Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006446.1 Hibiscus syriacus cultivar Beakdansim tig00015597_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: 103121
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Found at i:1292 original size:32 final size:31
Alignment explanation
Indices: 1253--1318 Score: 89
Period size: 32 Copynumber: 2.1 Consensus size: 31
1243 GATACAATAA
* *
1253 AAAGAAA-TAAGTTAGTTTACATAAACAAAATG
1 AAAGAAATTAA-TTAGTGTACACAAACAAAA-G
1285 AAAGAAATTAATTAGTGTACACAAACAAAAG
1 AAAGAAATTAATTAGTGTACACAAACAAAAG
1316 AAA
1 AAA
1319 ATAAATCATT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
31 4 0.13
32 24 0.77
33 3 0.10
ACGTcount: A:0.59, C:0.08, G:0.12, T:0.21
Consensus pattern (31 bp):
AAAGAAATTAATTAGTGTACACAAACAAAAG
Found at i:2665 original size:29 final size:30
Alignment explanation
Indices: 2568--2858 Score: 107
Period size: 30 Copynumber: 9.9 Consensus size: 30
2558 AGAAATCTTG
* * * * *
2568 AAAACATAAACTTAAAGGATTAAAATAACA
1 AAAACAGAAATTTAAAAGACTAAAATAATA
* * * * *
2598 TAAACAGAAAGTTAAGAGGCTAAAATAGTA
1 AAAACAGAAATTTAAAAGACTAAAATAATA
*
2628 AAAATAGAAATTTAAAAGAC-AAAATAATA
1 AAAACAGAAATTTAAAAGACTAAAATAATA
* * * * *
2657 CAAACAGAAATTT-AATGAATTGAAATGATA
1 AAAACAGAAATTTAAAAG-ACTAAAATAATA
* * *
2687 ATAAA-A-AAAATT-AAAGTCTCAAAATAGTA
1 A-AAACAGAAATTTAAAAGACT-AAAATAATA
** * * *
2716 ATTACAAAAACTTT-AAGGA-TCAAAATAACA
1 AAAACAGAAA-TTTAAAAGACT-AAAATAATA
* * * * ** *
2746 AAAATATAGACTTAAGGGACT-AAATATTA
1 AAAACAGAAATTTAAAAGACTAAAATAATA
* * *
2775 AAAACAGACATTTAAATGACTAAAATAGTA
1 AAAACAGAAATTTAAAAGACTAAAATAATA
* * * *
2805 AAAATAGAAACTTAAAAAATTAAAAT-A-A
1 AAAACAGAAATTTAAAAGACTAAAATAATA
* *
2833 AAAACAGAAAGTTAAAGGACTAAAAT
1 AAAACAGAAATTTAAAAGACTAAAAT
2859 GATATTAACA
Statistics
Matches: 187, Mismatches: 64, Indels: 22
0.68 0.23 0.08
Matches are distributed among these distances:
28 27 0.14
29 59 0.32
30 92 0.49
31 9 0.05
ACGTcount: A:0.60, C:0.08, G:0.10, T:0.22
Consensus pattern (30 bp):
AAAACAGAAATTTAAAAGACTAAAATAATA
Found at i:4309 original size:3 final size:3
Alignment explanation
Indices: 4294--4343 Score: 82
Period size: 3 Copynumber: 16.7 Consensus size: 3
4284 AAATATAAAT
* *
4294 TAA TAA TAT TAA TAA TAG TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
4342 TA
1 TA
4344 TTTTTTCGAC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:8220 original size:43 final size:42
Alignment explanation
Indices: 8130--8222 Score: 132
Period size: 42 Copynumber: 2.2 Consensus size: 42
8120 AGCTAACAGA
* *
8130 TATGCTATTCCCCCTGATGCTGTTTCTGGTTTGCTACGTGAT
1 TATGCTATTCCCCCTGATGCTCTTTCTGGTTTGCTACGAGAT
* * *
8172 GATGCTATTTCCCCTGATGCTCTTTCTGGTTTTGCTACGAGGT
1 TATGCTATTCCCCCTGATGCTCTTTCTGG-TTTGCTACGAGAT
8215 TATGCTAT
1 TATGCTAT
8223 AAGAGTGCTG
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
42 26 0.59
43 18 0.41
ACGTcount: A:0.13, C:0.23, G:0.22, T:0.43
Consensus pattern (42 bp):
TATGCTATTCCCCCTGATGCTCTTTCTGGTTTGCTACGAGAT
Found at i:8557 original size:2 final size:2
Alignment explanation
Indices: 8550--8576 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
8540 ATTCACAGTG
8550 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
8577 GAAATTTTCT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9923 original size:144 final size:144
Alignment explanation
Indices: 9457--10011 Score: 752
Period size: 144 Copynumber: 3.9 Consensus size: 144
9447 AGAAAGACAT
* * * *
9457 GGAGAGAATGTTGAAGATCGAGCGGCTAAAGGAAAAGCGG-CTGCAAATGTTTTGGAACAGCA-A
1 GGAGAGAATGTCGAAGATCAAGCGGCTAAAGGAAAAG-GGACTGCAAATGTTCTGAAACAGCACA
* * * * * *
9520 AGAGAGGGCAATACTGAGGATCAAGAGAAAAGGAATGGGGCAAGAC-----CA-ACTGCAAATGC
65 TG-GAAGACAATGCTGAGGATCAAGAGAAAAGGAATGGGGCAAGACGAAAAGAGACTGCAAATGT
*
9579 TTCGGAACGGCAGAAG
129 TTCGGAACGACAGAAG
9595 GGAGAGAATGTCGAAGATCAAGCGGCTAAAGGAAAAGGGACTGCAAATGTTCTGAAACAGCACAT
1 GGAGAGAATGTCGAAGATCAAGCGGCTAAAGGAAAAGGGACTGCAAATGTTCTGAAACAGCACAT
* *
9660 GGAAGACAATGCCT-AGGATCAAGAGATAAGGAAT-GGGCAAGACGAAAAGAGACTGCAAACGTT
66 GGAAGACAATG-CTGAGGATCAAGAGAAAAGGAATGGGGCAAGACGAAAAGAGACTGCAAATGTT
9723 TCGGAACGACAGAAG
130 TCGGAACGACAGAAG
* * * *
9738 GGAGAGAATGTCGAAGATCGAGCAGCTAAAGGAAAAGGGACTGCAAATGTTTTGTAACAGCACAT
1 GGAGAGAATGTCGAAGATCAAGCGGCTAAAGGAAAAGGGACTGCAAATGTTCTGAAACAGCACAT
* *
9803 GGAAGACAATGCTGAGGATCAAGAGAAAAGGAATGAGGCAAGACGAAAAGAGACAGCAAATGTTT
66 GGAAGACAATGCTGAGGATCAAGAGAAAAGGAATGGGGCAAGACGAAAAGAGACTGCAAATGTTT
* *
9868 TGGAACAACAGAAG
131 CGGAACGACAGAAG
* * * * *
9882 GGAGAAAATGTCAAAGATCAAGCTGCTAATGGAAAAGGGACTACAAATGTTCTGAAACAGCACAT
1 GGAGAGAATGTCGAAGATCAAGCGGCTAAAGGAAAAGGGACTGCAAATGTTCTGAAACAGCACAT
* *
9947 GGAAGACAATGCCGAGGATCAAGAGATAAGGAATGGGGCAAGACGAAAAAGAGACTGCAAATGTT
66 GGAAGACAATGCTGAGGATCAAGAGAAAAGGAATGGGGCAAGACG-AAAAGAGACTGCAAATGTT
10012 GAAACATTAC
Statistics
Matches: 370, Mismatches: 35, Indels: 17
0.88 0.08 0.04
Matches are distributed among these distances:
137 11 0.03
138 81 0.22
139 4 0.01
142 3 0.01
143 115 0.31
144 138 0.37
145 18 0.05
ACGTcount: A:0.41, C:0.14, G:0.30, T:0.14
Consensus pattern (144 bp):
GGAGAGAATGTCGAAGATCAAGCGGCTAAAGGAAAAGGGACTGCAAATGTTCTGAAACAGCACAT
GGAAGACAATGCTGAGGATCAAGAGAAAAGGAATGGGGCAAGACGAAAAGAGACTGCAAATGTTT
CGGAACGACAGAAG
Found at i:9973 original size:287 final size:283
Alignment explanation
Indices: 9457--10007 Score: 822
Period size: 287 Copynumber: 1.9 Consensus size: 283
9447 AGAAAGACAT
* *
9457 GGAGAGAATGTTGAAGATCGAGCGGCTAAAGGAAAAGCGGCTGCAAATGTTTTGGAACAGCAAAG
1 GGAGAGAATGTCGAAGATCGAGCAGCTAAAGGAAAAGCGGCTGCAAATGTTTTGGAACAGCAAAG
* * * *
9522 AGAGGGCAATACTGAGGATCAAGAGAAAAGGAATGGGGCAAGACCAACTGCAAATGCTTCGGAAC
66 AGAAGACAATACTGAGGATCAAGAGAAAAGGAATGAGGCAAGACCAACAGCAAATGCTTCGGAAC
** * * *
9587 GGCAGAAGGGAGAGAATGTCGAAGATCAAGCGGCTAAAGGAAAAGGGACTGCAAATGTTCTGAAA
131 AACAGAAGGGAGAAAATGTCAAAGATCAAGCGGCTAAAGGAAAAGGGACTACAAATGTTCTGAAA
*
9652 CAGCACATGGAAGACAATGCCTAGGATCAAGAGATAAGGAAT-GGGCAAGACG-AAAAGAGACTG
196 CAGCACATGGAAGACAATGCCGAGGATCAAGAGATAAGGAATGGGGCAAGACGAAAAAGAGACTG
9715 CAAACGTTTCGGAACGACAGAAG
261 CAAACGTTTCGGAACGACAGAAG
*
9738 GGAGAGAATGTCGAAGATCGAGCAGCTAAAGGAAAAG-GGACTGCAAATGTTTTGTAACAGCACA
1 GGAGAGAATGTCGAAGATCGAGCAGCTAAAGGAAAAGCGG-CTGCAAATGTTTTGGAACAGCA-A
* * * *
9802 TG-GAAGACAATGCTGAGGATCAAGAGAAAAGGAATGAGGCAAGACGAAAAGAGACAGCAAATGT
64 AGAGAAGACAATACTGAGGATCAAGAGAAAAGGAATGAGGCAAGAC-----CA-ACAGCAAATGC
* * *
9866 TTTGGAACAACAGAAGGGAGAAAATGTCAAAGATCAAGCTGCTAATGGAAAAGGGACTACAAATG
123 TTCGGAACAACAGAAGGGAGAAAATGTCAAAGATCAAGCGGCTAAAGGAAAAGGGACTACAAATG
9931 TTCTGAAACAGCACATGGAAGACAATGCCGAGGATCAAGAGATAAGGAATGGGGCAAGACGAAAA
188 TTCTGAAACAGCACATGGAAGACAATGCCGAGGATCAAGAGATAAGGAATGGGGCAAGACGAAAA
9996 AGAGACTGCAAA
253 AGAGACTGCAAA
10008 TGTTGAAACA
Statistics
Matches: 240, Mismatches: 20, Indels: 12
0.88 0.07 0.04
Matches are distributed among these distances:
280 2 0.01
281 95 0.40
282 2 0.01
286 1 0.00
287 115 0.48
288 10 0.04
289 15 0.06
ACGTcount: A:0.42, C:0.14, G:0.30, T:0.14
Consensus pattern (283 bp):
GGAGAGAATGTCGAAGATCGAGCAGCTAAAGGAAAAGCGGCTGCAAATGTTTTGGAACAGCAAAG
AGAAGACAATACTGAGGATCAAGAGAAAAGGAATGAGGCAAGACCAACAGCAAATGCTTCGGAAC
AACAGAAGGGAGAAAATGTCAAAGATCAAGCGGCTAAAGGAAAAGGGACTACAAATGTTCTGAAA
CAGCACATGGAAGACAATGCCGAGGATCAAGAGATAAGGAATGGGGCAAGACGAAAAAGAGACTG
CAAACGTTTCGGAACGACAGAAG
Found at i:17392 original size:20 final size:20
Alignment explanation
Indices: 17369--17407 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
17359 AATCTACCAT
17369 ATGCAACTACATGATCCTAG
1 ATGCAACTACATGATCCTAG
* * *
17389 ATGCATCTATATGGTCCTA
1 ATGCAACTACATGATCCTA
17408 AATATGCCTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (20 bp):
ATGCAACTACATGATCCTAG
Found at i:23274 original size:31 final size:31
Alignment explanation
Indices: 23214--23306 Score: 80
Period size: 31 Copynumber: 3.0 Consensus size: 31
23204 GAGTCGAGGG
* * *
23214 TTACCTATGTCTTTC-AAGACATATAGATAGT
1 TTACCTATCTCCTTCGAA-ACATATGGATAGT
** * *
23245 TTACCTATCTCCTTCGGGATATATGGATAGG
1 TTACCTATCTCCTTCGAAACATATGGATAGT
* * *
23276 TTATCTATGTTCTTCGAAACATATGGATAGT
1 TTACCTATCTCCTTCGAAACATATGGATAGT
23307 GGTCTTTCGG
Statistics
Matches: 47, Mismatches: 14, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.39
Consensus pattern (31 bp):
TTACCTATCTCCTTCGAAACATATGGATAGT
Found at i:23335 original size:20 final size:21
Alignment explanation
Indices: 23307--23361 Score: 67
Period size: 22 Copynumber: 2.6 Consensus size: 21
23297 TATGGATAGT
*
23307 GGTCTTTCGGGAC-ATACAGA
1 GGTCCTTCGGGACGATACAGA
* *
23327 GGTCCTTCGGGACGTATGCATA
1 GGTCCTTCGGGACG-ATACAGA
23349 GGTCCTTCGGGAC
1 GGTCCTTCGGGAC
23362 TATTTCACAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
20 12 0.40
22 18 0.60
ACGTcount: A:0.18, C:0.24, G:0.33, T:0.25
Consensus pattern (21 bp):
GGTCCTTCGGGACGATACAGA
Found at i:23674 original size:16 final size:17
Alignment explanation
Indices: 23642--23680 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
23632 TAAGATATAG
23642 AATATGAACATAAGAGAT
1 AATATGAACA-AAGAGAT
*
23660 CATATGAAC-AAGAGAT
1 AATATGAACAAAGAGAT
23676 AATAT
1 AATAT
23681 ATATAAAGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
16 11 0.58
18 8 0.42
ACGTcount: A:0.54, C:0.08, G:0.15, T:0.23
Consensus pattern (17 bp):
AATATGAACAAAGAGAT
Found at i:23733 original size:2 final size:2
Alignment explanation
Indices: 23726--23758 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
23716 ATAAATGATG
*
23726 AT AT AT AT AT AT GT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
23759 ATTGTTACAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:27320 original size:23 final size:23
Alignment explanation
Indices: 27294--27354 Score: 79
Period size: 23 Copynumber: 2.7 Consensus size: 23
27284 CTCATATAAA
27294 TGCACCGAAGTGCCACATAGAAT
1 TGCACCGAAGTGCCACATAGAAT
* *
27317 TGCACC-ATAGTGCCGCGTAGAAT
1 TGCACCGA-AGTGCCACATAGAAT
*
27340 TGCACCGTAGTGCCA
1 TGCACCGAAGTGCCA
27355 TATAATAATG
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
22 1 0.03
23 31 0.97
ACGTcount: A:0.28, C:0.28, G:0.25, T:0.20
Consensus pattern (23 bp):
TGCACCGAAGTGCCACATAGAAT
Found at i:27543 original size:103 final size:103
Alignment explanation
Indices: 27370--27587 Score: 400
Period size: 103 Copynumber: 2.1 Consensus size: 103
27360 TAATGTCCAT
*
27370 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAATATGTGTCTCACCA
1 AAGGACCACATATAATTCCTTAAGAATCATATACATATACTAGGGATCAAATATGTGTCTCACCA
27435 AACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 AACTTCACACATGTTCCAAAGAATACATATATGTCCCG
* *
27473 AAGGACCATATATAATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATAATTCCTTAAGAATCATATACATATACTAGGGATCAAATATGTGTCTCACCA
*
27538 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 AACTTCACACATGTTCCAAAGAATACATATATGTCCCG
27576 AAGGACCACATA
1 AAGGACCACATA
27588 GACCCTCGAC
Statistics
Matches: 110, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 110 1.00
ACGTcount: A:0.38, C:0.22, G:0.13, T:0.27
Consensus pattern (103 bp):
AAGGACCACATATAATTCCTTAAGAATCATATACATATACTAGGGATCAAATATGTGTCTCACCA
AACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:29122 original size:21 final size:21
Alignment explanation
Indices: 29097--29142 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
29087 TTCTGGTTCG
* * *
29097 CTTGAGGGGGTATCGGTTCCC
1 CTTGAAGGGGTACCGATTCCC
*
29118 CTTGAATGGGTACCGATTCCC
1 CTTGAAGGGGTACCGATTCCC
29139 CTTG
1 CTTG
29143 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.13, C:0.26, G:0.30, T:0.30
Consensus pattern (21 bp):
CTTGAAGGGGTACCGATTCCC
Found at i:32344 original size:23 final size:23
Alignment explanation
Indices: 32318--32378 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
32308 CTCATATAAA
*
32318 TGCACCGAAGTGCCACATAGAAT
1 TGCACCGTAGTGCCACATAGAAT
* *
32341 TGCACCGTAGTGCCGCGTAGAAT
1 TGCACCGTAGTGCCACATAGAAT
32364 TGCACCGTAGTGCCA
1 TGCACCGTAGTGCCA
32379 TATAATAATG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.26, C:0.28, G:0.26, T:0.20
Consensus pattern (23 bp):
TGCACCGTAGTGCCACATAGAAT
Found at i:32565 original size:103 final size:103
Alignment explanation
Indices: 32394--32611 Score: 400
Period size: 103 Copynumber: 2.1 Consensus size: 103
32384 TAATGTCCAT
* *
32394 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAACCATATACATATACTAGGGATCAAGTATGTGCCTCACCA
32459 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
*
32497 AAGGACCACATATCATTCCTTAATAACCATATACATATACTAGGGATCAAGTATGTGCCTCACCA
1 AAGGACCACATATCATTCCTTAAGAACCATATACATATACTAGGGATCAAGTATGTGCCTCACCA
*
32562 GACTTCACACGTGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
32600 AAGGACCACATA
1 AAGGACCACATA
32612 GACCCTCGAC
Statistics
Matches: 111, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 111 1.00
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAACCATATACATATACTAGGGATCAAGTATGTGCCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:34175 original size:21 final size:21
Alignment explanation
Indices: 34150--34195 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
34140 TTCTGGTTCG
* *
34150 CTTGAGGGGGTATCGGTTCCC
1 CTTGAAGGGGTATCGATTCCC
*
34171 CTTGAATGGGTATCGATTCCC
1 CTTGAAGGGGTATCGATTCCC
34192 CTTG
1 CTTG
34196 CCCATAAATC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.13, C:0.24, G:0.30, T:0.33
Consensus pattern (21 bp):
CTTGAAGGGGTATCGATTCCC
Found at i:34933 original size:19 final size:19
Alignment explanation
Indices: 34911--34947 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
34901 TATATAATTT
*
34911 GTGTATCGATACATAAGTA
1 GTGTATCGATACACAAGTA
34930 GTGTATCGATACACAAGT
1 GTGTATCGATACACAAGT
34948 TAAGGGATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.30
Consensus pattern (19 bp):
GTGTATCGATACACAAGTA
Found at i:35947 original size:31 final size:30
Alignment explanation
Indices: 35911--35982 Score: 81
Period size: 31 Copynumber: 2.4 Consensus size: 30
35901 AGAGTCGAGG
* *
35911 GTTACCTATGTCTTTTAAGACATATGAATA
1 GTTACCTATGTCTTTCAAGACATATGAACA
* ** *
35941 GTTTACCTATATCTTTCGGGACATATGGACA
1 G-TTACCTATGTCTTTCAAGACATATGAACA
35972 GTTACCTATGT
1 GTTACCTATGT
35983 TCTTCGGAAC
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
30 10 0.29
31 24 0.71
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.39
Consensus pattern (30 bp):
GTTACCTATGTCTTTCAAGACATATGAACA
Found at i:35979 original size:30 final size:30
Alignment explanation
Indices: 35911--35999 Score: 90
Period size: 30 Copynumber: 2.9 Consensus size: 30
35901 AGAGTCGAGG
*** * *
35911 GTTACCTATGTCTTTTAAGACATATGAATA
1 GTTACCTATGTCTTTCGGGACATATGGACA
*
35941 GTTTACCTATATCTTTCGGGACATATGGACA
1 G-TTACCTATGTCTTTCGGGACATATGGACA
*
35972 GTTACCTATGT-TCTTCGGAACATATGGA
1 GTTACCTATGTCT-TTCGGGACATATGGA
36000 TAGGTCATTC
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
29 1 0.02
30 24 0.49
31 24 0.49
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (30 bp):
GTTACCTATGTCTTTCGGGACATATGGACA
Found at i:36192 original size:19 final size:20
Alignment explanation
Indices: 36148--36194 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 20
36138 ATCCTAAATA
*
36148 AAATG-TATGTATATATATG
1 AAATGATATGAATATATATG
**
36167 ATGTGATATGAAT-TATATG
1 AAATGATATGAATATATATG
36186 AAATGATAT
1 AAATGATAT
36195 ATGTGTTTTG
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.43, C:0.00, G:0.17, T:0.40
Consensus pattern (20 bp):
AAATGATATGAATATATATG
Found at i:36766 original size:183 final size:179
Alignment explanation
Indices: 36450--36833 Score: 565
Period size: 183 Copynumber: 2.1 Consensus size: 179
36440 ATTAAATTTT
* * * *
36450 AAATTTTAAATATATTATATATAACATATGGGCTCAGCCCATACCATTTAAAACCCAATAATAAT
1 AAATATTAAATATATTATATATAACATATGAGCTAAGCCCAAACCATTTAAAACCCAATAATAAT
*
36515 TTAAGATCCAATAACTTTAAATCTAAATCAATATTAATTAATTAAAAAATTATATAAAATTTTTT
66 TTAAGATCCAATAACTTTAAACCTAAATCAATATTAATTAATTAAAAAATTATATAAAA--TTTT
* **
36580 ATTTTATAATTATATATTATTTAAATTAATTGTAATTGTTTTTTTAAATTAAA
129 ATTTTATAATTATATATTA-TTAAATTAATTATAA-ACTTTTTTTAAATTAAA
36633 AAATATTAAATATATTATATATAACATATGAGCTAAGCCCAAACCATTTAAAACCCAATTAATAA
1 AAATATTAAATATATTATATATAACATATGAGCTAAGCCCAAACCATTTAAAACCCAA-TAATAA
* *
36698 TTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTATCTGAAA-TT
65 TTTAAGATCCAATAAC-TTTAAACCTAAATCAATATTAATTAATT-AAAAAATTATATAAAATTT
*
36762 TATTTTATAATTATATATTATTAAATTAATTATAAACTTTTTTTGAATTAAA
128 TATTTTATAATTATATATTATTAAATTAATTATAAACTTTTTTTAAATTAAA
* * *
36814 AAACATTTAAT-TTTTATATA
1 AAATATTAAATATATTATATA
36834 AATTAGAAAT
Statistics
Matches: 184, Mismatches: 14, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
180 8 0.04
181 23 0.12
182 14 0.08
183 76 0.41
184 22 0.12
185 27 0.15
186 14 0.08
ACGTcount: A:0.46, C:0.09, G:0.03, T:0.41
Consensus pattern (179 bp):
AAATATTAAATATATTATATATAACATATGAGCTAAGCCCAAACCATTTAAAACCCAATAATAAT
TTAAGATCCAATAACTTTAAACCTAAATCAATATTAATTAATTAAAAAATTATATAAAATTTTAT
TTTATAATTATATATTATTAAATTAATTATAAACTTTTTTTAAATTAAA
Found at i:38392 original size:17 final size:19
Alignment explanation
Indices: 38353--38395 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
38343 ATTACTTCTT
**
38353 TTGCTTATTATTTTTTGTT
1 TTGCTTATTATTTTTTGAA
38372 TTGCTTATTA-TTTTT-AA
1 TTGCTTATTATTTTTTGAA
38389 TTGCTTA
1 TTGCTTA
38396 AGATTGTAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 7 0.32
18 5 0.23
19 10 0.45
ACGTcount: A:0.16, C:0.07, G:0.09, T:0.67
Consensus pattern (19 bp):
TTGCTTATTATTTTTTGAA
Found at i:42891 original size:2 final size:2
Alignment explanation
Indices: 42884--42909 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
42874 ATTTCTTACA
42884 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
42910 TCCTTTTACC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:44500 original size:5 final size:5
Alignment explanation
Indices: 44490--44644 Score: 310
Period size: 5 Copynumber: 31.0 Consensus size: 5
44480 GAGATTCGAT
44490 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
44540 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
44590 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
44640 ATATA
1 ATATA
44645 CAACAATCAT
Statistics
Matches: 150, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 150 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:57262 original size:36 final size:36
Alignment explanation
Indices: 57222--57330 Score: 132
Period size: 36 Copynumber: 3.0 Consensus size: 36
57212 TTATATATAC
* *
57222 ATATAGTTTTTAAAACACTTTGAAAATAAATATAAT
1 ATATAGTTTTTAAAACATTTTTAAAATAAATATAAT
* *
57258 ATATAGTTTTTAAAACGTTTTTAAAAAAAATAT-AT
1 ATATAGTTTTTAAAACATTTTTAAAATAAATATAAT
*
57293 -TATACGATTTTAAAAAACATTTTTAAAATAAATATAAT
1 ATATA-G-TTTT-TAAAACATTTTTAAAATAAATATAAT
57331 TTTTAAAAAG
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
34 4 0.06
35 3 0.05
36 33 0.53
37 20 0.32
38 2 0.03
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.40
Consensus pattern (36 bp):
ATATAGTTTTTAAAACATTTTTAAAATAAATATAAT
Found at i:57386 original size:38 final size:33
Alignment explanation
Indices: 57340--57410 Score: 88
Period size: 34 Copynumber: 2.0 Consensus size: 33
57330 TTTTTAAAAA
*
57340 GAAACATTTTGAAAACATATATATATTATATAGTTTT
1 GAAACATTTTAAAAAC-T-TATA-A-TATATAGTTTT
57377 GAAATCATTTTAAAAACTTATAATATATAGTTTT
1 GAAA-CATTTTAAAAACTTATAATATATAGTTTT
57411 AAAAAAAACA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
34 11 0.34
35 1 0.03
36 4 0.12
37 5 0.16
38 11 0.34
ACGTcount: A:0.44, C:0.06, G:0.07, T:0.44
Consensus pattern (33 bp):
GAAACATTTTAAAAACTTATAATATATAGTTTT
Found at i:57569 original size:14 final size:14
Alignment explanation
Indices: 57550--57594 Score: 63
Period size: 14 Copynumber: 3.1 Consensus size: 14
57540 ATTATCGTTG
57550 TTATTTATTTTTAT
1 TTATTTATTTTTAT
57564 TTATTTATTTTTAT
1 TTATTTATTTTTAT
* *
57578 TAATTTTATTTTCAT
1 TTA-TTTATTTTTAT
57593 TT
1 TT
57595 TAATTGTCCA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
14 16 0.59
15 11 0.41
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (14 bp):
TTATTTATTTTTAT
Found at i:59019 original size:13 final size:12
Alignment explanation
Indices: 58992--59016 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
58982 TCGGATCGAA
58992 TAATTTAAATTT
1 TAATTTAAATTT
59004 TAATTTAAATTT
1 TAATTTAAATTT
59016 T
1 T
59017 TAAATTTTGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TAATTTAAATTT
Found at i:60651 original size:18 final size:19
Alignment explanation
Indices: 60630--60671 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
60620 TAGACATTTT
60630 GCATTTT-TTATTTTCTTC
1 GCATTTTGTTATTTTCTTC
*
60648 GCATTTTGTTATTTTCTTT
1 GCATTTTGTTATTTTCTTC
60667 GCATT
1 GCATT
60672 CACATTAACT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.12, C:0.14, G:0.10, T:0.64
Consensus pattern (19 bp):
GCATTTTGTTATTTTCTTC
Found at i:64324 original size:164 final size:164
Alignment explanation
Indices: 64025--64769 Score: 957
Period size: 164 Copynumber: 4.6 Consensus size: 164
64015 TGCAGCTTAG
* * * **
64025 CTCAAGGCCAGAAGGGCTATCTGCCACC-AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGC
1 CTCAAGTCTAGAAGGGTTATCTGTTACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGC
*
64089 ACATCATTTGCAGTATAGCTTAAGTCGAGAAGAGCTATCTGCCAAAGACCCTTAAGTTCTATTAC
66 ACATCATTTGCAGTATAGCTTAAGTCGAGAAGAGCTATCTGCCAAAGACCCTTAAGTTCGATTAC
64154 ACTCAGCTTCAAGGGCATAACATTTACAGCATAA
131 ACTCAGCTTCAAGGGCATAACATTTACAGCATAA
*
64188 CTCAAGGT-TAGAAGGGTTATCTGTTAGCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGG
1 CTCAA-GTCTAGAAGGGTTATCTGTTACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGG
*
64252 CACATCATTTGCAGTATAGCTTAAGTCGAGAAGAGCTATCTGCCAAAGACCCTTAAGCTCGATTA
65 CACATCATTTGCAGTATAGCTTAAGTCGAGAAGAGCTATCTGCCAAAGACCCTTAAGTTCGATTA
64317 CACTCAGCTTCAAGGGCATAACATTTACAGCATAA
130 CACTCAGCTTCAAGGGCATAACATTTACAGCATAA
* *
64352 CTCAAGGCTAGAAGGGTTATCTGTTAGCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGC
1 CTCAAGTCTAGAAGGGTTATCTGTTACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGC
* * ***
64417 ACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTAC
66 ACATCATTTGCAGTATAGCTTAAGTCGAGAAGAGCTATCTGCCAAAGACCCTTAAGTTCGATTAC
* * *
64482 GCTCAGCTTCGAGGGTGCAT--CATTTGCAGCATAA
131 ACTCAGCTTC-AAGG-GCATAACATTTACAGCATAA
* * ** *
64516 CTTAAGTCAAGAAGGGTTATCTGCCAACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAG
1 CTCAAGTCTAGAAGGGTTATCTG-TTACC-AAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAG
* * * * * *
64581 GCATATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCTTTGAGTTCGACT
64 GCACATCATTTGCAGTATAGCTTAAGTCGAGAAGAGCTATCTGCCAAAGACCCTTAAGTTCGATT
* * * * * * *
64646 ACGCTCAGC-TCAATGGCACATCATTTGCAGTATAG
129 ACACTCAGCTTCAAGGGCATAACATTTACAGCATAA
* * * *** * * * *
64681 CTTAAGTCGAGAAGGGCTATCTG---CCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGG
1 CTCAAGTCTAGAAGGGTTATCTGTTACCAAAGACCTTTGAGTTCGACTACGCTCAGC-TCCAAGG
*
64743 CACATCATTTGCAGTATAACTTAAGTC
65 CACATCATTTGCAGTATAGCTTAAGTC
64770 AAGTTCGATT
Statistics
Matches: 525, Mismatches: 47, Indels: 22
0.88 0.08 0.04
Matches are distributed among these distances:
160 25 0.05
161 31 0.06
163 24 0.05
164 299 0.57
165 40 0.08
166 106 0.20
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (164 bp):
CTCAAGTCTAGAAGGGTTATCTGTTACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGC
ACATCATTTGCAGTATAGCTTAAGTCGAGAAGAGCTATCTGCCAAAGACCCTTAAGTTCGATTAC
ACTCAGCTTCAAGGGCATAACATTTACAGCATAA
Found at i:64331 original size:80 final size:80
Alignment explanation
Indices: 64012--64769 Score: 768
Period size: 80 Copynumber: 9.3 Consensus size: 80
64002 TAAACAAACT
* * * *
64012 ATTTGCAGCT-TAGCTCAAGGCCAGAAGGGCTATCTGCCACCAAGACCTTTGAGTTCGACTACGC
1 ATTTGCAG-TATAGCTTAAGTCGAGAAGGGCTATCTGCCA--AAGACCCTTGAGTTCGACTACGC
*
64076 TCAGCTCCAAGGCACATC
63 TCAGCTTCAAGGCACATC
* * * * *
64094 ATTTGCAGTATAGCTTAAGTCGAGAAGAGCTATCTGCCAAAGACCCTTAAGTTCTATTACACTCA
1 ATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTTGAGTTCGACTACGCTCA
* *
64159 GCTTCAAGGGCATAAC
66 GCTTCAA-GGCACATC
* * * * * * * *
64175 ATTTACAGCATAACTCAAGGT-TAGAAGGGTTATCTGTTAGCAAAGACCTTTGAGTTCGACTACG
1 ATTTGCAGTATAGCTTAA-GTCGAGAAGGGCTATCTG---CCAAAGACCCTTGAGTTCGACTACG
*
64239 CTCAGCTCCAAGGCACATC
62 CTCAGCTTCAAGGCACATC
* * * * *
64258 ATTTGCAGTATAGCTTAAGTCGAGAAGAGCTATCTGCCAAAGACCCTTAAGCTCGATTACACTCA
1 ATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTTGAGTTCGACTACGCTCA
* *
64323 GCTTCAAGGGCATAAC
66 GCTTCAA-GGCACATC
* * * * * * * * *
64339 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTTAGCAAAGACCTTTGAGTTCGACTACGC
1 ATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTG---CCAAAGACCCTTGAGTTCGACTACGC
*
64404 TCAGCTCCAAGGCACATC
63 TCAGCTTCAAGGCACATC
* ** *
64422 ATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACGCTCA
1 ATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTTGAGTTCGACTACGCTCA
* **
64487 GCTTCGAGGGTGCATC
66 GCTTC-AAGGCACATC
* * * *
64503 ATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAACCAAAAGA-CCTTCGAGTTCGACTA
1 ATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTG----CC-AAAGACCCTT-GAGTTCGACTA
* *
64567 CGCTCAGCTCCAAGGCATATC
60 CGCTCAGCTTCAAGGCACATC
* *
64588 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCTTTGAGTTCGACTACGCTCA
1 ATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTTGAGTTCGACTACGCTCA
64653 GC-TCAATGGCACATC
66 GCTTCAA-GGCACATC
** * *
64668 ATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
1 ATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTTGAGTTCGACTACGCTCA
*
64733 GCTTCGAGGGCACATC
66 GCTTC-AAGGCACATC
*
64749 ATTTGCAGTATAACTTAAGTC
1 ATTTGCAGTATAGCTTAAGTC
64770 AAGTTCGATT
Statistics
Matches: 551, Mismatches: 103, Indels: 45
0.79 0.15 0.06
Matches are distributed among these distances:
79 3 0.01
80 176 0.32
81 141 0.26
82 38 0.07
83 67 0.12
84 58 0.11
85 43 0.08
86 25 0.05
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (80 bp):
ATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTTGAGTTCGACTACGCTCA
GCTTCAAGGCACATC
Found at i:64654 original size:246 final size:243
Alignment explanation
Indices: 64034--64772 Score: 880
Period size: 246 Copynumber: 3.0 Consensus size: 243
64024 GCTCAAGGCC
*
64034 AGAAGGGCTATCTGCCACC-AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTT
1 AGAAGGGCTATCTGCCACCAAAGACC-TTGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTT
* * * * * * *
64098 GCAGTATAGCTTAAGTCGAGAAGAGCTATCTGCCAAAGACCCTTAAGTTCTATTACACTCAGCTT
65 GCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCTTTGAGTTCGACTACGCTCAGC-T
* * * * * * * * * ***
64163 CAAGGGCATAACATTTACAGCATAACTCAAGGT-TAGAAGGGTTATCTGTTAGCAAAGACCTTTG
129 CAAGGGCACATCATTTGCAGAATAGCTTAA-GTCGAGAAGGGCTATCTG---CCAAAGACCCCCG
* * * * *
64227 AGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAGTATAGCTTAAGTCG
190 AGTTCGATTACGCTCAGCTTCGAGGGCACATCATTTGCAGTATAACTTAAGTCA
* * * * * * *
64280 AGAAGAGCTATCTG---CCAAAGACCCTTAAGCTCGATTACACTCAGCTTCAAGGGCATAACATT
1 AGAAGGGCTATCTGCCACCAAAGA-CCTTGAGTTCGACTACGCTCAGCTCCAA-GGCATATCATT
* * * * * * *
64342 TACAGCATAACTCAAGGCTAGAAGGGTTATCTGTTAGCAAAGACCTTTGAGTTCGACTACGCTCA
64 TGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG---CCAAAGACCTTTGAGTTCGACTACGCTCA
64407 GCTCCAA-GGCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCG
126 GCT-CAAGGGCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCG
** *
64471 AGTTCGATTACGCTCAGCTTCGAGGGTGCATCATTTGCAGCATAACTTAAGTCA
190 AGTTCGATTACGCTCAGCTTCGAGGGCACATCATTTGCAGTATAACTTAAGTCA
*
64525 AGAAGGGTTATCTGCCAACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCAT
1 AGAAGGGCTATCTGCC-ACC-AAAGACCTT-GAGTTCGACTACGCTCAGCTCCAAGGCATATCAT
64590 TTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCTTTGAGTTCGACTACGCTCAGC
63 TTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCTTTGAGTTCGACTACGCTCAGC
* *
64655 TCAATGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGT
128 TCAAGGGCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGT
*
64720 TCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGTATAACTTAAGTCA
193 TCGATTACGCTCAGCTTCGAGGGCACATCATTTGCAGTATAACTTAAGTCA
64771 AG
1 AG
64773 TTCGATTACG
Statistics
Matches: 415, Mismatches: 62, Indels: 32
0.82 0.12 0.06
Matches are distributed among these distances:
243 2 0.00
244 51 0.12
245 79 0.19
246 154 0.37
247 34 0.08
248 28 0.07
249 43 0.10
250 24 0.06
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.25
Consensus pattern (243 bp):
AGAAGGGCTATCTGCCACCAAAGACCTTGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTG
CAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCTTTGAGTTCGACTACGCTCAGCTCA
AGGGCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCG
ATTACGCTCAGCTTCGAGGGCACATCATTTGCAGTATAACTTAAGTCA
Found at i:64776 original size:54 final size:54
Alignment explanation
Indices: 64717--64826 Score: 193
Period size: 54 Copynumber: 2.0 Consensus size: 54
64707 AAGACCCCCG
* *
64717 AGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGTATAACTTAAGTCA
1 AGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTTAAGTCA
*
64771 AGTTCGATTACGCTCAGCTTCGAGGGCACATCATTTACAGCATAACTTAAGTCA
1 AGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTTAAGTCA
64825 AG
1 AG
64827 AAGGGTTATC
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (54 bp):
AGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTTAAGTCA
Found at i:64960 original size:219 final size:214
Alignment explanation
Indices: 64557--64971 Score: 625
Period size: 219 Copynumber: 1.9 Consensus size: 214
64547 AAGACCTTCG
* * * *
64557 AGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATC
1 AGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAGCATAACTTAAGTCAAGAAGGGCTATC
* *
64622 TGCCAAAGACCTTTGAGTTCGACTACGCTCAGCTCAATGGCACATCATTTGCAGTATAGCTTAAG
66 TGCCAAAGACCTTCGAGTTCGACTACGCTCAGCTCAATGGCACATCATTTGCAGCATAGCTTAAG
* *
64687 TCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATT
131 TCAAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAACTTCGAGGGCACATCATT
64752 TGCAGTATAACTTAAGTCA
196 TGCAGTATAACTTAAGTCA
* * * *
64771 AGTTCGATTACGCTCAGCTTCGAGGGCACATCATTTACAGCATAACTTAAGTCAAGAAGGGTTAT
1 AGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTACAGCATAACTTAAGTCAAGAAGGGCTAT
*
64836 CTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAA-GGCATATCATTTGCAGCATAG
65 CTG----CCAAAGACCTTCGAGTTCGACTACGCTCAGCT-CAATGGCACATCATTTGCAGCATAG
* * *
64900 CTTAAGTCAAGAAGGGCTATCTGCCAAAGACTCCCGAGTTCGATTACACTCAACTTCGAGGTCAT
125 CTTAAGTCAAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAACTTCGAGGGCAC
64965 ATCATTT
190 ATCATTT
64972 ACAACATAGC
Statistics
Matches: 179, Mismatches: 16, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
214 17 0.09
215 42 0.23
219 117 0.65
220 3 0.02
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (214 bp):
AGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAGCATAACTTAAGTCAAGAAGGGCTATC
TGCCAAAGACCTTCGAGTTCGACTACGCTCAGCTCAATGGCACATCATTTGCAGCATAGCTTAAG
TCAAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAACTTCGAGGGCACATCATT
TGCAGTATAACTTAAGTCA
Found at i:64996 original size:81 final size:81
Alignment explanation
Indices: 64771--65000 Score: 266
Period size: 84 Copynumber: 2.8 Consensus size: 81
64761 ACTTAAGTCA
* * *
64771 AGTTCGATTACGCTCAGCTTCGAGGGCACATCATTTACAGCATAACTTAAGTCAAGAAGGGTTAT
1 AGTTCGATTACGCTCAGCTTCGA-GGCATATCATTTACAGCATAGCTTAAGTCAAGAAGGGCTAT
*
64836 CTGCCAACCAAAGACCTTCG
65 CTG---ACCAAAGACCTCCG
* * * *
64856 AGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATC
1 AGTTCGATTACGCTCAGCTTCGAGGCATATCATTTACAGCATAGCTTAAGTCAAGAAGGGCTATC
64921 TG-CCAAAGA-CTCCCG
66 TGACCAAAGACCT-CCG
* * * * * *
64936 AGTTCGATTACACTCAACTTCGAGGTCATATCATTTACAACATAGCTCATGGCAAGAAGGGCTAT
1 AGTTCGATTACGCTCAGCTTCGAGG-CATATCATTTACAGCATAGCTTAAGTCAAGAAGGGCTAT
65001 TTGTCAATAA
Statistics
Matches: 125, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
79 2 0.02
80 29 0.23
81 34 0.27
84 40 0.32
85 20 0.16
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (81 bp):
AGTTCGATTACGCTCAGCTTCGAGGCATATCATTTACAGCATAGCTTAAGTCAAGAAGGGCTATC
TGACCAAAGACCTCCG
Found at i:65638 original size:35 final size:36
Alignment explanation
Indices: 65572--65679 Score: 132
Period size: 36 Copynumber: 3.0 Consensus size: 36
65562 TTATATATAC
* *
65572 ATATAGTTTTTAAAACACTTTGAAAATAAATATAAT
1 ATATAGTTTTTAAAACATTTTTAAAATAAATATAAT
*
65608 ATATAGTTTTTAAAACGTTTTTAAAA-AAATAT-AT
1 ATATAGTTTTTAAAACATTTTTAAAATAAATATAAT
*
65642 -TATACGATTTTAAAAAACATTTTTAAAATAAATATAAT
1 ATATA-G-TTTT-TAAAACATTTTTAAAATAAATATAAT
65680 TTTTAAAAAG
Statistics
Matches: 62, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
33 4 0.06
34 3 0.05
35 10 0.16
36 37 0.60
37 6 0.10
38 2 0.03
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.41
Consensus pattern (36 bp):
ATATAGTTTTTAAAACATTTTTAAAATAAATATAAT
Found at i:65735 original size:38 final size:33
Alignment explanation
Indices: 65689--65759 Score: 88
Period size: 34 Copynumber: 2.0 Consensus size: 33
65679 TTTTTAAAAA
*
65689 GAAACATTTTGAAAACATATATATATTATATAGTTTT
1 GAAACATTTTAAAAAC-T-TATA-A-TATATAGTTTT
65726 GAAATCATTTTAAAAACTTATAATATATAGTTTT
1 GAAA-CATTTTAAAAACTTATAATATATAGTTTT
65760 AAAAAAAACA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
34 11 0.34
35 1 0.03
36 4 0.12
37 5 0.16
38 11 0.34
ACGTcount: A:0.44, C:0.06, G:0.07, T:0.44
Consensus pattern (33 bp):
GAAACATTTTAAAAACTTATAATATATAGTTTT
Found at i:65918 original size:14 final size:14
Alignment explanation
Indices: 65899--65943 Score: 63
Period size: 14 Copynumber: 3.1 Consensus size: 14
65889 ATTATCGTTG
65899 TTATTTATTTTTAT
1 TTATTTATTTTTAT
65913 TTATTTATTTTTAT
1 TTATTTATTTTTAT
* *
65927 TAATTTTATTTTCAT
1 TTA-TTTATTTTTAT
65942 TT
1 TT
65944 TAATTGTCCA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
14 16 0.59
15 11 0.41
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (14 bp):
TTATTTATTTTTAT
Found at i:67899 original size:15 final size:16
Alignment explanation
Indices: 67869--67901 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
67859 TAATAATATT
67869 TTTTATAAATAAAATA
1 TTTTATAAATAAAATA
67885 TTTTATAAA-AAAATA
1 TTTTATAAATAAAATA
67900 TT
1 TT
67902 ATCAATACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TTTTATAAATAAAATA
Found at i:68484 original size:16 final size:16
Alignment explanation
Indices: 68463--68493 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
68453 TTTAGCGGAC
68463 GACGATATTATTTTAT
1 GACGATATTATTTTAT
68479 GACGATATTATTTTA
1 GACGATATTATTTTA
68494 AAAATTGATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.06, G:0.13, T:0.48
Consensus pattern (16 bp):
GACGATATTATTTTAT
Found at i:68571 original size:19 final size:19
Alignment explanation
Indices: 68549--68599 Score: 84
Period size: 19 Copynumber: 2.6 Consensus size: 19
68539 TATGTCATTT
68549 ATTTTTCATTTTTTCTTGA
1 ATTTTTCATTTTTTCTTGA
*
68568 ATTTTTCAATTTTTCTTGA
1 ATTTTTCATTTTTTCTTGA
68587 ATTTTTCAATTTT
1 ATTTTTC-ATTTT
68600 ATATAAGATT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 25 0.86
20 4 0.14
ACGTcount: A:0.20, C:0.10, G:0.04, T:0.67
Consensus pattern (19 bp):
ATTTTTCATTTTTTCTTGA
Found at i:68572 original size:11 final size:11
Alignment explanation
Indices: 68558--68593 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
68548 TATTTTTCAT
68558 TTTTTCTTGAA
1 TTTTTCTTGAA
68569 TTTTTC---AA
1 TTTTTCTTGAA
68577 TTTTTCTTGAA
1 TTTTTCTTGAA
68588 TTTTTC
1 TTTTTC
68594 AATTTTATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
8 8 0.36
11 14 0.64
ACGTcount: A:0.17, C:0.11, G:0.06, T:0.67
Consensus pattern (11 bp):
TTTTTCTTGAA
Found at i:75589 original size:87 final size:87
Alignment explanation
Indices: 75492--75756 Score: 354
Period size: 87 Copynumber: 3.0 Consensus size: 87
75482 GACTTTATTT
* *
75492 ATTAACCTAATCAATTATGTTAAAAGAATATCTAATTAAAGATCTAAAGGACTAAGTTGTGAAGA
1 ATTAACCTAATTAATTATGTTAAAAGAATATCTAATTAAAGATCTAAAGGACTAAATTGTGAAGA
* *
75557 ATCTAAAATTTATGCTCTAATC
66 ATCTAAAATTGAGGCTCTAATC
* * *
75579 ATTAATCTAATTAATTATGTTAAAA-AAGTATCTAATTAAAAAGT-TTAAGGACTAAATTGTGAA
1 ATTAACCTAATTAATTATGTTAAAAGAA-TATCTAATTAAAGA-TCTAAAGGACTAAATTGTGAA
* *
75642 GAATCTAAAATTGAGGTTCTAATT
64 GAATCTAAAATTGAGGCTCTAATC
* * * *
75666 ATTAACCTAATTAATTATGTCAAAAGAATATCTAATTAAAGATCTAAATGACTAAATTGTAAAAA
1 ATTAACCTAATTAATTATGTTAAAAGAATATCTAATTAAAGATCTAAAGGACTAAATTGTGAAGA
* * *
75731 ATCTAAATTTGAGGTTCTAATT
66 ATCTAAAATTGAGGCTCTAATC
75753 ATTA
1 ATTA
75757 CGTTAATTAA
Statistics
Matches: 157, Mismatches: 17, Indels: 8
0.86 0.09 0.04
Matches are distributed among these distances:
86 3 0.02
87 151 0.96
88 3 0.02
ACGTcount: A:0.45, C:0.09, G:0.11, T:0.35
Consensus pattern (87 bp):
ATTAACCTAATTAATTATGTTAAAAGAATATCTAATTAAAGATCTAAAGGACTAAATTGTGAAGA
ATCTAAAATTGAGGCTCTAATC
Found at i:78648 original size:37 final size:37
Alignment explanation
Indices: 78603--78677 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 37
78593 GTTGGAAAAT
* *
78603 ATTTATAT-ATTTTCTTTAAAAAATTTAAATTCATAAA
1 ATTTATATAATTTTCTTCAAAAAATTTAAAAT-ATAAA
* *
78640 ATTTATATAATTTTGTTCACAAAATTTAAAATATAAA
1 ATTTATATAATTTTCTTCAAAAAATTTAAAATATAAA
78677 A
1 A
78678 AGTTTAATGA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
37 14 0.42
38 19 0.58
ACGTcount: A:0.48, C:0.05, G:0.01, T:0.45
Consensus pattern (37 bp):
ATTTATATAATTTTCTTCAAAAAATTTAAAATATAAA
Found at i:81235 original size:20 final size:20
Alignment explanation
Indices: 81206--81455 Score: 207
Period size: 20 Copynumber: 12.4 Consensus size: 20
81196 GATTTTCCAG
* * *
81206 AATCGTAACGCGAATATGAA
1 AATCGCAACGCGAATACGTA
* **
81226 AATCGCAACGCGAACATATA
1 AATCGCAACGCGAATACGTA
* * *
81246 AATCGCAACGAGTATCCGTAA
1 AATCGCAACGCGAATACGT-A
* *
81267 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATACGTA
81287 AATCGCAACGAC-AATACGTAA
1 AATCGCAACG-CGAATACGT-A
* * * *
81308 AATCGTAACGCGTATCCGTG
1 AATCGCAACGCGAATACGTA
*** *
81328 AATTATAACGAGAATACGTA
1 AATCGCAACGCGAATACGTA
* *
81348 AATCGTAACGAGAATACGTA
1 AATCGCAACGCGAATACGTA
* *
81368 AATCGCAATGCGAATACATA
1 AATCGCAACGCGAATACGTA
*
81388 AATCGCAATGCGAATACGTA
1 AATCGCAACGCGAATACGTA
*
81408 AATCGCAATGCGAATACGTA
1 AATCGCAACGCGAATACGTA
* *
81428 AATCACAATGCGAAT-CTGTA
1 AATCGCAACGCGAATAC-GTA
81448 AATCGCAA
1 AATCGCAA
81456 TGAGATTCTG
Statistics
Matches: 193, Mismatches: 32, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
19 1 0.01
20 157 0.81
21 35 0.18
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGAATACGTA
Found at i:81269 original size:41 final size:41
Alignment explanation
Indices: 81224--81321 Score: 117
Period size: 41 Copynumber: 2.4 Consensus size: 41
81214 CGCGAATATG
* ** *
81224 AAAATCGCAACGCG-AACATATAAATCGCAACGAGTATCCGT
1 AAAATCGCAACGCGTAAC-CATAAATCGCAACGACAATACGT
* *
81265 AAAATCGCAACGCGTATCCGTAAATCGCAACGACAATACGT
1 AAAATCGCAACGCGTAACCATAAATCGCAACGACAATACGT
*
81306 AAAATCGTAACGCGTA
1 AAAATCGCAACGCGTA
81322 TCCGTGAATT
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
41 47 0.96
42 2 0.04
ACGTcount: A:0.41, C:0.24, G:0.17, T:0.17
Consensus pattern (41 bp):
AAAATCGCAACGCGTAACCATAAATCGCAACGACAATACGT
Found at i:81271 original size:21 final size:21
Alignment explanation
Indices: 81245--81326 Score: 103
Period size: 21 Copynumber: 4.0 Consensus size: 21
81235 GCGAACATAT
81245 AAATCGCAACGAGTATCCGTA
1 AAATCGCAACGAGTATCCGTA
*
81266 AAATCGCAACGCGTATCCGT-
1 AAATCGCAACGAGTATCCGTA
** *
81286 AAATCGCAACGACAATACGTA
1 AAATCGCAACGAGTATCCGTA
* *
81307 AAATCGTAACGCGTATCCGT
1 AAATCGCAACGAGTATCCGT
81327 GAATTATAAC
Statistics
Matches: 50, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
20 16 0.32
21 34 0.68
ACGTcount: A:0.37, C:0.26, G:0.18, T:0.20
Consensus pattern (21 bp):
AAATCGCAACGAGTATCCGTA
Found at i:82352 original size:24 final size:24
Alignment explanation
Indices: 82320--82373 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
82310 GTATTTGAAA
*
82320 TTTGATCTTGGTTAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
82344 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
82368 TTTGAT
1 TTTGAT
82374 GATTTTTTAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:84947 original size:19 final size:19
Alignment explanation
Indices: 84923--85055 Score: 106
Period size: 19 Copynumber: 7.4 Consensus size: 19
84913 GCAACGAGAG
84923 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
84942 AATCGCAA--CG---TGAA
1 AATCGCAATGCGAAATGAA
**
84956 AATCGCAGCGCGAATATGAA
1 AATCGCAATGCGAA-ATGAA
* * *
84976 TATCGCAACGCGGAAATGAC
1 AATCGCAATGC-GAAATGAA
* *
84996 TATCGCAATGTGAAATGAA
1 AATCGCAATGCGAAATGAA
*
85015 AATCGCAA--C--AA-GAG
1 AATCGCAATGCGAAATGAA
85029 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
85048 AATCGCAA
1 AATCGCAA
85056 CGAGAGAATC
Statistics
Matches: 91, Mismatches: 11, Indels: 24
0.72 0.09 0.19
Matches are distributed among these distances:
14 21 0.23
15 2 0.02
16 3 0.03
17 2 0.02
18 2 0.02
19 32 0.35
20 26 0.29
21 3 0.03
ACGTcount: A:0.44, C:0.19, G:0.22, T:0.16
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:84947 original size:33 final size:33
Alignment explanation
Indices: 84910--85069 Score: 185
Period size: 33 Copynumber: 4.6 Consensus size: 33
84900 GGAAATTACT
84910 ATCGCAACGAGAGAATCGCAATGCGAAATGAAA
1 ATCGCAACGAGAGAATCGCAATGCGAAATGAAA
* * ** *
84943 ATCGCAACGTGAAAATCGCAGCGCGAATATGAAT
1 ATCGCAACGAGAGAATCGCAATGCGAA-ATGAAA
* *
84977 ATCGCAACGCGGAAATGACTATCGCAATGTGAAATGAAA
1 ATCGCAA--C-GAGA-GA--ATCGCAATGCGAAATGAAA
*
85016 ATCGCAACAAGAGAATCGCAATGCGAAATGAAA
1 ATCGCAACGAGAGAATCGCAATGCGAAATGAAA
85049 ATCGCAACGAGAGAATCGCAA
1 ATCGCAACGAGAGAATCGCAA
85070 CACGAATTTA
Statistics
Matches: 104, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
33 61 0.59
34 12 0.12
35 2 0.02
36 3 0.03
37 3 0.03
38 1 0.01
39 12 0.12
40 10 0.10
ACGTcount: A:0.43, C:0.19, G:0.23, T:0.14
Consensus pattern (33 bp):
ATCGCAACGAGAGAATCGCAATGCGAAATGAAA
Found at i:85034 original size:14 final size:14
Alignment explanation
Indices: 85015--85071 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
85005 GTGAAATGAA
85015 AATCGCAACAAGAG
1 AATCGCAACAAGAG
*
85029 AATCGCAATGCGAAATGAA
1 AATCGCAA--C--AA-GAG
*
85048 AATCGCAACGAGAG
1 AATCGCAACAAGAG
85062 AATCGCAACA
1 AATCGCAACA
85072 CGAATTTAGT
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
14 19 0.56
15 1 0.03
16 1 0.03
17 1 0.03
18 2 0.06
19 10 0.29
ACGTcount: A:0.47, C:0.21, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACAAGAG
Found at i:85103 original size:19 final size:19
Alignment explanation
Indices: 85081--85179 Score: 92
Period size: 19 Copynumber: 5.7 Consensus size: 19
85071 ACGAATTTAG
*
85081 TTTCGCGTTGCGATTTTCA
1 TTTCGCATTGCGATTTTCA
*
85100 TTTCGCATTTCGA--TTC-
1 TTTCGCATTGCGATTTTCA
*
85116 TCTCG--TTGCGATTTTCA
1 TTTCGCATTGCGATTTTCA
85133 TTTCGCATTGCGA--TTC-
1 TTTCGCATTGCGATTTTCA
*
85149 TCTCG--TTGCGATTTTCA
1 TTTCGCATTGCGATTTTCA
85166 TTTCGCATTGCGAT
1 TTTCGCATTGCGAT
85180 AGTCATTGTT
Statistics
Matches: 63, Mismatches: 7, Indels: 20
0.70 0.08 0.22
Matches are distributed among these distances:
14 11 0.17
16 14 0.22
17 14 0.22
19 24 0.38
ACGTcount: A:0.12, C:0.23, G:0.18, T:0.46
Consensus pattern (19 bp):
TTTCGCATTGCGATTTTCA
Found at i:85128 original size:33 final size:33
Alignment explanation
Indices: 85086--85179 Score: 179
Period size: 33 Copynumber: 2.8 Consensus size: 33
85076 TTTAGTTTCG
*
85086 CGTTGCGATTTTCATTTCGCATTTCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
85119 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
85152 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
85180 AGTCATTGTT
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 60 1.00
ACGTcount: A:0.13, C:0.23, G:0.18, T:0.46
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
Found at i:85159 original size:14 final size:14
Alignment explanation
Indices: 85110--85161 Score: 50
Period size: 14 Copynumber: 3.4 Consensus size: 14
85100 TTTCGCATTT
85110 CGATTCTCTCGTTG
1 CGATTCTCTCGTTG
*
85124 CGATTTTCATTTCGCATTG
1 CGA--TTC-TCTCG--TTG
85143 CGATTCTCTCGTTG
1 CGATTCTCTCGTTG
85157 CGATT
1 CGATT
85162 TTCATTTCGC
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
14 11 0.35
16 7 0.23
17 7 0.23
19 6 0.19
ACGTcount: A:0.12, C:0.25, G:0.19, T:0.44
Consensus pattern (14 bp):
CGATTCTCTCGTTG
Found at i:86727 original size:21 final size:21
Alignment explanation
Indices: 86661--86730 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
86651 GTGAATCGGG
*
86661 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
86681 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
86703 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
86724 CTCTTGA
1 CTCTTGA
86731 GGAATGATAG
Statistics
Matches: 35, Mismatches: 13, Indels: 2
0.70 0.26 0.04
Matches are distributed among these distances:
21 33 0.94
22 2 0.06
ACGTcount: A:0.20, C:0.20, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:86746 original size:42 final size:41
Alignment explanation
Indices: 86661--86783 Score: 122
Period size: 42 Copynumber: 2.9 Consensus size: 41
86651 GTGAATCGGG
* * *
86661 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTCTT-AAGGATGACAGGGGC
* *
86703 CTCTTGAACGGTGGGAGGGGACTCTTGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTTAAGG-ATGACAGGGGC
* * * *
86745 CTCTTCAACGATAGGAGTGGACTCTTAAGGGATGACAGG
1 CTCTTGAACGGTGGGAGGGGACTCTTAA-GGATGACAGG
86784 CGAGTCGGGC
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
41 2 0.03
42 59 0.88
43 6 0.09
ACGTcount: A:0.24, C:0.18, G:0.36, T:0.23
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTTAAGGATGACAGGGGC
Found at i:87135 original size:94 final size:94
Alignment explanation
Indices: 86974--87335 Score: 593
Period size: 94 Copynumber: 3.9 Consensus size: 94
86964 TTAAACAGTG
* *
86974 AAAACAAAGACAAATACTAACTTCAGAGTATTAAAGAATACACAGTTTAGCAGAATTGGCAGCAA
1 AAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAA
*
87039 CCGAACAAATTTACTTTCAACCAAAAGTC
66 CCGAACAAATTTACTTTCAACCAAAAGAC
*
87068 AAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGCATAATTGGCAGCAA
1 AAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAA
*
87133 CCGCACAAATTTACTTTCAACCAAAAGAC
66 CCGAACAAATTTACTTTCAACCAAAAGAC
*
87162 AAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGACAGCAA
1 AAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAA
*
87227 CCGAATAAATTTAC-TTCAACCAAAAGAC
66 CCGAACAAATTTACTTTCAACCAAAAGAC
* * *
87255 AAAACAAAAGACAAATACTAACTTCATAATGTTAAAGAATA-ACCAGTTTAGCAGTATTGGCAGC
1 AAAAC-AAAGACAAATACTAACTTCACAGTGTTAAAGAATACA-CAGTTTAGCAGAATTGGCAGC
*
87319 AACCGAATAAATTTACT
64 AACCGAACAAATTTACT
87336 AAGCAATCTA
Statistics
Matches: 252, Mismatches: 13, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
93 20 0.08
94 232 0.92
ACGTcount: A:0.47, C:0.19, G:0.12, T:0.22
Consensus pattern (94 bp):
AAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAA
CCGAACAAATTTACTTTCAACCAAAAGAC
Found at i:89035 original size:20 final size:20
Alignment explanation
Indices: 89005--89066 Score: 81
Period size: 20 Copynumber: 3.1 Consensus size: 20
88995 TTTTGGTTGA
89005 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
** *
89025 AATGACTATCGCAACGCGA-
1 AATGAAAATCGCAACGAGAG
*
89044 AATTAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
89064 AAT
1 AAT
89067 CGCAACGCGA
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
19 15 0.44
20 19 0.56
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.15
Consensus pattern (20 bp):
AATGAAAATCGCAACGAGAG
Found at i:89046 original size:39 final size:33
Alignment explanation
Indices: 89003--89120 Score: 164
Period size: 33 Copynumber: 3.4 Consensus size: 33
88993 TCTTTTGGTT
89003 GAAATGAAAATCGCAACGAGAGAATGACTATCGCAACGC
1 GAAATGAAAATCGCAAC--GAG-A-GA--ATCGCAACGC
*
89042 GAAATTAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
89075 GAAATTAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
89108 GAAATGAAAATCG
1 GAAATGAAAATCG
89121 TAATGCGATT
Statistics
Matches: 77, Mismatches: 2, Indels: 6
0.91 0.02 0.07
Matches are distributed among these distances:
33 55 0.71
35 2 0.03
36 1 0.01
37 3 0.04
39 16 0.21
ACGTcount: A:0.46, C:0.19, G:0.22, T:0.13
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:89056 original size:19 final size:19
Alignment explanation
Indices: 89003--89120 Score: 94
Period size: 19 Copynumber: 6.7 Consensus size: 19
88993 TCTTTTGGTT
*
89003 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
**
89022 GAGAATGACTATCGCAACGC
1 GA-AATGAAAATCGCAACGC
*
89042 GAAATTAAAATCGCAA--C
1 GAAATGAAAATCGCAACGC
*
89059 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
89075 GAAATTAAAATCGCAA--C
1 GAAATGAAAATCGCAACGC
*
89092 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
89108 GAAATGAAAATCG
1 GAAATGAAAATCG
89121 TAATGCGATT
Statistics
Matches: 75, Mismatches: 13, Indels: 22
0.68 0.12 0.20
Matches are distributed among these distances:
14 18 0.24
15 2 0.03
16 4 0.05
17 4 0.05
18 2 0.03
19 29 0.39
20 16 0.21
ACGTcount: A:0.46, C:0.19, G:0.22, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:89069 original size:14 final size:14
Alignment explanation
Indices: 89050--89106 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
89040 GCGAAATTAA
89050 AATCGCAACGAGAG
1 AATCGCAACGAGAG
* *
89064 AATCGCAACGCGAAATTAA
1 AATCGCAA--CG--A-GAG
89083 AATCGCAACGAGAG
1 AATCGCAACGAGAG
89097 AATCGCAACG
1 AATCGCAACG
89107 CGAAATGAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
14 19 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 9 0.26
ACGTcount: A:0.44, C:0.23, G:0.23, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:89074 original size:33 final size:33
Alignment explanation
Indices: 89032--89120 Score: 169
Period size: 33 Copynumber: 2.7 Consensus size: 33
89022 GAGAATGACT
89032 ATCGCAACGCGAAATTAAAATCGCAACGAGAGA
1 ATCGCAACGCGAAATTAAAATCGCAACGAGAGA
89065 ATCGCAACGCGAAATTAAAATCGCAACGAGAGA
1 ATCGCAACGCGAAATTAAAATCGCAACGAGAGA
*
89098 ATCGCAACGCGAAATGAAAATCG
1 ATCGCAACGCGAAATTAAAATCG
89121 TAATGCGATT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 55 1.00
ACGTcount: A:0.45, C:0.21, G:0.21, T:0.12
Consensus pattern (33 bp):
ATCGCAACGCGAAATTAAAATCGCAACGAGAGA
Found at i:89224 original size:20 final size:19
Alignment explanation
Indices: 89155--89226 Score: 90
Period size: 20 Copynumber: 3.6 Consensus size: 19
89145 CGATTCTCTA
89155 GTTGCGATTTTCATTTCTCT
1 GTTGCGATTTTCATTT-TCT
**
89175 CGTTGCGATAGTCATTTTCGT
1 -GTTGCGATTTTCATTTTC-T
89196 GTTGCGATTTTCATTTTCAT
1 GTTGCGATTTTCATTTTC-T
89216 GTTGCGATTTT
1 GTTGCGATTTT
89227 AAGTTTAGAA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
20 30 0.67
21 15 0.33
ACGTcount: A:0.12, C:0.17, G:0.19, T:0.51
Consensus pattern (19 bp):
GTTGCGATTTTCATTTTCT
Found at i:89814 original size:20 final size:20
Alignment explanation
Indices: 89785--89996 Score: 205
Period size: 20 Copynumber: 10.4 Consensus size: 20
89775 TTAAAAATCA
*
89785 CGTTGTGATTTACGGATACG
1 CGTTGCGATTTACGGATACG
* *
89805 CGTTGCGATTTTACGTAT-TG
1 CGTTGCGA-TTTACGGATACG
89825 TCGTTGCGATTTACGGATACG
1 -CGTTGCGATTTACGGATACG
* * * *
89846 CATTGCGATTTACGTATTCT
1 CGTTGCGATTTACGGATACG
* *
89866 CGTTGCGATTTACAGATACT
1 CGTTGCGATTTACGGATACG
* * *
89886 CGTTGCGATTTACGTATTCT
1 CGTTGCGATTTACGGATACG
89906 CGTTGCGATTTA-GTGATACG
1 CGTTGCGATTTACG-GATACG
* *
89926 CGTTGCGATTTTACGTAT-TG
1 CGTTGCGA-TTTACGGATACG
89946 TCGTTGCGATTTACGGATACG
1 -CGTTGCGATTTACGGATACG
* *
89967 CGTTGCAATTTTACGGATACT
1 CGTTGCGA-TTTACGGATACG
89988 CGTTGCGAT
1 CGTTGCGAT
89997 AGTCAGAATC
Statistics
Matches: 157, Mismatches: 26, Indels: 18
0.78 0.13 0.09
Matches are distributed among these distances:
19 1 0.01
20 105 0.67
21 50 0.32
22 1 0.01
ACGTcount: A:0.19, C:0.18, G:0.25, T:0.39
Consensus pattern (20 bp):
CGTTGCGATTTACGGATACG
Found at i:89869 original size:40 final size:41
Alignment explanation
Indices: 89785--90037 Score: 320
Period size: 41 Copynumber: 6.2 Consensus size: 41
89775 TTAAAAATCA
* *
89785 CGTTGTGATTTACGGATACGCGTTGCGATTTTACGTATTGT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
*
89826 CGTTGCGATTTACGGATACGCATTGCGA-TTTACGTATTCT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
* *
89866 CGTTGCGATTTACAGATACTCGTTGCGA-TTTACGTATTCT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
*
89906 CGTTGCGATTTA-GTGATACGCGTTGCGATTTTACGTATTGT
1 CGTTGCGATTTACG-GATACGCGTTGCGATTTTACGTATTCT
* * *
89947 CGTTGCGATTTACGGATACGCGTTGCAATTTTACGGATACT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
* * * *
89988 CGTTGCGATAGT-CAGA-ATCGCGTTGCGATTTT-CATATTCG
1 CGTTGCGAT-TTACGGATA-CGCGTTGCGATTTTACGTATTCT
90028 CGTTGCGATT
1 CGTTGCGATT
90038 CTGGAAAATC
Statistics
Matches: 186, Mismatches: 21, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
40 87 0.47
41 97 0.52
42 2 0.01
ACGTcount: A:0.19, C:0.18, G:0.25, T:0.38
Consensus pattern (41 bp):
CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
Found at i:90037 original size:20 final size:20
Alignment explanation
Indices: 89803--90037 Score: 147
Period size: 20 Copynumber: 11.6 Consensus size: 20
89793 TTTACGGATA
89803 CGCGTTGCGATTTTACGTATT
1 CGCGTTGCGATTTT-CGTATT
* * *
89824 -GTCGTTGCGATTTACGGATA
1 CG-CGTTGCGATTTTCGTATT
* *
89844 CGCATTGCGATTTACGTATT
1 CGCGTTGCGATTTTCGTATT
* * *
89864 CTCGTTGCGATTTACAG-ATA
1 CGCGTTGCGATTTTC-GTATT
* *
89884 CTCGTTGCGATTTACGTATT
1 CGCGTTGCGATTTTCGTATT
* * *
89904 CTCGTTGCGA-TTTAGTGATA
1 CGCGTTGCGATTTTCGT-ATT
89924 CGCGTTGCGATTTTACGTATT
1 CGCGTTGCGATTTT-CGTATT
* * *
89945 -GTCGTTGCGATTTACGGATA
1 CG-CGTTGCGATTTTCGTATT
* * *
89965 CGCGTTGCAATTTTACGGATA
1 CGCGTTGCGATTTT-CGTATT
* ** *
89986 CTCGTTGCGATAGTCAG-AAT
1 CGCGTTGCGATTTTC-GTATT
*
90006 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTTCGTATT
90026 CGCGTTGCGATT
1 CGCGTTGCGATT
90038 CTGGAAAATC
Statistics
Matches: 170, Mismatches: 32, Indels: 25
0.75 0.14 0.11
Matches are distributed among these distances:
19 5 0.03
20 116 0.68
21 47 0.28
22 2 0.01
ACGTcount: A:0.19, C:0.19, G:0.24, T:0.38
Consensus pattern (20 bp):
CGCGTTGCGATTTTCGTATT
Found at i:90136 original size:20 final size:19
Alignment explanation
Indices: 90087--90140 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
90077 ATTATTCATA
90087 ATCGCGTTGCGATTCTGGG
1 ATCGCGTTGCGATTCTGGG
* **
90106 AACTGATTTGCGATTCTGGAG
1 ATC-GCGTTGCGATTCTGG-G
90127 ATCGCGTTGCGATT
1 ATCGCGTTGCGATT
90141 TTTATTTCGC
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
19 2 0.07
20 22 0.81
21 3 0.11
ACGTcount: A:0.17, C:0.19, G:0.31, T:0.33
Consensus pattern (19 bp):
ATCGCGTTGCGATTCTGGG
Found at i:90155 original size:19 final size:19
Alignment explanation
Indices: 90128--90180 Score: 97
Period size: 19 Copynumber: 2.8 Consensus size: 19
90118 ATTCTGGAGA
*
90128 TCGCGTTGCGATTTTTATT
1 TCGCATTGCGATTTTTATT
90147 TCGCATTGCGATTTTTATT
1 TCGCATTGCGATTTTTATT
90166 TCGCATTGCGATTTT
1 TCGCATTGCGATTTT
90181 GTTGGTCATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.13, C:0.17, G:0.19, T:0.51
Consensus pattern (19 bp):
TCGCATTGCGATTTTTATT
Found at i:90599 original size:18 final size:16
Alignment explanation
Indices: 90568--90601 Score: 50
Period size: 18 Copynumber: 2.0 Consensus size: 16
90558 AGAGTTCAAC
90568 AAATAAAATATATATA
1 AAATAAAATATATATA
90584 AAATGAAAATTATATATA
1 AAAT-AAAA-TATATATA
90602 GTTTAGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 4 0.25
18 8 0.50
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (16 bp):
AAATAAAATATATATA
Found at i:95185 original size:21 final size:23
Alignment explanation
Indices: 95144--95190 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
95134 TTTTTTAAAA
**
95144 TTTGACATTGAAAAATAAATT-T
1 TTTGACATCAAAAAATAAATTAT
95166 TTTGACATCAAAAAAT-AATTAT
1 TTTGACATCAAAAAATAAATTAT
95188 TTT
1 TTT
95191 TAAAATTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.43
Consensus pattern (23 bp):
TTTGACATCAAAAAATAAATTAT
Found at i:95602 original size:2 final size:2
Alignment explanation
Indices: 95595--95628 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
95585 AATTTTAACA
95595 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
95629 TACGTTAAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:95811 original size:59 final size:60
Alignment explanation
Indices: 95703--95819 Score: 173
Period size: 59 Copynumber: 1.9 Consensus size: 60
95693 TACGAGTAAA
95703 ATCCAACATCAGAGACAGACAATAAGAAGCATGAATCGATGATAGTATATGAAAAGCACGGT
1 ATCCAACATCAGAGACAGAC-A-AAGAAGCATGAATCGATGATAGTATATGAAAAGCACGGT
* * * *
95765 ATCCAACATCCGAGACAGAC-AAGAAGCATGCATCGGTGATAGTATATGGAAAGCA
1 ATCCAACATCAGAGACAGACAAAGAAGCATGAATCGATGATAGTATATGAAAAGCA
95820 AAACCTTGCA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
59 32 0.63
62 19 0.37
ACGTcount: A:0.43, C:0.18, G:0.22, T:0.17
Consensus pattern (60 bp):
ATCCAACATCAGAGACAGACAAAGAAGCATGAATCGATGATAGTATATGAAAAGCACGGT
Found at i:96684 original size:12 final size:13
Alignment explanation
Indices: 96653--96685 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
96643 GCCCAAACAA
96653 AAACCCTAAGCCC
1 AAACCCTAAGCCC
96666 AAA-CCTAAG-CC
1 AAACCCTAAGCCC
96677 AAACCCTAA
1 AAACCCTAA
96686 CTGCTAAGCC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 5 0.26
12 11 0.58
13 3 0.16
ACGTcount: A:0.45, C:0.39, G:0.06, T:0.09
Consensus pattern (13 bp):
AAACCCTAAGCCC
Found at i:99281 original size:22 final size:23
Alignment explanation
Indices: 99234--99289 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
99224 CTCGTATAAA
*
99234 TGCACCGAAGTGCCACGTAGAAT
1 TGCACCGAAGTACCACGTAGAAT
**
99257 TGCACCGAAGTACTGCGT-GAAT
1 TGCACCGAAGTACCACGTAGAAT
*
99279 TGCACCAAAGT
1 TGCACCGAAGT
99290 TCCATATAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 14 0.48
23 15 0.52
ACGTcount: A:0.30, C:0.25, G:0.25, T:0.20
Consensus pattern (23 bp):
TGCACCGAAGTACCACGTAGAAT
Done.