Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1126
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: 96929
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.32
Found at i:24 original size:13 final size:13
Alignment explanation
Indices: 6--30 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1 AAATA
6 TGTATCGATACAT
1 TGTATCGATACAT
19 TGTATCGATACA
1 TGTATCGATACA
31 ACATTTTATG
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:7021 original size:1 final size:1
Alignment explanation
Indices: 7015--7069 Score: 56
Period size: 1 Copynumber: 55.0 Consensus size: 1
7005 CCTTCTCTTC
** * * * *
7015 AAAAAAAAAAAGCAAAAAAAAAAAAAACAAAACAAAGAAAAAGAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
7070 TCTGCTTAAG
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 43 1.00
ACGTcount: A:0.89, C:0.05, G:0.05, T:0.00
Consensus pattern (1 bp):
A
Found at i:7035 original size:15 final size:15
Alignment explanation
Indices: 7015--7069 Score: 76
Period size: 15 Copynumber: 3.7 Consensus size: 15
7005 CCTTCTCTTC
7015 AAAAAAAAAAAGCAA
1 AAAAAAAAAAAGCAA
*
7030 AAAAAAAAAAAACAA
1 AAAAAAAAAAAGCAA
*
7045 AACAAAGAAAAAG-AA
1 AA-AAAAAAAAAGCAA
7060 AAAAAAAAAA
1 AAAAAAAAAA
7070 TCTGCTTAAG
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
14 7 0.20
15 20 0.57
16 8 0.23
ACGTcount: A:0.89, C:0.05, G:0.05, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAAGCAA
Found at i:8115 original size:55 final size:54
Alignment explanation
Indices: 8032--8616 Score: 742
Period size: 55 Copynumber: 10.4 Consensus size: 54
8022 CTCCTTCCGC
*
8032 TTTTCAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
*
8086 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACATAAGTTGGTGGCA
1 TTTT-CAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
8141 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTT-CAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
8196 TTTTCCAATCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCA
1 TTTT-CAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
8251 TTTTTTAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
1 -TTTTCAGTCCTCAAAGAGCAGGA--C----ACCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
8312 CCTTTCAGTCCTCAAAAAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
1 -TTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
8367 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCA
1 TTTT-CAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
8422 TTTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
1 -TTTTCAGTCCTCAAAGAGCAGGA--C----ACCTTTCAAAGCCCACACAAGTTGGTGGCA
*
8483 CCTTTT-AGTCCCCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCA
1 --TTTTCAGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA
* * *
8538 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCA
1 -TTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * *
8593 CTTTTTACTCCTCAATGAGAAGGA
1 -TTTTCAGTCCTCAAAGAGCAGGA
8617 TACACTTTAT
Statistics
Matches: 472, Mismatches: 39, Indels: 39
0.86 0.07 0.07
Matches are distributed among these distances:
54 13 0.03
55 352 0.75
56 10 0.02
57 2 0.00
59 2 0.00
61 89 0.19
62 4 0.01
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (54 bp):
TTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:8117 original size:27 final size:27
Alignment explanation
Indices: 8087--8172 Score: 68
Period size: 27 Copynumber: 3.1 Consensus size: 27
8077 TTGGTGGCAT
8087 TTTCCAGTCCTCAAAGAGCAGGACACC
1 TTTCCAGTCCTCAAAGAGCAGGACACC
* * * * ** *
8114 TTTCAAAGCCCACATAAGTTGGTGG-CA-T
1 TTTC-CAGTCCTCA-AAG-AGCAGGACACC
8142 TTTCCAGTCCTCAAAGAGCAGGACACC
1 TTTCCAGTCCTCAAAGAGCAGGACACC
8169 TTTC
1 TTTC
8173 AAAGCCCACA
Statistics
Matches: 40, Mismatches: 14, Indels: 10
0.62 0.22 0.16
Matches are distributed among these distances:
25 3 0.08
26 5 0.12
27 14 0.35
28 10 0.25
29 5 0.12
30 3 0.08
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (27 bp):
TTTCCAGTCCTCAAAGAGCAGGACACC
Found at i:8354 original size:171 final size:171
Alignment explanation
Indices: 8032--8617 Score: 872
Period size: 171 Copynumber: 3.5 Consensus size: 171
8022 CTCCTTCCGC
* * *
8032 TTTT-CAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTC
1 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAGGTTGGTGGCATTTTTCAGTC
* * * *
8096 CTCAAAGAGCAGGA--C----ACCTTTCAAAGCCCACATAAGTTGGTGGCA-TTTTCCAGTCCTC
66 CTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTC
8154 AAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
130 AAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
8196 TTTTCCAATCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCATTTTTTAGTC
1 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAGGTTGGTGGCATTTTTCAGTC
8261 CTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCA
66 CTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCA
*
8326 AAAAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
131 AAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
*
8367 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCATTTTTCAGTC
1 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAGGTTGGTGGCATTTTTCAGTC
* *
8432 CTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCCCA
66 CTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCA
8497 AAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCA
131 AAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA
* *
8538 CCTTT-CAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACAC-GAGTTGGTGGCACTTTTT-A
1 -TTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAG-GTTGGTGGCA-TTTTTCA
* * *
8600 CTCCTCAATGAGAAGGAT
63 GTCCTCAAAGAGCAGGAT
8618 ACACTTTATT
Statistics
Matches: 388, Mismatches: 22, Indels: 17
0.91 0.05 0.04
Matches are distributed among these distances:
164 4 0.01
165 68 0.18
167 1 0.00
170 1 0.00
171 301 0.78
172 13 0.03
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (171 bp):
TTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAGGTTGGTGGCATTTTTCAGTC
CTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCA
AAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:8607 original size:226 final size:220
Alignment explanation
Indices: 8031--8597 Score: 823
Period size: 226 Copynumber: 2.5 Consensus size: 220
8021 TCTCCTTCCG
*
8031 CTTTTCAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGT
1 CTTTT-AGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-CAGT
*
8095 CCTCAAAGAGCAGGACACCTTTCAAAGCCCACATAAGTTGGTGGCATTTTCCAGTCCTCAAAGAG
64 CCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAG
8160 CAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTCAAAGAGCAGGACACCT
129 CAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTCAAAGAGCAGGACACCT
* *
8225 TTTAAAGCCCACACAGGTTGGTGGCAT
194 TTTAAAGCCCACACAAGTTGGTGGCAC
* * * *
8252 TTTTTAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTT
1 CTTTTAGTCCCCAAAGAGCAGGA--C----ACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTT
*
8317 CAGTCCTCAAAAAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAA
60 CAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAA
* * * *
8382 AGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGAT
125 AGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTCAAAGAGCAGGA-
**
8447 GCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCAC
189 -C---ACCTTTT-AAAGCCCACACAAGTTGGTGGCAC
8484 CTTTTAGTCCCCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
1 CTTTTAGTCCCCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
* *
8548 CTCAAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCACTTTT
65 CTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTT
8598 TACTCCTCAA
Statistics
Matches: 309, Mismatches: 22, Indels: 24
0.87 0.06 0.07
Matches are distributed among these distances:
220 17 0.06
221 4 0.01
222 1 0.00
226 228 0.74
227 9 0.03
228 1 0.00
230 1 0.00
231 5 0.02
232 43 0.14
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.25
Consensus pattern (220 bp):
CTTTTAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCC
TCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCA
GGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTCAAAGAGCAGGACACCTTT
TAAAGCCCACACAAGTTGGTGGCAC
Found at i:10006 original size:13 final size:13
Alignment explanation
Indices: 9988--10013 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9978 ATAATCACCT
9988 TGTATCGATACAA
1 TGTATCGATACAA
10001 TGTATCGATACAA
1 TGTATCGATACAA
10014 AGAAAAATGT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:11729 original size:19 final size:19
Alignment explanation
Indices: 11705--11772 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
11695 AATTCAACGA
11705 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
11724 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
11739 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
11756 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
11773 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:11743 original size:32 final size:32
Alignment explanation
Indices: 11707--11769 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
11697 TTCAACGATT
*
11707 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
11739 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
11770 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:11744 original size:13 final size:13
Alignment explanation
Indices: 11726--11750 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11716 ACATAAGTTT
11726 TGTATCGATACAA
1 TGTATCGATACAA
11739 TGTATCGATACA
1 TGTATCGATACA
11751 TAAGTATTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:11830 original size:13 final size:13
Alignment explanation
Indices: 11812--11837 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11802 CATTTTTCTG
11812 TGTATCGATACAT
1 TGTATCGATACAT
11825 TGTATCGATACAT
1 TGTATCGATACAT
11838 GGATCTTTGT
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:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:11834 original size:33 final size:33
Alignment explanation
Indices: 11792--11858 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
11782 GCCAAGGAAA
***
11792 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
11825 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
11858 T
1 T
11859 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:14383 original size:28 final size:27
Alignment explanation
Indices: 14316--14388 Score: 92
Period size: 27 Copynumber: 2.7 Consensus size: 27
14306 CTTCACAATC
**
14316 GGGGATACTCCAACCCCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCAGA
* *
14343 GGGGATACTCCAACCCCGTTACTTCCGA
1 GGGGATACTCCAACCCCGTTA-ATCAGA
*
14371 GGGGATACTCCAATCCCG
1 GGGGATACTCCAACCCCG
14389 ATTTTTTTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
27 21 0.52
28 19 0.47
ACGTcount: A:0.23, C:0.34, G:0.22, T:0.21
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCAGA
Found at i:16151 original size:15 final size:15
Alignment explanation
Indices: 16131--16161 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
16121 ATTTCGTTTG
*
16131 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
16146 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
16161 G
1 G
16162 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:17994 original size:21 final size:21
Alignment explanation
Indices: 17965--18009 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
17955 AAGTTTTCAT
*
17965 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
17985 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
18007 TTT
1 TTT
18010 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:20243 original size:13 final size:13
Alignment explanation
Indices: 20225--20250 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
20215 CAATTTTTTG
20225 TGTATCGATACAT
1 TGTATCGATACAT
20238 TGTATCGATACAT
1 TGTATCGATACAT
20251 ACTTGCTGTA
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:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:23187 original size:130 final size:130
Alignment explanation
Indices: 23025--23536 Score: 461
Period size: 130 Copynumber: 3.9 Consensus size: 130
23015 ACAACGAGGG
* * * * * *
23025 TGGAGTATCCCTGATTATAGAAAATTGGTATTTTGAAAAGAAAATCAGGGTTGGAGTATCCCCTC
1 TGGAGTATCCCCGATTGTGGAAAATTGATATTTTGAAAATAAAATCGGGGTTGGAGTATCCCCT-
* **
23090 GA-AAATAACGGGGTTAGAGTATCTCCGATTGTGAAAAATCGATGCTTTAGAAATAAGGCCTAG-
65 GAGAAATAACGGGGTTAGAGTATCCCCGATTGTGAAAAATCGATGCTTTAGAAATAA-AACTAGA
23153 GT
129 GT
* *
23155 TGGAGTATCCCCGATTGT-GAGAAA-TGAATATTTTGGAAATAAAGTCGGGGTTGGAGTAT-CCC
1 TGGAGTATCCCCGATTGTGGA-AAATTG-ATATTTTGAAAATAAAATCGGGGTTGGAGTATCCCC
* * * * *
23217 TGATGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTGGAAATAAAATTAG
64 TGA-GAAATAACGGGGTTAGAGTATCCCCGATTGTGAAAAATCGATGCTTTAGAAATAAAACTAG
23282 AGT
128 AGT
*
23285 TGGAGTATCCCCGATTGTGGAAAATTGATATTTT-AGAAATAAAATTGGGGTTGGAGTATCCCCT
1 TGGAGTATCCCCGATTGTGGAAAATTGATATTTTGA-AAATAAAATCGGGGTTGGAGTATCCCCT
* * * * * **
23349 TAGAAATAACAGGGTTAGAGTATCCCCGA-TGATGGAAAATCGGTG-TTTTGAAAATAAAACCGG
65 GAGAAATAACGGGGTTAGAGTATCCCCGATTG-TGAAAAATCGATGCTTTAG-AAATAAAACTAG
*
23412 GGT
128 AGT
* ** *** * * ** **
23415 TGGAGTA-CTCTAATTGCAAAAAATTGATGTTTT-AGAAATAAAACCGACGTTGGAGTATCCTTT
1 TGGAGTATCCCCGATTGTGGAAAATTGATATTTTGA-AAATAAAATCGGGGTTGGAGTATCCCCT
* * * * * * *
23478 CG-GAAATAATGGGGTTGGAGTATCCCCGATTGTAAAAAATTGGTGTTTTGGAAATAAAA
65 -GAGAAATAACGGGGTTAGAGTATCCCCGATTGTGAAAAATCGATGCTTTAGAAATAAAA
23537 ACATGAATGA
Statistics
Matches: 318, Mismatches: 50, Indels: 29
0.80 0.13 0.07
Matches are distributed among these distances:
128 2 0.01
129 102 0.32
130 205 0.64
131 9 0.03
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (130 bp):
TGGAGTATCCCCGATTGTGGAAAATTGATATTTTGAAAATAAAATCGGGGTTGGAGTATCCCCTG
AGAAATAACGGGGTTAGAGTATCCCCGATTGTGAAAAATCGATGCTTTAGAAATAAAACTAGAGT
Found at i:23194 original size:51 final size:51
Alignment explanation
Indices: 23101--23216 Score: 126
Period size: 51 Copynumber: 2.3 Consensus size: 51
23091 AAAATAACGG
* * * * *
23101 GGTTAGAGTATCTCCGATTGTGAAAAATCGATGCTTTAGAAATAAGGCCTA
1 GGTTGGAGTATCCCCGATTGTGAAAAATCGATACTTTAGAAATAAAGCCGA
* * * * *
23152 GGTTGGAGTATCCCCGATTGTGAGAAAT-GAATATTTTGGAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTGTGAAAAATCG-ATACTTTAGAAATAAAGCCGA
23203 GGTTGGAGTATCCC
1 GGTTGGAGTATCCC
23217 TGATGAAATA
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
50 1 0.02
51 53 0.98
ACGTcount: A:0.30, C:0.13, G:0.28, T:0.29
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTGTGAAAAATCGATACTTTAGAAATAAAGCCGA
Found at i:23294 original size:51 final size:51
Alignment explanation
Indices: 23232--23347 Score: 187
Period size: 51 Copynumber: 2.3 Consensus size: 51
23222 AAATAACGGG
* *
23232 GTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTGGAAATAAAATTAGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTGATATTTTAGAAATAAAATTAGA
* * *
23283 GTTGGAGTATCCCCGATTGTGGAAAATTGATATTTTAGAAATAAAATTGGG
1 GTTGGAGTATCCCCGATTGTGAAAAATTGATATTTTAGAAATAAAATTAGA
23334 GTTGGAGTATCCCC
1 GTTGGAGTATCCCC
23348 TTAGAAATAA
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.32, C:0.10, G:0.25, T:0.33
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTGATATTTTAGAAATAAAATTAGA
Found at i:25943 original size:20 final size:20
Alignment explanation
Indices: 25918--25968 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
25908 AACCCAGAAA
*
25918 GTATCGATATAATGAACAAT
1 GTATCGATACAATGAACAAT
*
25938 GTATCGATACAATGAATAAT
1 GTATCGATACAATGAACAAT
25958 GTATCGATACA
1 GTATCGATACA
25969 TCTAGGTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.43, C:0.12, G:0.16, T:0.29
Consensus pattern (20 bp):
GTATCGATACAATGAACAAT
Found at i:26002 original size:70 final size:70
Alignment explanation
Indices: 25885--26019 Score: 218
Period size: 70 Copynumber: 1.9 Consensus size: 70
25875 AAAATGCCTG
* *
25885 AATGTATCGATACATTCTGGGTAAACCCAGAAAGTATCGATATAATGAACAATGTATCGATACAA
1 AATGTATCGATACATTCTAGGTAAACCCAGAAAGTATCGATACAATGAACAATGTATCGATACAA
25950 TGAAT
66 TGAAT
* *
25955 AATGTATCGATACA-TCTAGGTAAAACCCAGAATGTATCGATACAATGAACAATGTATCTATACA
1 AATGTATCGATACATTCTAGGT-AAACCCAGAAAGTATCGATACAATGAACAATGTATCGATACA
26019 A
65 A
26020 ATTGTGAAAA
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
69 6 0.10
70 54 0.90
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.27
Consensus pattern (70 bp):
AATGTATCGATACATTCTAGGTAAACCCAGAAAGTATCGATACAATGAACAATGTATCGATACAA
TGAAT
Found at i:26627 original size:40 final size:40
Alignment explanation
Indices: 26583--26852 Score: 151
Period size: 41 Copynumber: 6.6 Consensus size: 40
26573 GTCCTACTTT
* *
26583 TTGAGGACAAAGG-AAAAGAGAATGAAATAG-GTCTTGCTCC
1 TTGAGGACAAAGGAAAAAGA-AAAGAAA-AGTGTCCTGCTCC
* *
26623 TTGAGGACAAAGGAAGAAAGAAAAGGAAAGTGTCCTGCTTC
1 TTGAGGACAAAGGAA-AAAGAAAAGAAAAGTGTCCTGCTCC
* * * **
26664 TTGAGGACAAAGTGAAAAAG---AG--TA-CGTCCTGTTTT
1 TTGAGGACAAAG-GAAAAAGAAAAGAAAAGTGTCCTGCTCC
* * * * *
26699 TTTAGGACAAAGGAAAAAAAGAAAACGAAATGCGTCTTGCTCT
1 TTGAGGACAAAGG--AAAAAGAAAA-GAAAAGTGTCCTGCTCC
* * *
26742 TTGAGGACAAAAGAAAAAGGAAAATAAAACGTGTCCTGCTCT
1 TTGAGGACAAAGGAAAAA-GAAAAGAAAA-GTGTCCTGCTCC
* ** * *
26784 TTGAGGACAAAAGGGAAAAGAAGGGAATGAAGTGTGTCTTGCTCT
1 TTGAGGAC-AAAGGAAAAAGAA---AA-GAAAAGTGTCCTGCTCC
26829 TTGAGGACAAAGGAGAAAAGAAAA
1 TTGAGGACAAAGGA-AAAAGAAAA
26853 AGGCGTCCTG
Statistics
Matches: 182, Mismatches: 27, Indels: 40
0.73 0.11 0.16
Matches are distributed among these distances:
34 1 0.01
35 19 0.10
36 7 0.04
38 2 0.01
39 1 0.01
40 16 0.09
41 38 0.21
42 36 0.20
43 27 0.15
44 5 0.03
45 28 0.15
46 2 0.01
ACGTcount: A:0.42, C:0.11, G:0.27, T:0.20
Consensus pattern (40 bp):
TTGAGGACAAAGGAAAAAGAAAAGAAAAGTGTCCTGCTCC
Found at i:26684 original size:41 final size:40
Alignment explanation
Indices: 26571--26852 Score: 136
Period size: 42 Copynumber: 6.9 Consensus size: 40
26561 AATGGAAGGG
* * * *
26571 GTGTCCTACTTTTTGAGGACAAAGG-AAAAGAGAATGAAA
1 GTGTCCTGCTTCTTGAGGACAAAGGAAAAAGAAAAGGAAA
* *
26610 -TAGGTCTTGCTCCTTGAGGACAAAGGAAGAAAGAAAAGGAAA
1 GT--GTCCTGCTTCTTGAGGACAAAGGAA-AAAGAAAAGGAAA
*
26652 GTGTCCTGCTTCTTGAGGACAAAGTGAAAAAG---A-G-TA
1 GTGTCCTGCTTCTTGAGGACAAAG-GAAAAAGAAAAGGAAA
* * * * *
26688 -CGTCCTGTTTTTTTAGGACAAAGGAAAAAAAGAAAACGAAA
1 GTGTCCTGCTTCTTGAGGACAAAGG--AAAAAGAAAAGGAAA
* * * **
26729 TGCGTCTTGC-TCTTTGAGGACAAAAGAAAAAGGAAAATAAAA
1 -GTGTCCTGCTTC-TTGAGGACAAAGGAAAAA-GAAAAGGAAA
* * *
26771 CGTGTCCTGC-TCTTTGAGGACAAAAGGGAAAAGAAGGGAATGAAGT
1 -GTGTCCTGCTTC-TTGAGGAC-AAAGGAAAAAGAA---AAGGAA-A
*
26817 GTGTCTTGC-TCTTTGAGGACAAAGGAGAAAAGAAAA
1 GTGTCCTGCTTC-TTGAGGACAAAGGA-AAAAGAAAA
26853 AGGCGTCCTG
Statistics
Matches: 190, Mismatches: 30, Indels: 43
0.72 0.11 0.16
Matches are distributed among these distances:
34 1 0.01
35 19 0.10
36 7 0.04
37 1 0.01
38 2 0.01
39 1 0.01
40 20 0.11
41 31 0.16
42 46 0.24
43 26 0.14
44 5 0.03
45 31 0.16
ACGTcount: A:0.40, C:0.12, G:0.26, T:0.21
Consensus pattern (40 bp):
GTGTCCTGCTTCTTGAGGACAAAGGAAAAAGAAAAGGAAA
Found at i:26836 original size:45 final size:46
Alignment explanation
Indices: 26732--26850 Score: 142
Period size: 45 Copynumber: 2.7 Consensus size: 46
26722 AACGAAATGC
26732 GTCTTGCTCTTTGAGGACAAAA--G-AAA-AAGGAAAATAAAACGT
1 GTCTTGCTCTTTGAGGACAAAAGGGAAAAGAAGGAAAATAAAACGT
* * * **
26774 GTCCTGCTCTTTGAGGACAAAAGGGAAAAGAAGG-GAATGAAGTGT
1 GTCTTGCTCTTTGAGGACAAAAGGGAAAAGAAGGAAAATAAAACGT
26819 GTCTTGCTCTTTGAGGAC-AAAGGAGAAAAGAA
1 GTCTTGCTCTTTGAGGACAAAAGG-GAAAAGAA
26851 AAAGGCGTCC
Statistics
Matches: 66, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
42 21 0.32
44 6 0.09
45 35 0.53
46 4 0.06
ACGTcount: A:0.39, C:0.12, G:0.28, T:0.21
Consensus pattern (46 bp):
GTCTTGCTCTTTGAGGACAAAAGGGAAAAGAAGGAAAATAAAACGT
Found at i:26923 original size:61 final size:60
Alignment explanation
Indices: 26844--27209 Score: 399
Period size: 61 Copynumber: 6.1 Consensus size: 60
26834 GACAAAGGAG
* *
26844 AAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTT
1 AAAAG-AAAAGGCATCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT
* * ** *
26905 GAAAAGAAAAGGCATCCTGCTTTTTGAGAACTGGAAGGTGCCACCAACTTGTGTGGGCTTT
1 -AAAAGAAAAGGCATCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT
* * * * * *
26966 GCAAAGAGAAA-GCATCCTACTCTTTGAGGACTAAAAGGTGCCACCAATTTGAGTGGTCTTT
1 -AAAAGA-AAAGGCATCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT
* * *
27027 AAAAGGAGGAA-GCATCCTGCTCTTTGAGGACTAGAAAA-CGCCACTAACTTGTGTGGGCTTT
1 AAAA-GA-AAAGGCATCCTGCTCTTTGAGGACTA-AAAAGTGCCACCAACTTGTGTGGGCTTT
* *
27088 ----G-AAAGGCATCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGATTT
1 AAAAGAAAAGGCATCCTGCTCTTTGAGGACT-AAAAAGTGCCACCAACTTGTGTGGGCTTT
* *
27143 AAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTACCACCAACTTGTGTGGGCTTT
1 AAAA-GAAAAGGCATCCTGCTCTTTGAGGACTA-AAAAGTGCCACCAACTTGTGTGGGCTTT
27205 AAAAG
1 AAAAG
27210 GCGTCTTGCT
Statistics
Matches: 257, Mismatches: 34, Indels: 27
0.81 0.11 0.08
Matches are distributed among these distances:
54 2 0.01
55 45 0.18
56 1 0.00
60 4 0.02
61 169 0.66
62 36 0.14
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (60 bp):
AAAAGAAAAGGCATCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT
Found at i:26998 original size:122 final size:116
Alignment explanation
Indices: 26851--27233 Score: 448
Period size: 122 Copynumber: 3.2 Consensus size: 116
26841 GAGAAAAGAA
* *
26851 AAAGGCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAA-GAAAA
1 AAAGGCATCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAA
* * *
26915 GGCATCCTGCTTTTTGAGAACTGGAAGGTGCCACCAACTTGTGTGGGCTTTG
65 GGCATCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTG
* * * * *
26967 CAAAGAGAAAGCATCCTACTCTTTGAGGACTAAAAGGTGCCACCAATTTGAGTGGTCTTTAAAAG
1 --AA-AG---GCATCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
* * ** *
27032 GAGGAA-GCATCCTGCTCTTTGAGGACTAGAAAACGCCACTAACTTGTGTGGGCTTTG
60 GA-AAAGGCATCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTG
* *
27089 AAAGGCATCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGATTTAAAAGGAAAA
1 AAAGGCATCCTGCTCTTTGAGGACT-AAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAA
* * * *
27153 GGCGTCCTGCTCTTTGAGGACTAGAAAAGTACCACCAACTTGTGTGGGCTTTA
65 GGCATCCTGCTCTTTGAGGACT-GGAAAGTGCCACCAACTTGTGTGGGCTTTG
* *
27206 AAAGGCGTCTTGCTCTTTGAGGACTAAA
1 AAAGGCATCCTGCTCTTTGAGGACTAAA
27234 GGGCGAAAGG
Statistics
Matches: 222, Mismatches: 34, Indels: 20
0.80 0.12 0.07
Matches are distributed among these distances:
115 2 0.01
116 68 0.31
117 49 0.22
118 2 0.01
119 4 0.02
120 2 0.01
121 4 0.02
122 89 0.40
123 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (116 bp):
AAAGGCATCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
GCATCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTG
Found at i:27125 original size:55 final size:55
Alignment explanation
Indices: 27038--27231 Score: 244
Period size: 55 Copynumber: 3.4 Consensus size: 55
27028 AAAGGAGGAA
* *
27038 GCATCCTGCTCTTTGAGGACTAGAAAACGCCACTAACTTGTGTGGGCTTTGAAAG
1 GCATCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAG
* *
27093 GCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGATTTAAAAGGAAAAG
1 GCATCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTT-----G-AAAG
* * *
27154 GCGTCCTGCTCTTTGAGGACTAGAAAAGTACCACCAACTTGTGTGGGCTTTAAAAG
1 GCATCCTGCTCTTTGAGGACTAGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAG
* *
27210 GCGTCTTGCTCTTTGAGGACTA
1 GCATCCTGCTCTTTGAGGACTA
27232 AAGGGCGAAA
Statistics
Matches: 122, Mismatches: 10, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
55 46 0.38
56 25 0.20
60 1 0.01
61 29 0.24
62 21 0.17
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (55 bp):
GCATCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAG
Found at i:27341 original size:55 final size:55
Alignment explanation
Indices: 27273--27437 Score: 240
Period size: 55 Copynumber: 3.0 Consensus size: 55
27263 GAGGACTGGG
* * * *
27273 AAATGCCACCAACTTGTGTGGGCTTTGAATGGCATCTTGCTCTTTGAGGAGTAAA
1 AAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGAATAAA
* *
27328 AAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGAA
1 AAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGAATAAA
** * *
27383 AGGTGACACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTTTTTGAGGAATAAA
1 AAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGAATAAA
27438 GAGTGAAAGG
Statistics
Matches: 99, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
55 99 1.00
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (55 bp):
AAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGAATAAA
Found at i:27371 original size:149 final size:153
Alignment explanation
Indices: 27101--27385 Score: 416
Period size: 149 Copynumber: 1.9 Consensus size: 153
27091 AGGCATCCTG
*
27101 CTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGATTTAAAAGGAAAAGGCGTCCTGCTCT
1 CTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGATTT---A-GAAAAGGCATCCTGCTCT
* *
27166 TTGAGGACTAGAAAAGTACCACCAACTTGTGTGGGCTTTAAAAGGCGTCTTGCTCTTTGAGGACT
62 TTGAGGACTAGAAAAATACCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACT
27231 -AAAGGGCGAAAGGAGAGAGTGTCTTA
127 GAAAGGGCGAAAGGAGAGAGTGTCTTA
* * * *
27257 CTCTTTGAGGACTGGGAAATGCCACCAACTTGTGTGGGCTTT-G-AATGGCATCTTGCTCTTTGA
1 CTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGATTTAGAAAAGGCATCCTGCTCTTTGA
* * *
27320 GGAGTA-AAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGAAA
66 GGACTAGAAAAATACCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTGAAA
27384 GG
131 GG
27386 TGACACCAAC
Statistics
Matches: 118, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
149 50 0.42
150 27 0.23
151 1 0.01
156 40 0.34
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.27
Consensus pattern (153 bp):
CTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGATTTAGAAAAGGCATCCTGCTCTTTGA
GGACTAGAAAAATACCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTGAAA
GGGCGAAAGGAGAGAGTGTCTTA
Found at i:28525 original size:1 final size:1
Alignment explanation
Indices: 28509--28582 Score: 58
Period size: 1 Copynumber: 74.0 Consensus size: 1
28499 AAGTAGGCTC
* * * * * ** * *
28509 TTTTCTTTTCTTTTTTTTTTCTTTCTTTGTTTTTTTTCGTTTTTTTTTTGTTTTTTTTGTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
28574 TGTTTTTTT
1 TTTTTTTTT
28583 ATAAAAAATG
Statistics
Matches: 54, Mismatches: 19, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 54 1.00
ACGTcount: A:0.00, C:0.07, G:0.07, T:0.86
Consensus pattern (1 bp):
T
Found at i:28552 original size:29 final size:27
Alignment explanation
Indices: 28509--28582 Score: 87
Period size: 28 Copynumber: 2.7 Consensus size: 27
28499 AAGTAGGCTC
*
28509 TTTTCTTTTC-TTTTTTTTTTCTTTCTT
1 TTTTTTTTTCGTTTTTTTTTTCTTT-TT
*
28536 TGTTTTTTTTCGTTTTTTTTTTGTTTTT
1 T-TTTTTTTTCGTTTTTTTTTTCTTTTT
*
28564 TTTGTTTTTTTGTTTTTTT
1 TTT-TTTTTTCGTTTTTTT
28583 ATAAAAAATG
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
27 3 0.07
28 25 0.61
29 13 0.32
ACGTcount: A:0.00, C:0.07, G:0.07, T:0.86
Consensus pattern (27 bp):
TTTTTTTTTCGTTTTTTTTTTCTTTTT
Found at i:28555 original size:30 final size:28
Alignment explanation
Indices: 28514--28582 Score: 86
Period size: 29 Copynumber: 2.4 Consensus size: 28
28504 GGCTCTTTTC
* *
28514 TTTTCTTTTTTTTTT-CTTTCTTTGTTTT
1 TTTTGTTTTTTTTTTGTTTTCTTTG-TTT
*
28542 TTTTCGTTTTTTTTTTGTTTTTTTTGTTT
1 TTTT-GTTTTTTTTTTGTTTTCTTTGTTT
28571 TTTTGTTTTTTT
1 TTTTGTTTTTTT
28583 ATAAAAAATG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
28 12 0.33
29 17 0.47
30 7 0.19
ACGTcount: A:0.00, C:0.06, G:0.07, T:0.87
Consensus pattern (28 bp):
TTTTGTTTTTTTTTTGTTTTCTTTGTTT
Found at i:28570 original size:20 final size:20
Alignment explanation
Indices: 28509--28574 Score: 80
Period size: 21 Copynumber: 3.3 Consensus size: 20
28499 AAGTAGGCTC
* *
28509 TTTTCTTTTCTTTTTTTT-T
1 TTTTTTTTTGTTTTTTTTGT
* *
28528 TCTTTCTTTGTTTTTTTTCGT
1 TTTTTTTTTGTTTTTTTT-GT
28549 TTTTTTTTTGTTTTTTTTGT
1 TTTTTTTTTGTTTTTTTTGT
28569 TTTTTT
1 TTTTTT
28575 GTTTTTTTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
19 14 0.36
20 8 0.21
21 17 0.44
ACGTcount: A:0.00, C:0.08, G:0.06, T:0.86
Consensus pattern (20 bp):
TTTTTTTTTGTTTTTTTTGT
Found at i:28575 original size:17 final size:17
Alignment explanation
Indices: 28521--28582 Score: 70
Period size: 17 Copynumber: 3.4 Consensus size: 17
28511 TTCTTTTCTT
* *
28521 TTTTTTTTCTTTCTTTG
1 TTTTTTTTGTTTTTTTG
28538 TTTTTTTTCGTTTTTTTTTTG
1 TTTTTTTT-G---TTTTTTTG
28559 TTTTTTTTGTTTTTTTG
1 TTTTTTTTGTTTTTTTG
28576 TTTTTTT
1 TTTTTTT
28583 ATAAAAAATG
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
17 23 0.59
20 1 0.03
21 15 0.38
ACGTcount: A:0.00, C:0.05, G:0.08, T:0.87
Consensus pattern (17 bp):
TTTTTTTTGTTTTTTTG
Found at i:35137 original size:61 final size:61
Alignment explanation
Indices: 35021--35138 Score: 141
Period size: 61 Copynumber: 1.9 Consensus size: 61
35011 AGTAAAAACA
** * * *
35021 GGGTTGGAGTATCCTTTCAAAAATGATTGGGTTGGAATATTCCCGACGGTGAAAAATCGAT
1 GGGTTGGAGTATCCCCTCAAAAATGATGGGGTTGGAATATTCCCAACGGTAAAAAATCGAT
* *
35082 GGGTTGGAGTATCCCCT-AAGAAATGATGGGGTTGGAGTA-TCTCCAATGGTAAAAAAT
1 GGGTTGGAGTATCCCCTCAA-AAATGATGGGGTTGGAATATTC-CCAACGGTAAAAAAT
35139 AATATTTTGG
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
60 4 0.08
61 44 0.92
ACGTcount: A:0.31, C:0.13, G:0.29, T:0.28
Consensus pattern (61 bp):
GGGTTGGAGTATCCCCTCAAAAATGATGGGGTTGGAATATTCCCAACGGTAAAAAATCGAT
Found at i:37686 original size:51 final size:52
Alignment explanation
Indices: 37570--37708 Score: 226
Period size: 51 Copynumber: 2.7 Consensus size: 52
37560 AATAGCTTGC
* * * *
37570 ATGTATCAATACATTGAAAAATGTATTGATACATTTAGGTCAAAAACCCAGA
1 ATGTATCGATACAATGAAAAATGTATCGATACATTTAGGACAAAAACCCAGA
*
37622 ATGTATCGATACAATGAAAAATGTATCGATACATTT-GGACTAAAACCCAGA
1 ATGTATCGATACAATGAAAAATGTATCGATACATTTAGGACAAAAACCCAGA
37673 ATGTATCGATACAATGAAAAATGTATCGATACATTT
1 ATGTATCGATACAATGAAAAATGTATCGATACATTT
37709 TCTTTCCAAA
Statistics
Matches: 82, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
51 49 0.60
52 33 0.40
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (52 bp):
ATGTATCGATACAATGAAAAATGTATCGATACATTTAGGACAAAAACCCAGA
Found at i:37788 original size:20 final size:20
Alignment explanation
Indices: 37745--37818 Score: 94
Period size: 21 Copynumber: 3.6 Consensus size: 20
37735 GACATGGTCC
***
37745 TGTATCGATACATTTCAGACA
1 TGTATCGATACA-TTCACTTA
37766 TGTATCGATACATTCACTTA
1 TGTATCGATACATTCACTTA
*
37786 TGTATCGATACATTCACTATT
1 TGTATCGATACATTCACT-TA
37807 TGTATCGATACA
1 TGTATCGATACA
37819 AATTGTAGAA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
20 23 0.48
21 25 0.52
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (20 bp):
TGTATCGATACATTCACTTA
Found at i:38374 original size:13 final size:13
Alignment explanation
Indices: 38356--38380 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38346 CATAAAGTGT
38356 TGTATCGATACAA
1 TGTATCGATACAA
38369 TGTATCGATACA
1 TGTATCGATACA
38381 TATTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:38378 original size:33 final size:33
Alignment explanation
Indices: 38336--38402 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
38326 TTCAACGATT
38336 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
38369 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
38402 T
1 T
38403 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:38442 original size:13 final size:13
Alignment explanation
Indices: 38424--38448 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38414 CCAAAAAAAA
38424 TGTATCGATACAT
1 TGTATCGATACAT
38437 TGTATCGATACA
1 TGTATCGATACA
38449 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:38515 original size:52 final size:52
Alignment explanation
Indices: 38457--38585 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
38447 CACTGATCTT
*
38457 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
38509 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
38561 TGTATCGATACATGCAGGTAAATTT
1 TGTATCGATACATGCAGGCAAATTT
38586 TCATATTTCG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:42011 original size:16 final size:17
Alignment explanation
Indices: 41992--42023 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
41982 TGAAATTTTT
41992 TAAAATAA-AAATAAAA
1 TAAAATAATAAATAAAA
42008 TAAAATAATAAATAAA
1 TAAAATAATAAATAAA
42024 TATGACTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (17 bp):
TAAAATAATAAATAAAA
Found at i:44634 original size:20 final size:19
Alignment explanation
Indices: 44585--44634 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
44575 CTTTTCAAGG
*
44585 TGTATCGATACTATGAACA
1 TGTATCGATACTAAGAACA
* * *
44604 TATATCAATACTAAGCAATA
1 TGTATCGATACTAAG-AACA
44624 TGTATCGATAC
1 TGTATCGATAC
44635 ATCTGGGTGT
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
19 12 0.50
20 12 0.50
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.32
Consensus pattern (19 bp):
TGTATCGATACTAAGAACA
Found at i:45517 original size:17 final size:17
Alignment explanation
Indices: 45495--45527 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
45485 TTCATGTAGA
*
45495 ATATATTGCATTCATGT
1 ATATATTGCAGTCATGT
45512 ATATATTGCAGTCATG
1 ATATATTGCAGTCATG
45528 CATAAGATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.30, C:0.12, G:0.15, T:0.42
Consensus pattern (17 bp):
ATATATTGCAGTCATGT
Found at i:54139 original size:51 final size:51
Alignment explanation
Indices: 54084--54206 Score: 140
Period size: 51 Copynumber: 2.4 Consensus size: 51
54074 GGTTCTATTA
* * * *
54084 GGCTTGACCTTTTTATATAGGTGGTAGCTAATGTGAAC-TTGAACTTTATAG
1 GGCTTGACCTCTTTATATAGGTGATAACTAATGTGAACTTTG-ACTCTATAG
** * * *
54135 GGCTTGACCTCCCTAAATAAGTGATAACTAGTGTGAACTTTGACTCTATAG
1 GGCTTGACCTCTTTATATAGGTGATAACTAATGTGAACTTTGACTCTATAG
*
54186 GGCCTGACCTCTTTATATAGG
1 GGCTTGACCTCTTTATATAGG
54207 AGCCAGCTAG
Statistics
Matches: 57, Mismatches: 14, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
51 54 0.95
52 3 0.05
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.35
Consensus pattern (51 bp):
GGCTTGACCTCTTTATATAGGTGATAACTAATGTGAACTTTGACTCTATAG
Found at i:55568 original size:51 final size:51
Alignment explanation
Indices: 55502--55620 Score: 166
Period size: 51 Copynumber: 2.3 Consensus size: 51
55492 TGAAAATAAT
* *
55502 GGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTAGAAATAAGGCC
1 GGGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTAGAAATAAAGCC
* ** * *
55553 GGGGTTGAAGTATCCCTGATTGTGAAAAATCAATATTTTGGAAATAAAGCC
1 GGGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTAGAAATAAAGCC
*
55604 AGGGTTGGAGTATCCCC
1 GGGGTTGGAGTATCCCC
55621 TCGGAAATAA
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 58 1.00
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (51 bp):
GGGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTAGAAATAAAGCC
Found at i:55599 original size:130 final size:130
Alignment explanation
Indices: 55366--55648 Score: 306
Period size: 130 Copynumber: 2.2 Consensus size: 130
55356 TTTTGGAGAT
* * * * **
55366 AATAACGGGGTTGGAGTATCCTCGATTGTGAAAAATTGATGATTTAGAAATAAGGCAAGGGTTGA
1 AATAATGGGGTTGGAGTATCCCCAATTATGAAAAATCAATGATTTAGAAATAAGGCAAGGGTTGA
* * **
55431 AGTGTCCCCGATTATAGAAAATAGATGTTTCAAAAATAAAATC-GAGATTGGAGTATCCCCGT-G
66 AGTATCCCCGATTATAGAAAATAGATATTTCAAAAATAAAGCCAG-GATTGGAGTATCCCC-TCG
55494 AA
129 AA
* **
55496 AATAATGGGGTTGGAGTATCCCCAATTATGAGAAATCAAT-ATTTTAGAAATAAGGCCGGGGTTG
1 AATAATGGGGTTGGAGTATCCCCAATTATGAAAAATCAATGA-TTTAGAAATAAGGCAAGGGTTG
* * *** *
55560 AAGTATCCCTGATTGT-GAAAAATCA-ATATTTTGGAAATAAAGCCAGGGTTGGAGTATCCCCTC
65 AAGTATCCCCGATTATAG-AAAAT-AGATATTTCAAAAATAAAGCCAGGATTGGAGTATCCCCTC
*
55623 GGA
128 GAA
55626 AATAATGGGGTTGGAGTATCCCC
1 AATAATGGGGTTGGAGTATCCCC
55649 TCGAAAATAA
Statistics
Matches: 128, Mismatches: 20, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
129 3 0.02
130 123 0.96
131 2 0.02
ACGTcount: A:0.35, C:0.13, G:0.25, T:0.27
Consensus pattern (130 bp):
AATAATGGGGTTGGAGTATCCCCAATTATGAAAAATCAATGATTTAGAAATAAGGCAAGGGTTGA
AGTATCCCCGATTATAGAAAATAGATATTTCAAAAATAAAGCCAGGATTGGAGTATCCCCTCGAA
Found at i:55640 original size:28 final size:28
Alignment explanation
Indices: 55603--55704 Score: 141
Period size: 28 Copynumber: 3.6 Consensus size: 28
55593 GAAATAAAGC
55603 CAGGGTTGGAGTATCCCCTCGGAAATAA
1 CAGGGTTGGAGTATCCCCTCGGAAATAA
** *
55631 TGGGGTTGGAGTATCCCCTCGAAAATAA
1 CAGGGTTGGAGTATCCCCTCGGAAATAA
***
55659 CAGGGTTGGAGTATCCCCGATGAAATAA
1 CAGGGTTGGAGTATCCCCTCGGAAATAA
*
55687 CAGGGCTGGAGTATCCCC
1 CAGGGTTGGAGTATCCCC
55705 GATTGTGAAA
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 64 1.00
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (28 bp):
CAGGGTTGGAGTATCCCCTCGGAAATAA
Found at i:55762 original size:186 final size:186
Alignment explanation
Indices: 55478--55834 Score: 430
Period size: 186 Copynumber: 1.9 Consensus size: 186
55468 AAAATCGAGA
** * *
55478 TTGGAGTATCCCCGTGAAAATAATGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTAG
1 TTGGAGTATCCCCGTGAAAATAACAGGGCTGGAGTATCCCCAATTATGAAAAATCAATATTTTAG
** * * * * *
55543 AAATAAGGCCGGGGTTGAAGTATCCCTGATTGTGAAAAATCAATATTTTGGAAATAAAGCCAGGG
66 AAATAAAACCAGAGTTGAAGTATCCCCGATTGTGAAAAATCAATATTTTAGAAATAAAACCAGGG
*
55608 TTGGAGTATCCCCTCGGAAATAATGGGGTTGGAGTATCCCCTCGAAAATAACAGGG
131 TTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCTCGAAAATAACAGGG
* * * * * *
55664 TTGGAGTATCCCCGATG-AAATAACAGGGCTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTG
1 TTGGAGTATCCCCG-TGAAAATAACAGGGCTGGAGTATCCCCAATTATGAAAAATCAATATTTTA
* * * *** * *
55728 GAAATAAAATCAGAGTTGGAA-TATCCCCGATTGTGGAGAATTGGTGTTTTAGAAATAAAACCGG
65 GAAATAAAACCAGAGTT-GAAGTATCCCCGATTGTGAAAAATCAATATTTTAGAAATAAAACCAG
* *
55792 GGTTGGAGTATCTCGTCGGAAATAACGGGGTTGGAGTATCCCC
129 GGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCC
55835 GATTATGAAA
Statistics
Matches: 141, Mismatches: 28, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
186 136 0.96
187 5 0.04
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (186 bp):
TTGGAGTATCCCCGTGAAAATAACAGGGCTGGAGTATCCCCAATTATGAAAAATCAATATTTTAG
AAATAAAACCAGAGTTGAAGTATCCCCGATTGTGAAAAATCAATATTTTAGAAATAAAACCAGGG
TTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCTCGAAAATAACAGGG
Found at i:55797 original size:51 final size:51
Alignment explanation
Indices: 55693--55803 Score: 150
Period size: 51 Copynumber: 2.2 Consensus size: 51
55683 ATAACAGGGC
* *
55693 TGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTGGAAATAAAATCAGAGT
1 TGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAACCAGAGT
* * * * * *
55744 TGGAATATCCCCGATTGTGGAGAATTGGTGTTTTAGAAATAAAACCGGGGT
1 TGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAACCAGAGT
55795 TGGAGTATC
1 TGGAGTATC
55804 TCGTCGGAAA
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.32, C:0.11, G:0.27, T:0.31
Consensus pattern (51 bp):
TGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAACCAGAGT
Found at i:55825 original size:79 final size:79
Alignment explanation
Indices: 55742--56000 Score: 335
Period size: 79 Copynumber: 3.3 Consensus size: 79
55732 TAAAATCAGA
* * * * * *
55742 GTTGGAATATCCCCGATTGTGGAGAATTGGTGTTTTAGAAATAAAACCGGGGTTGGAGTATCTCG
1 GTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
* *
55807 TCGGAAATAACGGG
66 TCGAAAATAACAGG
* * *
55821 GTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAATCGGGGTTGGAATATCCCC
1 GTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
* *
55886 CCAAAAATAACAGG
66 TCGAAAATAACAGG
* * *
55900 GTTGGAGTATCCCTGA---TGAAAAATTGATGTTTTAGAAATAAAACCGAGGTTGGAGTGTCCCC
1 GTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
55962 TCGAAAATAACAGG
66 TCGAAAATAACAGG
**
55976 GTTGGAGTATCCTAGATTGTGAAAA
1 GTTGGAGTATCCCCGATTGTGAAAA
56001 TAACAAAGTT
Statistics
Matches: 155, Mismatches: 22, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
76 68 0.44
79 87 0.56
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (79 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
TCGAAAATAACAGG
Found at i:55951 original size:76 final size:77
Alignment explanation
Indices: 55766--55987 Score: 311
Period size: 76 Copynumber: 2.9 Consensus size: 77
55756 GATTGTGGAG
* * * * *
55766 AATTGGTGTTTTAGAAATAAAACCGGGGTTGGAGTATCTCGTCGGAAATAACGGGGTTGGAGTAT
1 AATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTGGAGTAT
*
55831 CCCCGATTATGAAA
66 -CCC-ATGATGAAA
* * * *
55845 AATTGATGTTTTAGAAATAAAATCGGGGTTGGAATATCCCCCCAAAAATAACAGGGTTGGAGTAT
1 AATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTGGAGTAT
55910 CCC-TGATGAAA
66 CCCATGATGAAA
* *
55921 AATTGATGTTTTAGAAATAAAACCGAGGTTGGAGTGTCCCCTCGAAAATAACAGGGTTGGAGTAT
1 AATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTGGAGTAT
55986 CC
66 CC
55988 TAGATTGTGA
Statistics
Matches: 127, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
76 68 0.54
78 3 0.02
79 56 0.44
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (77 bp):
AATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTGGAGTAT
CCCATGATGAAA
Found at i:56788 original size:33 final size:33
Alignment explanation
Indices: 56741--56818 Score: 111
Period size: 33 Copynumber: 2.4 Consensus size: 33
56731 TATATTGTAA
* *
56741 AATGTATCGATACAATGAGCAACGTATCGATAC
1 AATGTATCGGTACAAGGAGCAACGTATCGATAC
**
56774 AATGTATCGGTACAAGGAGCATTGTATCGATAC
1 AATGTATCGGTACAAGGAGCAACGTATCGATAC
*
56807 AATGTATTGGTA
1 AATGTATCGGTA
56819 TAAGATGCAA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (33 bp):
AATGTATCGGTACAAGGAGCAACGTATCGATAC
Found at i:57285 original size:52 final size:52
Alignment explanation
Indices: 57170--57388 Score: 178
Period size: 51 Copynumber: 4.3 Consensus size: 52
57160 CAAGTGCTAG
*
57170 CTAGTGTGGAC-TTGGATTCTATAGGGCTTAATCTCTCTATATAGGTACCAA
1 CTAGTGTGGACTTTGGATTCTATAGGGCTTAACCTCTCTATATAGGTACCAA
* * * * * * *
57221 ATAATGTGGACTTTAGG-TTCTATAGGTCTTCACCTCTTTATATATGTGCCAA
1 CTAGTGTGGACTTT-GGATTCTATAGGGCTTAACCTCTCTATATAGGTACCAA
* * ** * * *
57273 CTAGTGTAGAC-TTGGATTCTATATGGCTTAAGTTCTC-ATACAGGTGCCAT
1 CTAGTGTGGACTTTGGATTCTATAGGGCTTAACCTCTCTATATAGGTACCAA
* * * * * * * *
57323 CTAGTGTAGAC-TTGGATTTTTTATGGTTTAACCTCTCTATATAGGTGCTAG
1 CTAGTGTGGACTTTGGATTCTATAGGGCTTAACCTCTCTATATAGGTACCAA
*
57374 CTAATGTGGACTTTG
1 CTAGTGTGGACTTTG
57389 TCTGGTTGAG
Statistics
Matches: 133, Mismatches: 30, Indels: 9
0.77 0.17 0.05
Matches are distributed among these distances:
50 44 0.33
51 45 0.34
52 42 0.32
53 2 0.02
ACGTcount: A:0.24, C:0.16, G:0.21, T:0.39
Consensus pattern (52 bp):
CTAGTGTGGACTTTGGATTCTATAGGGCTTAACCTCTCTATATAGGTACCAA
Found at i:59187 original size:16 final size:16
Alignment explanation
Indices: 59162--59192 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
59152 CATGTAGTGC
*
59162 AAACAGTAATTTCTTG
1 AAACAATAATTTCTTG
59178 AAACAATAATTTCTT
1 AAACAATAATTTCTT
59193 ATGCCAATCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.13, G:0.06, T:0.39
Consensus pattern (16 bp):
AAACAATAATTTCTTG
Found at i:61761 original size:166 final size:162
Alignment explanation
Indices: 61328--61843 Score: 539
Period size: 160 Copynumber: 3.2 Consensus size: 162
61318 ATTTCTTCAT
* * ** * *
61328 GGAGATTTTTTTCGGTTTTCAATTTTTAAAATTCATCAAATATTATTATTTGATTCATATTAAAT
1 GGAGATTTTTCTCAGTTTAAAATTTTTAAAATTCATAAAATATTATT-TTTTATTCATATTAAAT
* * * *
61393 CAGTCTTTAAAAATTAAATTATTTTCATGAATTTT-AATTTTTTTCTTTTAAATTCCCTTTTCCC
65 CAGTCTTGAAAAATT-AATTATTTTCATGAGTTTTGAA-TTTTTTCTTTGAAATTTCCTTTTCCC
* * * * *
61457 CGAAAAATCTACTTTCCCACT-TTATA-A---TTGA
128 CAAAAAAT-TAGTTTCCCACTCATAAACATTTTTAA
* * * * * * *
61488 GGGGAATTTTCACGGTCTT-TAATTTTTGAAATTTATAAAATATTATTATTTTATTCATATTAAA
1 GGAGATTTTTCTCAGT-TTAAAATTTTTAAAATTCATAAAATATTATT-TTTTATTCATATTAAA
* *
61552 TCATTCTTGAAAAATTAATTCATTTTCATGAGTTTTGAATTTTTTCATTGAAATTTCCTTTTCCC
64 TCAGTCTTGAAAAATTAATT-ATTTTCATGAGTTTTGAATTTTTTCTTTGAAATTTCCTTTTCCC
61617 CAAAAAATTAAGTTTCCCACTCCATAAACATTTTTAA
128 CAAAAAATT-AGTTTCCCACT-CATAAACATTTTTAA
**
61654 GGAGATTTTTCTCAGTTTAAAATTTTTAAAATTCATTTAATATTATGTTTTTCATTCATATTAAA
1 GGAGATTTTTCTCAGTTTAAAATTTTTAAAATTCATAAAATATTAT-TTTTT-ATTCATATTAAA
*
61719 TCAGTCTTGAAAAATTAATTTTTTTCATGAGTTTTGAATTTTTTCTTTGAAATTTTCC-TTT-CC
64 TCAGTCTTGAAAAATTAATTATTTTCATGAGTTTTGAATTTTTTCTTTGAAA-TTTCCTTTTCCC
* * * *
61782 CAAAAAATCGAGTTTTCTACTCAGTAAACATTTTTTA
128 CAAAAAAT-TAGTTTCCCACTCA-TAAACATTTTTAA
*
61819 -GAGGATTTTTCTCAGCTTAAAATTT
1 GGA-GATTTTTCTCAGTTTAAAATTT
61844 CTAATCTGAT
Statistics
Matches: 302, Mismatches: 37, Indels: 29
0.82 0.10 0.08
Matches are distributed among these distances:
159 5 0.02
160 120 0.40
161 4 0.01
162 3 0.01
163 1 0.00
164 4 0.01
165 54 0.18
166 74 0.25
167 37 0.12
ACGTcount: A:0.32, C:0.13, G:0.08, T:0.48
Consensus pattern (162 bp):
GGAGATTTTTCTCAGTTTAAAATTTTTAAAATTCATAAAATATTATTTTTTATTCATATTAAATC
AGTCTTGAAAAATTAATTATTTTCATGAGTTTTGAATTTTTTCTTTGAAATTTCCTTTTCCCCAA
AAAATTAGTTTCCCACTCATAAACATTTTTAA
Found at i:64405 original size:22 final size:22
Alignment explanation
Indices: 64377--64420 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
64367 TTCAAAATAG
64377 AGTTTTGGACTTGATTTAATCA
1 AGTTTTGGACTTGATTTAATCA
64399 AGTTTTGGACTTGATTTAATCA
1 AGTTTTGGACTTGATTTAATCA
64421 TGATTCCAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.09, G:0.18, T:0.45
Consensus pattern (22 bp):
AGTTTTGGACTTGATTTAATCA
Found at i:65583 original size:52 final size:52
Alignment explanation
Indices: 65505--65653 Score: 235
Period size: 52 Copynumber: 2.9 Consensus size: 52
65495 CGAAATATGA
*
65505 AAATTTACCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
* *
65557 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
*** *
65609 AAATTTGCCTGCATGTATCGATACAAAGATTAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACA
65654 ATGTATCGAT
Statistics
Matches: 88, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 88 1.00
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
Found at i:65660 original size:13 final size:13
Alignment explanation
Indices: 65642--65679 Score: 76
Period size: 13 Copynumber: 2.9 Consensus size: 13
65632 CAAAGATTAG
65642 TGTATCGATACAA
1 TGTATCGATACAA
65655 TGTATCGATACAA
1 TGTATCGATACAA
65668 TGTATCGATACA
1 TGTATCGATACA
65680 TTTGAGTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:67007 original size:20 final size:20
Alignment explanation
Indices: 66969--67005 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
66959 ACATTTTCAA
66969 AAATAAACTAAAGTAAAATT
1 AAATAAACTAAAGTAAAATT
*
66989 AAATAAATTAAA-TAAAA
1 AAATAAACTAAAGTAAAA
67006 ATGAATAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.24
Consensus pattern (20 bp):
AAATAAACTAAAGTAAAATT
Found at i:70610 original size:8 final size:8
Alignment explanation
Indices: 70597--70627 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
70587 GTTTGTATTA
70597 CATACATG
1 CATACATG
70605 CATACATG
1 CATACATG
*
70613 CATACATA
1 CATACATG
70621 CATACAT
1 CATACAT
70628 TACTTTCATC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.42, C:0.26, G:0.06, T:0.26
Consensus pattern (8 bp):
CATACATG
Found at i:70692 original size:47 final size:47
Alignment explanation
Indices: 70641--70746 Score: 212
Period size: 47 Copynumber: 2.3 Consensus size: 47
70631 TTTCATCAAC
70641 TGTCATAACTTTCCTTGACATTACTTGCATACATGTACACATCCAAT
1 TGTCATAACTTTCCTTGACATTACTTGCATACATGTACACATCCAAT
70688 TGTCATAACTTTCCTTGACATTACTTGCATACATGTACACATCCAAT
1 TGTCATAACTTTCCTTGACATTACTTGCATACATGTACACATCCAAT
70735 TGTCATAACTTT
1 TGTCATAACTTT
70747 TTCTTTGACT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 59 1.00
ACGTcount: A:0.29, C:0.25, G:0.08, T:0.38
Consensus pattern (47 bp):
TGTCATAACTTTCCTTGACATTACTTGCATACATGTACACATCCAAT
Found at i:72669 original size:111 final size:111
Alignment explanation
Indices: 72467--72789 Score: 343
Period size: 111 Copynumber: 2.9 Consensus size: 111
72457 TTAGAAGAAT
* * * * * * * *
72467 ATCAAATTTGTCTGATTTTTGAAGAAATTCATATTTTATGCATTCTTATCCTTTTGTGCCTAGG-
1 ATCAAATTTATCT-ATTTTTCAAAAAATTCATATTTTATACATTCTGATCCATTAGTGCTTAGGA
* * *
72531 AAATGAGGCATGTATCCTATGAA-TTTTGAAAATTTTAAGCCCAACAAC
65 AAATGGGGCACGTATCCTAT-AAGTTTTGAAATTTTTAA-CCCAACAAC
* * *
72579 AT-AAATTTATTTGGTTTTT-AAAAAATTCATATTTTATACATTCTGATCCATTCGTGCTTAGGA
1 ATCAAATTTATCT-ATTTTTCAAAAAATTCATATTTTATACATTCTGATCCATTAGTGCTTAGGA
*
72642 AAATGGGGCACGTATCCTATAAGTTTTGAAATTTTTAATCCAACAAC
65 AAATGGGGCACGTATCCTATAAGTTTTGAAATTTTTAACCCAACAAC
* ** ** *
72689 ATCAAATTTGTCTATTTTTCAAAAAACGCATATTTTATATGTTCTGATCCATTAATG-TCTAGGA
1 ATCAAATTTATCTATTTTTCAAAAAATTCATATTTTATACATTCTGATCCATTAGTGCT-TAGGA
* *
72753 AAATGGGGCACGTA-CTCAATCAGTTTTGAAATTTTTA
65 AAATGGGGCACGTATC-CTATAAGTTTTGAAATTTTTA
72790 GGCCAATTAA
Statistics
Matches: 181, Mismatches: 24, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
110 56 0.31
111 123 0.68
112 2 0.01
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.40
Consensus pattern (111 bp):
ATCAAATTTATCTATTTTTCAAAAAATTCATATTTTATACATTCTGATCCATTAGTGCTTAGGAA
AATGGGGCACGTATCCTATAAGTTTTGAAATTTTTAACCCAACAAC
Found at i:73187 original size:88 final size:89
Alignment explanation
Indices: 73022--73233 Score: 220
Period size: 88 Copynumber: 2.4 Consensus size: 89
73012 ACCACACTCG
* * * * *
73022 CATTTGCATCATTTCATATGCATTTG-TTTCTTTGTTGATGTTTGCATTTGCATCGTTTCACCTA
1 CATTTGCATCATTTCATATGCATTTGCCTTCTTTATTGAAGCTTGCATTTGCATCATTTCACCTA
* *
73086 CATCTGTATTTTAGATAACAGTAG-
66 CATCTGCACTTTAGATAACA-TAGA
* *
73110 TATTTGCATCATTCCATATGCATTTGCCTT-TTTATTGAAGCTTGCATTTGCATCATTTCACGC-
1 CATTTGCATCATTTCATATGCATTTGCCTTCTTTATTGAAGCTTGCATTTGCATCATTTCAC-CT
* ** *
73173 ATAT-TAGCACTTTAGATGCCATTGA
65 ACATCT-GCACTTTAGATAACATAGA
* *
73198 CATTTGCATCATTTCATATGTATTTGCC-ACTTTATT
1 CATTTGCATCATTTCATATGCATTTGCCTTCTTTATT
73234 AATGGCTGCA
Statistics
Matches: 102, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
87 3 0.03
88 96 0.94
89 3 0.03
ACGTcount: A:0.23, C:0.19, G:0.13, T:0.45
Consensus pattern (89 bp):
CATTTGCATCATTTCATATGCATTTGCCTTCTTTATTGAAGCTTGCATTTGCATCATTTCACCTA
CATCTGCACTTTAGATAACATAGA
Found at i:73981 original size:19 final size:19
Alignment explanation
Indices: 73957--74012 Score: 103
Period size: 19 Copynumber: 2.9 Consensus size: 19
73947 TGTGGGGACG
73957 AAGTGTTGTATCGATACAT
1 AAGTGTTGTATCGATACAT
73976 AAGTGTTGTATCGATACAT
1 AAGTGTTGTATCGATACAT
*
73995 AAGTTTTGTATCGATACA
1 AAGTGTTGTATCGATACA
74013 ATGTAAGCTA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 36 1.00
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.38
Consensus pattern (19 bp):
AAGTGTTGTATCGATACAT
Found at i:74078 original size:20 final size:21
Alignment explanation
Indices: 74034--74088 Score: 78
Period size: 20 Copynumber: 2.7 Consensus size: 21
74024 TGCCAAAAAA
*
74034 TGTATCGATACATTACTCAAT
1 TGTATCGATACATGACTCAAT
74055 TGTATCGATACACTGA-TC-AT
1 TGTATCGATACA-TGACTCAAT
74075 TGTATCGATACATG
1 TGTATCGATACATG
74089 CAGGCAAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 2 0.06
20 14 0.44
21 14 0.44
22 2 0.06
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (21 bp):
TGTATCGATACATGACTCAAT
Found at i:86204 original size:59 final size:59
Alignment explanation
Indices: 86059--86519 Score: 818
Period size: 59 Copynumber: 7.8 Consensus size: 59
86049 TCACCCTTCA
* *
86059 AAAGCCCACAAGTCAGTGGTATCTTTTCAAAAACCCACAAGTCAGTGGCACCC--TTCA
1 AAAGCCCACAAGTCAGTGGTATCTTTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCC
*
86116 AAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGTATCTTTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCC
86175 AAAGCCCACAAGTCAGTGGTATCTTTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGTATCTTTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCC
*
86234 AAAGCCCACAAGTCAGTGGTATCTTTTCAAAAGCCCACAAGTTAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGTATCTTTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCC
86293 AAAGCCCACAAGTCAGTGGTATCTTTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGTATCTTTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCC
86352 AAAGCCCACAAGTCAGTGGTATCTTTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGTATCTTTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCC
* *
86411 AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGTATCTTTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCC
* * * *
86470 AAAGCCCACGAGTCAATGGTATCTCTTCGAAAGCCCACAAGTCAGTGGCA
1 AAAGCCCACAAGTCAGTGGTATCTTTTCAAAAGCCCACAAGTCAGTGGCA
86520 ACTTTTAGAA
Statistics
Matches: 389, Mismatches: 13, Indels: 2
0.96 0.03 0.00
Matches are distributed among these distances:
57 51 0.13
59 338 0.87
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.23
Consensus pattern (59 bp):
AAAGCCCACAAGTCAGTGGTATCTTTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCC
Found at i:86698 original size:43 final size:43
Alignment explanation
Indices: 86637--86808 Score: 157
Period size: 43 Copynumber: 3.8 Consensus size: 43
86627 CTTCATCTTT
* *
86637 AAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAACTCC
1 AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCAACTCC
* * *
86680 AAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCCTCATC
1 AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA-ACTC--C
* * * **
86726 TTTTAAGCCCAATGTTGCTGGCCTTGAATCAGCACATTGGC-ACTTTT
1 ----AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCAAC-TCC
* *
86773 AAGTCCAATATCGTTGGCCTTGAATCAGCATATTGG
1 AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGG
86809 TGCCTTTGTC
Statistics
Matches: 103, Mismatches: 18, Indels: 16
0.75 0.13 0.12
Matches are distributed among these distances:
43 65 0.63
44 3 0.03
46 1 0.01
48 1 0.01
49 1 0.01
50 32 0.31
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.30
Consensus pattern (43 bp):
AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCAACTCC
Found at i:86777 original size:93 final size:92
Alignment explanation
Indices: 86585--86808 Score: 353
Period size: 93 Copynumber: 2.4 Consensus size: 92
86575 GGCATTTTCT
* * *
86585 TCTAAGTCCAATATCGCTT-GCCTTGAGTCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
1 TCTAAGTCCAATATCG-TTGGCCTTGAATCAGCATATTGGCACCCTCATCTTTAAGCCCAATGTA
86649 GCTGGCCTTGAATCAGCACATTGGCAAC
65 GCTGGCCTTGAATCAGCACATTGGCAAC
* *
86677 TCCAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCCTCATCTTTTAAGCCCAATGTT
1 TCTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCCTCATC-TTTAAGCCCAATGTA
86742 GCTGGCCTTGAATCAGCACATTGGC-AC
65 GCTGGCCTTGAATCAGCACATTGGCAAC
*
86769 TTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGG
1 -TCTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGG
86809 TGCCTTTGTC
Statistics
Matches: 122, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
91 2 0.02
92 45 0.37
93 75 0.61
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (92 bp):
TCTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCCTCATCTTTAAGCCCAATGTAG
CTGGCCTTGAATCAGCACATTGGCAAC
Found at i:86848 original size:52 final size:52
Alignment explanation
Indices: 86770--86913 Score: 234
Period size: 52 Copynumber: 2.8 Consensus size: 52
86760 CATTGGCACT
* *
86770 TTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGTGCCTTTGTCATC
1 TTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCGCCTCTGTCATC
* *
86822 TTTAAGTCCAATATCGTTGGCCTTGAATCAGGATATTGGCGTCTCTGTCATC
1 TTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCGCCTCTGTCATC
* *
86874 TTTAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGGC
1 TTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGC
86914 ACCTACATCT
Statistics
Matches: 85, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 85 1.00
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.36
Consensus pattern (52 bp):
TTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCGCCTCTGTCATC
Found at i:87737 original size:13 final size:13
Alignment explanation
Indices: 87719--87775 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
87709 CATAAAGTGT
87719 TGTATCGATACAA
1 TGTATCGATACAA
87732 TGTATCGATACATAA
1 TGTATCGATAC--AA
87747 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
87764 TGTATCGATACA
1 TGTATCGATACA
87776 TAAGTTTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:87754 original size:32 final size:32
Alignment explanation
Indices: 87699--87799 Score: 184
Period size: 32 Copynumber: 3.1 Consensus size: 32
87689 TTCAACGATT
87699 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACAT-AAGTGTTGTATCGATACAA
87732 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
87764 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
87796 TGTA
1 TGTA
87800 AGCTACTACC
Statistics
Matches: 67, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
32 54 0.81
33 13 0.19
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:87756 original size:19 final size:18
Alignment explanation
Indices: 87697--87794 Score: 90
Period size: 19 Copynumber: 5.8 Consensus size: 18
87687 ATTTCAACGA
87697 TTTGTATCGATACATAAAG
1 TTTGTATCGATACAT-AAG
87716 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
87732 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
87748 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
87764 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
87780 TTTTGTATCGATACA
1 -TTTGTATCGATACA
87795 ATGTAAGCTA
Statistics
Matches: 66, Mismatches: 0, Indels: 26
0.72 0.00 0.28
Matches are distributed among these distances:
13 22 0.33
15 4 0.06
17 4 0.06
19 24 0.36
20 12 0.18
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:87820 original size:65 final size:65
Alignment explanation
Indices: 87699--87827 Score: 156
Period size: 65 Copynumber: 2.0 Consensus size: 65
87689 TTCAACGATT
* ***
87699 TGTATCGATACATAAAGTGTTGTATCGATACAATGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAATGTAGCGATACATAAGAAATGTATCGATACAA
* *
87764 TGTATCGATACAT-AAGTTTTGTATCGATACAATGTAAGCTACTACCA-AA-AAATGTATCGATA
1 TGTATCGATACATAAAGTGTTGTATCGATACAATGT-AGCGA-TA-CATAAGAAATGTATCGATA
87826 CA
63 CA
87828 TTACTCAAAT
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
64 21 0.38
65 28 0.51
66 4 0.07
67 2 0.04
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (65 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAATGTAGCGATACATAAGAAATGTATCGATACAA
Found at i:87855 original size:13 final size:13
Alignment explanation
Indices: 87837--87861 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
87827 ATTACTCAAA
87837 TGTATCGATACAT
1 TGTATCGATACAT
87850 TGTATCGATACA
1 TGTATCGATACA
87862 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:93739 original size:34 final size:35
Alignment explanation
Indices: 93701--93767 Score: 102
Period size: 36 Copynumber: 1.9 Consensus size: 35
93691 CCTTACAACA
93701 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATA-AAACCTCTCTCT
93735 CTATCTTTTTCAAAGGCTAAGATAAAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAAAACCTCTC
93768 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 13 0.43
37 12 0.40
ACGTcount: A:0.31, C:0.25, G:0.10, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAAAACCTCTCTCT
Found at i:94793 original size:79 final size:77
Alignment explanation
Indices: 94690--94962 Score: 264
Period size: 79 Copynumber: 3.5 Consensus size: 77
94680 GTGAAATTTT
* * * *
94690 GATGTTCTGGAAATAGAACCGGGGTTGGAGTATCCCTTCGAAAATAACAGGGTTGGAGTATCCCC
1 GATGTTTTAGAAATAAAACTGGGGTTGGAGTATCCCTTC-AAAATAAC-GGGTTGGAGTATCCCC
94755 GATTGTGGAAAATC
64 GATTGTGGAAAATC
* ** * * * *
94769 GATGTTTTAGAAATAAAGCTGGGGTCAGAGCATCCTTTCAGAAATAACGAGGTTGGAGTATCTCT
1 GATGTTTTAGAAATAAAACTGGGGTTGGAGTATCCCTTCA-AAATAACG-GGTTGGAGTATCCCC
*
94834 GATTGTGAAAAATC
64 GATTGTGGAAAATC
* *
94848 -AGTGTTTTAGAAATAAAATTTGGGGTTGGAGTATCCCTTCAAGAATAACGGGGTTGAAGTATCC
1 GA-TGTTTTAGAAATAAAA-CTGGGGTTGGAGTATCCCTTCAA-AATAAC-GGGTTGGAGTATCC
*
94912 CCGATAT-T-GAAAATTT
62 CCGAT-TGTGGAAAA-TC
* ** *
94928 GATGTTTTGGAAATAAAACCAGGATTGGAGTATCC
1 GATGTTTTAGAAATAAAACTGGGGTTGGAGTATCC
94963 TCGATTATAG
Statistics
Matches: 157, Mismatches: 28, Indels: 18
0.77 0.14 0.09
Matches are distributed among these distances:
78 3 0.02
79 96 0.61
80 55 0.35
81 3 0.02
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (77 bp):
GATGTTTTAGAAATAAAACTGGGGTTGGAGTATCCCTTCAAAATAACGGGTTGGAGTATCCCCGA
TTGTGGAAAATC
Found at i:94981 original size:51 final size:51
Alignment explanation
Indices: 94905--95011 Score: 153
Period size: 51 Copynumber: 2.1 Consensus size: 51
94895 ACGGGGTTGA
* *
94905 AGTATCCCCGATATTGAAAATTTGATGTTTTGGAAATAAAACCAGGATTGG
1 AGTATCCCCGATATAGAAAATTTGATGTTTTGGAAATAAAACCAGGATTAG
* * *
94956 AGTATCCTCGATTATAGAAAA-TTGATGTTTTGGAAATACAACCAGGGTTAG
1 AGTATCCCCGA-TATAGAAAATTTGATGTTTTGGAAATAAAACCAGGATTAG
95007 AGTAT
1 AGTAT
95012 TCCCTCGAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
51 42 0.84
52 8 0.16
ACGTcount: A:0.36, C:0.11, G:0.21, T:0.32
Consensus pattern (51 bp):
AGTATCCCCGATATAGAAAATTTGATGTTTTGGAAATAAAACCAGGATTAG
Found at i:94985 original size:131 final size:131
Alignment explanation
Indices: 94850--95094 Score: 284
Period size: 131 Copynumber: 1.9 Consensus size: 131
94840 GAAAAATCAG
*** * *
94850 TGTTTTAGAAATAAAATTTGGGGTTGGAGTA-TCCCTTC-AAGAATAACGGGGTTGAAGTATCCC
1 TGTTTTAGAAATAAAA-CCAGGGTTAGAGTATTCCC-TCGAA-AATAACGAGGTTGAAGTATCCC
* *
94913 CGA-TATTG-AAAATTTGATGTTTTGGAAAT-AAAACCAGGATTGGAGTATCCTCGATTATAGAA
63 CGATTA-TGAAAAATTAG-TGTTTTAGAAATAAAAACCAGGATTGGAGTATCCTCGATTATAGAA
94975 AATTGA
126 AATTGA
* * * * *
94981 TGTTTTGGAAATACAACCAGGGTTAGAGTATTCCCTCGAAAATAACGAGGTTGGAGTTTCCCTGA
1 TGTTTTAGAAATAAAACCAGGGTTAGAGTATTCCCTCGAAAATAACGAGGTTGAAGTATCCCCGA
* *
95046 TTATGAAAAATTAGTGTTTTAGAAATAAAAACTAGGGTTGGAGTATCCT
66 TTATGAAAAATTAGTGTTTTAGAAATAAAAACCAGGATTGGAGTATCCT
95095 TTCAGAAATA
Statistics
Matches: 95, Mismatches: 14, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
130 46 0.48
131 49 0.52
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.32
Consensus pattern (131 bp):
TGTTTTAGAAATAAAACCAGGGTTAGAGTATTCCCTCGAAAATAACGAGGTTGAAGTATCCCCGA
TTATGAAAAATTAGTGTTTTAGAAATAAAAACCAGGATTGGAGTATCCTCGATTATAGAAAATTG
A
Found at i:95116 original size:80 final size:79
Alignment explanation
Indices: 94973--95253 Score: 261
Period size: 79 Copynumber: 3.6 Consensus size: 79
94963 TCGATTATAG
* * * *
94973 AAAATT-GATGTTTTGGAAAT-ACAACCAGGGTTAGAGTATTCCC-TCGAAAATAACGAGGTTGG
1 AAAATTAG-TGTTTTGGAAATAAAAACTAGGGTTGGAGTA-TCCCTTC-AAAATAACGGGGTTGG
*
95035 AGTTTCCCTGATTATGA
63 AGTTTCCCTGATTGTGA
* *
95052 AAAATTAGTGTTTTAGAAATAAAAACTAGGGTTGGAGTATCCTTTCAGAAATAACGGGGTTGGAG
1 AAAATTAGTGTTTTGGAAATAAAAACTAGGGTTGGAGTATCCCTTCA-AAATAACGGGGTTGGAG
* * *
95117 TATCCCCGATGGTGA
65 TTTCCCTGATTGTGA
* * * * * *
95132 AAAA-TCGAAGTTTTGGAAATAAAATC-AGGGTTGGAGTATCCCTTCAAAACTAAAGGAGTTGAA
1 AAAATTAG-TGTTTTGGAAATAAAAACTAGGGTTGGAGTATCCCTTCAAAA-TAACGGGGTTGGA
* * *
95195 ATATT-CCTAATTGTGG
64 GT-TTCCCTGATTGTGA
* *
95211 AAAATTAGTGTTTTGGAAAT-AAAATTGGGGTTGGAGTATCCCT
1 AAAATTAGTGTTTTGGAAATAAAAACTAGGGTTGGAGTATCCCT
95254 GATTGTGGAA
Statistics
Matches: 164, Mismatches: 29, Indels: 18
0.78 0.14 0.09
Matches are distributed among these distances:
78 6 0.04
79 91 0.55
80 67 0.41
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.30
Consensus pattern (79 bp):
AAAATTAGTGTTTTGGAAATAAAAACTAGGGTTGGAGTATCCCTTCAAAATAACGGGGTTGGAGT
TTCCCTGATTGTGA
Found at i:95225 original size:289 final size:289
Alignment explanation
Indices: 94688--95411 Score: 881
Period size: 289 Copynumber: 2.5 Consensus size: 289
94678 TGGTGAAATT
* *
94688 TTGATGTTCTGGAAATAGAACCGGGGTTGGAGTA-TCCCTTCGAAAATAAC-AGGGTTGGAGTAT
1 TTGATGTTCTGGAAATAAAACCAGGGTTGGAGTATTCCC-TCGAAAATAACGA-GGTTGGAGTAT
* * * ** *
94751 CCCCGATTGTGGAAAATCGATGTTTTAGAAATAAAGCTGGGGTCAGAGCATCCTTTCAGAAATAA
64 CCCTGATTGTGGAAAATAGATGTTTTAGAAATAAAACTGGGGTTGGAGTATCCTTTCAGAAATAA
* * * * * **
94816 CGAGGTTGGAGTATCTCTGATTGTGAAAAATCAGTGTTTTAGAAATAAAATTTGGGGTTGGAGTA
129 CGGGGTTGGAGTATCCCCGATGGTGAAAAATCAGAGTTTTAGAAATAAAATTCAGGGTTGGAGTA
* * * * *
94881 TCCCTTCAAGAATAACGGGGTTGAAGTATCCCCGATATTGAAAATTTGATGTTTTGGAAATAAAA
194 TCCCTTCAAGAATAAAGGAGTTGAAATATCCCCAATATTGAAAATTAGATGTTTTGGAAATAAAA
94946 CCAGGATTGGAGTAT-CCTCGATTATAGAAAA
259 CCAGGATTGGAGTATCCCT-GATTATAGAAAA
* * * *
94977 TTGATGTTTTGGAAATACAACCAGGGTTAGAGTATTCCCTCGAAAATAACGAGGTTGGAGTTTCC
1 TTGATGTTCTGGAAATAAAACCAGGGTTGGAGTATTCCCTCGAAAATAACGAGGTTGGAGTATCC
* * *
95042 CTGATTATGAAAAATTAG-TGTTTTAGAAATAAAAACTAGGGTTGGAGTATCCTTTCAGAAATAA
66 CTGATTGTGGAAAA-TAGATGTTTTAGAAAT-AAAACTGGGGTTGGAGTATCCTTTCAGAAATAA
*
95106 CGGGGTTGGAGTATCCCCGATGGTGAAAAATC-GAAGTTTTGGAAATAAAA-TCAGGGTTGGAGT
129 CGGGGTTGGAGTATCCCCGATGGTGAAAAATCAG-AGTTTTAGAAATAAAATTCAGGGTTGGAGT
* *
95169 ATCCCTTCAA-AACTAAAGGAGTTGAAATATTCCTAAT-TGTGGAAAATTAG-TGTTTTGGAAAT
193 ATCCCTTCAAGAA-TAAAGGAGTTGAAATATCCCCAATAT-T-GAAAATTAGATGTTTTGGAAAT
*** * * *
95231 AAAATTGGGGTTGGAGTATCCCTGATTGTGGAAAA
255 AAAACCAGGATTGGAGTATCCCTGATTATAGAAAA
* * * * *
95266 TCGATGTTCTGGAAATAAAACTAGGGTTGGAGTATCCCCTCAAAAATAACGAAGTTGGAGTATCC
1 TTGATGTTCTGGAAATAAAACCAGGGTTGGAGTATTCCCTCGAAAATAACGAGGTTGGAGTATCC
* * * ** *
95331 CTGATTGTGGAAAATAGATGTTTTGGAAATAAAACCGGGGTTGGATTATCCACTCAGAAATAACA
66 CTGATTGTGGAAAATAGATGTTTTAGAAATAAAACTGGGGTTGGAGTATCCTTTCAGAAATAACG
95396 GGGTTGGAGTATCCCC
131 GGGTTGGAGTATCCCC
95412 ATAATGCATT
Statistics
Matches: 372, Mismatches: 53, Indels: 21
0.83 0.12 0.05
Matches are distributed among these distances:
288 51 0.14
289 233 0.63
290 88 0.24
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (289 bp):
TTGATGTTCTGGAAATAAAACCAGGGTTGGAGTATTCCCTCGAAAATAACGAGGTTGGAGTATCC
CTGATTGTGGAAAATAGATGTTTTAGAAATAAAACTGGGGTTGGAGTATCCTTTCAGAAATAACG
GGGTTGGAGTATCCCCGATGGTGAAAAATCAGAGTTTTAGAAATAAAATTCAGGGTTGGAGTATC
CCTTCAAGAATAAAGGAGTTGAAATATCCCCAATATTGAAAATTAGATGTTTTGGAAATAAAACC
AGGATTGGAGTATCCCTGATTATAGAAAA
Found at i:95252 original size:130 final size:130
Alignment explanation
Indices: 95106--95381 Score: 376
Period size: 130 Copynumber: 2.1 Consensus size: 130
95096 TCAGAAATAA
*
95106 CGGGGTTGGAGTATCCCCGATGGTGAAAAATCGAAGTTTTGGAAATAAAA-TCAGGGTTGGAGTA
1 CGGGGTTGGAGTATCCCCGATGGTGAAAAATCGAAGTTCTGGAAATAAAACT-AGGGTTGGAGTA
* * * *
95170 TCCCTTCAAAACTAAAGGAGTTGAAATATTCCTAATTGTGGAAAATTAG-TGTTTTGGAAATAAA
65 TCCCCTCAAAAATAAAGAAGTTGAAATATCCCTAATTGTGGAAAA-TAGATGTTTTGGAAATAAA
*
95234 AT
129 AC
* * * * *
95236 TGGGGTTGGAGTATCCCTGATTGTGGAAAATCGATGTTCTGGAAATAAAACTAGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATGGTGAAAAATCGAAGTTCTGGAAATAAAACTAGGGTTGGAGTAT
* * * *
95301 CCCCTCAAAAATAACGAAGTTGGAGTATCCCTGATTGTGGAAAATAGATGTTTTGGAAATAAAAC
66 CCCCTCAAAAATAAAGAAGTTGAAATATCCCTAATTGTGGAAAATAGATGTTTTGGAAATAAAAC
*
95366 CGGGGTTGGATTATCC
1 CGGGGTTGGAGTATCC
95382 ACTCAGAAAT
Statistics
Matches: 127, Mismatches: 17, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
129 3 0.02
130 123 0.97
131 1 0.01
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (130 bp):
CGGGGTTGGAGTATCCCCGATGGTGAAAAATCGAAGTTCTGGAAATAAAACTAGGGTTGGAGTAT
CCCCTCAAAAATAAAGAAGTTGAAATATCCCTAATTGTGGAAAATAGATGTTTTGGAAATAAAAC
Found at i:95280 original size:51 final size:51
Alignment explanation
Indices: 95204--95303 Score: 148
Period size: 51 Copynumber: 2.0 Consensus size: 51
95194 AATATTCCTA
* * * *
95204 ATTGTGGAAAATTAGTGTTTTGGAAATAAAATTGGGGTTGGAGTATCCCTG
1 ATTGTGGAAAATGAGTGTTCTGGAAATAAAACTAGGGTTGGAGTATCCCTG
95255 ATTGTGGAAAATCGA-TGTTCTGGAAATAAAACTAGGGTTGGAGTATCCC
1 ATTGTGGAAAAT-GAGTGTTCTGGAAATAAAACTAGGGTTGGAGTATCCC
95304 CTCAAAAATA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 43 0.98
52 1 0.02
ACGTcount: A:0.31, C:0.09, G:0.28, T:0.32
Consensus pattern (51 bp):
ATTGTGGAAAATGAGTGTTCTGGAAATAAAACTAGGGTTGGAGTATCCCTG
Found at i:95323 original size:79 final size:79
Alignment explanation
Indices: 95240--95410 Score: 254
Period size: 79 Copynumber: 2.2 Consensus size: 79
95230 TAAAATTGGG
* * *
95240 GTTGGAGTATCCCTGATTGTGGAAAATCGATGTTCTGGAAATAAAACTAGGGTTGGAGTATCCCC
1 GTTGGAGTATCCCTGATTGTGGAAAATAGATGTTCTGGAAATAAAACCAGGGTTGGAGTATCCAC
95305 TCAAAAATAAC-GAA
66 TCAAAAATAACAG-A
* * *
95319 GTTGGAGTATCCCTGATTGTGGAAAATAGATGTTTTGGAAATAAAACCGGGGTTGGATTATCCAC
1 GTTGGAGTATCCCTGATTGTGGAAAATAGATGTTCTGGAAATAAAACCAGGGTTGGAGTATCCAC
* *
95384 TCAGAAATAACAGG
66 TCAAAAATAACAGA
95398 GTTGGAGTATCCC
1 GTTGGAGTATCCC
95411 CATAATGCAT
Statistics
Matches: 83, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
79 82 0.99
80 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (79 bp):
GTTGGAGTATCCCTGATTGTGGAAAATAGATGTTCTGGAAATAAAACCAGGGTTGGAGTATCCAC
TCAAAAATAACAGA
Done.