Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000805.1 Hibiscus syriacus cultivar Beakdansim tig00001563_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: 101862
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.31
Found at i:113 original size:42 final size:42
Alignment explanation
Indices: 54--152 Score: 146
Period size: 42 Copynumber: 2.4 Consensus size: 42
44 ACCCCCACTT
* * * *
54 CGAGAGCCATCACCTGATCGAGTCGATTCTACAG-CTCGACAC
1 CGAGAGCCATTACCTGATCGAGCCGATTATAC-GCCTCCACAC
96 CGAGAGCCATTACCTGATCGAGCCGATTATACGCCTCCACAC
1 CGAGAGCCATTACCTGATCGAGCCGATTATACGCCTCCACAC
138 CGAGAGCCATTACCT
1 CGAGAGCCATTACCT
153 ATTCCATCAC
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
41 1 0.02
42 51 0.98
ACGTcount: A:0.26, C:0.34, G:0.20, T:0.19
Consensus pattern (42 bp):
CGAGAGCCATTACCTGATCGAGCCGATTATACGCCTCCACAC
Found at i:288 original size:21 final size:21
Alignment explanation
Indices: 264--313 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
254 GTCAGGGTAG
* *
264 TTACGTGATGAGGTTAGTGCT
1 TTACGTGATGAGGTCAGTACT
*
285 TTACGTGATGAGGTCGGTACT
1 TTACGTGATGAGGTCAGTACT
306 TTACGTGA
1 TTACGTGA
314 CGAAAATGGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.20, C:0.12, G:0.32, T:0.36
Consensus pattern (21 bp):
TTACGTGATGAGGTCAGTACT
Found at i:370 original size:21 final size:21
Alignment explanation
Indices: 330--426 Score: 72
Period size: 21 Copynumber: 4.6 Consensus size: 21
320 TGGTGCATGG
*
330 GTGATGAGGTA-CGGTCTTTAC
1 GTGATGAGGTAGCTGT-TTTAC
* *
351 GTGGTGAGGTAGCTGTTTTAT
1 GTGATGAGGTAGCTGTTTTAC
* * *
372 GCGATGACAGT-GGTGTTTTAC
1 GTGATGA-GGTAGCTGTTTTAC
* * **
393 GTGGTGAGGTATCTACTTTAC
1 GTGATGAGGTAGCTGTTTTAC
414 GTGATGAGGTAGC
1 GTGATGAGGTAGC
427 CGCTCTACGT
Statistics
Matches: 56, Mismatches: 17, Indels: 6
0.71 0.22 0.08
Matches are distributed among these distances:
20 2 0.04
21 49 0.88
22 5 0.09
ACGTcount: A:0.19, C:0.11, G:0.35, T:0.35
Consensus pattern (21 bp):
GTGATGAGGTAGCTGTTTTAC
Found at i:771 original size:16 final size:17
Alignment explanation
Indices: 741--775 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
731 CCTCCTATCG
741 TCAAGAGGTCCCTCTCA
1 TCAAGAGGTCCCTCTCA
758 TCAAGAGG-CCCTCTCA
1 TCAAGAGGTCCCTCTCA
774 TC
1 TC
776 GTTCAAGAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.23, C:0.37, G:0.17, T:0.23
Consensus pattern (17 bp):
TCAAGAGGTCCCTCTCA
Found at i:789 original size:20 final size:20
Alignment explanation
Indices: 714--804 Score: 88
Period size: 20 Copynumber: 4.7 Consensus size: 20
704 GATTCACATG
714 TCATCGTTCAAGAGGCCC-C
1 TCATCGTTCAAGAGGCCCTC
733 TCCTATCG-TCAAGAGGTCCCTC
1 T-C-ATCGTTCAAGAGG-CCCTC
755 TCA----TCAAGAGGCCCTC
1 TCATCGTTCAAGAGGCCCTC
771 TCATCGTTCAAGAGGCCCT-
1 TCATCGTTCAAGAGGCCCTC
*
790 TCCTCCGTTCAAGAG
1 TCAT-CGTTCAAGAG
805 CCCGATTCAC
Statistics
Matches: 62, Mismatches: 1, Indels: 17
0.77 0.01 0.21
Matches are distributed among these distances:
16 8 0.13
17 8 0.13
19 4 0.06
20 32 0.52
21 8 0.13
22 2 0.03
ACGTcount: A:0.21, C:0.35, G:0.20, T:0.24
Consensus pattern (20 bp):
TCATCGTTCAAGAGGCCCTC
Found at i:2348 original size:20 final size:20
Alignment explanation
Indices: 2306--2350 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
2296 GAAAGTCAAA
* * *
2306 TTCGCGTTGCGAATTTTATT
1 TTCGCGTTGCAAATTTGACT
*
2326 TTCGCGTTTCAAATTTGACT
1 TTCGCGTTGCAAATTTGACT
2346 TTCGC
1 TTCGC
2351 AACAATCGCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.16, C:0.20, G:0.18, T:0.47
Consensus pattern (20 bp):
TTCGCGTTGCAAATTTGACT
Found at i:7297 original size:20 final size:20
Alignment explanation
Indices: 7251--7359 Score: 75
Period size: 20 Copynumber: 5.5 Consensus size: 20
7241 CAAAACATTT
* *
7251 GTGTTGCGAAAATAAAA-GC
1 GTGTTGCGAAATTAAAATTC
*
7270 -TATTGCGAAATTAAAATTC
1 GTGTTGCGAAATTAAAATTC
7289 GTGTTGCG-AATTCAAAAATT-
1 GTGTTGCGAAATT--AAAATTC
* **
7309 GAGTTGCGAAAACAAAATTC
1 GTGTTGCGAAATTAAAATTC
* *
7329 GTGTTGCG-ATTTAGAAAATC
1 GTGTTGCGAAATTA-AAATTC
*
7349 TTGTTGCGAAA
1 GTGTTGCGAAA
7360 AGGAAACTTG
Statistics
Matches: 68, Mismatches: 14, Indels: 14
0.71 0.15 0.15
Matches are distributed among these distances:
18 14 0.21
19 13 0.19
20 32 0.47
21 9 0.13
ACGTcount: A:0.38, C:0.11, G:0.21, T:0.30
Consensus pattern (20 bp):
GTGTTGCGAAATTAAAATTC
Found at i:7347 original size:40 final size:40
Alignment explanation
Indices: 7264--7360 Score: 110
Period size: 40 Copynumber: 2.5 Consensus size: 40
7254 TTGCGAAAAT
* **
7264 AAAAGCTA-TTGCGAAATTAAAATTCGTGTTGCGAATTCA
1 AAAATCTAGTTGCGAAAACAAAATTCGTGTTGCGAATTCA
*
7303 AAAAT-TGAGTTGCGAAAACAAAATTCGTGTTGCG-ATTTA
1 AAAATCT-AGTTGCGAAAACAAAATTCGTGTTGCGAATTCA
*
7342 GAAAATCTTGTTGCGAAAA
1 -AAAATCTAGTTGCGAAAA
7361 GGAAACTTGT
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
38 1 0.02
39 9 0.18
40 38 0.78
41 1 0.02
ACGTcount: A:0.39, C:0.11, G:0.20, T:0.30
Consensus pattern (40 bp):
AAAATCTAGTTGCGAAAACAAAATTCGTGTTGCGAATTCA
Found at i:7432 original size:20 final size:20
Alignment explanation
Indices: 7378--7487 Score: 114
Period size: 20 Copynumber: 5.5 Consensus size: 20
7368 TGTGTTTCGT
**
7378 TCGCATTGCGAATTCAGAAA
1 TCGCATTGCGAATTTGGAAA
7398 TCG-AGTTGCGAATTTGGAAA
1 TCGCA-TTGCGAATTTGGAAA
7418 TCGCATTGCGAATTTGGAAA
1 TCGCATTGCGAATTTGGAAA
* * * *
7438 TCACGTTGTGAATTTGAAAA
1 TCGCATTGCGAATTTGGAAA
* *
7458 TCGCGTTGCAAATTTGGAAAA
1 TCGCATTGCGAATTTGG-AAA
*
7479 TCGCGTTGC
1 TCGCATTGC
7488 AAGAAAGAAA
Statistics
Matches: 77, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
19 1 0.01
20 63 0.82
21 13 0.17
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (20 bp):
TCGCATTGCGAATTTGGAAA
Found at i:7438 original size:40 final size:40
Alignment explanation
Indices: 7378--7487 Score: 132
Period size: 40 Copynumber: 2.7 Consensus size: 40
7368 TGTGTTTCGT
** *
7378 TCGCATTGCGAATTCAGAAATCGAGTTGCGAATTTGGAAA
1 TCGCATTGCGAATTTGGAAATCGAGTTGCGAATTTGAAAA
*
7418 TCGCATTGCGAATTTGGAAATC-ACGTTGTGAATTTGAAAA
1 TCGCATTGCGAATTTGGAAATCGA-GTTGCGAATTTGAAAA
* * *
7458 TCGCGTTGCAAATTTGGAAAATCGCGTTGC
1 TCGCATTGCGAATTTGG-AAATCGAGTTGC
7488 AAGAAAGAAA
Statistics
Matches: 59, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
39 1 0.02
40 49 0.83
41 9 0.15
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (40 bp):
TCGCATTGCGAATTTGGAAATCGAGTTGCGAATTTGAAAA
Found at i:12738 original size:20 final size:20
Alignment explanation
Indices: 12713--12750 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
12703 ATACCTCCAT
12713 TATTTTCCGTGTTCGAAAGG
1 TATTTTCCGTGTTCGAAAGG
12733 TATTTTCCGTGTTCGAAA
1 TATTTTCCGTGTTCGAAA
12751 AGGGTGTCAA
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:0.21, C:0.16, G:0.21, T:0.42
Consensus pattern (20 bp):
TATTTTCCGTGTTCGAAAGG
Found at i:29427 original size:21 final size:21
Alignment explanation
Indices: 29386--29489 Score: 149
Period size: 21 Copynumber: 5.0 Consensus size: 21
29376 AATTAGATTG
*
29386 CCCAGGGGGTACAGATT-CCC
1 CCCAGGGGGTACCGATTCCCC
29406 CCCAGGGGGTACCGATTCCCC
1 CCCAGGGGGTACCGATTCCCC
*
29427 CCCAAGGGGTACCGATT-CCC
1 CCCAGGGGGTACCGATTCCCC
* *
29447 CCCAGGGGGAACAGATTCCCC
1 CCCAGGGGGTACCGATTCCCC
*
29468 CCTAGGGGGTACCGATTCCCC
1 CCCAGGGGGTACCGATTCCCC
29489 C
1 C
29490 TGTCTAACGG
Statistics
Matches: 74, Mismatches: 8, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
20 33 0.45
21 41 0.55
ACGTcount: A:0.18, C:0.39, G:0.28, T:0.14
Consensus pattern (21 bp):
CCCAGGGGGTACCGATTCCCC
Found at i:29447 original size:41 final size:41
Alignment explanation
Indices: 29386--29489 Score: 163
Period size: 41 Copynumber: 2.5 Consensus size: 41
29376 AATTAGATTG
* * *
29386 CCCAGGGGGTACAGATTCCCCCCAGGGGGTACCGATTCCCC
1 CCCAGGGGGTACCGATTCCCCCCAGGGGGAACAGATTCCCC
*
29427 CCCAAGGGGTACCGATTCCCCCCAGGGGGAACAGATTCCCC
1 CCCAGGGGGTACCGATTCCCCCCAGGGGGAACAGATTCCCC
*
29468 CCTAGGGGGTACCGATTCCCCC
1 CCCAGGGGGTACCGATTCCCCC
29490 TGTCTAACGG
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 57 1.00
ACGTcount: A:0.18, C:0.39, G:0.28, T:0.14
Consensus pattern (41 bp):
CCCAGGGGGTACCGATTCCCCCCAGGGGGAACAGATTCCCC
Found at i:29490 original size:20 final size:20
Alignment explanation
Indices: 29386--29489 Score: 154
Period size: 20 Copynumber: 5.1 Consensus size: 20
29376 AATTAGATTG
*
29386 CCCAGGGGGTACAGATTCCC
1 CCCAGGGGGTACCGATTCCC
29406 CCCAGGGGGTACCGATTCCCC
1 CCCAGGGGGTACCGATT-CCC
*
29427 CCCAAGGGGTACCGATTCCC
1 CCCAGGGGGTACCGATTCCC
* *
29447 CCCAGGGGGAACAGATTCCC
1 CCCAGGGGGTACCGATTCCC
29467 CCCTAGGGGGTACCGATTCCC
1 CCC-AGGGGGTACCGATTCCC
29488 CC
1 CC
29490 TGTCTAACGG
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
20 39 0.52
21 36 0.48
ACGTcount: A:0.18, C:0.39, G:0.28, T:0.14
Consensus pattern (20 bp):
CCCAGGGGGTACCGATTCCC
Found at i:29828 original size:34 final size:34
Alignment explanation
Indices: 29785--29866 Score: 155
Period size: 34 Copynumber: 2.4 Consensus size: 34
29775 TTTTGTAAAG
29785 GGGAAAGGTTCTAGCTAATCCCGTATAAAAGCTA
1 GGGAAAGGTTCTAGCTAATCCCGTATAAAAGCTA
*
29819 GGGAAAGGTTCTAGCTAATCCCGTGTAAAAGCTA
1 GGGAAAGGTTCTAGCTAATCCCGTATAAAAGCTA
29853 GGGAAAGGTTCTAG
1 GGGAAAGGTTCTAG
29867 TTTAGCCCGG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 47 1.00
ACGTcount: A:0.33, C:0.16, G:0.28, T:0.23
Consensus pattern (34 bp):
GGGAAAGGTTCTAGCTAATCCCGTATAAAAGCTA
Found at i:32254 original size:41 final size:41
Alignment explanation
Indices: 32189--32292 Score: 163
Period size: 41 Copynumber: 2.5 Consensus size: 41
32179 AATCAGATTG
* *
32189 CCCAAGGGGTACAGATTCCTCCCCAGAGGGAACAGATTCCCC
1 CCCAGGGGGTACCGATTCC-CCCCAGAGGGAACAGATTCCCC
*
32231 CCCAGGGGGTACCGATTCCCCCCAGAGGGAACAGATTCCCT
1 CCCAGGGGGTACCGATTCCCCCCAGAGGGAACAGATTCCCC
*
32272 CCCAGGGGGTGCCGATTCCCC
1 CCCAGGGGGTACCGATTCCCC
32293 TTGTCTAACG
Statistics
Matches: 58, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
41 41 0.71
42 17 0.29
ACGTcount: A:0.21, C:0.38, G:0.27, T:0.14
Consensus pattern (41 bp):
CCCAGGGGGTACCGATTCCCCCCAGAGGGAACAGATTCCCC
Found at i:32288 original size:21 final size:20
Alignment explanation
Indices: 32189--32292 Score: 100
Period size: 21 Copynumber: 5.0 Consensus size: 20
32179 AATCAGATTG
* *
32189 CCCAAGGGGTACAGATTCCTC
1 CCCAGGGGGTACCGATTCC-C
* * *
32210 CCCAGAGGGAACAGATTCCCC
1 CCCAGGGGGTACCGATT-CCC
32231 CCCAGGGGGTACCGATTCCC
1 CCCAGGGGGTACCGATTCCC
* * *
32251 CCCAGAGGGAACAGATTCCC
1 CCCAGGGGGTACCGATTCCC
*
32271 TCCCAGGGGGTGCCGATTCCC
1 -CCCAGGGGGTACCGATTCCC
32292 C
1 C
32293 TTGTCTAACG
Statistics
Matches: 68, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
20 21 0.31
21 45 0.66
22 2 0.03
ACGTcount: A:0.21, C:0.38, G:0.27, T:0.14
Consensus pattern (20 bp):
CCCAGGGGGTACCGATTCCC
Found at i:33574 original size:18 final size:18
Alignment explanation
Indices: 33551--33594 Score: 88
Period size: 18 Copynumber: 2.4 Consensus size: 18
33541 TTACTTAAGA
33551 AGAATAACCCTGAATTCT
1 AGAATAACCCTGAATTCT
33569 AGAATAACCCTGAATTCT
1 AGAATAACCCTGAATTCT
33587 AGAATAAC
1 AGAATAAC
33595 AAAATTCCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.43, C:0.20, G:0.11, T:0.25
Consensus pattern (18 bp):
AGAATAACCCTGAATTCT
Found at i:35756 original size:17 final size:17
Alignment explanation
Indices: 35734--35768 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
35724 ATATGTTATC
35734 AAAAAGGCCTTTTCCGA
1 AAAAAGGCCTTTTCCGA
35751 AAAAAGGCCTTTTCCGA
1 AAAAAGGCCTTTTCCGA
35768 A
1 A
35769 GGAGAGTTAA
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:0.37, C:0.23, G:0.17, T:0.23
Consensus pattern (17 bp):
AAAAAGGCCTTTTCCGA
Found at i:37051 original size:116 final size:116
Alignment explanation
Indices: 36810--37077 Score: 311
Period size: 116 Copynumber: 2.3 Consensus size: 116
36800 CAGCAAGGAC
* *
36810 TTGACAACATCCATCGTACAAGGAGGTGGATCAACATTTCTGGGGAATGGTTCATAAAAAGAAGA
1 TTGAC-ACATCCATCGCACAAGGAGGTGGATCAACATTTCTGAGGAATGGTTCATAAAAAGAAGA
* * * * * *
36875 ACTCATCCAACGAATGAGAAAAAATTTATAATGAGAAGAACCTATTTAGAAC
65 ACTCATCCAACGAAGGAGAAAAAATTCAAAATGAGAAGAACCTATTCAAAAA
* * * * ** *
36927 TCGTCACATCCATCGCCCAAGGAGATGGATCAACATTTCTGAGGAATGGTTCATAATGATAAGAA
1 TTGACACATCCATCGCACAAGGAGGTGGATCAACATTTCTGAGGAATGGTTCATAAAAAGAAGAA
* * * * * *
36992 CTCATCCGACGAGGGAGAAGAAGTTCAAAATGAGAAGAACTTGTTCAAAAA
66 CTCATCCAACGAAGGAGAAAAAATTCAAAATGAGAAGAACCTATTCAAAAA
* * *
37043 TTGACACATTCATCACACAAAGAGGTGGATCAACA
1 TTGACACATCCATCGCACAAGGAGGTGGATCAACA
37078 AAGAGTTTGT
Statistics
Matches: 123, Mismatches: 28, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
116 120 0.98
117 3 0.02
ACGTcount: A:0.40, C:0.18, G:0.21, T:0.22
Consensus pattern (116 bp):
TTGACACATCCATCGCACAAGGAGGTGGATCAACATTTCTGAGGAATGGTTCATAAAAAGAAGAA
CTCATCCAACGAAGGAGAAAAAATTCAAAATGAGAAGAACCTATTCAAAAA
Found at i:39816 original size:38 final size:36
Alignment explanation
Indices: 39774--39967 Score: 153
Period size: 36 Copynumber: 5.3 Consensus size: 36
39764 AAACAAAAAC
* *
39774 TTTATCTCACTTGAGATAGTTTCTCTTTAAACAAACTT
1 TTTATCTCACTTGAGATAGTTTCTCTTGAAATAAA--T
*
39812 TTTATCTTC-CTTGAGATAGTTTCCCTTGAAATAAAT
1 TTTATC-TCACTTGAGATAGTTTCTCTTGAAATAAAT
* ** * * * * *
39848 TTTGTCTCACTCAAGACATTTTTTCCTCAAA-ATAAT
1 TTTATCTCACTTGAGATAGTTTCTCTTGAAATA-AAT
* * *
39884 TTTTTCTCACTTAAGGTAGTTTCTCTTGAAATAAAT
1 TTTATCTCACTTGAGATAGTTTCTCTTGAAATAAAT
* * *
39920 TTTATCTCACTCGAGA-CGTTT-TCCTTGAAATATTAT
1 TTTATCTCACTTGAGATAGTTTCT-CTTGAAATA-AAT
39956 TTTATCTCACTT
1 TTTATCTCACTT
39968 AAGCTCTGGA
Statistics
Matches: 123, Mismatches: 27, Indels: 14
0.75 0.16 0.09
Matches are distributed among these distances:
34 1 0.01
35 16 0.13
36 74 0.60
37 1 0.01
38 29 0.24
39 2 0.02
ACGTcount: A:0.27, C:0.19, G:0.09, T:0.45
Consensus pattern (36 bp):
TTTATCTCACTTGAGATAGTTTCTCTTGAAATAAAT
Found at i:39958 original size:72 final size:71
Alignment explanation
Indices: 39811--39970 Score: 189
Period size: 72 Copynumber: 2.2 Consensus size: 71
39801 TAAACAAACT
* * * *
39811 TTTTATCTTC-CTTGAGATAGTTTCCCTTGAAATAAATTTTGTCTCACTCAAGACATTTTTTCCT
1 TTTTATC-TCACTTAAGGTAGTTTCCCTTGAAATAAATTTTATCTCACTCAAGACA-GTTTTCCT
39875 CAAAATAA
64 CAAAATAA
* * * *
39883 TTTTTTCTCACTTAAGGTAGTTTCTCTTGAAATAAATTTTATCTCACTCGAGAC-GTTTTCCTTG
1 TTTTATCTCACTTAAGGTAGTTTCCCTTGAAATAAATTTTATCTCACTCAAGACAGTTTTCC-TC
*
39947 AAATATTA
65 AAA-ATAA
39955 TTTTATCTCACTTAAG
1 TTTTATCTCACTTAAG
39971 CTCTGGAAAC
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
70 6 0.08
71 6 0.08
72 63 0.84
ACGTcount: A:0.28, C:0.18, G:0.09, T:0.45
Consensus pattern (71 bp):
TTTTATCTCACTTAAGGTAGTTTCCCTTGAAATAAATTTTATCTCACTCAAGACAGTTTTCCTCA
AAATAA
Found at i:40905 original size:20 final size:20
Alignment explanation
Indices: 40869--40906 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
40859 ATCCTATTCC
**
40869 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
40889 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
40907 GTGAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:57469 original size:3 final size:3
Alignment explanation
Indices: 57463--57502 Score: 55
Period size: 3 Copynumber: 13.3 Consensus size: 3
57453 AAAGTAAAAA
*
57463 AAT AAT AAT AAT AAT AAAT AA- AAT AAT AAA AAT AAT AAT A
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT A
57503 TAAAACCCGG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 28 0.85
4 3 0.09
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:57485 original size:21 final size:21
Alignment explanation
Indices: 57457--57507 Score: 77
Period size: 21 Copynumber: 2.4 Consensus size: 21
57447 CCTGAAAAAG
*
57457 TAAA-AAAATAATAATAATAA
1 TAAATAAAATAATAAAAATAA
57477 TAAATAAAATAATAAAAATAA
1 TAAATAAAATAATAAAAATAA
57498 TAATATAAAA
1 TAA-ATAAAA
57508 CCCGGTCAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
20 4 0.14
21 18 0.64
22 6 0.21
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (21 bp):
TAAATAAAATAATAAAAATAA
Found at i:57490 original size:24 final size:24
Alignment explanation
Indices: 57457--57502 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
57447 CCTGAAAAAG
*
57457 TAAAAAAATAATAATAATAATAAA
1 TAAAAAAATAAAAATAATAATAAA
*
57481 TAAAATAATAAAAATAATAATA
1 TAAAAAAATAAAAATAATAATA
57503 TAAAACCCGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (24 bp):
TAAAAAAATAAAAATAATAATAAA
Found at i:57877 original size:84 final size:84
Alignment explanation
Indices: 57736--57907 Score: 238
Period size: 84 Copynumber: 2.0 Consensus size: 84
57726 CGAATTCGTC
* *
57736 AGGTCTTTGGTTGACAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAAT
1 AGGTCTTTGGTTGACAAATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAAT
*
57801 TGAGCATAGTCAAACTCGA
66 TGAGCATAATCAAACTCGA
* * * * *
57820 AGGTCTTTGGTTGGA-AAATAACCCTTCTTGCCTTGAGCTATGTTGCAAATGATGTGCCTTGGAG
1 AGGTCTTTGGTT-GACAAATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAA
* *
57884 TTGAGTATAATCCAACTCGA
65 TTGAGCATAATCAAACTCGA
57904 AGGT
1 AGGT
57908 TTGGTGTTTC
Statistics
Matches: 77, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
84 75 0.97
85 2 0.03
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (84 bp):
AGGTCTTTGGTTGACAAATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAAT
TGAGCATAATCAAACTCGA
Found at i:57987 original size:37 final size:37
Alignment explanation
Indices: 57946--58110 Score: 179
Period size: 37 Copynumber: 4.7 Consensus size: 37
57936 TGATATTTTT
57946 TTTTGTTTCAAGAGAAACTATCTCAAGGGAGGCAAAA
1 TTTTGTTTCAAGAGAAACTATCTCAAGGGAGGCAAAA
* *
57983 TTTTGTTTCAAGAGAAATTATCTCAAGGAAGGCAAAA
1 TTTTGTTTCAAGAGAAACTATCTCAAGGGAGGCAAAA
58020 TTTTGTTTCAAGAGAAACATAT-TCAA---A-G----A
1 TTTTGTTTCAAGAGAAAC-TATCTCAAGGGAGGCAAAA
* * * *
58049 TTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTTTGTTTCAAGAGAAACTATCTCAAGGGAGGCAAAA
* *
58086 -TTTGTTTCAAGGGAAACTGTCTCAA
1 TTTTGTTTCAAGAGAAACTATCTCAA
58111 AATTTGTTTC
Statistics
Matches: 112, Mismatches: 6, Indels: 21
0.81 0.04 0.15
Matches are distributed among these distances:
28 2 0.02
29 22 0.20
32 1 0.01
33 1 0.01
34 1 0.01
36 25 0.22
37 57 0.51
38 3 0.03
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (37 bp):
TTTTGTTTCAAGAGAAACTATCTCAAGGGAGGCAAAA
Found at i:58097 original size:36 final size:36
Alignment explanation
Indices: 58050--58423 Score: 289
Period size: 36 Copynumber: 11.3 Consensus size: 36
58040 ATTCAAAGAT
58050 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
58086 TTTGTTTCAAGGGAAACTGTCT---------CAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
58113 TTTGTTTCAAGGGAAACTGTCT---------CAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
58140 TTTGTTTCAAGGGAAACTGTCT---------CAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
*
58167 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGAAAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* * *
58203 TTTGTTTCAAGAGAAACTGTCTCAAAAGTGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* ** * * *
58239 CTTAG-TTCTAAAAGAAACTGTCTCTAGGGAGACGAAA
1 -TTTGTTTC-AAGGGAAACTGTCTCAAGAGAGACAAAA
* * * * * *
58276 TTTATTTAAAGGAAAACATAT-T-TA-A-AG----AT
1 TTTGTTTCAAGGGAAAC-TGTCTCAAGAGAGACAAAA
58305 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* *
58341 TTTGTTTCAATGGAAACTGTCTCAAGAGAGGCAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* *
58377 TTTGTTTCAAGGGAAATTGTCTCAAGAGAGGCAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
58413 TTTGTTTCAAG
1 TTTGTTTCAAG
58424 AGAGACAAAA
Statistics
Matches: 286, Mismatches: 31, Indels: 42
0.80 0.09 0.12
Matches are distributed among these distances:
27 81 0.28
28 2 0.01
29 16 0.06
30 1 0.00
31 1 0.00
32 2 0.01
33 2 0.01
35 2 0.01
36 150 0.52
37 29 0.10
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.29
Consensus pattern (36 bp):
TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
Found at i:58119 original size:27 final size:27
Alignment explanation
Indices: 58081--58191 Score: 222
Period size: 27 Copynumber: 4.1 Consensus size: 27
58071 TCAAGAGAGA
58081 CAAAATTTGTTTCAAGGGAAACTGTCT
1 CAAAATTTGTTTCAAGGGAAACTGTCT
58108 CAAAATTTGTTTCAAGGGAAACTGTCT
1 CAAAATTTGTTTCAAGGGAAACTGTCT
58135 CAAAATTTGTTTCAAGGGAAACTGTCT
1 CAAAATTTGTTTCAAGGGAAACTGTCT
58162 CAAAATTTGTTTCAAGGGAAACTGTCT
1 CAAAATTTGTTTCAAGGGAAACTGTCT
58189 CAA
1 CAA
58192 GAGAGAAAAA
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 84 1.00
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.32
Consensus pattern (27 bp):
CAAAATTTGTTTCAAGGGAAACTGTCT
Found at i:58187 original size:117 final size:120
Alignment explanation
Indices: 58015--58229 Score: 357
Period size: 117 Copynumber: 1.8 Consensus size: 120
58005 TCAAGGAAGG
58015 CAAAATTTTGTTTCAAGAGAAACATATTCAAAGATTTTGTTTCAAGGGAAACTGTCTCAAGAGAG
1 CAAAATTTTGTTTCAAGAGAAACATATTCAAAGATTTTGTTTCAAGGGAAACTGTCTCAAGAGAG
* *
58080 ACAAAATTTGTTTCAAGGGAAACTGTCTCAAAATTTGTTTCAAGGGAAACTGTCT
66 AAAAAATTTGTTTCAAGAGAAACTGTCTCAAAATTTGTTTCAAGGGAAACTGTCT
* *
58135 CAAAA-TTTGTTTCAAGGGAAAC-TGTCTCAAA-A-TTTGTTTCAAGGGAAACTGTCTCAAGAGA
1 CAAAATTTTGTTTCAAGAGAAACATAT-TCAAAGATTTTGTTTCAAGGGAAACTGTCTCAAGAGA
58196 GAAAAAATTTGTTTCAAGAGAAACTGTCTCAAAA
65 GAAAAAATTTGTTTCAAGAGAAACTGTCTCAAAA
58230 GTGACAAAAC
Statistics
Matches: 90, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
117 61 0.68
118 3 0.03
119 21 0.23
120 5 0.06
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.30
Consensus pattern (120 bp):
CAAAATTTTGTTTCAAGAGAAACATATTCAAAGATTTTGTTTCAAGGGAAACTGTCTCAAGAGAG
AAAAAATTTGTTTCAAGAGAAACTGTCTCAAAATTTGTTTCAAGGGAAACTGTCT
Found at i:58392 original size:102 final size:102
Alignment explanation
Indices: 58203--58388 Score: 241
Period size: 101 Copynumber: 1.8 Consensus size: 102
58193 AGAGAAAAAA
* * *
58203 TTTGTTTCAAGAGAAACTGTCTCAAAAGTGACAAAACTTAGTTCTAAAAGAAACTGTCTCTAGGG
1 TTTGTTTCAAGAGAAACTGTCTCAAAAGAGACAAAACTTAGTTCTAAAAGAAACTGTCTCAAGAG
*
58268 AGACGAAATTTATTTAAAGGAAAACATATTTAAAGAT
66 AGACAAAATTTATTTAAAGGAAAACATATTTAAAGAT
* * * **
58305 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA-TTTGTT-TCAATGGAAACTGTCTCAAGA
1 TTTGTTTCAAGAGAAACTGTCTCAAAAGAGACAAAACTTAGTTCT-AAAAGAAACTGTCTCAAGA
* * *
58368 GAGGCAAAATTTGTTTCAAGG
65 GAGACAAAATTTATTTAAAGG
58389 GAAATTGTCT
Statistics
Matches: 71, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
100 1 0.01
101 37 0.52
102 33 0.46
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.30
Consensus pattern (102 bp):
TTTGTTTCAAGAGAAACTGTCTCAAAAGAGACAAAACTTAGTTCTAAAAGAAACTGTCTCAAGAG
AGACAAAATTTATTTAAAGGAAAACATATTTAAAGAT
Found at i:58422 original size:21 final size:21
Alignment explanation
Indices: 58362--58441 Score: 91
Period size: 21 Copynumber: 4.0 Consensus size: 21
58352 GGAAACTGTC
58362 TCAAGAGAGGCAAAATTTGTT
1 TCAAGAGAGGCAAAATTTGTT
*
58383 TC-A-AG-GG--AAA-TTGTC
1 TCAAGAGAGGCAAAATTTGTT
58398 TCAAGAGAGGCAAAATTTGTT
1 TCAAGAGAGGCAAAATTTGTT
*
58419 TCAAGAGAGACAAAACTTTGTT
1 TCAAGAGAGGCAAAA-TTTGTT
58441 T
1 T
58442 TGAGTAAATT
Statistics
Matches: 49, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
15 6 0.12
16 4 0.08
17 2 0.04
18 4 0.08
19 2 0.04
20 4 0.08
21 20 0.41
22 7 0.14
ACGTcount: A:0.38, C:0.11, G:0.23, T:0.29
Consensus pattern (21 bp):
TCAAGAGAGGCAAAATTTGTT
Found at i:58811 original size:116 final size:116
Alignment explanation
Indices: 58607--58818 Score: 379
Period size: 116 Copynumber: 1.8 Consensus size: 116
58597 TTATGGGCAG
*
58607 GATTCCCTACGTCGTGAAGTTGAAACCGTGGATGGCCCCTTCGTTGTGAAGTTGAGCCTTGAATT
1 GATTCCCTACGTCGTGAAGTTGAAACCGTGGATGGCCCCTTCGTTGTGAAGTTAAGCCTTGAATT
*
58672 GGATATCCTTCGTCGTGAAGTTGAAATCCAATGAATGTTACTGGTGAGCAC
66 GAATATCCTTCGTCGTGAAGTTGAAATCCAATGAATGTTACTGGTGAGCAC
* * *
58723 GATTCCCTTCGTCGTGAAGTTGAAATCGTGGATGGCCCCTTCGTTGTGAAGTTAAGCCTTGACTT
1 GATTCCCTACGTCGTGAAGTTGAAACCGTGGATGGCCCCTTCGTTGTGAAGTTAAGCCTTGAATT
58788 GAATATCCTTCGTCGTGAAGTTGAAATCCAA
66 GAATATCCTTCGTCGTGAAGTTGAAATCCAA
58819 GCTTGTATTG
Statistics
Matches: 91, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
116 91 1.00
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.31
Consensus pattern (116 bp):
GATTCCCTACGTCGTGAAGTTGAAACCGTGGATGGCCCCTTCGTTGTGAAGTTAAGCCTTGAATT
GAATATCCTTCGTCGTGAAGTTGAAATCCAATGAATGTTACTGGTGAGCAC
Found at i:59031 original size:43 final size:43
Alignment explanation
Indices: 58960--59042 Score: 130
Period size: 43 Copynumber: 1.9 Consensus size: 43
58950 CTTGTGTAGA
*
58960 TGGGCACGATATCCTTCGTCATGAAGTTGAAATCGTGGATTTG
1 TGGGCACGATATCCTCCGTCATGAAGTTGAAATCGTGGATTTG
* * *
59003 TGGGCATGATATCCTCCGTCTTGGAGTTGAAATCGTGGAT
1 TGGGCACGATATCCTCCGTCATGAAGTTGAAATCGTGGAT
59043 GGCTCATTCG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.22, C:0.17, G:0.29, T:0.33
Consensus pattern (43 bp):
TGGGCACGATATCCTCCGTCATGAAGTTGAAATCGTGGATTTG
Found at i:65579 original size:21 final size:21
Alignment explanation
Indices: 65527--65588 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
65517 GAAAAAGTAA
65527 AATAAAAATATTAAT-AAT-AAT
1 AATAAAAATA--AATAAATAAAT
*
65548 AATAATAATAAATAAATAAAT
1 AATAAAAATAAATAAATAAAT
*
65569 TATAAAAATAAA-AATATAAA
1 AATAAAAATAAATAA-ATAAA
65589 ATCTGATAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
19 3 0.09
20 5 0.14
21 27 0.77
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (21 bp):
AATAAAAATAAATAAATAAAT
Found at i:65583 original size:15 final size:14
Alignment explanation
Indices: 65525--65589 Score: 58
Period size: 15 Copynumber: 4.2 Consensus size: 14
65515 CTGAAAAAGT
65525 AAAATAAAAATATTA
1 AAAATAAAAATA-TA
* *
65540 ATAATAATAATAATA
1 AAAATAAAAAT-ATA
65555 ATAAATAAATAAATTATA
1 A-AAAT-AA-AAA-TATA
65573 AAAATAAAAATATA
1 AAAATAAAAATATA
65587 AAA
1 AAA
65590 TCTGATAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
14 7 0.17
15 15 0.37
16 6 0.15
17 6 0.15
18 6 0.15
19 1 0.02
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (14 bp):
AAAATAAAAATATA
Found at i:67545 original size:21 final size:22
Alignment explanation
Indices: 67510--67568 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 22
67500 TTATTCATTA
*
67510 AATTTTTTATTATTTAAGTAATT
1 AATTATTT-TTATTTAAGTAATT
* *
67533 AATTA-TTTTATTTTAGTATTT
1 AATTATTTTTATTTAAGTAATT
*
67554 ATTTATTTTTATTTA
1 AATTATTTTTATTTA
67569 TTATTTGATT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
21 16 0.53
22 10 0.33
23 4 0.13
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (22 bp):
AATTATTTTTATTTAAGTAATT
Found at i:67573 original size:21 final size:22
Alignment explanation
Indices: 67519--67582 Score: 62
Period size: 21 Copynumber: 3.0 Consensus size: 22
67509 AAATTTTTTA
* * *
67519 TTATTTAAGTAATTAATTA-TT
1 TTATTTTAGTATTTGATTATTT
67540 TTATTTTAGTATTT-ATTTATTT
1 TTATTTTAGTATTTGA-TTATTT
*
67562 TTA-TTTATTATTTGATTATTT
1 TTATTTTAGTATTTGATTATTT
67583 AATTGTAAAC
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
20 1 0.03
21 30 0.81
22 6 0.16
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (22 bp):
TTATTTTAGTATTTGATTATTT
Found at i:67782 original size:14 final size:14
Alignment explanation
Indices: 67759--67789 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
67749 ATTATTTAAA
67759 TTATTAGAATTTAT
1 TTATTAGAATTTAT
*
67773 TTATTTGAATTTAT
1 TTATTAGAATTTAT
67787 TTA
1 TTA
67790 AATAATTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.61
Consensus pattern (14 bp):
TTATTAGAATTTAT
Found at i:68616 original size:2 final size:2
Alignment explanation
Indices: 68609--68656 Score: 69
Period size: 2 Copynumber: 24.0 Consensus size: 2
68599 ATAAAATGAC
* *
68609 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT TT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
68651 TT AT AT
1 AT AT AT
68657 TAAATATGTG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (2 bp):
AT
Found at i:73042 original size:27 final size:29
Alignment explanation
Indices: 72977--73222 Score: 121
Period size: 27 Copynumber: 8.8 Consensus size: 29
72967 CCAGAATTTA
*
72977 GATTGAAGCACAGAGGTGCTCAGTCA-TA
1 GATTGAAGCACAGAGGTGCTCAGTCACTC
**
73005 G-TTGGCTGCACAGAGGTG-TCAGTC-CTC
1 GATT-GAAGCACAGAGGTGCTCAGTCACTC
* *
73032 GATTGAAGCACAGAGGTGCCCAATCA-TC
1 GATTGAAGCACAGAGGTGCTCAGTCACTC
* *
73060 --TTAGCTA-CACAGAGGTG-TCAG-CTCTC
1 GATT-G-AAGCACAGAGGTGCTCAGTCACTC
** * *
73086 GGCTGAAGCACAGAGGTGCTCAGTCAATTTT
1 GATTGAAGCACAGAGGTGCTCAGTC-A-CTC
** * *
73117 TTTTAAACTGCACAGAGGTG-TCAGT-TCTC
1 GATTGAA--GCACAGAGGTGCTCAGTCACTC
*
73146 GATTGAAGCACAGAGGTGCTCAATCACT-
1 GATTGAAGCACAGAGGTGCTCAGTCACTC
* * *
73174 -TTTGGCTA-CACAGAGGTG-TCAG-CTCTC
1 GATT-G-AAGCACAGAGGTGCTCAGTCACTC
73201 GATTGAAGCACAGAGGTGCTCA
1 GATTGAAGCACAGAGGTGCTCA
73223 ATCGTTAATT
Statistics
Matches: 159, Mismatches: 34, Indels: 50
0.65 0.14 0.21
Matches are distributed among these distances:
25 1 0.01
26 11 0.07
27 71 0.45
28 47 0.30
29 9 0.06
31 4 0.03
32 5 0.03
33 11 0.07
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (29 bp):
GATTGAAGCACAGAGGTGCTCAGTCACTC
Found at i:73047 original size:55 final size:55
Alignment explanation
Indices: 72923--73225 Score: 299
Period size: 55 Copynumber: 5.5 Consensus size: 55
72913 CTTGATTTTA
* ** * * * * * *
72923 GATTGTAGCACAGAGGTGCTCAATCA-TTCCA-ATGCACAGAGGTGCCAGAATTTA
1 GATTGAAGCACAGAGGTGCTCAATCATTTTTAGCTACACAGAGGTGTCAG-CTCTC
* ** * *
72977 GATTGAAGCACAGAGGTGCTCAGTCATAGTTGGCTGCACAGAGGTGTCAG-TCCTC
1 GATTGAAGCACAGAGGTGCTCAATCATTTTTAGCTACACAGAGGTGTCAGCT-CTC
* *
73032 GATTGAAGCACAGAGGTGCCCAATCA-TCTTAGCTACACAGAGGTGTCAGCTCTC
1 GATTGAAGCACAGAGGTGCTCAATCATTTTTAGCTACACAGAGGTGTCAGCTCTC
** * * * *
73086 GGCTGAAGCACAGAGGTGCTCAGTCAATTTTTTTTAAACTGCACAGAGGTGTCAGTTCTC
1 GATTGAAGCACAGAGGTGCTCAATC-A---TTTTT-AGCTACACAGAGGTGTCAGCTCTC
* *
73146 GATTGAAGCACAGAGGTGCTCAATCACTTTTGGCTACACAGAGGTGTCAGCTCTC
1 GATTGAAGCACAGAGGTGCTCAATCATTTTTAGCTACACAGAGGTGTCAGCTCTC
73201 GATTGAAGCACAGAGGTGCTCAATC
1 GATTGAAGCACAGAGGTGCTCAATC
73226 GTTAATTCTA
Statistics
Matches: 206, Mismatches: 33, Indels: 19
0.80 0.13 0.07
Matches are distributed among these distances:
54 68 0.33
55 72 0.35
56 19 0.09
59 4 0.02
60 43 0.21
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (55 bp):
GATTGAAGCACAGAGGTGCTCAATCATTTTTAGCTACACAGAGGTGTCAGCTCTC
Found at i:73159 original size:114 final size:115
Alignment explanation
Indices: 73010--73222 Score: 365
Period size: 114 Copynumber: 1.9 Consensus size: 115
73000 TCATAGTTGG
73010 CTGCACAGAGGTGTCAGTCCTCGATTGAAGCACAGAGGTGCCCAATCA-TCTTAGCTACACAGAG
1 CTGCACAGAGGTGTCAGTCCTCGATTGAAGCACAGAGGTGCCCAATCACTCTTAGCTACACAGAG
*
73074 GTGTCAGCTCTCGGCTGAAGCACAGAGGTGCTCAGTCAATTTTTTTTAAA
66 GTGTCAGCTCTCGACTGAAGCACAGAGGTGCTCAGTCAATTTTTTTTAAA
* * * *
73124 CTGCACAGAGGTGTCAGTTCTCGATTGAAGCACAGAGGTGCTCAATCACTTTTGGCTACACAGAG
1 CTGCACAGAGGTGTCAGTCCTCGATTGAAGCACAGAGGTGCCCAATCACTCTTAGCTACACAGAG
*
73189 GTGTCAGCTCTCGATTGAAGCACAGAGGTGCTCA
66 GTGTCAGCTCTCGACTGAAGCACAGAGGTGCTCA
73223 ATCGTTAATT
Statistics
Matches: 92, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
114 46 0.50
115 46 0.50
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (115 bp):
CTGCACAGAGGTGTCAGTCCTCGATTGAAGCACAGAGGTGCCCAATCACTCTTAGCTACACAGAG
GTGTCAGCTCTCGACTGAAGCACAGAGGTGCTCAGTCAATTTTTTTTAAA
Found at i:91447 original size:41 final size:40
Alignment explanation
Indices: 91402--91513 Score: 107
Period size: 41 Copynumber: 2.7 Consensus size: 40
91392 GATTCTGACT
* * **
91402 ATCGCATTGCGATTTCCCAAATTCGCGTTGCGATTACGTAA
1 ATCGCAATGCGATTACCCAAA-TCGCAATGCGATTACGTAA
***
91443 ATCGCAATGCGAATTAGGTAAATCGCAATGCGATTACGTAA
1 ATCGCAATGCG-ATTACCCAAATCGCAATGCGATTACGTAA
***
91484 ATCGCAATGCGAATTAGGTAAATCGCAATG
1 ATCGCAATGCG-ATTACCCAAATCGCAATG
91514 TGAATTGCGT
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
41 57 0.90
42 6 0.10
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (40 bp):
ATCGCAATGCGATTACCCAAATCGCAATGCGATTACGTAA
Found at i:91518 original size:21 final size:21
Alignment explanation
Indices: 91430--91524 Score: 140
Period size: 21 Copynumber: 4.6 Consensus size: 21
91420 AAATTCGCGT
91430 TGCG-ATTACGTAAATCGCAA
1 TGCGAATTACGTAAATCGCAA
*
91450 TGCGAATTAGGTAAATCGCAA
1 TGCGAATTACGTAAATCGCAA
91471 TGCG-ATTACGTAAATCGCAA
1 TGCGAATTACGTAAATCGCAA
*
91491 TGCGAATTAGGTAAATCGCAA
1 TGCGAATTACGTAAATCGCAA
* *
91512 TGTGAATTGCGTA
1 TGCGAATTACGTA
91525 TTCGCATTGC
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
20 23 0.34
21 44 0.66
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (21 bp):
TGCGAATTACGTAAATCGCAA
Found at i:91536 original size:41 final size:41
Alignment explanation
Indices: 91430--91513 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
91420 AAATTCGCGT
91430 TGCGATTACGTAAATCGCAATGCGAATTAGGTAAATCGCAA
1 TGCGATTACGTAAATCGCAATGCGAATTAGGTAAATCGCAA
91471 TGCGATTACGTAAATCGCAATGCGAATTAGGTAAATCGCAA
1 TGCGATTACGTAAATCGCAATGCGAATTAGGTAAATCGCAA
91512 TG
1 TG
91514 TGAATTGCGT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.25
Consensus pattern (41 bp):
TGCGATTACGTAAATCGCAATGCGAATTAGGTAAATCGCAA
Found at i:93774 original size:19 final size:19
Alignment explanation
Indices: 93746--93852 Score: 90
Period size: 19 Copynumber: 6.2 Consensus size: 19
93736 GGTACTACAA
93746 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAATGC
*
93765 GAAATAAAAATCGCAA--C
1 GAAATGAAAATCGCAATGC
*
93782 G--A-GAGAATCGCAATGC
1 GAAATGAAAATCGCAATGC
93798 GAAATGAAAATCGCAA--C
1 GAAATGAAAATCGCAATGC
* *
93815 G--A-GAGAATCGCAAAGC
1 GAAATGAAAATCGCAATGC
* *
93831 AAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAATGC
93850 GAA
1 GAA
93853 TTTAGTTTCG
Statistics
Matches: 69, Mismatches: 9, Indels: 20
0.70 0.09 0.20
Matches are distributed among these distances:
14 19 0.28
15 2 0.03
16 3 0.04
17 4 0.06
18 2 0.03
19 39 0.57
ACGTcount: A:0.50, C:0.18, G:0.21, T:0.11
Consensus pattern (19 bp):
GAAATGAAAATCGCAATGC
Found at i:93792 original size:14 final size:14
Alignment explanation
Indices: 93773--93827 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
93763 GCGAAATAAA
93773 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
93787 AATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAG
93806 AATCGCAACGAGAG
1 AATCGCAACGAGAG
93820 AATCGCAA
1 AATCGCAA
93828 AGCAAAATGA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.45, C:0.20, G:0.24, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:93796 original size:33 final size:33
Alignment explanation
Indices: 93754--93848 Score: 163
Period size: 33 Copynumber: 2.9 Consensus size: 33
93744 AAGAAATGAA
*
93754 AATCGCAATGCGAAATAAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
93787 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
* *
93820 AATCGCAAAGCAAAATGAAAATCGCAACG
1 AATCGCAATGCGAAATGAAAATCGCAACG
93849 CGAATTTAGT
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 59 1.00
ACGTcount: A:0.48, C:0.19, G:0.21, T:0.12
Consensus pattern (33 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAG
Found at i:93883 original size:19 final size:19
Alignment explanation
Indices: 93848--93942 Score: 105
Period size: 19 Copynumber: 5.3 Consensus size: 19
93838 AAATCGCAAC
*
93848 GCGAATTTAGTTTCGCGTT
1 GCGATTTTAGTTTCGCGTT
93867 GCGATTTTAGTTTCGCGTT
1 GCGATTTTAGTTTCGCGTT
93886 GCGATTTT-G--T--CGTT
1 GCGATTTTAGTTTCGCGTT
93900 GCGATTTTCA-TTTCGCGTT
1 GCGATTTT-AGTTTCGCGTT
*
93919 GCGATTTTCA-TTTCGCATT
1 GCGATTTT-AGTTTCGCGTT
93938 GCGAT
1 GCGAT
93943 AGTCATTTTT
Statistics
Matches: 68, Mismatches: 2, Indels: 12
0.83 0.02 0.15
Matches are distributed among these distances:
14 12 0.18
16 1 0.01
17 1 0.01
18 1 0.01
19 53 0.78
ACGTcount: A:0.13, C:0.18, G:0.24, T:0.45
Consensus pattern (19 bp):
GCGATTTTAGTTTCGCGTT
Found at i:93905 original size:33 final size:33
Alignment explanation
Indices: 93863--93926 Score: 112
Period size: 33 Copynumber: 1.9 Consensus size: 33
93853 TTTAGTTTCG
93863 CGTTGCGATTTT-AGTTTCGCGTTGCGATTTTGT
1 CGTTGCGATTTTCA-TTTCGCGTTGCGATTTTGT
93896 CGTTGCGATTTTCATTTCGCGTTGCGATTTT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTTT
93927 CATTTCGCAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
33 29 0.97
34 1 0.03
ACGTcount: A:0.09, C:0.17, G:0.25, T:0.48
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCGTTGCGATTTTGT
Found at i:93948 original size:19 final size:19
Alignment explanation
Indices: 93907--93950 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
93897 GTTGCGATTT
* **
93907 TCATTTCGCGTTGCGATTT
1 TCATTTCGCATTGCGATAG
93926 TCATTTCGCATTGCGATAG
1 TCATTTCGCATTGCGATAG
93945 TCATTT
1 TCATTT
93951 TTGCCTTCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.16, C:0.20, G:0.18, T:0.45
Consensus pattern (19 bp):
TCATTTCGCATTGCGATAG
Found at i:94068 original size:14 final size:14
Alignment explanation
Indices: 94049--94085 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
94039 CATCAATTAA
94049 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
94063 ACAAATCATCTTTT
1 ACAAATCAACTTTT
94077 ACAAATCAA
1 ACAAATCAA
94086 TTAAACAATC
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:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:95502 original size:21 final size:21
Alignment explanation
Indices: 95436--95502 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
95426 GTGAATCGGG
*
95436 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
95456 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
95478 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
95499 CTCT
1 CTCT
95503 CGATGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:96016 original size:20 final size:19
Alignment explanation
Indices: 95955--96046 Score: 112
Period size: 19 Copynumber: 4.7 Consensus size: 19
95945 TCTGGAACTT
*
95955 AAAATCGCAACGTGAAAAATG
1 AAAATCGCAACGCG--AAATG
**
95976 ACTATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAATG
*
95995 AAAATCGCAACGAGAGAATG
1 AAAATCGCAACGCGA-AATG
*
96015 AAAATCGCAACGCGAAACG
1 AAAATCGCAACGCGAAATG
96034 AAAATCGCAACGC
1 AAAATCGCAACGC
96047 CATTATAGTT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
19 33 0.53
20 18 0.29
21 11 0.18
ACGTcount: A:0.47, C:0.22, G:0.21, T:0.11
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATG
Found at i:96024 original size:39 final size:40
Alignment explanation
Indices: 95955--96045 Score: 130
Period size: 39 Copynumber: 2.3 Consensus size: 40
95945 TCTGGAACTT
* ** *
95955 AAAATCGCAACGTGAAAAATGACTATCGCAACGCGAAATG
1 AAAATCGCAACGAGAAAAATGAAAATCGCAACGCGAAACG
*
95995 AAAATCGCAACGAG-AGAATGAAAATCGCAACGCGAAACG
1 AAAATCGCAACGAGAAAAATGAAAATCGCAACGCGAAACG
96034 AAAATCGCAACG
1 AAAATCGCAACG
96046 CCATTATAGT
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
39 33 0.72
40 13 0.28
ACGTcount: A:0.47, C:0.21, G:0.21, T:0.11
Consensus pattern (40 bp):
AAAATCGCAACGAGAAAAATGAAAATCGCAACGCGAAACG
Found at i:96097 original size:19 final size:19
Alignment explanation
Indices: 96055--96169 Score: 87
Period size: 19 Copynumber: 6.2 Consensus size: 19
96045 GCCATTATAG
* **
96055 TTTCGCGTTGCAATTTTTGG
1 TTTCGCGTTGCGA-TTTTCA
*
96075 TTTCGCGTTGTGATTTTCA
1 TTTCGCGTTGCGATTTTCA
*
96094 TTTCGCGTTGTGA--TTC-
1 TTTCGCGTTGCGATTTTCA
* *
96110 --TCTCGTTGCGATTTTCG
1 TTTCGCGTTGCGATTTTCA
* *
96127 TTTCGCATTGCAATTTTCA
1 TTTCGCGTTGCGATTTTCA
*
96146 TTCTCTCGTTGCGATTTTCA
1 TT-TCGCGTTGCGATTTTCA
96166 TTTC
1 TTTC
96170 AACCAAAAGA
Statistics
Matches: 76, Mismatches: 13, Indels: 13
0.75 0.13 0.13
Matches are distributed among these distances:
14 9 0.12
16 3 0.04
17 3 0.04
19 34 0.45
20 27 0.36
ACGTcount: A:0.10, C:0.20, G:0.19, T:0.50
Consensus pattern (19 bp):
TTTCGCGTTGCGATTTTCA
Found at i:96123 original size:33 final size:35
Alignment explanation
Indices: 96080--96169 Score: 94
Period size: 39 Copynumber: 2.5 Consensus size: 35
96070 TTTGGTTTCG
* *
96080 CGTTGTGATTTTCATTTCGC-G-TTGTGATTCTCT
1 CGTTGCGATTTTCATTTCGCTGATTGTCATTCTCT
* *
96113 CGTTGCGATTTTCGTTTCGCATTGCAATTTTCATTCTCT
1 CGTTGCGATTTTCATTTCGC--TG--ATTGTCATTCTCT
96152 CGTTGCGATTTTCATTTC
1 CGTTGCGATTTTCATTTC
96170 AACCAAAAGA
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
33 18 0.39
36 1 0.02
39 27 0.59
ACGTcount: A:0.11, C:0.21, G:0.18, T:0.50
Consensus pattern (35 bp):
CGTTGCGATTTTCATTTCGCTGATTGTCATTCTCT
Found at i:96162 original size:20 final size:20
Alignment explanation
Indices: 96106--96167 Score: 81
Period size: 20 Copynumber: 3.1 Consensus size: 20
96096 TCGCGTTGTG
96106 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
* * * *
96126 GTT-TCGCATTGCAATTTTC
1 ATTCTCTCGTTGCGATTTTC
96145 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
96165 ATT
1 ATT
96168 TCAACCAAAA
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
19 15 0.45
20 18 0.55
ACGTcount: A:0.13, C:0.23, G:0.15, T:0.50
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:96373 original size:94 final size:93
Alignment explanation
Indices: 96260--96541 Score: 437
Period size: 94 Copynumber: 3.1 Consensus size: 93
96250 ATGGATTGCA
* *
96260 TTACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCAGAGTATTAAAGAATACACAGTT
1 TTACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTT
* *
96325 TAGCAGAATTGGCAGCAAACGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAATAAAT
*
96353 TTACTTTCAACTAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
*
96418 TTAGCAGAATTGGTAGCAACCGAATAAAT
65 TTAGCAGAATTGGCAGCAACCGAATAAAT
*
96447 TTACTTCAACCAAAAGACAAAACAAAAGACAAATACTAACTTCACAGTGTT----AATAAACAGT
1 TTACTTCAACCAAAAGACAAAAC-AAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
* *
96508 TTAGCAGTATTGCCAGCAACCGAATAAAT
65 TTAGCAGAATTGGCAGCAACCGAATAAAT
96537 TTACT
1 TTACT
96542 AAGCAATCTA
Statistics
Matches: 176, Mismatches: 11, Indels: 7
0.91 0.06 0.04
Matches are distributed among these distances:
90 40 0.23
93 22 0.12
94 114 0.65
ACGTcount: A:0.47, C:0.18, G:0.12, T:0.22
Consensus pattern (93 bp):
TTACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAATAAAT
Found at i:98286 original size:19 final size:19
Alignment explanation
Indices: 98255--98305 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 19
98245 GCAACGAGAG
*
98255 AATCGCAAAGCGAAATTAA
1 AATCGCAAAGCGAAATGAA
* *
98274 AATTGCAACGCGAAATGAA
1 AATCGCAAAGCGAAATGAA
*
98293 AATCGCAATGCGA
1 AATCGCAAAGCGA
98306 TTTTGGTTTC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.16
Consensus pattern (19 bp):
AATCGCAAAGCGAAATGAA
Found at i:98403 original size:20 final size:20
Alignment explanation
Indices: 98312--98427 Score: 146
Period size: 19 Copynumber: 5.8 Consensus size: 20
98302 GCGATTTTGG
98312 TTTCGCGTTGCGATTTTCA-
1 TTTCGCGTTGCGATTTTCAT
98331 TTTCGCGTTGCGATTTTCA-
1 TTTCGCGTTGCGATTTTCAT
98350 TTTCGCGTTGCGATTTTCAT
1 TTTCGCGTTGCGATTTTCAT
* * **
98370 TTCTCTCATTGCGATAGTCAT
1 TT-TCGCGTTGCGATTTTCAT
*
98391 TTTCGTGTTGCGATTTTCAT
1 TTTCGCGTTGCGATTTTCAT
**
98411 TTTCATGTTGCGATTTT
1 TTTCGCGTTGCGATTTT
98428 AAGTTTAGAA
Statistics
Matches: 85, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
19 38 0.45
20 31 0.36
21 16 0.19
ACGTcount: A:0.12, C:0.19, G:0.19, T:0.50
Consensus pattern (20 bp):
TTTCGCGTTGCGATTTTCAT
Found at i:99065 original size:21 final size:21
Alignment explanation
Indices: 99001--99094 Score: 109
Period size: 21 Copynumber: 4.5 Consensus size: 21
98991 ATTTACGTAT
* *
99001 TCGCATTGCAAATTAGGAAAA
1 TCGCAATGCGAATTAGGAAAA
* *
99022 TCGCAATGCGAA-TACGTAAA
1 TCGCAATGCGAATTAGGAAAA
*
99042 TCGTAATGCGAATTAGGAAAA
1 TCGCAATGCGAATTAGGAAAA
* * *
99063 TCGCAACGCGAATTTGGGAAA
1 TCGCAATGCGAATTAGGAAAA
99084 TCGCAATGCGA
1 TCGCAATGCGA
99095 TAGTCAGAAT
Statistics
Matches: 60, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
20 17 0.28
21 43 0.72
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.21
Consensus pattern (21 bp):
TCGCAATGCGAATTAGGAAAA
Done.