Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001806.1 Hibiscus syriacus cultivar Beakdansim tig00003650_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: 77969
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.34
Found at i:1076 original size:2 final size:2
Alignment explanation
Indices: 1069--1107 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
1059 TCAGAAAAAC
*
1069 TA TA TA TA -A TA TA TA TA TA TA TA T- TA TA TA TT TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1108 TTCTGACCTA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
1 2 0.06
2 31 0.94
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:1091 original size:17 final size:17
Alignment explanation
Indices: 1069--1107 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
1059 TCAGAAAAAC
1069 TATATATAATATATATA
1 TATATATAATATATATA
* *
1086 TATATATTATATATTTA
1 TATATATAATATATATA
1103 TATAT
1 TATAT
1108 TTCTGACCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TATATATAATATATATA
Found at i:1107 original size:15 final size:15
Alignment explanation
Indices: 1069--1108 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
1059 TCAGAAAAAC
*
1069 TATATATAATATATA
1 TATATATATTATATA
1084 TATATATATTATATA
1 TATATATATTATATA
*
1099 TTTATATATT
1 TATATATATT
1109 TCTGACCTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TATATATATTATATA
Found at i:2024 original size:2 final size:2
Alignment explanation
Indices: 2017--2043 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2007 GTCAGAAAGC
2017 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
2044 TTATGACCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3035 original size:934 final size:931
Alignment explanation
Indices: 913--2752 Score: 2447
Period size: 934 Copynumber: 2.0 Consensus size: 931
903 GAAACATGTT
* * * *
913 AAATAAT-TACTAACCATCAACTTTGAATTCCACCTCTCG-ATCTGAAGATAACCCC-TAATTTT
1 AAATAATCTACTAA-CATCAACTTTGAATTACAACACTCGTA-CTGAAGATAACCCCATAATTCT
* ** *
975 ATCTGAAATGACATATATAAATTCCCAACTTTT-TGGAATTATCAAACAATTATACTTTAATCAA
64 AACTGAAATGA-ATATATAAATTCCCAACTTTTATCAAATTATCAAACAATTCTACTTTAATCAA
* * * *
1039 TTGAGTATGTATCACATTAGTCAGAAAAACTATATATAATATATATATATATATTATATATTTAT
128 TTGAGTATCTATCACATTAGTCAG-AAAGC--TACAT-ATATATACATATATA-TATATA---A-
** * * * * *
1104 ATATTTCTGACCTAATCATCTCTAGAGAC-AACACAATATA-CAAT-ATGATTTTAATTCAATAT
184 GGA----TGACATAATCATCTATAGACACAAAAAC-ATATACCCATAATGATTTTAATTCAATAT
* * * *
1166 ATGATAATTCCATCAGATTCACATGGAGCATATCCCATGTAATCTTTATTAAATCTTTACTACTT
244 ATGACAATTCCATCAGATTAACATGGAGCATATCCCATGTAATCTTGATTAAATCTTTACTACCT
1231 GCCTTGCTCACACTTGTACCATAACCCCTAGGTTTACTGCTATCATCTCACTCGAGATTAAATTA
309 GCCTTGCTCACACTTGTACCATAACCCCTAGGTTTACTGCTATCATCTCACTCGAGATTAAATTA
*
1296 AATAAATACTTTTATTTTAAAATCTTCATCTCATTCTTGAGTAAATATGTGTAACTTTCCAGATC
374 AATAAATACTTTTATTTTAAAATCTTCATCTCATTCTTGAGTAAATATGTGTAACTTTCAAGATC
* *
1361 CATTTAAAATATTATCGAGCAATTGAAAACATTTTCTCTATCAACTATGAAAGTCTAATTATCCA
439 CATTTAAAATATTATCGAGCAATTGAAAACATTTTCTCTATCAACTATGAAAGTATAATTATACA
* *
1426 CATCATTAAATAAGAATACTTGACAACTTTGTAGCAATAACCTCCTATCATTAATGTTAAAATTA
504 CATCATTAAATAAGAAGACTTGACAACTTTGTAGCAATAACCTCCTATCATTAATGCTAAAATTA
* *
1491 CACTAGTAACCAATTTACTCTTTTTCCTTTCATTATGAACTTGACCCTTTTTCAAGTTCTCAAGA
569 CACTAGTAACCAATTTACACTTTTTCCTTTCATTATGAACTTGACCCTTTTTCAAGTTCTCAACA
*
1556 ATCAATCTCAATTTTCAAATAATCCATTGAAGCATGAAACCGGTAGTAAATCCATTTTCACAAAT
634 ATC-ATCTCAA-TAT-AAATAATCCATTGAAGCATGAAACCGGTAGTAAATCCATTTT-ACAAAT
* *
1621 TACTTTCTAAAAACTCTATTAGTTTCATAAAACTTAACATTTATTCTTAAATAACTCATAATCAG
695 TACTTTCTAAAAACTATATTAGTTTCATAAAACTTAACATTTATTATTAAATAACTCATAATCAG
* * *
1686 TTGATCCATTAAAACTTCTCTTTCTATAAGCTTTTAGCGGTCATGTACTTACTGCTTATTCATTT
760 TTGATCCACTAAAACTTCACTTTCTATAAGCTTTTAGCAGTCATGTACTTACTGCTTATTCATTT
* * * * * ***
1751 CTTCTTACTCAAATTAACCATACTGCAAACACTTTAATGCTTTACTTAATTGAGCCTCTAATTTT
825 ATTCTTACTAAAATTAACCATACTGCAAACACTTTAATGCTTCACTTAAGTGAGCCTCAAAGGGT
** ** *
1816 CTTAACTCGTTAAGTCATTGGATTCGAAATCAGAGTAACTGTT
890 CGAAACTCGTTAAGTCAGGGGATTC-AAATCAGAGTAACTGTG
* * * * * *
1859 AAATAATTTACTAACCATCAACTTTGAATTCCACCTCTCGTTCTGGAGATAACCCCATAATTCTA
1 AAATAATCTACTAA-CATCAACTTTGAATTACAACACTCGTACTGAAGATAACCCCATAATTCTA
**
1924 ACTGAAATGACATATATAAATTCCCAACTTTTATGGAATTATCAAACAATTCTACTTTAATCAAT
65 ACTGAAATGA-ATATATAAATTCCCAACTTTTATCAAATTATCAAACAATTCTACTTTAATCAAT
* * *** *
1989 TGAGTATCTATCACATTAGTCAGAAAGCTATATATATATATATATATATATATATTTATGACCTA
129 TGAGTATCTATCACATTAGTCAGAAAGCTACATATATATACATATATATATATAAGGATGACATA
* *
2054 ATCATCTATAGAGACAAAAACATATACCCATTATGATTTTAATTCAATATATGACAATTCCATCA
194 ATCATCTATAGACACAAAAACATATACCCATAATGATTTTAATTCAATATATGACAATTCCATCA
* * *
2119 TA-TAACATGG-GCATATCCCATGTAATCTTGATTAAATGTTTACTACCTGTCTTGCTCACACTT
259 GATTAACATGGAGCATATCCCATGTAATCTTGATTAAATCTTTACTACCTGCCTTGCTCACACTT
*
2182 GTACCATGACCCCTAGG-TTA-TGCTATCATCTCACTCGAGATTAAATTAAATAAATACTTTTAT
324 GTACCATAACCCCTAGGTTTACTGCTATCATCTCACTCGAGATTAAATTAAATAAATACTTTTAT
*
2245 TTTAAAATCTTTCATCTCATTCTTGAGTAAATCCT-TGTAACTTTCAAGATCCATTTAAAATATT
389 TTTAAAATC-TTCATCTCATTCTTGAGTAAAT-ATGTGTAACTTTCAAGATCCATTTAAAATATT
* * **
2309 CTCGAGCAA-TG-AAACATTTTCTCTCTTGACTATGAAAGTATAATTATACACATCATTAAATAA
452 ATCGAGCAATTGAAAACATTTTCTCTATCAACTATGAAAGTATAATTATACACATCATTAAATAA
*
2372 GAAGACTTGACAACTTTGTAGCAATAACCTCCTAGT-AGTTAATGCTAAAATTACACTAGTACCC
517 GAAGACTTGACAACTTTGTAGCAATAACCTCCTA-TCA-TTAATGCTAAAATTACACTAGTAACC
*
2436 AATTTACACTTTTTCCTTTCATTATGAACTTGACCACTTTTTCAAGTTCTCAACAATC-T-TTAA
580 AATTTACACTTTTTCCTTTCATTATGAACTTGACC-CTTTTTCAAGTTCTCAACAATCATCTCAA
*
2499 -AT-AAT-ATCCATTGAAGCATGAAACGGGTAGTAAATCCATTTT-CAAATTACTTTCTAAATAA
644 TATAAATAATCCATTGAAGCATGAAACCGGTAGTAAATCCATTTTACAAATTACTTTCTAAA-AA
2560 CTATATTAGTTTCATAAAACTTAACA-TTATTATTAAATAACTCATAATCA-TTGATCCACTAAC
708 CTATATTAGTTTCATAAAACTTAACATTTATTATTAAATAACTCATAATCAGTTGATCCACTAA-
*
2623 AA-TTCAGTTTCTATAAGCTTTTAGCAGTCAATGTACTTAC-GCTTATTCATTTATTCTTACTAA
772 AACTTCACTTTCTATAAGCTTTTAGCAGTC-ATGTACTTACTGCTTATTCATTTATTCTTACTAA
** **
2686 AATTAACCATACTTTAAACACTTTAATGCTTCACTTAAGT-ATTTCTCAAAGGGT-GAAACGTCG
836 AATTAACCATACTGCAAACACTTTAATGCTTCACTTAAGTGA-GCCTCAAAGGGTCGAAAC-TCG
2749 TTAA
899 TTAA
2753 ACGCCGGGGC
Statistics
Matches: 821, Mismatches: 56, Indels: 56
0.88 0.06 0.06
Matches are distributed among these distances:
923 4 0.00
924 105 0.13
925 51 0.06
926 27 0.03
927 36 0.04
928 3 0.00
930 1 0.00
932 3 0.00
933 82 0.10
934 113 0.14
935 82 0.10
936 92 0.11
937 14 0.02
938 33 0.04
940 2 0.00
944 6 0.01
945 15 0.02
946 12 0.01
947 45 0.05
948 42 0.05
949 53 0.06
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (931 bp):
AAATAATCTACTAACATCAACTTTGAATTACAACACTCGTACTGAAGATAACCCCATAATTCTAA
CTGAAATGAATATATAAATTCCCAACTTTTATCAAATTATCAAACAATTCTACTTTAATCAATTG
AGTATCTATCACATTAGTCAGAAAGCTACATATATATACATATATATATATAAGGATGACATAAT
CATCTATAGACACAAAAACATATACCCATAATGATTTTAATTCAATATATGACAATTCCATCAGA
TTAACATGGAGCATATCCCATGTAATCTTGATTAAATCTTTACTACCTGCCTTGCTCACACTTGT
ACCATAACCCCTAGGTTTACTGCTATCATCTCACTCGAGATTAAATTAAATAAATACTTTTATTT
TAAAATCTTCATCTCATTCTTGAGTAAATATGTGTAACTTTCAAGATCCATTTAAAATATTATCG
AGCAATTGAAAACATTTTCTCTATCAACTATGAAAGTATAATTATACACATCATTAAATAAGAAG
ACTTGACAACTTTGTAGCAATAACCTCCTATCATTAATGCTAAAATTACACTAGTAACCAATTTA
CACTTTTTCCTTTCATTATGAACTTGACCCTTTTTCAAGTTCTCAACAATCATCTCAATATAAAT
AATCCATTGAAGCATGAAACCGGTAGTAAATCCATTTTACAAATTACTTTCTAAAAACTATATTA
GTTTCATAAAACTTAACATTTATTATTAAATAACTCATAATCAGTTGATCCACTAAAACTTCACT
TTCTATAAGCTTTTAGCAGTCATGTACTTACTGCTTATTCATTTATTCTTACTAAAATTAACCAT
ACTGCAAACACTTTAATGCTTCACTTAAGTGAGCCTCAAAGGGTCGAAACTCGTTAAGTCAGGGG
ATTCAAATCAGAGTAACTGTG
Found at i:4359 original size:59 final size:59
Alignment explanation
Indices: 4272--4466 Score: 191
Period size: 59 Copynumber: 3.3 Consensus size: 59
4262 CATGGGAATT
* * * ** *
4272 CATACACTGAGTATGAATTTCTTAACATTTTTACACACCGAGTGCCCAATACGAAAATT
1 CATACACTTAGTATGAATTTATTTACATTTTTACACACAAAGTGCCCAATACGAAAATC
* ** * * * *
4331 TATATGCTTAGTATGAATTTATTTACATTTTTGCAAACAAAATGCCCAATACGGAAATC
1 CATACACTTAGTATGAATTTATTTACATTTTTACACACAAAGTGCCCAATACGAAAATC
* * * *
4390 CATACACTTAGTATGAA-TTATTTAAAATTTTAGCACACATAGTGCCCAATAC-ATAAATT
1 CATACACTTAGTATGAATTTATTTACATTTTTA-CACACAAAGTGCCCAATACGA-AAATC
4449 CATACACTTA-TA-GAATTT
1 CATACACTTAGTATGAATTT
4467 CTTATCACTT
Statistics
Matches: 109, Mismatches: 24, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
57 3 0.03
58 16 0.15
59 90 0.83
ACGTcount: A:0.38, C:0.18, G:0.10, T:0.34
Consensus pattern (59 bp):
CATACACTTAGTATGAATTTATTTACATTTTTACACACAAAGTGCCCAATACGAAAATC
Found at i:4492 original size:57 final size:59
Alignment explanation
Indices: 4272--4492 Score: 141
Period size: 59 Copynumber: 3.8 Consensus size: 59
4262 CATGGGAATT
* ** ** *
4272 CATACACTGAGTATGAATT-TCTTAACATTTTTA-CACACCGAGTGCCCAATAC-GAAAATT
1 CATACACTTAGTATGAATTAT-TTAA-AACTTTAGCACACATAGTGCCCAATACAG-AAATC
* ** * * * * * * *
4331 TATATGCTTAGTATGAATTTATTT-ACATTTTTGCAAACAAAATGCCCAATACGGAAATC
1 CATACACTTAGTATGAA-TTATTTAAAACTTTAGCACACATAGTGCCCAATACAGAAATC
* * *
4390 CATACACTTAGTATGAATTATTTAAAATTTTAGCACACATAGTGCCCAATACATAAATT
1 CATACACTTAGTATGAATTATTTAAAACTTTAGCACACATAGTGCCCAATACAGAAATC
** * *
4449 CATACACTTA-TA-GAATT-TCTTATCACTTTGGCACACTTAGTGCC
1 CATACACTTAGTATGAATTAT-TTAAAACTTTAGCACACATAGTGCC
4493 ATTTAGTAAT
Statistics
Matches: 128, Mismatches: 28, Indels: 14
0.75 0.16 0.08
Matches are distributed among these distances:
56 1 0.01
57 25 0.20
58 12 0.09
59 84 0.66
60 5 0.04
61 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.34
Consensus pattern (59 bp):
CATACACTTAGTATGAATTATTTAAAACTTTAGCACACATAGTGCCCAATACAGAAATC
Found at i:4595 original size:45 final size:43
Alignment explanation
Indices: 4544--4686 Score: 144
Period size: 45 Copynumber: 3.5 Consensus size: 43
4534 TTTTATGTTG
4544 ATAATGCACCCATATGCATTTCAAATTTTGCATCCTTTCATGCCA
1 ATAATGCACCCATATGCATTTC-AA-TTTGCATCCTTTCATGCCA
4589 ATAATGCACCCATATGCA-TT--A-TT-C-T--TTT-ATGCCA
1 ATAATGCACCCATATGCATTTCAATTTGCATCCTTTCATGCCA
* ** *
4623 ATAATGCA-CCATATGCATTTCAGCTAAGGCATCCTTTCATGTCA
1 ATAATGCACCCATATGCATTTCA-AT-TTGCATCCTTTCATGCCA
4667 ATAATGCACCCATATGCATT
1 ATAATGCACCCATATGCATT
4687 ATCTTTTTTG
Statistics
Matches: 82, Mismatches: 4, Indels: 24
0.75 0.04 0.22
Matches are distributed among these distances:
33 9 0.11
34 16 0.20
35 3 0.04
37 1 0.01
38 1 0.01
39 2 0.02
40 1 0.01
41 2 0.02
43 3 0.04
44 15 0.18
45 29 0.35
ACGTcount: A:0.30, C:0.25, G:0.10, T:0.34
Consensus pattern (43 bp):
ATAATGCACCCATATGCATTTCAATTTGCATCCTTTCATGCCA
Found at i:4640 original size:33 final size:34
Alignment explanation
Indices: 4578--4797 Score: 122
Period size: 33 Copynumber: 5.9 Consensus size: 34
4568 ATTTTGCATC
4578 CTTTCATGCCAATAATGCACCCATATGCATTATT
1 CTTTCATGCCAATAATGCACCCATATGCATTATT
*
4612 CTTTTATGCCAATAATGCA-CCATATGCATTTCAGCTAAGGCAT
1 CTTTCATGCCAATAATGCACCCATATGCA-TT-A--T------T
*
4655 CCTTTCATGTCAATAATGCACCCATATGCATTA-T
1 -CTTTCATGCCAATAATGCACCCATATGCATTATT
** * *
4689 CTTTTTTGCCGATAATGCCCCCATATGCATTTCAGCTAAGGCAT
1 CTTTCATGCCAATAATGCACCCATATGCA-TT-A--T------T
*
4733 CATTTCATGCCAATAATGCACTCATATGCATTA-T
1 C-TTTCATGCCAATAATGCACCCATATGCATTATT
* * * *
4767 CTTTTATGTCGATAATGCAGCCATATGCATT
1 CTTTCATGCCAATAATGCACCCATATGCATT
4798 TTAGCTAAGG
Statistics
Matches: 144, Mismatches: 18, Indels: 49
0.68 0.09 0.23
Matches are distributed among these distances:
33 58 0.40
34 25 0.17
35 2 0.01
37 1 0.01
43 3 0.02
44 23 0.16
45 32 0.22
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.35
Consensus pattern (34 bp):
CTTTCATGCCAATAATGCACCCATATGCATTATT
Found at i:4663 original size:78 final size:78
Alignment explanation
Indices: 4533--4851 Score: 451
Period size: 78 Copynumber: 4.1 Consensus size: 78
4523 TTATAGCATA
** ** ***
4533 CTTTTATGTTGATAATGCACCCATATGCATTTCAAATTTTGCATCCTTTCATGCCAATAATGCAC
1 CTTTTATGCCGATAATGCACCCATATGCATTTCAGCTAAGGCATCCTTTCATGCCAATAATGCAC
4598 CCATATGCATTATT
66 CCATATGCATTA-T
* *
4612 CTTTTATGCCAATAATGCA-CCATATGCATTTCAGCTAAGGCATCCTTTCATGTCAATAATGCAC
1 CTTTTATGCCGATAATGCACCCATATGCATTTCAGCTAAGGCATCCTTTCATGCCAATAATGCAC
4676 CCATATGCATTAT
66 CCATATGCATTAT
* * *
4689 CTTTTTTGCCGATAATGCCCCCATATGCATTTCAGCTAAGGCATCATTTCATGCCAATAATGCAC
1 CTTTTATGCCGATAATGCACCCATATGCATTTCAGCTAAGGCATCCTTTCATGCCAATAATGCAC
*
4754 TCATATGCATTAT
66 CCATATGCATTAT
* * * * *
4767 CTTTTATGTCGATAATGCAGCCATATGCATTTTAGCTAAGGCGTCCTTTCATTCCAATAATGCAC
1 CTTTTATGCCGATAATGCACCCATATGCATTTCAGCTAAGGCATCCTTTCATGCCAATAATGCAC
4832 CCATATGCATTATT
66 CCATATGCATTA-T
4846 CTTTTA
1 CTTTTA
4852 ATCTTTTGTT
Statistics
Matches: 214, Mismatches: 24, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
77 17 0.08
78 174 0.81
79 23 0.11
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.37
Consensus pattern (78 bp):
CTTTTATGCCGATAATGCACCCATATGCATTTCAGCTAAGGCATCCTTTCATGCCAATAATGCAC
CCATATGCATTAT
Found at i:5384 original size:17 final size:18
Alignment explanation
Indices: 5353--5396 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 18
5343 ATGTTACCTT
*
5353 GTATCGATACATACCATG
1 GTATCGATACATACCATA
5371 GTATCGATAC-TACCATA
1 GTATCGATACATACCATA
5388 GTAT-GATAC
1 GTATCGATAC
5397 CCTCTTCAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 5 0.20
17 10 0.40
18 10 0.40
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (18 bp):
GTATCGATACATACCATA
Found at i:6188 original size:54 final size:54
Alignment explanation
Indices: 6132--6404 Score: 429
Period size: 54 Copynumber: 5.1 Consensus size: 54
6122 ACACCCAATA
* * * * * *
6132 CCAATACGGATATTCATAAACTTATTATGAATTTCTAAAGTTTCACAAATAGTA
1 CCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTG
6186 CCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTG
1 CCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTG
* **
6240 TCAATATTGAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTG
1 CCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTG
* *
6294 CCAATACGGAAATTCATAAACATATTATGAATTTCTTAGGTCGCACACATAGTG
1 CCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTG
* *
6348 CCAATACGGAAATTCATAAACATATTATGAATTTCTAAGGTTGCACACATAGTG
1 CCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTG
6402 CCA
1 CCA
6405 TTCGATAATT
Statistics
Matches: 203, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 203 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.33
Consensus pattern (54 bp):
CCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTG
Found at i:12996 original size:54 final size:53
Alignment explanation
Indices: 12938--13223 Score: 283
Period size: 54 Copynumber: 5.3 Consensus size: 53
12928 GTAATTCACC
* * * ** * * *
12938 AACTTACTATAAATTACGTGGATTGCACACCCAATACCAATACATAAATTCATA
1 AACTTATTATGAATTTC-TGGATTGCACACATAGTGCCAATACAAAAATTCATA
**
12992 AACTTATTATGAATTTCTTAAGTTGCACACATAGTGCCAATACAAAAATTCATA
1 AACTTATTATGAATTTCTGGA-TTGCACACATAGTGCCAATACAAAAATTCATA
**
13046 AACTTATTATGAATTTCTTAGG-TTGCACACATAGTGCCAATACGGAAATTCATA
1 AACTTATTATGAATTTC-T-GGATTGCACACATAGTGCCAATACAAAAATTCATA
* * * **
13100 AACTTATTATGAATTTATTAGG-TTGTACACATAGTGCCTATACGGAAATTCATA
1 AACTTATTATGAATTT-CT-GGATTGCACACATAGTGCCAATACAAAAATTCATA
* *
13154 AACTTATTATGAATTTCTTAGG-TTGCACACATAGTGCCAATA-AAGGAATCCATA
1 AACTTATTATGAATTTC-T-GGATTGCACACATAGTGCCAATACAA-AAATTCATA
*
13208 AACGTATTATGAATTT
1 AACTTATTATGAATTT
13224 ATTAGGTTGC
Statistics
Matches: 201, Mismatches: 25, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
53 2 0.01
54 198 0.99
55 1 0.00
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.33
Consensus pattern (53 bp):
AACTTATTATGAATTTCTGGATTGCACACATAGTGCCAATACAAAAATTCATA
Found at i:13229 original size:54 final size:54
Alignment explanation
Indices: 12983--13238 Score: 390
Period size: 54 Copynumber: 4.7 Consensus size: 54
12973 ACCAATACAT
* *
12983 AAATTCATAAACTTATTATGAATTTCTTAAGTTGCACACATAGTGCCAATACA-A
1 AAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTGCCAATA-AGG
*
13037 AAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTGCCAATACGG
1 AAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTGCCAATAAGG
* * * *
13091 AAATTCATAAACTTATTATGAATTTATTAGGTTGTACACATAGTGCCTATACGG
1 AAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTGCCAATAAGG
13145 AAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTGCCAATAAAGG
1 AAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTGCCAAT-AAGG
* * *
13200 -AATCCATAAACGTATTATGAATTTATTAGGTTGCACACA
1 AAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACA
13239 GAGTACAATT
Statistics
Matches: 187, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
54 184 0.98
55 3 0.02
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.34
Consensus pattern (54 bp):
AAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTGCCAATAAGG
Found at i:28597 original size:23 final size:23
Alignment explanation
Indices: 28561--28630 Score: 86
Period size: 23 Copynumber: 3.0 Consensus size: 23
28551 GGGACGTTGC
*
28561 AGCTTCTAGAAGGTCCAGTCAGT
1 AGCTTATAGAAGGTCCAGTCAGT
* *
28584 AGTTTATAGAAGGTCCAGTCATT
1 AGCTTATAGAAGGTCCAGTCAGT
* * *
28607 AGCTTCTAGAAGGTTCAATCAGT
1 AGCTTATAGAAGGTCCAGTCAGT
28630 A
1 A
28631 TTCTGGAAGG
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (23 bp):
AGCTTATAGAAGGTCCAGTCAGT
Found at i:40576 original size:16 final size:15
Alignment explanation
Indices: 40550--40583 Score: 59
Period size: 16 Copynumber: 2.2 Consensus size: 15
40540 GCTACAATCT
40550 AACAAACTATTCTAG
1 AACAAACTATTCTAG
40565 AACAACACTATTCTAG
1 AACAA-ACTATTCTAG
40581 AAC
1 AAC
40584 TCACAACATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.47, C:0.24, G:0.06, T:0.24
Consensus pattern (15 bp):
AACAAACTATTCTAG
Found at i:55017 original size:20 final size:21
Alignment explanation
Indices: 54981--55022 Score: 77
Period size: 20 Copynumber: 2.0 Consensus size: 21
54971 GGGATGATAT
54981 GTATCTCTGGAAACATTGTTC
1 GTATCTCTGGAAACATTGTTC
55002 GTATCTCTGG-AACATTGTTC
1 GTATCTCTGGAAACATTGTTC
55022 G
1 G
55023 GATCAATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.38
Consensus pattern (21 bp):
GTATCTCTGGAAACATTGTTC
Found at i:56918 original size:61 final size:61
Alignment explanation
Indices: 56816--56941 Score: 171
Period size: 61 Copynumber: 2.1 Consensus size: 61
56806 GTAGTGCTAA
* * *
56816 ACCTACACTAAGCTTACGCTCTAGTGCTAATCCGGATATGACACATAAGGTCGTGCCCACC
1 ACCTACACTAAGCTTACACTCTAGTGCTAATCCAGACATGACACATAAGGTCGTGCCCACC
* * * * * *
56877 ACCTACACTAGGTTTACACTCTTGTGCTGATCTAGACATGACACATAAGGTTGTGCCCACC
1 ACCTACACTAAGCTTACACTCTAGTGCTAATCCAGACATGACACATAAGGTCGTGCCCACC
56938 ACCT
1 ACCT
56942 GCAACTAGTG
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 56 1.00
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.25
Consensus pattern (61 bp):
ACCTACACTAAGCTTACACTCTAGTGCTAATCCAGACATGACACATAAGGTCGTGCCCACC
Found at i:61703 original size:81 final size:81
Alignment explanation
Indices: 61600--61752 Score: 191
Period size: 81 Copynumber: 1.9 Consensus size: 81
61590 TATAATTCCT
* * * * * * *
61600 TTATTCTTTTACCTAAAGGTATTTAGCCTTTTATCTAACTTGCATATTTGACACTTTTCTATCAA
1 TTATTCTTTTACCTAAAGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTATAAA
61665 ATGCACAACTAGTCCA
66 ATGCACAACTAGTCCA
* * * *
61681 TTATTCTTTTA-TTCAATGGTATTTAATCGTTCATCTAACTGGCATAATTGACACCTTTCTGTAA
1 TTATTCTTTTACCT-AAAGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTATAA
61745 AATGCACA
65 AATGCACA
61753 GTTAGGCTTC
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
80 1 0.02
81 59 0.98
ACGTcount: A:0.29, C:0.20, G:0.10, T:0.42
Consensus pattern (81 bp):
TTATTCTTTTACCTAAAGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTATAAA
ATGCACAACTAGTCCA
Found at i:62640 original size:170 final size:170
Alignment explanation
Indices: 62192--62699 Score: 650
Period size: 170 Copynumber: 3.0 Consensus size: 170
62182 TAACGGTTTG
*
62192 CACAAAGTGCCCAATACAG-AATTCAAACACTTAGTATGATTCTTAACTTTTTGCACACGAAGTG
1 CACAAAGTGCCCAATACAGAAATTCAAACACTTAGTATAATTCTTAACTTTTTGCACACGAAGTG
* * * *
62256 CCCAATACGGAAATTCATACACTTGGTGTGAATTTCTTAAC-TTTTTCCACATGAAGTGCCCAAT
66 CCCAATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACGAAGTGCCCAAT
* *
62320 ACAAGAATTCATACAGTTAGTATGAATTTCTTAACTATTTGCA
131 ACGA-AATTCATACAATTAGTATGAATTTCTTAAC--TTTGCA
* *
62363 CACAAAGTGCCCAATACAGAAATTCATACAGTTAGTATGAATTTCTTAACATTTTTGCACACGAA
1 CACAAAGTGCCCAATACAGAAATTCAAACACTTAGTAT-AA-TTCTTAAC-TTTTTGCACACGAA
* * *
62428 GTGCCAAATA-TGAAATTCATACACTCAGTATGAATTTCTTAACATTTTTGCACACGAAGTGCCC
63 GTGCCCAATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACGAAGTGCCC
* * *
62492 AATACGGAAATTCATACAATTAGTATTAATTTCATAAC-TTGCT
128 AATAC-GAAATTCATACAATTAGTATGAATTTCTTAACTTTGCA
* ** * * * *
62535 CACGAAGTGCCTTATA-TGAAAATTCACACACTTAGTA-AACTTCTAAACTTTTTACACACGAAG
1 CACAAAGTGCCCAATACAG-AAATTCAAACACTTAGTATAA-TTCTTAACTTTTTGCACACGAAG
* * *
62598 TTCCCAATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTTGTACACAAAGTGCCCA
64 TGCCCAATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACGAAGTGCCCA
*
62663 ATACAGAAATTCATACACTTAGTATGAATTTCTTAAC
129 ATAC-GAAATTCATACAATTAGTATGAATTTCTTAAC
62700 ATTTTTGTAC
Statistics
Matches: 295, Mismatches: 34, Indels: 17
0.85 0.10 0.05
Matches are distributed among these distances:
169 21 0.07
170 93 0.32
171 20 0.07
172 49 0.17
173 1 0.00
174 37 0.13
175 73 0.25
176 1 0.00
ACGTcount: A:0.36, C:0.20, G:0.12, T:0.32
Consensus pattern (170 bp):
CACAAAGTGCCCAATACAGAAATTCAAACACTTAGTATAATTCTTAACTTTTTGCACACGAAGTG
CCCAATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACGAAGTGCCCAAT
ACGAAATTCATACAATTAGTATGAATTTCTTAACTTTGCA
Found at i:62672 original size:59 final size:58
Alignment explanation
Indices: 62170--62711 Score: 635
Period size: 58 Copynumber: 9.5 Consensus size: 58
62160 AATTATACAC
** *
62170 GTATGAATCTT-TTAACGGTTTGCACA--AAGTGCCCAATACAG-AATTCAAACACTTA
1 GTATGAAT-TTCTTAACTTTTTGCACACGAAGTGCCCAATACAGAAATTCATACACTTA
* *
62225 GTATG-A-TTCTTAACTTTTTGCACACGAAGTGCCCAATACGGAAATTCATACACTTG
1 GTATGAATTTCTTAACTTTTTGCACACGAAGTGCCCAATACAGAAATTCATACACTTA
* * * *
62281 GTGTGAATTTCTTAACTTTTTCCACATGAAGTGCCCAATACA-AGAATTCATACAGTTA
1 GTATGAATTTCTTAACTTTTTGCACACGAAGTGCCCAATACAGA-AATTCATACACTTA
* * *
62339 GTATGAATTTCTTAACTATTTGCACACAAAGTGCCCAATACAGAAATTCATACAGTTA
1 GTATGAATTTCTTAACTTTTTGCACACGAAGTGCCCAATACAGAAATTCATACACTTA
* * *
62397 GTATGAATTTCTTAACATTTTTGCACACGAAGTGCCAAATA-TGAAATTCATACACTCA
1 GTATGAATTTCTTAAC-TTTTTGCACACGAAGTGCCCAATACAGAAATTCATACACTTA
* *
62455 GTATGAATTTCTTAACATTTTTGCACACGAAGTGCCCAATACGGAAATTCATACAATTA
1 GTATGAATTTCTTAAC-TTTTTGCACACGAAGTGCCCAATACAGAAATTCATACACTTA
* * * ** * *
62514 GTATTAATTTCATAAC---TTGCTCACGAAGTGCCTTATA-TGAAAATTCACACACTTA
1 GTATGAATTTCTTAACTTTTTGCACACGAAGTGCCCAATACAG-AAATTCATACACTTA
* * * * *
62569 GTA--AACTTCTAAACTTTTTACACACGAAGTTCCCAATACGGAAATTCATACACTTA
1 GTATGAATTTCTTAACTTTTTGCACACGAAGTGCCCAATACAGAAATTCATACACTTA
* *
62625 GTATGAATTTCTTAACATTTTTGTACACAAAGTGCCCAATACAGAAATTCATACACTTA
1 GTATGAATTTCTTAAC-TTTTTGCACACGAAGTGCCCAATACAGAAATTCATACACTTA
*
62684 GTATGAATTTCTTAACATTTTTGTACAC
1 GTATGAATTTCTTAAC-TTTTTGCACAC
62712 TTAGTGTCAT
Statistics
Matches: 418, Mismatches: 51, Indels: 32
0.83 0.10 0.06
Matches are distributed among these distances:
52 2 0.00
53 21 0.05
54 2 0.00
55 53 0.13
56 49 0.12
57 3 0.01
58 173 0.41
59 115 0.28
ACGTcount: A:0.35, C:0.20, G:0.12, T:0.33
Consensus pattern (58 bp):
GTATGAATTTCTTAACTTTTTGCACACGAAGTGCCCAATACAGAAATTCATACACTTA
Found at i:68089 original size:114 final size:116
Alignment explanation
Indices: 67843--68404 Score: 664
Period size: 114 Copynumber: 4.8 Consensus size: 116
67833 CCATATGGAT
* * *
67843 ATTCATACACTTAGTATGAATCTCTTAA-TGGTTTGCACACAAAGTGCCCAATACGGAAATTCAT
1 ATTCATACACTTAGTATGAATTTCTTAACT-TTTTGCACACAAAGTGCCCAATACGAAAATTCAT
** *
67907 ACACTTAGTACAAATTTCTTAAC--TTTTGCACAAAGAAGTGCCCAATACAGAA
65 A-ACTTAGTATGAATTTCTTAACATTTTTGCAC-ACGAAGTGCCCAATACAGAA
*
67959 ATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCAATACGAAAATCCAT-
1 ATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCAATACGAAAATTCATA
* * *
68023 ACTTAGTACGAATTTCTTAAC-TTTTTGCACACGAAGTGTCCAATACGGAA
66 ACTTAGTATGAATTTCTTAACATTTTTGCACACGAAGTGCCCAATACAGAA
* * *
68073 ATTCATAGACTTAGTATGATTTTCTTAACATTTTTTGCACACGAAGTGCCCAATAC-AGAAATTC
1 ATTCATACACTTAGTATGAATTTCTTAAC--TTTTTGCACACAAAGTGCCCAATACGA-AAATTC
*
68137 ATACACTTAGTATGAATTTCTTAACATTTTTGCACACGAAGTGTCCAATACAGAA
63 ATA-ACTTAGTATGAATTTCTTAACATTTTTGCACACGAAGTGCCCAATACAGAA
* *
68192 ATTCATACACTTAG--TGAATTTCTTAAC--TTTGTACACATAAGTGCCCAATAC-AGAAATTAA
1 ATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACA-AAGTGCCCAATACGA-AAATTCA
* * * * *
68252 TACACTTAGTATGAATATCTTATCTTTTTTGAACACCAAGTGCCCAATAC-GAAA
64 TA-ACTTAGTATGAATTTCTTAACATTTTTGCACACGAAGTGCCCAATACAG-AA
* * * * * * *
68306 ATTCATATACTCA-TATGAATTTCTTAATATTTTTGCACACGAGGTGCCCAATATGGAAATTCAT
1 ATTCATACACTTAGTATGAATTTCTTAA-CTTTTTGCACACAAAGTGCCCAATACGAAAATTCAT
68370 ACACTTAGTATGAATTTCTTAACATTTTTGCACAC
65 A-ACTTAGTATGAATTTCTTAACATTTTTGCACAC
68405 TTAGTGCCAT
Statistics
Matches: 392, Mismatches: 38, Indels: 31
0.85 0.08 0.07
Matches are distributed among these distances:
113 9 0.02
114 142 0.36
115 21 0.05
116 89 0.23
117 62 0.16
118 28 0.07
119 41 0.10
ACGTcount: A:0.35, C:0.20, G:0.12, T:0.33
Consensus pattern (116 bp):
ATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCAATACGAAAATTCATA
ACTTAGTATGAATTTCTTAACATTTTTGCACACGAAGTGCCCAATACAGAA
Found at i:68367 original size:172 final size:172
Alignment explanation
Indices: 67843--68392 Score: 682
Period size: 172 Copynumber: 3.2 Consensus size: 172
67833 CCATATGGAT
* * *
67843 ATTCATACACTTAGTATGAATCTCTTAATGGTTTGCACACAAAGTGCCCAATACGGAAATTCATA
1 ATTCATACACTTAG-ATGAATTTCTTAA--CTTTGTACACAAAGTGCCCAATACGGAAATTCATA
** *
67908 CACTTAGTACAAATTTCTTAAC--TTTTGCACAAAGAAGTGCCCAATACAGAAATTCATACACTT
63 CACTTAGTATGAATTTCTTAACTTTTTTGCAC-ACGAAGTGCCCAATACAGAAATTCATACACTT
* * *
67971 AGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCAATACGAAA
127 AGTATGAATTTCTTAAATTTTTGCACACGAAGTGCCCAATACGGAA
* * * * *
68017 ATCCAT--ACTTAGTACGAATTTCTTAACTTTTTGCACACGAAGTGTCCAATACGGAAATTCATA
1 ATTCATACACTTAG-ATGAATTTCTTAAC--TTTGTACACAAAGTGCCCAATACGGAAATTCATA
* *
68080 GACTTAGTATGATTTTCTTAACATTTTTTGCACACGAAGTGCCCAATACAGAAATTCATACACTT
63 CACTTAGTATGAATTTCTTAAC-TTTTTTGCACACGAAGTGCCCAATACAGAAATTCATACACTT
* *
68145 AGTATGAATTTCTTAACATTTTTGCACACGAAGTGTCCAATACAGAA
127 AGTATGAATTTCTTAA-ATTTTTGCACACGAAGTGCCCAATACGGAA
* *
68192 ATTCATACACTTAG-TGAATTTCTTAACTTTGTACACATAAGTGCCCAATACAGAAATTAATACA
1 ATTCATACACTTAGATGAATTTCTTAACTTTGTACACA-AAGTGCCCAATACGGAAATTCATACA
* * * * * *
68256 CTTAGTATGAATATCTTATCTTTTTTGAACACCAAGTGCCCAATAC-GAAAATTCATATACTCA-
65 CTTAGTATGAATTTCTTAACTTTTTTGCACACGAAGTGCCCAATACAG-AAATTCATACACTTAG
* *
68319 TATGAATTTCTTAATATTTTTGCACACGAGGTGCCCAATATGGAA
129 TATGAATTTCTTAA-ATTTTTGCACACGAAGTGCCCAATACGGAA
68364 ATTCATACACTTAGTATGAATTTCTTAAC
1 ATTCATACACTTAG-ATGAATTTCTTAAC
68393 ATTTTTGCAC
Statistics
Matches: 328, Mismatches: 36, Indels: 24
0.85 0.09 0.06
Matches are distributed among these distances:
172 123 0.38
173 45 0.14
174 104 0.32
175 50 0.15
177 6 0.02
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.33
Consensus pattern (172 bp):
ATTCATACACTTAGATGAATTTCTTAACTTTGTACACAAAGTGCCCAATACGGAAATTCATACAC
TTAGTATGAATTTCTTAACTTTTTTGCACACGAAGTGCCCAATACAGAAATTCATACACTTAGTA
TGAATTTCTTAAATTTTTGCACACGAAGTGCCCAATACGGAA
Found at i:68431 original size:59 final size:59
Alignment explanation
Indices: 67843--68404 Score: 704
Period size: 58 Copynumber: 9.7 Consensus size: 59
67833 CCATATGGAT
* * * *
67843 ATTCATACACTTAGTATGAATCTCTT-A-ATGGTTTGCACACAAAGTGCCCAATACGGAA
1 ATTCATACACTTAGTATGAATTTCTTAACAT-TTTTGCACACGAAGTGCCCAATACAGAA
** *
67901 ATTCATACACTTAGTACAAATTTCTTAAC--TTTTGCACAAAGAAGTGCCCAATACAGAA
1 ATTCATACACTTAGTATGAATTTCTTAACATTTTTGCAC-ACGAAGTGCCCAATACAGAA
*
67959 ATTCATACACTTAGTATGAATTTCTTAAC-TTTTTGCACACAAAGTGCCCAATAC-GAAA
1 ATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACGAAGTGCCCAATACAG-AA
* * * *
68017 ATCCAT--ACTTAGTACGAATTTCTTAAC-TTTTTGCACACGAAGTGTCCAATACGGAA
1 ATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACGAAGTGCCCAATACAGAA
* *
68073 ATTCATAGACTTAGTATGATTTTCTTAACATTTTTTGCACACGAAGTGCCCAATACAGAA
1 ATTCATACACTTAGTATGAATTTCTTAACA-TTTTTGCACACGAAGTGCCCAATACAGAA
*
68133 ATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACGAAGTGTCCAATACAGAA
1 ATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACGAAGTGCCCAATACAGAA
* * *
68192 ATTCATACACTTAG--TGAATTTCTTAAC-TTTGTACACA-TAAGTGCCCAATACAGAA
1 ATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACGAAGTGCCCAATACAGAA
* * * * * *
68247 ATTAATACACTTAGTATGAATATCTTATCTTTTTTGAACACCAAGTGCCCAATAC-GAAA
1 ATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACGAAGTGCCCAATACAG-AA
* * * * **
68306 ATTCATATACTCA-TATGAATTTCTTAATATTTTTGCACACGAGGTGCCCAATATGGAA
1 ATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACGAAGTGCCCAATACAGAA
68364 ATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACAC
1 ATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACAC
68405 TTAGTGCCAT
Statistics
Matches: 439, Mismatches: 48, Indels: 33
0.84 0.09 0.06
Matches are distributed among these distances:
55 29 0.07
56 58 0.13
57 33 0.08
58 161 0.37
59 103 0.23
60 55 0.13
ACGTcount: A:0.35, C:0.20, G:0.12, T:0.33
Consensus pattern (59 bp):
ATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACGAAGTGCCCAATACAGAA
Found at i:71725 original size:61 final size:64
Alignment explanation
Indices: 71625--71759 Score: 186
Period size: 61 Copynumber: 2.1 Consensus size: 64
71615 TGAGCTTATG
*
71625 CTCTAGTGCTAATCTGGATATGACACATAAAGTTATGCCCACCACCTACA-CTA-TGT-TTACA
1 CTCTAGTGCTAATCCGGATATGACACATAAAGTTATGCCCACCACCTACACCTAGTGTCTTACA
* * * *
71686 CTCTAGTGCTGATCCGGATATGACATATAAGGTTGTGCCCACCACCTACACCTAGTGTCCTTACA
1 CTCTAGTGCTAATCCGGATATGACACATAAAGTTATGCCCACCACCTACACCTAGTGT-CTTACA
*
71751 CACTAGTGC
1 CTCTAGTGC
71760 AAGTATAAAC
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
61 45 0.70
62 3 0.05
63 3 0.05
65 13 0.20
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.28
Consensus pattern (64 bp):
CTCTAGTGCTAATCCGGATATGACACATAAAGTTATGCCCACCACCTACACCTAGTGTCTTACA
Found at i:71939 original size:22 final size:22
Alignment explanation
Indices: 71914--71956 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
71904 CAAAATATCA
* *
71914 TTCATGTTAAATATCATATATG
1 TTCATGATAAACATCATATATG
71936 TTCATGATAAACATCATATAT
1 TTCATGATAAACATCATATAT
71957 AATGATCAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.40, C:0.12, G:0.07, T:0.42
Consensus pattern (22 bp):
TTCATGATAAACATCATATATG
Found at i:77061 original size:19 final size:19
Alignment explanation
Indices: 77033--77070 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
77023 AGAGGTGACC
*
77033 CATTTATTTATTTTTCTTT
1 CATTTATTTACTTTTCTTT
*
77052 CATTTCTTTACTTTTCTTT
1 CATTTATTTACTTTTCTTT
77071 AGTTTTAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.13, C:0.16, G:0.00, T:0.71
Consensus pattern (19 bp):
CATTTATTTACTTTTCTTT
Done.