Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold570
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: 91831
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Found at i:157 original size:29 final size:29
Alignment explanation
Indices: 124--180 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
114 AGTCAATTCG
* *
124 AAAATGGTAGTATTTTGATAAATTGTTTC
1 AAAATGATACTATTTTGATAAATTGTTTC
* *
153 AAAATTATACTATTTTGATAATTTGTTT
1 AAAATGATACTATTTTGATAAATTGTTT
181 TAAATTTAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.35, C:0.04, G:0.12, T:0.49
Consensus pattern (29 bp):
AAAATGATACTATTTTGATAAATTGTTTC
Found at i:199 original size:30 final size:29
Alignment explanation
Indices: 131--199 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
121 TCGAAAATGG
131 TAGTATTTTGATAAATTGTTTCAAAATTA
1 TAGTATTTTGATAAATTGTTTCAAAATTA
* * * *
160 TACTATTTTGATAATTTGTTTTAAATTTAA
1 TAGTATTTTGATAAATTGTTTCAAAATT-A
190 TAGTATTTTG
1 TAGTATTTTG
200 GTACAAAAAC
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 24 0.71
30 10 0.29
ACGTcount: A:0.33, C:0.03, G:0.10, T:0.54
Consensus pattern (29 bp):
TAGTATTTTGATAAATTGTTTCAAAATTA
Found at i:8739 original size:22 final size:22
Alignment explanation
Indices: 8701--8752 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
8691 ATTTCAAATT
*
8701 AAATATTA-ATAAATAAA-TAA
1 AAATATAATATAAATAAAGTAA
*
8721 ATAATATAATATAATTAAAGTAA
1 A-AATATAATATAAATAAAGTAA
8744 AAATATAAT
1 AAATATAAT
8753 TGCATCTCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 1 0.04
21 6 0.22
22 16 0.59
23 4 0.15
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (22 bp):
AAATATAATATAAATAAAGTAA
Found at i:11123 original size:11 final size:12
Alignment explanation
Indices: 11106--11138 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
11096 ATAATTATGT
11106 TTTTTATAATAC
1 TTTTTATAATAC
11118 TTTTATATAATA-
1 TTTT-TATAATAC
11130 TTTTTATAA
1 TTTTTATAA
11139 AATAAATTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 5 0.25
12 8 0.40
13 7 0.35
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (12 bp):
TTTTTATAATAC
Found at i:11531 original size:34 final size:34
Alignment explanation
Indices: 11466--11649 Score: 262
Period size: 34 Copynumber: 5.4 Consensus size: 34
11456 TGGCCTATTT
* *
11466 TTGTTGATTAAAT-GGTGATTTGGTAGTTTACCA
1 TTGTTGATTAAATGGGAGATTTGGTAGCTTACCA
* *
11499 TTGTTGACTAAATGGGAAATTTGGTAGCTTACCA
1 TTGTTGATTAAATGGGAGATTTGGTAGCTTACCA
11533 TTGTTGATTAAATGGGAGATTTGGTAGCTTACCA
1 TTGTTGATTAAATGGGAGATTTGGTAGCTTACCA
* * * *
11567 TTATTGATTAAATGGGTGATTTGGTGGTTTACCA
1 TTGTTGATTAAATGGGAGATTTGGTAGCTTACCA
* * *
11601 TTGTTGACTAAATGGGAGATTTGGTAGGTTGCCA
1 TTGTTGATTAAATGGGAGATTTGGTAGCTTACCA
11635 TTGTTGATTAAATGG
1 TTGTTGATTAAATGG
11650 TGGTTTTTAC
Statistics
Matches: 133, Mismatches: 17, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
33 12 0.09
34 121 0.91
ACGTcount: A:0.26, C:0.08, G:0.27, T:0.40
Consensus pattern (34 bp):
TTGTTGATTAAATGGGAGATTTGGTAGCTTACCA
Found at i:12007 original size:19 final size:19
Alignment explanation
Indices: 11951--12013 Score: 90
Period size: 19 Copynumber: 3.3 Consensus size: 19
11941 TGGTTGTCGA
**
11951 GGTACTATTCACGTATATA
1 GGTACTATTCACGTATACG
11970 GGTACTATTCACGTATACG
1 GGTACTATTCACGTATACG
*
11989 GGTACTATTCAAGTATACG
1 GGTACTATTCACGTATACG
*
12008 GTTACT
1 GGTACT
12014 GTACACGTGA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 40 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (19 bp):
GGTACTATTCACGTATACG
Found at i:16137 original size:34 final size:34
Alignment explanation
Indices: 16079--16263 Score: 255
Period size: 34 Copynumber: 5.5 Consensus size: 34
16069 AAGTGGGAGA
* *
16079 ATTGTTGATTAAAT-GGTGATTTGGTAGTTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* * *
16112 ATTATTGACTAAATGGGAAATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
16146 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* * * *
16180 ATTATTGATTAAATGGGTGATTTGGTGGTTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* * *
16214 ATTGTTGACTAAATGGGAGATTTGGTAGGTTGCC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
16248 ATTGTTGATTAAATGG
1 ATTGTTGATTAAATGG
16264 TGGTTTTACC
Statistics
Matches: 132, Mismatches: 19, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
33 12 0.09
34 120 0.91
ACGTcount: A:0.26, C:0.08, G:0.26, T:0.40
Consensus pattern (34 bp):
ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
Found at i:22151 original size:18 final size:18
Alignment explanation
Indices: 22128--22162 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
22118 CTTTAAGTAA
*
22128 TTTAGTTCAGTTGATATT
1 TTTAGTTCAGATGATATT
22146 TTTAGTTCAGATGATAT
1 TTTAGTTCAGATGATAT
22163 CTTCTTTATA
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:0.26, C:0.06, G:0.17, T:0.51
Consensus pattern (18 bp):
TTTAGTTCAGATGATATT
Found at i:26427 original size:20 final size:19
Alignment explanation
Indices: 26377--26454 Score: 75
Period size: 20 Copynumber: 3.9 Consensus size: 19
26367 GGAAAAAAGA
26377 CATAATGTATCGATACATT
1 CATAATGTATCGATACATT
* *
26396 GCAGAATATATCGATACATT
1 -CATAATGTATCGATACATT
*
26416 CATACATGTATCGATATATT
1 CATA-ATGTATCGATACATT
* * *
26436 GAAAAATGTATTGATACAT
1 -CATAATGTATCGATACAT
26455 CTGGGTAAAA
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
19 3 0.06
20 42 0.89
21 2 0.04
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (19 bp):
CATAATGTATCGATACATT
Found at i:26452 original size:40 final size:39
Alignment explanation
Indices: 26377--26454 Score: 102
Period size: 40 Copynumber: 2.0 Consensus size: 39
26367 GGAAAAAAGA
* *
26377 CATAATGTATCGATACATTGCAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* * *
26416 CATACATGTATCGATATATTGAAAAATGTATTGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
26455 CTGGGTAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
39 4 0.12
40 29 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:27154 original size:28 final size:28
Alignment explanation
Indices: 27009--28021 Score: 944
Period size: 28 Copynumber: 35.1 Consensus size: 28
26999 TTTTTTTTAA
* *
27009 AAAATGTGCCACTAACTTGTGTAGGCTTTG
1 AAAAGGTGCCACTGACTTGTG--GGCTTTG
* * *
27039 AAAAAAGTTTCCACTGACACGTGTGGGCTTTG
1 --AAAAGGTGCCACTG--ACTTGTGGGCTTTG
*** *
27071 AAAAGAGTTATTACTGGCTTGTGGGCTTTG
1 AAAAG-G-TGCCACTGACTTGTGGGCTTTG
*
27101 AAAAGAGTGTCACTGACTTGTGGGCTTTG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
* *
27130 AAAAGGTGCCACTTACTTGTAGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
* * *
27158 -AAAGGATACCACTAACTTGTGGACTTTG
1 AAAAGG-TGCCACTGACTTGTGGGCTTTG
* * *
27186 AAAAAGTACCACTGACTCGTGGGC-TTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
* * * *
27213 AAAGGGTGCCACTGACTCGTAGGC-TTC
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
*
27240 AAAGGGTGCCACTGACTTGTGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
*
27268 -AAAGAGTGCCACTGACTCGTGGGCTTTG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
27296 AAAAGAGTGCCACTGACTTGCATGGGCTTT-
1 AAAAG-GTGCCACTGACTTG--TGGGCTTTG
*
27326 AAAAGGGTGCCAATGACTTGCGTGGGCTTT-
1 AAAA-GGTGCCACTGACTT--GTGGGCTTTG
*
27356 AAAAGGGTGCCAATGACTTGCGTGGGCTTTG
1 AAAA-GGTGCCACTGACTT--GTGGGCTTTG
*
27387 -AAAGAGTGCCACTGACTCGTGGGCTTTG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
* ** *
27415 -AATGAGTGCCACTGACTCATGGGCTTCG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
* *
27443 AAAAAGGTACCACTGACTCGTGGGCTTTG
1 -AAAAGGTGCCACTGACTTGTGGGCTTTG
*
27472 AAAAGGTGCCACTAACTTGTGTGGGCTTT-
1 AAAAGGTGCCACTGAC-T-TGTGGGCTTTG
*
27501 AAAAGGGTGCTACTGACTTGCATGGGCTTT-
1 AAAA-GGTGCCACTGACTTG--TGGGCTTTG
27531 AAAAGGGTGCCACTGACTTGTGTGGGCTTTG
1 AAAA-GGTGCCACTGAC-T-TGTGGGCTTTG
27562 -AAAGGATGCCACTGACTTGTGGGCTTTG
1 AAAAGG-TGCCACTGACTTGTGGGCTTTG
*
27590 -AAAGAATGCCACTGA-TTCGTGGGCTTTG
1 AAAAG-GTGCCACTGACTT-GTGGGCTTTG
*
27618 AAAAGGTGCCACTGACTCGTGGGC-TTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
* *
27645 AAAGGGTGCCACTGACTCGTGGGC-TTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
* **
27672 AAAGGGTGCCACTGACTCATGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
*
27700 AAAAGAGTGCCATTGACTTGTGGGCTTTG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
* *
27729 AAAGGAGTTGCCACCGACTTGTGTGGGCTTTG
1 AAA--AGGTGCCACTGAC-T-TGTGGGCTTTG
*
27761 AAAGGAGTGCCACTGACTTGTGTGGGCTTTG
1 AAAAG-GTGCCACTGAC-T-TGTGGGCTTTG
27792 -AAAGGATGCCACTGACTTGTGGGCTTTG
1 AAAAGG-TGCCACTGACTTGTGGGCTTTG
* *
27820 -AAAGAGTGCCACTGAATTGTGGGCTTCG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
* * * *
27848 CAAGGGTGCCACTAACTTGTGGGCTTCG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
*
27876 AAAGGGTGCCACTGACTTGTGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
* *
27904 AAAGGGTGCCACTAACTTGTGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
*
27932 AAAAGAGTGCCATTGACTTGTGGGCTTTG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
*
27961 AAAAGGGTGCCACTGACTTATGGGCTTTG
1 AAAA-GGTGCCACTGACTTGTGGGCTTTG
* **
27990 AAAAAAGTGCCACTGACTCATGGGCTTTG
1 -AAAAGGTGCCACTGACTTGTGGGCTTTG
28019 AAA
1 AAA
28022 GGGATGAACA
Statistics
Matches: 853, Mismatches: 84, Indels: 92
0.83 0.08 0.09
Matches are distributed among these distances:
27 109 0.13
28 299 0.35
29 178 0.21
30 186 0.22
31 36 0.04
32 39 0.05
34 6 0.01
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (28 bp):
AAAAGGTGCCACTGACTTGTGGGCTTTG
Found at i:27500 original size:175 final size:170
Alignment explanation
Indices: 27014--28024 Score: 1021
Period size: 175 Copynumber: 5.8 Consensus size: 170
27004 TTTAAAAAAT
* * * *
27014 GTGCCACTAACTTGTGTAGGCTTTGAAAAAAGTTTCCACTGACACGTGTGGGCTTTGAAAAGAGT
1 GTGCCACTGACTTGTG--GGCTTTG-AAAGAG-TGCCACTG--ACTTGTGGGCTTTG-AAAGAG-
*** * * *
27079 TATTACTGGCTTGTGGGCTTTG-AAAAGAGTGTCACTGACTTGTGGGCTTTGAAAAGGTGCCACT
58 TGCCACTGACTTGTGGGCTTTGAAAAAG-GTGCCACTGACTCGTGGGCTTTGAAAAGGTGCCACT
* * * * * * *
27143 TACTTGTAGGCTTTGAAAGGATACCACTAACTT-GTGGACTTTGAAAA-A
122 AACTTGTGGGCTTTGAAAGGGTGCCACTGACTTCGTGGGCTTT-AAAAGG
* * * * * * *
27191 GTACCACTGACTCGTGGGC-TTGAAAGGGTGCCACTGACTCGTAGGC-TTCAAAGGGTGCCACTG
1 GTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTG
* *
27254 ACTTGTGGGCTTTGAAAGA-GTGCCACTGACTCGTGGGCTTTGAAAAGAGTGCCACTGACTTGCA
66 ACTTGTGGGCTTTGAAAAAGGTGCCACTGACTCGTGGGCTTTGAAAAG-GTGCCACTAACTTG--
* *
27318 TGGGCTTTAAAAGGGTGCCAATGACTTGCGTGGGCTTTAAAAGG
128 TGGGCTTTGAAAGGGTGCCACTGACTT-CGTGGGCTTTAAAAGG
* * *
27362 GTGCCAATGACTTGCGTGGGCTTTGAAAGAGTGCCACTGACTCGTGGGCTTTGAATGAGTGCCAC
1 GTGCCACTGACTT--GTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCAC
** * *
27427 TGACTCATGGGCTTCGAAAAAGGTACCACTGACTCGTGGGCTTTGAAAAGGTGCCACTAACTTGT
64 TGACTTGTGGGCTTTGAAAAAGGTGCCACTGACTCGTGGGCTTTGAAAAGGTGCCACTAAC-T-T
* * *
27492 GTGGGCTTTAAAAGGGTGCTACTGACTTGCATGGGCTTTAAAAGG
127 GTGGGCTTTGAAAGGGTGCCACTGACTT-CGTGGGCTTTAAAAGG
*
27537 GTGCCACTGACTTGTGTGGGCTTTGAAAG-GATGCCACTGACTTGTGGGCTTTGAAAGAATGCCA
1 GTGCCACTGAC-T-TGTGGGCTTTGAAAGAG-TGCCACTGACTTGTGGGCTTTGAAAGAGTGCCA
* * *
27601 CTGA-TTCGTGGGCTTTG-AAAAGGTGCCACTGACTCGTGGGC-TTGAAAGGGTGCCACTGACTC
63 CTGACTT-GTGGGCTTTGAAAAAGGTGCCACTGACTCGTGGGCTTTGAAAAGGTGCCACTAACTT
* *
27663 GTGGGC-TTGAAAGGGTGCCACTGAC-TCATGGGCTTTGAAAAGA
127 GTGGGCTTTGAAAGGGTGCCACTGACTTCGTGGGCTTT-AAAAGG
* *
27706 GTGCCATTGACTTGTGGGCTTTGAAAGGAGTTGCCACCGACTTGTGTGGGCTTTGAAAGGAGTGC
1 GTGCCACTGACTTGTGGGCTTTGAAA-GAG-TGCCACTGAC-T-TGTGGGCTTTGAAA-GAGTGC
*
27771 CACTGACTTGTGTGGGCTTTG--AAAGGATGCCACTGACTTGTGGGCTTTG-AAAGAGTGCCACT
61 CACTGAC-T-TGTGGGCTTTGAAAAAGG-TGCCACTGACTCGTGGGCTTTGAAAAG-GTGCCACT
* * * **
27833 GAA-TTGTGGGCTTCGCAAGGGTGCCACTAACTT-GTGGGCTTCGAAAGG
122 -AACTTGTGGGCTTTGAAAGGGTGCCACTGACTTCGTGGGCTTTAAAAGG
* * *
27881 GTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCATT
1 GTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGAGTGCCACT
* ** * * **
27946 GACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTATGGGCTTTGAAAAAAGTGCCACTGACTCAT
65 GACTTGTGGGCTTTGAAAAAGGTGCCACTGACTCGTGGGCTTTG-AAAAGGTGCCACTAACTTGT
28011 GGGCTTTGAAAGGG
129 GGGCTTTGAAAGGG
28025 ATGAACATTC
Statistics
Matches: 709, Mismatches: 86, Indels: 84
0.81 0.10 0.10
Matches are distributed among these distances:
166 26 0.04
167 45 0.06
168 20 0.03
169 60 0.08
170 52 0.07
171 87 0.12
172 26 0.04
173 40 0.06
174 86 0.12
175 197 0.28
176 53 0.07
177 17 0.02
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.27
Consensus pattern (170 bp):
GTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTG
ACTTGTGGGCTTTGAAAAAGGTGCCACTGACTCGTGGGCTTTGAAAAGGTGCCACTAACTTGTGG
GCTTTGAAAGGGTGCCACTGACTTCGTGGGCTTTAAAAGG
Found at i:27890 original size:432 final size:427
Alignment explanation
Indices: 27060--28022 Score: 1301
Period size: 432 Copynumber: 2.2 Consensus size: 427
27050 CACTGACACG
*** * * *
27060 TGTGGGCTTTGAAAAGAGTTATTACTGGCTTGTGGGCTTTGAAAAGAGTGTCACTGACTTGTGGG
1 TGTGGGCTTTGAAAAGAG-TGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGG
* * *
27125 CTTTGAAAAGG-TGCCACTTACTTGTAGGCTTTGAAAGGATACCACTAACTTGTGGACTTTGAAA
65 CTTTG-AAAGGATGCCACTGACTTGTGGGCTTTGAAAGAATACCACTAACTTGTGGACTTTGAAA
27189 AAGTACCACTGACTCGTGGGCTTGAAAGGGTGCCACTGACTCGTAGGCTTCAAAGGGTGCCACTG
129 AAGTACCACTGACTCGTGGGCTTGAAAGGGTGCCACTGACTCGTAGGCTTCAAAGGGTGCCACTG
** *
27254 ACTTGTGGGCTTTGAAAGAGTGCCACTGACTCGTGGGCTTTGAAAAGAGTGCCACTGACTTGCAT
194 ACTCATGGGCTTTGAAAGAGTGCCACTGACTCGTGGGCTTTGAAAAGAGTGCCACCGACTTGCAT
*
27319 GGGCTTTAAAAGGGTGCCAATGACTTGCGTGGGCTTTAAAAGGGTGCCAATGACTTGCGTGGGCT
259 GGGCTTTAAAAGGGTGCCAATGACTTGCGTGGGCTTTAAAAGGATGCCAATGACTT-CGTGGGCT
* * *
27384 TTGAAAGAGTGCCACTGACTCGTGGGCTTTGAATGAGTGCCACTGACTCATGGGCTTCGAAAAAG
323 TTGAAAGAGTGCCACTGAATCGTGGGCTTCGAATGAGTGCCACTAACTCATGGGCTTCGAAAAAG
27449 GTACCACTGACTCGTGGGCTTTGAAAAGGTGCCACTAACTT
388 GTACCACTGACTCGTGGGCTTTGAAAAGGTGCCACTAAC-T
* *
27490 GTGTGGGCTTT-AAAAGGGTGCTACTGACTTGCATGGGCTTT-AAAAGGGTGCCACTGACTTGTG
1 -TGTGGGCTTTGAAAAGAGTGCCACTGACTTG--TGGGCTTTGAAAAGGGTGCCACTGAC-T-TG
* * *
27553 TGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGAATGCCACTGA-TTCGTGGGCTTT
61 TGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGAATACCACTAACTT-GTGGACTTT
* * * *
27617 GAAAAGGTGCCACTGACTCGTGGGCTTGAAAGGGTGCCACTGACTCGTGGGCTTGAAAGGGTGCC
125 GAAAAAGTACCACTGACTCGTGGGCTTGAAAGGGTGCCACTGACTCGTAGGCTTCAAAGGGTGCC
* * *
27682 ACTGACTCATGGGCTTTGAAAAGAGTGCCATTGACTTGTGGGCTTTGAAAGGAGTTGCCACCGAC
190 ACTGACTCATGGGCTTTG-AAAGAGTGCCACTGACTCGTGGGCTTTGAAAAGAG-TGCCACCGAC
** * * * * *
27747 TTGTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGTGGGCTTTGAAAGGATGCCACTGACTT-G
253 TTGCATGGGCTTTAAAAGG-GTGCCAATGACTTGCGTGGGCTTTAAAAGGATGCCAATGACTTCG
* * **
27811 TGGGCTTTGAAAGAGTGCCACTGAATTGTGGGCTTCGCAA-GGGTGCCACTAACTTGTGGGCTTC
317 TGGGCTTTGAAAGAGTGCCACTGAATCGTGGGCTTCG-AATGAGTGCCACTAACTCATGGGCTTC
* * * *
27875 G-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACT
381 GAAAAAGGTACCACTGACTCGTGGGCTTTGAAAAGGTGCCACTAACT
* *
27921 TGTGGGCTTTGAAAAGAGTGCCATTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTATGGGC
1 TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGC
** **
27986 TTTGAAAAAAGTGCCACTGACTCATGGGCTTTGAAAG
66 TTTGAAAGGA-TGCCACTGACTTGTGGGCTTTGAAAG
28023 GGATGAACAT
Statistics
Matches: 470, Mismatches: 49, Indels: 28
0.86 0.09 0.05
Matches are distributed among these distances:
428 14 0.03
429 43 0.09
430 48 0.10
431 44 0.09
432 168 0.36
433 88 0.19
434 27 0.06
435 38 0.08
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (427 bp):
TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGC
TTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGAATACCACTAACTTGTGGACTTTGAAAAA
GTACCACTGACTCGTGGGCTTGAAAGGGTGCCACTGACTCGTAGGCTTCAAAGGGTGCCACTGAC
TCATGGGCTTTGAAAGAGTGCCACTGACTCGTGGGCTTTGAAAAGAGTGCCACCGACTTGCATGG
GCTTTAAAAGGGTGCCAATGACTTGCGTGGGCTTTAAAAGGATGCCAATGACTTCGTGGGCTTTG
AAAGAGTGCCACTGAATCGTGGGCTTCGAATGAGTGCCACTAACTCATGGGCTTCGAAAAAGGTA
CCACTGACTCGTGGGCTTTGAAAAGGTGCCACTAACT
Found at i:29284 original size:14 final size:14
Alignment explanation
Indices: 29267--29294 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
29257 TTCTTGGTTT
29267 TTTTGTTTTTTTTG
1 TTTTGTTTTTTTTG
29281 TTTTGTTTTTTTTG
1 TTTTGTTTTTTTTG
29295 GGTGTAAAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (14 bp):
TTTTGTTTTTTTTG
Found at i:38991 original size:19 final size:19
Alignment explanation
Indices: 38967--39006 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
38957 AAATAATGGG
* *
38967 AATGAATAGCAAGAAAAAA
1 AATGAACAGCAACAAAAAA
*
38986 AATGAACATCAACAAAAAA
1 AATGAACAGCAACAAAAAA
39005 AA
1 AA
39007 AGTGTCATTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.70, C:0.10, G:0.10, T:0.10
Consensus pattern (19 bp):
AATGAACAGCAACAAAAAA
Found at i:43296 original size:20 final size:20
Alignment explanation
Indices: 43264--43338 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
43254 AAAAAGACAT
* *
43264 AATGTATCAATACATTGCAG
1 AATGTATCGATACATTGCAA
*
43284 AATATATCGATACATT-CATA
1 AATGTATCGATACATTGCA-A
* * *
43304 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTGCAA
43324 AATGTATCGATACAT
1 AATGTATCGATACAT
43339 CTGGGTAAAA
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
19 2 0.05
20 41 0.93
21 1 0.02
ACGTcount: A:0.41, C:0.13, G:0.12, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTGCAA
Found at i:43309 original size:40 final size:39
Alignment explanation
Indices: 43261--43338 Score: 102
Period size: 40 Copynumber: 2.0 Consensus size: 39
43251 GGTAAAAAGA
* *
43261 CATAATGTATCAATACATTGCAGAATATATCGATACATT
1 CATAATGTATCAATACATTGAAAAATATATCGATACATT
* * *
43300 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCAATACATTGAAAAATATATCGATACAT
43339 CTGGGTAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
39 4 0.12
40 29 0.88
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.33
Consensus pattern (39 bp):
CATAATGTATCAATACATTGAAAAATATATCGATACATT
Found at i:44954 original size:3 final size:3
Alignment explanation
Indices: 44946--44974 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
44936 TTTTGATTGA
44946 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
44975 ACCATACCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:45780 original size:2 final size:2
Alignment explanation
Indices: 45773--45810 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
45763 AATGTCTCAA
45773 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
45811 TTTACAATTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:46750 original size:3 final size:3
Alignment explanation
Indices: 46742--46777 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
46732 TTTTATTTTA
46742 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
46778 TATTATAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:46977 original size:17 final size:19
Alignment explanation
Indices: 46941--46978 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
46931 TATTTATAAA
46941 TATACCTAAATTATTATTT
1 TATACCTAAATTATTATTT
*
46960 TATA-CTAACTTA-TATTT
1 TATACCTAAATTATTATTT
46977 TA
1 TA
46979 AAAATTTAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 7 0.39
18 7 0.39
19 4 0.22
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.53
Consensus pattern (19 bp):
TATACCTAAATTATTATTT
Found at i:49414 original size:6 final size:6
Alignment explanation
Indices: 49400--49475 Score: 53
Period size: 6 Copynumber: 12.7 Consensus size: 6
49390 ATATAAAAAA
* * * * *** **
49400 ATATAT ATATTT ATATCT ATATAT ATATTT GTAGAG ATATAG ATATTT
1 ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT
* *
49448 AAATTT ATATTT ATATAT ATATTT ATAT
1 ATATTT ATATTT ATATTT ATATTT ATAT
49476 AGATATAGAT
Statistics
Matches: 54, Mismatches: 16, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
6 54 1.00
ACGTcount: A:0.41, C:0.01, G:0.05, T:0.53
Consensus pattern (6 bp):
ATATTT
Found at i:49415 original size:12 final size:12
Alignment explanation
Indices: 49400--49481 Score: 65
Period size: 12 Copynumber: 6.8 Consensus size: 12
49390 ATATAAAAAA
49400 ATATATATATTT
1 ATATATATATTT
* *
49412 ATATCTATATAT
1 ATATATATATTT
* * ***
49424 ATATTTGTAGAG
1 ATATATATATTT
*
49436 ATATAGATATTT
1 ATATATATATTT
* *
49448 AAATTTATATTT
1 ATATATATATTT
49460 ATATATATATTT
1 ATATATATATTT
*
49472 ATATAGATAT
1 ATATATATAT
49482 AGATATGATT
Statistics
Matches: 52, Mismatches: 18, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
12 52 1.00
ACGTcount: A:0.41, C:0.01, G:0.06, T:0.51
Consensus pattern (12 bp):
ATATATATATTT
Found at i:49421 original size:18 final size:18
Alignment explanation
Indices: 49400--49481 Score: 74
Period size: 18 Copynumber: 4.6 Consensus size: 18
49390 ATATAAAAAA
*
49400 ATATATATATTTATATCT
1 ATATATATATTTATATTT
* ***
49418 ATATATATATTTGTAGAG
1 ATATATATATTTATATTT
* *
49436 ATATAGATATTTAAATTT
1 ATATATATATTTATATTT
* *
49454 ATATTTATATATATATTT
1 ATATATATATTTATATTT
*
49472 ATATAGATAT
1 ATATATATAT
49482 AGATATGATT
Statistics
Matches: 48, Mismatches: 16, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
18 48 1.00
ACGTcount: A:0.41, C:0.01, G:0.06, T:0.51
Consensus pattern (18 bp):
ATATATATATTTATATTT
Found at i:49455 original size:42 final size:42
Alignment explanation
Indices: 49408--49487 Score: 133
Period size: 42 Copynumber: 1.9 Consensus size: 42
49398 AAATATATAT
*
49408 ATTTATATCTATATATATATTTGTAGAGATATAGATATTTAA
1 ATTTATATCTATATATATATTTATAGAGATATAGATATTTAA
* *
49450 ATTTATATTTATATATATATTTATATAGATATAGATAT
1 ATTTATATCTATATATATATTTATAGAGATATAGATAT
49488 GATTTTGATC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.41, C:0.01, G:0.07, T:0.50
Consensus pattern (42 bp):
ATTTATATCTATATATATATTTATAGAGATATAGATATTTAA
Found at i:49482 original size:18 final size:18
Alignment explanation
Indices: 49436--49487 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 18
49426 ATTTGTAGAG
* *
49436 ATATAGATATTTAAATTT
1 ATATAGATATATATATTT
**
49454 ATATTTATATATATATTT
1 ATATAGATATATATATTT
*
49472 ATATAGATATAGATAT
1 ATATAGATATATATAT
49488 GATTTTGATC
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (18 bp):
ATATAGATATATATATTT
Found at i:50121 original size:2 final size:2
Alignment explanation
Indices: 50109--50148 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
50099 ATAACCTTGT
* *
50109 TA TA T- TA TA TA TA TA TA TA TA TA TA TA CA TA TA TG TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
50149 GTTGATGATA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:52272 original size:26 final size:25
Alignment explanation
Indices: 52232--52281 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
52222 TCTTAATTAA
* *
52232 AATTTAAATTTAAATATAAATAATCG
1 AATTTAAAATCAAATATAAA-AATCG
52258 AATTTAAAATCAAATATAAAAATC
1 AATTTAAAATCAAATATAAAAATC
52282 AAGTTCATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 4 0.18
26 18 0.82
ACGTcount: A:0.58, C:0.06, G:0.02, T:0.34
Consensus pattern (25 bp):
AATTTAAAATCAAATATAAAAATCG
Found at i:55943 original size:26 final size:26
Alignment explanation
Indices: 55900--55968 Score: 86
Period size: 26 Copynumber: 2.7 Consensus size: 26
55890 GTAACTATGA
*
55900 AAATATCAAATTTT-ATTATTTAATAT
1 AAATAT-AAATTTTAATTATTTAATAC
* *
55926 AAATATAATTTTTAATTATTTATTAC
1 AAATATAAATTTTAATTATTTAATAC
*
55952 ATATATAAATTTTAATT
1 AAATATAAATTTTAATT
55969 TAATATATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
25 6 0.16
26 31 0.84
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (26 bp):
AAATATAAATTTTAATTATTTAATAC
Found at i:55981 original size:26 final size:24
Alignment explanation
Indices: 55922--55986 Score: 69
Period size: 26 Copynumber: 2.6 Consensus size: 24
55912 TTATTATTTA
*
55922 ATATAA-ATATAATTTTTAATTAT
1 ATATAATATATAAATTTTAATTAT
*
55945 TTATTACATATATAAATTTTAATTTAAT
1 ATA-TA-ATATATAAATTTTAA-TT-AT
55973 ATATAATATATAAA
1 ATATAATATATAAA
55987 ACTCTATTTG
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
23 2 0.06
24 2 0.06
25 1 0.03
26 21 0.62
27 4 0.12
28 4 0.12
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (24 bp):
ATATAATATATAAATTTTAATTAT
Found at i:57458 original size:167 final size:167
Alignment explanation
Indices: 57073--57471 Score: 455
Period size: 167 Copynumber: 2.4 Consensus size: 167
57063 AATTTTCGTG
* ** * * *
57073 GGTTTAAAATTTTTAAAATTCATCAAATATTATTATTTAATACATGTTAAATCATTTTTCAAGAA
1 GGTTTAAAATTTTTAAAATTCATCAAATATTATTATTTAATTCAAATTAAATTATTTTTGAAAAA
* * * * * **
57138 TTTACTCATCTTCATGAGTTTTTGATTTTTTTCCTTGAAAGTTTTTTATTTTTGAAATACGAAGT
66 TTAACTCATCTTCATGAGTTTTTAAATTTTTTCCTTCAAAATTTTTTATTTTAAAAATACGAAGT
* * * *
57203 TTTCTACTCCGTAAATGTGTTCGGGGTGATTTTTCTT
131 TTTCTACTCCATAAATATGTTCGGAGTGATTTTTCTC
** *
57240 GGTTTTTAATTTTTAAAATTCATCAAATATTATCATTTAATTCAAATTAAATTATTTTTGAAAAA
1 GGTTTAAAATTTTTAAAATTCATCAAATATTATTATTTAATTCAAATTAAATTATTTTTGAAAAA
* * *
57305 TTAATTTATTTTCATGAGTTTTTAAATTTTTT-CTTCAAAATTCTTTTATTTTCAAAAAATA-G-
66 TTAACTCATCTTCATGAGTTTTTAAATTTTTTCCTTCAAAATT-TTTTATTTT--AAAAATACGA
* *
57367 AGTTTTCTACTCCATAAATATTTTTGGAAG-GATTTTTCTC
128 AGTTTTCTACTCCATAAATATGTTCGG-AGTGATTTTTCTC
* * ** *
57407 GGTTTAAAATTTTTAAAATTCATCTAATATTATTATTAAATTCCCATTAAATTAGCTTTTGAAAA
1 GGTTTAAAATTTTTAAAATTCATCAAATATTATTATTTAATTCAAATTAAATTA-TTTTTGAAAA
57472 TTCAAATTAT
Statistics
Matches: 194, Mismatches: 33, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
166 8 0.04
167 170 0.88
168 11 0.06
169 5 0.03
ACGTcount: A:0.33, C:0.10, G:0.09, T:0.49
Consensus pattern (167 bp):
GGTTTAAAATTTTTAAAATTCATCAAATATTATTATTTAATTCAAATTAAATTATTTTTGAAAAA
TTAACTCATCTTCATGAGTTTTTAAATTTTTTCCTTCAAAATTTTTTATTTTAAAAATACGAAGT
TTTCTACTCCATAAATATGTTCGGAGTGATTTTTCTC
Found at i:57887 original size:16 final size:15
Alignment explanation
Indices: 57864--57893 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
57854 TGATAAAAGG
57864 AAATAAAATGAAAAA
1 AAATAAAATGAAAAA
57879 AAATGAAAATGAAAA
1 AAAT-AAAATGAAAA
57894 GGCAATGGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.77, C:0.00, G:0.10, T:0.13
Consensus pattern (15 bp):
AAATAAAATGAAAAA
Found at i:59136 original size:164 final size:164
Alignment explanation
Indices: 58942--59373 Score: 555
Period size: 164 Copynumber: 2.6 Consensus size: 164
58932 AAAAATTAAC
*
58942 TTTTAATTATTTTTTCTAATCTTTTATATTCCTATCGACATCCGTAGGGGTATAAAAGATTTCAA
1 TTTTAATTATTTTTT-TAATCTTTTATATTCCTAT-GACATCCGTAAGGGTATAAAAGATTTCAA
* ** * *
59007 AAACTTTTCATAACTTTT-GGAGCTTCCATTAAGGTATGAAATAGTTTTTTTAAAAATAAATAAA
64 AAACTTTTCATATCTTTTCGGAGCTTCCATTAAGGTACAAAATAGTATTTTCAAAAATAAATAAA
** * * *
59071 ATTAAATTAAATTAACACTTTCGTAATCGAGAGAAA
129 ACAAAATAAAATAAACACTTTCATAATCGAGAGAAA
* * ** * *
59107 TTTTAATTATTTTTTTAATCTTTTATATTCCGATAGGCATCCACAAGGGTAAAAAAAATTTCAAA
1 TTTTAATTATTTTTTTAATCTTTTATATTCCTAT-GACATCCGTAAGGGTATAAAAGATTTCAAA
* * *
59172 AACTTTTCGTATCTTTTCGG-GCTTCCACTAAGGTACAAAATGGTATTTTCAAAAATAAATAAAA
65 AACTTTTCATATCTTTTCGGAGCTTCCATTAAGGTACAAAATAGTATTTTCAAAAATAAATAAAA
* *
59236 CAAAATAAAATAAATACTTTCATAATCGAGATAAA
130 CAAAATAAAATAAACACTTTCATAATCGAGAGAAA
* * * *
59271 TTTTAATCATTTTTTTAATCTTTTATATTCCTATAAGCATTCGTAAAGGTATAAAAGATTTCAAA
1 TTTTAATTATTTTTTTAATCTTTTATATTCCTATGA-CATCCGTAAGGGTATAAAAGATTTCAAA
* *
59336 AACTTTTCATATCTTTTCGGA-TTTTCATTAAGGTACAA
65 AACTTTTCATATCTTTTCGGAGCTTCCATTAAGGTACAA
59374 CTTGATATTT
Statistics
Matches: 227, Mismatches: 37, Indels: 7
0.84 0.14 0.03
Matches are distributed among these distances:
164 210 0.93
165 17 0.07
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (164 bp):
TTTTAATTATTTTTTTAATCTTTTATATTCCTATGACATCCGTAAGGGTATAAAAGATTTCAAAA
ACTTTTCATATCTTTTCGGAGCTTCCATTAAGGTACAAAATAGTATTTTCAAAAATAAATAAAAC
AAAATAAAATAAACACTTTCATAATCGAGAGAAA
Found at i:72162 original size:41 final size:41
Alignment explanation
Indices: 72115--72257 Score: 153
Period size: 41 Copynumber: 3.5 Consensus size: 41
72105 TGACCTGTCA
**
72115 GCTCAGTCTCTTTTCAACCTTCATCTCACTAGTACCTATCG
1 GCTCAGTCTCTGGTCAACCTTCATCTCACTAGTACCTATCG
* * * * * *
72156 GCTCAGTCTCGGGTAAACGCTTTAACTCA-TAGTGTCCTATCA
1 GCTCAGTCTCTGGTCAAC-CTTCATCTCACTAGT-ACCTATCG
* *
72198 GCTCAGTCTCAGGTCAACCTTCATCTCACTATTACCTATCG
1 GCTCAGTCTCTGGTCAACCTTCATCTCACTAGTACCTATCG
* *
72239 ACTCAGTCTCTGGTAAACC
1 GCTCAGTCTCTGGTCAACC
72258 CTTTACACCT
Statistics
Matches: 81, Mismatches: 18, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
41 48 0.59
42 33 0.41
ACGTcount: A:0.22, C:0.31, G:0.14, T:0.32
Consensus pattern (41 bp):
GCTCAGTCTCTGGTCAACCTTCATCTCACTAGTACCTATCG
Found at i:72202 original size:42 final size:40
Alignment explanation
Indices: 72130--72262 Score: 117
Period size: 42 Copynumber: 3.2 Consensus size: 40
72120 GTCTCTTTTC
* * * *
72130 AACCTTCATCTCACTAGTACCTATCGGCTCAGTCTCGGGTA
1 AACCTTTAACTCACTATTACCTATC-GCTCAGTCTCAGGTA
*
72171 AACGCTTTAACTCA-TAGTGT-CCTATCAGCTCAGTCTCAGGTC
1 AAC-CTTTAACTCACTA-T-TACCTATC-GCTCAGTCTCAGGTA
* * *
72213 AACCTTCATCTCACTATTACCTATCGACTCAGTCTCTGGTA
1 AACCTTTAACTCACTATTACCTATCG-CTCAGTCTCAGGTA
72254 AACCCTTTA
1 AA-CCTTTA
72263 CACCTATGGT
Statistics
Matches: 74, Mismatches: 11, Indels: 13
0.76 0.11 0.13
Matches are distributed among these distances:
40 2 0.03
41 34 0.46
42 37 0.50
43 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.14, T:0.32
Consensus pattern (40 bp):
AACCTTTAACTCACTATTACCTATCGCTCAGTCTCAGGTA
Found at i:72340 original size:85 final size:85
Alignment explanation
Indices: 72209--72476 Score: 242
Period size: 85 Copynumber: 3.2 Consensus size: 85
72199 CTCAGTCTCA
* * * *
72209 GGTCAA-CCTTCATCTCACTA-TTACCTATC-GACTCAGTCTCTGGTAAACCCTTTACACCTATG
1 GGTCAACCCTTCATC-CATTATTTACCTATCAG-CTTAGTCCCTGGTAAACCCCTTACACCTATG
* **
72271 GTGACCTGTCAACTCAGTTTTT
64 GTGACTTGTCAACTCAGTCCTT
* * * *
72293 GGTCAA-CCTTTATCTTATTATTTACCTATCAGTTTAGTCCTTGGTAAACCCCTTATCACCTA-G
1 GGTCAACCCTTCATC-CATTATTTACCTATCAGCTTAGTCCCTGGTAAACCCCTTA-CACCTATG
** *
72356 GTGACTTGTCGGCTTAGTCCTT
64 GTGACTTGTCAACTCAGTCCTT
* ** * *
72378 GGTCAACCCTTCATCCCTTATTTACCTATGGGCTTAGTCCCCGATAAACCCCTTACACCTATGGT
1 GGTCAACCCTTCATCCATTATTTACCTATCAGCTTAGTCCCTGGTAAACCCCTTACACCTATGGT
** * * *
72443 GACTTGTCCGCTTAGACTTT
66 GACTTGTCAACTCAGTCCTT
72463 GGTCAACCC-TCATC
1 GGTCAACCCTTCATC
72477 TCCTTGTTTA
Statistics
Matches: 153, Mismatches: 26, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
84 28 0.18
85 111 0.73
86 14 0.09
ACGTcount: A:0.21, C:0.29, G:0.15, T:0.35
Consensus pattern (85 bp):
GGTCAACCCTTCATCCATTATTTACCTATCAGCTTAGTCCCTGGTAAACCCCTTACACCTATGGT
GACTTGTCAACTCAGTCCTT
Found at i:72373 original size:43 final size:43
Alignment explanation
Indices: 72326--72471 Score: 120
Period size: 43 Copynumber: 3.4 Consensus size: 43
72316 ACCTATCAGT
72326 TTAGTCCTTGGTAAACCCCTTATCACCTAGGTGACTTGTCGGC
1 TTAGTCCTTGGTAAACCCCTTATCACCTAGGTGACTTGTCGGC
* * * * * *
72369 TTAGTCCTTGGTCAA-CCCTTCATC-CCTTA-TTTACCTATGGGC
1 TTAGTCCTTGGTAAACCCCTT-ATCACC-TAGGTGACTTGTCGGC
** * *
72411 TTAGTCCCCGATAAACCCCTTA-CACCTATGGTGACTTGTCCGC
1 TTAGTCCTTGGTAAACCCCTTATCACCTA-GGTGACTTGTCGGC
* * *
72454 TTAGACTTTGGTCAACCC
1 TTAGTCCTTGGTAAACCC
72472 TCATCTCCTT
Statistics
Matches: 75, Mismatches: 22, Indels: 12
0.69 0.20 0.11
Matches are distributed among these distances:
41 3 0.04
42 29 0.39
43 43 0.57
ACGTcount: A:0.19, C:0.31, G:0.17, T:0.33
Consensus pattern (43 bp):
TTAGTCCTTGGTAAACCCCTTATCACCTAGGTGACTTGTCGGC
Found at i:72436 original size:170 final size:170
Alignment explanation
Indices: 72039--72598 Score: 402
Period size: 170 Copynumber: 3.3 Consensus size: 170
72029 AGTTAAATCT
** * * ** * * *
72039 CTAGTCAACCTTCATCTTATTGTTTATCTGTCGACTCAGTCCCCGATAAACCCATCA-ACCCTAT
1 CTAGTCAACCTTCATCTCCTTATTTACCCATCGGCTCAGTCCCCGATAAACCCCTTACA-CCTAT
* * * * * * * * * *
72103 GGTGACCTGTCAGCTCAGTCTCTT-TTCAACCTTCATCTCACTA-GTACCTATCGGCTCAGT-CT
65 GGTGACCTGTCAACTCAGACT-TTGGTCAACCCTCATCTCATTATTTAACAATCAGCTTAGTCCT
* * * * * * * *
72165 CGGGTAAACGCTTTAACTCATA-GTGTCCTA-TCAGCTCAGTCT
129 C-GGTAAACCCCTTATCACCTAGGTGACC-AGTCGGCTCAGTCC
* * * * * *
72207 C-AGGTCAACCTTCATCTCAC-TA-TTACCTATCGACTCAGTCTCTGGTAAACCCTTTACACCTA
1 CTA-GTCAACCTTCATCTC-CTTATTTACCCATCGGCTCAGTCCCCGATAAACCCCTTACACCTA
** * * * * * *
72269 TGGTGACCTGTCAACTCAGTTTTTGGTCAACCTTTATCTTATTATTTACCTATCAGTTTAGTCCT
64 TGGTGACCTGTCAACTCAGACTTTGGTCAACCCTCATCTCATTATTTAACAATCAGCTTAGTCCT
* ** *
72334 TGGTAAACCCCTTATCACCTAGGTGACTTGTCGGCTTAGTCC
129 CGGTAAACCCCTTATCACCTAGGTGACCAGTCGGCTCAGTCC
* * * * *
72376 TTGGTCAACCCTTCATC-CCTTATTTACCTATGGGCTTAGTCCCCGATAAACCCCTTACACCTAT
1 CTAGTCAA-CCTTCATCTCCTTATTTACCCATCGGCTCAGTCCCCGATAAACCCCTTACACCTAT
* ** * * * ** *
72440 GGTGACTTGTCCGCTTAGACTTTGGTCAACCCTCATCTCCTTGTTTAACAATTGGCTTAGTTCTC
65 GGTGACCTGTCAACTCAGACTTTGGTCAACCCTCATCTCATTATTTAACAATCAGCTTAGTCCTC
* *
72505 GGTAAACCCCTTATCCCCTTGGTGACCAGTCGGCTCAGTCC
130 GGTAAACCCCTTATCACCTAGGTGACCAGTCGGCTCAGTCC
* * * *
72546 CTAGTTAACCTTCATCTCCTTGTTTACCCGTCGGCTCAGTCCCCGGTAAACCC
1 CTAGTCAACCTTCATCTCCTTATTTACCCATCGGCTCAGTCCCCGATAAACCC
72599 TTTATCCTCT
Statistics
Matches: 306, Mismatches: 73, Indels: 24
0.76 0.18 0.06
Matches are distributed among these distances:
166 2 0.01
167 67 0.22
168 46 0.15
169 31 0.10
170 160 0.52
ACGTcount: A:0.21, C:0.31, G:0.15, T:0.34
Consensus pattern (170 bp):
CTAGTCAACCTTCATCTCCTTATTTACCCATCGGCTCAGTCCCCGATAAACCCCTTACACCTATG
GTGACCTGTCAACTCAGACTTTGGTCAACCCTCATCTCATTATTTAACAATCAGCTTAGTCCTCG
GTAAACCCCTTATCACCTAGGTGACCAGTCGGCTCAGTCC
Found at i:72561 original size:85 final size:85
Alignment explanation
Indices: 72326--72741 Score: 322
Period size: 85 Copynumber: 4.9 Consensus size: 85
72316 ACCTATCAGT
* *
72326 TTAGTCCTTGGTAAACCCCTTATCACCTAGGTGACTTGTCGGCTTAGTCCTTGGTCAACCCTTCA
1 TTAGTCCTCGGTAAACCCCTTATCACCTTGGTGACTTGTCGGCTTAGTCCTTGGTCAA-CCTTCA
* * *
72391 TC-CCTTATTTACCTATGGGC
65 TCTCCTTGTTTAACAATGGGC
* * * * * *
72411 TTAGTCCCCGATAAACCCCTTA-CACCTATGGTGACTTGTCCGCTTAGACTTTGGTCAACCCTCA
1 TTAGTCCTCGGTAAACCCCTTATCACCT-TGGTGACTTGTCGGCTTAGTCCTTGGTCAACCTTCA
*
72475 TCTCCTTGTTTAACAATTGGC
65 TCTCCTTGTTTAACAATGGGC
* * ** * * * *
72496 TTAGTTCTCGGTAAACCCCTTATCCCCTTGGTGACCAGTCGGCTCAGTCCCTAGTTAACCTTCAT
1 TTAGTCCTCGGTAAACCCCTTATCACCTTGGTGACTTGTCGGCTTAGTCCTTGGTCAACCTTCAT
* ** *
72561 CTCCTTGTTTACCCGTCGGC
66 CTCCTTGTTTAACAATGGGC
* * * * * * *
72581 TCAGTCCCCGGTAAACCCTTTATC-CTCTCGAT-AGCTTGTTGGCTTAGTCCTCGGTCAACCCTT
1 TTAGTCCTCGGTAAACCCCTTATCAC-CTTGGTGA-CTTGTCGGCTTAGTCCTTGGTCAA-CCTT
* * *
72644 CATCTCCTTGTTTACCTATCGGC
63 CATCTCCTTGTTTAACAATGGGC
* * * * * * * * * * * *
72667 TCAGTCCTCAGTAAA-CCCTAATCCCCTCGATGACCTATCGACCTAGTCCTCGGTCAACCCTTTA
1 TTAGTCCTCGGTAAACCCCTTATCACCTTGGTGACTTGTCGGCTTAGTCCTTGGTCAA-CCTTCA
72731 TC-CCTTGTTTA
65 TCTCCTTGTTTA
72742 CCTATTGGCT
Statistics
Matches: 267, Mismatches: 56, Indels: 17
0.79 0.16 0.05
Matches are distributed among these distances:
84 23 0.09
85 200 0.75
86 44 0.16
ACGTcount: A:0.18, C:0.33, G:0.16, T:0.33
Consensus pattern (85 bp):
TTAGTCCTCGGTAAACCCCTTATCACCTTGGTGACTTGTCGGCTTAGTCCTTGGTCAACCTTCAT
CTCCTTGTTTAACAATGGGC
Found at i:72639 original size:170 final size:171
Alignment explanation
Indices: 72326--72758 Score: 396
Period size: 170 Copynumber: 2.5 Consensus size: 171
72316 ACCTATCAGT
* * ** * * *
72326 TTAGTCCTTGGTAAACCCCTTATCACCTAGGTGACTTGTCGGCTTAGTCCTTGGTCAACCCTTCA
1 TTAGTCCTCGGTAAACCCCTTATCCCCTAGGTGACCAGTCGGCTCAGTCCCTAGTCAACCCTTCA
* * * *
72391 TCCCTTATTTACCTATGGGCTTAGTCCCCGATAAACCCCTTACACCTATGGTGACTTGTCCGCTT
66 TCCCTTATTTACCCATCGGCTCAGTCCCCGATAAACCCCTTACACCTATGATGACTTGTCCGCTT
* * *
72456 AGACTTTGGTCAACCC-TCATCTCCTTGTTTAACAATTGGC
131 AGACCTCGGTCAACCCTTCATCTCCTTGTTTAACAATCGGC
* * *
72496 TTAGTTCTCGGTAAACCCCTTATCCCCTTGGTGACCAGTCGGCTCAGTCCCTAGTTAA-CCTTCA
1 TTAGTCCTCGGTAAACCCCTTATCCCCTAGGTGACCAGTCGGCTCAGTCCCTAGTCAACCCTTCA
* * * * * * **
72560 TCTCCTTGTTTACCCGTCGGCTCAGTCCCCGGTAAACCCTTTA-TCCTCTCGAT-AGCTTGTTGG
66 TC-CCTTATTTACCCATCGGCTCAGTCCCCGATAAACCCCTTACACCTAT-GATGA-CTTGTCCG
* * *
72623 CTTAGTCCTCGGTCAACCCTTCATCTCCTTGTTTACCTATCGGC
128 CTTAGACCTCGGTCAACCCTTCATCTCCTTGTTTAACAATCGGC
* * * * * * *
72667 TCAGTCCTCAGTAAA-CCCTAATCCCCTCGATGACCTA-TCGAC-CTAGT-CCTCGGTCAACCCT
1 TTAGTCCTCGGTAAACCCCTTATCCCCTAGGTGACC-AGTCGGCTC-AGTCCCT-AGTCAACCCT
* * * * *
72728 TTATCCCTTGTTTACCTATTGGCTCAATCCC
63 TCATCCCTTATTTACCCATCGGCTCAGTCCC
72759 TAGTGTAGAC
Statistics
Matches: 213, Mismatches: 42, Indels: 16
0.79 0.15 0.06
Matches are distributed among these distances:
169 17 0.08
170 155 0.73
171 41 0.19
ACGTcount: A:0.18, C:0.33, G:0.16, T:0.33
Consensus pattern (171 bp):
TTAGTCCTCGGTAAACCCCTTATCCCCTAGGTGACCAGTCGGCTCAGTCCCTAGTCAACCCTTCA
TCCCTTATTTACCCATCGGCTCAGTCCCCGATAAACCCCTTACACCTATGATGACTTGTCCGCTT
AGACCTCGGTCAACCCTTCATCTCCTTGTTTAACAATCGGC
Found at i:72745 original size:42 final size:41
Alignment explanation
Indices: 72625--72746 Score: 129
Period size: 42 Copynumber: 2.9 Consensus size: 41
72615 CTTGTTGGCT
* *
72625 TAGTCCTCGGTCAACCCTTCATCTCCTTGTTTACCTATCGGC
1 TAGTCCTCGGTCAACCCTTAATC-CCTTGTTTACCTATCGCC
* * * * *
72667 TCAGTCCTCAGTAAACCC-TAATCCCCTCGATGACCTATCGACC
1 T-AGTCCTCGGTCAACCCTTAAT-CCCTTGTTTACCTATCG-CC
*
72710 TAGTCCTCGGTCAACCCTTTATCCCTTGTTTACCTAT
1 TAGTCCTCGGTCAACCCTTAATCCCTTGTTTACCTAT
72747 TGGCTCAATC
Statistics
Matches: 63, Mismatches: 13, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
42 43 0.68
43 20 0.32
ACGTcount: A:0.19, C:0.36, G:0.12, T:0.33
Consensus pattern (41 bp):
TAGTCCTCGGTCAACCCTTAATCCCTTGTTTACCTATCGCC
Found at i:73190 original size:13 final size:13
Alignment explanation
Indices: 73172--73196 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
73162 ATCACTCAAA
73172 TGTATCGATACAT
1 TGTATCGATACAT
73185 TGTATCGATACA
1 TGTATCGATACA
73197 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:73261 original size:52 final size:52
Alignment explanation
Indices: 73205--73333 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
73195 CACTGATCTT
*
73205 TGTATCGATACATGCAGGTAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGTAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
73257 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGTAAATTTGCCCAGATGTATCGATACACTATAAAA
73309 TGTATCGATACATGCAGGTAAATTT
1 TGTATCGATACATGCAGGTAAATTT
73334 TCATATTTCG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (52 bp):
TGTATCGATACATGCAGGTAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:77782 original size:163 final size:165
Alignment explanation
Indices: 77458--77818 Score: 406
Period size: 163 Copynumber: 2.2 Consensus size: 165
77448 ATTTTCATGG
* ** * * *
77458 GTTTAAAATTTTTAAAATTCATAAAATATTATTATTTAATTCATATTAAATTAGTTTTCAAGAAT
1 GTTTAAAATTTTTAAAATTCATAAAATATTATCAACTAATTCAAATTAAATCAGTTTTCAAAAAT
* * * * *
77523 TCACTCATCTTCATGGGTTTTTTATTTTTTTCTTGAAATTCTTTTATTTTCGAAATACGGAGTTT
66 TAACTCATCTTCATGAGTTTTTAATTTTTTTC-TGAAATTCTTTTATTTTCGAAAAACAGAGTTT
* * * * *
77588 TTTACTTCGTAAATGTTTTCGGGGGGATTTTTCTTA
130 TTTACTCCATAAATATTTTCAGGGAGATTTTTCTTA
** * * * *
77624 GTTTGTAATTTTTAAAATTCATCAAATATTATCAACTGATTCAAATTTAATCAGTTTTGAAAAAT
1 GTTTAAAATTTTTAAAATTCATAAAATATTATCAACTAATTCAAATTAAATCAGTTTTCAAAAAT
* * * * *
77689 TAATTTATTTTCATGAG-TTTTAATTTTTTTC-GAAATT-TCTTTATTTTCGAAAAACATATTTT
66 TAACTCATCTTCATGAGTTTTTAATTTTTTTCTGAAATTCT-TTTATTTTCGAAAAACAGAGTTT
*
77751 TTTACTCCATAAATATTTTTAGGGAGATTTTTCTTA
130 TTTACTCCATAAATATTTTCAGGGAGATTTTTCTTA
**
77787 GTTTAAAATTTTTAAAATTTTTAAAAT-TTATC
1 GTTTAAAATTTTTAAAATTCATAAAATATTATC
77819 TAATATTATT
Statistics
Matches: 161, Mismatches: 33, Indels: 6
0.81 0.17 0.03
Matches are distributed among these distances:
162 6 0.04
163 77 0.48
165 13 0.08
166 65 0.40
ACGTcount: A:0.32, C:0.09, G:0.09, T:0.50
Consensus pattern (165 bp):
GTTTAAAATTTTTAAAATTCATAAAATATTATCAACTAATTCAAATTAAATCAGTTTTCAAAAAT
TAACTCATCTTCATGAGTTTTTAATTTTTTTCTGAAATTCTTTTATTTTCGAAAAACAGAGTTTT
TTACTCCATAAATATTTTCAGGGAGATTTTTCTTA
Found at i:77802 original size:9 final size:9
Alignment explanation
Indices: 77788--77815 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
77778 TTTTTCTTAG
77788 TTTAAAATT
1 TTTAAAATT
77797 TTTAAAATT
1 TTTAAAATT
77806 TTTAAAATT
1 TTTAAAATT
77815 T
1 T
77816 ATCTAATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (9 bp):
TTTAAAATT
Found at i:78493 original size:11 final size:11
Alignment explanation
Indices: 78477--78511 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
78467 AAAATGTGAG
78477 AAAAAAAAG-A
1 AAAAAAAAGAA
*
78487 AAGAAAAAGAA
1 AAAAAAAAGAA
78498 AAAAAAAAGAA
1 AAAAAAAAGAA
78509 AAA
1 AAA
78512 CTGGGAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 8 0.36
11 14 0.64
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (11 bp):
AAAAAAAAGAA
Found at i:78501 original size:17 final size:17
Alignment explanation
Indices: 78478--78511 Score: 59
Period size: 17 Copynumber: 1.9 Consensus size: 17
78468 AAATGTGAGA
78478 AAAAAAAGAAAGAAAAAG
1 AAAAAAA-AAAGAAAAAG
78496 AAAAAAAAAAGAAAAA
1 AAAAAAAAAAGAAAAA
78512 CTGGGAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAAGAAAAAG
Found at i:78504 original size:10 final size:10
Alignment explanation
Indices: 78477--78511 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
78467 AAAATGTGAG
78477 AAAAAAAAGA
1 AAAAAAAAGA
*
78487 AAGAAAAAGAA
1 AAAAAAAAG-A
78498 AAAAAAAAGA
1 AAAAAAAAGA
78508 AAAA
1 AAAA
78512 CTGGGAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (10 bp):
AAAAAAAAGA
Found at i:83829 original size:23 final size:24
Alignment explanation
Indices: 83785--83830 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
83775 GTTTACCCTA
*
83785 AGTTTATTTTTTTTTTATAATTTT
1 AGTTTATTTTTTTTGTATAATTTT
83809 AGTTT-TTTTTTTCTGTA-AATTT
1 AGTTTATTTTTTT-TGTATAATTT
83831 GAATTTGAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.20, C:0.02, G:0.07, T:0.72
Consensus pattern (24 bp):
AGTTTATTTTTTTTGTATAATTTT
Found at i:83958 original size:19 final size:19
Alignment explanation
Indices: 83904--83961 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 19
83894 TCCATCGTTA
*
83904 AATTTGAACACAATAGCTA
1 AATTTGAACACAATAGCTT
* *
83923 AATTTG-A-A-TATA--AT
1 AATTTGAACACAATAGCTT
83937 AATTTGAACACAATAGCTT
1 AATTTGAACACAATAGCTT
83956 AATTTG
1 AATTTG
83962 CTGCCATTGA
Statistics
Matches: 29, Mismatches: 5, Indels: 10
0.66 0.11 0.23
Matches are distributed among these distances:
14 6 0.21
15 1 0.03
16 4 0.14
17 4 0.14
18 1 0.03
19 13 0.45
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.34
Consensus pattern (19 bp):
AATTTGAACACAATAGCTT
Found at i:88542 original size:69 final size:68
Alignment explanation
Indices: 88457--88584 Score: 220
Period size: 69 Copynumber: 1.9 Consensus size: 68
88447 ATGGGGCTGT
88457 AGTATCCCCGACAATGATAATTTGGACAAAATAAGACCTAAATTTTGATGAGTTTAAAATAAGGT
1 AGTATCCCCGACAATGATAATTTGGACAAAATAAGACCTAAATTTTGATGAGTTTAAAATAAGGT
88522 TGG
66 TGG
* **
88525 AGTATTCCCTGACAATGATAATTTGGACAAAATAAGATTTAAATTTTGATGAGTTTAAAA
1 AGTA-TCCCCGACAATGATAATTTGGACAAAATAAGACCTAAATTTTGATGAGTTTAAAA
88585 AAATGAAGAA
Statistics
Matches: 56, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
68 4 0.07
69 52 0.93
ACGTcount: A:0.41, C:0.10, G:0.17, T:0.32
Consensus pattern (68 bp):
AGTATCCCCGACAATGATAATTTGGACAAAATAAGACCTAAATTTTGATGAGTTTAAAATAAGGT
TGG
Found at i:88599 original size:13 final size:13
Alignment explanation
Indices: 88581--88614 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
88571 TGATGAGTTT
*
88581 AAAAAAATGAAGA
1 AAAAAAATGAAAA
88594 AAAAAAAT-AAAA
1 AAAAAAATGAAAA
88606 AAAAAAATG
1 AAAAAAATG
88615 CTACAATGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.82, C:0.00, G:0.09, T:0.09
Consensus pattern (13 bp):
AAAAAAATGAAAA
Found at i:88728 original size:11 final size:11
Alignment explanation
Indices: 88712--88740 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
88702 GGGGGGGGGG
88712 ACACAAAAGGA
1 ACACAAAAGGA
88723 ACAC-AAAGGA
1 ACACAAAAGGA
88733 ACACAAAA
1 ACACAAAA
88741 ATAAAGAGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.66, C:0.21, G:0.14, T:0.00
Consensus pattern (11 bp):
ACACAAAAGGA
Found at i:89738 original size:8 final size:8
Alignment explanation
Indices: 89719--89762 Score: 54
Period size: 8 Copynumber: 5.4 Consensus size: 8
89709 AGTTCATGCT
89719 AAAA-AAA
1 AAAAGAAA
89726 AAAAGAGAA
1 AAAAGA-AA
*
89735 AAAGGAAAA
1 AAAAG-AAA
89744 AAAAGAAA
1 AAAAGAAA
89752 AAAAGAAA
1 AAAAGAAA
89760 AAA
1 AAA
89763 CTAGGAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
7 4 0.12
8 15 0.47
9 12 0.38
10 1 0.03
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (8 bp):
AAAAGAAA
Found at i:89745 original size:18 final size:17
Alignment explanation
Indices: 89722--89762 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
89712 TCATGCTAAA
*
89722 AAAAAAAAGAGAAAAAGG
1 AAAAAAAAGA-AAAAAAG
89740 AAAAAAAAGAAAAAAAG
1 AAAAAAAAGAAAAAAAG
89757 AAAAAA
1 AAAAAA
89763 CTAGGAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 12 0.55
18 10 0.45
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (17 bp):
AAAAAAAAGAAAAAAAG
Found at i:89771 original size:18 final size:17
Alignment explanation
Indices: 89722--89773 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 17
89712 TCATGCTAAA
*
89722 AAAAAAAAGAGAAAAAGG
1 AAAAAAAAG-GAAAAAAG
*
89740 AAAAAAAAGAAAAAAAG
1 AAAAAAAAGGAAAAAAG
*
89757 AAAAAACTAGGAAAAAA
1 AAAAAA-AAGGAAAAAA
89774 TCTTACATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
17 12 0.41
18 17 0.59
ACGTcount: A:0.81, C:0.02, G:0.15, T:0.02
Consensus pattern (17 bp):
AAAAAAAAGGAAAAAAG
Done.