Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1444
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: 31177
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Found at i:4990 original size:14 final size:14
Alignment explanation
Indices: 4971--5003 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
4961 TAATCTTCAC
4971 AAAAAAAACAAAAA
1 AAAAAAAACAAAAA
4985 AAAAAAAACAAAAA
1 AAAAAAAACAAAAA
4999 AAAAA
1 AAAAA
5004 GGGAAAAACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.94, C:0.06, G:0.00, T:0.00
Consensus pattern (14 bp):
AAAAAAAACAAAAA
Found at i:6113 original size:34 final size:34
Alignment explanation
Indices: 6075--7387 Score: 334
Period size: 34 Copynumber: 39.5 Consensus size: 34
6065 CTTTTAAAGC
* *
6075 CCACAATTTCGTGGCACTTTTTTCATCTTTAAGT
1 CCACAACTCCGTGGCACTTTTTTCATCTTTAAGT
** *
6109 CCACAACTCCGTGGCACCCTTTT-A-----AAGC
1 CCACAACTCCGTGGCACTTTTTTCATCTTTAAGT
* * *
6137 CCACAATTCTGTGCCACTTTTTTCATCTTTAAGT
1 CCACAACTCCGTGGCACTTTTTTCATCTTTAAGT
*
6171 CCACAACTCCGTGGCAC------C--CGTTTAAGC
1 CCACAACTCCGTGGCACTTTTTTCATC-TTTAAGT
* * *
6198 CCACAACTCCGTGGCACCTTTTTC-TTTTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCATCTTT-AAGT
* *
6232 CCACAACTCCGTGGCACCTTTTTC-T-TTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCATCTTT-AAGT
* * *
6265 CCACAACTCTGTGGCACTCTTTTTC-CCTTTTCAAAGC
1 CCACAACTCCGTGGCACT-TTTTTCATC-TTT--AAGT
* * *
6302 CCACAACTCCGTGGCACCTTTTTC-TGTTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCATCTTT-AAGT
*
6336 CCACAACTCCGTGGCACTCTTTTTC-TCTTTTCAAAGC
1 CCACAACTCCGTGGCACT-TTTTTCATC-TTT--AAGT
* * *
6373 CCACGACTCCGTGGCAC-----TC-T-TTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCATCTTTAAGT
* * * *
6400 CCACAACTCCATGGCACCTTTTTC-TTTTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCATCTTT-AAGT
* **
6434 CCACAACTCCGTGGCACCTTTTTC-T-TTTAAAAC
1 CCACAACTCCGTGGCACTTTTTTCATCTTT-AAGT
* * *
6467 CCACAACTCTGTGGCACTCTTTTTC-CCTTTTCAAAGC
1 CCACAACTCCGTGGCACT-TTTTTCATC-TTT--AAGT
* * *
6504 CCACAACTCCGTGGCACCTTTTTC-TGTTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCATCTTT-AAGT
*
6538 CCACAACTCCGTGGCACTCTTTTTC-TCTTTTCAAAGC
1 CCACAACTCCGTGGCACT-TTTTTCATC-TTT--AAGT
* * *
6575 CCACGACTCCGTGGCAC-----TC-T-TTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCATCTTTAAGT
* * *
6602 CCACAACTCCGTGGCACCTTCTTC-T-TTTCAAAGC
1 CCACAACTCCGTGGCACTTTTTTCATCTTT--AAGT
* * *
6636 CCACAACTCCGTGGCACCTTCTTC-T-TTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCATCTTT-AAGT
** * *
6669 CCACAACTTTGTGGCACTCTTTTTTCCT-TTTCAAAGC
1 CCACAACTCCGTGGCA--CTTTTTTCATCTTT--AAGT
* *
6706 CCACAACTCCGTGGCACCTTTTTC-T-TTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCATCTTT-AAGT
* * * *
6739 CCACAACTCTGTGGCAC---CTACAACTTT--GT
1 CCACAACTCCGTGGCACTTTTTTCATCTTTAAGT
** ** * *
6768 -GGC-ACTCTC-TTTC-CCTTTTT-A-----AAGC
1 CCACAACTC-CGTGGCACTTTTTTCATCTTTAAGT
* * *
6793 CCACAACTCCGTGGCACCTTTTTC-TGTTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCATCTTT-AAGT
* *
6827 CCACAACTCCGTGGCACTCTTTTTC-CCTTTTCAAAGC
1 CCACAACTCCGTGGCACT-TTTTTCATC-TTT--AAGT
* *
6864 CCACAACTCCGTGGCACCTTTTTC-T-TTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCATCTTT-AAGT
* * * *
6897 CCATAACTCTGTGGCACTCTTTTTC-CCTTTTCAAAGC
1 CCACAACTCCGTGGCACT-TTTTTCATC-TTT--AAGT
* * *
6934 CCACAACTCCGTGGCACCTTTTTC-TGTTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCATCTTT-AAGT
* *
6968 CCACAACTCCGTGGCATTCTTTTTC-TCTTTTCAAAGC
1 CCACAACTCCGTGGCACT-TTTTTCATC-TTT--AAGT
* * *
7005 CCACGACTCCGTGGCAC-----TC-T-TTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCATCTTTAAGT
* * * * *
7032 CCACAATTCCGTGGCACCTTCTTC-TTTTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCATCTTT-AAGT
* *
7066 CCACAACTCCGTGGCACCTTTTTC-T-TTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCATCTTT-AAGT
* * * *
7099 CCACAACTCTGTGACACTCTTTTTC-CCTTTTCAAAGC
1 CCACAACTCCGTGGCACT-TTTTTCATC-TTT--AAGT
* * *
7136 CCACAACTCCGTGGCACCTTTTTC-TGTTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCATCTTT-AAGT
*
7170 CCACAACTCCGTGGCACTCTTTTTC-TCTTTTCAAAGC
1 CCACAACTCCGTGGCACT-TTTTTCATC-TTT--AAGT
** * *
7207 CCATGACTCCGTGGCAC-----TC-T-TTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCATCTTTAAGT
* * *
7234 CCACAACTCCGTGGCACCTTCTTC-T-TTTCAAAGC
1 CCACAACTCCGTGGCACTTTTTTCATCTTT--AAGT
* * *
7268 CCACAACTCCGTGGCACCTTCTTC-T-TTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCATCTTT-AAGT
** * *
7301 CCACAACTTTGTGGCACTCTTTTTTCCT-TTTCAAAGC
1 CCACAACTCCGTGGCA--CTTTTTTCATCTTT--AAGT
* *
7338 CCACAACTCCGTGGCACCTTTTTC-T-TTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCATCTTT-AAGT
*
7371 CCACAACTCTGTGGCAC
1 CCACAACTCCGTGGCAC
7388 CTACAACTTT
Statistics
Matches: 1058, Mismatches: 120, Indels: 203
0.77 0.09 0.15
Matches are distributed among these distances:
25 1 0.00
26 4 0.00
27 112 0.11
28 31 0.03
29 11 0.01
30 2 0.00
31 12 0.01
32 19 0.02
33 179 0.17
34 327 0.31
35 72 0.07
36 65 0.06
37 223 0.21
ACGTcount: A:0.21, C:0.34, G:0.12, T:0.33
Consensus pattern (34 bp):
CCACAACTCCGTGGCACTTTTTTCATCTTTAAGT
Found at i:6398 original size:27 final size:26
Alignment explanation
Indices: 6368--6420 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 26
6358 TTCTCTTTTC
* *
6368 AAAGCCCACGACTCCGTGGCACTCTTT
1 AAAGCCCACAACTCCATGGCAC-CTTT
6395 AAAGCCCACAACTCCATGGCACCTTT
1 AAAGCCCACAACTCCATGGCACCTTT
6421 TTCTTTTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 4 0.17
27 20 0.83
ACGTcount: A:0.26, C:0.38, G:0.15, T:0.21
Consensus pattern (26 bp):
AAAGCCCACAACTCCATGGCACCTTT
Found at i:6522 original size:202 final size:202
Alignment explanation
Indices: 6004--7584 Score: 2082
Period size: 202 Copynumber: 7.7 Consensus size: 202
5994 TGGCATGTTT
* *
6004 TCTTTAAAGCCCACAACTCCGTGGCACCTTGTTCCTTTT--AAGTCCACAACTCCGTGGCACC--
1 TCTTTAAAGCCCACAACTCCGTGGCACCTT-TTTCTTTTCAAAGCCCACAACTCCGTGGCACCTT
* * *
6065 ---CTTTTAAAGCCCACAA-TTTCGTGGCACT-TTTTT-CATCTTT--AAGTCCACAACTCCGTG
65 TTTCTTTTAAAGCCCACAACTCT-GTGGCACTCTTTTTCCCT-TTTCAAAGCCCACAACTCCGTG
* * * * *
6122 GCACC-----CT-TTTAAAGCCCACAATTCTGTGCCACT-TTTTTCATC-TTT--AAGTCCACAA
128 GCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC-TCTTTTCAAAGCCCACGA
6177 CTCCGTGGCAC
192 CTCCGTGGCAC
* *
6188 CCGTTT-AAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACCTT
1 TC-TTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTCAAAGCCCACAACTCCGTGGCACCTT
6252 TTTCTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGC
65 TTTCTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGC
6317 ACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTCTTTTCAAAGCCCACGACTC
130 ACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTCTTTTCAAAGCCCACGACTC
6382 CGTGGCAC
195 CGTGGCAC
* *
6390 TCTTTAAAGCCCACAACTCCATGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACCTTT
1 TCTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTCAAAGCCCACAACTCCGTGGCACCTTT
*
6455 TTCTTTTAAAACCCACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCA
66 TTCTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCA
6520 CCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTCTTTTCAAAGCCCACGACTCC
131 CCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTCTTTTCAAAGCCCACGACTCC
6585 GTGGCAC
196 GTGGCAC
* *
6592 TCTTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTCAAAGCCCACAACTCCGTGGCACCTTC
1 TCTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTCAAAGCCCACAACTCCGTGGCACCTTT
* *
6657 TTCTTTTAAAGCCCACAACTTTGTGGCACTCTTTTTTCCTTTTCAAAGCCCACAACTCCGTGGCA
66 TTCTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCA
*
6722 CCTTTTTCT-TTTAAAGCCCACAACTCTGTGGCACCTACAACTTTGTGGCACTCTCTTTCCCTTT
131 CCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCA-CT----C-TT-T-----T-TC--T--CTTT
* *
6786 TTAAAGCCCACAACTCCGTGGCACC
179 TCAAAGCCCACGACTCCGTGGCA-C
6811 TTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGT
1 ----TC--TTTAAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTTTCAAAGCCCACAACTCCGT
*
6876 GGCACCTTTTTCTTTTAAAGCCCATAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAAC
57 GGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAAC
*
6941 TCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCATTCTTTTTCTCTTTTCAAAGCC
122 TCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTCTTTTCAAAGCC
7006 CACGACTCCGTGGCAC
187 CACGACTCCGTGGCAC
* * *
7022 TCTTTAAAGCCCACAATTCCGTGGCACCTTCTTCTTTTTAAAGCCCACAACTCCGTGGCACCTTT
1 TCTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTCAAAGCCCACAACTCCGTGGCACCTTT
*
7087 TTCTTTTAAAGCCCACAACTCTGTGACACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCA
66 TTCTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCA
*
7152 CCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTCTTTTCAAAGCCCATGACTCC
131 CCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTCTTTTCAAAGCCCACGACTCC
7217 GTGGCAC
196 GTGGCAC
* *
7224 TCTTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTCAAAGCCCACAACTCCGTGGCACCTTC
1 TCTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTCAAAGCCCACAACTCCGTGGCACCTTT
* *
7289 TTCTTTTAAAGCCCACAACTTTGTGGCACTCTTTTTTCCTTTTCAAAGCCCACAACTCCGTGGCA
66 TTCTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCA
*
7354 CCTTTTTCT-TTTAAAGCCCACAACTCTGTGGCACCTACAACTTTGTGGCATTCTCTTTCCCTTT
131 CCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCA-CT----C--T-T----TT-TC--T--CTTT
* *
7418 TTAAAGCCCACAACTCCGTGGCACC
179 TCAAAGCCCACGACTCCGTGGCA-C
7443 TTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGT
1 ----TC--TTTAAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTTTCAAAGCCCACAACTCCGT
* * *
7508 GGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT--AAGTCCACAAC
57 GGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAAC
*
7571 TCCGTGGCATCTTT
122 TCCGTGGCACCTTT
7585 CTCCTTTCCT
Statistics
Matches: 1260, Mismatches: 58, Indels: 116
0.88 0.04 0.08
Matches are distributed among these distances:
183 7 0.01
184 25 0.02
185 24 0.02
190 24 0.02
191 10 0.01
192 2 0.00
193 21 0.02
198 2 0.00
199 25 0.02
200 9 0.01
201 49 0.04
202 647 0.51
204 5 0.00
205 24 0.02
206 2 0.00
207 4 0.00
208 2 0.00
209 1 0.00
211 1 0.00
212 25 0.02
213 3 0.00
214 5 0.00
216 4 0.00
217 1 0.00
218 49 0.04
219 2 0.00
222 1 0.00
223 6 0.00
224 1 0.00
225 50 0.04
226 33 0.03
228 173 0.14
229 23 0.02
ACGTcount: A:0.21, C:0.34, G:0.13, T:0.33
Consensus pattern (202 bp):
TCTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTCAAAGCCCACAACTCCGTGGCACCTTT
TTCTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCA
CCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTCTTTTCAAAGCCCACGACTCC
GTGGCAC
Found at i:6817 original size:87 final size:88
Alignment explanation
Indices: 6671--6843 Score: 303
Period size: 87 Copynumber: 2.0 Consensus size: 88
6661 TTTAAAGCCC
* *
6671 ACAACTTTGTGGCACTCTTTTTTCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCT-TTTA
1 ACAACTTTGTGGCACTCTCTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTA
*
6735 AAGCCCACAACTCTGTGGCACCT
66 AAGCCCACAACTCCGTGGCACCT
*
6758 ACAACTTTGTGGCACTCTCTTTCCCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTA
1 ACAACTTTGTGGCACTCTCTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTA
6823 AAGCCCACAACTCCGTGGCAC
66 AAGCCCACAACTCCGTGGCAC
6844 TCTTTTTCCC
Statistics
Matches: 81, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
87 57 0.70
88 24 0.30
ACGTcount: A:0.21, C:0.33, G:0.13, T:0.33
Consensus pattern (88 bp):
ACAACTTTGTGGCACTCTCTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTA
AAGCCCACAACTCCGTGGCACCT
Found at i:7449 original size:87 final size:88
Alignment explanation
Indices: 7303--7475 Score: 294
Period size: 87 Copynumber: 2.0 Consensus size: 88
7293 TTTAAAGCCC
* *
7303 ACAACTTTGTGGCACTCTTTTTTCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCT-TTTA
1 ACAACTTTGTGGCACTCTCTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTA
*
7367 AAGCCCACAACTCTGTGGCACCT
66 AAGCCCACAACTCCGTGGCACCT
* *
7390 ACAACTTTGTGGCATTCTCTTTCCCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTA
1 ACAACTTTGTGGCACTCTCTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTA
7455 AAGCCCACAACTCCGTGGCAC
66 AAGCCCACAACTCCGTGGCAC
7476 TCTTTTTCCC
Statistics
Matches: 80, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
87 56 0.70
88 24 0.30
ACGTcount: A:0.21, C:0.32, G:0.13, T:0.34
Consensus pattern (88 bp):
ACAACTTTGTGGCACTCTCTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTA
AAGCCCACAACTCCGTGGCACCT
Found at i:7460 original size:34 final size:33
Alignment explanation
Indices: 7416--7604 Score: 236
Period size: 34 Copynumber: 5.4 Consensus size: 33
7406 CTCTTTCCCT
7416 TTTTAAAGCCCACAACTCCGTGGCACCTTTTTC
1 TTTTAAAGCCCACAACTCCGTGGCACCTTTTTC
7449 TGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCC
1 T-TTTAAAGCCCACAACTCCGTGGCAC-CTTTTT--C
*
7486 TTTTCAAAGCCCACAACTCCGTGGCACTTTTTTC
1 TTTT-AAAGCCCACAACTCCGTGGCACCTTTTTC
7520 TTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCC
1 TTTTAAAGCCCACAACTCCGTGGCAC-CTTTTT--C
* * *
7556 TTTT-AAGTCCACAACTCCGTGGCATCTTTCTCC
1 TTTTAAAGCCCACAACTCCGTGGCACCTTT-TTC
7589 TTTCCTAAAGCCCACA
1 TTT--TAAAGCCCACA
7605 CAAGTCGGTG
Statistics
Matches: 138, Mismatches: 6, Indels: 21
0.84 0.04 0.13
Matches are distributed among these distances:
33 27 0.20
34 39 0.28
35 27 0.20
36 21 0.15
37 24 0.17
ACGTcount: A:0.21, C:0.34, G:0.12, T:0.33
Consensus pattern (33 bp):
TTTTAAAGCCCACAACTCCGTGGCACCTTTTTC
Found at i:7496 original size:158 final size:157
Alignment explanation
Indices: 7257--7545 Score: 506
Period size: 158 Copynumber: 1.8 Consensus size: 157
7247 GCACCTTCTT
**
7257 CTTTTCAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTAAAGCCCACAACTTTGTGGCACTCTT
1 CTTTTCAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTAAAGCCCACAACTCCGTGGCACTCTT
* *
7322 TTTTCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCA
66 TTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCA
7387 CCTACAACTTTGTGGCATTCTCTTTCC
131 CCTACAACTTTGTGGCATTCTCTTTCC
* *
7414 CTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCT
1 CTTTTCAAAGCCCACAACTCCGTGGCACCTTCTTCT-TTTAAAGCCCACAACTCCGTGGCACTCT
*
7479 TTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGC
65 TTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGC
7544 AC
130 AC
7546 TCTTTTTCCC
Statistics
Matches: 124, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
157 34 0.27
158 90 0.73
ACGTcount: A:0.21, C:0.34, G:0.12, T:0.33
Consensus pattern (157 bp):
CTTTTCAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTAAAGCCCACAACTCCGTGGCACTCTT
TTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCA
CCTACAACTTTGTGGCATTCTCTTTCC
Found at i:7553 original size:70 final size:69
Alignment explanation
Indices: 7398--7604 Score: 299
Period size: 71 Copynumber: 2.9 Consensus size: 69
7388 CTACAACTTT
* * *
7398 GTGGCATTCTCTTTCCCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCAC
1 GTGGCACTCTTTTTCCC-TTTTAAAGCCCACAACTCCGTGGCACTTTTTTCT-TTTAAAGCCCAC
7463 AACTCC
64 AACTCC
7469 GTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACA
1 GTGGCACTCTTTTTCCCTTTT-AAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACA
7534 ACTCC
65 ACTCC
* * *
7539 GTGGCACTCTTTTTCCCTTTT-AAGTCCACAACTCCGTGGCATCTTTCTCCTTTCCTAAAGCCCA
1 GTGGCACTCTTTTTCCCTTTTAAAGCCCACAACTCCGTGGCA-CTTTTTTCTTT--TAAAGCCCA
7603 CA
63 CA
7605 CAAGTCGGTG
Statistics
Matches: 126, Mismatches: 6, Indels: 8
0.90 0.04 0.06
Matches are distributed among these distances:
68 19 0.15
69 9 0.07
70 43 0.34
71 55 0.44
ACGTcount: A:0.19, C:0.34, G:0.12, T:0.34
Consensus pattern (69 bp):
GTGGCACTCTTTTTCCCTTTTAAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAA
CTCC
Found at i:7600 original size:632 final size:588
Alignment explanation
Indices: 6221--7604 Score: 1442
Period size: 595 Copynumber: 2.3 Consensus size: 588
6211 GCACCTTTTT
*
6221 CTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCT-TTTAAAGCCCACAACTCTGTGGCACTCT
1 CTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCT
*
6285 TTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGG
66 TTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACTTTTTTCT-TTTAAAGCCCACAACTCCGTGG
* *
6350 CACTCTTTTTCTCTTTTCAAAGCCCACGACTCCGTGGCA-C---T-C-TT-TAAAGCCCACAACT
130 CACTCTTTTTCCCTTTT--AAGCCCACAACTCCGTGGCATCTTTTCCTTTCTAAAGCCCACAACT
* * *
6408 CCATGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAACCCACAA
193 CCGTGGCA-C----TC--TTTAAAGCCCACAACTCCATGGCACC---TTCTTTTAAAGCCCACAA
* * *
6473 CTCTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCAC-CTTTTT-CTGTTT-AA
248 CTCCGTGGCAC-CTTCTT--CTTTT-AAAACCCACAACTCCGTGGCACTCTTTTTCCT-TTTCAA
* * *
6535 AGCCCACAACTCCGTGGCACTCTTTTTCTCTTTTCAAAGCCCACGACTCCGTGGCA--------C
308 AGCCCACAACTCCGTGACAC-CTTTTTCT-GTTT-AAAGCCCACAACTCCGTGGCACTCTTTTTC
6592 TC-TTT-AAAGCCCACAACTCCGTGGCACCTTCTTCTTTTCAAAGCCCACAACTCCGTGGCACCT
370 TCGTTTCAAAGCCCACAACTCCGTGGCA----C-TC-TTT-AAAGCCCACAACTCCGTGGCACCT
** * **
6655 TCTTCTTTT-AAAGCCCACAACTTTGTGGCACTCTTTTTTCCTTTTCAAAGCCCACAACTCCGTG
428 TCTTCTTTTCAAAGCCCACAACTCCGTGGCAC-C-TTCTT-CTTTT-AAAGCCCACAACTTTGTG
* * * *** * *
6719 GCAC-C-TTTTT-CTTTT-AAAGCCCACAACTCTGTGGCA-CCTACAACTTTGT--GGCACTCTC
489 GCACTCTTTTTTCCTTTTCAAAGCCCACAACACCGCGGCACCCT-TTTCTTT-TAAAGC-C-CAC
** * * *** * ** *
6777 TTTCCCTTTTTAAAGCCCACAACTCCGTGGCAC-CT-TTT-T
550 -AACTC-TGTGGCA-CCTACAACTTTGTGGCACTCTCTTTCC
*
6816 CTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCT-TTTCAAAGCCCACAACTCCGTGGCA
1 CTTTTTAAAGCCCACAACTCCGTGGCAC-CTTTTT--CTGTTT-AAAGCCCACAACTCCGTGGCA
* *
6880 C-CTTTTT--CTTTT-AAAGCCCATAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAAC
62 CTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACT-TTTTT--CTTTT-AAAGCCCACAAC
** *
6941 TCCGTGGCAC-CTTTTTCTGTTTAAAGCCCACAACTCCGTGGCATTCTTTTTCTCTTT-TCAAAG
123 TCCGTGGCACTCTTTTTCCCTTTTAAGCCCACAACTCCGTGGCA-TC-TTTTC-CTTTCT-AAAG
* * *
7004 CCCACGACTCCGTGGCACTCTTTAAAGCCCACAATTCCGTGGCACCTTCTTCTTTTTAAAGCCCA
184 CCCACAACTCCGTGGCACTCTTTAAAGCCCACAACTCCATGGCA-C--CTTC-TTTTAAAGCCCA
* * * *
7069 CAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGACACTCTTTTTCCCTTTTCAAA
245 CAACTCCGTGGCACCTTCTTCTTTTAAAACCCACAACTCCGTGGCACTCTTTTT-CCTTTTCAAA
* *
7134 GCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTCTT
309 GCCCACAACTCCGTGACACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTCGT
**
7199 TTCAAAGCCCATGACTCCGTGGCACTCTTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTCA
374 TTCAAAGCCCACAACTCCGTGGCACTCTTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTCA
7264 AAGCCCACAACTCCGTGGCACCTTCTTCTTTTAAAGCCCACAACTTTGTGGCACTCTTTTTTCCT
439 AAGCCCACAACTCCGTGGCACCTTCTTCTTTTAAAGCCCACAACTTTGTGGCACTCTTTTTTCCT
* * *
7329 TTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCACCTACAA
504 TTTCAAAGCCCACAACACCGCGGCACCCTTTTCTTTTAAAGCCCACAACTCTGTGGCACCTACAA
*
7394 CTTTGTGGCATTCTCTTTCC
569 CTTTGTGGCACTCTCTTTCC
7414 CTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCT
1 CTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCT
7479 TTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGC
66 TTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGC
*
7544 ACTCTTTTTCCCTTTTAAGTCCACAACTCCGTGGCATCTTTCTCCTTTCCTAAAGCCCACA
131 ACTCTTTTTCCCTTTTAAGCCCACAACTCCGTGGCATCTTT-TCCTTT-CTAAAGCCCACA
7605 CAAGTCGGTG
Statistics
Matches: 682, Mismatches: 51, Indels: 112
0.81 0.06 0.13
Matches are distributed among these distances:
594 7 0.01
595 199 0.29
596 85 0.12
597 46 0.07
598 170 0.25
599 115 0.17
600 8 0.01
601 3 0.00
603 4 0.01
604 7 0.01
605 38 0.06
ACGTcount: A:0.21, C:0.34, G:0.12, T:0.33
Consensus pattern (588 bp):
CTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCT
TTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGC
ACTCTTTTTCCCTTTTAAGCCCACAACTCCGTGGCATCTTTTCCTTTCTAAAGCCCACAACTCCG
TGGCACTCTTTAAAGCCCACAACTCCATGGCACCTTCTTTTAAAGCCCACAACTCCGTGGCACCT
TCTTCTTTTAAAACCCACAACTCCGTGGCACTCTTTTTCCTTTTCAAAGCCCACAACTCCGTGAC
ACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTCGTTTCAAAGCCCACAACTC
CGTGGCACTCTTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTCAAAGCCCACAACTCCGTG
GCACCTTCTTCTTTTAAAGCCCACAACTTTGTGGCACTCTTTTTTCCTTTTCAAAGCCCACAACA
CCGCGGCACCCTTTTCTTTTAAAGCCCACAACTCTGTGGCACCTACAACTTTGTGGCACTCTCTT
TCC
Found at i:7625 original size:104 final size:102
Alignment explanation
Indices: 7416--7604 Score: 265
Period size: 104 Copynumber: 1.8 Consensus size: 102
7406 CTCTTTCCCT
**
7416 TTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTT
1 TTTTAAAGCCCACAACTCCGTGGCACCTTTTTCCCTTTAAAGCCCACAACTCCGTGGCACTCTTT
* * *
7481 TTCCCTTTTCAAAGCCCACAACTCCGTGGCACTTTTTTC
66 CTCCCTTTCCAAAGCCCACAACTCCGTGGCAC--TCTTC
* *
7520 TTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAGTCCACAACTCCGTGGCA-TCTT
1 TTTTAAAGCCCACAACTCCGTGGCAC-CTTTTTCCCTTTAAAGCCCACAACTCCGTGGCACTCTT
7584 TCT-CCTTTCCTAAAGCCCACA
65 TCTCCCTTTCC-AAAGCCCACA
7605 CAAGTCGGTG
Statistics
Matches: 77, Mismatches: 6, Indels: 4
0.89 0.07 0.05
Matches are distributed among these distances:
103 6 0.08
104 42 0.55
105 29 0.38
ACGTcount: A:0.21, C:0.34, G:0.12, T:0.33
Consensus pattern (102 bp):
TTTTAAAGCCCACAACTCCGTGGCACCTTTTTCCCTTTAAAGCCCACAACTCCGTGGCACTCTTT
CTCCCTTTCCAAAGCCCACAACTCCGTGGCACTCTTC
Found at i:7632 original size:33 final size:35
Alignment explanation
Indices: 7590--7658 Score: 124
Period size: 33 Copynumber: 2.0 Consensus size: 35
7580 TCTTTCTCCT
7590 TTCCTAAAGCCCACACAAGTCGGTGGCAA-CCTTC
1 TTCCTAAAGCCCACACAAGTCGGTGGCAACCCTTC
7624 TTCC-AAAGCCCACACAAGTCGGTGGCAACCCTTC
1 TTCCTAAAGCCCACACAAGTCGGTGGCAACCCTTC
7658 T
1 T
7659 AAGCCCAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
33 24 0.71
34 10 0.29
ACGTcount: A:0.26, C:0.36, G:0.17, T:0.20
Consensus pattern (35 bp):
TTCCTAAAGCCCACACAAGTCGGTGGCAACCCTTC
Found at i:7632 original size:104 final size:102
Alignment explanation
Indices: 7420--7637 Score: 253
Period size: 104 Copynumber: 2.1 Consensus size: 102
7410 TTCCCTTTTT
** *
7420 AAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCC
1 AAAGCCCACAACTCCGTGGCACCTTTTTCCCTTTAAAGCCCACAACTCCGTGGCACTCTTTCTCC
* * **
7485 CTTTTCAAAGCCCACAACTCCGTGGCACTTTTTTCTTTT
66 CTTTCCAAAGCCCACAACTCCGTGGCAC--TCTTCTTCC
* *
7524 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAGTCCACAACTCCGTGGCA-TCTTTCT-
1 AAAGCCCACAACTCCGTGGCAC-CTTTTTCCCTTTAAAGCCCACAACTCCGTGGCACTCTTTCTC
* *
7587 CCTTTCCTAAAGCCCACACAAGTCGGTGGCAAC-CTTCTTCC
65 CCTTTCC-AAAG-CC-CACAACTCCGTGGC-ACTCTTCTTCC
7628 AAAGCCCACA
1 AAAGCCCACA
7638 CAAGTCGGTG
Statistics
Matches: 98, Mismatches: 11, Indels: 10
0.82 0.09 0.08
Matches are distributed among these distances:
103 6 0.06
104 47 0.48
105 31 0.32
106 12 0.12
107 2 0.02
ACGTcount: A:0.22, C:0.35, G:0.13, T:0.30
Consensus pattern (102 bp):
AAAGCCCACAACTCCGTGGCACCTTTTTCCCTTTAAAGCCCACAACTCCGTGGCACTCTTTCTCC
CTTTCCAAAGCCCACAACTCCGTGGCACTCTTCTTCC
Found at i:7777 original size:49 final size:48
Alignment explanation
Indices: 7658--8363 Score: 1001
Period size: 49 Copynumber: 14.8 Consensus size: 48
7648 GCAACCCTTC
* * *
7658 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC---T-CATCTT
* *
7710 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCATCTT
7759 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA---C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCATCTT
* * * *
7802 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CCTCATCTT
7851 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA---C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCATCTT
* * *
7894 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCATCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCATCTT
7943 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCATCTT
*
7991 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCATCTT
*
8040 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCACCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCATCTT
8088 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCATCTT
*
8136 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCATCTT
*
8185 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCACCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCATCTT
8233 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA---C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCATCTT
* * *
8276 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC---T-CATCTT
* *
8328 TAAGTTCAATGTAGCTAGCCTTGAATCAGCACATTG
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTG
8364 ACATCCTTTT
Statistics
Matches: 597, Mismatches: 34, Indels: 46
0.88 0.05 0.07
Matches are distributed among these distances:
43 117 0.20
45 2 0.00
47 2 0.00
48 185 0.31
49 217 0.36
50 3 0.01
52 71 0.12
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (48 bp):
TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCATCTT
Found at i:8042 original size:97 final size:96
Alignment explanation
Indices: 7658--8363 Score: 1017
Period size: 97 Copynumber: 7.4 Consensus size: 96
7648 GCAACCCTTC
* * *
7658 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTA
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC---T-CA-CTTTAAGTCCAATGTA
* *
7723 GCTGGCCTTGACTCAGCACATTGGCACCTTTATCTT
61 GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
7759 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA---C-CTTTAAGTCCAATATCGCTGG
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCACTTTAAGTCCAATGTAGCTGG
* *
7820 CCTTGAATCAGCATATTGGCATCTTCATCTT
66 CCTTGAATCAGCACATTGGCACCTTCATCTT
* *
7851 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA---C-CTTTAAGTCCAATATCGCTGG
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCACTTTAAGTCCAATGTAGCTGG
* *
7912 CCTTGAATCAGCATATTGGCACCATCATCTT
66 CCTTGAATCAGCACATTGGCACCTTCATCTT
7943 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCATCTTTAAGTCCAATGTAGCTG
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCA-CTTTAAGTCCAATGTAGCTG
*
8008 GCCTTGACTCAGCACATTGGCACCTTCATCTT
65 GCCTTGAATCAGCACATTGGCACCTTCATCTT
8040 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCACCTTTAAGTCCAATGTAGCTG
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCA-CTTTAAGTCCAATGTAGCTG
8105 GCCTTGAATCAGCACATTGGCACC-TCATCTT
65 GCCTTGAATCAGCACATTGGCACCTTCATCTT
*
8136 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCA-CTTTAAGTCCAATGTAGCT
*
8201 GGCCTTGAATCAGCACATTGGCACC-TCACCTT
64 GGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
8233 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA---C-CTTTAAGTCCAATATAGCTGG
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCACTTTAAGTCCAATGTAGCTGG
* *
8294 CCTTGAATCAGCATATCGGCACCTTTTCCATCTT
66 CCTTGAATCAGCACATTGGCACC--TT-CATCTT
* *
8328 TAAGTTCAATGTAGCTAGCCTTGAATCAGCACATTG
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTG
8364 ACATCCTTTT
Statistics
Matches: 567, Mismatches: 28, Indels: 26
0.91 0.05 0.04
Matches are distributed among these distances:
91 41 0.07
92 175 0.31
93 1 0.00
94 2 0.00
95 40 0.07
96 47 0.08
97 225 0.40
101 36 0.06
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (96 bp):
TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCACTTTAAGTCCAATGTAGCTGG
CCTTGAATCAGCACATTGGCACCTTCATCTT
Found at i:8133 original size:145 final size:145
Alignment explanation
Indices: 7653--8363 Score: 1049
Period size: 145 Copynumber: 4.9 Consensus size: 145
7643 CGGTGGCAAC
* * *
7653 CCTTCTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCA
1 CCTT-TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC---T-CATCTTTAAGTCCA
*
7718 ATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGA
61 ATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGA
7783 ATCAGCACATTGG-----CA
126 ATCAGCACATTGGCACCTCA
* * * *
7798 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CCTCATCTTTAAGTCCAATGT
* * *
7863 AGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATATCGCTGGCCTTGAATCA
65 AGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCA
*
7922 GCATATTGGCACCATCA
130 GCACATTGGCACC-TCA
*
7939 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCATCTTTAAGTCCAATGTA
1 CCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCATCTTTAAGTCCAATGTA
8004 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAG
66 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAG
8069 CACATTGGCACCTCA
131 CACATTGGCACCTCA
8084 CCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCATCTTTAAGTCCAATGTA
1 CCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCATCTTTAAGTCCAATGTA
8149 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAG
66 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAG
8214 CACATTGGCACCTCA
131 CACATTGGCACCTCA
*
8229 CCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA---C--CTTTAAGTCCAATATA
1 CCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCATCTTTAAGTCCAATGTA
* * * * *
8289 GCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTTTAAGTTCAATGTAGCTAGCCTTGAAT
66 GCTGGCCTTGACTCAGCACATTGGCACC--TT-CATCTTTAAGTCCAATGTAGCTGGCCTTGAAT
8354 CAGCACATTG
128 CAGCACATTG
8364 ACATCCTTTT
Statistics
Matches: 526, Mismatches: 24, Indels: 34
0.90 0.04 0.06
Matches are distributed among these distances:
135 37 0.07
140 86 0.16
141 85 0.16
142 4 0.01
143 40 0.08
144 38 0.07
145 195 0.37
146 41 0.08
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (145 bp):
CCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCATCTTTAAGTCCAATGTA
GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAG
CACATTGGCACCTCA
Found at i:8588 original size:169 final size:174
Alignment explanation
Indices: 8270--8660 Score: 442
Period size: 170 Copynumber: 2.3 Consensus size: 174
8260 AGCACATTGG
* * * *
8270 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTTTAAGTTC
1 CACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTT-CATCTTTAAGTCC
*
8335 AATGTAGCTAGCCTTGAATCAGCACATTGACATCCTTTTTCATCATCTTTAAGCCCAATATCGTT
65 AATATAGCTAGCC-TGAATCAGCACATTGACATCCTTTTTCATCATCTTTAAGCCCAATATCGTT
* *
8400 GGCCGTGAATCAACATATTGG-CATCTTT-ATCACTTTTC-TCATCTT
129 GGCCGTGAATCAACATATTGGTC--CTTTCATCACTCTTCATCATCAT
* *
8445 CATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-TTT-ATCTTTAAGTCCA
1 CACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTTCATCTTTAAGTCCA
* ** * **
8508 ATATCGCTAGCC-GCATATTGGCTC-TT-TTATCCTTTTTC-TCATCTTTGAA-CCCAATATCGT
66 ATATAGCTAGCCTG-A-ATCAGCACATTGACATCCTTTTTCATCATCTTT-AAGCCCAATATCGT
* *
8568 TGGCCGTGAATCAACATATTGGTCCTTTCATCGCTCTTCATCCTCAT
128 TGGCCGTGAATCAACATATTGGTCCTTTCATCACTCTTCATCATCAT
* * * * * *
8615 CACCTTTAAGTCCAGTGTGGCAGGCCTTAAATCTGCACAATGGCAC
1 CACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
8661 ACTGCAAGAC
Statistics
Matches: 186, Mismatches: 24, Indels: 17
0.82 0.11 0.07
Matches are distributed among these distances:
168 4 0.02
169 49 0.26
170 58 0.31
171 3 0.02
172 27 0.15
174 3 0.02
175 42 0.23
ACGTcount: A:0.24, C:0.27, G:0.15, T:0.35
Consensus pattern (174 bp):
CACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTTCATCTTTAAGTCCA
ATATAGCTAGCCTGAATCAGCACATTGACATCCTTTTTCATCATCTTTAAGCCCAATATCGTTGG
CCGTGAATCAACATATTGGTCCTTTCATCACTCTTCATCATCAT
Found at i:12123 original size:20 final size:20
Alignment explanation
Indices: 12098--12212 Score: 169
Period size: 20 Copynumber: 5.8 Consensus size: 20
12088 TTTTCACAAT
*
12098 TTGTATCGATACATTATTCA
1 TTGTATCGATACATTGTTCA
12118 TTGTATCGATACATTGTTCA
1 TTGTATCGATACATTGTTCA
12138 TTGTATCGATACATT-TTGCA
1 TTGTATCGATACATTGTT-CA
* *
12158 TTGTTTCGATACATTGCTCA
1 TTGTATCGATACATTGTTCA
* *
12178 TTGTATCGATATATTGCTCA
1 TTGTATCGATACATTGTTCA
12198 TTGTATCGATACATT
1 TTGTATCGATACATT
12213 CGGGCATTTT
Statistics
Matches: 87, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
19 2 0.02
20 84 0.97
21 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.14, T:0.45
Consensus pattern (20 bp):
TTGTATCGATACATTGTTCA
Found at i:14595 original size:31 final size:28
Alignment explanation
Indices: 14511--14582 Score: 110
Period size: 28 Copynumber: 2.6 Consensus size: 28
14501 TTTTCATCTC
*
14511 GGGGATACTCCAATCCC-GTTATTTCCGA
1 GGGGATACTCCAA-CCCTGTTATTTCTGA
14539 GGGGATACTCCAACCCTGTTATTTCTGA
1 GGGGATACTCCAACCCTGTTATTTCTGA
*
14567 GGGGATATTCCAACCC
1 GGGGATACTCCAACCC
14583 CAGTTTTATT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
27 3 0.07
28 38 0.93
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.28
Consensus pattern (28 bp):
GGGGATACTCCAACCCTGTTATTTCTGA
Found at i:14642 original size:51 final size:51
Alignment explanation
Indices: 14569--14685 Score: 132
Period size: 51 Copynumber: 2.3 Consensus size: 51
14559 ATTTCTGAGG
14569 GGATATTCCAACCCCAGTTTTA-TTTCTAAAACACCAA-TTCTCCACAATTGA
1 GGATATTCCAACCCCAGTTTTATTTTC-AAAACACCAATTTCT-CACAATTGA
* * * *
14620 GGATATTTCAACTCC-GATTTTATTTTCAAAACACCAATTTCTCACAATCGG
1 GGATATTCCAACCCCAG-TTTTATTTTCAAAACACCAATTTCTCACAATTGA
* *
14671 GGATACTCTAACCCC
1 GGATATTCCAACCCC
14686 GTTATTTCTG
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
50 1 0.02
51 46 0.84
52 8 0.15
ACGTcount: A:0.32, C:0.27, G:0.09, T:0.32
Consensus pattern (51 bp):
GGATATTCCAACCCCAGTTTTATTTTCAAAACACCAATTTCTCACAATTGA
Found at i:14693 original size:130 final size:129
Alignment explanation
Indices: 14539--14879 Score: 378
Period size: 122 Copynumber: 2.7 Consensus size: 129
14529 TTATTTCCGA
* *
14539 GGGGATACTCCAACCCTGTTATTTCTGAGGGGATATTCCAACCCCAGTTTTATTTCTAAAACACC
1 GGGGATACTCTAACCCTGTTATTTCTGAGGGGATACTCCAACCCCAGTTTTATTTCT-AAACACC
*
14604 AATTCTCCACAATTGAGGATATTTCAACTCCGATTTTATTTTCAAAACACCAATTTCTCACAATC
65 AATTTTCCACAATTGAGGATATTTCAACTCCGATTTTATTTTCAAAACACCAATTTCTCACAATC
* *
14669 GGGGATACTCTAACCCCGTTATTTCTGAGGGGATACTCCAACCCC-GACTTTA--T-T----ACC
1 GGGGATACTCTAACCCTGTTATTTCTGAGGGGATACTCCAACCCCAG-TTTTATTTCTAAACACC
* * * * * * * * *
14726 AATTTTCCACAATCGTGGATACTTCAACTCCGATTTTATTTTTAAAATACCGATTTTTTATAATC
65 AATTTTCCACAATTGAGGATATTTCAACTCCGATTTTATTTTCAAAACACCAATTTCTCACAATC
** *
14791 ATGGATACT-TCAACCCTGTTATTT-TCGAGGGGATACTCCAACCCCAATTTTTATTTCTAGAAC
1 GGGGATACTCT-AACCCTGTTATTTCT-GAGGGGATACTCCAACCCC-AGTTTTATTTCTA-AAC
* * *
14854 ACCGATTTTCCATAATTGGGGATATT
62 ACCAATTTTCCACAATTGAGGATATT
14880 CTAGCCTTGT
Statistics
Matches: 174, Mismatches: 24, Indels: 25
0.78 0.11 0.11
Matches are distributed among these distances:
121 2 0.01
122 96 0.55
123 4 0.02
125 1 0.01
126 1 0.01
127 1 0.01
128 1 0.01
129 1 0.01
130 46 0.26
131 21 0.12
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (129 bp):
GGGGATACTCTAACCCTGTTATTTCTGAGGGGATACTCCAACCCCAGTTTTATTTCTAAACACCA
ATTTTCCACAATTGAGGATATTTCAACTCCGATTTTATTTTCAAAACACCAATTTCTCACAATC
Found at i:23801 original size:32 final size:34
Alignment explanation
Indices: 23760--23838 Score: 119
Period size: 33 Copynumber: 2.4 Consensus size: 34
23750 TTCTGAAGCT
23760 GTTAACTTTGATCA-CAGAT-TTATACACTTTTG
1 GTTAACTTTGATCATCAGATATTATACACTTTTG
* *
23792 GTTTACTTTGAT-ATTAGATATTATACACTTTTG
1 GTTAACTTTGATCATCAGATATTATACACTTTTG
23825 GTTAACTTTGATCA
1 GTTAACTTTGATCA
23839 AATTTCTTAA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
31 1 0.02
32 15 0.37
33 24 0.59
34 1 0.02
ACGTcount: A:0.28, C:0.13, G:0.13, T:0.47
Consensus pattern (34 bp):
GTTAACTTTGATCATCAGATATTATACACTTTTG
Found at i:26417 original size:19 final size:19
Alignment explanation
Indices: 26401--26439 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
26391 TAAAAGGTTG
26401 ACTTAAACTACAAAGGTCA
1 ACTTAAACTACAAAGGTCA
26420 ACTTAAACTACAAAGGTCA
1 ACTTAAACTACAAAGGTCA
26439 A
1 A
26440 AACCCTAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.49, C:0.21, G:0.10, T:0.21
Consensus pattern (19 bp):
ACTTAAACTACAAAGGTCA
Found at i:26480 original size:20 final size:21
Alignment explanation
Indices: 26443--26481 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
26433 AGGTCAAAAC
*
26443 CCTAGAAAGTTTCAATACAGA
1 CCTAGAAAGTATCAATACAGA
*
26464 CCTAG-AAGTATCGATACA
1 CCTAGAAAGTATCAATACA
26482 TATTGCTTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.41, C:0.21, G:0.15, T:0.23
Consensus pattern (21 bp):
CCTAGAAAGTATCAATACAGA
Found at i:26508 original size:13 final size:13
Alignment explanation
Indices: 26490--26515 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
26480 CATATTGCTT
26490 TGTATCGATACAC
1 TGTATCGATACAC
26503 TGTATCGATACAC
1 TGTATCGATACAC
26516 GATCTTGGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:26551 original size:20 final size:20
Alignment explanation
Indices: 26503--26573 Score: 76
Period size: 20 Copynumber: 3.6 Consensus size: 20
26493 ATCGATACAC
*
26503 TGTATCGATACAC-G-ATCT
1 TGTATCGATACACAGCATAT
*
26521 TGGTATTGATACACAGCATAT
1 T-GTATCGATACACAGCATAT
*
26542 TGTATCGATACATAGCGA-AT
1 TGTATCGATACACAGC-ATAT
26562 TGTATCGATACA
1 TGTATCGATACA
26574 TGAAACTGGC
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
18 1 0.02
19 11 0.24
20 28 0.62
21 5 0.11
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32
Consensus pattern (20 bp):
TGTATCGATACACAGCATAT
Found at i:27885 original size:267 final size:267
Alignment explanation
Indices: 27403--27938 Score: 1036
Period size: 267 Copynumber: 2.0 Consensus size: 267
27393 ATCTCCTTCA
27403 TCGGATTAACACCCGGAAGAAATGATCTTTATAGCTTAAAAGGAAAACTTGATCATCAAAGCTTC
1 TCGGATTAACACCCGGAAGAAATGATCTTTATAGCTTAAAAGGAAAACTTGATCATCAAAGCTTC
*
27468 TCAACAAATGCTGAACCAGGAAGGGATGCGTTCTTATGGCATTGGAGAATAATTCAAATGCCATT
66 TCAACAAATGCTGAACCAGGAAAGGATGCGTTCTTATGGCATTGGAGAATAATTCAAATGCCATT
27533 GGACTTGAAGGTCACTCGACTATGAGACCTCTATACTTTAATGGGGACAACTACTCATATTGGAG
131 GGACTTGAAGGTCACTCGACTATGAGACCTCTATACTTTAATGGGGACAACTACTCATATTGGAG
*
27598 AACATGAATGAGAATGTTTATCCAAGCTAATGACTACGAAGTGTGGAAGATCATCGTTAAAAGAC
196 AACATGAATGAGAATGTTTATCCAAGCTAATGACTACGAAGTGTGGAAGATCATCATTAAAAGAC
*
27663 CATAAAT
261 CACAAAT
27670 TCGGATTAACACCCGGAAGAAATGATCTTTATAGCTTAAAAGGAAAACTTGATCATCAAAGCTTC
1 TCGGATTAACACCCGGAAGAAATGATCTTTATAGCTTAAAAGGAAAACTTGATCATCAAAGCTTC
27735 TCAACAAATGCTGAACCAGGAAAGGATGCGTTCTTATGGCATTGGAGAATAATTCAAATGCCATT
66 TCAACAAATGCTGAACCAGGAAAGGATGCGTTCTTATGGCATTGGAGAATAATTCAAATGCCATT
27800 GGACTTGAAGGTCACTCGACTATGAGACCTCTATACTTTAATGGGGACAACTACTCATATTGGAG
131 GGACTTGAAGGTCACTCGACTATGAGACCTCTATACTTTAATGGGGACAACTACTCATATTGGAG
*
27865 AACATGAATGAGATTGTTTATCCAAGCTAATGACTACGAAGTGTGGAAGATCATCATTAAAAGAC
196 AACATGAATGAGAATGTTTATCCAAGCTAATGACTACGAAGTGTGGAAGATCATCATTAAAAGAC
27930 CACAAAT
261 CACAAAT
27937 TC
1 TC
27939 CAACAAAGAG
Statistics
Matches: 265, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
267 265 1.00
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (267 bp):
TCGGATTAACACCCGGAAGAAATGATCTTTATAGCTTAAAAGGAAAACTTGATCATCAAAGCTTC
TCAACAAATGCTGAACCAGGAAAGGATGCGTTCTTATGGCATTGGAGAATAATTCAAATGCCATT
GGACTTGAAGGTCACTCGACTATGAGACCTCTATACTTTAATGGGGACAACTACTCATATTGGAG
AACATGAATGAGAATGTTTATCCAAGCTAATGACTACGAAGTGTGGAAGATCATCATTAAAAGAC
CACAAAT
Found at i:28497 original size:3 final size:3
Alignment explanation
Indices: 28491--28537 Score: 76
Period size: 3 Copynumber: 15.7 Consensus size: 3
28481 CAATCATCAA
* *
28491 GAT GAT GAA GAT GAT GAT GAT GAT GAT GAT GAT GAT AAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
28538 AGTTGACTCG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.38, C:0.00, G:0.32, T:0.30
Consensus pattern (3 bp):
GAT
Done.