Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003465.1 Hibiscus syriacus cultivar Beakdansim tig00007329_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: 84454
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Found at i:8416 original size:33 final size:33
Alignment explanation
Indices: 8379--8444 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
8369 TATGGATGAT
8379 GTTAGTATGAATTATTGATTTAATTCTGATGGA
1 GTTAGTATGAATTATTGATTTAATTCTGATGGA
8412 GTTAGTATGAATTATTGATTTAATTCTGATGGA
1 GTTAGTATGAATTATTGATTTAATTCTGATGGA
8445 AAATGGTTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.30, C:0.03, G:0.21, T:0.45
Consensus pattern (33 bp):
GTTAGTATGAATTATTGATTTAATTCTGATGGA
Found at i:13751 original size:17 final size:17
Alignment explanation
Indices: 13729--13763 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
13719 TATAACCCTA
13729 TTCCCATCATCCAAATG
1 TTCCCATCATCCAAATG
13746 TTCCCATCATCCAAATG
1 TTCCCATCATCCAAATG
13763 T
1 T
13764 GTCGGACATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.34, G:0.06, T:0.31
Consensus pattern (17 bp):
TTCCCATCATCCAAATG
Found at i:24324 original size:755 final size:747
Alignment explanation
Indices: 22867--24379 Score: 2240
Period size: 755 Copynumber: 2.0 Consensus size: 747
22857 CGGAATATTC
*
22867 ATGACTACTGATGAGCAACTTTATAAGACCGAGAGCTGCTTTTCAAGCCATGTTCCCCTGGCTTC
1 ATGACTACTGATGAGCAACTTTATAAGACCGAGAGCTGCTTTTCAAACCATGTTCCCCTGGCTTC
* * * *
22932 CTTTCAATTTCTTGCATTTCAGTTTGGCAACACATTTACCATTTCCTTTTACTTTGACAATTTTC
66 CTTTCAATTTCTAGCATTCCAGTTTCGCAACACATTTACCATTTCCTTTTACTTTAACAATTTTC
* *
22997 TTTTCAAGTATCTAAATTATAGTGTTTTTCACAAATAGGTATTTAAATTATTTTTTAGATGATTT
131 TTTTCAAGTATCTAAATTATAGTGTTTTTCACAAATAGGTATCTAAATTATTTTTTAGATGATTC
*
23062 CAATGCGTAAAGTTACAAACGTTACCACTTTAAGTATCCGGGACGTCAACGATATTAATATCCTC
196 CAATACGTAAAGTTACAAACGTTACCACTTTAAGTATCCGGGACGTCAACGATATTAATATCCTC
* * * * *
23127 TATTAAGTGACACGCATCATAATATGGTGATTTAGAATTTTTTTTTTAAATATATTAAAAATGTT
261 TATTAAGTGACACGCATCACAATATGATGATTTAGAATTTATTTTTAAAATATAGTAAAAATGTT
* *
23192 TATAGAAAACTCTAATTTCTCTTAAATTATAAAAAAGAAAATCTCTAAAATCCCCAAATCCTAAC
326 TATAGAAAACCCTAATTTCTCTTAAATTATAAAAAAGAAAATCTCTAAAATCACCAAATCCTAAC
*
23257 CTTAACCGTCGTTGCACCTTTTTCGACCACGATCACTACCGCCGACGTAGTTCATGCTGATTTTC
391 CTTAACCGTCGTTGCACCTTTTTCGACCACGACCACTACCGCCGACGTAGTTCATGCTGATTTTC
* *
23322 CGTCTGAATCATGTGGGATCGCTATTTTCATCCTAGGGTTCGAGGGAGTAAAGCATCGATTCGTC
456 CATCTGAATCATGTGAGATCGCTATTTTCATCCTAGGGTT-------GT--A-CATCGATTCGTC
*
23387 ATCGATCGGTCACGATTTCATCCTAAAGCACGACAATGTCACTTTACGATATTTTTTAACAGTTG
511 ATCGATCGATCACGATTTCATCCTAAAGCACGACAATGTCACTTTACGATATTTTTTAACAGTTG
* *
23452 TTACAACTCGGGCGCCTAAAATGATAACGTCGTAACGTTAGGCACCCGGATCATTCAAAACATAA
576 TTACAACTCGGGCGCCTAAAATGATAACGTCGTAAAGTTAGACACCCGGATCATTCAAAACATAA
*
23517 TTTAGACACCAAGTCGTAGAAAGCATTATAATTTAAGCACTTATTCTATAATTAAACCTACATTT
641 TTTAGACACCAAGTCGTAGAAAACATTATAATTTAAGCACTTATTCTATAATTAAACCTACATTT
*
23582 AATGACACTTATGAAATCCAAAGGATGTAGCTATACGTGATA
706 AACGACACTTATGAAATCCAAAGGATGTAGCTATACGTGATA
*
23624 ATGACTACTGATGAGCAACTTTATATGACCGAGAGCTGCTTTTCAAACCATGTTCCCCTGGCTTC
1 ATGACTACTGATGAGCAACTTTATAAGACCGAGAGCTGCTTTTCAAACCATGTTCCCCTGGCTTC
* *
23689 CTTTCAATTTCTAGCATTCCAGTTTCGTAACACATTTGCCATTTCCTTTTAC-TTAACAACTTTC
66 CTTTCAATTTCTAGCATTCCAGTTTCGCAACACATTTACCATTTCCTTTTACTTTAACAA-TTT-
* * *
23753 TTTTTTGCTTAAATATAAGATAAGTGTCTAAATTATAGTGTTTTTCATAAATAGGTGTCTAAATT
129 TCTTTT-C--------AAG-T-A---TCTAAATTATAGTGTTTTTCACAAATAGGTATCTAAATT
* *
23818 ATTTTTTAGATGATTCCAGTACGTAAA-TTACAAACGTTACCACTTTAGGTATCCGGGACGTCAA
180 ATTTTTTAGATGATTCCAATACGTAAAGTTACAAACGTTACCACTTTAAGTATCCGGGACGTCAA
* * *
23882 CGGTGTTAATATCCTCTATTAAGTGACACG-AGTCACAATCTGATGATTTAGAAATTTATTTTTA
245 CGATATTAATATCCTCTATTAAGTGACACGCA-TCACAATATGATGATTTAG-AATTTATTTTTA
23946 AAATATAGTAAAAATGTTTATA-AAAACCCTAATTTCTCTTAAATTAT-AAAAA-AAAATCTCTA
308 AAATATAGTAAAAATGTTTATAGAAAACCCTAATTTCTCTTAAATTATAAAAAAGAAAATCTCTA
* *
24008 AAATCACCAAATCCTAACCTTAACTGTCGTTGCGCCTTTTTCGACCACGACCACTACCGCCGACG
373 AAATCACCAAATCCTAACCTTAACCGTCGTTGCACCTTTTTCGACCACGACCACTACCGCCGACG
* *
24073 TATTTCATGTTGATTTTCCATC-GAAATCATGTGAGATCGCTATTTTCATCCTA-GG-T-T-CAT
438 TAGTTCATGCTGATTTTCCATCTG-AATCATGTGAGATCGCTATTTTCATCCTAGGGTTGTACAT
* *
24133 CGATTCGTCATTGATCGATCACGATTTCATCCTAGAGCACGACAATGTCACTTTACGATATTTTT
502 CGATTCGTCATCGATCGATCACGATTTCATCCTAAAGCACGACAATGTCACTTTACGATATTTTT
* * * * *
24198 TAACGGTTGTTACAACTCGGGCTCCTAAAATGATAATGTCGTAAAGTTAGACACCTGGA-CATTT
567 TAACAGTTGTTACAACTCGGGCGCCTAAAATGATAACGTCGTAAAGTTAGACACCCGGATCATTC
*
24262 AAAACATAATTTAGACACCAAGTCGTAGAAAAACATTATAATTTAAGCACTTATTTTATAATTAA
632 AAAACATAATTTAGACACCAAGTCGTAG-AAAACATTATAATTTAAGCACTTATTCTATAATTAA
* *
24327 ACCTACATTTAACGACACTTGTGAAATCCAAAGGATGTAGCTATGCGTGATA
696 ACCTACATTTAACGACACTTATGAAATCCAAAGGATGTAGCTATACGTGATA
24379 A
1 A
24380 ATATTTTTTT
Statistics
Matches: 688, Mismatches: 48, Indels: 42
0.88 0.06 0.05
Matches are distributed among these distances:
754 32 0.05
755 202 0.29
756 6 0.01
757 113 0.16
758 5 0.01
759 2 0.00
767 4 0.01
768 4 0.01
769 119 0.17
770 6 0.01
771 104 0.15
772 91 0.13
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.35
Consensus pattern (747 bp):
ATGACTACTGATGAGCAACTTTATAAGACCGAGAGCTGCTTTTCAAACCATGTTCCCCTGGCTTC
CTTTCAATTTCTAGCATTCCAGTTTCGCAACACATTTACCATTTCCTTTTACTTTAACAATTTTC
TTTTCAAGTATCTAAATTATAGTGTTTTTCACAAATAGGTATCTAAATTATTTTTTAGATGATTC
CAATACGTAAAGTTACAAACGTTACCACTTTAAGTATCCGGGACGTCAACGATATTAATATCCTC
TATTAAGTGACACGCATCACAATATGATGATTTAGAATTTATTTTTAAAATATAGTAAAAATGTT
TATAGAAAACCCTAATTTCTCTTAAATTATAAAAAAGAAAATCTCTAAAATCACCAAATCCTAAC
CTTAACCGTCGTTGCACCTTTTTCGACCACGACCACTACCGCCGACGTAGTTCATGCTGATTTTC
CATCTGAATCATGTGAGATCGCTATTTTCATCCTAGGGTTGTACATCGATTCGTCATCGATCGAT
CACGATTTCATCCTAAAGCACGACAATGTCACTTTACGATATTTTTTAACAGTTGTTACAACTCG
GGCGCCTAAAATGATAACGTCGTAAAGTTAGACACCCGGATCATTCAAAACATAATTTAGACACC
AAGTCGTAGAAAACATTATAATTTAAGCACTTATTCTATAATTAAACCTACATTTAACGACACTT
ATGAAATCCAAAGGATGTAGCTATACGTGATA
Found at i:25530 original size:27 final size:28
Alignment explanation
Indices: 25499--25562 Score: 85
Period size: 31 Copynumber: 2.2 Consensus size: 28
25489 TCAGGTACTA
25499 ATTTA-AACTAAAAGAGCGAATTTAATT
1 ATTTAGAACTAAAAGAGCGAATTTAATT
*
25526 ATTTAGTTGGACTAAAAGAGCGAATTTAATT
1 ATTTA---GAACTAAAAGAGCGAATTTAATT
25557 ATTTAG
1 ATTTAG
25563 GCTTCATTCC
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
27 5 0.16
28 1 0.03
31 26 0.81
ACGTcount: A:0.42, C:0.06, G:0.16, T:0.36
Consensus pattern (28 bp):
ATTTAGAACTAAAAGAGCGAATTTAATT
Found at i:26083 original size:14 final size:15
Alignment explanation
Indices: 26051--26084 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
26041 TATCTTTGCA
26051 ATAAACCCTAAATTC
1 ATAAACCCTAAATTC
26066 -TAAACCCTAAA-TC
1 ATAAACCCTAAATTC
26079 ATAAAC
1 ATAAAC
26085 TATAAACCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 2 0.11
14 16 0.89
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (15 bp):
ATAAACCCTAAATTC
Found at i:26104 original size:21 final size:21
Alignment explanation
Indices: 26052--26104 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
26042 ATCTTTGCAA
* * *
26052 TAAACCCTAAATTCTAAACCC
1 TAAAACCTAAACTATAAACCC
* *
26073 TAAATCATAAACTATAAACCC
1 TAAAACCTAAACTATAAACCC
26094 TAAAACCTAAA
1 TAAAACCTAAA
26105 TCTGATTATA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.51, C:0.26, G:0.00, T:0.23
Consensus pattern (21 bp):
TAAAACCTAAACTATAAACCC
Found at i:29639 original size:18 final size:19
Alignment explanation
Indices: 29616--29658 Score: 70
Period size: 20 Copynumber: 2.3 Consensus size: 19
29606 CAGTAATCCT
29616 ATTCC-CTGGTAATCTTAC
1 ATTCCACTGGTAATCTTAC
29634 ATTCCCACTGGTAATCTTAC
1 ATT-CCACTGGTAATCTTAC
29654 ATTCC
1 ATTCC
29659 GTGAACCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 3 0.13
19 4 0.17
20 16 0.70
ACGTcount: A:0.23, C:0.30, G:0.09, T:0.37
Consensus pattern (19 bp):
ATTCCACTGGTAATCTTAC
Found at i:29646 original size:20 final size:20
Alignment explanation
Indices: 29621--29658 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
29611 ATCCTATTCC
29621 CTGGTAATCTTACATTCCCA
1 CTGGTAATCTTACATTCCCA
29641 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
29659 GTGAACCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.24, C:0.29, G:0.11, T:0.37
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:30811 original size:21 final size:21
Alignment explanation
Indices: 30785--30829 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
30775 GATTTCTGGG
* *
30785 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
30806 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
30827 CAA
1 CAA
30830 ACGACAGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:31477 original size:23 final size:24
Alignment explanation
Indices: 31434--31480 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
31424 ATATGGCATG
*
31434 TGATATGAAAGTGTATATGTGAAA
1 TGATATGAAAGTATATATGTGAAA
31458 TGATATGAAA-TATATATGTGAAA
1 TGATATGAAAGTATATATGTGAAA
31481 ACAAGTATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.45, C:0.00, G:0.21, T:0.34
Consensus pattern (24 bp):
TGATATGAAAGTATATATGTGAAA
Found at i:31696 original size:31 final size:31
Alignment explanation
Indices: 31658--31813 Score: 233
Period size: 31 Copynumber: 5.0 Consensus size: 31
31648 AGGGTCGAGG
31658 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
31689 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* * *
31720 GATTACCTATGTTCTTCGGAACATACGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
31751 GTTTACCTATGTCCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* * *
31782 GATTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
31813 G
1 G
31814 GTCCTTCGGG
Statistics
Matches: 113, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
31 112 0.99
32 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.36
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:32576 original size:18 final size:19
Alignment explanation
Indices: 32543--32580 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
32533 TTACATATTG
32543 TTATCATCCCCAAATTTAA
1 TTATCATCCCCAAATTTAA
*
32562 TTATCA-CCTCAAATTTAA
1 TTATCATCCCCAAATTTAA
32580 T
1 T
32581 CATAATAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.37, C:0.24, G:0.00, T:0.39
Consensus pattern (19 bp):
TTATCATCCCCAAATTTAA
Found at i:39273 original size:11 final size:11
Alignment explanation
Indices: 39257--39282 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
39247 ACTGGTATTT
39257 AAAAATGTAAA
1 AAAAATGTAAA
39268 AAAAATGTAAA
1 AAAAATGTAAA
39279 AAAA
1 AAAA
39283 TGAAAATACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (11 bp):
AAAAATGTAAA
Found at i:42388 original size:17 final size:17
Alignment explanation
Indices: 42361--42399 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
42351 ATATTTTTAA
42361 TATTT-TGTATTTAATT
1 TATTTATGTATTTAATT
*
42377 TTTTTATGTATTTAATT
1 TATTTATGTATTTAATT
42394 TATTTA
1 TATTTA
42400 ATATTTTACT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 4 0.20
17 16 0.80
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (17 bp):
TATTTATGTATTTAATT
Found at i:44712 original size:24 final size:24
Alignment explanation
Indices: 44677--44722 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
44667 TGTATTTAGT
*
44677 ACTTTTTATTGTAGTTGTTTATTGG
1 ACTTTTTATTGTAATT-TTTATTGG
44702 ACTTTTT-TTGTAATTTTTATT
1 ACTTTTTATTGTAATTTTTATT
44723 ATTATTTATC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 7 0.35
25 7 0.35
ACGTcount: A:0.17, C:0.04, G:0.13, T:0.65
Consensus pattern (24 bp):
ACTTTTTATTGTAATTTTTATTGG
Found at i:54937 original size:22 final size:23
Alignment explanation
Indices: 54912--54959 Score: 71
Period size: 22 Copynumber: 2.1 Consensus size: 23
54902 TATATATTTG
* *
54912 TGACATGTTTATCTCTA-CTTTA
1 TGACACGTTTATCTATACCTTTA
54934 TGACACGTTTATCTATACCTTTA
1 TGACACGTTTATCTATACCTTTA
54957 TGA
1 TGA
54960 TATGCTTGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 15 0.65
23 8 0.35
ACGTcount: A:0.25, C:0.19, G:0.10, T:0.46
Consensus pattern (23 bp):
TGACACGTTTATCTATACCTTTA
Found at i:54959 original size:23 final size:22
Alignment explanation
Indices: 54904--54959 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
54894 AGAAAAATTA
* *
54904 TATA-TTTGTGACATGTTTATC
1 TATACTTTATGACACGTTTATC
*
54925 TCTACTTTATGACACGTTTATC
1 TATACTTTATGACACGTTTATC
54947 TATACCTTTATGA
1 TATA-CTTTATGA
54960 TATGCTTGTC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 3 0.10
22 18 0.62
23 8 0.28
ACGTcount: A:0.25, C:0.16, G:0.11, T:0.48
Consensus pattern (22 bp):
TATACTTTATGACACGTTTATC
Found at i:56976 original size:29 final size:29
Alignment explanation
Indices: 56943--57000 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
56933 TGAGTATGTG
*
56943 GTAGATATAAAAACATTAAGTACATATGA
1 GTAGATATAAAAACATTAAATACATATGA
*
56972 GTAGATATAAAAATATTAAATACATATGA
1 GTAGATATAAAAACATTAAATACATATGA
57001 AGATAAGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.53, C:0.05, G:0.12, T:0.29
Consensus pattern (29 bp):
GTAGATATAAAAACATTAAATACATATGA
Found at i:64639 original size:23 final size:24
Alignment explanation
Indices: 64595--64641 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
64585 ATACATTGAC
*
64595 AAATTATATAAATACAATAACATT
1 AAATTATATAAATACAAAAACATT
64619 AAATTAT-TAGAA-ACAAAAACATT
1 AAATTATATA-AATACAAAAACATT
64642 CATTTAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 12 0.57
24 9 0.43
ACGTcount: A:0.60, C:0.09, G:0.02, T:0.30
Consensus pattern (24 bp):
AAATTATATAAATACAAAAACATT
Found at i:68065 original size:128 final size:128
Alignment explanation
Indices: 67650--68532 Score: 1540
Period size: 128 Copynumber: 6.9 Consensus size: 128
67640 TAATCGGAGT
*
67650 ACTATTCACATGAAGGCGCGTTCCCGGGGGTGCGCCTTCCATTATTTTGTCA-AGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTAT
*
67714 AATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
*
67777 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCATTCCATTATTTTGTCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTAT
67842 CATTGCCCTATTATGTCACTCATGT-CCTCGGGGACACTAGATATATCAGTACCTATTATTTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
67904 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTAT
*
67969 CATTGTCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
*
68032 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTAA
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTAT
*
68097 CATTGCCCTATTATGTCACTCATGTCCCTCAGGGACACTAGATATATCAGTACCTATTATTTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
* *** * * *
68160 TC-AGGGGACTTGAAGGCACGTTCCCGGGGGCACGCCTTCCATTATTTTGTCAGAGAATATGTTA
1 ACTA-TTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTA
68224 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
65 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
68288 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTAT
68353 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
* * *** * *
68416 TCAAGGGACTTGAAGGCGCGTTCCCGGGGGGGGCGCCTTCCATTATTTTGTCAGAGAATATGTTA
1 ACTATTCACATGAAGGCGCGTTCCC-GGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTA
68481 TCATTGCCCTATTATGTCACTCATGTCCCTC-GGGACACTAGATATATCAGTA
65 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTA
68533 AATCAGGTTA
Statistics
Matches: 720, Mismatches: 31, Indels: 9
0.95 0.04 0.01
Matches are distributed among these distances:
127 176 0.24
128 474 0.66
129 70 0.10
ACGTcount: A:0.23, C:0.24, G:0.20, T:0.33
Consensus pattern (128 bp):
ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTAT
CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
Found at i:70002 original size:32 final size:33
Alignment explanation
Indices: 69922--70013 Score: 107
Period size: 33 Copynumber: 2.8 Consensus size: 33
69912 TTAAGTTGAA
* *
69922 ATTT-AATGTTAAATTTCGAATACTATAATTTAT
1 ATTTAAAT-TTAAATTTCGAATAATATTATTTAT
69955 ATTTAAATTTAAATTTCGAATAATATTATTT-T
1 ATTTAAATTTAAATTTCGAATAATATTATTTAT
** * *
69987 ATTTTTATTTTAATTTTGAATAATATT
1 ATTTAAATTTAAATTTCGAATAATATT
70014 TGTATTTTAA
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
32 24 0.46
33 25 0.48
34 3 0.06
ACGTcount: A:0.38, C:0.03, G:0.04, T:0.54
Consensus pattern (33 bp):
ATTTAAATTTAAATTTCGAATAATATTATTTAT
Found at i:70587 original size:21 final size:21
Alignment explanation
Indices: 70543--70603 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
70533 AAAACCTTGC
*
70543 GGGCTAGGCATGT-A-CCTGGT
1 GGGCTAGGAATGTAACCCT-GT
70563 GGGCTAGGAATGTAACCCTGT
1 GGGCTAGGAATGTAACCCTGT
* *
70584 GGGCTCGGAATGTAGCCCTG
1 GGGCTAGGAATGTAACCCTG
70604 CGGAGATGGC
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
20 12 0.33
21 21 0.58
22 3 0.08
ACGTcount: A:0.18, C:0.21, G:0.38, T:0.23
Consensus pattern (21 bp):
GGGCTAGGAATGTAACCCTGT
Found at i:83038 original size:25 final size:25
Alignment explanation
Indices: 83010--83060 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
83000 TGAATTGGTC
83010 GAGTCGAGTCTGATCAGGAATCAAG
1 GAGTCGAGTCTGATCAGGAATCAAG
*
83035 GAGTCGAGTCTGGTCAGGAATCAAG
1 GAGTCGAGTCTGATCAGGAATCAAG
83060 G
1 G
83061 TTCTAAAGCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.29, C:0.16, G:0.35, T:0.20
Consensus pattern (25 bp):
GAGTCGAGTCTGATCAGGAATCAAG
Done.