Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003015.1 Hibiscus syriacus cultivar Beakdansim tig00006253_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: 213378
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:1394 original size:6 final size:6
Alignment explanation
Indices: 1378--1421 Score: 63
Period size: 6 Copynumber: 7.3 Consensus size: 6
1368 TCCAACAAAG
*
1378 AAAGAA GAAGAA AAAGAA AAAGAA AAA-AA AAAGAA AAAGGAA AA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAA-GAA AA
1422 TCGAATAAGA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
5 5 0.15
6 24 0.71
7 5 0.15
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:1410 original size:17 final size:17
Alignment explanation
Indices: 1378--1421 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
1368 TCCAACAAAG
*
1378 AAAGAAGAAGAAAAAGAA
1 AAAGAA-AAAAAAAAGAA
1396 AAAGAAAAAAAAAAGAA
1 AAAGAAAAAAAAAAGAA
1413 AAAGGAAAA
1 AAA-GAAAA
1422 TCGAATAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 13 0.54
18 11 0.46
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (17 bp):
AAAGAAAAAAAAAAGAA
Found at i:1414 original size:16 final size:17
Alignment explanation
Indices: 1374--1414 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
1364 CTCATCCAAC
*
1374 AAAG-AAAGAAGAAGAA
1 AAAGAAAAGAAGAAAAA
1390 AAAGAAAAAGAA-AAAAA
1 AAAG-AAAAGAAGAAAAA
1407 AAAGAAAA
1 AAAGAAAA
1415 AGGAAAATCG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 8 0.36
17 8 0.36
18 6 0.27
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (17 bp):
AAAGAAAAGAAGAAAAA
Found at i:3802 original size:81 final size:81
Alignment explanation
Indices: 3565--3817 Score: 427
Period size: 81 Copynumber: 3.1 Consensus size: 81
3555 CTGAAAGAGA
3565 CTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGA
1 CTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT--ACAGAACCAATCATTGA
3630 ATTTAGAAGATGAATCTG
64 ATTTAGAAGATGAATCTG
*
3648 CTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAGAAACCAATCATTGAA
1 CTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTACAG-AACCAATCATTGAA
*
3713 TTTAGAAGATGAATGTG
65 TTTAGAAGATGAATCTG
*
3730 CTCATAGCATCTTTTGGAAG-GTTCTTTGAGTTATCTGATCTGGTTATCAGAACCAATCATTGAA
1 CTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTA-CAGAACCAATCATTGAA
*
3794 TTTAGAAGATGAATTTG
65 TTTAGAAGATGAATCTG
3811 CTCATAG
1 CTCATAG
3818 GAGAAATAAG
Statistics
Matches: 163, Mismatches: 5, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
81 66 0.40
82 51 0.31
83 46 0.28
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (81 bp):
CTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTACAGAACCAATCATTGAAT
TTAGAAGATGAATCTG
Found at i:6072 original size:39 final size:40
Alignment explanation
Indices: 6018--6096 Score: 142
Period size: 39 Copynumber: 2.0 Consensus size: 40
6008 CTGAGCAAGT
6018 CCACAGAAAAGGATGAATGCGTTGTCAA-TGTTTTACATC
1 CCACAGAAAAGGATGAATGCGTTGTCAAGTGTTTTACATC
*
6057 CCACAGAAAAGGATGAATGTGTTGTCAAGTGTTTTACATC
1 CCACAGAAAAGGATGAATGCGTTGTCAAGTGTTTTACATC
6097 TAAGCGAAAC
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
39 27 0.71
40 11 0.29
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (40 bp):
CCACAGAAAAGGATGAATGCGTTGTCAAGTGTTTTACATC
Found at i:6526 original size:22 final size:22
Alignment explanation
Indices: 6497--6551 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
6487 ATCTACACTC
*
6497 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGACAGATTCTCTT
*
6519 TTTAAAGATGACAGATTCTCTT
1 TTCAAAGATGACAGATTCTCTT
6541 TTCAAAGATGA
1 TTCAAAGATGA
6552 AAACTTTATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.38
Consensus pattern (22 bp):
TTCAAAGATGACAGATTCTCTT
Found at i:7267 original size:112 final size:113
Alignment explanation
Indices: 6948--7611 Score: 877
Period size: 112 Copynumber: 6.0 Consensus size: 113
6938 GCAAAGTTCA
** * **
6948 AATCCATCATTCAATGGATCAACA-TTCCAG-GTCGAGTTCATAATGAGAAGAACTCATCTGAAG
1 AATCCATCATTTGATGGATCATCATTTCCAGAG-AAAGTTCATAATGAGAAGAACTCATCTGAAG
* * *
7011 AA-GAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC-TC
65 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTG
* * * * *
7058 AATCCATCATTCGATGGATTGA-CATTTCTATAG-AAGTTCATAATGA-AAGAACTCATATGAAG
1 AATCCATCATTTGATGGA-TCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
7120 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTG
65 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTG
*
7169 AATCCATCATTTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGA
1 AATCCATCATTTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
*
7234 AGGAAGAAG-AGTTCATAATGAGAAGAATTTGTTCAACATTTTACTTG
66 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTG
* * *
7281 AATCTATTATTTGATGGATCATCATTTACAGAGAAAGTTCATAATGAGAA-AACTCATCTGAAGA
1 AATCCATCATTTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
*
7345 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTT-GTCTG
66 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACT-TG
* * * * *
7393 AATTCATC-CTTGATGGATTAT-TTTTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAG
1 AATCCATCATTTGATGGATCATCATTT-CCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
* * **
7456 AAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACCTTTTGCTCA
65 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTG
* * * * **
7505 AATCCATCACTTGATGGAACAACTTTTTTAGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
* *
7569 AGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACTTTTT
66 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTT
7612 GCATAATTCT
Statistics
Matches: 497, Mismatches: 42, Indels: 28
0.88 0.07 0.05
Matches are distributed among these distances:
109 17 0.03
110 77 0.15
111 88 0.18
112 272 0.55
113 39 0.08
114 4 0.01
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.30
Consensus pattern (113 bp):
AATCCATCATTTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTG
Found at i:7585 original size:336 final size:334
Alignment explanation
Indices: 6982--7611 Score: 980
Period size: 336 Copynumber: 1.9 Consensus size: 334
6972 TTCCAGGTCG
6982 AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTCA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTCA
* *
7047 ACCTTTTGCTCAATCCATCATTCGATGGATTGACATTTCTATAGAAGTTCATAATGAAAGAACTC
66 ACCTTTTGCTCAATCCATCATTCGATGGATTGACATTTCCAGAGAAGTTCATAATGAAAGAACTC
* **
7112 ATATGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTGAATCCATC
131 ATATGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACCTTTTACTCAAATCCATC
* * * *
7177 ATTTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAA
196 ACTTGATGGAACAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAA
*
7242 GAGTTCATAATGAGAAGAATTTGTTCAACATTTTACTTGAATCTATTATTTGATGGATCATCATT
261 GAGTTCATAATAAGAAGAATTTGTTCAACATTTTACTTGAATCTATTATTTGATGGATCATCATT
7307 TACAGAGAA
326 TACAGAGAA
*
7316 AGTTCATAATGAGAA-AACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAA-GAAGAAGAAATTCATAATGAGAAGAATTTGTTC
* * * **
7380 AACCTTTTGTCTGAATTCATCCTT-GATGGATT-ATTTTTGCCAGAGAAGGTTCATAATGAGAAG
65 AACCTTTTG-CTCAATCCATCATTCGATGGATTGACATTT-CCAGAGAA-GTTCATAATGA-AAG
* *
7443 AACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACCTTTTGCTCAAAT
126 AACTCATATGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACCTTTTACTCAAAT
* **
7508 CCATCACTTGATGGAACAACTTTTTTAGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
191 CCATCACTTGATGGAACAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
*
7572 AAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACTTTTT
256 AAGAAG-AGTTCATAATAAGAAGAATTTGTTCAACATTTT
7612 GCATAATTCT
Statistics
Matches: 268, Mismatches: 22, Indels: 10
0.89 0.07 0.03
Matches are distributed among these distances:
333 19 0.07
334 70 0.26
335 61 0.23
336 118 0.44
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.30
Consensus pattern (334 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTCA
ACCTTTTGCTCAATCCATCATTCGATGGATTGACATTTCCAGAGAAGTTCATAATGAAAGAACTC
ATATGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACCTTTTACTCAAATCCATC
ACTTGATGGAACAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAA
GAGTTCATAATAAGAAGAATTTGTTCAACATTTTACTTGAATCTATTATTTGATGGATCATCATT
TACAGAGAA
Found at i:8118 original size:76 final size:76
Alignment explanation
Indices: 8018--8727 Score: 1225
Period size: 76 Copynumber: 9.4 Consensus size: 76
8008 ACTATTTCCC
* *
8018 TCATCTATAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTTTGATGTTCTT-
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTT-TTC
8082 AAAGCCTTCGGG
65 AAAGCCTTCGGG
*
8094 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTA
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
*
8159 AAGCCTTCGGC
66 AAGCCTTCGGG
* *
8170 TCATCTATAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTTTGATGTTTTCA
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
*
8235 AAGCCTTAGGG
66 AAGCCTTCGGG
*
8246 TCATCTATAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC-TTTTGATGTTTT-A
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
8309 AAGCCTTCGGG
66 AAGCCTTCGGG
8320 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
*
8385 AAGCCTTAGGG
66 AAGCCTTCGGG
8396 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCC-AAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
8460 AAGCCTTCGGG
66 AAGCCTTCGGG
8471 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
8536 AAGCCTTCGGG
66 AAGCCTTCGGG
*
8547 TCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC-TTTTGATGTTTTCA
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
* *
8611 AAGCCTTAGGA
66 AAGCCTTCGGG
* *
8622 TCATCTGT-AGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCA
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
*
8686 AAGCCTTAGGG
66 AAGCCTTCGGG
*
8697 TCATCTGTAAGCCCTTCAGTGCATGATGTTT
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTT
8728 TCAACATTTC
Statistics
Matches: 608, Mismatches: 20, Indels: 12
0.95 0.03 0.02
Matches are distributed among these distances:
74 100 0.16
75 163 0.27
76 345 0.57
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (76 bp):
TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
AAGCCTTCGGG
Found at i:8414 original size:226 final size:227
Alignment explanation
Indices: 8018--8727 Score: 1241
Period size: 226 Copynumber: 3.1 Consensus size: 227
8008 ACTATTTCCC
*
8018 TCATCTATAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTTTGATGTTCTTA
1 TCATCTATAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTT-TTA
8083 AAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
65 AAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
* * * *
8148 TGATGTTTTTAAAGCCTTCGGCTCATCTATAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTT
130 TGATGTTTTCAAAGCCTTAGGATCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTT
8213 CGAGAGCTTTTTGATGTTTTCAAAGCCTTAGGG
195 CGAGAGCTTTTTGATGTTTTCAAAGCCTTAGGG
8246 TCATCTATAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC-TTTTGATGTTTTAA
1 TCATCTATAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTAA
8310 AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
*
8375 GATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCC-AAAAGCCTTC
131 GATGTTTTCAAAGCCTTAGGATCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC
* *
8439 GGGAGCTTTTTGATGTTTTCAAAGCCTTCGGG
196 GAGAGCTTTTTGATGTTTTCAAAGCCTTAGGG
*
8471 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 TCATCTATAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTT-A
*
8536 AAGCCTTCGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC-TTT
65 AAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
*
8600 TGATGTTTTCAAAGCCTTAGGATCATCTGT-AGTCCTACAGTGCATGATGTTTCCAAAAAGCCTT
130 TGATGTTTTCAAAGCCTTAGGATCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTT
8664 C-AGGAGCTTTTTGATGTTTTCAAAGCCTTAGGG
195 CGA-GAGCTTTTTGATGTTTTCAAAGCCTTAGGG
* *
8697 TCATCTGTAAGCCCTTCAGTGCATGATGTTT
1 TCATCTATAAGTCCTTCAGTGCATGATGTTT
8728 TCAACATTTC
Statistics
Matches: 464, Mismatches: 14, Indels: 10
0.95 0.03 0.02
Matches are distributed among these distances:
225 112 0.24
226 232 0.50
227 71 0.15
228 49 0.11
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (227 bp):
TCATCTATAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTAA
AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
GATGTTTTCAAAGCCTTAGGATCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC
GAGAGCTTTTTGATGTTTTCAAAGCCTTAGGG
Found at i:8569 original size:301 final size:303
Alignment explanation
Indices: 8018--8727 Score: 1248
Period size: 301 Copynumber: 2.4 Consensus size: 303
8008 ACTATTTCCC
* *
8018 TCATCTATAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTTTGATGTTCTT-
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTT-TTC
*
8082 AAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTT
65 AAAGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTT
*
8147 TTGATGTTTTTAAAGCCTTCGGCTCATCTATAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCT
130 TTGATGTTTTCAAAGCCTTCGGCTCATCTATAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCT
*
8212 TCGAGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTATAAGTCCTTCAGTGCATGATGTTT
195 TCGAGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTATAAGTCCTACAGTGCATGATGTTT
* *
8277 CCAAAAAGCCTTCGGGAGCTTTTGATGTTTT-AAAGCCTTCGGG
260 CCAAAAAGCCTTCGGGAGCTTTTGATGTTTTCAAAGCCTTAGGA
8320 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
8385 AAGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCC-AAAAGCCTTCGGGAGCTTTT
66 AAGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
* *
8449 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTT
131 TGATGTTTTCAAAGCCTTCGGCTCATCTATAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTT
* * *
8514 CGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTC
196 CGAGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTATAAGTCCTACAGTGCATGATGTTTC
8579 CAAAAAGCCTTCGGGAGCTTTTGATGTTTTCAAAGCCTTAGGA
261 CAAAAAGCCTTCGGGAGCTTTTGATGTTTTCAAAGCCTTAGGA
* *
8622 TCATCTGT-AGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCA
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
*
8686 AAGCCTTAGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTT
66 AAGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTT
8728 TCAACATTTC
Statistics
Matches: 391, Mismatches: 15, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
301 270 0.69
302 121 0.31
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (303 bp):
TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
AAGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
TGATGTTTTCAAAGCCTTCGGCTCATCTATAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTT
CGAGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTATAAGTCCTACAGTGCATGATGTTTC
CAAAAAGCCTTCGGGAGCTTTTGATGTTTTCAAAGCCTTAGGA
Found at i:8866 original size:3 final size:3
Alignment explanation
Indices: 8858--8898 Score: 50
Period size: 3 Copynumber: 14.0 Consensus size: 3
8848 TCAGTTCATT
*
8858 TTA TTA TTA TTAA TTA TTA AT- TTA TTA -TA TTA TTA TTA TTA
1 TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
8899 AATAAAAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
2 3 0.09
3 27 0.82
4 3 0.09
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:9388 original size:21 final size:21
Alignment explanation
Indices: 9347--9388 Score: 50
Period size: 20 Copynumber: 2.0 Consensus size: 21
9337 CCACAGAGAG
* *
9347 ACAGAGAACAAAAAATAGAAA
1 ACAGAGAAAAAAAAAAAGAAA
9368 ACAGA-AAAAAAAAAAACGAAA
1 ACAGAGAAAAAAAAAAA-GAAA
9389 GGAAGAGATA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.76, C:0.10, G:0.12, T:0.02
Consensus pattern (21 bp):
ACAGAGAAAAAAAAAAAGAAA
Found at i:14716 original size:3 final size:3
Alignment explanation
Indices: 14708--14760 Score: 76
Period size: 3 Copynumber: 18.3 Consensus size: 3
14698 AACTATTAAG
14708 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AT AA- ATAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT
14752 -AT AAT AAT A
1 AAT AAT AAT A
14761 TTTATTATAT
Statistics
Matches: 46, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
2 5 0.11
3 40 0.87
4 1 0.02
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:15020 original size:36 final size:35
Alignment explanation
Indices: 14958--15062 Score: 174
Period size: 36 Copynumber: 2.9 Consensus size: 35
14948 TGATCTAATC
14958 TTGCTTCACTACTCTTTTTGTGAAGGCTGAATTTGCA
1 TTGCTTCACTACTC-TTTTGTGAAGGCTG-ATTTGCA
14995 TTGCTTCACTACTCTTTTGTGAAGGCTTGATTTGCA
1 TTGCTTCACTACTCTTTTGTGAAGGC-TGATTTGCA
15031 TTGCTTCACTACTCTTTTGTGAAGGCTTGATT
1 TTGCTTCACTACTCTTTTGTGAAGGC-TGATT
15063 AACTTGAGAA
Statistics
Matches: 67, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
36 51 0.76
37 16 0.24
ACGTcount: A:0.17, C:0.19, G:0.19, T:0.45
Consensus pattern (35 bp):
TTGCTTCACTACTCTTTTGTGAAGGCTGATTTGCA
Found at i:15488 original size:18 final size:18
Alignment explanation
Indices: 15457--15491 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
15447 TGAATTCCAC
15457 CAATACAAATTATTTCAT
1 CAATACAAATTATTTCAT
15475 CAATGACAAA-TATTTCA
1 CAAT-ACAAATTATTTCA
15492 GATTATCATC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.46, C:0.17, G:0.03, T:0.34
Consensus pattern (18 bp):
CAATACAAATTATTTCAT
Found at i:17885 original size:28 final size:26
Alignment explanation
Indices: 17846--17900 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 26
17836 TATAAAAGGA
17846 AAGAAGACAAAGTATCATAGGAAAAT
1 AAGAAGACAAAGTATCATAGGAAAAT
17872 AAGAAGAACAAAAGTATCATAGGAAAAT
1 AAGAAG-AC-AAAGTATCATAGGAAAAT
17900 A
1 A
17901 TGGCAACATC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 6 0.22
27 2 0.07
28 19 0.70
ACGTcount: A:0.60, C:0.07, G:0.18, T:0.15
Consensus pattern (26 bp):
AAGAAGACAAAGTATCATAGGAAAAT
Found at i:24014 original size:3 final size:3
Alignment explanation
Indices: 24006--24070 Score: 100
Period size: 3 Copynumber: 22.3 Consensus size: 3
23996 AACTATTAAG
24006 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
24053 AA- ATAT AAT -AT AAT AAT A
1 AAT A-AT AAT AAT AAT AAT A
24071 TTTATTATAT
Statistics
Matches: 58, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
2 5 0.09
3 52 0.90
4 1 0.02
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:24329 original size:36 final size:35
Alignment explanation
Indices: 24267--24371 Score: 165
Period size: 36 Copynumber: 2.9 Consensus size: 35
24257 TGATCTAATC
24267 TTGCTTCACTACTCTTTTTGTGAAGGCTGAATTTGCA
1 TTGCTTCACTACTC-TTTTGTGAAGGCTG-ATTTGCA
24304 TTGCTTCACTACTCTTTTGTGAAGGCTTGATTTGCA
1 TTGCTTCACTACTCTTTTGTGAAGGC-TGATTTGCA
*
24340 TTGCTTCACTACTCTTTTGTAAAGGCTTGATT
1 TTGCTTCACTACTCTTTTGTGAAGGC-TGATT
24372 AACTTGAGAA
Statistics
Matches: 66, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
36 50 0.76
37 16 0.24
ACGTcount: A:0.18, C:0.19, G:0.18, T:0.45
Consensus pattern (35 bp):
TTGCTTCACTACTCTTTTGTGAAGGCTGATTTGCA
Found at i:24797 original size:18 final size:18
Alignment explanation
Indices: 24766--24800 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
24756 TGAATTCCAC
24766 CAATACAAATTATTTCAT
1 CAATACAAATTATTTCAT
24784 CAATGACAAA-TATTTCA
1 CAAT-ACAAATTATTTCA
24801 GATTATCATC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.46, C:0.17, G:0.03, T:0.34
Consensus pattern (18 bp):
CAATACAAATTATTTCAT
Found at i:26463 original size:3 final size:3
Alignment explanation
Indices: 26455--26554 Score: 146
Period size: 3 Copynumber: 33.3 Consensus size: 3
26445 ATTGATTTAT
* * *
26455 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TAA TTA CTA TAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
26503 ATA TTA TTA TTA TTA TTA TTA TAA ATA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
26551 TTA T
1 TTA T
26555 ATATATATAT
Statistics
Matches: 85, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 85 1.00
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:26681 original size:16 final size:16
Alignment explanation
Indices: 26662--26702 Score: 82
Period size: 16 Copynumber: 2.6 Consensus size: 16
26652 CTCTAACCCT
26662 AGCCGCCTCTGCCTCC
1 AGCCGCCTCTGCCTCC
26678 AGCCGCCTCTGCCTCC
1 AGCCGCCTCTGCCTCC
26694 AGCCGCCTC
1 AGCCGCCTC
26703 AGCCAACGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.07, C:0.56, G:0.20, T:0.17
Consensus pattern (16 bp):
AGCCGCCTCTGCCTCC
Found at i:27914 original size:18 final size:18
Alignment explanation
Indices: 27883--27917 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
27873 ATTTTACTTG
**
27883 TTTATATTTTTAAATATT
1 TTTATATTCATAAATATT
27901 TTTATATTCATAAATAT
1 TTTATATTCATAAATAT
27918 ATATATAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTATATTCATAAATATT
Found at i:31924 original size:15 final size:15
Alignment explanation
Indices: 31904--31935 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
31894 ATCAACACAT
31904 TTTTGCATACATGCA
1 TTTTGCATACATGCA
*
31919 TTTTGCATACATTCA
1 TTTTGCATACATGCA
31934 TT
1 TT
31936 ATTCATCTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.19, G:0.09, T:0.47
Consensus pattern (15 bp):
TTTTGCATACATGCA
Found at i:39288 original size:9 final size:9
Alignment explanation
Indices: 39264--39306 Score: 59
Period size: 9 Copynumber: 4.7 Consensus size: 9
39254 ATGCTTGAAA
39264 AAAAAAGAAG
1 AAAAAA-AAG
*
39274 AGAAAAAAG
1 AAAAAAAAG
39283 AAAAAAAAG
1 AAAAAAAAG
*
39292 AGAAAAAAG
1 AAAAAAAAG
39301 AAAAAA
1 AAAAAA
39307 GGGGGGTCAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
9 24 0.83
10 5 0.17
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:39292 original size:18 final size:19
Alignment explanation
Indices: 39264--39307 Score: 81
Period size: 18 Copynumber: 2.4 Consensus size: 19
39254 ATGCTTGAAA
39264 AAAAAAGAAGAGAAAAAAG
1 AAAAAAGAAGAGAAAAAAG
39283 AAAAAA-AAGAGAAAAAAG
1 AAAAAAGAAGAGAAAAAAG
39301 AAAAAAG
1 AAAAAAG
39308 GGGGGTCAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 18 0.75
19 6 0.25
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (19 bp):
AAAAAAGAAGAGAAAAAAG
Found at i:41560 original size:113 final size:113
Alignment explanation
Indices: 41223--41789 Score: 836
Period size: 113 Copynumber: 5.0 Consensus size: 113
41213 TAGCAAAGAT
* * * *
41223 TCAAATCTATCATTTGATGGATTGA-CATTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTG
1 TCAAATCCATCATTTGATGGA-TCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTG
* * *
41287 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGT
65 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
** * * * * *
41336 TTGAATTCATCATTTGATGGATCAACATTGCCAG-GTAGAGTTCATAATGAGAAGAACTCGTCAT
1 TCAAATCCATCATTTGATGGATCATCTTTTCCAGAG-AAAGTTCATAATGAGAAGAA--C-TCAT
*
41400 CTGAAGAATGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
62 CTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
*
41452 TCAAATCCATCATTTGATGGATCATCTTTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGA
1 TCAAATCCATCATTTGATGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
41517 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
41565 TCAAATCCATCATTTGATGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATTTGATGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
*
41630 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTAC
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
* * * *
41678 -CTGAATTCATCAATTGATGGATTATCTTTTCCAGAG-AAGTTCATAATGAGAAGAACTCATCTG
1 TC-AAATCCATCATTTGATGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTG
* * *
41741 AAGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACTTTTTGC
65 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
41790 ATAATTCTAT
Statistics
Matches: 416, Mismatches: 31, Indels: 15
0.90 0.07 0.03
Matches are distributed among these distances:
112 76 0.18
113 239 0.57
114 1 0.00
115 1 0.00
116 98 0.24
117 1 0.00
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.30
Consensus pattern (113 bp):
TCAAATCCATCATTTGATGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
Found at i:41644 original size:229 final size:226
Alignment explanation
Indices: 41223--41789 Score: 840
Period size: 229 Copynumber: 2.5 Consensus size: 226
41213 TAGCAAAGAT
* * *
41223 TCAAATCTATCATTTGATGGATTGA-CATTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTG
1 TCAAATCCATCATTTGATGGA-TCATCTTTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTG
* ** *
41287 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTGAATTCATCATTTG
65 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTCAAATCCATCATTTG
*
41352 ATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAATGAAGAAGA
130 ATGGATCAACATTGCCAGGTAAAGTTCATAATGAGAAGAAC-CGTCATCTGAAG-A-GAAGAAGA
*
41417 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
192 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTAC
41452 TCAAATCCATCATTTGATGGATCATCTTTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGA
1 TCAAATCCATCATTTGATGGATCATCTTTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGA
* *
41517 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTTGA
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTCAAATCCATCATTTGA
* * *
41582 TGGATCATCTTTTCCAGAG-AAAGTTCATAATGAGAAGAA-C-TCATCTGAAGAAGGAAGAAGAA
131 TGGATCAACATTGCCAG-GTAAAGTTCATAATGAGAAGAACCGTCATCTGAAG-A-GAAGAAGAA
41644 GTTCATAATGAGAAGAATTTGTTCAACCTTTTAC
193 GTTCATAATGAGAAGAATTTGTTCAACCTTTTAC
* * * * *
41678 -CTGAATTCATCAATTGATGGATTATCTTTTCCAGAG-AAGTTCATAATGAGAAGAACTCATCTG
1 TC-AAATCCATCATTTGATGGATCATCTTTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTG
*
41741 AAGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACTTTTTGC
65 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGC
41790 ATAATTCTAT
Statistics
Matches: 312, Mismatches: 23, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
225 73 0.23
226 84 0.27
227 1 0.00
228 2 0.01
229 151 0.48
230 1 0.00
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.30
Consensus pattern (226 bp):
TCAAATCCATCATTTGATGGATCATCTTTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGA
AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTCAAATCCATCATTTGA
TGGATCAACATTGCCAGGTAAAGTTCATAATGAGAAGAACCGTCATCTGAAGAGAAGAAGAAGTT
CATAATGAGAAGAATTTGTTCAACCTTTTAC
Found at i:42128 original size:3 final size:3
Alignment explanation
Indices: 42120--42247 Score: 222
Period size: 3 Copynumber: 43.0 Consensus size: 3
42110 ATTGATTGAT
42120 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
42168 TTA TTA TTA TTA TTA TTA TTA CTA TAA ATA TTA TTA TTA TTA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
42215 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
42248 AATATATATA
Statistics
Matches: 118, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
2 2 0.02
3 116 0.98
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:42256 original size:2 final size:2
Alignment explanation
Indices: 42249--42275 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
42239 TTATTATTAA
42249 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
42276 CATAAATAAT
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:43595 original size:18 final size:18
Alignment explanation
Indices: 43564--43598 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
43554 ATTTTACTTG
**
43564 TTTATATTTTTAAATATT
1 TTTATATTCATAAATATT
43582 TTTATATTCATAAATAT
1 TTTATATTCATAAATAT
43599 ATATATAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTATATTCATAAATATT
Found at i:44230 original size:3 final size:3
Alignment explanation
Indices: 44222--44247 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
44212 TCAAGGTTTC
44222 TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TC
44248 AATGTTAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:53314 original size:20 final size:20
Alignment explanation
Indices: 53276--53359 Score: 59
Period size: 20 Copynumber: 4.2 Consensus size: 20
53266 ATTTGTTTTC
*
53276 TAAAT-TAAATAACTTAATA-
1 TAAATATAAAT-ATTTAATAT
53295 TAAATACTAAATATTTAATAT
1 TAAATA-TAAATATTTAATAT
* *
53316 TTAATATAAATATTATTAATAC
1 TAAATATAAATA-T-TTAATAT
* *
53338 T-ATTAT-AATATTTAACAT
1 TAAATATAAATATTTAATAT
53356 TAAA
1 TAAA
53360 ACTATATAAT
Statistics
Matches: 52, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
18 6 0.12
19 7 0.13
20 17 0.33
21 15 0.29
22 7 0.13
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (20 bp):
TAAATATAAATATTTAATAT
Found at i:53570 original size:15 final size:14
Alignment explanation
Indices: 53535--53570 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
53525 TTATGAATAT
53535 GACTAAAATATAAA
1 GACTAAAATATAAA
*
53549 TACTAAAATATAAAA
1 GACTAAAATAT-AAA
53564 GACTAAA
1 GACTAAA
53571 TGTATGATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
14 10 0.53
15 9 0.47
ACGTcount: A:0.64, C:0.08, G:0.06, T:0.22
Consensus pattern (14 bp):
GACTAAAATATAAA
Found at i:54758 original size:3 final size:3
Alignment explanation
Indices: 54750--54787 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
54740 AACTATTAAG
*
54750 AAT AAT AAT AAT AAT AAT -AT AAT TAT AAT -AT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
54788 TTTATTATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 4 0.13
3 27 0.87
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
AAT
Found at i:54777 original size:11 final size:11
Alignment explanation
Indices: 54750--54787 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
54740 AACTATTAAG
54750 AATAATAATAAT
1 AATAAT-ATAAT
54762 AATAATATAAT
1 AATAATATAAT
*
54773 TATAATATAAT
1 AATAATATAAT
54784 AATA
1 AATA
54788 TTTATTATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
11 18 0.75
12 6 0.25
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (11 bp):
AATAATATAAT
Found at i:55288 original size:14 final size:14
Alignment explanation
Indices: 55244--55280 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
55234 ATTTTCATCA
*
55244 TTTGTGCAAATCCC
1 TTTGTGTAAATCCC
55258 TTTGTGTAAATCCC
1 TTTGTGTAAATCCC
55272 TTTGTGTAA
1 TTTGTGTAA
55281 TTCGCTTTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.22, C:0.19, G:0.16, T:0.43
Consensus pattern (14 bp):
TTTGTGTAAATCCC
Found at i:55410 original size:2 final size:2
Alignment explanation
Indices: 55405--55489 Score: 170
Period size: 2 Copynumber: 42.5 Consensus size: 2
55395 TTGTAAAACA
55405 AT AT AT AT 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 AT AT AT AT
55447 AT AT AT AT 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 AT AT AT AT
55489 A
1 A
55490 CACAAGACAT
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 83 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:56867 original size:20 final size:18
Alignment explanation
Indices: 56834--56870 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
56824 GTGGTCCTTT
56834 TGCTTTATTTTTTAATTC
1 TGCTTTATTTTTTAATTC
56852 TGCTTCTATGTTTTTAATT
1 TGCTT-TAT-TTTTTAATT
56871 TATTGCAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 3 0.18
20 9 0.53
ACGTcount: A:0.16, C:0.11, G:0.08, T:0.65
Consensus pattern (18 bp):
TGCTTTATTTTTTAATTC
Found at i:59580 original size:2 final size:2
Alignment explanation
Indices: 59573--59600 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
59563 ATCCTTTCAA
59573 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
59601 CCCTTGTTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:59863 original size:4 final size:4
Alignment explanation
Indices: 59854--59896 Score: 86
Period size: 4 Copynumber: 10.8 Consensus size: 4
59844 AAAAGAGAGA
59854 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
59897 ACATATCAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 39 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:63458 original size:15 final size:15
Alignment explanation
Indices: 63417--63458 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
63407 TAACCCTTAA
*
63417 TTATAAATATT-TTT
1 TTATAAAAATTATTT
*
63431 TAATAAAAA-TATTT
1 TTATAAAAATTATTT
63445 TTATAAAAATTATT
1 TTATAAAAATTATT
63459 CAATAATCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
13 1 0.04
14 18 0.78
15 4 0.17
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TTATAAAAATTATTT
Found at i:65727 original size:2 final size:2
Alignment explanation
Indices: 65716--65748 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
65706 ACAACAACAA
*
65716 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
65749 TTTACATGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:66298 original size:2 final size:2
Alignment explanation
Indices: 66293--66346 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
66283 GAAAAAAATG
66293 AT AT AT AT 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 AT AT AT AT
66335 AT AT AT AT AT AT
1 AT AT AT AT AT AT
66347 CTTAGGTTTT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:66803 original size:3 final size:3
Alignment explanation
Indices: 66795--66825 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
66785 TATATTTAAC
66795 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
66826 TAGTCATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:67197 original size:2 final size:2
Alignment explanation
Indices: 67190--67255 Score: 132
Period size: 2 Copynumber: 33.0 Consensus size: 2
67180 ATAAATATCT
67190 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
67232 TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA
67256 ATAGATTTTC
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 64 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:71286 original size:62 final size:62
Alignment explanation
Indices: 71214--71341 Score: 247
Period size: 62 Copynumber: 2.1 Consensus size: 62
71204 TCTCTGCCTT
*
71214 TTGTGCAATAAATAAATTTGTGTTTCTTTTAAGGTTATGAGCATTGAATCAATTTTGCAATC
1 TTGTGCAATAAATAAATTTGTGTTGCTTTTAAGGTTATGAGCATTGAATCAATTTTGCAATC
71276 TTGTGCAATAAATAAATTTGTGTTGCTTTTAAGGTTATGAGCATTGAATCAATTTTGCAATC
1 TTGTGCAATAAATAAATTTGTGTTGCTTTTAAGGTTATGAGCATTGAATCAATTTTGCAATC
71338 TTGT
1 TTGT
71342 AGTTCTTTGA
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 65 1.00
ACGTcount: A:0.30, C:0.09, G:0.17, T:0.44
Consensus pattern (62 bp):
TTGTGCAATAAATAAATTTGTGTTGCTTTTAAGGTTATGAGCATTGAATCAATTTTGCAATC
Found at i:71884 original size:72 final size:72
Alignment explanation
Indices: 71766--71900 Score: 216
Period size: 72 Copynumber: 1.9 Consensus size: 72
71756 ATATAATAAA
* * *
71766 GCTTGAGTTGTCCCCCTAAAGCAATTGGTTAATAACCCCAGTTTTATGGATAATATTCAGCTAGA
1 GCTTGAGTTGACCCCCTAAAGCAATTGGTTAATAACCCCAGCTTTATGGATAATATTAAGCTAGA
71831 TTGTTAT
66 TTGTTAT
* **
71838 GCTTGAGTTGACCCCCTAAAGTAATTGGTTAATTGCCCCAGCTTTATGGATAATATTAAGCTA
1 GCTTGAGTTGACCCCCTAAAGCAATTGGTTAATAACCCCAGCTTTATGGATAATATTAAGCTA
71901 ACCTATTATA
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
72 57 1.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.35
Consensus pattern (72 bp):
GCTTGAGTTGACCCCCTAAAGCAATTGGTTAATAACCCCAGCTTTATGGATAATATTAAGCTAGA
TTGTTAT
Found at i:76223 original size:54 final size:53
Alignment explanation
Indices: 76149--76310 Score: 216
Period size: 54 Copynumber: 3.0 Consensus size: 53
76139 CTGACCAGAA
* *
76149 ATCTATGCAGAAACCACAGAAAAGAATGAATGTGTTGTCAAATGCTTTACGAAC
1 ATCTGTGCAGAAACCACAGAAAAG-ATGAATGTGTTGTCAAATGTTTTACGAAC
* * *
76203 ATCTGTGCATAAACCACAGAAAAGGATGAGTGTGTTGTCAAATATTTTACGAAC
1 ATCTGTGCAGAAACCACAGAAAA-GATGAATGTGTTGTCAAATGTTTTACGAAC
* * * *
76257 ATCTGAGCAGAAACCACATGAGATGATGAATGTGTTTTCAAATGTTTTACGAAC
1 ATCTGTGCAGAAACCACA-GAAAAGATGAATGTGTTGTCAAATGTTTTACGAAC
76311 TAGTTATTCT
Statistics
Matches: 94, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
54 90 0.96
55 4 0.04
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.27
Consensus pattern (53 bp):
ATCTGTGCAGAAACCACAGAAAAGATGAATGTGTTGTCAAATGTTTTACGAAC
Found at i:76702 original size:22 final size:22
Alignment explanation
Indices: 76674--76730 Score: 105
Period size: 22 Copynumber: 2.6 Consensus size: 22
76664 ATATCTACAT
76674 TCTTCAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
76696 TCTTCAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
*
76718 TTTTCAAAGATGA
1 TCTTCAAAGATGA
76731 AATCTTTATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (22 bp):
TCTTCAAAGATGATAGATTCTC
Found at i:77090 original size:10 final size:11
Alignment explanation
Indices: 77075--77107 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 11
77065 ACAGGAATTT
77075 CAAAGATT-AA
1 CAAAGATTCAA
77085 CAAAGATTTCAA
1 CAAAGA-TTCAA
77097 CAAAGATTCAA
1 CAAAGATTCAA
77108 ATCCATCACT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 6 0.29
11 7 0.33
12 8 0.38
ACGTcount: A:0.55, C:0.15, G:0.09, T:0.21
Consensus pattern (11 bp):
CAAAGATTCAA
Found at i:77346 original size:113 final size:113
Alignment explanation
Indices: 77111--77549 Score: 670
Period size: 113 Copynumber: 3.9 Consensus size: 113
77101 GATTCAAATC
* * *
77111 CATCACTCGATGGATCAACACTTTTCCA-GAAAGAGTTCATAATGAGAAGAACTCGTCTGAAGAA
1 CATCACTCGATGGATCAACA--TTGCCAGGTAA-AGTTCATAATGAGAAGAACTCATCTGAAGAA
*
77175 GGAAAAAGAAGTT-ATAATGAGAAGAACTTATTCAACCTTTTGCTCGAATT
63 GGAAAAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCGAATT
* *
77225 CATTACTCGATGGATCAACATTGCCAGGTAAAGTTCATAATGAGAAGAACTCATCTGAATAAGGA
1 CATCACTCGATGGATCAACATTGCCAGGTAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* *
77290 AGAAGAAGTTCATAATGAGAAGAACTTTTTCAACCTTTTGCTCGAATT
66 AAAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCGAATT
*
77338 CATCACTCGATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCACTCGATGGATCAACATTGCCAGGTAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
*
77403 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCGAATT
66 AAAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCGAATT
* ** * *
77451 CATCACTCGATGGATTAGTATTTCCAGAG-AAAATTCATAATGAGAAGAACTCATCTGAAG-AGG
1 CATCACTCGATGGATCAACATTGCCAG-GTAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
*
77514 AAAAAGAAGTTCATAATGATAAGAACTTGTTCAACC
65 AAAAAGAAGTTCATAATGAGAAGAACTTGTTCAACC
77550 GATGGATCAG
Statistics
Matches: 303, Mismatches: 19, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
112 83 0.27
113 200 0.66
114 20 0.07
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.26
Consensus pattern (113 bp):
CATCACTCGATGGATCAACATTGCCAGGTAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
AAAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCGAATT
Found at i:77562 original size:91 final size:91
Alignment explanation
Indices: 77458--77640 Score: 303
Period size: 91 Copynumber: 2.0 Consensus size: 91
77448 ATTCATCACT
* *
77458 CGATGGATTAGTATTTCCAGAGAAAATTCATAATGAGAAGAACTCATCTGAAGAGGAAAAAGAAG
1 CGATGGATCAGTATTTCCAGAGAAAATTCATAATGAGAAGAACTCATATGAAGAGGAAAAAGAAG
*
77523 TTCATAATGATAAGAACTTGTTCAAC
66 TTCATAATGAGAAGAACTTGTTCAAC
* * *
77549 CGATGGATCAGTATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATATGAAGAGGAAGAATAAG
1 CGATGGATCAGTATTTCCAGAGAAAATTCATAATGAGAAGAACTCATATGAAGAGGAAAAAGAAG
*
77614 TTCATAATGAGAAGAACTTGTTTAAC
66 TTCATAATGAGAAGAACTTGTTCAAC
77640 C
1 C
77641 TTTTGCATGA
Statistics
Matches: 85, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
91 85 1.00
ACGTcount: A:0.42, C:0.12, G:0.21, T:0.25
Consensus pattern (91 bp):
CGATGGATCAGTATTTCCAGAGAAAATTCATAATGAGAAGAACTCATATGAAGAGGAAAAAGAAG
TTCATAATGAGAAGAACTTGTTCAAC
Found at i:77712 original size:123 final size:122
Alignment explanation
Indices: 77561--78016 Score: 628
Period size: 123 Copynumber: 3.7 Consensus size: 122
77551 ATGGATCAGT
77561 ATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATATGAAGAGGAAGAATAAGTTCATAATGAGA
1 ATTTCCAGA-AAAGTTCATAATGAGAAGAACTCATATGAAGAGGAAGAATAAGTTCATAATGAGA
* * *
77626 AGAACTTGTTTAACCTTTTGCATGACTCTATCACAGAAGAAGATAGAGT-AGCATCAAC
65 AGAACTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGA-TCAACATCAAC
* * ** *
77684 TTTTCCAGATAAAGTTCATAATGAGAAGAACTTATCGGAAGAGGAAGAAGAAGTTCATAATGAGA
1 ATTTCCAGA-AAAGTTCATAATGAGAAGAACTCATATGAAGAGGAAGAATAAGTTCATAATGAGA
*
77749 AGAGCTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAACATCAAC
65 AGAACTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAACATCAAC
** * * * *
77807 ATTTCCAGAAGTGTTCATAATAAGAAGAACTCATATGAAAACGAAGAAAAAGTTCATAATGAGAA
1 ATTTCCAGAAAAGTTCATAATGAGAAGAACTCATATGAAGAGGAAGAATAAGTTCATAATGAGAA
*
77872 GAACTTGTTCAACCTTTTGC-TCGACTCTATCGCAGAAGGAGATAGATCAACATCAAC
66 GAACTTGTTCAACCTTTTGCAT-GACTCTATCACAGAAGGAGATAGATCAACATCAAC
* * *
77929 ATTTCCAGAAGGAGTTCATAATGAGAAGAACTCATTTGAAGAAGAAGAAGAAGTAGAAGTTCACA
1 ATTTCCAGAA-AAGTTCATAATGAGAAGAACTCATATGAAG-AG--GAAGAA-T--AAGTTCATA
77994 ATGAGAAGAACTTGTTCAACCTT
59 ATGAGAAGAACTTGTTCAACCTT
78017 AGTTCAATTC
Statistics
Matches: 295, Mismatches: 29, Indels: 12
0.88 0.09 0.04
Matches are distributed among these distances:
121 1 0.00
122 111 0.38
123 145 0.49
124 1 0.00
126 6 0.02
129 31 0.11
ACGTcount: A:0.41, C:0.15, G:0.20, T:0.25
Consensus pattern (122 bp):
ATTTCCAGAAAAGTTCATAATGAGAAGAACTCATATGAAGAGGAAGAATAAGTTCATAATGAGAA
GAACTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAACATCAAC
Found at i:78651 original size:2 final size:2
Alignment explanation
Indices: 78640--78674 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
78630 ACAACAACAA
78640 AT AT -T 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 AT
78675 TACATATAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:79220 original size:2 final size:2
Alignment explanation
Indices: 79215--79243 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
79205 AGAAAAAATG
79215 AT 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 AT A
79244 ACTTAGGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:79642 original size:21 final size:22
Alignment explanation
Indices: 79618--79679 Score: 58
Period size: 22 Copynumber: 2.8 Consensus size: 22
79608 TATGATACCA
79618 TAGTTTTAAT-TTTATTTATTT
1 TAGTTTTAATATTTATTTATTT
*
79639 TAG--TCAATATTTAGTTATATTT
1 TAGTTTTAATATTTA-TT-TATTT
*
79661 TAGTTTTATATGTTTATTT
1 TAGTTTTA-ATATTTATTT
79680 TCAATATGTT
Statistics
Matches: 32, Mismatches: 3, Indels: 10
0.71 0.07 0.22
Matches are distributed among these distances:
19 4 0.12
20 4 0.12
21 5 0.16
22 8 0.25
23 1 0.03
24 4 0.12
25 6 0.19
ACGTcount: A:0.26, C:0.02, G:0.08, T:0.65
Consensus pattern (22 bp):
TAGTTTTAATATTTATTTATTT
Found at i:79700 original size:3 final size:3
Alignment explanation
Indices: 79692--79721 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
79682 AATATGTTTA
79692 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
79722 TAGTCATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:80105 original size:2 final size:2
Alignment explanation
Indices: 80098--80153 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
80088 ATCTTATTTT
80098 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
80140 TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA
80154 AACTAATAGT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:82719 original size:3 final size:3
Alignment explanation
Indices: 82703--82774 Score: 117
Period size: 3 Copynumber: 23.7 Consensus size: 3
82693 GTCGAAAAAA
*
82703 TAT TAT TAAA TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
82749 TAT TAT TAT TCT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
82775 CCCAAGCACT
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
3 62 0.97
4 2 0.03
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:82830 original size:12 final size:12
Alignment explanation
Indices: 82815--82849 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
82805 TTTCCACCAC
*
82815 TCCATGTTTTCT
1 TCCATGTTTTAT
82827 TCCATGTTTTAT
1 TCCATGTTTTAT
82839 TCCATGTTTTA
1 TCCATGTTTTA
82850 GTATTCCACT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.14, C:0.20, G:0.09, T:0.57
Consensus pattern (12 bp):
TCCATGTTTTAT
Found at i:88476 original size:17 final size:18
Alignment explanation
Indices: 88448--88485 Score: 69
Period size: 17 Copynumber: 2.2 Consensus size: 18
88438 AGAAATGTAC
88448 AAAGAGAAAAAGAAAAGA
1 AAAGAGAAAAAGAAAAGA
88466 AAAGA-AAAAAGAAAAGA
1 AAAGAGAAAAAGAAAAGA
88483 AAA
1 AAA
88486 AATTAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (18 bp):
AAAGAGAAAAAGAAAAGA
Found at i:88477 original size:12 final size:12
Alignment explanation
Indices: 88460--88487 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
88450 AGAGAAAAAG
88460 AAAAGAAAAGAA
1 AAAAGAAAAGAA
88472 AAAAGAAAAGAA
1 AAAAGAAAAGAA
88484 AAAA
1 AAAA
88488 TTAAAAAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (12 bp):
AAAAGAAAAGAA
Found at i:88506 original size:21 final size:20
Alignment explanation
Indices: 88454--88508 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 20
88444 GTACAAAGAG
*
88454 AAAAAGAAAAG--AAAA-GA
1 AAAAAGAAAAGAAAAAATTA
88471 AAAAAGAAAAGAAAAAATTA
1 AAAAAGAAAAGAAAAAATTA
88491 AAAAATGAGAAA-AAAAAA
1 AAAAA-GA-AAAGAAAAAA
88509 GATTTAAAGA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
17 11 0.34
19 4 0.12
20 6 0.19
21 8 0.25
22 3 0.09
ACGTcount: A:0.82, C:0.00, G:0.13, T:0.05
Consensus pattern (20 bp):
AAAAAGAAAAGAAAAAATTA
Found at i:89980 original size:125 final size:123
Alignment explanation
Indices: 89744--90060 Score: 433
Period size: 125 Copynumber: 2.6 Consensus size: 123
89734 AAGTTATGAT
* * * * * *
89744 ATGTTGGGGCACACTGAACCCACATCATGTTGAGATG-AGGATTCAAATCAATGAGGCATAAAGA
1 ATGTTGGGGTACACTAAACCCACATCATGTTGAGATGAAAGATTCAGATCAAGGAGGCATGAAGA
*
89808 ATGAGCATTACAATTTGAGGTGATGGGGGATTTTGAAGGCCTGTACCAGTATAATACA
66 ATGAGCATTACAATTTGAGGTGATGGGGGATTTTGAAGGCCTGTACCAGTATAAGACA
* * *
89866 GTGTTGGGGTACGACTAAACCCACATCATGTTGAGATGACAACATTCAGACCAAGGAGGCATGAA
1 ATGTTGGGGTAC-ACTAAACCCACATCATGTTGAGATGA-AAGATTCAGATCAAGGAGGCATGAA
* * *
89931 GAATGAGCCTTACAATTTGAGGTGATGGGGTATTTTGAAGGCCTGTACCAGTATAAGATA
64 GAATGAGCATTACAATTTGAGGTGATGGGGGATTTTGAAGGCCTGTACCAGTATAAGACA
*
89991 ATGTTGGGGCCTA-ACTAAACCCACATCATGTTGAGATGAAAAGATTCAGATCAAGAAGGCATTG
1 ATGTTGGGG--TACACTAAACCCACATCATGTTGAGATG-AAAGATTCAGATCAAGGAGGCA-TG
90055 -AGAATG
62 AAGAATG
90061 GGTGTTGAGG
Statistics
Matches: 171, Mismatches: 17, Indels: 11
0.86 0.09 0.06
Matches are distributed among these distances:
122 10 0.06
123 24 0.14
125 132 0.77
126 3 0.02
127 2 0.01
ACGTcount: A:0.34, C:0.15, G:0.26, T:0.25
Consensus pattern (123 bp):
ATGTTGGGGTACACTAAACCCACATCATGTTGAGATGAAAGATTCAGATCAAGGAGGCATGAAGA
ATGAGCATTACAATTTGAGGTGATGGGGGATTTTGAAGGCCTGTACCAGTATAAGACA
Found at i:91338 original size:34 final size:34
Alignment explanation
Indices: 91265--91395 Score: 183
Period size: 34 Copynumber: 3.8 Consensus size: 34
91255 AAGTCAATCC
* * *
91265 TAAGCCTTCACCGGAGAGTAGTGAAGCAATCATCT
1 TAAGCCTTCACAGAAGAGTAGTGAAGC-ACCATCT
*
91300 TAAGCCTTCACAGAAGAGTAGTGGAGCACCATCT
1 TAAGCCTTCACAGAAGAGTAGTGAAGCACCATCT
* *
91334 TAAGCCTTCACAGAGGAGTAGTGAAGCACTATCT
1 TAAGCCTTCACAGAAGAGTAGTGAAGCACCATCT
91368 TAAGCCTTCACCA-AAGAGTAGTGAAGCA
1 TAAGCCTTCA-CAGAAGAGTAGTGAAGCA
91396 AATCCATCCA
Statistics
Matches: 87, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
34 61 0.70
35 26 0.30
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.21
Consensus pattern (34 bp):
TAAGCCTTCACAGAAGAGTAGTGAAGCACCATCT
Found at i:91582 original size:42 final size:41
Alignment explanation
Indices: 91516--91613 Score: 108
Period size: 42 Copynumber: 2.4 Consensus size: 41
91506 TTCACAATTT
* * *
91516 ATAAGTCCTTCGGGCCATCAGTAAGTCTTTC-GAGCATGATG
1 ATAAATCCTTCGGGCCATCAGTAAG-CCTTCAGAGCAAGATG
* * *
91557 CTTAAATCCTTCGGGTCATCTGTAAGCCTTCAGAGCAAGATG
1 -ATAAATCCTTCGGGCCATCAGTAAGCCTTCAGAGCAAGATG
*
91599 ATAAGTCCTTCGGGC
1 ATAAATCCTTCGGGC
91614 TATCCATAAA
Statistics
Matches: 46, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
41 16 0.35
42 30 0.65
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.29
Consensus pattern (41 bp):
ATAAATCCTTCGGGCCATCAGTAAGCCTTCAGAGCAAGATG
Found at i:91773 original size:42 final size:41
Alignment explanation
Indices: 91721--91822 Score: 116
Period size: 42 Copynumber: 2.5 Consensus size: 41
91711 TTCACAATTT
* * *
91721 ATAAGTCCTTCGGGCCATCAGTAAGTCTTTCA-AGCATGATG
1 ATAAATCCTTCGGGCCATCAGTAAGCCTTT-AGAGCAAGATG
* * *
91762 CTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATG
1 -ATAAATCCTTCGGGCCATCAGTAAGCCTTTAGAGCAAGATG
*
91804 ATAAGTCCTTCGGGCCATC
1 ATAAATCCTTCGGGCCATC
91823 CATAAAACCT
Statistics
Matches: 50, Mismatches: 9, Indels: 3
0.81 0.15 0.05
Matches are distributed among these distances:
41 17 0.34
42 33 0.66
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (41 bp):
ATAAATCCTTCGGGCCATCAGTAAGCCTTTAGAGCAAGATG
Found at i:91996 original size:215 final size:215
Alignment explanation
Indices: 91399--92428 Score: 1616
Period size: 215 Copynumber: 4.8 Consensus size: 215
91389 TGAAGCAAAT
* * *
91399 CCATCCATAAAACCTTCGGGTAGGATGTTTTTACATGAATTTGGAAATG-GAAAATGATGTTTTA
1 CCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAAAATGAAAAAATGATGTTTTA
* *
91463 AGATGATGAAATTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTCACAATTTATAAGTCCTTCG
66 AGAAGATGAAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCG
*
91528 GGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTCAGAGC
131 GGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGC
91593 AAGATGATAAGTCCTTCGGG
196 AAGATGATAAGTCCTTCGGG
* * *
91613 CTATCCATAAAACCTTTGGGTAGGATGTTTTCACATGAATTTGAGAATGAAAAAATGATG--TT-
1 CCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAAAATGAAAAAATGATGTTTTA
* * *
91675 -G--GAT----TTTTTTAAGACGAAGAATGTGATTTTCAAAATTTCACAATTTATAAGTCCTTCG
66 AGAAGATGAAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCG
*
91733 GGCCATCAGTAAGTCTTTCAAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGC
131 GGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGC
91798 AAGATGATAAGTCCTTCGGG
196 AAGATGATAAGTCCTTCGGG
91818 CCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAAAATGAAAAAATGATGTTTTA
1 CCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAAAATGAAAAAATGATGTTTTA
* * *
91883 AGAAGATGGAATTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTCACAATTTATAAGTCTTTCG
66 AGAAGATGAAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCG
*
91948 GGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCAGGTCATCTGTAAGCCTTTAGAGC
131 GGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGC
92013 AAGATGATAAGTCCTTCGGG
196 AAGATGATAAGTCCTTCGGG
* * *
92033 CCATCCATAAGACATTCGGGTAGGATGTTTTCACGTGAATTTGAAAATGAAAAAAAATGATGTTT
1 CCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAAAATG--AAAAAATGATGTTT
* * * * *
92098 TAAGAATATGGAATTTTTGAAAATGAAGAATGTGATTTTCAAAATTTCAAAATTTATAAGTCCTT
64 TAAGAAGATGAAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTT
*
92163 CGGGCCATCAGTAAGTTTTTCGAGCATGATG-TGTAAATCCTTCGGGTCATCTGTAAGCCTTTAG
129 CGGGCCATCAGTAAGTCTTTCGAGCATGATGCT-TAAATCCTTCGGGTCATCTGTAAGCCTTTAG
* * *
92227 AGCAAGATTATAAGTCATTCAGG
193 AGCAAGATGATAAGTCCTTCGGG
* * * *
92250 CCATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAATGAGAAAGTGATGTTTTA
1 CCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAAAATGAAAAAATGATGTTTTA
* *
92315 AGAAGATGAAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAAGTTATAAGTCTTTCG
66 AGAAGATGAAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCG
* *
92380 GGCCATCAGTAAGTCTTTCGAGCATAATGTTTAAATCCTTCGGGTCATC
131 GGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATC
92429 CATAAGACCT
Statistics
Matches: 751, Mismatches: 50, Indels: 29
0.90 0.06 0.03
Matches are distributed among these distances:
205 190 0.25
207 2 0.00
209 4 0.01
211 4 0.01
213 2 0.00
214 44 0.06
215 304 0.40
216 2 0.00
217 199 0.26
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (215 bp):
CCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAAAATGAAAAAATGATGTTTTA
AGAAGATGAAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCG
GGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGC
AAGATGATAAGTCCTTCGGG
Found at i:92334 original size:432 final size:420
Alignment explanation
Indices: 91399--92428 Score: 1659
Period size: 432 Copynumber: 2.4 Consensus size: 420
91389 TGAAGCAAAT
* *
91399 CCATCCATAAAACCTTCGGGTAGGATGTTTTTACATGAATTTGGAAATG-GAAAATGATGTTTTA
1 CCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAAAATGAGAAAATGATGTTTTA
* *
91463 AGATGATGAAATTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTCACAATTTATAAGTCCTTCG
66 AGAAGATGAAATTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTCACAATTTATAAGTCTTTCG
91528 GGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTCAGAGC
131 GGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTCAGAGC
* * * *
91593 AAGATGATAAGTCCTTCGGGCTATCCATAAAACCTTTGGGTAGGATGTTTTCACATGAATTTGAG
196 AAGATGATAAGTCCTTCGGGCCATCCATAAAACATTCGGGTAGGATGTTTTCACATGAATTTGAA
* * *
91658 AATGAAAAAATGATGTTGGATTTTTTTAAGACGAAGAATGTGATTTTCAAAATTTCACAATTTAT
261 AATGAAAAAATGATGTTGAATTTTTTTAAAACGAAGAATGTGATTTTCAAAATTTCAAAATTTAT
91723 AAGTCCTTCGGGCCATCAGTAAGTCTTTCAAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAG
326 AAGTCCTTCGGGCCATCAGTAAGTCTTTCAAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAG
* *
91788 CCTTTAGAGCAAGATGATAAGTCCTTCGGG
391 CCTTTAGAGCAAGATGATAAGTCATTCAGG
*
91818 CCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAAAATGAAAAAATGATGTTTTA
1 CCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAAAATGAGAAAATGATGTTTTA
*
91883 AGAAGATGGAATTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTCACAATTTATAAGTCTTTCG
66 AGAAGATGAAATTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTCACAATTTATAAGTCTTTCG
* *
91948 GGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCAGGTCATCTGTAAGCCTTTAGAGC
131 GGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTCAGAGC
* *
92013 AAGATGATAAGTCCTTCGGGCCATCCATAAGACATTCGGGTAGGATGTTTTCACGTGAATTTGAA
196 AAGATGATAAGTCCTTCGGGCCATCCATAAAACATTCGGGTAGGATGTTTTCACATGAATTTGAA
*
92078 AATGAAAAAAAATGATGTTTTAAGAATATGGAATTTTTGAAAATGAAGAATGTGATTTTCAAAAT
261 AATG--AAAAAATGATG--TT--GAAT-T----TTTTT-AAAACGAAGAATGTGATTTTCAAAAT
* *
92143 TTCAAAATTTATAAGTCCTTCGGGCCATCAGTAAGTTTTTCGAGCATGATG-TGTAAATCCTTCG
314 TTCAAAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCAAGCATGATGCT-TAAATCCTTCG
*
92207 GGTCATCTGTAAGCCTTTAGAGCAAGATTATAAGTCATTCAGG
378 GGTCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCATTCAGG
* * *
92250 CCATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAATGAGAAAGTGATGTTTTA
1 CCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAAAATGAGAAAATGATGTTTTA
* *
92315 AGAAGATGAAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAAGTTATAAGTCTTTCG
66 AGAAGATGAAATTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTCACAATTTATAAGTCTTTCG
* *
92380 GGCCATCAGTAAGTCTTTCGAGCATAATGTTTAAATCCTTCGGGTCATC
131 GGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATC
92429 CATAAGACCT
Statistics
Matches: 564, Mismatches: 33, Indels: 15
0.92 0.05 0.02
Matches are distributed among these distances:
419 47 0.08
420 202 0.36
422 11 0.02
424 2 0.00
426 3 0.01
427 1 0.00
431 6 0.01
432 292 0.52
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (420 bp):
CCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAAAATGAGAAAATGATGTTTTA
AGAAGATGAAATTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTCACAATTTATAAGTCTTTCG
GGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTCAGAGC
AAGATGATAAGTCCTTCGGGCCATCCATAAAACATTCGGGTAGGATGTTTTCACATGAATTTGAA
AATGAAAAAATGATGTTGAATTTTTTTAAAACGAAGAATGTGATTTTCAAAATTTCAAAATTTAT
AAGTCCTTCGGGCCATCAGTAAGTCTTTCAAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAG
CCTTTAGAGCAAGATGATAAGTCATTCAGG
Found at i:92785 original size:3 final size:3
Alignment explanation
Indices: 92769--92831 Score: 99
Period size: 3 Copynumber: 20.7 Consensus size: 3
92759 GTCGAAAAAA
* *
92769 TAT TAT TAAA TAT TAT TAT TAT TAT TAT TAT TAT CAT TAT TAT TAT
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
92815 TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TA
92832 CCCAAGCACT
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
3 53 0.96
4 2 0.04
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:92887 original size:12 final size:12
Alignment explanation
Indices: 92872--92917 Score: 74
Period size: 12 Copynumber: 3.8 Consensus size: 12
92862 TTTCCACCAC
92872 TCCATGTTTTCT
1 TCCATGTTTTCT
* *
92884 TCCATATTTTAT
1 TCCATGTTTTCT
92896 TCCATGTTTTCT
1 TCCATGTTTTCT
92908 TCCATGTTTT
1 TCCATGTTTT
92918 ATTATTCCAC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.13, C:0.22, G:0.07, T:0.59
Consensus pattern (12 bp):
TCCATGTTTTCT
Found at i:92904 original size:24 final size:24
Alignment explanation
Indices: 92872--92920 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
92862 TTTCCACCAC
92872 TCCATGTTTTCTTCCATATTTTAT
1 TCCATGTTTTCTTCCATATTTTAT
*
92896 TCCATGTTTTCTTCCATGTTTTAT
1 TCCATGTTTTCTTCCATATTTTAT
92920 T
1 T
92921 ATTCCACTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.14, C:0.20, G:0.06, T:0.59
Consensus pattern (24 bp):
TCCATGTTTTCTTCCATATTTTAT
Found at i:95035 original size:38 final size:39
Alignment explanation
Indices: 94990--95075 Score: 113
Period size: 38 Copynumber: 2.3 Consensus size: 39
94980 ATATTATTTT
* *
94990 TATAATATTTTTTATTGTAATTTAATG-AAGTATAAAAA
1 TATAATATTTTTTAGTGTAATTTAAAGTAAGTATAAAAA
* *
95028 TATAATA-TTTTTAGTGTAATTTAAAGTTATTATAAAAA
1 TATAATATTTTTTAGTGTAATTTAAAGTAAGTATAAAAA
*
95066 CATAATATTT
1 TATAATATTT
95076 AAGGTTGTAA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
37 17 0.41
38 22 0.54
39 2 0.05
ACGTcount: A:0.44, C:0.01, G:0.07, T:0.48
Consensus pattern (39 bp):
TATAATATTTTTTAGTGTAATTTAAAGTAAGTATAAAAA
Found at i:95385 original size:16 final size:17
Alignment explanation
Indices: 95360--95403 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
95350 TAATATTGTA
95360 TTAA-TTTTAAAA-AAT
1 TTAATTTTTAAAAGAAT
95375 TTAATTTTTAAAAGAAT
1 TTAATTTTTAAAAGAAT
* *
95392 TAAATTATTAAA
1 TTAATTTTTAAA
95404 CTATTATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 4 0.16
16 8 0.32
17 13 0.52
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (17 bp):
TTAATTTTTAAAAGAAT
Found at i:95984 original size:28 final size:28
Alignment explanation
Indices: 95953--96008 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
95943 CACGTGAAGG
95953 AGAATAGACCCAAAAGAGAGAGGGTCAA
1 AGAATAGACCCAAAAGAGAGAGGGTCAA
*
95981 AGAATAGACCGAAAAGAGAGAGGGTCAA
1 AGAATAGACCCAAAAGAGAGAGGGTCAA
96009 GTATAGAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.50, C:0.12, G:0.30, T:0.07
Consensus pattern (28 bp):
AGAATAGACCCAAAAGAGAGAGGGTCAA
Found at i:96143 original size:30 final size:30
Alignment explanation
Indices: 96109--96166 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
96099 ATATTTTTAA
*
96109 CTCTTAAAATTTTATGAATTCAAATTTATT
1 CTCTTAAAATTTTATAAATTCAAATTTATT
* *
96139 CTCTTAAAGTTTTATAAATTTAAATTTA
1 CTCTTAAAATTTTATAAATTCAAATTTA
96167 ACCTAACATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.38, C:0.09, G:0.03, T:0.50
Consensus pattern (30 bp):
CTCTTAAAATTTTATAAATTCAAATTTATT
Found at i:96383 original size:15 final size:16
Alignment explanation
Indices: 96363--96434 Score: 76
Period size: 16 Copynumber: 4.6 Consensus size: 16
96353 GTTTACTTCA
*
96363 GAATGATT-AAGCGTT
1 GAATGATTCAAACGTT
* *
96378 GAATGATTCAAATGCT
1 GAATGATTCAAACGTT
*
96394 GAATGATT-AAGCGTT
1 GAATGATTCAAACGTT
* *
96409 GAAAGATTCAAATGTT
1 GAATGATTCAAACGTT
96425 GAATGATTCA
1 GAATGATTCA
96435 GAGGCTCTGT
Statistics
Matches: 45, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
15 19 0.42
16 26 0.58
ACGTcount: A:0.38, C:0.08, G:0.22, T:0.32
Consensus pattern (16 bp):
GAATGATTCAAACGTT
Found at i:96398 original size:16 final size:16
Alignment explanation
Indices: 96375--96434 Score: 77
Period size: 16 Copynumber: 3.8 Consensus size: 16
96365 ATGATTAAGC
96375 GTTGAATGATTCAAAT
1 GTTGAATGATTCAAAT
* **
96391 GCTGAATGATT-AAGC
1 GTTGAATGATTCAAAT
*
96406 GTTGAAAGATTCAAAT
1 GTTGAATGATTCAAAT
96422 GTTGAATGATTCA
1 GTTGAATGATTCA
96435 GAGGCTCTGT
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
15 11 0.31
16 24 0.69
ACGTcount: A:0.37, C:0.08, G:0.22, T:0.33
Consensus pattern (16 bp):
GTTGAATGATTCAAAT
Found at i:96398 original size:31 final size:31
Alignment explanation
Indices: 96363--96432 Score: 122
Period size: 31 Copynumber: 2.3 Consensus size: 31
96353 GTTTACTTCA
*
96363 GAATGATTAAGCGTTGAATGATTCAAATGCT
1 GAATGATTAAGCGTTGAAAGATTCAAATGCT
*
96394 GAATGATTAAGCGTTGAAAGATTCAAATGTT
1 GAATGATTAAGCGTTGAAAGATTCAAATGCT
96425 GAATGATT
1 GAATGATT
96433 CAGAGGCTCT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.37, C:0.07, G:0.23, T:0.33
Consensus pattern (31 bp):
GAATGATTAAGCGTTGAAAGATTCAAATGCT
Found at i:96519 original size:27 final size:27
Alignment explanation
Indices: 96486--96552 Score: 98
Period size: 27 Copynumber: 2.5 Consensus size: 27
96476 GATAATGGTT
96486 CTGAATCATTCAAAATCTACTTCTGTG
1 CTGAATCATTCAAAATCTACTTCTGTG
* * *
96513 CTGAATCATTCAGAATTTACTTTTGTG
1 CTGAATCATTCAAAATCTACTTCTGTG
*
96540 CTAAATCATTCAA
1 CTGAATCATTCAA
96553 CACTGTTTTG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.31, C:0.19, G:0.10, T:0.39
Consensus pattern (27 bp):
CTGAATCATTCAAAATCTACTTCTGTG
Found at i:99264 original size:3 final size:3
Alignment explanation
Indices: 99250--99290 Score: 55
Period size: 3 Copynumber: 13.0 Consensus size: 3
99240 GTAAAATGTA
*
99250 AAT AAA AAT AAT AAT AAT AAT AATT AATT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AA-T AA-T AAT AAT AAT AAT
99291 TTAATTATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 28 0.80
4 7 0.20
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:99283 original size:17 final size:18
Alignment explanation
Indices: 99261--99302 Score: 68
Period size: 17 Copynumber: 2.4 Consensus size: 18
99251 ATAAAAATAA
99261 TAATAATAATAA-TTAAT
1 TAATAATAATAATTTAAT
99278 TAATAATAATAATTTAAT
1 TAATAATAATAATTTAAT
*
99296 TATTAAT
1 TAATAAT
99303 GTTTTTTTCG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 12 0.52
18 11 0.48
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
TAATAATAATAATTTAAT
Found at i:99616 original size:88 final size:88
Alignment explanation
Indices: 99508--99690 Score: 258
Period size: 88 Copynumber: 2.1 Consensus size: 88
99498 GGTGACACGA
* * *
99508 CTCCTACGTGATGAGAAGGTCTGGTCGATGGATGACACGATTTCTATGTGATGAGTATGGCAAAC
1 CTCCTACGTGATGAGAAGGTCTGGTCGATGGATGACACGATTCCTACGTGATGAGGATGGCAAAC
* * *
99573 CATCTTTAGGTATGATAACATGG
66 AATATTTAGGGATGATAACATGG
* * * * *
99596 CTCCTACGTGATGAGGAGGTCTGGTCGGTGGATGACACGATTCCTACGTGATGAGGATGGTAGAT
1 CTCCTACGTGATGAGAAGGTCTGGTCGATGGATGACACGATTCCTACGTGATGAGGATGGCAAAC
99661 AATATTTAGGGATGATAACATGG
66 AATATTTAGGGATGATAACATGG
*
99684 TTCCTAC
1 CTCCTAC
99691 ATACTGAAGA
Statistics
Matches: 83, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
88 83 1.00
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (88 bp):
CTCCTACGTGATGAGAAGGTCTGGTCGATGGATGACACGATTCCTACGTGATGAGGATGGCAAAC
AATATTTAGGGATGATAACATGG
Found at i:99741 original size:130 final size:127
Alignment explanation
Indices: 99594--100043 Score: 519
Period size: 130 Copynumber: 3.4 Consensus size: 127
99584 ATGATAACAT
*
99594 GGCTCCTACGTGATGAGGAGGTCTGGTCGGTGGATGACACGATTCCTACGTGATGAGGATGGTAG
1 GGCTCCTACGTGATGAGGAGGTCTGGTCGG-GGATGACACGGTTCCTACGTGATGAGGATGGTAG
* * ** *
99659 ATAATATTTAGGGATGATAACATGGTTCCTACATACTGAAGACGGTTGGTTATCTAAGGTGACAT
65 ATCATATTTAGGGATGATAAC-TGGTTCCTACATA-TGAGGACGACTGGTTATCTAAGGTGACAC
* *
99724 GGCTCCTACGTGATGAGGAGGTCTGGTCAGGGGATGACACGGTTCCTACGTGATGAGGAAGGCA-
1 GGCTCCTACGTGATGAGGAGGTCTGGTC-GGGGATGACACGGTTCCTACGTGATGAGGATGGTAG
* * ** *
99788 ATTCATCTTTAGGAATTGTGATAACTCGGTTCCTACGCGATGAGGACGACTGGTTATCTATGGGT
65 A-TCATATTTAGGGA---TGATAACT-GGTTCCTAC-ATATGAGGACGACTGGTTATCTA-AGGT
99853 GACAC
123 GACAC
* * * *
99858 GGCTCCTACGTGATGAGGAGGTCTGGTCTGTGGATGACACGGTTCCTATGCGATGAGGATGATAG
1 GGCTCCTACGTGATGAGGAGGTCTGGTC-GGGGATGACACGGTTCCTACGTGATGAGGATGGTAG
* * * * *
99923 ACCATTTTTAGGGATGATAATCGCGGTTCCTACGTGATGAGGACGACTGATTATCT-AGGTTGAC
65 ATCATATTTAGGGATGATAA-C-TGGTTCCTACAT-ATGAGGACGACTGGTTATCTAAGG-TGAC
99987 AC
126 AC
* *
99989 GGCTCCTACGTGATGAGGA-GTATGGACGGGGATGACACGGTTCCTACGTGATGAG
1 GGCTCCTACGTGATGAGGAGGTCTGGTCGGGGATGACACGGTTCCTACGTGATGAG
100044 AACGATAGGC
Statistics
Matches: 274, Mismatches: 33, Indels: 27
0.82 0.10 0.08
Matches are distributed among these distances:
129 26 0.09
130 76 0.28
131 33 0.12
132 30 0.11
133 33 0.12
134 75 0.27
135 1 0.00
ACGTcount: A:0.24, C:0.17, G:0.32, T:0.27
Consensus pattern (127 bp):
GGCTCCTACGTGATGAGGAGGTCTGGTCGGGGATGACACGGTTCCTACGTGATGAGGATGGTAGA
TCATATTTAGGGATGATAACTGGTTCCTACATATGAGGACGACTGGTTATCTAAGGTGACAC
Found at i:99771 original size:40 final size:40
Alignment explanation
Indices: 99718--99916 Score: 112
Period size: 40 Copynumber: 4.6 Consensus size: 40
99708 TTATCTAAGG
* *
99718 TGACATGGCTCCTACGTGATGAGGAGGTCTGGTCAGGGGA
1 TGACACGGTTCCTACGTGATGAGGAGGTCTGGTCAGGGGA
** *
99758 TGACACGGTTCCTACGTGATGAGGAAGGCAATTCATCTTTAGGAATTGTGA
1 TGACACGGTTCCTACGTGATGAGG-AGG----TC-TGGTCAGG----G-GA
* * * * * *
99809 TAACTCGGTTCCTACGCGATGAGGACGACTGGTTATCTATGGG-
1 TGACACGGTTCCTACGTGATGAGGAGGTCTGG---TC-AGGGGA
* * *
99852 TGACACGGCTCCTACGTGATGAGGAGGTCTGGTCTGTGGA
1 TGACACGGTTCCTACGTGATGAGGAGGTCTGGTCAGGGGA
* *
99892 TGACACGGTTCCTATGCGATGAGGA
1 TGACACGGTTCCTACGTGATGAGGA
99917 TGATAGACCA
Statistics
Matches: 117, Mismatches: 26, Indels: 32
0.67 0.15 0.18
Matches are distributed among these distances:
39 2 0.02
40 46 0.39
41 3 0.03
43 26 0.22
44 1 0.01
45 4 0.03
46 6 0.05
48 1 0.01
49 2 0.02
50 3 0.03
51 23 0.20
ACGTcount: A:0.22, C:0.19, G:0.33, T:0.26
Consensus pattern (40 bp):
TGACACGGTTCCTACGTGATGAGGAGGTCTGGTCAGGGGA
Found at i:99883 original size:134 final size:129
Alignment explanation
Indices: 99594--100043 Score: 548
Period size: 134 Copynumber: 3.4 Consensus size: 129
99584 ATGATAACAT
*
99594 GGCTCCTACGTGATGAGGAGGTCTGGTCGGTGGATGACACGATTCCTACGTGATGAGGATGGTAG
1 GGCTCCTACGTGATGAGGAGGTCTGGTCGG-GGATGACACGGTTCCTACGTGATGAGGATGGTAG
* * * ** *
99659 ATAATATTTAGGGATGATAACAT-GGTTCCTAC-ATACTGAAGACGGTTGGTTATCTAAGGTGAC
65 ATCATATTTAGGGATGATAAC-TCGGTTCCTACGAGA-TGAGGACGACTGGTTATCTAGGGTGAC
*
99722 AT
128 AC
* *
99724 GGCTCCTACGTGATGAGGAGGTCTGGTCAGGGGATGACACGGTTCCTACGTGATGAGGAAGGCA-
1 GGCTCCTACGTGATGAGGAGGTCTGGTC-GGGGATGACACGGTTCCTACGTGATGAGGATGGTAG
* * *
99788 ATTCATCTTTAGGAATTGTGATAACTCGGTTCCTACGCGATGAGGACGACTGGTTATCTATGGGT
65 A-TCATATTTAGGGA---TGATAACTCGGTTCCTACGAGATGAGGACGACTGGTTATCTA-GGGT
99853 GACAC
125 GACAC
* * * *
99858 GGCTCCTACGTGATGAGGAGGTCTGGTCTGTGGATGACACGGTTCCTATGCGATGAGGATGATAG
1 GGCTCCTACGTGATGAGGAGGTCTGGTC-GGGGATGACACGGTTCCTACGTGATGAGGATGGTAG
* * * * * *
99923 ACCATTTTTAGGGATGATAATCGCGGTTCCTACGTGATGAGGACGACTGATTATCTAGGTTGACA
65 ATCATATTTAGGGATGATAA-CTCGGTTCCTACGAGATGAGGACGACTGGTTATCTAGGGTGACA
99988 C
129 C
* *
99989 GGCTCCTACGTGATGAGGA-GTATGGACGGGGATGACACGGTTCCTACGTGATGAG
1 GGCTCCTACGTGATGAGGAGGTCTGGTCGGGGATGACACGGTTCCTACGTGATGAG
100044 AACGATAGGC
Statistics
Matches: 278, Mismatches: 32, Indels: 21
0.84 0.10 0.06
Matches are distributed among these distances:
129 26 0.09
130 74 0.27
131 35 0.13
132 34 0.12
133 33 0.12
134 75 0.27
135 1 0.00
ACGTcount: A:0.24, C:0.17, G:0.32, T:0.27
Consensus pattern (129 bp):
GGCTCCTACGTGATGAGGAGGTCTGGTCGGGGATGACACGGTTCCTACGTGATGAGGATGGTAGA
TCATATTTAGGGATGATAACTCGGTTCCTACGAGATGAGGACGACTGGTTATCTAGGGTGACAC
Found at i:100210 original size:65 final size:65
Alignment explanation
Indices: 100069--100225 Score: 192
Period size: 65 Copynumber: 2.4 Consensus size: 65
100059 TTAGGGATTT
* * * * *
100069 GTTTCAAGGGAAACAAACTCAAAGAT-GATGCTTGAAGAGAAGCTGTCTCAAGAGGGAAAAATTC
1 GTTTCAAGGGAAACAATCTCAAAGATGGATGCTTCAAGAGAAACTGTATCAAGAGAGAAAAATTC
* * * **
100133 GTTTCAAGGGAAACGATCTCAAAGATGGGTGTTTCAAGAGAAACTGTATCAAGAGAGACAATCTT
1 GTTTCAAGGGAAACAATCTCAAAGATGGATGCTTCAAGAGAAACTGTATCAAGAGAGA-AAAATT
*
100198 G
65 C
100199 GTTT-AAGGGAAACAATCTCAAAGATGG
1 GTTTCAAGGGAAACAATCTCAAAGATGG
100226 TTTTTGTTTC
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
64 24 0.30
65 47 0.59
66 8 0.10
ACGTcount: A:0.39, C:0.13, G:0.25, T:0.22
Consensus pattern (65 bp):
GTTTCAAGGGAAACAATCTCAAAGATGGATGCTTCAAGAGAAACTGTATCAAGAGAGAAAAATTC
Found at i:105314 original size:5 final size:5
Alignment explanation
Indices: 105304--105337 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
105294 ATTTTTCACA
* *
105304 AAAAT AAAAT AAACT AAAAT GAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
105338 ATGAAAATAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:105338 original size:16 final size:16
Alignment explanation
Indices: 105303--105343 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
105293 TATTTTTCAC
* *
105303 AAAAATAAAATAAACT
1 AAAAATGAAATAAAAT
105319 -AAAATGAAATAAAAT
1 AAAAATGAAATAAAAT
105334 AAAAATGAAA
1 AAAAATGAAA
105344 ATAGGTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 13 0.59
16 9 0.41
ACGTcount: A:0.76, C:0.02, G:0.05, T:0.17
Consensus pattern (16 bp):
AAAAATGAAATAAAAT
Found at i:105372 original size:20 final size:20
Alignment explanation
Indices: 105309--105372 Score: 56
Period size: 20 Copynumber: 3.0 Consensus size: 20
105299 TCACAAAAAT
*
105309 AAAATAAACTAAAATGAAATAA
1 AAAATAATC-AAAAT-AAATAA
* * **
105331 AATAAAAATGAAAATAGGTAA
1 AA-AATAATCAAAATAAATAA
105352 AAAATAATCAAAATAAATAA
1 AAAATAATCAAAATAAATAA
105372 A
1 A
105373 CGTAAAGCAA
Statistics
Matches: 32, Mismatches: 9, Indels: 4
0.71 0.20 0.09
Matches are distributed among these distances:
20 15 0.47
21 6 0.19
22 7 0.22
23 4 0.12
ACGTcount: A:0.72, C:0.03, G:0.06, T:0.19
Consensus pattern (20 bp):
AAAATAATCAAAATAAATAA
Found at i:107089 original size:3 final size:3
Alignment explanation
Indices: 107032--107073 Score: 66
Period size: 3 Copynumber: 13.7 Consensus size: 3
107022 CTGTAAAATG
*
107032 ATA ATA CTA ATA ATA ATA ATA ATA ATA ATA ATTA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA AT
107074 CATATGATTA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 33 0.92
4 3 0.08
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:113657 original size:21 final size:20
Alignment explanation
Indices: 113632--113686 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 20
113622 TGAAGAAGAA
*
113632 AAAAAAAGAAAA-AAATGAATG
1 AAAAAAAGAAAATAAA--AAAG
*
113653 AAAAAATGAAAATAAAAAAG
1 AAAAAAAGAAAATAAAAAAG
113673 AAAAAATAGAAAAT
1 AAAAAA-AGAAAAT
113687 GAGGGTCAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 9 0.31
21 17 0.59
22 3 0.10
ACGTcount: A:0.78, C:0.00, G:0.11, T:0.11
Consensus pattern (20 bp):
AAAAAAAGAAAATAAAAAAG
Found at i:115416 original size:123 final size:122
Alignment explanation
Indices: 115244--115690 Score: 596
Period size: 123 Copynumber: 3.7 Consensus size: 122
115234 TACTCAATGG
115244 ATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAGAAGAAGTTCATA
1 ATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAGAAGAAGTTCATA
115309 ATGAGAAGAACTTGTTCAACCTTTTGCTCGATTCTATCACAGAAGGAGATAGATCATC
66 ATGAGAAGAACTTGTTCAACCTTTTGCTCGATTCTATCACA-AAGGAGATAGATCATC
* * * * * *
115367 ATCAACATTTCTAGATAAAGTTCATAATGAGAAGAACTCATCTAAAGAAGAAAGAAGAAATTCAT
1 ATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAG-GAGAAGAAGTTCAT
* * **
115432 AATGAGAAGAATTTGTTCAACCTTTTGCTCGAATTC-ATCAC--------TCGAT--GG
65 AATGAGAAGAACTTGTTCAACCTTTTGCTCG-ATTCTATCACAAAGGAGATAGATCATC
* * *
115480 ATCAACTTTTCTAGAGAAAGTTCATAATGTGAAGAACTTATCTGAAG-AGGAAGAAGAAGTTCAT
1 ATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGG-AGAAGAAGTTCAT
* * * *
115544 AATGAAAACAACTTGTTCAACCTTTTGCTTGATTTTATCACATAAGGAGATAGATCATC
65 AATGAGAAGAACTTGTTCAACCTTTTGCTCGATTCTATCACA-AAGGAGATAGATCATC
115603 ATCAACTTTTCCAGA-AGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAGAAGAAGTTCAT
1 ATCAACTTTTCCAGAGA-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAGAAGAAGTTCAT
115667 AATGAGAAGAACTTGTTCAACCTT
65 AATGAGAAGAACTTGTTCAACCTT
115691 AATTTGATTC
Statistics
Matches: 277, Mismatches: 30, Indels: 34
0.81 0.09 0.10
Matches are distributed among these distances:
111 3 0.01
112 46 0.17
113 42 0.15
115 4 0.01
121 4 0.01
122 1 0.00
123 123 0.44
124 50 0.18
125 4 0.01
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.28
Consensus pattern (122 bp):
ATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAGAAGAAGTTCATA
ATGAGAAGAACTTGTTCAACCTTTTGCTCGATTCTATCACAAAGGAGATAGATCATC
Found at i:115637 original size:17 final size:17
Alignment explanation
Indices: 115615--115677 Score: 54
Period size: 17 Copynumber: 3.4 Consensus size: 17
115605 CAACTTTTCC
115615 AGAAGAAGTTCATAATG
1 AGAAGAAGTTCATAATG
* * *
115632 AGAAGAACTCATCTGAAGAAGG
1 AGAAGAAGT--TC---ATAATG
115654 AGAAGAAGTTCATAATG
1 AGAAGAAGTTCATAATG
115671 AGAAGAA
1 AGAAGAA
115678 CTTGTTCAAC
Statistics
Matches: 35, Mismatches: 6, Indels: 10
0.69 0.12 0.20
Matches are distributed among these distances:
17 19 0.54
19 2 0.06
20 2 0.06
22 12 0.34
ACGTcount: A:0.49, C:0.08, G:0.25, T:0.17
Consensus pattern (17 bp):
AGAAGAAGTTCATAATG
Found at i:115757 original size:138 final size:138
Alignment explanation
Indices: 115603--115963 Score: 643
Period size: 138 Copynumber: 2.6 Consensus size: 138
115593 ATAGATCATC
115603 ATCAAC-TTTTCCAGAAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAGAAGAAGTTCAT
1 ATCAACATTTT-CAGAAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAGAAGAAGTTCAT
*
115667 AATGAGAAGAACTTGTTCAACCTTAATTTGATTCATCACATATTGAAATTGAATCAACAATACCT
65 AATGAGAAGAATTTGTTCAACCTTAATTTGATTCATCACATATTGAAATTGAATCAACAATACCT
115732 CTTTTGAAG
130 CTTTTGAAG
115741 ATCAACATTTTCAGAAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAGAAGAAGTTCATA
1 ATCAACATTTTCAGAAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAGAAGAAGTTCATA
115806 ATGAGAAGAATTTGTTCAACCTTAATTTGATTCATCACATATTGAAATTGAATCAACAATACCTC
66 ATGAGAAGAATTTGTTCAACCTTAATTTGATTCATCACATATTGAAATTGAATCAACAATACCTC
115871 TTTTGAAG
131 TTTTGAAG
* * * * * *
115879 ATCAGCATTTCCAGAAGGAGTTCATAATGAGAAGAACTCATCTGAAAAAGAAGAATAAGTTCATA
1 ATCAACATTTTCAGAAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAGAAGAAGTTCATA
115944 ATGAGAAGAATTTGTTCAAC
66 ATGAGAAGAATTTGTTCAAC
115964 TTTTTGCTAG
Statistics
Matches: 215, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
138 211 0.98
139 4 0.02
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (138 bp):
ATCAACATTTTCAGAAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAGAAGAAGTTCATA
ATGAGAAGAATTTGTTCAACCTTAATTTGATTCATCACATATTGAAATTGAATCAACAATACCTC
TTTTGAAG
Found at i:115773 original size:17 final size:17
Alignment explanation
Indices: 115753--115815 Score: 54
Period size: 17 Copynumber: 3.4 Consensus size: 17
115743 CAACATTTTC
115753 AGAAGAAGTTCATAATG
1 AGAAGAAGTTCATAATG
* * *
115770 AGAAGAACTCATCTGAAGAAGG
1 AGAAGAAGT--TC---ATAATG
115792 AGAAGAAGTTCATAATG
1 AGAAGAAGTTCATAATG
115809 AGAAGAA
1 AGAAGAA
115816 TTTGTTCAAC
Statistics
Matches: 35, Mismatches: 6, Indels: 10
0.69 0.12 0.20
Matches are distributed among these distances:
17 19 0.54
19 2 0.06
20 2 0.06
22 12 0.34
ACGTcount: A:0.49, C:0.08, G:0.25, T:0.17
Consensus pattern (17 bp):
AGAAGAAGTTCATAATG
Found at i:116219 original size:23 final size:23
Alignment explanation
Indices: 116190--116255 Score: 78
Period size: 23 Copynumber: 2.9 Consensus size: 23
116180 TCCATTTGTT
116190 TTTTATTTTTAATATTAATATTA
1 TTTTATTTTTAATATTAATATTA
* * *
116213 TTTTATTTATACTATTATTATTA
1 TTTTATTTTTAATATTAATATTA
* * *
116236 TTATATTATTATTATTAATA
1 TTTTATTTTTAATATTAATA
116256 ATAAAAAAAT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.64
Consensus pattern (23 bp):
TTTTATTTTTAATATTAATATTA
Found at i:116228 original size:17 final size:17
Alignment explanation
Indices: 116208--116252 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 17
116198 TTAATATTAA
116208 TATTATT-TTATTTATAC
1 TATTATTATTA-TTATAC
*
116225 TATTATTATTATTATAT
1 TATTATTATTATTATAC
116242 TATTATTATTA
1 TATTATTATTA
116253 ATAATAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 23 0.88
18 3 0.12
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (17 bp):
TATTATTATTATTATAC
Found at i:116231 original size:3 final size:3
Alignment explanation
Indices: 116192--116252 Score: 56
Period size: 3 Copynumber: 21.0 Consensus size: 3
116182 CATTTGTTTT
* * * *
116192 TTA TTT TTA ATA TTA ATA TTA TT- TTA TT- TATA CTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
116236 TTA -TA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA
116253 ATAATAAAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
2 5 0.11
3 41 0.89
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:116251 original size:14 final size:14
Alignment explanation
Indices: 116225--116252 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
116215 TTATTTATAC
116225 TATTATTATTATTA
1 TATTATTATTATTA
116239 TATTATTATTATTA
1 TATTATTATTATTA
116253 ATAATAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
TATTATTATTATTA
Found at i:117148 original size:21 final size:20
Alignment explanation
Indices: 117111--117173 Score: 90
Period size: 20 Copynumber: 3.1 Consensus size: 20
117101 CCGTTAGACA
*
117111 GGGGGAATCGGTACCCCCTG
1 GGGGGAATCTGTACCCCCTG
*
117131 GGGGGAATCTGTTCCCCCTGG
1 GGGGGAATCTGTACCCCCT-G
*
117152 GGGGGAATTTGTACCCCCTG
1 GGGGGAATCTGTACCCCCTG
117172 GG
1 GG
117174 CAATCTGATT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
20 20 0.53
21 18 0.47
ACGTcount: A:0.13, C:0.27, G:0.40, T:0.21
Consensus pattern (20 bp):
GGGGGAATCTGTACCCCCTG
Found at i:117505 original size:20 final size:22
Alignment explanation
Indices: 117480--117528 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 22
117470 TTTGAAATTA
117480 CTCCCCCTT-A-CTTAACACTT
1 CTCCCCCTTAACCTTAACACTT
*
117500 CTCCCCTTTAACACCTTAACACTT
1 CTCCCCCTT-A-ACCTTAACACTT
117524 CTCCC
1 CTCCC
117529 TCTTTTTGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 8 0.33
23 1 0.04
24 15 0.62
ACGTcount: A:0.20, C:0.47, G:0.00, T:0.33
Consensus pattern (22 bp):
CTCCCCCTTAACCTTAACACTT
Found at i:119821 original size:21 final size:21
Alignment explanation
Indices: 119796--119837 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
119786 GTTAGATAGT
119796 GGGGAATCGGTACCCCCTGGG
1 GGGGAATCGGTACCCCCTGGG
* *
119817 GGGGAATCTGTACCTCCTGGG
1 GGGGAATCGGTACCCCCTGGG
119838 CAATCTGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.14, C:0.26, G:0.40, T:0.19
Consensus pattern (21 bp):
GGGGAATCGGTACCCCCTGGG
Found at i:121419 original size:17 final size:18
Alignment explanation
Indices: 121396--121448 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 18
121386 TTTTTAAATA
*
121396 AATAAATATCTTATTTTT
1 AATAAATATATTATTTTT
121414 -ATAAATTATATATATTTTT
1 AATAAA-TATAT-TATTTTT
*
121433 AGATAAATATTTTATT
1 A-ATAAATATATTATT
121449 AATATTTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 11 0.38
20 4 0.14
21 5 0.17
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (18 bp):
AATAAATATATTATTTTT
Found at i:121438 original size:21 final size:22
Alignment explanation
Indices: 121383--121441 Score: 61
Period size: 21 Copynumber: 2.7 Consensus size: 22
121373 GTATTTTATG
121383 ATATTTTTAAATAAATAAATATC
1 ATATTTTT-AATAAATAAATATC
* *
121406 TTATTTTT-ATAAAT-TATAT-
1 ATATTTTTAATAAATAAATATC
121425 ATATTTTTAGATAAATA
1 ATATTTTTA-ATAAATA
121442 TTTTATTAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
19 7 0.23
20 4 0.13
21 12 0.40
23 7 0.23
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (22 bp):
ATATTTTTAATAAATAAATATC
Found at i:121473 original size:127 final size:127
Alignment explanation
Indices: 121328--121688 Score: 428
Period size: 127 Copynumber: 2.8 Consensus size: 127
121318 TATTTTAATA
**
121328 TATTTTTCAATATTAAGAAATGACAGTCTTAAAGCAATTAGATGTGTATTTTATGATATTTTTAA
1 TATTTTTCAATATTAAGAAATGACAGTCTTAAAGCAA-TAGATGTCCATTTTATGATATTTTTAA
121393 ATAAATAAATATCTTATTTTTATAAAT-TATATATAT-TTTTAGATAAATATTTTATTAATATT
65 ATAAATAAATATCTTATTTTTATAAATATATATATATATTTTAGATAAATATTTTATTAA-ATT
* * * *
121455 TATTTTTCAATATTAAGAAAGGGCAGTCTTAAAGCAACTAGATATCCATTTTCTGATATTTTTAA
1 TATTTTTCAATATTAAGAAATGACAGTCTTAAAGCAA-TAGATGTCCATTTTATGATATTTTTAA
* * *
121520 ATAAATAAATATCTTACTTTTAT-AATATATATTTTAATTATTTTAGATAAATGTTTTATTAAAT
65 ATAAATAAATATCTTATTTTTATAAATATATA-TAT-A-TATTTTAGATAAATATTTTATTAAAT
121584 T
127 T
* ** * * *
121585 T-TTTTTAAAATATTAAGAAAAT-AGTTGTCTTAAAGCACATAAAAG-CCCTTTTATGATATTTT
1 TATTTTT-CAATATTAAG-AAATGA-CAGTCTTAAAGCA-ATAGATGTCCATTTTATGATATTTT
* * *
121647 CAAATAAATAAATATCTTATTTATATATATATATATATATAT
62 TAAATAAATAAATATCTTATTTTTATAAATATATATATATAT
121689 ATATATATAT
Statistics
Matches: 199, Mismatches: 25, Indels: 19
0.82 0.10 0.08
Matches are distributed among these distances:
126 3 0.02
127 84 0.42
128 5 0.03
129 7 0.04
130 54 0.27
131 45 0.23
132 1 0.01
ACGTcount: A:0.40, C:0.06, G:0.07, T:0.46
Consensus pattern (127 bp):
TATTTTTCAATATTAAGAAATGACAGTCTTAAAGCAATAGATGTCCATTTTATGATATTTTTAAA
TAAATAAATATCTTATTTTTATAAATATATATATATATTTTAGATAAATATTTTATTAAATT
Found at i:121675 original size:2 final size:2
Alignment explanation
Indices: 121668--121702 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
121658 ATATCTTATT
121668 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
121703 TAATAGATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:126677 original size:26 final size:26
Alignment explanation
Indices: 126626--126677 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
126616 TTTAAAGACA
* *
126626 ACTTTAAAATAATTATAAATTTTTAT
1 ACTTTAAAACAATTATAAATTATTAT
* *
126652 ACTTTAAAACAATTTTATATTATTAT
1 ACTTTAAAACAATTATAAATTATTAT
126678 TTTCCTTATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (26 bp):
ACTTTAAAACAATTATAAATTATTAT
Found at i:129494 original size:2 final size:2
Alignment explanation
Indices: 129487--129536 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
129477 ACATTTGCTT
129487 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
129529 TC TC TC TC
1 TC TC TC TC
129537 ACCTACATGG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:130627 original size:186 final size:186
Alignment explanation
Indices: 130295--130764 Score: 573
Period size: 186 Copynumber: 2.5 Consensus size: 186
130285 CAATCCAAAT
* ** * * *
130295 TAAAAATGTATCGATCCA-TATTATATAACATG-TAAAAATATCGATAAAACTGGTCA-CAAAAA
1 TAAAAATGTATCGATCCACAACGATATAACA-GATAAAAATAT-AACAAAACTGGT-ATCAAAAT
* * ** * * *
130357 GACAATACCGGTAAA-TCCTTACTGAATATATTGAACGTGTCGA----TACTTTAATATAATGAT
63 GATAAAACCGGTAAAGAGC-TACCGGATATATTGAAAGTGTCGATCGGTACTTTAATATAATGAT
130417 CGACACTTTGTGAATTTAAAAGAGAAACAGTTTTAACGCTTATAAAGTGTCGATACTTTA
127 CGACACTTTGTGAATTTAAAAGAGAAACAGTTTTAACGCTTATAAAGTGTCGATACTTTA
* * * * *
130477 TAAAAATGTATCGATTCACAATGATATAACAGGTAAAAATATGACAAAA-TCGGTATCGAAATGA
1 TAAAAATGTATCGATCCACAACGATATAACAGATAAAAATATAACAAAACT-GGTATCAAAATGA
* * * *
130541 TAAAATCGGTAAAGAGCTATCGGATATATTTAAAGTGTCGATCGGTACTTTAATATAA-GTATTG
65 TAAAACCGGTAAAGAGCTACCGGATATATTGAAAGTGTCGATCGGTACTTTAATATAATG-ATCG
* *
130605 ACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCTTATAAAGTGTCGATACTTTA
129 ACACTTTGTGAATTTAAAAGAGAAACAGTTTTAACGCTTATAAAGTGTCGATACTTTA
* *
130663 TAAAAATGTATTGATCCACAACGATATAACAGATAAAAATATAATAAAACTGGTATCAAAATGAT
1 TAAAAATGTATCGATCCACAACGATATAACAGATAAAAATATAACAAAACTGGTATCAAAATGAT
*
130728 AAAACCGGTAAAGCGCTACCGGATATATTGAAAGTGT
66 AAAACCGGTAAAGAGCTACCGGATATATTGAAAGTGT
130765 TGATACTTTC
Statistics
Matches: 247, Mismatches: 30, Indels: 18
0.84 0.10 0.06
Matches are distributed among these distances:
181 2 0.01
182 62 0.25
183 20 0.08
185 1 0.00
186 161 0.65
187 1 0.00
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.30
Consensus pattern (186 bp):
TAAAAATGTATCGATCCACAACGATATAACAGATAAAAATATAACAAAACTGGTATCAAAATGAT
AAAACCGGTAAAGAGCTACCGGATATATTGAAAGTGTCGATCGGTACTTTAATATAATGATCGAC
ACTTTGTGAATTTAAAAGAGAAACAGTTTTAACGCTTATAAAGTGTCGATACTTTA
Found at i:132803 original size:18 final size:17
Alignment explanation
Indices: 132771--132806 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
132761 GAAGGTTATT
*
132771 GGCAAGGAGGTAGAGAA
1 GGCAAGGAGGCAGAGAA
132788 GGCAATGGAGGCAGAGAA
1 GGCAA-GGAGGCAGAGAA
132806 G
1 G
132807 AAGAAATAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.39, C:0.08, G:0.47, T:0.06
Consensus pattern (17 bp):
GGCAAGGAGGCAGAGAA
Found at i:133055 original size:18 final size:18
Alignment explanation
Indices: 133008--133056 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 18
132998 ATAGATGGAC
* *
133008 TGGTGAAAGAATTTGAGG
1 TGGTGAAAGAAGTTGAAG
*
133026 TGTTG-AAG--GTTGAAG
1 TGGTGAAAGAAGTTGAAG
133041 TGGTGAAAGAAGTTGA
1 TGGTGAAAGAAGTTGA
133057 GGTGTTAAAG
Statistics
Matches: 24, Mismatches: 4, Indels: 6
0.71 0.12 0.18
Matches are distributed among these distances:
15 9 0.38
16 3 0.12
17 3 0.12
18 9 0.38
ACGTcount: A:0.33, C:0.00, G:0.39, T:0.29
Consensus pattern (18 bp):
TGGTGAAAGAAGTTGAAG
Found at i:134392 original size:65 final size:65
Alignment explanation
Indices: 134316--134457 Score: 277
Period size: 65 Copynumber: 2.2 Consensus size: 65
134306 TGCATAATTT
134316 TTTGGGATCATAACTTCTTTTTTTAATACAGATTAAAATATTAGATTTTTATAATAAGAAACGCA
1 TTTGGGATCATAACTTCTTTTTTTAATACAGATTAAAATATTAGATTTTTATAATAAGAAACGCA
134381 TTTGGGATCATAACTTCTTTTTTTAATACAGATTAAAATATTAGATTTTTATAATAAGAAACGCA
1 TTTGGGATCATAACTTCTTTTTTTAATACAGATTAAAATATTAGATTTTTATAATAAGAAACGCA
134446 TTT-GGATCATAA
1 TTTGGGATCATAA
134458 ATAGAAAGCT
Statistics
Matches: 77, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
64 9 0.12
65 68 0.88
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.42
Consensus pattern (65 bp):
TTTGGGATCATAACTTCTTTTTTTAATACAGATTAAAATATTAGATTTTTATAATAAGAAACGCA
Found at i:135756 original size:201 final size:201
Alignment explanation
Indices: 135119--135859 Score: 1279
Period size: 201 Copynumber: 3.7 Consensus size: 201
135109 AGGTAAAATT
* *
135119 TATCGATCCCATAAACATATGCATCCATAAGTATAATGTAATAGGTAAATTTTCAATGTAACCAG
1 TATCGATCCCAGAAACATATGCATCCATAAGTATAATGTAATAGGTAAATTTTCAATGTAACCGG
* *
135184 TATAAATATACCGGTTTTATGAGAGAATATGTCTACAACATGTATCGACACTGTTTTAATTTTGT
66 TATAAATATACCGGTTTTATGAGAGAATAGGTCTACAACATGTATCGACACTTTTTTAATTTTGT
*
135249 GTCGATACTTTTGGTCCAGAATGAATGCCAAAAAGGGTGTAACCATAAAGTGTCGATACATTTAT
131 GTCGATACTTTTGGTCCAGAATGAATGCCAAAAAGGGTGCAACCATAAAGTGTCGATACATTTAT
135314 AAAAAG
196 AAAAAG
* *
135320 TATCTATCCTAGAAACATATGCATCCATAAGTATAATGTAATAGGTAAATTTTCAATGTAACCGG
1 TATCGATCCCAGAAACATATGCATCCATAAGTATAATGTAATAGGTAAATTTTCAATGTAACCGG
135385 TATAAATATACCGGTTTTATGAGAGAATAGGTCTACAACATGTATCGACACTTTTTTTAATTTTG
66 TATAAATATACCGGTTTTATGAGAGAATAGGTCTACAACATGTATCGACAC-TTTTTTAATTTTG
** *
135450 TGTCGATACTTTTGGTCCAGAATGAATTTCAAAAAGGGTGCAATCATAAAGTGTCGATACATTTA
130 TGTCGATACTTTTGGTCCAGAATGAATGCCAAAAAGGGTGCAACCATAAAGTGTCGATACATTTA
135515 TAAAAAG
195 TAAAAAG
*
135522 TATCGATCCCAGAAACATATGCATCCATAAGTATAATGTAATAGGTAAATTTTCAATATAACCGG
1 TATCGATCCCAGAAACATATGCATCCATAAGTATAATGTAATAGGTAAATTTTCAATGTAACCGG
135587 TATAAATATACCGGTTTTATGAGAGAATAGGTCTACAACATGTATCGACACTTTTTTAATTTTGT
66 TATAAATATACCGGTTTTATGAGAGAATAGGTCTACAACATGTATCGACACTTTTTTAATTTTGT
* *
135652 GTCAATACTTTTGGTCCAGAATAAATGCCAAAAAGGGTGCAACCATAAAGTGTCGATACATTTAT
131 GTCGATACTTTTGGTCCAGAATGAATGCCAAAAAGGGTGCAACCATAAAGTGTCGATACATTTAT
135717 AAAAAG
196 AAAAAG
*
135723 TATCGATCCCAGAAACATATGCATCCATAAGTATAATGTAATAGGTAAATTTTCAATGTAACCGA
1 TATCGATCCCAGAAACATATGCATCCATAAGTATAATGTAATAGGTAAATTTTCAATGTAACCGG
* * * * * *
135788 TATAAATATATCAGTTTTATGAGAGAATAAGTCTACAATATGTATTGACGCTTTTTTAA--TTGT
66 TATAAATATACCGGTTTTATGAGAGAATAGGTCTACAACATGTATCGACACTTTTTTAATTTTGT
135851 GTCGATACT
131 GTCGATACT
135860 AATTTAAATA
Statistics
Matches: 512, Mismatches: 27, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
199 12 0.02
201 307 0.60
202 193 0.38
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (201 bp):
TATCGATCCCAGAAACATATGCATCCATAAGTATAATGTAATAGGTAAATTTTCAATGTAACCGG
TATAAATATACCGGTTTTATGAGAGAATAGGTCTACAACATGTATCGACACTTTTTTAATTTTGT
GTCGATACTTTTGGTCCAGAATGAATGCCAAAAAGGGTGCAACCATAAAGTGTCGATACATTTAT
AAAAAG
Found at i:136666 original size:6 final size:6
Alignment explanation
Indices: 136655--136688 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
136645 CAAGTGGTCA
* *
136655 ATGAAG ATGAAG ATGACG ATGAAG ATGACG ATGA
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGA
136689 CAACGATGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.44, C:0.06, G:0.32, T:0.18
Consensus pattern (6 bp):
ATGAAG
Found at i:136713 original size:12 final size:12
Alignment explanation
Indices: 136655--136688 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
136645 CAAGTGGTCA
*
136655 ATGAAGATGAAG
1 ATGACGATGAAG
136667 ATGACGATGAAG
1 ATGACGATGAAG
136679 ATGACGATGA
1 ATGACGATGA
136689 CAACGATGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.44, C:0.06, G:0.32, T:0.18
Consensus pattern (12 bp):
ATGACGATGAAG
Found at i:138409 original size:251 final size:251
Alignment explanation
Indices: 138010--138463 Score: 689
Period size: 251 Copynumber: 1.8 Consensus size: 251
138000 TAACGACCCA
* * *
138010 AAAAACATCGAAACCCATAATTATAATGTAATGGGTAATTTTTCAATGTAACCGTTATAAATATA
1 AAAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTTTCAATATAACCGGTATAAATATA
* * * * * *
138075 TCGGTTTTATGAAAAATATGTCTACAACATTTATCGACACTTATTAGTATTGTGTCGATACGTTT
66 CCGGTTTTATGAAAAATAGGTCTACAACATGTATCAACACTTATTAATATTGTGTCGATAAGTTT
* *
138140 TGTCCAGAATGGATGCCAAAAAGGGTGAAC-CTACAAAGTGTCGATACATTTTCATAGAGTGTCG
131 TGTCCAGAATGGATGCCAAAAAGGGTGAACGC-ACAAAGTGTCGATACATTTTCAAAAAGTGTCG
138204 AT-CCAAAAGGGTTGCACGCATAAAGTTTCAATACATTTATTATAAGTGTTGATCCC
195 ATCCCAAAAGGGTTGCACGCATAAAGTTTCAATACATTTATTATAAGTGTTGATCCC
*
138260 AAAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTTAT-AATATAACCGGTATACATAT
1 AAAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTT-TCAATATAACCGGTATAAATAT
* * * *
138324 ACCGGTTTTATGAGAGAATAGGTCTATAATATGTATCAACACTTATTAATATTGTGTCGATAATT
65 ACCGGTTTTATGA-AAAATAGGTCTACAACATGTATCAACACTTATTAATATTGTGTCGATAAGT
* * *
138389 TTTTTCTAGAATGGATGCCAAAAAGGGTGAACGCATAAAGTGTCGATACATTTTCAAAAAGTGTC
129 TTTGTCCAGAATGGATGCCAAAAAGGGTGAACGCACAAAGTGTCGATACATTTTCAAAAAGTGTC
138454 GATCCCAAAA
194 GATCCCAAAA
138464 ACATCGAAAC
Statistics
Matches: 181, Mismatches: 19, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
250 70 0.39
251 104 0.57
252 7 0.04
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.32
Consensus pattern (251 bp):
AAAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTTTCAATATAACCGGTATAAATATA
CCGGTTTTATGAAAAATAGGTCTACAACATGTATCAACACTTATTAATATTGTGTCGATAAGTTT
TGTCCAGAATGGATGCCAAAAAGGGTGAACGCACAAAGTGTCGATACATTTTCAAAAAGTGTCGA
TCCCAAAAGGGTTGCACGCATAAAGTTTCAATACATTTATTATAAGTGTTGATCCC
Found at i:138526 original size:200 final size:199
Alignment explanation
Indices: 138208--138766 Score: 816
Period size: 200 Copynumber: 2.8 Consensus size: 199
138198 GTGTCGATCC
* * * * *
138208 AAAAGGGTTGCACGCATAAAGTTTCAATACATTTATTATAAGTGTTGATCCCAAAAACATCGAAA
1 AAAAGGG-TGAACGCATAAAGTGTCGATACATTTATTAAAAGTGTCGATCCCAAAAACATCGAAA
*
138273 CCCATAATTATAATGTAATAGGTAATTTTATAATATAACCGGTATACATATACCGGTTTTATGAG
65 CCCATAATTATAATGTAATAGGTAATTTTATAATATAACCGGTATAAATATACCGGTTTTATGAG
* * *
138338 AGAATAGGTCTATAATATGTATCAACACTTATT-AATATTGTGTCGATAATTTTTTTCTAGAATG
130 AGAATAGGTCTATAACATGTATCGACACTTATTAAAT-TTGCGTCGATAATTTTTTTC-AGAATG
*
138402 GATGCCA
193 GATGCAA
*
138409 AAAAGGGTGAACGCATAAAGTGTCGATACATTT-TCAAAAAGTGTCGATCCCAAAAACATCGAAA
1 AAAAGGGTGAACGCATAAAGTGTCGATACATTTAT-TAAAAGTGTCGATCCCAAAAACATCGAAA
* * * * * *
138473 CTCATAATTATAATGTAATAGGTAAATTTACAATGTAACTGGTATAAATATACCAGTTTTATGAG
65 CCCATAATTATAATGTAATAGGTAATTTTATAATATAACCGGTATAAATATACCGGTTTTATGAG
* * *
138538 AGAATAGGTCTATAACATGTAGCGACACTTGTTAAATTTGCGTCGATACTTTTTTTCAGAATGGA
130 AGAATAGGTCTATAACATGTATCGACACTTATTAAATTTGCGTCGATAATTTTTTTCAGAATGGA
138603 TGCAA
195 TGCAA
* * ** *
138608 AAAAGGATGAACGCACAAAGTGTCGATACATTTATTAAAAGTGTCGATATCAAAAACATTGAAAC
1 AAAAGGGTGAACGCATAAAGTGTCGATACATTTATTAAAAGTGTCGATCCCAAAAACATCGAAAC
* *
138673 CCATAATTATAATGTAATATGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGA
66 CCATAATTATAATGTAATAGGTAATTTTATAATATAACCGGTATAAATATACCGGTTTTATGAGA
*
138738 GAATAGGTCTACAACATGTATCGACACTT
131 GAATAGGTCTATAACATGTATCGACACTT
138767 TGTAAATAAA
Statistics
Matches: 319, Mismatches: 36, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
199 154 0.48
200 155 0.49
201 10 0.03
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (199 bp):
AAAAGGGTGAACGCATAAAGTGTCGATACATTTATTAAAAGTGTCGATCCCAAAAACATCGAAAC
CCATAATTATAATGTAATAGGTAATTTTATAATATAACCGGTATAAATATACCGGTTTTATGAGA
GAATAGGTCTATAACATGTATCGACACTTATTAAATTTGCGTCGATAATTTTTTTCAGAATGGAT
GCAA
Found at i:138680 original size:199 final size:200
Alignment explanation
Indices: 138219--138766 Score: 814
Period size: 199 Copynumber: 2.7 Consensus size: 200
138209 AAAGGGTTGC
* * * *
138219 ACGCATAAAGTTTCAATACATTTATTATAAGTGTTGATCCCAAAAACATCGAAACCCATAATTAT
1 ACGCATAAAGTGTCGATACATTTATTAAAAGTGTCGATCCCAAAAACATCGAAACCCATAATTAT
*
138284 AATGTAATAGGTAATTTTATAATATAACCGGTATACATATACCGGTTTTATGAGAGAATAGGTCT
66 AATGTAATAGGTAATTTTATAATATAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCT
* * * *
138349 ATAATATGTATCAACACTTATTAATATTGTGTCGATAATTTTTTTCTAGAATGGATGCCAAAAAG
131 ATAACATGTATCGACACTTATTAATATTGCGTCGATAATTTTTTTCTAGAATGGATGCAAAAAAG
*
138414 GGTGA
196 GATGA
* *
138419 ACGCATAAAGTGTCGATACATTT-TCAAAAAGTGTCGATCCCAAAAACATCGAAACTCATAATTA
1 ACGCATAAAGTGTCGATACATTTAT-TAAAAGTGTCGATCCCAAAAACATCGAAACCCATAATTA
* * * * *
138483 TAATGTAATAGGTAAATTTACAATGTAACTGGTATAAATATACCAGTTTTATGAGAGAATAGGTC
65 TAATGTAATAGGTAATTTTATAATATAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTC
* * *
138548 TATAACATGTAGCGACACTTGTTAA-ATTTGCGTCGATACTTTTTTTC-AGAATGGATGCAAAAA
130 TATAACATGTATCGACACTTATTAATA-TTGCGTCGATAATTTTTTTCTAGAATGGATGCAAAAA
138611 AGGATGA
194 AGGATGA
* ** *
138618 ACGCACAAAGTGTCGATACATTTATTAAAAGTGTCGATATCAAAAACATTGAAACCCATAATTAT
1 ACGCATAAAGTGTCGATACATTTATTAAAAGTGTCGATCCCAAAAACATCGAAACCCATAATTAT
* *
138683 AATGTAATATGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCT
66 AATGTAATAGGTAATTTTATAATATAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCT
*
138748 ACAACATGTATCGACACTT
131 ATAACATGTATCGACACTT
138767 TGTAAATAAA
Statistics
Matches: 310, Mismatches: 35, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
199 155 0.50
200 155 0.50
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (200 bp):
ACGCATAAAGTGTCGATACATTTATTAAAAGTGTCGATCCCAAAAACATCGAAACCCATAATTAT
AATGTAATAGGTAATTTTATAATATAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCT
ATAACATGTATCGACACTTATTAATATTGCGTCGATAATTTTTTTCTAGAATGGATGCAAAAAAG
GATGA
Done.