Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2231
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: 69695
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.32
Found at i:3181 original size:21 final size:21
Alignment explanation
Indices: 3156--3195 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
3146 TATTTCTCTT
3156 TTTTTTAATTTTTTT-CTTTA
1 TTTTTTAATTTTTTTGCTTTA
*
3176 TTTTTTACTTTTTTTGCTTT
1 TTTTTTAATTTTTTTGCTTT
3196 CTAGTTTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.10, C:0.07, G:0.03, T:0.80
Consensus pattern (21 bp):
TTTTTTAATTTTTTTGCTTTA
Found at i:9032 original size:17 final size:18
Alignment explanation
Indices: 9010--9044 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
9000 CTACTACTAG
9010 TTTTAT-CTATCAATACA
1 TTTTATGCTATCAATACA
*
9027 TTTTATGGTATCAATACA
1 TTTTATGCTATCAATACA
9045 AAAAACATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.34, C:0.14, G:0.06, T:0.46
Consensus pattern (18 bp):
TTTTATGCTATCAATACA
Found at i:9062 original size:19 final size:19
Alignment explanation
Indices: 9034--9083 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 19
9024 ACATTTTATG
*
9034 GTATCAATACAAAAAACAT
1 GTATCGATACAAAAAACAT
** *
9053 GTATCGATACTAAGCAATAT
1 GTATCGATAC-AAAAAACAT
9073 GTATCGATACA
1 GTATCGATACA
9084 TCTGGATGTC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
19 10 0.38
20 16 0.62
ACGTcount: A:0.46, C:0.16, G:0.12, T:0.26
Consensus pattern (19 bp):
GTATCGATACAAAAAACAT
Found at i:11152 original size:11 final size:11
Alignment explanation
Indices: 11138--11162 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
11128 AGCCATCGAA
11138 AAGGTTTTGGG
1 AAGGTTTTGGG
11149 AAGGTTTTGGG
1 AAGGTTTTGGG
11160 AAG
1 AAG
11163 TTTAAGTAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.00, G:0.44, T:0.32
Consensus pattern (11 bp):
AAGGTTTTGGG
Found at i:11677 original size:19 final size:19
Alignment explanation
Indices: 11653--11717 Score: 70
Period size: 19 Copynumber: 3.7 Consensus size: 19
11643 ATATAGTTGA
11653 AATGTATCGATACAATTTT
1 AATGTATCGATACAATTTT
*
11672 AATGTATAGATAC-A---T
1 AATGTATCGATACAATTTT
11687 --TGTATCGATACAATTTT
1 AATGTATCGATACAATTTT
*
11704 AATATATCGATACA
1 AATGTATCGATACA
11718 TTGTATCAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 12
0.71 0.06 0.23
Matches are distributed among these distances:
13 10 0.27
14 1 0.03
15 1 0.03
17 1 0.03
18 1 0.03
19 23 0.62
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.38
Consensus pattern (19 bp):
AATGTATCGATACAATTTT
Found at i:11680 original size:32 final size:32
Alignment explanation
Indices: 11653--11724 Score: 108
Period size: 32 Copynumber: 2.2 Consensus size: 32
11643 ATATAGTTGA
11653 AATGTATCGATACAATTTTAATGTATAGATAC
1 AATGTATCGATACAATTTTAATGTATAGATAC
* * *
11685 ATTGTATCGATACAATTTTAATATATCGATAC
1 AATGTATCGATACAATTTTAATGTATAGATAC
*
11717 ATTGTATC
1 AATGTATC
11725 AATAGATCTA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.40
Consensus pattern (32 bp):
AATGTATCGATACAATTTTAATGTATAGATAC
Found at i:18485 original size:48 final size:48
Alignment explanation
Indices: 18411--18524 Score: 183
Period size: 48 Copynumber: 2.4 Consensus size: 48
18401 TTCTTCTCCT
* * *
18411 TACTATTAGAAGTCACCATCTCTGTCATATCCTAGTCCCCCATCATTA
1 TACTACTACAAGTCACCATCTCTGTCATATCCTAGTCCCCCACCATTA
* *
18459 TAGTACTACAAGTCACCATCTCTGTCATCTCCTAGTCCCCCACCATTA
1 TACTACTACAAGTCACCATCTCTGTCATATCCTAGTCCCCCACCATTA
18507 TACTACTACAAGTCACCA
1 TACTACTACAAGTCACCA
18525 CCCTTTTTAT
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 60 1.00
ACGTcount: A:0.28, C:0.34, G:0.08, T:0.30
Consensus pattern (48 bp):
TACTACTACAAGTCACCATCTCTGTCATATCCTAGTCCCCCACCATTA
Found at i:20185 original size:20 final size:20
Alignment explanation
Indices: 20162--20238 Score: 93
Period size: 20 Copynumber: 3.9 Consensus size: 20
20152 AAGTACCCAG
* *
20162 ATGTATTGATACATTTTTCA
1 ATGTATCGATACATTCTTCA
* *
20182 ATGTATCGATACA-TGTACGA
1 ATGTATCGATACATTCTTC-A
20202 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTCTTCA
*
20222 ATGTATTGATACATTCT
1 ATGTATCGATACATTCT
20239 ATCTTTTTAC
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
19 3 0.06
20 43 0.88
21 3 0.06
ACGTcount: A:0.31, C:0.14, G:0.13, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATTCTTCA
Found at i:33070 original size:13 final size:13
Alignment explanation
Indices: 33052--33090 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
33042 ACATAAGTGT
33052 TGTATCGATACAA
1 TGTATCGATACAA
*
33065 TGTATCGATACAT
1 TGTATCGATACAA
33078 TGTATCGATACAA
1 TGTATCGATACAA
33091 ATCGTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:35264 original size:13 final size:13
Alignment explanation
Indices: 35246--35270 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35236 CACTAAGAAC
35246 ATGTATCGATACA
1 ATGTATCGATACA
35259 ATGTATCGATAC
1 ATGTATCGATAC
35271 TAAGCAATAT
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:35967 original size:25 final size:25
Alignment explanation
Indices: 35933--35982 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
35923 GCAATTTTCA
*
35933 ATTTAGTACTCCCCCTTAACAAATT
1 ATTTAATACTCCCCCTTAACAAATT
*
35958 ATTTAATACTCCCCTTTAACAAATT
1 ATTTAATACTCCCCCTTAACAAATT
35983 TTCTCCCCCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.34, C:0.26, G:0.02, T:0.38
Consensus pattern (25 bp):
ATTTAATACTCCCCCTTAACAAATT
Found at i:36288 original size:24 final size:25
Alignment explanation
Indices: 36241--36296 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 25
36231 TAAAAATAAT
*
36241 ATCAAGGCAAACATTTATTGCATTC
1 ATCAAAGCAAACATTTATTGCATTC
* *
36266 ATGAAAGCAAACA-TTATTTCATTC
1 ATCAAAGCAAACATTTATTGCATTC
36290 ATCAAAG
1 ATCAAAG
36297 AAATTCAAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
24 16 0.59
25 11 0.41
ACGTcount: A:0.41, C:0.18, G:0.11, T:0.30
Consensus pattern (25 bp):
ATCAAAGCAAACATTTATTGCATTC
Found at i:41534 original size:50 final size:50
Alignment explanation
Indices: 41476--41589 Score: 192
Period size: 50 Copynumber: 2.3 Consensus size: 50
41466 AATTAACTAG
*
41476 ATGTATCGATACATTAAAAAATGTATCAATATATCTGGGTAAAAAAAAGA
1 ATGTATCGATACATTAAAAAATGTATCAATACATCTGGGTAAAAAAAAGA
* * *
41526 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAAATAGA
1 ATGTATCGATACATTAAAAAATGTATCAATACATCTGGGTAAAAAAAAGA
41576 ATGTATCGATACAT
1 ATGTATCGATACAT
41590 GTACTATTCA
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 60 1.00
ACGTcount: A:0.46, C:0.10, G:0.16, T:0.29
Consensus pattern (50 bp):
ATGTATCGATACATTAAAAAATGTATCAATACATCTGGGTAAAAAAAAGA
Found at i:42585 original size:28 final size:28
Alignment explanation
Indices: 42530--43151 Score: 603
Period size: 28 Copynumber: 22.0 Consensus size: 28
42520 CTTTGACTAG
42530 GGTGCCACTAACTTATGTGGGCTTTGAAAA
1 GGTGCCACTAAC-T-TGTGGGCTTTGAAAA
*
42560 TGTGCCACTAACTTGTGGGCTTTGAAAA
1 GGTGCCACTAACTTGTGGGCTTTGAAAA
* *
42588 GGTGCCACTAACTTGTGGGCGTTGAGAA
1 GGTGCCACTAACTTGTGGGCTTTGAAAA
*
42616 TGTGCCACTAACTTGTGGGCTTTGAAAA
1 GGTGCCACTAACTTGTGGGCTTTGAAAA
* * * *
42644 GATACCACTGACTTGTGGGCTTTGAGAA
1 GGTGCCACTAACTTGTGGGCTTTGAAAA
* *
42672 GGTGCCACTGACTTGTGGACTTT-AAAA
1 GGTGCCACTAACTTGTGGGCTTTGAAAA
* * *
42699 GGATGCCACTGACTTATGGGTTTTGAAAA
1 GG-TGCCACTAACTTGTGGGCTTTGAAAA
* * * *
42728 GGTGACACTAACTTGTGAGCTAT-AAGTA
1 GGTGCCACTAACTTGTGGGCTTTGAA-AA
*
42756 GGTGCCACTAACTTGTAGGCTTTG-AAA
1 GGTGCCACTAACTTGTGGGCTTTGAAAA
* * * * *
42783 GGATACTACTGACTTGTAGGCTTTGAGAA
1 GG-TGCCACTAACTTGTGGGCTTTGAAAA
*
42812 GGTGCCACTAACTTATGGGCTTTG-AAA
1 GGTGCCACTAACTTGTGGGCTTTGAAAA
* *
42839 GGATACCACTGACTTGTGGGCTTT-AAGAA
1 GG-TGCCACTAACTTGTGGGCTTTGAA-AA
*
42868 GGTGCCACTAACTTATGGGCTTTG-AAA
1 GGTGCCACTAACTTGTGGGCTTTGAAAA
* *
42895 GGATACCACTAACACTTGTGGGCTTTGAGAA
1 GG-TGCCACT-A-ACTTGTGGGCTTTGAAAA
* * *
42926 TGTGCCACTAACTTATAGGCTTTG-AAA
1 GGTGCCACTAACTTGTGGGCTTTGAAAA
*
42953 GGATGCCACTGACTTGTGGGCTTTGAAAAA
1 GG-TGCCACTAACTTGTGGGCTTTG-AAAA
* *
42983 GGATACCACTAACTTATGGGCTTTGAAAAA
1 GG-TGCCACTAACTTGTGGGCTTTG-AAAA
* * * * *
43013 AGTGCCATTGACTTATGGGATTTG-AAA
1 GGTGCCACTAACTTGTGGGCTTTGAAAA
* * *
43040 GGATACCACTGACTTATGGGCTTTGAAAA
1 GG-TGCCACTAACTTGTGGGCTTTGAAAA
* *
43069 GGTGCCACTGACTTGTGGGCTATGAAAA
1 GGTGCCACTAACTTGTGGGCTTTGAAAA
* * *
43097 GGTGCCACTGACTTGTGGGTTTTGAGAA
1 GGTGCCACTAACTTGTGGGCTTTGAAAA
* *
43125 GGTGCCACTGACTTATGGGCTTTGAAA
1 GGTGCCACTAACTTGTGGGCTTTGAAA
43152 GGGTCGTGTT
Statistics
Matches: 493, Mismatches: 80, Indels: 40
0.80 0.13 0.07
Matches are distributed among these distances:
27 25 0.05
28 364 0.74
29 40 0.08
30 61 0.12
31 3 0.01
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (28 bp):
GGTGCCACTAACTTGTGGGCTTTGAAAA
Found at i:43177 original size:14 final size:14
Alignment explanation
Indices: 43160--43247 Score: 67
Period size: 14 Copynumber: 6.6 Consensus size: 14
43150 AAGGGTCGTG
43160 TTGACAAAAATTTC
1 TTGACAAAAATTTC
*
43174 TTGAC-AAAGTTTC
1 TTGACAAAAATTTC
* *
43187 -TGACGAATA-TTC
1 TTGACAAAAATTTC
*
43199 TTGAC-AAAAGTTC
1 TTGACAAAAATTTC
** *
43212 TTGATGATAATTTC
1 TTGACAAAAATTTC
**
43226 TTGACAATCATTTC
1 TTGACAAAAATTTC
43240 TTGACAAA
1 TTGACAAA
43248 TGGCGAATCA
Statistics
Matches: 59, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
12 10 0.17
13 20 0.34
14 29 0.49
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (14 bp):
TTGACAAAAATTTC
Found at i:44600 original size:78 final size:79
Alignment explanation
Indices: 44365--44666 Score: 360
Period size: 79 Copynumber: 3.8 Consensus size: 79
44355 TGGAGTACAT
* * * * *
44365 TCCCCGATGGTGGAAAATTGATGTTTTGGAAATAAAA-TCGGGGTTGGAGTATTCCCTAAAAAAT
1 TCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAACT-GGGGTTGGAGTATCCCCTCAAAAAT
*** *
44429 AACAAAGTTGTAGTA
65 AACGGGGTTGGAGTA
* * *
44444 TCCCCAATTGTGAAAAATCGATGTTTTAAAAATAAAAAC-GGGGTTGGAGTATCCCCTCAAAAAT
1 TCCCCGATTGTGAAAAATTGATGTTTTAGAAAT-AAAACTGGGGTTGGAGTATCCCCTCAAAAAT
*
44508 AACGGGGTTAGAGTA
65 AACGGGGTTGGAGTA
* * * * *
44523 TCCTCGATTGTGAAAATTTGATGTTTTAGAAATAAAGCTGGGGTTGGAGCAT-CCCTCAGAAATA
1 TCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAACTGGGGTTGGAGTATCCCCTCAAAAATA
44587 ACGGGGTTGGAGTA
66 ACGGGGTTGGAGTA
* * *
44601 TCCCCGATGGTGAAAAATT-AGTGTTTTGGAAATAAAACTGGGGTTAGAGTATCCCCTCAAAAAT
1 TCCCCGATTGTGAAAAATTGA-TGTTTTAGAAATAAAACTGGGGTTGGAGTATCCCCTCAAAAAT
44665 AA
65 AA
44667 TGAGTATCCC
Statistics
Matches: 188, Mismatches: 30, Indels: 10
0.82 0.13 0.04
Matches are distributed among these distances:
77 1 0.01
78 71 0.38
79 112 0.60
80 4 0.02
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.28
Consensus pattern (79 bp):
TCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAACTGGGGTTGGAGTATCCCCTCAAAAATA
ACGGGGTTGGAGTA
Found at i:44602 original size:157 final size:157
Alignment explanation
Indices: 44377--44666 Score: 381
Period size: 157 Copynumber: 1.8 Consensus size: 157
44367 CCCGATGGTG
* * *
44377 GAAAATTGATGTTTTGGAAATAAAATCGGGGTTGGAGTATTCCCTAAAAAATAACAAAGTTGTAG
1 GAAAATTGATGTTTTAGAAATAAAATCGGGGTTGGAGCATTCCCTAAAAAATAACAAAGTTGGAG
* *
44442 TATCCCCAATTGTGAAAAATCGA-TGTTTTAAAAATAAAAAC-GGGGTTGGAGTATCCCCTCAAA
66 TATCCCCAATGGTGAAAAAT-GAGTGTTTTAAAAAT-AAAACTGGGGTTAGAGTATCCCCTCAAA
44505 AATAACGGGGTTAGAGTATCCTCGATTGT
129 AATAACGGGGTTAGAGTATCCTCGATTGT
* * * ***
44534 GAAAATTTGATGTTTTAGAAAT-AAAGCTGGGGTTGGAGCA-TCCCTCAGAAATAACGGGGTTGG
1 GAAAA-TTGATGTTTTAGAAATAAAATC-GGGGTTGGAGCATTCCCTAAAAAATAACAAAGTTGG
* * **
44597 AGTATCCCCGATGGTGAAAAATTAGTGTTTTGGAAATAAAACTGGGGTTAGAGTATCCCCTCAAA
64 AGTATCCCCAATGGTGAAAAATGAGTGTTTTAAAAATAAAACTGGGGTTAGAGTATCCCCTCAAA
44662 AATAA
129 AATAA
44667 TGAGTATCCC
Statistics
Matches: 114, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
156 6 0.05
157 82 0.72
158 26 0.23
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.28
Consensus pattern (157 bp):
GAAAATTGATGTTTTAGAAATAAAATCGGGGTTGGAGCATTCCCTAAAAAATAACAAAGTTGGAG
TATCCCCAATGGTGAAAAATGAGTGTTTTAAAAATAAAACTGGGGTTAGAGTATCCCCTCAAAAA
TAACGGGGTTAGAGTATCCTCGATTGT
Found at i:45032 original size:13 final size:13
Alignment explanation
Indices: 45014--45038 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45004 ATTACTCAAA
45014 TGTATCGATACAT
1 TGTATCGATACAT
45027 TGTATCGATACA
1 TGTATCGATACA
45039 CCGATCTTTG
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:45088 original size:32 final size:32
Alignment explanation
Indices: 45047--45122 Score: 143
Period size: 32 Copynumber: 2.4 Consensus size: 32
45037 CACCGATCTT
*
45047 TGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACATGCAGGCAAATCTGCCCAGA
45079 TGTATCGATACATGCAGGCAAATCTGCCCAGA
1 TGTATCGATACATGCAGGCAAATCTGCCCAGA
45111 TGTATCGATACA
1 TGTATCGATACA
45123 CTATTAAATG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 43 1.00
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (32 bp):
TGTATCGATACATGCAGGCAAATCTGCCCAGA
Found at i:48402 original size:21 final size:21
Alignment explanation
Indices: 48377--48419 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
48367 CATGTCAGGA
48377 GCATCTCGTCATGCAATGAAT
1 GCATCTCGTCATGCAATGAAT
48398 GCATCTCGTCATGCAATGAAT
1 GCATCTCGTCATGCAATGAAT
48419 G
1 G
48420 TCATTTTGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (21 bp):
GCATCTCGTCATGCAATGAAT
Found at i:52090 original size:11 final size:11
Alignment explanation
Indices: 52076--52127 Score: 79
Period size: 11 Copynumber: 4.7 Consensus size: 11
52066 AAGTGATGAA
52076 AAAAAAAACAC
1 AAAAAAAACAC
*
52087 AAAAAAAAAAC
1 AAAAAAAACAC
52098 AACAAAAAA-AC
1 AA-AAAAAACAC
52109 AAAAAAAACAC
1 AAAAAAAACAC
52120 AAAAAAAA
1 AAAAAAAA
52128 ATGCAAAGGC
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
10 6 0.16
11 26 0.68
12 6 0.16
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAAACAC
Found at i:52114 original size:20 final size:19
Alignment explanation
Indices: 52089--52126 Score: 67
Period size: 19 Copynumber: 1.9 Consensus size: 19
52079 AAAAACACAA
52089 AAAAAAAACAACAAAAAAAC
1 AAAAAAAAC-ACAAAAAAAC
52109 AAAAAAAACACAAAAAAA
1 AAAAAAAACACAAAAAAA
52127 AATGCAAAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (19 bp):
AAAAAAAACACAAAAAAAC
Found at i:52128 original size:13 final size:14
Alignment explanation
Indices: 52074--52107 Score: 61
Period size: 13 Copynumber: 2.5 Consensus size: 14
52064 AAAAGTGATG
52074 AAAAAAAAAAC-AC
1 AAAAAAAAAACAAC
52087 AAAAAAAAAACAAC
1 AAAAAAAAAACAAC
52101 AAAAAAA
1 AAAAAAA
52108 CAAAAAAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 11 0.55
14 9 0.45
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAACAAC
Found at i:52386 original size:17 final size:16
Alignment explanation
Indices: 52364--52416 Score: 81
Period size: 15 Copynumber: 3.3 Consensus size: 16
52354 TGTTCTTTTC
52364 CAAAAAAAGAAACAAAA
1 CAAAAAAAGAAA-AAAA
52381 CAAAAAAAGAAAAAAA
1 CAAAAAAAGAAAAAAA
*
52397 -AAGAAAAGAAAAAAA
1 CAAAAAAAGAAAAAAA
52412 CAAAA
1 CAAAA
52417 CAGAAAAGCT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
15 14 0.42
16 7 0.21
17 12 0.36
ACGTcount: A:0.85, C:0.08, G:0.08, T:0.00
Consensus pattern (16 bp):
CAAAAAAAGAAAAAAA
Found at i:52403 original size:23 final size:24
Alignment explanation
Indices: 52366--52422 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 24
52356 TTCTTTTCCA
*
52366 AAAAAAGAAACAAAACAAAAAAAG
1 AAAAAAGAAACAAAACAAAAAAAC
* *
52390 AAAAAA-AAAGAAAAGAAAAAAAC
1 AAAAAAGAAACAAAACAAAAAAAC
*
52413 AAAACAGAAA
1 AAAAAAGAAA
52423 AGCTCGATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 19 0.68
24 9 0.32
ACGTcount: A:0.84, C:0.07, G:0.09, T:0.00
Consensus pattern (24 bp):
AAAAAAGAAACAAAACAAAAAAAC
Found at i:52421 original size:15 final size:15
Alignment explanation
Indices: 52366--52423 Score: 73
Period size: 15 Copynumber: 3.7 Consensus size: 15
52356 TTCTTTTCCA
52366 AAAAAAGAAACAAAAC
1 AAAAAAGAAA-AAAAC
52382 AAAAAAAGAAAAAAA-
1 -AAAAAAGAAAAAAAC
52397 AAGAAAAGAAAAAAAC
1 AA-AAAAGAAAAAAAC
*
52413 AAAACAGAAAA
1 AAAAAAGAAAA
52424 GCTCGATAAG
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
14 2 0.05
15 20 0.53
16 6 0.16
17 10 0.26
ACGTcount: A:0.84, C:0.07, G:0.09, T:0.00
Consensus pattern (15 bp):
AAAAAAGAAAAAAAC
Found at i:52484 original size:19 final size:19
Alignment explanation
Indices: 52460--52498 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
52450 CCTAATCTTC
**
52460 ACAAAAAAAATGCAAAAAA
1 ACAAAAAAAAAACAAAAAA
52479 ACAAAAAAAAAACAAAAAA
1 ACAAAAAAAAAACAAAAAA
52498 A
1 A
52499 AAGGGAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.85, C:0.10, G:0.03, T:0.03
Consensus pattern (19 bp):
ACAAAAAAAAAACAAAAAA
Found at i:52500 original size:11 final size:11
Alignment explanation
Indices: 52473--52500 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
52463 AAAAAAATGC
52473 AAAAAAACAAA
1 AAAAAAACAAA
52484 AAAAAAACAAA
1 AAAAAAACAAA
52495 AAAAAA
1 AAAAAA
52501 GGGAAAAACC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAACAAA
Found at i:53487 original size:30 final size:31
Alignment explanation
Indices: 53451--53532 Score: 112
Period size: 30 Copynumber: 2.7 Consensus size: 31
53441 ATACCTTTTT
53451 AAAGTCCACGACTCAGTGGCATTTTGTC-TC
1 AAAGTCCACGACTCAGTGGCATTTTGTCTTC
* *
53481 AAAGTCCACGACTCAGTGGCATTTTTTCTTT
1 AAAGTCCACGACTCAGTGGCATTTTGTCTTC
* * *
53512 AAAGCCCACAACTCCGTGGCA
1 AAAGTCCACGACTCAGTGGCA
53533 CCTTGTTCCT
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
30 27 0.59
31 19 0.41
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (31 bp):
AAAGTCCACGACTCAGTGGCATTTTGTCTTC
Found at i:53616 original size:34 final size:34
Alignment explanation
Indices: 53578--53690 Score: 112
Period size: 34 Copynumber: 3.5 Consensus size: 34
53568 CTTTTAAAGC
*
53578 CCACAATTCCGTGACACTTTTTTCATCTTTAAGT
1 CCACAATTCCGTGGCACTTTTTTCATCTTTAAGT
* ** *
53612 CCACAACTCCGTGGCACCCTTTT-A-----AAGC
1 CCACAATTCCGTGGCACTTTTTTCATCTTTAAGT
*
53640 CCACAATTCTGTGGCACTTTTTTCATCTTTAAGT
1 CCACAATTCCGTGGCACTTTTTTCATCTTTAAGT
* *
53674 CCACAACTCTGTGGCAC
1 CCACAATTCCGTGGCAC
53691 CTACAACTTT
Statistics
Matches: 62, Mismatches: 11, Indels: 12
0.73 0.13 0.14
Matches are distributed among these distances:
28 22 0.35
29 1 0.02
33 1 0.02
34 38 0.61
ACGTcount: A:0.23, C:0.31, G:0.12, T:0.34
Consensus pattern (34 bp):
CCACAATTCCGTGGCACTTTTTTCATCTTTAAGT
Found at i:53624 original size:62 final size:62
Alignment explanation
Indices: 53509--53691 Score: 296
Period size: 62 Copynumber: 3.0 Consensus size: 62
53499 GCATTTTTTC
* * * *
53509 TTTAAAGCCCACAACTCCGTGGCACCTTGTTCCT-TTTAAGTCCACAACTCCGTGGCACCCT
1 TTTAAAGCCCACAATTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCCT
*
53570 TTTAAAGCCCACAATTCCGTGACACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCCT
1 TTTAAAGCCCACAATTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCCT
* *
53632 TTTAAAGCCCACAATTCTGTGGCACTTTTTTCATCTTTAAGTCCACAACTCTGTGGCACC
1 TTTAAAGCCCACAATTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACC
53692 TACAACTTTG
Statistics
Matches: 113, Mismatches: 8, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
61 29 0.26
62 84 0.74
ACGTcount: A:0.23, C:0.32, G:0.13, T:0.32
Consensus pattern (62 bp):
TTTAAAGCCCACAATTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCCT
Found at i:53662 original size:28 final size:28
Alignment explanation
Indices: 53446--53662 Score: 112
Period size: 28 Copynumber: 7.2 Consensus size: 28
53436 TTCAAATACC
* * *
53446 TTTTTAAAGTCCACGACTCAGTGGCA-T
1 TTTTTAAAGCCCACAACTCCGTGGCACT
* * * *
53473 TTTGTCTCAAAGTCCACGACTCAGTGGCATTTT
1 TTT-T-T-AAAGCCCACAACTCCGTGGCA--CT
53506 TTCTTTAAAGCCCACAACTCCGTGGCACCTT
1 TT-TTTAAAGCCCACAACTCCGTGGCA-C-T
* * *
53537 GTTCCTTTTAAGTCCACAACTCCGTGGCACC
1 -TT--TTTAAAGCCCACAACTCCGTGGCACT
* * *
53568 CTTTTAAAGCCCACAATTCCGTGACACT
1 TTTTTAAAGCCCACAACTCCGTGGCACT
* *
53596 TTTTTCATCTTTAAGTCCACAACTCCGTGGCACC
1 TTTTT-A-----AAGCCCACAACTCCGTGGCACT
* * *
53630 CTTTTAAAGCCCACAATTCTGTGGCACT
1 TTTTTAAAGCCCACAACTCCGTGGCACT
53658 TTTTT
1 TTTTT
53663 CATCTTTAAG
Statistics
Matches: 149, Mismatches: 25, Indels: 31
0.73 0.12 0.15
Matches are distributed among these distances:
27 3 0.02
28 48 0.32
29 2 0.01
30 22 0.15
31 19 0.13
32 4 0.03
33 28 0.19
34 23 0.15
ACGTcount: A:0.23, C:0.29, G:0.14, T:0.34
Consensus pattern (28 bp):
TTTTTAAAGCCCACAACTCCGTGGCACT
Found at i:53734 original size:37 final size:35
Alignment explanation
Indices: 53701--53846 Score: 176
Period size: 37 Copynumber: 4.2 Consensus size: 35
53691 CTACAACTTT
53701 GTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCC
1 GTGGCACTCTTTTT-CCTTTT-AAAGCCCACAACTCC
* **
53738 GTGGCAC-CTTCTT-CTTTT-AAGCCCACAACTTT
1 GTGGCACTCTTTTTCCTTTTAAAGCCCACAACTCC
*
53770 GTGGCACTCTTTTTTCCTTTTCAAAGCCCACAACTTC
1 GTGGCACTC-TTTTTCCTTTT-AAAGCCCACAACTCC
*
53807 GTGGCAC-CTTTTT-CTTTTAAAGCCCACAACTCT
1 GTGGCACTCTTTTTCCTTTTAAAGCCCACAACTCC
53840 GTGGCAC
1 GTGGCAC
53847 CTACAACTTT
Statistics
Matches: 97, Mismatches: 7, Indels: 14
0.82 0.06 0.12
Matches are distributed among these distances:
32 19 0.20
33 21 0.22
34 14 0.14
35 10 0.10
36 6 0.06
37 27 0.28
ACGTcount: A:0.19, C:0.33, G:0.13, T:0.35
Consensus pattern (35 bp):
GTGGCACTCTTTTTCCTTTTAAAGCCCACAACTCC
Found at i:53843 original size:70 final size:70
Alignment explanation
Indices: 53693--54013 Score: 383
Period size: 69 Copynumber: 4.3 Consensus size: 70
53683 TGTGGCACCT
* *
53693 ACAACTTTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTCTTCTTTT-A
1 ACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAA
53757 AGCCC
66 AGCCC
* * *
53762 ACAACTTTGTGGCACTCTTTTTTCCTTTTCAAAGCCCACAACTTCGTGGCACCTTTTTCTTTTAA
1 ACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAA
53827 AGCCC
66 AGCCC
*
53832 ACAACTCTGTGGCACCTACAACTTTGTGGCACTCTCTTTCCCTTTTTAAAGCCCACAACTCCGTG
1 ACAACTCTGTGGCA-CT----CTTT-T-TC-C-CT-TTT--C-----AAAGCCCACAACTCCGTG
53897 GCACCTTTTTTCTGTTTAAAGCCC
49 GCACC-TTTTTCT-TTTAAAGCCC
* *
53921 ACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAA
1 ACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAA
53986 AGCCC
66 AGCCC
*
53991 ACAACTCCGTGGCACTCTTTTTC
1 ACAACTCTGTGGCACTCTTTTTC
54014 ATCTTTAAGT
Statistics
Matches: 222, Mismatches: 10, Indels: 39
0.82 0.04 0.14
Matches are distributed among these distances:
69 60 0.27
70 52 0.23
71 9 0.04
72 22 0.10
75 4 0.02
76 1 0.00
77 1 0.00
78 1 0.00
79 5 0.02
80 5 0.02
81 1 0.00
82 2 0.01
83 1 0.00
84 4 0.02
87 22 0.10
88 9 0.04
89 23 0.10
ACGTcount: A:0.20, C:0.33, G:0.12, T:0.35
Consensus pattern (70 bp):
ACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAA
AGCCC
Found at i:53922 original size:35 final size:33
Alignment explanation
Indices: 53875--54044 Score: 225
Period size: 35 Copynumber: 4.9 Consensus size: 33
53865 CTCTTTCCCT
53875 TTTTAAAGCCCACAACTCCGTGGCACCTTTTTTC
1 TTTTAAAGCCCACAACTCCGTGGCA-CTTTTTTC
53909 TGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCC
1 T-TTTAAAGCCCACAACTCCGTGGCACT-TTTTT--C
53946 TTTTCAAAGCCCACAACTCCGTGGCACTTTTTTC
1 TTTT-AAAGCCCACAACTCCGTGGCACTTTTTTC
53980 TTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
1 TTTTAAAGCCCACAACTCCGTGGCACT-TTTTTC
* *
54014 ATCTTT-AAGTCCATAACTCCGTGGCATCTTT
1 -T-TTTAAAGCCCACAACTCCGTGGCA-CTTT
54045 CTCCCTTCCT
Statistics
Matches: 125, Mismatches: 2, Indels: 17
0.87 0.01 0.12
Matches are distributed among these distances:
33 23 0.18
34 14 0.11
35 50 0.40
36 13 0.10
37 25 0.20
ACGTcount: A:0.21, C:0.32, G:0.12, T:0.35
Consensus pattern (33 bp):
TTTTAAAGCCCACAACTCCGTGGCACTTTTTTC
Found at i:53955 original size:72 final size:70
Alignment explanation
Indices: 53857--54013 Score: 278
Period size: 72 Copynumber: 2.2 Consensus size: 70
53847 CTACAACTTT
* *
53857 GTGGCACTCTCTTTCCCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTTCTGTTTAAAGCCCA
1 GTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCA-CTTTTTTCT-TTTAAAGCCCA
53922 CAACTCC
64 CAACTCC
53929 GTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACA
1 GTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACA
53994 ACTCC
66 ACTCC
53999 GTGGCACTCTTTTTC
1 GTGGCACTCTTTTTC
54014 ATCTTTAAGT
Statistics
Matches: 83, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
70 33 0.40
71 9 0.11
72 41 0.49
ACGTcount: A:0.18, C:0.34, G:0.13, T:0.35
Consensus pattern (70 bp):
GTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACA
ACTCC
Found at i:53991 original size:159 final size:157
Alignment explanation
Indices: 53569--54005 Score: 601
Period size: 159 Copynumber: 2.8 Consensus size: 157
53559 CGTGGCACCC
* * *
53569 TTTTAAAGCCCACAATTCCGTGACA-CTTTTTTCATCTTTAAGTCCACAACTCCGTGGCA-----
1 TTTTAAAGCCCACAACTCCGTGGCACCTTTTTTC-T-TTTAAGCCCACAACTCCGTGGCACTCTT
* * *
53628 ---CCCTTTT-AAAGCCCACAATTCTGTGGCACTTTTTTCATCTTT-AAGTCCACAACTCTGTGG
64 TTTCCCTTTTCAAAGCCCACAACTCCGTGGCACTTTTTTC-T-TTTAAAGCCCACAACTCTGTGG
*
53688 CACCTACAACTTTGTGGCACTCTTTTTCCCT
127 CACCTACAACTTTGTGGCACTCTCTTTCCCT
* * **
53719 TTTCAAAGCCCACAACTCCGTGGCACC-TTCTTCTTTTAAGCCCACAACTTTGTGGCACTCTTTT
1 TTTTAAAGCCCACAACTCCGTGGCACCTTTTTTCTTTTAAGCCCACAACTCCGTGGCACTCTTTT
* * *
53783 TTCCTTTTCAAAGCCCACAACTTCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCACC
66 TCCCTTTTCAAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCTGTGGCACC
53848 TACAACTTTGTGGCACTCTCTTTCCCT
131 TACAACTTTGTGGCACTCTCTTTCCCT
53875 TTTTAAAGCCCACAACTCCGTGGCACCTTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTT
1 TTTTAAAGCCCACAACTCCGTGGCACCTTTTTTCT-TTT-AAGCCCACAACTCCGTGGCACTCTT
*
53940 TTTCCCTTTTCAAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGCA
64 TTTCCCTTTTCAAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCTGTGGCA
54005 C
129 C
54006 TCTTTTTCAT
Statistics
Matches: 251, Mismatches: 22, Indels: 19
0.86 0.08 0.07
Matches are distributed among these distances:
148 20 0.08
149 1 0.00
150 27 0.11
151 1 0.00
155 3 0.01
156 80 0.32
157 31 0.12
158 3 0.01
159 85 0.34
ACGTcount: A:0.21, C:0.32, G:0.12, T:0.34
Consensus pattern (157 bp):
TTTTAAAGCCCACAACTCCGTGGCACCTTTTTTCTTTTAAGCCCACAACTCCGTGGCACTCTTTT
TCCCTTTTCAAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCTGTGGCACC
TACAACTTTGTGGCACTCTCTTTCCCT
Found at i:54012 original size:105 final size:104
Alignment explanation
Indices: 53875--54064 Score: 278
Period size: 105 Copynumber: 1.8 Consensus size: 104
53865 CTCTTTCCCT
*
53875 TTTTAAAGCCCACAACTCCGTGGCACCTTTTTTC-TGTTTAAAGCCCACAACTCCGTGGCACTCT
1 TTTTAAAGCCCACAACTCCGTGGCACCTTTTTTCATCTTT-AAGCCCACAACTCCGTGGCA-TCT
* *
53939 TTTTCCCTT-TTCAAAGCCCACAACTCCGTGGCACTTTTTTC
64 TTCTCCCTTCCT-AAAGCCCACAACTCCGTGGCACTTTTTTC
* *
53980 TTTTAAAGCCCACAACTCCGTGGCA-CTCTTTTTCATCTTTAAGTCCATAACTCCGTGGCATCTT
1 TTTTAAAGCCCACAACTCCGTGGCACCT-TTTTTCATCTTTAAGCCCACAACTCCGTGGCATCTT
54044 TCTCCCTTCCTAAAGCCCACA
65 TCTCCCTTCCTAAAGCCCACA
54065 CAAGTCGGTG
Statistics
Matches: 77, Mismatches: 5, Indels: 7
0.87 0.06 0.08
Matches are distributed among these distances:
104 23 0.30
105 50 0.65
106 4 0.05
ACGTcount: A:0.21, C:0.34, G:0.12, T:0.34
Consensus pattern (104 bp):
TTTTAAAGCCCACAACTCCGTGGCACCTTTTTTCATCTTTAAGCCCACAACTCCGTGGCATCTTT
CTCCCTTCCTAAAGCCCACAACTCCGTGGCACTTTTTTC
Found at i:54092 original size:33 final size:35
Alignment explanation
Indices: 54049--54118 Score: 126
Period size: 33 Copynumber: 2.1 Consensus size: 35
54039 ATCTTTCTCC
54049 CTTCCTAAAGCCCACACAAGTCGGTGGCAA-CCTT
1 CTTCCTAAAGCCCACACAAGTCGGTGGCAACCCTT
54083 CTTCC-AAAGCCCACACAAGTCGGTGGCAACCCTT
1 CTTCCTAAAGCCCACACAAGTCGGTGGCAACCCTT
54117 CT
1 CT
54119 AAGCCCAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
33 24 0.69
34 11 0.31
ACGTcount: A:0.26, C:0.37, G:0.17, T:0.20
Consensus pattern (35 bp):
CTTCCTAAAGCCCACACAAGTCGGTGGCAACCCTT
Found at i:54287 original size:49 final size:49
Alignment explanation
Indices: 54118--54827 Score: 919
Period size: 49 Copynumber: 14.7 Consensus size: 49
54108 GCAACCCTTC
* * *
54118 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
*
54170 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCACCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
54218 TAAATCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
54267 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
54316 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
54359 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
54408 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * * *
54451 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCATCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
54500 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCAT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * * *
54549 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
54598 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA-CTTGCACCAT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTT-CATCTT
* * *
54647 TAAGTCC-ATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
54695 TAAGTCCAATGTCGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
54744 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
*
54796 TAAGTTCAATGTAGCTGGCCTTGAATCAGCAC
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCAC
54828 CTTGACATCC
Statistics
Matches: 574, Mismatches: 65, Indels: 38
0.85 0.10 0.06
Matches are distributed among these distances:
43 78 0.14
45 2 0.00
47 2 0.00
48 84 0.15
49 333 0.58
51 2 0.00
52 73 0.13
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (49 bp):
TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
Found at i:54360 original size:98 final size:98
Alignment explanation
Indices: 54118--54890 Score: 973
Period size: 92 Copynumber: 7.9 Consensus size: 98
54108 GCAACCCTTC
* * * *
54118 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTA
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTTTAAGTCCAATATA
* *
54183 GCTGGCCTTGAATCAGCACATTGGCACC-TCACCTT
63 GCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * * *
54218 TAAATCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCT
* *
54283 GGCCTTGACTCAGCACATTGGCACCTTCATCTT
66 GGCCTTGAATCAGCATATTGGCACCTTCATCTT
*
54316 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATATCGCT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCT
*
54375 GGCCTTGAATCAGCATATTGGCATCTTCATCTT
66 GGCCTTGAATCAGCATATTGGCACCTTCATCTT
*
54408 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATATCGCT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCT
* *
54467 GGCCTTGAATCAGCATATTGGCATCATCATCTT
66 GGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * * *
54500 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGCCCAATATAGCT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCT
* *
54565 GGCCTTGAATCAGCATATTGGCACTTTTATCTT
66 GGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * *
54598 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA-CTTGCACCATTAAGTCC-ATATAGC
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTT-CATCTTTAAGTCCAATATAGC
*
54661 TGGCCTTGAATCAGCATATTGGCACCTTTATCTT
65 TGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* *
54695 TAAGTCCAATGTCGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCT
*
54760 GGCCTTGAATCAGCATATCGGCACCTTTTCCATCTT
66 GGCCTTGAATCAGCATATTGGCACC--TT-CATCTT
* * * *
54796 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACCTTGACATCCTTTTTCATCATCTTTAAGCCCAA
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CC----T--TCATCTTTAAGTCCAA
* * * *
54861 TATCGTTGGCCATGAATCAACATATTGGCA
59 TATAGCTGGCCTTGAATCAGCATATTGGCA
54891 TCTTTATCAC
Statistics
Matches: 612, Mismatches: 41, Indels: 32
0.89 0.06 0.05
Matches are distributed among these distances:
92 176 0.29
96 1 0.00
97 137 0.22
98 176 0.29
100 40 0.07
101 39 0.06
102 2 0.00
106 1 0.00
108 40 0.07
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.31
Consensus pattern (98 bp):
TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCT
GGCCTTGAATCAGCATATTGGCACCTTCATCTT
Found at i:54871 original size:56 final size:53
Alignment explanation
Indices: 54448--54879 Score: 288
Period size: 49 Copynumber: 8.6 Consensus size: 53
54438 ACATTGGCAC
* * * *
54448 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-----TCATCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACACCTTTTC-TCAT
* * * * *
54497 CTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACC---T-TCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACACCTTTTCTCAT
* * * * *
54546 CATTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-C-TTT-T-AT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACACCTTTTCTCAT
* * * * * *
54595 CTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA-C--TT-GCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACACCTTTTCTCAT
* * * *
54644 CATTAAGTCC-ATATAGCTGGCCTTGAATCAGCATATTGGCACC--TT-T-AT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACACCTTTTCTCAT
* * * * *
54692 CTTTAAGTCCAATGTCGCTGGCCTTGACTCAGCACATTGGCACC---T-TCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACACCTTTTCTCAT
* *
54741 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACACCTTTTCTCAT
* * * *
54793 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACCTTGACATCCTTTTTCATCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACA-CC-TTTTC-TCAT
* * * *
54849 CTTTAAGCCCAATATCGTTGGCCATGAATCA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCA
54880 ACATATTGGC
Statistics
Matches: 321, Mismatches: 46, Indels: 25
0.82 0.12 0.06
Matches are distributed among these distances:
48 43 0.13
49 200 0.62
50 2 0.01
51 1 0.00
52 40 0.12
53 2 0.01
54 5 0.02
56 28 0.09
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (53 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACACCTTTTCTCAT
Found at i:55797 original size:33 final size:33
Alignment explanation
Indices: 55760--55826 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
55750 TTCAACGATT
55760 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
* *** *
55793 TGTATCGATATATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
55826 T
1 T
55827 TTAAGCTACT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.34, C:0.10, G:0.13, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:55887 original size:13 final size:13
Alignment explanation
Indices: 55869--55893 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
55859 ATTACTCACA
55869 TGTATCGATACAT
1 TGTATCGATACAT
55882 TGTATCGATACA
1 TGTATCGATACA
55894 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:56030 original size:52 final size:52
Alignment explanation
Indices: 55902--56022 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
55892 CACTGATCTT
*
55902 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
55954 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
56006 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
56023 ATAAATTTTC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:59694 original size:643 final size:643
Alignment explanation
Indices: 58466--59751 Score: 2209
Period size: 643 Copynumber: 2.0 Consensus size: 643
58456 ATCTTGGCGG
* *
58466 CATTCATATTTTAAAACTGGTTTACAAAAACCGTAAGGCAATATTCCGTGTCGTTATCTCTCCAG
1 CATTCATATTTTAAAACTGGTTTACAAAAACCATAAGGCAATATTCCGTGTCGGTATCTCTCCAG
* * * *
58531 TGCTTGACACGGAATATCCAGTTTTCAAAGTAAAATCCAGAGGGCATTTTATATCTCTATGTTTC
66 TACTGGACACGGAATATCCAGTTTTCAAAATAAAATCCAGAGAGCATTTTATATCTCTATGTTTC
* * * *
58596 CCATCTCTCCGGGGCGCATATGAGATGAAAACTTTTATCAAAACCTGGATTTATTTTCAACACAA
131 CCATCCCTCCGGGACGCATATGAGATGAAAACTTTTATCAAAACCTGGATTTACTTTCAACAAAA
* * * *
58661 TTCATACATTCAAAGGGGATCATATCAAAATAATGATAAATCGAAATTAATGCAACCAATATTGA
196 TTCATACATTCAAAAGGGATCATATCAAAATAATGATAAACCGAAATCAATGCAACCAATATCGA
* *
58726 GTCAAAACGTTGCTAGTAAGGTACCGATTTCGGGCGTCGCGAGGAGGTTCGTACCTCTTTGTGCG
261 GTCAAAACATTGCTAGTAAGGTACCGATTTCGGGCGTCGCGAGGAGGTTCGTACCTCTTTGCGCG
*
58791 TAACCAACTCCCGAACCCAACCGGCGAATCTCTAAAGTACGCAGACCACGGGATTGATGTTTTGA
326 TAACCAACTCCCGAACCCAACCGGCGAATCTCTAAAGTACGCAGACCACGGGATCGATGTTTTGA
*
58856 GTTTTGTAACTCAAGACATAGGTTTCAATAGGCATCCGATCATGCCTAGCCCGAAATGATCGGTG
391 GTTTCGTAACTCAAGACATAGGTTTCAATAGGCATCCGATCATGCCTAGCCCGAAATGATCGGTG
*
58921 GTGACTCCAAAATCTCGGTCACTTCGTAGTGACCATTGAAGATCAATTAGATAGGCGATGCATCT
456 GCGACTCCAAAATCTCGGTCACTTCGTAGTGACCATTGAAGATCAATTAGATAGGCGATGCATCT
* *
58986 ACTGATCTTCCCCCTTTAATCAGCACACTTCCCATCATGCCATAGAAATCCCCAATCACGAGGGA
521 ACTGATCTTCCCCCTTTAATCAACACACTTCCCATCATGCCATAGAAATCCCCAATCAAGAGGGA
59051 TATTAAGTCGAGCGTGCCTCATTTGCCCTATCGCCGGGGTCGAGCGCACGTTACGACA
586 TATTAAGTCGAGCGTGCCTCATTTGCCCTATCGCCGGGGTCGAGCGCACGTTACGACA
* *
59109 CATTCATATTTTAAAATTGGTTTACAAAAACCATAAGGCAATGTTCCGTGTCGGTATCTCTCCAG
1 CATTCATATTTTAAAACTGGTTTACAAAAACCATAAGGCAATATTCCGTGTCGGTATCTCTCCAG
*
59174 TACTGGACACGGAATATCCAGTTTTCAAAATAAAATCCAGAGAGC-TTTTATGTCTCTATGTTTC
66 TACTGGACACGGAATATCCAGTTTTCAAAATAAAATCCAGAGAGCATTTTATATCTCTATGTTTC
*
59238 CCATCCCTCCGGGACGCATATGAGATGAAAACTTTTATCAAAACCTGGATTTGCTTTCATACAAA
131 CCATCCCTCCGGGACGCATATGAGATGAAAACTTTTATCAAAACCTGGATTTACTTTCA-ACAAA
* * * *
59303 ATTTATGCATTCAAAAGGGATCATATCATAATAATGATAAACCGAAATCAATGTAACCAATATCG
195 ATTCATACATTCAAAAGGGATCATATCAAAATAATGATAAACCGAAATCAATGCAACCAATATCG
59368 AGTCAAATA-ATTGCTAGTAAGGTACCGATTTCGGGCGTCGCGAGGAGGTTCGTACCTCTTTGCG
260 AGTCAAA-ACATTGCTAGTAAGGTACCGATTTCGGGCGTCGCGAGGAGGTTCGTACCTCTTTGCG
59432 CGTAACCAACTCCCGAACCCAACCGGCGAATCTCTAAAGTACGCAGACCACGGGATCGATGTTTT
324 CGTAACCAACTCCCGAACCCAACCGGCGAATCTCTAAAGTACGCAGACCACGGGATCGATGTTTT
*
59497 GAGTTTCGTAACTCAAGACATAGGTTTCAATAGGTATCCGATCATGCCTAGCCCGAAATGATCGG
389 GAGTTTCGTAACTCAAGACATAGGTTTCAATAGGCATCCGATCATGCCTAGCCCGAAATGATCGG
* *
59562 TGGCGACTCCAAAAT-TCTGGTCACTTCGTAGTGACCATTGAAGATCAATTAGATGGGCGATTCA
454 TGGCGACTCCAAAATCTC-GGTCACTTCGTAGTGACCATTGAAGATCAATTAGATAGGCGATGCA
* * *
59626 TCTACTGATCTTCCCCCTTTAATCAACACGCTTCCCATCATGTCATAGAAATCCCCAATTAAGAG
518 TCTACTGATCTTCCCCCTTTAATCAACACACTTCCCATCATGCCATAGAAATCCCCAATCAAGAG
59691 GGATATTAAGTCGAGCGTGCCTCATTTGCCCTATCGCCGGGGTCGAGCGCACGTTACGACA
583 GGATATTAAGTCGAGCGTGCCTCATTTGCCCTATCGCCGGGGTCGAGCGCACGTTACGACA
59752 GTGAAAAATC
Statistics
Matches: 605, Mismatches: 35, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
642 75 0.12
643 529 0.87
644 1 0.00
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (643 bp):
CATTCATATTTTAAAACTGGTTTACAAAAACCATAAGGCAATATTCCGTGTCGGTATCTCTCCAG
TACTGGACACGGAATATCCAGTTTTCAAAATAAAATCCAGAGAGCATTTTATATCTCTATGTTTC
CCATCCCTCCGGGACGCATATGAGATGAAAACTTTTATCAAAACCTGGATTTACTTTCAACAAAA
TTCATACATTCAAAAGGGATCATATCAAAATAATGATAAACCGAAATCAATGCAACCAATATCGA
GTCAAAACATTGCTAGTAAGGTACCGATTTCGGGCGTCGCGAGGAGGTTCGTACCTCTTTGCGCG
TAACCAACTCCCGAACCCAACCGGCGAATCTCTAAAGTACGCAGACCACGGGATCGATGTTTTGA
GTTTCGTAACTCAAGACATAGGTTTCAATAGGCATCCGATCATGCCTAGCCCGAAATGATCGGTG
GCGACTCCAAAATCTCGGTCACTTCGTAGTGACCATTGAAGATCAATTAGATAGGCGATGCATCT
ACTGATCTTCCCCCTTTAATCAACACACTTCCCATCATGCCATAGAAATCCCCAATCAAGAGGGA
TATTAAGTCGAGCGTGCCTCATTTGCCCTATCGCCGGGGTCGAGCGCACGTTACGACA
Found at i:59886 original size:51 final size:51
Alignment explanation
Indices: 59813--59927 Score: 167
Period size: 51 Copynumber: 2.3 Consensus size: 51
59803 AAATAATAGG
* * * * * *
59813 GTTGGAGTATCTCTGATTGTGAAAAATTAGTGTTTTAGAAATAAAACCGGA
1 GTTGGAGTATCCCCGATAGTGAAAAATCAATGTTTTAGAAATAAAACCAGA
*
59864 GTTGGTGTATCCCCGATAGTGAAAAATCAATGTTTTAGAAATAAAACCAGA
1 GTTGGAGTATCCCCGATAGTGAAAAATCAATGTTTTAGAAATAAAACCAGA
59915 GTTGGAGTATCCC
1 GTTGGAGTATCCC
59928 TTCGAAAATA
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 56 1.00
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.30
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATAGTGAAAAATCAATGTTTTAGAAATAAAACCAGA
Found at i:59984 original size:130 final size:130
Alignment explanation
Indices: 59751--59988 Score: 324
Period size: 130 Copynumber: 1.8 Consensus size: 130
59741 ACGTTACGAC
* *
59751 AGTGAAAAATCGATGTTCTGAAAATAAAACCGAGGTTGGAGTATCCTCTCGAAAATAATAGGGTT
1 AGTGAAAAATCAATGTTCTGAAAATAAAACCGAGGTTGGAGTATCCTCTCGAAAATAAGAGGGTT
* * * * *
59816 GGAGTATCTCTGATTGTGAAAAATTAGTGTTTTAGAAATAAAACCGGAGTTGGTGTATCCCCGAT
66 GGAGTATCCCCGATGGTGAAAAATGAGTATTTTAGAAATAAAACCGGAGTTGGTGTATCCCCGAT
*
59881 AGTGAAAAATCAATGTT-TTAGAAATAAAACC-AGAGTTGGAGTATCC-CTTCGAAAATAACGAG
1 AGTGAAAAATCAATGTTCTGA-AAATAAAACCGAG-GTTGGAGTATCCTC-TCGAAAATAA-GAG
59943 GG-TGGAGTATCCCCGATGGTGAAAAATCGA-TATTTTAGAAATAAAA
62 GGTTGGAGTATCCCCGATGGTGAAAAAT-GAGTATTTTAGAAATAAAA
59989 ATATGATTGA
Statistics
Matches: 95, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
129 5 0.05
130 85 0.89
131 5 0.05
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.27
Consensus pattern (130 bp):
AGTGAAAAATCAATGTTCTGAAAATAAAACCGAGGTTGGAGTATCCTCTCGAAAATAAGAGGGTT
GGAGTATCCCCGATGGTGAAAAATGAGTATTTTAGAAATAAAACCGGAGTTGGTGTATCCCCGAT
Found at i:62451 original size:50 final size:49
Alignment explanation
Indices: 62323--62471 Score: 158
Period size: 50 Copynumber: 3.0 Consensus size: 49
62313 GGTCAAAATG
* * * * *
62323 CCTA-AATGTATTGATAC-ATTAAGAAATATATCGATACATCTAAGTTAAAA
1 CCTAGAATGTATCGATACAATGAA-AAATGTATCGATACAT-T-TGGTAAAA
* * * * *
62373 CCCAGAATGCATCAATACATTGAGAAATGTATCGATACATTTGGGTAAAA
1 CCTAGAATGTATCGATACAATGAAAAATGTATCGATACATTT-GGTAAAA
62423 CCTAGAATGTATCGATACAATGAAAAATGTATCGATACATTTGGTAAAA
1 CCTAGAATGTATCGATACAATGAAAAATGTATCGATACATTTGGTAAAA
62472 GGATGTATCG
Statistics
Matches: 81, Mismatches: 15, Indels: 7
0.79 0.15 0.07
Matches are distributed among these distances:
49 7 0.09
50 47 0.58
51 25 0.31
52 2 0.02
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.29
Consensus pattern (49 bp):
CCTAGAATGTATCGATACAATGAAAAATGTATCGATACATTTGGTAAAA
Found at i:63241 original size:61 final size:61
Alignment explanation
Indices: 63091--64027 Score: 1166
Period size: 61 Copynumber: 15.4 Consensus size: 61
63081 AAAAAGAAAT
* * * * ** *
63091 GTCCTGCTTTTTGGGGACT-AGAAGGGGCCACCAACTTGTGTAGGCTTT-GTAGGAAAAGAT
1 GTCCTGCTCTTTGAGGACTGA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGAC
* * * ** *
63151 ATCCTACTCTTTAAGGACTGAAAGGTGCCACCAACTTGTGTACGCTTTAAAAGGAAAAGGC
1 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGAC
* *
63212 GTCCTGCTTTTTGAGGATTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGAC
1 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGAC
* * *
63273 GTCCTGCTCTTTGAGGATTGAAAGGTGCCACCAACTCGTGTTGGCTTTAAAAGGAAAAGAC
1 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGAC
* * * *
63334 GTCCTGCTCTTTGAGGATTGAAAAGTGCCACCAACTTATGTGGGCTTTAAAAGGAAAAGAT
1 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGAC
* * * * * * * * * *
63395 GTCTTACTTTTTGAGGATTGAAAAGTGCTACCAGCTTATGTGGGCTTAAAAAGGAAAATAC
1 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGAC
* ** * *
63456 ATCCTGCTCTTTGAGGACTGAAAGGTATCACCAACTTGTATGGGCTTTAAAAGGAAAAGAT
1 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGAC
* * * * * * *
63517 ATCCTGCTCTTTAAGGATTGAAAGGTGCCACCAATTTGTATGGGCTTTGAAAGGAAAAGAT
1 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGAC
* *
63578 GTCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGAC
1 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGAC
* *
63639 GTCTTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGAC
1 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGAC
*
63700 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGAC
1 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGAC
* * * *
63761 GTCCAGCTCTTTGAGGATTGAAAGGTGCCACCAACTTCTGTGGGCTTTAAAAGGGAAAGAC
1 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGAC
* * ** * *
63822 GTCTTGCTTTTTGAGGACTGAAAGGTGCCACCAACTCATGTGGACTTTAAAAGAAAAAGAC
1 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGAC
** * * * *
63883 AACCTGCTCTTTGAGGACTAAAAGGTGCCACCAAC-T-TATGGGCTTTAACA-GAAAAGAAGT
1 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG-A-C
* * * * * *
63943 GTCTTGCTTTTTGAGGACTAAAAAGTGCCACCAACTTATGTGGGCTTTAGAAGG-AAAGAC
1 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGAC
64003 GTCCTGCTCTTTGAGGACTGAAAGG
1 GTCCTGCTCTTTGAGGACTGAAAGG
64028 ATAAAAGGTT
Statistics
Matches: 766, Mismatches: 104, Indels: 14
0.87 0.12 0.02
Matches are distributed among these distances:
58 5 0.01
59 12 0.02
60 90 0.12
61 643 0.84
62 15 0.02
63 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (61 bp):
GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGAC
Found at i:65020 original size:8 final size:9
Alignment explanation
Indices: 65002--65031 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
64992 AGTTCTTTTC
65002 TTTTCTCTT
1 TTTTCTCTT
65011 TTTTCT-TT
1 TTTTCTCTT
65019 TTTTCTCTT
1 TTTTCTCTT
65028 TTTT
1 TTTT
65032 TAATTTTGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (9 bp):
TTTTCTCTT
Found at i:65032 original size:19 final size:19
Alignment explanation
Indices: 64994--65031 Score: 62
Period size: 17 Copynumber: 2.1 Consensus size: 19
64984 CTTAAGCAAG
64994 TTCTTTTCTTTTCTCTTTT
1 TTCTTTTCTTTTCTCTTTT
65013 TTC-TTT-TTTTCTCTTTT
1 TTCTTTTCTTTTCTCTTTT
65030 TT
1 TT
65032 TAATTTTGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 13 0.68
18 3 0.16
19 3 0.16
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (19 bp):
TTCTTTTCTTTTCTCTTTT
Found at i:65754 original size:108 final size:108
Alignment explanation
Indices: 65565--65773 Score: 373
Period size: 108 Copynumber: 1.9 Consensus size: 108
65555 CTGCTACACC
*
65565 ATACGCATATAAAGCAAAGGGCAACTTTTCATGCCAATCCTTATATGTCTCGGCCATGTTATCGA
1 ATACGCATATAAAGCAAAAGGCAACTTTTCATGCCAATCCTTATATGTCTCGGCCATGTTATCGA
65630 CTATCTTCTTAATATTCTTGTTGGTTGCTTCAACTGTTGTACG
66 CTATCTTCTTAATATTCTTGTTGGTTGCTTCAACTGTTGTACG
* * *
65673 ATACGCATGTAAAGCAAAAGGCAACTTTTCATGCCAATCCTTATATGTCTTGGCCATGTTCTCGA
1 ATACGCATATAAAGCAAAAGGCAACTTTTCATGCCAATCCTTATATGTCTCGGCCATGTTATCGA
*
65738 CTATCTTCTTGATATTCTTGTTGGTTGCTTCAACTG
66 CTATCTTCTTAATATTCTTGTTGGTTGCTTCAACTG
65774 CCCTATTCAT
Statistics
Matches: 96, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
108 96 1.00
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.37
Consensus pattern (108 bp):
ATACGCATATAAAGCAAAAGGCAACTTTTCATGCCAATCCTTATATGTCTCGGCCATGTTATCGA
CTATCTTCTTAATATTCTTGTTGGTTGCTTCAACTGTTGTACG
Done.