Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold455
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: 143035
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Found at i:4427 original size:13 final size:13
Alignment explanation
Indices: 4409--4433 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4399 ACACAAAGTA
4409 TGTATCGATACAG
1 TGTATCGATACAG
4422 TGTATCGATACA
1 TGTATCGATACA
4434 CAAAAAATTG
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:0.20, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:4431 original size:32 final size:33
Alignment explanation
Indices: 4390--4453 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
4380 TAGCCAAACT
**
4390 TGTATCGATACACAAAGTA-TGTATCGATACAG
1 TGTATCGATACACAAAAAATTGTATCGATACAG
4422 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
4454 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAG
Found at i:6983 original size:20 final size:20
Alignment explanation
Indices: 6954--7029 Score: 89
Period size: 20 Copynumber: 3.8 Consensus size: 20
6944 TTCATACCCT
6954 AATGTATCGATACATTTTTC
1 AATGTATCGATACATTTTTC
* * * *
6974 AATATATCGATACATGTATG
1 AATGTATCGATACATTTTTC
* * *
6994 AATGTATCGATATATTCTAC
1 AATGTATCGATACATTTTTC
7014 AATGTATCGATACATT
1 AATGTATCGATACATT
7030 ATGTCTTTTT
Statistics
Matches: 44, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.36, C:0.13, G:0.12, T:0.39
Consensus pattern (20 bp):
AATGTATCGATACATTTTTC
Found at i:7022 original size:40 final size:39
Alignment explanation
Indices: 6954--7032 Score: 113
Period size: 40 Copynumber: 2.0 Consensus size: 39
6944 TTCATACCCT
* *
6954 AATGTATCGATACATTTTTCAATATATCGATACATGTATG
1 AATGTATCGATACATTCTACAATATATCGATACAT-TATG
* *
6994 AATGTATCGATATATTCTACAATGTATCGATACATTATG
1 AATGTATCGATACATTCTACAATATATCGATACATTATG
7033 TCTTTTTACC
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
39 4 0.11
40 31 0.89
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (39 bp):
AATGTATCGATACATTCTACAATATATCGATACATTATG
Found at i:21047 original size:11 final size:11
Alignment explanation
Indices: 21031--21085 Score: 78
Period size: 11 Copynumber: 5.0 Consensus size: 11
21021 CCTTTACACC
21031 CAAAAAAAAAA
1 CAAAAAAAAAA
21042 C-AAAAAAAAA
1 CAAAAAAAAAA
21052 CAAAAAAAAAA
1 CAAAAAAAAAA
21063 CAAAACAAAAAA
1 CAAAA-AAAAAA
21075 -AAAAGAAAAAA
1 CAAAA-AAAAAA
21086 TAGCAAAAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
10 10 0.24
11 25 0.61
12 6 0.15
ACGTcount: A:0.89, C:0.09, G:0.02, T:0.00
Consensus pattern (11 bp):
CAAAAAAAAAA
Found at i:21056 original size:16 final size:16
Alignment explanation
Indices: 21031--21083 Score: 72
Period size: 16 Copynumber: 3.3 Consensus size: 16
21021 CCTTTACACC
21031 CAAAA-AAAAAACAAAA
1 CAAAACAAAAAA-AAAA
*
21047 AAAAACAAAAAAAAAA
1 CAAAACAAAAAAAAAA
21063 CAAAACAAAAAAAAAA
1 CAAAACAAAAAAAAAA
*
21079 GAAAA
1 CAAAA
21084 AATAGCAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
16 27 0.82
17 6 0.18
ACGTcount: A:0.89, C:0.09, G:0.02, T:0.00
Consensus pattern (16 bp):
CAAAACAAAAAAAAAA
Found at i:21092 original size:21 final size:18
Alignment explanation
Indices: 21031--21095 Score: 69
Period size: 18 Copynumber: 3.4 Consensus size: 18
21021 CCTTTACACC
21031 CAAAAAAAAAACAAAAAAA
1 CAAAAAAAAAA-AAAAAAA
*
21050 -AACAAAAAAAAAACAAAA
1 CAA-AAAAAAAAAAAAAAA
21068 CAAAAAAAAAAGAAAAAATA
1 CAAAAAAAAAA-AAAAAA-A
21088 GCAAAAAA
1 -CAAAAAA
21096 TAGAAGGGTC
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
18 16 0.41
19 15 0.38
20 1 0.03
21 7 0.18
ACGTcount: A:0.86, C:0.09, G:0.03, T:0.02
Consensus pattern (18 bp):
CAAAAAAAAAAAAAAAAA
Found at i:21093 original size:26 final size:26
Alignment explanation
Indices: 21032--21085 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 26
21022 CTTTACACCC
21032 AAAAAA-AAAACAAAAAAAAACAAAA
1 AAAAAACAAAACAAAAAAAAACAAAA
*
21057 AAAAAACAAAACAAAAAAAAA-AGAA
1 AAAAAACAAAACAAAAAAAAACAAAA
21082 AAAA
1 AAAA
21086 TAGCAAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 13 0.48
26 14 0.52
ACGTcount: A:0.91, C:0.07, G:0.02, T:0.00
Consensus pattern (26 bp):
AAAAAACAAAACAAAAAAAAACAAAA
Found at i:21095 original size:1 final size:1
Alignment explanation
Indices: 21032--21085 Score: 63
Period size: 1 Copynumber: 54.0 Consensus size: 1
21022 CTTTACACCC
* * * * *
21032 AAAAAAAAAACAAAAAAAAACAAAAAAAAAACAAAACAAAAAAAAAAGAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
21086 TAGCAAAAAA
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 43 1.00
ACGTcount: A:0.91, C:0.07, G:0.02, T:0.00
Consensus pattern (1 bp):
A
Found at i:22356 original size:29 final size:29
Alignment explanation
Indices: 22314--23260 Score: 1328
Period size: 28 Copynumber: 32.9 Consensus size: 29
22304 AATGTTCATC
22314 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
22343 CCTTTCAAAGCCCACAAATCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
22372 CTTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
22400 CCTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
22428 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
22457 CTTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
22485 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
22514 -CTTTCAAAGCCCACAAGTTAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
22541 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
22570 CCTTTCAAAGCCCACAAGTCAGTGGCATACAAT
1 CCTTTCAAAGCCCACAAGTCAGTGGC--AC--T
*
22603 ACTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
22632 CCTTTTC-AAGCCCACAAG-CTAGTGGCAC-
1 CC-TTTCAAAGCCCACAAGTC-AGTGGCACT
22660 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
22689 CCTTTCACAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
22718 CC-TTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
22746 CTTTTCAAAGCCCACAAATCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
22775 -CTTTCAAAGCCCACAAGTTAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
22802 CCTTTCAAAGCCCACAAGT-AGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
22830 CCTTTCAAAGCCCAAAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
22859 CTTTTCAAAGCCCACAAATCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
22888 CTTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
22916 CCTTTCAAAGCCCAACAAGTTAGTGGCAC-
1 CCTTTCAAAGCCC-ACAAGTCAGTGGCACT
*
22945 CCTTTCAGAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
22973 CCTTTCGAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* * * *
23001 CATTGCGAAGCCCACAATTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
23030 -CTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
23057 CCTTTTAAAGCCCACACAAGTCAGTGGCACT
1 CCTTTCAAAG-CC-CACAAGTCAGTGGCACT
* * *
23088 CCTTTTAAAGCTCACGCAAGTCAGTGGTAC-
1 CCTTTCAAAGC-C-CACAAGTCAGTGGCACT
*
23118 CTTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
23147 -CTTTCAAAGCCCACAAGTCAGTGGCA-T
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
23174 CCTTTCAAAGCCCACGAGTTAGTGGCA-T
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
23202 TCTTTCAAAGCCCACGCAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCA--CAAGTCAGTGGCACT
* *
23232 CCTTTTAAAGCCCATGCAAGTCAATGGCA
1 CCTTTCAAAGCCCA--CAAGTCAGTGGCA
23261 ACCCTTTTCA
Statistics
Matches: 837, Mismatches: 52, Indels: 57
0.88 0.05 0.06
Matches are distributed among these distances:
27 13 0.02
28 427 0.51
29 275 0.33
30 66 0.08
31 30 0.04
33 26 0.03
ACGTcount: A:0.29, C:0.32, G:0.18, T:0.21
Consensus pattern (29 bp):
CCTTTCAAAGCCCACAAGTCAGTGGCACT
Found at i:22426 original size:57 final size:56
Alignment explanation
Indices: 22313--23272 Score: 1298
Period size: 57 Copynumber: 16.7 Consensus size: 56
22303 GAATGTTCAT
*
22313 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAATCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCA
*
22370 CTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA
*
22427 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCA
* *
22484 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTTAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA
22540 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCATA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGC--A
*
22599 CAATACTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTTC-AAGCCCACAAG-CTAGTGGCA
1 C---CCTTTCAAAGCCCACAAGTCAGTGGCAC-CC-TTTCAAAGCCCACAAGTC-AGTGGCA
*
22659 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCACAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCA
* *
22716 CTCC-TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAATCAGTGGCA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCA
* *
22773 CTCTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGT-AGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA
* * *
22828 CTCCTTTCAAAGCCCAAAAGTCAGTGGCACTCTTTTCAAAGCCCACAAATCAGTGGCA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCA
* *
22886 CTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCAACAAGTTAGTGGCA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCC-ACAAGTCAGTGGCA
* *
22944 CCCTTTCAGAGCCCACAAGTCAGTGGCACCCTTTCGAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA
* * * * *
23000 CCATTGCGAAGCCCACAATTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA
* * * *
23056 CCCTTTTAAAGCCCACACAAGTCAGTGGCACTCCTTTTAAAGCTCACGCAAGTCAGTGGTA
1 CCCTTTCAAAG-CC-CACAAGTCAGTGGCAC-CCTTTCAAAGC-C-CACAAGTCAGTGGCA
* *
23117 CCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA
* * * **
23173 TCCTTTCAAAGCCCACGAGTTAGTGGCATTCTTTCAAAGCCCACGCAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCA--CAAGTCAGTGGCA
* *
23231 CCCTTTTAAAGCCCATGCAAGTCAATGGCAACCCTTTTCAAA
1 CCCTTTCAAAGCCCA--CAAGTCAGTGGC-ACCC-TTTCAAA
23273 TCACCACTGT
Statistics
Matches: 807, Mismatches: 67, Indels: 53
0.87 0.07 0.06
Matches are distributed among these distances:
55 8 0.01
56 247 0.31
57 300 0.37
58 128 0.16
59 27 0.03
60 14 0.02
61 25 0.03
62 54 0.07
63 4 0.00
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (56 bp):
CCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA
Found at i:23814 original size:20 final size:20
Alignment explanation
Indices: 23786--23860 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
23776 TCATACCCTG
23786 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
23806 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
23826 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTTTTCA
23846 ATGTATCGATACATT
1 ATGTATCGATACATT
23861 ATGTCTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:23853 original size:40 final size:39
Alignment explanation
Indices: 23786--23863 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
23776 TCATACCCTG
* *
23786 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTACAATATATCGATACAT-TATGA
* *
23826 ATGTATCGATATATTCTACAATGTATCGATACATTATG
1 ATGTATCGATACATTCTACAATATATCGATACATTATG
23864 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (39 bp):
ATGTATCGATACATTCTACAATATATCGATACATTATGA
Found at i:28259 original size:29 final size:28
Alignment explanation
Indices: 28156--28320 Score: 170
Period size: 28 Copynumber: 5.7 Consensus size: 28
28146 CTAGAACGTT
* *
28156 CATCTCTTT-AAAGCCCACAAGTTAATGG
1 CATCT-TTTCAAAGCCCACAAGTCAGTGG
* *
28184 CACCCTTTCAAAGCCCACAAGTCAGTGG
1 CATCTTTTCAAAGCCCACAAGTCAGTGG
* * *
28212 CACCCTTTCAAAACCCACAAGTCAGTGG
1 CATCTTTTCAAAGCCCACAAGTCAGTGG
* *
28240 CATTCTTTTCAAAGCCCACAAGTCAATAG
1 CA-TCTTTTCAAAGCCCACAAGTCAGTGG
*
28269 CACTCTTTTCAAAGCCCACACGAGTCGGTGG
1 CA-TCTTTTCAAAGCCCACA--AGTCAGTGG
28300 CAACTCTTTTCAAAGCCCACA
1 C-A-TCTTTTCAAAGCCCACA
28321 GAAATTAGTG
Statistics
Matches: 118, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
27 3 0.03
28 49 0.42
29 40 0.34
31 7 0.06
32 19 0.16
ACGTcount: A:0.30, C:0.32, G:0.15, T:0.23
Consensus pattern (28 bp):
CATCTTTTCAAAGCCCACAAGTCAGTGG
Found at i:28259 original size:57 final size:60
Alignment explanation
Indices: 28189--28320 Score: 180
Period size: 57 Copynumber: 2.2 Consensus size: 60
28179 AATGGCACCC
* * *
28189 TTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAACCCACA-AGTCAGTGGC-ATTCT
1 TTTCAAAGCCCACAAGTCAATAGCACTCCTTTCAAAACCCACACAGTCAGTGGCAACTCT
* * *
28246 TTTCAAAGCCCACAAGTCAATAGCACTCTTTTCAAAGCCCACACGAGTCGGTGGCAACTCT
1 TTTCAAAGCCCACAAGTCAATAGCACTCCTTTCAAAACCCACAC-AGTCAGTGGCAACTCT
28307 TTTCAAAGCCCACA
1 TTTCAAAGCCCACA
28321 GAAATTAGTG
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
57 24 0.37
58 14 0.22
60 9 0.14
61 18 0.28
ACGTcount: A:0.30, C:0.32, G:0.15, T:0.23
Consensus pattern (60 bp):
TTTCAAAGCCCACAAGTCAATAGCACTCCTTTCAAAACCCACACAGTCAGTGGCAACTCT
Found at i:28332 original size:32 final size:32
Alignment explanation
Indices: 28189--28333 Score: 105
Period size: 29 Copynumber: 4.8 Consensus size: 32
28179 AATGGCACCC
* *
28189 TTTCAAAGCCCACA--AGTCAGTGGC-AC-CC
1 TTTCAAAGCCCACACGAATCAGTGGCAACTCT
* * *
28217 TTTCAAAACCCACA--AGTCAGTGGC-ATTCT
1 TTTCAAAGCCCACACGAATCAGTGGCAACTCT
* * *
28246 TTTCAAAGCCCACA--AGTCAATAGC-ACTCT
1 TTTCAAAGCCCACACGAATCAGTGGCAACTCT
* *
28275 TTTCAAAGCCCACACGAGTCGGTGGCAACTCT
1 TTTCAAAGCCCACACGAATCAGTGGCAACTCT
*
28307 TTTCAAAGCCCACA-GAAATTAGTGGCA
1 TTTCAAAGCCCACACG-AATCAGTGGCA
28334 CCCCAAGTCG
Statistics
Matches: 99, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
28 24 0.24
29 40 0.40
31 8 0.08
32 27 0.27
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.23
Consensus pattern (32 bp):
TTTCAAAGCCCACACGAATCAGTGGCAACTCT
Found at i:28468 original size:49 final size:49
Alignment explanation
Indices: 28412--28545 Score: 205
Period size: 49 Copynumber: 2.7 Consensus size: 49
28402 GACACCTTTA
** *
28412 TTAGCCCAATGTCATTGGCCTTGAATTAGCACATTGGTCCACTTTTCCC
1 TTAGCCCAATGTCGCTGGCCTTGAATTAGCACATTAGTCCACTTTTCCC
* * *
28461 TTAGCCCAATGTCGCCGGCCTTGAATCAGCACATTAGTCCATTTTTCCC
1 TTAGCCCAATGTCGCTGGCCTTGAATTAGCACATTAGTCCACTTTTCCC
*
28510 TTAGCCCAATGCCGCTGGCCTTGAATTAGCACATTA
1 TTAGCCCAATGTCGCTGGCCTTGAATTAGCACATTA
28546 AGACTCCTCT
Statistics
Matches: 76, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
49 76 1.00
ACGTcount: A:0.22, C:0.30, G:0.17, T:0.31
Consensus pattern (49 bp):
TTAGCCCAATGTCGCTGGCCTTGAATTAGCACATTAGTCCACTTTTCCC
Found at i:29146 original size:20 final size:20
Alignment explanation
Indices: 29094--29341 Score: 88
Period size: 20 Copynumber: 11.3 Consensus size: 20
29084 AGTAGATGAT
29094 CATTCTTCAATGTATCGATA
1 CATTCTTCAATGTATCGATA
* **
29114 CATGT-ATGGATGTATCGATA
1 CAT-TCTTCAATGTATCGATA
*
29134 CATTCTTCAATGTATTGATA
1 CATTCTTCAATGTATCGATA
*
29154 CATTCTATCTTTTTACCCAGATGTATTGATA
1 CA---T-TC---TT---CA-ATGTATCGATA
*
29185 CATTTTTCAATGTATCGATA
1 CATTCTTCAATGTATCGATA
*** *
29205 CATGT-AGGACTGTATCGATA
1 CAT-TCTTCAATGTATCGATA
*
29225 CATTCTTCAATGTATTGATA
1 CATTCTTCAATGTATCGATA
*
29245 CATTCTATCTTTTTACCCAGACGTATCGATA
1 CA---T-TC---TT---CA-ATGTATCGATA
*
29276 CATTTTTCAATGTATCGATA
1 CATTCTTCAATGTATCGATA
* * * *
29296 CATGT-ATGACTATATCGATA
1 CAT-TCTTCAATGTATCGATA
*
29316 CATTTTTCAATGTATCGATA
1 CATTCTTCAATGTATCGATA
29336 CATTCT
1 CATTCT
29342 GTGTTTTTTT
Statistics
Matches: 169, Mismatches: 31, Indels: 56
0.66 0.12 0.22
Matches are distributed among these distances:
19 3 0.02
20 113 0.67
21 7 0.04
23 2 0.01
24 8 0.05
27 6 0.04
28 2 0.01
30 4 0.02
31 24 0.14
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.41
Consensus pattern (20 bp):
CATTCTTCAATGTATCGATA
Found at i:29198 original size:51 final size:51
Alignment explanation
Indices: 29122--29391 Score: 206
Period size: 51 Copynumber: 5.7 Consensus size: 51
29112 TACATGTATG
*
29122 GATGTATCGATACATTCTTCAATGTATTGATACATTCTATCTTTTTACCCA
1 GATGTATCGATACATTCTTCAATGTATCGATACATTCTATCTTTTTACCCA
* * * **
29173 GATGTATTGATACATTTTTCAATGTATCGATACA-TGTA-----GGA--C-
1 GATGTATCGATACATTCTTCAATGTATCGATACATTCTATCTTTTTACCCA
*
29215 --TGTATCGATACATTCTTCAATGTATTGATACATTCTATCTTTTTACCCA
1 GATGTATCGATACATTCTTCAATGTATCGATACATTCTATCTTTTTACCCA
* * * *
29264 GACGTATCGATACATTTTTCAATGTATCGATACA-TGTA-----TGA--C-
1 GATGTATCGATACATTCTTCAATGTATCGATACATTCTATCTTTTTACCCA
* * * * *
29306 --TATATCGATACATTTTTCAATGTATCGATACATTCTGTGTTTTTTTCCCA
1 GATGTATCGATACATTCTTCAATGTATCGATACATTCTAT-CTTTTTACCCA
* * *
29356 GATGTATCGATATATTTTTCAATATATCGATACATT
1 GATGTATCGATACATTCTTCAATGTATCGATACATT
29392 TAGTTAAAAT
Statistics
Matches: 170, Mismatches: 26, Indels: 45
0.71 0.11 0.19
Matches are distributed among these distances:
40 59 0.35
41 5 0.03
43 2 0.01
45 3 0.02
46 1 0.01
47 1 0.01
48 1 0.01
49 1 0.01
50 6 0.04
51 60 0.35
52 31 0.18
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.43
Consensus pattern (51 bp):
GATGTATCGATACATTCTTCAATGTATCGATACATTCTATCTTTTTACCCA
Found at i:29254 original size:91 final size:91
Alignment explanation
Indices: 29094--29390 Score: 461
Period size: 91 Copynumber: 3.3 Consensus size: 91
29084 AGTAGATGAT
*
29094 CATTCTTCAATGTATCGATACATGTATGGA-TGTATCGATACATTCTTCAATGTATTGATACATT
1 CATTTTTCAATGTATCGATACATGTA-GGACTGTATCGATACATTCTTCAATGTATTGATACATT
*
29158 CTATCTTTTTACCCAGATGTATTGATA
65 CTATCTTTTTACCCAGATGTATCGATA
29185 CATTTTTCAATGTATCGATACATGTAGGACTGTATCGATACATTCTTCAATGTATTGATACATTC
1 CATTTTTCAATGTATCGATACATGTAGGACTGTATCGATACATTCTTCAATGTATTGATACATTC
*
29250 TATCTTTTTACCCAGACGTATCGATA
66 TATCTTTTTACCCAGATGTATCGATA
* * * *
29276 CATTTTTCAATGTATCGATACATGTATGACTATATCGATACATTTTTCAATGTATCGATACATTC
1 CATTTTTCAATGTATCGATACATGTAGGACTGTATCGATACATTCTTCAATGTATTGATACATTC
* * *
29341 TGTGTTTTTTTCCCAGATGTATCGATA
66 TAT-CTTTTTACCCAGATGTATCGATA
* *
29368 TATTTTTCAATATATCGATACAT
1 CATTTTTCAATGTATCGATACAT
29391 TTAGTTAAAA
Statistics
Matches: 191, Mismatches: 13, Indels: 3
0.92 0.06 0.01
Matches are distributed among these distances:
90 3 0.02
91 147 0.77
92 41 0.21
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (91 bp):
CATTTTTCAATGTATCGATACATGTAGGACTGTATCGATACATTCTTCAATGTATTGATACATTC
TATCTTTTTACCCAGATGTATCGATA
Found at i:30190 original size:49 final size:49
Alignment explanation
Indices: 30079--30640 Score: 473
Period size: 49 Copynumber: 11.5 Consensus size: 49
30069 GATACAATGT
*
30079 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCATCTTTAAAA
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCA-C--CTTCATCTTTAAAA
* * * * **
30131 CCAATGTCGCTGGCCTTGAATTAGCACATTGTCACCATCATCTTTAAGT
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAAA
* *
30180 CTAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCATCTTTAAAA
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCACC-T--TCATCTTTAAAA
* * * *
30232 CCAATGTCGCTGGCCTTGAATCAGCACATTGACACCTTTATTTTTAAAA
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAAA
* * *
30281 CCAATGTCACTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAAT
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAAA
* * * * ******
30330 CCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTCGTGTCGCTGG
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAAA
* * * ** *
30379 CC--T-T-GAATCAG-CAT--ATTGGCACATT-----CGTCATCTTTAAAA
1 CCAATATCG-CT-GGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAAA
* * * * * *
30418 CCAATGTCACTAGCCTTAAATCAGCATATTGGCACCTTCATCTTTAAAG
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAAA
* * **
30467 CCAATGTCGCTGGCCTTGAATCAACACATTGGCACCTTCATCTTTAAGT
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAAA
* * *
30516 CCAATATCACTGGCCTTGAATCAGCATATTGGCGCCTTCGTCATCTTTAAAA
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCACC-T--TCATCTTTAAAA
* * * **
30568 CCAATGTCGCTGGCCTAGAATCAGCACATTGGCACCTTCATCCTTAAGT
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAAA
* *
30617 CCAATTTCGTTGGCCTTGAATCAG
1 CCAATATCGCTGGCCTTGAATCAG
30641 TGTATTGGCA
Statistics
Matches: 404, Mismatches: 86, Indels: 43
0.76 0.16 0.08
Matches are distributed among these distances:
39 7 0.02
41 3 0.01
42 4 0.01
44 16 0.04
45 1 0.00
46 4 0.01
47 2 0.00
49 250 0.62
50 1 0.00
51 3 0.01
52 113 0.28
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.31
Consensus pattern (49 bp):
CCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAAA
Found at i:30258 original size:101 final size:99
Alignment explanation
Indices: 30079--30650 Score: 586
Period size: 101 Copynumber: 5.9 Consensus size: 99
30069 GATACAATGT
* *
30079 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCATCTTTAAAACCAATGTCGCTGG
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTC-TCATCTTTAAAACCAATGTCGCTGG
* * * *
30144 CCTTGAATTAGCACATTGTCACCATCATCTTTAAG
65 CCTTGAATCAGCATATTGGCACCTTCATCTTTAAG
* * *
30179 TCTAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCATCTTTAAAACCAATGTCGCTG
1 -CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTC-TCATCTTTAAAACCAATGTCGCTG
* * * * *
30244 GCCTTGAATCAGCACATTGACACCTTTATTTTTAAAA
64 GCCTTGAATCAGCATATTGGCACCTTCATCTTT-AAG
* * *
30281 CCAATGTCACTGGCCTTGAATCAGCACATTGGCACC-T-TCATCTTTAAATCCAATATCGCTGGC
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCTCATCTTTAAAACCAATGTCGCTGGC
*
30344 CTTGAATCAGCATATTGGCGCC-T--TC-----G
66 CTTGAATCAGCATATTGGCACCTTCATCTTTAAG
* * * *
30370 ----TGTCGCTGGCCTTGAATCAGCATATTGGCACATTCGTCATCTTTAAAACCAATGTCACTAG
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTC-TCATCTTTAAAACCAATGTCGCTGG
*
30431 CCTTAAATCAGCATATTGGCACCTTCATCTTTAAAG
65 CCTTGAATCAGCATATTGGCACCTTCATCTTT-AAG
* ** * *
30467 CCAATGTCGCTGGCCTTGAATCAACACATTGGCACC-T-TCATCTTTAAGTCCAATATCACTGGC
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCTCATCTTTAAAACCAATGTCGCTGGC
* *
30530 CTTGAATCAGCATATTGGCGCCTTCGTCATCTTTAAAA
66 CTTGAATCAGCATATTGGCACC-T--TCATCTTT-AAG
* * ** * *
30568 CCAATGTCGCTGGCCTAGAATCAGCACATTGGCACC-T-TCATCCTTAAGTCCAATTTCGTTGGC
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCTCATCTTTAAAACCAATGTCGCTGGC
**
30631 CTTGAATCAGTGTATTGGCA
66 CTTGAATCAGCATATTGGCA
30651 TCTTTAACAT
Statistics
Matches: 404, Mismatches: 47, Indels: 40
0.82 0.10 0.08
Matches are distributed among these distances:
85 29 0.07
86 1 0.00
88 42 0.10
89 1 0.00
91 2 0.00
95 1 0.00
97 2 0.00
98 85 0.21
99 1 0.00
100 2 0.00
101 236 0.58
102 2 0.00
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.31
Consensus pattern (99 bp):
CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCTCATCTTTAAAACCAATGTCGCTGGC
CTTGAATCAGCATATTGGCACCTTCATCTTTAAG
Found at i:30353 original size:150 final size:148
Alignment explanation
Indices: 30079--30650 Score: 679
Period size: 150 Copynumber: 3.9 Consensus size: 148
30069 GATACAATGT
*
30079 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCATCTTTAAAACCAATGTCGCTGG
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTC-TCATCTTTAAAACCAATGTCACTGG
* * * * *
30144 CCTTGAATTAGCACATTGTCACCATCATCTTTAAGTCTAATATCGCTGGCCTTGAATCAGCATAT
65 CCTTGAATCAGCACATTGGCACCTTCATCTTTAAATCCAATATCGCTGGCCTTGAATCAGCATAT
30209 TGGCACCTTCATCATCTTTAAAA
130 TGGCACC-TC-TCATCTTT--AA
* * * *
30232 CCAATGTCGCTGGCCTTGAATCAGCACATTGACACCTT-T-ATTTTTAAAACCAATGTCACTGGC
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCTCATCTTTAAAACCAATGTCACTGGC
30295 CTTGAATCAGCACATTGGCACCTTCATCTTTAAATCCAATATCGCTGGCCTTGAATCAGCATATT
66 CTTGAATCAGCACATTGGCACCTTCATCTTTAAATCCAATATCGCTGGCCTTGAATCAGCATATT
*
30360 GG-----CGC--C-TT--
131 GGCACCTCTCATCTTTAA
* * * *
30368 -C-GTGTCGCTGGCCTTGAATCAGCATATTGGCACATTCGTCATCTTTAAAACCAATGTCACTAG
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTC-TCATCTTTAAAACCAATGTCACTGG
* * * * * *
30431 CCTTAAATCAGCATATTGGCACCTTCATCTTTAAAGCCAATGTCGCTGGCCTTGAATCAACACAT
65 CCTTGAATCAGCACATTGGCACCTTCATCTTTAAATCCAATATCGCTGGCCTTGAATCAGCATAT
30496 TGGCACCT-TCATCTTTAA
130 TGGCACCTCTCATCTTTAA
* * *
30514 GTCCAATATCACTGGCCTTGAATCAGCATATTGGCGCCTTCGTCATCTTTAAAACCAATGTCGCT
1 --CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTC-TCATCTTTAAAACCAATGTCACT
* * * * * **
30579 GGCCTAGAATCAGCACATTGGCACCTTCATCCTTAAGTCCAATTTCGTTGGCCTTGAATCAGTGT
63 GGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAATCCAATATCGCTGGCCTTGAATCAGCAT
30644 ATTGGCA
128 ATTGGCA
30651 TCTTTAACAT
Statistics
Matches: 359, Mismatches: 43, Indels: 37
0.82 0.10 0.08
Matches are distributed among these distances:
134 31 0.09
135 1 0.00
136 1 0.00
137 83 0.23
140 2 0.01
141 2 0.01
143 2 0.01
144 3 0.01
149 1 0.00
150 197 0.55
151 1 0.00
153 35 0.10
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.31
Consensus pattern (148 bp):
CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCTCATCTTTAAAACCAATGTCACTGGC
CTTGAATCAGCACATTGGCACCTTCATCTTTAAATCCAATATCGCTGGCCTTGAATCAGCATATT
GGCACCTCTCATCTTTAA
Found at i:30406 original size:36 final size:36
Alignment explanation
Indices: 30336--30406 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
30326 AAATCCAATA
* *
30336 TCGCTGGCCTTGAATCAGCATATTGGCGCCTTCGTG
1 TCGCTGGCCTTGAATCAGCATATTGGCACATTCGTG
30372 TCGCTGGCCTTGAATCAGCATATTGGCACATTCGT
1 TCGCTGGCCTTGAATCAGCATATTGGCACATTCGT
30407 CATCTTTAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.17, C:0.27, G:0.25, T:0.31
Consensus pattern (36 bp):
TCGCTGGCCTTGAATCAGCATATTGGCACATTCGTG
Found at i:30440 original size:88 final size:85
Alignment explanation
Indices: 30285--30456 Score: 236
Period size: 88 Copynumber: 2.0 Consensus size: 85
30275 TTAAAACCAA
* * * * *
30285 TGTCACTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAATCCAATATCGCTGGCCTTGAA
1 TGTCACTGGCCTTGAATCAGCACATTGGCACCGTCATCTTTAAAACCAATATCACTAGCCTTAAA
*
30350 TCAGCATATTGGCGCCTTCG
66 TCAGCATATTGGCACCTTCG
* * *
30370 TGTCGCTGGCCTTGAATCAGCATATTGGCACATTCGTCATCTTTAAAACCAATGTCACTAGCCTT
1 TGTCACTGGCCTTGAATCAGCACATTGGCAC---CGTCATCTTTAAAACCAATATCACTAGCCTT
30435 AAATCAGCATATTGGCACCTTC
63 AAATCAGCATATTGGCACCTTC
30457 ATCTTTAAAG
Statistics
Matches: 75, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
85 29 0.39
88 46 0.61
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.31
Consensus pattern (85 bp):
TGTCACTGGCCTTGAATCAGCACATTGGCACCGTCATCTTTAAAACCAATATCACTAGCCTTAAA
TCAGCATATTGGCACCTTCG
Found at i:30500 original size:186 final size:186
Alignment explanation
Indices: 30186--30556 Score: 616
Period size: 186 Copynumber: 2.0 Consensus size: 186
30176 AAGTCTAATA
* * * *
30186 TCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCATCTTTAAAACCAATGTCGCTGGCCTTGA
1 TCGCTGGCCTTGAATCAGCATATTGGCACATTCATCATCTTTAAAACCAATGTCACTAGCCTTAA
* * *
30251 ATCAGCACATTGACACCTTTATTTTTAAAACCAATGTCACTGGCCTTGAATCAGCACATTGGCAC
66 ATCAGCACATTGACACCTTCATCTTTAAAACCAATGTCACTGGCCTTGAATCAACACATTGGCAC
*
30316 CTTCATCTTTAAATCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTCGTG
131 CTTCATCTTTAAATCCAATATCACTGGCCTTGAATCAGCATATTGGCGCCTTCGTG
*
30372 TCGCTGGCCTTGAATCAGCATATTGGCACATTCGTCATCTTTAAAACCAATGTCACTAGCCTTAA
1 TCGCTGGCCTTGAATCAGCATATTGGCACATTCATCATCTTTAAAACCAATGTCACTAGCCTTAA
* * * *
30437 ATCAGCATATTGGCACCTTCATCTTTAAAGCCAATGTCGCTGGCCTTGAATCAACACATTGGCAC
66 ATCAGCACATTGACACCTTCATCTTTAAAACCAATGTCACTGGCCTTGAATCAACACATTGGCAC
*
30502 CTTCATCTTTAAGTCCAATATCACTGGCCTTGAATCAGCATATTGGCGCCTTCGT
131 CTTCATCTTTAAATCCAATATCACTGGCCTTGAATCAGCATATTGGCGCCTTCGT
30557 CATCTTTAAA
Statistics
Matches: 171, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
186 171 1.00
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.31
Consensus pattern (186 bp):
TCGCTGGCCTTGAATCAGCATATTGGCACATTCATCATCTTTAAAACCAATGTCACTAGCCTTAA
ATCAGCACATTGACACCTTCATCTTTAAAACCAATGTCACTGGCCTTGAATCAACACATTGGCAC
CTTCATCTTTAAATCCAATATCACTGGCCTTGAATCAGCATATTGGCGCCTTCGTG
Found at i:30697 original size:101 final size:101
Alignment explanation
Indices: 30370--30698 Score: 315
Period size: 101 Copynumber: 3.3 Consensus size: 101
30360 GGCGCCTTCG
* * * * ** * *
30370 TGTCGCTGGCCTTGAATCAGCATATTGGCACATTCGTCATCTTTAAAACCAATGTCACTAGCCTT
1 TGTCGCTGGCCTTGAATCAACACATTGGCAC---CTTCATCCTTAAGTCCAATATCACTGGCCTT
* * *
30435 AAATCAGCATATTGGCACCTT---CATCTTTAAAGCCAA
63 GAATCAGCATATTGGCACCTTCAACATCTCTAAAACCAA
*
30471 TGTCGCTGGCCTTGAATCAACACATTGGCACCTTCATCTTTAAGTCCAATATCACTGGCCTTGAA
1 TGTCGCTGGCCTTGAATCAACACATTGGCACCTTCATCCTTAAGTCCAATATCACTGGCCTTGAA
* ** *
30536 TCAGCATATTGGCGCCTTCGTCATCTTTAAAACCAA
66 TCAGCATATTGGCACCTTCAACATCTCTAAAACCAA
* * * **
30572 TGTCGCTGGCCTAGAATCAGCACATTGGCACCTTCATCCTTAAGTCCAATTTCGTTGGCCTTGAA
1 TGTCGCTGGCCTTGAATCAACACATTGGCACCTTCATCCTTAAGTCCAATATCACTGGCCTTGAA
** * * **
30637 TCAGTGTATTGGCATCTTTAACAT-TCCTAAGCCCAA
66 TCAGCATATTGGCACCTTCAACATCT-CTAAAACCAA
* * **
30673 TGCCGTTGGCCTTGTCTCAACACATT
1 TGTCGCTGGCCTTGAATCAACACATT
30699 AGCATTCTTC
Statistics
Matches: 192, Mismatches: 32, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
98 45 0.23
100 1 0.01
101 146 0.76
ACGTcount: A:0.25, C:0.27, G:0.16, T:0.31
Consensus pattern (101 bp):
TGTCGCTGGCCTTGAATCAACACATTGGCACCTTCATCCTTAAGTCCAATATCACTGGCCTTGAA
TCAGCATATTGGCACCTTCAACATCTCTAAAACCAA
Found at i:31471 original size:21 final size:21
Alignment explanation
Indices: 31445--31500 Score: 112
Period size: 21 Copynumber: 2.7 Consensus size: 21
31435 TTTTTGTCCA
31445 AATGTATCGATACATTTATAG
1 AATGTATCGATACATTTATAG
31466 AATGTATCGATACATTTATAG
1 AATGTATCGATACATTTATAG
31487 AATGTATCGATACA
1 AATGTATCGATACA
31501 AGGTCCCAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (21 bp):
AATGTATCGATACATTTATAG
Found at i:31583 original size:19 final size:19
Alignment explanation
Indices: 31559--31608 Score: 91
Period size: 19 Copynumber: 2.6 Consensus size: 19
31549 AAACAGTAAC
31559 TGTATCGATACATAAATGT
1 TGTATCGATACATAAATGT
*
31578 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAATGT
31597 TGTATCGATACA
1 TGTATCGATACA
31609 ATGTATCACT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (19 bp):
TGTATCGATACATAAATGT
Found at i:31748 original size:20 final size:21
Alignment explanation
Indices: 31715--31756 Score: 77
Period size: 20 Copynumber: 2.0 Consensus size: 21
31705 TTTGGGAATT
31715 TTACTCAGATGTATCGATACA
1 TTACTCAGATGTATCGATACA
31736 TTACTCA-ATGTATCGATACA
1 TTACTCAGATGTATCGATACA
31756 T
1 T
31757 GCAGGCAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (21 bp):
TTACTCAGATGTATCGATACA
Found at i:37619 original size:131 final size:131
Alignment explanation
Indices: 37437--37711 Score: 342
Period size: 132 Copynumber: 2.1 Consensus size: 131
37427 ACAGGGCTTA
37437 AGTATCCCCGATTATGAAAAATCGGTGTTCTAAAAATAAAATCAGGGTTAGAGTAT-CCCCAATT
1 AGTATCCCCGATTATGAAAAATCGGTGTTCTAAAAATAAAATCAGGGTTAGAGTATCCCCCAATT
* ** * *
37501 GTGAAAAAATAG-ATGCTTTAGAAATAAGGCCGGGGTTGGAGTATCCCCGT-GAAAATAACGGGG
66 ATGAAAAAATAGTAT--TTTAGAAATAAAACCGGGGTTGGAGTATCCCC-TCAAAAATAACGGGA
37564 TTGG
128 TTGG
* * * * * * *
37568 AGTATCCCCGATTGTGAGAAATTGGTGTTTTGAAACTAAAATC-GGAGTTAGAGTATCCCCCCGA
1 AGTATCCCCGATTATGAAAAATCGGTGTTCTAAAAATAAAATCAGG-GTTAGAGTAT-CCCCCAA
* * *
37632 TTATGAAAAATTGGTATTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCAAAAATAACGGGAT
64 TTATGAAAAAATAGTATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCAAAAATAACGGGAT
37697 TGG
129 TGG
37700 AGTATCCCCGAT
1 AGTATCCCCGAT
37712 GACATAACGA
Statistics
Matches: 124, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
130 2 0.02
131 48 0.39
132 56 0.45
133 16 0.13
134 2 0.02
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (131 bp):
AGTATCCCCGATTATGAAAAATCGGTGTTCTAAAAATAAAATCAGGGTTAGAGTATCCCCCAATT
ATGAAAAAATAGTATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCAAAAATAACGGGATTG
G
Found at i:37630 original size:53 final size:53
Alignment explanation
Indices: 37573--37680 Score: 155
Period size: 53 Copynumber: 2.0 Consensus size: 53
37563 GTTGGAGTAT
* * *
37573 CCCCGATTGTGAGAAATTGGTGTTTT-GAAACTAAAATCGGAGTTAGAGTATCC
1 CCCCGATTATGAAAAATTGGTATTTTAGAAA-TAAAATCGGAGTTAGAGTATCC
* *
37626 CCCCGATTATGAAAAATTGGTATTTTAGAAATAAAATCGGGGTTGGAGTATCC
1 CCCCGATTATGAAAAATTGGTATTTTAGAAATAAAATCGGAGTTAGAGTATCC
37679 CC
1 CC
37681 TCAAAAATAA
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
53 45 0.92
54 4 0.08
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (53 bp):
CCCCGATTATGAAAAATTGGTATTTTAGAAATAAAATCGGAGTTAGAGTATCC
Found at i:37750 original size:109 final size:107
Alignment explanation
Indices: 37614--37887 Score: 341
Period size: 109 Copynumber: 2.5 Consensus size: 107
37604 TAAAATCGGA
* *
37614 GTTAGAGTATCCCCCCGATTATGAAAAATTGGTATTTTAGAAATAAAATCGGGGTTGGAGTATCC
1 GTTAGAG--TCCCCCCGATTATGAAAAATTAGTATTTTGGAAATAAAATCGGGGTTGGAGTATCC
*
37679 CCTCAAAAATAACGGGATTGGAGTATCCCCGATGACATAACGAG
64 CCTCAAAAATAACGGGATTGGAGTATCCCCGATGAAATAACGAG
* * * **
37723 GTTAGAGTGCCCCCCGATTATGAAAAAATCAATATTTTGGATATAAAGCCGGGGTTGGAGTATCC
1 GTTAGAGT-CCCCCCGATTATG-AAAAATTAGTATTTTGGAAATAAAATCGGGGTTGGAGTATCC
*** * *
37788 CCTTGGAAATAACGGGGTTGGAGTATCCCCGATGAAATAACGGG
64 CCTCAAAAATAACGGGATTGGAGTATCCCCGATGAAATAACGAG
* ** * * *
37832 GTTTGAGTATCCCCGATTGTGAAAAATTAGTGTTTTGGAAATAAAATCGGAGTTGG
1 GTTAGAGTCCCCCCGATTATGAAAAATTAGTATTTTGGAAATAAAATCGGGGTTGG
37888 TATATCCTTG
Statistics
Matches: 139, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
107 29 0.21
108 23 0.17
109 87 0.63
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.27
Consensus pattern (107 bp):
GTTAGAGTCCCCCCGATTATGAAAAATTAGTATTTTGGAAATAAAATCGGGGTTGGAGTATCCCC
TCAAAAATAACGGGATTGGAGTATCCCCGATGAAATAACGAG
Found at i:37804 original size:28 final size:28
Alignment explanation
Indices: 37772--37848 Score: 120
Period size: 28 Copynumber: 2.8 Consensus size: 28
37762 GATATAAAGC
*
37772 CGGGGTTGGAGTATCCCC-TTGGAAATAA
1 CGGGGTTGGAGTATCCCCGAT-GAAATAA
37800 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
*
37828 CGGGGTTTGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
37849 TGTGAAAAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
28 45 0.98
29 1 0.02
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.25
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:40220 original size:20 final size:20
Alignment explanation
Indices: 40195--40249 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
40185 AAAATGCCTC
*
40195 AATGTATCGATACATTGTAA
1 AATGTATCGATACATTGCAA
*
40215 AATGTATCGATACAATGCAA
1 AATGTATCGATACATTGCAA
40235 AATGTATCGATACAT
1 AATGTATCGATACAT
40250 CTGGGTAAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.31
Consensus pattern (20 bp):
AATGTATCGATACATTGCAA
Found at i:40305 original size:13 final size:13
Alignment explanation
Indices: 40287--40312 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
40277 ACAAAGATCG
40287 ATGTATCGATACA
1 ATGTATCGATACA
40300 ATGTATCGATACA
1 ATGTATCGATACA
40313 TTGAATAATG
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):
ATGTATCGATACA
Found at i:47752 original size:20 final size:20
Alignment explanation
Indices: 47727--47800 Score: 96
Period size: 20 Copynumber: 3.7 Consensus size: 20
47717 TTTTAACTAG
47727 ATGTATCGATACATTGAAGA
1 ATGTATCGATACATTGAAGA
*
47747 ATGTATCGATACATTCATAGA
1 ATGTATCGATACATTGA-AGA
* *
47768 A-GTATTGATACATTGAAAA
1 ATGTATCGATACATTGAAGA
*
47787 ATGTATTGATACAT
1 ATGTATCGATACAT
47801 CTGGGTAAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
19 3 0.06
20 41 0.85
21 4 0.08
ACGTcount: A:0.41, C:0.09, G:0.16, T:0.34
Consensus pattern (20 bp):
ATGTATCGATACATTGAAGA
Found at i:47790 original size:40 final size:40
Alignment explanation
Indices: 47724--47871 Score: 118
Period size: 40 Copynumber: 3.9 Consensus size: 40
47714 TAATTTTAAC
* *
47724 TAGATGTATCGATACATTGAAGAATGTATCGATACATTCA
1 TAGAAGTATCGATACATTGAAAAATGTATCGATACATTCA
* *
47764 TAGAAGTATTGATACATTGAAAAATGTATTGATACA-TC-
1 TAGAAGTATCGATACATTGAAAAATGTATCGATACATTCA
* * * *
47802 T-G-GGTA---A-A-A-AGATAGAATGTATCGATACTTTCA
1 TAGAAGTATCGATACATTGA-AAAATGTATCGATACATTCA
* * *
47835 TACATGTATCGATACATTGAAAAATGTATCAATACAT
1 TAGAAGTATCGATACATTGAAAAATGTATCGATACAT
47872 CTAGGTAAAA
Statistics
Matches: 82, Mismatches: 15, Indels: 22
0.69 0.13 0.18
Matches are distributed among these distances:
30 2 0.02
31 14 0.17
32 3 0.04
33 2 0.02
35 3 0.04
36 3 0.04
37 1 0.01
38 2 0.02
39 3 0.04
40 47 0.57
41 2 0.02
ACGTcount: A:0.41, C:0.11, G:0.16, T:0.32
Consensus pattern (40 bp):
TAGAAGTATCGATACATTGAAAAATGTATCGATACATTCA
Found at i:47860 original size:71 final size:71
Alignment explanation
Indices: 47744--47882 Score: 215
Period size: 71 Copynumber: 2.0 Consensus size: 71
47734 GATACATTGA
* * ** *
47744 AGAATGTATCGATACATTCATAGAAGTATTGATACATTGAAAAATGTATTGATACATCTGGGTAA
1 AGAATGTATCGATACATTCATACAAGTATCGATACATTGAAAAATGTATCAATACATCTAGGTAA
47809 AAAGAT
66 AAAGAT
* *
47815 AGAATGTATCGATACTTTCATACATGTATCGATACATTGAAAAATGTATCAATACATCTAGGTAA
1 AGAATGTATCGATACATTCATACAAGTATCGATACATTGAAAAATGTATCAATACATCTAGGTAA
47880 AAA
66 AAA
47883 TGTAACTTTT
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
71 61 1.00
ACGTcount: A:0.42, C:0.11, G:0.16, T:0.31
Consensus pattern (71 bp):
AGAATGTATCGATACATTCATACAAGTATCGATACATTGAAAAATGTATCAATACATCTAGGTAA
AAAGAT
Found at i:47861 original size:20 final size:20
Alignment explanation
Indices: 47817--47871 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
47807 AAAAAGATAG
* *
47817 AATGTATCGATACTTTCATA
1 AATGTATCGATACATTCAAA
* *
47837 CATGTATCGATACATTGAAA
1 AATGTATCGATACATTCAAA
*
47857 AATGTATCAATACAT
1 AATGTATCGATACAT
47872 CTAGGTAAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCAAA
Found at i:48717 original size:45 final size:46
Alignment explanation
Indices: 48588--48717 Score: 154
Period size: 49 Copynumber: 2.8 Consensus size: 46
48578 AGATGAAAGG
* * *
48588 AGTGCCAATGTGCTAATTCAAGGCCAGCAACATTAGGCTAATGGAAA
1 AGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTAAT-GAAA
*
48635 AGTGGACCAATGTGCTGATTCAAGGCCAACGACATTGGGCTAAT-AAA
1 AGT-G-CCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTAATGAAA
* * * *
48682 GGTGCCAATATGCTGATTCAATGCCAGCGATATTGG
1 AGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGG
48718 ACTTTAAGAT
Statistics
Matches: 72, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
45 28 0.39
46 1 0.01
47 8 0.11
48 1 0.01
49 34 0.47
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.23
Consensus pattern (46 bp):
AGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTAATGAAA
Found at i:48894 original size:28 final size:28
Alignment explanation
Indices: 48791--49218 Score: 448
Period size: 28 Copynumber: 14.9 Consensus size: 28
48781 TAAAAAAAAA
*
48791 GTGCCACTAACTTGTGTAGGCTTTGAAAAGAG
1 GTGCCACTGACTTGTG--GGCTTTG-AAAG-G
* * * *
48823 TTGCCA-TCGATTTATGGGCTTTAAAAGG
1 GTGCCACT-GACTTGTGGGCTTTGAAAGG
*
48851 GTATGCCACTGACTTGTAGGCTTTGAAAGG
1 G--TGCCACTGACTTGTGGGCTTTGAAAGG
*
48881 GTGCCAGTGACTTGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* * * *
48909 GTGCTACTGAATTTTGAGCTTTGGAAA-G
1 GTGCCACTGACTTGTGGGCTTT-GAAAGG
* * *
48937 GTGCGATTGATTTGTGTGGGCTTTGAAAGG
1 GTGCCACTGA-CT-TGTGGGCTTTGAAAGG
*
48967 GTATGCTACTGACTTGTGGGCTTTGAAAGG
1 G--TGCCACTGACTTGTGGGCTTTGAAAGG
* *
48997 GTGCCACTGACTTATGGGATTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* *
49025 ATGCCACTGACTTGTGGTCTTTTGAAAGG
1 GTGCCACTGACTTGTGGGC-TTTGAAAGG
*
49054 ATGCCACTGACTTGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* * *
49082 ATGCCACTAACTTGTGAGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* *
49110 ATGCCACTAACTTGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
*
49138 GTGCCACTGACTTGTGGGCTTTGAAAAG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
*
49166 ATGCCACT-AGCTTGTGGGCTTTGAAAGG
1 GTGCCACTGA-CTTGTGGGCTTTGAAAGG
* *
49194 ATGCCACTGACCTGTGGGCTTTGAA
1 GTGCCACTGACTTGTGGGCTTTGAA
49219 GACATAAACG
Statistics
Matches: 341, Mismatches: 42, Indels: 30
0.83 0.10 0.07
Matches are distributed among these distances:
27 1 0.00
28 224 0.66
29 41 0.12
30 55 0.16
31 3 0.01
32 17 0.05
ACGTcount: A:0.23, C:0.16, G:0.31, T:0.31
Consensus pattern (28 bp):
GTGCCACTGACTTGTGGGCTTTGAAAGG
Found at i:50489 original size:8 final size:8
Alignment explanation
Indices: 50471--50549 Score: 63
Period size: 8 Copynumber: 9.9 Consensus size: 8
50461 TAGAACCCTT
50471 TTTTGTTTG
1 TTTT-TTTG
50480 TTTTTTTG
1 TTTTTTTG
*
50488 -TTTTTGG
1 TTTTTTTG
**
50495 TTTTTTCAA
1 TTTTTT-TG
50504 TTTTTTTG
1 TTTTTTTG
*
50512 TTTTTTTA
1 TTTTTTTG
*
50520 TTTTTTTC
1 TTTTTTTG
**
50528 TTGGTTT-
1 TTTTTTTG
50535 TTTTTTTG
1 TTTTTTTG
50543 TTTTTTT
1 TTTTTTT
50550 TGGTACAAAT
Statistics
Matches: 56, Mismatches: 11, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
7 11 0.20
8 35 0.62
9 10 0.18
ACGTcount: A:0.04, C:0.03, G:0.11, T:0.82
Consensus pattern (8 bp):
TTTTTTTG
Found at i:50538 original size:21 final size:21
Alignment explanation
Indices: 50469--50553 Score: 61
Period size: 21 Copynumber: 4.0 Consensus size: 21
50459 TCTAGAACCC
* *
50469 TTTTTTGTTTGTTTTT-TTGT
1 TTTTTTTTTTGTTTTTCTTGG
*
50489 TTTTGGTTTTTTCAATTTTT-TT-G
1 TTTT--TTTTTT--GTTTTTCTTGG
*
50512 TTTTTTTATT-TTTTTCTTGG
1 TTTTTTTTTTGTTTTTCTTGG
*
50532 TTTTTTTTTTGTTTTTTTTGG
1 TTTTTTTTTTGTTTTTCTTGG
50553 T
1 T
50554 ACAAATGATG
Statistics
Matches: 52, Mismatches: 6, Indels: 13
0.73 0.08 0.18
Matches are distributed among these distances:
18 5 0.10
19 2 0.04
20 14 0.27
21 15 0.29
22 5 0.10
23 4 0.08
24 7 0.13
ACGTcount: A:0.04, C:0.02, G:0.13, T:0.81
Consensus pattern (21 bp):
TTTTTTTTTTGTTTTTCTTGG
Found at i:62723 original size:10 final size:11
Alignment explanation
Indices: 62701--62729 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
62691 GGCGTTTTTA
62701 TGAAAAATGTT
1 TGAAAAATGTT
62712 TGAAAAAT-TT
1 TGAAAAATGTT
62722 TGAAAAAT
1 TGAAAAAT
62730 CATCTAGTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.52, C:0.00, G:0.14, T:0.34
Consensus pattern (11 bp):
TGAAAAATGTT
Found at i:71451 original size:1 final size:1
Alignment explanation
Indices: 71447--71516 Score: 50
Period size: 1 Copynumber: 70.0 Consensus size: 1
71437 TCCTTTTTCT
* * * * * * * * * *
71447 AAAAAAAACAACAAAAACAAAAAAACAACAAAAAATAAAAAAAAACAACAAAAAAAGAGAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
71512 AAAAA
1 AAAAA
71517 GAGAAAAGAA
Statistics
Matches: 49, Mismatches: 20, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
1 49 1.00
ACGTcount: A:0.86, C:0.10, G:0.03, T:0.01
Consensus pattern (1 bp):
A
Found at i:71470 original size:17 final size:17
Alignment explanation
Indices: 71448--71502 Score: 71
Period size: 17 Copynumber: 3.4 Consensus size: 17
71438 CCTTTTTCTA
71448 AAAAAAACAACAAAAAC
1 AAAAAAACAACAAAAAC
71465 AAAAAAACAACAAAAA-
1 AAAAAAACAACAAAAAC
* *
71481 ATAAAAA-AA-AACAAC
1 AAAAAAACAACAAAAAC
71496 AAAAAAA
1 AAAAAAA
71503 GAGAAAAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
14 4 0.12
15 8 0.24
16 6 0.18
17 16 0.47
ACGTcount: A:0.85, C:0.13, G:0.00, T:0.02
Consensus pattern (17 bp):
AAAAAAACAACAAAAAC
Found at i:71476 original size:11 final size:11
Alignment explanation
Indices: 71462--71502 Score: 59
Period size: 10 Copynumber: 3.9 Consensus size: 11
71452 AAACAACAAA
71462 AACAAAAAAAC
1 AACAAAAAAAC
*
71473 AAC-AAAAAAT
1 AACAAAAAAAC
71483 AA-AAAAAAAC
1 AACAAAAAAAC
71493 AACAAAAAAA
1 AACAAAAAAA
71503 GAGAAAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
10 16 0.62
11 10 0.38
ACGTcount: A:0.85, C:0.12, G:0.00, T:0.02
Consensus pattern (11 bp):
AACAAAAAAAC
Found at i:71476 original size:20 final size:19
Alignment explanation
Indices: 71447--71512 Score: 82
Period size: 20 Copynumber: 3.4 Consensus size: 19
71437 TCCTTTTTCT
71447 AAAAAAAACAAC--AAAAA
1 AAAAAAAACAACAAAAAAA
*
71464 CAAAAAAACAACAAAAAATA
1 AAAAAAAACAACAAAAAA-A
71484 AAAAAAAACAACAAAAAAA
1 AAAAAAAACAACAAAAAAA
71503 GAGAAAAAAA
1 -A-AAAAAAA
71513 AAAAGAGAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
17 11 0.26
19 5 0.12
20 19 0.45
21 7 0.17
ACGTcount: A:0.85, C:0.11, G:0.03, T:0.02
Consensus pattern (19 bp):
AAAAAAAACAACAAAAAAA
Found at i:71517 original size:14 final size:15
Alignment explanation
Indices: 71496--71528 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
71486 AAAAAACAAC
71496 AAAAAAAGAGAAAA-
1 AAAAAAAGAGAAAAG
71510 AAAAAAAGAGAAAAG
1 AAAAAAAGAGAAAAG
71525 AAAA
1 AAAA
71529 GAACCTGCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (15 bp):
AAAAAAAGAGAAAAG
Found at i:71523 original size:24 final size:23
Alignment explanation
Indices: 71483--71531 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
71473 AACAAAAAAT
*
71483 AAAAAAAAACAACAAAA-AAAGAG
1 AAAAAAAAAAAACAAAAGAAA-AG
*
71506 AAAAAAAAAAAGAGAAAAGAAAAG
1 AAAAAAAAAAA-ACAAAAGAAAAG
71530 AA
1 AA
71532 CCTGCTTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 10 0.45
24 9 0.41
25 3 0.14
ACGTcount: A:0.84, C:0.04, G:0.12, T:0.00
Consensus pattern (23 bp):
AAAAAAAAAAAACAAAAGAAAAG
Found at i:72708 original size:29 final size:29
Alignment explanation
Indices: 72675--72767 Score: 75
Period size: 29 Copynumber: 3.2 Consensus size: 29
72665 GACGCCTTTT
72675 CCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTTCAAAGCCCACACAAGTTGGTGGCA
* ** ***
72704 CCTTTC--AGTCCTCA-AAAAGCAGGATGTTTT
1 CCTTTCAAAG-CC-CACACAAGTTGG-TG-GCA
72734 CCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTTCAAAGCCCACACAAGTTGGTGGCA
72763 CCTTT
1 CCTTT
72768 TAGTCCTCAA
Statistics
Matches: 45, Mismatches: 12, Indels: 14
0.63 0.17 0.20
Matches are distributed among these distances:
27 2 0.04
28 8 0.18
29 15 0.33
30 10 0.22
31 8 0.18
32 2 0.04
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (29 bp):
CCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:72754 original size:59 final size:59
Alignment explanation
Indices: 72459--73079 Score: 746
Period size: 59 Copynumber: 10.4 Consensus size: 59
72449 AACCTTTTAT
* * *
72459 CCTTTCAGTCCTCAAAGTA-CAGGATGCCTTTTTCTTTTCAAAGGCCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAG-AGCAGGA---CGTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * * * * *
72521 CCTTTCAGTCCTTAAAAACCAGGATGCCTTCTCCTTTTAAAGCCTACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGA--CGTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * * * *
72582 CCTTTTAATCCTTAAAGAGCAAGACGCCTTTTCCTTTTAAAGCCTACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACG--TTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * * *
72643 CATGTCAGTCCTTAAACAGCAAGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACG--TTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
72704 CCTTTCAGTCCTCAAAAAGCAGGATGTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
72763 CCTTTTAGTCCTCAAAGAGCAGGATGTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
*
72822 CC-TTCTAGTCCTCAAAGAGCAGGACGTTTTCCTTTCAAAGCCCACACAAGTTGGTGGTA
1 CCTTTC-AGTCCTCAAAGAGCAGGACGTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
** * *
72881 CCTCCCAGTCCTCAAAGAGCAGGACGTTTTCCTTTCAAACCCCACATAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * *
72940 CCTTCCAGTCCTCAAAGAGTAGGATGCTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
72999 CC-TTCTAGTCCTCAAAGAACAGGACATTTTCCTTTGAAAGCCCACACAAGTTGGTGGCA
1 CCTTTC-AGTCCTCAAAGAGCAGGACGTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
73058 CC-TTCTTGTCCCCAAAGAGCAG
1 CCTTTC-AGTCCTCAAAGAGCAG
73080 AATGCGCTTT
Statistics
Matches: 497, Mismatches: 56, Indels: 15
0.88 0.10 0.03
Matches are distributed among these distances:
58 4 0.01
59 317 0.64
60 1 0.00
61 155 0.31
62 20 0.04
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (59 bp):
CCTTTCAGTCCTCAAAGAGCAGGACGTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:73913 original size:22 final size:21
Alignment explanation
Indices: 73885--73926 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
73875 CTTTTCTTGA
*
73885 TTTTGCTTTTATTTTGTTTTTT
1 TTTTGCTATTATTTT-TTTTTT
*
73907 TTTTGCTATTCTTTTTTTTT
1 TTTTGCTATTATTTTTTTTT
73927 CATTTTAAGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.05, C:0.07, G:0.07, T:0.81
Consensus pattern (21 bp):
TTTTGCTATTATTTTTTTTTT
Found at i:73932 original size:22 final size:22
Alignment explanation
Indices: 73884--73932 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
73874 CCTTTTCTTG
*
73884 ATTTTGCTTTTATTTTGTTTTT
1 ATTTTGCTATTATTTTGTTTTT
* *
73906 TTTTTGCTATTCTTTT-TTTTT
1 ATTTTGCTATTATTTTGTTTTT
73927 CATTTT
1 -ATTTT
73933 AAGCTTTTGC
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.08, C:0.08, G:0.06, T:0.78
Consensus pattern (22 bp):
ATTTTGCTATTATTTTGTTTTT
Found at i:76619 original size:28 final size:28
Alignment explanation
Indices: 76579--76634 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
76569 TTTCCACAAT
76579 CGGAGATACTCCAACCCCATTATTTTCG
1 CGGAGATACTCCAACCCCATTATTTTCG
76607 CGGAGATACTCCAACCCCATTATTTTCG
1 CGGAGATACTCCAACCCCATTATTTTCG
76635 AGGGAAAACT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.25, C:0.32, G:0.14, T:0.29
Consensus pattern (28 bp):
CGGAGATACTCCAACCCCATTATTTTCG
Found at i:76645 original size:28 final size:28
Alignment explanation
Indices: 76579--76648 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
76569 TTTCCACAAT
*
76579 CGGAGATACTCCAACCCCATTATTTTCG
1 CGGAGAAACTCCAACCCCATTATTTTCG
*
76607 CGGAGATACTCCAACCCCATTATTTTCG
1 CGGAGAAACTCCAACCCCATTATTTTCG
*
76635 AGG-GAAAACTCCAA
1 CGGAG-AAACTCCAA
76649 TCCCGATTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
27 1 0.03
28 38 0.97
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.24
Consensus pattern (28 bp):
CGGAGAAACTCCAACCCCATTATTTTCG
Found at i:76843 original size:78 final size:78
Alignment explanation
Indices: 76611--77223 Score: 594
Period size: 79 Copynumber: 7.7 Consensus size: 78
76601 TTTTCGCGGA
* * * * * * *
76611 GATACTCCAACCCCATTATTTTCG-AGGGAAAACTCCAATCCCGATTTTAATTCCAAAATACTAA
1 GATACTCCAACCTCGTTATTTT-GAAGGG-ATACTCCAACCCCGATTTTATTTCCAAAACACCAA
* *
76675 TTTTTCATAATCGAG
64 TTTTTCACAATCGGG
* * * *
76690 GATACTCCAATCTCATTATTTTCGAGGGGATGGGATACTCCAACCTCGAATTTATTTCCAAAACA
1 GATACTCCAACCTCGTTATTTT-GA----A-GGGATACTCCAACCCCGATTTTATTTCCAAAACA
* *
76755 CTAATTTTTCATAATCGGG
60 CCAATTTTTCACAATCGGG
* *
76774 GATAC-CCAACCTCGTTATTTCTGAAGGGATACTCCGACCCCGGTTTTATTTCCAAAACACCAAT
1 GATACTCCAACCTCGTTATTT-TGAAGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAAT
*
76838 ATTTCACAATCGGG
65 TTTTCACAATCGGG
* * *
76852 GATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCCAAAATACCAAT
1 GATACTCCAACCTCGTTATTTT-GAAGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAAT
*
76917 TTTTCACAATTGGG
65 TTTTCACAATCGGG
* * * * *
76931 GATACTCCAACC-CTATTATTTTCGAGGGGATACTCCAACCCCGGTTTTATTTCCAAAACATCAG
1 GATACTCCAACCTC-GTTATTTT-GAAGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAA
* *
76995 TTTTTCACAATCAGT
64 TTTTTCACAATCGGG
* * * * *
77010 GATACTCCAACCTCGTTATTTTCAAGGGGATACTCTAACCCTGATTTTATTT-TAAAATACCAA-
1 GATACTCCAACCTCGTTATTTTGAA-GGGATACTCCAACCCCGATTTTATTTCCAAAACACCAAT
77073 TTTTCTACAATCGGG
65 TTTTC-ACAATCGGG
* * * * * * *
77088 GATACTCCAACC-CTATTATTTCTGATGGGATATTCCAACCTCGATTTTATTTCTATAACATCAA
1 GATACTCCAACCTC-GTTATTT-TGAAGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAA
* *
77152 TTTTTTATAATC-GG
64 TTTTTCACAATCGGG
* * *
77166 GATACTCCAACCCCGTTATTTTTGAAAGGATACTCCAACCCCG-TCTTTATCTCCAAAA
1 GATACTCCAACCTCGTTA-TTTTGAAGGGATACTCCAACCCCGAT-TTTATTTCCAAAA
77224 TATTAAAATT
Statistics
Matches: 449, Mismatches: 65, Indels: 41
0.81 0.12 0.07
Matches are distributed among these distances:
77 7 0.02
78 152 0.34
79 217 0.48
80 5 0.01
83 15 0.03
84 50 0.11
85 3 0.01
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (78 bp):
GATACTCCAACCTCGTTATTTTGAAGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATT
TTTCACAATCGGG
Found at i:77224 original size:157 final size:158
Alignment explanation
Indices: 76611--77225 Score: 642
Period size: 157 Copynumber: 3.9 Consensus size: 158
76601 TTTTCGCGGA
* * * * * *
76611 GATACTCCAACCCCATTATTT-TCG-AGGGAAAACTCCAATCCCGATTTTAATTCCAAAATA-CT
1 GATACTCCAACCCTATTATTTCT-GAAGGG-ATACTCCAACCCCGGTTTTATTTCCAAAACATC-
* * * * * *
76673 AATTTTTCATAATC-GAGGATACTCCAATCTCATTATTTTCGAGGGGATGGGATACTCCAACCTC
63 AATTTTTCACAATCAG-GGATACTCCAACCCCGTTATTTTTGA----A-GGGATACTCCAACCCC
* * * *
76737 GAATTTATTTCCAAAACACTAATTTTTCATAATCGGG
122 GATTTTATTTCCAAAATACCAATTTTTCACAATCGGG
* * *
76774 GATAC-CCAA-CCTCGTTATTTCTGAAGGGATACTCCGACCCCGGTTTTATTTCCAAAACACCAA
1 GATACTCCAACCCT-ATTATTTCTGAAGGGATACTCCAACCCCGGTTTTATTTCCAAAACATCAA
* * * *
76837 TATTTCACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTAT
65 TTTTTCACAATCAGGGATACTCCAACCCCGTTATTTTTGAAGGGATACTCCAACCCCGATTTTAT
*
76902 TTCCAAAATACCAATTTTTCACAATTGGG
130 TTCCAAAATACCAATTTTTCACAATCGGG
* *
76931 GATACTCCAACCCTATTATTT-TCGAGGGGATACTCCAACCCCGGTTTTATTTCCAAAACATCAG
1 GATACTCCAACCCTATTATTTCT-GAAGGGATACTCCAACCCCGGTTTTATTTCCAAAACATCAA
* * * * *
76995 TTTTTCACAATCAGTGATACTCCAACCTCGTTA-TTTTCAAGGGGATACTCTAACCCTGATTTTA
65 TTTTTCACAATCAGGGATACTCCAACCCCGTTATTTTTGAA-GGGATACTCCAACCCCGATTTTA
*
77059 TTT-TAAAATACCAA-TTTTCTACAATCGGG
129 TTTCCAAAATACCAATTTTTC-ACAATCGGG
* * * * * *
77088 GATACTCCAACCCTATTATTTCTGATGGGATATTCCAACCTCGATTTTATTTCTATAACATCAAT
1 GATACTCCAACCCTATTATTTCTGAAGGGATACTCCAACCCCGGTTTTATTTCCAAAACATCAAT
* * *
77153 TTTTTATAATC-GGGATACTCCAACCCCGTTATTTTTGAAAGGATACTCCAACCCCG-TCTTTAT
66 TTTTCACAATCAGGGATACTCCAACCCCGTTATTTTTGAAGGGATACTCCAACCCCGAT-TTTAT
*
77216 CTCCAAAATA
130 TTCCAAAATA
77226 TTAAAATTTT
Statistics
Matches: 385, Mismatches: 53, Indels: 34
0.82 0.11 0.07
Matches are distributed among these distances:
155 1 0.00
156 43 0.11
157 152 0.39
158 101 0.26
159 3 0.01
161 2 0.01
162 71 0.18
163 12 0.03
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (158 bp):
GATACTCCAACCCTATTATTTCTGAAGGGATACTCCAACCCCGGTTTTATTTCCAAAACATCAAT
TTTTCACAATCAGGGATACTCCAACCCCGTTATTTTTGAAGGGATACTCCAACCCCGATTTTATT
TCCAAAATACCAATTTTTCACAATCGGG
Found at i:78438 original size:19 final size:19
Alignment explanation
Indices: 78414--78463 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
78404 AAATCGTAAC
78414 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
*
78433 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAGTGT
*
78452 TGTATCAATACA
1 TGTATCGATACA
78464 ATGTATCGCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.38
Consensus pattern (19 bp):
TGTATCGATACATAAGTGT
Found at i:82160 original size:13 final size:13
Alignment explanation
Indices: 82142--82170 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
82132 TACATTGTTT
82142 ATTGTATCGATAC
1 ATTGTATCGATAC
82155 ATTGTATCGATAC
1 ATTGTATCGATAC
82168 ATT
1 ATT
82171 ATGGGTTTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.41
Consensus pattern (13 bp):
ATTGTATCGATAC
Found at i:84560 original size:51 final size:51
Alignment explanation
Indices: 84496--84613 Score: 141
Period size: 51 Copynumber: 2.3 Consensus size: 51
84486 TTCTTCTTGG
* * * *
84496 GGATACTCTAACCCCTATTTTATTTCCAAAACA-TGAATTTTTCACAATCG-
1 GGATACTCCAACCCCGACTTTATTTCCAAAACATTG-ATTTCTCACAATCGA
* * *
84546 GGTATACTCCAACCCCGGCTTTATTTCTAAAATATTGATTTCTCACAATCGA
1 GG-ATACTCCAACCCCGACTTTATTTCCAAAACATTGATTTCTCACAATCGA
84598 GGATACTCCAACCCCG
1 GGATACTCCAACCCCG
84614 TTATTTTCGT
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
50 2 0.03
51 52 0.90
52 4 0.07
ACGTcount: A:0.30, C:0.27, G:0.11, T:0.32
Consensus pattern (51 bp):
GGATACTCCAACCCCGACTTTATTTCCAAAACATTGATTTCTCACAATCGA
Found at i:84745 original size:79 final size:80
Alignment explanation
Indices: 84549--84852 Score: 273
Period size: 79 Copynumber: 3.9 Consensus size: 80
84539 ACAATCGGGT
* ** * ** *
84549 ATACTCCAACCCCGGCTTTA-TTTCTAAAATATTGATTTCTCACAATCGAGGATACTCCAACCCC
1 ATACTCCAACCCTGATTTTATTTTCTAAAACACCGATTTTTCACAATCGAGGATACTCCAACCCC
*
84613 GTTATTTTCGTGGGG
66 GTTATTTTCGAGGGG
* *** * * *
84628 ATACTCCAACTCTGGCCTT-TTTTCTAAAGCATCAATTTTTCACAATCGAGGATACTCCAACCCC
1 ATACTCCAACCCTGATTTTATTTTCTAAAACACCGATTTTTCACAATCGAGGATACTCCAACCCC
* *
84692 GTTATTTTCGAAGGA
66 GTTATTTTCGAGGGG
* * *
84707 ATACTCCAACCCTGATTTTATTTTC-AAAACACCGA-TTTTCTATAAT-GAGGGATACTCTAATC
1 ATACTCCAACCCTGATTTTATTTTCTAAAACACCGATTTTTC-ACAATCGA-GGATACTCCAACC
**
84769 TTGTTATATTT-GAGGGG
64 CCGTTAT-TTTCGAGGGG
* * * * *
84786 ATACTCTAATCCC-GATTTTA-TTTCTAGAACACCGATTTTTCATAATCAAGGATACTCCAGCCC
1 ATACTCCAA-CCCTGATTTTATTTTCTAAAACACCGATTTTTCACAATCGAGGATACTCCAACCC
84849 CGTT
65 CGTT
84853 CTTATCCCCA
Statistics
Matches: 183, Mismatches: 33, Indels: 18
0.78 0.14 0.08
Matches are distributed among these distances:
78 11 0.06
79 155 0.85
80 17 0.09
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (80 bp):
ATACTCCAACCCTGATTTTATTTTCTAAAACACCGATTTTTCACAATCGAGGATACTCCAACCCC
GTTATTTTCGAGGGG
Found at i:85569 original size:51 final size:51
Alignment explanation
Indices: 85510--85613 Score: 199
Period size: 51 Copynumber: 2.0 Consensus size: 51
85500 AATCCTTCCT
*
85510 CACGCGTAACCAACTCTCGAACCCAAACACAAATCTTCAAATTATGTAGAC
1 CACGCGTAACCAACTCTCGAACCCAAACACAAATCTTCAAATTACGTAGAC
85561 CACGCGTAACCAACTCTCGAACCCAAACACAAATCTTCAAATTACGTAGAC
1 CACGCGTAACCAACTCTCGAACCCAAACACAAATCTTCAAATTACGTAGAC
85612 CA
1 CA
85614 TGGGATCGAT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.39, C:0.33, G:0.10, T:0.18
Consensus pattern (51 bp):
CACGCGTAACCAACTCTCGAACCCAAACACAAATCTTCAAATTACGTAGAC
Found at i:97107 original size:15 final size:16
Alignment explanation
Indices: 97087--97126 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
97077 TCTTTTTTTT
*
97087 AAAAAAAGCAAAA-AA
1 AAAAAAAACAAAACAA
97102 AAAAAAAACAAAACAA
1 AAAAAAAACAAAACAA
97118 AGAAAAAAA
1 A-AAAAAAA
97127 GAGAGAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 12 0.55
16 3 0.14
17 7 0.32
ACGTcount: A:0.88, C:0.07, G:0.05, T:0.00
Consensus pattern (16 bp):
AAAAAAAACAAAACAA
Found at i:97141 original size:8 final size:8
Alignment explanation
Indices: 97087--97128 Score: 50
Period size: 9 Copynumber: 5.1 Consensus size: 8
97077 TCTTTTTTTT
97087 AAAAAAAG
1 AAAAAAAG
97095 CAAAAAAA-
1 -AAAAAAAG
*
97103 AAAAAAAC
1 AAAAAAAG
97111 AAAACAAAG
1 AAAA-AAAG
97120 AAAAAAAG
1 AAAAAAAG
97128 A
1 A
97129 GAGAAAAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
7 7 0.23
8 9 0.30
9 14 0.47
ACGTcount: A:0.86, C:0.07, G:0.07, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:98408 original size:61 final size:61
Alignment explanation
Indices: 98201--98986 Score: 1036
Period size: 61 Copynumber: 13.0 Consensus size: 61
98191 CTCCTTTCAC
* *
98201 CCTT-TAGTCCTCAAAGAGTAGGACGCC-TTT-C----AAAGCCCACACAAGCTGGTGGCA
1 CCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * *
98255 CCTTC-AGTCCTCAAAGAGCAGAACGTCTTCTCCTTTTAAAGCCCACACAAGTTGGTGACA
1 CCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
98315 CTTTTATAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 C-CTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
98377 CCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
98438 CTTTTCTAGTCCTCAAAGAGCAGGATGCCTTTT-TTTTTAAAGCCCACACAAGTTGGTGGCA
1 C-CTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * * *
98499 CTTTTCTAGTCTTTAAAGAGCAAGACGCCTTTTCCTTTTCAAGCCCACACAAGTTTGTGGCA
1 C-CTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
98561 CCTTCTAGTCCTCAAAGAGCAAGATGCCTTTTCCTTTTCAAGCCCACACAAGTTGGTGGCA
1 CCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
98622 CCTTCTAGTCCTCAAAGAGC-GAGATGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGACA
1 CCTTCTAGTCCTCAAAGAGCAG-GACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * *
98683 CTTTGTAGTCCTCAAAGAGCGGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * ** *
98744 CCTTC-AATCCTCAAAGAGCGGGACACCTTTTCCTTTTAAAGGTCACGCAAGTTGGTGGCA
1 CCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
98804 CCTTCTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCTACACAAGTTGGTAGCA
1 CCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * *
98865 CTTTTTAGTCCTCAAGGAGCAGGACGCCTTTTCTTTTTAAAGCCCACACAAATTGGTGGCA
1 CCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * ** *
98926 CCTTCCAGTCCTCAAAGAGCAGGATGCTTTTTCCTTGCAAAGCCCATACAAGTTGGTGGCA
1 CCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
98987 AACCTTTCCA
Statistics
Matches: 645, Mismatches: 73, Indels: 21
0.87 0.10 0.03
Matches are distributed among these distances:
54 23 0.04
55 2 0.00
56 1 0.00
60 76 0.12
61 435 0.67
62 108 0.17
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.28
Consensus pattern (61 bp):
CCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:98905 original size:243 final size:243
Alignment explanation
Indices: 98226--98986 Score: 1085
Period size: 243 Copynumber: 3.1 Consensus size: 243
98216 GAGTAGGACG
* * * *
98226 CCTTTCAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGAACGTCTTCTCCTTT
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTT
* * * *
98291 TAAAGCCCACACAAGTTGGTGACACTTTTATAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAA
66 TAAAGCCCACACAAGTTGGTGGCAC-CTTCTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAA
98356 AGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCC
130 AGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCC
98421 CACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGATGCCTTTT
195 CACACAAGTTGGTGGCAC-TTTCTAGTCCTCAAAGAGCAGGATGCCTTTT
* * * * * *
98471 -TTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCTTTAAAGAGCAAGACGCCTTTTCCT
1 CCTTTCAAAGCCCACACAAGTTGGTGGCAC-CTTC-AGTCCTCAAAGAGCAGGACGCCTTTTCCT
* * * *
98535 TTTCAAGCCCACACAAGTTTGTGGCACCTTCTAGTCCTCAAAGAGCAAGATGCCTTTTCCTTTTC
64 TTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTA
* *
98600 AAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGC-GAGATGTCTTTTCCTTTTAAAG
129 AAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAG-GACGCCTTTTCCTTTTAAAG
* * *
98664 CCCACACAAGTTGGTGACACTTTGTAGTCCTCAAAGAGCGGGATGCCTTTT
193 CCCACACAAGTTGGTGGCACTTTCTAGTCCTCAAAGAGCAGGATGCCTTTT
* * * *
98715 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAATCCTCAAAGAGCGGGACACCTTTTCCTTT
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTT
** *
98780 TAAAGGTCACGCAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAA
66 TAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAA
* * * * * *
98845 GCCTACACAAGTTGGTAGCACTTTTTAGTCCTCAAGGAGCAGGACGCCTTTTCTTTTTAAAGCCC
131 GCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCC
* * * *
98910 ACACAAATTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGATGCTTTTT
196 ACACAAGTTGGTGGCACTTTCTAGTCCTCAAAGAGCAGGATGCCTTTT
* *
98958 CCTTGCAAAGCCCATACAAGTTGGTGGCA
1 CCTTTCAAAGCCCACACAAGTTGGTGGCA
98987 AACCTTTCCA
Statistics
Matches: 455, Mismatches: 56, Indels: 12
0.87 0.11 0.02
Matches are distributed among these distances:
243 205 0.45
244 60 0.13
245 143 0.31
246 47 0.10
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (243 bp):
CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTT
TAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAA
GCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCC
ACACAAGTTGGTGGCACTTTCTAGTCCTCAAAGAGCAGGATGCCTTTT
Found at i:99310 original size:13 final size:13
Alignment explanation
Indices: 99292--99321 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
99282 ATACATTGTT
99292 CATTGTATCGATA
1 CATTGTATCGATA
99305 CATTGTATCGATA
1 CATTGTATCGATA
99318 CATT
1 CATT
99322 CTAGGTTTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:101742 original size:51 final size:51
Alignment explanation
Indices: 101679--101787 Score: 139
Period size: 51 Copynumber: 2.1 Consensus size: 51
101669 GGGATACTTT
* * *
101679 AACCTCGGTTTTATTT-TCAAAACATCAATTTTTCACAATCGGAGATATTCC
1 AACCCCGGTTTTATTTCT-AAAACATCAATTTCTCACAATCGGAGATACTCC
* ** *
101730 AACCCCGGTTTTATTTCTAAAATATTGATTTCTCACAATCGGGGATACTCC
1 AACCCCGGTTTTATTTCTAAAACATCAATTTCTCACAATCGGAGATACTCC
101781 AACCCCG
1 AACCCCG
101788 TTATTTTCGT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
51 49 0.98
52 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.34
Consensus pattern (51 bp):
AACCCCGGTTTTATTTCTAAAACATCAATTTCTCACAATCGGAGATACTCC
Found at i:101858 original size:79 final size:80
Alignment explanation
Indices: 101722--102026 Score: 329
Period size: 79 Copynumber: 3.9 Consensus size: 80
101712 CACAATCGGA
* * * * *
101722 GATATTCCAACCCCGGTTTTATTTCTAAAATATTGA-TTTCTCACAATC-GGGGATACTCCAACC
1 GATACTCCAACCCCGATTTTATTTCTAAAACACTGATTTTC-CACAATCAGAGGATACTCCAACC
*
101785 CCGTTATTTTCGTGGG
65 CCGTTATTTTCGAGGG
* *** * *
101801 GATACTCCAACCTCGGCCTTATTTCTAAAGCA-TCGATTTTCCACAATCAGA-GATACTCCAACT
1 GATACTCCAACCCCGATTTTATTTCTAAAACACT-GATTTTCCACAATCAGAGGATACTCCAACC
*
101864 CCATTATTTTCGAGGG
65 CCGTTATTTTCGAGGG
* * * *
101880 GATACTCCAACCCCAATTTTATTT-TCAAAACACTGATTTTCTATAATCA-AGGATACTCTAACC
1 GATACTCCAACCCCGATTTTATTTCT-AAAACACTGATTTTCCACAATCAGAGGATACTCCAACC
**
101943 TTGTTA-TTTCTGAGGG
65 CCGTTATTTTC-GAGGG
* *
101959 GATACTCCAACCCCGATTTTATTTCTAGAACACTGATTTTCCATAATC-GAGGATACTCCAACCC
1 GATACTCCAACCCCGATTTTATTTCTAAAACACTGATTTTCCACAATCAGAGGATACTCCAACCC
102023 CGTT
66 CGTT
102027 GTTATCCCCA
Statistics
Matches: 188, Mismatches: 29, Indels: 18
0.80 0.12 0.08
Matches are distributed among these distances:
78 7 0.04
79 174 0.93
80 7 0.04
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (80 bp):
GATACTCCAACCCCGATTTTATTTCTAAAACACTGATTTTCCACAATCAGAGGATACTCCAACCC
CGTTATTTTCGAGGG
Found at i:108049 original size:13 final size:14
Alignment explanation
Indices: 108031--108062 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
108021 TAATTTTTCG
108031 TAAAAATAAA-ACA
1 TAAAAATAAACACA
108044 TAAAAATAAACACA
1 TAAAAATAAACACA
108058 TAAAA
1 TAAAA
108063 CAAAGAAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.75, C:0.09, G:0.00, T:0.16
Consensus pattern (14 bp):
TAAAAATAAACACA
Found at i:110487 original size:20 final size:20
Alignment explanation
Indices: 110462--110503 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
110452 GCACATAGGC
110462 TTCATTTTATCCAATGTATA
1 TTCATTTTATCCAATGTATA
*
110482 TTCATTTTATCTAATGTATA
1 TTCATTTTATCCAATGTATA
110502 TT
1 TT
110504 TTTTATGGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.12, G:0.05, T:0.55
Consensus pattern (20 bp):
TTCATTTTATCCAATGTATA
Found at i:110509 original size:18 final size:19
Alignment explanation
Indices: 110465--110509 Score: 65
Period size: 20 Copynumber: 2.4 Consensus size: 19
110455 CATAGGCTTC
110465 ATTTTATCCAATGTATATT
1 ATTTTATCCAATGTATATT
*
110484 CATTTTATCTAATGTATATT
1 -ATTTTATCCAATGTATATT
110504 -TTTTAT
1 ATTTTAT
110510 GGGACACGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 6 0.25
20 18 0.75
ACGTcount: A:0.29, C:0.09, G:0.04, T:0.58
Consensus pattern (19 bp):
ATTTTATCCAATGTATATT
Found at i:111646 original size:19 final size:19
Alignment explanation
Indices: 111619--111655 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
111609 AATATAGGCA
111619 TTTTACTTTTAGAATTAAG
1 TTTTACTTTTAGAATTAAG
* *
111638 TTTTCCTTTTAGATTTAA
1 TTTTACTTTTAGAATTAA
111656 AATCATTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.27, C:0.08, G:0.08, T:0.57
Consensus pattern (19 bp):
TTTTACTTTTAGAATTAAG
Found at i:113649 original size:22 final size:22
Alignment explanation
Indices: 113621--113665 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
113611 TTTCCTTATC
113621 TCTCCCCCTTAATCAAAAAATT
1 TCTCCCCCTTAATCAAAAAATT
*
113643 TCTCCCCCTTAATCATAAAATT
1 TCTCCCCCTTAATCAAAAAATT
113665 T
1 T
113666 ATTTGCAGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.33, C:0.31, G:0.00, T:0.36
Consensus pattern (22 bp):
TCTCCCCCTTAATCAAAAAATT
Found at i:115029 original size:21 final size:21
Alignment explanation
Indices: 114998--115042 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
114988 GCTGTGAGTG
* *
114998 TGGGGGCTGCCCGGTTGCGACC
1 TGGGGGCTG-CCAGTCGCGACC
115020 TGGGGG-TGCCAGTCGCGACC
1 TGGGGGCTGCCAGTCGCGACC
115040 TGG
1 TGG
115043 TGAGTGCTGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 13 0.62
21 2 0.10
22 6 0.29
ACGTcount: A:0.07, C:0.29, G:0.47, T:0.18
Consensus pattern (21 bp):
TGGGGGCTGCCAGTCGCGACC
Found at i:115721 original size:8 final size:8
Alignment explanation
Indices: 115703--115733 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
115693 TTTTCAACAT
115703 CAAACATCA
1 CAAA-ATCA
115712 CAAAATCA
1 CAAAATCA
115720 CAAAATCA
1 CAAAATCA
115728 CAAAAT
1 CAAAAT
115734 TTAATCAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 18 0.82
9 4 0.18
ACGTcount: A:0.61, C:0.26, G:0.00, T:0.13
Consensus pattern (8 bp):
CAAAATCA
Found at i:121693 original size:13 final size:13
Alignment explanation
Indices: 121675--121700 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
121665 CATTTTGGGA
121675 TGTATCGATACAT
1 TGTATCGATACAT
121688 TGTATCGATACAT
1 TGTATCGATACAT
121701 CTTGTGTGTA
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:121697 original size:33 final size:32
Alignment explanation
Indices: 121655--121718 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
121645 TACAAGCCAA
*
121655 TGTATCGATACATTTTGGGATGTATCGATACAT
1 TGTATCGATACATCTTGGG-TGTATCGATACAT
* *
121688 TGTATCGATACATCTTGTGTGTATTGATACA
1 TGTATCGATACATCTTGGGTGTATCGATACA
121719 AACAGTTAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 11 0.39
33 17 0.61
ACGTcount: A:0.27, C:0.12, G:0.20, T:0.41
Consensus pattern (32 bp):
TGTATCGATACATCTTGGGTGTATCGATACAT
Found at i:121830 original size:13 final size:13
Alignment explanation
Indices: 121800--121824 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
121790 ACATTTGGTC
121800 ATGTATCGATACA
1 ATGTATCGATACA
121813 ATGTATCGATAC
1 ATGTATCGATAC
121825 TGTGTAATAT
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):
ATGTATCGATACA
Found at i:122383 original size:12 final size:12
Alignment explanation
Indices: 122366--122390 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
122356 ATGCATTATA
122366 TTTTACTTAAGT
1 TTTTACTTAAGT
122378 TTTTACTTAAGT
1 TTTTACTTAAGT
122390 T
1 T
122391 GTGAGGAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.08, G:0.08, T:0.60
Consensus pattern (12 bp):
TTTTACTTAAGT
Found at i:123561 original size:14 final size:15
Alignment explanation
Indices: 123532--123564 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
123522 AAAAAAATAA
*
123532 TTTTGTAAATAGATT
1 TTTTGTAAATACATT
123547 TTTTGTAAA-ACATT
1 TTTTGTAAATACATT
123561 TTTT
1 TTTT
123565 AAAATAAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.30, C:0.03, G:0.09, T:0.58
Consensus pattern (15 bp):
TTTTGTAAATACATT
Found at i:123578 original size:16 final size:17
Alignment explanation
Indices: 123559--123593 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
123549 TTGTAAAACA
123559 TTTTTTA-AAATAAGTT
1 TTTTTTACAAATAAGTT
*
123575 TTTTTTACAAATACGTT
1 TTTTTTACAAATAAGTT
123592 TT
1 TT
123594 AAACTACAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.57
Consensus pattern (17 bp):
TTTTTTACAAATAAGTT
Found at i:123902 original size:35 final size:36
Alignment explanation
Indices: 123863--124012 Score: 94
Period size: 35 Copynumber: 4.1 Consensus size: 36
123853 TATTATTATT
123863 ATTTTTTAATAAAATTAAAAA-TAATATTTAATTAA
1 ATTTTTTAATAAAATTAAAAAGTAATATTTAATTAA
* * * * *
123898 A-TTTTAAAAAATTACATTAACAAATTAAAATATTAATTAT
1 ATTTTTTAATAA--A-ATTAA-AAAGTAATAT-TTAATTAA
* * * **
123938 ATATTTTT-ATAAAAATAAAAAGT-ATTTTTTATTCTC
1 AT-TTTTTAATAAAATTAAAAAGTAATATTTAATT-AA
* *
123974 ATTTTTTAATAAAA-TAAAAAATGATATTTAATTAA
1 ATTTTTTAATAAAATTAAAAAGTAATATTTAATTAA
124009 ATTT
1 ATTT
124013 AAAAAAATTT
Statistics
Matches: 86, Mismatches: 18, Indels: 22
0.68 0.14 0.17
Matches are distributed among these distances:
34 8 0.09
35 22 0.26
36 19 0.22
37 9 0.10
38 7 0.08
39 6 0.07
40 8 0.09
41 3 0.03
42 4 0.05
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (36 bp):
ATTTTTTAATAAAATTAAAAAGTAATATTTAATTAA
Found at i:124001 original size:111 final size:115
Alignment explanation
Indices: 123755--124039 Score: 359
Period size: 111 Copynumber: 2.5 Consensus size: 115
123745 ATTATTTTAT
*
123755 AATAAAAAACTAATATTTAATT-AATTTTAAAAAATTTTACATTAATAAATTAAAATATTAATTA
1 AATAAAAAA-TAATATTTAATTAAATTTTAAAAAA-TTTACATTAACAAATTAAAATATTAATTA
*
123819 TTTTTTAAAAATAAAAATTAAATTAAAAAAGGTTTATTATTATTATTTTTTAATAA
64 TTTTTT--AAATAAAAATTAAA-TAAAAAA-GTTTATTATTATCATTTTTTAATAA
*
123875 AATTAAAAATAATATTTAATTAAATTTTAAAAAA-TTACATTAACAAATTAAAATATTAATTATA
1 AATAAAAAATAATATTTAATTAAATTTTAAAAAATTTACATTAACAAATTAAAATATTAATTAT-
* ** * *
123939 TATTTT-TATAAAAA-T-AA-AAAGTA-TTTTTTATTCTCATTTTTTAATAA
65 T-TTTTAAATAAAAATTAAATAAAAAAGTTTATTATTATCATTTTTTAATAA
* *
123986 AATAAAAAATGATATTTAATTAAATTTAAAAAAATTTACATTAACAAATTAAAA
1 AATAAAAAATAATATTTAATTAAATTTTAAAAAATTTACATTAACAAATTAAAA
124040 AAATAACATT
Statistics
Matches: 150, Mismatches: 11, Indels: 16
0.85 0.06 0.09
Matches are distributed among these distances:
111 52 0.35
112 19 0.13
113 4 0.03
115 2 0.01
116 1 0.01
117 7 0.05
118 28 0.19
119 13 0.09
120 24 0.16
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.42
Consensus pattern (115 bp):
AATAAAAAATAATATTTAATTAAATTTTAAAAAATTTACATTAACAAATTAAAATATTAATTATT
TTTTAAATAAAAATTAAATAAAAAAGTTTATTATTATCATTTTTTAATAA
Found at i:124062 original size:111 final size:111
Alignment explanation
Indices: 123863--124063 Score: 282
Period size: 111 Copynumber: 1.8 Consensus size: 111
123853 TATTATTATT
* *
123863 ATTTTTTAATAAAATTAAAAATAATATTTAATTAAATTTTAAAAAATTACATTAACAAATTAAAA
1 ATTTTTTAATAAAATAAAAAATAATATTTAATTAAATTTAAAAAAATTACATTAACAAATTAAAA
* * ***
123928 TATTAATTATATATTTTTATAAAAATAAAAAGTATTTTTTATTCTC
66 AATAAATTATATAGGCTTATAAAAATAAAAAGTATTTTTTATTCTC
*
123974 ATTTTTTAATAAAATAAAAAATGATATTTAATTAAATTTAAAAAAATTTACATTAACAAATTAAA
1 ATTTTTTAATAAAATAAAAAATAATATTTAATTAAATTTAAAAAAA-TTACATTAACAAATT-AA
124039 AAAATAACATT-TA-AGGCTT-TAAAAA
64 AAAATAA-ATTATATAGGCTTATAAAAA
124064 AATTTATCAT
Statistics
Matches: 79, Mismatches: 8, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
111 49 0.62
112 18 0.23
113 9 0.11
114 3 0.04
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (111 bp):
ATTTTTTAATAAAATAAAAAATAATATTTAATTAAATTTAAAAAAATTACATTAACAAATTAAAA
AATAAATTATATAGGCTTATAAAAATAAAAAGTATTTTTTATTCTC
Found at i:124650 original size:125 final size:122
Alignment explanation
Indices: 124382--124661 Score: 271
Period size: 125 Copynumber: 2.2 Consensus size: 122
124372 AACTTTTTTA
* * *
124382 ATTTAAATTTTTTTATTTTTAAAACATAATAATTAATATTTTAATTTGTTAATGTAAATTTTTAA
1 ATTTAAA-TTTTTTATTATT-AAA-A-AATAATTAATATCTTAATTTGTTAATATAAATTTTTAA
* * **
124447 ACTGAATTAAATATTATTTTTAAGTTTATTAAAAACTAATAATAATAAACCCTTTTTATTTTT
62 ACTGAATTAAATATTATTTTTAAG-TTA-TAAAAAATAATAATAATAAACACTTTTTAAATTT
124510 ATTTAAAATTTTTTATTATTAAAAAATAATTAATATCTTAATTTGTTAATATAAATTTCTTTAAA
1 ATTT-AAATTTTTTATTATTAAAAAATAATTAATATCTTAATTTGTTAATATAAA-TT-TTTAAA
* * * ** *
124575 GTTAATTAAATATTATTTTT-A-TTA-AAAATAATAATTAATACATTATTATTTTTTAAATTT
63 CTGAATTAAATATTATTTTTAAGTTATAAAA-AATAA-TAATA-ATAAACACTTTTTAAATTT
*
124635 -TTTAAATTTAATTTATTTATAAAAAAA
1 ATTTAAATTT--TTTA-TTATTAAAAAA
124662 ACTAAAATGG
Statistics
Matches: 129, Mismatches: 14, Indels: 20
0.79 0.09 0.12
Matches are distributed among these distances:
122 4 0.03
123 10 0.08
124 11 0.09
125 45 0.35
126 14 0.11
127 27 0.21
128 15 0.12
129 3 0.02
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.51
Consensus pattern (122 bp):
ATTTAAATTTTTTATTATTAAAAAATAATTAATATCTTAATTTGTTAATATAAATTTTTAAACTG
AATTAAATATTATTTTTAAGTTATAAAAAATAATAATAATAAACACTTTTTAAATTT
Found at i:125563 original size:176 final size:180
Alignment explanation
Indices: 125216--125606 Score: 470
Period size: 176 Copynumber: 2.2 Consensus size: 180
125206 ATAAATGTGT
* * **
125216 AGAATCAGATTCTTTTTTATTGAAAAAAAGAAAAGTTGATTGATTGTAAATGTCAGATTGTAAGG
1 AGAATCAGATTCTTTTTTA-T---AGAAA-AAAAGTTGACTGATTGTAAATGTCAGATTGTAAAA
* * * * * *
125281 ATTAGATTAATGCATAAATTATATCTGAGAATTAATTATTTTTTATAGAAAAAAAAAGAAAAGTT
61 ATTAGACTAATGCATAAATTATATCTGAAAATGAATTACTTTTTATACAAAAAAAAAGAAAAGCT
* * * *
125346 GACTGATTGTAAATGTTAGATTACAAGGATTAGACTAATGCATGAATTATAGT-TG
126 GACTAATTGTAAATGTCAAACTACAAGGATTAGACTAATGCATGAATTATA-TCTG
* * *
125401 AGAATCAGATTCTTTTTTATAGAAAAAAA-TTGACTGATTGTACATGTTAGGTTGTAAAAATTAG
1 AGAATCAGATTCTTTTTTATAGAAAAAAAGTTGACTGATTGTAAATGTCAGATTGTAAAAATTAG
* * * *
125465 ACTAATGCATGAATTATATCTGAAAATCGGATT-CTTTTT-TACAAAAAAAAA-AAGA-CTGATT
66 ACTAATGCATAAATTATATCTGAAAAT-GAATTACTTTTTATACAAAAAAAAAGAAAAGCTGACT
*
125526 AATTGTAAATGTCAAACTGCAAGGATTAGACTAATGCATGAATTATATCTG
130 AATTGTAAATGTCAAACTACAAGGATTAGACTAATGCATGAATTATATCTG
*
125577 AGAATCGGATTCTTTTTTATAGAAAAAAAG
1 AGAATCAGATTCTTTTTTATAGAAAAAAAG
125607 AAAGACTGCA
Statistics
Matches: 180, Mismatches: 23, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
175 1 0.01
176 76 0.42
177 3 0.02
178 11 0.06
179 58 0.32
180 7 0.04
181 4 0.02
184 1 0.01
185 19 0.11
ACGTcount: A:0.42, C:0.07, G:0.16, T:0.35
Consensus pattern (180 bp):
AGAATCAGATTCTTTTTTATAGAAAAAAAGTTGACTGATTGTAAATGTCAGATTGTAAAAATTAG
ACTAATGCATAAATTATATCTGAAAATGAATTACTTTTTATACAAAAAAAAAGAAAAGCTGACTA
ATTGTAAATGTCAAACTACAAGGATTAGACTAATGCATGAATTATATCTG
Found at i:125568 original size:90 final size:90
Alignment explanation
Indices: 125216--125614 Score: 398
Period size: 86 Copynumber: 4.4 Consensus size: 90
125206 ATAAATGTGT
* *
125216 AGAATCAGATTCTTTTTTATTGAAAAAAAGAAAAG-TTGATTGATTGTAAATGTCAGATTGTAAG
1 AGAATCAGATTCTTTTTTA--GAAAAAAA-AAAAGACTGATTGATTGTAAATGTCAGATTGCAAG
* *
125280 GATTAGATTAATGCATAAATTATATCTG
63 GATTAGACTAATGCATGAATTATATCTG
* * * * * * *
125308 AGAATTA-ATTATTTTTTATAGAAAAAAAAAGAAAAGTTGACTGATTGTAAATGTTAGATTACAA
1 AGAATCAGATT-CTTTTT-TAGAAAAAAAAA-AAGA-CTGATTGATTGTAAATGTCAGATTGCAA
125372 GGATTAGACTAATGCATGAATTATAGT-TG
62 GGATTAGACTAATGCATGAATTATA-TCTG
* * * * * * * * **
125401 AGAATCAGATTCTTTTTT---ATAGAAAAAA-ATTGACTGATTGTACATGTTAGGTTGTAAAAAT
1 AGAATCAGATTCTTTTTTAGAAAAAAAAAAAGACTGATTGATTGTAAATGTCAGATTGCAAGGAT
125462 TAGACTAATGCATGAATTATATCTG
66 TAGACTAATGCATGAATTATATCTG
* * * * * *
125487 AAAATCGGATTCTTTTTTACAAAAAAAAAAAGACTGATTAATTGTAAATGTCAAACTGCAAGGAT
1 AGAATCAGATTCTTTTTTAGAAAAAAAAAAAGACTGATTGATTGTAAATGTCAGATTGCAAGGAT
125552 TAGACTAATGCATGAATTATATCTG
66 TAGACTAATGCATGAATTATATCTG
* *
125577 AGAATCGGATTCTTTTTTATAGAAAAAAAGAAAGACTG
1 AGAATCAGATTC-TTTTT-TAGAAAAAAAAAAAGACTG
125615 CAAGGATTAG
Statistics
Matches: 256, Mismatches: 37, Indels: 28
0.80 0.12 0.09
Matches are distributed among these distances:
85 1 0.00
86 65 0.25
87 1 0.00
88 2 0.01
89 14 0.05
90 60 0.23
91 18 0.07
92 29 0.11
93 62 0.24
94 4 0.02
ACGTcount: A:0.42, C:0.07, G:0.17, T:0.34
Consensus pattern (90 bp):
AGAATCAGATTCTTTTTTAGAAAAAAAAAAAGACTGATTGATTGTAAATGTCAGATTGCAAGGAT
TAGACTAATGCATGAATTATATCTG
Found at i:125710 original size:69 final size:70
Alignment explanation
Indices: 125541--125753 Score: 401
Period size: 70 Copynumber: 3.1 Consensus size: 70
125531 TAAATGTCAA
125541 ACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATCGGATTCTTTTTTATAGAAAAAAA
1 ACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATCGGATTCTTTTTTATAGAAAAAAA
125606 GAAAG
66 GAAAG
*
125611 ACTGCAAGGATTAGACTAATGTATGAATTATATCTGAGAATCGGATTCTTTTTTATAG-AAAAAA
1 ACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATCGGATTCTTTTTTATAGAAAAAAA
125675 GAAAG
66 GAAAG
*
125680 ACTGCAAGGATTAGACTAATGCATGCATTATATCTGAGAATCGGATTCTTTTTTATAGAAAAAAA
1 ACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATCGGATTCTTTTTTATAGAAAAAAA
125745 GAAAG
66 GAAAG
125750 ACTG
1 ACTG
125754 ATTGATTGTA
Statistics
Matches: 139, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
69 67 0.48
70 72 0.52
ACGTcount: A:0.40, C:0.10, G:0.19, T:0.31
Consensus pattern (70 bp):
ACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATCGGATTCTTTTTTATAGAAAAAAA
GAAAG
Found at i:125966 original size:92 final size:91
Alignment explanation
Indices: 125688--125967 Score: 262
Period size: 92 Copynumber: 3.0 Consensus size: 91
125678 AGACTGCAAG
* **
125688 GATTAGACTAATGCATGCATTAT-ATCTGAGAATCGGATTCTTTTTTATAGAAAAAAAG-AAAGA
1 GATTAGACTAATGCATGAATTATAAT-TGAGAATTAGATTCTTTTTTATAGAAAAAAAGAAAAG-
* * * * * *
125751 CTGATTGATTGTAAATGTCAGACTGCAAG
64 TTGATTGATTATAAATATCACATTG-AAA
* * *
125780 GATTAGACTAATGCATGAATTGTACA-TGAGAATTAGATT-TCTTTTGATAAAAAAAAAAGAAAA
1 GATTAGACTAATGCATGAATTATA-ATTGAGAATTAGATTCT-TTTTTAT-AGAAAAAAAGAAAA
* * * **
125843 GTTGGTTGATTATAAGTATGACACTACAAA
63 GTTGATTGATTATAAATATCACA-TTGAAA
* * ***
125873 GATTATACTAATGCATAAATTATAATTGAGAATTAGATTCTTTTTTATAGAAAAGCTGAAAAGTT
1 GATTAGACTAATGCATGAATTATAATTGAGAATTAGATTCTTTTTTATAGAAAAAAAGAAAAGTT
125938 GATTGATTATAAATATCACAGTTGAAA
66 GATTGATTATAAATATCACA-TTGAAA
125965 GAT
1 GAT
125968 AGGACAAATG
Statistics
Matches: 149, Mismatches: 31, Indels: 16
0.76 0.16 0.08
Matches are distributed among these distances:
91 1 0.01
92 76 0.51
93 66 0.44
94 6 0.04
ACGTcount: A:0.41, C:0.08, G:0.17, T:0.33
Consensus pattern (91 bp):
GATTAGACTAATGCATGAATTATAATTGAGAATTAGATTCTTTTTTATAGAAAAAAAGAAAAGTT
GATTGATTATAAATATCACATTGAAA
Found at i:130066 original size:13 final size:13
Alignment explanation
Indices: 130050--130087 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
130040 AATAATATTT
130050 AATTAATTTAAAA
1 AATTAATTTAAAA
130063 AATTACA-TTAAAA
1 AATTA-ATTTAAAA
130076 AATTAAATTTAA
1 AATT-AATTTAA
130088 TTATTATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
13 16 0.73
14 6 0.27
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (13 bp):
AATTAATTTAAAA
Found at i:130137 original size:119 final size:120
Alignment explanation
Indices: 129909--130262 Score: 382
Period size: 119 Copynumber: 2.9 Consensus size: 120
129899 TATTATTTCT
*
129909 AATAAAAAATAATATTTAATTAACTTTAAAGAAATTTATATTAACAAATTAAAATATTAATT-TT
1 AATAAAAAATAATATTTAATTAA-TTTAAA-AAA-TTACATTAACAAATTAAAATATTAATTATT
* * ** * ** * * * *
129973 -TTTAATAATAAAAAATTTTAAATAAAAATAAAAAGGGTTTATTATTATTATTTTTTAAT-A
63 ATTT-TTTAT-AAAAATAATAATTTTAAATAAAAAAGATTTTTTATTA-TA-ATTTTAATAA
* *
130033 AATTAAAAATAATATTTAATTAATTTAAAAAATTACATTAAAAAATT-AAAT-TTAATTATTATT
1 AATAAAAAATAATATTTAATTAATTTAAAAAATTACATTAACAAATTAAAATATTAATTATTATT
130096 TTTTATAAAAATAATAATTTTAAATAAAAAAGATTTTTTATTATAATTTTAATAA
66 TTTTATAAAAATAATAATTTTAAATAAAAAAGATTTTTTATTATAATTTTAATAA
* *
130151 AATAAAAAATAATATTTAATTCAGTTTAAAAATTTACATTAACAAATTAAAATATTAATTATTA-
1 AATAAAAAATAATATTTAATT-AATTTAAAAAATTACATTAACAAATTAAAATATTAATTATTAT
* * * *
130215 TGTTT-TAAAAATAAAAAATTTTAAATGAAAAAA-AGTTTTTATCATAAT
65 TTTTTATAAAAAT-AATAATTTTAAAT-AAAAAAGATTTTTTATTATAAT
130263 AATATTTTTT
Statistics
Matches: 200, Mismatches: 22, Indels: 20
0.83 0.09 0.08
Matches are distributed among these distances:
117 7 0.04
118 23 0.12
119 65 0.32
120 42 0.21
121 32 0.16
122 3 0.01
123 6 0.03
124 22 0.11
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.42
Consensus pattern (120 bp):
AATAAAAAATAATATTTAATTAATTTAAAAAATTACATTAACAAATTAAAATATTAATTATTATT
TTTTATAAAAATAATAATTTTAAATAAAAAAGATTTTTTATTATAATTTTAATAA
Found at i:130597 original size:22 final size:23
Alignment explanation
Indices: 130554--130609 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
130544 AATAATGATA
130554 AATTTTTTTAATTCCTTAAATGT
1 AATTTTTTTAATTCCTTAAATGT
* **
130577 TATTTTTTTAATTTGTT-AATGT
1 AATTTTTTTAATTCCTTAAATGT
*
130599 AAATTTTTTAA
1 AATTTTTTTAA
130610 AATTTAATTA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 14 0.50
23 14 0.50
ACGTcount: A:0.30, C:0.04, G:0.05, T:0.61
Consensus pattern (23 bp):
AATTTTTTTAATTCCTTAAATGT
Found at i:130606 original size:24 final size:23
Alignment explanation
Indices: 130533--130607 Score: 73
Period size: 23 Copynumber: 3.2 Consensus size: 23
130523 GAATAGAAAG
*
130533 TTTTTT-ATTTGAATAATGATAAAT
1 TTTTTTAATTTG-TTAATG-TAAAT
** *
130557 TTTTTTAATTCCTTAAATGT-TAT
1 TTTTTTAATTTGTT-AATGTAAAT
130580 TTTTTTAATTTGTTAATGTAAAT
1 TTTTTTAATTTGTTAATGTAAAT
130603 TTTTT
1 TTTTT
130608 AAAATTTAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
22 5 0.12
23 21 0.51
24 8 0.20
25 7 0.17
ACGTcount: A:0.29, C:0.03, G:0.07, T:0.61
Consensus pattern (23 bp):
TTTTTTAATTTGTTAATGTAAAT
Found at i:130696 original size:110 final size:111
Alignment explanation
Indices: 130582--130872 Score: 348
Period size: 115 Copynumber: 2.6 Consensus size: 111
130572 AATGTTATTT
*
130582 TTTTAATTTGTTAATGTAAATTTTTTAAAATTTAATTAAATATCATTTTTTATTTATTAAAAATA
1 TTTTAATTTGTTAATGTAAATTTTTTAAAATTTAATTAAATATTATTTTTTATTTATTAAAAATA
130647 ATAAT-AACAAATACTT-TTT-ATTTTTA-TAAAAACATATAATTAATA
66 ATAATAAAC-AATACTTATTTAATTTTTATTAAAAA-A-ATAATTAATA
* * *
130692 TTTTAATTTGTTAATAT-AATTTTTTAAAATGTAATTAAATATTATTTTTAATTTTATTAAAAAA
1 TTTTAATTTGTTAATGTAAATTTTTTAAAATTTAATTAAATATTATTTTTTA-TTTATT-AAAAA
** **
130756 TAATAATAAACCCTTTTTAATTTAATTTTTATTTTAAAAAAATAATTAATA
64 TAATAATAAACAATACTT-ATTTAATTTTTA--TTAAAAAAATAATTAATA
* * *
130807 TTTTAATTTATTAATGTAAAATTTTTAAAA-TTAATTAAAAATTATTTTTTA-TTA-T-AAAATA
1 TTTTAATTTGTTAATGTAAATTTTTTAAAATTTAATTAAATATTATTTTTTATTTATTAAAAATA
130868 ATAAT
66 ATAAT
130873 TAATATATGT
Statistics
Matches: 157, Mismatches: 14, Indels: 20
0.82 0.07 0.10
Matches are distributed among these distances:
109 31 0.20
110 33 0.21
111 15 0.10
112 4 0.03
113 6 0.04
114 7 0.04
115 43 0.27
116 12 0.08
117 6 0.04
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (111 bp):
TTTTAATTTGTTAATGTAAATTTTTTAAAATTTAATTAAATATTATTTTTTATTTATTAAAAATA
ATAATAAACAATACTTATTTAATTTTTATTAAAAAAATAATTAATA
Found at i:134034 original size:52 final size:52
Alignment explanation
Indices: 133967--134086 Score: 213
Period size: 52 Copynumber: 2.3 Consensus size: 52
133957 AAAAGTTGTT
*
133967 TGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGAAAATTTGCC
1 TGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGAAAATTTGCC
* *
134019 TGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGCC
1 TGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGAAAATTTGCC
134071 TGCATGTATCGATACA
1 TGCATGTATCGATACA
134087 AAGATCAGTG
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 65 1.00
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35
Consensus pattern (52 bp):
TGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGAAAATTTGCC
Found at i:134099 original size:52 final size:51
Alignment explanation
Indices: 133967--134106 Score: 201
Period size: 52 Copynumber: 2.7 Consensus size: 51
133957 AAAAGTTGTT
133967 TGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGAAAATTTGCC
1 TGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGAAAATTTGCC
* * *
134019 TGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGCC
1 TGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGAAAATTTGCC
*
134071 TGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 TGCATGTATCGATACATTA-AT-AGTGTATCGATACA
134107 ATGTATCGAT
Statistics
Matches: 80, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
51 2 0.03
52 78 0.98
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (51 bp):
TGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGAAAATTTGCC
Found at i:134113 original size:13 final size:13
Alignment explanation
Indices: 134095--134119 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
134085 CAAAGATCAG
134095 TGTATCGATACAA
1 TGTATCGATACAA
134108 TGTATCGATACA
1 TGTATCGATACA
134120 TTTGAGTAAT
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:134197 original size:33 final size:33
Alignment explanation
Indices: 134160--134226 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
134150 AGTAGCTTAA
134160 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
134193 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
134226 A
1 A
134227 AATCATTGAA
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:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:134200 original size:13 final size:13
Alignment explanation
Indices: 134182--134206 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
134172 CAAAAAAATA
134182 TGTATCGATACAT
1 TGTATCGATACAT
134195 TGTATCGATACA
1 TGTATCGATACA
134207 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:134305 original size:21 final size:21
Alignment explanation
Indices: 134264--134305 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
134254 GTTGGGACCT
* *
134264 TGTATCGATGCATTTTAACAA
1 TGTATCGATACATTTGAACAA
*
134285 TGTATCGATACATTTGGACAA
1 TGTATCGATACATTTGAACAA
134306 AAATGTAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (21 bp):
TGTATCGATACATTTGAACAA
Found at i:134442 original size:17 final size:17
Alignment explanation
Indices: 134420--134454 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
134410 CCATTTTCCC
134420 CACATAGGTCGAATCCT
1 CACATAGGTCGAATCCT
134437 CACATAGGTCGAATCCT
1 CACATAGGTCGAATCCT
134454 C
1 C
134455 CACCTACTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (17 bp):
CACATAGGTCGAATCCT
Found at i:135231 original size:48 final size:50
Alignment explanation
Indices: 135086--135232 Score: 145
Period size: 48 Copynumber: 2.9 Consensus size: 50
135076 GAAAAGTGAT
* * * * *
135086 AAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGCCTGAAGATGAG
1 AAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAGAT-AG
* ** * * *
135137 AAAAAGGATGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAGAT-G
1 --AAA-GATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAGATAG
135189 -AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAA
1 AAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAA
135233 AAAATGATGA
Statistics
Matches: 76, Mismatches: 17, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
48 36 0.47
49 2 0.03
52 1 0.01
53 3 0.04
54 34 0.45
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.24
Consensus pattern (50 bp):
AAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAGATAG
Found at i:135353 original size:171 final size:170
Alignment explanation
Indices: 135010--135407 Score: 618
Period size: 171 Copynumber: 2.3 Consensus size: 170
135000 TTTTAGAGAT
* *
135010 GATGAAGGTGCCAATATGCTGATTCAAGGCCAAGGCCAGCAATATTGGACTT-AAAGATGAAGAT
1 GATGAAGATGCCAATATGCTGATTCAAGGCC-A-G-C-G--ATATTGGACTTAAAAAATGAAGAT
*
135074 GAGAAAAGTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGCCTGAAGATGAGAA
60 GAGAAAAGTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGCCTAAAGATGAGAA
*
135139 AAAGGATGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAA
125 AAAAGATGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAA
*
135185 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAAATGATGATGAGAAA
1 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAAATGAAGATGAGAAA
* *
135250 AGTGATAAAGATGCTAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAAG
66 AGTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATT-GGCCTAAAGATGAGAAAAAAG
135315 ATGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAA
130 ATGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAA
* *
135356 GATGGAAAATGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAA
1 GAT-GAAGA--TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA
135408 GGTGCTAATG
Statistics
Matches: 209, Mismatches: 9, Indels: 11
0.91 0.04 0.05
Matches are distributed among these distances:
169 11 0.05
170 58 0.28
171 63 0.30
172 5 0.02
173 1 0.00
174 41 0.20
175 30 0.14
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.24
Consensus pattern (170 bp):
GATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAAATGAAGATGAGAAA
AGTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGCCTAAAGATGAGAAAAAAGA
TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAA
Found at i:135409 original size:22 final size:21
Alignment explanation
Indices: 135384--135451 Score: 52
Period size: 22 Copynumber: 3.1 Consensus size: 21
135374 ATGCTGATTC
135384 AAGGCCAGCTATATTGGACTTA
1 AAGGCCAGCTA-ATTGGACTTA
* *
135406 AAGG--TGCTAATGTGCTGA-TTC
1 AAGGCCAGCTAAT-TG--GACTTA
135427 AAGGCCAGCTACATTGGACTTA
1 AAGGCCAGCTA-ATTGGACTTA
135449 AAG
1 AAG
135452 ATGAAGATGC
Statistics
Matches: 35, Mismatches: 4, Indels: 14
0.66 0.08 0.26
Matches are distributed among these distances:
19 2 0.06
20 6 0.17
21 8 0.23
22 11 0.31
23 6 0.17
24 2 0.06
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (21 bp):
AAGGCCAGCTAATTGGACTTA
Found at i:135492 original size:49 final size:49
Alignment explanation
Indices: 135324--136147 Score: 970
Period size: 49 Copynumber: 17.6 Consensus size: 49
135314 GATGTCAACG
* * *
135324 TGCTGATTCAAGGCCAGCTACATTGAACTT-AAGATGGAAAATGTGCCAATA
1 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT-GAAGA--TGCCAATA
* *
135375 TGCTGATTCAAGGCCAGCTATATTGGACTT-AA-A-G--G-TGCTAATG
1 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGATGCCAATA
*
135418 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATG-CAATA
1 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGATGCCAATA
* *
135466 TTGCTGATTCAAGGCCAGCGATATTGGACTT-AA-A-G--G-TGCCAATG
1 -TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGATGCCAATA
* *
135510 TGCTGAGTCAAGGCCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
1 TGCTGATTCAAGG-CCAGCTATATTGGACTTAAAGATGAAGATGCCAATA
* *
135560 TGCT-ATTCAAGGCCAGCGATATTGGACTT-AA-A-G--G-TGCCAATG
1 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGATGCCAATA
* *
135602 TGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGAAGATGCCAATA
1 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGATGCCAATA
* *
135651 TGCTGATTCAAGGCCAGCGATATTGGACTT-AA-A-G--G-TGCCAATG
1 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGATGCCAATA
*
135694 TGCTGATTCAAGGCCAGTCTACATTGGACTTAAAGATGAAGATGCCAATA
1 TGCTGATTCAAGGCCAG-CTATATTGGACTTAAAGATGAAGATGCCAATA
*
135744 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGA-GAAGATGCCAATA
1 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGATGCCAATA
* *
135792 TGCTGATTCAAGGCACAGCGATATTGGACTT-AA-A-G--G-TGCCAATC
1 TGCTGATTCAAGGC-CAGCTATATTGGACTTAAAGATGAAGATGCCAATA
*
135836 TGCTGATTCAAGGCCAGCTACA-TGGACTTAAAGATGAAGATGCCAATA
1 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGATGCCAATA
* *
135884 TGCTGATTCAAAGGCCAGC-GTATTGGACTT-AA-A-G--G-TGCCAATG
1 TGCTGATTC-AAGGCCAGCTATATTGGACTTAAAGATGAAGATGCCAATA
* *
135927 TGCTGATTCAAGGTCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
1 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGATGCCAATA
*
135976 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGATGCCAATA
1 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGATGCCAATA
* *
136025 TGCTGATTCAAGGCCAGCGATATTGGACTT-AA-A-G--G-TGCCAATG
1 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGATGCCAATA
*
136068 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
1 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGATGCCAATA
*
136117 TGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 TGCTGATTCAAGGCCAGCTATATTGGACTTA
136148 GAAGGGTTGC
Statistics
Matches: 670, Mismatches: 52, Indels: 104
0.81 0.06 0.13
Matches are distributed among these distances:
42 26 0.04
43 164 0.24
44 64 0.10
45 11 0.02
46 11 0.02
47 11 0.02
48 77 0.11
49 240 0.36
50 36 0.05
51 30 0.04
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.25
Consensus pattern (49 bp):
TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGATGCCAATA
Found at i:135499 original size:92 final size:92
Alignment explanation
Indices: 135323--136152 Score: 1093
Period size: 92 Copynumber: 8.9 Consensus size: 92
135313 AGATGTCAAC
* *
135323 GTGCTGATTCAAGGCCAGCTACATTGAACTT-AAGATGGAAAATGTGCCAATATGCTGATTCAAG
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-GAAGA--TGCCAATATGCTGATTCAAG
* *
135387 GCCAGCTATATTGGACTTAAAGGTGCTAAT
63 GCCAGCGATATTGGACTTAAAGGTGCCAAT
135417 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATG-CAATATTGCTGATTCAAGGC
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA-TGCTGATTCAAGGC
135481 CAGCGATATTGGACTTAAAGGTGCCAAT
65 CAGCGATATTGGACTTAAAGGTGCCAAT
*
135509 GTGCTGAGTCAAGGCCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCT-ATTCAAGGC
1 GTGCTGATTCAAGG-CCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGC
135573 CAGCGATATTGGACTTAAAGGTGCCAAT
65 CAGCGATATTGGACTTAAAGGTGCCAAT
*
135601 GTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
135666 AGCGATATTGGACTTAAAGGTGCCAAT
66 AGCGATATTGGACTTAAAGGTGCCAAT
135693 GTGCTGATTCAAGGCCAGTCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGC
1 GTGCTGATTCAAGGCCAG-CTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGC
135758 CAGCGATATTGGACTTAAAGAGAAGATGCCAAT
65 CAGCGATATTGGACTT-AA-AG--G-TGCCAAT
* * * *
135791 ATGCTGATTCAAGGCACAGCGATATTGGACTT-AA-A-G--G-TGCCAATCTGCTGATTCAAGGC
1 GTGCTGATTCAAGGC-CAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGC
* *
135850 CAGCTACA-TGGACTTAAAGATGAAGATGCCAAT
65 CAGCGATATTGGACTT-AA-A-G--G-TGCCAAT
* *
135883 ATGCTGATTCAAAGGCCAGCGT--ATTGGACTT-AA-A-G--G-TGCCAATGTGCTGATTCAAGG
1 GTGCTGATTC-AAGGCCAGC-TACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGG
* * *
135940 TCAGCTACATTGGACTTAAAGATGAAGATGCCAAT
64 CCAGCGATATTGGACTT-AA-A-G--G-TGCCAAT
* * *
135975 ATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
136040 AGCGATATTGGACTTAAAGGTGCCAAT
66 AGCGATATTGGACTTAAAGGTGCCAAT
136067 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
* *
136132 AGCTATATTGGGCTTAGAAGG
66 AGCGATATTGGACTTA-AAGG
136153 GTTGCCACCG
Statistics
Matches: 684, Mismatches: 27, Indels: 51
0.90 0.04 0.07
Matches are distributed among these distances:
91 107 0.16
92 340 0.50
93 108 0.16
94 42 0.06
95 10 0.01
96 2 0.00
97 6 0.01
98 66 0.10
99 3 0.00
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (92 bp):
GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
AGCGATATTGGACTTAAAGGTGCCAAT
Found at i:136187 original size:34 final size:34
Alignment explanation
Indices: 136147--136211 Score: 130
Period size: 34 Copynumber: 1.9 Consensus size: 34
136137 TATTGGGCTT
136147 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTGGA
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTGGA
136181 AGAAGGGTTGCCACCGACTTGTGTGGGCTTT
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTT
136212 AGAAAGGGAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.17, C:0.18, G:0.37, T:0.28
Consensus pattern (34 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTGGA
Found at i:136260 original size:34 final size:33
Alignment explanation
Indices: 136202--136936 Score: 735
Period size: 34 Copynumber: 22.2 Consensus size: 33
136192 CACCGACTTG
* *
136202 TGTGGGCTTTAGAAAGGGAGAAAGATGCCACGGAGT
1 TGTGGGC-TTA-AAA-GGAAAAAGGTGCCACGGAGT
*
136238 TGTGGACTTAAAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTAAAA-GGAAAAAG-GTGCCACGGAGT
*
136273 TGTGGGCTTTAAAA-GAAAAAAGTGCCACGGAGT
1 TGTGGGC-TTAAAAGGAAAAAGGTGCCACGGAGT
*
136306 TGTGGGCTTTGAAAA-GAAGAAGGTGCCACGGAGT
1 TGTGGGC-TT-AAAAGGAAAAAGGTGCCACGGAGT
* * *
136340 TGTGGACTTAAAGATGAAAAAAGTGCCACGGAGT
1 TGTGGGCTTAAA-AGGAAAAAGGTGCCACGGAGT
*
136374 TGTGGGCTTTGAAAA-GAAGAAGGTGCCACGGAGT
1 TGTGGGC-TT-AAAAGGAAAAAGGTGCCACGGAGT
*
136408 TGTGGGCTTTGAAAA-GAAGAAGGTGCCACGGAGT
1 TGTGGGC-TT-AAAAGGAAAAAGGTGCCACGGAGT
*
136442 TGTGGGCTTTAAAGG--AAAGGTGCCACGGAGT
1 TGTGGGCTTAAAAGGAAAAAGGTGCCACGGAGT
136473 TGTGGGCTTTAAAA-GAAAAA-GTGCCACGGAGT
1 TGTGGGC-TTAAAAGGAAAAAGGTGCCACGGAGT
*
136505 TGTGGGCTTAGAAGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTAAAAGGAAAAAG-GTGCCACGGAGT
* *
136539 TGTGGGCTT-TAA--AAAGA-GTGCCACGGAGT
1 TGTGGGCTTAAAAGGAAAAAGGTGCCACGGAGT
*
136568 TGTGGGCTTTGAAAA-GAAGAAGGTGCCACGGAGT
1 TGTGGGC-TT-AAAAGGAAAAAGGTGCCACGGAGT
* * *
136602 TGTGGACTTAAAGATGAAAAAAGTGCCACGGAGT
1 TGTGGGCTTAAA-AGGAAAAAGGTGCCACGGAGT
*
136636 TGTGGGCTTAGAAGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTAAAAGGAAAAAG-GTGCCACGGAGT
* *
136670 TGTGGGCTT-TAA--AAAGA-GTGCCACGGAGT
1 TGTGGGCTTAAAAGGAAAAAGGTGCCACGGAGT
136699 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGC-TT-AAAA-GGAAAAAG-GTGCCACGGAGT
136736 TGTGGGCTTTAAACA-GAAAAAGGTGCCACGGAGT
1 TGTGGGC-TTAAA-AGGAAAAAGGTGCCACGGAGT
136770 TGTGGGCTTTGAAAA-GAAGAAA-GTGCCACGGAGT
1 TGTGGGC-TT-AAAAGGAA-AAAGGTGCCACGGAGT
*
136804 TGTGGGCTTTAAAGG-AAAAGGTGCCACGGAGT
1 TGTGGGCTTAAAAGGAAAAAGGTGCCACGGAGT
**
136836 TGTGGGCTTTGAA-GAAAAAGGTGCCACGGAGT
1 TGTGGGCTTAAAAGGAAAAAGGTGCCACGGAGT
** * *
136868 TGTGGGCTTTGAAGGAAAAA-ATGCCACTGAGT
1 TGTGGGCTTAAAAGGAAAAAGGTGCCACGGAGT
* ** * * *
136900 CGTGATCTTTAAA-GAAAAAGATGCCACTGAGT
1 TGTGGGCTTAAAAGGAAAAAGGTGCCACGGAGT
*
136932 GGTGG
1 TGTGG
136937 ACTTTGAGCA
Statistics
Matches: 618, Mismatches: 43, Indels: 80
0.83 0.06 0.11
Matches are distributed among these distances:
29 38 0.06
30 4 0.01
31 46 0.07
32 135 0.22
33 57 0.09
34 257 0.42
35 40 0.06
36 18 0.03
37 23 0.04
ACGTcount: A:0.32, C:0.12, G:0.35, T:0.21
Consensus pattern (33 bp):
TGTGGGCTTAAAAGGAAAAAGGTGCCACGGAGT
Found at i:136305 original size:68 final size:66
Alignment explanation
Indices: 136202--136941 Score: 820
Period size: 68 Copynumber: 11.2 Consensus size: 66
136192 CACCGACTTG
* * *
136202 TGTGGGCTTTAGAAAGGGAGAAAGATGCCACGGAGTTGTGGACTTAAAAGGGAAAAAGAGTGCCA
1 TGTGGGCTTTA-AAA-GAAAAAAG-TGCCACGGAGTTGTGGGCTTAAAA--GAAAAAGAGTGCCA
136267 CGGAGT
61 CGGAGT
*
136273 TGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAG-GTGCCACGG
1 TGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGGC-TT-AAAAGAAAAAGAGTGCCACGG
136337 AGT
64 AGT
* *
136340 TGTGGAC-TTAAAGATGAAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAG-GTGCCAC
1 TGTGGGCTTTAAA-A-GAAAAAAGTGCCACGGAGTTGTGGGC-TT-AAAAGAAAAAGAGTGCCAC
136403 GGAGT
62 GGAGT
* * * *
136408 TGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAG-GAAAG-GTGCCACGGA
1 TGTGGGCTTT-AAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTAAAAGAAAAAGAGTGCCACGGA
136471 GT
65 GT
*
136473 TGTGGGCTTTAAAAG-AAAAAGTGCCACGGAGTTGTGGGCTTAGAAGGAAAAAGAGTGCCACGGA
1 TGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTA-AAAGAAAAAGAGTGCCACGGA
136537 GT
65 GT
* *
136539 TGTGGGCTTT---A-AAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAG-GTGCCACGG
1 TGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGGC-TT-AAAAGAAAAAGAGTGCCACGG
136599 AGT
64 AGT
* *
136602 TGTGGAC-TTAAAGATGAAAAAAGTGCCACGGAGTTGTGGGCTTAGAAGGAAAAAGAGTGCCACG
1 TGTGGGCTTTAAA-A-GAAAAAAGTGCCACGGAGTTGTGGGCTTA-AAAGAAAAAGAGTGCCACG
136666 GAGT
63 GAGT
*
136670 TGTGGGCTTT---A-AAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCAC
1 TGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGGC-TT-AAAA--GAAAAAGAGTGCCAC
136731 GGAGT
62 GGAGT
* *
136736 TGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAA-AGTGCCACG
1 TGTGGGCTTTAAA-AGAAAAAAGTGCCACGGAGTTGTGGGC-TT-AAAAGAAAAAGAGTGCCACG
136800 GAGT
63 GAGT
* * **
136804 TGTGGGCTTT-AAAGGAAAAGGTGCCACGGAGTTGTGGGCTTTGAAGAAAAAG-GTGCCACGGAG
1 TGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTAAAAGAAAAAGAGTGCCACGGAG
136867 T
66 T
* * * * ** * *
136868 TGTGGGCTTTGAAGGAAAAAA-TGCCACTGAGTCGTGATCTTTAAAGAAAAAGA-TGCCACTGAG
1 TGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTAAAAGAAAAAGAGTGCCACGGAG
136931 T
66 T
* *
136932 GGTGGACTTT
1 TGTGGGCTTT
136942 GAGCAGAGAT
Statistics
Matches: 592, Mismatches: 44, Indels: 73
0.83 0.06 0.10
Matches are distributed among these distances:
62 2 0.00
63 90 0.15
64 95 0.16
65 41 0.07
66 89 0.15
67 33 0.06
68 171 0.29
69 18 0.03
70 11 0.02
71 42 0.07
ACGTcount: A:0.32, C:0.12, G:0.35, T:0.21
Consensus pattern (66 bp):
TGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTAAAAGAAAAAGAGTGCCACGGAG
T
Found at i:136531 original size:131 final size:132
Alignment explanation
Indices: 136202--136941 Score: 867
Period size: 131 Copynumber: 5.6 Consensus size: 132
136192 CACCGACTTG
* * *
136202 TGTGGGCTTTAGAA-AGGGAGAAAGATGCCACGGAGTTGTGGACTTAAAAGGGAAAAAGAGTGCC
1 TGTGGGCTTTA-AAGA-GGAAAAAG-TGCCACGGAGTTGTGGGCTTAGAA-GGAAAAAGAGTGCC
*
136266 ACGGAGTTGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGTG
62 ACGGAGTTGTGGGCTTTAAAAG-AAGAAGTGCCACGGAGTTGTGGGCTTT-AAAAGAA-AAGGTG
136331 CCACGGAGT
124 CCACGGAGT
* * * * *
136340 TGTGGAC-TTAAAGATGAAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAG-GTGCCAC
1 TGTGGGCTTTAAAGA-GGAAAAAGTGCCACGGAGTTGTGGGCTTAG-AAGGAAAAAGAGTGCCAC
*
136403 GGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT-AAAGGAAAGGTGCCA
64 GGAGTTGTGGGCTTT-AAAAGAAGAA-GTGCCACGGAGTTGTGGGCTTTAAAAGAAAAGGTGCCA
136467 CGGAGT
127 CGGAGT
136473 TGTGGGCTTTAAA-A-GAAAAAGTGCCACGGAGTTGTGGGCTTAGAAGGAAAAAGAGTGCCACGG
1 TGTGGGCTTTAAAGAGGAAAAAGTGCCACGGAGTTGTGGGCTTAGAAGGAAAAAGAGTGCCACGG
136536 AGTTGTGGGCTTT-AAA-AAG-AGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACG
66 AGTTGTGGGCTTTAAAAGAAGAAGTGCCACGGAGTTGTGGGCTTT-AAAAGAA-AAGGTGCCACG
136598 GAGT
129 GAGT
* *
136602 TGTGGAC-TTAAAGATGAAAAAAGTGCCACGGAGTTGTGGGCTTAGAAGGAAAAAGAGTGCCACG
1 TGTGGGCTTTAAAGA-GGAAAAAGTGCCACGGAGTTGTGGGCTTAGAAGGAAAAAGAGTGCCACG
136666 GAGTTGTGGGCTTT-AAA-AAG-AGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGC
65 GAGTTGTGGGCTTTAAAAGAAGAAGTGCCACGGAGTTGTGGGCTTT-AAAA--G-AAAAG-GTGC
136728 CACGGAGT
125 CACGGAGT
* * * *
136736 TGTGGGCTTTAAACA-GAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAA-AGTGCCAC
1 TGTGGGCTTTAAAGAGGAAAAA-GTGCCACGGAGTTGTGGGCTTAG-AAGGAAAAAGAGTGCCAC
* *
136799 GGAGTTGTGGGCTTTAAAGGAA-AAGGTGCCACGGAGTTGTGGGCTTT-GAAGAAAAAGGTGCCA
64 GGAGTTGTGGGCTTTAAAAGAAGAA-GTGCCACGGAGTTGTGGGCTTTAAAAG-AAAAGGTGCCA
136862 CGGAGT
127 CGGAGT
* * * * ** *
136868 TGTGGGCTTT-GA-AGGAAAAAATGCCACTGAGTCGTGATCTTTA-AA-GAAAAAGA-TGCCACT
1 TGTGGGCTTTAAAGAGGAAAAAGTGCCACGGAGTTGTGGGC-TTAGAAGGAAAAAGAGTGCCACG
* *
136928 GAGTGGTGGACTTT
65 GAGTTGTGGGCTTT
136942 GAGCAGAGAT
Statistics
Matches: 538, Mismatches: 38, Indels: 62
0.84 0.06 0.10
Matches are distributed among these distances:
126 22 0.04
127 1 0.00
128 36 0.07
129 28 0.05
130 23 0.04
131 153 0.28
132 22 0.04
133 38 0.07
134 75 0.14
135 43 0.08
136 57 0.11
137 34 0.06
138 6 0.01
ACGTcount: A:0.32, C:0.12, G:0.35, T:0.21
Consensus pattern (132 bp):
TGTGGGCTTTAAAGAGGAAAAAGTGCCACGGAGTTGTGGGCTTAGAAGGAAAAAGAGTGCCACGG
AGTTGTGGGCTTTAAAAGAAGAAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAGGTGCCACGGA
GT
Found at i:136959 original size:31 final size:31
Alignment explanation
Indices: 136889--137003 Score: 144
Period size: 31 Copynumber: 3.7 Consensus size: 31
136879 AAGGAAAAAA
* *
136889 TGCCACTGAGTCGT-GATCTTTAAAGAAAAAGA-
1 TGCCACTGAGTCGTGGA-CTTT-GAG-AAGAGAT
* *
136921 TGCCACTGAGTGGTGGACTTTGAGCAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
136952 TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
*
136983 TGCCACTTAGTCGTGGACTTT
1 TGCCACTGAGTCGTGGACTTT
137004 AAAAAGGTAT
Statistics
Matches: 74, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
30 4 0.05
31 51 0.69
32 17 0.23
33 2 0.03
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (31 bp):
TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
Found at i:138221 original size:1 final size:1
Alignment explanation
Indices: 138215--138266 Score: 59
Period size: 1 Copynumber: 52.0 Consensus size: 1
138205 GCCTTTGCAC
* * * * *
138215 TTTTTTTTTGTTTGTTGTTTTTTATTTTTTTTTGTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
138267 GTGTTTACTT
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 41 1.00
ACGTcount: A:0.02, C:0.00, G:0.08, T:0.90
Consensus pattern (1 bp):
T
Found at i:138244 original size:21 final size:19
Alignment explanation
Indices: 138215--138272 Score: 82
Period size: 20 Copynumber: 3.1 Consensus size: 19
138205 GCCTTTGCAC
*
138215 TTTTTTTTTGTTTGTTGTT
1 TTTTTTTTTTTTTGTTGTT
*
138234 TTTTATTTTTTTTTGTTTTT
1 TTTT-TTTTTTTTTGTTGTT
138254 TTTTTTTTTTTTTG-TGTT
1 TTTTTTTTTTTTTGTTGTT
138272 T
1 T
138273 ACTTTTGACT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
18 4 0.11
19 14 0.40
20 17 0.49
ACGTcount: A:0.02, C:0.00, G:0.10, T:0.88
Consensus pattern (19 bp):
TTTTTTTTTTTTTGTTGTT
Found at i:138248 original size:20 final size:20
Alignment explanation
Indices: 138218--138272 Score: 78
Period size: 19 Copynumber: 2.8 Consensus size: 20
138208 TTTGCACTTT
138218 TTTTTTGTTTGTTGTTTTTTA
1 TTTTTT-TTTGTTGTTTTTTA
*
138239 TTTTTTTTTGTT-TTTTTTT
1 TTTTTTTTTGTTGTTTTTTA
138258 TTTTTTTTTG-TGTTT
1 TTTTTTTTTGTTGTTT
138273 ACTTTTGACT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
18 1 0.03
19 19 0.59
20 6 0.19
21 6 0.19
ACGTcount: A:0.02, C:0.00, G:0.11, T:0.87
Consensus pattern (20 bp):
TTTTTTTTTGTTGTTTTTTA
Found at i:138259 original size:17 final size:17
Alignment explanation
Indices: 138215--138264 Score: 73
Period size: 17 Copynumber: 2.9 Consensus size: 17
138205 GCCTTTGCAC
* *
138215 TTTTTTTTTGTTTGTTG
1 TTTTTTTTTTTTTTTTG
*
138232 TTTTTTATTTTTTTTTG
1 TTTTTTTTTTTTTTTTG
138249 TTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTT
138265 TTGTGTTTAC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.02, C:0.00, G:0.08, T:0.90
Consensus pattern (17 bp):
TTTTTTTTTTTTTTTTG
Found at i:138278 original size:20 final size:20
Alignment explanation
Indices: 138213--138278 Score: 66
Period size: 20 Copynumber: 3.3 Consensus size: 20
138203 TTGCCTTTGC
138213 ACTTTTTTTTTGTTTGTTGTTT
1 ACTTTTTTTTT-TTTG-TGTTT
138235 --TTTATTTTTTTTTGT-TTT
1 ACTTT-TTTTTTTTTGTGTTT
**
138253 TTTTTTTTTTTTTTGTGTTT
1 ACTTTTTTTTTTTTGTGTTT
138273 ACTTTT
1 ACTTTT
138279 GACTGTTCCG
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
18 3 0.08
19 12 0.32
20 17 0.45
21 6 0.16
ACGTcount: A:0.05, C:0.03, G:0.09, T:0.83
Consensus pattern (20 bp):
ACTTTTTTTTTTTTGTGTTT
Done.