Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009586.1 Hibiscus syriacus cultivar Beakdansim tig00116964_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: 3773412
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 17 of 19
Found at i:3303847 original size:94 final size:93
Alignment explanation
Indices: 3303644--3303873 Score: 372
Period size: 94 Copynumber: 2.5 Consensus size: 93
3303634 AAAACAATTA
3303644 AACA-TTAATCGAACCGAAATTTATTTAAAAATTATTAACCGAACCAAATCAACCGATTTTTTTC
1 AACAGTTAATCGAACCGAAATTTATTTAAAAATTATTAACCGAACCAAATCAACCGATTTTTTTC
3303708 TTTAACATTAATCGAAACGAAATTATAT
66 TTTAACATTAATCGAAACGAAATTATAT
* * * * * *
3303736 GATAGTTAATTGAACCGAAATTTATTTGAAAATTATTAACCGAACCAAATTAACTGATTTTTTTT
1 AACAGTTAATCGAACCGAAATTTATTTAAAAATTATTAACCGAACCAAATCAACCGA-TTTTTTT
*
3303801 CTTTAACATTAATCGAAACGAAATTATTT
65 CTTTAACATTAATCGAAACGAAATTATAT
*
3303830 AACCGTTAATCGAACCGAAATTTATTTAAAAATTATTAACCGAA
1 AACAGTTAATCGAACCGAAATTTATTTAAAAATTATTAACCGAA
3303874 ATTTTTTCTT
Statistics
Matches: 124, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
92 2 0.02
93 48 0.39
94 74 0.60
ACGTcount: A:0.42, C:0.14, G:0.08, T:0.35
Consensus pattern (93 bp):
AACAGTTAATCGAACCGAAATTTATTTAAAAATTATTAACCGAACCAAATCAACCGATTTTTTTC
TTTAACATTAATCGAAACGAAATTATAT
Found at i:3303916 original size:81 final size:80
Alignment explanation
Indices: 3303795--3303950 Score: 240
Period size: 81 Copynumber: 1.9 Consensus size: 80
3303785 TTAACTGATT
* * *
3303795 TTTTTTCTTTAACATTAATCGAAACGAAATTATTTAACCGTTAATCGAACCGAAATTTATTTAAA
1 TTTTTTCTTTAACATTAATCGAAACAAAAATATTTAACCGTTAATCGAACCCAAATTTATTTAAA
3303860 AATTATTAACCGAAA
66 AATTATTAACCGAAA
* * * *
3303875 TTTTTTCTTTAACCATTAATTGAACCAAAAATATTTGACCGTTAATCGAACCCAAATTTATTTGA
1 TTTTTTCTTTAA-CATTAATCGAAACAAAAATATTTAACCGTTAATCGAACCCAAATTTATTTAA
3303940 AAATTATTAAC
65 AAATTATTAAC
3303951 TGAATAAAAT
Statistics
Matches: 68, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
80 12 0.18
81 56 0.82
ACGTcount: A:0.40, C:0.15, G:0.07, T:0.38
Consensus pattern (80 bp):
TTTTTTCTTTAACATTAATCGAAACAAAAATATTTAACCGTTAATCGAACCCAAATTTATTTAAA
AATTATTAACCGAAA
Found at i:3303977 original size:146 final size:147
Alignment explanation
Indices: 3303827--3304107 Score: 350
Period size: 157 Copynumber: 1.9 Consensus size: 147
3303817 AACGAAATTA
*
3303827 TTTAACCGTTAATCGAACCGAAATTTATTTAAAAATTATTAACCG-A-AATTTTTTCTTTAACCA
1 TTTAACCGTTAATCAAACCGAAATTTATTTAAAAATTATTAACCGAACAATTTTTTCTTTAA-CA
* * *
3303890 TTAATTGAACCAAAAATATTTGACCGTTAATCGAACCCAAATTTATTTGAAAATTATTAACTGAA
65 CTAATCGAACCAAAAATATTTGACCGTTAATCAAACCCAAATTTATTTGAAAATTATTAACTGAA
3303955 TAAAATAAATTATTTTTC
130 TAAAATAAATTATTTTTC
* * * *
3303973 TTTAACCGTTAATCAAACTGGAATTTGTTTGAAAATTATTAACCGATCCAAATCAACCAATTTTT
1 TTTAACCGTTAATCAAACCGAAATTTATTTAAAAATTATTAACCG---------AA-CAATTTTT
* * *
3304038 TCTTTAACACTAATCGAACCAAAATTATTTGACTGTTAATCAAACCGAAATTTATTTGAAAATTA
56 TCTTTAACACTAATCGAACCAAAAATATTTGACCGTTAATCAAACCCAAATTTATTTGAAAATTA
3304103 TTAAC
121 TTAAC
3304108 CGAACCAAAT
Statistics
Matches: 112, Mismatches: 11, Indels: 13
0.82 0.08 0.10
Matches are distributed among these distances:
146 40 0.36
156 1 0.01
157 57 0.51
158 14 0.12
ACGTcount: A:0.40, C:0.15, G:0.07, T:0.37
Consensus pattern (147 bp):
TTTAACCGTTAATCAAACCGAAATTTATTTAAAAATTATTAACCGAACAATTTTTTCTTTAACAC
TAATCGAACCAAAAATATTTGACCGTTAATCAAACCCAAATTTATTTGAAAATTATTAACTGAAT
AAAATAAATTATTTTTC
Found at i:3304170 original size:26 final size:26
Alignment explanation
Indices: 3304139--3304271 Score: 99
Period size: 26 Copynumber: 5.0 Consensus size: 26
3304129 TTTTCTTTAA
3304139 CATTAATCGAACCAAAATTATTTGAC
1 CATTAATCGAACCAAAATTATTTGAC
* * * *
3304165 CGTTAATCGAACCGAAATTTATTTAAA
1 CATTAATCGAACC-AAAATTATTTGAC
* * * * *
3304192 AATT-AT-TAACCAAATTTTTTTCTTTAAC
1 CATTAATCGAACCAAA----ATTATTTGAC
3304220 CATTAATCGAACCAAAATTATTTGAC
1 CATTAATCGAACCAAAATTATTTGAC
**
3304246 TGTTAATCGAACCAAAATTTATTTGA
1 CATTAATCGAACCAAAA-TTATTTGA
3304272 AAATTATTAA
Statistics
Matches: 83, Mismatches: 16, Indels: 15
0.73 0.14 0.13
Matches are distributed among these distances:
24 3 0.04
25 4 0.05
26 36 0.43
27 20 0.24
28 11 0.13
29 2 0.02
30 7 0.08
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.37
Consensus pattern (26 bp):
CATTAATCGAACCAAAATTATTTGAC
Found at i:3304178 original size:94 final size:92
Alignment explanation
Indices: 3303977--3304281 Score: 382
Period size: 94 Copynumber: 3.4 Consensus size: 92
3303967 TTTTTCTTTA
* * * *
3303977 ACCGTTAATCAAACTGGAATTTGTTTGAAAATTATTAACCGATCCAAATCAACCAATTTTTTCTT
1 ACCGTTAATCAAACCGAAATTTATTTGAAAATTATTAACCGAACCAAATCAACCAATTTTTTCTT
3304042 TAACACTAATCGAACCAAAATTATTTG
66 TAACACTAATCGAACCAAAATTATTTG
* *
3304069 ACTGTTAATCAAACCGAAATTTATTTGAAAATTATTAACCGAACCAAATTAACCGAATTTTTTTC
1 ACCGTTAATCAAACCGAAATTTATTTGAAAATTATTAACCGAACCAAATCAACC-AA-TTTTTTC
*
3304134 TTTAACATTAATCGAACCAAAATTATTTG
64 TTTAACACTAATCGAACCAAAATTATTTG
* *
3304163 ACCGTTAATCGAACCGAAATTTATTTAAAAATTATT-----AACCAAAT-------TTTTTTCTT
1 ACCGTTAATCAAACCGAAATTTATTTGAAAATTATTAACCGAACCAAATCAACCAATTTTTTCTT
*
3304216 TAACCATTAATCGAACCAAAATTATTTG
66 TAA-CACTAATCGAACCAAAATTATTTG
* * *
3304244 ACTGTTAATCGAACCAAAATTTATTTGAAAATTATTAA
1 ACCGTTAATCAAACCGAAATTTATTTGAAAATTATTAA
3304282 ACAAATTAAC
Statistics
Matches: 195, Mismatches: 13, Indels: 19
0.86 0.06 0.08
Matches are distributed among these distances:
80 12 0.06
81 57 0.29
89 8 0.04
92 48 0.25
93 2 0.01
94 68 0.35
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (92 bp):
ACCGTTAATCAAACCGAAATTTATTTGAAAATTATTAACCGAACCAAATCAACCAATTTTTTCTT
TAACACTAATCGAACCAAAATTATTTG
Found at i:3304236 original size:81 final size:80
Alignment explanation
Indices: 3304116--3304288 Score: 292
Period size: 81 Copynumber: 2.1 Consensus size: 80
3304106 ACCGAACCAA
* *
3304116 ATTAACCGAATTTTTTTCTTTAACATTAATCGAACCAAAATTATTTGACCGTTAATCGAACCGAA
1 ATTAACCAAATTTTTTTCTTTAACATTAATCGAACCAAAATTATTTGACCGTTAATCGAACCAAA
3304181 ATTTATTTAAAAATT
66 ATTTATTTAAAAATT
*
3304196 ATTAACCAAATTTTTTTCTTTAACCATTAATCGAACCAAAATTATTTGACTGTTAATCGAACCAA
1 ATTAACCAAATTTTTTTCTTTAA-CATTAATCGAACCAAAATTATTTGACCGTTAATCGAACCAA
*
3304261 AATTTATTTGAAAATT
65 AATTTATTTAAAAATT
*
3304277 ATTAAACAAATT
1 ATTAACCAAATT
3304289 AACCGAATAA
Statistics
Matches: 87, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
80 22 0.25
81 65 0.75
ACGTcount: A:0.40, C:0.14, G:0.06, T:0.39
Consensus pattern (80 bp):
ATTAACCAAATTTTTTTCTTTAACATTAATCGAACCAAAATTATTTGACCGTTAATCGAACCAAA
ATTTATTTAAAAATT
Found at i:3304278 original size:332 final size:332
Alignment explanation
Indices: 3303648--3304685 Score: 1318
Period size: 332 Copynumber: 3.1 Consensus size: 332
3303638 CAATTAAACA
* *
3303648 TTAATCGAACCGAAATTTATTTAAAAATTATTAACCGAACCAAATCAACCGATTTTTTTCTTTAA
1 TTAATCGAACCGAAATTTATTTGAAAATTATTAACCGAACCAAATCAACC-AATTTTTTCTTTAA
* *
3303713 CATTAATCGAAACGAAATTATATGA-TAGTTAATTGAACCGAAATTTATTTGAAAATTATTAACC
65 CATTAATCGAAACGAAATTATTTGACT-GTTAATCGAACCGAAATTTATTTGAAAATTATTAACC
* * * *
3303777 GAACCAAATTAACTGATTTTTTTTCTTTAACATTAATCGAAACGAAATTATTTAACCGTTAATCG
129 GAACCAAATTAACTGAATTTTTTTCTTTAACATTAATCGAACCAAAATTATTTGACCGTTAATCG
* *
3303842 AACCGAAATTTATTTAAAAATTATTAACCGAAA-TTTTTTCTTTAACCATTAATTGAACCAAAAA
194 AACCGAAATTTATTTAAAAATTATTAACC-AAATTTTTTTCTTTAACCATTAATCGAACCAAAAT
*
3303906 TATTTGACCGTTAATCGAACCCAAATTTATTTGAAAATTATTAACTGAATAAAATAAATTATTTT
258 TATTTGACCGTTAATCGAACCAAAATTTATTTGAAAATTATTAACTGAATAAAATAAATTATTTT
3303971 TCTTTAACCG
323 TCTTTAACCG
* * * * *
3303981 TTAATCAAACTGGAATTTGTTTGAAAATTATTAACCGATCCAAATCAACCAATTTTTTCTTTAAC
1 TTAATCGAACCGAAATTTATTTGAAAATTATTAACCGAACCAAATCAACCAATTTTTTCTTTAAC
* * * *
3304046 ACTAATCGAACCAAAATTATTTGACTGTTAATCAAACCGAAATTTATTTGAAAATTATTAACCGA
66 ATTAATCGAAACGAAATTATTTGACTGTTAATCGAACCGAAATTTATTTGAAAATTATTAACCGA
*
3304111 ACCAAATTAACCGAATTTTTTTCTTTAACATTAATCGAACCAAAATTATTTGACCGTTAATCGAA
131 ACCAAATTAACTGAATTTTTTTCTTTAACATTAATCGAACCAAAATTATTTGACCGTTAATCGAA
3304176 CCGAAATTTATTTAAAAATTATTAACCAAATTTTTTTCTTTAACCATTAATCGAACCAAAATTAT
196 CCGAAATTTATTTAAAAATTATTAACCAAATTTTTTTCTTTAACCATTAATCGAACCAAAATTAT
*
3304241 TTGACTGTTAATCGAACCAAAATTTATTTGAAAATTATTAAACAAATTAACCGAATAAAATAAAT
261 TTGACCGTTAATCGAACCAAAATTTATTTGAAAATTATT-AAC----T----GAATAAAATAAAT
3304306 TATTTTTCTTTAACCG
317 TATTTTTCTTTAACCG
*
3304322 TTAATCGAACCGAAATTTATTTGAAAATTATTAACCGAACCAAATTAACCAATTTTTTTCTTTAA
1 TTAATCGAACCGAAATTTATTTGAAAATTATTAACCGAACCAAATCAACCAA-TTTTTTCTTTAA
* *
3304387 CCATTAATC-AAATCGAAATTATTTGACCGTTAATCGAACCCAAATTTATTTGAAAATTATTAAC
65 -CATTAATCGAAA-CGAAATTATTTGACTGTTAATCGAACCGAAATTTATTTGAAAATTATTAAC
* * * * * * * **
3304451 CGAATTAACCGACTAAAATAAATTATTTTTCTTTAACCGTTATTCGAACCAAAATTTATTTGAAA
128 CG----AACCAAATTAACTGAATT-TTTTTCTTTAA-CATTAATCGAACCAAAA-TTATTTGACC
* * * ** * *
3304516 ATT-AT-TAAACG------A---ACCAA--ATCAACC-GATTTTTTTCTTTAACCATTAATCGAA
186 GTTAATCGAACCGAAATTTATTTAAAAATTATTAACCAAATTTTTTTCTTTAACCATTAATCGAA
* * *
3304567 CCGAAATTATTTGACCGTTAATCGAATCAAAATTTATTTGAAAATTATTACCTGAATAAAATAAA
251 CCAAAATTATTTGACCGTTAATCGAACCAAAATTTATTTGAAAATTATTAACTGAATAAAATAAA
* *
3304632 TTATTTTTTCCTTAAACG
316 TTA-TTTTTCTTTAACCG
* *
3304650 TTAATTGATCCGAAATTTATTTGAAAATTATTAACC
1 TTAATCGAACCGAAATTTATTTGAAAATTATTAACC
3304686 AAAATTTTTT
Statistics
Matches: 624, Mismatches: 59, Indels: 49
0.85 0.08 0.07
Matches are distributed among these distances:
327 15 0.02
328 46 0.07
331 4 0.01
332 227 0.36
333 48 0.08
335 2 0.00
336 72 0.12
337 7 0.01
339 3 0.00
341 75 0.12
342 15 0.02
343 56 0.09
347 12 0.02
348 15 0.02
349 17 0.03
350 10 0.02
ACGTcount: A:0.40, C:0.15, G:0.07, T:0.37
Consensus pattern (332 bp):
TTAATCGAACCGAAATTTATTTGAAAATTATTAACCGAACCAAATCAACCAATTTTTTCTTTAAC
ATTAATCGAAACGAAATTATTTGACTGTTAATCGAACCGAAATTTATTTGAAAATTATTAACCGA
ACCAAATTAACTGAATTTTTTTCTTTAACATTAATCGAACCAAAATTATTTGACCGTTAATCGAA
CCGAAATTTATTTAAAAATTATTAACCAAATTTTTTTCTTTAACCATTAATCGAACCAAAATTAT
TTGACCGTTAATCGAACCAAAATTTATTTGAAAATTATTAACTGAATAAAATAAATTATTTTTCT
TTAACCG
Found at i:3304385 original size:68 final size:72
Alignment explanation
Indices: 3304247--3304412 Score: 189
Period size: 74 Copynumber: 2.3 Consensus size: 72
3304237 TTATTTGACT
* ** * *
3304247 GTTAATCGAACCAAAATTTATTTGAAAATTATTAAACAAATTAACCGAATAAAATAAATTATTTT
1 GTTAATCGAACCGAAATTTATTTGAAAATTATTAAAC--ACGAACCAAATAAAACAAATTATTTT
3304312 TCTTTAACC
64 TCTTTAACC
* *
3304321 GTTAATCGAACCGAAATTTATTTGAAAATTATT-AAC-CGAACCAAAT-TAACCAATT-TTTTTC
1 GTTAATCGAACCGAAATTTATTTGAAAATTATTAAACACGAACCAAATAAAACAAATTATTTTTC
3304382 TTTAACC
66 TTTAACC
* * *
3304389 ATTAATCAAATCGAAA-TTATTTGA
1 GTTAATCGAACCGAAATTTATTTGA
3304413 CCGTTAATCG
Statistics
Matches: 82, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
67 8 0.10
68 26 0.32
69 6 0.07
70 7 0.09
73 3 0.04
74 32 0.39
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.37
Consensus pattern (72 bp):
GTTAATCGAACCGAAATTTATTTGAAAATTATTAAACACGAACCAAATAAAACAAATTATTTTTC
TTTAACC
Found at i:3304434 original size:168 final size:167
Alignment explanation
Indices: 3303864--3304685 Score: 873
Period size: 168 Copynumber: 5.0 Consensus size: 167
3303854 TTTAAAAATT
* * * * *
3303864 ATTAACCGAAATTTTTTCTTTAACCATTAATTGAACCAAAAATATTTGACCGTTAATCGAACCCA
1 ATTAACC-AATTTTTTTCTTTAACCATTAATCGAACCGAAATTATTTGACCGTTAATCGAACCAA
3303929 AATTTATTTGAAAATTATT-AAC---T----GAATAAAATAAATTATTTTTCTTTAACCGTTAAT
65 AATTTATTTGAAAATTATTAAACAATTAACCGAATAAAATAAATTATTTTTCTTTAACCGTTAAT
* * * * *
3303986 CAAACTGGAATTTGTTTGAAAATTATTAACCGATCCAA
130 CGAACCGAAATTTATTTGAAAATTATTAACCGAACCAA
* * * * * *
3304024 ATCAACCAA-TTTTTTCTTTAA-CACTAATCGAACCAAAATTATTTGACTGTTAATCAAACCGAA
1 ATTAACCAATTTTTTTCTTTAACCATTAATCGAACCGAAATTATTTGACCGTTAATCGAACCAAA
** * * *** *
3304087 ATTTATTTGAAAATTATT-AAC--CGAACCAAATTAACCGAATT-TTTTTCTTTAA-CATTAATC
66 ATTTATTTGAAAATTATTAAACAATTAACCGAATAAAATAAATTATTTTTCTTTAACCGTTAATC
* *** * **
3304147 GAACC-AAAATTATTTGACCGTTAATCGAACCGAAATTTATTTAAAAA
131 GAACCGAAATTTATTTGAAAATT-AT-TAACCG------A---ACCAA
* *
3304194 TTATTAACCAAATTTTTTTCTTTAACCATTAATCGAACCAAAATTATTTGACTGTTAATCGAACC
1 --ATTAACC-AATTTTTTTCTTTAACCATTAATCGAACCGAAATTATTTGACCGTTAATCGAACC
3304259 AAAATTTATTTGAAAATTATTAAACAAATTAACCGAATAAAATAAATTATTTTTCTTTAACCGTT
63 AAAATTTATTTGAAAATTATTAAAC-AATTAACCGAATAAAATAAATTATTTTTCTTTAACCGTT
3304324 AATCGAACCGAAATTTATTTGAAAATTATTAACCGAACCAA
127 AATCGAACCGAAATTTATTTGAAAATTATTAACCGAACCAA
* * *
3304365 ATTAACCAATTTTTTTCTTTAACCATTAATCAAATCGAAATTATTTGACCGTTAATCGAACCCAA
1 ATTAACCAATTTTTTTCTTTAACCATTAATCGAACCGAAATTATTTGACCGTTAATCGAACCAAA
* * *
3304430 ATTTATTTGAAAATTATTAACCGAATTAACCGACTAAAATAAATTATTTTTCTTTAACCGTTATT
66 ATTTATTTGAAAATTATTAAAC-AATTAACCGAATAAAATAAATTATTTTTCTTTAACCGTTAAT
* *
3304495 CGAACCAAAATTTATTTGAAAATTATTAAACGAACCAA
130 CGAACCGAAATTTATTTGAAAATTATTAACCGAACCAA
* * *
3304533 ATCAACCGATTTTTTTCTTTAACCATTAATCGAACCGAAATTATTTGACCGTTAATCGAATCAAA
1 ATTAACCAATTTTTTTCTTTAACCATTAATCGAACCGAAATTATTTGACCGTTAATCGAACCAAA
* * *
3304598 ATTTATTTGAAAATTATT--AC------CTGAATAAAATAAATTATTTTTTCCTTAAACGTTAAT
66 ATTTATTTGAAAATTATTAAACAATTAACCGAATAAAATAAATTA-TTTTTCTTTAACCGTTAAT
* *
3304655 TGATCCGAAATTTATTTGAAAATTATTAACC
130 CGAACCGAAATTTATTTGAAAATTATTAACC
3304686 AAAATTTTTT
Statistics
Matches: 561, Mismatches: 72, Indels: 58
0.81 0.10 0.08
Matches are distributed among these distances:
157 57 0.10
158 12 0.02
159 28 0.05
160 61 0.11
161 16 0.03
162 9 0.02
166 1 0.00
167 1 0.00
168 227 0.40
169 7 0.01
170 2 0.00
171 3 0.01
172 6 0.01
173 2 0.00
174 13 0.02
175 57 0.10
176 3 0.01
179 13 0.02
180 16 0.03
181 14 0.02
182 13 0.02
ACGTcount: A:0.40, C:0.15, G:0.07, T:0.37
Consensus pattern (167 bp):
ATTAACCAATTTTTTTCTTTAACCATTAATCGAACCGAAATTATTTGACCGTTAATCGAACCAAA
ATTTATTTGAAAATTATTAAACAATTAACCGAATAAAATAAATTATTTTTCTTTAACCGTTAATC
GAACCGAAATTTATTTGAAAATTATTAACCGAACCAA
Found at i:3310982 original size:107 final size:107
Alignment explanation
Indices: 3310770--3310982 Score: 241
Period size: 107 Copynumber: 2.0 Consensus size: 107
3310760 TATATATTTA
*
3310770 AATAACATATTTATTTATTTAGAAATATCAGAAAAGGGCTTCTAGGTACTTTAAGAAAGCTCTTT
1 AATAACATATTTATTTATTTAAAAATATCAGAAAAGGGCTTCTAGGTACTTTAAGAAAGCTCTTT
* ** * * ***
3310835 CTTTTGATATTAAATAAAAAATTAAAAAAGTTATTTTAATAT
66 CCTTCAATATTAAATAAAAAATTAAAAAACTAAACATAATAT
* * * ** *
3310877 AATAAGATATTTATTTATTTAAAAATATTAGAAAAGGGCTTCTAGTTGTTTTAAGACAGCTCTTT
1 AATAACATATTTATTTATTTAAAAATATCAGAAAAGGGCTTCTAGGTACTTTAAGAAAGCTCTTT
* *
3310942 CCTTCAATATTTAAA-AATAAA-TAAATAACTAAAACATAATA
66 CCTTCAATA-TTAAATAAAAAATTAAAAAACT-AAACATAATA
3310983 ATAAAATAAA
Statistics
Matches: 87, Mismatches: 17, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
106 7 0.08
107 75 0.86
108 5 0.06
ACGTcount: A:0.44, C:0.08, G:0.09, T:0.38
Consensus pattern (107 bp):
AATAACATATTTATTTATTTAAAAATATCAGAAAAGGGCTTCTAGGTACTTTAAGAAAGCTCTTT
CCTTCAATATTAAATAAAAAATTAAAAAACTAAACATAATAT
Found at i:3312409 original size:7 final size:7
Alignment explanation
Indices: 3312399--3312464 Score: 56
Period size: 6 Copynumber: 10.4 Consensus size: 7
3312389 TTGGGCTTTG
*
3312399 TAATATT
1 TAATATA
*
3312406 TAATAAA
1 TAATATA
3312413 TAATATA
1 TAATATA
3312420 TAATAT-
1 TAATATA
3312426 TAATA-A
1 TAATATA
3312432 TAATA-A
1 TAATATA
3312438 TAATA-A
1 TAATATA
*
3312444 TAAT-TT
1 TAATATA
3312450 TAATA-A
1 TAATATA
3312456 TAATA-A
1 TAATATA
3312462 TAA
1 TAA
3312465 ATTTAAATTT
Statistics
Matches: 51, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
6 34 0.67
7 17 0.33
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (7 bp):
TAATATA
Found at i:3312432 original size:3 final size:3
Alignment explanation
Indices: 3312406--3312464 Score: 73
Period size: 3 Copynumber: 19.0 Consensus size: 3
3312396 TTGTAATATT
* **
3312406 TAA TAAA TAA TATA TAA TAT TAA TAA TAA TAA TAA TAA TAA TTT TAA
1 TAA T-AA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
3312453 TAA TAA TAA TAA
1 TAA TAA TAA TAA
3312465 ATTTAAATTT
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
3 42 0.88
4 6 0.12
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:3312650 original size:45 final size:45
Alignment explanation
Indices: 3312599--3312698 Score: 191
Period size: 45 Copynumber: 2.2 Consensus size: 45
3312589 GATAGAAATG
*
3312599 TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
1 TTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTT
3312644 TTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTT
1 TTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTT
3312689 TTGAAAACAT
1 TTGAAAACAT
3312699 AAAAAAGCTC
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 54 1.00
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.23
Consensus pattern (45 bp):
TTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTT
Found at i:3313616 original size:76 final size:76
Alignment explanation
Indices: 3312634--3313589 Score: 1700
Period size: 76 Copynumber: 12.6 Consensus size: 76
3312624 TTACAGATGA
* * * *
3312634 CCCGAAGG--TTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
*
3312697 ATAAAAAAGCT
66 ATCAAAAAGCT
3312708 CCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
3312773 ATCAAAAAGCT
66 ATCAAAAAGCT
* * * *
3312784 CCCGAAGACTTTTTGGAAATATCATGCACTGTAGGACTTACAGATGACCTTAAGGCTTTGAGAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
3312849 ATCAAAAAGCT
66 ATCAAAAAGCT
* * *
3312860 CCCGAAGGCTTTTTAGAAATATCATGCACTGTAGGACTTACAGATGACCTTAAGGCTTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
3312925 ATCAAAAAGCT
66 ATCAAAAAGCT
*
3312936 CCTGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
3313001 ATCAAAAAGCT
66 ATCAAAAAGCT
*
3313012 CCAGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
*
3313077 ATCAAAAGGCT
66 ATCAAAAAGCT
*
3313088 CCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGTTTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
3313153 ATCAAAAAGCT
66 ATCAAAAAGCT
3313164 CCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
3313229 ATCAAAAAGCT
66 ATCAAAAAGCT
3313240 CCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
3313305 ATCAAAAAGCT
66 ATCAAAAAGCT
* *
3313316 CCCGAAAGCTTTTTGGAAACATCATGCACTGTAGGACATACAGATGACCCTAAGGCTTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
3313381 ATCAAAAAGCT
66 ATCAAAAAGCT
*
3313392 CCCGAAGGTTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
3313457 ATCAAAAAGCT
66 ATCAAAAAGCT
* *
3313468 CCCGAAGGTTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGTTTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
3313533 ATCAAAAAGCT
66 ATCAAAAAGCT
*
3313544 CCCGAAGGGTTTTTGGAAACATCATGCACTGTAGGACTTACAGATG
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATG
3313590 TGGGAAATAG
Statistics
Matches: 851, Mismatches: 29, Indels: 2
0.96 0.03 0.00
Matches are distributed among these distances:
74 8 0.01
76 843 0.99
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.24
Consensus pattern (76 bp):
CCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
ATCAAAAAGCT
Found at i:3314290 original size:22 final size:22
Alignment explanation
Indices: 3314265--3314341 Score: 136
Period size: 22 Copynumber: 3.5 Consensus size: 22
3314255 AATAAAGCTT
*
3314265 TCATCTTTGAAAAGGGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
*
3314287 TCATCTTTAAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
3314309 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
3314331 TCATCTTTGAA
1 TCATCTTTGAA
3314342 GAGTGTAGAT
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 52 1.00
ACGTcount: A:0.39, C:0.14, G:0.13, T:0.34
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:3316919 original size:114 final size:114
Alignment explanation
Indices: 3316719--3316938 Score: 359
Period size: 114 Copynumber: 1.9 Consensus size: 114
3316709 GATCATGCAG
* * * *
3316719 TTCATCTTTCAATTCTAATGATTGGTTCTGGGGTTCCTACCGAACCAGATCAGATAACTTAAAGA
1 TTCATCTTTCAAATCTAATGATTGGTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
* * *
3316784 ACACTTTCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
66 ACACTTCCAGAAGATACTATTGAGTCTCCTTATTTCTACTATGAGCAAA
*
3316833 TTCATCTTTCAAATCTAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCTAATGATTGGTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
*
3316898 ATACTTCCAGAAGATACTATTGAGTCTCCTTATTTCTACTA
66 ACACTTCCAGAAGATACTATTGAGTCTCCTTATTTCTACTA
3316939 CGAGAACGTG
Statistics
Matches: 97, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
114 97 1.00
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (114 bp):
TTCATCTTTCAAATCTAATGATTGGTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
ACACTTCCAGAAGATACTATTGAGTCTCCTTATTTCTACTATGAGCAAA
Found at i:3319101 original size:8 final size:8
Alignment explanation
Indices: 3319088--3319176 Score: 85
Period size: 8 Copynumber: 10.6 Consensus size: 8
3319078 AATTTCTCCT
3319088 TTTTTTTC
1 TTTTTTTC
3319096 TTTTTTTC
1 TTTTTTTC
3319104 ATTTTTTTTTTC
1 ----TTTTTTTC
3319116 ATTTTTTTC
1 -TTTTTTTC
3319125 TTTTTTTC
1 TTTTTTTC
3319133 TTTTTTTC
1 TTTTTTTC
3319141 TTTTTTT-
1 TTTTTTTC
3319148 TGTTTTTT-
1 T-TTTTTTC
3319156 TTTTCTTT-
1 TTTT-TTTC
*
3319164 TTTCTTTC
1 TTTTTTTC
3319172 TTTTT
1 TTTTT
3319177 CCTTTTTCTT
Statistics
Matches: 71, Mismatches: 3, Indels: 14
0.81 0.03 0.16
Matches are distributed among these distances:
7 7 0.10
8 48 0.68
9 8 0.11
12 8 0.11
ACGTcount: A:0.02, C:0.10, G:0.01, T:0.87
Consensus pattern (8 bp):
TTTTTTTC
Found at i:3319110 original size:11 final size:10
Alignment explanation
Indices: 3319087--3319176 Score: 86
Period size: 10 Copynumber: 9.4 Consensus size: 10
3319077 CAATTTCTCC
3319087 TTTTTTTTCT
1 TTTTTTTTCT
*
3319097 TTTTTTCAT-T
1 TTTTTT-TTCT
3319107 TTTTTTTTC-
1 TTTTTTTTCT
*
3319116 ATTTTTTTC-
1 TTTTTTTTCT
3319125 -TTTTTTTC-
1 TTTTTTTTCT
3319133 -TTTTTTTCT
1 TTTTTTTTCT
3319142 TTTTTTTGT-T
1 TTTTTTT-TCT
3319152 TTTTTTTTCT
1 TTTTTTTTCT
3319162 TTTTTCTTTCT
1 TTTTT-TTTCT
3319173 TTTT
1 TTTT
3319177 CCTTTTTCTT
Statistics
Matches: 70, Mismatches: 3, Indels: 13
0.81 0.03 0.15
Matches are distributed among these distances:
8 16 0.23
9 10 0.14
10 33 0.47
11 11 0.16
ACGTcount: A:0.02, C:0.10, G:0.01, T:0.87
Consensus pattern (10 bp):
TTTTTTTTCT
Found at i:3319134 original size:37 final size:36
Alignment explanation
Indices: 3319088--3319175 Score: 126
Period size: 36 Copynumber: 2.4 Consensus size: 36
3319078 AATTTCTCCT
3319088 TTTTTTTCTTTTTTTCATTTTTTTT-TTCATTTTTTTC
1 TTTTTTTCTTTTTTTC-TTTTTTTTGTT-ATTTTTTTC
*
3319125 TTTTTTTCTTTTTTTCTTTTTTTTGTTTTTTTTTTC
1 TTTTTTTCTTTTTTTCTTTTTTTTGTTATTTTTTTC
3319161 -TTTTTTCTTTCTTTT
1 TTTTTTTCTTT-TTTT
3319176 TCCTTTTTCT
Statistics
Matches: 48, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
35 10 0.21
36 20 0.42
37 18 0.38
ACGTcount: A:0.02, C:0.10, G:0.01, T:0.86
Consensus pattern (36 bp):
TTTTTTTCTTTTTTTCTTTTTTTTGTTATTTTTTTC
Found at i:3319176 original size:17 final size:16
Alignment explanation
Indices: 3319086--3319191 Score: 88
Period size: 17 Copynumber: 6.2 Consensus size: 16
3319076 TCAATTTCTC
*
3319086 CTTTTTTTTCTTTTTTT
1 CTTTTTTTT-TTTCTTT
*
3319103 CATTTTTTTTTTCATTT
1 CTTTTTTTTTTTC-TTT
3319120 -TTTTCTTTTTTTCTTT
1 CTTTT-TTTTTTTCTTT
* *
3319136 TTTTCTTTTTTTTGTTTT
1 CTTT-TTTTTTTT-CTTT
*
3319154 TTTTTTCTTTTTTCTTT
1 CTTTTT-TTTTTTCTTT
*
3319171 CTTTTTCCTTTTTCTTT
1 CTTTTT-TTTTTTCTTT
3319188 CTTT
1 CTTT
3319192 GCTGGATGAG
Statistics
Matches: 76, Mismatches: 7, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
16 9 0.12
17 53 0.70
18 14 0.18
ACGTcount: A:0.02, C:0.13, G:0.01, T:0.84
Consensus pattern (16 bp):
CTTTTTTTTTTTCTTT
Found at i:3319176 original size:37 final size:36
Alignment explanation
Indices: 3319089--3319188 Score: 116
Period size: 36 Copynumber: 2.8 Consensus size: 36
3319079 ATTTCTCCTT
3319089 TTTTTTC-TTTTTTTCATTTTTTTTTTCATTTTTTTC
1 TTTTTTCTTTTTTTTC-TTTTTTTTTTCATTTTTTTC
*
3319125 TTTTTT-TCTTTTTTTCTTTTTTTTGTT-TTTTTTTTC
1 TTTTTTCT-TTTTTTTCTTTTTTTT-TTCATTTTTTTC
* *
3319161 TTTTTTCTTTCTTTTTCCTTTTTCTTTC
1 TTTTTTCTTT-TTTTTCTTTTTTTTTTC
3319189 TTTGCTGGAT
Statistics
Matches: 55, Mismatches: 3, Indels: 11
0.80 0.04 0.16
Matches are distributed among these distances:
36 32 0.58
37 23 0.42
ACGTcount: A:0.02, C:0.13, G:0.01, T:0.84
Consensus pattern (36 bp):
TTTTTTCTTTTTTTTCTTTTTTTTTTCATTTTTTTC
Found at i:3319177 original size:45 final size:45
Alignment explanation
Indices: 3319089--3319175 Score: 133
Period size: 45 Copynumber: 2.0 Consensus size: 45
3319079 ATTTCTCCTT
3319089 TTTTTTCTTTTTTTCATTTTTTTTTTCATTTTTTTCTTTTTTTCT
1 TTTTTTCTTTTTTTCATTTTTTTTTTCATTTTTTTCTTTTTTTCT
**
3319134 TTTTTTCTTTTTTTTGTTTTTTTTTTC--TTTTTTCTTTCTTTT
1 TTTTTTCTTTTTTTCATTTTTTTTTTCATTTTTTTCTTT-TTTT
3319176 TCCTTTTTCT
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
43 10 0.26
44 4 0.10
45 25 0.64
ACGTcount: A:0.02, C:0.10, G:0.01, T:0.86
Consensus pattern (45 bp):
TTTTTTCTTTTTTTCATTTTTTTTTTCATTTTTTTCTTTTTTTCT
Found at i:3319183 original size:1 final size:1
Alignment explanation
Indices: 3319087--3319176 Score: 72
Period size: 1 Copynumber: 90.0 Consensus size: 1
3319077 CAATTTCTCC
* ** ** * * * *
3319087 TTTTTTTTCTTTTTTTCATTTTTTTTTTCATTTTTTTCTTTTTTTCTTTTTTTCTTTTTTTTGTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * *
3319152 TTTTTTTTCTTTTTTCTTTCTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
3319177 CCTTTTTCTT
Statistics
Matches: 67, Mismatches: 22, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 67 1.00
ACGTcount: A:0.02, C:0.10, G:0.01, T:0.87
Consensus pattern (1 bp):
T
Found at i:3319183 original size:45 final size:45
Alignment explanation
Indices: 3319089--3319187 Score: 132
Period size: 45 Copynumber: 2.2 Consensus size: 45
3319079 ATTTCTCCTT
*
3319089 TTTTTTCTTTTTTTCATTTTTTTTTTCATTTTTTTCTTTTTTTCT
1 TTTTTTCTTTTTTTCATTTTTTTTTTCATTTTTTTCTTTTTTTCC
**
3319134 TTTTTTCTTTTTTTTGTTTTTTTTTTC--TTTTTTCTTTCTTTTTCC
1 TTTTTTCTTTTTTTCATTTTTTTTTTCATTTTTTTC-TT-TTTTTCC
3319179 -TTTTTCTTT
1 TTTTTTCTTT
3319188 CTTTGCTGGA
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
43 7 0.14
44 11 0.22
45 31 0.63
ACGTcount: A:0.02, C:0.12, G:0.01, T:0.85
Consensus pattern (45 bp):
TTTTTTCTTTTTTTCATTTTTTTTTTCATTTTTTTCTTTTTTTCC
Found at i:3319188 original size:28 final size:26
Alignment explanation
Indices: 3319086--3319191 Score: 99
Period size: 28 Copynumber: 3.9 Consensus size: 26
3319076 TCAATTTCTC
*
3319086 CTTTTTTTTCTTTTTTTCATTTTTTTTTT
1 CTTTTTTTTC--TTTTTC-TTTCTTTTTT
*
3319115 CATTTTTTTC-TTTT-TTTCTTTTTTT
1 CTTTTTTTTCTTTTTCTTTC-TTTTTT
* *
3319140 CTTTTTTTTGTTTTTTTTTTCTTTTTT
1 CTTTTTTTT-CTTTTTCTTTCTTTTTT
3319167 CTTTCTTTTTCCTTTTTCTTTCTTT
1 CTTT-TTTTT-CTTTTTCTTTCTTT
3319192 GCTGGATGAG
Statistics
Matches: 65, Mismatches: 7, Indels: 11
0.78 0.08 0.13
Matches are distributed among these distances:
24 3 0.05
25 14 0.22
26 4 0.06
27 14 0.22
28 21 0.32
29 9 0.14
ACGTcount: A:0.02, C:0.13, G:0.01, T:0.84
Consensus pattern (26 bp):
CTTTTTTTTCTTTTTCTTTCTTTTTT
Found at i:3324489 original size:28 final size:26
Alignment explanation
Indices: 3324434--3324491 Score: 71
Period size: 28 Copynumber: 2.2 Consensus size: 26
3324424 AAATATTAAT
* *
3324434 AAAATAATATATATATAAATACTATG
1 AAAATAATATATATATAAAAAATATG
*
3324460 AAAATAATAAGTATATATAAAAAATTTG
1 AAAATAAT-A-TATATATAAAAAATATG
3324488 AAAA
1 AAAA
3324492 GAAAGAATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 8 0.30
27 1 0.04
28 18 0.67
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (26 bp):
AAAATAATATATATATAAAAAATATG
Found at i:3326629 original size:7 final size:7
Alignment explanation
Indices: 3326619--3326674 Score: 50
Period size: 6 Copynumber: 8.7 Consensus size: 7
3326609 TTGGGCTTTG
*
3326619 TAATATT
1 TAATATA
*
3326626 TAATAAA
1 TAATATA
3326633 TAATATA
1 TAATATA
3326640 TAATAT-
1 TAATATA
3326646 TAATA-A
1 TAATATA
3326652 TAATA-A
1 TAATATA
*
3326658 TAAT-TT
1 TAATATA
3326664 TAATA-A
1 TAATATA
3326670 TAATA
1 TAATA
3326675 ATTTTAATAA
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
6 24 0.59
7 17 0.41
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
TAATATA
Found at i:3326652 original size:3 final size:3
Alignment explanation
Indices: 3326626--3326693 Score: 73
Period size: 3 Copynumber: 22.0 Consensus size: 3
3326616 TTGTAATATT
* **
3326626 TAA TAAA TAA TATA TAA TAT TAA TAA TAA TAA TAA TTT TAA TAA TAA
1 TAA T-AA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
**
3326673 TAA TTT TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA
3326694 ATTTAAATTT
Statistics
Matches: 53, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
3 47 0.89
4 6 0.11
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (3 bp):
TAA
Found at i:3326666 original size:18 final size:18
Alignment explanation
Indices: 3326619--3326699 Score: 96
Period size: 18 Copynumber: 4.5 Consensus size: 18
3326609 TTGGGCTTTG
3326619 TAATATTTAATAAATAATATA
1 TAAT-TTTAAT-AATAATA-A
*
3326640 TAATATTAATAATAATAA
1 TAATTTTAATAATAATAA
3326658 TAA-TTT--TAATAATAA
1 TAATTTTAATAATAATAA
3326673 TAATTTTAATAATAATAA
1 TAATTTTAATAATAATAA
*
3326691 TAAATTTAA
1 TAATTTTAA
3326700 ATTTAAAATG
Statistics
Matches: 54, Mismatches: 3, Indels: 9
0.82 0.05 0.14
Matches are distributed among these distances:
15 12 0.22
16 3 0.06
17 2 0.04
18 21 0.39
19 7 0.13
20 5 0.09
21 4 0.07
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
TAATTTTAATAATAATAA
Found at i:3328736 original size:25 final size:26
Alignment explanation
Indices: 3328685--3328736 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
3328675 AAGATTTAAG
*** *
3328685 ATTTTATTTTTCTATATTTAATCAAA
1 ATTTTATTTTTCTATAAAAAATAAAA
3328711 ATTTTATTTTTCT-TAAAAAATAAAA
1 ATTTTATTTTTCTATAAAAAATAAAA
3328736 A
1 A
3328737 AATTATATTG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (26 bp):
ATTTTATTTTTCTATAAAAAATAAAA
Found at i:3342674 original size:23 final size:22
Alignment explanation
Indices: 3342648--3342691 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
3342638 GCACCGAAGT
*
3342648 ACCACGTAGAAATGTCCATAAGG
1 ACCACATAGAAAT-TCCATAAGG
*
3342671 ACCACATAGAAATTCCTTAAG
1 ACCACATAGAAATTCCATAAG
3342692 AATCATATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.41, C:0.23, G:0.16, T:0.20
Consensus pattern (22 bp):
ACCACATAGAAATTCCATAAGG
Found at i:3343205 original size:2 final size:2
Alignment explanation
Indices: 3343172--3343197 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3343162 TCATATAGTC
3343172 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
3343198 AAATATATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3343797 original size:9 final size:9
Alignment explanation
Indices: 3343785--3343825 Score: 50
Period size: 8 Copynumber: 4.8 Consensus size: 9
3343775 ATGTTTCATG
*
3343785 TATATCATA
1 TATATCACA
3343794 TATATCACA
1 TATATCACA
3343803 TAT-TCACA
1 TATATCACA
3343811 TATA-CACA
1 TATATCACA
*
3343819 TAGATCA
1 TATATCA
3343826 TTTGTATTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
8 15 0.54
9 13 0.46
ACGTcount: A:0.44, C:0.20, G:0.02, T:0.34
Consensus pattern (9 bp):
TATATCACA
Found at i:3347687 original size:23 final size:23
Alignment explanation
Indices: 3347661--3347762 Score: 114
Period size: 23 Copynumber: 4.4 Consensus size: 23
3347651 CACCACAGCT
*
3347661 CGTATAAATGCACCGAAGTACCA
1 CGTAGAAATGCACCGAAGTACCA
* * * *
3347684 CGTAGGATTGCACAGAAGTGCCA
1 CGTAGAAATGCACCGAAGTACCA
* * * * *
3347707 TGTAGGATTGCACCGAAATACCG
1 CGTAGAAATGCACCGAAGTACCA
3347730 CGTAGAAATGCACCGAAGTACCA
1 CGTAGAAATGCACCGAAGTACCA
3347753 CGTAGAAATG
1 CGTAGAAATG
3347763 TACATAAGGA
Statistics
Matches: 64, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 64 1.00
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.18
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTACCA
Found at i:3348359 original size:2 final size:2
Alignment explanation
Indices: 3348273--3348351 Score: 158
Period size: 2 Copynumber: 39.5 Consensus size: 2
3348263 TCATATAGTT
3348273 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
3348315 TA 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 TA T
3348352 CAATATATCA
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 77 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3351746 original size:21 final size:21
Alignment explanation
Indices: 3351694--3351749 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
3351684 GTATATTCAT
* *
3351694 AGCTATTTCAGATGGGATTAC
1 AGCTATTTCAGATGGCACTAC
* *
3351715 AGCCATATCAGATGGCACTAC
1 AGCTATTTCAGATGGCACTAC
*
3351736 AGTTATTTCAGATG
1 AGCTATTTCAGATG
3351750 CCACCGTAGT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.30
Consensus pattern (21 bp):
AGCTATTTCAGATGGCACTAC
Found at i:3354585 original size:22 final size:24
Alignment explanation
Indices: 3354560--3354609 Score: 68
Period size: 22 Copynumber: 2.1 Consensus size: 24
3354550 TTTTAAATCA
*
3354560 AATTATAAAT-CATAAAATTT-AT
1 AATTATAAATAAATAAAATTTAAT
3354582 AATTATAAATAAAATAAAATTTAAT
1 AATTATAAAT-AAATAAAATTTAAT
3354607 AAT
1 AAT
3354610 GTAAAAAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 10 0.42
24 9 0.38
25 5 0.21
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (24 bp):
AATTATAAATAAATAAAATTTAAT
Found at i:3355553 original size:16 final size:16
Alignment explanation
Indices: 3355528--3355558 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
3355518 TGTCAATTTT
*
3355528 ATTATTTATTATTTAC
1 ATTATATATTATTTAC
3355544 ATTATATATTATTTA
1 ATTATATATTATTTA
3355559 TGTTACATAT
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:0.03, G:0.00, T:0.61
Consensus pattern (16 bp):
ATTATATATTATTTAC
Found at i:3356221 original size:50 final size:50
Alignment explanation
Indices: 3356163--3356288 Score: 139
Period size: 50 Copynumber: 2.5 Consensus size: 50
3356153 TTAGAAGAAA
* * * *
3356163 AGCGCGCCCCCTGCACCGCGCTATATGCTGATTTGGCGTCACGTGGGTAT
1 AGCGCGCCCCCTGCACCGCGCTATACGCTGATCTAGCGCCACGTGGGTAT
* * *
3356213 AGCGCGCCCCATGTC-CCGCGATATACGGTGATCTAGCGCCACGTGGGTAT
1 AGCGCGCCCCCTG-CACCGCGCTATACGCTGATCTAGCGCCACGTGGGTAT
* *
3356263 AGCGCACTCCCTG-ATCCGCGCTATAC
1 AGCGCGCCCCCTGCA-CCGCGCTATAC
3356289 CTGGATATCT
Statistics
Matches: 62, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
50 61 0.98
51 1 0.02
ACGTcount: A:0.17, C:0.34, G:0.28, T:0.21
Consensus pattern (50 bp):
AGCGCGCCCCCTGCACCGCGCTATACGCTGATCTAGCGCCACGTGGGTAT
Found at i:3356441 original size:20 final size:19
Alignment explanation
Indices: 3356410--3356448 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
3356400 TTATCACACC
*
3356410 AAATTTTCTCAAATTCTCT
1 AAATTTTCTCAAATACTCT
3356429 AAATTTCTCTCAAATACTCT
1 AAATTT-TCTCAAATACTCT
3356449 CTTTTTAAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.44
Consensus pattern (19 bp):
AAATTTTCTCAAATACTCT
Found at i:3356716 original size:111 final size:111
Alignment explanation
Indices: 3356575--3356796 Score: 376
Period size: 111 Copynumber: 2.0 Consensus size: 111
3356565 TGGAAATCAT
* *
3356575 ATATCTCTACACTTTGCTGATAAGGTAACATTTTAATGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATAAGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
* *
3356640 TATTTAGTTGATTTA-TTATATGCATGATTATTAGATTAAGAATTAA
66 TAATTAGTTGATTCATTTA-ATGCATGATTATTAGATTAAGAATTAA
3356686 ATATCTCGACACTTTGCTGATACA-GTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTA
1 ATATCTCGACACTTTGCTGATA-AGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTA
3356750 ATAATTAGTTGATTCATTTAATGCATGATTATTAGATTAAGAATTAA
65 ATAATTAGTTGATTCATTTAATGCATGATTATTAGATTAAGAATTAA
3356797 TTTTTGTAAT
Statistics
Matches: 105, Mismatches: 4, Indels: 4
0.93 0.04 0.04
Matches are distributed among these distances:
111 101 0.96
112 4 0.04
ACGTcount: A:0.36, C:0.08, G:0.11, T:0.45
Consensus pattern (111 bp):
ATATCTCGACACTTTGCTGATAAGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
TAATTAGTTGATTCATTTAATGCATGATTATTAGATTAAGAATTAA
Found at i:3358314 original size:18 final size:18
Alignment explanation
Indices: 3358291--3358327 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
3358281 CCAGCAGCCA
3358291 CTGCAGCCATATATGATG
1 CTGCAGCCATATATGATG
3358309 CTGCAGCCATATATGATG
1 CTGCAGCCATATATGATG
3358327 C
1 C
3358328 CGCCATCGCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (18 bp):
CTGCAGCCATATATGATG
Found at i:3358689 original size:6 final size:6
Alignment explanation
Indices: 3358678--3358731 Score: 54
Period size: 6 Copynumber: 9.0 Consensus size: 6
3358668 ACCTGCTCAG
* * * * * *
3358678 GATGAC GATGAC GACGAT GATGAT GGTGAC GACGAC GATGAC GATGAT
1 GATGAC GATGAC GATGAC GATGAC GATGAC GATGAC GATGAC GATGAC
3358726 GATGAC
1 GATGAC
3358732 AACGAGGAGT
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.31, C:0.15, G:0.35, T:0.19
Consensus pattern (6 bp):
GATGAC
Found at i:3358707 original size:24 final size:24
Alignment explanation
Indices: 3358682--3358736 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
3358672 GCTCAGGATG
* * *
3358682 ACGATGACGACGATGATGATGGTG
1 ACGACGACGACGACGATGATGATG
*
3358706 ACGACGACGATGACGATGATGATG
1 ACGACGACGACGACGATGATGATG
*
3358730 ACAACGA
1 ACGACGA
3358737 GGAGTCAGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.35, C:0.16, G:0.33, T:0.16
Consensus pattern (24 bp):
ACGACGACGACGACGATGATGATG
Found at i:3358726 original size:9 final size:9
Alignment explanation
Indices: 3358678--3358727 Score: 55
Period size: 9 Copynumber: 5.6 Consensus size: 9
3358668 ACCTGCTCAG
3358678 GATGACGAT
1 GATGACGAT
*
3358687 GACGACGAT
1 GATGACGAT
* *
3358696 GATGATGGT
1 GATGACGAT
* *
3358705 GACGACGAC
1 GATGACGAT
3358714 GATGACGAT
1 GATGACGAT
3358723 GATGA
1 GATGA
3358728 TGACAACGAG
Statistics
Matches: 31, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
9 31 1.00
ACGTcount: A:0.32, C:0.14, G:0.36, T:0.18
Consensus pattern (9 bp):
GATGACGAT
Found at i:3358736 original size:21 final size:21
Alignment explanation
Indices: 3358678--3358736 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
3358668 ACCTGCTCAG
* *
3358678 GATGACGATGACGACGATGAT
1 GATGATGATGACGACGATGAC
* *
3358699 GATGGTGACGACGACGATGAC
1 GATGATGATGACGACGATGAC
*
3358720 GATGATGATGACAACGA
1 GATGATGATGACGACGA
3358737 GGAGTCAGAA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.34, C:0.15, G:0.34, T:0.17
Consensus pattern (21 bp):
GATGATGATGACGACGATGAC
Found at i:3362658 original size:50 final size:50
Alignment explanation
Indices: 3362587--3362709 Score: 151
Period size: 50 Copynumber: 2.5 Consensus size: 50
3362577 TAATTTCGGA
*
3362587 GTATAACGCGGATCAGAGGGCGCGCTATACCCACGTGACGCCAGATCACC
1 GTATAACGCGGATCAGAGGGCGCGCTATACCCACGTGACGCCAAATCACC
* * * *
3362637 GTATATCGCTGGA-CAGGGGGCGCGCTATACCCACGTGGCGCCAAATCAGC
1 GTATAACGC-GGATCAGAGGGCGCGCTATACCCACGTGACGCCAAATCACC
* *
3362687 ATATAACGTGG-TGCAGAGGGCGC
1 GTATAACGCGGAT-CAGAGGGCGC
3362710 ACTTTTCTAC
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
49 2 0.03
50 56 0.92
51 3 0.05
ACGTcount: A:0.24, C:0.28, G:0.32, T:0.15
Consensus pattern (50 bp):
GTATAACGCGGATCAGAGGGCGCGCTATACCCACGTGACGCCAAATCACC
Found at i:3365568 original size:125 final size:125
Alignment explanation
Indices: 3365346--3365588 Score: 477
Period size: 125 Copynumber: 1.9 Consensus size: 125
3365336 GTGTACATTC
3365346 AGCTAATCGATGCTTCAGATGGTTAGCTCAAAGTCGAGCAAGATGATGTTGAAGGATCATACAAA
1 AGCTAATCGATGCTTCAGATGGTTAGCTCAAAGTCGAGCAAGATGATGTTGAAGGATCATACAAA
3365411 GCAGGAAGCAAGTATTTCCTGCCATTGTCACCATGAGCATTGTAGCTAGCACCGATGGTT
66 GCAGGAAGCAAGTATTTCCTGCCATTGTCACCATGAGCATTGTAGCTAGCACCGATGGTT
*
3365471 AGCTAATCGATGCTTCAGGTGGTTAGCTCAAAGTCGAGCAAGATGATGTTGAAGGATCATACAAA
1 AGCTAATCGATGCTTCAGATGGTTAGCTCAAAGTCGAGCAAGATGATGTTGAAGGATCATACAAA
3365536 GCAGGAAGCAAGTATTTCCTGCCATTGTCACCATGAGCATTGTAGCTAGCACC
66 GCAGGAAGCAAGTATTTCCTGCCATTGTCACCATGAGCATTGTAGCTAGCACC
3365589 CGTTGTTGCG
Statistics
Matches: 117, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
125 117 1.00
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (125 bp):
AGCTAATCGATGCTTCAGATGGTTAGCTCAAAGTCGAGCAAGATGATGTTGAAGGATCATACAAA
GCAGGAAGCAAGTATTTCCTGCCATTGTCACCATGAGCATTGTAGCTAGCACCGATGGTT
Found at i:3376348 original size:2 final size:2
Alignment explanation
Indices: 3376341--3376404 Score: 80
Period size: 2 Copynumber: 33.5 Consensus size: 2
3376331 CATATGTAAA
*
3376341 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
3376383 -T AT A- AT GT AA AT AT AT -T AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
3376405 ATGTTAAAGG
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
1 3 0.06
2 50 0.94
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:3376953 original size:105 final size:105
Alignment explanation
Indices: 3376751--3377299 Score: 818
Period size: 105 Copynumber: 5.2 Consensus size: 105
3376741 ACCAATCTGT
* * **
3376751 TTGTGAAGTTGGAAA-TGGCTATGGAATTGAGAAAT-TATTCGTTGACAGTCAGTC-GTCCCTTC
1 TTGTGAAGTT-GAAATTGGCTCTGAAATTGAGAAATGT-TT-GTTGACAACCAG-CGGTCCCTTC
* * * * * * *
3376813 GTTGTGAAGTCGAGCTTGTGCTGTCTTGAGTCCAATATCCTTTG
62 GTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCG
* ** *
3376857 CTGTGAAGTTGAAATTGGCTCTGAAATTGAGAGGTGTTTATTGACAACCAGCGGTCCCTTCGTCG
1 TTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCG
* *
3376922 TGAAGTTGAACTTGCGTTGTCGGGAGACCAATATCCTTCG
66 TGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCG
* *
3376962 CTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCG
1 TTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCG
3377027 TGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCG
66 TGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCG
*
3377067 TTGTGAAGTTGAAATTGGCTCTG-AATTGGAGAAATGTTTGGTGACAACCAGCGGTCCCTTCGTC
1 TTGTGAAGTTGAAATTGGCTCTGAAATT-GAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTC
3377131 GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCG
65 GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCG
* *
3377172 TTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATATTTGTTGACAACCAGCGGTCCCTTCGTCG
1 TTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCG
*
3377237 CGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCG
66 TGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCG
3377277 TTGTGAAGTTGAAATTGGCTCTG
1 TTGTGAAGTTGAAATTGGCTCTG
3377300 GGTAAAACCT
Statistics
Matches: 408, Mismatches: 30, Indels: 11
0.91 0.07 0.02
Matches are distributed among these distances:
104 4 0.01
105 373 0.91
106 30 0.07
107 1 0.00
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (105 bp):
TTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCG
TGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCG
Found at i:3377870 original size:29 final size:29
Alignment explanation
Indices: 3377838--3377896 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
3377828 TTGAATGCAG
3377838 CCTTTGCCAAAGGATCTTTGAAAATGCGA
1 CCTTTGCCAAAGGATCTTTGAAAATGCGA
3377867 CCTTTGCCAAAGGATCTTTGAAAATGCGA
1 CCTTTGCCAAAGGATCTTTGAAAATGCGA
3377896 C
1 C
3377897 AACGTTTGGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (29 bp):
CCTTTGCCAAAGGATCTTTGAAAATGCGA
Found at i:3378149 original size:70 final size:70
Alignment explanation
Indices: 3378065--3378199 Score: 166
Period size: 70 Copynumber: 1.9 Consensus size: 70
3378055 ACCCACCTTA
* * * *
3378065 TTTTCTCTTCTTTTTCCTCTTTTTCTTTTTTT-GATTTAGGGCGCCCTTTCGGGTTTTCACCCTA
1 TTTTCTCTTCTTTTT-CTCTTTTTCTTTTTTTCAACTTAGGACGCCCTCTCGGGTTTTCACCCTA
3378129 AACGTT
65 AACGTT
* * * *
3378135 TTTTCTTCTT-TTTTTTTTTTTTTTTTTTTTTCAACTTAGGACGCCCTCTCGGGTTTTCATCCTA
1 TTTTC-TCTTCTTTTTCTCTTTTTCTTTTTTTCAACTTAGGACGCCCTCTCGGGTTTTCACCCTA
3378199 A
65 A
3378200 GCGAAGTATT
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
69 13 0.24
70 38 0.69
71 4 0.07
ACGTcount: A:0.10, C:0.22, G:0.11, T:0.57
Consensus pattern (70 bp):
TTTTCTCTTCTTTTTCTCTTTTTCTTTTTTTCAACTTAGGACGCCCTCTCGGGTTTTCACCCTAA
ACGTT
Found at i:3390298 original size:2 final size:2
Alignment explanation
Indices: 3390291--3390352 Score: 76
Period size: 2 Copynumber: 32.5 Consensus size: 2
3390281 CATATGTAAA
*
3390291 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
3390332 AT A- AT GT AA AT AT AT -T AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT A
3390353 ATGTTAAAGG
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
1 3 0.06
2 48 0.94
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:3391395 original size:99 final size:99
Alignment explanation
Indices: 3391212--3391409 Score: 254
Period size: 99 Copynumber: 2.0 Consensus size: 99
3391202 AAAAAGTCAG
* * * *
3391212 AACAAATATATATACGAAAAGATCTGATTGTATCGACAAACAAACCACAAAAGGTGATAAAAACT
1 AACAAAGATAAATACGAAAAGATCTGACTGTATCGACAAACAAACCACAAAAGGGGATAAAAACT
* *
3391277 ATTGAAATACCAGTGACAAACCACACATCAGAGT
66 ACTGAAAGACCAGTGACAAACCACACATCAGAGT
* * * *
3391311 AACAAAGATAAATACGAAAAGATCTGACTGTATCGACAAATAAACTACAGAAGGGGATGAAAACT
1 AACAAAGATAAATACGAAAAGATCTGACTGTATCGACAAACAAACCACAAAAGGGGATAAAAACT
* * * *
3391376 ACTGAAAGGCCA-TCTACAAACCGCATATCAGAGT
66 ACTGAAAGACCAGT-GACAAACCACACATCAGAGT
3391410 CAAGCGACGT
Statistics
Matches: 84, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
98 1 0.01
99 83 0.99
ACGTcount: A:0.48, C:0.18, G:0.16, T:0.18
Consensus pattern (99 bp):
AACAAAGATAAATACGAAAAGATCTGACTGTATCGACAAACAAACCACAAAAGGGGATAAAAACT
ACTGAAAGACCAGTGACAAACCACACATCAGAGT
Found at i:3391632 original size:22 final size:21
Alignment explanation
Indices: 3391582--3391652 Score: 72
Period size: 22 Copynumber: 3.2 Consensus size: 21
3391572 TCAAACTACC
*
3391582 GAAAACGTGCCAAAAGGC-GTAA
1 GAAAACGTGTCAAAAGGCAG--A
*
3391604 GAGAACGTGTCATAAAGGCAGA
1 GAAAACGTGTCA-AAAGGCAGA
*
3391626 GAAAACGTGTCACAAAAGCAGA
1 GAAAACGTGTCA-AAAGGCAGA
3391648 GAAAA
1 GAAAA
3391653 TATTTCACAA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
22 35 0.83
23 6 0.14
24 1 0.02
ACGTcount: A:0.48, C:0.15, G:0.27, T:0.10
Consensus pattern (21 bp):
GAAAACGTGTCAAAAGGCAGA
Found at i:3391660 original size:22 final size:22
Alignment explanation
Indices: 3391611--3391663 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
3391601 TAAGAGAACG
* * *
3391611 TGTCATAAAGGCAGAGAAAACG
1 TGTCACAAAAGCAGAGAAAACA
*
3391633 TGTCACAAAAGCAGAGAAAATA
1 TGTCACAAAAGCAGAGAAAACA
*
3391655 TTTCACAAA
1 TGTCACAAA
3391664 TACATTTATT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.49, C:0.15, G:0.19, T:0.17
Consensus pattern (22 bp):
TGTCACAAAAGCAGAGAAAACA
Found at i:3394681 original size:20 final size:21
Alignment explanation
Indices: 3394640--3394695 Score: 55
Period size: 22 Copynumber: 2.8 Consensus size: 21
3394630 AGTTATTAGG
* *
3394640 AATTAAAAA-ACAATA-GAGA
1 AATTAAAAATATAATATAAGA
*
3394659 AA-TAAAGATATAATATAAGA
1 AATTAAAAATATAATATAAGA
3394679 AATTTAAAAATATAATA
1 AA-TTAAAAATATAATA
3394696 AATAAAAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
18 5 0.17
19 7 0.24
20 5 0.17
22 12 0.41
ACGTcount: A:0.66, C:0.02, G:0.07, T:0.25
Consensus pattern (21 bp):
AATTAAAAATATAATATAAGA
Found at i:3397944 original size:21 final size:20
Alignment explanation
Indices: 3397920--3397958 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
3397910 TGAGAAAGCT
*
3397920 ACAAAGTATAAATATTTTTTC
1 ACAAA-TATAAACATTTTTTC
*
3397941 ACAAATATCAACATTTTT
1 ACAAATATAAACATTTTT
3397959 AAATTTTAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.44, C:0.13, G:0.03, T:0.41
Consensus pattern (20 bp):
ACAAATATAAACATTTTTTC
Found at i:3398973 original size:2 final size:2
Alignment explanation
Indices: 3398968--3399037 Score: 140
Period size: 2 Copynumber: 35.0 Consensus size: 2
3398958 ATCATACAAG
3398968 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
3399010 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
3399038 GCCATGCAAC
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 68 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3399665 original size:2 final size:2
Alignment explanation
Indices: 3399658--3399682 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3399648 AAAAGCTTTA
3399658 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 A
3399683 CTACTTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3401540 original size:37 final size:37
Alignment explanation
Indices: 3401484--3401937 Score: 685
Period size: 37 Copynumber: 12.2 Consensus size: 37
3401474 ATCATGTTCG
* * *
3401484 GAAGGCTTATTGATGGATTTACTTCACTACTCTTCGAT
1 GAAGGCTTA-AGATGGATTTGCTTCACTACTCTTCGGT
*
3401522 GAAGGCTTAAGATGGATTTTCTTCACTACTCTTCGGT
1 GAAGGCTTAAGATGGATTTGCTTCACTACTCTTCGGT
3401559 GAAGGCTTAAGATGGATTTGCTTCACTACTCTTCGGT
1 GAAGGCTTAAGATGGATTTGCTTCACTACTCTTCGGT
* *
3401596 GAAGGCTTAAGATTGATTTGCTTCACTACTCTTTGGT
1 GAAGGCTTAAGATGGATTTGCTTCACTACTCTTCGGT
* *
3401633 GAAGGCTTAAGATTGATTTGTTTCACTACTCTTCGGT
1 GAAGGCTTAAGATGGATTTGCTTCACTACTCTTCGGT
* *
3401670 GAAGGCTTAAGATTGATTTTCTTCACTACTCTTCGGT
1 GAAGGCTTAAGATGGATTTGCTTCACTACTCTTCGGT
* * *
3401707 GAAGGCTTAAGATGGATTTGCTTTAGTACTCTTTGGT
1 GAAGGCTTAAGATGGATTTGCTTCACTACTCTTCGGT
3401744 GAAGGCTTAAGATGGATTTGCTTCACTACTCTTCGGT
1 GAAGGCTTAAGATGGATTTGCTTCACTACTCTTCGGT
* *
3401781 GAAGACTTAAGATGGATTTGCTTCACTACTCTTTGGT
1 GAAGGCTTAAGATGGATTTGCTTCACTACTCTTCGGT
* *
3401818 GAAGACTTAAGATGAATTTGCTTCACTACTCTTCGGT
1 GAAGGCTTAAGATGGATTTGCTTCACTACTCTTCGGT
* *
3401855 GAAGACTTACA-ATTGATTTGCTTCACTACTCTTCGGT
1 GAAGGCTTA-AGATGGATTTGCTTCACTACTCTTCGGT
* * *
3401892 GAAGGCTTAAGATTGATTTGCTTTACTACTCTTTGGT
1 GAAGGCTTAAGATGGATTTGCTTCACTACTCTTCGGT
3401929 GAAGGCTTA
1 GAAGGCTTA
3401938 CAAATTACCT
Statistics
Matches: 387, Mismatches: 27, Indels: 5
0.92 0.06 0.01
Matches are distributed among these distances:
36 1 0.00
37 376 0.97
38 10 0.03
ACGTcount: A:0.23, C:0.17, G:0.22, T:0.38
Consensus pattern (37 bp):
GAAGGCTTAAGATGGATTTGCTTCACTACTCTTCGGT
Found at i:3401994 original size:42 final size:42
Alignment explanation
Indices: 3401948--3402037 Score: 144
Period size: 42 Copynumber: 2.1 Consensus size: 42
3401938 CAAATTACCT
*
3401948 GAAGGATTTAATCATCATGCTCAAAAGACTTACTGATGGCCC
1 GAAGGATTTAATCATCATGCTCAAAAGACTTACTGATAGCCC
* * *
3401990 GAAGGATTTCATCATCATGCTCGAAAGACTTACTGATAGTCC
1 GAAGGATTTAATCATCATGCTCAAAAGACTTACTGATAGCCC
3402032 GAAGGA
1 GAAGGA
3402038 ATTACTAAGT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (42 bp):
GAAGGATTTAATCATCATGCTCAAAAGACTTACTGATAGCCC
Found at i:3411015 original size:16 final size:16
Alignment explanation
Indices: 3410994--3411049 Score: 87
Period size: 16 Copynumber: 3.5 Consensus size: 16
3410984 TATGCTTGAA
3410994 GAAAAAAAATGAAAAT
1 GAAAAAAAATGAAAAT
*
3411010 GAAAAAAAATGAAAAA
1 GAAAAAAAATGAAAAT
3411026 GAAAGAAAAATG-AAAT
1 GAAA-AAAAATGAAAAT
3411042 GAAAAAAA
1 GAAAAAAA
3411050 TAATAATAGA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
15 4 0.11
16 26 0.70
17 7 0.19
ACGTcount: A:0.77, C:0.00, G:0.14, T:0.09
Consensus pattern (16 bp):
GAAAAAAAATGAAAAT
Found at i:3411018 original size:10 final size:10
Alignment explanation
Indices: 3411005--3411049 Score: 56
Period size: 10 Copynumber: 4.3 Consensus size: 10
3410995 AAAAAAAATG
3411005 AAAATGAAAA
1 AAAATGAAAA
3411015 AAAATGAAAA
1 AAAATGAAAA
3411025 AGAAA-GAAAA
1 A-AAATGAAAA
3411035 ATGAAATGAAAA
1 A--AAATGAAAA
3411047 AAA
1 AAA
3411050 TAATAATAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
10 19 0.59
11 7 0.22
12 6 0.19
ACGTcount: A:0.78, C:0.00, G:0.13, T:0.09
Consensus pattern (10 bp):
AAAATGAAAA
Found at i:3412628 original size:122 final size:122
Alignment explanation
Indices: 3412406--3412961 Score: 743
Period size: 122 Copynumber: 4.6 Consensus size: 122
3412396 CACTCGATGG
* * *
3412406 ATCAGAATTTCC-GAAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG-ATTTCAT
1 ATCAAAATTTCCAG-AAGTGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAGTTCAT
* *
3412469 AATGAGAAGGATTTGTTCAACCTTTTGCTCGATTCTATCAAAGAAAGAGATAGATCAGC
64 AATGAGAAGAACTTGTTCAACCTTTTGCTCGATTCTATCAAAGAAAGAGATAGATCAGC
* * *
3412528 ATCAAAATTTCTAGAAGTGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAATTTATAA
1 ATCAAAATTTCCAGAAGTGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAA
* *
3412593 TGAGAAGAATTTGTTCAACCTTTTGCTCGATTCTATCAAAGAAAGAGATATATCAGC
66 TGAGAAGAACTTGTTCAACCTTTTGCTCGATTCTATCAAAGAAAGAGATAGATCAGC
3412650 ATCAAAATTTCCAGAAGTGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAA
1 ATCAAAATTTCCAGAAGTGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAA
* * * *
3412715 TGAGAAGAACTTGTTCAACCTTTTGCAT-GACTCTATCACAGAAGGAGATAGATCAAC
66 TGAGAAGAACTTGTTCAACCTTTTGC-TCGATTCTATCAAAGAAAGAGATAGATCAGC
** ** * *
3412772 ATCAACTTTTCCAGAGAAAGTTCATAATGAGAATAACTTATCTGAAGAGGAAGAAGAAGTTCATA
1 ATCAAAATTTCCAGA-AGTGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
* * * * *
3412837 ATGAGGAGAGCTTGTTCAACC-TTTG-TATGATTCTATCACAG-AAGAAGATAGATCATC
65 ATGAGAAGAACTTGTTCAACCTTTTGCT-CGATTCTATCAAAGAAAG-AGATAGATCAGC
* *
3412894 ATCAACATTTCCAGAAGTGTTCATAATGAG-A-ACCTCATCTGAAGAAGG-AGAAGAAGTTCATA
1 ATCAAAATTTCCAGAAGTGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAGTTCATA
3412956 ATGAGA
65 ATGAGA
3412962 TGAAGTTCAT
Statistics
Matches: 393, Mismatches: 33, Indels: 19
0.88 0.07 0.04
Matches are distributed among these distances:
119 30 0.08
120 5 0.01
121 24 0.06
122 268 0.68
123 66 0.17
ACGTcount: A:0.40, C:0.14, G:0.20, T:0.26
Consensus pattern (122 bp):
ATCAAAATTTCCAGAAGTGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAA
TGAGAAGAACTTGTTCAACCTTTTGCTCGATTCTATCAAAGAAAGAGATAGATCAGC
Found at i:3413007 original size:20 final size:17
Alignment explanation
Indices: 3412941--3412999 Score: 109
Period size: 17 Copynumber: 3.5 Consensus size: 17
3412931 TCTGAAGAAG
3412941 GAGAAGAAGTTCATAAT
1 GAGAAGAAGTTCATAAT
*
3412958 GAGATGAAGTTCATAAT
1 GAGAAGAAGTTCATAAT
3412975 GAGAAGAAGTTCATAAT
1 GAGAAGAAGTTCATAAT
3412992 GAGAAGAA
1 GAGAAGAA
3413000 CTTGTTCAAC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 40 1.00
ACGTcount: A:0.47, C:0.05, G:0.25, T:0.22
Consensus pattern (17 bp):
GAGAAGAAGTTCATAAT
Found at i:3413222 original size:137 final size:137
Alignment explanation
Indices: 3412976--3413286 Score: 453
Period size: 137 Copynumber: 2.3 Consensus size: 137
3412966 GTTCATAATG
* * *
3412976 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTGCCTTAATTCGTTACATATGAAGCCAAA
1 AGAAGAAATTCATAATGAGAAGAACTTGTTCAACCTTGCCTTAATTCATCACATATGAAGCCAAA
* * * *
3413041 CTAATAACCCCTCTTTTGAGGGTTAACATTTCCAGAATGAGTTCATAATGAGAAGAACTCATCTG
66 CTAATAACACCTCTTTTGAGGGTTAACATTTCCAGAAGGAGTTCATAAGGAGAAGAAATCATCTG
3413106 AAGAGGA
131 AAGAGGA
* * ***
3413113 AGAAGAAATTCATAATGAGAAGAACTTGTTCAACCTTGCTTTAATTCATCATATATGAAGTTGAA
1 AGAAGAAATTCATAATGAGAAGAACTTGTTCAACCTTGCCTTAATTCATCACATATGAAGCCAAA
* * *
3413178 -TCAATGACACCTCTTTTGAGGGTTAGCATTTTCAGAAGGAGTTCATAAGGAGAAGAAATCATCT
66 CT-AATAACACCTCTTTTGAGGGTTAACATTTCCAGAAGGAGTTCATAAGGAGAAGAAATCATCT
*
3413242 GAAGAGTA
130 GAAGAGGA
*
3413250 AGAAGAAATTAATAATGAGAAGAACTTGTTCAACCTT
1 AGAAGAAATTCATAATGAGAAGAACTTGTTCAACCTT
3413287 TTGCTAGATT
Statistics
Matches: 156, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
136 1 0.01
137 155 0.99
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.29
Consensus pattern (137 bp):
AGAAGAAATTCATAATGAGAAGAACTTGTTCAACCTTGCCTTAATTCATCACATATGAAGCCAAA
CTAATAACACCTCTTTTGAGGGTTAACATTTCCAGAAGGAGTTCATAAGGAGAAGAAATCATCTG
AAGAGGA
Found at i:3413601 original size:21 final size:21
Alignment explanation
Indices: 3413575--3413631 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
3413565 TTAATTTTAT
3413575 AGGCCCATATCTAGAACCCAG
1 AGGCCCATATCTAGAACCCAG
* * * *
3413596 AGGCCCAGATCCAAAACCTAG
1 AGGCCCATATCTAGAACCCAG
*
3413617 AAGCCCATATCTAGA
1 AGGCCCATATCTAGA
3413632 CCCGACCCAA
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.37, C:0.32, G:0.18, T:0.14
Consensus pattern (21 bp):
AGGCCCATATCTAGAACCCAG
Found at i:3414116 original size:22 final size:19
Alignment explanation
Indices: 3414073--3414118 Score: 56
Period size: 22 Copynumber: 2.3 Consensus size: 19
3414063 TACCGTGAAG
*
3414073 AGTGACCGATGGTCGGAAT
1 AGTGACCGATGGTCAGAAT
3414092 AGTGACCGATGGTGATCAGAAT
1 AGTGACCGAT-G-G-TCAGAAT
3414114 AGTGA
1 AGTGA
3414119 TCGACCGGTG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 10 0.43
20 1 0.04
21 1 0.04
22 11 0.48
ACGTcount: A:0.30, C:0.13, G:0.35, T:0.22
Consensus pattern (19 bp):
AGTGACCGATGGTCAGAAT
Found at i:3414838 original size:14 final size:13
Alignment explanation
Indices: 3414821--3414851 Score: 53
Period size: 13 Copynumber: 2.3 Consensus size: 13
3414811 TAAAATTCTA
3414821 TTTATAAATTTAAT
1 TTTATAAA-TTAAT
3414835 TTTATAAATTAAT
1 TTTATAAATTAAT
3414848 TTTA
1 TTTA
3414852 AAAAAAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.53
14 8 0.47
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (13 bp):
TTTATAAATTAAT
Found at i:3416030 original size:27 final size:28
Alignment explanation
Indices: 3415985--3416040 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 28
3415975 TTACTGTTAA
* * *
3415985 TATTTTATTTATTTAATTTGTTTAATAT
1 TATTTTATATATTTAATTTCTATAATAT
3416013 TATTTTATAT-TTTAATTTCTATAATAT
1 TATTTTATATATTTAATTTCTATAATAT
3416040 T
1 T
3416041 TATTAAATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
27 16 0.64
28 9 0.36
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (28 bp):
TATTTTATATATTTAATTTCTATAATAT
Found at i:3416576 original size:14 final size:14
Alignment explanation
Indices: 3416557--3416585 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
3416547 TGTGTCACCT
3416557 TTAGATTTTCATCA
1 TTAGATTTTCATCA
3416571 TTAGATTTTCATCA
1 TTAGATTTTCATCA
3416585 T
1 T
3416586 GCTGGCACAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.14, G:0.07, T:0.52
Consensus pattern (14 bp):
TTAGATTTTCATCA
Found at i:3420331 original size:23 final size:22
Alignment explanation
Indices: 3420276--3420342 Score: 91
Period size: 21 Copynumber: 3.0 Consensus size: 22
3420266 AGATTCGATG
3420276 ATTCTATGTGGTCATTCGGGAC
1 ATTCTATGTGGTCATTCGGGAC
*
3420298 A-TATATGTGGTCATTCGGGAC
1 ATTCTATGTGGTCATTCGGGAC
* *
3420319 ATTTCTATGTGGTCAATCGAGAC
1 A-TTCTATGTGGTCATTCGGGAC
3420342 A
1 A
3420343 ATTTTATATG
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
21 20 0.51
22 1 0.03
23 18 0.46
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.34
Consensus pattern (22 bp):
ATTCTATGTGGTCATTCGGGAC
Found at i:3421333 original size:26 final size:25
Alignment explanation
Indices: 3421277--3421338 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
3421267 ATTTTGTTTC
3421277 TTAATTTTTTTATTACTTAATTGTT
1 TTAATTTTTTTATTACTTAATTGTT
** * * *
3421302 CGAATTTTTTTATTATTTAGTTCTTT
1 TTAATTTTTTTATTACTTAATT-GTT
3421328 TTAATTTTTTT
1 TTAATTTTTTT
3421339 GTTGTATTGT
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
25 18 0.62
26 11 0.38
ACGTcount: A:0.21, C:0.05, G:0.05, T:0.69
Consensus pattern (25 bp):
TTAATTTTTTTATTACTTAATTGTT
Found at i:3424563 original size:19 final size:19
Alignment explanation
Indices: 3424542--3424581 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
3424532 ATTTTTTTAA
3424542 ATAATCATATATAAAATAAAT
1 ATAAT-ATA-ATAAAATAAAT
*
3424563 ATAATATAATAAAAAAAAT
1 ATAATATAATAAAATAAAT
3424582 TTATCTTACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 10 0.56
20 3 0.17
21 5 0.28
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (19 bp):
ATAATATAATAAAATAAAT
Found at i:3425023 original size:27 final size:27
Alignment explanation
Indices: 3424985--3425039 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
3424975 TTGTCCGTAC
3424985 TCAAAGGAAGGAATTAAAAGCTCTGTT
1 TCAAAGGAAGGAATTAAAAGCTCTGTT
3425012 TCAAAGGAAGGAATTAAAAGCTCTGTT
1 TCAAAGGAAGGAATTAAAAGCTCTGTT
3425039 T
1 T
3425040 TGAAAACCGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.40, C:0.11, G:0.22, T:0.27
Consensus pattern (27 bp):
TCAAAGGAAGGAATTAAAAGCTCTGTT
Found at i:3447058 original size:30 final size:31
Alignment explanation
Indices: 3447019--3447076 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
3447009 ATTTCAAAAT
3447019 TATAATTATAAA-AAAATATTAATTTATATA
1 TATAATTATAAATAAAATATTAATTTATATA
* *
3447049 TATATTTATAAATAAAATATTTATTTAT
1 TATAATTATAAATAAAATATTAATTTAT
3447077 TTAAAAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 11 0.44
31 14 0.56
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (31 bp):
TATAATTATAAATAAAATATTAATTTATATA
Found at i:3447247 original size:121 final size:118
Alignment explanation
Indices: 3447039--3447278 Score: 288
Period size: 121 Copynumber: 2.0 Consensus size: 118
3447029 AAAAAATATT
* * *
3447039 AATTTATATATATATTTATAAATAAAATATTTATTTATTTAAAAATATCAAAAAAGGACTTCTAG
1 AATTAATATATATATTTATAAATAAAATATTTATTTATTTAAAAATATCAAAAAAGGACATCCAG
* * *
3447104 GTGCCTTAAGACAGCTCTTTTCTTCGATATT-AAAAATAAATAAATAATTAAAAC
66 GTACCTTAAGACAGCACTTTTCTT-AATATTGAAAAATAAATAAAT-ATTAAAAC
** *
3447158 AATTAATATATATAATTTATAAAATAGGATATTTATTTATTTAAAAATATCAGAAATTA-GACAT
1 AATTAATATATAT-ATTTAT-AAATAAAATATTTATTTATTTAAAAATATCA-AAA-AAGGACAT
* ** *
3447222 CCAGTTATTTTAAGACTGCAC-TTTCTTAATATTGAAAAATAAATAAATATTAAAAC
62 CCAGGTACCTTAAGACAGCACTTTTCTTAATATTGAAAAATAAATAAATATTAAAAC
3447278 A
1 A
3447279 GGATTAAAAT
Statistics
Matches: 103, Mismatches: 13, Indels: 9
0.82 0.10 0.07
Matches are distributed among these distances:
119 12 0.12
120 20 0.19
121 49 0.48
122 21 0.20
123 1 0.01
ACGTcount: A:0.47, C:0.08, G:0.07, T:0.38
Consensus pattern (118 bp):
AATTAATATATATATTTATAAATAAAATATTTATTTATTTAAAAATATCAAAAAAGGACATCCAG
GTACCTTAAGACAGCACTTTTCTTAATATTGAAAAATAAATAAATATTAAAAC
Found at i:3447375 original size:3 final size:3
Alignment explanation
Indices: 3447367--3447399 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
3447357 TTTATGACTA
*
3447367 AAT AAT AAT AAT AAT AAT AAT AGT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
3447400 TAAAAGTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:3448680 original size:17 final size:17
Alignment explanation
Indices: 3448658--3448695 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
3448648 GGCTGAGAAA
3448658 TGAGCGGCGGCTGAAGC
1 TGAGCGGCGGCTGAAGC
3448675 TGAGCGGCGGCTGAAGC
1 TGAGCGGCGGCTGAAGC
3448692 TGAG
1 TGAG
3448696 ATCAAACTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.18, C:0.21, G:0.47, T:0.13
Consensus pattern (17 bp):
TGAGCGGCGGCTGAAGC
Found at i:3448805 original size:3 final size:3
Alignment explanation
Indices: 3448799--3448844 Score: 69
Period size: 3 Copynumber: 15.7 Consensus size: 3
3448789 TAATATTTAT
3448799 TAA TAA TAA -AA TAA TAA TAA TAA TAA TAA TAA TAA T-A TAAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA
3448843 TA
1 TA
3448845 TTCAAATGAA
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
2 4 0.10
3 34 0.85
4 2 0.05
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:3449745 original size:113 final size:113
Alignment explanation
Indices: 3449181--3449728 Score: 927
Period size: 113 Copynumber: 4.8 Consensus size: 113
3449171 ATAGAGTCAT
* * *
3449181 GCAAAAGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * ** * *
3449246 AGTATGAACTTTCTCTGGCACTGCTGATCCACCGAGTAATGAATTTAA
66 ATTATGAACTCTAACTGGCACTGTTGATCCACCGAGTGATGAATTTAA
* * *
3449294 GCAAAAATTTGAACAAGTTCTTCTCATTACGAACTTCTTCTTTCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
*
3449359 ATTATGAACTCTAACTGGCACTGCTGATCCACCGAGTGATGAATTTAA
66 ATTATGAACTCTAACTGGCACTGTTGATCCACCGAGTGATGAATTTAA
3449407 GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
3449472 ATTATGAACTCTAACTGGCACTGTTGATCCACCGAGTGATGAATTTAA
66 ATTATGAACTCTAACTGGCACTGTTGATCCACCGAGTGATGAATTTAA
*
3449520 GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
3449585 ATTATGAACTCTAACTGGCACTGTTGATCCACCGAGTGATGAATTTAA
66 ATTATGAACTCTAACTGGCACTGTTGATCCACCGAGTGATGAATTTAA
3449633 GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTTCTTCAGATGAGTTCTTCT
1 GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCC-TTCTTCAGATGAGTTCTTCT
* * *
3449698 CATTATGAACTCT-TCTGGAAATGTTGATCCA
65 CATTATGAACTCTAACTGGCACTGTTGATCCA
3449729 TTGAATGATG
Statistics
Matches: 414, Mismatches: 20, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
113 381 0.92
114 33 0.08
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.36
Consensus pattern (113 bp):
GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
ATTATGAACTCTAACTGGCACTGTTGATCCACCGAGTGATGAATTTAA
Found at i:3450636 original size:114 final size:114
Alignment explanation
Indices: 3450436--3450660 Score: 378
Period size: 114 Copynumber: 2.0 Consensus size: 114
3450426 ACGATCATGC
* * * *
3450436 AATTCATCTTTCAATTCTAATGATTGGTTCTGGGGTTCCTACTAAACCAGATCAGATAACTCAAA
1 AATTCATCTTTCAAATCTAATGATTGGTTCTGGGGTTCATACCAAACCAGATCAAATAACTCAAA
* * *
3450501 GAACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCA
66 GAACACTTCCAGAAGATGCTATTAGGCCTCCTTATTTCTACCATGAGCA
*
3450550 AATTCATCTTTCAAATCTAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAAATAACTCAAA
1 AATTCATCTTTCAAATCTAATGATTGGTTCTGGGGTTCATACCAAACCAGATCAAATAACTCAAA
3450615 GAACACTTCCAGAAGATGCTATTAGGCCTCCTTATTTCTACCATGA
66 GAACACTTCCAGAAGATGCTATTAGGCCTCCTTATTTCTACCATGA
3450661 TAACGTGGCA
Statistics
Matches: 103, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
114 103 1.00
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32
Consensus pattern (114 bp):
AATTCATCTTTCAAATCTAATGATTGGTTCTGGGGTTCATACCAAACCAGATCAAATAACTCAAA
GAACACTTCCAGAAGATGCTATTAGGCCTCCTTATTTCTACCATGAGCA
Found at i:3451408 original size:11 final size:11
Alignment explanation
Indices: 3451394--3451429 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
3451384 TGACCCCCTC
3451394 TTTTTTCTTTT
1 TTTTTTCTTTT
3451405 TTTTTTCTTTT
1 TTTTTTCTTTT
*
3451416 TCTTTTCTTCTT
1 TTTTTTCTT-TT
3451428 TT
1 TT
3451430 CATTTTTTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 19 0.86
12 3 0.14
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (11 bp):
TTTTTTCTTTT
Found at i:3458089 original size:16 final size:16
Alignment explanation
Indices: 3458070--3458102 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
3458060 TGCAATGAAT
3458070 AATGAATGTATGCAAA
1 AATGAATGTATGCAAA
*
3458086 AATGCATGTATGCAAA
1 AATGAATGTATGCAAA
3458102 A
1 A
3458103 GGTATTGATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.48, C:0.09, G:0.18, T:0.24
Consensus pattern (16 bp):
AATGAATGTATGCAAA
Found at i:3460973 original size:28 final size:29
Alignment explanation
Indices: 3460942--3460997 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
3460932 ATTTCAAAAT
3460942 TATAATTATAAA-AAAATATTAATTTATA
1 TATAATTATAAATAAAATATTAATTTATA
* *
3460970 TATATTTATAAATAAAATATTTATTTAT
1 TATAATTATAAATAAAATATTAATTTAT
3460998 TTAGAAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 11 0.44
29 14 0.56
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (29 bp):
TATAATTATAAATAAAATATTAATTTATA
Found at i:3461267 original size:2 final size:2
Alignment explanation
Indices: 3461262--3461332 Score: 142
Period size: 2 Copynumber: 35.5 Consensus size: 2
3461252 ATATTATTTT
3461262 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
3461304 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 T
3461333 GACTAAATAA
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 69 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3461346 original size:3 final size:3
Alignment explanation
Indices: 3461338--3461367 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
3461328 TATATGACTA
*
3461338 AAT AAT AAT AAT AAT AAT AGT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
3461368 TAAAAGTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:3461430 original size:4 final size:4
Alignment explanation
Indices: 3461421--3461446 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
3461411 TAAAACTTGT
3461421 AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AA
3461447 AATTGAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:3462686 original size:3 final size:3
Alignment explanation
Indices: 3462680--3462740 Score: 54
Period size: 3 Copynumber: 20.7 Consensus size: 3
3462670 TAATATTTAT
* * * * *
3462680 TAA TAA TAA -AA TAA TAA TAA TTA TTA TTA TAA TTA TAA TTA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
3462727 TAA T-A TAAA TAA TA
1 TAA TAA T-AA TAA TA
3462741 TTCATATGAA
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
2 4 0.08
3 43 0.88
4 2 0.04
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (3 bp):
TAA
Found at i:3462717 original size:24 final size:24
Alignment explanation
Indices: 3462667--3462740 Score: 69
Period size: 24 Copynumber: 2.9 Consensus size: 24
3462657 ATTGGGCATG
*
3462667 TAATAATATTTATTAATAATAAAA
1 TAATAATAATTATTAATAATAAAA
3462691 TAATAATAATTATTATTATAATTATAATTA
1 TAATAATAATTATTA--ATAA-TA-AA--A
*
3462721 TAATAATAA-TATAAATAATA
1 TAATAATAATTATTAATAATA
3462741 TTCATATGAA
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
24 14 0.33
26 6 0.14
27 6 0.14
28 2 0.05
29 4 0.10
30 10 0.24
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (24 bp):
TAATAATAATTATTAATAATAAAA
Found at i:3467129 original size:15 final size:15
Alignment explanation
Indices: 3467109--3467140 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
3467099 AAATATATAC
3467109 TAGATGTATAAAATA
1 TAGATGTATAAAATA
3467124 TAGATGTATAAAATA
1 TAGATGTATAAAATA
3467139 TA
1 TA
3467141 TTATATAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.12, T:0.34
Consensus pattern (15 bp):
TAGATGTATAAAATA
Found at i:3468191 original size:33 final size:32
Alignment explanation
Indices: 3468149--3468215 Score: 80
Period size: 33 Copynumber: 2.1 Consensus size: 32
3468139 GGTAAGAAAT
* * * * *
3468149 TTATTTTTATGTTAGTATTTTTTTAAATAGTTA
1 TTATATTTATATTAATATTTATGTAAATA-TTA
3468182 TTATATTTATATTAATATTTATGTAAATATTA
1 TTATATTTATATTAATATTTATGTAAATATTA
3468214 TT
1 TT
3468216 TTTTTATTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
32 5 0.17
33 24 0.83
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (32 bp):
TTATATTTATATTAATATTTATGTAAATATTA
Found at i:3468226 original size:18 final size:19
Alignment explanation
Indices: 3468199--3468234 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
3468189 TATATTAATA
*
3468199 TTTATGTAAATATTATTTT
1 TTTATGTAAATAATATTTT
3468218 TTTAT-TAAATAATATTT
1 TTTATGTAAATAATATTT
3468235 CTATAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (19 bp):
TTTATGTAAATAATATTTT
Found at i:3469995 original size:21 final size:22
Alignment explanation
Indices: 3469971--3470017 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
3469961 ACAGGGGTAC
*
3469971 ATGCCCAA-CCCTCCACTTTAT
1 ATGCCCAAGCCCACCACTTTAT
*
3469992 ATG-CCAAGCCCACCAGTTTAT
1 ATGCCCAAGCCCACCACTTTAT
3470013 ATGCC
1 ATGCC
3470018 ATCTCCGCAG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 4 0.18
21 17 0.77
22 1 0.05
ACGTcount: A:0.26, C:0.38, G:0.11, T:0.26
Consensus pattern (22 bp):
ATGCCCAAGCCCACCACTTTAT
Found at i:3470051 original size:21 final size:21
Alignment explanation
Indices: 3470025--3470094 Score: 88
Period size: 21 Copynumber: 3.3 Consensus size: 21
3470015 GCCATCTCCG
*
3470025 CAGGGTTACATTCCGAGCCCA
1 CAGGGTTACATTCCTAGCCCA
*
3470046 CAGGGTTACATTCCTAGCCCGC
1 CAGGGTTACATTCCTAGCCC-A
* *
3470068 CA-GGTTACATGCCTAGCCCG
1 CAGGGTTACATTCCTAGCCCA
3470088 CAGGGTT
1 CAGGGTT
3470095 TTATACCATA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
20 2 0.05
21 39 0.91
22 2 0.05
ACGTcount: A:0.20, C:0.33, G:0.26, T:0.21
Consensus pattern (21 bp):
CAGGGTTACATTCCTAGCCCA
Found at i:3470666 original size:34 final size:34
Alignment explanation
Indices: 3470616--3470713 Score: 133
Period size: 34 Copynumber: 2.9 Consensus size: 34
3470606 AAATGTTTTT
* *
3470616 AAAATACAAATTATATTATTCAAAATTTAAAATA
1 AAAATAAAAATTATATTATTCGAAATTTAAAATA
* * *
3470650 AAAATAAAAATAATATTATTCGAAATTTAAATTT
1 AAAATAAAAATTATATTATTCGAAATTTAAAATA
* *
3470684 AAAATATAAATTATAGTATTCGAAATTTAA
1 AAAATAAAAATTATATTATTCGAAATTTAA
3470714 CATTAAATTT
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 56 1.00
ACGTcount: A:0.56, C:0.04, G:0.03, T:0.37
Consensus pattern (34 bp):
AAAATAAAAATTATATTATTCGAAATTTAAAATA
Found at i:3470795 original size:12 final size:12
Alignment explanation
Indices: 3470780--3470806 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
3470770 TGGAAAATCA
3470780 TTTGGAGTAATG
1 TTTGGAGTAATG
3470792 TTTGGAGTAATG
1 TTTGGAGTAATG
3470804 TTT
1 TTT
3470807 TGATATTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.00, G:0.30, T:0.48
Consensus pattern (12 bp):
TTTGGAGTAATG
Found at i:3471267 original size:128 final size:128
Alignment explanation
Indices: 3471039--3471657 Score: 1105
Period size: 124 Copynumber: 4.9 Consensus size: 128
3471029 TTACCTGATT
3471039 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
3471104 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
66 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
* *
3471167 TACTGATATATCTAGTGTCCCTGAGGGACATGAGTGACATAATAGGGCAATGATAATATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
*
3471232 TGATAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
66 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
3471295 TA-TGATATATCTAGTGT-CCCGAGGGACATGAGTGACATAATAGGGCAATG--AACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
*
3471356 TAACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCC-TCATGTGAATAGTGAAATAATAGG
66 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
*
3471418 TACTGATATATCTAGTGTCCCCGAGGGACAAGAGTGACATAATAGGGCAATGA-AACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
3471482 TGAC-AAATAA-GGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTG-AATAATAGG
66 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
*
3471542 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAATATATTCT-
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
*
3471606 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTTATGTGAATAGT
66 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGT
3471658 ACTCCGATTA
Statistics
Matches: 472, Mismatches: 12, Indels: 16
0.94 0.02 0.03
Matches are distributed among these distances:
123 26 0.06
124 152 0.32
125 67 0.14
126 85 0.18
127 15 0.03
128 127 0.27
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (128 bp):
TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
Found at i:3471739 original size:8 final size:8
Alignment explanation
Indices: 3471726--3471766 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
3471716 TCACAAGCTT
3471726 TCAAATTC
1 TCAAATTC
3471734 TCAAATTC
1 TCAAATTC
* *
3471742 CCAAACTC
1 TCAAATTC
3471750 T-AAATTC
1 TCAAATTC
3471757 TCAAATTC
1 TCAAATTC
3471765 TC
1 TC
3471767 TGAAAATGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.37, C:0.29, G:0.00, T:0.34
Consensus pattern (8 bp):
TCAAATTC
Found at i:3472869 original size:206 final size:208
Alignment explanation
Indices: 3472515--3472928 Score: 782
Period size: 206 Copynumber: 2.0 Consensus size: 208
3472505 ACCTCTTCGG
3472515 GAGCCAGGTGCAGATGGTGCTGAAACGGGATTATTCGTTGAACCTGACTCACCACAGTTTAACGT
1 GAGCCAGGTGCAGATGGTGCTGAAACGGGATTATTCGTTGAACCTGACTCACCACAGTTTAACGT
3472580 ACATTTGATGATGACGAGGATGACGTTCGATAAATACAACACCAGCCGAAACTTCCTGCACATAT
66 ACATTTGATGATGACGAGGATGACGTTCGATAAATACAACACCAGCCGAAACTTCCTGCACATAT
3472645 GTATGAGGCTAATTATGATGCAATGTATGAG-CTGAATTTCCAGATCTTCCTGATGTTGGCAACT
131 GTATGAGGCTAATTATGATGCAATGTATGAGCCTGAATTTCCAGATCTTCCTGATGTTGGCAACT
3472709 A-GGACTTCAATC
196 ATGGACTTCAATC
3472721 GAGCCAGGTGCAGATGGTGCTGAAA-GGGATTATTCGTTGAACCTGACTCACCACAGTTTAACGT
1 GAGCCAGGTGCAGATGGTGCTGAAACGGGATTATTCGTTGAACCTGACTCACCACAGTTTAACGT
3472785 ACATTCTGATGATGACGAGGATGACGTTCCGATAAATACAACACCAGCCG-AACTTCCTGCACAT
66 ACATT-TGATGATGACGAGGATGACGTT-CGATAAATACAACACCAGCCGAAACTTCCTGCACAT
3472849 ATGTATGAGGCTAATTATGATGCAATGTATGAGCCTGAATTTCCAGATCTTCCTGATGTTGGCAA
129 ATGTATGAGGCTAATTATGATGCAATGTATGAGCCTGAATTTCCAGATCTTCCTGATGTTGGCAA
3472914 CTATGGACTTCAATC
194 CTATGGACTTCAATC
3472929 ATTAGTCAAT
Statistics
Matches: 204, Mismatches: 0, Indels: 6
0.97 0.00 0.03
Matches are distributed among these distances:
205 44 0.22
206 94 0.46
207 55 0.27
208 11 0.05
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (208 bp):
GAGCCAGGTGCAGATGGTGCTGAAACGGGATTATTCGTTGAACCTGACTCACCACAGTTTAACGT
ACATTTGATGATGACGAGGATGACGTTCGATAAATACAACACCAGCCGAAACTTCCTGCACATAT
GTATGAGGCTAATTATGATGCAATGTATGAGCCTGAATTTCCAGATCTTCCTGATGTTGGCAACT
ATGGACTTCAATC
Found at i:3476914 original size:17 final size:18
Alignment explanation
Indices: 3476892--3476933 Score: 68
Period size: 17 Copynumber: 2.4 Consensus size: 18
3476882 CTCTAAATTA
3476892 TTTATTTAATTATT-TCT
1 TTTATTTAATTATTATCT
*
3476909 TTTATTTAATTCTTATCT
1 TTTATTTAATTATTATCT
3476927 TTTATTT
1 TTTATTT
3476934 TAAAAACAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 13 0.57
18 10 0.43
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTATTTAATTATTATCT
Found at i:3476984 original size:18 final size:17
Alignment explanation
Indices: 3476961--3477004 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
3476951 AACCTTTTTT
3476961 TTTATTTTACTACTATTA
1 TTTATTTTA-TACTATTA
*
3476979 TTTATTATTATATTATTA
1 TTTATT-TTATACTATTA
3476997 TTTATTTT
1 TTTATTTT
3477005 TAAATCATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 2 0.08
18 19 0.79
19 3 0.12
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTATTTTATACTATTA
Found at i:3477821 original size:13 final size:13
Alignment explanation
Indices: 3477803--3477827 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3477793 AATGAATTTT
3477803 AAGATTTTCCAAA
1 AAGATTTTCCAAA
3477816 AAGATTTTCCAA
1 AAGATTTTCCAA
3477828 GTATATTCGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (13 bp):
AAGATTTTCCAAA
Found at i:3483806 original size:20 final size:20
Alignment explanation
Indices: 3483781--3483841 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 20
3483771 TTTTGGTGCA
*
3483781 GAGGGAATCGATACCCCCAT
1 GAGGGAACCGATACCCCCAT
* *
3483801 GAGGGAACCGATGCCCCCTTT
1 GAGGGAACCGATACCCCC-AT
*
3483822 GAAGGGGAACCGATTCCCCC
1 G-A-GGGAACCGATACCCCC
3483842 CACAGTGGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
20 16 0.47
21 2 0.06
22 1 0.03
23 15 0.44
ACGTcount: A:0.25, C:0.33, G:0.28, T:0.15
Consensus pattern (20 bp):
GAGGGAACCGATACCCCCAT
Found at i:3488746 original size:21 final size:21
Alignment explanation
Indices: 3488720--3488800 Score: 67
Period size: 21 Copynumber: 3.8 Consensus size: 21
3488710 CAGAACCCCA
*
3488720 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
* *
3488741 GGGGGGAATCGGTTCCCCTTT
1 GGGGGGAATCGATTCCCCTGT
* * *
3488762 AAAGGGGGAATCGGTTCCCTCAG-
1 --GGGGGGAATCGATTCCC-CTGT
3488785 GGGGGG-ATCGATTCCC
1 GGGGGGAATCGATTCCC
3488801 TCTGCACCAA
Statistics
Matches: 49, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
20 9 0.18
21 23 0.47
23 16 0.33
24 1 0.02
ACGTcount: A:0.15, C:0.23, G:0.38, T:0.23
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:3488794 original size:20 final size:20
Alignment explanation
Indices: 3488718--3488802 Score: 62
Period size: 20 Copynumber: 4.0 Consensus size: 20
3488708 ACCAGAACCC
*
3488718 CAGGGGGGTATCGATTCCCCT
1 CAGGGGGGAATCGATT-CCCT
** *
3488739 GTGGGGGGAATCGGTTCCCCTTT
1 CAGGGGGGAATCGATT-CCC--T
* * *
3488762 AAAGGGGGAATCGGTTCCCT
1 CAGGGGGGAATCGATTCCCT
*
3488782 CAGGGGGGGATCGATTCCCT
1 CAGGGGGGAATCGATTCCCT
3488802 C
1 C
3488803 TGCACCAAAA
Statistics
Matches: 51, Mismatches: 11, Indels: 5
0.76 0.16 0.07
Matches are distributed among these distances:
20 18 0.35
21 16 0.31
22 3 0.06
23 14 0.27
ACGTcount: A:0.15, C:0.25, G:0.36, T:0.24
Consensus pattern (20 bp):
CAGGGGGGAATCGATTCCCT
Found at i:3495455 original size:13 final size:13
Alignment explanation
Indices: 3495437--3495461 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3495427 AATGAATTTT
3495437 AAGATTTTCCAAA
1 AAGATTTTCCAAA
3495450 AAGATTTTCCAA
1 AAGATTTTCCAA
3495462 GTATATTCAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (13 bp):
AAGATTTTCCAAA
Found at i:3495538 original size:31 final size:31
Alignment explanation
Indices: 3495500--3495562 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
3495490 AAAATATTAC
3495500 TCCAAATCTTTCAAATGTCATTTTTAATCCT
1 TCCAAATCTTTCAAATGTCATTTTTAATCCT
3495531 TCCAAATCTTTCAAATGTCATTTTTAATCCT
1 TCCAAATCTTTCAAATGTCATTTTTAATCCT
3495562 T
1 T
3495563 ACTCAAGTGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.29, C:0.22, G:0.03, T:0.46
Consensus pattern (31 bp):
TCCAAATCTTTCAAATGTCATTTTTAATCCT
Found at i:3496719 original size:30 final size:30
Alignment explanation
Indices: 3496677--3496745 Score: 113
Period size: 30 Copynumber: 2.3 Consensus size: 30
3496667 ACAAAAAATA
3496677 GTGCAG-AAAAAATAGATTTGGTTCGAACT
1 GTGCAGAAAAAAATAGATTTGGTTCGAACT
*
3496706 GTGCAGAAAAAAATAGATTTGGTTTGAACT
1 GTGCAGAAAAAAATAGATTTGGTTCGAACT
*
3496736 ATGCAGAAAA
1 GTGCAGAAAA
3496746 GTTCGAACAA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
29 6 0.16
30 31 0.84
ACGTcount: A:0.42, C:0.09, G:0.23, T:0.26
Consensus pattern (30 bp):
GTGCAGAAAAAAATAGATTTGGTTCGAACT
Found at i:3498325 original size:71 final size:75
Alignment explanation
Indices: 3498138--3498325 Score: 242
Period size: 76 Copynumber: 2.5 Consensus size: 75
3498128 GTATCTTTGT
* * * *
3498138 ATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAAGTTTTATGATATTATTTTTATATTTTATTT
1 ATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAAGATTTATAATATTATTTTTATA-TATATTA
*
3498203 TTGTTTTAGGT
65 TTGTTTTAGGA
*
3498214 ATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAGGATTTATAATATTA-TTTTA-A-ATATTAT
1 ATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAAGATTTATAATATTATTTTTATATATATTAT
3498276 T-TTTTAGGA
66 TGTTTTAGGA
* * *
3498285 ATTTTAGTTTAAATA-GTTTTAAGTGTTTTACTTAAAATTTA
1 ATTTTAGTTTAAATAGGTTTT-AGTATTTTAATTAAGATTTA
3498326 AGATGTTTTA
Statistics
Matches: 101, Mismatches: 10, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
70 5 0.05
71 38 0.38
72 6 0.06
74 1 0.01
75 5 0.05
76 46 0.46
ACGTcount: A:0.31, C:0.01, G:0.11, T:0.57
Consensus pattern (75 bp):
ATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAAGATTTATAATATTATTTTTATATATATTAT
TGTTTTAGGA
Found at i:3498956 original size:17 final size:17
Alignment explanation
Indices: 3498934--3498974 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
3498924 CTTTAAATTA
*
3498934 TTTATTTAAT-TATATCT
1 TTTATTTAATCT-TATAT
3498951 TTTATTTAATCTTATAT
1 TTTATTTAATCTTATAT
3498968 TTTATTT
1 TTTATTT
3498975 TAAAAATAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 21 0.95
18 1 0.05
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTATTTAATCTTATAT
Found at i:3501769 original size:28 final size:28
Alignment explanation
Indices: 3501730--3501809 Score: 144
Period size: 28 Copynumber: 2.9 Consensus size: 28
3501720 TATTTATGCC
3501730 AAAG-AAGAAAGTGGCAAGAGCTTAAAG
1 AAAGAAAGAAAGTGGCAAGAGCTTAAAG
3501757 AAAGAAAGAAAGTGGCAAGAGCTTAAAG
1 AAAGAAAGAAAGTGGCAAGAGCTTAAAG
*
3501785 AAAGAAAGAAAGTTGCAAGAGCTTA
1 AAAGAAAGAAAGTGGCAAGAGCTTA
3501810 GAGACTCGAG
Statistics
Matches: 51, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
27 4 0.08
28 47 0.92
ACGTcount: A:0.53, C:0.07, G:0.28, T:0.12
Consensus pattern (28 bp):
AAAGAAAGAAAGTGGCAAGAGCTTAAAG
Found at i:3514537 original size:5 final size:5
Alignment explanation
Indices: 3514529--3514558 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
3514519 GGGAGGATAG
3514529 GAAAA GAAAA GAAAA GAAAA GAAAA GAAAA
1 GAAAA GAAAA GAAAA GAAAA GAAAA GAAAA
3514559 CTAACCATAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
GAAAA
Found at i:3515831 original size:31 final size:31
Alignment explanation
Indices: 3515796--3515858 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
3515786 TAAAAAAATG
*
3515796 ACAAAATCGGTCTACAAATGACAAAACAGGT
1 ACAAAACCGGTCTACAAATGACAAAACAGGT
*
3515827 ACAAAACCGGTCTATAAATGACAAAACAGGT
1 ACAAAACCGGTCTACAAATGACAAAACAGGT
3515858 A
1 A
3515859 AAGCGCTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.49, C:0.19, G:0.16, T:0.16
Consensus pattern (31 bp):
ACAAAACCGGTCTACAAATGACAAAACAGGT
Found at i:3515942 original size:143 final size:143
Alignment explanation
Indices: 3515684--3515970 Score: 466
Period size: 143 Copynumber: 2.0 Consensus size: 143
3515674 TAAAAAAATG
* *
3515684 ACAAAACTGGTCTATAAATGACAAAACAGGTAAAACGCTACCGGATATATTGAAAGTGTCGATAC
1 ACAAAACCGGTCTATAAATGACAAAACAGGTAAAACGCTACCAGATATATTGAAAGTGTCGATAC
* * * * *
3515749 TTTATAAAAATATATTGATCTATACCAATATAACAGGTAAAAAAATGACAAAATCGGTCTACAAA
66 TTTATAAAAATATATCGATCCATAACAATATAACAGATAAAAAAATGACAAAACCGGTCTACAAA
3515814 TGACAAAACAGGT
131 TGACAAAACAGGT
* **
3515827 ACAAAACCGGTCTATAAATGACAAAACAGGTAAAGCGCTATTAGATATATTGAAAGTGTCGATAC
1 ACAAAACCGGTCTATAAATGACAAAACAGGTAAAACGCTACCAGATATATTGAAAGTGTCGATAC
*
3515892 TTTATAAAAATATATCGATCCATAACAATATAACAGATAAAAAAATGACAAAACCGGTCTATAAA
66 TTTATAAAAATATATCGATCCATAACAATATAACAGATAAAAAAATGACAAAACCGGTCTACAAA
*
3515957 TGATAAAACAGGT
131 TGACAAAACAGGT
3515970 A
1 A
3515971 AAGCGCTACC
Statistics
Matches: 132, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
143 132 1.00
ACGTcount: A:0.48, C:0.14, G:0.14, T:0.24
Consensus pattern (143 bp):
ACAAAACCGGTCTATAAATGACAAAACAGGTAAAACGCTACCAGATATATTGAAAGTGTCGATAC
TTTATAAAAATATATCGATCCATAACAATATAACAGATAAAAAAATGACAAAACCGGTCTACAAA
TGACAAAACAGGT
Found at i:3515957 original size:112 final size:112
Alignment explanation
Indices: 3515827--3516120 Score: 489
Period size: 112 Copynumber: 2.6 Consensus size: 112
3515817 CAAAACAGGT
**
3515827 ACAAAACCGGTCTATAAATGACAAAACAGGTAAAGCGCTATTAGATATATTGAAAGTGTCGATAC
1 ACAAAACCGGTCTATAAATGACAAAACAGGTAAAGCGCTACCAGATATATTGAAAGTGTCGATAC
*
3515892 TTTATAAAAATATATCGATCCATAACAATATAACAGATAAAAAAATG
66 TTTATAAAAATATATCGATCCATAACAATATAACAGATAAAAAAATA
*
3515939 ACAAAACCGGTCTATAAATGATAAAACAGGTAAAGCGCTACCAGATATATTGAAAGTGTCGATAC
1 ACAAAACCGGTCTATAAATGACAAAACAGGTAAAGCGCTACCAGATATATTGAAAGTGTCGATAC
* *
3516004 TTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATA
66 TTTATAAAAATATATCGATCCATAACAATATAACAGATAAAAAAATA
* * * * *
3516051 ATAAAATCGGTCTATAAATGACAAAACAAGTAAAGCGCTACCAGATATGTTGATAGTGTCGATAC
1 ACAAAACCGGTCTATAAATGACAAAACAGGTAAAGCGCTACCAGATATATTGAAAGTGTCGATAC
3516116 TTTAT
66 TTTAT
3516121 TATAAGTATC
Statistics
Matches: 170, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
112 170 1.00
ACGTcount: A:0.46, C:0.14, G:0.15, T:0.26
Consensus pattern (112 bp):
ACAAAACCGGTCTATAAATGACAAAACAGGTAAAGCGCTACCAGATATATTGAAAGTGTCGATAC
TTTATAAAAATATATCGATCCATAACAATATAACAGATAAAAAAATA
Found at i:3516304 original size:182 final size:182
Alignment explanation
Indices: 3515995--3516484 Score: 755
Period size: 182 Copynumber: 2.7 Consensus size: 182
3515985 ATATTGAAAG
* * *
3515995 TGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATAATAAAATCG
1 TGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAATCG
* * *
3516060 GTCTATAAATGACAAAACAAGTAAAGCGCTACCAGATATGTTGATAGTGTCGATACTTTATTATA
66 GTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATACTTTATTATA
* * * *
3516125 AGTATCGACACTTTTGGAATTTAAAAGAGAATAAGTTATAGCGCTAATAAAA
131 AGTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGAGCCAATAAAA
* * *
3516177 TGTCGATACTTTATAAAAATATATCAATCCATAACAATATAACAGGTAAAAATATGACAAAACCG
1 TGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAATCG
** * * * *
3516242 GTCTCGAAATGACAAAACCGGTAAAGAGTTACCGGATATGTTGAAAGTGTCGATATTTTATTATA
66 GTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATACTTTATTATA
*
3516307 AGTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGAGCCAATAAAG
131 AGTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGAGCCAATAAAA
* ** *
3516359 TGTCGATATTTTATAAAAATGTATCGATCCATAACAATATAACAATTAAAAATATGACAAAATTG
1 TGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAATCG
*
3516424 GTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTAT
66 GTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATACTTTAT
3516485 AAAAATGTAT
Statistics
Matches: 274, Mismatches: 34, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
182 274 1.00
ACGTcount: A:0.43, C:0.12, G:0.15, T:0.29
Consensus pattern (182 bp):
TGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAATCG
GTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATACTTTATTATA
AGTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGAGCCAATAAAA
Found at i:3517492 original size:23 final size:23
Alignment explanation
Indices: 3517466--3517513 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
3517456 AAATATGTCA
* *
3517466 ATATAAGCGTTACCTATTACATT
1 ATATAAGCGCTACCTAATACATT
*
3517489 ATATAAGCGCTACCTAATATATT
1 ATATAAGCGCTACCTAATACATT
3517512 AT
1 AT
3517514 TGTACTTGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.38, C:0.17, G:0.08, T:0.38
Consensus pattern (23 bp):
ATATAAGCGCTACCTAATACATT
Found at i:3522321 original size:117 final size:116
Alignment explanation
Indices: 3522123--3522343 Score: 325
Period size: 117 Copynumber: 1.9 Consensus size: 116
3522113 CATGTGAAGA
* * * *
3522123 CATGTTTTCGGGGGGGGCCTTATATTATTTTGTTAGAGAATATATTATCATTGCCCTATTATGTC
1 CATGTTTTCGGGGGGCGCCTTACATTATTTTGTCAAAGAATATATTATCATTGCCCTATTATGTC
* *
3522188 ACACATGTCCCTCGGGGGTACTATTCATGTCAGTACCTAAAGTGGTGAAAG
66 ACACATGTCCCCCGGGGGCACTATTCATGTCAGTACCTAAAGTGGTGAAAG
* * * *
3522239 CATGTTTTCGGGGGCGCGTCTTCCATTATTTTGTCAAAGAATATGTTATCATTGCTCTATTATGT
1 CATGTTTTCGGGGG-GCGCCTTACATTATTTTGTCAAAGAATATATTATCATTGCCCTATTATGT
* *
3522304 CACTCATGTCCCCCGGGGGCACTATTTATGTCAGTACCTA
65 CACACATGTCCCCCGGGGGCACTATTCATGTCAGTACCTA
3522344 TTATGTTTGA
Statistics
Matches: 92, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
116 14 0.15
117 78 0.85
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.36
Consensus pattern (116 bp):
CATGTTTTCGGGGGGCGCCTTACATTATTTTGTCAAAGAATATATTATCATTGCCCTATTATGTC
ACACATGTCCCCCGGGGGCACTATTCATGTCAGTACCTAAAGTGGTGAAAG
Done.