Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006120.1 Hibiscus syriacus cultivar Beakdansim tig00014514_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: 76652
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:1226 original size:7 final size:7
Alignment explanation
Indices: 1216--1243 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
1206 TTTGTTTTTC
1216 ATTCTTT
1 ATTCTTT
1223 ATTCTTT
1 ATTCTTT
1230 ATTCTTT
1 ATTCTTT
1237 ATTCTTT
1 ATTCTTT
1244 TATTTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (7 bp):
ATTCTTT
Found at i:1250 original size:36 final size:35
Alignment explanation
Indices: 1161--1250 Score: 85
Period size: 36 Copynumber: 2.5 Consensus size: 35
1151 TATTTGTTGT
*
1161 TTTTTATTC-CTTATTTTTCATTCATTTTATATTA
1 TTTTTATTCTTTTATTTTTCATTCATTTTATATTA
* * * * *
1195 TTATTATTATTTTTGTTTTTCATTCTTTATTCT-TTA
1 TTTTTATT-CTTTTATTTTTCATTCATT-TTATATTA
1231 TTCTTTATTCTTTTATTTTT
1 TT-TTTATTCTTTTATTTTT
1251 TTTATCATTT
Statistics
Matches: 43, Mismatches: 9, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
34 7 0.16
36 28 0.65
37 8 0.19
ACGTcount: A:0.17, C:0.10, G:0.01, T:0.72
Consensus pattern (35 bp):
TTTTTATTCTTTTATTTTTCATTCATTTTATATTA
Found at i:1268 original size:54 final size:55
Alignment explanation
Indices: 1163--1277 Score: 148
Period size: 54 Copynumber: 2.1 Consensus size: 55
1153 TTTGTTGTTT
*
1163 TTTATTCCTTATTTTTCATTCATTTTATATTATTATTATTATTTTTGTTTTTCATTC
1 TTTATTCCTTATTTTTCATTCATTTTATATTATTATTATCATTTTTGTTTTTC--TC
* *
1220 TTTATTCTTTATTCTTT-ATTC-TTTTAT-TT-TTTTTATCATTTTTGTTTTTCTC
1 TTTATTCCTTATT-TTTCATTCATTTTATATTATTATTATCATTTTTGTTTTTCTC
1272 TTTATT
1 TTTATT
1278 TTATTTATTT
Statistics
Matches: 54, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
52 8 0.15
54 19 0.35
55 2 0.04
56 6 0.11
57 16 0.30
58 3 0.06
ACGTcount: A:0.16, C:0.10, G:0.02, T:0.72
Consensus pattern (55 bp):
TTTATTCCTTATTTTTCATTCATTTTATATTATTATTATCATTTTTGTTTTTCTC
Found at i:1286 original size:4 final size:4
Alignment explanation
Indices: 1272--1378 Score: 58
Period size: 4 Copynumber: 24.8 Consensus size: 4
1262 TGTTTTTCTC
* *
1272 TTTA TTTTA TTTA TTT- TTTA TTTA TTGTC CTT- TTTA TTTTA TTTA TTTA
1 TTTA -TTTA TTTA TTTA TTTA TTTA TT-TA TTTA TTTA -TTTA TTTA TTTA
* *
1321 CTTTA TTTA TCTTAA TCTTC TTTA TTTC TTTA TTTTA TTT- TCCTTAA TTTA
1 -TTTA TTTA T-TT-A T-TTA TTTA TTTA TTTA -TTTA TTTA T--TT-A TTTA
1372 TTTA TTT
1 TTTA TTT
1379 CCATTACTTT
Statistics
Matches: 83, Mismatches: 7, Indels: 25
0.72 0.06 0.22
Matches are distributed among these distances:
3 6 0.07
4 46 0.55
5 25 0.30
6 5 0.06
7 1 0.01
ACGTcount: A:0.19, C:0.08, G:0.01, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:1292 original size:54 final size:56
Alignment explanation
Indices: 1171--1293 Score: 146
Period size: 54 Copynumber: 2.2 Consensus size: 56
1161 TTTTTATTCC
* * *
1171 TTATTTTTCATTCATTTTATATTATTATTATTATTTTTGTTTTTCATTCTTTATTCT
1 TTATTTTTTATTCATTTTATATTATTATTATCATTTTTGTTTTTCA-TCTTTATTAT
* *
1228 TTATTCTTTATTC-TTTTAT-TT-TTTTTATCATTTTTGTTTTTC-TCTTTATTTTAT
1 TTATTTTTTATTCATTTTATATTATTATTATCATTTTTGTTTTTCATCTTTA--TTAT
1282 TTATTTTTTATT
1 TTATTTTTTATT
1294 TATTGTCCTT
Statistics
Matches: 58, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
52 6 0.10
54 33 0.57
55 2 0.03
56 6 0.10
57 11 0.19
ACGTcount: A:0.16, C:0.08, G:0.02, T:0.74
Consensus pattern (56 bp):
TTATTTTTTATTCATTTTATATTATTATTATCATTTTTGTTTTTCATCTTTATTAT
Found at i:1345 original size:32 final size:31
Alignment explanation
Indices: 1277--1378 Score: 106
Period size: 32 Copynumber: 3.4 Consensus size: 31
1267 TTCTCTTTAT
*
1277 TTTATTTATTT-TTTA-TTTATTGTCCTT--
1 TTTATTTATTTATTTACTTTATTTTCCTTAA
1304 TTTATTTTATTTATTTACTTTATTTAT-CTTAA
1 TTTA-TTTATTTATTTACTTTATTT-TCCTTAA
* * *
1336 TCTTCTTTATTTCTTTATTTTATTTTCCTTAA
1 T-TTATTTATTTATTTACTTTATTTTCCTTAA
1368 TTTATTTATTT
1 TTTATTTATTT
1379 CCATTACTTT
Statistics
Matches: 62, Mismatches: 5, Indels: 12
0.78 0.06 0.15
Matches are distributed among these distances:
27 4 0.06
28 7 0.11
29 4 0.06
30 9 0.15
31 11 0.18
32 25 0.40
33 2 0.03
ACGTcount: A:0.19, C:0.09, G:0.01, T:0.72
Consensus pattern (31 bp):
TTTATTTATTTATTTACTTTATTTTCCTTAA
Found at i:1394 original size:32 final size:32
Alignment explanation
Indices: 1309--1394 Score: 81
Period size: 32 Copynumber: 2.7 Consensus size: 32
1299 TCCTTTTTAT
* *
1309 TTTATTT-ATTTACTTTATTTAT-CTTAATCTTC
1 TTTATTTCA-TTACTTT-TTTTTCCTTAATCTTA
*
1341 TTTATTTCTTTA-TTTTATTTTCCTTAAT-TTA
1 TTTATTTCATTACTTTT-TTTTCCTTAATCTTA
1372 TTTATTTCCATTACTTTTTTTTC
1 TTTATTT-CATTACTTTTTTTTC
1395 TCTAACACTT
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
30 1 0.02
31 15 0.33
32 25 0.56
33 4 0.09
ACGTcount: A:0.19, C:0.13, G:0.00, T:0.69
Consensus pattern (32 bp):
TTTATTTCATTACTTTTTTTTCCTTAATCTTA
Found at i:5081 original size:88 final size:87
Alignment explanation
Indices: 4916--5094 Score: 268
Period size: 88 Copynumber: 2.0 Consensus size: 87
4906 ATATATATAC
* * *
4916 AATAAAGCTTGAGATGTCCCTCTAGAGCAATTGGTTAACGCCCTAGCTTTATGGATAAGATTCAG
1 AATAAAGCTTGAGATGTCCCTCTAGAGAAACTGGTTAACGCCCCAGCTTTATGGATAAGATTCAG
*
4981 CTATCCTGATAAAGGTAATTAT
66 CTAGCCTGATAAAGGTAATTAT
* * * *
5003 AATAAAGCTTGAGTTGTCCCTTTAGAGAAACTGGTTAAATGCCCCAGCTTTATGGATAATATTCA
1 AATAAAGCTTGAGATGTCCCTCTAGAGAAACTGGTT-AACGCCCCAGCTTTATGGATAAGATTCA
*
5068 GCTAGCCTGATAAAGGTGATTAT
65 GCTAGCCTGATAAAGGTAATTAT
5091 AATA
1 AATA
5095 TCTATACAAT
Statistics
Matches: 82, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
87 32 0.39
88 50 0.61
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (87 bp):
AATAAAGCTTGAGATGTCCCTCTAGAGAAACTGGTTAACGCCCCAGCTTTATGGATAAGATTCAG
CTAGCCTGATAAAGGTAATTAT
Found at i:6601 original size:168 final size:168
Alignment explanation
Indices: 6267--7472 Score: 1636
Period size: 168 Copynumber: 7.2 Consensus size: 168
6257 AAACTATAGA
* * * * * * *
6267 CAGCATAACTCAAGGCGAGAAGAGTTATCTGTCAGCC-AAGACCGTCGAGTTCGATTACACTCAG
1 CAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAG
* * * * * * * *
6331 CTCAAAGGCACATCATTTGTAGCATAGCTCAAGGCAAAAAGAGCTATCTGCCACAAAAAAAACCT
66 CTCCAAGGCACATCATTTGCAACATAGCTCAAGGCAAGAAGGGCTATTTGCCA-ACAAAAGACCT
* * * *
6396 TCAAGTTCGACTACACTCAGCTCCAAGGCACATCATTTG
130 TCGAGTTCGACTACGCTCAGCTCAAAGGCATATCATTTG
* *
6435 TAGTATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAG
1 CAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAG
* *
6500 CTCCAAGGCACATCATTTGTAACATAGCTCAAGGCAAGAAGGGCTATTTACCAACAAAAGACCTT
66 CTCCAAGGCACATCATTTGCAACATAGCTCAAGGCAAGAAGGGCTATTTGCCAACAAAAGACCTT
6565 CGAGTTCGACTACGCTCAGCTCAAAGGCATATCATTTG
131 CGAGTTCGACTACGCTCAGCTCAAAGGCATATCATTTG
* * * *
6603 CAGCATAACTCAAGGCTATAAGGGTTATCTGCCAATCAAAGACCTTCGAGTTCGACTACGCTTAA
1 CAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAG
*
6668 CTCCAAGGCACATCATTTGCAATATAGCTCAAGGCAAGAAGGGCTATTTGCCAACAAAAGACCTT
66 CTCCAAGGCACATCATTTGCAACATAGCTCAAGGCAAGAAGGGCTATTTGCCAACAAAAGACCTT
* * * *
6733 TGAGTTTGACTACGCTTAGCTCAAAGACATATCATTTG
131 CGAGTTCGACTACGCTCAGCTCAAAGGCATATCATTTG
* * * *
6771 CAGTATAACTCAAGGTTAGAAAGTTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAG
1 CAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAG
* * *
6836 CTCCAAGGCACATCATTTGCAACATAGCTCAAGGCAAGAAGAGTTATTTGCCAACGAAAGACCTT
66 CTCCAAGGCACATCATTTGCAACATAGCTCAAGGCAAGAAGGGCTATTTGCCAACAAAAGACCTT
6901 CGAGTTCGACTA----CA-CTCAAAGGCATATCATTTG
131 CGAGTTCGACTACGCTCAGCTCAAAGGCATATCATTTG
* *
6934 CAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGGCTACGTTCAG
1 CAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAG
* *
6999 CTCCAAGGCACATCATTTGCAACATAACTCAAGGCAAGAAGGGCTATTTGCCAACAAAATACCTT
66 CTCCAAGGCACATCATTTGCAACATAGCTCAAGGCAAGAAGGGCTATTTGCCAACAAAAGACCTT
*
7064 TGAGTTCGACTACGCTCAGCTCAAAGGCATATCATTTG
131 CGAGTTCGACTACGCTCAGCTCAAAGGCATATCATTTG
* * * *
7102 TAGCATAACTCAAGACTAGAAGGGTTATCTTCCAACCAAAGACCTTCGAGTTCAACTACGCTCAG
1 CAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAG
* * * *
7167 CTCCAAGGCACATCATTTGCAGCATAACTCAAGGAAAGAAGGGTTATTTGCCAACAAAAGACCTT
66 CTCCAAGGCACATCATTTGCAACATAGCTCAAGGCAAGAAGGGCTATTTGCCAACAAAAGACCTT
* * * * *
7232 CAAGTTCCACTACGCTCAGCTCCAAGGCACATTATTTG
131 CGAGTTCGACTACGCTCAGCTCAAAGGCATATCATTTG
* * * *
7270 CAGCATAAC-CAAAGGCTAGAAGGGTTATCTGTCAACAAAAGACCTTCGAGTTCGATTACACTCA
1 CAGCATAACTC-AAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCA
* * * * *
7334 ACTCAAAGGCACATCATTTGCAGA-ATAGCTCAAGGCAAGAAGGGCTATCTGCTAACTAAAGACC
65 GCTCCAAGGCACATCATTTGCA-ACATAGCTCAAGGCAAGAAGGGCTATTTGCCAACAAAAGACC
* * * * * *
7398 TTCGAGTTTGATTACACTCAGCTCCAAGGCACATTATTTG
129 TTCGAGTTCGACTACGCTCAGCTCAAAGGCATATCATTTG
* * * * *
7438 TAACATAGCTCAAGGCGAGAAGGGCTATCTGCCAA
1 CAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAA
7473 AAAAAAACCC
Statistics
Matches: 923, Mismatches: 106, Indels: 18
0.88 0.10 0.02
Matches are distributed among these distances:
163 148 0.16
164 1 0.00
167 3 0.00
168 699 0.76
169 72 0.08
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (168 bp):
CAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAG
CTCCAAGGCACATCATTTGCAACATAGCTCAAGGCAAGAAGGGCTATTTGCCAACAAAAGACCTT
CGAGTTCGACTACGCTCAGCTCAAAGGCATATCATTTG
Found at i:7510 original size:84 final size:84
Alignment explanation
Indices: 6267--7477 Score: 1430
Period size: 84 Copynumber: 14.5 Consensus size: 84
6257 AAACTATAGA
* * * * * * * *
6267 CAGCATAACTCAAGGCGAGAAGAGTTATCTGTCAGC-CAAGACCGTCGAGTTCGATTACACTCAG
1 CAGCATAACTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAG
*
6331 CTCAAAGGCACATCATTTG
66 CTCCAAGGCACATCATTTG
* * * * * * * * *
6350 TAGCATAGCTCAAGGCAAAAAGAGCTATCTGCCACAAAAAAAACCTTCAAGTTCGACTACACTCA
1 CAGCATAACTCAAGGCAAGAAGGGTTATCTGCCA-ACAAAAGACCTTCGAGTTCGACTACGCTCA
6415 GCTCCAAGGCACATCATTTG
65 GCTCCAAGGCACATCATTTG
* * * *
6435 TAGTATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAG
1 CAGCATAACTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAG
6500 CTCCAAGGCACATCATTTG
66 CTCCAAGGCACATCATTTG
* * * * * *
6519 TAACATAGCTCAAGGCAAGAAGGGCTATTTACCAACAAAAGACCTTCGAGTTCGACTACGCTCAG
1 CAGCATAACTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAG
* *
6584 CTCAAAGGCATATCATTTG
66 CTCCAAGGCACATCATTTG
* * *
6603 CAGCATAACTCAAGGCTATAAGGGTTATCTGCCAATC-AAAGACCTTCGAGTTCGACTACGCTTA
1 CAGCATAACTCAAGGCAAGAAGGGTTATCTGCCAA-CAAAAGACCTTCGAGTTCGACTACGCTCA
*
6667 ACTCCAAGGCACATCATTTG
65 GCTCCAAGGCACATCATTTG
** * * * * * *
6687 CAATATAGCTCAAGGCAAGAAGGGCTATTTGCCAACAAAAGACCTTTGAGTTTGACTACGCTTAG
1 CAGCATAACTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAG
* * *
6752 CTCAAAGACATATCATTTG
66 CTCCAAGGCACATCATTTG
* ** * * *
6771 CAGTATAACTCAAGGTTAGAAAGTTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAG
1 CAGCATAACTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAG
6836 CTCCAAGGCACATCATTTG
66 CTCCAAGGCACATCATTTG
* * * * *
6855 CAACATAGCTCAAGGCAAGAAGAGTTATTTGCCAACGAAAGACCTTCGAGTTCGACTA----CA-
1 CAGCATAACTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAG
* *
6915 CTCAAAGGCATATCATTTG
66 CTCCAAGGCACATCATTTG
* * * *
6934 CAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGGCTACGTTCAG
1 CAGCATAACTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAG
6999 CTCCAAGGCACATCATTTG
66 CTCCAAGGCACATCATTTG
* * * * *
7018 CAACATAACTCAAGGCAAGAAGGGCTATTTGCCAACAAAATACCTTTGAGTTCGACTACGCTCAG
1 CAGCATAACTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAG
* *
7083 CTCAAAGGCATATCATTTG
66 CTCCAAGGCACATCATTTG
* * * * * *
7102 TAGCATAACTCAAGACTAGAAGGGTTATCTTCCAACCAAAGACCTTCGAGTTCAACTACGCTCAG
1 CAGCATAACTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAG
7167 CTCCAAGGCACATCATTTG
66 CTCCAAGGCACATCATTTG
* * * *
7186 CAGCATAACTCAAGGAAAGAAGGGTTATTTGCCAACAAAAGACCTTCAAGTTCCACTACGCTCAG
1 CAGCATAACTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAG
*
7251 CTCCAAGGCACATTATTTG
66 CTCCAAGGCACATCATTTG
* * * *
7270 CAGCATAAC-CAAAGGCTAGAAGGGTTATCTGTCAACAAAAGACCTTCGAGTTCGATTACACTCA
1 CAGCATAACTC-AAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCA
* *
7334 ACTCAAAGGCACATCATTTG
65 GCTCCAAGGCACATCATTTG
* * * * * * * *
7354 CAGAATAGCTCAAGGCAAGAAGGGCTATCTGCTAACTAAAGACCTTCGAGTTTGATTACACTCAG
1 CAGCATAACTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAG
*
7419 CTCCAAGGCACATTATTTG
66 CTCCAAGGCACATCATTTG
* * * * * *
7438 TAACATAGCTCAAGGCGAGAAGGGCTATCTGCCAAAAAAA
1 CAGCATAACTCAAGGCAAGAAGGGTTATCTGCCAACAAAA
7478 AACCCCTTGA
Statistics
Matches: 958, Mismatches: 159, Indels: 21
0.84 0.14 0.02
Matches are distributed among these distances:
79 68 0.07
80 2 0.00
83 32 0.03
84 785 0.82
85 71 0.07
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (84 bp):
CAGCATAACTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAG
CTCCAAGGCACATCATTTG
Found at i:8176 original size:37 final size:36
Alignment explanation
Indices: 8133--8510 Score: 218
Period size: 39 Copynumber: 10.0 Consensus size: 36
8123 TTTGAAATAG
8133 ATATATAATATATAGTTTTTTAAAAAGCATTTTGAAAA
1 ATATATAATATATAGTTTTTTAAAAA-CATTTTG-AAA
* *
8171 CATATATATTATATAGTTTTTAAAAAAACATTTTGGAAA
1 -ATATATAATATATAGTTTTT-TAAAAACATTTT-GAAA
*
8210 TATATATATATATAATA-TAGTTTTTGAAAACATTTTGAAAA
1 -ATATATA-ATAT-ATAGT--TTTTTAAAAACATTTTG-AAA
*
8251 CATATATATTATATAGTTTTTTTTAAAAAAACATTTTG-AA
1 -ATATATAATATATAG--TTTTTT--AAAAACATTTTGAAA
** **
8291 ATATAT-ATAATATAG-TTTTCGAAAACAATTTAAAAA
1 ATATATAAT-ATATAGTTTTTTAAAAAC-ATTTTGAAA
* * * *
8327 TATATATAATATATGGTTTTTAAAAAATATTTGGAAAAA
1 -ATATATAATATATAGTTTTTTAAAAACATTTTG--AAA
*
8366 TATATATAATATATAATTTTTT-AAAACATTTTGAAA
1 -ATATATAATATATAGTTTTTTAAAAACATTTTGAAA
* * * *
8402 ACTATACAATATATA--ATTTTGAAAACATTTTTAAA
1 A-TATATAATATATAGTTTTTTAAAAACATTTTGAAA
* ***
8437 ATATATATATATAATA-TGGTTTTAAAATGTTATTTGAAA
1 ATATATA-ATAT-ATAGT-TTTTTAAAAACAT-TTTGAAA
* * * *
8476 ATATATATTATAT-G-ATTTTAAAAATATTTTTAAA
1 ATATATAATATATAGTTTTTTAAAAACATTTTGAAA
8510 A
1 A
8511 AACATATATA
Statistics
Matches: 270, Mismatches: 41, Indels: 61
0.73 0.11 0.16
Matches are distributed among these distances:
34 21 0.08
35 32 0.12
36 24 0.09
37 17 0.06
38 31 0.11
39 85 0.31
40 21 0.08
41 23 0.09
42 16 0.06
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.43
Consensus pattern (36 bp):
ATATATAATATATAGTTTTTTAAAAACATTTTGAAA
Found at i:8176 original size:39 final size:38
Alignment explanation
Indices: 8122--8459 Score: 289
Period size: 39 Copynumber: 8.8 Consensus size: 38
8112 TGCTAATGGT
*
8122 TTTTGAAATAGATATATAATATATAGTTTTTTAAAAAGCA
1 TTTTGAAA-ATATATATAATATATAGTTTTTTAAAAA-CA
* * *
8162 TTTTGAAAACATATATATTATATAGTTTTTAAAAAAACA
1 TTTTGAAAATATATATAATATATAGTTTTT-TAAAAACA
*
8201 TTTTGGAAATATATATATATATAATATAG-TTTTTGAAAACA
1 TTTT-GAAA-ATATATATA-AT-ATATAGTTTTTTAAAAACA
* *
8242 TTTTGAAAACATATATATTATATAGTTTTTTTTAAAAAAACA
1 TTTTGAAAATATATATAATATATAG--TTTTTT--AAAAACA
**
8284 TTTTG-AAATATATAT-A-ATATAG-TTTTCGAAAACA
1 TTTTGAAAATATATATAATATATAGTTTTTTAAAAACA
* * * * *
8318 ATTTAAAAATATATATAATATATGGTTTTTAAAAAATA
1 TTTTGAAAATATATATAATATATAGTTTTTTAAAAACA
* *
8356 TTTGGAAAAATATATATAATATATAATTTTTT-AAAACA
1 TTTTG-AAAATATATATAATATATAGTTTTTTAAAAACA
* * * *
8394 TTTTGAAAA-CTATACAATATATA--ATTTTGAAAACA
1 TTTTGAAAATATATATAATATATAGTTTTTTAAAAACA
* *
8429 TTTTTAAAATATATATATATAATATGGTTTT
1 TTTTGAAAATATATATA-AT-ATATAGTTTT
8460 AAAATGTTAT
Statistics
Matches: 241, Mismatches: 36, Indels: 42
0.76 0.11 0.13
Matches are distributed among these distances:
34 13 0.05
35 24 0.10
36 22 0.09
37 17 0.07
38 25 0.10
39 63 0.26
40 28 0.12
41 27 0.11
42 16 0.07
43 6 0.02
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.43
Consensus pattern (38 bp):
TTTTGAAAATATATATAATATATAGTTTTTTAAAAACA
Found at i:8371 original size:76 final size:78
Alignment explanation
Indices: 8127--8459 Score: 287
Period size: 76 Copynumber: 4.3 Consensus size: 78
8117 ATGGTTTTTG
* * * * *
8127 AAATAGATATATA-ATATATAGTTTTTTAAAAAGCATTTTGAAAACATATATATTATATAGTTTT
1 AAATATATATATATA-ATATAG-TTTTTGAAAA-CATTTTAAAAATATATATAATATATAGTTTT
8191 TAAAAAAACATTTTGGA
63 TAAAAAAACA-TTTGGA
* **
8208 AATATATATATATATAATATAGTTTTTGAAAACATTTTGAAAACATATATATTATATAGTTTTTT
1 AA-ATATATATATATAATATAGTTTTTGAAAACATTTT-AAAA-ATATATATAATATA-TAGTTT
*
8273 TTAAAAAAACATTTTG-
62 TTAAAAAAACATTTGGA
* * *
8289 --A-A-ATATATATAATATAGTTTTCGAAAACAATTTAAAAATATATATAATATATGGTTTTT-A
1 AAATATATATATATAATATAGTTTTTGAAAACATTTTAAAAATATATATAATATATAGTTTTTAA
*
8349 AAAAATATTTGGA
66 AAAAACATTTGGA
* * * * * *
8362 AAA-ATATATATA-ATATATAATTTTTTAAAACATTTTGAAAA-CTATACAATATATA-ATTTT-
1 AAATATATATATATA-ATATAGTTTTTGAAAACATTTTAAAAATATATATAATATATAGTTTTTA
* **
8422 -GAAAACATTTTTA
65 AAAAAACATTTGGA
*
8435 AAATATATATATATAATATGGTTTT
1 AAATATATATATATAATATAGTTTT
8460 AAAATGTTAT
Statistics
Matches: 209, Mismatches: 31, Indels: 31
0.77 0.11 0.11
Matches are distributed among these distances:
72 11 0.05
73 18 0.09
74 34 0.16
75 19 0.09
76 58 0.28
77 1 0.00
78 1 0.00
80 6 0.03
81 14 0.07
82 31 0.15
83 16 0.08
ACGTcount: A:0.47, C:0.04, G:0.07, T:0.43
Consensus pattern (78 bp):
AAATATATATATATAATATAGTTTTTGAAAACATTTTAAAAATATATATAATATATAGTTTTTAA
AAAAACATTTGGA
Found at i:8418 original size:36 final size:34
Alignment explanation
Indices: 8215--8451 Score: 120
Period size: 36 Copynumber: 6.4 Consensus size: 34
8205 GGAAATATAT
* *
8215 ATATATATAATATAGTTTTTGAAAACATTTTGAAAA
1 ATATAAAT-ATATAATTTTTGAAAACATTTTG-AAA
** *
8251 CATATATATTATATAGTTTTTTTTAAAAAAACATTTTG-AA
1 -ATATA-A--ATATA-TAATTTTT--GAAAACATTTTGAAA
* * * * *
8291 ATATATATAATATAGTTTTCGAAAACAATTTAAAA
1 ATATAAAT-ATATAATTTTTGAAAACATTTTGAAA
* * *
8326 ATATATATA-ATATATGGTTTTTAAAAAATATTTGGAAAAA
1 ATATAAATATATA-AT--TTTTGAAAACAT-TTT-G--AAA
*
8366 TATATATAATATATAATTTTTTAAAACATTTTGAAA
1 -ATATA-AATATATAATTTTTGAAAACATTTTGAAA
*
8402 ACTATACAATATATAA-TTTTGAAAACATTTTTAAA
1 A-TATA-AATATATAATTTTTGAAAACATTTTGAAA
*
8437 ATATATATATATAAT
1 ATATAAATATATAAT
8452 ATGGTTTTAA
Statistics
Matches: 157, Mismatches: 23, Indels: 43
0.70 0.10 0.19
Matches are distributed among these distances:
33 11 0.07
34 15 0.10
35 29 0.18
36 31 0.20
37 11 0.07
38 1 0.01
39 11 0.07
40 24 0.15
41 5 0.03
42 16 0.10
43 3 0.02
ACGTcount: A:0.48, C:0.04, G:0.05, T:0.43
Consensus pattern (34 bp):
ATATAAATATATAATTTTTGAAAACATTTTGAAA
Found at i:8510 original size:73 final size:71
Alignment explanation
Indices: 8291--8523 Score: 195
Period size: 73 Copynumber: 3.1 Consensus size: 71
8281 ACATTTTGAA
* *
8291 ATATATATAAT-ATAGTTTTCGAAAACA-ATTTAAAAATATATATAATATATGGTTTTTAAAAAA
1 ATATATATAATAAT-GTTTT--AAAACATATTTGAAAATATATAT--TATAT-GATTTT-AAAAA
**
8354 TATTTGGAAAAAT
59 TATTTTTAAAAAT
* * * * * *
8367 ATATATAATATATAATTTTTTAAAACAT-TTTGAAAACTATACAATATATAATTTTGAAAACATT
1 ATATAT-ATA-ATAATGTTTTAAAACATATTTGAAAA-TATATATTATATGATTTTAAAAATATT
8431 TTTAAAATAT
63 TTTAAAA-AT
**
8441 ATATATATAAT-ATGGTTTTAAAATGTTATTTGAAAATATATATTATATGATTTTAAAAATATTT
1 ATATATATAATAAT-GTTTTAAAA-CATATTTGAAAATATATATTATATGATTTTAAAAATATTT
*
8505 TTAAAAAAC
64 TT-AAAAAT
8514 ATATATATAA
1 ATATATATAA
8524 CATATGATTT
Statistics
Matches: 128, Mismatches: 19, Indels: 23
0.75 0.11 0.14
Matches are distributed among these distances:
71 2 0.02
72 10 0.08
73 52 0.41
74 24 0.19
75 5 0.04
76 19 0.15
77 8 0.06
78 6 0.05
79 2 0.02
ACGTcount: A:0.49, C:0.03, G:0.06, T:0.42
Consensus pattern (71 bp):
ATATATATAATAATGTTTTAAAACATATTTGAAAATATATATTATATGATTTTAAAAATATTTTT
AAAAAT
Found at i:8561 original size:11 final size:10
Alignment explanation
Indices: 8545--8587 Score: 54
Period size: 9 Copynumber: 4.3 Consensus size: 10
8535 TAAATATTCT
8545 TTTTTATTTTA
1 TTTTTA-TTTA
8556 TTTTTA-TTA
1 TTTTTATTTA
8565 TTTTTATTTA
1 TTTTTATTTA
8575 TTATTTA-TTA
1 TT-TTTATTTA
8585 TTT
1 TTT
8588 ATGCATTTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
9 10 0.33
10 10 0.33
11 10 0.33
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTTTATTTA
Found at i:8565 original size:14 final size:14
Alignment explanation
Indices: 8544--8589 Score: 53
Period size: 13 Copynumber: 3.4 Consensus size: 14
8534 TTAAATATTC
8544 TTTT-TTATTTTAT
1 TTTTATTATTTTAT
8557 TTTTATTATTTT-T
1 TTTTATTATTTTAT
*
8570 ATTTATTA-TTTAT
1 TTTTATTATTTTAT
8583 TATTTAT
1 T-TTTAT
8590 GCATTTCTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
12 3 0.11
13 13 0.46
14 12 0.43
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (14 bp):
TTTTATTATTTTAT
Found at i:8568 original size:20 final size:20
Alignment explanation
Indices: 8545--8587 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 20
8535 TAAATATTCT
8545 TTTTTATTTTATT-TTTATTA
1 TTTTTA-TTTATTATTTATTA
8565 TTTTTATTTATTATTTATTA
1 TTTTTATTTATTATTTATTA
8585 TTT
1 TTT
8588 ATGCATTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTTTATTTATTATTTATTA
Found at i:8580 original size:7 final size:7
Alignment explanation
Indices: 8552--8589 Score: 62
Period size: 7 Copynumber: 5.7 Consensus size: 7
8542 TCTTTTTTAT
8552 TTTATT-
1 TTTATTA
8558 TTTATTA
1 TTTATTA
8565 TTT-TTA
1 TTTATTA
8571 TTTATTA
1 TTTATTA
8578 TTTATTA
1 TTTATTA
8585 TTTAT
1 TTTAT
8590 GCATTTCTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 12 0.40
7 18 0.60
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTATTA
Found at i:9576 original size:16 final size:16
Alignment explanation
Indices: 9557--9646 Score: 58
Period size: 16 Copynumber: 5.3 Consensus size: 16
9547 CATTCTTTAT
9557 TTTTTATTATTTTTTC
1 TTTTTATTATTTTTTC
*
9573 -TTTTATTATTATTATTA
1 TTTTTATTATT-TT-TTC
*
9590 TTTATTATTTATCGTTTTTG
1 TTT-TTA-TTAT--TTTTTC
* *
9610 TTTTTGTTTTTTTTTC
1 TTTTTATTATTTTTTC
*
9626 TTTTTCTT-TTCTTTTC
1 TTTTTATTATT-TTTTC
9642 TTTTT
1 TTTTT
9647 TATTTATTAT
Statistics
Matches: 60, Mismatches: 6, Indels: 16
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.20
16 24 0.40
17 2 0.03
18 5 0.08
19 5 0.08
20 9 0.15
21 2 0.03
22 1 0.02
ACGTcount: A:0.11, C:0.07, G:0.03, T:0.79
Consensus pattern (16 bp):
TTTTTATTATTTTTTC
Found at i:9687 original size:22 final size:22
Alignment explanation
Indices: 9636--9688 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 22
9626 TTTTTCTTTT
*
9636 CTTTTCTT-TTTTATTTATTATC
1 CTTTT-TTATTTTATTTATTATA
9658 CTTTTTTATTTTATTTATT-TA
1 CTTTTTTATTTTATTTATTATA
9679 CTTTCTTTAT
1 CTTT-TTTAT
9689 CTTAATCTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 7 0.25
22 21 0.75
ACGTcount: A:0.15, C:0.11, G:0.00, T:0.74
Consensus pattern (22 bp):
CTTTTTTATTTTATTTATTATA
Found at i:9737 original size:18 final size:19
Alignment explanation
Indices: 9698--9737 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
9688 TCTTAATCTT
9698 CTTTATTTTATTTTCCTTA
1 CTTTATTTTATTTTCCTTA
9717 CTTTA-TTT-TTTTCCATTA
1 CTTTATTTTATTTTCC-TTA
9735 CTT
1 CTT
9738 CTTTTTTCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 6 0.30
18 9 0.45
19 5 0.25
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.68
Consensus pattern (19 bp):
CTTTATTTTATTTTCCTTA
Found at i:10844 original size:27 final size:27
Alignment explanation
Indices: 10774--10833 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 27
10764 CAACAATTAT
* *
10774 ATAATTATATTATATAAAAATTAAATAA
1 ATAATGATATAATAT-AAAATTAAATAA
10802 ATAATGATATAATATAAAATTAACAT-A
1 ATAATGATATAATATAAAATTAA-ATAA
10829 ATAAT
1 ATAAT
10834 TTTTTAATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 14 0.48
28 15 0.52
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (27 bp):
ATAATGATATAATATAAAATTAAATAA
Found at i:21928 original size:22 final size:22
Alignment explanation
Indices: 21860--21928 Score: 52
Period size: 23 Copynumber: 3.0 Consensus size: 22
21850 AAATATTATA
* *
21860 TTTTAAAATTATTAATTG-ATAT
1 TTTTAAAATTAATAA-AGAATAT
* *
21882 ATTTTAAATATTCAAT-AATATTAT
1 -TTTTAAA-ATT-AATAAAGAATAT
21906 TTTTAAAATTAATAAAGAATAT
1 TTTTAAAATTAATAAAGAATAT
21928 T
1 T
21929 ACTTTTATTA
Statistics
Matches: 36, Mismatches: 6, Indels: 9
0.71 0.12 0.18
Matches are distributed among these distances:
21 3 0.08
22 10 0.28
23 14 0.39
24 7 0.19
25 2 0.06
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.49
Consensus pattern (22 bp):
TTTTAAAATTAATAAAGAATAT
Found at i:21998 original size:23 final size:22
Alignment explanation
Indices: 21972--22041 Score: 72
Period size: 23 Copynumber: 3.1 Consensus size: 22
21962 AAAAAATATA
21972 ATATTATTATAATG-TAATTAAAT
1 ATATTATTATAATGTTAA--AAAT
*
21995 ATATTAATATAATGTTAAAAAT
1 ATATTATTATAATGTTAAAAAT
*
22017 ATAATATTATATTAT-TTAAAAAT
1 ATATTATTATA--ATGTTAAAAAT
22040 AT
1 AT
22042 CGATAAATAT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
22 13 0.32
23 23 0.56
24 5 0.12
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (22 bp):
ATATTATTATAATGTTAAAAAT
Found at i:22058 original size:45 final size:46
Alignment explanation
Indices: 21963--22058 Score: 108
Period size: 47 Copynumber: 2.1 Consensus size: 46
21953 TATTAAAATA
*
21963 AAAAATATAATATTATTATAATGTAATTAAATATATTAATATAATGTT
1 AAAAATATAATATTATTATAATGTAA-TAAATATATAAATATAA-GTT
* *
22011 AAAAATATAATATTA-TATTATTTAA-AAATATCGATAAATATAA-TT
1 AAAAATATAATATTATTATAATGTAATAAATAT--ATAAATATAAGTT
22056 AAA
1 AAA
22059 TAGTTAATGT
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
45 11 0.26
47 17 0.40
48 15 0.35
ACGTcount: A:0.55, C:0.01, G:0.03, T:0.41
Consensus pattern (46 bp):
AAAAATATAATATTATTATAATGTAATAAATATATAAATATAAGTT
Found at i:22119 original size:13 final size:14
Alignment explanation
Indices: 22075--22125 Score: 52
Period size: 13 Copynumber: 3.7 Consensus size: 14
22065 ATGTTTTTAT
22075 TAAATATATTAAAA
1 TAAATATATTAAAA
* *
22089 T-GATATATTAATAG
1 TAAATATATTAA-AA
22103 TAAATATA-TAAAA
1 TAAATATATTAAAA
*
22116 TAAAAATATT
1 TAAATATATT
22126 TTGAGATTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
13 17 0.59
14 7 0.24
15 5 0.17
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (14 bp):
TAAATATATTAAAA
Found at i:27049 original size:34 final size:34
Alignment explanation
Indices: 26943--27053 Score: 102
Period size: 34 Copynumber: 3.1 Consensus size: 34
26933 GTTTTAACAT
26943 TTTGGTATAACTTTAACATTTCTTCATTTCAGTG
1 TTTGGTATAACTTTAACATTTCTTCATTTCAGTG
* **
26977 TTT-GTAAAAGGCAAATTCTGCAA-ATTT-AACATTTCAGTG
1 TTTGGTATAA--C---TT-T--AACATTTCTTCATTTCAGTG
27016 TTTGGTATAACTTTAACATTTCTTCATTTCAGTG
1 TTTGGTATAACTTTAACATTTCTTCATTTCAGTG
27050 TTTG
1 TTTG
27054 TAGAAGGTTG
Statistics
Matches: 60, Mismatches: 6, Indels: 22
0.68 0.07 0.25
Matches are distributed among these distances:
32 2 0.03
33 9 0.15
34 18 0.30
35 3 0.05
38 3 0.05
39 14 0.23
40 9 0.15
41 2 0.03
ACGTcount: A:0.27, C:0.14, G:0.14, T:0.46
Consensus pattern (34 bp):
TTTGGTATAACTTTAACATTTCTTCATTTCAGTG
Found at i:27915 original size:21 final size:20
Alignment explanation
Indices: 27891--27934 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
27881 TATTTGAATT
*
27891 AATTAATATATACCAAACATA
1 AATTAATAAATACCAAACA-A
* *
27912 AATTTATAAATATCAAACAA
1 AATTAATAAATACCAAACAA
27932 AAT
1 AAT
27935 ATCAAAATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.59, C:0.11, G:0.00, T:0.30
Consensus pattern (20 bp):
AATTAATAAATACCAAACAA
Found at i:27982 original size:23 final size:24
Alignment explanation
Indices: 27956--28001 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
27946 ATATATATAT
*
27956 ATTTATAT-ATATTAAATCAAATA
1 ATTTATATCATACTAAATCAAATA
*
27979 ATTTTTATGCATACTAAATCAAA
1 ATTTATAT-CATACTAAATCAAA
28002 GCATTAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 7 0.37
25 12 0.63
ACGTcount: A:0.48, C:0.09, G:0.02, T:0.41
Consensus pattern (24 bp):
ATTTATATCATACTAAATCAAATA
Found at i:28124 original size:23 final size:22
Alignment explanation
Indices: 28081--28124 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
28071 TTAATTAATA
*
28081 AATACATTTCAAAAATTAAAAT
1 AATACATTTCAAAAATGAAAAT
* *
28103 AATATATTTGAAACAATGAAAA
1 AATACATTTCAAA-AATGAAAA
28125 GATTAAAATC
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.59, C:0.07, G:0.05, T:0.30
Consensus pattern (22 bp):
AATACATTTCAAAAATGAAAAT
Found at i:31311 original size:30 final size:31
Alignment explanation
Indices: 31271--31346 Score: 82
Period size: 31 Copynumber: 2.5 Consensus size: 31
31261 ATGAAAGCAT
*
31271 GGTAATTTAGTAATTATA-ATGAAATTCAAG
1 GGTAAATTAGTAATTATATATGAAATTCAAG
* * * * *
31301 GGTAAATTAGTAAATATATTTTAATTTTAAG
1 GGTAAATTAGTAATTATATATGAAATTCAAG
*
31332 GGTAAATCAGTAATT
1 GGTAAATTAGTAATT
31347 TAGCATTTTA
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
30 16 0.43
31 21 0.57
ACGTcount: A:0.42, C:0.03, G:0.16, T:0.39
Consensus pattern (31 bp):
GGTAAATTAGTAATTATATATGAAATTCAAG
Found at i:33314 original size:21 final size:21
Alignment explanation
Indices: 33272--33314 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
33262 TTTTCGGGTT
* * *
33272 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCACTCA
*
33293 AGGGGAACCGATACCCCCTCA
1 AGGGGAACCGATACCCACTCA
33314 A
1 A
33315 CGAATATGAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.14
Consensus pattern (21 bp):
AGGGGAACCGATACCCACTCA
Found at i:33366 original size:20 final size:20
Alignment explanation
Indices: 33341--33378 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
33331 GATTGCTGGA
*
33341 GGGGAATCGATACCCCCAGG
1 GGGGAACCGATACCCCCAGG
*
33361 GGGGAACCGATTCCCCCA
1 GGGGAACCGATACCCCCA
33379 TAAGAAAAAA
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:0.24, C:0.34, G:0.32, T:0.11
Consensus pattern (20 bp):
GGGGAACCGATACCCCCAGG
Found at i:34124 original size:149 final size:149
Alignment explanation
Indices: 33854--34157 Score: 527
Period size: 149 Copynumber: 2.0 Consensus size: 149
33844 GGGTAGAGGG
* * *
33854 TCTACGCGGTTCTTTGGGACATATGTATATTCTTTGGAACATGTGTGAGGTTTTGAAAGACACAT
1 TCTACGCGGTTCTTTGGGACATATATATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
* * *
33919 ACTTGATCCTTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCATAGTATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATTA
*
33984 TAGGGCACTATGGTGCAAT
131 TAGGGCACTACGGTGCAAT
34003 TCTACGCGGTTCTTTGGGACATATATATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTTCTTTGGGACATATATATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
*
34068 ACTTGATCCATAGTATATGTATATGGTTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATTA
66 ACTTGATCCATAGTATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATTA
*
34133 TATGGCACTACGGTGCAAT
131 TAGGGCACTACGGTGCAAT
34152 TCTACG
1 TCTACG
34158 GGGCACTTCG
Statistics
Matches: 146, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
149 146 1.00
ACGTcount: A:0.27, C:0.15, G:0.21, T:0.37
Consensus pattern (149 bp):
TCTACGCGGTTCTTTGGGACATATATATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
ACTTGATCCATAGTATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATTA
TAGGGCACTACGGTGCAAT
Found at i:34180 original size:23 final size:23
Alignment explanation
Indices: 34136--34180 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
34126 ATCATTATAT
*
34136 GGCACTACGGTGCAATTCTACGG
1 GGCACTACGGTGCAATTATACGG
* *
34159 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
34181 AGCTATGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGG
Found at i:36472 original size:14 final size:14
Alignment explanation
Indices: 36453--36495 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
36443 TTGACCCAGT
36453 TTTGACCAGACCCG
1 TTTGACCAGACCCG
*
36467 TTTGACCTGACCC-
1 TTTGACCAGACCCG
* *
36480 ATTGACCCGACCCG
1 TTTGACCAGACCCG
36494 TT
1 TT
36496 GACTGCCATT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.19, C:0.37, G:0.19, T:0.26
Consensus pattern (14 bp):
TTTGACCAGACCCG
Found at i:40109 original size:16 final size:16
Alignment explanation
Indices: 40090--40122 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
40080 AATATTATTA
40090 TTATTAGAATTTAATG
1 TTATTAGAATTTAATG
40106 TTATTAGAATTTAATG
1 TTATTAGAATTTAATG
40122 T
1 T
40123 CTCATTAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (16 bp):
TTATTAGAATTTAATG
Found at i:48915 original size:3 final size:3
Alignment explanation
Indices: 48907--48939 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
48897 GAAATAATGA
48907 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
48940 TTATTTTTAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:52899 original size:41 final size:42
Alignment explanation
Indices: 52778--52898 Score: 160
Period size: 41 Copynumber: 3.0 Consensus size: 42
52768 CGTTTATACC
**
52778 ACAAACGCCGTAATAGTAT-TAATCAATAGTGGCG-TTTTTAG
1 ACAAACGCCACAATAGT-TGTAATCAATAGTGGCGTTTTTTAG
* *
52819 ATAAACGCCACAATAGTTTTAATCAATAGTGGCGTTTTTTA-
1 ACAAACGCCACAATAGTTGTAATCAATAGTGGCGTTTTTTAG
*
52860 ACAATCGCCACAATAG-TGTAATCAATAGTGGCGTTTTTT
1 ACAAACGCCACAATAGTTGTAATCAATAGTGGCGTTTTTT
52899 TGTATAAACG
Statistics
Matches: 72, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
40 23 0.32
41 43 0.60
42 6 0.08
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (42 bp):
ACAAACGCCACAATAGTTGTAATCAATAGTGGCGTTTTTTAG
Found at i:53775 original size:8 final size:8
Alignment explanation
Indices: 53764--53794 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
53754 GAAAACTGGA
53764 AATAAGCT
1 AATAAGCT
53772 AATAAGCT
1 AATAAGCT
*
53780 AATAATCT
1 AATAAGCT
53788 AATAAGC
1 AATAAGC
53795 GATTCGTGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.52, C:0.13, G:0.10, T:0.26
Consensus pattern (8 bp):
AATAAGCT
Found at i:53932 original size:29 final size:29
Alignment explanation
Indices: 53882--53938 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
53872 AAAGTCTAAT
*
53882 TATTTTATTGTTGCATTGTTGTTAACAAA
1 TATTTTATTGTTGCATTGTTGTGAACAAA
53911 TATTTT-TTGGTTGCA-TGATTGTGAACAA
1 TATTTTATT-GTTGCATTG-TTGTGAACAA
53939 TGCAAATGGC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 4 0.16
29 21 0.84
ACGTcount: A:0.26, C:0.07, G:0.18, T:0.49
Consensus pattern (29 bp):
TATTTTATTGTTGCATTGTTGTGAACAAA
Found at i:58974 original size:43 final size:43
Alignment explanation
Indices: 58875--58998 Score: 144
Period size: 43 Copynumber: 2.9 Consensus size: 43
58865 TTTTTGAAGA
* *
58875 AAACGCCGCTAAACATCAACGA-CTATTGCGGCGTTTGTCTGCC
1 AAACGCCGCTAAATATCAAC-ACCTATTGCGGCGTTTGTATGCC
* * * *
58918 AAATGCCGTTAAATATCAACACCTATTGCGGCGTTT-TAATTCT
1 AAACGCCGCTAAATATCAACACCTATTGCGGCGTTTGT-ATGCC
* *
58961 AAACGCCGCTAAATATCAATACCTTTTGCGGCGTTTGT
1 AAACGCCGCTAAATATCAACACCTATTGCGGCGTTTGT
58999 TGAACAATCG
Statistics
Matches: 68, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
42 2 0.03
43 65 0.96
44 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (43 bp):
AAACGCCGCTAAATATCAACACCTATTGCGGCGTTTGTATGCC
Found at i:59011 original size:43 final size:44
Alignment explanation
Indices: 58863--59014 Score: 133
Period size: 43 Copynumber: 3.5 Consensus size: 44
58853 GACTGTTGTA
* * *
58863 CGTTT-TTGAAGAAAACGCCGCTAAACATCAACGA-CTATTGCGG
1 CGTTTGTTGAACAAATCGCCGCTAAATATCAAC-ACCTATTGCGG
* *
58906 CGTTTGTCTG-CCAAAT-GCCGTTAAATATCAACACCTATTGCGG
1 CGTTTGT-TGAACAAATCGCCGCTAAATATCAACACCTATTGCGG
* *
58949 CG-TT-TT-AATTCTAAA-CGCCGCTAAATATCAATACCTTTTGCGG
1 CGTTTGTTGAA--C-AAATCGCCGCTAAATATCAACACCTATTGCGG
58992 CGTTTGTTGAAC-AATCGCCGCTA
1 CGTTTGTTGAACAAATCGCCGCTA
59015 TATGTTGTAA
Statistics
Matches: 88, Mismatches: 9, Indels: 24
0.73 0.07 0.20
Matches are distributed among these distances:
40 1 0.01
41 1 0.01
42 6 0.07
43 67 0.76
44 7 0.08
45 4 0.05
46 2 0.02
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (44 bp):
CGTTTGTTGAACAAATCGCCGCTAAATATCAACACCTATTGCGG
Found at i:59345 original size:59 final size:58
Alignment explanation
Indices: 59234--59358 Score: 175
Period size: 59 Copynumber: 2.2 Consensus size: 58
59224 ATGTTTTAAA
* *
59234 TAATTATTTTTTACTTTTAATGTTTTAGATTTGGACCAAAACAGGTCCAATAACAAGT
1 TAATTATTTTTAACTTTTAATGTTTTAGATTTGGACCAAAACAGGACCAATAACAAGT
* * *
59292 TAATTAATTTTTAACTTTTAATGTTTTGGGTTTGGACCAAAACA-GACC--TAATAAGT
1 TAATT-ATTTTTAACTTTTAATGTTTTAGATTTGGACCAAAACAGGACCAATAACAAGT
59348 TAATTATTTTT
1 TAATTATTTTT
59359 TTGGATTTGA
Statistics
Matches: 61, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
55 6 0.10
56 12 0.20
58 8 0.13
59 35 0.57
ACGTcount: A:0.34, C:0.10, G:0.12, T:0.44
Consensus pattern (58 bp):
TAATTATTTTTAACTTTTAATGTTTTAGATTTGGACCAAAACAGGACCAATAACAAGT
Found at i:60372 original size:20 final size:19
Alignment explanation
Indices: 60310--60389 Score: 63
Period size: 20 Copynumber: 3.9 Consensus size: 19
60300 GATCCTTTTA
*
60310 TTATTATTTT-TATTATTTT
1 TTATTATTTTAT-TTATTTG
* *
60329 TTACTAACTTTATTTATCTTTG
1 TTA-TTATTTTATTTA--TTTG
60351 TTATCTATTTTATTTATTTG
1 TTAT-TATTTTATTTATTTG
*
60371 TTATTATTATATTATATTT
1 TTATTATTTTATT-TATTT
60390 TCTCTTTTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
19 11 0.22
20 21 0.43
21 2 0.04
22 15 0.31
ACGTcount: A:0.24, C:0.05, G:0.03, T:0.69
Consensus pattern (19 bp):
TTATTATTTTATTTATTTG
Found at i:64108 original size:64 final size:64
Alignment explanation
Indices: 63953--64108 Score: 206
Period size: 64 Copynumber: 2.4 Consensus size: 64
63943 GTCAATTTCT
* * *
63953 ACTTCACAACGAAAGATATTGGACTCAACAAACAACGTTTCAGTTTCATTCAGAGTAAATTTTA
1 ACTTCACAACGAAGGATATTGGACTCAACAAACAACGTTTCAGTTTCATTCAGAGTAAACTTCA
* * *
64017 ACTTCACAACGAAGGATATTAGACTCAACAAATAAC-TTTCCAGTTTCATTCAGAGTTAACTTCA
1 ACTTCACAACGAAGGATATTGGACTCAACAAACAACGTTT-CAGTTTCATTCAGAGTAAACTTCA
* * * *
64081 ACTTCACGATGAAGGATCTTGGGCTCAA
1 ACTTCACAACGAAGGATATTGGACTCAA
64109 AACAACACAA
Statistics
Matches: 80, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
63 3 0.04
64 77 0.96
ACGTcount: A:0.37, C:0.21, G:0.14, T:0.29
Consensus pattern (64 bp):
ACTTCACAACGAAGGATATTGGACTCAACAAACAACGTTTCAGTTTCATTCAGAGTAAACTTCA
Found at i:64306 original size:146 final size:147
Alignment explanation
Indices: 64041--64399 Score: 522
Period size: 146 Copynumber: 2.4 Consensus size: 147
64031 GATATTAGAC
* * * * ** *
64041 TCAACAAATAACTTTCCAGTTTCATTCAGAGTTAACTTCAACTTCACGATGAAGGATCTTGGGCT
1 TCAACAAACAACTTTCCAGTTTCATTCATAGTCAATTTCAACTTCACGGCGAAGGATCTTGGACT
* *
64106 CAAAACAACACAATATTGGATTTCAACTTCACAATGAAGGATATCCAATTCAAAGCCCAACTTCA
66 CAAAACAACACAAGATTGGATTTCAACTTCACAACGAAGGATATCCAATTCAAAGCCCAACTTCA
*
64171 CAGCGAAGGGGAGTCTG
131 CAACGAAGGGGAGTCTG
* * *
64188 TCAACAAACAACTTTTCGGTTTCATTCATAGTCAATTTCAAATTCACGGCGAAGGATCTTGGACT
1 TCAACAAACAACTTTCCAGTTTCATTCATAGTCAATTTCAACTTCACGGCGAAGGATCTTGGACT
* *
64253 C-GAACAACACAAGATTGGATTTCAACTTCACAACGAAGGATATCCAATTCAAAGCTCAACTTCA
66 CAAAACAACACAAGATTGGATTTCAACTTCACAACGAAGGATATCCAATTCAAAGCCCAACTTCA
* *
64317 CAACGATGGGGCGTCTG
131 CAACGAAGGGGAGTCTG
* * * *
64334 TCAACAAACAACTTTCCAGTTTAATTCATAGTCAATTTCAACTTCACAGCGAAGGATATTGAACT
1 TCAACAAACAACTTTCCAGTTTCATTCATAGTCAATTTCAACTTCACGGCGAAGGATCTTGGACT
64399 C
66 C
64400 TAAGTGACAC
Statistics
Matches: 188, Mismatches: 24, Indels: 1
0.88 0.11 0.00
Matches are distributed among these distances:
146 132 0.70
147 56 0.30
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.27
Consensus pattern (147 bp):
TCAACAAACAACTTTCCAGTTTCATTCATAGTCAATTTCAACTTCACGGCGAAGGATCTTGGACT
CAAAACAACACAAGATTGGATTTCAACTTCACAACGAAGGATATCCAATTCAAAGCCCAACTTCA
CAACGAAGGGGAGTCTG
Found at i:64666 original size:109 final size:108
Alignment explanation
Indices: 64475--64839 Score: 586
Period size: 109 Copynumber: 3.4 Consensus size: 108
64465 AAATTGGTGA
* * *
64475 AACAATACTTGGATTTTAACTTCACAACGAAGGATATCCAATTAAAAGCTCAACTTCACAATGAA
1 AACAATACTTGGATTTCAACTTCACAACGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAA
64540 GAGGCCATCCACGATTTCAACTTCACGACGAAGGATATCGTGCC
66 G-GGCCATCCACGATTTCAACTTCACGACGAAGGATATCGTGCC
64584 AACAATACTTGGATTTCAACTTCACAACGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAA
1 AACAATACTTGGATTTCAACTTCACAACGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAA
* * * * *
64649 TGGGCCATCCATGATTTCAACTTCATGATGAAGGATATCATACC
66 -GGGCCATCCACGATTTCAACTTCACGACGAAGGATATCGTGCC
* * *
64693 AACAATACTTGGATTTTAACTTCACAATGAAGGATATCCAATTCAAAGCTCAACTTAACAACGAA
1 AACAATACTTGGATTTCAACTTCACAACGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAA
*
64758 GGGGTCATCCACGATTTCAACTTCACGACGAAGGATATCGTGCC
66 -GGGCCATCCACGATTTCAACTTCACGACGAAGGATATCGTGCC
*
64802 AACAATACTTGGATTTCAACTTCACGACGAAGGATATC
1 AACAATACTTGGATTTCAACTTCACAACGAAGGATATC
64840 GTGTCAACAA
Statistics
Matches: 234, Mismatches: 21, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
109 233 1.00
110 1 0.00
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.25
Consensus pattern (108 bp):
AACAATACTTGGATTTCAACTTCACAACGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAA
GGGCCATCCACGATTTCAACTTCACGACGAAGGATATCGTGCC
Found at i:64831 original size:43 final size:43
Alignment explanation
Indices: 64770--64882 Score: 208
Period size: 43 Copynumber: 2.6 Consensus size: 43
64760 GGTCATCCAC
64770 GATTTCAACTTCACGACGAAGGATATCGTGCCAACAATACTTG
1 GATTTCAACTTCACGACGAAGGATATCGTGCCAACAATACTTG
*
64813 GATTTCAACTTCACGACGAAGGATATCGTGTCAACAATACTTG
1 GATTTCAACTTCACGACGAAGGATATCGTGCCAACAATACTTG
*
64856 GATTTCAACTTCACGATGAAGGATATC
1 GATTTCAACTTCACGACGAAGGATATC
64883 TAATTCAAAG
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 68 1.00
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (43 bp):
GATTTCAACTTCACGACGAAGGATATCGTGCCAACAATACTTG
Found at i:64987 original size:151 final size:152
Alignment explanation
Indices: 64661--64989 Score: 500
Period size: 152 Copynumber: 2.2 Consensus size: 152
64651 GGCCATCCAT
* * *
64661 GATTTCAACTTCATGATGAAGGATATCATACCAACAATACTTGGATTTTAACTTCACAATGAAGG
1 GATTTCAACTTCACGACGAAGGATATCATACCAACAATACTTGGATTTCAACTTCACAATGAAGG
* * *
64726 ATATCCAATTCAAAGCTCAACTTAACAACGAAGGGGTCATCCACGATTTCAACTTCACGACGAAG
66 ATATCCAATTCAAAGCTCAACTTAACAACAAAGGAGCCATCCACGATTTCAACTTCACGACGAAG
64791 GATATCGTGCCAACAATACTTG
131 GATATCGTGCCAACAATACTTG
* ** *
64813 GATTTCAACTTCACGACGAAGGATATCGTGTCAACAATACTTGGATTTCAACTTCACGATGAAGG
1 GATTTCAACTTCACGACGAAGGATATCATACCAACAATACTTGGATTTCAACTTCACAATGAAGG
* * * *
64878 ATATCTAATTCAAAGCTCAACTTCACAA-AAAGGAGCCATCCACGATTTCAACTTCATGATGAAG
66 ATATCCAATTCAAAGCTCAACTTAACAACAAAGGAGCCATCCACGATTTCAACTTCACGACGAAG
64942 GATATCGTGCCAACAAT-CTTTG
131 GATATCGTGCCAACAATAC-TTG
*
64964 TATTTCAACTTCACGACGAAGGATAT
1 GATTTCAACTTCACGACGAAGGATAT
64990 ATAATTCAAG
Statistics
Matches: 161, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
150 1 0.01
151 76 0.47
152 84 0.52
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.27
Consensus pattern (152 bp):
GATTTCAACTTCACGACGAAGGATATCATACCAACAATACTTGGATTTCAACTTCACAATGAAGG
ATATCCAATTCAAAGCTCAACTTAACAACAAAGGAGCCATCCACGATTTCAACTTCACGACGAAG
GATATCGTGCCAACAATACTTG
Found at i:65004 original size:108 final size:109
Alignment explanation
Indices: 64813--65061 Score: 385
Period size: 108 Copynumber: 2.3 Consensus size: 109
64803 ACAATACTTG
* *
64813 GATTTCAACTTCACGACGAAGGATATCGTGTCAACAATACTTGGATTTCAACTTCACGATGAAGG
1 GATTTCAACTTCACGACGAAGGATATCGTGCCAACAATACTTGGATTTCAACTTCACGACGAAGG
*
64878 ATATCTAATTCAAAGCTCAACTTCACAA-AAAGGAGCCATCCAC
66 ATATATAATTCAAAGCTCAACTTCACAATAAAGGAGCCATCCAC
* * *
64921 GATTTCAACTTCATGATGAAGGATATCGTGCCAACAAT-CTTTGTATTTCAACTTCACGACGAAG
1 GATTTCAACTTCACGACGAAGGATATCGTGCCAACAATAC-TTGGATTTCAACTTCACGACGAAG
* * *
64985 GATATATAATTCAAGGCTCAACTTCACAATGAATGAGCCATCCAC
65 GATATATAATTCAAAGCTCAACTTCACAATAAAGGAGCCATCCAC
*
65030 GATTTCAACATCACGACGAAGGATATCGTGCC
1 GATTTCAACTTCACGACGAAGGATATCGTGCC
65062 CACTAGCAAC
Statistics
Matches: 127, Mismatches: 12, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
107 1 0.01
108 84 0.66
109 42 0.33
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (109 bp):
GATTTCAACTTCACGACGAAGGATATCGTGCCAACAATACTTGGATTTCAACTTCACGACGAAGG
ATATATAATTCAAAGCTCAACTTCACAATAAAGGAGCCATCCAC
Found at i:65034 original size:260 final size:260
Alignment explanation
Indices: 64552--65061 Score: 790
Period size: 260 Copynumber: 2.0 Consensus size: 260
64542 GGCCATCCAC
64552 GATTTCAACTTCACGACGAAGGATATCGTGCCAACAATACTTGGATTTCAACTTCACAACGAAGG
1 GATTTCAACTTCACGACGAAGGATATCGTGCCAACAATACTTGGATTTCAACTTCACAACGAAGG
* *
64617 ATATCCAATTCAAAGCTCAACTTCACAACGAATGGGCCATCCATGATTTCAACTTCATGATGAAG
66 ATATCCAATTCAAAGCTCAACTTCACAAC-AAAGGGCCATCCACGATTTCAACTTCATGATGAAG
* * *
64682 GATATCATACCAACAATACTTGGATTTTAACTTCACAATGAAGGATATCCAATTCAAAGCTCAAC
130 GATATCATACCAACAATACTTGGATTTCAACTTCACAACGAAGGATATACAATTCAAAGCTCAAC
* * *
64747 TTAACAACGAAGGGGTCATCCACGATTTCAACTTCACGACGAAGGATATCGTGCCAACAATACTT
195 TTAACAACGAAGGAGCCATCCACGATTTCAACATCACGACGAAGGATATCGTGCCAACAATACTT
64812 G
260 G
* * *
64813 GATTTCAACTTCACGACGAAGGATATCGTGTCAACAATACTTGGATTTCAACTTCACGATGAAGG
1 GATTTCAACTTCACGACGAAGGATATCGTGCCAACAATACTTGGATTTCAACTTCACAACGAAGG
*
64878 ATATCTAATTCAAAGCTCAACTTCACAA-AAAGGAGCCATCCACGATTTCAACTTCATGATGAAG
66 ATATCCAATTCAAAGCTCAACTTCACAACAAAGG-GCCATCCACGATTTCAACTTCATGATGAAG
* * * * * *
64942 GATATCGTGCCAACAAT-CTTTGTATTTCAACTTCACGACGAAGGATATATAATTCAAGGCTCAA
130 GATATCATACCAACAATAC-TTGGATTTCAACTTCACAACGAAGGATATACAATTCAAAGCTCAA
* * *
65006 CTTCACAATGAATGAGCCATCCACGATTTCAACATCACGACGAAGGATATCGTGCC
194 CTTAACAACGAAGGAGCCATCCACGATTTCAACATCACGACGAAGGATATCGTGCC
65062 CACTAGCAAC
Statistics
Matches: 226, Mismatches: 21, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
259 5 0.02
260 132 0.58
261 89 0.39
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (260 bp):
GATTTCAACTTCACGACGAAGGATATCGTGCCAACAATACTTGGATTTCAACTTCACAACGAAGG
ATATCCAATTCAAAGCTCAACTTCACAACAAAGGGCCATCCACGATTTCAACTTCATGATGAAGG
ATATCATACCAACAATACTTGGATTTCAACTTCACAACGAAGGATATACAATTCAAAGCTCAACT
TAACAACGAAGGAGCCATCCACGATTTCAACATCACGACGAAGGATATCGTGCCAACAATACTTG
Found at i:69032 original size:22 final size:22
Alignment explanation
Indices: 68998--69039 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
68988 GCACGGTTAG
*
68998 GCATTGAAACTTTCCTCTAAAT
1 GCATTGAAACTTTCATCTAAAT
* *
69020 GCATTTAACCTTTCATCTAA
1 GCATTGAAACTTTCATCTAA
69040 CTTGCATTAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (22 bp):
GCATTGAAACTTTCATCTAAAT
Found at i:69152 original size:239 final size:241
Alignment explanation
Indices: 68789--69230 Score: 646
Period size: 239 Copynumber: 1.8 Consensus size: 241
68779 AATACACTGT
* * * * *
68789 TTTCATTAACTGGCATTAGTGGCACCTTTCTGCCAAAATGCACAGTTAAGCATTTTAACTTTCCT
1 TTTCATTAACTGGCATTAGTGGCACATTTCTACCAAAATGCAAAGTTAAGAATTTAAACTTTCCT
* *
68854 CTAAAGGCATTTAACCTTTCATCTAACTGCATTATGGGCACCTTTCTGCCAATGCACAGTTAGAC
66 CTAAAGGCATTTAACCTTTCATCTAACTGCATTATGGGCACATTTCTACCAATGCACAGTTAGAC
* **
68919 ATTTAAACTTTCCTCTAAAGGCATTTAAGC-TTTCATCTAACTTGGATTATGAGCACCTTCCTGC
131 ATTTAAACTTTCCTCCAAAGGCATTTAA-CATTTCATCTAACTTGGATTACAAGCACCTTCCTGC
68983 AAAATGCACGGTTAGGCATTGAAACTTTCCTCTAAATGCATTTAACC
195 AAAATGCACGGTTAGGCATTGAAACTTTCCTCTAAATGCATTTAACC
*
69030 TTTCATCTAACTTGCATTA-TGAGCACATTTCTACC-AAATGCAAAGTT-AGAATTTAAACTTTC
1 TTTCAT-TAACTGGCATTAGTG-GCACATTTCTACCAAAATGCAAAGTTAAGAATTTAAACTTTC
*
69092 CTCT-AAGGCATTTAACCTTTCATCTAACTTGCATTAT-GG-ATATTTCTACCAAATGCACAGTT
64 CTCTAAAGGCATTTAACCTTTCATCTAAC-TGCATTATGGGCACATTTCTACC-AATGCACAGTT
* * *
69154 AGGCATTTAAACTTTCCTCCAAAGGCATTTAACATTTCATCTAACTTGTATTACAAGCACCTTTC
127 AGACATTTAAACTTTCCTCCAAAGGCATTTAACATTTCATCTAACTTGGATTACAAGCACCTTCC
*
69219 TGCCAAATGCAC
192 TGCAAAATGCAC
69231 AACTAGGCAT
Statistics
Matches: 180, Mismatches: 16, Indels: 12
0.87 0.08 0.06
Matches are distributed among these distances:
238 9 0.05
239 105 0.58
240 25 0.14
241 19 0.11
242 22 0.12
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.35
Consensus pattern (241 bp):
TTTCATTAACTGGCATTAGTGGCACATTTCTACCAAAATGCAAAGTTAAGAATTTAAACTTTCCT
CTAAAGGCATTTAACCTTTCATCTAACTGCATTATGGGCACATTTCTACCAATGCACAGTTAGAC
ATTTAAACTTTCCTCCAAAGGCATTTAACATTTCATCTAACTTGGATTACAAGCACCTTCCTGCA
AAATGCACGGTTAGGCATTGAAACTTTCCTCTAAATGCATTTAACC
Found at i:69238 original size:81 final size:81
Alignment explanation
Indices: 68789--69242 Score: 600
Period size: 81 Copynumber: 5.7 Consensus size: 81
68779 AATACACTGT
* * *
68789 TTTCAT-TAACTGGCATTAGTG-GCACCTTTCTGCCAAAATGCACAGTTAAGCATTTTAACTTTC
1 TTTCATCTAACTTGCATTA-TGAGCACCTTTCTGCC-AAATGCACAGTTAGGCATTTAAACTTTC
68852 CTCTAAAGGCATTTAACC
64 CTCTAAAGGCATTTAACC
* *
68870 TTTCATCTAAC-TGCATTATGGGCACCTTTCTGCC-AATGCACAGTTAGACATTTAAACTTTCCT
1 TTTCATCTAACTTGCATTATGAGCACCTTTCTGCCAAATGCACAGTTAGGCATTTAAACTTTCCT
*
68933 CTAAAGGCATTTAAGC
66 CTAAAGGCATTTAACC
* * * * *
68949 TTTCATCTAACTTGGATTATGAGCACCTTCCTGCAAAATGCACGGTTAGGCATTGAAACTTTCCT
1 TTTCATCTAACTTGCATTATGAGCACCTTTCTGCCAAATGCACAGTTAGGCATTTAAACTTTCCT
*
69014 CTAAATGCATTTAACC
66 CTAAAGGCATTTAACC
* * * *
69030 TTTCATCTAACTTGCATTATGAGCACATTTCTACCAAATGCAAAGTTA-GAATTTAAACTTTCCT
1 TTTCATCTAACTTGCATTATGAGCACCTTTCTGCCAAATGCACAGTTAGGCATTTAAACTTTCCT
69094 CT-AAGGCATTTAACC
66 CTAAAGGCATTTAACC
** *
69109 TTTCATCTAACTTGCATTATG-G-ATATTTCTACCAAATGCACAGTTAGGCATTTAAACTTTCCT
1 TTTCATCTAACTTGCATTATGAGCACCTTTCTGCCAAATGCACAGTTAGGCATTTAAACTTTCCT
* *
69172 CCAAAGGCATTTAACA
66 CTAAAGGCATTTAACC
* ** **
69188 TTTCATCTAACTTGTATTACAAGCACCTTTCTGCCAAATGCACAACTAGGCATTT
1 TTTCATCTAACTTGCATTATGAGCACCTTTCTGCCAAATGCACAGTTAGGCATTT
69243 GACCTTTCAA
Statistics
Matches: 328, Mismatches: 37, Indels: 16
0.86 0.10 0.04
Matches are distributed among these distances:
77 22 0.07
78 17 0.05
79 115 0.35
80 38 0.12
81 132 0.40
82 4 0.01
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.35
Consensus pattern (81 bp):
TTTCATCTAACTTGCATTATGAGCACCTTTCTGCCAAATGCACAGTTAGGCATTTAAACTTTCCT
CTAAAGGCATTTAACC
Found at i:70944 original size:23 final size:24
Alignment explanation
Indices: 70913--70969 Score: 64
Period size: 22 Copynumber: 2.4 Consensus size: 24
70903 TGTACATCAT
* *
70913 CTTCAATCTTGTACATAACACACT-
1 CTTC-ATCTTCTACACAACACACTC
*
70937 CTTTATC-TCTACACAACACACTC
1 CTTCATCTTCTACACAACACACTC
70960 CTTCATCTTC
1 CTTCATCTTC
70970 ACTCTTACAC
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
22 13 0.48
23 9 0.33
24 5 0.19
ACGTcount: A:0.28, C:0.35, G:0.02, T:0.35
Consensus pattern (24 bp):
CTTCATCTTCTACACAACACACTC
Done.