Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 119 of 335
Found at i:36216751 original size:2 final size:2
Alignment explanation
Indices: 36216744--36216784 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
36216734 AGTAGCTAAA
36216744 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
36216785 CATAAACAGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:36217701 original size:9 final size:8
Alignment explanation
Indices: 36217671--36217715 Score: 56
Period size: 8 Copynumber: 5.5 Consensus size: 8
36217661 AGAGGTTAGG
*
36217671 TTTTTTTC
1 TTTTTTTA
36217679 TTTTTCTTCA
1 TTTTT-TT-A
36217689 TTTTTTTA
1 TTTTTTTA
36217697 TTTTTTTA
1 TTTTTTTA
36217705 -TTTTTTA
1 TTTTTTTA
36217712 TTTT
1 TTTT
36217716 GGGTTGTATT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
7 7 0.21
8 17 0.52
9 4 0.12
10 5 0.15
ACGTcount: A:0.09, C:0.07, G:0.00, T:0.84
Consensus pattern (8 bp):
TTTTTTTA
Found at i:36218066 original size:44 final size:44
Alignment explanation
Indices: 36218005--36219094 Score: 1287
Period size: 44 Copynumber: 25.4 Consensus size: 44
36217995 CCCCGTCTAA
*
36218005 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTTTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
*
36218049 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCTGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* *
36218093 TACGGAGACGCCAAATCTGTTATCTTTGATCTGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* *
36218137 TACAGAGACACCAAATCTGTTATCTTCGATCTGCTCTCTGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* * *
36218181 TAAAGAGATGCCAAATC----ATCTTCGATCTGCTCTTCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* *
36218221 TACAGAGACGCCAAATTTGTTATCTTCGATCTGCTCTCTGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* *
36218265 TACAGAGACGCCAAATCTGTTATCTTTGATCTGCTCT-CGCCAC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
*
36218308 TACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
*
36218352 TACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
*
36218396 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTTTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* *
36218440 TACAGAGATGCCAAATC----ATCTTCGATCTGCTCTCTGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* *
36218480 TACAGAGATGCCAAATCTATTATCTTCGATCTGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* * *** *
36218524 TACAAAGACGCCAAATCTGTTATC-T-G--CCGCTACAGAGACGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCT-CTCCGCCGC
** * * **
36218565 --CA-A-ATCTG--TTATCT-TCGATC-T-GCTCT-C-CTCCGCTAC
1 TACAGAGA-C-GCCAAATCTGT-TATCTTCGATCTGCTCTCCGCCGC
* *** ** * * *
36218601 -AGAGACG-CCAAATCTGCTATCT-TCGATC--TG--CTCTCCGCCGC
1 TACAGA-GACGCCAAAT-CTGT-TATC-TTCGATCTGCTCTCCGCCGC
* *
36218642 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCTGCCGT
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
*
36218686 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTATCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* *
36218730 TACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCAC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* * * *
36218774 TATAGAGATGCCAAATCTGTTATCTTCGATCTACTCTCCACCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* * *
36218818 TACAGAGATGCCAAATC----ATCTTCAATCTGCTCTCCGTCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* * *
36218858 TACAGAGATGCCAAATCTGTTATCTTTGATCTGCTCTCCGCTGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* * *
36218902 TACAGAGACGACAAATCTATTATCTTCGATCTGCTCTCTGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* *
36218946 TACAAAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGTCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
*
36218990 TACAGAGACGCCAAATCTGTTATCTTCGATCTACTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* *
36219034 TACAGAGACGCCAAATCCGTTATCTTCGATCTGCTCTCTGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
36219078 TACAGAGACGCCAAATC
1 TACAGAGACGCCAAATC
36219095 ATCTTGGATT
Statistics
Matches: 901, Mismatches: 107, Indels: 76
0.83 0.10 0.07
Matches are distributed among these distances:
36 4 0.00
37 11 0.01
38 5 0.01
39 6 0.01
40 121 0.13
41 21 0.02
42 10 0.01
43 40 0.04
44 683 0.76
ACGTcount: A:0.22, C:0.32, G:0.17, T:0.29
Consensus pattern (44 bp):
TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
Found at i:36218182 original size:132 final size:132
Alignment explanation
Indices: 36218005--36219094 Score: 1586
Period size: 132 Copynumber: 8.5 Consensus size: 132
36217995 CCCCGTCTAA
* *
36218005 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTTTCCGCCGCTACAGAGACGCCAAATCTGTT
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCTGCCGCTACAGAGACGCCAAATCTGTT
* * *
36218070 ATCTTCGATCTGCTCTCTGCCGCTACGGAGACGCCAAATCTGTTATCTTTGATCTGCTCTCCGCC
66 ATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCC
36218135 GC
131 GC
* * *
36218137 TACAGAGACACCAAATCTGTTATCTTCGATCTGCTCTCTGCCGCTAAAGAGATGCCAAATC----
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCTGCCGCTACAGAGACGCCAAATCTGTT
* * *
36218198 ATCTTCGATCTGCTCTTCGCCGCTACAGAGACGCCAAATTTGTTATCTTCGATCTGCTCTCTGCC
66 ATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCC
36218263 GC
131 GC
* * *
36218265 TACAGAGACGCCAAATCTGTTATCTTTGATCTGCTCTC-GCCACTACAGAGATGCCAAATCTGTT
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCTGCCGCTACAGAGACGCCAAATCTGTT
*
36218329 ATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCCGCC
66 ATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCC
36218394 GC
131 GC
* * *
36218396 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTTTCCGCCGCTACAGAGATGCCAAATC----
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCTGCCGCTACAGAGACGCCAAATCTGTT
* * *
36218457 ATCTTCGATCTGCTCTCTGCCGCTACAGAGATGCCAAATCTATTATCTTCGATCTGCTCTCCGCC
66 ATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCC
36218522 GC
131 GC
*
36218524 TACAAAGACGCCAAATCTG-----TT--A-------TCTGCCGCTACAGAGACGCCAAATCTGTT
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCTGCCGCTACAGAGACGCCAAATCTGTT
* *
36218575 ATCTTCGATCTGCTCTCCTCCGCTACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCCGCC
66 ATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCC
36218640 GC
131 GC
*
36218642 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCTGCCGTTACAGAGACGCCAAATCTGTT
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCTGCCGCTACAGAGACGCCAAATCTGTT
* *
36218707 ATCTTCGATCTGCTATCCGCCGCTACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCC
66 ATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCC
*
36218772 AC
131 GC
* * * ** *
36218774 TATAGAGATGCCAAATCTGTTATCTTCGATCTACTCTCCACCGCTACAGAGATGCCAAATC----
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCTGCCGCTACAGAGACGCCAAATCTGTT
* * * * *
36218835 ATCTTCAATCTGCTCTCCGTCGCTACAGAGATGCCAAATCTGTTATCTTTGATCTGCTCTCCGCT
66 ATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCC
36218900 GC
131 GC
* * *
36218902 TACAGAGACGACAAATCTATTATCTTCGATCTGCTCTCTGCCGCTACAAAGACGCCAAATCTGTT
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCTGCCGCTACAGAGACGCCAAATCTGTT
* *
36218967 ATCTTCGATCTGCTCTCCGTCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTACTCTCCGCC
66 ATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCC
36219032 GC
131 GC
*
36219034 TACAGAGACGCCAAATCCGTTATCTTCGATCTGCTCTCTGCCGCTACAGAGACGCCAAATC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCTGCCGCTACAGAGACGCCAAATC
36219095 ATCTTGGATT
Statistics
Matches: 859, Mismatches: 72, Indels: 54
0.87 0.07 0.05
Matches are distributed among these distances:
114 23 0.03
118 80 0.09
121 1 0.00
123 4 0.00
125 1 0.00
127 20 0.02
128 291 0.34
131 99 0.12
132 340 0.40
ACGTcount: A:0.22, C:0.32, G:0.17, T:0.29
Consensus pattern (132 bp):
TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCTGCCGCTACAGAGACGCCAAATCTGTT
ATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCC
GC
Found at i:36218235 original size:172 final size:173
Alignment explanation
Indices: 36218005--36219094 Score: 1463
Period size: 172 Copynumber: 6.3 Consensus size: 173
36217995 CCCCGTCTAA
36218005 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCT-TTCCGCCGCTACAGAGACGCCAAATCTGT
1 TACAGAGACGCCAAATC---TATCTTCGATCTGCTCTT-CGCCGCTACAGAGACGCCAAATCTGT
* *
36218069 TATCTTCGATCTGCTCTCTGCCGCTACGGAGACGCCAAATCTGTTATCTTTGATCTGCTCTCCGC
62 TATCTTCGATCTGCTCTCTGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGC
* *
36218134 CGCTACAGAGACACCAAATCTGTTATCTTCGATCTGCTCTCTGCCGC
127 CGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* * *
36218181 TAAAGAGATGCCAAATC-ATCTTCGATCTGCTCTTCGCCGCTACAGAGACGCCAAATTTGTTATC
1 TACAGAGACGCCAAATCTATCTTCGATCTGCTCTTCGCCGCTACAGAGACGCCAAATCTGTTATC
* *
36218245 TTCGATCTGCTCTCTGCCGCTACAGAGACGCCAAATCTGTTATCTTTGATCTGCTCT-CGCCACT
66 TTCGATCTGCTCTCTGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCT
*
36218309 ACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
131 ACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
*
36218352 TACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTT
1 TACAGAGACGCCAAA--T-CTATCTTCGATCTGCTCTTCGCCGCTACAGAGACGCCAAATCTGTT
* * * *
36218417 ATCTTCGATCTGCTTTCCGCCGCTACAGAGATGCCAAATC----ATCTTCGATCTGCTCTCTGCC
63 ATCTTCGATCTGCTCTCTGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCC
* *
36218478 GCTACAGAGATGCCAAATCTATTATCTTCGATCTGCTCTCCGCCGC
128 GCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* *
36218524 TACAAAGACGCC-AA---ATC-T-G-T-T-ATC-T-GCCGCTACAGAGACGCCAAATCTGTTATC
1 TACAGAGACGCCAAATCTATCTTCGATCTGCTCTTCGCCGCTACAGAGACGCCAAATCTGTTATC
*
36218578 TTCGATCTGCTCTCCT-CCGCTACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCCGCCGC
66 TTCGATCTGCTCT-CTGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* *
36218642 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCTGCCGT
130 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* * *
36218686 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTATCCGCCGCTACAGAGATGCCAAATCTGTT
1 TACAGAGACGCCAAATC---TATCTTCGATCTGCTCTTCGCCGCTACAGAGACGCCAAATCTGTT
* * * * * *
36218751 ATCTTCGATCTGCTCTCCGCCACTATAGAGATGCCAAATCTGTTATCTTCGATCTACTCTCCACC
63 ATCTTCGATCTGCTCTCTGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCC
* * *
36218816 GCTACAGAGATGCCAAATC----ATCTTCAATCTGCTCTCCGTCGC
128 GCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* * * * * *
36218858 TACAGAGATGCCAAATCTGTTATCTTTGATCTGCTCTCCGCTGCTACAGAGACGACAAATCTATT
1 TACAGAGACGCCAAATC---TATCTTCGATCTGCTCTTCGCCGCTACAGAGACGCCAAATCTGTT
* *
36218923 ATCTTCGATCTGCTCTCTGCCGCTACAAAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGTC
63 ATCTTCGATCTGCTCTCTGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCC
*
36218988 GCTACAGAGACGCCAAATCTGTTATCTTCGATCTACTCTCCGCCGC
128 GCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
36219034 TACAGAGACGCCAAATCCGTTATCTTCGATCTGCTC-TCTGCCGCTACAGAGACGCCAAATC
1 TACAGAGACGCCAAAT-C--TATCTTCGATCTGCTCTTC-GCCGCTACAGAGACGCCAAATC
36219095 ATCTTGGATT
Statistics
Matches: 811, Mismatches: 71, Indels: 64
0.86 0.08 0.07
Matches are distributed among these distances:
158 61 0.08
159 1 0.00
160 2 0.00
161 1 0.00
162 74 0.09
163 3 0.00
164 1 0.00
165 3 0.00
169 3 0.00
170 1 0.00
171 77 0.09
172 310 0.38
173 4 0.00
174 2 0.00
175 81 0.10
176 186 0.23
177 1 0.00
ACGTcount: A:0.22, C:0.32, G:0.17, T:0.29
Consensus pattern (173 bp):
TACAGAGACGCCAAATCTATCTTCGATCTGCTCTTCGCCGCTACAGAGACGCCAAATCTGTTATC
TTCGATCTGCTCTCTGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCT
ACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
Found at i:36218553 original size:30 final size:30
Alignment explanation
Indices: 36218519--36218578 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
36218509 TCTGCTCTCC
36218519 GCCGCTACAAAGACGCCAAATCTGTTATCT
1 GCCGCTACAAAGACGCCAAATCTGTTATCT
*
36218549 GCCGCTACAGAGACGCCAAATCTGTTATCT
1 GCCGCTACAAAGACGCCAAATCTGTTATCT
36218579 TCGATCTGCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.23
Consensus pattern (30 bp):
GCCGCTACAAAGACGCCAAATCTGTTATCT
Found at i:36218585 original size:74 final size:74
Alignment explanation
Indices: 36218464--36218622 Score: 264
Period size: 74 Copynumber: 2.1 Consensus size: 74
36218454 ATCATCTTCG
* *
36218464 ATCTGCTCTCTGCCGCTACAGAGATGCCAAATCTATTATCTTCGATCTGCTCTCCGCCGCTACAA
1 ATCTGCTATCTGCCGCTACAGAGACGCCAAATCTATTATCTTCGATCTGCTCTCCGCCGCTACAA
36218529 AGACGCCAA
66 AGACGCCAA
* * * *
36218538 ATCTGTTATCTGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCTCCGCTACAG
1 ATCTGCTATCTGCCGCTACAGAGACGCCAAATCTATTATCTTCGATCTGCTCTCCGCCGCTACAA
36218603 AGACGCCAA
66 AGACGCCAA
36218612 ATCTGCTATCT
1 ATCTGCTATCT
36218623 TCGATCTGCT
Statistics
Matches: 78, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
74 78 1.00
ACGTcount: A:0.23, C:0.33, G:0.16, T:0.28
Consensus pattern (74 bp):
ATCTGCTATCTGCCGCTACAGAGACGCCAAATCTATTATCTTCGATCTGCTCTCCGCCGCTACAA
AGACGCCAA
Found at i:36219170 original size:88 final size:88
Alignment explanation
Indices: 36219056--36219279 Score: 326
Period size: 88 Copynumber: 2.6 Consensus size: 88
36219046 AAATCCGTTA
* * * * * *
36219056 TCTTCGATCTGCTCTCTGCC-GCTACAGAGACGCCAAATCATCTTGGATTTGCTTCAACGTAAAC
1 TCTTCGAACTGCTCCCCGCCTGATACAGAGATGCCAAATCATCTTGGATCTGCTTCAACGTAAAC
*
36219120 ACGTGAAAGCCAAATCAGCTATG
66 ACGTAAAAGCCAAATCAGCTATG
*
36219143 TCTTCGAACTGCTCCCCGCCTGATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGTAAAC
1 TCTTCGAACTGCTCCCCGCCTGATACAGAGATGCCAAATCATCTTGGATCTGCTTCAACGTAAAC
36219208 ACGTAAAAGCCAAATCAGCTATG
66 ACGTAAAAGCCAAATCAGCTATG
* * *
36219231 TCTTC-AATCTGCTCCTCGTCTGATACAGAAATGCCAAATCATCTTGGAT
1 TCTTCGAA-CTGCTCCCCGCCTGATACAGAGATGCCAAATCATCTTGGAT
36219280 ATCTTTAGCT
Statistics
Matches: 124, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
87 19 0.15
88 105 0.85
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (88 bp):
TCTTCGAACTGCTCCCCGCCTGATACAGAGATGCCAAATCATCTTGGATCTGCTTCAACGTAAAC
ACGTAAAAGCCAAATCAGCTATG
Found at i:36219195 original size:260 final size:259
Alignment explanation
Indices: 36218005--36219196 Score: 1144
Period size: 260 Copynumber: 4.6 Consensus size: 259
36217995 CCCCGTCTAA
* * * *
36218005 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTTTCCGCCGCTACAGAGACGCCAAATCTGTT
1 TACAGAGACGCCAAATCCGTTATCTTCGATCTACTCTCCACCGCTACAGAGACGCCAAATC----
* * *** * * * *
36218070 ATCTTCGATCTGCTCTCTGCCGCTACGGAGACGCCAAATCTGTTA-TCTTTGATCTGCTCTCCGC
62 ATCTTCAATCTGCTCTCCGTAACTACAGAGAAGCCAAATCTGCTATTCTTCGATCTGCTCTCCGC
* *
36218134 C-GCTACAGAGACACCAAATCTGTTATCTTCGATCTGCTCTCTGCCGCTA-AAGAGATGCCAAAT
127 CTGCTACAGAGACGCCAAATC---TATCTTCGATCTGCTCTCTGCCGCTACAA-AGACGCCAAAT
* * * *
36218197 C----ATCTTCGATCTGCTCTTCGCCGCTACAGAGACGCCAAATTTGTTATCTTCGATCTGCTCT
188 CTGTTATCTTCGATCTGCTATCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTACTCT
* *
36218258 CTGCCGC
253 CCGCCAC
* * * * * *
36218265 TACAGAGACGCCAAATCTGTTATCTTTGATCTGCTCT-CGCCACTACAGAGATGCCAAATCTGTT
1 TACAGAGACGCCAAATCCGTTATCTTCGATCTACTCTCCACCGCTACAGAGACGCCAAATC----
* *** *
36218329 ATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGCTA-TCTTCGATCTGCTCTCCGC
62 ATCTTCAATCTGCTCTCCGTAACTACAGAGAAGCCAAATCTGCTATTCTTCGATCTGCTCTCCGC
* * * *
36218393 C-GCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTTTCCGCCGCTACAGAGATGCCAAATC
127 CTGCTACAGAGACGCCAAATC---TATCTTCGATCTGCTCTCTGCCGCTACAAAGACGCCAAATC
* * * * *
36218457 ----ATCTTCGATCTGCTCTCTGCCGCTACAGAGATGCCAAATCTATTATCTTCGATCTGCTCTC
189 TGTTATCTTCGATCTGCTATCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTACTCTC
*
36218518 CGCCGC
254 CGCCAC
* *
36218524 TACAAAGACGCC-AA------ATC-T-G-T-TA-TCT--GCCGCTACAGAGACGCCAAATCTGTT
1 TACAGAGACGCCAAATCCGTTATCTTCGATCTACTCTCCACCGCTACAGAGACGCCAAATC----
* ** *
36218575 ATCTTCGATCTGCTCTCC-TCCGCTACAGAGACGCCAAATCTGCTA-TCTTCGATCTGCTCTCCG
62 ATCTTCAATCTGCTCTCCGT-AACTACAGAGAAGCCAAATCTGCTATTCTTCGATCTGCTCTCCG
* *
36218638 CC-GCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCTGCCGTTACAGAGACGCCAAAT
126 CCTGCTACAGAGACGCCAAATC---TATCTTCGATCTGCTCTCTGCCGCTACAAAGACGCCAAAT
* *
36218702 CTGTTATCTTCGATCTGCTATCCGCCGCTACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCT
188 CTGTTATCTTCGATCTGCTATCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTACTCT
36218767 CCGCCAC
253 CCGCCAC
* * * *
36218774 TATAGAGATGCCAAATCTGTTATCTTCGATCTACTCTCCACCGCTACAGAGATGCCAAATCATCT
1 TACAGAGACGCCAAATCCGTTATCTTCGATCTACTCTCCACCGCTACAGAGACGCCAAATCATCT
** * * *
36218839 TCAATCTGCTCTCCGTCGCTACAGAGATGCCAAATCTGTTA-TCTTTGATCTGCTCTCCG-CTGC
66 TCAATCTGCTCTCCGTAACTACAGAGAAGCCAAATCTGCTATTCTTCGATCTGCTCTCCGCCTGC
*
36218902 TACAGAGACGACAAATCTATTATCTTCGATCTGCTCTCTGCCGCTACAAAGACGCCAAATCTGTT
131 TACAGAGACGCCAAATC---TATCTTCGATCTGCTCTCTGCCGCTACAAAGACGCCAAATCTGTT
* *
36218967 ATCTTCGATCTGCTCTCCGTCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTACTCTCCGCC
193 ATCTTCGATCTGCTATCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTACTCTCCGCC
*
36219032 GC
258 AC
* **
36219034 TACAGAGACGCCAAATCCGTTATCTTCGATCTGCTCTCTGCCGCTACAGAGACGCCAAATCATCT
1 TACAGAGACGCCAAATCCGTTATCTTCGATCTACTCTCCACCGCTACAGAGACGCCAAATCATCT
** * * * * *
36219099 TGGATTTGCT-TCAACGTAA--ACACGTGAAAGCCAAATCAGCTATGTCTTCGAACTGCTCCCCG
66 TCAATCTGCTCTC--CGTAACTACA-GAG-AAGCCAAATCTGCTAT-TCTTCGATCTGCTCTCCG
* * *
36219161 CCTGATACAGAGATGCCAAATC-ATCTTGGATCTGCT
126 CCTGCTACAGAGACGCCAAATCTATCTTCGATCTGCT
36219197 TCAATGTAAA
Statistics
Matches: 831, Mismatches: 72, Indels: 58
0.86 0.07 0.06
Matches are distributed among these distances:
246 146 0.18
247 3 0.00
248 1 0.00
249 1 0.00
250 73 0.09
251 3 0.00
252 3 0.00
257 3 0.00
258 3 0.00
259 222 0.27
260 299 0.36
261 18 0.02
262 3 0.00
263 15 0.02
264 38 0.05
ACGTcount: A:0.23, C:0.31, G:0.17, T:0.29
Consensus pattern (259 bp):
TACAGAGACGCCAAATCCGTTATCTTCGATCTACTCTCCACCGCTACAGAGACGCCAAATCATCT
TCAATCTGCTCTCCGTAACTACAGAGAAGCCAAATCTGCTATTCTTCGATCTGCTCTCCGCCTGC
TACAGAGACGCCAAATCTATCTTCGATCTGCTCTCTGCCGCTACAAAGACGCCAAATCTGTTATC
TTCGATCTGCTATCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTACTCTCCGCCAC
Found at i:36221375 original size:232 final size:232
Alignment explanation
Indices: 36220969--36221433 Score: 894
Period size: 232 Copynumber: 2.0 Consensus size: 232
36220959 CTCAATACTG
36220969 TAACAGTGGGCCGGAGTTTCATAAATGCTCATCCGGATGGGTTTGAAATCTTCTTGTTTGTTCAC
1 TAACAGTGGGCCGGAGTTTCATAAATGCTCATCCGGATGGGTTTGAAATCTTCTTGTTTGTTCAC
36221034 CTTGATCATGGAGGCTAAGGTGGCCAAAGCATCGGCCATCTAATTTTCATCTCGTGGCAGGTAAC
66 CTTGATCATGGAGGCTAAGGTGGCCAAAGCATCGGCCATCTAATTTTCATCTCGTGGCAGGTAAC
36221099 AGAAGGTAATGTCATCAAACTCTTTGACCAATTCAAGGACCAGTTTCCGATAGTCGATCAACTTG
131 AGAAGGTAATGTCATCAAACTCTTTGACCAATTCAAGGACCAGTTTCCGATAGTCGATCAACTTG
36221164 GGGTCTCTGGTCTCCCATTCTCCCTTGAGTTGATAAA
196 GGGTCTCTGGTCTCCCATTCTCCCTTGAGTTGATAAA
*
36221201 TAACAGTGGGCCGGAGTTTCATAAATGCTCATCCGGATGGGTTTGACATCTTCTTGTTTGTTCAC
1 TAACAGTGGGCCGGAGTTTCATAAATGCTCATCCGGATGGGTTTGAAATCTTCTTGTTTGTTCAC
*
36221266 CTTGATCATGGAGGCTAAGGTGGCCAAAGCATCGGCCATCTGATTTTCATCTCGTGGCAGGTAAC
66 CTTGATCATGGAGGCTAAGGTGGCCAAAGCATCGGCCATCTAATTTTCATCTCGTGGCAGGTAAC
*
36221331 AGAAGGTAATGTCATCAAACTCTTTGACCAATTCAAGGACCAGTTTTCGATAGTCGATCAACTTG
131 AGAAGGTAATGTCATCAAACTCTTTGACCAATTCAAGGACCAGTTTCCGATAGTCGATCAACTTG
*
36221396 GGGTCTGTGGTCTCCCATTCTCCCTTGAGTTGATAAA
196 GGGTCTCTGGTCTCCCATTCTCCCTTGAGTTGATAAA
36221433 T
1 T
36221434 CACTAGAGCA
Statistics
Matches: 229, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
232 229 1.00
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.31
Consensus pattern (232 bp):
TAACAGTGGGCCGGAGTTTCATAAATGCTCATCCGGATGGGTTTGAAATCTTCTTGTTTGTTCAC
CTTGATCATGGAGGCTAAGGTGGCCAAAGCATCGGCCATCTAATTTTCATCTCGTGGCAGGTAAC
AGAAGGTAATGTCATCAAACTCTTTGACCAATTCAAGGACCAGTTTCCGATAGTCGATCAACTTG
GGGTCTCTGGTCTCCCATTCTCCCTTGAGTTGATAAA
Found at i:36231047 original size:19 final size:19
Alignment explanation
Indices: 36231023--36231060 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
36231013 GAAATGAATA
*
36231023 ATTTCAGGCAAATAGGTTG
1 ATTTCAAGCAAATAGGTTG
36231042 ATTTCAAGCAAATAGGTTG
1 ATTTCAAGCAAATAGGTTG
36231061 GCAATCTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.32
Consensus pattern (19 bp):
ATTTCAAGCAAATAGGTTG
Found at i:36232841 original size:3 final size:3
Alignment explanation
Indices: 36232726--36232828 Score: 95
Period size: 3 Copynumber: 33.0 Consensus size: 3
36232716 GTAAAATAAG
* *
36232726 ATA ATA ATA ATA ATA ATA ATA A-A AGTA ATA AGA ATA TTTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA -ATA ATA ATA
*
36232772 ATA ATA ATA ATA ATA AT- ATAA ATA ATA ATA TATA CATGA AAA ATA AT-
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -AT-A ATA ATA ATA
36232819 ATAA ATA ATA
1 AT-A ATA ATA
36232829 GCAAAAATAA
Statistics
Matches: 84, Mismatches: 7, Indels: 18
0.77 0.06 0.17
Matches are distributed among these distances:
2 6 0.07
3 63 0.75
4 14 0.17
5 1 0.01
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:36237303 original size:19 final size:19
Alignment explanation
Indices: 36237279--36237324 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
36237269 AACGCCTCTT
36237279 TTTGCATT-CATTTCATTCA
1 TTTGCATTGCATTTCA-TCA
36237298 TTTGCATTGCATTTCATCA
1 TTTGCATTGCATTTCATCA
*
36237317 TATGCATT
1 TTTGCATT
36237325 AAATTTCACA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.22, C:0.20, G:0.09, T:0.50
Consensus pattern (19 bp):
TTTGCATTGCATTTCATCA
Found at i:36237330 original size:19 final size:20
Alignment explanation
Indices: 36237288--36237332 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
36237278 TTTTGCATTC
* **
36237288 ATTTCATTCATTTGCATTGC
1 ATTTCATTCATATGCATTAA
36237308 ATTTCA-TCATATGCATTAA
1 ATTTCATTCATATGCATTAA
36237327 ATTTCA
1 ATTTCA
36237333 CAAAAAGACC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.29, C:0.18, G:0.07, T:0.47
Consensus pattern (20 bp):
ATTTCATTCATATGCATTAA
Found at i:36237491 original size:12 final size:12
Alignment explanation
Indices: 36237457--36237511 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 12
36237447 TAGAAAGATT
36237457 AGAACAGATGCA
1 AGAACAGATGCA
* *
36237469 A-AAGGAAATGCA
1 AGAA-CAGATGCA
36237481 AGAACAGATGC-
1 AGAACAGATGCA
*
36237492 AGACACAAATGCA
1 AGA-ACAGATGCA
36237505 AGAACAG
1 AGAACAG
36237512 TTGGCAAAGA
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
11 5 0.15
12 23 0.70
13 5 0.15
ACGTcount: A:0.53, C:0.16, G:0.24, T:0.07
Consensus pattern (12 bp):
AGAACAGATGCA
Found at i:36237501 original size:24 final size:24
Alignment explanation
Indices: 36237457--36237511 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
36237447 TAGAAAGATT
*
36237457 AGAACAGATGCAAAAGGAAATGCA
1 AGAACAGATGCAAAAGCAAATGCA
*
36237481 AGAACAGATGCAGACA-CAAATGCA
1 AGAACAGATGCA-AAAGCAAATGCA
36237505 AGAACAG
1 AGAACAG
36237512 TTGGCAAAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 26 0.93
25 2 0.07
ACGTcount: A:0.53, C:0.16, G:0.24, T:0.07
Consensus pattern (24 bp):
AGAACAGATGCAAAAGCAAATGCA
Found at i:36237793 original size:83 final size:83
Alignment explanation
Indices: 36237648--36237802 Score: 220
Period size: 83 Copynumber: 1.9 Consensus size: 83
36237638 AATGACAATA
* *** * *
36237648 AAGATCCTCTCTACCCTCTGGTTTCACCCCGGTAAATGCTCAAACGCAACACGAGATGCACACGC
1 AAGATCCTCTCTACCCCCTGGTTTCACCCCAACAAATGCTCAAACGCAACACAAGATACACACGC
36237713 AAAGGTCATCCATTTCTG
66 AAAGGTCATCCATTTCTG
* * *
36237731 AAGATCCTCTCTACCCCCTGGTTTTACCCCAACAAATGTTCAAACGCAACCCAAGATACACACGC
1 AAGATCCTCTCTACCCCCTGGTTTCACCCCAACAAATGCTCAAACGCAACACAAGATACACACGC
*
36237796 GAAGGTC
66 AAAGGTC
36237803 GTCTATTACA
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
83 62 1.00
ACGTcount: A:0.30, C:0.34, G:0.15, T:0.21
Consensus pattern (83 bp):
AAGATCCTCTCTACCCCCTGGTTTCACCCCAACAAATGCTCAAACGCAACACAAGATACACACGC
AAAGGTCATCCATTTCTG
Found at i:36245581 original size:45 final size:43
Alignment explanation
Indices: 36245530--36245991 Score: 153
Period size: 45 Copynumber: 10.4 Consensus size: 43
36245520 GAATTTACAG
36245530 ATCTTATCTCCATGAAGTAGCAATGGAGCAGATCGAAGACGGAGA
1 ATCTTATCTCC-TGAAGTAGCAATGGAGCAGATCGAAGAC-GAGA
* * * ** *
36245575 ATCTTATCTCTTTGAAGTAGTAAGGGAGCAGATTTAAGCCACTAG-
1 ATCTTATCTC-CTGAAGTAGCAATGGAGCAGATCGAAG--ACGAGA
* * * * * *
36245620 -CCTTATCTCCCTG-AGCAGCAGTAGAGCA-AGCTGAAGATTGTAG-
1 ATCTTATCT-CCTGAAGTAGCAATGGAGCAGATC-GAAGA-CG-AGA
*
36245663 ATCTTATCTCCAT-AAGGTAGCAATGGAGCAGATCGAGGACGACGA
1 ATCTTATCTCC-TGAA-GTAGCAATGGAGCAGATCGAAGACGA-GA
* * * * * *
36245708 ATCTTATCTACCTGAGGTAGCAAGGGATCATATTC-AAG-CCATTA
1 ATCTTATCT-CCTGAAGTAGCAATGGAGCAGA-TCGAAGACGA-GA
** * * * * * * *
36245752 GCCTTGTCTCCCTG-AGCAGTAGTGGAGTAG-GCTGAAGATTGTAG-
1 ATCTTATCT-CCTGAAGTAGCAATGGAGCAGATC-GAAGA-CG-AGA
** *
36245796 ATCTTATCTCCAT-AAGGTATTAATGGAGCAGATCGAGGACGATGA
1 ATCTTATCTCC-TGAA-GTAGCAATGGAGCAGATCGAAGACGA-GA
* * *
36245841 ATCTTATCTTCCTGAAGTAGCAAGGGAGCAGATTGAA-ACCAAGA
1 ATCTTATC-TCCTGAAGTAGCAATGGAGCAGATCGAAGA-CGAGA
* * * * * *
36245885 GTCTTATCTCTCTGAAGTTGCAGTGAAGCAGATTGAAGA-TAGCA
1 ATCTTATCTC-CTGAAGTAGCAATGGAGCAGATCGAAGACGAG-A
* * * *
36245929 GATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAG-CCACA
1 -ATCTTATCT-CCTGAAGTAGCAATGGAGCAGATCGAAGACGAGA
36245973 ATCCTTATCTCTCTGAAGT
1 AT-CTTATCTC-CTGAAGT
36245992 TGCAGTAGAG
Statistics
Matches: 302, Mismatches: 76, Indels: 79
0.66 0.17 0.17
Matches are distributed among these distances:
41 2 0.01
42 1 0.00
43 39 0.13
44 91 0.30
45 150 0.50
46 17 0.06
47 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.26
Consensus pattern (43 bp):
ATCTTATCTCCTGAAGTAGCAATGGAGCAGATCGAAGACGAGA
Found at i:36245766 original size:133 final size:131
Alignment explanation
Indices: 36245528--36245874 Score: 489
Period size: 133 Copynumber: 2.6 Consensus size: 131
36245518 ATGAATTTAC
* *
36245528 AGATCTTATCTCCATGAA-GTAGCAATGGAGCAGATCGAAGACGGAGAATCTTATCTCTTTGAAG
1 AGATCTTATCTCCAT-AAGGTAGCAATGGAGCAGATCGAGGAC-GAGAATCTTATCTC-CTGAAG
* *
36245592 TAGTAAGGGAGCAGATTTAAGCCACTAGCCTTATCTCCCTGAGCAGCAGTAGAGCAAGCTGAAGA
63 TAGCAAGGGAGCAGATTCAAGCCACTAGCCTTATCTCCCTGAGCAGCAGTAGAGCAAGCTGAAGA
36245657 TTGT
128 TTGT
*
36245661 AGATCTTATCTCCATAAGGTAGCAATGGAGCAGATCGAGGACGACGAATCTTATCTACCTGAGGT
1 AGATCTTATCTCCATAAGGTAGCAATGGAGCAGATCGAGGACGA-GAATCTTATCT-CCTGAAGT
* * * * * * * *
36245726 AGCAAGGGATCATATTCAAGCCATTAGCCTTGTCTCCCTGAGCAGTAGTGGAGTAGGCTGAAGAT
64 AGCAAGGGAGCAGATTCAAGCCACTAGCCTTATCTCCCTGAGCAGCAGTAGAGCAAGCTGAAGAT
36245791 TGT
129 TGT
**
36245794 AGATCTTATCTCCATAAGGTATTAATGGAGCAGATCGAGGACGATGAATCTTATCTTCCTGAAGT
1 AGATCTTATCTCCATAAGGTAGCAATGGAGCAGATCGAGGACGA-GAATCTTATC-TCCTGAAGT
36245859 AGCAAGGGAGCAGATT
64 AGCAAGGGAGCAGATT
36245875 GAAACCAAGA
Statistics
Matches: 191, Mismatches: 19, Indels: 8
0.88 0.09 0.04
Matches are distributed among these distances:
132 4 0.02
133 185 0.97
134 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (131 bp):
AGATCTTATCTCCATAAGGTAGCAATGGAGCAGATCGAGGACGAGAATCTTATCTCCTGAAGTAG
CAAGGGAGCAGATTCAAGCCACTAGCCTTATCTCCCTGAGCAGCAGTAGAGCAAGCTGAAGATTG
T
Found at i:36245915 original size:44 final size:44
Alignment explanation
Indices: 36245842--36245997 Score: 153
Period size: 44 Copynumber: 3.5 Consensus size: 44
36245832 GGACGATGAA
*
36245842 TCTTATCT-TCCTGAAGTAGCAAG-GGAGCAGATTGAAACCAAGAG
1 TCTTATCTCT-CTGAAGTTGC-AGTGGAGCAGATTGAAACCAAGAG
* *
36245886 TCTTATCTCTCTGAAGTTGCAGTGAAGCAGATTGAAGA--TAGCAG
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAA-ACCAAG-AG
* * *
36245930 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGCCACA-A-
1 -TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAACCA-AGAG
36245974 TCCTTATCTCTCTGAAGTTGCAGT
1 T-CTTATCTCTCTGAAGTTGCAGT
36245998 AGAGTAGTAT
Statistics
Matches: 94, Mismatches: 9, Indels: 18
0.78 0.07 0.15
Matches are distributed among these distances:
43 5 0.05
44 52 0.55
45 36 0.38
47 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.28
Consensus pattern (44 bp):
TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAACCAAGAG
Found at i:36245981 original size:133 final size:132
Alignment explanation
Indices: 36245527--36245991 Score: 476
Period size: 133 Copynumber: 3.5 Consensus size: 132
36245517 GATGAATTTA
* *
36245527 CAGATCTTATCTCCATGAA-GTAGCAATGGAGCAGATCGAAGACGGAGAATCTTATCTCTTTGAA
1 CAGATCTTATCTCCAT-AAGGTAGCAATGGAGCAGATCGAAGAC-GACAATCTTATCTCTCTGAA
* * *
36245591 GTAGTAAGGGAGCAGATTTAAGCCACTAGCCTTATCTCCCTGAGCAGCAGT-AGAGCA-AGCTGA
64 GTAGCAAGGGAGCAGATTCAAGCCAATAGCCTTATCTCCCTGAGCAGCAGTGA-AGCAGA-CTGA
36245654 AGATTG
127 AGATTG
* * *
36245660 TAGATCTTATCTCCATAAGGTAGCAATGGAGCAGATCGAGGACGACGAATCTTATCTAC-CTGAG
1 CAGATCTTATCTCCATAAGGTAGCAATGGAGCAGATCGAAGACGAC-AATCTTATCT-CTCTGAA
* * * * * * * *
36245724 GTAGCAAGGGATCATATTCAAGCCATTAGCCTTGTCTCCCTGAGCAGTAGTGGAGTAGGCTGAAG
64 GTAGCAAGGGAGCAGATTCAAGCCAATAGCCTTATCTCCCTGAGCAGCAGTGAAGCAGACTGAAG
36245789 ATTG
129 ATTG
* ** * *
36245793 TAGATCTTATCTCCATAAGGTATTAATGGAGCAGATCGAGGACGATGAATCTTATCT-TCCTGAA
1 CAGATCTTATCTCCATAAGGTAGCAATGGAGCAGATCGAAGACGA-CAATCTTATCTCT-CTGAA
* * * * * ** *
36245857 GTAGCAAGGGAGCAGATTGAAACCAAGAGTCTTATCTCTCTGAAGTTGCAGTGAAGCAGATTGAA
64 GTAGCAAGGGAGCAGATTCAAGCCAATAGCCTTATCTCCCTG-AGCAGCAGTGAAGCAGACTGAA
*
36245922 GATAG
128 GATTG
* * * *
36245927 CAGATCTTATCTCCCTGAA-GTTGCAGTGGAGCAGATCGAAG-CCACAATCCTTATCTCTCTGAA
1 CAGATCTTATCTCCAT-AAGGTAGCAATGGAGCAGATCGAAGACGACAAT-CTTATCTCTCTGAA
36245990 GT
64 GT
36245992 TGCAGTAGAG
Statistics
Matches: 275, Mismatches: 45, Indels: 24
0.80 0.13 0.07
Matches are distributed among these distances:
132 7 0.03
133 214 0.78
134 52 0.19
135 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (132 bp):
CAGATCTTATCTCCATAAGGTAGCAATGGAGCAGATCGAAGACGACAATCTTATCTCTCTGAAGT
AGCAAGGGAGCAGATTCAAGCCAATAGCCTTATCTCCCTGAGCAGCAGTGAAGCAGACTGAAGAT
TG
Found at i:36251661 original size:33 final size:33
Alignment explanation
Indices: 36251619--36251685 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
36251609 TAAAAATTGT
*
36251619 TAATCGTATTTGATTAAGTTTGTCTGAGAAATC
1 TAATCGTATTTGATTAAGTTTGTATGAGAAATC
36251652 TAATCGTATTTGATTAAGTTTGTATGAGAAATC
1 TAATCGTATTTGATTAAGTTTGTATGAGAAATC
36251685 T
1 T
36251686 TACTTTTATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.31, C:0.07, G:0.18, T:0.43
Consensus pattern (33 bp):
TAATCGTATTTGATTAAGTTTGTATGAGAAATC
Found at i:36254120 original size:30 final size:30
Alignment explanation
Indices: 36254071--36254127 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
36254061 CCCGATGTCT
* * *
36254071 TAAATAAAAACTTTTAAATAACTCAATGAC
1 TAAAAAAAAAATTTCAAATAACTCAATGAC
*
36254101 TAAAAAAAAAATTTCAAATAATTCAAT
1 TAAAAAAAAAATTTCAAATAACTCAAT
36254128 AATCAATTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.58, C:0.11, G:0.02, T:0.30
Consensus pattern (30 bp):
TAAAAAAAAAATTTCAAATAACTCAATGAC
Found at i:36264785 original size:20 final size:19
Alignment explanation
Indices: 36264736--36264785 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
36264726 AATTTTAGTT
36264736 AAAATATT-ATTTTAATAA
1 AAAATATTAATTTTAATAA
*
36264754 AATAT-TTAAATTTTATATAA
1 AAAATATT-AATTTTA-ATAA
36264774 AAAATATTAATT
1 AAAATATTAATT
36264786 ATATTTTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
17 2 0.08
18 4 0.15
19 6 0.23
20 12 0.46
21 2 0.08
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
AAAATATTAATTTTAATAA
Found at i:36264912 original size:34 final size:34
Alignment explanation
Indices: 36264869--36264987 Score: 114
Period size: 34 Copynumber: 3.4 Consensus size: 34
36264859 GTATCTCTAA
* *
36264869 TTAATAACATTATTAATATATTATAGTTTTTAAT
1 TTAAAAACATTATTAATATATTAAAGTTTTTAAT
** *
36264903 TTAAAAACATTATTAATGATACAACCAAAGTATCTCTAA-
1 TTAAAAACATTATTAAT-AT---ATTAAAGT-T-TTTAAT
*
36264942 TTAATAACATTATTAATATATTAAAGTTTTTAAT
1 TTAAAAACATTATTAATATATTAAAGTTTTTAAT
*
36264976 TTAAAAATATTA
1 TTAAAAACATTA
36264988 GAAAATCAAA
Statistics
Matches: 67, Mismatches: 11, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
33 4 0.06
34 27 0.40
35 8 0.12
38 7 0.10
39 17 0.25
40 4 0.06
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.44
Consensus pattern (34 bp):
TTAAAAACATTATTAATATATTAAAGTTTTTAAT
Found at i:36264925 original size:73 final size:73
Alignment explanation
Indices: 36264839--36264987 Score: 280
Period size: 73 Copynumber: 2.0 Consensus size: 73
36264829 CTTGTAAATT
*
36264839 TTATTAATGATACAACCAAAGTATCTCTAATTAATAACATTATTAATATATTATAGTTTTTAATT
1 TTATTAATGATACAACCAAAGTATCTCTAATTAATAACATTATTAATATATTAAAGTTTTTAATT
36264904 TAAAAACA
66 TAAAAACA
36264912 TTATTAATGATACAACCAAAGTATCTCTAATTAATAACATTATTAATATATTAAAGTTTTTAATT
1 TTATTAATGATACAACCAAAGTATCTCTAATTAATAACATTATTAATATATTAAAGTTTTTAATT
*
36264977 TAAAAATA
66 TAAAAACA
36264985 TTA
1 TTA
36264988 GAAAATCAAA
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 74 1.00
ACGTcount: A:0.46, C:0.09, G:0.04, T:0.42
Consensus pattern (73 bp):
TTATTAATGATACAACCAAAGTATCTCTAATTAATAACATTATTAATATATTAAAGTTTTTAATT
TAAAAACA
Found at i:36264954 original size:39 final size:39
Alignment explanation
Indices: 36264839--36264958 Score: 144
Period size: 39 Copynumber: 3.2 Consensus size: 39
36264829 CTTGTAAATT
36264839 TTATTAATGATACAACCAAAGTATCTCTAATTAATAACA
1 TTATTAATGATACAACCAAAGTATCTCTAATTAATAACA
** * * *
36264878 TTATTAAT-AT---ATTATAGT-T-TTTAATTTAAAAACA
1 TTATTAATGATACAACCAAAGTATCTCTAA-TTAATAACA
36264912 TTATTAATGATACAACCAAAGTATCTCTAATTAATAACA
1 TTATTAATGATACAACCAAAGTATCTCTAATTAATAACA
36264951 TTATTAAT
1 TTATTAAT
36264959 ATATTAAAGT
Statistics
Matches: 64, Mismatches: 10, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
33 4 0.06
34 17 0.27
35 7 0.11
38 7 0.11
39 25 0.39
40 4 0.06
ACGTcount: A:0.45, C:0.11, G:0.04, T:0.40
Consensus pattern (39 bp):
TTATTAATGATACAACCAAAGTATCTCTAATTAATAACA
Found at i:36267623 original size:26 final size:26
Alignment explanation
Indices: 36267586--36267669 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
36267576 TGATACAAAT
*
36267586 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
36267612 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
36267638 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
36267664 TGATAA
1 TGATAA
36267670 GAATATCATG
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:36269698 original size:137 final size:137
Alignment explanation
Indices: 36269452--36269738 Score: 547
Period size: 137 Copynumber: 2.1 Consensus size: 137
36269442 GAGTAGTCTC
36269452 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
36269517 TGTTATCTGAATAAGGGACTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGACTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
36269582 ACTGTTA
131 ACTGTTA
36269589 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
*
36269654 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGACTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
36269719 ACTGTTA
131 ACTGTTA
**
36269726 CCTGAATGGGCTT
1 CCCAAATGGGCTT
36269739 AGGCCCAATA
Statistics
Matches: 147, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
137 147 1.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGACTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:36277590 original size:20 final size:19
Alignment explanation
Indices: 36277531--36277591 Score: 52
Period size: 19 Copynumber: 3.2 Consensus size: 19
36277521 AGGTTTGAAT
* *
36277531 TGAAGGGTGACGG-TGATGA
1 TGAATGGTGA-GGATGATAA
* *
36277550 TGAATGGTGAGGAAGAAAA
1 TGAATGGTGAGGATGATAA
*
36277569 TGAATTGGTGATGATGATAA
1 TGAA-TGGTGAGGATGATAA
36277589 TGA
1 TGA
36277592 TCAATAGGGT
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
18 2 0.06
19 16 0.48
20 15 0.45
ACGTcount: A:0.36, C:0.02, G:0.38, T:0.25
Consensus pattern (19 bp):
TGAATGGTGAGGATGATAA
Found at i:36278370 original size:18 final size:17
Alignment explanation
Indices: 36278338--36278371 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
36278328 ATTATTTTAT
*
36278338 GTTAAAATTTATCAATC
1 GTTAAAATATATCAATC
36278355 GTTAAATATATATCAAT
1 GTTAAA-ATATATCAAT
36278372 ATAGATAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (17 bp):
GTTAAAATATATCAATC
Found at i:36289713 original size:131 final size:128
Alignment explanation
Indices: 36289483--36289927 Score: 372
Period size: 131 Copynumber: 3.4 Consensus size: 128
36289473 TGCAACTTCG
* * * * * * * *
36289483 CATTTGCTCAAAATAATTGAATATCACTTCAAAGTTTCACTCATATCTTCTAAAAATCTTTTAAA
1 CATTTGTTCAAAACAATCGAATATCCCTT-TAA-TTTCACTCACATTTTCTAAAAA-CTTTCAAA
*** * ** *** * * *
36289548 ACGAAGGTAATACTCGGTATTTGATAATTCGAGAATCATGCCCTATCGTGCTGGGTTGTGATTTC
63 ACGAAGACGATATTCAATATTTGGCGATTTGAGAATCATGCCCTATCGTGCTGGGTTGCGATTTT
36289613 T
128 T
* * **
36289614 CGTTTGTTCAAAACAATCGAATATTCCTTTATATTCTCACTCATGTTTAT-TAAAAACACTTT-A
1 CATTTGTTCAAAACAATCGAATATCCCTTTA-ATT-TCACTCACATTT-TCT-AAAA-ACTTTCA
* * * * *
36289677 AAACGAAGACGATGTTCAATGTTTGGCGATTTGAGAATCGTGCCCTATCGTGCTAGGTTGCGTTT
61 AAACGAAGACGATATTCAATATTTGGCGATTTGAGAATCATGCCCTATCGTGCTGGGTTGCGATT
36289742 TTT
126 TTT
* ** * * * *
36289745 CATTGGTTTGAAACAATTGAAGATCCCTTCGGAATTTCACTCACATTTTCTAAAATCTTTCAAAA
1 CATTTGTTCAAAACAATCGAATATCCCTT--TAATTTCACTCACATTTTCTAAAAACTTTCAAAA
* * * * *
36289810 TGAAGGCGATATTCGATATTTGGCGATTTGAGAATCAAGCCCTATCGTGCTGGGTTGCGCTTTTT
64 CGAAGACGATATTCAATATTTGGCGATTTGAGAATCATGCCCTATCGTGCTGGGTTGCGATTTTT
** *
36289875 CATTTGTTCAAATTAATCGAATATCCCTTTGGAATTTCACTCATATTTTCTAA
1 CATTTGTTCAAAACAATCGAATATCCCTTT--AATTTCACTCACATTTTCTAA
36289928 GGTGAGGCAA
Statistics
Matches: 248, Mismatches: 55, Indels: 23
0.76 0.17 0.07
Matches are distributed among these distances:
129 4 0.02
130 110 0.44
131 120 0.48
132 12 0.05
133 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.38
Consensus pattern (128 bp):
CATTTGTTCAAAACAATCGAATATCCCTTTAATTTCACTCACATTTTCTAAAAACTTTCAAAACG
AAGACGATATTCAATATTTGGCGATTTGAGAATCATGCCCTATCGTGCTGGGTTGCGATTTTT
Found at i:36289866 original size:130 final size:129
Alignment explanation
Indices: 36289672--36289927 Score: 343
Period size: 130 Copynumber: 2.0 Consensus size: 129
36289662 ATTAAAAACA
* * **
36289672 CTTTAAAACGAAGACGATGTTCAATGTTTGGCGATTTGAGAATCGTGCCCTATCGTGCTAGGTTG
1 CTTTAAAACGAAGACGATATTCAATATTTGGCGATTTGAGAATCAAGCCCTATCGTGCTAGGTTG
* * *
36289737 CGTTTTTTCATTGGTTTGAAA-CAATTGAAGATCCCTTCGGAATTTCACTCACATTTTCTAAAAT
66 CGCTTTTTCATTGG-TTCAAATCAATCGAAGATCCCTTCGGAATTTCACTCACATTTTCTAAAAT
* * * *
36289801 CTTTCAAAATGAAGGCGATATTCGATATTTGGCGATTTGAGAATCAAGCCCTATCGTGCTGGGTT
1 CTTT-AAAACGAAGACGATATTCAATATTTGGCGATTTGAGAATCAAGCCCTATCGTGCTAGGTT
* * * * *
36289866 GCGCTTTTTCATTTGTTCAAATTAATCGAATATCCCTTTGGAATTTCACTCATATTTTCTAA
65 GCGCTTTTTCATTGGTTCAAATCAATCGAAGATCCCTTCGGAATTTCACTCACATTTTCTAA
36289928 GGTGAGGCAA
Statistics
Matches: 109, Mismatches: 16, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
129 9 0.08
130 100 0.92
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.38
Consensus pattern (129 bp):
CTTTAAAACGAAGACGATATTCAATATTTGGCGATTTGAGAATCAAGCCCTATCGTGCTAGGTTG
CGCTTTTTCATTGGTTCAAATCAATCGAAGATCCCTTCGGAATTTCACTCACATTTTCTAAAAT
Found at i:36291211 original size:26 final size:25
Alignment explanation
Indices: 36291180--36291229 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
36291170 ATTTTGATTC
**
36291180 TTAAATAGTTAATTAAAATATAAAAA
1 TTAAATAG-TAAAAAAAATATAAAAA
*
36291206 TTAAATCGTAAAAAAAATATAAAA
1 TTAAATAGTAAAAAAAATATAAAA
36291230 GTTGATCATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 14 0.67
26 7 0.33
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (25 bp):
TTAAATAGTAAAAAAAATATAAAAA
Found at i:36292490 original size:10 final size:10
Alignment explanation
Indices: 36292471--36292520 Score: 75
Period size: 10 Copynumber: 5.0 Consensus size: 10
36292461 TGAAATTCTA
36292471 AAAGATAAAT
1 AAAGATAAAT
36292481 ACAA-ATAAAT
1 A-AAGATAAAT
36292491 AAAGATAAAT
1 AAAGATAAAT
36292501 AAAGATAAAT
1 AAAGATAAAT
*
36292511 AAAAATAAAT
1 AAAGATAAAT
36292521 CCTAAAATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
9 2 0.05
10 33 0.89
11 2 0.05
ACGTcount: A:0.72, C:0.02, G:0.06, T:0.20
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:36293152 original size:9 final size:9
Alignment explanation
Indices: 36293138--36293170 Score: 50
Period size: 8 Copynumber: 3.7 Consensus size: 9
36293128 TTAATGCATC
36293138 TTTTTTCTT
1 TTTTTTCTT
36293147 TTTTTTC-T
1 TTTTTTCTT
36293155 TTTTTTCTT
1 TTTTTTCTT
36293164 CTTTTTT
1 -TTTTTT
36293171 ATAAAATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 8 0.36
9 8 0.36
10 6 0.27
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:36293361 original size:96 final size:97
Alignment explanation
Indices: 36293192--36293373 Score: 276
Period size: 96 Copynumber: 1.9 Consensus size: 97
36293182 ATTTTATTTA
* * * *
36293192 TTTATTTTTACTTAGGAATATATTGAACCTTTTAACGCGAAGAGAGATGACAGCCAAGCACCCCA
1 TTTATTTTTACCTAAGAACATATCGAACCTTTTAACGCGAAGAGAGATGACAGCCAAGCACCCCA
*
36293257 CCCTGGTTACTCAGCCCAACATAATCCTAATT
66 CCCCGGTTACTCAGCCCAACATAATCCTAATT
* * *
36293289 TTTATTTTT-CCTAAGAACATATCGAACCTTTTGACGCGAAGAGAGGTGACAGCCAAGCACCTCA
1 TTTATTTTTACCTAAGAACATATCGAACCTTTTAACGCGAAGAGAGATGACAGCCAAGCACCCCA
*
36293353 CCCCGGTTACTTAGCCCAACA
66 CCCCGGTTACTCAGCCCAACA
36293374 CATTCTTAGA
Statistics
Matches: 76, Mismatches: 9, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
96 67 0.88
97 9 0.12
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (97 bp):
TTTATTTTTACCTAAGAACATATCGAACCTTTTAACGCGAAGAGAGATGACAGCCAAGCACCCCA
CCCCGGTTACTCAGCCCAACATAATCCTAATT
Found at i:36294189 original size:9 final size:9
Alignment explanation
Indices: 36294169--36294207 Score: 53
Period size: 10 Copynumber: 4.2 Consensus size: 9
36294159 AATAATAAAT
36294169 AATAAGATAA
1 AATAA-ATAA
36294179 AATAAATAA
1 AATAAATAA
36294188 AATAAAATAA
1 AAT-AAATAA
36294198 AA-AAATAA
1 AATAAATAA
36294206 AA
1 AA
36294208 ATTGGGTTGC
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
8 8 0.29
9 7 0.25
10 13 0.46
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (9 bp):
AATAAATAA
Found at i:36294192 original size:14 final size:14
Alignment explanation
Indices: 36294165--36294207 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
36294155 TGAAAATAAT
*
36294165 AAAT-AATAAGATA
1 AAATAAATAAAATA
36294178 AAATAAATAAAATA
1 AAATAAATAAAATA
36294192 AAATAAA-AAAATA
1 AAATAAATAAAATA
36294205 AAA
1 AAA
36294208 ATTGGGTTGC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
13 13 0.46
14 15 0.54
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (14 bp):
AAATAAATAAAATA
Found at i:36294209 original size:14 final size:13
Alignment explanation
Indices: 36294165--36294207 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
36294155 TGAAAATAAT
* *
36294165 AAATAATAAGATA
1 AAATAAAAAAATA
36294178 AAATAAATAAAATA
1 AAATAAA-AAAATA
36294192 AAATAAAAAAATA
1 AAATAAAAAAATA
36294205 AAA
1 AAA
36294208 ATTGGGTTGC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
13 15 0.56
14 12 0.44
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (13 bp):
AAATAAAAAAATA
Found at i:36300427 original size:10 final size:10
Alignment explanation
Indices: 36300408--36300457 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
36300398 TGAAATTCTA
36300408 AAACATAAAT
1 AAACATAAAT
36300418 ACAA-ATAAAT
1 A-AACATAAAT
36300428 AAACATAAAT
1 AAACATAAAT
*
36300438 AAAGATAAAT
1 AAACATAAAT
36300448 GAAA-ATAAAT
1 -AAACATAAAT
36300458 CCTAAAATTT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
9 2 0.06
10 29 0.81
11 5 0.14
ACGTcount: A:0.70, C:0.06, G:0.04, T:0.20
Consensus pattern (10 bp):
AAACATAAAT
Found at i:36300431 original size:20 final size:21
Alignment explanation
Indices: 36300408--36300457 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
36300398 TGAAATTCTA
36300408 AAACATAAATACAA-ATAAAT-
1 AAACATAAATA-AAGATAAATG
36300428 AAACATAAATAAAGATAAATG
1 AAACATAAATAAAGATAAATG
36300449 AAA-ATAAAT
1 AAACATAAAT
36300458 CCTAAAATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
19 2 0.07
20 23 0.82
21 3 0.11
ACGTcount: A:0.70, C:0.06, G:0.04, T:0.20
Consensus pattern (21 bp):
AAACATAAATAAAGATAAATG
Found at i:36302669 original size:13 final size:13
Alignment explanation
Indices: 36302651--36302675 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36302641 TCCCGAAGGC
36302651 ATTTGTGCTATTT
1 ATTTGTGCTATTT
36302664 ATTTGTGCTATT
1 ATTTGTGCTATT
36302676 GATTATATCC
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:0.16, C:0.08, G:0.16, T:0.60
Consensus pattern (13 bp):
ATTTGTGCTATTT
Found at i:36302687 original size:53 final size:53
Alignment explanation
Indices: 36302611--36302713 Score: 188
Period size: 53 Copynumber: 1.9 Consensus size: 53
36302601 TCCCGAAGGC
36302611 ATTTATGCTAGTGATTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTT
1 ATTTATGCTAGTGATTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTT
* *
36302664 ATTTGTGCTATTGATTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA
1 ATTTATGCTAGTGATTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA
36302714 GTGATTATAT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 48 1.00
ACGTcount: A:0.22, C:0.17, G:0.23, T:0.37
Consensus pattern (53 bp):
ATTTATGCTAGTGATTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTT
Found at i:36302719 original size:40 final size:40
Alignment explanation
Indices: 36302664--36302821 Score: 221
Period size: 40 Copynumber: 4.0 Consensus size: 40
36302654 TGTGCTATTT
* *
36302664 ATTTGTGCTATTGATTATATCCGGGCTAAGTCCCGAAGGC
1 ATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGC
*
36302704 ATTTGTGCTAGTGATTATATCCGGGCTAAGTCCCGAAGGC
1 ATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGC
* * *
36302744 TTTTGTGCTATTGACTATATCCGGGCTAAGACCCGAAGGC
1 ATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGC
* *
36302784 ATTTGTGCGAGTTG-CTATATCC-GGCTAAATCCCGAAGG
1 ATTTGTGCTAG-TGACTATATCCGGGCTAAGTCCCGAAGG
36302822 TACTTGGGTT
Statistics
Matches: 107, Mismatches: 10, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
39 14 0.13
40 91 0.85
41 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (40 bp):
ATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGC
Found at i:36302749 original size:93 final size:93
Alignment explanation
Indices: 36302587--36302755 Score: 302
Period size: 93 Copynumber: 1.8 Consensus size: 93
36302577 TATTCGAATG
*
36302587 ATATCCGAGTTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGAGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGTCCCGAAGGCA
36302652 TTTGTGCTATTTATTTGTGCTATTGATT
66 TTTGTGCTATTTATTTGTGCTATTGATT
* * *
36302680 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTCCCGAAGGCT
1 ATATCCGAGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGTCCCGAAGGCA
36302745 TTTGTGCTATT
66 TTTGTGCTATT
36302756 GACTATATCC
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.34
Consensus pattern (93 bp):
ATATCCGAGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGTCCCGAAGGCA
TTTGTGCTATTTATTTGTGCTATTGATT
Found at i:36302803 original size:80 final size:79
Alignment explanation
Indices: 36302665--36302821 Score: 244
Period size: 80 Copynumber: 2.0 Consensus size: 79
36302655 GTGCTATTTA
* * * *
36302665 TTTGTGCTATTGATTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTATATCCGGGC
1 TTTGTGCTATTGACTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACTATATCC-GGC
*
36302730 TAAGTCCCGAAGGCT
65 TAAATCCCGAAGGCT
36302745 TTTGTGCTATTGACTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCCGGC
1 TTTGTGCTATTGACTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGACTATATCCGGC
36302809 TAAATCCCGAAGG
65 TAAATCCCGAAGG
36302822 TACTTGGGTT
Statistics
Matches: 71, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
79 15 0.21
80 54 0.76
81 2 0.03
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.31
Consensus pattern (79 bp):
TTTGTGCTATTGACTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACTATATCCGGCT
AAATCCCGAAGGCT
Found at i:36305839 original size:13 final size:13
Alignment explanation
Indices: 36305819--36305884 Score: 69
Period size: 13 Copynumber: 5.1 Consensus size: 13
36305809 AGTTCTTCAT
36305819 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* *
36305832 TACTTTTGAGAAG
1 TGCTTTTGAAAAG
* *
36305845 TGCTGTGGAAAAG
1 TGCTTTTGAAAAG
* *
36305858 TGTTTTTGAGAAG
1 TGCTTTTGAAAAG
*
36305871 TGCTTTTAAAAAG
1 TGCTTTTGAAAAG
36305884 T
1 T
36305885 TTAGTTTAAA
Statistics
Matches: 40, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
13 40 1.00
ACGTcount: A:0.30, C:0.06, G:0.26, T:0.38
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:36305848 original size:26 final size:26
Alignment explanation
Indices: 36305819--36305884 Score: 87
Period size: 26 Copynumber: 2.5 Consensus size: 26
36305809 AGTTCTTCAT
36305819 TGCTTTTGAAAAGTACTTTTGAGAAG
1 TGCTTTTGAAAAGTACTTTTGAGAAG
* * **
36305845 TGCTGTGGAAAAGTGTTTTTGAGAAG
1 TGCTTTTGAAAAGTACTTTTGAGAAG
*
36305871 TGCTTTTAAAAAGT
1 TGCTTTTGAAAAGT
36305885 TTAGTTTAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.30, C:0.06, G:0.26, T:0.38
Consensus pattern (26 bp):
TGCTTTTGAAAAGTACTTTTGAGAAG
Found at i:36315489 original size:16 final size:16
Alignment explanation
Indices: 36315468--36315506 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
36315458 GTTTGGTTGA
*
36315468 CTGTAATGGAATAGGG
1 CTGTAATGGAATAGAG
36315484 CTGTAATGGAATAGAG
1 CTGTAATGGAATAGAG
36315500 CTGTAAT
1 CTGTAAT
36315507 AAGTAATTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.28
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:36315543 original size:46 final size:44
Alignment explanation
Indices: 36315490--36315576 Score: 120
Period size: 44 Copynumber: 1.9 Consensus size: 44
36315480 AGGGCTGTAA
*
36315490 TGGAATAGAGCTGTAATAAGTAATTCAACTGTTTGGTTGAATGGAG
1 TGGAATAGAACTGTAAT-AGT-ATTCAACTGTTTGGTTGAATGGAG
***
36315536 TGGAATAGAACTGTAATAGTATTCTTGTGTTTGGTTGAATG
1 TGGAATAGAACTGTAATAGTATTCAACTGTTTGGTTGAATG
36315577 AAATGATGTT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
44 18 0.49
45 3 0.08
46 16 0.43
ACGTcount: A:0.30, C:0.06, G:0.28, T:0.37
Consensus pattern (44 bp):
TGGAATAGAACTGTAATAGTATTCAACTGTTTGGTTGAATGGAG
Found at i:36315774 original size:17 final size:17
Alignment explanation
Indices: 36315752--36315784 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
36315742 AATTATTATT
36315752 AAATATAATTTAATAAA
1 AAATATAATTTAATAAA
36315769 AAATATAATTTAATAA
1 AAATATAATTTAATAA
36315785 CATTCATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
AAATATAATTTAATAAA
Found at i:36316405 original size:40 final size:40
Alignment explanation
Indices: 36316350--36316530 Score: 299
Period size: 40 Copynumber: 4.5 Consensus size: 40
36316340 CTTAAGTATA
*
36316350 TCTGTTAATACATACTTCATCCGGTTAAATTATACAGTTT
1 TCTGTTAATACATACTTCATCCGGATAAATTATACAGTTT
36316390 TCTGTTAATACATACTTCATCCGGATAAATTATACAGTTT
1 TCTGTTAATACATACTTCATCCGGATAAATTATACAGTTT
* * *
36316430 TCTATTAATACATACTTTATCCGGGTAAATTATACAGTTT
1 TCTGTTAATACATACTTCATCCGGATAAATTATACAGTTT
* *
36316470 TCTATTAATACATACTTCATCCAGATAAATTATACAGTTT
1 TCTGTTAATACATACTTCATCCGGATAAATTATACAGTTT
*
36316510 TTTGTTAATACATACTTCATC
1 TCTGTTAATACATACTTCATC
36316531 AGATTTTCTG
Statistics
Matches: 132, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 132 1.00
ACGTcount: A:0.33, C:0.17, G:0.08, T:0.42
Consensus pattern (40 bp):
TCTGTTAATACATACTTCATCCGGATAAATTATACAGTTT
Found at i:36320308 original size:2 final size:2
Alignment explanation
Indices: 36320301--36320327 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
36320291 TAAAGTACTA
36320301 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
36320328 ATTGTTTCAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:36323473 original size:15 final size:16
Alignment explanation
Indices: 36323448--36323477 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
36323438 TTCAAGTTAA
36323448 GATGATGAAGGAAGAT
1 GATGATGAAGGAAGAT
36323464 GATG-TGAAGGAAGA
1 GATGATGAAGGAAGA
36323478 AGAAGCAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.43, C:0.00, G:0.40, T:0.17
Consensus pattern (16 bp):
GATGATGAAGGAAGAT
Found at i:36325161 original size:26 final size:26
Alignment explanation
Indices: 36325129--36325237 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
36325119 TGATACAAAT
*
36325129 TGATAATAGGTTAGGTAAATGTTACA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
36325155 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
36325181 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
36325207 TGATAATGGGTTAGGT-AATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
36325232 TGATAA
1 TGATAA
36325238 GAATTTCATG
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
25 15 0.19
26 65 0.81
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:36326345 original size:19 final size:19
Alignment explanation
Indices: 36326321--36326358 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
36326311 ATTAACGTGT
36326321 TAGTAATCCAATTGTAGGC
1 TAGTAATCCAATTGTAGGC
36326340 TAGTAATCCAATTGTAGGC
1 TAGTAATCCAATTGTAGGC
36326359 GGTTCGTGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.32
Consensus pattern (19 bp):
TAGTAATCCAATTGTAGGC
Found at i:36329879 original size:34 final size:34
Alignment explanation
Indices: 36329808--36329888 Score: 92
Period size: 34 Copynumber: 2.4 Consensus size: 34
36329798 TGAAATGATT
*
36329808 TGTTATAAGCATATTATTTGCTACTGTGTTGAAC
1 TGTTATAAGCATATTATTTGCTACTGTATTGAAC
* * **
36329842 TGTTATAAGCATATTGA-TTGTTATTGTATTGTTC
1 TGTTATAAGCATATT-ATTTGCTACTGTATTGAAC
*
36329876 TGTTAAAAGCATA
1 TGTTATAAGCATA
36329889 ATTAAATGCT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
34 39 0.98
35 1 0.03
ACGTcount: A:0.28, C:0.09, G:0.17, T:0.46
Consensus pattern (34 bp):
TGTTATAAGCATATTATTTGCTACTGTATTGAAC
Found at i:36330035 original size:44 final size:44
Alignment explanation
Indices: 36329986--36330183 Score: 243
Period size: 44 Copynumber: 4.5 Consensus size: 44
36329976 TTATCTGCAA
* *
36329986 ATTTGTTGTGCATCAACAACCAGAGGCAGATTCCATCTGCGGGT
1 ATTTGTTGTGTATCCACAACCAGAGGCAGATTCCATCTGCGGGT
* * * *
36330030 ATTTGTTGTGTATCCACAACTAGAGGTAGACTCCATCTGTGGGT
1 ATTTGTTGTGTATCCACAACCAGAGGCAGATTCCATCTGCGGGT
* * * * *
36330074 ATTTGCTCTGTATCCACAACCAAAGGCAGATTCCATTTGCAGGT
1 ATTTGTTGTGTATCCACAACCAGAGGCAGATTCCATCTGCGGGT
* * *
36330118 ATTTGCTCTGTATCCACAACCAGAGGCAGATTCCATCTGTGGGTT
1 ATTTGTTGTGTATCCACAACCAGAGGCAGATTCCATCTGCGGG-T
* *
36330163 AATTGTTGTGCATCCACAACC
1 ATTTGTTGTGTATCCACAACC
36330184 TATTGACAGC
Statistics
Matches: 130, Mismatches: 23, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
44 112 0.86
45 18 0.14
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (44 bp):
ATTTGTTGTGTATCCACAACCAGAGGCAGATTCCATCTGCGGGT
Found at i:36331831 original size:19 final size:20
Alignment explanation
Indices: 36331796--36331836 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
36331786 GGAAAAATTC
*
36331796 AAGTTTTTTTACAAAAA-AA
1 AAGTTTTTCTACAAAAAGAA
36331815 AAGTTTTTCTA-ATAAAAGAA
1 AAGTTTTTCTACA-AAAAGAA
36331835 AA
1 AA
36331837 AATAAAAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
18 1 0.05
19 14 0.74
20 4 0.21
ACGTcount: A:0.54, C:0.05, G:0.07, T:0.34
Consensus pattern (20 bp):
AAGTTTTTCTACAAAAAGAA
Found at i:36332247 original size:31 final size:31
Alignment explanation
Indices: 36332156--36332247 Score: 75
Period size: 29 Copynumber: 3.0 Consensus size: 31
36332146 AAATGACAAT
* *
36332156 TTGATAGATTTTGTAAATGTTG-AGGATAAAA
1 TTGATAAATTTTGTAAAT-TTGAAGGCTAAAA
* * *
36332187 TTTATTAAATTTTTTAGAATTAGAA--CTAAAA
1 TTGA-TAAATTTTGTA-AATTTGAAGGCTAAAA
36332218 -TGATAAATTTTGTAAATATTGAAGGCTAAA
1 TTGATAAATTTTGTAAAT-TTGAAGGCTAAA
36332248 TTTGTTCATT
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
28 3 0.06
29 14 0.30
30 2 0.04
31 13 0.28
32 11 0.23
33 4 0.09
ACGTcount: A:0.42, C:0.02, G:0.15, T:0.40
Consensus pattern (31 bp):
TTGATAAATTTTGTAAATTTGAAGGCTAAAA
Found at i:36334879 original size:18 final size:18
Alignment explanation
Indices: 36334856--36334890 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
36334846 TTTAATTTTC
*
36334856 ATTCATAAAAATTATATA
1 ATTCATAAAAAATATATA
36334874 ATTCATAAAAAATATAT
1 ATTCATAAAAAATATAT
36334891 TACAAACTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (18 bp):
ATTCATAAAAAATATATA
Found at i:36338412 original size:2 final size:2
Alignment explanation
Indices: 36338405--36338438 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
36338395 CTTTTCTTTT
*
36338405 TA TA TA TA TA TA TA TA TA AA TA TA T- TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
36338439 TTATTTATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:36346621 original size:44 final size:45
Alignment explanation
Indices: 36346507--36346623 Score: 105
Period size: 44 Copynumber: 2.6 Consensus size: 45
36346497 TGTCTTCGAT
* * * *
36346507 CTGCTCCAC-TACTA-CTTAGGGATATAAGATCTACAATCTTTAGT
1 CTGCTCC-CTTACTACCTTAGGGAGATAAGATCTAAAATCTTCAGC
* * * * * * *
36346551 CTGCTTCATTGCTACATCAGGAAGATAAGA-CTAAAATCTTCGGC
1 CTGCTCCCTTACTACCTTAGGGAGATAAGATCTAAAATCTTCAGC
36346595 CTGCTCCCTTACTACCTTAGGGAGATAAG
1 CTGCTCCCTTACTACCTTAGGGAGATAAG
36346624 GCTAGTGGCT
Statistics
Matches: 54, Mismatches: 17, Indels: 4
0.72 0.23 0.05
Matches are distributed among these distances:
44 43 0.80
45 11 0.20
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (45 bp):
CTGCTCCCTTACTACCTTAGGGAGATAAGATCTAAAATCTTCAGC
Found at i:36346878 original size:132 final size:133
Alignment explanation
Indices: 36346606--36346879 Score: 311
Period size: 132 Copynumber: 2.1 Consensus size: 133
36346596 TGCTCCCTTA
* * * * *
36346606 CTACCTTAGGGAGATAAGGCTAGTGGCTTAAATTTTCTTCCCTACTACCTCGGGAAGATAAGATT
1 CTACCTCAGGGAGACAAGGATAGTGGCTTAAATTGTCTTCCCTACTACCTCGAGAAGATAAGATT
* * * *
36346671 CGCCATCTTCGATCTGCTCCACTACTACTTTGGGAGACAAGATCTACAATCTTCAGCCTACTCCA
66 CACCATCTTCAATCTACTCCACTACTACTTAGGGAGACAAGATCTACAATCTTCAGCCTACTCCA
36346736 CTG
131 CTG
* * * *
36346739 CT-GCTCAGGGAGGCAAGGATAGTGGCTTAAATCTGT-TTCCCTACTACTTCGAGAAGATTAGAT
1 CTACCTCAGGGAGACAAGGATAGTGGCTTAAAT-TGTCTTCCCTACTACCTCGAGAAGATAAGAT
* * * * ** * * *
36346802 TCACCGTCTTCAATCTACTCCACTACTGCTTAGGGATATAAGAT-TTGAATCTTCAGTCTGCTTC
65 TCACCATCTTCAATCTACTCCACTACTACTTAGGGAGACAAGATCTACAATCTTCAGCCTACTCC
*
36346866 ATTG
130 ACTG
36346870 CTACCTCAGG
1 CTACCTCAGG
36346880 AAGATAAGAC
Statistics
Matches: 115, Mismatches: 24, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
131 20 0.17
132 91 0.79
133 4 0.03
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (133 bp):
CTACCTCAGGGAGACAAGGATAGTGGCTTAAATTGTCTTCCCTACTACCTCGAGAAGATAAGATT
CACCATCTTCAATCTACTCCACTACTACTTAGGGAGACAAGATCTACAATCTTCAGCCTACTCCA
CTG
Found at i:36346887 original size:44 final size:44
Alignment explanation
Indices: 36346849--36347274 Score: 128
Period size: 44 Copynumber: 9.6 Consensus size: 44
36346839 ATAAGATTTG
* * *
36346849 AATCTTCAGTCTGCTTCATTGCTACCTCAGGAAGATAAGACTAC
1 AATCTTCAGCCTGCTCCATTACTACCTCAGGAAGATAAGACTAC
* * * * **
36346893 AATCTTCGGCCTGCTCCCTTACTACCTTAGGAAGATAAGGCTGG
1 AATCTTCAGCCTGCTCCATTACTACCTCAGGAAGATAAGACTAC
*** ** ** ** * * * *
36346937 TGGCTAAAATCTGCTCCCCTGCTACCT-TGAAAAGATAAGATTCAC
1 AATCTTCAGCCTGCTCCATTACTACCTCAG-GAAGATAAGACT-AC
** * * * * * *
36346982 CGTCTT-TGATCTGCTCCACTGCTATCTCAAGG-AGATAAGATCTAG
1 AATCTTCAG-CCTGCTCCATTACTACCTC-AGGAAGATAAGA-CTAC
* * *
36347027 AATCTTTAGTCTGCTTCC-TTACTACATCAGGAAGATAAGACTAC
1 AATCTTCAGCCTGC-TCCATTACTACCTCAGGAAGATAAGACTAC
* * * * * **
36347071 AATCTTCGGCCTGCTCCCTTACTACCTTAGGGAGATAAGGCTGG
1 AATCTTCAGCCTGCTCCATTACTACCTCAGGAAGATAAGACTAC
*** ** ** * ** * * **
36347115 TGGCTAAAATCTGCTCCCTTGTTACCTCAGGAAAATAAGATTGT
1 AATCTTCAGCCTGCTCCATTACTACCTCAGGAAGATAAGACTAC
* ** * * *
36347159 GATCTTC-GATTTGCTCCACTGCTATCCT-AGGGAGATAAGATCTAC
1 AATCTTCAG-CCTGCTCCATTACTA-CCTCAGGAAGATAAGA-CTAC
* * * *
36347204 AATCTTCAGTCTGCTTCC-TTGCTACATCAAGAAGATAAGACTAC
1 AATCTTCAGCCTGC-TCCATTACTACCTCAGGAAGATAAGACTAC
*
36347248 AATCTTCAGCCTGCTCCCTTACTACCT
1 AATCTTCAGCCTGCTCCATTACTACCT
36347275 TAGAGAGATA
Statistics
Matches: 272, Mismatches: 93, Indels: 34
0.68 0.23 0.09
Matches are distributed among these distances:
43 7 0.03
44 175 0.64
45 80 0.29
46 9 0.03
47 1 0.00
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.30
Consensus pattern (44 bp):
AATCTTCAGCCTGCTCCATTACTACCTCAGGAAGATAAGACTAC
Found at i:36347063 original size:45 final size:44
Alignment explanation
Indices: 36347014--36347272 Score: 137
Period size: 44 Copynumber: 5.8 Consensus size: 44
36347004 TATCTCAAGG
* * * *
36347014 AGATAAGATCTAGAATCTTTAGTCTGCTTCCTTACTACATCAGGA
1 AGATAAGA-CTACAATCTTCAGCCTGCTCCCTTACTACATCAGGA
* * * *
36347059 AGATAAGACTACAATCTTCGGCCTGCTCCCTTACTACCTTAGGG
1 AGATAAGACTACAATCTTCAGCCTGCTCCCTTACTACATCAGGA
* ***** ** ** ** *
36347103 AGATAAGGCTGGTGGCTAAAATCTGCTCCCTTGTTACCTCAGGA
1 AGATAAGACTACAATCTTCAGCCTGCTCCCTTACTACATCAGGA
* * *** ** * * *
36347147 AAATAAGATTGTGATCTTC-GATTTGCTCCAC-TGCTATCCT-AGGG
1 AGATAAGACTACAATCTTCAG-CCTGCTCC-CTTACTA-CATCAGGA
* * * *
36347191 AGATAAGATCTACAATCTTCAGTCTGCTTCCTTGCTACATCAAGA
1 AGATAAGA-CTACAATCTTCAGCCTGCTCCCTTACTACATCAGGA
36347236 AGATAAGACTACAATCTTCAGCCTGCTCCCTTACTAC
1 AGATAAGACTACAATCTTCAGCCTGCTCCCTTACTAC
36347273 CTTAGAGAGA
Statistics
Matches: 158, Mismatches: 49, Indels: 15
0.71 0.22 0.07
Matches are distributed among these distances:
44 117 0.74
45 40 0.25
46 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (44 bp):
AGATAAGACTACAATCTTCAGCCTGCTCCCTTACTACATCAGGA
Found at i:36347271 original size:177 final size:176
Alignment explanation
Indices: 36346832--36347359 Score: 776
Period size: 177 Copynumber: 3.0 Consensus size: 176
36346822 CACTACTGCT
* * * *
36346832 TAGGGATATAAGAT-TTGAATCTTCAGTCTGCTTCATTGCTACCTCAGGAAGATAAGACTACAAT
1 TAGGGAGATAAGATCTAGAATCTTCAGTCTGCTTCCTTGCTACATCAGGAAGATAAGACTACAAT
* *
36346896 CTTCGGCCTGCTCCCTTACTACCTTAGGAAGATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTA
66 CTTCGGCCTGCTCCCTTACTACCTTAGGGAGATAAGGCTGGTGGCTAAAATCTGCTCCCTTGCTA
* * * *
36346961 CCTTGAAAAGATAAGATTCACCG-TCTTTGATCTGCTCCACTGCTATC
131 CCTCGGAAAGATAAGATT-A-TGATCTTCGATCTGCTCCACTGCTATC
* * *
36347008 TCAAGGAGATAAGATCTAGAATCTTTAGTCTGCTTCCTTACTACATCAGGAAGATAAGACTACAA
1 T-AGGGAGATAAGATCTAGAATCTTCAGTCTGCTTCCTTGCTACATCAGGAAGATAAGACTACAA
*
36347073 TCTTCGGCCTGCTCCCTTACTACCTTAGGGAGATAAGGCTGGTGGCTAAAATCTGCTCCCTTGTT
65 TCTTCGGCCTGCTCCCTTACTACCTTAGGGAGATAAGGCTGGTGGCTAAAATCTGCTCCCTTGCT
* *
36347138 ACCTCAGGAAA-ATAAGATTGTGATCTTCGATTTGCTCCACTGCTATCC
130 ACCTC-GGAAAGATAAGATTATGATCTTCGATCTGCTCCACTGCTAT-C
* *
36347186 TAGGGAGATAAGATCTACAATCTTCAGTCTGCTTCCTTGCTACATCAAGAAGATAAGACTACAAT
1 TAGGGAGATAAGATCTAGAATCTTCAGTCTGCTTCCTTGCTACATCAGGAAGATAAGACTACAAT
* *
36347251 CTTCAGCCTGCTCCCTTACTACCTTAGAGAGATAAGGCTGGTGGCT-AAATCTGCTCCCTTGCTA
66 CTTCGGCCTGCTCCCTTACTACCTTAGGGAGATAAGGCTGGTGGCTAAAATCTGCTCCCTTGCTA
* *
36347315 CCTCTGAAAGATAAGATCTATGATCTTCGATCTGCTCCATTGCTA
131 CCTCGGAAAGATAAGAT-TATGATCTTCGATCTGCTCCACTGCTA
36347360 CTTCATGGAG
Statistics
Matches: 317, Mismatches: 28, Indels: 13
0.89 0.08 0.04
Matches are distributed among these distances:
175 4 0.01
176 30 0.09
177 159 0.50
178 120 0.38
179 4 0.01
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (176 bp):
TAGGGAGATAAGATCTAGAATCTTCAGTCTGCTTCCTTGCTACATCAGGAAGATAAGACTACAAT
CTTCGGCCTGCTCCCTTACTACCTTAGGGAGATAAGGCTGGTGGCTAAAATCTGCTCCCTTGCTA
CCTCGGAAAGATAAGATTATGATCTTCGATCTGCTCCACTGCTATC
Found at i:36347284 original size:44 final size:44
Alignment explanation
Indices: 36347190--36347286 Score: 124
Period size: 44 Copynumber: 2.2 Consensus size: 44
36347180 CTATCCTAGG
* * *
36347190 GAGATAAGATCTACAATCTTCAGTCTGCTTCCTTGCTACATCAA
1 GAGATAAGATCTACAATCTTCAGCCTGCTCCCTTACTACATCAA
* *
36347234 GAAGATAAGA-CTACAATCTTCAGCCTGCTCCCTTACTACCTTAGA
1 G-AGATAAGATCTACAATCTTCAGCCTGCTCCCTTACTACATCA-A
36347279 GAGATAAG
1 GAGATAAG
36347287 GCTGGTGGCT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
44 36 0.78
45 10 0.22
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (44 bp):
GAGATAAGATCTACAATCTTCAGCCTGCTCCCTTACTACATCAA
Found at i:36353144 original size:25 final size:27
Alignment explanation
Indices: 36353107--36353160 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 27
36353097 TCAAACATGC
36353107 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
* **
36353133 ATTTCGGT-AATTTTGCACCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
36353159 AT
1 AT
36353161 AACAGTAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.37
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACACCTAGGGGT
Found at i:36354675 original size:26 final size:26
Alignment explanation
Indices: 36354639--36354722 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
36354629 CATGATATTC
36354639 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
36354665 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
36354691 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
36354717 TTATCA
1 TTATCA
36354723 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:36359803 original size:28 final size:28
Alignment explanation
Indices: 36359763--36359826 Score: 114
Period size: 28 Copynumber: 2.4 Consensus size: 28
36359753 TCTAGAAAAG
36359763 CATTCGAATTAAGATTTTCAAAGGTTTT
1 CATTCGAATTAAGATTTTCAAAGGTTTT
36359791 CATTCGAATTAAGATTTTCAAAGGTTTT
1 CATTCGAATTAAGATTTTCAAAGGTTTT
36359819 C-TTC-AATT
1 CATTCGAATT
36359827 GAAGTTAGAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
26 4 0.11
27 3 0.08
28 29 0.81
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.44
Consensus pattern (28 bp):
CATTCGAATTAAGATTTTCAAAGGTTTT
Found at i:36361382 original size:3 final size:3
Alignment explanation
Indices: 36361374--36361603 Score: 139
Period size: 3 Copynumber: 75.3 Consensus size: 3
36361364 GTTTATTTAC
* * * * *
36361374 TTA TTA TTA -CA TTA TTAA TTAA TCTA TTA TTA TTG TTG TTG TTA TTT
1 TTA TTA TTA TTA TTA TT-A TT-A T-TA TTA TTA TTA TTA TTA TTA TTA
* * * * * * * * *
36361421 TTA CTA TAA CTA TAA TTT TCTA TTA TTA TTA TTA CTG TCA TTT TTA
1 TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
36361467 TTA CTA TTA TTA TTT TTA -TA TTA TTA TT- TATA TTAA TT- TTG TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TT-A TTA TTA TTA
* ** *
36361511 TTA TTA TTA TTCC TGG TT- TTA TTA TTA TTAA TGTA TCA TTA TTA TTCA
1 TTA TTA TTA TT-A TTA TTA TTA TTA TTA TT-A T-TA TTA TTA TTA TT-A
36361559 TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
36361604 CATTTCTTAT
Statistics
Matches: 177, Mismatches: 35, Indels: 30
0.73 0.14 0.12
Matches are distributed among these distances:
2 10 0.06
3 143 0.81
4 22 0.12
5 2 0.01
ACGTcount: A:0.29, C:0.05, G:0.03, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:36364249 original size:15 final size:15
Alignment explanation
Indices: 36364231--36364268 Score: 60
Period size: 14 Copynumber: 2.5 Consensus size: 15
36364221 TATTATATAT
36364231 TATTAAATATTTTTA
1 TATTAAATATTTTTA
36364246 TATT-AATATTTTTA
1 TATTAAATATTTTTA
36364260 TAATTAAAT
1 T-ATTAAAT
36364269 TAAATTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 11 0.52
15 7 0.33
16 3 0.14
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TATTAAATATTTTTA
Found at i:36367200 original size:25 final size:26
Alignment explanation
Indices: 36367140--36367188 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
36367130 ATTTGTTTTA
*
36367140 ATATTTG-TTT-TTATGTTTTTAAAT
1 ATATTTGATTTATTATATTTTTAAAT
36367164 ATATTTGATTTATTATATTTTTAAA
1 ATATTTGATTTATTATATTTTTAAA
36367189 ATTTTTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (26 bp):
ATATTTGATTTATTATATTTTTAAAT
Found at i:36369389 original size:30 final size:29
Alignment explanation
Indices: 36369351--36369408 Score: 71
Period size: 30 Copynumber: 2.0 Consensus size: 29
36369341 GAGAAGGATG
36369351 GAAAATGGCAACTCCGTTATGTCTGTAAC
1 GAAAATGGCAACTCCGTTATGTCTGTAAC
* ** *
36369380 GAAAGATGGCAGCTTTGTTATGTTTGTAA
1 GAAA-ATGGCAACTCCGTTATGTCTGTAA
36369409 TGGGAAATGG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 4 0.17
30 20 0.83
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (29 bp):
GAAAATGGCAACTCCGTTATGTCTGTAAC
Found at i:36371203 original size:18 final size:18
Alignment explanation
Indices: 36371169--36371267 Score: 101
Period size: 18 Copynumber: 5.5 Consensus size: 18
36371159 TCATTAACAA
*
36371169 TCAG-AACAATTATTTAT
1 TCAGTAACAATTAATTAT
* *
36371186 TCAGTAACAGTTAGTTAT
1 TCAGTAACAATTAATTAT
* *
36371204 TCGGTAACAATCAATTAT
1 TCAGTAACAATTAATTAT
* * * *
36371222 TCAATAATAATCAGTTAT
1 TCAGTAACAATTAATTAT
36371240 TCAGTAACAATTAAATTAT
1 TCAGTAACAATT-AATTAT
36371259 TCAGTAACA
1 TCAGTAACA
36371268 GTCGATCTTT
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
17 4 0.06
18 48 0.73
19 14 0.21
ACGTcount: A:0.41, C:0.13, G:0.09, T:0.36
Consensus pattern (18 bp):
TCAGTAACAATTAATTAT
Found at i:36371222 original size:36 final size:36
Alignment explanation
Indices: 36371169--36371270 Score: 116
Period size: 36 Copynumber: 2.8 Consensus size: 36
36371159 TCATTAACAA
* * *
36371169 TCAG-AACAATTATTTATTCAGTAACAGTTAGTTAT
1 TCAGTAACAATAAATTATTCAGTAACAGTCAGTTAT
* * * * *
36371204 TCGGTAACAATCAATTATTCAATAATAATCAGTTAT
1 TCAGTAACAATAAATTATTCAGTAACAGTCAGTTAT
36371240 TCAGTAACAATTAAATTATTCAGTAACAGTC
1 TCAGTAACAA-TAAATTATTCAGTAACAGTC
36371271 GATCTTTTCA
Statistics
Matches: 53, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
35 3 0.06
36 34 0.64
37 16 0.30
ACGTcount: A:0.40, C:0.14, G:0.10, T:0.36
Consensus pattern (36 bp):
TCAGTAACAATAAATTATTCAGTAACAGTCAGTTAT
Found at i:36372203 original size:9 final size:9
Alignment explanation
Indices: 36372185--36372219 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
36372175 TTTCTTTTTC
*
36372185 ATTTCTTTT
1 ATTTCATTT
36372194 ATTTCATTT
1 ATTTCATTT
36372203 ATTTC-TTT
1 ATTTCATTT
36372211 ATTTCATTT
1 ATTTCATTT
36372220 CTTTATTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
8 8 0.33
9 16 0.67
ACGTcount: A:0.17, C:0.11, G:0.00, T:0.71
Consensus pattern (9 bp):
ATTTCATTT
Found at i:36372211 original size:17 final size:18
Alignment explanation
Indices: 36372185--36372231 Score: 69
Period size: 17 Copynumber: 2.7 Consensus size: 18
36372175 TTTCTTTTTC
36372185 ATTTCTTTTATTTCATTT
1 ATTTCTTTTATTTCATTT
36372203 ATTTC-TTTATTTCATTT
1 ATTTCTTTTATTTCATTT
* *
36372220 CTTTATTTTATT
1 ATTTCTTTTATT
36372232 ATTAAACTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 15 0.58
18 11 0.42
ACGTcount: A:0.17, C:0.11, G:0.00, T:0.72
Consensus pattern (18 bp):
ATTTCTTTTATTTCATTT
Found at i:36372221 original size:13 final size:13
Alignment explanation
Indices: 36372185--36372227 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
36372175 TTTCTTTTTC
* *
36372185 ATTTCTTTTATTT
1 ATTTCATTTCTTT
36372198 CATTT-ATTTCTTT
1 -ATTTCATTTCTTT
36372211 ATTTCATTTCTTT
1 ATTTCATTTCTTT
36372224 ATTT
1 ATTT
36372228 TATTATTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 4 0.15
13 18 0.69
14 4 0.15
ACGTcount: A:0.16, C:0.12, G:0.00, T:0.72
Consensus pattern (13 bp):
ATTTCATTTCTTT
Found at i:36372920 original size:2 final size:2
Alignment explanation
Indices: 36372913--36372942 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
36372903 AGTATGTGAA
36372913 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
36372943 GTATGATCTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:36375827 original size:2 final size:2
Alignment explanation
Indices: 36375778--36375808 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
36375768 AAAGGTATTT
36375778 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 T
36375809 TAATATCTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:36376990 original size:45 final size:46
Alignment explanation
Indices: 36376818--36376997 Score: 238
Period size: 46 Copynumber: 3.9 Consensus size: 46
36376808 TTTGACATAA
* * * * *
36376818 TGCCATTGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATATCACGT
* * *
36376864 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
*
36376910 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
* *
36376956 TGCCATGGT-TCTTTCAGCCATGGTCTTACACATTTCATATCA
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCA
36376998 GAGAGCACAC
Statistics
Matches: 122, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
45 34 0.28
46 88 0.72
ACGTcount: A:0.19, C:0.24, G:0.14, T:0.43
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
Found at i:36379089 original size:11 final size:11
Alignment explanation
Indices: 36379073--36379130 Score: 73
Period size: 11 Copynumber: 5.2 Consensus size: 11
36379063 TTTTATATAC
36379073 TAATAAAATAA
1 TAATAAAATAA
36379084 TAATAAAATAA
1 TAATAAAATAA
36379095 TAAT-AAATAAA
1 TAATAAAAT-AA
* *
36379106 TTATTAAAATAT
1 -TAATAAAATAA
36379118 TAATAAAATAA
1 TAATAAAATAA
36379129 TA
1 TA
36379131 TTTATCTAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
10 4 0.10
11 28 0.70
12 4 0.10
13 4 0.10
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:36382416 original size:28 final size:30
Alignment explanation
Indices: 36382352--36382418 Score: 84
Period size: 28 Copynumber: 2.3 Consensus size: 30
36382342 TTGTACATGT
* *
36382352 GCGAACCCTCTGTATGCGTATCCCCTATAG
1 GCGAACCCTCTGTATGCGAAACCCCTATAG
*
36382382 GCAAACCC-CTGTATGC-AAACCCCTATAG
1 GCGAACCCTCTGTATGCGAAACCCCTATAG
*
36382410 GTGAACCCT
1 GCGAACCCT
36382419 TTATATGAGA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
28 16 0.52
29 8 0.26
30 7 0.23
ACGTcount: A:0.25, C:0.34, G:0.18, T:0.22
Consensus pattern (30 bp):
GCGAACCCTCTGTATGCGAAACCCCTATAG
Found at i:36383912 original size:17 final size:17
Alignment explanation
Indices: 36383875--36383912 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
36383865 AACACTCGAT
*
36383875 TTTTATTTTTATTATAT
1 TTTTATTTTTATTATAA
36383892 TTTTATTTTTAGTT-TAA
1 TTTTATTTTTA-TTATAA
36383909 TTTT
1 TTTT
36383913 TTGCATTCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 17 0.89
18 2 0.11
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (17 bp):
TTTTATTTTTATTATAA
Found at i:36386007 original size:7 final size:7
Alignment explanation
Indices: 36385995--36386064 Score: 63
Period size: 7 Copynumber: 9.7 Consensus size: 7
36385985 TTATTTTATT
36385995 TTATTTA
1 TTATTTA
*
36386002 TTATTTG
1 TTATTTA
36386009 TTATATTA
1 TTAT-TTA
36386017 TTTATTT-
1 -TTATTTA
36386024 TTATTTTA
1 TTA-TTTA
* *
36386032 CTAATTTT
1 -TTATTTA
36386040 TTATTTA
1 TTATTTA
36386047 TTATTT-
1 TTATTTA
36386053 TTATTTA
1 TTATTTA
36386060 TTATT
1 TTATT
36386065 CTTATACTTA
Statistics
Matches: 51, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
6 9 0.18
7 29 0.57
8 7 0.14
9 6 0.12
ACGTcount: A:0.24, C:0.01, G:0.01, T:0.73
Consensus pattern (7 bp):
TTATTTA
Found at i:36386015 original size:16 final size:14
Alignment explanation
Indices: 36385984--36386064 Score: 78
Period size: 15 Copynumber: 5.6 Consensus size: 14
36385974 CCACCCCATT
36385984 TTTATT-TTATTTTA
1 TTTATTATT-TTTTA
*
36385998 TTTATTATTTGTTA
1 TTTATTATTTTTTA
36386012 TATTATT-TATTTTTA
1 T-TTATTAT-TTTTTA
*
36386027 TTTTACTAATTTTTTA
1 -TTTA-TTATTTTTTA
36386043 TTTATTA-TTTTTA
1 TTTATTATTTTTTA
36386056 TTTATTATT
1 TTTATTATT
36386065 CTTATACTTA
Statistics
Matches: 56, Mismatches: 4, Indels: 14
0.76 0.05 0.19
Matches are distributed among these distances:
13 13 0.23
14 15 0.27
15 19 0.34
16 8 0.14
17 1 0.02
ACGTcount: A:0.23, C:0.01, G:0.01, T:0.74
Consensus pattern (14 bp):
TTTATTATTTTTTA
Found at i:36386025 original size:29 final size:28
Alignment explanation
Indices: 36385984--36386064 Score: 94
Period size: 29 Copynumber: 2.8 Consensus size: 28
36385974 CCACCCCATT
36385984 TTTATTT-TATTTTATTTATTATTTGTTA
1 TTTATTTAT-TTTTATTTATTATTTGTTA
* *
36386012 TATTATTTATTTTTATTTTACTAATTTTTTA
1 T-TTATTTATTTTTA-TTTA-TTATTTGTTA
36386043 TTTA-TTATTTTTATTTATTATT
1 TTTATTTATTTTTATTTATTATT
36386065 CTTATACTTA
Statistics
Matches: 46, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
27 4 0.09
28 5 0.11
29 20 0.43
30 8 0.17
31 9 0.20
ACGTcount: A:0.23, C:0.01, G:0.01, T:0.74
Consensus pattern (28 bp):
TTTATTTATTTTTATTTATTATTTGTTA
Found at i:36386057 original size:39 final size:39
Alignment explanation
Indices: 36385981--36386061 Score: 101
Period size: 39 Copynumber: 2.1 Consensus size: 39
36385971 AAGCCACCCC
* * *
36385981 ATTTTTATTTTATTTTATTTATTATTTGTTATATTATTT
1 ATTTTTATTTTATCTAATTTATTATTTATTATATTATTT
* *
36386020 ATTTTTATTTTA-CTAATTTTTTATTTATTATTTTTATTT
1 ATTTTTATTTTATCTAATTTATTATTTATTA-TATTATTT
36386059 ATT
1 ATT
36386062 ATTCTTATAC
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
38 14 0.39
39 22 0.61
ACGTcount: A:0.23, C:0.01, G:0.01, T:0.74
Consensus pattern (39 bp):
ATTTTTATTTTATCTAATTTATTATTTATTATATTATTT
Found at i:36386075 original size:19 final size:20
Alignment explanation
Indices: 36385995--36386075 Score: 78
Period size: 19 Copynumber: 4.2 Consensus size: 20
36385985 TTATTTTATT
*
36385995 TTATTTATTATTTGTTATA-
1 TTATTTATTATTTATTATAC
*
36386014 TTATTTATT-TTTATTTTAC
1 TTATTTATTATTTATTATAC
* * **
36386033 TAATTTTTTATTTATTATTT
1 TTATTTATTATTTATTATAC
*
36386053 TTATTTATTA-TTCTTATAC
1 TTATTTATTATTTATTATAC
36386072 TTAT
1 TTAT
36386076 ATTTTAAATT
Statistics
Matches: 48, Mismatches: 12, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
18 7 0.15
19 26 0.54
20 15 0.31
ACGTcount: A:0.25, C:0.04, G:0.01, T:0.70
Consensus pattern (20 bp):
TTATTTATTATTTATTATAC
Found at i:36386221 original size:26 final size:24
Alignment explanation
Indices: 36386173--36386231 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 24
36386163 TATCATTGAG
36386173 TTTATTATTATTATTTTCGTTTTATT
1 TTTATT-TTATTATTTTCGTTTT-TT
36386199 TTTATTTTATTTATTTATC-TTTTTT
1 TTTATTTTA-TTATTT-TCGTTTTTT
*
36386224 TTAATTTT
1 TTTATTTT
36386232 GTTTTAGTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
25 12 0.40
26 16 0.53
27 2 0.07
ACGTcount: A:0.19, C:0.03, G:0.02, T:0.76
Consensus pattern (24 bp):
TTTATTTTATTATTTTCGTTTTTT
Found at i:36386237 original size:30 final size:29
Alignment explanation
Indices: 36386173--36386259 Score: 79
Period size: 30 Copynumber: 2.9 Consensus size: 29
36386163 TATCATTGAG
*
36386173 TTTA-TTATTATTATTTTCGTTTTATTTTTAT
1 TTTAGTTATT-TTATTTT--TTTTAATTTTAT
* * *
36386204 TTTATTTATTTATCTTTTTTTTAATTTTGT
1 TTTAGTTATTT-TATTTTTTTTAATTTTAT
*
36386234 TTTAGTTGTTTTATTTTTTTT-ATTTT
1 TTTAGTTATTTTATTTTTTTTAATTTT
36386260 CTTCAACTTA
Statistics
Matches: 48, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
28 5 0.10
29 9 0.19
30 19 0.40
31 5 0.10
32 10 0.21
ACGTcount: A:0.16, C:0.02, G:0.05, T:0.77
Consensus pattern (29 bp):
TTTAGTTATTTTATTTTTTTTAATTTTAT
Found at i:36386259 original size:9 final size:9
Alignment explanation
Indices: 36386173--36386259 Score: 57
Period size: 9 Copynumber: 8.9 Consensus size: 9
36386163 TATCATTGAG
*
36386173 TTTATTATT
1 TTTATTTTT
*
36386182 ATTATTTTCGT
1 TTTATTTT--T
36386193 TTTATTTTTAT
1 TTTA-TTTT-T
36386204 TTTATTTATT
1 TTTATTT-TT
* *
36386214 TATCTTTTT
1 TTTATTTTT
36386223 TTTAATTTTGT
1 TTT-ATTTT-T
* *
36386234 TTTAGTTGT
1 TTTATTTTT
36386243 TTTATTTTT
1 TTTATTTTT
36386252 TTTATTTT
1 TTTATTTT
36386260 CTTCAACTTA
Statistics
Matches: 60, Mismatches: 12, Indels: 12
0.71 0.14 0.14
Matches are distributed among these distances:
9 26 0.43
10 16 0.27
11 14 0.23
12 4 0.07
ACGTcount: A:0.16, C:0.02, G:0.05, T:0.77
Consensus pattern (9 bp):
TTTATTTTT
Found at i:36391013 original size:19 final size:19
Alignment explanation
Indices: 36390975--36391013 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
36390965 CATTCGTGCC
*
36390975 TTTCTTTTTCTTTTTTTTA
1 TTTCTTTTTCTTTTTATTA
36390994 TTTCTTTATTC-TTTTATTA
1 TTTCTTT-TTCTTTTTATTA
36391013 T
1 T
36391014 ATTATTAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 15 0.83
20 3 0.17
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.79
Consensus pattern (19 bp):
TTTCTTTTTCTTTTTATTA
Found at i:36391040 original size:12 final size:15
Alignment explanation
Indices: 36391008--36391067 Score: 54
Period size: 15 Copynumber: 3.9 Consensus size: 15
36390998 TTTATTCTTT
36391008 TATTATATTATTAAC
1 TATTATATTATTAAC
36391023 TATTATATT-TT-AC
1 TATTATATTATTAAC
36391036 TTTATTATATTATTTAA-
1 --TATTATATTA-TTAAC
36391053 TAATTATAATTATTA
1 T-ATTAT-ATTATTA
36391068 TTTCTTATTT
Statistics
Matches: 38, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
13 2 0.05
14 2 0.05
15 19 0.50
16 8 0.21
17 6 0.16
18 1 0.03
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.58
Consensus pattern (15 bp):
TATTATATTATTAAC
Found at i:36392475 original size:42 final size:42
Alignment explanation
Indices: 36392409--36392579 Score: 196
Period size: 42 Copynumber: 4.3 Consensus size: 42
36392399 TGAGAATACA
* * * * * * *
36392409 TGTAAGACCATATCTAGGATATGGCATCGGTATGATATTACG
1 TGTAAGACCATGTCTGGGACATGGCATCGATACGAAATTTCG
36392451 TGTAAGACCATGTCTGGGACATGGCATCGATACGAAATTTCG
1 TGTAAGACCATGTCTGGGACATGGCATCGATACGAAATTTCG
*
36392493 TGTAAGACCATGTCTGGG--A---CAT-G--ACGAAATTTCA
1 TGTAAGACCATGTCTGGGACATGGCATCGATACGAAATTTCG
* *
36392527 TGTAAGACCATGTCTGGGACATAGCATTGATACGAAATTTCG
1 TGTAAGACCATGTCTGGGACATGGCATCGATACGAAATTTCG
36392569 TGTAAGACCAT
1 TGTAAGACCAT
36392580 AGCTGGGCTA
Statistics
Matches: 112, Mismatches: 9, Indels: 16
0.82 0.07 0.12
Matches are distributed among these distances:
34 28 0.25
36 2 0.02
37 3 0.03
39 3 0.03
40 2 0.02
42 74 0.66
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATGGCATCGATACGAAATTTCG
Found at i:36392525 original size:34 final size:34
Alignment explanation
Indices: 36392482--36392548 Score: 125
Period size: 34 Copynumber: 2.0 Consensus size: 34
36392472 TGGCATCGAT
*
36392482 ACGAAATTTCGTGTAAGACCATGTCTGGGACATG
1 ACGAAATTTCATGTAAGACCATGTCTGGGACATG
36392516 ACGAAATTTCATGTAAGACCATGTCTGGGACAT
1 ACGAAATTTCATGTAAGACCATGTCTGGGACAT
36392549 AGCATTGATA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (34 bp):
ACGAAATTTCATGTAAGACCATGTCTGGGACATG
Found at i:36394839 original size:53 final size:53
Alignment explanation
Indices: 36394758--36394908 Score: 198
Period size: 53 Copynumber: 2.8 Consensus size: 53
36394748 CTTACACGGT
*
36394758 TCACATATCATACCGAA-GCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACC-AATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
36394813 TCACATTATACCAATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCAATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** * *
36394866 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCAATGCCATAGCCCAGCTATGGTCTTATACGG
36394909 GCACACTTGT
Statistics
Matches: 88, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
52 3 0.03
53 78 0.89
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (53 bp):
TCACATTATACCAATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:36401848 original size:53 final size:53
Alignment explanation
Indices: 36401767--36401917 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
36401757 CTTACACGGT
* *
36401767 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
36401822 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
36401875 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
36401918 GCACACTTGT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:36404318 original size:23 final size:23
Alignment explanation
Indices: 36404256--36404310 Score: 83
Period size: 23 Copynumber: 2.4 Consensus size: 23
36404246 TGTGTTTAAC
*
36404256 ATGCTAACCCTACATGTACTAAT
1 ATGCAAACCCTACATGTACTAAT
* *
36404279 ATGCGAACCCTACATGTAGTAAT
1 ATGCAAACCCTACATGTACTAAT
36404302 ATGCAAACC
1 ATGCAAACC
36404311 TTATATGTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.36, C:0.25, G:0.13, T:0.25
Consensus pattern (23 bp):
ATGCAAACCCTACATGTACTAAT
Found at i:36404446 original size:15 final size:15
Alignment explanation
Indices: 36404399--36404457 Score: 64
Period size: 15 Copynumber: 3.9 Consensus size: 15
36404389 TGAACTCTAT
* *
36404399 ATGTGTGAACACTAG
1 ATGTGCGAACCCTAG
* * *
36404414 ATATGTGAACCCCAG
1 ATGTGCGAACCCTAG
36404429 ATGTGCGAACCCTAG
1 ATGTGCGAACCCTAG
*
36404444 ATGTGCTAACCCTA
1 ATGTGCGAACCCTA
36404458 ATGCATGCAA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 37 1.00
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.24
Consensus pattern (15 bp):
ATGTGCGAACCCTAG
Found at i:36405570 original size:20 final size:21
Alignment explanation
Indices: 36405524--36405572 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
36405514 TTGATAAGTT
36405524 TTTTCTTAAAAACCTTAAGTCG
1 TTTT-TTAAAAACCTTAAGTCG
36405546 TTTTTTAAAAACCTTAAGTCG
1 TTTTTTAAAAACCTTAAGTCG
36405567 TTTTTT
1 TTTTTT
36405573 TCTCAAATCT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.29, C:0.14, G:0.08, T:0.49
Consensus pattern (21 bp):
TTTTTTAAAAACCTTAAGTCG
Found at i:36408643 original size:16 final size:16
Alignment explanation
Indices: 36408624--36408684 Score: 54
Period size: 16 Copynumber: 3.7 Consensus size: 16
36408614 AATCATTTCA
36408624 TATAAAAATATTTAAT
1 TATAAAAATATTTAAT
36408640 TATAAAAAATAATGTT-AT
1 TAT-AAAAAT-AT-TTAAT
* *
36408658 GTA-AAAATTACTTAAT
1 -TATAAAAATATTTAAT
36408674 TATAAAAATAT
1 TATAAAAATAT
36408685 ATGATTTATA
Statistics
Matches: 35, Mismatches: 4, Indels: 12
0.69 0.08 0.24
Matches are distributed among these distances:
15 4 0.11
16 12 0.34
17 11 0.31
18 4 0.11
19 4 0.11
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.39
Consensus pattern (16 bp):
TATAAAAATATTTAAT
Found at i:36408649 original size:17 final size:17
Alignment explanation
Indices: 36408627--36408686 Score: 52
Period size: 17 Copynumber: 3.5 Consensus size: 17
36408617 CATTTCATAT
36408627 AAAAATATTTAATTATA
1 AAAAATATTTAATTATA
*
36408644 AAAAATAATGTT-A-TGTA
1 AAAAAT-AT-TTAATTATA
* *
36408661 AAAATTACTTAATTATA
1 AAAAATATTTAATTATA
36408678 AAAATATAT
1 AAAA-ATAT
36408687 GATTTATAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 9
0.68 0.13 0.19
Matches are distributed among these distances:
15 2 0.06
16 2 0.06
17 21 0.66
18 5 0.16
19 2 0.06
ACGTcount: A:0.57, C:0.02, G:0.03, T:0.38
Consensus pattern (17 bp):
AAAAATATTTAATTATA
Found at i:36408718 original size:2 final size:2
Alignment explanation
Indices: 36408711--36408743 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
36408701 AAATTATAAT
36408711 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 T
36408744 TGTTATAGAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:36413230 original size:17 final size:17
Alignment explanation
Indices: 36413208--36413248 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
36413198 ATTGATTAAT
36413208 TGAACTTGTTAGATTTA
1 TGAACTTGTTAGATTTA
36413225 TGAACTTGTTAGATTTA
1 TGAACTTGTTAGATTTA
36413242 TGAACTT
1 TGAACTT
36413249 TATAACTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.29, C:0.07, G:0.17, T:0.46
Consensus pattern (17 bp):
TGAACTTGTTAGATTTA
Found at i:36417066 original size:26 final size:26
Alignment explanation
Indices: 36417030--36417083 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
36417020 TTGAGTATAG
36417030 TCAGATACAGGTAATGTTCAGTTTGT
1 TCAGATACAGGTAATGTTCAGTTTGT
36417056 TCAGATACAGGTAATGTTCAGTTTGT
1 TCAGATACAGGTAATGTTCAGTTTGT
36417082 TC
1 TC
36417084 TAAGCTTTCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.26, C:0.13, G:0.22, T:0.39
Consensus pattern (26 bp):
TCAGATACAGGTAATGTTCAGTTTGT
Found at i:36420832 original size:31 final size:31
Alignment explanation
Indices: 36420757--36420839 Score: 103
Period size: 31 Copynumber: 2.7 Consensus size: 31
36420747 CTAACGTTTA
* *
36420757 TTTTGGTCCAATTAGGTACATGAACTTGGCT
1 TTTTGGTCCAATTTGGTACTTGAACTTGGCT
* * *
36420788 TCTTGGTTCAATTTGGTACTTGGACTTGGCT
1 TTTTGGTCCAATTTGGTACTTGAACTTGGCT
* *
36420819 TTTTTGTCCAATTTAGTACTT
1 TTTTGGTCCAATTTGGTACTT
36420840 AGCTATATGA
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.18, C:0.16, G:0.20, T:0.46
Consensus pattern (31 bp):
TTTTGGTCCAATTTGGTACTTGAACTTGGCT
Found at i:36423987 original size:135 final size:137
Alignment explanation
Indices: 36423744--36424028 Score: 520
Period size: 135 Copynumber: 2.1 Consensus size: 137
36423734 CATTGGGCCT
** *
36423744 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGATACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
36423809 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
36423873 CATATGC
131 CATATGC
36423880 AAGCCCATTTGGGTAACAGTGATACTGGGCCA-AGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGATACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
36423944 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
36424009 CATATGC
131 CATATGC
36424016 AAGCCCATTTGGG
1 AAGCCCATTTGGG
36424029 GAGACTACTC
Statistics
Matches: 144, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
135 93 0.65
136 51 0.35
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGATACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
CATATGC
Found at i:36424313 original size:25 final size:26
Alignment explanation
Indices: 36424276--36424327 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
36424266 TCAAACATGC
36424276 ATTTAGGTCAATTTAACCCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
* * *
36424302 ATTTCGGT-AATTTATCTCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
36424327 A
1 A
36424328 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.25, C:0.13, G:0.23, T:0.38
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAGGGGT
Found at i:36425901 original size:24 final size:26
Alignment explanation
Indices: 36425809--36425915 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
36425799 CATGAAATTC
36425809 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
36425835 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
36425861 TTATCATGGAACATTTACCTAA-CCA
1 TTATCATGAAACATTTACCTAACCCA
36425886 TTATCATG-AACATTTACCTAA-CCA
1 TTATCATGAAACATTTACCTAACCCA
36425910 TTATCA
1 TTATCA
36425916 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
24 22 0.28
25 11 0.14
26 47 0.59
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:36429872 original size:136 final size:135
Alignment explanation
Indices: 36429666--36429949 Score: 482
Period size: 136 Copynumber: 2.1 Consensus size: 135
36429656 CATTGGGCCT
** * *
36429666 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCTTTTAGATTACAATAAACTGGGCCTTAG
1 AAGCCCATTTGGGTAACAGTGATACTGGGCCAGAGCCTTTTAGATTACAATAAACTAGGCCTTAG
36429731 CCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AACA
66 CCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAACA
36429795 TATGC
131 TATGC
36429800 AAGCCCATTTGGGTAACAGTGATACTGGGCCA-AGCCCTTTTTCAGATTACAATAAACTAGGCCT
1 AAGCCCATTTGGGTAACAGTGATACTGGGCCAGAG-CC-TTTT-AGATTACAATAAACTAGGCCT
*
36429864 TAGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAA
63 TAGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAA
36429929 ACATATGC
128 ACATATGC
36429937 AAGCCCATTTGGG
1 AAGCCCATTTGGG
36429950 GAGACTACTC
Statistics
Matches: 141, Mismatches: 5, Indels: 5
0.93 0.03 0.03
Matches are distributed among these distances:
133 2 0.01
134 31 0.22
135 4 0.03
136 82 0.58
137 22 0.16
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (135 bp):
AAGCCCATTTGGGTAACAGTGATACTGGGCCAGAGCCTTTTAGATTACAATAAACTAGGCCTTAG
CCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAACA
TATGC
Found at i:36431759 original size:26 final size:26
Alignment explanation
Indices: 36431730--36431839 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
36431720 CATGAAATTC
36431730 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
36431756 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
36431782 TTATCATGGAATATTTACCTAATCCA
1 TTATCATGAAACATTTACCTAACCCA
*
36431808 TTGTCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
36431834 TTATCA
1 TTATCA
36431840 ATTTGTATCA
Statistics
Matches: 76, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:36434062 original size:15 final size:15
Alignment explanation
Indices: 36434042--36434070 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
36434032 ATGTATAAGT
36434042 GTAACTTTAGTCATG
1 GTAACTTTAGTCATG
36434057 GTAACTTTAGTCAT
1 GTAACTTTAGTCAT
36434071 TACTTAAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (15 bp):
GTAACTTTAGTCATG
Found at i:36435614 original size:27 final size:27
Alignment explanation
Indices: 36435584--36435656 Score: 83
Period size: 32 Copynumber: 2.5 Consensus size: 27
36435574 TGTCTTGATT
36435584 TTGTTAGATATTGATTATGTTTCAAGC
1 TTGTTAGATATTGATTATGTTTCAAGC
*
36435611 TTGTTAGATATTGAGTTTATTATGTTTTAAGC
1 TTGTTAGATATT--G---ATTATGTTTCAAGC
*
36435643 TTGTTGGATATTGA
1 TTGTTAGATATTGA
36435657 AATGATTGAC
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
27 13 0.33
29 1 0.03
30 1 0.03
32 24 0.62
ACGTcount: A:0.25, C:0.04, G:0.21, T:0.51
Consensus pattern (27 bp):
TTGTTAGATATTGATTATGTTTCAAGC
Found at i:36436675 original size:22 final size:22
Alignment explanation
Indices: 36436648--36436690 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
36436638 ATATTGTTGT
*
36436648 TATCATGTGGTGTAATATTAGC
1 TATCATATGGTGTAATATTAGC
36436670 TATCATATGGTGTAATATTAG
1 TATCATATGGTGTAATATTAG
36436691 TTATGCACTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.30, C:0.07, G:0.21, T:0.42
Consensus pattern (22 bp):
TATCATATGGTGTAATATTAGC
Found at i:36436707 original size:22 final size:22
Alignment explanation
Indices: 36436646--36436694 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
36436636 CAATATTGTT
* *
36436646 GTTATCATGTGGTGTAATATTA
1 GTTATCATATGGTATAATATTA
* *
36436668 GCTATCATATGGTGTAATATTA
1 GTTATCATATGGTATAATATTA
36436690 GTTAT
1 GTTAT
36436695 GCACTTGGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.29, C:0.06, G:0.20, T:0.45
Consensus pattern (22 bp):
GTTATCATATGGTATAATATTA
Found at i:36436757 original size:68 final size:68
Alignment explanation
Indices: 36436609--36436736 Score: 202
Period size: 68 Copynumber: 1.9 Consensus size: 68
36436599 ACTTTTAATG
* * *
36436609 TGGTGTAATATTAGTTATGCACTTGGACAATATTGTTGTTATCATGTGGTGTAATATTAGCTATC
1 TGGTATAATATTAGTTATGCACTTGGACAATATTGTTGTTATCATGTGGTGTAATACTAACTATC
36436674 ATA
66 ATA
* * *
36436677 TGGTGTAATATTAGTTATGCACTTGGATAATGTTGTTGTTATCATGTGGTGTAATACTAA
1 TGGTATAATATTAGTTATGCACTTGGACAATATTGTTGTTATCATGTGGTGTAATACTAA
36436737 TTATGTATTT
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
68 56 1.00
ACGTcount: A:0.27, C:0.08, G:0.22, T:0.43
Consensus pattern (68 bp):
TGGTATAATATTAGTTATGCACTTGGACAATATTGTTGTTATCATGTGGTGTAATACTAACTATC
ATA
Done.