Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004359.1 Hibiscus syriacus cultivar Beakdansim tig00009548_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: 81689
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Found at i:6605 original size:18 final size:18
Alignment explanation
Indices: 6582--6617 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
6572 GCCAGATAAT
6582 CAAACTACCTGATAGCTG
1 CAAACTACCTGATAGCTG
6600 CAAACTACCTGATAGCTG
1 CAAACTACCTGATAGCTG
6618 TTCGGGCCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.22
Consensus pattern (18 bp):
CAAACTACCTGATAGCTG
Found at i:7036 original size:16 final size:16
Alignment explanation
Indices: 7015--7045 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7005 GTTATGACCC
*
7015 AAGAGAATCGGAGAAG
1 AAGAGAATCGAAGAAG
7031 AAGAGAATCGAAGAA
1 AAGAGAATCGAAGAA
7046 ATAGAAATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.06, G:0.32, T:0.06
Consensus pattern (16 bp):
AAGAGAATCGAAGAAG
Found at i:14629 original size:8 final size:8
Alignment explanation
Indices: 14618--14653 Score: 63
Period size: 8 Copynumber: 4.5 Consensus size: 8
14608 AACGTCATCT
*
14618 CTTCTCCT
1 CTTCTCCC
14626 CTTCTCCC
1 CTTCTCCC
14634 CTTCTCCC
1 CTTCTCCC
14642 CTTCTCCC
1 CTTCTCCC
14650 CTTC
1 CTTC
14654 CGTCTAACAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.00, C:0.58, G:0.00, T:0.42
Consensus pattern (8 bp):
CTTCTCCC
Found at i:22036 original size:16 final size:16
Alignment explanation
Indices: 21990--22038 Score: 80
Period size: 16 Copynumber: 3.1 Consensus size: 16
21980 CCAACGTTTT
*
21990 TGTTCGTTTATGTTTG
1 TGTTCGTTTATGTTCG
*
22006 TGTTCATTTATGTTCG
1 TGTTCGTTTATGTTCG
22022 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
22038 T
1 T
22039 TTATTTATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.08, C:0.10, G:0.22, T:0.59
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:32856 original size:30 final size:30
Alignment explanation
Indices: 31310--32855 Score: 1446
Period size: 30 Copynumber: 51.2 Consensus size: 30
31300 GACGAGCCGA
* * *
31310 CTCCATACAAGTATGAATCGCCACCACCTC
1 CTCCATACAAGTATGAGTCACCACCACCAC
* * * *
31340 CTCCATACGTA-TATAAGTCGCCACCTCCAC
1 CTCCATAC-AAGTATGAGTCACCACCACCAC
* *
31370 CTCCATATAAGTACGAGTCACCACCACCACCAC
1 CTCCATACAAGTATGAGT---CACCACCACCAC
* * * *
31403 CTACATATAAGTATGAGTCTCCACCTCCAC
1 CTCCATACAAGTATGAGTCACCACCACCAC
* * * *
31433 CTCCATACAAATATGAGTCACCACTATCTC
1 CTCCATACAAGTATGAGTCACCACCACCAC
* *
31463 CTCCATACAAGTATGAGTCACCACTACCTC
1 CTCCATACAAGTATGAGTCACCACCACCAC
* * *
31493 CTCCTTACAAGTATGAGTCTCCACCTCCAC
1 CTCCATACAAGTATGAGTCACCACCACCAC
* * ** *
31523 CCCCATATAAGTACAAGTCACCACCACCTC
1 CTCCATACAAGTATGAGTCACCACCACCAC
* *
31553 CTCCGTACAAGTACGAGTCACCACCTCCACCTCCAC
1 CTCCATACAAGTATGAGTCACCA---CCA---CCAC
* * * *
31589 CTCCGTACAAGTACGAGTCTCCACCTCCAC
1 CTCCATACAAGTATGAGTCACCACCACCAC
* ** *
31619 CTCCATACAAATACAAGTCACCACCACCTC
1 CTCCATACAAGTATGAGTCACCACCACCAC
* *
31649 CTCCGTACAAGTATGAGTCACCACCTCCAC
1 CTCCATACAAGTATGAGTCACCACCACCAC
* * * *
31679 CTCCTTACAAATATGGGTCACCACCTCCAC
1 CTCCATACAAGTATGAGTCACCACCACCAC
*
31709 CTCCATACAAGTATGAGTCACCACCTCCAC
1 CTCCATACAAGTATGAGTCACCACCACCAC
* *
31739 CTCCGTACAAGTATGAGTCTCCACCACCAC
1 CTCCATACAAGTATGAGTCACCACCACCAC
* * *
31769 CTCCGTACAAGTATGAGTCTCCACCTCCAC
1 CTCCATACAAGTATGAGTCACCACCACCAC
* **
31799 CTCCGTACAAGTACAAGTCACCACCACCAC
1 CTCCATACAAGTATGAGTCACCACCACCAC
31829 CTCCATACAAGTATGAGTCACCACCACCAC
1 CTCCATACAAGTATGAGTCACCACCACCAC
* *
31859 CTCCGTACAAGTATGAGTCACCACCACCTC
1 CTCCATACAAGTATGAGTCACCACCACCAC
* ** *
31889 CTCCATACAAATACAAGTCACCACCACCGC
1 CTCCATACAAGTATGAGTCACCACCACCAC
** *
31919 CTCCATACAAGTACAAGTCTCCACCACCAC
1 CTCCATACAAGTATGAGTCACCACCACCAC
* *
31949 CTCCATACAAGTATGAGTCTCCACCTCCAC
1 CTCCATACAAGTATGAGTCACCACCACCAC
* * ** *
31979 ATCCATACAAATACAAGTCACCACCACCTC
1 CTCCATACAAGTATGAGTCACCACCACCAC
* * * *
32009 CTCCTTATAAGTACGAGTCACCACCACCGC
1 CTCCATACAAGTATGAGTCACCACCACCAC
* * * *
32039 CTCCATACAAGTACGAGTCTCCACCTCCAG
1 CTCCATACAAGTATGAGTCACCACCACCAC
**
32069 CTCCATACAAGTACAAGTCACCACCACCAC
1 CTCCATACAAGTATGAGTCACCACCACCAC
32099 CTCCATACAAGTATGAGTCACCACCACCAC
1 CTCCATACAAGTATGAGTCACCACCACCAC
* *
32129 CTCCGTACAAGTATGAGTCACCACCACCTC
1 CTCCATACAAGTATGAGTCACCACCACCAC
* *
32159 CTCCGTACAAGTATGAGTCACCACCACCTC
1 CTCCATACAAGTATGAGTCACCACCACCAC
**
32189 CTCCATACAAGTACAAGTCACCACCACCAC
1 CTCCATACAAGTATGAGTCACCACCACCAC
* **
32219 CTCCCTACAAGTACAAGTCACCACCACCAC
1 CTCCATACAAGTATGAGTCACCACCACCAC
*
32249 CTCCCTACAAGTATGAGTCACCACCACCAC
1 CTCCATACAAGTATGAGTCACCACCACCAC
* *
32279 CTCCGTACAAGTACGAGTCACCACCACCAC
1 CTCCATACAAGTATGAGTCACCACCACCAC
* *
32309 CTCCGTACAAGTACGAGTCACCACCACCAC
1 CTCCATACAAGTATGAGTCACCACCACCAC
* * * *
32339 CTCCGTACAAGTACGAGTCACCGCCTCCAC
1 CTCCATACAAGTATGAGTCACCACCACCAC
* *
32369 CTCCTTACAAGTACGAGTCACCACCACCAC
1 CTCCATACAAGTATGAGTCACCACCACCAC
* *
32399 CTCCCTACAAGTACGAGTCACCACCACCAC
1 CTCCATACAAGTATGAGTCACCACCACCAC
* *
32429 CTCCCTACAAGTACGAGTCACCACCACCAC
1 CTCCATACAAGTATGAGTCACCACCACCAC
* * * * * *
32459 CTCC-T-TATGTATACAAATCACCCCCACCTC
1 CTCCATACAAGTAT--GAGTCACCACCACCAC
* * *
32489 CTCCATACAAGTACGAATCACCACCTCCAC
1 CTCCATACAAGTATGAGTCACCACCACCAC
*** ** * **
32519 CTCCATATGTGTACAAGTCACCCCCACCTT
1 CTCCATACAAGTATGAGTCACCACCACCAC
* * * *
32549 CTCCATACAAATATGAATCACCACCTCCTC
1 CTCCATACAAGTATGAGTCACCACCACCAC
* * * *
32579 CTCCATACAAATACGAATCACCACCTCCAC
1 CTCCATACAAGTATGAGTCACCACCACCAC
* *** ** * *
32609 CCCCATATGTGTACAAGTCACCTCCACCTC
1 CTCCATACAAGTATGAGTCACCACCACCAC
* * *
32639 CTCCATACAAATATGAATCACCACCACCTC
1 CTCCATACAAGTATGAGTCACCACCACCAC
* * * *
32669 CTCCATACAAGTACGAATCACCACCTCCTC
1 CTCCATACAAGTATGAGTCACCACCACCAC
* * *
32699 CTCCATAC--GTATACAAGTCACCTCCACCTC
1 CTCCATACAAGTAT--GAGTCACCACCACCAC
* * * * **
32729 CACCATACAAATATGAATCACCACCTCCTT
1 CTCCATACAAGTATGAGTCACCACCACCAC
**** **
32759 CTCCATATGTCTACAAGTCACCACCACCAC
1 CTCCATACAAGTATGAGTCACCACCACCAC
** * *
32789 CTTTATACAAATATGAGTCACCACAACCAC
1 CTCCATACAAGTATGAGTCACCACCACCAC
* * * *
32819 CTCCATATAAGTATGAATCACCCCCTCCAC
1 CTCCATACAAGTATGAGTCACCACCACCAC
32849 CTCCATA
1 CTCCATA
32856 TGTGTACAAG
Statistics
Matches: 1271, Mismatches: 226, Indels: 38
0.83 0.15 0.02
Matches are distributed among these distances:
28 7 0.01
29 2 0.00
30 1197 0.94
31 2 0.00
32 7 0.01
33 31 0.02
36 25 0.02
ACGTcount: A:0.30, C:0.41, G:0.09, T:0.19
Consensus pattern (30 bp):
CTCCATACAAGTATGAGTCACCACCACCAC
Found at i:32916 original size:30 final size:30
Alignment explanation
Indices: 32439--32909 Score: 173
Period size: 30 Copynumber: 15.7 Consensus size: 30
32429 CTCCCTACAA
* * * *
32439 GTACGAGTCACCACCACCACCTCCTTATGT
1 GTACAAGTCACCCCCACCTCCTCCATATGT
* * ***
32469 ATACAAATCACCCCCACCTCCTCCATACAA
1 GTACAAGTCACCCCCACCTCCTCCATATGT
* * *
32499 GTACGAA-TCACCACCTCCACCTCCATATGT
1 GTAC-AAGTCACCCCCACCTCCTCCATATGT
* ***
32529 GTACAAGTCACCCCCACCTTCTCCATACAA
1 GTACAAGTCACCCCCACCTCCTCCATATGT
* * * * ***
32559 ATATGAA-TCACCACCTCCTCCTCCATACAA
1 GTA-CAAGTCACCCCCACCTCCTCCATATGT
* * * * *
32589 ATACGAA-TCACCACCTCCACCCCCATATGT
1 GTAC-AAGTCACCCCCACCTCCTCCATATGT
* ***
32619 GTACAAGTCACCTCCACCTCCTCCATACAA
1 GTACAAGTCACCCCCACCTCCTCCATATGT
* * * ***
32649 ATATGAA-TCACCACCACCTCCTCCATACAA
1 GTA-CAAGTCACCCCCACCTCCTCCATATGT
* * *
32679 GTACGAA-TCACCACCTCCTCCTCCATACGT
1 GTAC-AAGTCACCCCCACCTCCTCCATATGT
* * * ***
32709 ATACAAGTCACCTCCACCTCCACCATACAA
1 GTACAAGTCACCCCCACCTCCTCCATATGT
* * * * *
32739 ATATGAA-TCACCACCTCCTTCTCCATATGT
1 GTA-CAAGTCACCCCCACCTCCTCCATATGT
* * * ** ***
32769 CTACAAGTCACCACCACCACCTTTATACAA
1 GTACAAGTCACCCCCACCTCCTCCATATGT
* ** * * * **
32799 ATATGAGTCACCACAACCACCTCCATATAA
1 GTACAAGTCACCCCCACCTCCTCCATATGT
* * *
32829 GTATGAA-TCACCCCCTCCACCTCCATATGT
1 GTA-CAAGTCACCCCCACCTCCTCCATATGT
32859 GTACAAGTCACCCCCACCTCCTCCATATGT
1 GTACAAGTCACCCCCACCTCCTCCATATGT
* *
32889 TTACAAGTCACCTCCACCTCC
1 GTACAAGTCACCCCCACCTCC
32910 CACATATTAC
Statistics
Matches: 335, Mismatches: 94, Indels: 24
0.74 0.21 0.05
Matches are distributed among these distances:
29 10 0.03
30 316 0.94
31 9 0.03
ACGTcount: A:0.30, C:0.41, G:0.07, T:0.22
Consensus pattern (30 bp):
GTACAAGTCACCCCCACCTCCTCCATATGT
Found at i:32919 original size:27 final size:27
Alignment explanation
Indices: 32842--32923 Score: 78
Period size: 30 Copynumber: 2.9 Consensus size: 27
32832 TGAATCACCC
* *
32842 CCTCCACCT-CCATATGTGTACAAGTCA
1 CCTCCACCTCCCACATAT-TACAAGTCA
*
32869 CCCCCACCTCCTC-CATATGTTTACAAGTCA
1 CCTCCACCTCC-CACATA---TTACAAGTCA
32899 CCTCCACCTCCCACATATTACAAGT
1 CCTCCACCTCCCACATATTACAAGT
32924 AAACTTCGCA
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
27 16 0.36
28 3 0.07
29 2 0.04
30 23 0.51
31 1 0.02
ACGTcount: A:0.26, C:0.41, G:0.07, T:0.26
Consensus pattern (27 bp):
CCTCCACCTCCCACATATTACAAGTCA
Found at i:34883 original size:20 final size:20
Alignment explanation
Indices: 34860--34906 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
34850 CACGGAATGT
34860 AAGATTATCAGTGAG-AATAA
1 AAGATTATCAG-GAGAAATAA
* *
34880 AAGATTATTAGGGGAAATAA
1 AAGATTATCAGGAGAAATAA
34900 AAGATTA
1 AAGATTA
34907 CCAGAGAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 2 0.08
20 22 0.92
ACGTcount: A:0.51, C:0.02, G:0.21, T:0.26
Consensus pattern (20 bp):
AAGATTATCAGGAGAAATAA
Found at i:61988 original size:20 final size:21
Alignment explanation
Indices: 61938--61989 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
61928 ATTATGACTA
*
61938 TCGCAATGCGATTTTCCAATT
1 TCGCAATGCGATTTCCCAATT
**
61959 TCGCGTTGCGATTTCCCAA-T
1 TCGCAATGCGATTTCCCAATT
61979 TCGCAATGCGA
1 TCGCAATGCGA
61990 ATAAGTAAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 10 0.38
21 16 0.62
ACGTcount: A:0.21, C:0.27, G:0.19, T:0.33
Consensus pattern (21 bp):
TCGCAATGCGATTTCCCAATT
Found at i:62044 original size:21 final size:21
Alignment explanation
Indices: 62018--62066 Score: 98
Period size: 21 Copynumber: 2.3 Consensus size: 21
62008 GATACTGACT
62018 ATCGCAATGCGAATTTGGAAA
1 ATCGCAATGCGAATTTGGAAA
62039 ATCGCAATGCGAATTTGGAAA
1 ATCGCAATGCGAATTTGGAAA
62060 ATCGCAA
1 ATCGCAA
62067 CGCGGTACTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.22
Consensus pattern (21 bp):
ATCGCAATGCGAATTTGGAAA
Found at i:62084 original size:41 final size:41
Alignment explanation
Indices: 62057--62194 Score: 143
Period size: 41 Copynumber: 3.4 Consensus size: 41
62047 GCGAATTTGG
*
62057 AAAATCGCAACGCGGTACTGACTATCGCAACGCGATAATAC
1 AAAATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
* * * *
62098 AAAATCGCAACGCGATACTGACTTTCGCAACTCGATACT-T
1 AAAATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
** *** * *
62138 AATTTCGCAACTAAATACTGACTTTCGCAACGAGATAATAC
1 AAAATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
* *
62179 ATAATCGCAATGCGAT
1 AAAATCGCAACGCGAT
62195 TTTCAAAGCG
Statistics
Matches: 75, Mismatches: 21, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
40 31 0.41
41 44 0.59
ACGTcount: A:0.36, C:0.25, G:0.16, T:0.23
Consensus pattern (41 bp):
AAAATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
Found at i:62102 original size:62 final size:61
Alignment explanation
Indices: 61979--62112 Score: 153
Period size: 62 Copynumber: 2.2 Consensus size: 61
61969 ATTTCCCAAT
* * * * **
61979 TCGCAATGCGAATAAGTAAATCGCAATGCGATACTGACTATCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATAAGAAAATCGCAACGCGATACTGACTATCGCAACGCGAATATACAAAA
** *
62040 TCGCAATGCGAATTTGGAAAATCGCAACGCGGTACTGACTATCGCAACGCG-ATAATACAAAA
1 TCGCAATGCGAA-TAAGAAAATCGCAACGCGATACTGACTATCGCAACGCGAAT-ATACAAAA
*
62102 TCGCAACGCGA
1 TCGCAATGCGA
62113 TACTGACTTT
Statistics
Matches: 61, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
61 14 0.23
62 47 0.77
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.20
Consensus pattern (61 bp):
TCGCAATGCGAATAAGAAAATCGCAACGCGATACTGACTATCGCAACGCGAATATACAAAA
Found at i:62143 original size:20 final size:20
Alignment explanation
Indices: 62102--62168 Score: 89
Period size: 20 Copynumber: 3.4 Consensus size: 20
62092 TAATACAAAA
*
62102 TCGCAACGCGATACTGACTT
1 TCGCAACTCGATACTGACTT
* *
62122 TCGCAACTCGATACTTAATT
1 TCGCAACTCGATACTGACTT
**
62142 TCGCAACTAAATACTGACTT
1 TCGCAACTCGATACTGACTT
62162 TCGCAAC
1 TCGCAAC
62169 GAGATAATAC
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.30, C:0.28, G:0.13, T:0.28
Consensus pattern (20 bp):
TCGCAACTCGATACTGACTT
Found at i:62389 original size:22 final size:22
Alignment explanation
Indices: 62361--62404 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
62351 CACTCTCTCA
62361 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
62383 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
62405 TATCTCCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:62706 original size:20 final size:20
Alignment explanation
Indices: 62652--62725 Score: 78
Period size: 20 Copynumber: 3.8 Consensus size: 20
62642 AAATCGCAAC
* *
62652 GCGATTTT-ATTCTCTCGTT
1 GCGATTTTCATTTTCGCGTT
** **
62671 GCGATAGTCAAATTCGCGTT
1 GCGATTTTCATTTTCGCGTT
*
62691 GCGATTTTCATTTTCGTGTT
1 GCGATTTTCATTTTCGCGTT
62711 GCGATTTTCATTTTC
1 GCGATTTTCATTTTC
62726 AGAAACTATT
Statistics
Matches: 43, Mismatches: 11, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
19 6 0.14
20 37 0.86
ACGTcount: A:0.15, C:0.19, G:0.19, T:0.47
Consensus pattern (20 bp):
GCGATTTTCATTTTCGCGTT
Found at i:63443 original size:25 final size:24
Alignment explanation
Indices: 63389--63443 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
63379 TGTTTATTAT
* *
63389 TGTTTTTGGTATATCTTCACAGTG
1 TGTTTTTGGTATATCTTAACAGTA
63413 TAGTTTTTGGTATATC-TAACTTAGTA
1 T-GTTTTTGGTATATCTTAAC--AGTA
63439 TGTTT
1 TGTTT
63444 ATTGTTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.20, C:0.09, G:0.18, T:0.53
Consensus pattern (24 bp):
TGTTTTTGGTATATCTTAACAGTA
Found at i:63683 original size:527 final size:527
Alignment explanation
Indices: 62690--63739 Score: 2055
Period size: 527 Copynumber: 2.0 Consensus size: 527
62680 AAATTCGCGT
62690 TGCGATTTTCATTTTCGTGTTGCGATTTTCATTTTCAGAAACTATTCTTCTTCTGCAAATTGAAA
1 TGCGATTTTCATTTTCGTGTTGCGATTTTCATTTTCAGAAACTATTCTTCTTCTGCAAATTGAAA
62755 CTTGAATGAATTGCATTACTTCAACCAAAAAACAAAGACAAATAAGTAATTCACAGTGTTGCAAA
66 CTTGAATGAATTGCATTACTTCAACCAAAAAACAAAGACAAATAAGTAATTCACAGTGTTGCAAA
62820 ATTAAGTTTGAAGAATAAACTACTACTCTTTATGTTTATTATTGTTTTTGGTATATCTTCACAGT
131 ATTAAGTTTGAAGAATAAACTACTACTCTTTATGTTTATTATTGTTTTTGGTATATCTTCACAGT
62885 GTAGTTTTTGGTATATCTAACTTAGGATGTTTATTGTTTTTGTAGAACTTTTATTCGGCTCAATT
196 GTAGTTTTTGGTATATCTAACTTAGGATGTTTATTGTTTTTGTAGAACTTTTATTCGGCTCAATT
62950 GACCTTAAGAAATAAAGTCAGCCTGGCCAAAACAATTGCGTCGAAGCTTTCACCTGCACAAAGAA
261 GACCTTAAGAAATAAAGTCAGCCTGGCCAAAACAATTGCGTCGAAGCTTTCACCTGCACAAAGAA
* *
63015 AAATGTTTGAGGATACTTGCTTTGGGCCATGGCTGGAAGTATAATATCCCGGTGGAGATGCGATG
326 AAATGTTTGAGGATACTTGCTTTGGGCCATGGCTGAAAGTACAATATCCCGGTGGAGATGCGATG
63080 TTGACACACCTGTTTCTTCAAACCATGACTAGGGATCTACCAGATACTATACAACGTCGTGATGA
391 TTGACACACCTGTTTCTTCAAACCATGACTAGGGATCTACCAGATACTATACAACGTCGTGATGA
*
63145 AGAGATATGGTTTGATTTTCCACCGGCGTATATGTGTTTTGGGCGGGAGAAGTTTTGCTTAATCA
456 AGAGATATGGTTTGATTTTCCACCGGCGTATATGTGTTTTGGGCAGGAGAAGTTTTGCTTAATCA
63210 CCGTATA
521 CCGTATA
63217 TGCGATTTTCATTTTCGTGTTGCGATTTTCATTTTCAGAAACTATTCTTCTTCTGCAAATTGAAA
1 TGCGATTTTCATTTTCGTGTTGCGATTTTCATTTTCAGAAACTATTCTTCTTCTGCAAATTGAAA
63282 CTTGAATGAATTGCATTACTTCAACCAAAAAACAAAGACAAATAAGTAATTCACAGTGTTGCAAA
66 CTTGAATGAATTGCATTACTTCAACCAAAAAACAAAGACAAATAAGTAATTCACAGTGTTGCAAA
*
63347 TTTAAGTTTGAAGAATAAACTACTACTCTTTATGTTTATTATTGTTTTTGGTATATCTTCACAGT
131 ATTAAGTTTGAAGAATAAACTACTACTCTTTATGTTTATTATTGTTTTTGGTATATCTTCACAGT
*
63412 GTAGTTTTTGGTATATCTAACTTAGTATGTTTATTGTTTTTGTAGAACTTTTATTCGGCTCAATT
196 GTAGTTTTTGGTATATCTAACTTAGGATGTTTATTGTTTTTGTAGAACTTTTATTCGGCTCAATT
63477 GACCTTAAGAAATAAAGTCAGCCTGGCCAAAACAATTGCGTCGAAGCTTTCACCTGCACAAAGAA
261 GACCTTAAGAAATAAAGTCAGCCTGGCCAAAACAATTGCGTCGAAGCTTTCACCTGCACAAAGAA
63542 AAATGTTTGAGGATACTTGCTTTGGGCCATGGCTGAAAGTACAATATCCCGGTGGAGATGCGATG
326 AAATGTTTGAGGATACTTGCTTTGGGCCATGGCTGAAAGTACAATATCCCGGTGGAGATGCGATG
63607 TTGACACACCTGTTTCTTCAAACCATGACTAGGGATCTACCAGATACTATACAACGTCGTGATGA
391 TTGACACACCTGTTTCTTCAAACCATGACTAGGGATCTACCAGATACTATACAACGTCGTGATGA
63672 AGAGATATGGTTTGATTTTCCACCGGCGTATATGTGTTTTGGGCAGGAGAAGTTTTGCTTAATCA
456 AGAGATATGGTTTGATTTTCCACCGGCGTATATGTGTTTTGGGCAGGAGAAGTTTTGCTTAATCA
63737 CCG
521 CCG
63740 GTCTACGCTT
Statistics
Matches: 518, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
527 518 1.00
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.35
Consensus pattern (527 bp):
TGCGATTTTCATTTTCGTGTTGCGATTTTCATTTTCAGAAACTATTCTTCTTCTGCAAATTGAAA
CTTGAATGAATTGCATTACTTCAACCAAAAAACAAAGACAAATAAGTAATTCACAGTGTTGCAAA
ATTAAGTTTGAAGAATAAACTACTACTCTTTATGTTTATTATTGTTTTTGGTATATCTTCACAGT
GTAGTTTTTGGTATATCTAACTTAGGATGTTTATTGTTTTTGTAGAACTTTTATTCGGCTCAATT
GACCTTAAGAAATAAAGTCAGCCTGGCCAAAACAATTGCGTCGAAGCTTTCACCTGCACAAAGAA
AAATGTTTGAGGATACTTGCTTTGGGCCATGGCTGAAAGTACAATATCCCGGTGGAGATGCGATG
TTGACACACCTGTTTCTTCAAACCATGACTAGGGATCTACCAGATACTATACAACGTCGTGATGA
AGAGATATGGTTTGATTTTCCACCGGCGTATATGTGTTTTGGGCAGGAGAAGTTTTGCTTAATCA
CCGTATA
Found at i:64490 original size:18 final size:18
Alignment explanation
Indices: 64464--64511 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
64454 TCCACTTCGG
64464 GAGCCATCACCTCACCCA
1 GAGCCATCACCTCACCCA
*
64482 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
64500 GAGCCATCACCT
1 GAGCCATCACCT
64512 GATCGACCCG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.27, C:0.46, G:0.12, T:0.15
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:65151 original size:20 final size:19
Alignment explanation
Indices: 65100--65151 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
65090 GCGATTTGTG
***
65100 TTTCGCGTTGCGATTTTCA
1 TTTCGCGTTGCGATAGCCA
*
65119 TTTCGCATTGCGATAGCCA
1 TTTCGCGTTGCGATAGCCA
65138 TTTCCGCGTTGCGA
1 TTT-CGCGTTGCGA
65152 AAGTAAGTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 18 0.67
20 9 0.33
ACGTcount: A:0.13, C:0.25, G:0.23, T:0.38
Consensus pattern (19 bp):
TTTCGCGTTGCGATAGCCA
Found at i:65605 original size:41 final size:42
Alignment explanation
Indices: 65515--65605 Score: 112
Period size: 41 Copynumber: 2.2 Consensus size: 42
65505 CCCGACTCAC
* * *
65515 CTGTCATTCCTCAACAGTCCCCTCCAATCATTCAAGAGGCCC
1 CTGTCATCCCTCAACAGTCCCCTCCAACCATTCAAGAGGCCA
* * * *
65557 CTATCATCCCTCAAGAGTCCCC-CCCACCGTTCAAGAGGCCA
1 CTGTCATCCCTCAACAGTCCCCTCCAACCATTCAAGAGGCCA
65598 CTGTCATC
1 CTGTCATC
65606 GTTGAAGAGG
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
41 22 0.54
42 19 0.46
ACGTcount: A:0.23, C:0.42, G:0.13, T:0.22
Consensus pattern (42 bp):
CTGTCATCCCTCAACAGTCCCCTCCAACCATTCAAGAGGCCA
Found at i:65614 original size:41 final size:42
Alignment explanation
Indices: 65543--65635 Score: 107
Period size: 41 Copynumber: 2.2 Consensus size: 42
65533 CCCCTCCAAT
*
65543 CATTCAAGAGGCCCCTATCATCCCTCAAGA-GTCCCCCCCAC
1 CATTCAAGAGGCCACTATCATCCCTCAAGAGGTCCCCCCCAC
* * ** * *
65584 CGTTCAAGAGGCCACTGTCATCGTTGAAGAGGTCCCTCCCAC
1 CATTCAAGAGGCCACTATCATCCCTCAAGAGGTCCCCCCCAC
*
65626 CATTCCAGAG
1 CATTCAAGAG
65636 CCCGATTCAC
Statistics
Matches: 42, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
41 24 0.57
42 18 0.43
ACGTcount: A:0.24, C:0.39, G:0.18, T:0.19
Consensus pattern (42 bp):
CATTCAAGAGGCCACTATCATCCCTCAAGAGGTCCCCCCCAC
Found at i:67208 original size:19 final size:19
Alignment explanation
Indices: 67184--67251 Score: 83
Period size: 19 Copynumber: 3.8 Consensus size: 19
67174 ATCGCAACGA
*
67184 GAAAATCGCAATTCGAAAT
1 GAAAATCGCAATGCGAAAT
67203 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
*
67222 GAAAATTGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
67236 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
67252 TTTTCTAGTT
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
14 10 0.23
15 1 0.02
16 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.47, C:0.16, G:0.21, T:0.16
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:67344 original size:20 final size:20
Alignment explanation
Indices: 67259--67346 Score: 97
Period size: 20 Copynumber: 4.4 Consensus size: 20
67249 CGATTTTCTA
*
67259 GTTGCAATAGCCATTTTCGC
1 GTTGCGATAGCCATTTTCGC
*** **
67279 GTTGCGATTTTTCA-TTTCAA
1 GTTGCGA-TAGCCATTTTCGC
*
67299 ATTGCGATAGCCATTTTCGC
1 GTTGCGATAGCCATTTTCGC
67319 GTTGCGATAGCCATTTTCGC
1 GTTGCGATAGCCATTTTCGC
67339 GTTGCGAT
1 GTTGCGAT
67347 TTCCCCGTTG
Statistics
Matches: 53, Mismatches: 13, Indels: 4
0.76 0.19 0.06
Matches are distributed among these distances:
19 3 0.06
20 47 0.89
21 3 0.06
ACGTcount: A:0.18, C:0.22, G:0.22, T:0.39
Consensus pattern (20 bp):
GTTGCGATAGCCATTTTCGC
Found at i:67585 original size:20 final size:20
Alignment explanation
Indices: 67560--67608 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
67550 TTGAAGATGA
67560 TTGCGATTTTCAGAATCT-CG
1 TTGCGATTTTCAGAAT-TGCG
***
67580 TTGCGAAAGTCAGAATTGCG
1 TTGCGATTTTCAGAATTGCG
67600 TTGCGATTT
1 TTGCGATTT
67609 GTATTATCTC
Statistics
Matches: 22, Mismatches: 6, Indels: 2
0.73 0.20 0.07
Matches are distributed among these distances:
19 1 0.05
20 21 0.95
ACGTcount: A:0.22, C:0.16, G:0.24, T:0.37
Consensus pattern (20 bp):
TTGCGATTTTCAGAATTGCG
Found at i:67679 original size:20 final size:21
Alignment explanation
Indices: 67635--67683 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
67625 ATAGTCAGTA
*
67635 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTACAAAT
**
67656 TCGCATTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTACAAAT
67676 TCGCATTG
1 TCGCATTG
67684 AGAATTAGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 14 0.56
21 11 0.44
ACGTcount: A:0.20, C:0.22, G:0.16, T:0.41
Consensus pattern (21 bp):
TCGCATTGCGATTTTACAAAT
Found at i:68476 original size:24 final size:24
Alignment explanation
Indices: 68449--68502 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
68439 GTATTCGAAA
*
68449 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACCCGGAC
* *
68473 TTTGATATTGGTCAATACTCGGAT
1 TTTGATATTGGTCAATACCCGGAC
68497 TTTGAT
1 TTTGAT
68503 GATGTTTCAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATATTGGTCAATACCCGGAC
Found at i:68694 original size:12 final size:12
Alignment explanation
Indices: 68677--68701 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
68667 ATATAATCCT
68677 GAAGAAGAAAAA
1 GAAGAAGAAAAA
68689 GAAGAAGAAAAA
1 GAAGAAGAAAAA
68701 G
1 G
68702 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:71129 original size:14 final size:14
Alignment explanation
Indices: 71110--71146 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
71100 CATCAATTAA
71110 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
71124 ACAAATCACCTTTT
1 ACAAATCAACTTTT
71138 ACAAATCAA
1 ACAAATCAA
71147 TTAAACAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:72581 original size:42 final size:42
Alignment explanation
Indices: 72532--72611 Score: 115
Period size: 42 Copynumber: 1.9 Consensus size: 42
72522 CGATGACAGT
* *
72532 GGCCTCTTGAACGGTAGGAGGGGACTCTCGAGGAATGATAGG
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
* * *
72574 GGCCTCTTCAACGATAGGAGTGGACTCTTGAGGGATGA
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGA
72612 CAGGCGAGTC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.24, C:0.17, G:0.38, T:0.21
Consensus pattern (42 bp):
GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
Found at i:72891 original size:17 final size:17
Alignment explanation
Indices: 72869--72901 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
72859 ATACTAACTT
72869 CACAGTGTTAA-AGAATA
1 CACAGT-TTAACAGAATA
72886 CACAGTTTAACAGAAT
1 CACAGTTTAACAGAAT
72902 TGGCAGCAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.45, C:0.15, G:0.15, T:0.24
Consensus pattern (17 bp):
CACAGTTTAACAGAATA
Found at i:73010 original size:90 final size:90
Alignment explanation
Indices: 72832--73015 Score: 298
Period size: 90 Copynumber: 2.0 Consensus size: 90
72822 ATTTCCAACT
*
72832 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAAC
1 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTT--A-AATAAACAGTTTAAC
72897 AGAATTGGCAGCAACCGAATAAATTTAC
63 AGAATTGGCAGCAACCGAATAAATTTAC
*
72925 TTCAACCAAAAGACAAAACAAAAGACAAATACTAACTTCACAGTGTT-AATAAACAGTTTAGCAG
1 TTCAACCAAAAGACAAAAC-AAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAACAG
*
72989 TATTGGCAGCAACCGAATAAATTTAC
65 AATTGGCAGCAACCGAATAAATTTAC
73015 T
1 T
73016 AAGCAATCTA
Statistics
Matches: 87, Mismatches: 3, Indels: 5
0.92 0.03 0.05
Matches are distributed among these distances:
90 41 0.47
93 19 0.22
94 27 0.31
ACGTcount: A:0.47, C:0.19, G:0.12, T:0.22
Consensus pattern (90 bp):
TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAACAGA
ATTGGCAGCAACCGAATAAATTTAC
Found at i:73260 original size:63 final size:63
Alignment explanation
Indices: 73185--73312 Score: 238
Period size: 63 Copynumber: 2.0 Consensus size: 63
73175 AGTAGACACA
*
73185 TCCATACGCCATGCACCATCGTTATCGCGTAGAGTACCGATCTCCTCACGCAAGGCATTGACC
1 TCCACACGCCATGCACCATCGTTATCGCGTAGAGTACCGATCTCCTCACGCAAGGCATTGACC
*
73248 TCCACACGCCATGCACCATCGTTATCGCGTAGAGTACCGATCTCCTCACGCAAGGCATTGGCC
1 TCCACACGCCATGCACCATCGTTATCGCGTAGAGTACCGATCTCCTCACGCAAGGCATTGACC
73311 TC
1 TC
73313 ATCACGTAAC
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.23, C:0.36, G:0.20, T:0.22
Consensus pattern (63 bp):
TCCACACGCCATGCACCATCGTTATCGCGTAGAGTACCGATCTCCTCACGCAAGGCATTGACC
Found at i:74796 original size:20 final size:19
Alignment explanation
Indices: 74765--74825 Score: 68
Period size: 20 Copynumber: 3.1 Consensus size: 19
74755 TATTTTGGTT
74765 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
* *
74784 GATAATGAGAATCGCAACGCG
1 GA-AATGAAAATCGCAACG-A
**
74805 GAAATGACTATCGCAACGA
1 GAAATGAAAATCGCAACGA
74824 GA
1 GA
74826 GAATCGCAAC
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
19 4 0.11
20 29 0.83
21 2 0.06
ACGTcount: A:0.44, C:0.18, G:0.25, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGA
Found at i:74847 original size:33 final size:33
Alignment explanation
Indices: 74790--74886 Score: 149
Period size: 33 Copynumber: 2.9 Consensus size: 33
74780 ACGAGATAAT
74790 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACGA
74824 GAGAATCGCAACGCGAAATGACTATCGCAACGA
1 GAGAATCGCAACGCGAAATGACTATCGCAACGA
* * **
74857 TAGAATCGCAACGCAAAATGAAAATCGCAA
1 GAGAATCGCAACGCGAAATGACTATCGCAA
74887 TGCGATTTGG
Statistics
Matches: 59, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
33 45 0.76
34 14 0.24
ACGTcount: A:0.42, C:0.23, G:0.23, T:0.12
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACGA
Found at i:75476 original size:20 final size:20
Alignment explanation
Indices: 75451--75562 Score: 82
Period size: 20 Copynumber: 5.5 Consensus size: 20
75441 GCTATGTAAA
75451 TCGCATTGCGATAGTAAG-AT
1 TCGCATTGCGAT-GTAAGTAT
* *
75471 TCGCATTGCGATTTACGTAT
1 TCGCATTGCGATGTAAGTAT
* ***
75491 TCGCATTGCGATTTTCCTAAT
1 TCGCATTGCGATGTAAGT-AT
* ** *
75512 TCGCATTGCGATTTACTTAA
1 TCGCATTGCGATGTAAGTAT
* * *
75532 TCGCGTTGCGATTTACGTAT
1 TCGCATTGCGATGTAAGTAT
75552 TCGCATTGCGA
1 TCGCATTGCGA
75563 ATTATGAAAA
Statistics
Matches: 79, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
19 3 0.04
20 58 0.73
21 18 0.23
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (20 bp):
TCGCATTGCGATGTAAGTAT
Found at i:75575 original size:41 final size:41
Alignment explanation
Indices: 75443--75700 Score: 154
Period size: 41 Copynumber: 6.3 Consensus size: 41
75433 CGAATGGCGC
* * * *
75443 TATGTAAATCGCATTGCGATAGTAAG-ATTCGCATTGCGATT
1 TATGAAAATCGCATTGCGAT-TTACGTATTCGCATTGCGAAT
* * * * * *
75484 TACG-TATTCGCATTGCGATTTTCCTAATTCGCATTGCGATT
1 TATGAAAATCGCATTGCGATTTACGT-ATTCGCATTGCGAAT
* *
75525 TACT--TAATCGCGTTGCGATTTACGTATTCGCATTGCGAAT
1 TA-TGAAAATCGCATTGCGATTTACGTATTCGCATTGCGAAT
* * * *
75565 TATGAAAATCGCATCGCGA-ATACGTAAATCGCAATGCGAAT
1 TATGAAAATCGCATTGCGATTTACGT-ATTCGCATTGCGAAT
* * *
75606 TAGGAAAATTGCATTGCGATAGT-CAGTA-TCGCATTGCG-AT
1 TATGAAAATCGCATTGCGAT-TTAC-GTATTCGCATTGCGAAT
* * * * * *
75646 TTTCCAAATTCTCATTGCGATTTACTTATTCACATTGCGAAT
1 TAT-GAAAATCGCATTGCGATTTACGTATTCGCATTGCGAAT
**
75688 TGGGAAAATCGCA
1 TATGAAAATCGCA
75701 ACGCGAAATT
Statistics
Matches: 166, Mismatches: 38, Indels: 26
0.72 0.17 0.11
Matches are distributed among these distances:
39 2 0.01
40 40 0.24
41 116 0.70
42 5 0.03
43 3 0.02
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (41 bp):
TATGAAAATCGCATTGCGATTTACGTATTCGCATTGCGAAT
Found at i:75578 original size:21 final size:21
Alignment explanation
Indices: 75471--75624 Score: 91
Period size: 20 Copynumber: 7.5 Consensus size: 21
75461 ATAGTAAGAT
* * *
75471 TCGCATTGCGATTTACG-TAT
1 TCGCATTGCGAATTACGAAAA
* * ** *
75491 TCGCATTGCGATTTTCCTAAT
1 TCGCATTGCGAATTACGAAAA
* **
75512 TCGCATTGCGATTTAC-TTAA
1 TCGCATTGCGAATTACGAAAA
* * * *
75532 TCGCGTTGCGATTTACG-TAT
1 TCGCATTGCGAATTACGAAAA
*
75552 TCGCATTGCGAATTATGAAAA
1 TCGCATTGCGAATTACGAAAA
* *
75573 TCGCATCGCGAA-TACGTAAA
1 TCGCATTGCGAATTACGAAAA
* *
75593 TCGCAATGCGAATTAGGAAAA
1 TCGCATTGCGAATTACGAAAA
*
75614 TTGCATTGCGA
1 TCGCATTGCGA
75625 TAGTCAGTAT
Statistics
Matches: 108, Mismatches: 22, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
20 64 0.59
21 44 0.41
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.33
Consensus pattern (21 bp):
TCGCATTGCGAATTACGAAAA
Found at i:75595 original size:61 final size:60
Alignment explanation
Indices: 75443--75603 Score: 175
Period size: 61 Copynumber: 2.6 Consensus size: 60
75433 CGAATGGCGC
75443 TATGTAAATCGCATTGCG-ATA-GTAAGATTCGCATTGCGATTTACGTATTCGCATTGCGAT
1 TATGTAAATCGCATTGCGAATACGTAA-A-TCGCATTGCGATTTACGTATTCGCATTGCGAT
* * * * * *
75503 TTTCCTAATTCGCATTGCGATTTAC-TTAATCGCGTTGCGATTTACGTATTCGCATTGCGAAT
1 TAT-GTAAATCGCATTGCGA-ATACGTAAATCGCATTGCGATTTACGTATTCGCATTGCG-AT
* * *
75565 TATGAAAATCGCATCGCGAATACGTAAATCGCAATGCGA
1 TATGTAAATCGCATTGCGAATACGTAAATCGCATTGCGA
75604 ATTAGGAAAA
Statistics
Matches: 80, Mismatches: 15, Indels: 11
0.75 0.14 0.10
Matches are distributed among these distances:
60 5 0.06
61 66 0.82
62 5 0.06
63 4 0.05
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (60 bp):
TATGTAAATCGCATTGCGAATACGTAAATCGCATTGCGATTTACGTATTCGCATTGCGAT
Found at i:75727 original size:21 final size:22
Alignment explanation
Indices: 75675--75727 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
75665 ATTTACTTAT
75675 TCACATTGCG-AATTGGGAAAA
1 TCACATTGCGAAATTGGGAAAA
* **
75696 TCGCAACGCGAAATT-GGAAAA
1 TCACATTGCGAAATTGGGAAAA
75717 TCACATTGCGA
1 TCACATTGCGA
75728 TAGTCATAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
21 21 0.84
22 4 0.16
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.21
Consensus pattern (22 bp):
TCACATTGCGAAATTGGGAAAA
Done.