9095 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
9045 TTTAGTCTCA
9055 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9096 AAGACACACG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:12669 original size:28 final size:28
Alignment explanation
Indices: 12627--12681 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
12617 TCTACTAAGG
* * *
12627 TTACTGAGTTTCTCAAGGAGGCATTAGA
1 TTACAGAGTTGCTCAAGGAAGCATTAGA
12655 TTACAGAGTTGCTCAAGGAAGCATTAG
1 TTACAGAGTTGCTCAAGGAAGCATTAG
12682 TTATACCAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (28 bp):
TTACAGAGTTGCTCAAGGAAGCATTAGA
Found at i:25206 original size:67 final size:67
Alignment explanation
Indices: 25127--25282 Score: 242
Period size: 67 Copynumber: 2.3 Consensus size: 67
25117 GTTAAAAGGG
*
25127 TACATGATGAAGCTCCCGTTCTTCGTTTGTTAACGTATATTGATGATGTGGATAATGCATTACAT
1 TACATGATGAAGCTCCCGTTCTTCATTTGTTAACGTATATTGATGATGTGGATAATGCATTACAT
25192 GA
66 GA
*
25194 TACATGATGAAGCTCCTC-TTCTTCATTTGTTAACTTATATTGATGATGTGGATAATGCATTACA
1 TACATGATGAAGCTCC-CGTTCTTCATTTGTTAACGTATATTGATGATGTGGATAATGCATTACA
*
25258 TGG
65 TGA
* *
25261 TACATAATGAAGCCTCCTGTTC
1 TACATGATGAAG-CTCCCGTTC
25283 ATTCCACGTC
Statistics
Matches: 81, Mismatches: 5, Indels: 5
0.89 0.05 0.05
Matches are distributed among these distances:
67 73 0.90
68 8 0.10
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.38
Consensus pattern (67 bp):
TACATGATGAAGCTCCCGTTCTTCATTTGTTAACGTATATTGATGATGTGGATAATGCATTACAT
GA
Found at i:26821 original size:21 final size:21
Alignment explanation
Indices: 26773--26826 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
26763 CTTTGCTATT
* *
26773 TCTTCAACCACTCCTTGTTTG
1 TCTTCATCCTCTCCTTGTTTG
26794 TCTTCATCCTCTCCTTGTTTG
1 TCTTCATCCTCTCCTTGTTTG
26815 TCTTCATCCTCT
1 TCTTCATCCTCT
26827 GTGAAAGGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.09, C:0.35, G:0.07, T:0.48
Consensus pattern (21 bp):
TCTTCATCCTCTCCTTGTTTG
Found at i:32676 original size:26 final size:26
Alignment explanation
Indices: 32632--32684 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
32622 TCAATGTTTT
*
32632 TCCATTCATTTCAAAGCTT-GTGGATA
1 TCCATTCATTCCAAAGCTTAGT-GATA
* *
32658 TCCATTCATTCCTAGGCTTAGTGATA
1 TCCATTCATTCCAAAGCTTAGTGATA
32684 T
1 T
32685 TATTGAGTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 21 0.91
27 2 0.09
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.40
Consensus pattern (26 bp):
TCCATTCATTCCAAAGCTTAGTGATA
Found at i:43371 original size:25 final size:26
Alignment explanation
Indices: 43313--43371 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
43303 ATAAGAATTG
*
43313 AATATTATATTTTTAGAATTATTAATA
1 AATA-TATATTTTAAGAATTATTAATA
* * *
43340 AATATATATTTTAAGTATTTTTATTA
1 AATATATATTTTAAGAATTATTAATA
43366 AA-ATAT
1 AATATAT
43372 TATTAGATTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 4 0.14
26 20 0.71
27 4 0.14
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (26 bp):
AATATATATTTTAAGAATTATTAATA
Found at i:43406 original size:30 final size:30
Alignment explanation
Indices: 43367--43435 Score: 77
Period size: 30 Copynumber: 2.2 Consensus size: 30
43357 TTTTTATTAA
*
43367 AATATTATTAGATTATTATATTAAT-ATTAAAT
1 AATATTATTA-TTTA-T-TATTAATAATTAAAT
*
43399 ACATATTATTATTTATTATTAATAATTTAAT
1 A-ATATTATTATTTATTATTAATAATTAAAT
43430 AATATT
1 AATATT
43436 TTTAAGAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
30 12 0.36
31 8 0.24
32 4 0.12
33 9 0.27
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (30 bp):
AATATTATTATTTATTATTAATAATTAAAT
Found at i:43606 original size:23 final size:23
Alignment explanation
Indices: 43565--43620 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 23
43555 TATAATATAT
*
43565 TATATTATTAAAAATATTAATAAA
1 TATATT-TTAAAAACATTAATAAA
* *
43589 TATATTTTAAATACATTAATAAT
1 TATATTTTAAAAACATTAATAAA
43612 TAATATTTT
1 T-ATATTTT
43621 TATTAAAATG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 15 0.54
24 13 0.46
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (23 bp):
TATATTTTAAAAACATTAATAAA
Found at i:50723 original size:21 final size:22
Alignment explanation
Indices: 50682--50727 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 22
50672 ATTAAAATAA
*
50682 CTTTTTTTTAGTTATTTTTATT
1 CTTTTTTTTAGTTATTATTATT
50704 CTTTTTTTTATTGTTATTATTATT
1 CTTTTTTTTA--GTTATTATTATT
50728 TTCGGATTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 10 0.48
24 11 0.52
ACGTcount: A:0.15, C:0.04, G:0.04, T:0.76
Consensus pattern (22 bp):
CTTTTTTTTAGTTATTATTATT
Found at i:52009 original size:29 final size:29
Alignment explanation
Indices: 51971--52036 Score: 123
Period size: 29 Copynumber: 2.3 Consensus size: 29
51961 TTTGGATTTC
51971 TTATCTTTGATTAACCCACCTCTCATTCT
1 TTATCTTTGATTAACCCACCTCTCATTCT
*
52000 TTATCTTTGATTAATCCACCTCTCATTCT
1 TTATCTTTGATTAACCCACCTCTCATTCT
52029 TTATCTTT
1 TTATCTTT
52037 TTTATCATTA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.20, C:0.27, G:0.03, T:0.50
Consensus pattern (29 bp):
TTATCTTTGATTAACCCACCTCTCATTCT
Found at i:62271 original size:24 final size:23
Alignment explanation
Indices: 62237--62297 Score: 86
Period size: 23 Copynumber: 2.6 Consensus size: 23
62227 TTTGTTTGCC
62237 ATTTTGGCACGTTTTAGCTTTACT
1 ATTTTGGCACGTTTTA-CTTTACT
*
62261 ATTTTGACACGTTTTACTTTACT
1 ATTTTGGCACGTTTTACTTTACT
* *
62284 CTTGTGGCACGTTT
1 ATTTTGGCACGTTT
62298 CATTTGCCTT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
23 18 0.55
24 15 0.45
ACGTcount: A:0.16, C:0.18, G:0.16, T:0.49
Consensus pattern (23 bp):
ATTTTGGCACGTTTTACTTTACT
Found at i:65534 original size:2 final size:2
Alignment explanation
Indices: 65461--65515 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
65451 TTATTTTACT
65461 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
65503 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
65516 TTTTTATTTT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:65545 original size:21 final size:19
Alignment explanation
Indices: 65509--65559 Score: 57
Period size: 21 Copynumber: 2.6 Consensus size: 19
65499 TATATATATA
* *
65509 TATATATTTTTTATTTTTT
1 TATATATTTTTCATTTATT
65528 TATATATTTTACTCATTTATT
1 TATATATTTT--TCATTTATT
*
65549 TATCTATTTTT
1 TATATATTTTT
65560 ATATTTATCC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 11 0.41
21 16 0.59
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.71
Consensus pattern (19 bp):
TATATATTTTTCATTTATT
Found at i:68784 original size:21 final size:21
Alignment explanation
Indices: 68762--68813 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 21
68752 CAAAAAGGGC
68762 AAAAAGAAAAAGAAAAGAAGCA
1 AAAAAGAAAAA-AAAAGAAGCA
*
68784 AAAAAGGAAAAAACAAGAA-CA
1 AAAAA-GAAAAAAAAAGAAGCA
68805 AAAAAGAAA
1 AAAAAGAAA
68814 GAACAAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 4 0.14
21 7 0.25
22 11 0.39
23 6 0.21
ACGTcount: A:0.79, C:0.06, G:0.15, T:0.00
Consensus pattern (21 bp):
AAAAAGAAAAAAAAAGAAGCA
Found at i:68813 original size:20 final size:20
Alignment explanation
Indices: 68762--68830 Score: 75
Period size: 20 Copynumber: 3.3 Consensus size: 20
68752 CAAAAAGGGC
*
68762 AAAAAGAAAAAGAAAAGAAGCA
1 AAAAAGAAAAA-ACAAGAA-CA
68784 AAAAAGGAAAAAACAAGAACA
1 AAAAA-GAAAAAACAAGAACA
* * *
68805 AAAAAGAAAGAACAAAAATA
1 AAAAAGAAAAAACAAGAACA
68825 AAAAAG
1 AAAAAG
68831 GGAACAAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
20 18 0.43
21 7 0.17
22 11 0.26
23 6 0.14
ACGTcount: A:0.78, C:0.06, G:0.14, T:0.01
Consensus pattern (20 bp):
AAAAAGAAAAAACAAGAACA
Found at i:69466 original size:22 final size:22
Alignment explanation
Indices: 69438--69488 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
69428 CCCCATCAAT
69438 CCTTTGAGCATCAAATACCAAA
1 CCTTTGAGCATCAAATACCAAA
*
69460 CCTTTGAGCATCAAATGCCAAA
1 CCTTTGAGCATCAAATACCAAA
69482 CCTTTGA
1 CCTTTGA
69489 CCAAACACAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.35, C:0.27, G:0.12, T:0.25
Consensus pattern (22 bp):
CCTTTGAGCATCAAATACCAAA
Found at i:70394 original size:36 final size:36
Alignment explanation
Indices: 70347--70451 Score: 156
Period size: 36 Copynumber: 2.9 Consensus size: 36
70337 GTGCTCATCA
*
70347 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAACT
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAAT
*
70383 TTGTCTCTCTTGAGACAGTTTCCCTTGAAAAAAAAAT
1 TTGTCTCTCTTGAGACAGTTTCCCTTG-AAACAAAAT
* * *
70420 TTTTCTCCCTTGAGACAGTTTCTCTTGAAACA
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACA
70452 TAAACATTGA
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
36 31 0.50
37 31 0.50
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.37
Consensus pattern (36 bp):
TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAAT
Found at i:70441 original size:37 final size:37
Alignment explanation
Indices: 70347--70449 Score: 154
Period size: 37 Copynumber: 2.8 Consensus size: 37
70337 GTGCTCATCA
* *
70347 TTGTCTCTCTTGAGACAGTTTCCCTTG-AAACAAACT
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAAAAAAAAT
70383 TTGTCTCTCTTGAGACAGTTTCCCTTGAAAAAAAAAT
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAAAAAAAAT
* * *
70420 TTTTCTCCCTTGAGACAGTTTCTCTTGAAA
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAA
70450 CATAAACATT
Statistics
Matches: 61, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
36 27 0.44
37 34 0.56
ACGTcount: A:0.26, C:0.22, G:0.14, T:0.38
Consensus pattern (37 bp):
TTGTCTCTCTTGAGACAGTTTCCCTTGAAAAAAAAAT
Found at i:70641 original size:36 final size:36
Alignment explanation
Indices: 70558--70655 Score: 135
Period size: 36 Copynumber: 2.7 Consensus size: 36
70548 TACCATTTCC
* * *
70558 CTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCT
1 CTTGAGACAGTTTCTCTTGAAAC-AAGTTTTGTCTAT
70595 CTTGAGACAGTTTCTCTTGAAACAA-TTTTCGTCTAT
1 CTTGAGACAGTTTCTCTTGAAACAAGTTTT-GTCTAT
*
70631 CTTGAGACAGTTTCCCTTGAAACAA
1 CTTGAGACAGTTTCTCTTGAAACAA
70656 AATCTTTGAA
Statistics
Matches: 56, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
35 4 0.07
36 31 0.55
37 21 0.38
ACGTcount: A:0.24, C:0.19, G:0.16, T:0.40
Consensus pattern (36 bp):
CTTGAGACAGTTTCTCTTGAAACAAGTTTTGTCTAT
Found at i:70718 original size:65 final size:65
Alignment explanation
Indices: 70614--70788 Score: 217
Period size: 67 Copynumber: 2.6 Consensus size: 65
70604 GTTTCTCTTG
** * **
70614 AAAC-AATTTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATTTATTTCCCCT
1 AAACAAATTTT-GTCTCCCTTGAGACAGTTTCTCTTGAAACAAAATCTTCAAATTTATTTCCCCT
70678 A
65 A
* *
70679 AAACAAATTTTGTCTCCCTTGAGACAGTTACTCTTGAAACACAAAATCTTCAAATTTATTTCCCT
1 AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTG-AA-ACAAAATCTTCAAATTTATTTCCCC
70744 TA
64 TA
* * *
70746 AAACATAATTTTGTTTCCCTTGAGACCGTTTCTCATGAAACAA
1 AAACA-AATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAA
70789 CAGATATCTT
Statistics
Matches: 95, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
65 25 0.26
66 12 0.13
67 31 0.33
68 27 0.28
ACGTcount: A:0.33, C:0.22, G:0.09, T:0.37
Consensus pattern (65 bp):
AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAAATCTTCAAATTTATTTCCCCTA
Found at i:70748 original size:67 final size:67
Alignment explanation
Indices: 70605--70787 Score: 219
Period size: 68 Copynumber: 2.7 Consensus size: 67
70595 CTTGAGACAG
* * ** * **
70605 TTTCTCTTGAAAC-AATTTTCGTCTATCTTGAGACAGTTTCCCTTG-AA-ACAAAATCTTTGAAT
1 TTTCCCTTAAAACAAATTTT-GTCTCCCTTGAGACAGTTTCTCTTGAAACACAAAATCTTCAAAT
70667 TTA
65 TTA
* *
70670 TTTCCCCTAAAACAAATTTTGTCTCCCTTGAGACAGTTACTCTTGAAACACAAAATCTTCAAATT
1 TTTCCCTTAAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACACAAAATCTTCAAATT
70735 TA
66 TA
* * *
70737 TTTCCCTTAAAACATAATTTTGTTTCCCTTGAGACCGTTTCTCATGAAACA
1 TTTCCCTTAAAACA-AATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACA
70788 ACAGATATCT
Statistics
Matches: 100, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
65 31 0.31
66 8 0.08
67 29 0.29
68 32 0.32
ACGTcount: A:0.31, C:0.22, G:0.09, T:0.38
Consensus pattern (67 bp):
TTTCCCTTAAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACACAAAATCTTCAAATT
TA
Found at i:70972 original size:29 final size:29
Alignment explanation
Indices: 70939--71005 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
70929 GAATGTGCAC
* *
70939 ATCAGATTTGAACATTTGAAGAATTCAAG-
1 ATCAGATTTCAAAATTTGAAG-ATTCAAGA
**
70968 ATCAGAGATCAAAATTTGAAGATTCAAGA
1 ATCAGATTTCAAAATTTGAAGATTCAAGA
70997 ATCAAGATT
1 ATC-AGATT
71006 CCAGACAGGC
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
28 7 0.23
29 20 0.67
30 3 0.10
ACGTcount: A:0.45, C:0.10, G:0.16, T:0.28
Consensus pattern (29 bp):
ATCAGATTTCAAAATTTGAAGATTCAAGA
Found at i:71747 original size:105 final size:104
Alignment explanation
Indices: 71392--72564 Score: 1658
Period size: 105 Copynumber: 11.3 Consensus size: 104
71382 GCCATCCGCG
* * * * * *
71392 ATTTCAACTCCACGACGGAGGATATCGTGGCACTCGAGACAACACAAGTTCAACTTCACAACGAA
1 ATTTCAACTTCACAACGAAGGATAT--TGG-ACTCCAGACAACGCAAGTTCAACTTCACGACGAA
* * *
71457 GGGACGGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCA
63 GGGACCGCTGCTTGTCAAC-AACAACTTCCCAA-TTCAGAGCCA
71501 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* * *
71566 ACCGCTGGTTGTCAATAAACAATTTTCCCAATTTCAGAGCCA
66 ACCGCTGCTTGTCAA-CAACAA-CTTCCCAA-TTCAGAGCCA
* * *
71608 ATTTCAACTTCACAGCGAAGGATATTGGATTCCAGACAATGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
71673 ACCGCTGGTTGTCAACAACAACTTCCCAATCTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAAT-TCAGAGCCA
*
71713 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
71778 ACCGCTGCTTGTCAACAACAACTTTCCAATCTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAAT-TCAGAGCCA
71818 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* *
71883 AGCGCTGCTTGTCAACAA-AA-TT-TC-ATTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAATTCAGAGCCA
** *
71918 ATTTCAACTTCACAGTGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
71983 ACCGCTGCTTGTCAACAACAACTTTCCAATCTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAAT-TCAGAGCCA
*
72023 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
72088 ACCGCTGCTTGTCAACAA-AA-TT-TC-ATTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAATTCAGAGCCA
*
72123 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* *
72188 ACCGCTGCTTGTCAGCAA-AA-TT-TC-ATTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAATTCAGAGCCA
* *
72223 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* * *
72288 AGCGCTGTTTGTCAACAACAACTTCCCAATCCCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAAT-TCAGAGCCA
* *
72328 ATTTCAACTTCACAACGAAAGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGATGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* * **
72393 ACCGCTTCTTGTCAACAA-AA-TT-TC-ATTCAGATTCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAATTCAGAGCCA
* * *
72428 ATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* * * **
72493 ACGGCTGGTTGTCAACAAACAATTTCCCGGTTCCAGAGCCA
66 ACCGCTGCTTGTCAAC-AACAACTTCCCAATT-CAGAGCCA
* *
72534 ATTTCAACTTCACGACGGAGGATATTGGACT
1 ATTTCAACTTCACAACGAAGGATATTGGACT
72565 TGGAACAATG
Statistics
Matches: 981, Mismatches: 64, Indels: 41
0.90 0.06 0.04
Matches are distributed among these distances:
100 352 0.36
101 12 0.01
102 9 0.01
103 10 0.01
104 12 0.01
105 374 0.38
106 93 0.09
107 97 0.10
109 22 0.02
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.22
Consensus pattern (104 bp):
ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
ACCGCTGCTTGTCAACAACAACTTCCCAATTCAGAGCCA
Found at i:71992 original size:205 final size:206
Alignment explanation
Indices: 71392--72564 Score: 1681
Period size: 205 Copynumber: 5.7 Consensus size: 206
71382 GCCATCCGCG
* * * * * *
71392 ATTTCAACTCCACGACGGAGGATATCGTGGCACTCGAGACAACACAAGTTCAACTTCACAACGAA
1 ATTTCAACTTCACAACGAAGGATAT--TGG-ACTCCAGACAACGCAAGTTCAACTTCACGACGAA
71457 GGGACGGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGG
63 GGGAC-GCTGGTTGTCAAC-AACAACTTCTCAA-TTCAGAGCCAATTTCAACTTCACAACGAAGG
* *
71522 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACA
125 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAA-CAACA
71587 ATTTTCCCAATTTCAGAGCCA
189 A-TTT-CCAA-TTCAGAGCCA
* * *
71608 ATTTCAACTTCACAGCGAAGGATATTGGATTCCAGACAATGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
71673 ACCGCTGGTTGTCAACAACAACTTCCCAATCTCAGAGCCAATTTCAACTTCACAACGAAGGATAT
66 A-CGCTGGTTGTCAACAACAACTTCTCAAT-TCAGAGCCAATTTCAACTTCACAACGAAGGATAT
*
71738 TGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTT
129 TGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAA-TTT
71803 CCAATCTCAGAGCCA
193 CCAAT-TCAGAGCCA
71818 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* **
71883 AGCGCTGCTTGTCAACAA-AA-TT-TC-ATTCAGAGCCAATTTCAACTTCACAGTGAAGGATATT
66 A-CGCTGGTTGTCAACAACAACTTCTCAATTCAGAGCCAATTTCAACTTCACAACGAAGGATATT
*
71944 GGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTTC
130 GGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAA-TTTC
72009 CAATCTCAGAGCCA
194 CAAT-TCAGAGCCA
*
72023 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* *
72088 ACCGCTGCTTGTCAACAA-AA-TT-TC-ATTCAGAGCCAATTTCAACTTCACAGCGAAGGATATT
66 A-CGCTGGTTGTCAACAACAACTTCTCAATTCAGAGCCAATTTCAACTTCACAACGAAGGATATT
*
72149 GGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAGCAA-AATTT-C
130 GGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAATTTCC
72212 -ATTCAGAGCCA
195 AATTCAGAGCCA
* *
72223 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* * * *
72288 AGCGCTGTTTGTCAACAACAACTTCCCAATCCCAGAGCCAATTTCAACTTCACAACGAAAGATAT
66 A-CGCTGGTTGTCAACAACAACTTCTCAAT-TCAGAGCCAATTTCAACTTCACAACGAAGGATAT
* *
72353 TGGACTCCAGACAACGCAAGTTCAACTTCACGATGAAGGGACCGCTTCTTGTCAACAA-AATTT-
129 TGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAATTTC
**
72416 C-ATTCAGATTCA
194 CAATTCAGAGCCA
* * *
72428 ATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* * ** * *
72493 ACGGCTGGTTGTCAACAAACAATTTCCCGGTTCCAGAGCCAATTTCAACTTCACGACGGAGGATA
66 AC-GCTGGTTGTCAAC-AACAACTTCTCAATT-CAGAGCCAATTTCAACTTCACAACGAAGGATA
72558 TTGGACT
128 TTGGACT
72565 TGGAACAATG
Statistics
Matches: 894, Mismatches: 52, Indels: 32
0.91 0.05 0.03
Matches are distributed among these distances:
200 89 0.10
201 4 0.00
202 3 0.00
203 4 0.00
204 5 0.01
205 464 0.52
206 49 0.05
207 1 0.00
208 2 0.00
209 3 0.00
210 91 0.10
211 9 0.01
212 99 0.11
213 46 0.05
214 4 0.00
216 21 0.02
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.22
Consensus pattern (206 bp):
ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
ACGCTGGTTGTCAACAACAACTTCTCAATTCAGAGCCAATTTCAACTTCACAACGAAGGATATTG
GACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAATTTCCA
ATTCAGAGCCA
Found at i:72273 original size:305 final size:311
Alignment explanation
Indices: 71392--72564 Score: 1796
Period size: 305 Copynumber: 3.8 Consensus size: 311
71382 GCCATCCGCG
* * * * * *
71392 ATTTCAACTCCACGACGGAGGATATCGTGGCACTCGAGACAACACAAGTTCAACTTCACAACGAA
1 ATTTCAACTTCACAACGAAGGATAT--TGG-ACTCCAGACAACGCAAGTTCAACTTCACGACGAA
* *
71457 GGGACGGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGG
63 GGGACCGCTGCTTGTCAAC-AACAACTT-TCAA-TTCAGAGCCAATTTCAACTTCACAACGAAGG
* *
71522 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACA
125 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAA-CAACA
*
71587 ATTTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGATTCCAGACAATGCAA
189 A-TTT-CCAA-TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAATGCAA
*
71652 GTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCAATCTCAGAGCCA
251 GTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCA
*
71713 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
71778 ACCGCTGCTTGTCAACAACAACTTTCCAATCTCAGAGCCAATTTCAACTTCACAACGAAGGATAT
66 ACCGCTGCTTGTCAACAACAACTTT-CAAT-TCAGAGCCAATTTCAACTTCACAACGAAGGATAT
*
71843 TGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAGCGCTGCTTGTCAACAA-AATTT-
129 TGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAATTTC
*
71906 C-ATTCAGAGCCAATTTCAACTTCACAGTGAAGGATATTGGACTCCAGACAATGCAAGTTCAACT
194 CAATTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAATGCAAGTTCAACT
*
71970 TCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTTCCAATCTCAGAGCCA
259 TCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCA
*
72023 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
72088 ACCGCTGCTTGTCAACAA-AA-TTTC-ATTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTG
66 ACCGCTGCTTGTCAACAACAACTTTCAATTCAGAGCCAATTTCAACTTCACAACGAAGGATATTG
*
72150 GACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAGCAA-AATTT-C-
131 GACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAATTTCCA
72212 ATTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTC
196 ATTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTC
* * *
72277 ACGACGAAGGGAGCGCTGTTTGTCAACAACAACTTCCCAATCCCAGAGCCA
261 ACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCA
* *
72328 ATTTCAACTTCACAACGAAAGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGATGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* **
72393 ACCGCTTCTTGTCAACAA-AA-TTTC-ATTCAGATTCAATTTCAACTTCACAACGAAGGATATTG
66 ACCGCTGCTTGTCAACAACAACTTTCAATTCAGAGCCAATTTCAACTTCACAACGAAGGATATTG
* * * * *
72455 GACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCC
131 GACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAAC-AACAATTT-C
** *
72520 CGGTTCCAGAGCCAATTTCAACTTCAC-GACGGAGGATATTGGACT
194 CAATT-CAGAGCCAATTTCAACTTCACAG-CGAAGGATATTGGACT
72565 TGGAACAATG
Statistics
Matches: 804, Mismatches: 39, Indels: 28
0.92 0.04 0.03
Matches are distributed among these distances:
305 374 0.47
306 4 0.00
307 6 0.01
308 3 0.00
309 3 0.00
310 197 0.25
311 37 0.05
312 1 0.00
314 3 0.00
315 2 0.00
316 4 0.00
317 98 0.12
318 47 0.06
319 3 0.00
321 22 0.03
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.22
Consensus pattern (311 bp):
ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
ACCGCTGCTTGTCAACAACAACTTTCAATTCAGAGCCAATTTCAACTTCACAACGAAGGATATTG
GACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAATTTCCA
ATTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTC
ACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCA
Found at i:73624 original size:2 final size:2
Alignment explanation
Indices: 73619--73649 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
73609 TTAGTGTTAT
*
73619 TA TA TA TA TA TA TA TA TA TA TA TT TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
73650 TTCCTATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:73783 original size:2 final size:2
Alignment explanation
Indices: 73719--73763 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
73709 TTATTTTACT
73719 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
73761 TA T
1 TA T
73764 TTTTTTTATT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:73795 original size:21 final size:21
Alignment explanation
Indices: 73757--73808 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
73747 TATATATATA
** * *
73757 TATATATTTTTTTTATTTTTT
1 TATATATTTTACTCATTTATT
73778 TATATATTTTACTCATTTATT
1 TATATATTTTACTCATTTATT
*
73799 TATCTATTTT
1 TATATATTTT
73809 TATATTTATC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (21 bp):
TATATATTTTACTCATTTATT
Found at i:73816 original size:16 final size:18
Alignment explanation
Indices: 73795--73829 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
73785 TTTACTCATT
73795 TATTTAT-CTAT-TTTTA
1 TATTTATCCTATATTTTA
73811 TATTTATCCTATATTTTA
1 TATTTATCCTATATTTTA
73829 T
1 T
73830 GTTTTTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 4 0.24
18 6 0.35
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.66
Consensus pattern (18 bp):
TATTTATCCTATATTTTA
Found at i:74853 original size:16 final size:16
Alignment explanation
Indices: 74797--74841 Score: 90
Period size: 16 Copynumber: 2.8 Consensus size: 16
74787 AACGAGTCAA
74797 GTTAAATTCGAGTATT
1 GTTAAATTCGAGTATT
74813 GTTAAATTCGAGTATT
1 GTTAAATTCGAGTATT
74829 GTTAAATTCGAGT
1 GTTAAATTCGAGT
74842 TATGTTTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.42
Consensus pattern (16 bp):
GTTAAATTCGAGTATT
Found at i:78893 original size:46 final size:46
Alignment explanation
Indices: 78798--78897 Score: 121
Period size: 46 Copynumber: 2.2 Consensus size: 46
78788 AAAAATAAAA
** ** *
78798 ATTTTAATTAATAAATAATAATTTGAACGGAGTTGAATTACTGGGT
1 ATTTTAATTAATAAATAATAATTTGAACGGAGTCAAATTACCAGAT
* * *
78844 ATTTTAATTAATAAGTAATAATTTTAATGGAGTCAAATTACCAGAT
1 ATTTTAATTAATAAATAATAATTTGAACGGAGTCAAATTACCAGAT
78890 A-TTTAATT
1 ATTTTAATT
78898 TAAATTCATT
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
45 7 0.15
46 39 0.85
ACGTcount: A:0.41, C:0.05, G:0.13, T:0.41
Consensus pattern (46 bp):
ATTTTAATTAATAAATAATAATTTGAACGGAGTCAAATTACCAGAT
Found at i:84494 original size:15 final size:15
Alignment explanation
Indices: 84476--84519 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
84466 TATTTATCAT
84476 TATTTATTTTAATTA
1 TATTTATTTTAATTA
*
84491 TA-TTATGTCTAATTA
1 TATTTAT-TTTAATTA
84506 TATATTATTTTAAT
1 TAT-TTATTTTAAT
84520 AAAAAATCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
14 4 0.17
15 11 0.46
16 5 0.21
17 4 0.17
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (15 bp):
TATTTATTTTAATTA
Found at i:87354 original size:81 final size:82
Alignment explanation
Indices: 87209--87407 Score: 190
Period size: 81 Copynumber: 2.4 Consensus size: 82
87199 CACAAGCATG
* * * * * * ** *
87209 GAGATAACTCCGTCCAATTTAATTTCGTAATTTAGATATATCAACGAAGCATTGAGAACACTTCA
1 GAGATAACTCCATCCAATTTAATTTTGCAATTGAAATATATCAACGAAACATAAAAAACACTTCA
87274 TAA-ACA-CACTA-GCCTA
66 TAAGA-AGCA-TACGCCTA
* *
87290 GAGATAACTCCATCCAATTTAATTTTGCAATTGAAATATTTCAATGAAACATAAAAAATC-CTTC
1 GAGATAACTCCATCCAATTTAATTTTGCAATTGAAATATATCAACGAAACATAAAAAA-CACTTC
*
87354 ATAAGGAATGCATATCGGCCTG
65 ATAA-GAA-GCATA-C-GCCTA
*
87376 GAGATAACTCCAACCAATTTAATTTTGCAATT
1 GAGATAACTCCATCCAATTTAATTTTGCAATT
87408 TAGATATACC
Statistics
Matches: 97, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
81 55 0.57
82 2 0.02
83 3 0.03
84 2 0.02
86 35 0.36
ACGTcount: A:0.39, C:0.19, G:0.12, T:0.30
Consensus pattern (82 bp):
GAGATAACTCCATCCAATTTAATTTTGCAATTGAAATATATCAACGAAACATAAAAAACACTTCA
TAAGAAGCATACGCCTA
Found at i:93213 original size:14 final size:16
Alignment explanation
Indices: 93194--93226 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
93184 GTAACATGAA
93194 TTTA-TTGTT-AATAT
1 TTTATTTGTTAAATAT
93208 TTTATTTGTTAAATAT
1 TTTATTTGTTAAATAT
93224 TTT
1 TTT
93227 CAAAAATGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.24
15 5 0.29
16 8 0.47
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (16 bp):
TTTATTTGTTAAATAT
Found at i:98575 original size:32 final size:31
Alignment explanation
Indices: 98502--98579 Score: 93
Period size: 32 Copynumber: 2.5 Consensus size: 31
98492 CTAATGTGAC
* *
98502 TCTTAGGTAGGCTCTGCGGCCCTGAGATCAT
1 TCTTAGGTAGGCCCTGCGGCCCTAAGATCAT
** *
98533 TCTCGGGGTAGGCCCTGCGGCCCTAAGATGTAT
1 TCT-TAGGTAGGCCCTGCGGCCCTAAGAT-CAT
98566 TCTTAGGTAGGCCC
1 TCTTAGGTAGGCCC
98580 CGTGGCCCCA
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
31 3 0.08
32 30 0.79
33 5 0.13
ACGTcount: A:0.15, C:0.27, G:0.31, T:0.27
Consensus pattern (31 bp):
TCTTAGGTAGGCCCTGCGGCCCTAAGATCAT
Found at i:102641 original size:253 final size:251
Alignment explanation
Indices: 102191--102737 Score: 734
Period size: 257 Copynumber: 2.1 Consensus size: 251
102181 CTGAGACCCG
* * *
102191 ACCCGACCAAAATAAAGTTTCACCCGACCCGACTCGAATATATGAATTAGAAATTCGACCCGACC
1 ACCCGACCAAAATAAAGTTTCACCCGACCCGACCCGAATATATGAATTAGAAATCCGACCCAACC
*
102256 CGAAATAAAAAAAAATATTCAATAAAAACAATTACTTAATTGAAAAATATATATATATATAGAGG
66 CGAAATAAAAAAAAATATTCAATAAAAACAATGACTTAATTGAAAAATATATATATATATAGAGG
*
102321 GGTATTATTGTAATTATTCCTAAATATATAAGGTAAAATTATATATTTTTTGGGTCGGGTCGGGT
131 GGTATTATTGTAATTATTCCTAAATATATAAGATAAAATTATATATTTTTTGGGT---GTCGGGT
* * * * *
102386 ATTTTTCACCCTAAACCCG-A-ACCCGATATGAATATCACACTTAAAAAAAACTGA-TCCC
193 ATTTTTCACCATAAACCCGAACACCCGACACGAATATCACAATT-AAAAAAACCGACT-CC
102444 ACCCGACCAAAATAAAGTTTCACCCGACCCGACCCGAATATATGAATTAGAAATCCGACCCAACC
1 ACCCGACCAAAATAAAGTTTCACCCGACCCGACCCGAATATATGAATTAGAAATCCGACCCAACC
* *
102509 CGAAATAATAAAAAAATTATTTTTATTCAAT-AAAACAGTGACTTAATTGAAAAA-A-AT-TTTA
66 CGAAAT-A-AAAAAAA--A----TATTCAATAAAAACAATGACTTAATTGAAAAATATATATATA
102570 TATAGAGGGGTATTATTGTAATTATTCCTAAATATATAAGATAAAATTATATATATTTTTGGGT-
123 TATAGAGGGGTATTATTGTAATTATTCCTAAATATATAAGATAAAATTATATAT-TTTTTGGGTG
* *
102634 T-GGGTATTTTTCACTATAAACCCGAACTCGACCCGACCCGAATATCACAATTAAAAAAACCGAC
187 TCGGGTATTTTTCACCATAAACCCGAA--C-ACCCGACACGAATATCACAATTAAAAAAACCGAC
*
102698 TCG
249 TCC
*
102701 ATCCGACCAAAATAAAGTTTCACCCGACCCGACCCGA
1 ACCCGACCAAAATAAAGTTTCACCCGACCCGACCCGA
102738 CCTTACCCGA
Statistics
Matches: 263, Mismatches: 16, Indels: 26
0.86 0.05 0.09
Matches are distributed among these distances:
253 89 0.34
254 3 0.01
255 7 0.03
257 104 0.40
258 30 0.11
259 1 0.00
260 21 0.08
261 8 0.03
ACGTcount: A:0.41, C:0.19, G:0.12, T:0.28
Consensus pattern (251 bp):
ACCCGACCAAAATAAAGTTTCACCCGACCCGACCCGAATATATGAATTAGAAATCCGACCCAACC
CGAAATAAAAAAAAATATTCAATAAAAACAATGACTTAATTGAAAAATATATATATATATAGAGG
GGTATTATTGTAATTATTCCTAAATATATAAGATAAAATTATATATTTTTTGGGTGTCGGGTATT
TTTCACCATAAACCCGAACACCCGACACGAATATCACAATTAAAAAAACCGACTCC
Found at i:103700 original size:37 final size:38
Alignment explanation
Indices: 103619--103705 Score: 140
Period size: 38 Copynumber: 2.3 Consensus size: 38
103609 TAACCCTAAT
103619 CCCGACCCGACCCGAACCGAATATCACACTTTAAAAAA
1 CCCGACCCGACCCGAACCGAATATCACACTTTAAAAAA
* *
103657 CCCGACCCGACTCGACCCGAATATCACAC-TTAAAAAA
1 CCCGACCCGACCCGAACCGAATATCACACTTTAAAAAA
*
103694 CTCGACCCGACC
1 CCCGACCCGACC
103706 TAGATAAAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
37 18 0.40
38 27 0.60
ACGTcount: A:0.36, C:0.40, G:0.11, T:0.13
Consensus pattern (38 bp):
CCCGACCCGACCCGAACCGAATATCACACTTTAAAAAA
Found at i:105104 original size:32 final size:32
Alignment explanation
Indices: 105060--105131 Score: 90
Period size: 32 Copynumber: 2.2 Consensus size: 32
105050 CGGCCAACCT
* * *
105060 GACCCGATCCAAAAATTTTACATCCTTCACCC
1 GACCCGACCCAAAAAATATACATCCTTCACCC
* *
105092 GACCCGACCCAAAAAATATATATCTTTCACCC
1 GACCCGACCCAAAAAATATACATCCTTCACCC
*
105124 GACTCGAC
1 GACCCGAC
105132 TTTTTGTGAT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.33, C:0.36, G:0.08, T:0.22
Consensus pattern (32 bp):
GACCCGACCCAAAAAATATACATCCTTCACCC
Found at i:110823 original size:257 final size:251
Alignment explanation
Indices: 110525--111140 Score: 699
Period size: 256 Copynumber: 2.4 Consensus size: 251
110515 CATCCGAGAC
* * **
110525 CCGACCCGAACAAAATAAAATTTCACCCGACTTGACCCGAATATATGAATTAGAAACCCGACCCG
1 CCGACCCGACCAAAATAAAGTTTCACCCGACCCGACCCGAATATATGAATTAGAAA-CCGACCCG
* * *
110590 A-A-TAATAA-AAAAAAATATTTTTATTCAATAAAAACAGTGACTTAATTGAAATATATATATAT
65 ACACAAATAATAAAAAAATATTTTTATTCAATAAAAACAGTGACTTAATTGAAAAAAAT-TATAT
* * * *
110652 ATATATAGGTATTATTGTAATAATTCCTAAATATATAAGGTAAAA-TATATATTTTTTGGGTCGG
129 ATAGAGAGGTATTATTGTAATAATTCCTAAATATATAAGGCAAAATTATATA-TATTT---TC-G
* *
110716 GTCAAGTCGGGTATTTTTCACCCTAAACCCAAACCCGACCCGACCCAAATATCACACTTTAAAAA
189 G----GTCGAGTATATTTCACCCTAAACCCAAACCCGACCCGACCCAAATATCACAC-TTAAAAA
110781 A-A
249 ACA
* *
110783 CCGAGCCGACCAAAATAAAGTTTCA-CCGACCCGACCCGAATATATGAATTAGAAATCCGATCCG
1 CCGACCCGACCAAAATAAAGTTTCACCCGACCCGACCCGAATATATGAATTAGAAA-CCGACCCG
* *
110847 ACCCACCCGAAATAATAAAAAATTATTTTTATTCAATAAAAACAGTGATTTAATTGAAAAAAATT
65 A--CA--C-AAATAATAAAAAAATATTTTTATTCAATAAAAACAGTGACTTAATTGAAAAAAATT
* *
110912 ATATATAGAGGGGTATTATTGTAATTATTCCTAAATATATAAGGCAAAATTATATATATTTTCGG
125 ATATATAGAGAGGTATTATTGTAATAATTCCTAAATATATAAGGCAAAATTATATATATTTTCGG
* * * **
110977 GTCGAGTATATTTCACCCTAAACCCGAACTCGACCTGACCTGAATATCACACTTAAAAAACCGA
190 GTCGAGTATATTTCACCCTAAACCCAAACCCGACCCGACCCAAATATCACACTTAAAAAA-C-A
* *
111041 CCGACCCGACC-AAATAAAGTTTCACCCAACCCGACCCGAATGTATGAATTAGAAACCGACCGAT
1 CCGACCCGACCAAAATAAAGTTTCACCCGACCCGACCCGAATATATGAATTAGAAACCGA-C---
* *
111105 CCGACCCGAAATAAT-AAAAAATATTTTTATTAAATA
62 CCGACAC-AAATAATAAAAAAATATTTTTATTCAATA
111141 TATAAATAAG
Statistics
Matches: 309, Mismatches: 32, Indels: 36
0.82 0.08 0.10
Matches are distributed among these distances:
255 8 0.03
256 64 0.21
257 62 0.20
258 61 0.20
259 1 0.00
260 3 0.01
261 6 0.02
264 54 0.17
265 50 0.16
ACGTcount: A:0.41, C:0.20, G:0.12, T:0.27
Consensus pattern (251 bp):
CCGACCCGACCAAAATAAAGTTTCACCCGACCCGACCCGAATATATGAATTAGAAACCGACCCGA
CACAAATAATAAAAAAATATTTTTATTCAATAAAAACAGTGACTTAATTGAAAAAAATTATATAT
AGAGAGGTATTATTGTAATAATTCCTAAATATATAAGGCAAAATTATATATATTTTCGGGTCGAG
TATATTTCACCCTAAACCCAAACCCGACCCGACCCAAATATCACACTTAAAAAACA
Done.