Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167860.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_13, 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: 22724830
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 82000 characters in sequence are not A, C, G, or T
File 69 of 109
Found at i:13700651 original size:22 final size:21
Alignment explanation
Indices: 13700621--13700663 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
13700611 TTACACTTTT
*
13700621 TTTTATTTTTTATTTTTTTCA
1 TTTTATTTTCTATTTTTTTCA
*
13700642 TTTTATTTTTCTCTTTTTTTCA
1 TTTTA-TTTTCTATTTTTTTCA
13700664 AGCATAGTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.12, C:0.09, G:0.00, T:0.79
Consensus pattern (21 bp):
TTTTATTTTCTATTTTTTTCA
Found at i:13711252 original size:5 final size:5
Alignment explanation
Indices: 13711239--13711294 Score: 69
Period size: 5 Copynumber: 10.8 Consensus size: 5
13711229 TTATTTAAAG
*
13711239 AAAAT -AAAT AAAAT AAAAT AAAAAT AAAGAT AAAAAT AGAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT -AAAAT AAA-AT -AAAAT AAAAT AAAAT
13711286 AAAAT AAAA
1 AAAAT AAAA
13711295 AATACTAAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
4 4 0.09
5 29 0.64
6 9 0.20
7 3 0.07
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:13711343 original size:10 final size:10
Alignment explanation
Indices: 13711241--13711345 Score: 51
Period size: 10 Copynumber: 10.6 Consensus size: 10
13711231 ATTTAAAGAA
13711241 AATAAATAA-
1 AATAAATAAT
*
13711250 AATAAAATAAA
1 AAT-AAATAAT
*
13711261 AATAAA-GAT
1 AATAAATAAT
*
13711270 AA-AAAT-AG
1 AATAAATAAT
13711278 AATAAAATAA-
1 AAT-AAATAAT
*
13711288 AATAAAAAAT
1 AATAAATAAT
*
13711298 ACTAAATAAT
1 AATAAATAAT
** *
13711308 TCTAATCTAAT
1 AATAA-ATAAT
13711319 CAATAAATAAT
1 -AATAAATAAT
13711330 AAT-AATAAT
1 AATAAATAAT
13711339 AAATAAA
1 -AATAAA
13711346 AAAATGAGAA
Statistics
Matches: 74, Mismatches: 11, Indels: 20
0.70 0.10 0.19
Matches are distributed among these distances:
8 6 0.08
9 17 0.23
10 34 0.46
11 14 0.19
12 3 0.04
ACGTcount: A:0.70, C:0.04, G:0.02, T:0.25
Consensus pattern (10 bp):
AATAAATAAT
Found at i:13712094 original size:6 final size:6
Alignment explanation
Indices: 13712083--13712160 Score: 54
Period size: 6 Copynumber: 12.5 Consensus size: 6
13712073 GAATAAGAAG
*
13712083 AAAAAT AAAAAT -AAAAT -AAAAT -AAAAT AAAATAAT AGATAAAT AATAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT -AAA-AAT A-A-AAAT AAAAAT
* *
13712132 AATAAT AGATAAAT AATAAT AAAAAT AAA
1 AAAAAT A-A-AAAT AAAAAT AAAAAT AAA
13712161 TAAGAAAAAA
Statistics
Matches: 61, Mismatches: 4, Indels: 14
0.77 0.05 0.18
Matches are distributed among these distances:
5 15 0.25
6 27 0.44
7 6 0.10
8 12 0.20
9 1 0.02
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (6 bp):
AAAAAT
Found at i:13712105 original size:10 final size:10
Alignment explanation
Indices: 13712084--13712178 Score: 65
Period size: 10 Copynumber: 9.2 Consensus size: 10
13712074 AATAAGAAGA
13712084 AAAATAAAAAT
1 AAAAT-AAAAT
13712095 AAAATAAAAT
1 AAAATAAAAT
13712105 AAAATAAAAT
1 AAAATAAAAT
13712115 AATAGAT-AAAT
1 AA-A-ATAAAAT
13712126 AATAATAATAAT
1 AA-AATAA-AAT
*
13712138 -AGAT-AAAT
1 AAAATAAAAT
13712146 AATAATAAAA-
1 AA-AATAAAAT
13712156 ATAAATAAGAA-
1 A-AAATAA-AAT
*
13712167 AAAATATAAT
1 AAAATAAAAT
13712177 AA
1 AA
13712179 TATATGTTAA
Statistics
Matches: 71, Mismatches: 3, Indels: 21
0.75 0.03 0.22
Matches are distributed among these distances:
8 3 0.04
9 4 0.06
10 36 0.51
11 23 0.32
12 5 0.07
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (10 bp):
AAAATAAAAT
Found at i:13712153 original size:52 final size:51
Alignment explanation
Indices: 13712091--13712200 Score: 129
Period size: 52 Copynumber: 2.1 Consensus size: 51
13712081 AGAAAAATAA
13712091 AAATAAAAT-AAAATAAAATAA-AATAATAGATA-AATAATA-ATAATAATAGAT
1 AAATAAAATAAAAAT-AAATAAGAA-AA-A-ATATAATAATATATAATAATAGAT
**
13712142 AAATAATAATAAAAATAAATAAGAAAAAATATAATAATATATGTTAATAGAT
1 AAATAA-AATAAAAATAAATAAGAAAAAATATAATAATATATAATAATAGAT
13712194 AAATAAA
1 AAATAAA
13712201 TATATATGTA
Statistics
Matches: 52, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
50 3 0.06
51 15 0.29
52 27 0.52
53 7 0.13
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (51 bp):
AAATAAAATAAAAATAAATAAGAAAAAATATAATAATATATAATAATAGAT
Found at i:13712183 original size:10 final size:10
Alignment explanation
Indices: 13712092--13712245 Score: 59
Period size: 10 Copynumber: 15.5 Consensus size: 10
13712082 GAAAAATAAA
* *
13712092 AATAAAATAA
1 AATAATATAT
* *
13712102 AATAAAATAA
1 AATAATATAT
*
13712112 AATAATAGAT
1 AATAATATAT
13712122 AAATAATA-AT
1 -AATAATATAT
*
13712132 AATAATAGAT
1 AATAATATAT
13712142 AAATAATA-AT
1 -AATAATATAT
* *
13712152 AAAAATAAAT
1 AATAATATAT
* *
13712162 AAGAAAAAATAT
1 -A-ATAATATAT
13712174 AATAATATAT
1 AATAATATAT
** *
13712184 GTTAATAGAT
1 AATAATATAT
13712194 AAATAA-ATAT
1 -AATAATATAT
*
13712204 -AT-ATGTAT
1 AATAATATAT
* *
13712212 ATTAATAAAT
1 AATAATATAT
*
13712222 AATAATA-GT
1 AATAATATAT
*
13712231 AATAATAAAT
1 AATAATATAT
13712241 AATAA
1 AATAA
13712246 AATTTAAAGG
Statistics
Matches: 112, Mismatches: 21, Indels: 22
0.72 0.14 0.14
Matches are distributed among these distances:
7 1 0.01
8 5 0.04
9 22 0.20
10 58 0.52
11 19 0.17
12 7 0.06
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.30
Consensus pattern (10 bp):
AATAATATAT
Found at i:13712190 original size:28 final size:27
Alignment explanation
Indices: 13712144--13712237 Score: 66
Period size: 28 Copynumber: 3.3 Consensus size: 27
13712134 TAATAGATAA
* * *
13712144 ATAATAATAAAAATAAATAAGAAAAAAT
1 ATAATAATATATATTAATAA-AAAAAAT
*
13712172 ATAATAATATATGTTAATAGATAAATAAAT
1 ATAATAATATATATTAATA-A-AAA-AAAT
* *
13712202 AT-AT-ATGTATATTAATAAATAATAAT
1 ATAATAATATATATTAATAAA-AAAAAT
13712228 AGTAATAATA
1 A-TAATAATA
13712238 AATAATAAAA
Statistics
Matches: 51, Mismatches: 9, Indels: 11
0.72 0.13 0.15
Matches are distributed among these distances:
26 5 0.10
27 4 0.08
28 28 0.55
29 8 0.16
30 6 0.12
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (27 bp):
ATAATAATATATATTAATAAAAAAAAT
Found at i:13712233 original size:16 final size:16
Alignment explanation
Indices: 13712086--13712245 Score: 90
Period size: 16 Copynumber: 10.1 Consensus size: 16
13712076 TAAGAAGAAA
13712086 AATAA-AAATAA-AAT
1 AATAATAAATAATAAT
13712100 AA-AATAAAATAA-AAT
1 AATAAT-AAATAATAAT
13712115 AATAGATAAATAATAAT
1 AATA-ATAAATAATAAT
*
13712132 AATAATAGAT-A-AAT
1 AATAATAAATAATAAT
13712146 AATAATAAA-AAT-A-
1 AATAATAAATAATAAT
* *
13712159 AATAAGAAAAAAT-AT
1 AATAATAAATAATAAT
* **
13712174 AATAATATATGTTAAT
1 AATAATAAATAATAAT
13712190 AGATAAATAAATATATATGTAT
1 A-AT-AATAAATA-ATA---AT
*
13712212 ATTAATAAATAATAAT
1 AATAATAAATAATAAT
*
13712228 AGTAAT-AATAAATAAT
1 AATAATAAAT-AATAAT
13712244 AA
1 AA
13712246 AATTTAAAGG
Statistics
Matches: 115, Mismatches: 14, Indels: 32
0.71 0.09 0.20
Matches are distributed among these distances:
13 10 0.09
14 19 0.17
15 23 0.20
16 29 0.25
17 11 0.10
18 6 0.05
19 5 0.04
20 8 0.07
21 1 0.01
22 3 0.03
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.29
Consensus pattern (16 bp):
AATAATAAATAATAAT
Found at i:13716709 original size:3 final size:3
Alignment explanation
Indices: 13716701--13716752 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
13716691 TTATTAATCG
13716701 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
13716749 TAT T
1 TAT T
13716753 GACTACCTTT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:13718495 original size:13 final size:14
Alignment explanation
Indices: 13718464--13718496 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
13718454 ATCTATTGTT
13718464 ATTTTTTTTAATTA
1 ATTTTTTTTAATTA
*
13718478 GTTTTTTTTAA-TA
1 ATTTTTTTTAATTA
13718491 ATTTTT
1 ATTTTT
13718497 CACAAAATTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
13 7 0.41
14 10 0.59
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (14 bp):
ATTTTTTTTAATTA
Found at i:13720304 original size:333 final size:332
Alignment explanation
Indices: 13719620--13720314 Score: 824
Period size: 333 Copynumber: 2.1 Consensus size: 332
13719610 ATGTAAACAG
* * * * ** * * * *
13719620 ATCTTTAATTCACAATATCTTATGATTTTTGTTACTTT-ATCATTTTGACAGAATTCATTTTTAT
1 ATCTATAATTCACAAGATCTAATGATTTTGGGCA-TTTCATCATTTTGAGA-AAATGAATTTTAT
* * * *
13719684 CCTTGATCTTTTTACGCTCTATTTTTGCATTTAGAGTTTCATGAAGCAGAAGATACATTTTAAGC
64 CCTTGATCTTTTTACGCTCTATTTTTG-ATTTAGAATTTCATAAAGCAGAAGATACACTTTAAGA
* * * * *
13719749 TTTTCGTTAACATTCTTGAATCCATATTGAACTAGACCATCATCTAATTCATTCAGTAGAACCTG
128 TTTTCATTAACATTCTTGAATCCATATTCAACTAAAACATCATCTAATTCATTCAGTAGAACCTA
* * ** * * * *
13719814 TGGAATATTTGTTTTGAATATTAAATATCAAACATAAATATTAACCAAAAAATAATCTAGAATTC
193 TGAAAAATTCATTGTCAACATTAAATATCAAACATAAATATTAACCAAAAAATAATCTACAATTC
* ** * * *
13719879 TGAATTGGATTTGATGATATCTAATGTCTAATATACTACAACACCTTTAAAGATGATAAAGAAGC
258 TGAATTAGAACTGATGATATCCAATGTCTAATATACTACAACACCCTTAAAGATAATAAAGAAGC
13719944 AAAAATCAAA
323 AAAAATCAAA
* * *
13719954 ATTTATAATTCACAAGATCTGATGATTTTGGGCATTTCATCATTTTGAGAAAATGAATTTTATTC
1 ATCTATAATTCACAAGATCTAATGATTTTGGGCATTTCATCATTTTGAGAAAATGAATTTTATCC
* * *
13720019 TTTATCTTTTTAGGCTCTATTTCTATG-TTTAGAA-TTCTATAAAGCATAAGATACACTTTAAGA
66 TTGATCTTTTTACGCTCTATTT-T-TGATTTAGAATTTC-ATAAAGCAGAAGATACACTTTAAGA
* * *
13720082 TTTTCATTAACATTCTTGAATGCATATTCAAGTAAAACATCATCTACA-TCACTT-AGTAGAACT
128 TTTTCATTAACATTCTTGAATCCATATTCAACTAAAACATCATCTA-ATTCA-TTCAGTAGAACC
13720145 TATGAAAAATTCATTGTCAACATTAAATATCAAACATAAATATTAACCAAAAAATAATCTACAAT
191 TATGAAAAATTCATTGTCAACATTAAATATCAAACATAAATATTAACCAAAAAATAATCTACAAT
* * * *
13720210 TCTGAATTAGAACTGATGATATCCAATGTTTAATATATTATAATACCCTTAAAGATAATAAAGAA
256 TCTGAATTAGAACTGATGATATCCAATGTCTAATATACTACAACACCCTTAAAGATAATAAAGAA
**
13720275 GCAAGCATCAAA
321 GCAAAAATCAAA
* * *
13720287 ATCTCTAATTTACAAGATTTAATGATTT
1 ATCTATAATTCACAAGATCTAATGATTT
13720315 CTACTGTTTC
Statistics
Matches: 303, Mismatches: 52, Indels: 13
0.82 0.14 0.04
Matches are distributed among these distances:
332 3 0.01
333 256 0.84
334 42 0.14
335 2 0.01
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (332 bp):
ATCTATAATTCACAAGATCTAATGATTTTGGGCATTTCATCATTTTGAGAAAATGAATTTTATCC
TTGATCTTTTTACGCTCTATTTTTGATTTAGAATTTCATAAAGCAGAAGATACACTTTAAGATTT
TCATTAACATTCTTGAATCCATATTCAACTAAAACATCATCTAATTCATTCAGTAGAACCTATGA
AAAATTCATTGTCAACATTAAATATCAAACATAAATATTAACCAAAAAATAATCTACAATTCTGA
ATTAGAACTGATGATATCCAATGTCTAATATACTACAACACCCTTAAAGATAATAAAGAAGCAAA
AATCAAA
Found at i:13721610 original size:52 final size:52
Alignment explanation
Indices: 13721544--13721642 Score: 162
Period size: 52 Copynumber: 1.9 Consensus size: 52
13721534 ATTGTATTCC
*
13721544 CAAAAATAAATTTATAAATATCACTTAAATAGTCTATTTTTTATATGAAAAA
1 CAAAAATAAATTTATAAATATCACTTAAATAGTCCATTTTTTATATGAAAAA
* * *
13721596 CAAAAATAATTTTATAAATATCACTTAGATAGTCCGTTTTTTATATG
1 CAAAAATAAATTTATAAATATCACTTAAATAGTCCATTTTTTATATG
13721643 GACAATGAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 43 1.00
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.40
Consensus pattern (52 bp):
CAAAAATAAATTTATAAATATCACTTAAATAGTCCATTTTTTATATGAAAAA
Found at i:13723324 original size:14 final size:14
Alignment explanation
Indices: 13723307--13723340 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
13723297 TAGTTTTTAA
13723307 TTTTTAATTTAATT
1 TTTTTAATTTAATT
*
13723321 TTTTTAATTTTATT
1 TTTTTAATTTAATT
*
13723335 ATTTTA
1 TTTTTA
13723341 TTATTTGCGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTTTAATTTAATT
Found at i:13724126 original size:12 final size:12
Alignment explanation
Indices: 13724109--13724158 Score: 64
Period size: 12 Copynumber: 4.2 Consensus size: 12
13724099 TTTTTTGGTA
*
13724109 TTTTTATTTGTT
1 TTTTTATTTATT
*
13724121 TTTTTAATTATT
1 TTTTTATTTATT
*
13724133 TTTTTATTTATG
1 TTTTTATTTATT
*
13724145 TGTTTATTTATT
1 TTTTTATTTATT
13724157 TT
1 TT
13724159 AAAAGTATTT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.16, C:0.00, G:0.06, T:0.78
Consensus pattern (12 bp):
TTTTTATTTATT
Found at i:13724882 original size:15 final size:15
Alignment explanation
Indices: 13724862--13724890 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
13724852 ATATTCAACA
13724862 AATAAAAATGATAAT
1 AATAAAAATGATAAT
13724877 AATAAAAATGATAA
1 AATAAAAATGATAA
13724891 ATAAATATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.69, C:0.00, G:0.07, T:0.24
Consensus pattern (15 bp):
AATAAAAATGATAAT
Found at i:13726129 original size:15 final size:14
Alignment explanation
Indices: 13726105--13726176 Score: 58
Period size: 14 Copynumber: 4.8 Consensus size: 14
13726095 ATCAATTTTA
13726105 ATATAAAATAAAAT
1 ATATAAAATAAAAT
13726119 ATATCAAAATAAAAT
1 ATAT-AAAATAAAAT
*
13726134 -TTTAAAAATTATAAAT
1 ATAT-AAAA-TA-AAAT
13726150 ATCAGTAAAAGTAAAAT
1 AT-A-TAAAA-TAAAAT
13726167 ATA-AAAATAA
1 ATATAAAATAA
13726177 TTTACTAATA
Statistics
Matches: 48, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
13 3 0.06
14 14 0.29
15 12 0.25
16 5 0.10
17 7 0.15
18 6 0.12
19 1 0.02
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (14 bp):
ATATAAAATAAAAT
Found at i:13726317 original size:20 final size:20
Alignment explanation
Indices: 13726292--13726329 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
13726282 TATTTTAAGG
13726292 TCATGAGATATCATAATATC
1 TCATGAGATATCATAATATC
*
13726312 TCATGATATATCATAATA
1 TCATGAGATATCATAATA
13726330 AATTGTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.13, G:0.08, T:0.37
Consensus pattern (20 bp):
TCATGAGATATCATAATATC
Found at i:13727860 original size:217 final size:212
Alignment explanation
Indices: 13727217--13727983 Score: 590
Period size: 212 Copynumber: 3.5 Consensus size: 212
13727207 CCAATTTAAA
** *
13727217 GATTATTCTCATATTTTTACATTAACAT-TTACTTTTAGGTTTAGAATTATTTTTTATTTATAAT
1 GATTATTCTCAT-TTTTTATGTTAAC-TCTTA-TTTT-TGTTTAGAATTATTTTTTATTTATAAT
* ** * * * * * *
13727281 AATAATTTTTTATATTGTCAATTTAATTATTTACGCTACAATAA-AATCTGTTAC-TCTTATTCT
62 AATAATTTTTT-TATTATCAA-TTAATTATTTACATTATAATAATATTTTTTTACGT-TTGTT-G
* * * * *
13727344 TGTA-TTTTATTATATTT-AGAATTATCAGAACTTTTTCTTAAA--TATTACAGTATTTCAAATA
123 T-TACTTTTATTATATTTAAG-ATTATCA-AACTTTTTCTTAAAGGTGTAACAATATTTCTAA-C
* ** * *
13727405 TATTTTATATCAAATTATATTAATTTTAT
184 CATTTTACGTAAAATAATATTAATTTTAT
* *
13727434 GATTAATT-TTATTTTTTTACT-TTAACAC-T-TTTTTGTTTAGAATTA-TTTTTATTTATAATA
1 GATT-ATTCTCA-TTTTTTA-TGTTAACTCTTATTTTTGTTTAGAATTATTTTTTATTTATAATA
* * * * *
13727494 CTATTTTTTTTACATTA-CAA--ATTTA-TTA-AGTT-TCAATAATATCTTTTTATGTTTTTTGT
63 ATAATTTTTTT--ATTATCAATTAATTATTTACA-TTAT-AATAATATTTTTTTACG---TTTGT
* * *
13727553 TGTTACTTTTCATTACATTTAAAATTATTACAAAATTTTT-TT-AAGGTGTAACAATACTTT-TA
121 TGTTACTTTT-ATTATATTTAAGATTA-T-CAAACTTTTTCTTAAAGGTGTAACAATA-TTTCTA
*
13727615 ACCATTTTACGTAAAATAATACTAATTTTAT
182 ACCATTTTACGTAAAATAATATTAATTTTAT
* *
13727646 GATTATTCTCACTGTTTTATGTTAACTCTTAGTTTTTGTTTAAAATTATTTTTTATTTATAATAA
1 GATTATTCTCA-TTTTTTATGTTAACTCTTA-TTTTTGTTTAGAATTATTTTTTATTTATAATAA
13727711 TAATTTTTTTATTATCAACTTAATTATTTACATTATAATAATATTTTTTTACGTTTGTTGTTACC
64 TAATTTTTTTATTATCAA-TTAATTATTTACATTATAATAATATTTTTTTACGTTTGTTGTTA-C
*
13727776 TTTTATTATATTTAAGATTATCATAACTTTTTCTTAAAGGTGTCACAATATTTCTAACCATTTTA
127 TTTTATTATATTTAAGATTATCA-AACTTTTTCTTAAAGGTGTAACAATATTTCTAACCATTTTA
*
13727841 CGCT-AAATGATATTAATTTTAT
191 CG-TAAAATAATATTAATTTTAT
* * *
13727863 GATTACTCTCATATTTTTTTGTATTAACAT-TTATTTTTTGGTTTAGAATTATTATTTATTTATA
1 GATTATTCTCAT-TTTTTATG--TTAAC-TCTTA-TTTTT-GTTTAGAATTATTTTTTATTTATA
* ** ** *
13727927 ATAATAATTTTTTTATGTTACCAAAAATATTATTTATGTTACAATAATATTTTTTTA
60 ATAATAATTTTTTTA--TTATCAATTA-ATTATTTACATTATAATAATATTTTTTTA
13727984 TACTTGTTCA
Statistics
Matches: 442, Mismatches: 60, Indels: 91
0.75 0.10 0.15
Matches are distributed among these distances:
208 9 0.02
209 9 0.02
210 2 0.00
211 12 0.03
212 85 0.19
213 34 0.08
214 15 0.03
215 26 0.06
216 55 0.12
217 80 0.18
218 9 0.02
219 33 0.07
220 40 0.09
221 1 0.00
222 32 0.07
ACGTcount: A:0.32, C:0.08, G:0.06, T:0.54
Consensus pattern (212 bp):
GATTATTCTCATTTTTTATGTTAACTCTTATTTTTGTTTAGAATTATTTTTTATTTATAATAATA
ATTTTTTTATTATCAATTAATTATTTACATTATAATAATATTTTTTTACGTTTGTTGTTACTTTT
ATTATATTTAAGATTATCAAACTTTTTCTTAAAGGTGTAACAATATTTCTAACCATTTTACGTAA
AATAATATTAATTTTAT
Found at i:13727921 original size:216 final size:215
Alignment explanation
Indices: 13727548--13727942 Score: 516
Period size: 217 Copynumber: 1.8 Consensus size: 215
13727538 TTTTATGTTT
13727548 TTTGTTGTTACTTTTCATTACATTTAAAATTATTACAAAATTTTTTTAAGGTGTAACAATACTTT
1 TTTGTTGTTACTTTTCATTACATTTAAAATTATTACAAAATTTTTTTAAGGTGTAACAATACTTT
*
13727613 TAACCATTTTACGTAAAATAATACTAATTTTATGATTATTCTCACTGTTTTATGTTAACTCTTAG
66 TAACCATTTTACGTAAAATAATACTAATTTTATGATTACTCTCACTGTTTTATGTTAACTCTTAG
*
13727678 TTTTTGTTTAAAATTATTTTTTATTTATAATAATAATTTTTTTATTATCAACTTAATTATTTACA
131 TTTTTGTTTAAAA-TATTATTTATTTATAATAATAATTTTTTTATTATCAACTTAATTATTTACA
13727743 TTATAATAATATTTTTTTACG
195 TTATAATAATATTTTTTTACG
* * * *
13727764 TTTGTTGTTACCTTTT-ATTATATTTAAGATTA-T-CATAACTTTTTCTTAAAGGTGTCACAATA
1 TTTGTTGTTA-CTTTTCATTACATTTAAAATTATTACA-AAATTTTT-TT-AAGGTGTAACAATA
* * * *
13727826 -TTTCTAACCATTTTACGCT-AAATGATATTAATTTTATGATTACTCTCA-TATTTTTTTGTATT
62 CTTT-TAACCATTTTACG-TAAAATAATACTAATTTTATGATTACTCTCACT-GTTTTATG--TT
* *
13727888 AACAT-TTATTTTTTGGTTTAGAATTATTATTTATTTATAATAATAATTTTTTTAT
122 AAC-TCTTAGTTTTT-GTTTA-AAATATTATTTATTTATAATAATAATTTTTTTAT
13727943 GTTACCAAAA
Statistics
Matches: 155, Mismatches: 12, Indels: 20
0.83 0.06 0.11
Matches are distributed among these distances:
214 2 0.01
215 8 0.05
216 30 0.19
217 63 0.41
218 1 0.01
219 13 0.08
220 36 0.23
221 2 0.01
ACGTcount: A:0.31, C:0.09, G:0.06, T:0.53
Consensus pattern (215 bp):
TTTGTTGTTACTTTTCATTACATTTAAAATTATTACAAAATTTTTTTAAGGTGTAACAATACTTT
TAACCATTTTACGTAAAATAATACTAATTTTATGATTACTCTCACTGTTTTATGTTAACTCTTAG
TTTTTGTTTAAAATATTATTTATTTATAATAATAATTTTTTTATTATCAACTTAATTATTTACAT
TATAATAATATTTTTTTACG
Found at i:13727941 original size:21 final size:22
Alignment explanation
Indices: 13727917--13727984 Score: 72
Period size: 21 Copynumber: 3.2 Consensus size: 22
13727907 AGAATTATTA
*
13727917 TTTAT-TTATAATAATAATTTT
1 TTTATGTTACAATAATAATTTT
* *
13727938 TTTATGTTACCA-AA-AATATTA
1 TTTATGTTACAATAATAAT-TTT
13727959 TTTATGTTACAATAAT-ATTTT
1 TTTATGTTACAATAATAATTTT
13727980 TTTAT
1 TTTAT
13727985 ACTTGTTCAT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
20 3 0.08
21 27 0.71
22 8 0.21
ACGTcount: A:0.37, C:0.04, G:0.03, T:0.56
Consensus pattern (22 bp):
TTTATGTTACAATAATAATTTT
Found at i:13728026 original size:222 final size:211
Alignment explanation
Indices: 13727462--13728034 Score: 561
Period size: 222 Copynumber: 2.6 Consensus size: 211
13727452 ACTTTAACAC
* *
13727462 TTTTTTGTTTAGAATTATTTTTATTTATAATACTATTTTTTTTACATTAC-AAAT-TTA-TTAAG
1 TTTTTTGTTTAGAATTATTTTTATTTATAATAATAATTTTTTT--ATTACAAAATATTATTTAAG
* * * * * * *
13727524 TTTCAATAATATCTTTTTATGTTTTTTGTTGTTACTTTTCATTACATTTAAAATTATTACAAAAT
64 TTACAATAATAT-TTTTT-T-ATATTTGTTGTTACTTTTTATTATATTT-AAATTA-TA-TAACT
*
13727589 TTTTTT-AAGGTGTAACAATACTTTTAACCATTTTACGTAAAATAATACTAATTTTATGATTATT
123 TTTTTTAAAGGTGTAACAATACTTTTAACCATTTTACGTAAAATAATACTAATTTTATGATTACT
13727653 CTCACTGTTTTATGTTAACTCTTA
188 CTCACTGTTTTATGTTAACTCTTA
* * **
13727677 GTTTTTGTTTAAAATTATTTTTTATTTATAATAATAATTTTTTTATTATCAACTTAATTATTTAC
1 TTTTTTGTTTAGAATTA-TTTTTATTTATAATAATAATTTTTTTATTA-CAAAAT-ATTATTTA-
* ** *
13727742 A-TTATAATAATATTTTTTTACGTTTGTTGTTACCTTTTATTATATTTAAGATTATCATAACTTT
62 AGTTACAATAATATTTTTTTATATTTGTTGTTACTTTTTATTATATTTAA-ATTAT-ATAACTTT
* * *
13727806 TTCTTAAAGGTGTCACAATA-TTTCTAACCATTTTACGCT-AAATGATATTAATTTTATGATTAC
125 TT-TTAAAGGTGTAACAATACTTT-TAACCATTTTACG-TAAAATAATACTAATTTTATGATTAC
* *
13727869 TCTCA-TATTTTTTTGTATTAACAT-TTA
187 TCTCACT-GTTTTATG--TTAAC-TCTTA
13727896 TTTTTTGGTTTAGAATTATTATTTATTTATAATAATAATTTTTTTATGTTACCAAAAATATTATT
1 TTTTTT-GTTTAGAATTATT-TTTATTTATAATAATAATTTTTTTA--TTA-C-AAAATATTATT
* * ** *
13727961 TATGTTACAATAATATTTTTTTATACTTGTTCATACTTTTTATTATATTCATAATTACTATAACT
60 TAAGTTACAATAATATTTTTTTATATTTGTTGTTACTTTTTATTATATTTA-AATTA-TATAACT
13728026 TTTTGTTAA
123 TTTT-TTAA
13728035 GACGTTATGA
Statistics
Matches: 296, Mismatches: 37, Indels: 43
0.79 0.10 0.11
Matches are distributed among these distances:
214 4 0.01
215 26 0.09
216 59 0.20
217 59 0.20
218 9 0.03
219 28 0.09
220 37 0.12
222 69 0.23
223 5 0.02
ACGTcount: A:0.31, C:0.09, G:0.06, T:0.54
Consensus pattern (211 bp):
TTTTTTGTTTAGAATTATTTTTATTTATAATAATAATTTTTTTATTACAAAATATTATTTAAGTT
ACAATAATATTTTTTTATATTTGTTGTTACTTTTTATTATATTTAAATTATATAACTTTTTTTAA
AGGTGTAACAATACTTTTAACCATTTTACGTAAAATAATACTAATTTTATGATTACTCTCACTGT
TTTATGTTAACTCTTA
Found at i:13728427 original size:17 final size:18
Alignment explanation
Indices: 13728400--13728437 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
13728390 TGAATTATTT
*
13728400 TTTTATTTATGATACTAA
1 TTTTATTTATGATACCAA
*
13728418 TTTT-TTTATGTTACCAA
1 TTTTATTTATGATACCAA
13728435 TTT
1 TTT
13728438 ATTATGTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.26, C:0.08, G:0.05, T:0.61
Consensus pattern (18 bp):
TTTTATTTATGATACCAA
Found at i:13728941 original size:220 final size:216
Alignment explanation
Indices: 13728136--13728960 Score: 706
Period size: 220 Copynumber: 3.8 Consensus size: 216
13728126 TTACACCAAT
* * * *
13728136 TTATCCTCACTTTTTTATGTTAATACGTATTTTTTTGTTTAAAATTA-TTTTTTATTTATAATAA
1 TTATTCTCATTTTTTTATGTT-ACACTTA-TTTTTTGTTTAAAATTAGTTTTTTATTTATAATAA
* * * ** * * * **
13728200 TAATTTTTTTATGTCGTC-AACTTA-TATTTATATTACAATAA-AATTTTTTATGCTTGTTCTTA
64 TAATTCTTTTATATTG-CAAAAATATTATTTATGTTATAATAATATTTTTTTACACTTGTTCTTA
* * * * * * *
13728262 TCTTTTATTATATTTAGAATTATCACAAGTTTTTTATAAGGTATTACAACACTTTTAATATATTT
128 T-TTTTATTATATTTAGAATTATTACAATTTTTTTTTAAGGTGTTACGACACTTCTAA-CTATTT
*
13728327 TACGTCAAATAATACTAATTTTATGA
191 TACGTCAAATAATATTAATTTTATGA
* * * * * * *
13728353 TTATTCTCATATTTTTATGTTAACACTTATATTTT-ATT-GAATTATTTTTTTATTTATGATACT
1 TTATTCTCATTTTTTTATGTT-ACACTTATTTTTTGTTTAAAATTAGTTTTTTATTTATAATAAT
* * ** * * *
13728416 AATTTTTTTATGTT--ACCAAT-TTA-TTATGTT-TCAATAATATTTTTTTACATTTATTGTTAT
65 AATTCTTTTATATTGCAAAAATATTATTTATGTTAT-AATAATATTTTTTTACACTTGTTCTTAT
* * * * *
13728476 TTTTCATTATATTTAGAATTATTACAATTTTTTTCCTAAGGTGTAATGAAATTTCTAACTATTTT
129 TTTT-ATTATATTTAGAATTATTACAATTTTTTT-TTAAGGTGTTACGACACTTCTAACTATTTT
* * * *
13728541 ACATTAAATAATATCAATTTTATTA
192 ACGTCAAATAATATTAATTTTATGA
* * * * * *
13728566 TTATTCTTATTTTTTTACGTTA-ACTTTAACTTTTTATTTAAAATTAGTTTTTTATTTGTAACAA
1 TTATTCTCATTTTTTTATGTTACAC-TT-ATTTTTTGTTTAAAATTAGTTTTTTATTTATAATAA
* * ** * * * * *
13728630 TAGTTCTTTTATATTGCCAATTTAATTATTTATGTTCTAATAATATCTTTTTGCGCTTGTTGTTA
64 TAATTCTTTTATATTGCAAAAAT-ATTATTTATGTTATAATAATATTTTTTTACACTTGTTCTTA
* * * * *
13728695 CCTTTCATTATGTTTAAAAGTATTACAATTTTTTTTTAAAGGTGTTACGACACTTCTAACTATTT
128 -TTTTTATTATATTTAGAATTATTACAATTTTTTTTT-AAGGTGTTACGACACTTCTAACTATTT
13728760 TACGTCAAATAATATTAATTTTATGA
191 TACGTCAAATAATATTAATTTTATGA
** *
13728786 TTATTCTCATTTTTTTTATACTAGCACTTATTTTTTGTTTAAAATTA-TTATTTATTTATAATAA
1 TTATTCTCA-TTTTTTTATGTTA-CACTTATTTTTTGTTTAAAATTAGTTTTTTATTTATAATAA
* *
13728850 TAGTTCTTTTATATTGCAAAAAATATTATTTATGTTATAATAATATTTTTTTACACCTGTTCTTG
64 TAATTCTTTTATATTGC-AAAAATATTATTTATGTTATAATAATATTTTTTTACACTTGTTCTT-
* * * * *
13728915 CTTTTTATTACATTTA-AATTTATTACAACTATTTATTAAGGTGTTA
127 ATTTTTATTATATTTAGAA-TTATTACAATTTTTTTTTAAGGTGTTA
13728961 GTCGTTCTAA
Statistics
Matches: 478, Mismatches: 105, Indels: 48
0.76 0.17 0.08
Matches are distributed among these distances:
211 2 0.00
212 18 0.04
213 95 0.20
214 22 0.05
215 61 0.13
216 5 0.01
217 25 0.05
219 15 0.03
220 198 0.41
221 33 0.07
222 2 0.00
223 2 0.00
ACGTcount: A:0.31, C:0.09, G:0.06, T:0.54
Consensus pattern (216 bp):
TTATTCTCATTTTTTTATGTTACACTTATTTTTTGTTTAAAATTAGTTTTTTATTTATAATAATA
ATTCTTTTATATTGCAAAAATATTATTTATGTTATAATAATATTTTTTTACACTTGTTCTTATTT
TTATTATATTTAGAATTATTACAATTTTTTTTTAAGGTGTTACGACACTTCTAACTATTTTACGT
CAAATAATATTAATTTTATGA
Found at i:13730081 original size:25 final size:28
Alignment explanation
Indices: 13730027--13730095 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 28
13730017 TTAATATAAT
*
13730027 TAATTTAAATTAAATTAACAAGAAATTAA
1 TAATTTATATT-AATTAACAAGAAATTAA
* *
13730056 TTATTTTTA-TAATTAA-AA-AAATTAA
1 TAATTTATATTAATTAACAAGAAATTAA
13730081 TAATTTATATTAATT
1 TAATTTATATTAATT
13730096 TTTTATATCT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
25 14 0.41
26 7 0.21
27 6 0.18
28 1 0.03
29 6 0.18
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (28 bp):
TAATTTATATTAATTAACAAGAAATTAA
Found at i:13735092 original size:22 final size:22
Alignment explanation
Indices: 13735067--13735110 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
13735057 TTCTTACAGC
13735067 AATATCATTTATATATAAAAAT
1 AATATCATTTATATATAAAAAT
13735089 AATATCATTTATATATAAAAAT
1 AATATCATTTATATATAAAAAT
13735111 GTGAATTTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (22 bp):
AATATCATTTATATATAAAAAT
Found at i:13736639 original size:11 final size:11
Alignment explanation
Indices: 13736625--13736672 Score: 60
Period size: 11 Copynumber: 4.4 Consensus size: 11
13736615 ATAATTTACA
13736625 ACTAAATTATT
1 ACTAAATTATT
* *
13736636 ACTAATTTATA
1 ACTAAATTATT
13736647 ACTAAATTATT
1 ACTAAATTATT
* *
13736658 ACTAATTTAGT
1 ACTAAATTATT
13736669 ACTA
1 ACTA
13736673 TGTTATTAGT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
11 31 1.00
ACGTcount: A:0.44, C:0.10, G:0.02, T:0.44
Consensus pattern (11 bp):
ACTAAATTATT
Found at i:13736641 original size:22 final size:22
Alignment explanation
Indices: 13736616--13736722 Score: 99
Period size: 22 Copynumber: 4.9 Consensus size: 22
13736606 ATCTTACCAA
13736616 TAATTTACAACTAAATTATTAC
1 TAATTTACAACTAAATTATTAC
*
13736638 TAATTTATAACTAAATTATTAC
1 TAATTTACAACTAAATTATTAC
** ** *
13736660 TAATTTAGTACTATGTTATTAG
1 TAATTTACAACTAAATTATTAC
* ** *
13736682 TGATTTA-ATACTATGTTATTAG
1 TAATTTACA-ACTAAATTATTAC
*
13736704 TGATTTACAACTAAATTAT
1 TAATTTACAACTAAATTAT
13736723 CAATGATTTA
Statistics
Matches: 73, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
22 72 0.99
23 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.07, T:0.46
Consensus pattern (22 bp):
TAATTTACAACTAAATTATTAC
Found at i:13736729 original size:22 final size:22
Alignment explanation
Indices: 13736614--13736733 Score: 89
Period size: 22 Copynumber: 5.5 Consensus size: 22
13736604 TTATCTTACC
13736614 AATAATTTACAACTAAATTATT
1 AATAATTTACAACTAAATTATT
* *
13736636 ACTAATTTATAACTAAATTATT
1 AATAATTTACAACTAAATTATT
* ** **
13736658 ACTAATTTAGTACTATGTTATT
1 AATAATTTACAACTAAATTATT
* * **
13736680 AGTGATTTA-ATACTATGTTATT
1 AATAATTTACA-ACTAAATTATT
* * *
13736702 AGTGATTTACAACTAAATTATC
1 AATAATTTACAACTAAATTATT
*
13736724 AATGATTTAC
1 AATAATTTAC
13736734 TATTATATTA
Statistics
Matches: 83, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
22 82 0.99
23 1 0.01
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.44
Consensus pattern (22 bp):
AATAATTTACAACTAAATTATT
Found at i:13736743 original size:22 final size:22
Alignment explanation
Indices: 13736704--13736778 Score: 55
Period size: 22 Copynumber: 3.5 Consensus size: 22
13736694 ATGTTATTAG
* * *
13736704 TGATTTACAACTAAATTATCAA
1 TGATTTACTATTATATTATCAA
*
13736726 TGATTTACTATTATATTAT-TA
1 TGATTTACTATTATATTATCAA
* * * *
13736747 T-ATATCACTATTATGTTGTCAT
1 TGAT-TTACTATTATATTATCAA
13736769 TGATTTACTA
1 TGATTTACTA
13736779 CTTAGTTTTT
Statistics
Matches: 40, Mismatches: 10, Indels: 6
0.71 0.18 0.11
Matches are distributed among these distances:
20 2 0.05
21 14 0.35
22 22 0.55
23 2 0.05
ACGTcount: A:0.35, C:0.11, G:0.07, T:0.48
Consensus pattern (22 bp):
TGATTTACTATTATATTATCAA
Found at i:13737255 original size:18 final size:18
Alignment explanation
Indices: 13737232--13737279 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
13737222 TGTATATATT
*
13737232 TATTTATTTATTTTTTAA
1 TATTTATGTATTTTTTAA
* * *
13737250 TATTTATGTGTATTTTAT
1 TATTTATGTATTTTTTAA
13737268 TATTTATGTATT
1 TATTTATGTATT
13737280 ATTACTAATA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (18 bp):
TATTTATGTATTTTTTAA
Found at i:13737342 original size:18 final size:18
Alignment explanation
Indices: 13737307--13737340 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
13737297 ATATATATTT
*
13737307 TTTATCTTTTTTATTTTA
1 TTTATCTTTTGTATTTTA
13737325 TTTAT-TTTTGTATTTT
1 TTTATCTTTTGTATTTT
13737341 TACTTATCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.79
Consensus pattern (18 bp):
TTTATCTTTTGTATTTTA
Found at i:13737370 original size:53 final size:57
Alignment explanation
Indices: 13737260--13737381 Score: 137
Period size: 59 Copynumber: 2.2 Consensus size: 57
13737250 TATTTATGTG
* *
13737260 TATTTTA-TTATTTATGTATTATTACTAATATGTATATATATATATTTTTTATCTTTTT
1 TATTTTATTTATTTATGTATTATTACT-ATATCTATATATATATA-TTTTGATCTTTTT
* * *
13737318 TATTTTATTTATTTTTGTATTTTTACT-TATCTA-AT-TATATA-TTTGATTTTTTT
1 TATTTTATTTATTTATGTATTATTACTATATCTATATATATATATTTTGATCTTTTT
13737371 TATTATTATTT
1 TATT-TTATTT
13737382 TTATCCTATA
Statistics
Matches: 57, Mismatches: 5, Indels: 8
0.81 0.07 0.11
Matches are distributed among these distances:
53 14 0.25
54 6 0.11
55 6 0.11
56 2 0.04
57 5 0.09
58 7 0.12
59 17 0.30
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.67
Consensus pattern (57 bp):
TATTTTATTTATTTATGTATTATTACTATATCTATATATATATATTTTGATCTTTTT
Found at i:13737867 original size:20 final size:20
Alignment explanation
Indices: 13737842--13737889 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
13737832 TGCCCAGTTT
*
13737842 CCGGCGAAGAATCTCAGAAA
1 CCGGCGAAGAATCCCAGAAA
*
13737862 CCGGCGAATAATCCCAGAAA
1 CCGGCGAAGAATCCCAGAAA
*
13737882 CCGACGAA
1 CCGGCGAA
13737890 CTTCCGGCCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.40, C:0.29, G:0.23, T:0.08
Consensus pattern (20 bp):
CCGGCGAAGAATCCCAGAAA
Found at i:13738325 original size:6 final size:6
Alignment explanation
Indices: 13738291--13738422 Score: 59
Period size: 6 Copynumber: 22.8 Consensus size: 6
13738281 TTGAAAATTT
* **
13738291 TTTTTA TTTGTT- TTTTTA --TTTA TTATTA TTTTTA TTTATTA -GATTA
1 TTTTTA TTT-TTA TTTTTA TTTTTA TTTTTA TTTTTA TTT-TTA TTTTTA
* * * * *
13738337 TGTTTA --TTTA ATATTC TTTTTA TCTTTA -TTTTA TTTTTA TTTTT-
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
* *
13738381 GTTTTA CTTTTCTT TTTTTA TTTTT- TTTATTA -TTTTA TTTTT
1 TTTTTA -TTTT-TA TTTTTA TTTTTA TTT-TTA TTTTTA TTTTT
13738423 CTTTAAATAA
Statistics
Matches: 95, Mismatches: 16, Indels: 30
0.67 0.11 0.21
Matches are distributed among these distances:
4 8 0.08
5 19 0.20
6 55 0.58
7 12 0.13
8 1 0.01
ACGTcount: A:0.17, C:0.03, G:0.03, T:0.77
Consensus pattern (6 bp):
TTTTTA
Found at i:13738336 original size:18 final size:17
Alignment explanation
Indices: 13738287--13738378 Score: 72
Period size: 16 Copynumber: 5.6 Consensus size: 17
13738277 TTTTTTGAAA
13738287 ATTTTT-TTTATTTG-TT
1 ATTTTTATTTA-TTGATT
13738303 -TTTTTATTTATT-ATT
1 ATTTTTATTTATTGATT
13738318 ATTTTTATTTATTAGATT
1 ATTTTTATTTATT-GATT
* *
13738336 ATGTTTATTTAAT-ATT
1 ATTTTTATTTATTGATT
*
13738352 CTTTTTATCTTTATT--TT
1 ATTTTTA--TTTATTGATT
13738369 ATTTTTATTT
1 ATTTTTATTT
13738379 TTGTTTTACT
Statistics
Matches: 63, Mismatches: 6, Indels: 15
0.75 0.07 0.18
Matches are distributed among these distances:
15 12 0.19
16 24 0.38
17 8 0.13
18 19 0.30
ACGTcount: A:0.21, C:0.02, G:0.03, T:0.74
Consensus pattern (17 bp):
ATTTTTATTTATTGATT
Found at i:13738370 original size:11 final size:11
Alignment explanation
Indices: 13738354--13738427 Score: 50
Period size: 11 Copynumber: 7.0 Consensus size: 11
13738344 TTAATATTCT
13738354 TTTTATCTTTA
1 TTTTATCTTTA
*
13738365 TTTTATTTTTA
1 TTTTATCTTTA
*
13738376 TTTT-TGTTTTA
1 TTTTAT-CTTTA
*
13738387 CTTT-TCTTT-
1 TTTTATCTTTA
* *
13738396 TTTTATTTTTT
1 TTTTATCTTTA
13738407 TTATTAT-TTTA
1 TT-TTATCTTTA
13738418 TTTT-TCTTTA
1 TTTTATCTTTA
13738428 AATAAAAAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
9 4 0.08
10 14 0.27
11 30 0.58
12 4 0.08
ACGTcount: A:0.14, C:0.05, G:0.01, T:0.80
Consensus pattern (11 bp):
TTTTATCTTTA
Found at i:13738375 original size:17 final size:16
Alignment explanation
Indices: 13738288--13738427 Score: 67
Period size: 16 Copynumber: 8.6 Consensus size: 16
13738278 TTTTTGAAAA
13738288 TTTTT-TTTATTTGT-T
1 TTTTTCTTTATTT-TAT
*
13738303 TTTTTATTTATTATTA-
1 TTTTTCTTTATT-TTAT
* **
13738319 TTTTTATTTATTAGAT
1 TTTTTCTTTATTTTAT
* * *
13738335 TATGTTTATTTAATATTCT
1 T-T-TTTCTTT-ATTTTAT
13738354 TTTTATCTTTATTTTAT
1 TTTT-TCTTTATTTTAT
* *
13738371 TTTTATTTTTGTTTTA-
1 TTTT-TCTTTATTTTAT
*
13738387 CTTTTCTTT-TTTTAT
1 TTTTTCTTTATTTTAT
*
13738402 TTTTTTTATTATTTTA-
1 TTTTTCT-TTATTTTAT
13738418 TTTTTCTTTA
1 TTTTTCTTTA
13738428 AATAAAAAAA
Statistics
Matches: 98, Mismatches: 16, Indels: 22
0.72 0.12 0.16
Matches are distributed among these distances:
14 5 0.05
15 18 0.18
16 31 0.32
17 28 0.29
18 12 0.12
19 4 0.04
ACGTcount: A:0.17, C:0.04, G:0.03, T:0.76
Consensus pattern (16 bp):
TTTTTCTTTATTTTAT
Found at i:13738403 original size:25 final size:25
Alignment explanation
Indices: 13738362--13738422 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 25
13738352 CTTTTTATCT
13738362 TTATTTTA--TTTTTATTTTTGTT-
1 TTATTTTATTTTTTTATTTTTGTTA
* *
13738384 TTACTTTTCTTTTTTTATTTTTTTTA
1 TTA-TTTTATTTTTTTATTTTTGTTA
13738410 TTATTTTATTTTT
1 TTATTTTATTTTT
13738423 CTTTAAATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
22 3 0.09
23 4 0.12
25 22 0.69
26 3 0.09
ACGTcount: A:0.13, C:0.03, G:0.02, T:0.82
Consensus pattern (25 bp):
TTATTTTATTTTTTTATTTTTGTTA
Found at i:13738506 original size:59 final size:58
Alignment explanation
Indices: 13738442--13738727 Score: 375
Period size: 59 Copynumber: 4.9 Consensus size: 58
13738432 AAAAAAATCA
13738442 AAAATTTCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT-AGAAAT
1 AAAATTTC-AAAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTGA-AAAT
*
13738502 -AAATTTC-CAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT
1 AAAATTTCAAAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT
*
13738559 CAAAATTTCAAAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTCTT-AGAAAT
1 -AAAATTTCAAAAAAAATATTTTTGGG-AAAAGTTGAAAGTATCAATTTTCCTTGA-AAAT
* ***
13738619 AAATTTTCAAAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATT
1 AAAATTTCAAAAAAAATATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTTGAAAA-T
* * *
13738679 GAAATTTC-CAAAAAATATTTTTGAGAAAAGTTGAAAGTATCAATTTTCC
1 AAAATTTCAAAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCC
13738728 CTACAAAAAA
Statistics
Matches: 201, Mismatches: 16, Indels: 20
0.85 0.07 0.08
Matches are distributed among these distances:
57 46 0.23
58 26 0.13
59 77 0.38
60 52 0.26
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.35
Consensus pattern (58 bp):
AAAATTTCAAAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT
Found at i:13738581 original size:117 final size:116
Alignment explanation
Indices: 13738435--13738727 Score: 446
Period size: 117 Copynumber: 2.5 Consensus size: 116
13738425 TTAAATAAAA
13738435 AAAATCAAAAATTTCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAA
1 AAAATC-AAAATTTC-AAAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTAGAA
*
13738500 ATAAATTTCCAAAAAATA-TTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTG
63 ATAAATTTCCAAAAAA-AGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
*
13738554 AAAATCAAAATTTCAAAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTCTTAGAAAT
1 AAAATCAAAATTTCAAAAAAAATATTTTTGGG-AAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
*
13738619 AAATTTTCAAAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
65 AAATTTCCAAAAAAA--GTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
** * *
13738673 AAAATTGAAATTTC-CAAAAAATATTTTTGAGAAAAGTTGAAAGTATCAATTTTCC
1 AAAATCAAAATTTCAAAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCC
13738728 CTACAAAAAA
Statistics
Matches: 162, Mismatches: 8, Indels: 10
0.90 0.04 0.06
Matches are distributed among these distances:
116 4 0.02
117 82 0.51
118 23 0.14
119 53 0.33
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.34
Consensus pattern (116 bp):
AAAATCAAAATTTCAAAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATA
AATTTCCAAAAAAAGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
Found at i:13738727 original size:58 final size:56
Alignment explanation
Indices: 13738453--13738727 Score: 367
Period size: 57 Copynumber: 4.7 Consensus size: 56
13738443 AAATTTCAAA
13738453 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
1 AAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
*
13738510 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAATCAAAATTTCAA
1 AAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT--AAATTTC-C
* *
13738570 AAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTCTTAGAAATAAATTTTC
1 AAAAAATATTTTTGGG-AAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
13738627 AAAAAA-AGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAATTGAAATTTCC
1 AAAAAATA---TTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAA-T-AAATTTCC
*
13738688 AAAAAATATTTTTGAGAAAAGTTGAAAGTATCAATTTTCC
1 AAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCC
13738728 CTACAAAAAA
Statistics
Matches: 196, Mismatches: 8, Indels: 27
0.85 0.03 0.12
Matches are distributed among these distances:
56 2 0.01
57 52 0.27
58 32 0.16
59 50 0.26
60 45 0.23
61 14 0.07
62 1 0.01
ACGTcount: A:0.44, C:0.08, G:0.14, T:0.35
Consensus pattern (56 bp):
AAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
Found at i:13741291 original size:15 final size:16
Alignment explanation
Indices: 13741273--13741305 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
13741263 TATATTTAAT
13741273 ATTTA-TATAATAAAA
1 ATTTAGTATAATAAAA
13741288 ATTTATGTATAATAAAA
1 ATTTA-GTATAATAAAA
13741305 A
1 A
13741306 ATTTCAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
17 11 0.69
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (16 bp):
ATTTAGTATAATAAAA
Found at i:13742550 original size:16 final size:16
Alignment explanation
Indices: 13742529--13742560 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
13742519 AATAAACTTC
13742529 AAAATAGAATGAAAAT
1 AAAATAGAATGAAAAT
*
13742545 AAAATATAATGAAAAT
1 AAAATAGAATGAAAAT
13742561 TTAAGTACAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.69, C:0.00, G:0.09, T:0.22
Consensus pattern (16 bp):
AAAATAGAATGAAAAT
Found at i:13749318 original size:22 final size:21
Alignment explanation
Indices: 13749293--13749333 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
13749283 TTCTTTTAAT
13749293 TGTTCTTTCACATTTACTTTGA
1 TGTTCTTTCA-ATTTACTTTGA
*
13749315 TGTTCTTTGAATTTACTTT
1 TGTTCTTTCAATTTACTTT
13749334 CAATTACTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.17, C:0.15, G:0.10, T:0.59
Consensus pattern (21 bp):
TGTTCTTTCAATTTACTTTGA
Found at i:13751394 original size:226 final size:225
Alignment explanation
Indices: 13750995--13751442 Score: 860
Period size: 226 Copynumber: 2.0 Consensus size: 225
13750985 AATTCTTAAC
13750995 CAAAATTTTCCCTTCAAACAAGATAGTTAAATTGAGGAATGAGATAGCAAGCTTTCTACAATATG
1 CAAAATTTTCCCTTCAAACAAGATAGTTAAATTGAGGAATGAGATAGCAAGCTTTCTACAATATG
*
13751060 ATTTTAAGACCTTATATGAGGTTGGGAAAGATTCAAGGGGTTGTTGAAGAGGTGTCTACACCATG
66 ATTTTAAGACCTTATATGAGGTTGGGAAAGATTCAAGGAGTTGTTGAAGAGGTGTCTACACCATG
*
13751125 GACTATCTAAATGTCTAGAAATTAACTTTTTTTATAATGGACTTAGTGGACTATCTACGACTATA
131 GACTATCTAAATGTCTAGAAATTAACTTTTTCTATAATGGACTTAGTGGACTATCTACGACTATA
13751190 GTAGATGTTGTTGGTGGTGGGGCTTTAGTA
196 GTAGATGTTGTTGGTGGTGGGGCTTTAGTA
13751220 CAAAATTTTCCCTTCAAACAAGATAGTTAAATTGAGGAATGAGATAGCAAGCTTTCTACAATATG
1 CAAAATTTTCCCTTCAAACAAGATAGTTAAATTGAGGAATGAGATAGCAAGCTTTCTACAATATG
13751285 ATTTTAAGACCTTATATGAGGCTTGGGAAAGATTCAAGGAGTTGTTGAAGAGGTGTCTACACCAT
66 ATTTTAAGACCTTATATGAGG-TTGGGAAAGATTCAAGGAGTTGTTGAAGAGGTGTCTACACCAT
*
13751350 GGACTATCTAAATGTCTAGAAATTAACTTTTTCTATAATGGACTTAGTGGACTATCTATGACTAT
130 GGACTATCTAAATGTCTAGAAATTAACTTTTTCTATAATGGACTTAGTGGACTATCTACGACTAT
13751415 AGTAGATGTTGTTGGTGGTGGGGCTTTA
195 AGTAGATGTTGTTGGTGGTGGGGCTTTA
13751443 ATGAGCAAAA
Statistics
Matches: 219, Mismatches: 3, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
225 86 0.39
226 133 0.61
ACGTcount: A:0.32, C:0.12, G:0.22, T:0.34
Consensus pattern (225 bp):
CAAAATTTTCCCTTCAAACAAGATAGTTAAATTGAGGAATGAGATAGCAAGCTTTCTACAATATG
ATTTTAAGACCTTATATGAGGTTGGGAAAGATTCAAGGAGTTGTTGAAGAGGTGTCTACACCATG
GACTATCTAAATGTCTAGAAATTAACTTTTTCTATAATGGACTTAGTGGACTATCTACGACTATA
GTAGATGTTGTTGGTGGTGGGGCTTTAGTA
Found at i:13754994 original size:341 final size:341
Alignment explanation
Indices: 13754364--13755395 Score: 2027
Period size: 341 Copynumber: 3.0 Consensus size: 341
13754354 ATAAGTCTTC
13754364 AAAT-TTT-ATAAAAAAAATAGAAATAAATGTTTGATATTTTTATTGTATAAAATTAAATTATGA
1 AAATGTTTGATAAAAAAAATAGAAATAAATGTTTGATATTTTTATTGTATAAAATTAAATTATGA
13754427 CTTTTTTATTTTATTGTAATTATACCATTTAAGTTTAAAAAATGGATGAATATTATCCACTTTAA
66 CTTTTTTATTTTATTGTAATTATACCATTTAAGTTTAAAAAATGGATGAATATTATCCACTTTAA
13754492 AAAATTACTAAAATAATCATATTTCAAAATTTTGCCATTCAACTAATCCAAATAAACTCAAGTTG
131 AAAATTACTAAAATAATCATATTTCAAAATTTTGCCATTCAACTAATCCAAATAAACTCAAGTTG
13754557 TAAGTCATAATGTCAAGTTTTAGTTTTAATTTCATGTAATAAATAATAACAAAATATAGATAACA
196 TAAGTCATAATGTCAAGTTTTAGTTTTAATTTCATGTAATAAATAATAACAAAATATAGATAACA
13754622 AAATAAAATAATTTATTATATTAAATTTCACAAATCGTTGGTGATTAAATCATTACAAAAGCTAC
261 AAATAAAATAATTTATTATATTAAATTTCACAAATCGTTGGTGATTAAATCATTACAAAAGCTAC
13754687 GTTGAATGTAACATCT
326 GTTGAATGTAACATCT
13754703 AAATGTTTGATAAAAAAAATAGAAATAAATGTTTGATATTTTTATTGTATAAAATTAAATTATGA
1 AAATGTTTGATAAAAAAAATAGAAATAAATGTTTGATATTTTTATTGTATAAAATTAAATTATGA
13754768 CTTTTTTATTTTATTGTAATTATACCATTTAAGTTTAAAAAATGGATGAATATTATCCACTTTAA
66 CTTTTTTATTTTATTGTAATTATACCATTTAAGTTTAAAAAATGGATGAATATTATCCACTTTAA
13754833 AAAATTACTAAAATAATCATATTTCAAAATTTTGCCATTCAACTAATCCAAATAAACTCAAGTTG
131 AAAATTACTAAAATAATCATATTTCAAAATTTTGCCATTCAACTAATCCAAATAAACTCAAGTTG
13754898 TAAGTCATAATGTCAAGTTTTAGTTTTAATTTCATGTAATAAATAATAACAAAATATAGATAACA
196 TAAGTCATAATGTCAAGTTTTAGTTTTAATTTCATGTAATAAATAATAACAAAATATAGATAACA
13754963 AAATAAAATAATTTATTATATTAAATTTCACAAATCGTTGGTGATTAAATCATTACAAAAGCTAC
261 AAATAAAATAATTTATTATATTAAATTTCACAAATCGTTGGTGATTAAATCATTACAAAAGCTAC
13755028 GTTGAATGTAACATCT
326 GTTGAATGTAACATCT
13755044 AAATGTTTGAT-AAAAAAATAGAAATAAATGTTTGATATTTTTATTGTATAAAATTAAATTATGA
1 AAATGTTTGATAAAAAAAATAGAAATAAATGTTTGATATTTTTATTGTATAAAATTAAATTATGA
13755108 CTTTTTTATTTTATTGTAATTATACCATTTAAGTTTAAAAAATGGATGAATATTATCCACTTTAA
66 CTTTTTTATTTTATTGTAATTATACCATTTAAGTTTAAAAAATGGATGAATATTATCCACTTTAA
13755173 AAAATTACTAAAATAATCATATTTCAAAATTTTGCCATTCAACTAATCCAAATAAACTCAAGTTG
131 AAAATTACTAAAATAATCATATTTCAAAATTTTGCCATTCAACTAATCCAAATAAACTCAAGTTG
13755238 TAAGTCATAATGTCAAGTTTTAGTTTTAATTTCATGTAATAAATAATAACAAAATATAGATAACA
196 TAAGTCATAATGTCAAGTTTTAGTTTTAATTTCATGTAATAAATAATAACAAAATATAGATAACA
13755303 AAATAAAATAATTTATTATATTAAATTTCACAAATCGTTGGTGATTAAATCATTACAAAAGCTAC
261 AAATAAAATAATTTATTATATTAAATTTCACAAATCGTTGGTGATTAAATCATTACAAAAGCTAC
*
13755368 ATTGAATGTAACATCT
326 GTTGAATGTAACATCT
13755384 AAATG-TTGATAA
1 AAATGTTTGATAA
13755396 TTTCACAAAC
Statistics
Matches: 689, Mismatches: 1, Indels: 5
0.99 0.00 0.01
Matches are distributed among these distances:
339 9 0.01
340 337 0.49
341 343 0.50
ACGTcount: A:0.44, C:0.09, G:0.08, T:0.38
Consensus pattern (341 bp):
AAATGTTTGATAAAAAAAATAGAAATAAATGTTTGATATTTTTATTGTATAAAATTAAATTATGA
CTTTTTTATTTTATTGTAATTATACCATTTAAGTTTAAAAAATGGATGAATATTATCCACTTTAA
AAAATTACTAAAATAATCATATTTCAAAATTTTGCCATTCAACTAATCCAAATAAACTCAAGTTG
TAAGTCATAATGTCAAGTTTTAGTTTTAATTTCATGTAATAAATAATAACAAAATATAGATAACA
AAATAAAATAATTTATTATATTAAATTTCACAAATCGTTGGTGATTAAATCATTACAAAAGCTAC
GTTGAATGTAACATCT
Found at i:13759245 original size:21 final size:21
Alignment explanation
Indices: 13759221--13759263 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
13759211 CGACTATATG
*
13759221 TCCTGTATATTCATGAGTGTT
1 TCCTATATATTCATGAGTGTT
*
13759242 TCCTATATATTTATGAGTGTT
1 TCCTATATATTCATGAGTGTT
13759263 T
1 T
13759264 TCATAGTCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.21, C:0.12, G:0.16, T:0.51
Consensus pattern (21 bp):
TCCTATATATTCATGAGTGTT
Found at i:13759792 original size:22 final size:23
Alignment explanation
Indices: 13759761--13759815 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 23
13759751 CCCCCTTTTT
*
13759761 TTTTTTTTTTGCTAGCA-ACT-TC
1 TTTTTCTTTTG-TAGCATACTCTC
* *
13759783 TTTTTCTTTTGTGGCATCCTCTC
1 TTTTTCTTTTGTAGCATACTCTC
13759806 TTTTTCTTTT
1 TTTTTCTTTT
13759816 TCTTTTCTCC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 4 0.14
22 12 0.43
23 12 0.43
ACGTcount: A:0.07, C:0.20, G:0.09, T:0.64
Consensus pattern (23 bp):
TTTTTCTTTTGTAGCATACTCTC
Found at i:13760524 original size:135 final size:140
Alignment explanation
Indices: 13760300--13760657 Score: 329
Period size: 145 Copynumber: 2.5 Consensus size: 140
13760290 TTGAGACATG
* * * * * ** * *
13760300 AAAAGTTTCATAAAAATTCGAGCTCAAAAATGTCAAATTATGAAAATACTCTTATAGGAGGATTT
1 AAAAGTTTCATGAAAATTTGAGCTCAGAAAGGTTAAATTACAAAAATAATCTTATA-GAGTATTT
* * * *
13760365 GGGTAA-TT-GCATTCTTCTTGGGGTACTACTATAATTTTAAATG-C-AT-GAAAA-ATTATGAA
65 TGATAATTTCACATTCTTCTTGGGGTACTACTATAATTTCAAATGTCAATAGAAAATATTATGAA
**
13760424 ATTTAGATCTA
130 ATCAAGATCTA
*
13760435 AAAAATTTCATGAAAATTTGAGCTCAGAAAGGTTAAATTACAAAAATAATCTTATAGCAGTATTT
1 AAAAGTTTCATGAAAATTTGAGCTCAGAAAGGTTAAATTACAAAAATAATCTTATAG-AGTATTT
* * * * *
13760500 TGATAATTTCACATT-TT-TTTGGGTATTGCTATGATTTCAAATGTATCAAAAATCATAAAATAT
65 TGATAATTTCACATTCTTCTTGGGGTACTACTATAATTTCAAATG--TC---AAT-AGAAAATAT
13760563 TATGAAATCAAGATCTA
124 TATGAAATCAAGATCTA
* * ** *
13760580 AAAAGTTTCATGAAAATCTGAGCTCATG-AAGGTTAAATTACAAAATTTTTATTATAGAGGTATT
1 AAAAGTTTCATGAAAATTTGAGCTCA-GAAAGGTTAAATTACAAAAATAATCTTATAGA-GTATT
13760644 TTGATAATTTCACA
64 TTGATAATTTCACA
13760658 CTTTCTTAGT
Statistics
Matches: 181, Mismatches: 27, Indels: 20
0.79 0.12 0.09
Matches are distributed among these distances:
134 1 0.01
135 78 0.43
136 4 0.02
137 4 0.02
138 1 0.01
142 2 0.01
144 5 0.03
145 85 0.47
146 1 0.01
ACGTcount: A:0.41, C:0.10, G:0.14, T:0.36
Consensus pattern (140 bp):
AAAAGTTTCATGAAAATTTGAGCTCAGAAAGGTTAAATTACAAAAATAATCTTATAGAGTATTTT
GATAATTTCACATTCTTCTTGGGGTACTACTATAATTTCAAATGTCAATAGAAAATATTATGAAA
TCAAGATCTA
Found at i:13769560 original size:90 final size:90
Alignment explanation
Indices: 13769441--13769635 Score: 356
Period size: 90 Copynumber: 2.2 Consensus size: 90
13769431 ATTACATGAA
13769441 AACTTGTGCTTTAGTGCCATTCTTGTGCTATTTGATGTTTAAATTGATATATGGTCTCTAGCTTA
1 AACTTGTGCTTTAGTGCCATTCTTGTGCTATTTGATGTTTAAATTGATATATGGTCTCTAGCTTA
13769506 AGTATATATCTCCCTTGCAATTGGC
66 AGTATATATCTCCCTTGCAATTGGC
*
13769531 AACTTGTGCTTTATTGCCATTCTTGTGCTATTTGATGTTTAAATTGATATATGGTCTCTAGCTTA
1 AACTTGTGCTTTAGTGCCATTCTTGTGCTATTTGATGTTTAAATTGATATATGGTCTCTAGCTTA
*
13769596 AGTATATATCTCCCTTGCAATTGGT
66 AGTATATATCTCCCTTGCAATTGGC
*
13769621 AACTTATGC-TTAGTG
1 AACTTGTGCTTTAGTG
13769636 AATAAATTTT
Statistics
Matches: 101, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
89 5 0.05
90 96 0.95
ACGTcount: A:0.23, C:0.16, G:0.17, T:0.44
Consensus pattern (90 bp):
AACTTGTGCTTTAGTGCCATTCTTGTGCTATTTGATGTTTAAATTGATATATGGTCTCTAGCTTA
AGTATATATCTCCCTTGCAATTGGC
Found at i:13771645 original size:38 final size:38
Alignment explanation
Indices: 13771587--13771663 Score: 102
Period size: 38 Copynumber: 2.0 Consensus size: 38
13771577 TTAAGTTATG
* * *
13771587 TTGGATTATGATACATAAATT-AAGGGAGAGTTTTTCCA
1 TTGGATTAGGATACACAAATTGAAGGGA-AGTTTTGCCA
*
13771625 TTGGATTAGGATGCACAAATTGAAGGGAAGTTTTGCCA
1 TTGGATTAGGATACACAAATTGAAGGGAAGTTTTGCCA
13771663 T
1 T
13771664 GCATTGTTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
38 28 0.82
39 6 0.18
ACGTcount: A:0.32, C:0.09, G:0.25, T:0.34
Consensus pattern (38 bp):
TTGGATTAGGATACACAAATTGAAGGGAAGTTTTGCCA
Found at i:13775520 original size:16 final size:16
Alignment explanation
Indices: 13775499--13775559 Score: 68
Period size: 16 Copynumber: 3.6 Consensus size: 16
13775489 AACAAATCCA
13775499 AATAATATAAATATAC
1 AATAATATAAATATAC
*
13775515 AATAATATAAAATAAATCC
1 AATAATAT-AAAT--ATAC
*
13775534 AAATCATATAAATATAC
1 -AATAATATAAATATAC
13775551 AATAATATA
1 AATAATATA
13775560 TTATGATGAT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
16 16 0.43
17 7 0.19
19 7 0.19
20 7 0.19
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.30
Consensus pattern (16 bp):
AATAATATAAATATAC
Found at i:13775526 original size:36 final size:36
Alignment explanation
Indices: 13775486--13775559 Score: 130
Period size: 36 Copynumber: 2.1 Consensus size: 36
13775476 ATTGATAAAG
13775486 TAAAACAAATCCAAATAATATAAATATACAATAATA
1 TAAAACAAATCCAAATAATATAAATATACAATAATA
* *
13775522 TAAAATAAATCCAAATCATATAAATATACAATAATA
1 TAAAACAAATCCAAATAATATAAATATACAATAATA
13775558 TA
1 TA
13775560 TTATGATGAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.62, C:0.11, G:0.00, T:0.27
Consensus pattern (36 bp):
TAAAACAAATCCAAATAATATAAATATACAATAATA
Found at i:13775598 original size:22 final size:23
Alignment explanation
Indices: 13775551--13775603 Score: 56
Period size: 22 Copynumber: 2.3 Consensus size: 23
13775541 ATAAATATAC
* *
13775551 AATAATATATTATGATGATTATA
1 AATAATATATTATGATGATAAGA
13775574 AATAATAT-TTAT-ATTGATAAGA
1 AATAATATATTATGA-TGATAAGA
*
13775596 AATTATAT
1 AATAATAT
13775604 GAGCATCTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 1 0.04
22 17 0.65
23 8 0.31
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.43
Consensus pattern (23 bp):
AATAATATATTATGATGATAAGA
Found at i:13776049 original size:17 final size:18
Alignment explanation
Indices: 13775999--13776049 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 18
13775989 TTGCATTTAA
* *
13775999 AATTTAAACATGATTTAT
1 AATTTAAATATGATATAT
13776017 AATTTAAAT-T-AT-TAT
1 AATTTAAATATGATATAT
13776032 ATATTTAAATATGATATA
1 A-ATTTAAATATGATATA
13776050 AAAATACGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
15 4 0.14
16 10 0.36
17 2 0.07
18 10 0.36
19 2 0.07
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (18 bp):
AATTTAAATATGATATAT
Found at i:13784299 original size:20 final size:19
Alignment explanation
Indices: 13784251--13784300 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
13784241 GGTCAAATCT
*
13784251 AATCAAACTTAGTCAATAA
1 AATCAAAATTAGTCAATAA
*
13784270 AATTAAAATTAGTCAA-ACA
1 AATCAAAATTAGTCAATA-A
13784289 AAGTCAAAATTA
1 AA-TCAAAATTA
13784301 TACAAAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
18 1 0.04
19 17 0.65
20 8 0.31
ACGTcount: A:0.56, C:0.12, G:0.06, T:0.26
Consensus pattern (19 bp):
AATCAAAATTAGTCAATAA
Found at i:13786689 original size:16 final size:15
Alignment explanation
Indices: 13786656--13786705 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
13786646 TAAATCTCAT
*
13786656 AAAATAAT-ATATTTA
1 AAAATAATAATA-TAA
13786671 AAAATAATAATATAA
1 AAAATAATAATATAA
13786686 AAAATGAATTAAT-TAA
1 AAAAT-AA-TAATATAA
13786702 AAAA
1 AAAA
13786706 GATAATATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
15 15 0.48
16 12 0.39
17 4 0.13
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (15 bp):
AAAATAATAATATAA
Found at i:13794456 original size:18 final size:21
Alignment explanation
Indices: 13794432--13794476 Score: 69
Period size: 18 Copynumber: 2.3 Consensus size: 21
13794422 CCTTCATCAC
13794432 ATTTTACTAT-ATT-TTTTAT
1 ATTTTACTATCATTATTTTAT
13794451 -TTTTACTATCATTATTTTAT
1 ATTTTACTATCATTATTTTAT
13794471 ATTTTA
1 ATTTTA
13794477 AAAAATAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 9 0.39
19 3 0.13
20 6 0.26
21 5 0.22
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.67
Consensus pattern (21 bp):
ATTTTACTATCATTATTTTAT
Found at i:13801130 original size:18 final size:20
Alignment explanation
Indices: 13801094--13801134 Score: 68
Period size: 18 Copynumber: 2.1 Consensus size: 20
13801084 AATGGGATCA
13801094 AGGATTGGTTTTAAGGTTTG
1 AGGATTGGTTTTAAGGTTTG
13801114 AGGATTGG-TTT-AGGTTTG
1 AGGATTGGTTTTAAGGTTTG
13801132 AGG
1 AGG
13801135 TTTTGGGGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 10 0.48
19 3 0.14
20 8 0.38
ACGTcount: A:0.20, C:0.00, G:0.39, T:0.41
Consensus pattern (20 bp):
AGGATTGGTTTTAAGGTTTG
Found at i:13801296 original size:19 final size:19
Alignment explanation
Indices: 13801206--13801299 Score: 74
Period size: 18 Copynumber: 5.1 Consensus size: 19
13801196 GGTTAGGATT
13801206 TGGGTGGTTTA-AGGTTTCA
1 TGGGTGGTTTAGA-GTTTCA
* *
13801225 T-GTTAGTTTA-AGGTTTCA
1 TGGGTGGTTTAGA-GTTTCA
* *
13801243 TGGGT-GATTAGGGTTTCA
1 TGGGTGGTTTAGAGTTTCA
13801261 -GGTGTGGTTTATG-GTTTCA
1 TGG-GTGGTTTA-GAGTTTCA
13801280 TGGGTGGTTTAGAGTTTCA
1 TGGGTGGTTTAGAGTTTCA
13801299 T
1 T
13801300 AAAAAATGCA
Statistics
Matches: 62, Mismatches: 6, Indels: 14
0.76 0.07 0.17
Matches are distributed among these distances:
17 2 0.03
18 29 0.47
19 28 0.45
20 3 0.05
ACGTcount: A:0.16, C:0.05, G:0.34, T:0.45
Consensus pattern (19 bp):
TGGGTGGTTTAGAGTTTCA
Found at i:13803670 original size:16 final size:16
Alignment explanation
Indices: 13803649--13803714 Score: 53
Period size: 16 Copynumber: 3.9 Consensus size: 16
13803639 AAAGTGAATG
*
13803649 AAAGAAGAAAAAAACA
1 AAAGAAGAAAAAAAAA
*
13803665 AAAGAA-AGAAAAAAGA
1 AAAGAAGA-AAAAAAAA
*
13803681 ATAGAAGAAAAGAAGGAAA
1 AAAGAAGAAAA-AA--AAA
13803700 AAAGAAGAAATAAAA
1 AAAGAAGAAA-AAAA
13803715 TGAAATGACT
Statistics
Matches: 40, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
15 1 0.03
16 21 0.52
17 4 0.10
19 13 0.32
20 1 0.03
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.03
Consensus pattern (16 bp):
AAAGAAGAAAAAAAAA
Found at i:13803680 original size:11 final size:11
Alignment explanation
Indices: 13803664--13803709 Score: 58
Period size: 11 Copynumber: 4.1 Consensus size: 11
13803654 AGAAAAAAAC
13803664 AAAAGAAAGAA
1 AAAAGAAAGAA
13803675 AAAAGAATAGAA
1 AAAAGAA-AGAA
*
13803687 GAAAAGAAGGAA
1 -AAAAGAAAGAA
13803699 AAAAG-AAGAA
1 AAAAGAAAGAA
13803709 A
1 A
13803710 TAAAATGAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
10 5 0.16
11 12 0.39
12 7 0.23
13 7 0.23
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (11 bp):
AAAAGAAAGAA
Found at i:13803680 original size:24 final size:24
Alignment explanation
Indices: 13803648--13803705 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
13803638 AAAAGTGAAT
*
13803648 GAAAGAAGAAAAAAACAAAAGAAA
1 GAAAAAAGAAAAAAACAAAAGAAA
* * * *
13803672 GAAAAAAGAATAGAAGAAAAGAAG
1 GAAAAAAGAAAAAAACAAAAGAAA
13803696 GAAAAAAGAA
1 GAAAAAAGAA
13803706 GAAATAAAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.76, C:0.02, G:0.21, T:0.02
Consensus pattern (24 bp):
GAAAAAAGAAAAAAACAAAAGAAA
Found at i:13804802 original size:94 final size:94
Alignment explanation
Indices: 13804732--13805033 Score: 344
Period size: 94 Copynumber: 3.3 Consensus size: 94
13804722 GGTACCCAAT
* *
13804732 TTTTAAGCCCAGTTTTTCTAGCACCTGAGAAAGGATTAAACCTAGCATAGTTGTCACTTATGAAA
1 TTTTAAGCCTAGTTTTTCTAGCACCTGAGAAAGGATTAAACCTAGCATAGTTGTCACCTATGAAA
*
13804797 ATTTAAGCCTAAATTAGTTGGCATCTAGG
66 ATTTAAGCCTAAATTAGTTGGCATCTAAG
* * * * *
13804826 ATTTAAGCCTAGTTTTTCTTGCACCTGAGAAAGGATTAAGCCTAGCTTAGTTGTTACCTATGAAA
1 TTTTAAGCCTAGTTTTTCTAGCACCTGAGAAAGGATTAAACCTAGCATAGTTGTCACCTATGAAA
*
13804891 ATTTAAGCCTAAATTAGTTAGCATCTAAG
66 ATTTAAGCCTAAATTAGTTGGCATCTAAG
* * *** * ** *
13804920 TTTTAAGCCTAGTTTTTCTAGCA-CTCAG---GGATTAAAACTAATTTAGCTAACACCCATGAAA
1 TTTTAAGCCTAGTTTTTCTAGCACCTGAGAAAGGATTAAACCTAGCATAGTTGTCACCTATGAAA
* ** * * *
13804981 ATTTAA-CTTAGTTTAGCTGGCACCAAAG
66 ATTTAAGCCTAAATTAGTTGGCATCTAAG
*
13805009 TTTTAAGCCTAGTTTTTCTAACACC
1 TTTTAAGCCTAGTTTTTCTAGCACC
13805034 CATGAAAGTT
Statistics
Matches: 178, Mismatches: 29, Indels: 6
0.84 0.14 0.03
Matches are distributed among these distances:
89 37 0.21
90 31 0.17
93 4 0.02
94 106 0.60
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (94 bp):
TTTTAAGCCTAGTTTTTCTAGCACCTGAGAAAGGATTAAACCTAGCATAGTTGTCACCTATGAAA
ATTTAAGCCTAAATTAGTTGGCATCTAAG
Found at i:13805441 original size:22 final size:22
Alignment explanation
Indices: 13805397--13805444 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
13805387 TTATGCTAGC
* *
13805397 TTAGTTGGCATGCAAGCTCAGG
1 TTAGTTGGCACGCAAGCTAAGG
* *
13805419 TTAGTTGGCACGTAGGCTAAGG
1 TTAGTTGGCACGCAAGCTAAGG
13805441 TTAG
1 TTAG
13805445 CTATCAACTC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.23, C:0.15, G:0.33, T:0.29
Consensus pattern (22 bp):
TTAGTTGGCACGCAAGCTAAGG
Found at i:13805519 original size:31 final size:31
Alignment explanation
Indices: 13805465--13805536 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 31
13805455 ATTCGACATG
*
13805465 TGGTTCAATCTCAGTCACCTCATTTGACCTA
1 TGGTTCAGTCTCAGTCACCTCATTTGACCTA
* *
13805496 TGGTTCAGTCTC-GATCACTTCATTTGATCTA
1 TGGTTCAGTCTCAG-TCACCTCATTTGACCTA
**
13805527 CAGTTCAGTC
1 TGGTTCAGTC
13805537 CAGGTTACAT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
30 1 0.03
31 34 0.97
ACGTcount: A:0.21, C:0.26, G:0.15, T:0.38
Consensus pattern (31 bp):
TGGTTCAGTCTCAGTCACCTCATTTGACCTA
Found at i:13805594 original size:31 final size:31
Alignment explanation
Indices: 13805559--13805632 Score: 94
Period size: 31 Copynumber: 2.4 Consensus size: 31
13805549 TTTAATTTAT
*
13805559 GATTCAATCTTGATCACTTCATCTGACTTAC
1 GATTCAATCTTGATCACTTCATCTCACTTAC
** * *
13805590 GATTCAATCTCAATCACTTCATTTCACTTAT
1 GATTCAATCTTGATCACTTCATCTCACTTAC
*
13805621 GATTCCATCTTG
1 GATTCAATCTTG
13805633 GTCATTCTTA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.26, C:0.26, G:0.08, T:0.41
Consensus pattern (31 bp):
GATTCAATCTTGATCACTTCATCTCACTTAC
Found at i:13806569 original size:25 final size:25
Alignment explanation
Indices: 13806541--13806588 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
13806531 AAGAAACCAA
*
13806541 AAAAAATCGAGAGAAAAA-CAATAAT
1 AAAAAA-CAAGAGAAAAACCAATAAT
*
13806566 AAAAGACAAGAGAAAAACCAATA
1 AAAAAACAAGAGAAAAACCAATA
13806589 GCAAAACAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.69, C:0.10, G:0.12, T:0.08
Consensus pattern (25 bp):
AAAAAACAAGAGAAAAACCAATAAT
Found at i:13808202 original size:16 final size:16
Alignment explanation
Indices: 13808181--13808211 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13808171 CTACCTAAAT
*
13808181 GTTAGTAATTTTTAAG
1 GTTAGTAAATTTTAAG
13808197 GTTAGTAAATTTTAA
1 GTTAGTAAATTTTAA
13808212 AACCTTAGGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.48
Consensus pattern (16 bp):
GTTAGTAAATTTTAAG
Found at i:13809897 original size:27 final size:27
Alignment explanation
Indices: 13809864--13809918 Score: 87
Period size: 26 Copynumber: 2.1 Consensus size: 27
13809854 CATTTTCATA
13809864 TTGTTTTTAC-CCTTTAATTTTTTT-TT
1 TTGTTTTT-CTCCTTTAATTTTTTTATT
13809890 TTGTTTTTCTCCTTTAATTTTTTTATT
1 TTGTTTTTCTCCTTTAATTTTTTTATT
13809917 TT
1 TT
13809919 TCTTAAGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
25 1 0.04
26 22 0.81
27 4 0.15
ACGTcount: A:0.11, C:0.11, G:0.04, T:0.75
Consensus pattern (27 bp):
TTGTTTTTCTCCTTTAATTTTTTTATT
Found at i:13810117 original size:33 final size:34
Alignment explanation
Indices: 13809978--13810119 Score: 112
Period size: 33 Copynumber: 4.3 Consensus size: 34
13809968 CCAAGTAAGC
** * * *
13809978 TAGGCTTAAATTTTTATTAGGTG-CTAATTAAAC
1 TAGGCTTAAAACTTCATTAGGTGCCTAGTTAAAT
* ** * * *
13810011 TAGACTTAAATTTTCACTAGGTGCCT-GCTATAT
1 TAGGCTTAAAACTTCATTAGGTGCCTAGTTAAAT
* * *
13810044 TGGGCTTAAAACTTCATTAGGTGCCCA-TTACAT
1 TAGGCTTAAAACTTCATTAGGTGCCTAGTTAAAT
*
13810077 TAAGCTTAAAACTTCATTAGGTG-CTAGTTAAAT
1 TAGGCTTAAAACTTCATTAGGTGCCTAGTTAAAT
*
13810110 TGGGCTTAAA
1 TAGGCTTAAA
13810120 TTTTTTGATG
Statistics
Matches: 85, Mismatches: 21, Indels: 6
0.76 0.19 0.05
Matches are distributed among these distances:
32 2 0.02
33 81 0.95
34 2 0.02
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (34 bp):
TAGGCTTAAAACTTCATTAGGTGCCTAGTTAAAT
Found at i:13811018 original size:23 final size:22
Alignment explanation
Indices: 13810958--13811011 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
13810948 CACCCATTCA
* *
13810958 TTTCATTTCTT-TTTTCCTTTTC
1 TTTCTTTTCTTCTTTT-TTTTTC
13810980 TTTCTTTTGCTTCTTTTTTTTTC
1 TTTCTTTT-CTTCTTTTTTTTTC
13811003 TTTCATTTT
1 TTTC-TTTT
13811012 TTCCTTTGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 7 0.26
23 12 0.44
24 8 0.30
ACGTcount: A:0.04, C:0.19, G:0.02, T:0.76
Consensus pattern (22 bp):
TTTCTTTTCTTCTTTTTTTTTC
Found at i:13811541 original size:8 final size:8
Alignment explanation
Indices: 13811528--13811562 Score: 61
Period size: 8 Copynumber: 4.2 Consensus size: 8
13811518 AATCATTTTT
13811528 TTTTTATC
1 TTTTTATC
13811536 TTTTTATC
1 TTTTTATC
13811544 TTTTTTATC
1 -TTTTTATC
13811553 TTTTTATC
1 TTTTTATC
13811561 TT
1 TT
13811563 GCCTTTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 18 0.69
9 8 0.31
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTTTATC
Found at i:13811549 original size:17 final size:17
Alignment explanation
Indices: 13811527--13811562 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
13811517 CAATCATTTT
13811527 TTTTTTATCTTTTTATC
1 TTTTTTATCTTTTTATC
13811544 TTTTTTATCTTTTTATC
1 TTTTTTATCTTTTTATC
13811561 TT
1 TT
13811563 GCCTTTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTTTTATCTTTTTATC
Found at i:13812251 original size:17 final size:17
Alignment explanation
Indices: 13812231--13812267 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
13812221 ATTTTTTTCC
13812231 TTTTT-TTTCTCTTTTT
1 TTTTTCTTTCTCTTTTT
13812247 TTTTTCTTTCTCTTTTT
1 TTTTTCTTTCTCTTTTT
13812264 TTTT
1 TTTT
13812268 AAAGCATTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (17 bp):
TTTTTCTTTCTCTTTTT
Found at i:13812262 original size:11 final size:11
Alignment explanation
Indices: 13812222--13812255 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
13812212 AGACTTACTA
13812222 TTTTTTTC-CT
1 TTTTTTTCTCT
13812232 TTTTTTTCTCT
1 TTTTTTTCTCT
*
13812243 TTTTTTTTTCT
1 TTTTTTTCTCT
13812254 TT
1 TT
13812256 CTCTTTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 8 0.36
11 14 0.64
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTTTTCTCT
Found at i:13816613 original size:18 final size:18
Alignment explanation
Indices: 13816590--13816635 Score: 92
Period size: 18 Copynumber: 2.6 Consensus size: 18
13816580 ACAAAATAGA
13816590 ATTAAAGAAAATCTTTAG
1 ATTAAAGAAAATCTTTAG
13816608 ATTAAAGAAAATCTTTAG
1 ATTAAAGAAAATCTTTAG
13816626 ATTAAAGAAA
1 ATTAAAGAAA
13816636 TACATTCAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.54, C:0.04, G:0.11, T:0.30
Consensus pattern (18 bp):
ATTAAAGAAAATCTTTAG
Found at i:13817318 original size:13 final size:13
Alignment explanation
Indices: 13817290--13817384 Score: 90
Period size: 14 Copynumber: 7.3 Consensus size: 13
13817280 AGGTTCCAAA
13817290 GTTT-AATTTA-G
1 GTTTCAATTTAGG
13817301 GTTTCAATTTAGG
1 GTTTCAATTTAGG
13817314 GTTTCAATTTCAGG
1 GTTTCAATTT-AGG
*
13817328 TTTTCAATCTTAGG
1 GTTTCAAT-TTAGG
*
13817342 G-TT-GATTATAGG
1 GTTTCAATT-TAGG
*
13817354 ATTTCAATCTTAGG
1 GTTTCAAT-TTAGG
*
13817368 GTTTCGATTTAGG
1 GTTTCAATTTAGG
13817381 GTTT
1 GTTT
13817385 TAACATTGGG
Statistics
Matches: 69, Mismatches: 7, Indels: 14
0.77 0.08 0.16
Matches are distributed among these distances:
11 5 0.07
12 12 0.17
13 24 0.35
14 25 0.36
15 3 0.04
ACGTcount: A:0.22, C:0.08, G:0.22, T:0.47
Consensus pattern (13 bp):
GTTTCAATTTAGG
Found at i:13817328 original size:26 final size:26
Alignment explanation
Indices: 13817290--13817380 Score: 98
Period size: 26 Copynumber: 3.5 Consensus size: 26
13817280 AGGTTCCAAA
13817290 GTTTAATTTAGG-TTTCAAT-TTAGG
1 GTTTAATTTAGGATTTCAATCTTAGG
*
13817314 GTTTCAATTTCAGGTTTTCAATCTTAGG
1 GTTT-AATTT-AGGATTTCAATCTTAGG
*
13817342 G-TTGATTATAGGATTTCAATCTTAGG
1 GTTTAATT-TAGGATTTCAATCTTAGG
*
13817368 GTTTCGATTTAGG
1 GTTT-AATTTAGG
13817381 GTTTTAACAT
Statistics
Matches: 58, Mismatches: 2, Indels: 11
0.82 0.03 0.15
Matches are distributed among these distances:
24 4 0.07
25 5 0.09
26 23 0.40
27 16 0.28
28 10 0.17
ACGTcount: A:0.23, C:0.09, G:0.22, T:0.46
Consensus pattern (26 bp):
GTTTAATTTAGGATTTCAATCTTAGG
Found at i:13817553 original size:3 final size:3
Alignment explanation
Indices: 13817547--13817589 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
13817537 ATTAAAATCC
13817547 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
13817590 CATTTATCCT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:13819089 original size:14 final size:15
Alignment explanation
Indices: 13819069--13819105 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
13819059 TATGCCCCTC
13819069 ATTTTTTTGTTT-GTG
1 ATTTTTTT-TTTGGTG
13819084 -TTTTTTTTTTGGTG
1 ATTTTTTTTTTGGTG
13819098 ATTTTTTT
1 ATTTTTTT
13819106 CTTCAAATGG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 3 0.15
14 10 0.50
15 7 0.35
ACGTcount: A:0.05, C:0.00, G:0.16, T:0.78
Consensus pattern (15 bp):
ATTTTTTTTTTGGTG
Found at i:13819788 original size:15 final size:15
Alignment explanation
Indices: 13819768--13819815 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
13819758 TTGGACCAAG
13819768 TTTTTATTTTTATTT
1 TTTTTATTTTTATTT
*
13819783 TTTTTAATTTTAATTT
1 TTTTT-ATTTTTATTT
* *
13819799 TTATTATTATTATTT
1 TTTTTATTTTTATTT
13819814 TT
1 TT
13819816 AAAATAACTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
15 15 0.54
16 13 0.46
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTTTATTTTTATTT
Found at i:13819827 original size:28 final size:28
Alignment explanation
Indices: 13819768--13819845 Score: 75
Period size: 28 Copynumber: 2.7 Consensus size: 28
13819758 TTGGACCAAG
* ** *
13819768 TTTTTATTTTTATTTTTTTTAATTTTAA
1 TTTTTATTTTTATTATTTTTAAAATAAA
* *
13819796 TTTTTATTATTATTATTTTTAAAATAAC
1 TTTTTATTTTTATTATTTTTAAAATAAA
*
13819824 TTTTGCATTTTTATTTATTTTT
1 TTTT-TATTTTTA-TTATTTTT
13819846 TTATTTTTTT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
28 26 0.65
29 6 0.15
30 8 0.20
ACGTcount: A:0.24, C:0.03, G:0.01, T:0.72
Consensus pattern (28 bp):
TTTTTATTTTTATTATTTTTAAAATAAA
Found at i:13825939 original size:22 final size:22
Alignment explanation
Indices: 13825891--13825942 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
13825881 TGATTTTCAT
*
13825891 AATAATTCTTGAAAACTAGTAC
1 AATATTTCTTGAAAACTAGTAC
13825913 AATATTTCTTGAAAACTAGTAC
1 AATATTTCTTGAAAACTAGTAC
13825935 AATATTTC
1 AATATTTC
13825943 CTTATAAAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.42, C:0.13, G:0.08, T:0.37
Consensus pattern (22 bp):
AATATTTCTTGAAAACTAGTAC
Found at i:13827105 original size:19 final size:19
Alignment explanation
Indices: 13827081--13827120 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
13827071 AACGGGTTTC
**
13827081 TGGGTAAGGTTAAGTTGAA
1 TGGGTAAGGCCAAGTTGAA
*
13827100 TGGGTAGGGCCAAGTTGAA
1 TGGGTAAGGCCAAGTTGAA
13827119 TG
1 TG
13827121 TGTAGGGTCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.28, C:0.05, G:0.40, T:0.28
Consensus pattern (19 bp):
TGGGTAAGGCCAAGTTGAA
Found at i:13827349 original size:17 final size:16
Alignment explanation
Indices: 13827329--13827368 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
13827319 TTTTTATTCC
13827329 TTTCTTATCTTTTTTCT
1 TTTCTT-TCTTTTTTCT
*
13827346 TTTCTTTTTTTTTTCT
1 TTTCTTTCTTTTTTCT
13827362 TATTCTT
1 T-TTCTT
13827369 CCCTCATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 10 0.48
17 11 0.52
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTCTTTCTTTTTTCT
Found at i:13827436 original size:14 final size:14
Alignment explanation
Indices: 13827417--13827460 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
13827407 GCTTCCTTTC
13827417 TTTTTTTTTTCTCT
1 TTTTTTTTTTCTCT
*
13827431 TTTTTTTCTTCTCT
1 TTTTTTTTTTCTCT
*
13827445 TTCTTTTTTTTTTCT
1 TT-TTTTTTTTCTCT
13827460 T
1 T
13827461 CTCCTTTTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
14 15 0.58
15 11 0.42
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (14 bp):
TTTTTTTTTTCTCT
Found at i:13827447 original size:31 final size:31
Alignment explanation
Indices: 13827408--13827474 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 31
13827398 AACACCAATG
**
13827408 CTTCCTTTCTTTTTTTTTTC-TCTTTTTTTT
1 CTTCCTTTCTTTTTTTTTTCTTCTCCTTTTT
13827438 CTTCTCTTTCTTTTTTTTTTCTTCTCCTTTTT
1 CTTC-CTTTCTTTTTTTTTTCTTCTCCTTTTT
13827470 CTTCC
1 CTTCC
13827475 ATTGTCATCA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
30 4 0.12
31 17 0.52
32 12 0.36
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (31 bp):
CTTCCTTTCTTTTTTTTTTCTTCTCCTTTTT
Found at i:13827453 original size:20 final size:20
Alignment explanation
Indices: 13827424--13827463 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
13827414 TTCTTTTTTT
13827424 TTTCTCTTTTTTTTCTTCTC
1 TTTCTCTTTTTTTTCTTCTC
*
13827444 TTTCTTTTTTTTTTCTTCTC
1 TTTCTCTTTTTTTTCTTCTC
13827464 CTTTTTCTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.78
Consensus pattern (20 bp):
TTTCTCTTTTTTTTCTTCTC
Found at i:13827462 original size:14 final size:14
Alignment explanation
Indices: 13827414--13827462 Score: 55
Period size: 14 Copynumber: 3.3 Consensus size: 14
13827404 AATGCTTCCT
13827414 TTCTTTTTTTTTTC
1 TTCTTTTTTTTTTC
13827428 -TCTTTTTTTTCTTCTC
1 TTC-TTTTTTT-TT-TC
13827444 TTTCTTTTTTTTTTC
1 -TTCTTTTTTTTTTC
13827459 TTCT
1 TTCT
13827463 CCTTTTTCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
13 2 0.07
14 11 0.37
15 4 0.13
16 4 0.13
17 7 0.23
18 2 0.07
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (14 bp):
TTCTTTTTTTTTTC
Found at i:13827462 original size:23 final size:22
Alignment explanation
Indices: 13827430--13827472 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
13827420 TTTTTTTCTC
*
13827430 TTTTTTTTCTTCTCTTTCTTTT
1 TTTTTTTTCTCCTCTTTCTTTT
*
13827452 TTTTTTCTTCTCCTTTTTCTT
1 TTTTTT-TTCTCCTCTTTCTT
13827473 CCATTGTCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (22 bp):
TTTTTTTTCTCCTCTTTCTTTT
Found at i:13832830 original size:21 final size:21
Alignment explanation
Indices: 13832805--13832858 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
13832795 TCAATTTTAA
13832805 AATTTTTATAT-TATTTAATAT
1 AATTTTTATATATATTTAA-AT
13832826 AATTTTTA-ATATATTTAAAT
1 AATTTTTATATATATTTAAAT
*
13832846 AA-GTTTATATATA
1 AATTTTTATATATA
13832859 AAATAATTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 4 0.13
20 11 0.37
21 15 0.50
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (21 bp):
AATTTTTATATATATTTAAAT
Found at i:13832857 original size:20 final size:20
Alignment explanation
Indices: 13832809--13832858 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
13832799 TTTTAAAATT
13832809 TTTATAT-TATTTAATATAA
1 TTTATATATATTTAATATAA
*
13832828 TTTTTAATATATTTAA-ATAA
1 TTTAT-ATATATTTAATATAA
13832848 GTTTATATATA
1 -TTTATATATA
13832859 AAATAATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 4 0.15
20 11 0.42
21 11 0.42
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (20 bp):
TTTATATATATTTAATATAA
Found at i:13842266 original size:18 final size:19
Alignment explanation
Indices: 13842233--13842268 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
13842223 TCTTGCAAAT
*
13842233 AAATAATTTTTTTATTTTC
1 AAATAATTTGTTTATTTTC
13842252 AAATAA-TTGTTTATTTT
1 AAATAATTTGTTTATTTT
13842269 TCTGTTATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (19 bp):
AAATAATTTGTTTATTTTC
Found at i:13842269 original size:19 final size:19
Alignment explanation
Indices: 13842233--13842270 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
13842223 TCTTGCAAAT
*
13842233 AAATAATTTTTTTATTTTC
1 AAATAATTTTTATATTTTC
13842252 AAATAATTGTTTAT-TTTTC
1 AAATAATT-TTTATATTTTC
13842271 TGTTATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.61
Consensus pattern (19 bp):
AAATAATTTTTATATTTTC
Found at i:13842286 original size:18 final size:18
Alignment explanation
Indices: 13842265--13842312 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
13842255 TAATTGTTTA
*
13842265 TTTTTCTGTTATAT-ATAT
1 TTTTTATGTT-TATCATAT
*
13842283 TTTTTATGTTTATCGTAT
1 TTTTTATGTTTATCATAT
13842301 TTTTTAT-TTTAT
1 TTTTTATGTTTAT
13842313 TTTTGTTGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 8 0.30
18 19 0.70
ACGTcount: A:0.19, C:0.04, G:0.06, T:0.71
Consensus pattern (18 bp):
TTTTTATGTTTATCATAT
Found at i:13850822 original size:2 final size:2
Alignment explanation
Indices: 13850815--13850842 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
13850805 AACACGAATG
13850815 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
13850843 AAAACACGAC
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):
TA
Found at i:13851011 original size:25 final size:25
Alignment explanation
Indices: 13850964--13851011 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
13850954 TTAATGCTCA
*
13850964 TTTAATATATATGTAATATATATTT
1 TTTAATATATATGTAATAAATATTT
*
13850989 TTTAATTTATAT-TACATAAATAT
1 TTTAATATATATGTA-ATAAATAT
13851012 ATTAATTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 2 0.10
25 18 0.90
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (25 bp):
TTTAATATATATGTAATAAATATTT
Found at i:13854663 original size:22 final size:22
Alignment explanation
Indices: 13854637--13854694 Score: 82
Period size: 21 Copynumber: 2.7 Consensus size: 22
13854627 TCCAGTTTTA
13854637 GGGTTTGACTTTTAGAGATTTG
1 GGGTTTGACTTTTAGAGATTTG
* *
13854659 GGGTTTGAATTTTA-AGGTTTG
1 GGGTTTGACTTTTAGAGATTTG
*
13854680 GGGTTTAACTTTTAG
1 GGGTTTGACTTTTAG
13854695 GCTTTGGACA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 18 0.58
22 13 0.42
ACGTcount: A:0.19, C:0.03, G:0.31, T:0.47
Consensus pattern (22 bp):
GGGTTTGACTTTTAGAGATTTG
Found at i:13854681 original size:21 final size:21
Alignment explanation
Indices: 13854637--13854701 Score: 71
Period size: 21 Copynumber: 3.0 Consensus size: 21
13854627 TCCAGTTTTA
* *
13854637 GGGTTTGACTTTTAGAGATTTG
1 GGGTTTGAATTTTA-AGGTTTG
13854659 GGGTTTGAATTTTAAGGTTTG
1 GGGTTTGAATTTTAAGGTTTG
13854680 GGGTTT-AACTTTT-AGGCTTTG
1 GGGTTTGAA-TTTTAAGG-TTTG
13854701 G
1 G
13854702 ACATATGGTT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
20 5 0.13
21 21 0.54
22 13 0.33
ACGTcount: A:0.17, C:0.05, G:0.32, T:0.46
Consensus pattern (21 bp):
GGGTTTGAATTTTAAGGTTTG
Found at i:13854783 original size:24 final size:24
Alignment explanation
Indices: 13854739--13854786 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
13854729 TTAAACGTTT
*
13854739 GATTTTTTAGGGTTAAGGTTTTAA
1 GATTTTTTAAGGTTAAGGTTTTAA
*
13854763 GATTTTTTAA-GTTTAGAGTTTTAA
1 GATTTTTTAAGGTTAAG-GTTTTAA
13854787 AGTTTTAGGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 5 0.24
24 16 0.76
ACGTcount: A:0.27, C:0.00, G:0.21, T:0.52
Consensus pattern (24 bp):
GATTTTTTAAGGTTAAGGTTTTAA
Found at i:13858141 original size:10 final size:10
Alignment explanation
Indices: 13858108--13858142 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
13858098 ATTTTATTCC
13858108 TTTTTCTTTT
1 TTTTTCTTTT
*
13858118 CTTTTCTTTT
1 TTTTTCTTTT
*
13858128 TTTTTGTTTT
1 TTTTTCTTTT
13858138 TTTTT
1 TTTTT
13858143 ACACTTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.00, C:0.09, G:0.03, T:0.89
Consensus pattern (10 bp):
TTTTTCTTTT
Found at i:13860435 original size:22 final size:21
Alignment explanation
Indices: 13860383--13860453 Score: 56
Period size: 22 Copynumber: 3.3 Consensus size: 21
13860373 ATTCAAAAAT
* * *
13860383 TAAATAAATGAATAATATTAAT
1 TAAATAAATG-ATAAAAATAAA
* *
13860405 TTAACAAATGAGTAAAAATAAA
1 TAAATAAATGA-TAAAAATAAA
13860427 TAAATAAATGA-AAAAATATAA
1 TAAATAAATGATAAAAATA-AA
13860448 -AAATAA
1 TAAATAA
13860454 TTAAAAAAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
20 13 0.32
21 3 0.08
22 24 0.60
ACGTcount: A:0.66, C:0.01, G:0.06, T:0.27
Consensus pattern (21 bp):
TAAATAAATGATAAAAATAAA
Found at i:13860460 original size:20 final size:20
Alignment explanation
Indices: 13860418--13860462 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
13860408 ACAAATGAGT
*
13860418 AAAAATAAATAAATAAATGA
1 AAAAATAAATAAATAAATAA
*
13860438 AAAAATATAA-AAATAATTAA
1 AAAAATA-AATAAATAAATAA
13860458 AAAAA
1 AAAAA
13860463 ACCTTAGCCC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 20 0.91
21 2 0.09
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (20 bp):
AAAAATAAATAAATAAATAA
Found at i:13861392 original size:23 final size:23
Alignment explanation
Indices: 13861366--13861441 Score: 68
Period size: 23 Copynumber: 3.3 Consensus size: 23
13861356 AGATAAAGTA
* *
13861366 AAATAAAATAAATATTTAAAGAT
1 AAATAAAATAAATATATAAAAAT
*
13861389 AAATAAACTTAAA-ATATAAAAAT
1 AAATAAA-ATAAATATATAAAAAT
*
13861412 AAATCAAAATTAAATA-A-AAAATT
1 AAAT-AAAA-TAAATATATAAAAAT
13861435 AAATAAA
1 AAATAAA
13861442 GAAGAGTTTA
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
22 3 0.07
23 28 0.64
24 12 0.27
25 1 0.02
ACGTcount: A:0.70, C:0.03, G:0.01, T:0.26
Consensus pattern (23 bp):
AAATAAAATAAATATATAAAAAT
Found at i:13861432 original size:12 final size:12
Alignment explanation
Indices: 13861400--13861441 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
13861390 AATAAACTTA
13861400 AAATATAAAAA-T
1 AAATA-AAAAATT
*
13861412 AAAT-CAAAATT
1 AAATAAAAAATT
13861423 AAATAAAAAATT
1 AAATAAAAAATT
13861435 AAATAAA
1 AAATAAA
13861442 GAAGAGTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
10 4 0.15
11 5 0.19
12 17 0.65
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (12 bp):
AAATAAAAAATT
Found at i:13861564 original size:13 final size:13
Alignment explanation
Indices: 13861528--13861565 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
13861518 AATTAAAACA
13861528 TAAAAAT-AAATT
1 TAAAAATAAAATT
*
13861540 TAAAAAAGAAAATT
1 T-AAAAATAAAATT
13861554 TAAAAATAAAAT
1 TAAAAATAAAAT
13861566 GGATAACTGG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 1 0.05
13 15 0.68
14 6 0.27
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (13 bp):
TAAAAATAAAATT
Found at i:13863161 original size:24 final size:26
Alignment explanation
Indices: 13863128--13863176 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
13863118 TATATAAATG
13863128 TTGACAAAATGT-ATTATTGATTTTT
1 TTGACAAAATGTAATTATTGATTTTT
*
13863153 TTGA-AAAATGTAATTATTGGTTTT
1 TTGACAAAATGTAATTATTGATTTT
13863177 AAAGCGGTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.32
25 15 0.68
ACGTcount: A:0.33, C:0.02, G:0.14, T:0.51
Consensus pattern (26 bp):
TTGACAAAATGTAATTATTGATTTTT
Found at i:13867342 original size:122 final size:122
Alignment explanation
Indices: 13867197--13867432 Score: 418
Period size: 122 Copynumber: 1.9 Consensus size: 122
13867187 TTCTTATCCG
* *
13867197 TAAAATTCCTAAATTTGGATCTAAATAAAGCTTTTAGTATTCTTGTAATTTCATAAACTCTAATT
1 TAAAATTCCTAAATTTGGATCTAAATAAACCTTTCAGTATTCTTGTAATTTCATAAACTCTAATT
13867262 GCTTGCAGTCTACAATTATTGGATTAATCTATTTATCTATGAATATTTTCTTATTGC
66 GCTTGCAGTCTACAATTATTGGATTAATCTATTTATCTATGAATATTTTCTTATTGC
* * * *
13867319 TAAAATTCCTAAATTTGGGTCTAAATTAACCTTTCAGTATTTTTTTAATTTCATAAACTCTAATT
1 TAAAATTCCTAAATTTGGATCTAAATAAACCTTTCAGTATTCTTGTAATTTCATAAACTCTAATT
13867384 GCTTGCAGTCTACAATTATTGGATTAATCTATTTATCTATGAATATTTT
66 GCTTGCAGTCTACAATTATTGGATTAATCTATTTATCTATGAATATTTT
13867433 TATCACTTAC
Statistics
Matches: 108, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
122 108 1.00
ACGTcount: A:0.32, C:0.13, G:0.09, T:0.46
Consensus pattern (122 bp):
TAAAATTCCTAAATTTGGATCTAAATAAACCTTTCAGTATTCTTGTAATTTCATAAACTCTAATT
GCTTGCAGTCTACAATTATTGGATTAATCTATTTATCTATGAATATTTTCTTATTGC
Found at i:13868652 original size:127 final size:124
Alignment explanation
Indices: 13868459--13868693 Score: 380
Period size: 127 Copynumber: 1.9 Consensus size: 124
13868449 GTCGAGGATC
* *
13868459 AGGAATTAAGTTTTATATAGGGTGAAGCGAGATAGGAGGGAGTTGTTCACAGGATTGAATCTGAC
1 AGGAATTAAGTTTTATATAGGGTGAAGAGAGATAGGAGGGAGTCGTTCACAGGATTGAATCTGAC
*
13868524 TGGATTACCATTTTTTTTTTCTAAAGAGAAAAATAAGAAGATGGTTCCATCTCCCATTTATA
66 TGGATTACCA--TTTTCTTTCTAAA-AGAAAAATAAGAAGATGGTTCCATCTCCCATTTATA
* * *
13868586 AGGAATTAGGTTTTATTTAGGGTGAAGAGATATAGGAGGGAGTCGTTCACAGGATTGAATCTGAC
1 AGGAATTAAGTTTTATATAGGGTGAAGAGAGATAGGAGGGAGTCGTTCACAGGATTGAATCTGAC
*
13868651 TGGATTACCATTTTCTTTCTAGAAGAAAAATAAGAAGATGGTT
66 TGGATTACCATTTTCTTTCTAAAAGAAAAATAAGAAGATGGTT
13868694 TCTTGTCTTC
Statistics
Matches: 101, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
124 20 0.20
125 11 0.11
127 70 0.69
ACGTcount: A:0.33, C:0.10, G:0.25, T:0.32
Consensus pattern (124 bp):
AGGAATTAAGTTTTATATAGGGTGAAGAGAGATAGGAGGGAGTCGTTCACAGGATTGAATCTGAC
TGGATTACCATTTTCTTTCTAAAAGAAAAATAAGAAGATGGTTCCATCTCCCATTTATA
Found at i:13874160 original size:22 final size:22
Alignment explanation
Indices: 13874135--13874178 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
13874125 ATTTTTTGTC
*
13874135 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
*
13874157 CTTAATTCTAGATATACAAATA
1 CTTAATTCTAGAGATACAAATA
13874179 TAAATACATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:13874190 original size:22 final size:22
Alignment explanation
Indices: 13874148--13874196 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
13874138 AATTCTAGGG
* *
13874148 ATACAAATACTTAATTCTAGAT
1 ATACAAATACTAAATACTAGAT
13874170 ATACAAATA-TAAATACATAGAT
1 ATACAAATACTAAATAC-TAGAT
13874192 -TACAA
1 ATACAA
13874197 GATTACAACC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 10 0.42
22 14 0.58
ACGTcount: A:0.53, C:0.12, G:0.04, T:0.31
Consensus pattern (22 bp):
ATACAAATACTAAATACTAGAT
Found at i:13877935 original size:25 final size:25
Alignment explanation
Indices: 13877896--13877951 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
13877886 TAGAATGGCT
*
13877896 ATGAAGGCCTTAACAGGGTTCGACA
1 ATGAAGGCCTAAACAGGGTTCGACA
* * *
13877921 GTGAAGGTCTAAACAGGGTTCGGCA
1 ATGAAGGCCTAAACAGGGTTCGACA
13877946 ATGAAG
1 ATGAAG
13877952 ACTGAAAATT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.32, C:0.16, G:0.32, T:0.20
Consensus pattern (25 bp):
ATGAAGGCCTAAACAGGGTTCGACA
Found at i:13878209 original size:22 final size:22
Alignment explanation
Indices: 13878181--13878224 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
13878171 ATTTTTTGTC
*
13878181 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
*
13878203 CTTAATTCTAGATATACAAATA
1 CTTAATTCTAGAGATACAAATA
13878225 TAAATACATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:13878236 original size:22 final size:22
Alignment explanation
Indices: 13878194--13878242 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
13878184 AATTCTAGGG
* *
13878194 ATACAAATACTTAATTCTAGAT
1 ATACAAATACTAAATACTAGAT
13878216 ATACAAATA-TAAATACATAGAT
1 ATACAAATACTAAATAC-TAGAT
13878238 -TACAA
1 ATACAA
13878243 GATTACAACC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 10 0.42
22 14 0.58
ACGTcount: A:0.53, C:0.12, G:0.04, T:0.31
Consensus pattern (22 bp):
ATACAAATACTAAATACTAGAT
Found at i:13890541 original size:2 final size:2
Alignment explanation
Indices: 13890534--13890564 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
13890524 AATTTCCTTT
13890534 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
13890565 ATGCTTTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:13895806 original size:23 final size:22
Alignment explanation
Indices: 13895755--13895807 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
13895745 GGGTCGAATC
13895755 TGAGCTTTGCATGATTGCATGCA
1 TGAGC-TTGCATGATTGCATGCA
*
13895778 TG-GCTTGCATGAATATGCAT-CT
1 TGAGCTTGCATG-AT-TGCATGCA
13895800 TGAGCTTG
1 TGAGCTTG
13895808 AAAAACCTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
21 7 0.27
22 7 0.27
23 12 0.46
ACGTcount: A:0.21, C:0.17, G:0.26, T:0.36
Consensus pattern (22 bp):
TGAGCTTGCATGATTGCATGCA
Found at i:13911049 original size:15 final size:16
Alignment explanation
Indices: 13911029--13911070 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
13911019 CTTAGAAGCA
13911029 AGAAAATA-AAAGTGC
1 AGAAAATATAAAGTGC
*
13911044 AGAAAAAATAAAGTGC
1 AGAAAATATAAAGTGC
*
13911060 A-AAAATTTAAA
1 AGAAAATATAAA
13911071 ACTAAAAGTC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 15 0.65
16 8 0.35
ACGTcount: A:0.64, C:0.05, G:0.14, T:0.17
Consensus pattern (16 bp):
AGAAAATATAAAGTGC
Found at i:13911056 original size:16 final size:16
Alignment explanation
Indices: 13911026--13911064 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
13911016 AGCCTTAGAA
*
13911026 GCAAGAAAATAAAAGT
1 GCAAAAAAATAAAAGT
13911042 GCAGAAAAAAT-AAAGT
1 GCA-AAAAAATAAAAGT
13911058 GCAAAAA
1 GCAAAAA
13911065 TTTAAAACTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 4 0.19
16 11 0.52
17 6 0.29
ACGTcount: A:0.64, C:0.08, G:0.18, T:0.10
Consensus pattern (16 bp):
GCAAAAAAATAAAAGT
Done.