Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001303.1 Hibiscus syriacus cultivar Beakdansim tig00002542_pilon, whole genome shotgun sequence
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: 99570
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.34
Found at i:4943 original size:15 final size:16
Alignment explanation
Indices: 4925--4962 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
4915 AATTTTAGGG
*
4925 TTAGAGATTT-TAAGT
1 TTAGAGATTTATAAAT
*
4940 TTAGGGATTTATAAAT
1 TTAGAGATTTATAAAT
4956 TTAGAGA
1 TTAGAGA
4963 GATCGAAAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.37, C:0.00, G:0.21, T:0.42
Consensus pattern (16 bp):
TTAGAGATTTATAAAT
Found at i:6214 original size:17 final size:18
Alignment explanation
Indices: 6194--6229 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
6184 AAAATTTTTG
6194 AAAACTTT-AAAAATCTC
1 AAAACTTTGAAAAATCTC
*
6211 AAAACTTTGAAAATTCTC
1 AAAACTTTGAAAAATCTC
6229 A
1 A
6230 TTCCAATCCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.50, C:0.17, G:0.03, T:0.31
Consensus pattern (18 bp):
AAAACTTTGAAAAATCTC
Found at i:6600 original size:24 final size:22
Alignment explanation
Indices: 6573--6616 Score: 61
Period size: 24 Copynumber: 1.9 Consensus size: 22
6563 ATATACATTT
6573 TTTTTATAAATATAATAATTTTTA
1 TTTTTATAAA-ATAA-AATTTTTA
*
6597 TTTTTTTAAAATAAAATTTT
1 TTTTTATAAAATAAAATTTT
6617 CAAAATAACC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
23 4 0.21
24 9 0.47
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
TTTTTATAAAATAAAATTTTTA
Found at i:6600 original size:25 final size:22
Alignment explanation
Indices: 6572--6616 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 22
6562 AATATACATT
6572 TTTTTTATAAATATAATAATTTTTA
1 TTTTTT-TAAA-ATAA-AATTTTTA
6597 TTTTTTTAAAATAAAATTTT
1 TTTTTTTAAAATAAAATTTT
6617 CAAAATAACC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 6 0.30
23 4 0.20
24 4 0.20
25 6 0.30
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
TTTTTTTAAAATAAAATTTTTA
Found at i:10990 original size:23 final size:24
Alignment explanation
Indices: 10964--11016 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
10954 TTATGTTGTC
10964 CTTCGGGATA-AATCTATCTGGCA
1 CTTCGGGATATAATCTATCTGGCA
** *
10987 CTTCGGTCTATAATCTATGTGGCA
1 CTTCGGGATATAATCTATCTGGCA
11011 CTTCGG
1 CTTCGG
11017 TGCAAAATTC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 8 0.31
24 18 0.69
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.34
Consensus pattern (24 bp):
CTTCGGGATATAATCTATCTGGCA
Found at i:14271 original size:16 final size:16
Alignment explanation
Indices: 14250--14287 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
14240 TCCAAGAAAT
*
14250 GTTTCTGAAGTACGGA
1 GTTTCTGAAGTACAGA
14266 GTTTCTGAAGTACAGA
1 GTTTCTGAAGTACAGA
14282 GTTTCT
1 GTTTCT
14288 TGGGATTAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.24, C:0.13, G:0.26, T:0.37
Consensus pattern (16 bp):
GTTTCTGAAGTACAGA
Found at i:17771 original size:28 final size:28
Alignment explanation
Indices: 17731--17785 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
17721 GCCCAAAGTG
17731 TATGCCATGAGAATTAGAGGTATAATTA
1 TATGCCATGAGAATTAGAGGTATAATTA
*
17759 TATGCTATGAGAATTAGAGGTATAATT
1 TATGCCATGAGAATTAGAGGTATAATT
17786 GGCATGCTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.38, C:0.05, G:0.22, T:0.35
Consensus pattern (28 bp):
TATGCCATGAGAATTAGAGGTATAATTA
Found at i:17881 original size:23 final size:23
Alignment explanation
Indices: 17806--17890 Score: 98
Period size: 23 Copynumber: 3.7 Consensus size: 23
17796 GAGTTGAGGG
* * **
17806 ATTCTATGTGGTCCTTTAGGACA
1 ATTCTACGCGGTCCTTCGGGACA
* *
17829 ATTCTATGTGGTCCTTCGGGACA
1 ATTCTACGCGGTCCTTCGGGACA
*
17852 ATTCTACGCGGTCTTTCGGGACA
1 ATTCTACGCGGTCCTTCGGGACA
*
17875 ATTCTACACGGTCCTT
1 ATTCTACGCGGTCCTT
17891 TGGTGCATAA
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 55 1.00
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (23 bp):
ATTCTACGCGGTCCTTCGGGACA
Found at i:21710 original size:16 final size:17
Alignment explanation
Indices: 21689--21721 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
21679 CTGAGCAACG
*
21689 AAACCGAGAA-AACCGA
1 AAACCGACAAGAACCGA
21705 AAACCGACAAGAACCGA
1 AAACCGACAAGAACCGA
21722 GTAAAACGGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.55, C:0.27, G:0.18, T:0.00
Consensus pattern (17 bp):
AAACCGACAAGAACCGA
Found at i:28999 original size:13 final size:14
Alignment explanation
Indices: 28957--29000 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
28947 AATTCAATAG
28957 TTTTTTAAGTGTCAA
1 TTTTTTAA-TGTCAA
**
28972 GCTTTTAATGTCAA
1 TTTTTTAATGTCAA
28986 TTTTTTAATG-CAA
1 TTTTTTAATGTCAA
28999 TT
1 TT
29001 GTTGAGGGGG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
13 5 0.20
14 14 0.56
15 6 0.24
ACGTcount: A:0.27, C:0.09, G:0.11, T:0.52
Consensus pattern (14 bp):
TTTTTTAATGTCAA
Found at i:29617 original size:15 final size:15
Alignment explanation
Indices: 29593--29628 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
29583 AGTATTGATA
29593 CCAA-TATCGATACT
1 CCAAGTATCGATACT
*
29607 CCTAGTATCGATACT
1 CCAAGTATCGATACT
29622 CCAAGTA
1 CCAAGTA
29629 CAACGATCGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
14 3 0.16
15 16 0.84
ACGTcount: A:0.33, C:0.28, G:0.11, T:0.28
Consensus pattern (15 bp):
CCAAGTATCGATACT
Found at i:29696 original size:21 final size:21
Alignment explanation
Indices: 29670--29718 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
29660 AGCAATATTG
29670 ATACTCCTATCCCGAGTATCA
1 ATACTCCTATCCCGAGTATCA
*
29691 ATACTCTTATCCCGAGTATCA
1 ATACTCCTATCCCGAGTATCA
29712 ATACTCC
1 ATACTCC
29719 CTGGTCTAGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.29, C:0.33, G:0.08, T:0.31
Consensus pattern (21 bp):
ATACTCCTATCCCGAGTATCA
Found at i:31063 original size:13 final size:14
Alignment explanation
Indices: 31042--31075 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
31032 CAAACATCGT
*
31042 AAAACGTTTTC-AG
1 AAAATGTTTTCTAG
31055 AAAATGTTTTCTAG
1 AAAATGTTTTCTAG
31069 AAAATGT
1 AAAATGT
31076 AATTCATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.53
14 9 0.47
ACGTcount: A:0.41, C:0.09, G:0.15, T:0.35
Consensus pattern (14 bp):
AAAATGTTTTCTAG
Found at i:34453 original size:22 final size:22
Alignment explanation
Indices: 34428--34472 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 22
34418 ATAATATTTT
34428 TTCAA-AAACCACTTTTATAATA
1 TTCAATAAACCACTTTTA-AATA
34450 TTCAATAAACCACTTTTAAATA
1 TTCAATAAACCACTTTTAAATA
34472 T
1 T
34473 ATATATATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 10 0.45
23 12 0.55
ACGTcount: A:0.44, C:0.18, G:0.00, T:0.38
Consensus pattern (22 bp):
TTCAATAAACCACTTTTAAATA
Found at i:44361 original size:21 final size:20
Alignment explanation
Indices: 44325--44367 Score: 68
Period size: 21 Copynumber: 2.1 Consensus size: 20
44315 ATCTCTAAAC
*
44325 ATCATTTCCATTCAATTTCA
1 ATCAATTCCATTCAATTTCA
44345 ATCAATTCCATTTCAATTTCA
1 ATCAATTCCA-TTCAATTTCA
44366 AT
1 AT
44368 TCATCTTCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.44
Consensus pattern (20 bp):
ATCAATTCCATTCAATTTCA
Found at i:44370 original size:11 final size:11
Alignment explanation
Indices: 44328--44370 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
44318 TCTAAACATC
*
44328 ATTTCCATTCA
1 ATTTCAATTCA
44339 ATTTCAA-TCA
1 ATTTCAATTCA
* *
44349 ATTCCATTTCA
1 ATTTCAATTCA
44360 ATTTCAATTCA
1 ATTTCAATTCA
44371 TCTTCATTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
10 8 0.31
11 18 0.69
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.44
Consensus pattern (11 bp):
ATTTCAATTCA
Found at i:45204 original size:31 final size:29
Alignment explanation
Indices: 45169--45256 Score: 88
Period size: 31 Copynumber: 2.9 Consensus size: 29
45159 CAATATATTT
45169 TTTTAGAAAATTACAGCTTTGGTCACTAAAC
1 TTTTA-AAAATTACA-CTTTGGTCACTAAAC
* *
45200 TTTTACTAAATTTATACTTTGG-CTACTAAAC
1 TTTTA--AAAATTACACTTTGGTC-ACTAAAC
* *
45231 TTTCAAAAATTACATTTTGGTCACTA
1 TTTTAAAAATTACACTTTGGTCACTA
45257 GCCAAAATTT
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
29 16 0.34
30 2 0.04
31 22 0.47
32 7 0.15
ACGTcount: A:0.34, C:0.16, G:0.09, T:0.41
Consensus pattern (29 bp):
TTTTAAAAATTACACTTTGGTCACTAAAC
Found at i:45832 original size:39 final size:39
Alignment explanation
Indices: 45788--45866 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
45778 TCTTAGTTTT
45788 CATGGATTGAATAATCTTATCCCACATGGGAATAAATGG
1 CATGGATTGAATAATCTTATCCCACATGGGAATAAATGG
*
45827 CATGGATTGAATAATCTTATCCGACATGGGAATAAATGG
1 CATGGATTGAATAATCTTATCCCACATGGGAATAAATGG
45866 C
1 C
45867 TTCACATCTC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (39 bp):
CATGGATTGAATAATCTTATCCCACATGGGAATAAATGG
Found at i:46067 original size:2 final size:2
Alignment explanation
Indices: 46060--46107 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
46050 TTAGCAGCTT
46060 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
46102 TA TA TA
1 TA TA TA
46108 GCAAGGAAAC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:47817 original size:2 final size:2
Alignment explanation
Indices: 47770--47797 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
47760 ATTAAATTTA
47770 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
47798 TAACTTTACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:48903 original size:51 final size:51
Alignment explanation
Indices: 48807--48905 Score: 146
Period size: 51 Copynumber: 1.9 Consensus size: 51
48797 TGCACTAAAG
* *
48807 TGCCAAAATGCACCGTTATGCATTTAACTTTCATTAGTGGAACCTTTTTTT
1 TGCCAAAATGCACCGTTATGCATTTAAATTTCATTAATGGAACCTTTTTTT
* *
48858 TGCCAATATGCACTGTTATGCATTTAAATTTCATTAAT-GACACCTTTT
1 TGCCAAAATGCACCGTTATGCATTTAAATTTCATTAATGGA-ACCTTTT
48906 ATGACGATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
50 2 0.05
51 41 0.95
ACGTcount: A:0.27, C:0.19, G:0.12, T:0.41
Consensus pattern (51 bp):
TGCCAAAATGCACCGTTATGCATTTAAATTTCATTAATGGAACCTTTTTTT
Found at i:48974 original size:45 final size:45
Alignment explanation
Indices: 48886--49183 Score: 391
Period size: 45 Copynumber: 6.6 Consensus size: 45
48876 TGCATTTAAA
* * * *
48886 TTTCATTAATGACACCTTTTATGACGATAATGTACCGTTATGCAT
1 TTTCATTAGTGGCACCTTTTATGCCGATAATGCACCGTTATGCAT
* *
48931 TTTTATTAGTGGCA-CTTTCTATGCCGATAATGCATCGTTATGCAT
1 TTTCATTAGTGGCACCTTT-TATGCCGATAATGCACCGTTATGCAT
* * *
48976 TTTCATTAGTGACACCTTTTATGCTGATAATGCACTGTTATGCAT
1 TTTCATTAGTGGCACCTTTTATGCCGATAATGCACCGTTATGCAT
* * * *
49021 TTTTATTAGTGGTACCTTTTATGCTGATAATGCACCGTTATGAAT
1 TTTCATTAGTGGCACCTTTTATGCCGATAATGCACCGTTATGCAT
* ** * *
49066 TTTTATTAGTGGCACCTTTTATGCTTATAATTCACCATTATGCAT
1 TTTCATTAGTGGCACCTTTTATGCCGATAATGCACCGTTATGCAT
*
49111 TTTCATTAGTGGCACCTTTTATGCCGATAATACACCGTTATGCAT
1 TTTCATTAGTGGCACCTTTTATGCCGATAATGCACCGTTATGCAT
* *
49156 TTTCATTAGTGGCACATTTTATGTCGAT
1 TTTCATTAGTGGCACCTTTTATGCCGAT
49184 TTCATAGATT
Statistics
Matches: 223, Mismatches: 28, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
44 4 0.02
45 215 0.96
46 4 0.02
ACGTcount: A:0.24, C:0.17, G:0.15, T:0.43
Consensus pattern (45 bp):
TTTCATTAGTGGCACCTTTTATGCCGATAATGCACCGTTATGCAT
Found at i:49618 original size:22 final size:20
Alignment explanation
Indices: 49568--49619 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
49558 GTCTTAATAT
* *
49568 TATCAGTACGTCTATAATTG
1 TATCAATACTTCTATAATTG
49588 TATCAATACTTCTATAATATGG
1 TATCAATACTTCTATAAT-T-G
*
49610 TATCGATACT
1 TATCAATACT
49620 CCCTTTCAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 16 0.59
21 1 0.04
22 10 0.37
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (20 bp):
TATCAATACTTCTATAATTG
Found at i:55804 original size:45 final size:45
Alignment explanation
Indices: 55694--56041 Score: 385
Period size: 45 Copynumber: 7.6 Consensus size: 45
55684 TGCATTTAAC
** *
55694 TTTCATTAGTGGCACCTTTTTATGTTGAT-ATGCACCGTTATGCATTT
1 TTTCATTAGTGGCACC-TTTTATGCCGATAATGCACCATTATGCA--T
* * * * *
55741 AACTTTCATTAATGGCACCTTATATGGCAATAATGCACCATTATACAT
1 ---TTTCATTAGTGGCACCTTTTATGCCGATAATGCACCATTATGCAT
** *
55789 TTTTGTTAGTGGCACCTTTTATGCCGATAATGCTCCATTATGCAT
1 TTTCATTAGTGGCACCTTTTATGCCGATAATGCACCATTATGCAT
* * * * * *
55834 TTTCATTAGTGGCACCATTTATGTCAATAATTCATCGTTATGCAAT
1 TTTCATTAGTGGCACCTTTTATGCCGATAATGCACCATTATGC-AT
* * **
55880 TTTCATTAGTGGCACCTTTTATGTCGATAATGCACCGTTATTTAT
1 TTTCATTAGTGGCACCTTTTATGCCGATAATGCACCATTATGCAT
* * *
55925 TTTCATTAGTGACACCTTTTATGCCTATAATGCACCATTATTCAT
1 TTTCATTAGTGGCACCTTTTATGCCGATAATGCACCATTATGCAT
* *
55970 TCTCATTAGTGGCACCTTTTATACCGATAATGCACCATTATGCAT
1 TTTCATTAGTGGCACCTTTTATGCCGATAATGCACCATTATGCAT
56015 TTTCATTAGT-GCACCTTTTATGCCGAT
1 TTTCATTAGTGGCACCTTTTATGCCGAT
56042 TTCATATATT
Statistics
Matches: 254, Mismatches: 42, Indels: 10
0.83 0.14 0.03
Matches are distributed among these distances:
44 16 0.06
45 162 0.64
46 39 0.15
48 1 0.00
49 8 0.03
50 28 0.11
ACGTcount: A:0.25, C:0.20, G:0.14, T:0.41
Consensus pattern (45 bp):
TTTCATTAGTGGCACCTTTTATGCCGATAATGCACCATTATGCAT
Found at i:55942 original size:136 final size:135
Alignment explanation
Indices: 55744--56041 Score: 382
Period size: 136 Copynumber: 2.2 Consensus size: 135
55734 TGCATTTAAC
* * * * ** *
55744 TTTCATTAATGGCACCTTATATGGCAATAATGCACCATTATACATTTTTGTTAGTGGCACCTTTT
1 TTTCATTAGTGGCACCTTTTATGCCGATAATGCACCATTATACATTTTCATTAGTGACACCTTTT
* * ** * * *
55809 ATGCCGATAATGCTCCATTATGCATTTTCATTAGTGGCACCATTTATGTCAATAATTCATCGTTA
66 ATGCCGATAATGCACCATTATGCATTCTCATTAGTGGCACCATTTATACCAATAATGCACCATTA
55874 TGCAAT
131 TGC-AT
* * **
55880 TTTCATTAGTGGCACCTTTTATGTCGATAATGCACCGTTATTTATTTTCATTAGTGACACCTTTT
1 TTTCATTAGTGGCACCTTTTATGCCGATAATGCACCATTATACATTTTCATTAGTGACACCTTTT
* * * *
55945 ATGCCTATAATGCACCATTATTCATTCTCATTAGTGGCACCTTTTATACCGATAATGCACCATTA
66 ATGCCGATAATGCACCATTATGCATTCTCATTAGTGGCACCATTTATACCAATAATGCACCATTA
56010 TGCAT
131 TGCAT
56015 TTTCATTAGT-GCACCTTTTATGCCGAT
1 TTTCATTAGTGGCACCTTTTATGCCGAT
56042 TTCATATATT
Statistics
Matches: 140, Mismatches: 22, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
134 16 0.11
135 12 0.09
136 112 0.80
ACGTcount: A:0.26, C:0.20, G:0.13, T:0.41
Consensus pattern (135 bp):
TTTCATTAGTGGCACCTTTTATGCCGATAATGCACCATTATACATTTTCATTAGTGACACCTTTT
ATGCCGATAATGCACCATTATGCATTCTCATTAGTGGCACCATTTATACCAATAATGCACCATTA
TGCAT
Found at i:56010 original size:181 final size:184
Alignment explanation
Indices: 55694--56036 Score: 498
Period size: 181 Copynumber: 1.9 Consensus size: 184
55684 TGCATTTAAC
* *
55694 TTTCATTAGTGGCACCTTTTTATGTTGATATGCACCGTTATGCATTTAACTTTCATTAATGGCAC
1 TTTCATTAGTGGCACCTTTTTATGTCGATATGCACCGTTAT-CATTTAACTTTCATTAATGACAC
* * ** * *
55759 CTTATATGGCAATAATGCACCATTATACATTTTTGTTAGTGGCACCTTTTATGCCGATAATGCTC
65 CTTATATGCCAATAATGCACCATTATACATTCTCATTAGTGGCACCTTTTATACCGATAATGCAC
55824 CATTATGCATTTTCATTAGTGGCACCATTTATGTCAATAATTCATCGTTATGCAAT
130 CATTATGCATTTTCATTAGT-GCACCATTTATGTCAATAATTCATCGTTATGCAAT
* *
55880 TTTCATTAGTGGCACC-TTTTATGTCGATAATGCACCG-T-T-ATTT-ATTTTCATTAGTGACAC
1 TTTCATTAGTGGCACCTTTTTATGTCGAT-ATGCACCGTTATCATTTAACTTTCATTAATGACAC
* * *
55940 CTTTTATGCCTATAATGCACCATTATTCATTCTCATTAGTGGCACCTTTTATACCGATAATGCAC
65 CTTATATGCCAATAATGCACCATTATACATTCTCATTAGTGGCACCTTTTATACCGATAATGCAC
*
56005 CATTATGCATTTTCATTAGTGCACCTTTTATG
130 CATTATGCATTTTCATTAGTGCACCATTTATG
56037 CCGATTTCAT
Statistics
Matches: 142, Mismatches: 14, Indels: 8
0.87 0.09 0.05
Matches are distributed among these distances:
180 11 0.08
181 90 0.63
182 4 0.03
184 1 0.01
185 12 0.08
186 24 0.17
ACGTcount: A:0.25, C:0.20, G:0.14, T:0.41
Consensus pattern (184 bp):
TTTCATTAGTGGCACCTTTTTATGTCGATATGCACCGTTATCATTTAACTTTCATTAATGACACC
TTATATGCCAATAATGCACCATTATACATTCTCATTAGTGGCACCTTTTATACCGATAATGCACC
ATTATGCATTTTCATTAGTGCACCATTTATGTCAATAATTCATCGTTATGCAAT
Found at i:57963 original size:34 final size:30
Alignment explanation
Indices: 57925--57993 Score: 95
Period size: 30 Copynumber: 2.2 Consensus size: 30
57915 TTGATATAAC
57925 AATTTAAGGCAAAATGGTTTTTGGACTTGAATTG
1 AATTTAA--CAAAAT-GTTTTTGGACTT-AATTG
57959 AATTT-ACAAAATGTTTTTGGACTTAATTG
1 AATTTAACAAAATGTTTTTGGACTTAATTG
57988 AATTTA
1 AATTTA
57994 TTCAAATTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
29 10 0.29
30 12 0.35
31 6 0.18
33 1 0.03
34 5 0.15
ACGTcount: A:0.35, C:0.06, G:0.17, T:0.42
Consensus pattern (30 bp):
AATTTAACAAAATGTTTTTGGACTTAATTG
Found at i:57975 original size:30 final size:30
Alignment explanation
Indices: 57934--57993 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
57924 CAATTTAAGG
57934 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAATGGTTTTTGGACTT-AATTGAATTTA
57965 CAAAAT-GTTTTTGGACTTAATTGAATTTA
1 CAAAATGGTTTTTGGACTTAATTGAATTTA
57994 TTCAAATTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 12 0.41
31 6 0.21
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (30 bp):
CAAAATGGTTTTTGGACTTAATTGAATTTA
Found at i:58098 original size:21 final size:21
Alignment explanation
Indices: 58072--58234 Score: 144
Period size: 22 Copynumber: 7.7 Consensus size: 21
58062 AGGGGGTCAA
*
58072 AGTGCACCCATGCA-CCCTTGC
1 AGTGCATCCATGCATCCC-TGC
58093 AGTGCATCCATGCATCCCTGC
1 AGTGCATCCATGCATCCCTGC
*
58114 CGTGCATCCATGCATCCCTGC
1 AGTGCATCCATGCATCCCTGC
*
58135 AGTGCATTCATGCA--CCTGCAC
1 AGTGCATCCATGCATCCCTG--C
58156 TAGTGCATCCATGCA--CCTGCAC
1 -AGTGCATCCATGCATCCCTG--C
58178 TAGTGCATCCATGCA--CCTGCAC
1 -AGTGCATCCATGCATCCCTG--C
*
58200 TAGTGCATCCATGCA-CCATGC
1 -AGTGCATCCATGCATCCCTGC
58221 AGTGCATCCATGCA
1 AGTGCATCCATGCA
58235 CTCAAACACC
Statistics
Matches: 131, Mismatches: 6, Indels: 11
0.89 0.04 0.07
Matches are distributed among these distances:
19 4 0.03
20 14 0.11
21 50 0.38
22 60 0.46
23 3 0.02
ACGTcount: A:0.21, C:0.37, G:0.19, T:0.23
Consensus pattern (21 bp):
AGTGCATCCATGCATCCCTGC
Found at i:58162 original size:22 final size:22
Alignment explanation
Indices: 58093--58235 Score: 169
Period size: 22 Copynumber: 6.7 Consensus size: 22
58083 GCACCCTTGC
58093 AGTGCATCCATGCATCCCTGC-C-
1 AGTGCATCCATGCA--CCTGCACT
58115 -GTGCATCCATGCATCCCTG--C-
1 AGTGCATCCATGCA--CCTGCACT
*
58135 AGTGCATTCATGCACCTGCACT
1 AGTGCATCCATGCACCTGCACT
58157 AGTGCATCCATGCACCTGCACT
1 AGTGCATCCATGCACCTGCACT
58179 AGTGCATCCATGCACCTGCACT
1 AGTGCATCCATGCACCTGCACT
58201 AGTGCATCCATGCACCATG--C-
1 AGTGCATCCATGCACC-TGCACT
58221 AGTGCATCCATGCAC
1 AGTGCATCCATGCAC
58236 TCAAACACCG
Statistics
Matches: 114, Mismatches: 2, Indels: 12
0.89 0.02 0.09
Matches are distributed among these distances:
19 4 0.04
20 16 0.14
21 33 0.29
22 59 0.52
23 2 0.02
ACGTcount: A:0.22, C:0.36, G:0.19, T:0.23
Consensus pattern (22 bp):
AGTGCATCCATGCACCTGCACT
Found at i:58192 original size:44 final size:41
Alignment explanation
Indices: 58072--58235 Score: 199
Period size: 42 Copynumber: 3.8 Consensus size: 41
58062 AGGGGGTCAA
*
58072 AGTGCACCCATGCACCCTTGCAGTGCATCCATGCATCCCTGC-C-
1 AGTGCATCCATGCA-CC-TGCAGTGCATCCATGCA--CCTGCACT
*
58115 -GTGCATCCATGCATCCCTGCAGTGCATTCATGCACCTGCACT
1 AGTGCATCCATGCA--CCTGCAGTGCATCCATGCACCTGCACT
58157 AGTGCATCCATGCACCTGCACTAGTGCATCCATGCACCTGCACT
1 AGTGCATCCATGCACCTG--C-AGTGCATCCATGCACCTGCACT
58201 AGTGCATCCATGCACCATGCAGTGCATCCATGCAC
1 AGTGCATCCATGCACC-TGCAGTGCATCCATGCAC
58236 TCAAACACCG
Statistics
Matches: 110, Mismatches: 3, Indels: 17
0.85 0.02 0.13
Matches are distributed among these distances:
40 5 0.05
41 5 0.05
42 43 0.39
43 18 0.16
44 37 0.34
45 2 0.02
ACGTcount: A:0.21, C:0.37, G:0.19, T:0.23
Consensus pattern (41 bp):
AGTGCATCCATGCACCTGCAGTGCATCCATGCACCTGCACT
Found at i:58323 original size:20 final size:20
Alignment explanation
Indices: 58257--58329 Score: 67
Period size: 20 Copynumber: 3.6 Consensus size: 20
58247 ATGCAATTAG
58257 TGCATCGATGCATCCT-TTT
1 TGCATCGATGCATCCTGTTT
** * *
58276 GTGCATCGATGCATCAAGGCTG
1 -TGCATCGATGCATC-CTGTTT
*
58298 TGCATCGATACATCCTGTTT
1 TGCATCGATGCATCCTGTTT
*
58318 TGCATCCATGCA
1 TGCATCGATGCA
58330 CGAAGGTTGC
Statistics
Matches: 40, Mismatches: 11, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
20 26 0.65
21 13 0.32
22 1 0.03
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.33
Consensus pattern (20 bp):
TGCATCGATGCATCCTGTTT
Found at i:61588 original size:34 final size:30
Alignment explanation
Indices: 61550--61618 Score: 86
Period size: 30 Copynumber: 2.2 Consensus size: 30
61540 TTGATATAAC
*
61550 AATTTAAGGCAAAATGGTTTTTGGGCTTGAATTG
1 AATTTAA--CAAAAT-GTTTTTGGACTT-AATTG
61584 AATTT-ACAAAATGTTTTTGGACTTAATTG
1 AATTTAACAAAATGTTTTTGGACTTAATTG
61613 AATTTA
1 AATTTA
61619 TTCAAAGTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
29 10 0.30
30 11 0.33
31 6 0.18
33 1 0.03
34 5 0.15
ACGTcount: A:0.33, C:0.06, G:0.19, T:0.42
Consensus pattern (30 bp):
AATTTAACAAAATGTTTTTGGACTTAATTG
Found at i:61629 original size:29 final size:30
Alignment explanation
Indices: 61559--61618 Score: 95
Period size: 29 Copynumber: 2.0 Consensus size: 30
61549 CAATTTAAGG
*
61559 CAAAATGGTTTTTGGGCTTGAATTGAATTTA
1 CAAAAT-GTTTTTGGACTTGAATTGAATTTA
61590 CAAAATGTTTTTGGACTT-AATTGAATTTA
1 CAAAATGTTTTTGGACTTGAATTGAATTTA
61619 TTCAAAGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 11 0.39
31 6 0.21
ACGTcount: A:0.32, C:0.07, G:0.18, T:0.43
Consensus pattern (30 bp):
CAAAATGTTTTTGGACTTGAATTGAATTTA
Found at i:61785 original size:22 final size:23
Alignment explanation
Indices: 61748--61790 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
61738 GCATCCCTCC
61748 AGTGCATCCATACACC-TGCATT
1 AGTGCATCCATACACCATGCATT
* *
61770 AGTGCATCGATGCACCATGCA
1 AGTGCATCCATACACCATGCA
61791 GTGCATCCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (23 bp):
AGTGCATCCATACACCATGCATT
Found at i:62017 original size:20 final size:22
Alignment explanation
Indices: 61979--62018 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
61969 TTTGAGTAGG
61979 AAAATCATCCCCAAACGGCTCT
1 AAAATCATCCCCAAACGGCTCT
62001 AAAA-CATCCCC-AACGGCT
1 AAAATCATCCCCAAACGGCT
62019 ATATACAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 7 0.39
22 4 0.22
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.15
Consensus pattern (22 bp):
AAAATCATCCCCAAACGGCTCT
Found at i:74288 original size:44 final size:44
Alignment explanation
Indices: 74240--74335 Score: 111
Period size: 44 Copynumber: 2.2 Consensus size: 44
74230 ATAAGAATAA
** * * *
74240 GATATAAGTTATGTGATATGATCTACGTGATTACACGGACATGT
1 GATATAAGCCATGTGACATGACCTACATGATTACACGGACATGT
** * *
74284 GATATAAGCCATGTGACATGACCTACATGATTACTTGTATATGT
1 GATATAAGCCATGTGACATGACCTACATGATTACACGGACATGT
74328 GATATAAG
1 GATATAAG
74336 ATACAATAAA
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.33
Consensus pattern (44 bp):
GATATAAGCCATGTGACATGACCTACATGATTACACGGACATGT
Found at i:75578 original size:55 final size:55
Alignment explanation
Indices: 75516--75813 Score: 386
Period size: 55 Copynumber: 5.4 Consensus size: 55
75506 CATAATCATG
* * *
75516 GAATTCATCATGAGTTGATGAATAGTCATATAGGCATTATGTGTGCAAAACCACA
1 GAATTCATCATGAGTTGATGAATAGCCATACATGCATTATGTGTGCAAAACCACA
* * * * *
75571 GAATTCATCATGAGTTGATAAATAGTCATATAGGTATTATGTGTGCAAAACCACA
1 GAATTCATCATGAGTTGATGAATAGCCATACATGCATTATGTGTGCAAAACCACA
* * * *
75626 GAATTCATCATGAGTTGATAAATAGCAATACATACACTT-TCTGTGCAAAACCAC-
1 GAATTCATCATGAGTTGATGAATAGCCATACATGCA-TTATGTGTGCAAAACCACA
* *
75680 GTAATTCATCATTAGTTGATGAATAGCCATACATGCATTATGTGTGCAAAACCA-T
1 G-AATTCATCATGAGTTGATGAATAGCCATACATGCATTATGTGTGCAAAACCACA
* * * *
75735 GAAATTCATCATGAGTTGATGAATAGCCGTACATGCACTATGTGTGTAAAACCACG
1 G-AATTCATCATGAGTTGATGAATAGCCATACATGCATTATGTGTGCAAAACCACA
75791 GAATTCATCATGAGTTGATGAAT
1 GAATTCATCATGAGTTGATGAAT
75814 TTCTGTATAG
Statistics
Matches: 218, Mismatches: 20, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
54 3 0.01
55 212 0.97
56 3 0.01
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (55 bp):
GAATTCATCATGAGTTGATGAATAGCCATACATGCATTATGTGTGCAAAACCACA
Found at i:76286 original size:49 final size:49
Alignment explanation
Indices: 76209--76316 Score: 171
Period size: 49 Copynumber: 2.2 Consensus size: 49
76199 AGGCCTAACT
* *
76209 GTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGACTAA
1 GTGCCTTTGACAAAAAGGTGTCAATTATGCCAGTTAGATGAAAGACTAA
* * *
76258 TTGCTTTTGACAAAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAA
1 GTGCCTTTGACAAAAAGGTGTCAATTATGCCAGTTAGATGAAAGACTAA
76307 GTGCCTTTGA
1 GTGCCTTTGA
76317 GGACTAATTG
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
49 53 1.00
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.30
Consensus pattern (49 bp):
GTGCCTTTGACAAAAAGGTGTCAATTATGCCAGTTAGATGAAAGACTAA
Found at i:76359 original size:68 final size:68
Alignment explanation
Indices: 76263--77129 Score: 1128
Period size: 68 Copynumber: 12.8 Consensus size: 68
76253 ACTAATTGCT
* * *
76263 TTTGACAAAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGACTAATTGT
1 TTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGT
76328 GCA
66 GCA
* * * *
76331 TTTGATAGAAAGCTATCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGAG-CTAATTG
1 TTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAG-GCCTAACTG
76395 TGCA
65 TGCA
* *
76399 TTTGA-ATGAAAGGTGTCAATTATTCCAGTTAGATGAAAGGCTAAGTACCTTTGAGGCCTAACTG
1 TTTGACA-GAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTG
76463 TGCA
65 TGCA
* * * * * * *
76467 ATTGAAATAAAGGTATCAATTATACCAGTTAGATGAAAGGCTAAGTGCCTTTGATGCCTAATTGT
1 TTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGT
76532 GCA
66 GCA
* * * * * * * *
76535 TTTGACATAAACGAGTCAATTATGTCAGTTAGATGAAAGGCTAAGTGTCTGTAAGGACTAACTGT
1 TTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGT
76600 GCA
66 GCA
* * *
76603 TTTGATAGAAAGGTGTCAATTATGCAAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAATTGT
1 TTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGT
76668 GCA
66 GCA
* * *
76671 TTTGAGAGAAAGGTGTCAATTATG-CAGTTAGATGAAAGGCTAAGTGCCTTTCAGGCCTAACTTT
1 TTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGT
76735 GCA
66 GCA
* * * *
76738 TTTGACAGAAAGGTGTCAATTATGCTACTTAGATGAAAGGCTAAGTGCCTTTGATGCCTAACACG
1 TTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAAC-TG
76803 TGCA
65 TGCA
* * * ** *
76807 TTTGATAGAAATGTGTTAATTATGATAGTTAGATGAAAGGCTAAGTGCCTTTGAGTCCTAACTGT
1 TTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGT
76872 GCA
66 GCA
* * *
76875 TTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGACGAAGTGCCTTTGAGGCCTAACTGT
1 TTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGT
76940 GCA
66 GCA
** * * *
76943 TTTGACAGAAATATGTTAATTATGCCAGTTAGATGAAAGGTTAAGTGCCTTTGAGGTCTAACTGT
1 TTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGT
*
77008 TCA
66 GCA
** * * * * * *
77011 TTTGACATTAAGGTATTAATTATGCTAGTTAGATAAAATGCTAAGTGCCTTTAAGGCCTAACTGT
1 TTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGT
77076 GCA
66 GCA
* * * * *
77079 TTTGACGGAAAGGTGACAATTATGCCAGATAGATGAAAGGTTAAATGCCTT
1 TTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
77130 GAGTAAAAGA
Statistics
Matches: 695, Mismatches: 98, Indels: 12
0.86 0.12 0.01
Matches are distributed among these distances:
67 64 0.09
68 570 0.82
69 61 0.09
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.31
Consensus pattern (68 bp):
TTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGT
GCA
Found at i:77212 original size:45 final size:45
Alignment explanation
Indices: 77149--77282 Score: 151
Period size: 45 Copynumber: 2.9 Consensus size: 45
77139 ACTATGTGTA
*
77149 TAACAGTGTATAAAAGGCATGAAAGGATGCCATAAATGAAATGTG
1 TAACAGTGTATAAAAGGCATGAAAGGATGCCATAAATAAAATGTG
* * * *
77194 TAACGGTGTTTAAAAGGCATGAAATGATGCCATAAATAAAATGTA
1 TAACAGTGTATAAAAGGCATGAAAGGATGCCATAAATAAAATGTG
* * * * * *
77239 TAATAATATATAAAAAGGCATGAACGGTTTCCATAAATGAAAAT
1 TAACAGTGTAT-AAAAGGCATGAAAGGATGCCATAAAT-AAAAT
77283 ACATAACGAT
Statistics
Matches: 73, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
45 46 0.63
46 22 0.30
47 5 0.07
ACGTcount: A:0.46, C:0.09, G:0.19, T:0.25
Consensus pattern (45 bp):
TAACAGTGTATAAAAGGCATGAAAGGATGCCATAAATAAAATGTG
Found at i:80904 original size:94 final size:95
Alignment explanation
Indices: 80781--80964 Score: 259
Period size: 94 Copynumber: 1.9 Consensus size: 95
80771 ACCGAAGAGG
* *
80781 TAGTATCGATATCATGGTAAGGGTATCGATACC-AGGAATCATCGAATCTAAAATTGGTATCGAT
1 TAGTATCGATATCATGGTAAGGGTATCGATACCAAGGAA-CATCAAACCTAAAATTGGTATCGAT
** *
80845 ACCGGAA-GGGGTATCGGTATCATAGCATGC
65 ACCAAAAGGGGGTATCGGTACCATAGCATGC
*
80875 TAGTATCGAT-TCCATGG-ATAGGGTATCGATACCAAGTAACATCAAACCTAAAATTGGTATCGA
1 TAGTATCGATAT-CATGGTA-AGGGTATCGATACCAAGGAACATCAAACCTAAAATTGGTATCGA
80938 TACCAAAAGGGGGTATCGGTACCATAG
64 TACCAAAAGGGGGTATCGGTACCATAG
80965 AATAGAAGTA
Statistics
Matches: 80, Mismatches: 6, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
93 2 0.03
94 57 0.71
95 21 0.26
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.26
Consensus pattern (95 bp):
TAGTATCGATATCATGGTAAGGGTATCGATACCAAGGAACATCAAACCTAAAATTGGTATCGATA
CCAAAAGGGGGTATCGGTACCATAGCATGC
Found at i:81448 original size:55 final size:55
Alignment explanation
Indices: 81380--81697 Score: 424
Period size: 55 Copynumber: 5.8 Consensus size: 55
81370 CACGTACTGG
* * * *
81380 GCACTATGTGTGCATAATCACGGAATTCATCATGAGTTGATGAACAGCCGTACAT
1 GCACTATGTGTGCAAAACCACGGAATTCATCATGAGTTGATGAATAGTCGTACAT
* * * *
81435 GCACTATGTGTGCAAAACCACGAAATTCATCATGATTTGATGAATAGTCGTATAA
1 GCACTATGTGTGCAAAACCACGGAATTCATCATGAGTTGATGAATAGTCGTACAT
** *
81490 GCACTATGTGTGCAAAACCATAGAATTCATCATGAGTTGATGGATAGTCGTACAT
1 GCACTATGTGTGCAAAACCACGGAATTCATCATGAGTTGATGAATAGTCGTACAT
* * *
81545 GCACTATGTGTGCAAAACCAAGGAATTTATCATGAGTTGATGAATAGCCGTACAT
1 GCACTATGTGTGCAAAACCACGGAATTCATCATGAGTTGATGAATAGTCGTACAT
* * * * * *
81600 GCACTATGTGTGCAAATCCATGAAATTCATCATGAGTTGTTAAATAGTTGTACAT
1 GCACTATGTGTGCAAAACCACGGAATTCATCATGAGTTGATGAATAGTCGTACAT
* *
81655 GCAC--TGTGTGCAAAACCACAGATTTCATCATGAGTTGATGAAT
1 GCACTATGTGTGCAAAACCACGGAATTCATCATGAGTTGATGAAT
81698 TACTGTATAG
Statistics
Matches: 228, Mismatches: 35, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
53 32 0.14
55 196 0.86
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.29
Consensus pattern (55 bp):
GCACTATGTGTGCAAAACCACGGAATTCATCATGAGTTGATGAATAGTCGTACAT
Found at i:82684 original size:68 final size:68
Alignment explanation
Indices: 82080--82671 Score: 911
Period size: 68 Copynumber: 8.7 Consensus size: 68
82070 GATTAAAGGT
*
82080 CTAATTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGA
1 CTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGA
*
82145 GAC
66 GGC
* * * * *
82148 CCAACTGTGCATTTGACATAAAGGTGTCAATTATACAAGTTAGATGAAAGGCTAAGTTCCTTTGA
1 CTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGA
82213 GGC
66 GGC
* *
82216 CTAACTGTGCATTTGACAGAAAGGTGTCCATTATG-CAGTTAGATGAAAAGCTAAGTGCCTTTGA
1 CTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGA
82280 GGC
66 GGC
* *
82283 CTAATTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTATGTGCCTTTGA
1 CTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGA
*
82348 TGC
66 GGC
* * *
82351 CTAATTGTGCATTTGACAAAAAGGTGTCAATTATACCAGTTAGATGAAAGGCTAAGTGCCTTTGA
1 CTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGA
*
82416 GGT
66 GGC
* * *
82419 CTAACTATGCATTTGATAGAAAGGTGTCAATTATGCCAATTAGATGAAAGG-TGAAGTGCCTTTG
1 CTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCT-AAGTGCCTTTG
82483 AGGC
65 AGGC
* *
82487 CTAACTGTGCATTTGACAGAAAGGTGCCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTGAT-
1 CTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT-TTG
82551 AGGC
65 AGGC
* * * *
82555 CTAACTGTGCATTTGACAGAAAGGTGTTAATTATTCCAGTTAGATAAAAGGCTAAGTGCCTTTAA
1 CTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGA
82620 GGC
66 GGC
*
82623 CTAACTGTGCATTTGACAAAAAGGTGTCAATTATGCCAGTTAGATGAAA
1 CTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAA
82672 AGTTAAATGC
Statistics
Matches: 474, Mismatches: 45, Indels: 10
0.90 0.09 0.02
Matches are distributed among these distances:
67 64 0.14
68 408 0.86
69 2 0.00
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (68 bp):
CTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGA
GGC
Found at i:82839 original size:46 final size:45
Alignment explanation
Indices: 82703--82854 Score: 187
Period size: 45 Copynumber: 3.3 Consensus size: 45
82693 GACTAGATGT
82703 ATAACAATGTATAACGGTGTATAAAAGGCATGAAAGGATGCCATAA
1 ATAA-AATGTATAACGGTGTATAAAAGGCATGAAAGGATGCCATAA
* * *
82749 ATAAAATGTATAACGGTGTATGAAAGGCATGAAATGATGTCATAA
1 ATAAAATGTATAACGGTGTATAAAAGGCATGAAAGGATGCCATAA
** * * * *
82794 ATAAAATGTATAATAGTATATAAAAAGGCATGTACGGTTGCCATAA
1 ATAAAATGTATAACGGTGTAT-AAAAGGCATGAAAGGATGCCATAA
*
82840 ATGAAAATGCATAAC
1 AT-AAAATGTATAAC
82855 AATGCATTAT
Statistics
Matches: 90, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
45 56 0.62
46 24 0.27
47 10 0.11
ACGTcount: A:0.46, C:0.09, G:0.20, T:0.25
Consensus pattern (45 bp):
ATAAAATGTATAACGGTGTATAAAAGGCATGAAAGGATGCCATAA
Found at i:84016 original size:14 final size:14
Alignment explanation
Indices: 83997--84033 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
83987 GTTGTTAATT
83997 TGAGTAAGAGGAAA
1 TGAGTAAGAGGAAA
84011 TGAGTAAGAGGAAA
1 TGAGTAAGAGGAAA
*
84025 GGAGTAAGA
1 TGAGTAAGA
84034 TGTAAATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.49, C:0.00, G:0.38, T:0.14
Consensus pattern (14 bp):
TGAGTAAGAGGAAA
Found at i:84519 original size:2 final size:2
Alignment explanation
Indices: 84514--84548 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
84504 GGATTCGGTC
84514 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
84549 GCTTTTCTAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:84814 original size:2 final size:2
Alignment explanation
Indices: 84807--84918 Score: 224
Period size: 2 Copynumber: 56.0 Consensus size: 2
84797 ATTTGAAAAG
84807 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
84849 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
84891 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
84919 GATTATGCCT
Statistics
Matches: 110, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 110 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:86488 original size:22 final size:22
Alignment explanation
Indices: 86463--86516 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
86453 ACCGGAAGGG
*
86463 GTATCGGTACCATAGTAAGGTA
1 GTATCGATACCATAGTAAGGTA
*
86485 GTATCGATACCATGGTAAGG--
1 GTATCGATACCATAGTAAGGTA
*
86505 GTATTGATACCA
1 GTATCGATACCA
86517 GAAAACATTG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 11 0.38
22 18 0.62
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (22 bp):
GTATCGATACCATAGTAAGGTA
Found at i:86556 original size:94 final size:94
Alignment explanation
Indices: 86386--86562 Score: 275
Period size: 94 Copynumber: 1.9 Consensus size: 94
86376 GATATCGAAG
* * *
86386 AGGTGGTATCGATACCATGGTAAGGGTATCGATACCAGGAATCATCGAATCTAAAATTGGTATCG
1 AGGTAGTATCGATACCATGGTAAGGGTATCGATACCAGAAAACATCGAATCTAAAATTGGTATCG
**
86451 ATACCGGAAGGGGTATCGGTACCATAGTA
66 ATACCAAAAGGGGTATCGGTACCATAGTA
* *
86480 AGGTAGTATCGATACCATGGTAAGGGTATTGATACCAGAAAACATTGAA-CTTAAAATTGGTATC
1 AGGTAGTATCGATACCATGGTAAGGGTATCGATACCAGAAAACATCGAATC-TAAAATTGGTATC
86544 GATACCAAAAGGGGTATCG
65 GATACCAAAAGGGGTATCG
86563 ATACAATAAC
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
93 1 0.01
94 74 0.99
ACGTcount: A:0.34, C:0.15, G:0.26, T:0.25
Consensus pattern (94 bp):
AGGTAGTATCGATACCATGGTAAGGGTATCGATACCAGAAAACATCGAATCTAAAATTGGTATCG
ATACCAAAAGGGGTATCGGTACCATAGTA
Found at i:86608 original size:94 final size:94
Alignment explanation
Indices: 86391--86608 Score: 228
Period size: 94 Copynumber: 2.3 Consensus size: 94
86381 CGAAGAGGTG
* * * *
86391 GTATCGATACCATGGTAAGGGTATCGATACCAGGAATCATCGAATCTAAAATTGGTATCGATACC
1 GTATCGATACCAGGGTAAGAGTATCGATACCAGAAAACATCGAATCTAAAATTGGTATCGATACC
** * * ** *
86456 GGAAGGGGTATCGGTACCATAGTAAGGTA
66 AAAAGGGGTATCGATACAATAACAAGGAA
* * * *
86485 GTATCGATACCATGGTAAGGGTATTGATACCAGAAAACATTGAA-CTTAAAATTGGTATCGATAC
1 GTATCGATACCAGGGTAAGAGTATCGATACCAGAAAACATCGAATC-TAAAATTGGTATCGATAC
86549 CAAAAGGGGTATCGATACAATAACATA-GAA
65 CAAAAGGGGTATCGATACAATAACA-AGGAA
*
86579 GTA-CAGGTACCAGGGT-AGTAGTATCGATAC
1 GTATC-GATACCAGGGTAAG-AGTATCGATAC
86609 TATGGAGGCA
Statistics
Matches: 105, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
93 4 0.04
94 100 0.95
95 1 0.01
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.24
Consensus pattern (94 bp):
GTATCGATACCAGGGTAAGAGTATCGATACCAGAAAACATCGAATCTAAAATTGGTATCGATACC
AAAAGGGGTATCGATACAATAACAAGGAA
Found at i:87270 original size:55 final size:55
Alignment explanation
Indices: 86981--87246 Score: 424
Period size: 55 Copynumber: 4.8 Consensus size: 55
86971 TTTTGTACTG
* * * *
86981 GGCACTATGTGTGCATAATCACGTAATTCATCATGAGTTGATGAATAGCCGTACA
1 GGCACTATGTGTGCAAAACCACGGAATTCATCATGAGTTGATGAATAGTCGTACA
*
87036 GGCACTATGTGTGCAAAACCACGGAATTCATCATGAGTTGATGAAAAGTCGTACA
1 GGCACTATGTGTGCAAAACCACGGAATTCATCATGAGTTGATGAATAGTCGTACA
* * *
87091 TGCACTTTGTGTGCAAAACCAAGGAATTCATCATGAGTTGATGAATAGTCGTACA
1 GGCACTATGTGTGCAAAACCACGGAATTCATCATGAGTTGATGAATAGTCGTACA
* * * *
87146 GGCACTATATGTGCAAAACCATGAAATTCATCATGAGTTGTTGAATAGTCGTACA
1 GGCACTATGTGTGCAAAACCACGGAATTCATCATGAGTTGATGAATAGTCGTACA
87201 GGCACTATGTGTGCAAAACCACGGAATTCATCATGAGTTGATGAAT
1 GGCACTATGTGTGCAAAACCACGGAATTCATCATGAGTTGATGAAT
87247 TACTGTATAG
Statistics
Matches: 192, Mismatches: 19, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
55 192 1.00
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.27
Consensus pattern (55 bp):
GGCACTATGTGTGCAAAACCACGGAATTCATCATGAGTTGATGAATAGTCGTACA
Found at i:87722 original size:68 final size:68
Alignment explanation
Indices: 87617--88149 Score: 784
Period size: 68 Copynumber: 7.9 Consensus size: 68
87607 GGTATGACTA
*
87617 TGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGACCTAA
1 TGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAA
*
87682 CTA
66 CTG
* * *
87685 TGTATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAATGCTAAGTGCCTTTAAGGCCTAA
1 TGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAA
87750 CTG
66 CTG
* * * * *
87753 TGCATTTGACATAAAGATATCAATTATACCAGTTAGATGAAAGGCTAAGTGCCTTTGATGCC-AA
1 TGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAA
87817 CTG
66 CTG
** *
87820 TGCATTTGACAGAAAGGTGTCAATTATGATAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCTTAA
1 TGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAA
87885 CTG
66 CTG
** * *
87888 TGCATTTGACAGAAATATGTCAATTATGTCAGTT-GTATGAAAGGCGAAGTGCCTTTGAGGCCTA
1 TGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAG-ATGAAAGGCTAAGTGCCTTTGAGGCCTA
87952 ACTG
65 ACTG
*
87956 TGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAA
1 TGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAA
88021 CTG
66 CTG
* * * * *
88024 TGCATTTGACATAAAGGTGTCAATTATGTCAGTTAGATAAAAGGCTAAGTGCCATTAAGGCCTAA
1 TGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAA
88089 CTG
66 CTG
* * * * *
88092 TGCATTTGATAGAAAGGTGTCAATTATGCCAATTAGATTAAAGGTTAAATG-CTTTGAG
1 TGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAG
88150 TAAAAGACTA
Statistics
Matches: 417, Mismatches: 45, Indels: 7
0.89 0.10 0.01
Matches are distributed among these distances:
67 65 0.16
68 351 0.84
69 1 0.00
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.30
Consensus pattern (68 bp):
TGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAA
CTG
Found at i:87966 original size:203 final size:203
Alignment explanation
Indices: 87617--88135 Score: 774
Period size: 203 Copynumber: 2.5 Consensus size: 203
87607 GGTATGACTA
* *
87617 TGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGACCTAA
1 TGCATTTGACAGAAAGGTGTCAATTATG-TAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAA
* * * *
87682 CTATGTATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAATGCTAAGTGCCTTTAAGGCC
65 CTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCGAAGTGCCTTTAAGGCC
*
87747 TAACTGTGCATTTGACATAAA-GATATCAATTATACCAGTTAGATGAAAGGCTAAGTGCCTTTGA
130 TAACTGTGCATTTGACAGAAATG-TATCAATTATACCAGTTAGATGAAAGGCTAAGTGCCTTTGA
*
87811 TGCC-AACTG
194 GGCCTAACTG
*
87820 TGCATTTGACAGAAAGGTGTCAATTATGATAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCTTAA
1 TGCATTTGACAGAAAGGTGTCAATTATG-TAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAA
** * *
87885 CTGTGCATTTGACAGAAATATGTCAATTATGTCAGTT-GTATGAAAGGCGAAGTGCCTTTGAGGC
65 CTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAG-ATGAAAGGCGAAGTGCCTTTAAGGC
* *
87949 CTAACTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGA
129 CTAACTGTGCATTTGACAGAAATGTATCAATTATACCAGTTAGATGAAAGGCTAAGTGCCTTTGA
88014 GGCCTAACTG
194 GGCCTAACTG
* * * *
88024 TGCATTTGACATAAAGGTGTCAATTATGTCAGTTAGATAAAAGGCTAAGTGCCATTAAGGCCTAA
1 TGCATTTGACAGAAAGGTGTCAATTATGT-AGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAA
* * *
88089 CTGTGCATTTGATAGAAAGGTGTCAATTATGCCAATTAGATTAAAGG
65 CTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGG
88136 TTAAATGCTT
Statistics
Matches: 284, Mismatches: 27, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
202 1 0.00
203 179 0.63
204 103 0.36
205 1 0.00
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (203 bp):
TGCATTTGACAGAAAGGTGTCAATTATGTAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAAC
TGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCGAAGTGCCTTTAAGGCCT
AACTGTGCATTTGACAGAAATGTATCAATTATACCAGTTAGATGAAAGGCTAAGTGCCTTTGAGG
CCTAACTG
Found at i:88149 original size:271 final size:271
Alignment explanation
Indices: 87617--88149 Score: 809
Period size: 271 Copynumber: 2.0 Consensus size: 271
87607 GGTATGACTA
* *
87617 TGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGACCTAA
1 TGCATTTGACAGAAAGATGTCAATTATGCCAGTTAGATGAAAGGCGAAGTGCCTTTGAGACCTAA
* *
87682 CTATGTATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAATGCTAAGTGCCTTTAAGGCC
66 CTATGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTAAGGCC
* * * *
87747 TAACTGTGCATTTGACATAAAGATATCAATTATACCAGTTAGATGAAAGGCTAAGTGCCTTTGAT
131 TAACTGTGCATTTGACATAAAGATATCAATTATACCAGTTAGATAAAAGGCTAAGTGCCATTAAG
* * *
87812 GCCAACTGTGCATTTGACAGAAAGGTGTCAATTATGATAGTTAGATGAAAGGCTAAGTGCCTTTG
196 GCCAACTGTGCATTTGACAGAAAGGTGTCAATTATGACAATTAGATGAAAGGCTAAATGCCTTTG
87877 AGGCTTAACTG
261 AGGCTTAACTG
* * *
87888 TGCATTTGACAGAAATATGTCAATTATGTCAGTT-GTATGAAAGGCGAAGTGCCTTTGAGGCCTA
1 TGCATTTGACAGAAAGATGTCAATTATGCCAGTTAG-ATGAAAGGCGAAGTGCCTTTGAGACCTA
* * *
87952 ACTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGC
65 ACTATGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTAAGGC
* * **
88017 CTAACTGTGCATTTGACATAAAGGTGTCAATTATGTCAGTTAGATAAAAGGCTAAGTGCCATTAA
130 CTAACTGTGCATTTGACATAAAGATATCAATTATACCAGTTAGATAAAAGGCTAAGTGCCATTAA
* * * *
88082 GGCCTAACTGTGCATTTGATAGAAAGGTGTCAATTATGCCAATTAGATTAAAGGTTAAATG-CTT
195 GGCC-AACTGTGCATTTGACAGAAAGGTGTCAATTATGACAATTAGATGAAAGGCTAAATGCCTT
88146 TGAG
259 TGAG
88150 TAAAAGACTA
Statistics
Matches: 235, Mismatches: 25, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
270 1 0.00
271 185 0.79
272 49 0.21
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.30
Consensus pattern (271 bp):
TGCATTTGACAGAAAGATGTCAATTATGCCAGTTAGATGAAAGGCGAAGTGCCTTTGAGACCTAA
CTATGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTAAGGCC
TAACTGTGCATTTGACATAAAGATATCAATTATACCAGTTAGATAAAAGGCTAAGTGCCATTAAG
GCCAACTGTGCATTTGACAGAAAGGTGTCAATTATGACAATTAGATGAAAGGCTAAATGCCTTTG
AGGCTTAACTG
Found at i:88256 original size:22 final size:22
Alignment explanation
Indices: 88185--88256 Score: 65
Period size: 22 Copynumber: 3.2 Consensus size: 22
88175 ATAACGGTGT
*
88185 ATAAAAGGCATGAAAGGATGCC
1 ATAAAAGGCATGAAATGATGCC
* ** * *
88207 ATAAATGTAATGTATAATGGTG-T
1 ATAAAAGGCATG-A-AATGATGCC
88230 ATAAAAGGCATGAAATGATGCC
1 ATAAAAGGCATGAAATGATGCC
88252 ATAAA
1 ATAAA
88257 TAAAATGTAT
Statistics
Matches: 36, Mismatches: 11, Indels: 6
0.68 0.21 0.11
Matches are distributed among these distances:
21 6 0.17
22 15 0.42
23 10 0.28
24 5 0.14
ACGTcount: A:0.46, C:0.08, G:0.22, T:0.24
Consensus pattern (22 bp):
ATAAAAGGCATGAAATGATGCC
Found at i:88308 original size:46 final size:46
Alignment explanation
Indices: 88170--88340 Score: 195
Period size: 45 Copynumber: 3.8 Consensus size: 46
88160 GATGTATATC
* *
88170 AATGTATAACGGTGTATAAAAGGCATGAAAGGATGCCATAAATG-T
1 AATGTATAATGGTGTATAAAAGGCATGAAAGGATGCCATAAATGAA
*
88215 AATGTATAATGGTGTATAAAAGGCATGAAATGATGCCATAAAT-AA
1 AATGTATAATGGTGTATAAAAGGCATGAAAGGATGCCATAAATGAA
* * * * *
88260 AATGTATAATAGTATATAAAAAGGCATG-ACGGTTGCAATAAATGAA
1 AATGTATAATGGTGTAT-AAAAGGCATGAAAGGATGCCATAAATGAA
* * * * *
88306 AATGTATAATGATGCATTATAGGCATGAATGGATG
1 AATGTATAATGGTGTATAAAAGGCATGAAAGGATG
88341 TTTTCAATCA
Statistics
Matches: 105, Mismatches: 17, Indels: 7
0.81 0.13 0.05
Matches are distributed among these distances:
45 75 0.71
46 30 0.29
ACGTcount: A:0.44, C:0.07, G:0.22, T:0.27
Consensus pattern (46 bp):
AATGTATAATGGTGTATAAAAGGCATGAAAGGATGCCATAAATGAA
Found at i:88330 original size:91 final size:90
Alignment explanation
Indices: 88170--88334 Score: 206
Period size: 91 Copynumber: 1.8 Consensus size: 90
88160 GATGTATATC
* * * * * *
88170 AATGTATAACGGTGTATAAAAGGCATGAAAGGATGCCATAAATGTAATGTATAATGGTGTATAAA
1 AATGTATAACAGTATATAAAAGGCATGAAAGGATGCAATAAATGAAATGTATAATGATGCATAAA
88235 AGGCATGAAATGATGCCATAAATAA
66 AGGCATGAAATGATGCCATAAATAA
* * * *
88260 AATGTATAATAGTATATAAAAAGGCATG-ACGGTTGCAATAAATGAAAATGTATAATGATGCATT
1 AATGTATAACAGTATAT-AAAAGGCATGAAAGGATGCAATAAATG-AAATGTATAATGATGCATA
*
88324 ATAGGCATGAA
64 AAAGGCATGAA
88335 TGGATGTTTT
Statistics
Matches: 62, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
90 27 0.44
91 35 0.56
ACGTcount: A:0.45, C:0.07, G:0.21, T:0.27
Consensus pattern (90 bp):
AATGTATAACAGTATATAAAAGGCATGAAAGGATGCAATAAATGAAATGTATAATGATGCATAAA
AGGCATGAAATGATGCCATAAATAA
Found at i:92062 original size:22 final size:23
Alignment explanation
Indices: 92015--92072 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 23
92005 CCCTAAATGA
92015 GGGAATCGATTCCAATTCAAAGG
1 GGGAATCGATTCCAATTCAAAGG
* **
92038 GGGAATCGGTTCCCCTTC-AAGG
1 GGGAATCGATTCCAATTCAAAGG
* *
92060 GGGTACCGATTCC
1 GGGAATCGATTCC
92073 TCCTGCACTA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
22 14 0.48
23 15 0.52
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.22
Consensus pattern (23 bp):
GGGAATCGATTCCAATTCAAAGG
Found at i:99240 original size:21 final size:21
Alignment explanation
Indices: 99214--99295 Score: 85
Period size: 21 Copynumber: 3.8 Consensus size: 21
99204 AGGGTGTCAA
* *
99214 AGTGTATCCATGTACTCCTGC
1 AGTGTATCCATGCACTCCTAC
*
99235 AGTGTATCCATGCATTCCTAC
1 AGTGTATCCATGCACTCCTAC
*
99256 AGTGCATCCATGCACCTGCC-AC
1 AGTGTATCCATGCA-CT-CCTAC
*
99278 TAGTGCATCCATGCACTC
1 -AGTGTATCCATGCACTC
99296 TATTTCGAAT
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
21 32 0.60
22 5 0.09
23 16 0.30
ACGTcount: A:0.22, C:0.33, G:0.17, T:0.28
Consensus pattern (21 bp):
AGTGTATCCATGCACTCCTAC
Found at i:99486 original size:21 final size:20
Alignment explanation
Indices: 99457--99495 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
99447 TTTGAGTAGA
99457 AAAATCATCCCCAAATGGCTCC
1 AAAATCAT-CCC-AATGGCTCC
99479 AAAA-CATCCCAATGGCT
1 AAAATCATCCCAATGGCT
99496 ATATACAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 7 0.41
20 3 0.18
21 3 0.18
22 4 0.24
ACGTcount: A:0.38, C:0.33, G:0.10, T:0.18
Consensus pattern (20 bp):
AAAATCATCCCAATGGCTCC
Done.