Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000249.1 Hibiscus syriacus cultivar Beakdansim tig00000445_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: 197387
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.33
Found at i:5139 original size:76 final size:76
Alignment explanation
Indices: 5045--5202 Score: 244
Period size: 76 Copynumber: 2.1 Consensus size: 76
5035 AAATAATAAC
* * * *
5045 TTTATGCTTTATTTTATGTAGGTATAACTAAAAGTTTTATGTTAAAAAGTTGATATTTTTCAAAA
1 TTTAGGCTATATTTTATGTAGGTACAACTAAAAGTTTTATGTTAAAAAGTTGATATTTCTCAAAA
**
5110 GATATTTTGAT
66 GATATTTCAAT
* *
5121 TTTAGGCTATATTTTATGTAGGTACAATTAAAAGTTTTATGTTAAAAAGTTGATATTTCTCAAAG
1 TTTAGGCTATATTTTATGTAGGTACAACTAAAAGTTTTATGTTAAAAAGTTGATATTTCTCAAAA
5186 GATATTTCAAT
66 GATATTTCAAT
5197 TTTAGG
1 TTTAGG
5203 GGATTTTATT
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
76 74 1.00
ACGTcount: A:0.34, C:0.05, G:0.15, T:0.46
Consensus pattern (76 bp):
TTTAGGCTATATTTTATGTAGGTACAACTAAAAGTTTTATGTTAAAAAGTTGATATTTCTCAAAA
GATATTTCAAT
Found at i:5824 original size:23 final size:23
Alignment explanation
Indices: 5793--5841 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
5783 AAAAAAAATT
* * * *
5793 ATAATAATTTTAAGATTTTTTAA
1 ATAAAAATTTCAAAATTTTATAA
5816 ATAAAAATTTCAAAATTTTATAA
1 ATAAAAATTTCAAAATTTTATAA
5839 ATA
1 ATA
5842 TACACGTGTC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (23 bp):
ATAAAAATTTCAAAATTTTATAA
Found at i:8044 original size:64 final size:62
Alignment explanation
Indices: 7956--8115 Score: 171
Period size: 64 Copynumber: 2.5 Consensus size: 62
7946 AATTTTTTAG
* * * *
7956 AGTGTATCGATGCACAAGAAGTGCATCGATGCA-CCCCTTAAAAATGGAAACATTGAA-TGCAGT
1 AGTGTATCGATGCA-TAGGAGTGCATCGATGCACCCCCTT-AAAATGAAAACATCGAAGTG-A-T
8019 T
62 T
* *
8020 AGTGCATCGATGCATTAGGAGTGCATCAATGCACCCCCTTAAAATGAAAACATCGAAGGTGATT
1 AGTGTATCGATGCA-TAGGAGTGCATCGATGCACCCCCTTAAAATGAAAACATCGAA-GTGATT
* *
8084 GGTGTATCGATGCATGGGTAGTGCATCGATGC
1 AGTGTATCGATGCATAGG-AGTGCATCGATGC
8116 GCATGGGTAG
Statistics
Matches: 81, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
63 3 0.04
64 69 0.85
65 7 0.09
66 2 0.02
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (62 bp):
AGTGTATCGATGCATAGGAGTGCATCGATGCACCCCCTTAAAATGAAAACATCGAAGTGATT
Found at i:8113 original size:19 final size:19
Alignment explanation
Indices: 8089--8137 Score: 80
Period size: 21 Copynumber: 2.5 Consensus size: 19
8079 TGATTGGTGT
8089 ATCGATGCATGGGTAGTGC
1 ATCGATGCATGGGTAGTGC
8108 ATCGATGCGCATGGGTAGTGC
1 ATCGAT--GCATGGGTAGTGC
8129 ATCGATGCA
1 ATCGATGCA
8138 CATGTTAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
19 9 0.32
21 19 0.68
ACGTcount: A:0.22, C:0.18, G:0.35, T:0.24
Consensus pattern (19 bp):
ATCGATGCATGGGTAGTGC
Found at i:8121 original size:21 final size:21
Alignment explanation
Indices: 8095--8141 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
8085 GTGTATCGAT
8095 GCATGGGTAGTGCATCGATGC
1 GCATGGGTAGTGCATCGATGC
8116 GCATGGGTAGTGCATCGATGC
1 GCATGGGTAGTGCATCGATGC
*
8137 ACATG
1 GCATG
8142 TTAAAGAATG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.21, C:0.19, G:0.36, T:0.23
Consensus pattern (21 bp):
GCATGGGTAGTGCATCGATGC
Found at i:8171 original size:20 final size:20
Alignment explanation
Indices: 8126--8203 Score: 120
Period size: 20 Copynumber: 3.7 Consensus size: 20
8116 GCATGGGTAG
8126 TGCATCGATGCACATGTTAAAGAA
1 TGCATCGATGCAC-TG-T--AGAA
8150 TGCATCGATGCACTGTAGAA
1 TGCATCGATGCACTGTAGAA
8170 TGCATCGATGCACTGTAGAA
1 TGCATCGATGCACTGTAGAA
8190 TGCATCGATGCACT
1 TGCATCGATGCACT
8204 TCAAGGGGAA
Statistics
Matches: 54, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
20 38 0.70
22 1 0.02
23 2 0.04
24 13 0.24
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.26
Consensus pattern (20 bp):
TGCATCGATGCACTGTAGAA
Found at i:8936 original size:2 final size:2
Alignment explanation
Indices: 8929--8956 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
8919 TAATTAAGTA
8929 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
8957 GTTTATAGTA
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:9737 original size:23 final size:23
Alignment explanation
Indices: 9704--9771 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 23
9694 CATCTTATAT
*
9704 GGCACTACGGTGCATTTCTACGC
1 GGCACTTCGGTGCATTTCTACGC
* *
9727 GGCACTTCGGTGCAATTCTACGT
1 GGCACTTCGGTGCATTTCTACGC
*
9750 GGCAC-TCTGGTGCATTTATACG
1 GGCACTTC-GGTGCATTTCTACG
9772 AGCTGTGGTG
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
22 2 0.05
23 37 0.95
ACGTcount: A:0.18, C:0.26, G:0.26, T:0.29
Consensus pattern (23 bp):
GGCACTTCGGTGCATTTCTACGC
Found at i:15367 original size:24 final size:24
Alignment explanation
Indices: 15349--15411 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
15339 ACGTTTGTGA
*
15349 ACGTTCGGTTATGTTCGTTTATAT
1 ACGTTCAGTTATGTTCGTTTATAT
* *
15373 GCGTTCAGTTATGTTCGTTTATGT
1 ACGTTCAGTTATGTTCGTTTATAT
* *
15397 GCGTTCATTTATGTT
1 ACGTTCAGTTATGTT
15412 TAACATAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.14, C:0.13, G:0.22, T:0.51
Consensus pattern (24 bp):
ACGTTCAGTTATGTTCGTTTATAT
Found at i:19289 original size:10 final size:10
Alignment explanation
Indices: 19274--19346 Score: 57
Period size: 10 Copynumber: 7.5 Consensus size: 10
19264 GTCTCCAACA
19274 TTTATGTTCG
1 TTTATGTTCG
19284 TTTATGTTCG
1 TTTATGTTCG
*
19294 TGTTCAT-TTATG
1 T-TT-ATGTT-CG
**
19306 TTCGTGTTCG
1 TTTATGTTCG
19316 TTTATGTTCG
1 TTTATGTTCG
19326 ----TGTTCG
1 TTTATGTTCG
19332 TTTATGTTCG
1 TTTATGTTCG
19342 TTTAT
1 TTTAT
19347 TTATTAAATG
Statistics
Matches: 49, Mismatches: 6, Indels: 16
0.69 0.08 0.23
Matches are distributed among these distances:
6 6 0.12
10 32 0.65
11 7 0.14
12 4 0.08
ACGTcount: A:0.10, C:0.11, G:0.21, T:0.59
Consensus pattern (10 bp):
TTTATGTTCG
Found at i:19303 original size:16 final size:16
Alignment explanation
Indices: 19278--19342 Score: 121
Period size: 16 Copynumber: 4.1 Consensus size: 16
19268 CCAACATTTA
19278 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
*
19294 TGTTCATTTATGTTCG
1 TGTTCGTTTATGTTCG
19310 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
19326 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
19342 T
1 T
19343 TTATTTATTA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.08, C:0.12, G:0.23, T:0.57
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:19724 original size:10 final size:10
Alignment explanation
Indices: 19709--19781 Score: 57
Period size: 10 Copynumber: 7.5 Consensus size: 10
19699 CATTTAATAA
19709 ATAAACGAAC
1 ATAAACGAAC
19719 ATAAACGAAC
1 ATAAACGAAC
19729 ----ACGAAC
1 ATAAACGAAC
19735 ATAAACGAAC
1 ATAAACGAAC
** *
19745 ACGAAC-ATAA
1 ATAAACGA-AC
19755 ATGAACACGAAC
1 AT-AA-ACGAAC
19767 ATAAACGAAC
1 ATAAACGAAC
19777 ATAAA
1 ATAAA
19782 TGTTGGAGAC
Statistics
Matches: 49, Mismatches: 6, Indels: 16
0.69 0.08 0.23
Matches are distributed among these distances:
6 6 0.12
9 1 0.02
10 33 0.67
11 3 0.06
12 5 0.10
13 1 0.02
ACGTcount: A:0.59, C:0.21, G:0.11, T:0.10
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:19734 original size:16 final size:16
Alignment explanation
Indices: 19713--19777 Score: 121
Period size: 16 Copynumber: 4.1 Consensus size: 16
19703 TAATAAATAA
19713 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
19729 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
19745 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
19761 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
19777 A
1 A
19778 TAAATGTTGG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.57, C:0.23, G:0.12, T:0.08
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:23685 original size:24 final size:24
Alignment explanation
Indices: 23649--23711 Score: 99
Period size: 24 Copynumber: 2.6 Consensus size: 24
23639 ATATTATGTT
*
23649 AAACATAAATGAACGCACATAAAC
1 AAACATAACTGAACGCACATAAAC
* *
23673 GAACATAACTGAACGCATATAAAC
1 AAACATAACTGAACGCACATAAAC
23697 AAACATAACTGAACG
1 AAACATAACTGAACG
23712 TTCACAAACG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.54, C:0.21, G:0.11, T:0.14
Consensus pattern (24 bp):
AAACATAACTGAACGCACATAAAC
Found at i:23720 original size:24 final size:24
Alignment explanation
Indices: 23649--23720 Score: 76
Period size: 24 Copynumber: 3.0 Consensus size: 24
23639 ATATTATGTT
*
23649 AAACATAAATGAACGCA-CATAAAC
1 AAACATAACTGAACG-ATCATAAAC
*
23673 GAACATAACTGAACGCAT-ATAAAC
1 AAACATAACTGAACG-ATCATAAAC
* *
23697 AAACATAACTGAACGTTCACAAAC
1 AAACATAACTGAACGATCATAAAC
23721 GTAAATGAAC
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
23 1 0.02
24 40 0.98
ACGTcount: A:0.53, C:0.22, G:0.10, T:0.15
Consensus pattern (24 bp):
AAACATAACTGAACGATCATAAAC
Found at i:34470 original size:16 final size:16
Alignment explanation
Indices: 34451--34484 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
34441 AGTTTTTATG
34451 ATAAT-TTATTTTATTT
1 ATAATATTA-TTTATTT
34467 ATAATATTATTTATTT
1 ATAATATTATTTATTT
34483 AT
1 AT
34485 TTATTCTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.82
17 3 0.18
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
ATAATATTATTTATTT
Found at i:34708 original size:16 final size:17
Alignment explanation
Indices: 34681--34716 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
34671 GATATGAGAA
34681 AAATTCAATTTAAATTT
1 AAATTCAATTTAAATTT
*
34698 AAATT-AATTTAATTTT
1 AAATTCAATTTAAATTT
34714 AAA
1 AAA
34717 ATAGCTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (17 bp):
AAATTCAATTTAAATTT
Found at i:35005 original size:24 final size:24
Alignment explanation
Indices: 34973--35019 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
34963 CTTCGAAAAC
34973 GTTACGATGCGGGCGTTAAGCTAT
1 GTTACGATGCGGGCGTTAAGCTAT
* *
34997 GTTACGATGCGGGTGTTATGCTA
1 GTTACGATGCGGGCGTTAAGCTA
35020 CATTGCGCCC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.19, C:0.15, G:0.34, T:0.32
Consensus pattern (24 bp):
GTTACGATGCGGGCGTTAAGCTAT
Found at i:35990 original size:15 final size:15
Alignment explanation
Indices: 35970--36012 Score: 59
Period size: 17 Copynumber: 2.7 Consensus size: 15
35960 AAGTAAACCT
35970 TATTTATATTTTGAA
1 TATTTATATTTTGAA
35985 TATTTATATATTTTGAA
1 TA-TT-TATATTTTGAA
*
36002 CATTTATATTT
1 TATTTATATTT
36013 ATTGTTGGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 9 0.36
16 4 0.16
17 12 0.48
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (15 bp):
TATTTATATTTTGAA
Found at i:35996 original size:17 final size:17
Alignment explanation
Indices: 35974--36010 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
35964 AAACCTTATT
*
35974 TATATTTTGAATATTTA
1 TATATTTTGAACATTTA
35991 TATATTTTGAACATTTA
1 TATATTTTGAACATTTA
36008 TAT
1 TAT
36011 TTATTGTTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.57
Consensus pattern (17 bp):
TATATTTTGAACATTTA
Found at i:36679 original size:37 final size:36
Alignment explanation
Indices: 36625--36973 Score: 361
Period size: 37 Copynumber: 9.5 Consensus size: 36
36615 TTTTTCATAT
36625 ATATATAATATATAGTTTTTGAAAACATTTTGAAAAC
1 ATATATAATATATAGTTTTT-AAAACATTTTGAAAAC
* * * *
36662 ATGTATATTATATAGTTTTTTAAACATTTTG-GAA-
1 ATATATAATATATAGTTTTTAAAACATTTTGAAAAC
*
36696 ATATATAATATATAGTTTTTTAAAACATTTTGAAAAT
1 ATATATAATATATAG-TTTTTAAAACATTTTGAAAAC
*
36733 TTATATAATATATAGTTTTTAAAACATTTTGAAAAC
1 ATATATAATATATAGTTTTTAAAACATTTTGAAAAC
* *
36769 TTTATATAATATATAGTTTTTAAAACATTTTGAATATATATATAT
1 -ATATATAATATATAGTTTTTAAAACATTTTG-----A-A-A-AC
*
36814 ATATATATATAATATAGTTTTTAAAACATTTTG-AAAG
1 ATATATA-AT-ATATAGTTTTTAAAACATTTTGAAAAC
* *
36851 TTATATAATATATAGTTTTTAAAAATATTTTG-AAA-
1 ATATATAATATATAGTTTTT-AAAACATTTTGAAAAC
*
36886 ATATATAATATATGGTTTTTAAAACATTTTGAAAAC
1 ATATATAATATATAGTTTTTAAAACATTTTGAAAAC
* * * *
36922 -TATATAATATATAG-TTTGAAAACTTTTTAAAAATT
1 ATATATAATATATAGTTTTTAAAACATTTTGAAAA-C
*
36957 TTATATAATATATAGTT
1 ATATATAATATATAGTT
36974 GTAAATTTCT
Statistics
Matches: 269, Mismatches: 23, Indels: 40
0.81 0.07 0.12
Matches are distributed among these distances:
34 39 0.14
35 62 0.23
36 61 0.23
37 71 0.26
38 1 0.00
39 1 0.00
42 1 0.00
43 1 0.00
44 7 0.03
45 3 0.01
46 22 0.08
ACGTcount: A:0.44, C:0.03, G:0.07, T:0.46
Consensus pattern (36 bp):
ATATATAATATATAGTTTTTAAAACATTTTGAAAAC
Found at i:36832 original size:83 final size:79
Alignment explanation
Indices: 36734--36898 Score: 251
Period size: 81 Copynumber: 2.0 Consensus size: 79
36724 TTTGAAAATT
*
36734 TATATAATATATAGTTTTTAAAACATTTTGAAAACTTTATATAATATATAGTTTTT-AAAACATT
1 TATATAATATATAGTTTTTAAAACATTTTG-AAA-GTTATATAATATATAGTTTTTAAAAACATT
*
36798 TTGAATATATATATATA
64 TTGAAAATATATA-ATA
*
36815 TATATATATAATATAGTTTTTAAAACATTTTGAAAGTTATATAATATATAGTTTTTAAAAATATT
1 TATATA-AT-ATATAGTTTTTAAAACATTTTGAAAGTTATATAATATATAGTTTTTAAAAACATT
36880 TTGAAAATATATAATA
64 TTGAAAATATATAATA
36896 TAT
1 TAT
36899 GGTTTTTAAA
Statistics
Matches: 78, Mismatches: 3, Indels: 6
0.90 0.03 0.07
Matches are distributed among these distances:
81 32 0.41
82 24 0.31
83 22 0.28
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.47
Consensus pattern (79 bp):
TATATAATATATAGTTTTTAAAACATTTTGAAAGTTATATAATATATAGTTTTTAAAAACATTTT
GAAAATATATAATA
Found at i:36992 original size:38 final size:36
Alignment explanation
Indices: 36851--36973 Score: 112
Period size: 35 Copynumber: 3.5 Consensus size: 36
36841 ATTTTGAAAG
* * *
36851 TTATATAATATATAGTTTTTAAAAATATTTTGAAAA--
1 TTATATAATATATAG-TTTGAAAACT-TTTTAAAAATT
* * * *
36887 -TATATAATATATGGTTTTTAAAACATTTTGAAAA--
1 TTATATAATATATAG-TTTGAAAACTTTTTAAAAATT
*
36921 CTATATAATATATAGTTTGAAAACTTTTTAAAAATT
1 TTATATAATATATAGTTTGAAAACTTTTTAAAAATT
36957 TTATATAATATATAGTT
1 TTATATAATATATAGTT
36974 GTAAATTTCT
Statistics
Matches: 76, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
34 25 0.33
35 35 0.46
36 16 0.21
ACGTcount: A:0.45, C:0.02, G:0.07, T:0.46
Consensus pattern (36 bp):
TTATATAATATATAGTTTGAAAACTTTTTAAAAATT
Found at i:37551 original size:21 final size:21
Alignment explanation
Indices: 37490--37551 Score: 51
Period size: 21 Copynumber: 3.1 Consensus size: 21
37480 ATCGAAAACG
37490 AAGCAAGCAAATATACAACAC
1 AAGCAAGCAAATATACAACAC
* * ** *
37511 AAGAAAACCCA-A-A-AGC-C
1 AAGCAAGCAAATATACAACAC
37528 AAGCAAGCAAATATACAACAC
1 AAGCAAGCAAATATACAACAC
37549 AAG
1 AAG
37552 GGAACCAAGC
Statistics
Matches: 27, Mismatches: 10, Indels: 8
0.60 0.22 0.18
Matches are distributed among these distances:
17 8 0.30
18 3 0.11
19 2 0.07
20 3 0.11
21 11 0.41
ACGTcount: A:0.58, C:0.24, G:0.11, T:0.06
Consensus pattern (21 bp):
AAGCAAGCAAATATACAACAC
Found at i:38172 original size:17 final size:19
Alignment explanation
Indices: 38128--38177 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 19
38118 TATAATAATA
38128 ATTATTATTATTTACTTCTT
1 ATTATTATT-TTTACTTCTT
*
38148 ATTATTATTTTTCCTT-TT
1 ATTATTATTTTTACTTCTT
38166 ATT-TTATATTTT
1 ATTATTAT-TTTT
38178 TTGGGTTAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 4 0.14
18 9 0.32
19 6 0.21
20 9 0.32
ACGTcount: A:0.22, C:0.08, G:0.00, T:0.70
Consensus pattern (19 bp):
ATTATTATTTTTACTTCTT
Found at i:42669 original size:34 final size:34
Alignment explanation
Indices: 42631--42756 Score: 162
Period size: 34 Copynumber: 3.5 Consensus size: 34
42621 ATAAACAAGT
*
42631 AAATAAATAACACCATTAAGTCTCAATATGTCTA
1 AAATAAATAACACCATTAAGTCTCAATAAGTCTA
42665 AAATAAATAACACCATTAAGTCTCAATAAGTCTA
1 AAATAAATAACACCATTAAGTCTCAATAAGTCTA
42699 AAATAAATAACACCATAACACTATTAAGTCTCAATAAGTCTA
1 AAATAAAT-A-A-C---AC-C-ATTAAGTCTCAATAAGTCTA
*
42741 AAATAAATAACTCCAT
1 AAATAAATAACACCAT
42757 AACACCATTA
Statistics
Matches: 82, Mismatches: 2, Indels: 16
0.82 0.02 0.16
Matches are distributed among these distances:
34 43 0.52
35 2 0.02
36 2 0.02
37 1 0.01
39 1 0.01
40 3 0.04
41 2 0.02
42 28 0.34
ACGTcount: A:0.50, C:0.18, G:0.05, T:0.27
Consensus pattern (34 bp):
AAATAAATAACACCATTAAGTCTCAATAAGTCTA
Found at i:42719 original size:42 final size:42
Alignment explanation
Indices: 42671--42795 Score: 214
Period size: 42 Copynumber: 3.0 Consensus size: 42
42661 TCTAAAATAA
42671 ATAACACCATTAAGTCTCAATAAGTCTAAAATAAATAACACC
1 ATAACACCATTAAGTCTCAATAAGTCTAAAATAAATAACACC
* *
42713 ATAACACTATTAAGTCTCAATAAGTCTAAAATAAATAACTCC
1 ATAACACCATTAAGTCTCAATAAGTCTAAAATAAATAACACC
* *
42755 ATAACACCATTAAATCTCAATAAGTTTAAAATAAATAACAC
1 ATAACACCATTAAGTCTCAATAAGTCTAAAATAAATAACAC
42796 TAATAAATTT
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 77 1.00
ACGTcount: A:0.50, C:0.19, G:0.04, T:0.26
Consensus pattern (42 bp):
ATAACACCATTAAGTCTCAATAAGTCTAAAATAAATAACACC
Found at i:44509 original size:84 final size:84
Alignment explanation
Indices: 44305--45623 Score: 1614
Period size: 84 Copynumber: 15.8 Consensus size: 84
44295 AGCACCTTTG
* * * *
44305 ACAAAAGACCTTCGAGTTCAATTACATTCAGCTCAAAGGCACATCATTTATAGCATAACTTAAGG
1 ACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTCAAGG
* * *
44370 CAAGAAGGGTTATATGTCA
66 CGAGAAGGGTTATCTGCCA
* * * * * * *
44389 AC-CAAGACCTTCAATTTTGATTACACTCAGTTCAAAGG-AGTATCATTTACAGCATAGCTCAAG
1 ACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCA-CATCATTTACAGCATAACTCAAG
44452 GCGAGAAGGGTTATCTGCCA
65 GCGAGAAGGGTTATCTGCCA
* *
44472 GCAAAAGACCTTCGAGTTTGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTCAAGG
1 ACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTCAAGG
* *
44537 CAAGAAGGGTTATCTGTCA
66 CGAGAAGGGTTATCTGCCA
* * *
44556 AC-CAAGACCTTCGAGTTCGATTACACTTAGCTCAAAGGCACATCATTTATAGCATAACTCAAGG
1 ACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTCAAGG
* * *
44620 CGATAAGGGTTATATGTCA
66 CGAGAAGGGTTATCTGCCA
* * ** *
44639 AC-CAAGACCTTCGAGTTCGATTACACTTAGCTCAAAGGTGCATCATTTACAGCATAGCTCAAGG
1 ACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTCAAGG
*
44703 CGAGAAAGGTTATCTGCCA
66 CGAGAAGGGTTATCTGCCA
* * * *
44722 ACAAAAGACCTTCGAGTTCGATTACACGCAGCTTAAAGGCACATCATTTACAACATAGCTCAAGG
1 ACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTCAAGG
*
44787 CGAGAAGGGATATCTGCCA
66 CGAGAAGGGTTATCTGCCA
* * * *
44806 ACAAAAGACCTTCGAGTTTGATTACACTCAGCTCAAAGGCATATCATTTACATCATGACTCAAGG
1 ACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTCAAGG
*
44871 CGAGAAGGGTTATCTGTCA
66 CGAGAAGGGTTATCTGCCA
* * * * *
44890 AC-CAATACCTTCGAGTTTGATTACACTCAGCTCAAAGACACATCATTTACAACATAACTCAAGG
1 ACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTCAAGG
**
44954 CGAGAAGGGTTATCTTTCA
66 CGAGAAGGGTTATCTGCCA
* * * * ** ** *
44973 AC-CAAGACCTTCGAGTTTGATTACACTCAACTCAAAAGTGCATCATTTGTAGCATAACTCAATG
1 ACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTCAAGG
* * *
45037 TGAAAATGGTTATCTGCCA
66 CGAGAAGGGTTATCTGCCA
* * *
45056 ACAAAAGACCTTTGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGAATAACTCAAGG
1 ACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTCAAGG
45121 CGAGAAGGGTTATCTGCCA
66 CGAGAAGGGTTATCTGCCA
* * *
45140 ACAAAAGACCTAT-GAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGAATAGCTCAAG
1 ACAAAAGACCT-TCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTCAAG
* *
45204 GTGAAAAGGGTTATCTGCCA
65 GCGAGAAGGGTTATCTGCCA
* * * *
45224 ACAACAA-CCCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGAATAGCTCAAG
1 ACAA-AAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTCAAG
* *
45288 ACGAGAAGGGTTATCTACCA
65 GCGAGAAGGGTTATCTGCCA
* * * * * * * *
45308 TCAAAAGTCCTTCGAGTTCAATTACACTAAGCTGAAAGACACATCATTTGCAGCATAGCTCAAGG
1 ACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTCAAGG
* *
45373 CGA-TAGGGTTATCTGCTA
66 CGAGAAGGGTTATCTGCCA
* * *
45391 ATAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATTATTTACAACATAACTCAAGG
1 ACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTCAAGG
** *
45456 CGAGAAAAGTTATCTGTCA
66 CGAGAAGGGTTATCTGCCA
* * * ** *
45475 AC-CAAGACCTTCGAGTTCGATTACACTCATCTCAAAGGCGCATCATTTGTAGCATAGCTCAAGG
1 ACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTCAAGG
* **
45539 CGAGAATGACTATCTGCCA
66 CGAGAAGGGTTATCTGCCA
* * *
45558 ACAAAAGACCTTCGAGTTTGATTACAGTTAGCTCAAAGGCACATCCAATTTACAGCATAACTCAA
1 ACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACAT-C-ATTTACAGCATAACTCAA
45623 G
64 G
45624 TTAAAACGGT
Statistics
Matches: 1072, Mismatches: 150, Indels: 24
0.86 0.12 0.02
Matches are distributed among these distances:
82 1 0.00
83 503 0.47
84 547 0.51
85 5 0.00
86 16 0.01
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (84 bp):
ACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTCAAGG
CGAGAAGGGTTATCTGCCA
Found at i:44582 original size:167 final size:168
Alignment explanation
Indices: 44305--45623 Score: 1586
Period size: 167 Copynumber: 7.9 Consensus size: 168
44295 AGCACCTTTG
* * * *
44305 ACAAAAGACCTTCGAGTTCAATTACATTCAGCTCAAAGGCACATCATTTATAGCATAACTTAAGG
1 ACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTCAAGG
* * * * * * * *
44370 CAAGAAGGGTTATATGTCAAC-CAAGACCTTCAATTTTGATTACACTCAGTTCAAAGG-AGTATC
66 CAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCA-CATC
*
44433 ATTTACAGCATAGCTCAAGGCGAGAAGGGTTATCTGCCA
130 ATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGCCA
* *
44472 GCAAAAGACCTTCGAGTTTGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTCAAGG
1 ACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTCAAGG
* * *
44537 CAAGAAGGGTTATCTGTCAAC-CAAGACCTTCGAGTTCGATTACACTTAGCTCAAAGGCACATCA
66 CAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCA
* * * *
44601 TTTATAGCATAACTCAAGGCGATAAGGGTTATATGTCA
131 TTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGCCA
* * ** *
44639 AC-CAAGACCTTCGAGTTCGATTACACTTAGCTCAAAGGTGCATCATTTACAGCATAGCTCAAGG
1 ACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTCAAGG
* * * *
44703 CGAGAAAGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACGCAGCTTAAAGGCACATCA
66 CAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCA
* * *
44768 TTTACAACATAGCTCAAGGCGAGAAGGGATATCTGCCA
131 TTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGCCA
* * * *
44806 ACAAAAGACCTTCGAGTTTGATTACACTCAGCTCAAAGGCATATCATTTACATCATGACTCAAGG
1 ACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTCAAGG
* * * * * *
44871 CGAGAAGGGTTATCTGTCAAC-CAATACCTTCGAGTTTGATTACACTCAGCTCAAAGACACATCA
66 CAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCA
* **
44935 TTTACAACATAACTCAAGGCGAGAAGGGTTATCTTTCA
131 TTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGCCA
* * * * ** **
44973 AC-CAAGACCTTCGAGTTTGATTACACTCAACTCAAAAGTGCATCATTTGTAGCATAACTCAATG
1 ACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTCAA-G
* *
45037 TG-AA-AATGGTTATCTGCCAACAAAAGACCTTTGAGTTCGATTACACTCAGCTCAAAGGCACAT
65 -GCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACAT
* *
45100 CATTTGCAGAATAACTCAAGGCGAGAAGGGTTATCTGCCA
129 CATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGCCA
* * *
45140 ACAAAAGACCTAT-GAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGAATAGCTCAAG
1 ACAAAAGACCT-TCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTCAAG
* *
45204 GTGAA-AAGGGTTATCTGCCAACAACAA-CCCTTCGAGTTCGATTACACTCAGCTCAAAGGCACA
65 G-CAAGAAGGGTTATCTGCCAACAA-AAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACA
* * * * *
45267 TCATTTGCAGAATAGCTCAAGACGAGAAGGGTTATCTACCA
128 TCATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGCCA
* * * * * * * *
45308 TCAAAAGTCCTTCGAGTTCAATTACACTAAGCTGAAAGACACATCATTTGCAGCATAGCTCAAGG
1 ACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTCAAGG
* * *
45373 C--GATAGGGTTATCTGCTAATAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATT
66 CAAGA-AGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATC
* ** *
45436 ATTTACAACATAACTCAAGGCGAGAAAAGTTATCTGTCA
130 ATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGCCA
* * * ** *
45475 AC-CAAGACCTTCGAGTTCGATTACACTCATCTCAAAGGCGCATCATTTGTAGCATAGCTCAAGG
1 ACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTCAAGG
* * ** * * *
45539 CGAGAATGACTATCTGCCAACAAAAGACCTTCGAGTTTGATTACAGTTAGCTCAAAGGCACATCC
66 CAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACAT-C
45604 AATTTACAGCATAACTCAAG
130 -ATTTACAGCATAACTCAAG
45624 TTAAAACGGT
Statistics
Matches: 994, Mismatches: 139, Indels: 36
0.85 0.12 0.03
Matches are distributed among these distances:
166 197 0.20
167 503 0.51
168 273 0.27
169 21 0.02
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (168 bp):
ACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTCAAGG
CAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCA
TTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGCCA
Found at i:46172 original size:34 final size:34
Alignment explanation
Indices: 46046--46441 Score: 331
Period size: 36 Copynumber: 11.5 Consensus size: 34
46036 TTTTTCATAT
* *
46046 ATATATATTATATAGTTTGTAAATA-ATTTTTGAAATA
1 ATATATAATATATAGTTTTTAAA-ACA-TTTTG-AA-A
* *
46083 TATATATAATATATAGTTTTTGAAAGCATTTTAAAA
1 -ATATATAATATATAGTTTTT-AAAACATTTTGAAA
* * *
46119 ACACGTATATTATATAGTTTTTAAAACATTTTGGAA
1 ATA--TATAATATATAGTTTTTAAAACATTTTGAAA
46155 ATATATAATATATAGTTTTTTAAAACATTTTGAAA
1 ATATATAATATATAG-TTTTTAAAACATTTTGAAA
*
46190 ATTTTACATAATATATAGTTTTTAAAACATTTTGAAA
1 A---TATATAATATATAGTTTTTAAAACATTTTGAAA
*
46227 ACTTATATAATATATATTTTTTAAAACATTTTGAAAA
1 A--TATATAATATATAGTTTTTAAAACATTTTG-AAA
46264 TATATATAATATATAGTTTTT-AAA-A---T----
1 -ATATATAATATATAGTTTTTAAAACATTTTGAAA
*
46290 -TATATAATATAGA--TTTTAAAACTATTTTG-AA
1 ATATATAATATATAGTTTTTAAAAC-ATTTTGAAA
*
46321 A-ATATAATATAT-GGTTTTAAAACATTTTGAAA
1 ATATATAATATATAGTTTTTAAAACATTTTGAAA
*
46353 ACTATATAATATATGGTTTTTAAAACATTTTGAAA
1 A-TATATAATATATAGTTTTTAAAACATTTTGAAA
* * * *
46388 ACTATATAATAAATAG-TTTGAAAACTTTTTAAAAA
1 A-TATATAATATATAGTTTTTAAAACATTTT-GAAA
46423 TTATATATAATATATAGTT
1 --ATATATAATATATAGTT
46442 GTAAATTTCT
Statistics
Matches: 302, Mismatches: 26, Indels: 61
0.78 0.07 0.16
Matches are distributed among these distances:
22 4 0.01
23 3 0.01
24 12 0.04
25 1 0.00
28 1 0.00
31 17 0.06
32 12 0.04
34 35 0.12
35 60 0.20
36 74 0.25
37 43 0.14
38 36 0.12
39 4 0.01
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.45
Consensus pattern (34 bp):
ATATATAATATATAGTTTTTAAAACATTTTGAAA
Found at i:46306 original size:22 final size:25
Alignment explanation
Indices: 46254--46310 Score: 75
Period size: 22 Copynumber: 2.4 Consensus size: 25
46244 TTTTTAAAAC
46254 ATTTTGAAAATATATATAATATATAG
1 ATTTT-AAAATATATATAATATATAG
*
46280 TTTTTAAAAT-TATAT-A-ATATAG
1 ATTTTAAAATATATATAATATATAG
46302 ATTTTAAAA
1 ATTTTAAAA
46311 CTATTTTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 14 0.48
23 1 0.03
24 5 0.17
25 5 0.17
26 4 0.14
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (25 bp):
ATTTTAAAATATATATAATATATAG
Found at i:46381 original size:35 final size:34
Alignment explanation
Indices: 46280--46429 Score: 173
Period size: 34 Copynumber: 4.5 Consensus size: 34
46270 TAATATATAG
* * *
46280 TTTTTAAAATTATATAATATA-GATTTTAAAACTA
1 TTTTGAAAACTATATAATATATGGTTTTAAAAC-A
46314 TTTTG-AAA--ATATAATATATGGTTTTAAAACA
1 TTTTGAAAACTATATAATATATGGTTTTAAAACA
46345 TTTTGAAAACTATATAATATATGGTTTTTAAAACA
1 TTTTGAAAACTATATAATATATGG-TTTTAAAACA
* * * *
46380 TTTTGAAAACTATATAATAAATAGTTTGAAAACT
1 TTTTGAAAACTATATAATATATGGTTTTAAAACA
* *
46414 TTTTAAAAATTATATA
1 TTTTGAAAACTATATA
46430 TAATATATAG
Statistics
Matches: 103, Mismatches: 8, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
31 16 0.16
32 13 0.13
33 3 0.03
34 39 0.38
35 32 0.31
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.43
Consensus pattern (34 bp):
TTTTGAAAACTATATAATATATGGTTTTAAAACA
Found at i:46486 original size:14 final size:14
Alignment explanation
Indices: 46467--46494 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
46457 AAAAGATATA
46467 TATTATTATTATTT
1 TATTATTATTATTT
46481 TATTATTATTATTT
1 TATTATTATTATTT
46495 ATTTGTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (14 bp):
TATTATTATTATTT
Found at i:46998 original size:21 final size:21
Alignment explanation
Indices: 46974--47036 Score: 53
Period size: 21 Copynumber: 3.2 Consensus size: 21
46964 CATCGAAAAC
46974 CAAGCAAGCAAATATACAACA
1 CAAGCAAGCAAATATACAACA
* * **
46995 CAAGAAAACCCA-A-A-AAC-
1 CAAGCAAGCAAATATACAACA
*
47012 CAAGCAAGTAAATATACAACA
1 CAAGCAAGCAAATATACAACA
47033 CAAG
1 CAAG
47037 GGAACCAAGA
Statistics
Matches: 29, Mismatches: 9, Indels: 8
0.63 0.20 0.17
Matches are distributed among these distances:
17 7 0.24
18 4 0.14
19 2 0.07
20 4 0.14
21 12 0.41
ACGTcount: A:0.59, C:0.24, G:0.10, T:0.08
Consensus pattern (21 bp):
CAAGCAAGCAAATATACAACA
Found at i:48133 original size:31 final size:31
Alignment explanation
Indices: 48095--48371 Score: 472
Period size: 31 Copynumber: 9.0 Consensus size: 31
48085 CCCGAAGGAC
* *
48095 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TTCCGAAGAACATAGGTAAA
* *
48126 CAGTCCATATGTCCCGAAGGACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
48157 CAGTCCATA-GTTCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
48187 CAGTCC--ATGTTCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
48216 CAGTCCATATGTTCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
48247 CAGTCCATATGTTCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
48278 CAGTCCATATGTTCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
*
48309 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
48340 CAGTCCATATGTTCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
48371 C
1 C
48372 CCTCGACCCT
Statistics
Matches: 234, Mismatches: 8, Indels: 8
0.94 0.03 0.03
Matches are distributed among these distances:
28 1 0.00
29 27 0.12
30 25 0.11
31 180 0.77
32 1 0.00
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.21
Consensus pattern (31 bp):
CAGTCCATATGTTCCGAAGAACATAGGTAAA
Found at i:49171 original size:21 final size:21
Alignment explanation
Indices: 49141--49185 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
49131 ATTCTGTCGT
* *
49141 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
49162 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
49183 TTG
1 TTG
49186 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:50233 original size:8 final size:8
Alignment explanation
Indices: 50220--50250 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
50210 ATTTTCATGA
50220 TTTATTTT
1 TTTATTTT
50228 TTTATTTT
1 TTTATTTT
50236 TTTA-TTT
1 TTTATTTT
50243 TTTATTTT
1 TTTATTTT
50251 GTATGTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 7 0.32
8 15 0.68
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (8 bp):
TTTATTTT
Found at i:50243 original size:15 final size:16
Alignment explanation
Indices: 50220--50250 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
50210 ATTTTCATGA
50220 TTTATTTTTTTATTTT
1 TTTATTTTTTTATTTT
50236 TTTA-TTTTTTATTTT
1 TTTATTTTTTTATTTT
50251 GTATGTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (16 bp):
TTTATTTTTTTATTTT
Found at i:50281 original size:3 final size:3
Alignment explanation
Indices: 50275--50331 Score: 87
Period size: 3 Copynumber: 18.3 Consensus size: 3
50265 TTTTTTTACA
*
50275 TAT TAT TAT TAT TAT TAT TAA TATT TACT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TA-T TA-T TAT TAT TAT TAT TAT TAT
50322 TAT TAT TAT T
1 TAT TAT TAT T
50332 TCCTTTCCTT
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
3 45 0.90
4 5 0.10
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:50311 original size:29 final size:29
Alignment explanation
Indices: 50269--50328 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
50259 TTAACATTTT
50269 TTTACATATTATTATTATTATTATTAATA
1 TTTACATATTATTATTATTATTATTAATA
* *
50298 TTTACTTATTATTATTATTATTATTATTA
1 TTTACATATTATTATTATTATTATTAATA
50327 TT
1 TT
50329 ATTTCCTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (29 bp):
TTTACATATTATTATTATTATTATTAATA
Found at i:50396 original size:7 final size:7
Alignment explanation
Indices: 50386--50428 Score: 52
Period size: 7 Copynumber: 5.9 Consensus size: 7
50376 AATTTATTAT
50386 TTTTTTA
1 TTTTTTA
50393 TTTTTTA
1 TTTTTTA
50400 TTTTTTA
1 TTTTTTA
50407 TTTGTGTT-
1 TTT-T-TTA
50415 TTATTTTA
1 TT-TTTTA
50423 TTTTTT
1 TTTTTT
50429 TCTTTGATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
7 23 0.72
8 6 0.19
9 3 0.09
ACGTcount: A:0.12, C:0.00, G:0.05, T:0.84
Consensus pattern (7 bp):
TTTTTTA
Found at i:50454 original size:4 final size:4
Alignment explanation
Indices: 50377--50509 Score: 69
Period size: 4 Copynumber: 33.0 Consensus size: 4
50367 TAATTTAATA
* * *
50377 ATTT A-TT ATTT TTTT ATTT -TTT ATTT -TTT ATTT GTGT -TTT ATTTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT A-TTT
* * * * * * *
50422 ATTT TTTT CTTT GATTT AACTTA ATTT ATTT ATTT GTTA ATTT TTTT CTTT
1 ATTT ATTT ATTT -ATTT -A-TTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
* *
50473 CTTTT GATTT ATTT A-GT ATTT ATTT ATTT ATTT ATTT
1 -ATTT -ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
50510 TCTCTAACAT
Statistics
Matches: 98, Mismatches: 22, Indels: 18
0.71 0.16 0.13
Matches are distributed among these distances:
3 13 0.13
4 68 0.69
5 15 0.15
6 2 0.02
ACGTcount: A:0.19, C:0.03, G:0.05, T:0.74
Consensus pattern (4 bp):
ATTT
Found at i:55616 original size:23 final size:23
Alignment explanation
Indices: 55568--55617 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
55558 ATCATAACTA
*
55568 TTCATGAAAAATAATTAAGTCTT
1 TTCATGAAAAATAATTAAGTCAT
* **
55591 TTCATGAAAAATAGTTATTTCAT
1 TTCATGAAAAATAATTAAGTCAT
55614 TTCA
1 TTCA
55618 CCCCAAAAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.40, C:0.10, G:0.08, T:0.42
Consensus pattern (23 bp):
TTCATGAAAAATAATTAAGTCAT
Found at i:62988 original size:6 final size:6
Alignment explanation
Indices: 62977--63009 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
62967 TGACCACACT
62977 TGAGTG TGAGTG TGAGTG TGAGTG TGAGTG TGA
1 TGAGTG TGAGTG TGAGTG TGAGTG TGAGTG TGA
63010 TGATGCAGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.18, C:0.00, G:0.48, T:0.33
Consensus pattern (6 bp):
TGAGTG
Found at i:67971 original size:16 final size:16
Alignment explanation
Indices: 67950--67981 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
67940 AATTTTCCTT
67950 TGTTTGGCATGGAAGA
1 TGTTTGGCATGGAAGA
67966 TGTTTGGCATGGAAGA
1 TGTTTGGCATGGAAGA
67982 AAATATGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.06, G:0.38, T:0.31
Consensus pattern (16 bp):
TGTTTGGCATGGAAGA
Found at i:70003 original size:21 final size:17
Alignment explanation
Indices: 69959--69992 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
69949 AATATGTGAT
69959 TAAATTTATCTTCTAAA
1 TAAATTTATCTTCTAAA
69976 TAAATTTATCTTCTAAA
1 TAAATTTATCTTCTAAA
69993 ACAATAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.12, G:0.00, T:0.47
Consensus pattern (17 bp):
TAAATTTATCTTCTAAA
Found at i:72577 original size:22 final size:22
Alignment explanation
Indices: 72552--72602 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
72542 ACGTGAGAAT
*
72552 CACGGGTTCTGCAAGGAGAGAG
1 CACGGGTTCTGCAAGGAGAAAG
*
72574 CACGGGTTCTGCAAGGAGAAAT
1 CACGGGTTCTGCAAGGAGAAAG
72596 CACGGGT
1 CACGGGT
72603 CCTGGGTCCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.27, C:0.20, G:0.37, T:0.16
Consensus pattern (22 bp):
CACGGGTTCTGCAAGGAGAAAG
Found at i:72646 original size:24 final size:24
Alignment explanation
Indices: 72619--72664 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
72609 TCCTGCAAGG
72619 CTGCACGTCTGCATGTGGGGGGTC
1 CTGCACGTCTGCATGTGGGGGGTC
72643 CTGCACGTCTGCATGTGGGGGG
1 CTGCACGTCTGCATGTGGGGGG
72665 CATGCAACTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.09, C:0.24, G:0.43, T:0.24
Consensus pattern (24 bp):
CTGCACGTCTGCATGTGGGGGGTC
Found at i:72670 original size:23 final size:24
Alignment explanation
Indices: 72620--72670 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
72610 CCTGCAAGGC
*
72620 TGCACGTCTGCATGTGGGGGGTCC
1 TGCACGTCTGCATGTGGGGGGTCA
72644 TGCACGTCTGCATGTGGGGGG-CA
1 TGCACGTCTGCATGTGGGGGGTCA
72667 TGCA
1 TGCA
72671 ACTGATGGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
23 5 0.19
24 21 0.81
ACGTcount: A:0.12, C:0.24, G:0.41, T:0.24
Consensus pattern (24 bp):
TGCACGTCTGCATGTGGGGGGTCA
Found at i:72873 original size:30 final size:30
Alignment explanation
Indices: 72839--72899 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
72829 CAATTACAGA
72839 AGCAGTGAGAGCTTGAGAGGGAGATTGATC
1 AGCAGTGAGAGCTTGAGAGGGAGATTGATC
72869 AGCAGTGAGAGCTTGAGAGGGAGATTGATC
1 AGCAGTGAGAGCTTGAGAGGGAGATTGATC
72899 A
1 A
72900 CAAAGCATAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.31, C:0.10, G:0.39, T:0.20
Consensus pattern (30 bp):
AGCAGTGAGAGCTTGAGAGGGAGATTGATC
Found at i:73396 original size:172 final size:173
Alignment explanation
Indices: 73109--73467 Score: 569
Period size: 172 Copynumber: 2.1 Consensus size: 173
73099 ATTGTAAGTT
* * * *
73109 TTAGGGACCATTTTGTAAAATTTAAGGAATTTAAGGAATAAGAGTAAATTATTAAAAGTTGCTAT
1 TTAGGGATCATTTTGCAAAATTTAAGGAATTTAAGAAATAAGAGTAAATTATAAAAAGTTGCTAT
*
73174 ACTATGCTGGAATTTAGTATTAGTATGCTTAATTGGTTAAATTAGAAAGAATTTA-AAATTTA-T
66 ACTATGCTGGAATTTAGTATTAATATGCTTAATTGGTTAAATTAGAAAGAATTTATAAATTTAGT
*
73237 GGATTAAATTGCTAACTTTGAAAATGTTGAGAACCAAATAGTAA
131 -GATTAAATTGCAAACTTTGAAAATGTTGAGAACCAAATAGTAA
* * * *
73281 TTAGGGATCGTTTTGCAAAATTTGAGGAATTTAAGAAATTAGAGTAAATTATAAAAAGTTGGTAT
1 TTAGGGATCATTTTGCAAAATTTAAGGAATTTAAGAAATAAGAGTAAATTATAAAAAGTTGCTAT
* *
73346 ACTATGCTTGAATTTAGTATTAATATGCTTAATTGGTTAAATTTGAAAGAATTTATAAATTTAGT
66 ACTATGCTGGAATTTAGTATTAATATGCTTAATTGGTTAAATTAGAAAGAATTTATAAATTTAGT
* *
73411 GATTAAATTGCAAAGTTTGAAAATGTTGAGAAGCAAATAGTAA
131 GATTAAATTGCAAACTTTGAAAATGTTGAGAACCAAATAGTAA
73454 TTAGGGATCATTTT
1 TTAGGGATCATTTT
73468 ATATTTGATG
Statistics
Matches: 170, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
172 109 0.64
173 60 0.35
174 1 0.01
ACGTcount: A:0.40, C:0.05, G:0.18, T:0.37
Consensus pattern (173 bp):
TTAGGGATCATTTTGCAAAATTTAAGGAATTTAAGAAATAAGAGTAAATTATAAAAAGTTGCTAT
ACTATGCTGGAATTTAGTATTAATATGCTTAATTGGTTAAATTAGAAAGAATTTATAAATTTAGT
GATTAAATTGCAAACTTTGAAAATGTTGAGAACCAAATAGTAA
Found at i:73945 original size:18 final size:18
Alignment explanation
Indices: 73922--73956 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
73912 ACCAACTTGC
73922 TTCAGACGAATCTCACGT
1 TTCAGACGAATCTCACGT
73940 TTCAGACGAATCTCACG
1 TTCAGACGAATCTCACG
73957 CTTCGGACAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.26
Consensus pattern (18 bp):
TTCAGACGAATCTCACGT
Found at i:74741 original size:19 final size:20
Alignment explanation
Indices: 74717--74767 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
74707 AATGACCAAT
74717 AAAATCGCAACGCGATAT-C
1 AAAATCGCAACGCGATATAC
* *
74736 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATATAC
74756 AAAATCGCAACG
1 AAAATCGCAACG
74768 TTAAAAAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.43, C:0.24, G:0.18, T:0.16
Consensus pattern (20 bp):
AAAATCGCAACGCGATATAC
Found at i:74761 original size:20 final size:20
Alignment explanation
Indices: 74717--74994 Score: 152
Period size: 20 Copynumber: 13.6 Consensus size: 20
74707 AATGACCAAT
*
74717 AAAATCGCAACGCGA-T-ATC
1 AAAATCGCAACGCGATTGA-G
*
74736 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTGAG
** ***
74756 AAAATCGCAACGTTAAAAAG
1 AAAATCGCAACGCGATTGAG
**
74776 AAAATCGCAACG-G-TCAAAAG
1 AAAATCGCAACGCGAT--TGAG
**
74796 AAAATCGCAACGCGAGCTT-CC
1 AAAATCGCAACGCGA--TTGAG
**
74817 AAGTTCGCAACGCGATTTAGAAG
1 AAAATCGCAACGCGA-TT-G-AG
* *
74840 AAAATCGCAATGCGATTGAT
1 AAAATCGCAACGCGATTGAG
* *
74860 AGAATCGCAATGCGATTGAG
1 AAAATCGCAACGCGATTGAG
* *
74880 AGAGTCGCAACGCGATCTAGAAG
1 AAAATCGCAACGCGAT-T-G-AG
* *
74903 AAAATCGCAATGCGACTGAG
1 AAAATCGCAACGCGATTGAG
* * *
74923 AGAATCGCAATGCGACTGAG
1 AAAATCGCAACGCGATTGAG
* * *
74943 AGAATCGCAATGCGACTGAG
1 AAAATCGCAACGCGATTGAG
* *
74963 AGAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTGAG
*
74983 AGAATCGCAACG
1 AAAATCGCAACG
74995 GTCAAAATAA
Statistics
Matches: 213, Mismatches: 32, Indels: 27
0.78 0.12 0.10
Matches are distributed among these distances:
19 15 0.07
20 149 0.70
21 18 0.08
22 4 0.02
23 26 0.12
24 1 0.00
ACGTcount: A:0.39, C:0.21, G:0.24, T:0.17
Consensus pattern (20 bp):
AAAATCGCAACGCGATTGAG
Found at i:74905 original size:63 final size:63
Alignment explanation
Indices: 74821--74992 Score: 242
Period size: 63 Copynumber: 2.8 Consensus size: 63
74811 GCTTCCAAGT
* * * *
74821 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGATTGATAGAATCGCAATGCGATTGAGAGAG
1 TCGCAACGCGATCTAGAAGAAAATCGCAATGCGATTGAGAGAATCGCAATGCGACTGAGAGAA
*
74884 TCGCAACGCGATCTAGAAGAAAATCGCAATGCGACTGAGAGAATCGCAATGCGACTGAGAGAA
1 TCGCAACGCGATCTAGAAGAAAATCGCAATGCGATTGAGAGAATCGCAATGCGACTGAGAGAA
* * * *
74947 TCGCAATGCGA-CT-G-AGAGAATCGCAACGCGATTTAGAGAATCGCAA
1 TCGCAACGCGATCTAGAAGAAAATCGCAATGCGATTGAGAGAATCGCAA
74993 CGGTCAAAAT
Statistics
Matches: 99, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
60 28 0.28
61 1 0.01
62 2 0.02
63 68 0.69
ACGTcount: A:0.37, C:0.19, G:0.27, T:0.17
Consensus pattern (63 bp):
TCGCAACGCGATCTAGAAGAAAATCGCAATGCGATTGAGAGAATCGCAATGCGACTGAGAGAA
Found at i:74960 original size:40 final size:40
Alignment explanation
Indices: 74842--74992 Score: 194
Period size: 40 Copynumber: 3.7 Consensus size: 40
74832 TTTAGAAGAA
* * * *
74842 AATCGCAATGCGATTGATAGAATCGCAATGCGATTGAGAG
1 AATCGCAACGCGACTGAGAGAATCGCAATGCGACTGAGAG
* *
74882 AGTCGCAACGCGATCTAGAAGAAAATCGCAATGCGACTGAGAG
1 AATCGCAACGCGA-CT-G-AGAGAATCGCAATGCGACTGAGAG
*
74925 AATCGCAATGCGACTGAGAGAATCGCAATGCGACTGAGAG
1 AATCGCAACGCGACTGAGAGAATCGCAATGCGACTGAGAG
* *
74965 AATCGCAACGCGATTTAGAGAATCGCAA
1 AATCGCAACGCGACTGAGAGAATCGCAA
74993 CGGTCAAAAT
Statistics
Matches: 96, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
40 59 0.61
41 2 0.02
42 3 0.03
43 32 0.33
ACGTcount: A:0.36, C:0.19, G:0.27, T:0.17
Consensus pattern (40 bp):
AATCGCAACGCGACTGAGAGAATCGCAATGCGACTGAGAG
Found at i:75093 original size:6 final size:6
Alignment explanation
Indices: 75082--75158 Score: 126
Period size: 6 Copynumber: 13.5 Consensus size: 6
75072 GACACGTATT
75082 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
75130 ACCACG ACC-CG ACC-CG ACC-CG ACC-CG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACC
75159 CGAGACGAGA
Statistics
Matches: 71, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
5 20 0.28
6 51 0.72
ACGTcount: A:0.30, C:0.53, G:0.17, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:75864 original size:6 final size:6
Alignment explanation
Indices: 75848--75891 Score: 81
Period size: 6 Copynumber: 7.5 Consensus size: 6
75838 TCTCGTCTCG
75848 GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
75892 AATACGTGTC
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 5 0.13
6 33 0.87
ACGTcount: A:0.00, C:0.16, G:0.52, T:0.32
Consensus pattern (6 bp):
GGTCGT
Found at i:75994 original size:20 final size:20
Alignment explanation
Indices: 75969--76012 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
75959 TTTTTAACTA
*
75969 TTCTTTTGACCGTTGCGATT
1 TTCTTTTGAACGTTGCGATT
*
75989 TTCTTTTTAACGTTGCGATT
1 TTCTTTTGAACGTTGCGATT
76009 TTCT
1 TTCT
76013 AAATCGCGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.11, C:0.18, G:0.16, T:0.55
Consensus pattern (20 bp):
TTCTTTTGAACGTTGCGATT
Found at i:76022 original size:20 final size:20
Alignment explanation
Indices: 76001--76078 Score: 93
Period size: 20 Copynumber: 3.9 Consensus size: 20
75991 CTTTTTAACG
* *
76001 TTGCGATTTTCTAAATCGCG
1 TTGCGATTCTCTAAATCGCA
* *
76021 TTGCGATTCTCTCAGTCGCA
1 TTGCGATTCTCTAAATCGCA
* *
76041 TTGCGATTCTCTCAGTCGCA
1 TTGCGATTCTCTAAATCGCA
*
76061 TTGCGATTTTCTAAATCG
1 TTGCGATTCTCTAAATCG
76079 TATATTATAA
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 51 1.00
ACGTcount: A:0.18, C:0.24, G:0.19, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTCTAAATCGCA
Found at i:76072 original size:22 final size:20
Alignment explanation
Indices: 76001--76068 Score: 100
Period size: 20 Copynumber: 3.4 Consensus size: 20
75991 CTTTTTAACG
* * * *
76001 TTGCGATTTTCTAAATCGCG
1 TTGCGATTCTCTCAGTCGCA
76021 TTGCGATTCTCTCAGTCGCA
1 TTGCGATTCTCTCAGTCGCA
76041 TTGCGATTCTCTCAGTCGCA
1 TTGCGATTCTCTCAGTCGCA
76061 TTGCGATT
1 TTGCGATT
76069 TTCTAAATCG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.16, C:0.25, G:0.21, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTCTCAGTCGCA
Found at i:77830 original size:33 final size:32
Alignment explanation
Indices: 77788--77890 Score: 100
Period size: 33 Copynumber: 3.1 Consensus size: 32
77778 GTGGTAAGAA
* * *
77788 ATTTATTTTTATGTTAGTATTT-TTTAAATAGTT
1 ATTT-TTTTTATATTAATATTTATGTAAATA-TT
77821 ATTATTTTTTATATTAATATTTATGTAAATATT
1 ATT-TTTTTTATATTAATATTTATGTAAATATT
* * * *
77854 ATTTTTTATTAAAATAATATTTATATAATTATT
1 ATTTTTT-TTATATTAATATTTATGTAAATATT
77887 ATTT
1 ATTT
77891 ATTTAGAATT
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
32 4 0.07
33 48 0.80
34 8 0.13
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (32 bp):
ATTTTTTTTATATTAATATTTATGTAAATATT
Found at i:77852 original size:18 final size:17
Alignment explanation
Indices: 77805--77887 Score: 57
Period size: 18 Copynumber: 4.9 Consensus size: 17
77795 TTTATGTTAG
* *
77805 TATTTTTTAAATAGTTAT
1 TATTTATTAAATA-TTAA
*
77823 TATTT-TT-TATATTAA
1 TATTTATTAAATATTAA
*
77838 TATTTATGTAAATATTAT
1 TATTTAT-TAAATATTAA
*
77856 TTTTTATTAAA-A-TAA
1 TATTTATTAAATATTAA
*
77871 TATTTATATAATTATTA
1 TATTTAT-TAAATATTA
77888 TTTATTTAGA
Statistics
Matches: 51, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.31
16 8 0.16
17 8 0.16
18 19 0.37
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (17 bp):
TATTTATTAAATATTAA
Found at i:79646 original size:21 final size:21
Alignment explanation
Indices: 79616--79663 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
79606 GCAGGGGTAC
* *
79616 ATGCCCAGCCCTCCACTTCAT
1 ATGCCAAGCCCACCACTTCAT
* *
79637 ATGCCAAGCCCACCAGTTTAT
1 ATGCCAAGCCCACCACTTCAT
79658 ATGCCA
1 ATGCCA
79664 TCTCCGTAGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.25, C:0.40, G:0.12, T:0.23
Consensus pattern (21 bp):
ATGCCAAGCCCACCACTTCAT
Found at i:79697 original size:21 final size:22
Alignment explanation
Indices: 79671--79760 Score: 116
Period size: 21 Copynumber: 4.3 Consensus size: 22
79661 CCATCTCCGT
* *
79671 AGGGTTACATTCCGAGCCCG-C
1 AGGGTTACATGCCTAGCCCGCC
* *
79692 AGGGTTAAATTCCTAGCCCGCC
1 AGGGTTACATGCCTAGCCCGCC
79714 A-GGTTACATGCCTAGCCCGCC
1 AGGGTTACATGCCTAGCCCGCC
79735 A-GGTTACATGCCTAGCCCG-C
1 AGGGTTACATGCCTAGCCCGCC
79755 AGGGTT
1 AGGGTT
79761 TTATACCATA
Statistics
Matches: 63, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
20 2 0.03
21 59 0.94
22 2 0.03
ACGTcount: A:0.20, C:0.32, G:0.27, T:0.21
Consensus pattern (22 bp):
AGGGTTACATGCCTAGCCCGCC
Found at i:80342 original size:33 final size:34
Alignment explanation
Indices: 80283--80372 Score: 119
Period size: 33 Copynumber: 2.7 Consensus size: 34
80273 AAATGTTTTT
*
80283 AAAATACAAATTATATTATTCGAAATTTAAAATA
1 AAAATAAAAATTATATTATTCGAAATTTAAAATA
* * *
80317 AAAATAAAAATAATATTATTC-AAATTTAAATTT
1 AAAATAAAAATTATATTATTCGAAATTTAAAATA
* *
80350 AAAATATAAATTATAGTATTCGA
1 AAAATAAAAATTATATTATTCGA
80373 TACAGATTTC
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
33 28 0.58
34 20 0.42
ACGTcount: A:0.56, C:0.04, G:0.03, T:0.37
Consensus pattern (34 bp):
AAAATAAAAATTATATTATTCGAAATTTAAAATA
Found at i:83204 original size:12 final size:13
Alignment explanation
Indices: 83171--83208 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
83161 AAATACATAA
83171 ATATATTTAATAT
1 ATATATTTAATAT
*
83184 ATTTATTTAATAT
1 ATATATTTAATAT
83197 A-ATATTTAATAT
1 ATATATTTAATAT
83209 TATTAGTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 10 0.43
13 13 0.57
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
ATATATTTAATAT
Found at i:84949 original size:182 final size:182
Alignment explanation
Indices: 84626--85440 Score: 1105
Period size: 182 Copynumber: 4.5 Consensus size: 182
84616 ACTTTTTTAC
* * *
84626 TACCGGTTTTGTCATTTCGAGACCGATTTTATCATATTTTTACCTGTTATATTGTTATGGATCGA
1 TACCAGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGA
** * * * * **
84691 TACATTTTTATAAAGTATTTATACTTTATTGGCGCTATAACTTTTTTTCTTTTAAATTTTAAAAG
66 TACATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTATTCTCTTTTAAATTCCAAAAG
* * * *
84756 TGTCGATACTTATAATAAAATATCGACACTTTCAACATATCCGGTAGCTCTT
131 TGCCAATACTTATAATAAAATATCGACACTATCAACATATCCGGTAGCGCTT
* * *
84808 TACCAGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATAGATTGA
1 TACCAGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGA
* ** *
84873 TACATTTTTATAAAGTATCGACACTTTATTAGAGCTATAGTTTATTCTCTTTTAAATTCCAAAAA
66 TACATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTATTCTCTTTTAAATTCCAAAAG
* *
84938 TGCCAATACTTATAATAAAGTATCGACACTATCAACATATCTGGTAGCGCTT
131 TGCCAATACTTATAATAAAATATCGACACTATCAACATATCCGGTAGCGCTT
* ** * * *
84990 TGCCAGTTTTGTCATTTATAGACCGATTTTGTCATTTTTTTACCTGTTATATTGTTATGGATCAA
1 TACCAGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGA
* * * *
85055 TACGTTTTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTTTCTTTTAAATTCCAAAAG
66 TACATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTATTCTCTTTTAAATTCCAAAAG
* * * * * *
85120 TGTCGAA-ACTTATAATAAAATATCGATAATTTCAATATATCCGGTAGCTCTT
131 TG-CCAATACTTATAATAAAATATCGACACTATCAACATATCCGGTAGCGCTT
* * *
85172 TACCGGTTTTGTTATTTCGAGACCGGTTTTGTCATATTTTTACTTGTTATATTGTTATGGATCGA
1 TACCAGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGA
85237 TACATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTATTCTCTTTTAAATTCCAAAAG
66 TACATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTATTCTCTTTTAAATTCCAAAAG
* * * ** *
85302 TGTCGATAC-T-TAATAAAGTATTAACACTATCAACATATCCGATAGCGCTT
131 TGCCAATACTTATAATAAAATATCGACACTATCAACATATCCGGTAGCGCTT
* ** * *
85352 TACCTGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTTACCTGTTATATTGTTATGGATCAA
1 TACCAGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGA
*
85417 TATATTTTTATAAAGTATCGACAC
66 TACATTTTTATAAAGTATCGACAC
85441 AAACCGACAA
Statistics
Matches: 549, Mismatches: 82, Indels: 6
0.86 0.13 0.01
Matches are distributed among these distances:
180 112 0.20
181 2 0.00
182 432 0.79
183 3 0.01
ACGTcount: A:0.29, C:0.15, G:0.13, T:0.43
Consensus pattern (182 bp):
TACCAGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGA
TACATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTATTCTCTTTTAAATTCCAAAAG
TGCCAATACTTATAATAAAATATCGACACTATCAACATATCCGGTAGCGCTT
Found at i:85300 original size:364 final size:362
Alignment explanation
Indices: 84626--85440 Score: 1288
Period size: 364 Copynumber: 2.2 Consensus size: 362
84616 ACTTTTTTAC
* ** * * *
84626 TACCGGTTTTGTCATTTCGAGACCGATTTTATCATATTTTTACCTGTTATATTGTTATGGATCGA
1 TACCAGTTTTGTCATTTATAGACCGATTTTGTCATTTTTTTACCTGTTATATTGTTATGGATCAA
** * * **
84691 TACATTTTTATAAAGTATTTATACTTTATTGGCGCTATAACTTTTTTTCTTTTAAATTTTAAAAG
66 TACATTTTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTTTCTTTTAAATTCCAAAAG
* *
84756 TGTCGATACTTATAATAAAATATCGACACTTTCAACATATCCGGTAGCTCTTTACCAGTTTTGTC
131 TGTCGAAACTTATAATAAAATATCGACAATTTCAACATATCCGGTAGCTCTTTACCAGTTTTGTC
*
84821 ATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATAGATTGATACATTTTTATAA
196 ATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATAGATCGATACATTTTTATAA
**
84886 AGTATCGACACTTTATTAGAGCTATAGTTTATTCTCTTTTAAATTCCAAAAATGCCAATACTTAT
261 AGTATCGACACTTTATTAGAGCTATAACTTATTCTCTTTTAAATTCCAAAAATGCCAATAC-T-T
* * *
84951 AATAAAGTATCGACACTATCAACATATCTGGTAGCGCTT
324 AATAAAGTATCAACACTATCAACATATCCGATAGCGCTT
*
84990 TGCCAGTTTTGTCATTTATAGACCGATTTTGTCATTTTTTTACCTGTTATATTGTTATGGATCAA
1 TACCAGTTTTGTCATTTATAGACCGATTTTGTCATTTTTTTACCTGTTATATTGTTATGGATCAA
*
85055 TACGTTTTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTTTCTTTTAAATTCCAAAAG
66 TACATTTTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTTTCTTTTAAATTCCAAAAG
* * * *
85120 TGTCGAAACTTATAATAAAATATCGATAATTTCAATATATCCGGTAGCTCTTTACCGGTTTTGTT
131 TGTCGAAACTTATAATAAAATATCGACAATTTCAACATATCCGGTAGCTCTTTACCAGTTTTGTC
* *
85185 ATTTCGAGACCGGTTTTGTCATATTTTTACTTGTTATATTGTTATGGATCGATACATTTTTATAA
196 ATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATAGATCGATACATTTTTATAA
* * * *
85250 AGTATCGACACTTTATTAGCGCTATAACTTATTCTCTTTTAAATTCCAAAAGTGTCGATACTTAA
261 AGTATCGACACTTTATTAGAGCTATAACTTATTCTCTTTTAAATTCCAAAAATGCCAATACTTAA
*
85315 TAAAGTATTAACACTATCAACATATCCGATAGCGCTT
326 TAAAGTATCAACACTATCAACATATCCGATAGCGCTT
* *
85352 TACCTGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTTACCTGTTATATTGTTATGGATCAA
1 TACCAGTTTTGTCATTTATAGACCGATTTTGTCATTTTTTTACCTGTTATATTGTTATGGATCAA
*
85417 TATATTTTTATAAAGTATCGACAC
66 TACATTTTTATAAAGTATCGACAC
85441 AAACCGACAA
Statistics
Matches: 413, Mismatches: 38, Indels: 2
0.91 0.08 0.00
Matches are distributed among these distances:
362 120 0.29
363 1 0.00
364 292 0.71
ACGTcount: A:0.29, C:0.15, G:0.13, T:0.43
Consensus pattern (362 bp):
TACCAGTTTTGTCATTTATAGACCGATTTTGTCATTTTTTTACCTGTTATATTGTTATGGATCAA
TACATTTTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTTTCTTTTAAATTCCAAAAG
TGTCGAAACTTATAATAAAATATCGACAATTTCAACATATCCGGTAGCTCTTTACCAGTTTTGTC
ATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATAGATCGATACATTTTTATAA
AGTATCGACACTTTATTAGAGCTATAACTTATTCTCTTTTAAATTCCAAAAATGCCAATACTTAA
TAAAGTATCAACACTATCAACATATCCGATAGCGCTT
Found at i:85917 original size:2 final size:2
Alignment explanation
Indices: 85912--85950 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
85902 TATTTTTTCA
85912 AT AT 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 AT AT A
85951 GTTTATTTTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:86485 original size:52 final size:52
Alignment explanation
Indices: 86423--86525 Score: 197
Period size: 52 Copynumber: 2.0 Consensus size: 52
86413 AAATTGGACA
86423 CATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAGG
1 CATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAGG
*
86475 CATAGAAATAGGAGACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAG
1 CATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAG
86526 AATATTATAA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.21
Consensus pattern (52 bp):
CATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAGG
Found at i:91075 original size:52 final size:52
Alignment explanation
Indices: 91013--91115 Score: 197
Period size: 52 Copynumber: 2.0 Consensus size: 52
91003 AAATTGGACA
91013 CATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAGG
1 CATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAGG
*
91065 CATAGAAATAGGAGACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAG
1 CATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAG
91116 AATATTATAA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.21
Consensus pattern (52 bp):
CATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAGG
Found at i:111820 original size:20 final size:22
Alignment explanation
Indices: 111795--111834 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
111785 TGTTGTTTAT
111795 AGCCG-TTGGGGATG-TTTTGG
1 AGCCGTTTGGGGATGATTTTGG
111815 AGCCGTTTGGGGATGATTTT
1 AGCCGTTTGGGGATGATTTT
111835 TATACTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 9 0.50
22 4 0.22
ACGTcount: A:0.12, C:0.10, G:0.40, T:0.38
Consensus pattern (22 bp):
AGCCGTTTGGGGATGATTTTGG
Found at i:111884 original size:21 final size:21
Alignment explanation
Indices: 111860--111904 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
111850 TGCCCAAAAT
*
111860 ATAGGGAATCGGTACCCCTTC
1 ATAGGGAATCGATACCCCTTC
111881 ATAGGGAATCGATACCCCTTC
1 ATAGGGAATCGATACCCCTTC
111902 ATA
1 ATA
111905 ATATTCAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (21 bp):
ATAGGGAATCGATACCCCTTC
Found at i:111966 original size:21 final size:21
Alignment explanation
Indices: 111940--111982 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
111930 CTGTTGAACA
111940 GGGGGGAATCGGTACCCCCTG
1 GGGGGGAATCGGTACCCCCTG
111961 GGGGGGAATCGGTACCCCCTG
1 GGGGGGAATCGGTACCCCCTG
111982 G
1 G
111983 ACATTCTATT
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:0.14, C:0.28, G:0.44, T:0.14
Consensus pattern (21 bp):
GGGGGGAATCGGTACCCCCTG
Found at i:112041 original size:22 final size:22
Alignment explanation
Indices: 112016--112080 Score: 96
Period size: 22 Copynumber: 3.0 Consensus size: 22
112006 AAAACCTGCA
112016 GGGGGTATCTGTACCCCCT-GG
1 GGGGGTATCTGTACCCCCTGGG
*
112037 GGGGGTATTTGTACCCCCTGGG
1 GGGGGTATCTGTACCCCCTGGG
* *
112059 GGGGGAATCTATACCCCCTGGG
1 GGGGGTATCTGTACCCCCTGGG
112081 CAATCTTGAA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
21 18 0.46
22 21 0.54
ACGTcount: A:0.12, C:0.26, G:0.38, T:0.23
Consensus pattern (22 bp):
GGGGGTATCTGTACCCCCTGGG
Found at i:112053 original size:20 final size:21
Alignment explanation
Indices: 112016--112080 Score: 94
Period size: 21 Copynumber: 3.0 Consensus size: 21
112006 AAAACCTGCA
112016 GGGGGTATCTGTACCCCCTGG
1 GGGGGTATCTGTACCCCCTGG
*
112037 GGGGGTATTTGTACCCCCTGGG
1 GGGGGTATCTGTACCCCCT-GG
* *
112059 GGGGGAATCTATACCCCCTGG
1 GGGGGTATCTGTACCCCCTGG
112080 G
1 G
112081 CAATCTTGAA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
21 21 0.54
22 18 0.46
ACGTcount: A:0.12, C:0.26, G:0.38, T:0.23
Consensus pattern (21 bp):
GGGGGTATCTGTACCCCCTGG
Found at i:112202 original size:29 final size:31
Alignment explanation
Indices: 112170--112229 Score: 97
Period size: 29 Copynumber: 2.0 Consensus size: 31
112160 AAACTTTGAA
112170 TAAATTCAATT-AAGACCAAAAA-CATTTTG
1 TAAATTCAATTCAAGACCAAAAACCATTTTG
*
112199 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGACCAAAAACCATTTTG
112230 CCTTAAATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 10 0.36
31 7 0.25
ACGTcount: A:0.45, C:0.17, G:0.07, T:0.32
Consensus pattern (31 bp):
TAAATTCAATTCAAGACCAAAAACCATTTTG
Found at i:121852 original size:16 final size:16
Alignment explanation
Indices: 121821--121854 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
121811 TGAGTTTCCC
**
121821 TTTATTTATTTTTATT
1 TTTATTTATTACTATT
121837 TTTATTTATTACTATT
1 TTTATTTATTACTATT
121853 TT
1 TT
121855 ATGTATTTCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTATTTATTACTATT
Found at i:129580 original size:29 final size:30
Alignment explanation
Indices: 129537--129593 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
129527 TTTTGACCAG
*
129537 TGACTAAAATATAAACTTT-GAAAGTTTTA
1 TGACTAAAATATAAACTTTAAAAAGTTTTA
* *
129566 TGACTAAATTGTAAACTTTAAAAAGTTT
1 TGACTAAAATATAAACTTTAAAAAGTTT
129594 AGGGACCAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 17 0.71
30 7 0.29
ACGTcount: A:0.44, C:0.07, G:0.11, T:0.39
Consensus pattern (30 bp):
TGACTAAAATATAAACTTTAAAAAGTTTTA
Found at i:131534 original size:178 final size:178
Alignment explanation
Indices: 131235--131585 Score: 666
Period size: 178 Copynumber: 2.0 Consensus size: 178
131225 AGTACATGAG
*
131235 GTGGAGTGATTCTAATATATTGGGATGTTACCTGAAGGTGCACTAGTATATATTTTGATGTGATT
1 GTGGAGTGATTCTAATATATTGGGATGTTACCTGAAGGTGCACTAGTATATATTCTGATGTGATT
*
131300 GCACTTTGTGTGAACATTACGATTCTAATATGATATCACTATGTGTGCTTATATGTTCCAATTTT
66 GCACTTTGTGTGAACATTACGATTCTAATATGATAACACTATGTGTGCTTATATGTTCCAATTTT
*
131365 GATATATTGTGGTGTACCGGTGGGTGCACTAGTATATATATATTCTGA
131 GATATATTGTGGTGTACCAGTGGGTGCACTAGTATATATATATTCTGA
131413 GTGGAGTGATTCTAATATATTGGGATGTTACCTGAAGGTGCACTAGTATATATTCTGATGTGATT
1 GTGGAGTGATTCTAATATATTGGGATGTTACCTGAAGGTGCACTAGTATATATTCTGATGTGATT
*
131478 GCACTTTGTGTGAACATTATGATTCTAATATGATAACACTATGTGTGCTTATATGTTCCAATTTT
66 GCACTTTGTGTGAACATTACGATTCTAATATGATAACACTATGTGTGCTTATATGTTCCAATTTT
131543 GATATATTGTGGTGTACCAGTGGGTGCACTAGTATATATATAT
131 GATATATTGTGGTGTACCAGTGGGTGCACTAGTATATATATAT
131586 ATTCTGATGT
Statistics
Matches: 169, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
178 169 1.00
ACGTcount: A:0.26, C:0.11, G:0.22, T:0.40
Consensus pattern (178 bp):
GTGGAGTGATTCTAATATATTGGGATGTTACCTGAAGGTGCACTAGTATATATTCTGATGTGATT
GCACTTTGTGTGAACATTACGATTCTAATATGATAACACTATGTGTGCTTATATGTTCCAATTTT
GATATATTGTGGTGTACCAGTGGGTGCACTAGTATATATATATTCTGA
Found at i:131597 original size:122 final size:116
Alignment explanation
Indices: 131459--131750 Score: 329
Period size: 122 Copynumber: 2.5 Consensus size: 116
131449 GGTGCACTAG
* * *
131459 TATATATTCTGATGTGATTGCACTTTGTGTGAACATTATGATTCTAATATGATAACACTATGTGT
1 TATATATTCTGATGTGATTGCACTTTGTGTGCATATTATGATTCTGATATGATAA-ACTATGTGT
* * * * *
131524 GCTTATATGTTCCAATTTTGATATATTGTGGTG-TACCAGTGGGTGCACTAGTATATA
65 G-TT-CAT-TTCCAA-TGTGATATACTGTAGTGTTACCAGTGGGTACACTAG--TATA
* * **
131581 TATATATTCTGATGTGATTGCAATTTGTGTGCATATTCTGATTCTGATGCGATAGAACTATGTGT
1 TATATATTCTGATGTGATTGCACTTTGTGTGCATATTATGATTCTGATATGATA-AACTATGTGT
** **
131646 GTTCATTTCTGATGTGATATACTGTAGTGTTACTGGTGGGTACACTAGTATA
65 GTTCATTTCCAATGTGATATACTGTAGTGTTACCAGTGGGTACACTAGTATA
* *
131698 TAT-T-TTCAGATGTGATTGCACTTTGTGTGCATATTATGATTCCGATATGATAA
1 TATATATTCTGATGTGATTGCACTTTGTGTGCATATTATGATTCTGATATGATAA
131751 TAATGTCTGA
Statistics
Matches: 146, Mismatches: 22, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
114 1 0.01
115 42 0.29
116 1 0.01
117 7 0.05
118 14 0.10
119 19 0.13
120 2 0.01
121 2 0.01
122 57 0.39
123 1 0.01
ACGTcount: A:0.26, C:0.11, G:0.21, T:0.42
Consensus pattern (116 bp):
TATATATTCTGATGTGATTGCACTTTGTGTGCATATTATGATTCTGATATGATAAACTATGTGTG
TTCATTTCCAATGTGATATACTGTAGTGTTACCAGTGGGTACACTAGTATA
Found at i:131890 original size:17 final size:17
Alignment explanation
Indices: 131868--131902 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
131858 GAAAGTTCTG
*
131868 AAATATATTCGAATGAA
1 AAATATATCCGAATGAA
*
131885 AAATATGTCCGAATGAA
1 AAATATATCCGAATGAA
131902 A
1 A
131903 GGAATATGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.51, C:0.09, G:0.14, T:0.26
Consensus pattern (17 bp):
AAATATATCCGAATGAA
Found at i:133214 original size:19 final size:20
Alignment explanation
Indices: 133190--133235 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
133180 GATTTTCAGT
133190 CGGTTCACA-CCGGTTTTAC
1 CGGTTCACAGCCGGTTTTAC
*
133209 CGGTTCTCAGCCGGTTTTAC
1 CGGTTCACAGCCGGTTTTAC
*
133229 CGATTCA
1 CGGTTCA
133236 TTGTAAAACT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.15, C:0.30, G:0.22, T:0.33
Consensus pattern (20 bp):
CGGTTCACAGCCGGTTTTAC
Found at i:133527 original size:20 final size:20
Alignment explanation
Indices: 133504--133549 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
133494 GGAAAAAGAT
133504 TTTTAAAT-GATAAAAAAATA
1 TTTTAAATCGA-AAAAAAATA
* *
133524 TTTTAAATCGAAACAAAATT
1 TTTTAAATCGAAAAAAAATA
133544 TTTTAA
1 TTTTAA
133550 GCATTTAGGC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 21 0.91
21 2 0.09
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.39
Consensus pattern (20 bp):
TTTTAAATCGAAAAAAAATA
Found at i:134228 original size:21 final size:21
Alignment explanation
Indices: 134204--134267 Score: 58
Period size: 21 Copynumber: 3.1 Consensus size: 21
134194 GCAAATTCGC
134204 GTTGCATTTCGCGTTGCGATA
1 GTTGCATTTCGCGTTGCGATA
* ** * *
134225 GTTGAAAATAGCATTGCGAT-
1 GTTGCATTTCGCGTTGCGATA
* *
134245 TTTCCATTTCGCGTTGCGATA
1 GTTGCATTTCGCGTTGCGATA
134266 GT
1 GT
134268 CTACAGTTGT
Statistics
Matches: 29, Mismatches: 13, Indels: 2
0.66 0.30 0.05
Matches are distributed among these distances:
20 13 0.45
21 16 0.55
ACGTcount: A:0.20, C:0.17, G:0.25, T:0.38
Consensus pattern (21 bp):
GTTGCATTTCGCGTTGCGATA
Found at i:134301 original size:19 final size:19
Alignment explanation
Indices: 134277--134407 Score: 91
Period size: 19 Copynumber: 6.5 Consensus size: 19
134267 TCTACAGTTG
* *
134277 TCGTTGTGATTTTCCGAAT
1 TCGTTGCGATTTTCCAAAT
134296 TCGTTGCGATTTTCCAAAT
1 TCGTTGCGATTTTCCAAAT
* * *
134315 TCGTTGCGATATTCTATAGTT
1 TCGTTGCGATTTTCCA-A-AT
* *
134336 GTTGTTGCGATAGTTTACAAAT
1 -TCGTTGCGAT--TTTCCAAAT
* * **
134358 TCGTTGCGATAGTCTACAGTT
1 TCGTTGCGAT--TTTCCAAAT
134379 GTCGTTGCGATTTTCCAAAT
1 -TCGTTGCGATTTTCCAAAT
134399 TCGTTGCGA
1 TCGTTGCGA
134408 AAATTCGTTG
Statistics
Matches: 88, Mismatches: 18, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
19 40 0.45
20 6 0.07
21 18 0.20
22 20 0.23
23 1 0.01
24 3 0.03
ACGTcount: A:0.20, C:0.17, G:0.21, T:0.42
Consensus pattern (19 bp):
TCGTTGCGATTTTCCAAAT
Found at i:134336 original size:60 final size:61
Alignment explanation
Indices: 134238--134367 Score: 156
Period size: 60 Copynumber: 2.1 Consensus size: 61
134228 GAAAATAGCA
* * * *
134238 TTGCGATTTTCCATTTCGCGTTGCGATAGTCTACAGTTGTCGTTGTGAT-TTTCCGAATTCG
1 TTGCGATTTTCCAATTC-CGTTGCGATAGTCTACAGTTGTCGTTGCGATATTTACAAATTCG
* * *
134299 TTGCGATTTTCCAAATT-CGTTGCGATATTCTATAGTTGTTGTTGCGATAGTTTACAAATTCG
1 TTGCGATTTTCC-AATTCCGTTGCGATAGTCTACAGTTGTCGTTGCGATA-TTTACAAATTCG
134361 TTGCGAT
1 TTGCGAT
134368 AGTCTACAGT
Statistics
Matches: 59, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
60 27 0.46
61 12 0.20
62 20 0.34
ACGTcount: A:0.18, C:0.17, G:0.22, T:0.43
Consensus pattern (61 bp):
TTGCGATTTTCCAATTCCGTTGCGATAGTCTACAGTTGTCGTTGCGATATTTACAAATTCG
Found at i:134360 original size:43 final size:41
Alignment explanation
Indices: 134296--134407 Score: 170
Period size: 43 Copynumber: 2.7 Consensus size: 41
134286 TTTTCCGAAT
* *
134296 TCGTTGCGATTTTCCAAATTCGTTGCGATATTCTATAGTTG
1 TCGTTGCGATTTTCCAAATTCGTTGCGATAGTCTACAGTTG
* *
134337 TTGTTGCGATAGTTTACAAATTCGTTGCGATAGTCTACAGTTG
1 TCGTTGCGAT--TTTCCAAATTCGTTGCGATAGTCTACAGTTG
134380 TCGTTGCGATTTTCCAAATTCGTTGCGA
1 TCGTTGCGATTTTCCAAATTCGTTGCGA
134408 AAATTCGTTG
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
41 26 0.41
43 37 0.59
ACGTcount: A:0.21, C:0.17, G:0.21, T:0.41
Consensus pattern (41 bp):
TCGTTGCGATTTTCCAAATTCGTTGCGATAGTCTACAGTTG
Found at i:134386 original size:22 final size:22
Alignment explanation
Indices: 134315--134389 Score: 89
Period size: 22 Copynumber: 3.5 Consensus size: 22
134305 TTTTCCAAAT
* *
134315 TCGTTGCGATATTCTATAGTTG
1 TCGTTGCGATAGTCTACAGTTG
* * **
134337 TTGTTGCGATAGTTTACAAAT-
1 TCGTTGCGATAGTCTACAGTTG
134358 TCGTTGCGATAGTCTACAGTTG
1 TCGTTGCGATAGTCTACAGTTG
134380 TCGTTGCGAT
1 TCGTTGCGAT
134390 TTTCCAAATT
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
21 17 0.40
22 25 0.60
ACGTcount: A:0.20, C:0.15, G:0.24, T:0.41
Consensus pattern (22 bp):
TCGTTGCGATAGTCTACAGTTG
Found at i:134511 original size:6 final size:6
Alignment explanation
Indices: 134500--134564 Score: 102
Period size: 6 Copynumber: 11.5 Consensus size: 6
134490 GACACGTATT
134500 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC-CG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
134547 ACC-CG ACC-CG ACC-CG ACC
1 ACCACG ACCACG ACCACG ACC
134565 CGAGACGAGA
Statistics
Matches: 59, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 20 0.34
6 39 0.66
ACGTcount: A:0.29, C:0.54, G:0.17, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:134573 original size:5 final size:5
Alignment explanation
Indices: 134565--134601 Score: 74
Period size: 5 Copynumber: 7.4 Consensus size: 5
134555 CGACCCGACC
134565 CGAGA CGAGA CGAGA CGAGA CGAGA CGAGA CGAGA CG
1 CGAGA CGAGA CGAGA CGAGA CGAGA CGAGA CGAGA CG
134602 GCGGCGGCGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.38, C:0.22, G:0.41, T:0.00
Consensus pattern (5 bp):
CGAGA
Found at i:135621 original size:41 final size:40
Alignment explanation
Indices: 135564--135678 Score: 151
Period size: 41 Copynumber: 2.8 Consensus size: 40
135554 CTTTTTTTTT
135564 ACTATCGCAACGAATTTGGAAAATCGCAACGACAACTGTAG
1 ACTATCGCAACGAATTTGGAAAATCGCAACGACAACT-TAG
* *
135605 ACTATCGCAACGAATTTGGAAACTATCGCAACAACAACTTGG
1 ACTATCGCAACGAATTTGGAAA--ATCGCAACGACAACTTAG
*
135647 ACTATCGCAACGCGAA-ATGGAAAATCGCAACG
1 ACTATCGCAA--CGAATTTGGAAAATCGCAACG
135679 CGAAATAGAA
Statistics
Matches: 66, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
41 30 0.45
42 12 0.18
43 20 0.30
44 4 0.06
ACGTcount: A:0.39, C:0.23, G:0.19, T:0.18
Consensus pattern (40 bp):
ACTATCGCAACGAATTTGGAAAATCGCAACGACAACTTAG
Found at i:135631 original size:21 final size:21
Alignment explanation
Indices: 135564--135636 Score: 87
Period size: 21 Copynumber: 3.5 Consensus size: 21
135554 CTTTTTTTTT
135564 ACTATCGCAACGAATTTGGAA
1 ACTATCGCAACGAATTTGGAA
** * *
135585 A--ATCGCAACGACAACTGTAG
1 ACTATCGCAACGA-ATTTGGAA
135605 ACTATCGCAACGAATTTGGAA
1 ACTATCGCAACGAATTTGGAA
135626 ACTATCGCAAC
1 ACTATCGCAAC
135637 AACAACTTGG
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
19 10 0.24
20 5 0.12
21 16 0.39
22 10 0.24
ACGTcount: A:0.38, C:0.23, G:0.18, T:0.21
Consensus pattern (21 bp):
ACTATCGCAACGAATTTGGAA
Found at i:135650 original size:21 final size:20
Alignment explanation
Indices: 135564--135657 Score: 66
Period size: 21 Copynumber: 4.5 Consensus size: 20
135554 CTTTTTTTTT
* *
135564 ACTATCGCAAC-GAATTTGG
1 ACTATCGCAACACAACTTGG
** *
135583 AAAATCGCAACGACAACTGTAG
1 ACTATCGCAAC-ACAACT-TGG
* *
135605 ACTATCGCAAC-GAATTTGG
1 ACTATCGCAACACAACTTGG
135624 AAACTATCGCAACAACAACTTGG
1 --ACTATCGCAAC-ACAACTTGG
135647 ACTATCGCAAC
1 ACTATCGCAAC
135658 GCGAAATGGA
Statistics
Matches: 56, Mismatches: 12, Indels: 12
0.70 0.15 0.15
Matches are distributed among these distances:
19 11 0.20
20 3 0.05
21 25 0.45
22 11 0.20
23 6 0.11
ACGTcount: A:0.38, C:0.24, G:0.17, T:0.20
Consensus pattern (20 bp):
ACTATCGCAACACAACTTGG
Found at i:135673 original size:20 final size:20
Alignment explanation
Indices: 135650--135705 Score: 103
Period size: 20 Copynumber: 2.8 Consensus size: 20
135640 AACTTGGACT
135650 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
*
135670 ATCGCAACGCGAAATAGAAA
1 ATCGCAACGCGAAATGGAAA
135690 ATCGCAACGCGAAATG
1 ATCGCAACGCGAAATG
135706 CAACGCGAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.45, C:0.21, G:0.23, T:0.11
Consensus pattern (20 bp):
ATCGCAACGCGAAATGGAAA
Found at i:136305 original size:16 final size:16
Alignment explanation
Indices: 136284--136321 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
136274 ATGCTGGTCA
136284 AGTTTGTCTGGGTTTT
1 AGTTTGTCTGGGTTTT
136300 AGTTTGTCTGGGTTTT
1 AGTTTGTCTGGGTTTT
*
136316 AATTTG
1 AGTTTG
136322 AGACGCTTGC
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:0.11, C:0.05, G:0.29, T:0.55
Consensus pattern (16 bp):
AGTTTGTCTGGGTTTT
Found at i:157088 original size:174 final size:172
Alignment explanation
Indices: 156798--157490 Score: 1011
Period size: 174 Copynumber: 4.0 Consensus size: 172
156788 TGTGTTCAAA
* *
156798 GAACAAATACCTGATACAGCTGCATGTTCTATGCTTGCTGAAGAGGTCCCTTTGGTAGAACCTGA
1 GAACAAATACCTGATACAGCTGCATGTTCTATGCCTGCT-AAGAGGTCCCTTTGGCAGAACCTGA
*
156863 AACTGCTCCTAGTGAAGTCCTCGAAGGTGGTATTGTTCAAAGGGTGAATGATGGAACAAGTCCCT
65 AACTGCTCCTAGTGAAGTCCTC-AAGGTGGTAATGTTCAAAGGGTGAATGATGGAACAAGTCCC-
* *
156928 A-AGAAAATGACCAGCAGGATAGTGTACTATGCACTATGAAGAGG
128 ACTGAAAATGACCAGCAGGATAGTGTACTATGCACTATGAACAGG
* * * *
156972 GAACAAATACCTGATACAGATGTATGTTCTACGCCTGCTGAAGAGGTCCCTTTGGCTGAACCTGA
1 GAACAAATACCTGATACAGCTGCATGTTCTATGCCTGCT-AAGAGGTCCCTTTGGCAGAACCTGA
* * *
157037 AGCTGCTCCTAGTGAAGTCCTCAAGGATGGCAATGTTCAAAGGGTGAATGATGGAACAAGTTCCA
65 AACTGCTCCTAGTGAAGTCCTCAAGG-TGGTAATGTTCAAAGGGTGAATGATGGAACAAGTCCCA
* * *
157102 TTGAAAATGGCCAGCAGGATAGTGTACGATGCACTATGAACAGG
129 CTGAAAATGACCAGCAGGATAGTGTACTATGCACTATGAACAGG
*
157146 GAACAAATACCTGATACAGCTGCATGTTCTATGCCTGC-----GGTCCCTTTTGCAGAACCTGAA
1 GAACAAATACCTGATACAGCTGCATGTTCTATGCCTGCTAAGAGGTCCCTTTGGCAGAACCTGAA
*
157206 ACTGCTCCTAGTAAAGTCCTCAACGGTGGTAATGTTCAAAGGGTGAATGATGGAACAAGTCCCAC
66 ACTGCTCCTAGTGAAGTCCTCAA-GGTGGTAATGTTCAAAGGGTGAATGATGGAACAAGTCCCAC
* *
157271 TGAAAATGACCAGCAGGATAGTGTACAATGCATTATGAACAGG
130 TGAAAATGACCAGCAGGATAGTGTACTATGCACTATGAACAGG
* * * *
157314 GAACAAATACCTGATATAGCTGCATGTTCTATGCCTTCTACAGAGTTTCCTTTGGCAGAACCTGA
1 GAACAAATACCTGATACAGCTGCATGTTCTATGCCTGCTA-AGAGGTCCCTTTGGCAGAACCTGA
* * *
157379 AACTGCTCCTAGTGAAGTCCTTGAGGGTGGTAATGTTCAAAGGGAGAATGATGGAACAAGTCCCA
65 AACTGCTCCTAGTGAAGTCC-TCAAGGTGGTAATGTTCAAAGGGTGAATGATGGAACAAGTCCCA
* * *
157444 GTGAAAATGACCAGCAGGATGGTGTACTATGCTCTATGAACAGG
129 CTGAAAATGACCAGCAGGATAGTGTACTATGCACTATGAACAGG
157488 GAA
1 GAA
157491 TCTGTACTCC
Statistics
Matches: 468, Mismatches: 41, Indels: 20
0.88 0.08 0.04
Matches are distributed among these distances:
168 153 0.33
169 2 0.00
173 5 0.01
174 306 0.65
175 2 0.00
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.24
Consensus pattern (172 bp):
GAACAAATACCTGATACAGCTGCATGTTCTATGCCTGCTAAGAGGTCCCTTTGGCAGAACCTGAA
ACTGCTCCTAGTGAAGTCCTCAAGGTGGTAATGTTCAAAGGGTGAATGATGGAACAAGTCCCACT
GAAAATGACCAGCAGGATAGTGTACTATGCACTATGAACAGG
Found at i:157483 original size:342 final size:344
Alignment explanation
Indices: 156798--157490 Score: 1027
Period size: 342 Copynumber: 2.0 Consensus size: 344
156788 TGTGTTCAAA
*
156798 GAACAAATACCTGATACAGCTGCATGTTCTATGCTTGCTGAAGAGGTCCCTTTGGTAGAACCTGA
1 GAACAAATACCTGATACAGCTGCATGTTCTATGC-T-CT--AGAGGTCCCTTTGGCAGAACCTGA
* *
156863 AACTGCTCCTAGTGAAGTCCTCGAAGGTGGTATTGTTCAAAGGGTGAATGATGGAACAAGTCCCT
62 AACTGCTCCTAGTAAAGTCCTCGAAGGTGGTAATGTTCAAAGGGTGAATGATGGAACAAGTCCCT
* *
156928 AAGAAAATGACCAGCAGGATAGTGTACTATGCACTATGAAGAGGGAACAAATACCTGATACAGAT
127 AAGAAAATGACCAGCAGGATAGTGTACAATGCACTATGAACAGGGAACAAATACCTGATACAGAT
* * *
156993 GTATGTTCTACGCCTGCTGAAGAGGTCCCTTTGGCTGAACCTGAAGCTGCTCCTAGTGAAGTCCT
192 GCATGTTCTACGCCTGCTGAAGAGGTCCCTTTGGCAGAACCTGAAACTGCTCCTAGTGAAGTCCT
* * * *
157058 CAAGGATGGCAATGTTCAAAGGGTGAATGATGGAACAAGTTCCATTGAAAATGGCCAGCAGGATA
257 CAAGGATGGCAATGTTCAAAGGGAGAATGATGGAACAAGTCCCAGTGAAAATGACCAGCAGGATA
157123 GTGTACGATGCACTATGAACAGG
322 GTGTACGATGCACTATGAACAGG
* *
157146 GAACAAATACCTGATACAGCTGCATGTTCTATGC-CT-GCGGTCCCTTTTGCAGAACCTGAAACT
1 GAACAAATACCTGATACAGCTGCATGTTCTATGCTCTAGAGGTCCCTTTGGCAGAACCTGAAACT
*
157209 GCTCCTAGTAAAGTCCTC-AACGGTGGTAATGTTCAAAGGGTGAATGATGGAACAAGTCCC-ACT
66 GCTCCTAGTAAAGTCCTCGAA-GGTGGTAATGTTCAAAGGGTGAATGATGGAACAAGTCCCTA-A
* * *
157272 GAAAATGACCAGCAGGATAGTGTACAATGCATTATGAACAGGGAACAAATACCTGATATAGCTGC
129 GAAAATGACCAGCAGGATAGTGTACAATGCACTATGAACAGGGAACAAATACCTGATACAGATGC
* * * * *
157337 ATGTTCTATGCCTTCT-ACAGAGTTTCCTTTGGCAGAACCTGAAACTGCTCCTAGTGAAGTCCTT
194 ATGTTCTACGCCTGCTGA-AGAGGTCCCTTTGGCAGAACCTGAAACTGCTCCTAGTGAAGTCCTC
* * * *
157401 GAGGGTGGTAATGTTCAAAGGGAGAATGATGGAACAAGTCCCAGTGAAAATGACCAGCAGGATGG
258 AAGGATGGCAATGTTCAAAGGGAGAATGATGGAACAAGTCCCAGTGAAAATGACCAGCAGGATAG
* *
157466 TGTACTATGCTCTATGAACAGG
323 TGTACGATGCACTATGAACAGG
157488 GAA
1 GAA
157491 TCTGTACTCC
Statistics
Matches: 313, Mismatches: 29, Indels: 12
0.88 0.08 0.03
Matches are distributed among these distances:
341 4 0.01
342 273 0.87
345 2 0.01
348 34 0.11
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.24
Consensus pattern (344 bp):
GAACAAATACCTGATACAGCTGCATGTTCTATGCTCTAGAGGTCCCTTTGGCAGAACCTGAAACT
GCTCCTAGTAAAGTCCTCGAAGGTGGTAATGTTCAAAGGGTGAATGATGGAACAAGTCCCTAAGA
AAATGACCAGCAGGATAGTGTACAATGCACTATGAACAGGGAACAAATACCTGATACAGATGCAT
GTTCTACGCCTGCTGAAGAGGTCCCTTTGGCAGAACCTGAAACTGCTCCTAGTGAAGTCCTCAAG
GATGGCAATGTTCAAAGGGAGAATGATGGAACAAGTCCCAGTGAAAATGACCAGCAGGATAGTGT
ACGATGCACTATGAACAGG
Found at i:189810 original size:28 final size:27
Alignment explanation
Indices: 189736--189810 Score: 69
Period size: 29 Copynumber: 2.7 Consensus size: 27
189726 AGTTGAATGC
* *
189736 CTAATTGCACCCAAAAAAATGTTGGGTA
1 CTAATTGCA-CCAAAAAAAAGTTAGGTA
* * *
189764 CGAAATTGCATCATTAAAAAAGTTAGGTA
1 C-TAATTGCACCA-AAAAAAAGTTAGGTA
*
189793 CTAATTGCACCAGAAAAA
1 CTAATTGCACCAAAAAAA
189811 GCTGGAAATT
Statistics
Matches: 37, Mismatches: 8, Indels: 5
0.74 0.16 0.10
Matches are distributed among these distances:
27 5 0.14
28 12 0.32
29 20 0.54
ACGTcount: A:0.44, C:0.16, G:0.16, T:0.24
Consensus pattern (27 bp):
CTAATTGCACCAAAAAAAAGTTAGGTA
Found at i:189922 original size:49 final size:49
Alignment explanation
Indices: 189850--189947 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
189840 AGGTAGCAAA
189850 AGTTATATTAACCCTAATTTAATCTATACTTATGGTAAGGAGATTGTTT
1 AGTTATATTAACCCTAATTTAATCTATACTTATGGTAAGGAGATTGTTT
189899 AGTTATATTAACCCTAATTTAATCTATACTTATGGTAAGGAGATTGTTT
1 AGTTATATTAACCCTAATTTAATCTATACTTATGGTAAGGAGATTGTTT
189948 TGAGATTTGA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (49 bp):
AGTTATATTAACCCTAATTTAATCTATACTTATGGTAAGGAGATTGTTT
Done.