Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001131.1 Hibiscus syriacus cultivar Beakdansim tig00002247_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: 109397
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Found at i:2954 original size:17 final size:18
Alignment explanation
Indices: 2921--2954 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2911 AACCGTTTAG
2921 TGAACCGGTCAGAACCGT
1 TGAACCGGTCAGAACCGT
*
2939 TGAACCGTTC-GAACCG
1 TGAACCGGTCAGAACCG
2955 GACCGGCTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.26, C:0.29, G:0.26, T:0.18
Consensus pattern (18 bp):
TGAACCGGTCAGAACCGT
Found at i:3674 original size:21 final size:20
Alignment explanation
Indices: 3650--3689 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
3640 TATAAAAAAA
3650 TATTTTTATTAAATATTTTAG
1 TATTTTTATTAAAT-TTTTAG
*
3671 TATTTTTATTTAATTTTTA
1 TATTTTTATTAAATTTTTA
3690 AATAATTATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (20 bp):
TATTTTTATTAAATTTTTAG
Found at i:4333 original size:29 final size:29
Alignment explanation
Indices: 4281--4337 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
4271 TGTGACCGTA
* **
4281 GGTCGTCATTCCTTCCGGGAGACCTTGTT
1 GGTCGTCATGCCTTCCAAGAGACCTTGTT
*
4310 GGTCGTCATGCCTTCCAAGCGACCTTGT
1 GGTCGTCATGCCTTCCAAGAGACCTTGT
4338 ATGAGAGTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.12, C:0.30, G:0.26, T:0.32
Consensus pattern (29 bp):
GGTCGTCATGCCTTCCAAGAGACCTTGTT
Found at i:4515 original size:24 final size:25
Alignment explanation
Indices: 4488--4544 Score: 62
Period size: 27 Copynumber: 2.2 Consensus size: 25
4478 TGTGAGATTC
* *
4488 CTGCA-CGTCCCCTCCTGCTCTCCG
1 CTGCATCGCCCCCTCCTGCTCCCCG
4512 CTGCATGTCGCCCCCTCCTGCTCCCCG
1 CTGCA--TCGCCCCCTCCTGCTCCCCG
*
4539 TTGCAT
1 CTGCAT
4545 GCCGCTGCAT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
24 5 0.19
25 1 0.04
27 21 0.78
ACGTcount: A:0.05, C:0.51, G:0.18, T:0.26
Consensus pattern (25 bp):
CTGCATCGCCCCCTCCTGCTCCCCG
Found at i:4770 original size:26 final size:26
Alignment explanation
Indices: 4731--4813 Score: 125
Period size: 26 Copynumber: 3.3 Consensus size: 26
4721 ACATAAAAGA
4731 AAGAAAGGGA-AAGAGATTGCAGCCG
1 AAGAAAGGGAGAAGAGATTGCAGCCG
*
4756 AAGAAATGGAGAAGAGATTGCAGCCG
1 AAGAAAGGGAGAAGAGATTGCAGCCG
* *
4782 AAGAAAGGGAGAAGAGATTACAGTCG
1 AAGAAAGGGAGAAGAGATTGCAGCCG
4808 -AGAAAG
1 AAGAAAG
4814 AAAGGAAGGG
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
25 15 0.28
26 38 0.72
ACGTcount: A:0.46, C:0.10, G:0.35, T:0.10
Consensus pattern (26 bp):
AAGAAAGGGAGAAGAGATTGCAGCCG
Found at i:7682 original size:60 final size:59
Alignment explanation
Indices: 7587--7761 Score: 211
Period size: 60 Copynumber: 3.0 Consensus size: 59
7577 TATTAGTATC
*
7587 AAATCATTATTATAATTTCA-TACTAGTAATCATTAGTAAATCATTAGTATCAAATCATT
1 AAATCATTATTATAA-TTCATTACTAGTAATCATTAGTAAATCATTACTATCAAATCATT
* *
7646 ACTATCATCATTATAATTCATTACTAGTAATCATTAGTAAATCATTACTATCAAAT-ATT
1 A-AATCATTATTATAATTCATTACTAGTAATCATTAGTAAATCATTACTATCAAATCATT
* * *
7705 AAATCATTATTA-AA-T-ATTA-TTGTCCAAT-ATTATTAAATCATTATTATCAAATCATT
1 AAATCATTATTATAATTCATTACTAGT--AATCATTAGTAAATCATTACTATCAAATCATT
7761 A
1 A
7762 TTAAATCATA
Statistics
Matches: 103, Mismatches: 8, Indels: 13
0.83 0.06 0.10
Matches are distributed among these distances:
54 3 0.03
55 26 0.25
56 8 0.08
57 2 0.02
58 9 0.09
59 9 0.09
60 46 0.45
ACGTcount: A:0.42, C:0.13, G:0.03, T:0.42
Consensus pattern (59 bp):
AAATCATTATTATAATTCATTACTAGTAATCATTAGTAAATCATTACTATCAAATCATT
Found at i:7705 original size:24 final size:23
Alignment explanation
Indices: 7638--7699 Score: 83
Period size: 24 Copynumber: 2.7 Consensus size: 23
7628 CATTAGTATC
7638 AAATCATTACTATC-ATCATTAT
1 AAATCATTACTATCAATCATTAT
*
7660 AATTCATTACTAGT-AATCATTAGT
1 AAATCATTACTA-TCAATCATTA-T
7684 AAATCATTACTATCAA
1 AAATCATTACTATCAA
7700 ATATTAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
22 11 0.32
23 9 0.26
24 14 0.41
ACGTcount: A:0.42, C:0.16, G:0.03, T:0.39
Consensus pattern (23 bp):
AAATCATTACTATCAATCATTAT
Found at i:7717 original size:11 final size:11
Alignment explanation
Indices: 7614--7770 Score: 81
Period size: 11 Copynumber: 13.5 Consensus size: 11
7604 TCATACTAGT
*
7614 AATCATTAGTA
1 AATCATTATTA
7625 AATCATTAGTATCA
1 AATCATTA-T-T-A
*
7639 AATCATTACTA
1 AATCATTATTA
*
7650 TCATCATTA-TA
1 -AATCATTATTA
* *
7661 ATTCATTACTA
1 AATCATTATTA
*
7672 GTAATCATTAGTA
1 --AATCATTATTA
*
7685 AATCATTACT-
1 AATCATTATTA
*
7695 -ATCAAATATTA
1 AATC-ATTATTA
7706 AATCATTATTA
1 AATCATTATTA
*
7717 AAT-ATTATTGTCC
1 AATCATTA-T-T-A
7730 AAT-ATTATTA
1 AATCATTATTA
7740 AATCATTATTATCA
1 AATCATTA-T-T-A
7754 AATCATTATTA
1 AATCATTATTA
7765 AATCAT
1 AATCAT
7771 ATAATTATTA
Statistics
Matches: 116, Mismatches: 13, Indels: 34
0.71 0.08 0.21
Matches are distributed among these distances:
9 3 0.03
10 17 0.15
11 44 0.38
12 15 0.13
13 19 0.16
14 18 0.16
ACGTcount: A:0.43, C:0.13, G:0.03, T:0.41
Consensus pattern (11 bp):
AATCATTATTA
Found at i:7751 original size:14 final size:14
Alignment explanation
Indices: 7732--7764 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
7722 TATTGTCCAA
*
7732 TATTATTAAATCAT
1 TATTATCAAATCAT
7746 TATTATCAAATCAT
1 TATTATCAAATCAT
7760 TATTA
1 TATTA
7765 AATCATATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.48
Consensus pattern (14 bp):
TATTATCAAATCAT
Found at i:7898 original size:14 final size:15
Alignment explanation
Indices: 7875--7919 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 15
7865 AAAACTTGAT
*
7875 TACT-AAATCATTAG
1 TACTGAAATCATTAA
7889 TA-TGAAATCATTAA
1 TACTGAAATCATTAA
*
7903 TACTTAAATCATTAA
1 TACTGAAATCATTAA
7918 TA
1 TA
7920 ATTCGACTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
13 1 0.04
14 13 0.48
15 13 0.48
ACGTcount: A:0.47, C:0.11, G:0.04, T:0.38
Consensus pattern (15 bp):
TACTGAAATCATTAA
Found at i:7913 original size:15 final size:14
Alignment explanation
Indices: 7878--7919 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
7868 ACTTGATTAC
*
7878 TAAATCATTAGTAT
1 TAAATCATTAATAT
*
7892 GAAATCATTAATACT
1 TAAATCATTAATA-T
7907 TAAATCATTAATA
1 TAAATCATTAATA
7920 ATTCGACTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
14 11 0.46
15 13 0.54
ACGTcount: A:0.48, C:0.10, G:0.05, T:0.38
Consensus pattern (14 bp):
TAAATCATTAATAT
Found at i:8051 original size:21 final size:20
Alignment explanation
Indices: 8027--8110 Score: 64
Period size: 20 Copynumber: 4.2 Consensus size: 20
8017 TAATTATTAC
8027 TTAATCATTAAT-ATCAAATCA
1 TTAAT-ATTAATAAT-AAATCA
8048 TTAAATATTAATAATAAATCA
1 TT-AATATTAATAATAAATCA
* * * * *
8069 TTATTAATAATAATTACTAA
1 TTAATATTAATAATAAATCA
* *
8089 TCATTATTAATAAT-AATCA
1 TTAATATTAATAATAAATCA
8108 TTA
1 TTA
8111 TTAAATGTCA
Statistics
Matches: 51, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
19 5 0.10
20 25 0.49
21 16 0.31
22 5 0.10
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (20 bp):
TTAATATTAATAATAAATCA
Found at i:8082 original size:23 final size:23
Alignment explanation
Indices: 8042--8105 Score: 80
Period size: 23 Copynumber: 2.9 Consensus size: 23
8032 CATTAATATC
*
8042 AAATCATTA--AATATTAATAAT
1 AAATCATTATTAATAATAATAAT
*
8063 AAATCATTATTAATAATAATTACT
1 AAATCATTATTAATAATAA-TAAT
8087 -AATCATTATTAATAATAAT
1 AAATCATTATTAATAATAAT
8106 CATTATTAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
21 9 0.24
22 1 0.03
23 25 0.66
24 3 0.08
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (23 bp):
AAATCATTATTAATAATAATAAT
Found at i:8084 original size:13 final size:13
Alignment explanation
Indices: 8054--8110 Score: 60
Period size: 13 Copynumber: 4.3 Consensus size: 13
8044 ATCATTAAAT
8054 ATTAATAATAAATC
1 ATTAATAAT-AATC
* *
8068 ATTATTAATAATA
1 ATTAATAATAATC
* * *
8081 ATTACTAATCATT
1 ATTAATAATAATC
8094 ATTAATAATAATC
1 ATTAATAATAATC
8107 ATTA
1 ATTA
8111 TTAAATGTCA
Statistics
Matches: 35, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
13 27 0.77
14 8 0.23
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (13 bp):
ATTAATAATAATC
Found at i:8285 original size:14 final size:14
Alignment explanation
Indices: 8266--8292 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
8256 TACTAATCAT
8266 TATCAAATCATTAC
1 TATCAAATCATTAC
8280 TATCAAATCATTA
1 TATCAAATCATTA
8293 AATAAAATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.19, G:0.00, T:0.37
Consensus pattern (14 bp):
TATCAAATCATTAC
Found at i:8317 original size:59 final size:57
Alignment explanation
Indices: 8246--8381 Score: 209
Period size: 59 Copynumber: 2.4 Consensus size: 57
8236 CAATCATTAT
*
8246 ATTTCATGATTACTAATCATTATCAAATCATTACTATCAAATCATTAAATAAAATAATA
1 ATTTCATGATTACTAATCATTACCAAATCATTACTATCAAATCATTAAAT--AATAATA
*
8305 ATTTCATGATTACTAATCATTACCAAATCATTACTATCAAATCATTAAATTATAATA
1 ATTTCATGATTACTAATCATTACCAAATCATTACTATCAAATCATTAAATAATAATA
* * *
8362 ATTTTATTATTATTAATCAT
1 ATTTCATGATTACTAATCAT
8382 GACTAAATTA
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
57 23 0.32
59 49 0.68
ACGTcount: A:0.44, C:0.13, G:0.01, T:0.41
Consensus pattern (57 bp):
ATTTCATGATTACTAATCATTACCAAATCATTACTATCAAATCATTAAATAATAATA
Found at i:11377 original size:17 final size:15
Alignment explanation
Indices: 11340--11371 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
11330 CTAATATAAA
11340 TTAAACAAAATATTT
1 TTAAACAAAATATTT
*
11355 TTAAACACAATATTT
1 TTAAACAAAATATTT
11370 TT
1 TT
11372 TTAAACGGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (15 bp):
TTAAACAAAATATTT
Found at i:14663 original size:22 final size:23
Alignment explanation
Indices: 14616--14663 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
14606 CCCTAAAGAA
14616 GGGAATCAATTCCCATTCAAAGG
1 GGGAATCAATTCCCATTCAAAGG
** *
14639 GGGAATCGGTTCCCCTTC-AAGG
1 GGGAATCAATTCCCATTCAAAGG
14661 GGG
1 GGG
14664 TATTGATTCC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 7 0.32
23 15 0.68
ACGTcount: A:0.25, C:0.23, G:0.31, T:0.21
Consensus pattern (23 bp):
GGGAATCAATTCCCATTCAAAGG
Found at i:14673 original size:22 final size:23
Alignment explanation
Indices: 14616--14674 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 23
14606 CCCTAAAGAA
*
14616 GGGAATCAATTCCCATTCAAAGG
1 GGGAATCGATTCCCATTCAAAGG
* *
14639 GGGAATCGGTTCCCCTTC-AAGG
1 GGGAATCGATTCCCATTCAAAGG
* *
14661 GGGTATTGATTCCC
1 GGGAATCGATTCCC
14675 TCTGCCCTAT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
22 15 0.50
23 15 0.50
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (23 bp):
GGGAATCGATTCCCATTCAAAGG
Found at i:17920 original size:19 final size:20
Alignment explanation
Indices: 17906--17942 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
17896 TTAAAACTTT
17906 ATAAT-ATTAAAAAAAATGC
1 ATAATCATTAAAAAAAATGC
17925 ATAATCATTAAAAAAAAT
1 ATAATCATTAAAAAAAAT
17943 TAAGGTCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.65, C:0.05, G:0.03, T:0.27
Consensus pattern (20 bp):
ATAATCATTAAAAAAAATGC
Found at i:18756 original size:117 final size:117
Alignment explanation
Indices: 18536--18757 Score: 288
Period size: 117 Copynumber: 1.9 Consensus size: 117
18526 CTTTCAAATC
* *
18536 GAAATTTTCTTTTTCAATACTTTCAAATTTCATTTTTGAAAGCTCTAAATCCTTCTTCAAGATTT
1 GAAAATTTCTTTTTCAATACTTTCAAATTTCATTTTTGAAAGCTCTAAATCCTTCTTCAAAATTT
* * *
18601 CATTTTGATTTTCAAAATCCATTTTCGTTTCTAGAAGAAGTTTGTTTAATTT
66 CATTTTAATTTTCAAAATCCATTTTAGTTTCTAAAAGAAGTTTGTTTAATTT
* * * *
18653 GAAAATTTCTTTTTCAA-AGTTTTCAGATTTTATTTTTGAAAGCTCTAACTCCTT-TCTCAAAAT
1 GAAAATTTCTTTTTCAATA-CTTTCAAATTTCATTTTTGAAAGCTCTAAATCCTTCT-TCAAAAT
* * *
18716 TTCATTTTAATTTTCTAAGTCTATTTTAGCTTTC-AAAAGAAG
64 TTCATTTTAATTTTCAAAATCCATTTTAG-TTTCTAAAAGAAG
18758 ATCATTTTTA
Statistics
Matches: 90, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
116 2 0.02
117 84 0.93
118 4 0.04
ACGTcount: A:0.29, C:0.14, G:0.09, T:0.48
Consensus pattern (117 bp):
GAAAATTTCTTTTTCAATACTTTCAAATTTCATTTTTGAAAGCTCTAAATCCTTCTTCAAAATTT
CATTTTAATTTTCAAAATCCATTTTAGTTTCTAAAAGAAGTTTGTTTAATTT
Found at i:19998 original size:20 final size:20
Alignment explanation
Indices: 19973--20023 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
19963 TGGAGCGTGG
19973 GGGGAATCGGTACCCCTCAT
1 GGGGAATCGGTACCCCTCAT
19993 GGGGAATCGGTACCCCTCAT
1 GGGGAATCGGTACCCCTCAT
20013 GGGGAATCGGT
1 GGGGAATCGGT
20024 TCCCTAAGTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.20, C:0.25, G:0.35, T:0.20
Consensus pattern (20 bp):
GGGGAATCGGTACCCCTCAT
Found at i:20565 original size:21 final size:21
Alignment explanation
Indices: 20532--20580 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
20522 AATCTAATAT
20532 ATAACTTAAACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
* *
20553 ATAATTTATACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
20574 ATTAACT
1 A-TAACT
20581 AAATTTATGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (21 bp):
ATAACTTAAACTAACAAACTA
Found at i:20881 original size:25 final size:25
Alignment explanation
Indices: 20796--20873 Score: 108
Period size: 25 Copynumber: 3.2 Consensus size: 25
20786 GTTTTGCACG
* *
20796 GTTGAAGGCTGTAAATTTTTCAACC
1 GTTGAAGGCTGCAAAATTTTCAACC
*
20821 GTTGAAGGCTAC-AAATTTTC-A-C
1 GTTGAAGGCTGCAAAATTTTCAACC
20843 GTTGAAGGCTGCAAAATTTTCAACC
1 GTTGAAGGCTGCAAAATTTTCAACC
20868 GTTGAA
1 GTTGAA
20874 CGTTGCAATA
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
22 12 0.26
23 9 0.20
24 8 0.17
25 17 0.37
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.32
Consensus pattern (25 bp):
GTTGAAGGCTGCAAAATTTTCAACC
Found at i:21162 original size:29 final size:29
Alignment explanation
Indices: 21102--21173 Score: 99
Period size: 29 Copynumber: 2.5 Consensus size: 29
21092 GCGACGTCGT
*
21102 GCATGGCGACCTACAAGGTCGCCCAGAGG
1 GCATGGCGACCTACAAGGTCGCCCAGAAG
* * *
21131 GCATGACGACCTACAAGGTCGTCCGGAAG
1 GCATGGCGACCTACAAGGTCGCCCAGAAG
*
21160 GCATGGTGACCTAC
1 GCATGGCGACCTAC
21174 CCCTAGCTCG
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.25, C:0.29, G:0.32, T:0.14
Consensus pattern (29 bp):
GCATGGCGACCTACAAGGTCGCCCAGAAG
Found at i:21264 original size:29 final size:29
Alignment explanation
Indices: 21218--21278 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
21208 ATAACTCTCG
*** *
21218 TACAAGGTCGCTTGGAAGGCATGGCGACC
1 TACAAGGTCGCCCAGAAGGAATGGCGACC
21247 TACAAGGTCGCCCAGAAGGAATGGCGACC
1 TACAAGGTCGCCCAGAAGGAATGGCGACC
21276 TAC
1 TAC
21279 GGCCACACTG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.28, C:0.26, G:0.31, T:0.15
Consensus pattern (29 bp):
TACAAGGTCGCCCAGAAGGAATGGCGACC
Found at i:22667 original size:13 final size:14
Alignment explanation
Indices: 22649--22677 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
22639 TGTGAAAACA
22649 AAGTGGATA-AAAT
1 AAGTGGATAGAAAT
22662 AAGTGGATAGAAAT
1 AAGTGGATAGAAAT
22676 AA
1 AA
22678 TAAAGAGTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.55, C:0.00, G:0.24, T:0.21
Consensus pattern (14 bp):
AAGTGGATAGAAAT
Found at i:39199 original size:31 final size:31
Alignment explanation
Indices: 39164--39460 Score: 260
Period size: 31 Copynumber: 9.5 Consensus size: 31
39154 ATAGATTCCA
* *
39164 AAGAACCTAGGTAAACAGTCCATATGTCCCG
1 AAGAACATAGGTAAACTGTCCATATGTCCCG
* *
39195 AAGAACATAGGTAATTCTGTCCATATGTTCCG
1 AAGAACATAGGTAA-ACTGTCCATATGTCCCG
** *
39227 TTGAACATAGGTATACTGTCCATATGTCCCG
1 AAGAACATAGGTAAACTGTCCATATGTCCCG
* **
39258 AA-AGACATAGGTAATTCTGTCCATATGTTTCG
1 AAGA-ACATAGGTAA-ACTGTCCATATGTCCCG
* *
39290 TAGAACATAGGTATACTGTCCATATGTCCCG
1 AAGAACATAGGTAAACTGTCCATATGTCCCG
* * *
39321 AA-AGACATAAGTAATTCTGTCCATATGTTCCG
1 AAGA-ACATAGGTAA-ACTGTCCATATGTCCCG
* * *
39353 TAGAACATAGCTATACTGTCCATATGTCCCG
1 AAGAACATAGGTAAACTGTCCATATGTCCCG
* ** *
39384 AA-AGATATAGGTAATTTTGTCCATATGTTCCG
1 AAGA-ACATAGGTAA-ACTGTCCATATGTCCCG
* * * *
39416 TAGAACATAAGTATATTGTCCATATGTCCCG
1 AAGAACATAGGTAAACTGTCCATATGTCCCG
39447 AA-AGACATAGGTAA
1 AAGA-ACATAGGTAA
39461 TTCTCGACTC
Statistics
Matches: 208, Mismatches: 47, Indels: 22
0.75 0.17 0.08
Matches are distributed among these distances:
30 4 0.02
31 107 0.51
32 94 0.45
33 3 0.01
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (31 bp):
AAGAACATAGGTAAACTGTCCATATGTCCCG
Found at i:39251 original size:63 final size:63
Alignment explanation
Indices: 39165--39464 Score: 485
Period size: 63 Copynumber: 4.8 Consensus size: 63
39155 TAGATTCCAA
* * *
39165 AGAACCTAGGTAAACAGTCCATATGTCCCG-AAGAACATAGGTAATTCTGTCCATATGTTCCGT
1 AGAACATAGGTATACTGTCCATATGTCCCGAAAG-ACATAGGTAATTCTGTCCATATGTTCCGT
* *
39228 TGAACATAGGTATACTGTCCATATGTCCCGAAAGACATAGGTAATTCTGTCCATATGTTTCGT
1 AGAACATAGGTATACTGTCCATATGTCCCGAAAGACATAGGTAATTCTGTCCATATGTTCCGT
*
39291 AGAACATAGGTATACTGTCCATATGTCCCGAAAGACATAAGTAATTCTGTCCATATGTTCCGT
1 AGAACATAGGTATACTGTCCATATGTCCCGAAAGACATAGGTAATTCTGTCCATATGTTCCGT
* * *
39354 AGAACATAGCTATACTGTCCATATGTCCCGAAAGATATAGGTAATTTTGTCCATATGTTCCGT
1 AGAACATAGGTATACTGTCCATATGTCCCGAAAGACATAGGTAATTCTGTCCATATGTTCCGT
* *
39417 AGAACATAAGTATATTGTCCATATGTCCCGAAAGACATAGGTAATTCT
1 AGAACATAGGTATACTGTCCATATGTCCCGAAAGACATAGGTAATTCT
39465 CGACTCTTGG
Statistics
Matches: 219, Mismatches: 17, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
63 216 0.99
64 3 0.01
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.31
Consensus pattern (63 bp):
AGAACATAGGTATACTGTCCATATGTCCCGAAAGACATAGGTAATTCTGTCCATATGTTCCGT
Found at i:39843 original size:8 final size:8
Alignment explanation
Indices: 39830--39854 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
39820 AACTTCTTAT
39830 TTCTCATG
1 TTCTCATG
39838 TTCTCATG
1 TTCTCATG
39846 TTCTCATG
1 TTCTCATG
39854 T
1 T
39855 AAACACATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.24, G:0.12, T:0.52
Consensus pattern (8 bp):
TTCTCATG
Found at i:40509 original size:20 final size:20
Alignment explanation
Indices: 40484--40538 Score: 110
Period size: 20 Copynumber: 2.8 Consensus size: 20
40474 CGAAATATCC
40484 ATGCATCGATGCACCCCTTA
1 ATGCATCGATGCACCCCTTA
40504 ATGCATCGATGCACCCCTTA
1 ATGCATCGATGCACCCCTTA
40524 ATGCATCGATGCACC
1 ATGCATCGATGCACC
40539 TACCCAGAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.25, C:0.35, G:0.16, T:0.24
Consensus pattern (20 bp):
ATGCATCGATGCACCCCTTA
Found at i:42041 original size:36 final size:36
Alignment explanation
Indices: 41994--42070 Score: 102
Period size: 36 Copynumber: 2.1 Consensus size: 36
41984 TCGACTTGAA
41994 TTCTGTCCTGATA-CATTACCTGAATTCTGTTCTGAT
1 TTCTGTCCTGATATC-TTACCTGAATTCTGTTCTGAT
* * * *
42030 TTCTGTTCTGATATCTTATCTGAATTTTGTTTTGAT
1 TTCTGTCCTGATATCTTACCTGAATTCTGTTCTGAT
42066 TTCTG
1 TTCTG
42071 ATATCTCTGT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
36 35 0.97
37 1 0.03
ACGTcount: A:0.17, C:0.17, G:0.14, T:0.52
Consensus pattern (36 bp):
TTCTGTCCTGATATCTTACCTGAATTCTGTTCTGAT
Found at i:53889 original size:182 final size:182
Alignment explanation
Indices: 53574--54317 Score: 1062
Period size: 182 Copynumber: 4.1 Consensus size: 182
53564 GTCGATACAA
* * * *
53574 ATAAAATATGTATCGATCCATAACAATATAACAGGTAAAAAAATAACAAAACCGGTCTCAAAATG
1 ATAAAA-ATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAATCGGTCTCAAAATG
* * * *
53639 ACCAAACCGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATACATTAATATAAGCATCGACAC
65 ACAAAACCGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATACTTTATTATAAGTATCGACAC
* * *
53704 TTTTGGAATTTAAATGAGAAGCAGTAACAGCGCCTATAAAGTGTCGATACTTT
130 TTTTGGAATTTAAAAGACAAGCAGTAATAGCGCCTATAAAGTGTCGATACTTT
** * * *
53757 ATAAAAATGTATCGATCCATAACAATATAGTAGGTTAAAATATCATAAAATCGGT-TTATAAATG
1 ATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAATCGGTCTCA-AAATG
* *
53821 ACAAAACCGGTAAAGCGCTACCGGATATGTTGAAAGTGTTGATACTTTATTATAAGTATCGGCAC
65 ACAAAACCGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATACTTTATTATAAGTATCGACAC
** *
53886 TTTTGGAATTTAAAATG-CAAGCAGTAATAGCGTTTATAAAGTGTCGATCCTTT
130 TTTTGGAATTTAAAA-GACAAGCAGTAATAGCGCCTATAAAGTGTCGATACTTT
* *
53939 ATAAAAAATGTATCGATCCATAACAATATAACAGAT-AAAATATGATAAAATCGGTATCAAAATG
1 AT-AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAATCGGTCTCAAAATG
* * *
54003 ACAAAACCGGTAAAGAGCTACCGGATATGTTGAAAGTGTCGATACTTTATTACAAGTATCGATAC
65 ACAAAACCGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATACTTTATTATAAGTATCGACAC
* *
54068 TTTTGGAATTTAAAAGACAAGCAGTAATAGCGCCTATAAAGTATCAATACTTT
130 TTTTGGAATTTAAAAGACAAGCAGTAATAGCGCCTATAAAGTGTCGATACTTT
* **
54121 ATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGATAAAAAAGGTCTCAAAATGA
1 ATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAATCGGTCTCAAAATGA
* * * * *
54186 CAAAACCGGTAAAGCGCCATCGAATATGTTAAAAGTGTCGATACTTTACTATAAGTATCGACACT
66 CAAAACCGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATACTTTATTATAAGTATCGACACT
* * * * *
54251 TTTGGAATTTAAAAGAGAAGCAGTAATAGCGCATTTAAAGTGTTGATATTTT
131 TTTGGAATTTAAAAGACAAGCAGTAATAGCGCCTATAAAGTGTCGATACTTT
54303 ATAAAAATGTATCGA
1 ATAAAAATGTATCGA
54318 CACTTGGGTT
Statistics
Matches: 500, Mismatches: 55, Indels: 13
0.88 0.10 0.02
Matches are distributed among these distances:
181 34 0.07
182 427 0.85
183 39 0.08
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.28
Consensus pattern (182 bp):
ATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAATCGGTCTCAAAATGA
CAAAACCGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATACTTTATTATAAGTATCGACACT
TTTGGAATTTAAAAGACAAGCAGTAATAGCGCCTATAAAGTGTCGATACTTT
Found at i:56204 original size:22 final size:23
Alignment explanation
Indices: 56153--56208 Score: 71
Period size: 24 Copynumber: 2.5 Consensus size: 23
56143 GAAAGTTTTT
*
56153 ATTTT-TTATATAAAATGATAGT
1 ATTTTATTATATAAAATGATAGA
*
56175 ATAGTTATTATATAAAATGATA-A
1 AT-TTTATTATATAAAATGATAGA
56198 ATTTTATTATA
1 ATTTTATTATA
56209 AATACAGGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 10 0.34
23 4 0.14
24 15 0.52
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (23 bp):
ATTTTATTATATAAAATGATAGA
Found at i:56519 original size:15 final size:15
Alignment explanation
Indices: 56499--56528 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
56489 TTATAGAGAT
56499 GGATGACGGTCAGGG
1 GGATGACGGTCAGGG
*
56514 GGATGACGGTGAGGG
1 GGATGACGGTCAGGG
56529 AAAACAAAGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.10, G:0.57, T:0.13
Consensus pattern (15 bp):
GGATGACGGTCAGGG
Found at i:56905 original size:18 final size:18
Alignment explanation
Indices: 56882--56920 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
56872 GAAAAATAAT
56882 GAAGAAGAAAAGATGGAG
1 GAAGAAGAAAAGATGGAG
56900 GAAGAAGAAAAGATGGAG
1 GAAGAAGAAAAGATGGAG
56918 GAA
1 GAA
56921 ATGAGGAGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.38, T:0.05
Consensus pattern (18 bp):
GAAGAAGAAAAGATGGAG
Found at i:58472 original size:19 final size:19
Alignment explanation
Indices: 58448--58496 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
58438 AATGTAGGGT
58448 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
58467 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
58486 TAATTTTGTAT
1 TAATTTTGTAT
58497 GTGAATGTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:59407 original size:196 final size:197
Alignment explanation
Indices: 58945--59887 Score: 1228
Period size: 196 Copynumber: 4.8 Consensus size: 197
58935 TATGTATCGG
* *
58945 TACATTTATAAAAAGTGTCAATCCCAAAAACATCGAAACCTATAATTATAATGTAATAGGTAATT
1 TACATTTATAAAAAGTGTCGATCCCAAAAACATC-AAACCCATAATTATAATGTAATAGGTAATT
*
59010 TTTCAATGTAACCGGTATAAATAGATCGATTTTATGAGAGAATAGGTCTACATAATGTATCGACA
65 TTT-AATGTAACC-GTATAAATAGATCGGTTTTATGAGAGAATAGGTCTACATAATGTATCGACA
* * *
59075 CTTGTGGAATTTGTATCGATACTTTTTTTTCCAGAATGAATGCCCAAAAGGGGTGCACGCATAAA
128 CTTGTGGAATTTGTGTCGATAC-TTTTTGTCCAGAATGAATG-CCAAAAGGGGTGCACACATAAA
59140 GTGTCGA
191 GTGTCGA
*
59147 TAAATTTATAAAAAGTGTCGATCCCAAAAACA--AAACCCATAATTATAATGTAATAGGTAATTT
1 TACATTTATAAAAAGTGTCGATCCCAAAAACATCAAACCCATAATTATAATGTAATAGGTAATTT
*
59210 TTAATGTAACCG-ATAAATAGACCGGTTTTTATGAGAGAATA-GT-TACATAATGTATCGACACT
66 TTAATGTAACCGTATAAATAGATCGG-TTTTATGAGAGAATAGGTCTACATAATGTATCGACACT
*
59272 TGCGGAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGGGGTGCACACAT-AAGTG
130 TGTGGAATTTGTGTCGATACTTTTTGTCCAGAATGAATG-CCAAAAGGGGTGCACACATAAAGTG
59336 TCGA
194 TCGA
*
59340 TACATTTATAAAAAGTGTCAATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAATT
1 TACATTTATAAAAAGTGTCGATCCCAAAAACATC-AAACCCATAATTATAATGTAATAGGTAATT
* * * *
59405 TTTCAATGTAACCGATATAAATAAATCGGTTTTATGAGAGAATATGTATATATAATGTATCGACA
65 TTT-AATGTAACCG-TATAAATAGATCGGTTTTATGAGAGAATAGGTCTACATAATGTATCGACA
* *
59470 CTTGTGGAATTTGTGTCGATAC-TTTTGTCCAAAATGAATGCCAAAAGGGGTGCACGCATAAAGT
128 CTTGTGGAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAAAGGGGTGCACACATAAAGT
59534 GTCGA
193 GTCGA
* * *
59539 TACATTTATAAAAAGTGTCGATCCC-AAAACATATAAACACATAATTATATTGT-ATAGGTAATT
1 TACATTTATAAAAAGTGTCGATCCCAAAAACAT-CAAACCCATAATTATAATGTAATAGGTAATT
* * * * *
59602 TTGTAATGTAACCGGTATAAATATATTGG-TTTATGTGAGAATAAGTCAACATAATGTATCGACA
65 TT-TAATGTAACC-GTATAAATAGATCGGTTTTATGAGAGAATAGGTCTACATAATGTATCGACA
* * * * * * * * * *
59666 CTTTTGAAATTTGTGTCGATACTTTTTGTCCAGAATCAATGGCTAACGAGTTACACATATAAA-T
128 CTTGTGGAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAAAGGGGTGCACACATAAAGT
59730 GTCGA
193 GTCGA
* *
59735 TACATTTATAAAAAGTGTCGATCCCAAAAACATC-AACCGATAATTATAATGTAATAGGTAAATT
1 TACATTTATAAAAAGTGTCGATCCCAAAAACATCAAACCCATAATTATAATGTAATAGGTAATTT
** * * * ** * * *
59799 ACAATATAACTGGTACAAATTTACCGGTTTTATGAGAAAATAGGTCTACATAATATATCGACACT
66 TTAATGTAAC-CGTATAAATAGATCGGTTTTATGAGAGAATAGGTCTACATAATGTATCGACACT
**
59864 T-TTAAATTTGTGTCGATATCTTTT
130 TGTGGAATTTGTGTCGATA-CTTTT
59888 AAATTTCGCG
Statistics
Matches: 663, Mismatches: 59, Indels: 44
0.87 0.08 0.06
Matches are distributed among these distances:
193 39 0.06
194 37 0.06
195 86 0.13
196 175 0.26
197 96 0.14
198 68 0.10
199 95 0.14
200 37 0.06
202 30 0.05
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (197 bp):
TACATTTATAAAAAGTGTCGATCCCAAAAACATCAAACCCATAATTATAATGTAATAGGTAATTT
TTAATGTAACCGTATAAATAGATCGGTTTTATGAGAGAATAGGTCTACATAATGTATCGACACTT
GTGGAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAAAGGGGTGCACACATAAAGTGTC
GA
Found at i:59735 original size:395 final size:392
Alignment explanation
Indices: 58945--59887 Score: 1326
Period size: 395 Copynumber: 2.4 Consensus size: 392
58935 TATGTATCGG
*
58945 TACATTTATAAAAAGTGTCAATCCCAAAAACATCGAAACCTATAATTATAATGTAATAGGTAATT
1 TACATTTATAAAAAGTGTCAATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAATT
* *
59010 TTTCAATGTAACCGGTATAAATAGATCGATTTTATGAGAGAATAGGTCTACATAATGTATCGACA
66 TTTCAATGTAACCGGTATAAATAAATCGGTTTTATGAGAGAATAGGTCTACATAATGTATCGACA
* * *
59075 CTTGTGGAATTTGTATCGATACTTTTTTTTCCAGAATGAATGCCCAAAAGGGGTGCACGCATAAA
131 CTTGTGGAATTTGTGTCGATAC--TTTTGTCCAAAATGAATGCCCAAAAGGGGTGCACGCATAAA
*
59140 GTGTCGATAAATTTATAAAAAGTGTCGATCCCAAAAACAAAACCCATAATTATAATGTAATAGGT
194 GTGTCGATAAATTTATAAAAAGTGTCGATCCCAAAAACAAAACACATAATTATAATGTAATAGGT
*
59205 AATTTTTAATGTAACCGATAAATAGACCGGTTTTTATGAGAGAATAGTTACATAATGTATCGACA
259 AATTTTTAATGTAACCGATAAATAGACCGG-TTTTATGAGAGAATAGTAACATAATGTATCGACA
* * * * *
59270 CTTGCGGAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGGGGTGCACACATAAGT
323 CTTGCGAAATTTGTGTCGATACTTTTTGTCCAGAATCAATGCCCAAAAGAGGTACACACATAAAT
59335 GTCGA
388 GTCGA
59340 TACATTTATAAAAAGTGTCAATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAATT
1 TACATTTATAAAAAGTGTCAATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAATT
* * * *
59405 TTTCAATGTAACCGATATAAATAAATCGGTTTTATGAGAGAATATGTATATATAATGTATCGACA
66 TTTCAATGTAACCGGTATAAATAAATCGGTTTTATGAGAGAATAGGTCTACATAATGTATCGACA
59470 CTTGTGGAATTTGTGTCGATACTTTTGTCCAAAATGAATG-CCAAAAGGGGTGCACGCATAAAGT
131 CTTGTGGAATTTGTGTCGATACTTTTGTCCAAAATGAATGCCCAAAAGGGGTGCACGCATAAAGT
* * *
59534 GTCGATACATTTATAAAAAGTGTCGATCCCAAAACATATAAACACATAATTATATTGT-ATAGGT
196 GTCGATAAATTTATAAAAAGTGTCGATCCCAAAA-ACA-AAACACATAATTATAATGTAATAGGT
* ** *
59598 AATTTTGTAATGTAACCGGTATAAATATATTGG-TTTATGTGAGAATAAGTCAACATAATGTATC
259 AATTTT-TAATGTAACC-G-ATAAATAGACCGGTTTTATGAGAGAAT-AGT-AACATAATGTATC
** * * * * *
59662 GACACTTTTGAAATTTGTGTCGATACTTTTTGTCCAGAATCAATG-GCTAACGAGTTACACATAT
319 GACACTTGCGAAATTTGTGTCGATACTTTTTGTCCAGAATCAATGCCCAAAAGAGGTACACACAT
59726 AAATGTCGA
384 AAATGTCGA
* * *
59735 TACATTTATAAAAAGTGTCGATCCCAAAAACATC--AACCGATAATTATAATGTAATAGGTAA-A
1 TACATTTATAAAAAGTGTCAATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAATT
* * * * ** * * *
59797 TTACAATATAACTGGTACAAATTTACCGGTTTTATGAGAAAATAGGTCTACATAATATATCGACA
66 TTTCAATGTAACCGGTATAAATAAATCGGTTTTATGAGAGAATAGGTCTACATAATGTATCGACA
**
59862 CTT-TTAAATTTGTGTCGATATCTTTT
131 CTTGTGGAATTTGTGTCGATA-CTTTT
59888 AAATTTCGCG
Statistics
Matches: 491, Mismatches: 49, Indels: 19
0.88 0.09 0.03
Matches are distributed among these distances:
391 15 0.03
392 117 0.24
393 56 0.11
394 39 0.08
395 201 0.41
396 63 0.13
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (392 bp):
TACATTTATAAAAAGTGTCAATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAATT
TTTCAATGTAACCGGTATAAATAAATCGGTTTTATGAGAGAATAGGTCTACATAATGTATCGACA
CTTGTGGAATTTGTGTCGATACTTTTGTCCAAAATGAATGCCCAAAAGGGGTGCACGCATAAAGT
GTCGATAAATTTATAAAAAGTGTCGATCCCAAAAACAAAACACATAATTATAATGTAATAGGTAA
TTTTTAATGTAACCGATAAATAGACCGGTTTTATGAGAGAATAGTAACATAATGTATCGACACTT
GCGAAATTTGTGTCGATACTTTTTGTCCAGAATCAATGCCCAAAAGAGGTACACACATAAATGTC
GA
Found at i:60195 original size:15 final size:16
Alignment explanation
Indices: 60170--60200 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
60160 TGGTCTTTCT
60170 CAAAGCTCTTCTCAAC
1 CAAAGCTCTTCTCAAC
60186 CAAA-CTCTTCTCAAC
1 CAAAGCTCTTCTCAAC
60201 GACAACCTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.32, C:0.39, G:0.03, T:0.26
Consensus pattern (16 bp):
CAAAGCTCTTCTCAAC
Found at i:62793 original size:12 final size:12
Alignment explanation
Indices: 62772--62805 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
62762 CCAAAGGCTG
62772 AATTTAAATTTC
1 AATTTAAATTTC
*
62784 AATTTGAATTTC
1 AATTTAAATTTC
*
62796 AATATAAATT
1 AATTTAAATT
62806 CGGCTCCACC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (12 bp):
AATTTAAATTTC
Found at i:64463 original size:199 final size:200
Alignment explanation
Indices: 64119--65232 Score: 1304
Period size: 199 Copynumber: 5.6 Consensus size: 200
64109 TAAAAATTTG
* ** ** * * * *
64119 AGATAATTATAACGTAATAGGTAAATTTCCAATGTAACATGTAGATATATACC-GATTTATTAGA
1 AGATAATTATAATGTAATAGGTAAATTAACAATGTAACCGGTACAAATATACCGGTTTTATGAGA
* * * * *
64183 AAACATGTCAACACAATGTATCGACACTTTTTAAA-TTGTGTCGATTCTTTTTGTCCATAATGAA
66 AAATAGGTCAACATAATGTATCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAA
** * *
64247 TGCCCAACCGAGGTGCACGAATAAAGTGTCGATACATTTATTAAAAGTATCGATCCCACAAACAT
131 TGCCCAAAAG-GGTGCACGCATAAAGTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACAT
*
64312 CGAATT
195 CGAACT
* **
64318 AGATAATTATAATGTAATAGGTAAATTAACAATGTAACCGGTACAAATTTACCAATTTTATGAGA
1 AGATAATTATAATGTAATAGGTAAATTAACAATGTAACCGGTACAAATATACCGGTTTTATGAGA
* * * * * *
64383 AAATAGATCTACATAATTTATCGACACTTTTTAAATTTCTGTAGATA-TTTTTGTCCATAATGAA
66 AAATAGGTCAACATAATGTATCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAA
* * * *
64447 GGCCCAAAAGGGTGCACCCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATT
131 TGCCCAAAAGGGTGCACGCATAAAGTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATC
64512 GAAAC-
196 G-AACT
* ** * ** * *
64517 CGATAATTATAATGTAATAGGTAAATTTCCAATGTAACCGGTATAAATATACTAGTTTAATTAGA
1 AGATAATTATAATGTAATAGGTAAATTAACAATGTAACCGGTACAAATATACCGGTTTTATGAGA
* * *
64582 AAAGCA-GTCAACATAATGTATCGACACTTTTTGAATTTGTGTCGATACTTTTTGTTCAGAATGA
66 AAA-TAGGTCAACATAATGTATCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGA
* *
64646 ATG-CCAAACTA-GGTGCACGCATAAAGTGTCGATACA-TT-TTAAATTGTATCAATCCCAAAAA
130 ATGCCCAAA--AGGGTGCACGCATAAAGTGTCGATACATTTATTAAA-AGTATCGATCCCAAAAA
64707 CATCGAAACT
192 CATCG-AACT
* * *
64717 -GATAATTACAATGTAATAGGTAAATTAACAATATAACCGGTACAAATTTACCGGTTTTATGAGA
1 AGATAATTATAATGTAATAGGTAAATTAACAATGTAACCGGTACAAATATACCGGTTTTATGAGA
* *
64781 AAATAGGTCTACATAATGTATCGACACTTTTTAAATTTATGTCGATACTTTTTGTCCAGAATGAA
66 AAATAGGTCAACATAATGTATCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAA
* * *
64846 TGCCCAAAAGGGTGCACCCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAATATC
131 TGCCCAAAAGGGTGCACGCATAAAGTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATC
* *
64911 AAAACC
196 -GAACT
** * * * *
64917 A-ATAATTATAATGTAATAGGTAAATTTCCAATGTAACTGGTATAAATATACCGGTTTAATTAGA
1 AGATAATTATAATGTAATAGGTAAATTAACAATGTAACCGGTACAAATATACCGGTTTTATGAGA
** * *
64981 AAAGCGGTCAACATAATGTATCGACACTTTTTGAATTTGTGTCGATACTTTTTGTCCAAAATGAA
66 AAATAGGTCAACATAATGTATCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAA
* * * * *
65046 TG-CCAAACTGGGTGCACGCATAAAGTGTCAATATA-TT-TTAAATTGTATCGATCCTAAAAACA
131 TGCCCAAA-AGGGTGCACGCATAAAGTGTCGATACATTTATTAAA-AGTATCGATCCCAAAAACA
*
65108 TTGAAACT
194 TCG-AACT
* * * ** * *
65116 -GATAATTACAATGTAATAGATAAATTAACAATATAACATGTACAAATTTACTGGTTTTATGAGA
1 AGATAATTATAATGTAATAGGTAAATTAACAATGTAACCGGTACAAATATACCGGTTTTATGAGA
* *
65180 AAATAGGTCTACATAATGTATCGACACTTTTTAAATTTCTGTCGATACTTTTT
66 AAATAGGTCAACATAATGTATCGACACTTTTTAAATTTGTGTCGATACTTTTT
65233 TTAAATTACG
Statistics
Matches: 777, Mismatches: 118, Indels: 40
0.83 0.13 0.04
Matches are distributed among these distances:
198 10 0.01
199 484 0.62
200 270 0.35
201 13 0.02
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.32
Consensus pattern (200 bp):
AGATAATTATAATGTAATAGGTAAATTAACAATGTAACCGGTACAAATATACCGGTTTTATGAGA
AAATAGGTCAACATAATGTATCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAA
TGCCCAAAAGGGTGCACGCATAAAGTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATC
GAACT
Found at i:64924 original size:399 final size:398
Alignment explanation
Indices: 64121--65232 Score: 1705
Period size: 399 Copynumber: 2.8 Consensus size: 398
64111 AAAATTTGAG
* * * * *
64121 ATAATTATAACGTAATAGGTAAATTTCCAATGTAACATGTAGATATATACCGATTT-ATTAGAAA
1 ATAATTATAATGTAATAGGTAAATTTCCAATGTAACAGGTATAAATATACAG-TTTAATTAGAAA
* * * *
64185 A-CATGTCAACACAATGTATCGACACTTTTT-AAATTGTGTCGATTCTTTTTGTCCATAATGAAT
65 AGCA-GTCAACATAATGTATCGACACTTTTTGAATTTGTGTCGATACTTTTTGTCCAAAATGAAT
* * * * *
64248 GCCCAACCGAGGTGCACGAATAAAGTGTCGATACATTTATTAAA-AGTATCGATCCCACAAACAT
129 G-CCAAACTAGGTGCACGCATAAAGTGTCGATACA-TT-TTAAATTGTATCGATCCCAAAAACAT
* * * **
64312 CG-AATTAGATAATTATAATGTAATAGGTAAATTAACAATGTAACCGGTACAAATTTACCAATTT
191 CGAAACT-GATAATTACAATGTAATAGGTAAATTAACAATATAACCGGTACAAATTTACCGGTTT
* * *
64376 TATGAGAAAATAGATCTACATAATTTATCGACACTTTTTAAATTTCTGTAGATA-TTTTTGTCCA
255 TATGAGAAAATAGGTCTACATAATGTATCGACACTTTTTAAATTTCTGTCGATACTTTTTGTCCA
*
64440 TAATGAAGGCCCAAAAGGGTGCACCCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAA
320 GAATGAAGGCCCAAAAGGGTGCACCCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAA
** *
64505 AAACATTGAAACCG
385 AAACATCAAAACCA
*
64519 ATAATTATAATGTAATAGGTAAATTTCCAATGTAACCGGTATAAATATACTAGTTTAATTAGAAA
1 ATAATTATAATGTAATAGGTAAATTTCCAATGTAACAGGTATAAATATAC-AGTTTAATTAGAAA
* *
64584 AGCAGTCAACATAATGTATCGACACTTTTTGAATTTGTGTCGATACTTTTTGTTCAGAATGAATG
65 AGCAGTCAACATAATGTATCGACACTTTTTGAATTTGTGTCGATACTTTTTGTCCAAAATGAATG
*
64649 CCAAACTAGGTGCACGCATAAAGTGTCGATACATTTTAAATTGTATCAATCCCAAAAACATCGAA
130 CCAAACTAGGTGCACGCATAAAGTGTCGATACATTTTAAATTGTATCGATCCCAAAAACATCGAA
64714 ACTGATAATTACAATGTAATAGGTAAATTAACAATATAACCGGTACAAATTTACCGGTTTTATGA
195 ACTGATAATTACAATGTAATAGGTAAATTAACAATATAACCGGTACAAATTTACCGGTTTTATGA
*
64779 GAAAATAGGTCTACATAATGTATCGACACTTTTTAAATTTATGTCGATACTTTTTGTCCAGAATG
260 GAAAATAGGTCTACATAATGTATCGACACTTTTTAAATTTCTGTCGATACTTTTTGTCCAGAATG
* *
64844 AATGCCCAAAAGGGTGCACCCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAATA
325 AAGGCCCAAAAGGGTGCACCCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACA
64909 TCAAAACCA
390 TCAAAACCA
* *
64918 ATAATTATAATGTAATAGGTAAATTTCCAATGTAACTGGTATAAATATACCGGTTTAATTAGAAA
1 ATAATTATAATGTAATAGGTAAATTTCCAATGTAACAGGTATAAATATA-CAGTTTAATTAGAAA
*
64983 AGCGGTCAACATAATGTATCGACACTTTTTGAATTTGTGTCGATACTTTTTGTCCAAAATGAATG
65 AGCAGTCAACATAATGTATCGACACTTTTTGAATTTGTGTCGATACTTTTTGTCCAAAATGAATG
* * * * *
65048 CCAAACTGGGTGCACGCATAAAGTGTCAATATATTTTAAATTGTATCGATCCTAAAAACATTGAA
130 CCAAACTAGGTGCACGCATAAAGTGTCGATACATTTTAAATTGTATCGATCCCAAAAACATCGAA
* ** *
65113 ACTGATAATTACAATGTAATAGATAAATTAACAATATAACATGTACAAATTTACTGGTTTTATGA
195 ACTGATAATTACAATGTAATAGGTAAATTAACAATATAACCGGTACAAATTTACCGGTTTTATGA
65178 GAAAATAGGTCTACATAATGTATCGACACTTTTTAAATTTCTGTCGATACTTTTT
260 GAAAATAGGTCTACATAATGTATCGACACTTTTTAAATTTCTGTCGATACTTTTT
65233 TTAAATTACG
Statistics
Matches: 658, Mismatches: 48, Indels: 15
0.91 0.07 0.02
Matches are distributed among these distances:
397 5 0.01
398 172 0.26
399 448 0.68
400 33 0.05
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.33
Consensus pattern (398 bp):
ATAATTATAATGTAATAGGTAAATTTCCAATGTAACAGGTATAAATATACAGTTTAATTAGAAAA
GCAGTCAACATAATGTATCGACACTTTTTGAATTTGTGTCGATACTTTTTGTCCAAAATGAATGC
CAAACTAGGTGCACGCATAAAGTGTCGATACATTTTAAATTGTATCGATCCCAAAAACATCGAAA
CTGATAATTACAATGTAATAGGTAAATTAACAATATAACCGGTACAAATTTACCGGTTTTATGAG
AAAATAGGTCTACATAATGTATCGACACTTTTTAAATTTCTGTCGATACTTTTTGTCCAGAATGA
AGGCCCAAAAGGGTGCACCCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACAT
CAAAACCA
Found at i:69599 original size:35 final size:35
Alignment explanation
Indices: 69560--69646 Score: 104
Period size: 36 Copynumber: 2.5 Consensus size: 35
69550 TTGTTAAAAG
*
69560 TTTCAAAGTTTGGTAA-CCAACTTTGGAAAATGTTT
1 TTTCAAAGTTTGGTAATCCAACTTTGAAAAATG-TT
****
69595 TTTCAAAGTTTGGTAAATGTTTCTTTGAAAAATGTT
1 TTTCAAAGTTTGGT-AATCCAACTTTGAAAAATGTT
69631 TTTCAAAGTTTGGTAA
1 TTTCAAAGTTTGGTAA
69647 AATTTTGGTA
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
35 16 0.36
36 18 0.40
37 11 0.24
ACGTcount: A:0.31, C:0.08, G:0.17, T:0.44
Consensus pattern (35 bp):
TTTCAAAGTTTGGTAATCCAACTTTGAAAAATGTT
Found at i:74187 original size:35 final size:35
Alignment explanation
Indices: 74141--74227 Score: 104
Period size: 36 Copynumber: 2.5 Consensus size: 35
74131 TTGTTAAAAG
*
74141 TTTCAAAGTTTGGTAA-CCAACTTTGGAAAATGTTT
1 TTTCAAAGTTTGGTAATCCAACTTTGAAAAATG-TT
****
74176 TTTCAAAGTTTGGTAAATGTTTCTTTGAAAAATGTT
1 TTTCAAAGTTTGGT-AATCCAACTTTGAAAAATGTT
74212 TTTCAAAGTTTGGTAA
1 TTTCAAAGTTTGGTAA
74228 AATTTTGGTA
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
35 16 0.36
36 18 0.40
37 11 0.24
ACGTcount: A:0.31, C:0.08, G:0.17, T:0.44
Consensus pattern (35 bp):
TTTCAAAGTTTGGTAATCCAACTTTGAAAAATGTT
Found at i:88031 original size:144 final size:144
Alignment explanation
Indices: 87771--88064 Score: 464
Period size: 144 Copynumber: 2.0 Consensus size: 144
87761 CCATTCCATA
* * * * *
87771 ACCTCCCCCCCGACCTCCTTGCTGGGACTGTGGGGCCCAACCTCTTCCCCCTGGGTAACCTCCAC
1 ACCTCCCCCACGACCACCTTGCTGGGACTGTGGAGCCCAACCTCTTCCCCCCGGATAACCTCCAC
*
87836 CTCCACCTTGTCCTTGTTGTTGAGGACGTTGGGGACCATGACCACTGCCACCACTAGTGTCATGG
66 CTCCACCTTGTCCTTGTTGTTGAGGACGTTGGGGACCATGACCACTGCCACCACCAGTGTCATGG
*
87901 GACTGAGAGCTCTC
131 GACTGAGAGCCCTC
* * *
87915 ACCTCCCCCACGACCACCTTGTTGGGACTGTGGAGCCCAGCCTCTTCCCCCCGTATAACCTCCAC
1 ACCTCCCCCACGACCACCTTGCTGGGACTGTGGAGCCCAACCTCTTCCCCCCGGATAACCTCCAC
87980 GC-CCACCTTGTCCTTGTTGTTGAGGACGTTGGGGACCATGACCACTGCCACCACCAGTGTCATG
66 -CTCCACCTTGTCCTTGTTGTTGAGGACGTTGGGGACCATGACCACTGCCACCACCAGTGTCATG
* *
88044 GGAGTGAGATCCCTC
130 GGACTGAGAGCCCTC
88059 ACCTCC
1 ACCTCC
88065 GCCAGAGGGA
Statistics
Matches: 137, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
144 136 0.99
145 1 0.01
ACGTcount: A:0.16, C:0.38, G:0.23, T:0.23
Consensus pattern (144 bp):
ACCTCCCCCACGACCACCTTGCTGGGACTGTGGAGCCCAACCTCTTCCCCCCGGATAACCTCCAC
CTCCACCTTGTCCTTGTTGTTGAGGACGTTGGGGACCATGACCACTGCCACCACCAGTGTCATGG
GACTGAGAGCCCTC
Found at i:89362 original size:20 final size:19
Alignment explanation
Indices: 89316--89363 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
89306 CACTAATTTT
89316 AATTATATTTTAAAATTAA
1 AATTATATTTTAAAATTAA
* *
89335 AATAATATTTT-TAATTCAA
1 AATTATATTTTAAAATT-AA
89354 ATATTATATT
1 A-ATTATATT
89364 AATAAAGCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
18 4 0.17
19 13 0.54
20 7 0.29
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (19 bp):
AATTATATTTTAAAATTAA
Found at i:90942 original size:17 final size:17
Alignment explanation
Indices: 90922--90960 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
90912 AAATTCCATA
90922 ATACAAAATAGGTATCG
1 ATACAAAATAGGTATCG
* *
90939 ATACCCAAATGGGTATCG
1 ATA-CAAAATAGGTATCG
90957 ATAC
1 ATAC
90961 TACTTCACAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.23
Consensus pattern (17 bp):
ATACAAAATAGGTATCG
Found at i:91067 original size:21 final size:22
Alignment explanation
Indices: 91030--91070 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
91020 TTAAAAATAA
*
91030 TAAAGGAAGTATTGATACTCAT
1 TAAAGGAAGTATCGATACTCAT
91052 TAAAGG-AGTATCGATACTC
1 TAAAGGAAGTATCGATACTC
91071 TTTGTCCTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.39, C:0.12, G:0.20, T:0.29
Consensus pattern (22 bp):
TAAAGGAAGTATCGATACTCAT
Found at i:96125 original size:64 final size:64
Alignment explanation
Indices: 96041--96186 Score: 188
Period size: 64 Copynumber: 2.3 Consensus size: 64
96031 CATTCATAAG
* * *
96041 TGCATCGATGCATTCC-TTTAAAAGAAGAACATCGAATGCCTTTGATGCATCGATGCA-TAGCTA
1 TGCATCGATGCA-TCCTTTTAAAAGAAGAACATCGAATGCATTTGATGCACCGATGCACAAG-TA
96104 A
64 A
* * * *
96105 TGCATCGATGCATCCTTTTAAAATAATAACATCGAATGCATTTTATGCACCGATGCACAAGTAG
1 TGCATCGATGCATCCTTTTAAAAGAAGAACATCGAATGCATTTGATGCACCGATGCACAAGTAA
96169 TGCATCGATGCATACCTT
1 TGCATCGATGCAT-CCTT
96187 CATTGAAAGA
Statistics
Matches: 72, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
63 3 0.04
64 63 0.88
65 6 0.08
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.29
Consensus pattern (64 bp):
TGCATCGATGCATCCTTTTAAAAGAAGAACATCGAATGCATTTGATGCACCGATGCACAAGTAA
Found at i:100287 original size:64 final size:62
Alignment explanation
Indices: 100203--100346 Score: 175
Period size: 64 Copynumber: 2.3 Consensus size: 62
100193 CATTCATAAG
* * *
100203 TGCATCGATGCATTCC-TTTAAAAGAAGAACATCGAATGCCTTTGATGCATCGATGCA-TAGCTA
1 TGCATCGATGCA-TCCTTTTAAAAGAAGAACATCGAATGCATTT--TGCACCGATGCACAAG-TA
100266 A
62 A
* * *
100267 TGCATCGATGCATCCTTTTAAAATAATAACATCGAATGCATTTTGCACCGATGCACAAGTAG
1 TGCATCGATGCATCCTTTTAAAAGAAGAACATCGAATGCATTTTGCACCGATGCACAAGTAA
100329 TGCATCGATGCATACCTT
1 TGCATCGATGCAT-CCTT
100347 CATTGAAAGA
Statistics
Matches: 71, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
62 26 0.37
63 9 0.13
64 36 0.51
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (62 bp):
TGCATCGATGCATCCTTTTAAAAGAAGAACATCGAATGCATTTTGCACCGATGCACAAGTAA
Found at i:101080 original size:30 final size:30
Alignment explanation
Indices: 101012--101081 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
101002 TGTTGAAAGG
* *
101012 AACATATGGATAGTTGCCGAGGATCTTTAT
1 AACATCTGGATAGTTACCGAGGATCTTTAT
* * * * *
101042 GACCTCTGGATAGTTACCGGGGTTCTTTGT
1 AACATCTGGATAGTTACCGAGGATCTTTAT
101072 AACATCTGGA
1 AACATCTGGA
101082 CAGGTCCTTC
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (30 bp):
AACATCTGGATAGTTACCGAGGATCTTTAT
Found at i:103219 original size:2 final size:2
Alignment explanation
Indices: 103214--103268 Score: 80
Period size: 2 Copynumber: 29.0 Consensus size: 2
103204 TATAAGTTGT
103214 TA TA TA -A T- 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
*
103254 TA TA TG TA TA T- TA TA
1 TA TA TA TA TA TA TA TA
103269 ATTTAAACGG
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
1 3 0.06
2 45 0.94
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:103481 original size:18 final size:18
Alignment explanation
Indices: 103458--103514 Score: 96
Period size: 18 Copynumber: 3.2 Consensus size: 18
103448 TAATAGATTT
103458 CTCTTTCATTTTCGCCAA
1 CTCTTTCATTTTCGCCAA
* *
103476 CTCTTTCATTTTCTCTAA
1 CTCTTTCATTTTCGCCAA
103494 CTCTTTCATTTTCGCCAA
1 CTCTTTCATTTTCGCCAA
103512 CTC
1 CTC
103515 CGACTTTTGT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.16, C:0.33, G:0.04, T:0.47
Consensus pattern (18 bp):
CTCTTTCATTTTCGCCAA
Found at i:105260 original size:115 final size:114
Alignment explanation
Indices: 105057--105280 Score: 349
Period size: 115 Copynumber: 2.0 Consensus size: 114
105047 CTCTCTAAAT
* *
105057 AAATACAGGTCTATGCTAATCATATCTTTTTGTCACTGAGGTGTTCTCTCTTCTCGAATGAGCAA
1 AAATACAGGTCTACGCTAATCATATATTTTTGTCACTGAGGTGTTCTCTCTTCTCGAATGAGCAA
* * *
105122 ATTTTTGCCTTAGAATTCCTATTTATTTCCCTTTACACGCAAGGATGAGC
66 ATTCTTGCCTCAAAATTCCTATTTATTT-CCTTTACACGCAAGGATGAGC
* * * *
105172 AAATACAGGTCTACGGTAATCATATATTTTTGTCATTGATGTGTTCTCTCTTCTCGGATGAGCAA
1 AAATACAGGTCTACGCTAATCATATATTTTTGTCACTGAGGTGTTCTCTCTTCTCGAATGAGCAA
*
105237 ATTCTTGCCTCAAAATTCTTATTTATTTCCTTTACACGCAAGGA
66 ATTCTTGCCTCAAAATTCCTATTTATTTCCTTTACACGCAAGGA
105281 GACAAGAACA
Statistics
Matches: 99, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
114 16 0.16
115 83 0.84
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.39
Consensus pattern (114 bp):
AAATACAGGTCTACGCTAATCATATATTTTTGTCACTGAGGTGTTCTCTCTTCTCGAATGAGCAA
ATTCTTGCCTCAAAATTCCTATTTATTTCCTTTACACGCAAGGATGAGC
Found at i:105537 original size:21 final size:21
Alignment explanation
Indices: 105513--105573 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
105503 AACTTTGAAA
105513 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
*
105534 AAAT-G-TTTC----TTT-GA
1 AAATGGTTTTCAAAGTTTGGT
105548 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
105569 AAATG
1 AAATG
105574 TTTCTTTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 4 0.13
16 4 0.13
19 4 0.13
20 4 0.13
21 10 0.32
ACGTcount: A:0.31, C:0.05, G:0.21, T:0.43
Consensus pattern (21 bp):
AAATGGTTTTCAAAGTTTGGT
Found at i:105551 original size:35 final size:35
Alignment explanation
Indices: 105512--105623 Score: 172
Period size: 35 Copynumber: 3.2 Consensus size: 35
105502 CAACTTTGAA
105512 AAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTG
1 AAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTG
105547 AAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTG
1 AAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTG
* * *
105582 AAAAATAGTTTTTCAAAGTTTGGTAGATGTTT-GTTG
1 -AAAAT-GGTTTTCAAAGTTTGGTAAATGTTTCTTTG
105618 AAAATG
1 AAAATG
105624 ATAATGGGAT
Statistics
Matches: 72, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
34 1 0.01
35 40 0.56
36 8 0.11
37 23 0.32
ACGTcount: A:0.31, C:0.04, G:0.21, T:0.44
Consensus pattern (35 bp):
AAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTG
Done.